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Conserved domains on  [gi|84316431|gb|ABC55707|]
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putative integrase (plasmid) [Streptococcus thermophilus]

Protein Classification

site-specific integrase( domain architecture ID 10315029)

tyrosine based site-specific recombinase (integrase) is involved in cleavage of a single strand of a DNA duplex by nucleophilic attack of a conserved tyrosine to give a 3' phosphotyrosyl protein-DNA adduct

Graphical summary

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List of domain hits

 Name Accession Description Interval E-value
INT_C_like_4 cd01194
Uncharacterized site-specific tyrosine recombinase, C-terminal catalytic domain; Tyrosine ...
 124-296 1.53e-89

Uncharacterized site-specific tyrosine recombinase, C-terminal catalytic domain; Tyrosine recombinase (integrase) belongs to a DNA breaking-rejoining enzyme superfamily. The catalytic domain contains six conserved active site residues. The recombination reaction involves cleavage of a single strand of a DNA duplex by nucleophilic attack of a conserved tyrosine to give a 3' phosphotyrosyl protein-DNA adduct. In the second rejoining step, a terminal 5' hydroxyl attacks the covalent adduct to release the enzyme and generate duplex DNA. Many DNA breaking-rejoining enzymes also have N-terminal domains, which show little sequence or structure similarity.


:

Pssm-ID: 271194 [Multi-domain]  Cd Length: 174  Bit Score: 264.62  E-value: 1.53e-89
                        10        20        30        40        50        60        70        80
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 84316431 124 LTSRQAKEVLASIETD-TEEGLRNYAILSLMVTGGLRTIEVSRADVGDLRTVGENTVLFLQGKGREEKTEYIKISAPVEK 202
Cdd:cd01194   1 LTLEQARQLLASLPIDdSIIGLRDRAIISLMVTEGLRTVEIVRADVGDLRQEGEGTILYVQGKGKTSKDDFVYLRPDVLK 80

                        90       100       110       120       130       140       150       160
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 84316431 203 AIRNYLKARGNVEEGQPLFTSTSNNSRGKRISTRTVSAIVKNALKNAGYDSARLTAHSLRHTAITLALLAGREITEVQQF 282
Cdd:cd01194  81 ALQAYLKARGKLDFEEPLFTSLSNNSKGQRLTTRSIRRIIKKYLRKAGLDDDRLTAHSLRHTAGTLALKAGKSLREVQQL 160

                       170
                ....*....|....
gi 84316431 283 ARHANLNTTMIYNH 296
Cdd:cd01194 161 LRHSDPNTTMIYAH 174
Phage_int_SAM_1 super family cl12235
Phage integrase, N-terminal SAM-like domain;
25-101 7.02e-10

Phage integrase, N-terminal SAM-like domain;


The actual alignment was detected with superfamily member pfam02899:

Pssm-ID: 472283 [Multi-domain]  Cd Length: 83  Bit Score: 54.96  E-value: 7.02e-10
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 84316431    25 FDRFINYLDA----SPKTVETYKKALRQFFNYLA--INGIRQPQREDVLAFRDDLKASGLKPTTVQNYITATRIFFKWTE 98
Cdd:pfam02899   1 IDQFLEYLSLerglSPHTLRAYRRDLLAFLKFLSegGSSLEQITTSDVRAFLAELRAQGLSASSLARRLSALRSFYQFLI 80


                  ...
gi 84316431    99 QEG 101
Cdd:pfam02899  81 REG 83
 
Name Accession Description Interval E-value
INT_C_like_4 cd01194
Uncharacterized site-specific tyrosine recombinase, C-terminal catalytic domain; Tyrosine ...
 124-296 1.53e-89

Uncharacterized site-specific tyrosine recombinase, C-terminal catalytic domain; Tyrosine recombinase (integrase) belongs to a DNA breaking-rejoining enzyme superfamily. The catalytic domain contains six conserved active site residues. The recombination reaction involves cleavage of a single strand of a DNA duplex by nucleophilic attack of a conserved tyrosine to give a 3' phosphotyrosyl protein-DNA adduct. In the second rejoining step, a terminal 5' hydroxyl attacks the covalent adduct to release the enzyme and generate duplex DNA. Many DNA breaking-rejoining enzymes also have N-terminal domains, which show little sequence or structure similarity.


Pssm-ID: 271194 [Multi-domain]  Cd Length: 174  Bit Score: 264.62  E-value: 1.53e-89
                        10        20        30        40        50        60        70        80
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 84316431 124 LTSRQAKEVLASIETD-TEEGLRNYAILSLMVTGGLRTIEVSRADVGDLRTVGENTVLFLQGKGREEKTEYIKISAPVEK 202
Cdd:cd01194   1 LTLEQARQLLASLPIDdSIIGLRDRAIISLMVTEGLRTVEIVRADVGDLRQEGEGTILYVQGKGKTSKDDFVYLRPDVLK 80

                        90       100       110       120       130       140       150       160
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 84316431 203 AIRNYLKARGNVEEGQPLFTSTSNNSRGKRISTRTVSAIVKNALKNAGYDSARLTAHSLRHTAITLALLAGREITEVQQF 282
Cdd:cd01194  81 ALQAYLKARGKLDFEEPLFTSLSNNSKGQRLTTRSIRRIIKKYLRKAGLDDDRLTAHSLRHTAGTLALKAGKSLREVQQL 160

                       170
                ....*....|....
gi 84316431 283 ARHANLNTTMIYNH 296
Cdd:cd01194 161 LRHSDPNTTMIYAH 174
XerD COG4974
Site-specific recombinase XerD [Replication, recombination and repair];
25-302 3.18e-65

Site-specific recombinase XerD [Replication, recombination and repair];


Pssm-ID: 443999 [Multi-domain]  Cd Length: 291  Bit Score: 206.77  E-value: 3.18e-65
                        10        20        30        40        50        60        70        80
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 84316431  25 FDRFINYL----DASPKTVETYKKALRQFFNYLAINGIRQPQ---REDVLAFRDDLKASGLKPTTVQNYITATRIFFKWT 97
Cdd:COG4974   7 LEAFLEELkrekGLSPNTIKAYRRDLRRFLRFLEELGKIPLAeitPEDIRAYLNYLRERGLSPSTINRYLAALRSFFRYA 86

                        90       100       110       120       130       140       150       160
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 84316431  98 EQEGLYP-NIAEHVKGAKLDKnHKKDYLTSRQAKEVLASIETDTEEGLRNYAILSLMVTGGLRTIEVSRADVGDLRTvGE 176
Cdd:COG4974  87 VREGLLEdNPAAKVKLPKKPR-KLPRVLTEEEIEALLEALDTETPEGLRDRALLLLLYATGLRVSELLGLKWSDIDL-DR 164

                       170       180       190       200       210       220       230       240
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 84316431 177 NTVLFLQGKGReeKTEYIKISAPVEKAIRNYLKARGNVEEGqPLFTstsnNSRGKRISTRTVSAIVKNALKNAGYDsARL 256
Cdd:COG4974 165 GTIRVRRGKGG--KERTVPLSPEALEALREYLEERRPRDSD-YLFP----TRRGRPLSRRAIRKILKRLAKRAGIP-KRV 236

                       250       260       270       280
                ....*....|....*....|....*....|....*....|....*.
gi 84316431 257 TAHSLRHTAITLALLAGREITEVQQFARHANLNTTMIYNHALDQAK 302
Cdd:COG4974 237 TPHSLRHTFATHLLEAGVDLRTVQELLGHSSISTTQIYTHVSDEEL 282
xerC PRK00236
site-specific tyrosine recombinase XerC; Reviewed
 26-296 2.00e-51

site-specific tyrosine recombinase XerC; Reviewed


Pssm-ID: 234698 [Multi-domain]  Cd Length: 297  Bit Score: 171.49  E-value: 2.00e-51
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 84316431   26 DRFINYL----DASPKTVETYKKALRQFFNYLAINGIRQPQR---EDVLAFRDDLKASGLKPTTVQNYITATRIFFKWTE 98
Cdd:PRK00236  11 EAFLEYLrverGLSPHTLRAYRRDLRAFLAFLEEHGISSLQDldaADLRSFLARRRRQGLSARSLARRLSALRSFYRWLV 90

                         90       100       110       120       130       140       150       160
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 84316431   99 QEGLYP-NIAEHVKGAKLDKNHKKdYLTSRQAKEVLASIETDTEEGLRNYAILSLMVTGGLRtieVSRA---DVGDLRTv 174
Cdd:PRK00236  91 RRGLLKaNPAAGLRAPKIPKRLPK-PLDVDQAKRLLDAIDEDDPLALRDRAILELLYGSGLR---LSELvglDIDDLDL- 165

                        170       180       190       200       210       220       230       240
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 84316431  175 gENTVLFLQGKGReeKTEYIKISAPVEKAIRNYLKARG-NVEEGQPLFTStsnnSRGKRISTRTVSAIVKNALKNAGYDS 253
Cdd:PRK00236 166 -ASGTLRVLGKGN--KERTVPLGRAAREALEAYLALRPlFLPDDDALFLG----ARGGRLSPRVVQRRVKKLGKKAGLPS 238

                        250       260       270       280
                 ....*....|....*....|....*....|....*....|...
gi 84316431  254 aRLTAHSLRHTAITLALLAGREITEVQQFARHANLNTTMIYNH 296
Cdd:PRK00236 239 -HITPHKLRHSFATHLLESGGDLRAVQELLGHASLSTTQIYTH 280
Phage_integrase pfam00589
Phage integrase family; Members of this family cleave DNA substrates by a series of staggered ...
 123-299 2.63e-23

Phage integrase family; Members of this family cleave DNA substrates by a series of staggered cuts, during which the protein becomes covalently linked to the DNA through a catalytic tyrosine residue at the carboxy end of the alignment. The catalytic site residues in CRE recombinase are Arg-173, His-289, Arg-292 and Tyr-324.


Pssm-ID: 395471 [Multi-domain]  Cd Length: 169  Bit Score: 93.92  E-value: 2.63e-23
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 84316431   123 YLTSRQAKEVLASIETDTEeGLRNYAILSLMVTGGLRTIEVSRADVGDLRTVGeNTVLFLQGKGREEKTeyIKISAPVEK 202
Cdd:pfam00589   1 RLTEDEVERLLDAAETGPL-SIRDKALLELLYATGLRISELCSLRWSDIDFEN-GVIRVHRGKGNKERT--VPLSDAALE 76

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 84316431   203 AIRNYL-KARGNVEEGQPLFTSTsnnsRGKRISTRTVSAIVKNALKNAGyDSARLTAHSLRHTAITLALLAGREITEVQQ 281
Cdd:pfam00589  77 LLKEWLsKRLLEAPKSDYLFASK----RGKPLSRQTVRKIFKRAGKEAG-LELPLHPHMLRHSFATHLLEAGVDLRVVQK 151

                         170
                  ....*....|....*...
gi 84316431   282 FARHANLNTTMIYNHALD 299
Cdd:pfam00589 152 LLGHSSISTTQIYTHVAD 169
integrase_gron TIGR02249
integron integrase; Members of this family are integrases associated with integrons (and ...
 23-304 6.67e-11

integron integrase; Members of this family are integrases associated with integrons (and super-integrons), which are systems for incorporating and expressing cassettes of laterally transferred DNA. Incorporation occurs at an attI site. A super-integron, as in Vibrio sp., may include over 100 cassettes. This family belongs to the phage integrase family (pfam00589) that also includes recombinases XerC (TIGR02224) and XerD (TIGR02225), which are bacterial housekeeping proteins. Within this family of integron integrases, some are designated by class, e.g. IntI4, a class 4 integron integrase from Vibrio cholerae N16961. [DNA metabolism, DNA replication, recombination, and repair, Mobile and extrachromosomal element functions, Other]


Pssm-ID: 131303 [Multi-domain]  Cd Length: 315  Bit Score: 62.03  E-value: 6.67e-11
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 84316431    23 NTFDRFINYLDASPKTVETYKKALRQFfnyLAINGIRQPQR---EDVLAFRDDLKASGLKPTTVQNYITATRIFFkWTEQ 99
Cdd:TIGR02249   3 DQVREHMRTRHYAKRTEEAYLHWIKRF---IRFHNKRHPSTmgdTEVEAFLSDLAVDGKVAASTQNQALNALLFL-YKEI 78

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 84316431   100 EGLYPNIAEHVKGAKLDKNHKKdYLTSRQAKEVLASIETDteeglrNYAILSLMVTGGLRTIEVSRADVGDLrTVGENTV 179
Cdd:TIGR02249  79 LKTPLSLMERFVRAKRPRKLPV-VLTREEVRRLLEHLEGK------YRLIAKLLYGSGMRLMECLRLRIQDI-DFDYGEI 150

                         170       180       190       200       210       220       230       240
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 84316431   180 LFLQGKGREEKTEYI--KISAPVEKAI---RNYLKA--------------------RGNVEEG-QPLFTStSNNSRGKR- 232
Cdd:TIGR02249 151 RIRQGKGGKDRTVTLpkELIPPLREQIelaRAYHEAdlaegyggvylphalarkypNAPKEWGwQYLFPS-HRLSRDPEs 229

                         250       260       270       280       290       300       310
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....
gi 84316431   233 -------ISTRTVSAIVKNALKNAGYDSArLTAHSLRHTAITLALLAGREITEVQQFARHANLNTTMIYNHALDQAKNG 304
Cdd:TIGR02249 230 gvirrhhINETTIQRAVRRAVERAGIEKP-VTCHTLRHSFATHLLESGADIRTVQELLGHSDVKTTQIYTHVLNRGASG 307
Phage_int_SAM_1 pfam02899
Phage integrase, N-terminal SAM-like domain;
25-101 7.02e-10

Phage integrase, N-terminal SAM-like domain;


Pssm-ID: 427047 [Multi-domain]  Cd Length: 83  Bit Score: 54.96  E-value: 7.02e-10
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 84316431    25 FDRFINYLDA----SPKTVETYKKALRQFFNYLA--INGIRQPQREDVLAFRDDLKASGLKPTTVQNYITATRIFFKWTE 98
Cdd:pfam02899   1 IDQFLEYLSLerglSPHTLRAYRRDLLAFLKFLSegGSSLEQITTSDVRAFLAELRAQGLSASSLARRLSALRSFYQFLI 80


                  ...
gi 84316431    99 QEG 101
Cdd:pfam02899  81 REG 83
 
Name Accession Description Interval E-value
INT_C_like_4 cd01194
Uncharacterized site-specific tyrosine recombinase, C-terminal catalytic domain; Tyrosine ...
 124-296 1.53e-89

Uncharacterized site-specific tyrosine recombinase, C-terminal catalytic domain; Tyrosine recombinase (integrase) belongs to a DNA breaking-rejoining enzyme superfamily. The catalytic domain contains six conserved active site residues. The recombination reaction involves cleavage of a single strand of a DNA duplex by nucleophilic attack of a conserved tyrosine to give a 3' phosphotyrosyl protein-DNA adduct. In the second rejoining step, a terminal 5' hydroxyl attacks the covalent adduct to release the enzyme and generate duplex DNA. Many DNA breaking-rejoining enzymes also have N-terminal domains, which show little sequence or structure similarity.


Pssm-ID: 271194 [Multi-domain]  Cd Length: 174  Bit Score: 264.62  E-value: 1.53e-89
                        10        20        30        40        50        60        70        80
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 84316431 124 LTSRQAKEVLASIETD-TEEGLRNYAILSLMVTGGLRTIEVSRADVGDLRTVGENTVLFLQGKGREEKTEYIKISAPVEK 202
Cdd:cd01194   1 LTLEQARQLLASLPIDdSIIGLRDRAIISLMVTEGLRTVEIVRADVGDLRQEGEGTILYVQGKGKTSKDDFVYLRPDVLK 80

                        90       100       110       120       130       140       150       160
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 84316431 203 AIRNYLKARGNVEEGQPLFTSTSNNSRGKRISTRTVSAIVKNALKNAGYDSARLTAHSLRHTAITLALLAGREITEVQQF 282
Cdd:cd01194  81 ALQAYLKARGKLDFEEPLFTSLSNNSKGQRLTTRSIRRIIKKYLRKAGLDDDRLTAHSLRHTAGTLALKAGKSLREVQQL 160

                       170
                ....*....|....
gi 84316431 283 ARHANLNTTMIYNH 296
Cdd:cd01194 161 LRHSDPNTTMIYAH 174
XerD COG4974
Site-specific recombinase XerD [Replication, recombination and repair];
25-302 3.18e-65

Site-specific recombinase XerD [Replication, recombination and repair];


Pssm-ID: 443999 [Multi-domain]  Cd Length: 291  Bit Score: 206.77  E-value: 3.18e-65
                        10        20        30        40        50        60        70        80
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 84316431  25 FDRFINYL----DASPKTVETYKKALRQFFNYLAINGIRQPQ---REDVLAFRDDLKASGLKPTTVQNYITATRIFFKWT 97
Cdd:COG4974   7 LEAFLEELkrekGLSPNTIKAYRRDLRRFLRFLEELGKIPLAeitPEDIRAYLNYLRERGLSPSTINRYLAALRSFFRYA 86

                        90       100       110       120       130       140       150       160
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 84316431  98 EQEGLYP-NIAEHVKGAKLDKnHKKDYLTSRQAKEVLASIETDTEEGLRNYAILSLMVTGGLRTIEVSRADVGDLRTvGE 176
Cdd:COG4974  87 VREGLLEdNPAAKVKLPKKPR-KLPRVLTEEEIEALLEALDTETPEGLRDRALLLLLYATGLRVSELLGLKWSDIDL-DR 164

                       170       180       190       200       210       220       230       240
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 84316431 177 NTVLFLQGKGReeKTEYIKISAPVEKAIRNYLKARGNVEEGqPLFTstsnNSRGKRISTRTVSAIVKNALKNAGYDsARL 256
Cdd:COG4974 165 GTIRVRRGKGG--KERTVPLSPEALEALREYLEERRPRDSD-YLFP----TRRGRPLSRRAIRKILKRLAKRAGIP-KRV 236

                       250       260       270       280
                ....*....|....*....|....*....|....*....|....*.
gi 84316431 257 TAHSLRHTAITLALLAGREITEVQQFARHANLNTTMIYNHALDQAK 302
Cdd:COG4974 237 TPHSLRHTFATHLLEAGVDLRTVQELLGHSSISTTQIYTHVSDEEL 282
XerC COG4973
Site-specific recombinase XerC [Replication, recombination and repair];
25-300 1.52e-53

Site-specific recombinase XerC [Replication, recombination and repair];


Pssm-ID: 443998 [Multi-domain]  Cd Length: 287  Bit Score: 176.69  E-value: 1.52e-53
                        10        20        30        40        50        60        70        80
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 84316431  25 FDRFINYL---DASPKTVETYKKALRQFFNYLAING--IRQPQREDVLAFRDDLKASGLKPTTVQNYITATRIFFKW-TE 98
Cdd:COG4973   8 LEAYLEHLrerRLSPKTLEAYRRDLRRLIPLLGDADlpLEELTPADVRRFLARLHRRGLSPRTLNRRLSALRSFFNWaVR 87

                        90       100       110       120       130       140       150       160
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 84316431  99 QEGLYPNIAEHVKGAKLDKNHKKdYLTSRQAKEVLASIETDTEEgLRNYAILSLMVTGGLRTIEVSRADVGDLRTvgENT 178
Cdd:COG4973  88 EGLLEANPAAGVKAPKAPRKLPR-ALTVDELAQLLDALADDPLA-VRDRAIVELLYSTGLRLGELVGLDWEDVDL--DAG 163

                       170       180       190       200       210       220       230       240
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 84316431 179 VLFLQGKGReeKTEYIKISAPVEKAIRNYLKARG--NVEEGQPLFTSTsnnsRGKRISTRTVSAIVKNALKNAGYDSaRL 256
Cdd:COG4973 164 EVRVRGKTG--KSRTVPLGPKALAALREWLAVRPelAAPDEGALFPSR----RGTRLSPRNVQKRLRRLAKKAGLPK-HV 236

                       250       260       270       280
                ....*....|....*....|....*....|....*....|....
gi 84316431 257 TAHSLRHTAITLALLAGREITEVQQFARHANLNTTMIYNHALDQ 300
Cdd:COG4973 237 HPHDLRHSFATHLLESGGDLRAVQELLGHASISTTQIYTHLDFQ 280
xerC PRK00236
site-specific tyrosine recombinase XerC; Reviewed
 26-296 2.00e-51

site-specific tyrosine recombinase XerC; Reviewed


Pssm-ID: 234698 [Multi-domain]  Cd Length: 297  Bit Score: 171.49  E-value: 2.00e-51
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 84316431   26 DRFINYL----DASPKTVETYKKALRQFFNYLAINGIRQPQR---EDVLAFRDDLKASGLKPTTVQNYITATRIFFKWTE 98
Cdd:PRK00236  11 EAFLEYLrverGLSPHTLRAYRRDLRAFLAFLEEHGISSLQDldaADLRSFLARRRRQGLSARSLARRLSALRSFYRWLV 90

                         90       100       110       120       130       140       150       160
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 84316431   99 QEGLYP-NIAEHVKGAKLDKNHKKdYLTSRQAKEVLASIETDTEEGLRNYAILSLMVTGGLRtieVSRA---DVGDLRTv 174
Cdd:PRK00236  91 RRGLLKaNPAAGLRAPKIPKRLPK-PLDVDQAKRLLDAIDEDDPLALRDRAILELLYGSGLR---LSELvglDIDDLDL- 165

                        170       180       190       200       210       220       230       240
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 84316431  175 gENTVLFLQGKGReeKTEYIKISAPVEKAIRNYLKARG-NVEEGQPLFTStsnnSRGKRISTRTVSAIVKNALKNAGYDS 253
Cdd:PRK00236 166 -ASGTLRVLGKGN--KERTVPLGRAAREALEAYLALRPlFLPDDDALFLG----ARGGRLSPRVVQRRVKKLGKKAGLPS 238

                        250       260       270       280
                 ....*....|....*....|....*....|....*....|...
gi 84316431  254 aRLTAHSLRHTAITLALLAGREITEVQQFARHANLNTTMIYNH 296
Cdd:PRK00236 239 -HITPHKLRHSFATHLLESGGDLRAVQELLGHASLSTTQIYTH 280
INT_C_like_5 cd01195
Uncharacterized site-specific tyrosine recombinase, C-terminal catalytic domain; Tyrosine ...
 128-297 1.94e-38

Uncharacterized site-specific tyrosine recombinase, C-terminal catalytic domain; Tyrosine recombinase (integrase) belongs to a DNA breaking-rejoining enzyme superfamily. The catalytic domain contains six conserved active site residues. The recombination reaction involves cleavage of a single strand of a DNA duplex by nucleophilic attack of a conserved tyrosine to give a 3' phosphotyrosyl protein-DNA adduct. In the second rejoining step, a terminal 5' hydroxyl attacks the covalent adduct to release the enzyme and generate duplex DNA. Many DNA breaking-rejoining enzymes also have N-terminal domains, which show little sequence or structure similarity.


Pssm-ID: 271195 [Multi-domain]  Cd Length: 170  Bit Score: 133.75  E-value: 1.94e-38
                        10        20        30        40        50        60        70        80
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 84316431 128 QAKEVLASIETDTEEGLRNYAILSLMVTGGLRTIEVSRADVGDLRTvgENTVLFLQGKGREEKtEYIKISAPVEKAIRNY 207
Cdd:cd01195   4 EARQRLDAADRHTAKGKRDEALVRLLLDNALRRSEAVALDVEDLEK--EHRRLRILGKGKKQR-EVVTLPPTTREALAAW 80

                        90       100       110       120       130       140       150       160
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 84316431 208 LKARGnvEEGQPLFTSTSNNSRGKRISTRTVSAIVKNALKNAGYDSaRLTAHSLRHTAITLALLAGRE-ITEVQQFARHA 286
Cdd:cd01195  81 LAARG--EAEGPLFVSLDRASRGRRLSPQAVYRIVRRLAERIGLGK-RLSPHGLRHSAITLALDAGAGlIRKVQDFSRHA 157

                       170
                ....*....|.
gi 84316431 287 NLNTTMIYNHA 297
Cdd:cd01195 158 DLRTLQVYDDQ 168
DNA_BRE_C cd00397
DNA breaking-rejoining enzymes, C-terminal catalytic domain; The DNA breaking-rejoining enzyme ...
 128-294 4.02e-32

DNA breaking-rejoining enzymes, C-terminal catalytic domain; The DNA breaking-rejoining enzyme superfamily includes type IB topoisomerases and tyrosine based site-specific recombinases (integrases) that share the same fold in their catalytic domain containing conserved active site residues. The best-studied members of this diverse superfamily include Human topoisomerase I, the bacteriophage lambda integrase, the bacteriophage P1 Cre recombinase, the yeast Flp recombinase, and the bacterial XerD/C recombinases. Their overall reaction mechanism is essentially identical and involves cleavage of a single strand of a DNA duplex by nucleophilic attack of a conserved tyrosine to give a 3' phosphotyrosyl protein-DNA adduct. In the second rejoining step, a terminal 5' hydroxyl attacks the covalent adduct to release the enzyme and generate duplex DNA. The enzymes differ in that topoisomerases cleave and then rejoin the same 5' and 3' termini, whereas a site-specific recombinase transfers a 5' hydroxyl generated by recombinase cleavage to a new 3' phosphate partner located in a different duplex region. Many DNA breaking-rejoining enzymes also have N-terminal domains, which show little sequence or structure similarity.


Pssm-ID: 271175 [Multi-domain]  Cd Length: 167  Bit Score: 117.20  E-value: 4.02e-32
                        10        20        30        40        50        60        70        80
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 84316431 128 QAKEVLASIETDTEEGLRNYAILSLMVTGGLRTIEVSRADVGDLRTvGENTVLFLQGKGREEKTEYIKISAPVEKAIRNY 207
Cdd:cd00397   1 ELEKLLDAIDEDKKIDLRDRAILLLLLETGLRISELLALKVKDIDL-DNGTIRVRGKKTKGGKERTVPLPKELAEELKEY 79

                        90       100       110       120       130       140       150       160
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 84316431 208 LKARGNvEEGQPLFTSTSNNSRGKRISTRTVSAIVKNALKNAGYDSA-RLTAHSLRHTAITLALLAGREITEVQQFARHA 286
Cdd:cd00397  80 LKERRD-KRGPLLKSLYLNKLFGTKLGERLSRRTLRRIFKKAGIEAGrKITPHSLRHTFATNLLENGVDIKVVQKLLGHS 158


                ....*...
gi 84316431 287 NLNTTMIY 294
Cdd:cd00397 159 SISTTQRY 166
xerD PRK00283
tyrosine recombinase;
26-296 7.27e-32

tyrosine recombinase;


Pssm-ID: 234713 [Multi-domain]  Cd Length: 299  Bit Score: 120.30  E-value: 7.27e-32
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 84316431   26 DRFINYL----DASPKTVETYKKALRQFFNYLAINGIR--QPQREDVLAFRDDLKASGLKPTTVQNYITATRIFFKWTEQ 99
Cdd:PRK00283  10 EQFLDALwverGLAENTLSSYRRDLELFAEWLAARGLSlaEATRDDLQAFLAELAEGGYKATSSARRLSALRRFFQFLLR 89

                         90       100       110       120       130       140       150       160
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 84316431  100 EGLYP-NIAEHVKGAKLDKNHKKDyLTSRQAKEVLASIETDTEEGLRNYAILSLMVTGGLRTIEVSRADVGDLRTVGEnt 178
Cdd:PRK00283  90 EGLREdDPSALLDSPKLPRRLPKT-LSEAQVEALLDAPDIDTPLGLRDRAMLELLYATGLRVSELVGLTLDDVSLRQG-- 166

                        170       180       190       200       210       220       230       240
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 84316431  179 VLFLQGKGReeKTEYIKISAPVEKAIRNYL-KARGNVEEGQP---LFTstsnNSRGKRISTRTVSAIVKNALKNAGYDSA 254
Cdd:PRK00283 167 VVRVTGKGN--KERLVPLGEEAVYAIERYLeRGRPALLNGRSsdaLFP----SARGGQLTRQTFWHRIKHYAKRAGIDPK 240

                        250       260       270       280
                 ....*....|....*....|....*....|....*....|..
gi 84316431  255 RLTAHSLRHTAITLALLAGREITEVQQFARHANLNTTMIYNH 296
Cdd:PRK00283 241 KLSPHVLRHAFATHLLNHGADLRVVQELLGHSDISTTQIYTH 282
INT_XerDC_C cd00798
XerD and XerC integrases, C-terminal catalytic domains; XerDC-like integrases are involved in ...
 128-296 2.17e-28

XerD and XerC integrases, C-terminal catalytic domains; XerDC-like integrases are involved in the site-specific integration and excision of lysogenic bacteriophage genomes, transposition of conjugative transposons, termination of chromosomal replication, and stable plasmid inheritance. They share the same fold in their catalytic domain containing six conserved active site residues and the overall reaction mechanism with the DNA breaking-rejoining enzyme superfamily. In Escherichia coli, the Xer site-specific recombination system acts to convert dimeric chromosomes, which are formed by homologous recombination to monomers. Two related recombinases, XerC and XerD, bind cooperatively to a recombination site present in the E. coli chromosome. Each recombinase catalyzes the exchange of one pair of DNA strand in a reaction that proceeds through a Holliday junction intermediate. These enzymes can bridge two different and well-separated DNA sequences called arm- and core-sites. The C-terminal domain binds, cleaves, and re-ligates DNA strands at the core-sites, while the N-terminal domain is largely responsible for high-affinity binding to the arm-type sites.


Pssm-ID: 271179 [Multi-domain]  Cd Length: 172  Bit Score: 107.60  E-value: 2.17e-28
                        10        20        30        40        50        60        70        80
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 84316431 128 QAKEVLASIETDTEEGLRNYAILSLMVTGGLRTIEVSRADVGDLRTvgENTVLFLQGKGReeKTEYIKISAPVEKAIRNY 207
Cdd:cd00798   3 EVERLLDAPDTDTPLGLRDRAILELLYASGLRVSELVGLDLSDVDL--DEGLVRVTGKGN--KERLVPFGSYAVEALEEY 78

                        90       100       110       120       130       140       150       160
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 84316431 208 LKARGNV----EEGQPLFTstsnNSRGKRISTRTVSAIVKNALKNAGyDSARLTAHSLRHTAITLALLAGREITEVQQFA 283
Cdd:cd00798  79 LEERRPLllkkKPPDALFL----NKRGKRLSRRGVWRILKKYAERAG-LPKHVSPHTLRHSFATHLLEGGADLRVVQELL 153

                       170
                ....*....|...
gi 84316431 284 RHANLNTTMIYNH 296
Cdd:cd00798 154 GHASLSTTQIYTH 166
INT_RitA_C_like cd01188
C-terminal catalytic domain of recombinase RitA, a component of the recombinase trio; ...
 128-302 1.75e-27

C-terminal catalytic domain of recombinase RitA, a component of the recombinase trio; Recombinases RitA (also known as pAE1), RitB, and RitC are encoded by three adjacent and overlapping genes. Collectively they are known as the Recombinase in Trio (RIT). This RitA family includes various bacterial integrases and integrases from the deletion-prone region of plasmid pAE1 of Alcaligenes eutrophus H1. All three integrases contain a catalytic motif, suggesting that they are all active enzymes. However, their specific roles are not fully understood. All three families belong to the superfamily of DNA breaking-rejoining enzymes, which share the same fold in their catalytic domain and the overall reaction mechanism. The catalytic domain contains six conserved active site residues. Their overall reaction mechanism is essentially identical and involves cleavage of a single strand of a DNA duplex by nucleophilic attack of a conserved tyrosine to give a 3' phosphotyrosyl protein-DNA adduct. In the second rejoining step, a terminal 5' hydroxyl attacks the covalent adduct to release the enzyme and generate duplex DNA.


Pssm-ID: 271188 [Multi-domain]  Cd Length: 179  Bit Score: 105.40  E-value: 1.75e-27
                        10        20        30        40        50        60        70        80
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 84316431 128 QAKEVLASIETDTEEGLRNYAILSLMVTGGLRTIEVSRADVGDLRTvGENTVLFLQGKGREEKTeyIKISAPVEKAIRNY 207
Cdd:cd01188   4 EVRRLLAAIDRLTPVGLRDYAILLLLARLGLRAGDVAGLRLDDIDW-RSGTITVRQKKTGRPVE--LPLTEPVGEALADY 80

                        90       100       110       120       130       140       150       160
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 84316431 208 LK-ARGNVEEGQpLFTSTSNnSRGKRISTRTVSAIVKNALKNAGYDSARLTAHSLRHTAITLALLAGREITEVQQFARHA 286
Cdd:cd01188  81 LRdGRPRTDSRE-VFLRARA-PYRPLSSTSQISSIVRRYLRKAGIEPSHRGTHSLRHSLATRMLRAGTSLKVIADLLGHR 158

                       170
                ....*....|....*..
gi 84316431 287 NLNTTMIY-NHALDQAK 302
Cdd:cd01188 159 SIETTAIYaKIDVDDLR 175
INT_Cre_C cd00799
C-terminal catalytic domain of Cre recombinase (also called integrase); Cre-like recombinases ...
 130-303 1.09e-24

C-terminal catalytic domain of Cre recombinase (also called integrase); Cre-like recombinases are tyrosine based site specific recombinases. They belong to the superfamily of DNA breaking-rejoining enzymes, which share the same fold in their catalytic domain and the overall reaction mechanism. The bacteriophage P1 Cre recombinase maintains the circular phage replicon in a monomeric state by catalyzing a site-specific recombination between two loxP sites. The catalytic core domain of Cre recombinase is linked to a more divergent helical N-terminal domain, which interacts primarily with the DNA major groove proximal to the crossover region.


Pssm-ID: 271180  Cd Length: 188  Bit Score: 98.14  E-value: 1.09e-24
                        10        20        30        40        50        60        70        80
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 84316431 130 KEVLASIETDTEEGLRNYAILSLMVTGGLRTIEVSRADVGDLRTVGEN-TVLFL-------QGKGREEKTEYIKISAPVe 201
Cdd:cd00799   2 KAMLATLDDTTLRGLRDRALLLLGFAGALRRSELVALRVEDLTRFVDGgLLIRLrrsktdqDGEGEIKALPYGPETCPV- 80

                        90       100       110       120       130       140       150       160
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 84316431 202 KAIRNYLKARGnVEEGqPLFTSTSNNSR--GKRISTRTVSAIVKNALKNAGYDSARLTAHSLRHTAITLALLAGREITEV 279
Cdd:cd00799  81 RALRAWLEAAG-IPSG-PLFRRIRRGGSvgTTRLSDRSVARIVKRRAALAGLDPGDFSGHSLRRGFATEAARAGASLPEI 158

                       170       180
                ....*....|....*....|....
gi 84316431 280 QQFARHANLNTTMIYNHALDQAKN 303
Cdd:cd00799 159 MAQGGHKSVATVMRYIREADRFKD 182
Phage_integrase pfam00589
Phage integrase family; Members of this family cleave DNA substrates by a series of staggered ...
 123-299 2.63e-23

Phage integrase family; Members of this family cleave DNA substrates by a series of staggered cuts, during which the protein becomes covalently linked to the DNA through a catalytic tyrosine residue at the carboxy end of the alignment. The catalytic site residues in CRE recombinase are Arg-173, His-289, Arg-292 and Tyr-324.


Pssm-ID: 395471 [Multi-domain]  Cd Length: 169  Bit Score: 93.92  E-value: 2.63e-23
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 84316431   123 YLTSRQAKEVLASIETDTEeGLRNYAILSLMVTGGLRTIEVSRADVGDLRTVGeNTVLFLQGKGREEKTeyIKISAPVEK 202
Cdd:pfam00589   1 RLTEDEVERLLDAAETGPL-SIRDKALLELLYATGLRISELCSLRWSDIDFEN-GVIRVHRGKGNKERT--VPLSDAALE 76

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 84316431   203 AIRNYL-KARGNVEEGQPLFTSTsnnsRGKRISTRTVSAIVKNALKNAGyDSARLTAHSLRHTAITLALLAGREITEVQQ 281
Cdd:pfam00589  77 LLKEWLsKRLLEAPKSDYLFASK----RGKPLSRQTVRKIFKRAGKEAG-LELPLHPHMLRHSFATHLLEAGVDLRVVQK 151

                         170
                  ....*....|....*...
gi 84316431   282 FARHANLNTTMIYNHALD 299
Cdd:pfam00589 152 LLGHSSISTTQIYTHVAD 169
xerC PRK01287
site-specific tyrosine recombinase XerC; Reviewed
 35-296 1.98e-22

site-specific tyrosine recombinase XerC; Reviewed


Pssm-ID: 234935 [Multi-domain]  Cd Length: 358  Bit Score: 95.97  E-value: 1.98e-22
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 84316431   35 SPKTVETYKKALRQFFNYLAINGIRQP-----------QREdVLAFRddlKASG--LKPTTVQNYITATRIFFKWTEQEG 101
Cdd:PRK01287  38 SERTLKVYTEHLYPFILWCEERGLYYAadvtlpvleryQRY-LYGYR---KANGepLSTRTQRTQLSPLRVWFRWLLKRH 113

                         90       100       110       120       130       140       150       160
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 84316431  102 --LYpNIAEHVKGAKLDKNHKKDYLTSRQAKEVLASIETDTEEGLRNYAILSLMVTGGLRTIEVSRADVGDLrTVGENTV 179
Cdd:PRK01287 114 hiLY-NPAEDLELPKEEKRLPRQILSEAETEQVLASPDLTTLQGLRDRALLELLWSTGIRRGELARLDLYDV-DASRGVV 191

                        170       180       190       200       210       220       230       240
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 84316431  180 LFLQGKGREEKTeyikisAPV-EKA---IRNYLKA-RGNV---EEGQPLFTSTsnnsRGKRISTRTVSAIVKNALKNAGY 251
Cdd:PRK01287 192 TVRQGKGNKDRV------VPVgERAlawLQRYLQDvRPQLavrPDSGALFVAM----DGDGLARNTLTNMVGRYIRAAGI 261

                        250       260       270       280
                 ....*....|....*....|....*....|....*....|....*
gi 84316431  252 DSARlTAHSLRHTAITLALLAGREITEVQQFARHANLNTTMIYNH 296
Cdd:PRK01287 262 EKAG-ACHLFRHAMATQMLENGADTRHIQAILGHAKLETTQIYTR 305
INT_RitC_C_like cd01182
C-terminal catalytic domain of recombinase RitC, a component of the recombinase trio; ...
 124-294 3.36e-19

C-terminal catalytic domain of recombinase RitC, a component of the recombinase trio; Recombinases belonging to the RitA (also known as pAE1 due to its presence in the deletion prone region of plasmid pAE1 of Alcaligenes eutrophus H1), RitB, and RitC families are associated in a complex referred to as a Recombinase in Trio (RIT) element. These RIT elements consist of three adjacent and unidirectional overlapping genes, one from each family (ritABC in order of transcription). All three integrases contain a catalytic motif, suggesting that they are all active enzymes. However, their specific roles are not yet fully understood. All three families belong to the superfamily of DNA breaking-rejoining enzymes, which share the same fold in their catalytic domain and the overall reaction mechanism.


Pssm-ID: 271183 [Multi-domain]  Cd Length: 186  Bit Score: 83.48  E-value: 3.36e-19
                        10        20        30        40        50        60        70        80
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 84316431 124 LTSRQAKEVLASIETDTEEGLRNYAILSLMVTGGLRTIEVSRADVGDLRtVGENTVLFLQGKGREEKTeyIKISAPVEKA 203
Cdd:cd01182   1 LTREEMKALLAAPDRNTSLGRRDHALLLLLYDTGARVQELADLTIRDLR-LDDPATVRLHGKGRKERT--VPLWKETVAA 77

                        90       100       110       120       130       140       150       160
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 84316431 204 IRNYLKARGNVEEGQPLFTSTSNNsRGKRISTRTVSAIVKNALKNAGYDSA----RLTAHSLRHTAITLALLAGREITEV 279
Cdd:cd01182  78 LKAYLQEFHLTPDPKQLFPLFPNR-RGQPLTRDGVAYILNKYVALASNRCPslpkRITPHTLRHTKAMHLLQAGVDLTVI 156

                       170
                ....*....|....*
gi 84316431 280 QQFARHANLNTTMIY 294
Cdd:cd01182 157 RDWLGHESVETTQIY 171
INT_IntI_C cd01193
Integron integrase and similar protiens, C-terminal catalytic domain; Integron integrases ...
 144-296 3.32e-18

Integron integrase and similar protiens, C-terminal catalytic domain; Integron integrases mediate site-specific DNA recombination between a proximal primary site (attI) and a secondary target site (attC) found within mobile gene cassettes encoding resistance or virulence factors. Unlike other site specific recombinases, the attC sites lack sequence conservation. Integron integrase exhibits broader DNA specificity by recognizing the non-conserved attC sites. The structure shows that DNA target site recognition are not dependent on canonical DNA but on the position of two flipped-out bases that interact in cis and in trans with the integrase. Integron-integrases are present in many natural occurring mobile elements, including transposons and conjugative plasmids. Vibrio, Shewanella, Xanthomonas, and Pseudomonas species harbor chromosomal super-integrons. All integron-integrases carry large inserts unlike the TnpF ermF-like proteins also seen in this group.


Pssm-ID: 271193 [Multi-domain]  Cd Length: 176  Bit Score: 80.40  E-value: 3.32e-18
                        10        20        30        40        50        60        70        80
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 84316431 144 LRNYAILSLMVTGGLRTIEVSRADVGDLRtvGENTVLFL-QGKGReeKTEYIKISAPVEKAIRNYLKARGNVEE------ 216
Cdd:cd01193  21 LRHRLILSLLYGAGLRISELLRLRVKDID--FERGVIRVrQGKGG--KDRVVPLPEKLLEPLRRYLKSARPKEEldpaeg 96

                        90       100       110       120       130       140       150       160
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 84316431 217 GQPLFTSTSNNSRGKRISTRTVSAIVKNALKNAGYDSaRLTAHSLRHTAITLALLAGREITEVQQFARHANLNTTMIYNH 296
Cdd:cd01193  97 RAGVLDPRTGVERRHHISETTVQRALKKAVEQAGITK-RVTPHTLRHSFATHLLEAGTDIRTIQELLGHSDLSTTMIYTH 175
INT_C_like_6 cd01196
Uncharacterized site-specific tyrosine recombinase, C-terminal catalytic domain; Tyrosine ...
 125-302 1.72e-15

Uncharacterized site-specific tyrosine recombinase, C-terminal catalytic domain; Tyrosine recombinase (integrase) belongs to a DNA breaking-rejoining enzyme superfamily. The catalytic domain contains six conserved active site residues. The recombination reaction involves cleavage of a single strand of a DNA duplex by nucleophilic attack of a conserved tyrosine to give a 3' phosphotyrosyl protein-DNA adduct. In the second rejoining step, a terminal 5' hydroxyl attacks the covalent adduct to release the enzyme and generate duplex DNA. Many DNA breaking-rejoining enzymes also have N-terminal domains, which show little sequence or structure similarity.


Pssm-ID: 271196  Cd Length: 183  Bit Score: 73.28  E-value: 1.72e-15
                        10        20        30        40        50        60        70        80
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 84316431 125 TSRQAKEVLASIETDTEEGLRNYAILSLMVTGGLRTIEVSRADVGDLRTVGENTVLFLQGKGreEKTEYIKISAPVEKAI 204
Cdd:cd01196   1 TAPEARRLLESIDSTHPVGLRDRALIALMVYSFARIGAVLAMRVEDVYDQGRRLWVRLAEKG--GKQHEMPCHHDLEEYL 78

                        90       100       110       120       130       140       150       160
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 84316431 205 RNYLKARGNVEE-GQPLFTSTSNNSRgkRISTRTVSA-----IVKNALKNAGYdSARLTAHSLRHTAITLALLAGREITE 278
Cdd:cd01196  79 RAYLEAAEIEEDpKGPLFRTTRGGTR--KLTHNPLTQanayrMVRRRAIAADI-PTAIGNHSFRATGITAYLKNGGTLED 155

                       170       180
                ....*....|....*....|....
gi 84316431 279 VQQFARHANLNTTMIYNHALDQAK 302
Cdd:cd01196 156 AQNMANHASTRTTQLYDRRSDKIT 179
FimB COG0582
Integrase/recombinase, includes phage integrase [Replication, recombination and repair, ...
 23-302 5.87e-15

Integrase/recombinase, includes phage integrase [Replication, recombination and repair, Mobilome: prophages, transposons];


Pssm-ID: 440347 [Multi-domain]  Cd Length: 391  Bit Score: 74.69  E-value: 5.87e-15
                        10        20        30        40        50        60        70        80
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 84316431  23 NTFDRFIN-YLDA-----SPKTVETYKKALRQ----FFNYLAINGIRqpqREDVLAFRDDLKASGlKPTTVQNYITATRI 92
Cdd:COG0582  97 NTFEEVAEeWLEEkkpewKEKTAAQVRRTLEKhifpVLGDRPIAEIT---PPDLLAVLRPIEARG-APETARRVRQRLRQ 172

                        90       100       110       120       130       140       150       160
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 84316431  93 FFKWTEQEGLYP-NIAEHVKGA-KLDKNHKKDYLTSRQAKEVLASIETDTEEGLRNYAILSLMVTGgLRTIEVSRA---D 167
Cdd:COG0582 173 VFRYAVARGLIErNPAADLKGAlPKPKVKHHPALTPEELPELLRALDAYRGSPVTRLALRLLLLTG-VRPGELRGArwsE 251

                       170       180       190       200       210       220       230       240
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 84316431 168 VgDLrtvgENTVLFLQG---KGReeKTEYIKISAPVEKAIRNYLKARGNveeGQPLFTSTsnNSRGKRISTRTVSAivkn 244
Cdd:COG0582 252 I-DL----EAALWTIPAermKTR--RPHIVPLSRQALEILKELKPLTGD---SEYVFPSR--RGPKKPMSENTLNK---- 315

                       250       260       270       280       290       300
                ....*....|....*....|....*....|....*....|....*....|....*....|...
gi 84316431 245 ALKNAGYDsaRLTAHSLRHTAITLALLAG--REITEvQQFArHANLNTTM-IYNHA--LDQAK 302
Cdd:COG0582 316 ALRRMGYG--RFTPHGFRHTASTLLNEAGfpPDVIE-RQLA-HKDGNKVRaAYNRAdyLEERR 374
xerS PRK05084
site-specific tyrosine recombinase XerS; Reviewed
 33-302 3.72e-13

site-specific tyrosine recombinase XerS; Reviewed


Pssm-ID: 235339 [Multi-domain]  Cd Length: 357  Bit Score: 69.18  E-value: 3.72e-13
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 84316431   33 DASPKTVETYKKALRQFFNYLAINGIRQPQ--------------REDVLAFRDDLK----------ASGLKPTTVQNYIT 88
Cdd:PRK05084  32 PYSPTTLYEYLTEYRRFFNWLISEGLSDASkikdiplstlenltKKDVEAFILYLRerpllnghstKKGNSQTTINRTLS 111

                         90       100       110       120       130       140       150       160
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 84316431   89 ATRIFFKW----TEQEGLYPNIAEHVKgAKLDKNHKKDYLTSRQAK------------EVLASIETDTEEGL-------- 144
Cdd:PRK05084 112 ALKSLFKYlteeAENEDGEPYFYRNVM-KKIELKKKKETLAARAHNlkqklflgdedyEFLDFIDNEYEQKLsnralssf 190

                        170       180       190       200       210       220       230       240
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 84316431  145 -----RNYAILSLMVTGGLRTIEVSRADVGDLRTvgENTVLFLQGKGREEKTeyIKISAPVEKAIRNYLK---ARGNVEE 216
Cdd:PRK05084 191 kknkeRDLAIIALILGSGLRVSELVNLDLSDLNL--KQMTIDVTRKGGKRDS--VNIAPFALPYLEEYLKiraSRYKAEK 266

                        250       260       270       280       290       300       310       320
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 84316431  217 GQPLFTSTSNNSRGKRISTRTVSAIVKNalknagYDSA---RLTAHSLRHTAITLALLAGREITEVQQFARHANLNTTMI 293
Cdd:PRK05084 267 QEKALFLTKYRGKPNRISARAIEKMVAK------YSEAfgvRLTPHKLRHTLATRLYDATKDQVLVADQLGHTSTETTDL 340


                 ....*....
gi 84316431  294 YNHaLDQAK 302
Cdd:PRK05084 341 YTH-IVNDE 348
INT_Rci_Hp1_C cd00796
Shufflon-specific DNA recombinase Rci and Bacteriophage Hp1_like integrase, C-terminal ...
 123-296 3.04e-12

Shufflon-specific DNA recombinase Rci and Bacteriophage Hp1_like integrase, C-terminal catalytic domain; Rci protein is a tyrosine recombinase specifically involved in Shufflon type of DNA rearrangement in bacteria. The shufflon of plasmid R64 consists of four invertible DNA segments which are separated and flanked by seven 19-bp repeat sequences. RCI recombinase facilitates the site-specific recombination between any inverted repeats results in an inversion of the DNA segment(s) either independently or in groups. HP1 integrase promotes site-specific recombination of the HP1 genome into that of Haemophilus influenza. Bacteriophage Hp1_like integrases are tyrosine based site specific recombinases. They belong to the superfamily of DNA breaking-rejoining enzymes, which share the same fold in their catalytic domain and the overall reaction mechanism. The catalytic domain contains six conserved active site residues. Their overall reaction mechanism is essentially identical and involves cleavage of a single strand of a DNA duplex by nucleophilic attack of a conserved tyrosine to give a 3' phosphotyrosyl protein-DNA adduct. In the second rejoining step, a terminal 5' hydroxyl attacks the covalent adduct to release the enzyme and generate duplex DNA.


Pssm-ID: 271177 [Multi-domain]  Cd Length: 162  Bit Score: 63.50  E-value: 3.04e-12
                        10        20        30        40        50        60        70        80
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 84316431 123 YLTSRQAKEVLASIETDTEEGLRNYAILSLMvTGgLRTIEVSRADVGDLRtvGENTVLFLQG-KGREEKTeyIKISAPVE 201
Cdd:cd00796   4 FLTEDEEARLLAALEESTNPHLRLIVLLALY-TG-ARRGEILSLRWDDID--LEVGLIVLPEtKNGKPRT--VPLSDEAI 77

                        90       100       110       120       130       140       150       160
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 84316431 202 KAIRNYLKARGNVEEGQPLftstsnnsRGKRISTRTVSAIVKNALKNAGYDSarLTAHSLRHTAITLALLAGREITEVQQ 281
Cdd:cd00796  78 AILKELKRKRGKDGFFVDG--------RFFGIPIASLRRAFKKARKRAGLED--LRFHDLRHTFASRLVQAGVPIKTVAK 147

                       170
                ....*....|....*
gi 84316431 282 FARHANLNTTMIYNH 296
Cdd:cd00796 148 ILGHSSIKMTMRYAH 162
integrase_gron TIGR02249
integron integrase; Members of this family are integrases associated with integrons (and ...
 23-304 6.67e-11

integron integrase; Members of this family are integrases associated with integrons (and super-integrons), which are systems for incorporating and expressing cassettes of laterally transferred DNA. Incorporation occurs at an attI site. A super-integron, as in Vibrio sp., may include over 100 cassettes. This family belongs to the phage integrase family (pfam00589) that also includes recombinases XerC (TIGR02224) and XerD (TIGR02225), which are bacterial housekeeping proteins. Within this family of integron integrases, some are designated by class, e.g. IntI4, a class 4 integron integrase from Vibrio cholerae N16961. [DNA metabolism, DNA replication, recombination, and repair, Mobile and extrachromosomal element functions, Other]


Pssm-ID: 131303 [Multi-domain]  Cd Length: 315  Bit Score: 62.03  E-value: 6.67e-11
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 84316431    23 NTFDRFINYLDASPKTVETYKKALRQFfnyLAINGIRQPQR---EDVLAFRDDLKASGLKPTTVQNYITATRIFFkWTEQ 99
Cdd:TIGR02249   3 DQVREHMRTRHYAKRTEEAYLHWIKRF---IRFHNKRHPSTmgdTEVEAFLSDLAVDGKVAASTQNQALNALLFL-YKEI 78

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 84316431   100 EGLYPNIAEHVKGAKLDKNHKKdYLTSRQAKEVLASIETDteeglrNYAILSLMVTGGLRTIEVSRADVGDLrTVGENTV 179
Cdd:TIGR02249  79 LKTPLSLMERFVRAKRPRKLPV-VLTREEVRRLLEHLEGK------YRLIAKLLYGSGMRLMECLRLRIQDI-DFDYGEI 150

                         170       180       190       200       210       220       230       240
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 84316431   180 LFLQGKGREEKTEYI--KISAPVEKAI---RNYLKA--------------------RGNVEEG-QPLFTStSNNSRGKR- 232
Cdd:TIGR02249 151 RIRQGKGGKDRTVTLpkELIPPLREQIelaRAYHEAdlaegyggvylphalarkypNAPKEWGwQYLFPS-HRLSRDPEs 229

                         250       260       270       280       290       300       310
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....
gi 84316431   233 -------ISTRTVSAIVKNALKNAGYDSArLTAHSLRHTAITLALLAGREITEVQQFARHANLNTTMIYNHALDQAKNG 304
Cdd:TIGR02249 230 gvirrhhINETTIQRAVRRAVERAGIEKP-VTCHTLRHSFATHLLESGADIRTVQELLGHSDVKTTQIYTHVLNRGASG 307
Phage_int_SAM_1 pfam02899
Phage integrase, N-terminal SAM-like domain;
25-101 7.02e-10

Phage integrase, N-terminal SAM-like domain;


Pssm-ID: 427047 [Multi-domain]  Cd Length: 83  Bit Score: 54.96  E-value: 7.02e-10
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 84316431    25 FDRFINYLDA----SPKTVETYKKALRQFFNYLA--INGIRQPQREDVLAFRDDLKASGLKPTTVQNYITATRIFFKWTE 98
Cdd:pfam02899   1 IDQFLEYLSLerglSPHTLRAYRRDLLAFLKFLSegGSSLEQITTSDVRAFLAELRAQGLSASSLARRLSALRSFYQFLI 80


                  ...
gi 84316431    99 QEG 101
Cdd:pfam02899  81 REG 83
INTN1_C_like cd01185
Integrase IntN1 of Bacteroides mobilizable transposon NBU1 and similar proteins, C-terminal ...
 157-300 1.37e-09

Integrase IntN1 of Bacteroides mobilizable transposon NBU1 and similar proteins, C-terminal catalytic domain; IntN1 is a tyrosine recombinase for the integration and excision of Bacteroides mobilizable transposon NBU1 from the host chromosome. IntN1 does not require strict homology between the recombining sites seen with other tyrosine recombinases. This family belongs to the superfamily of DNA breaking-rejoining enzymes, which share the same fold in their catalytic domain and the overall reaction mechanism. The catalytic domain contains six conserved active site residues. Their overall reaction mechanism involves cleavage of a single strand of a DNA duplex by nucleophilic attack of a conserved tyrosine to give a 3' phosphotyrosyl protein-DNA adduct. In the second rejoining step, a terminal 5' hydroxyl attacks the covalent adduct to release the enzyme and generate duplex DNA.


Pssm-ID: 271185 [Multi-domain]  Cd Length: 161  Bit Score: 56.12  E-value: 1.37e-09
                        10        20        30        40        50        60        70        80
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 84316431 157 GLRTIEVSRADVGDLRTVGENTVLflqgKGREEKTE---YIKISAPVEKAIRNYLKARGNveegQPLFtstsnnsrgKRI 233
Cdd:cd01185  31 GLRFSDLKNLTWKNIVEASGRTWI----RYRRKKTGkpvTVPLLPVAREILEKYKDDRSE----GKLF---------PVL 93

                        90       100       110       120       130       140
                ....*....|....*....|....*....|....*....|....*....|....*....|....*..
gi 84316431 234 STRTVSAIVKNALKNAGYDsARLTAHSLRHTAITLALLAGREITEVQQFARHANLNTTMIYNHALDQ 300
Cdd:cd01185  94 SNQKINRYLKEIAKIAGID-KHLTFHVARHTFATLLLLKGVDIETISKLLGHSSIKTTQIYAKIVDS 159
INT_ICEBs1_C_like cd01189
C-terminal catalytic domain of integrases from bacterial phages and conjugate transposons; ...
 128-296 1.57e-08

C-terminal catalytic domain of integrases from bacterial phages and conjugate transposons; This family of tyrosine based site-specific integrases is has origins in bacterial phages and conjugate transposons. One member is the integrase from Bacillus subtilis conjugative transposon ICEBs1. ICEBs1 can be excised and transfered to various recipients in response to DNA damage or high concentrations of potential mating partners. The family belongs to the superfamily of DNA breaking-rejoining enzymes, which share the same fold in their catalytic domain and the overall reaction mechanism. The catalytic domain contains six conserved active site residues. Their overall reaction mechanism involves cleavage of a single strand of a DNA duplex by nucleophilic attack of a conserved tyrosine to give a 3' phosphotyrosyl protein-DNA adduct. In the second rejoining step, a terminal 5' hydroxyl attacks the covalent adduct to release the enzyme and generate duplex DNA.


Pssm-ID: 271189 [Multi-domain]  Cd Length: 147  Bit Score: 52.56  E-value: 1.57e-08
                        10        20        30        40        50        60        70        80
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 84316431 128 QAKEVLASIETdteEGLRNYAILSLMVTGGLRtievsradvgdlrtVGEntVLFLQGKGREEKTEYIKISapvekairny 207
Cdd:cd01189   3 ELKKLLEALKK---RGDRYYLLFLLALLTGLR--------------RGE--LLALTWSDIDFENGTIRIN---------- 53

                        90       100       110       120       130       140       150       160
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 84316431 208 lKARGNVEEGQPLFTSTSNNSrgkriSTRTV--SAIVKNALKN--------AGYDSARLTAHSLRHTAITLALLAGREIT 277
Cdd:cd01189  54 -RTLVRKKKGGYVIKPPKTKS-----SIRTIplPDELIELLKElkafkkllKKAGLPRITPHDLRHTFASLLLEAGVPLK 127

                       170       180
                ....*....|....*....|
gi 84316431 278 EVQQFARHANLNTTM-IYNH 296
Cdd:cd01189 128 VIAERLGHSDISTTLdVYAH 147
Phage_int_SAM_4 pfam13495
Phage integrase, N-terminal SAM-like domain;
25-102 5.63e-07

Phage integrase, N-terminal SAM-like domain;


Pssm-ID: 463898 [Multi-domain]  Cd Length: 83  Bit Score: 46.45  E-value: 5.63e-07
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 84316431    25 FDRFINYLDA---SPKTVETYKKALRQFFNYLAINGIRQPQREDVLAFRDDL-KASGLKPTTVQNYITATRIFFKWTEQE 100
Cdd:pfam13495   2 LERFREALRLrgyAERTIKAYLRWIRRFLRFHDKKHPEELTEEDIEAYLSHLaNERNVSASTQNQALNALSFFYRWVLER 81


                  ..
gi 84316431   101 GL 102
Cdd:pfam13495  82 EL 83
INT_tnpA_C_Tn554 cd01186
Putative Transposase A from transposon Tn554, C-terminal catalytic domain; This family ...
 124-300 1.16e-06

Putative Transposase A from transposon Tn554, C-terminal catalytic domain; This family includes putative Transposase A from transposon Tn554. It belongs to a DNA breaking-rejoining enzyme superfamily. The catalytic domain contains six conserved active site residues. The recombination reaction involves cleavage of a single strand of a DNA duplex by nucleophilic attack of a conserved tyrosine to give a 3' phosphotyrosyl protein-DNA adduct. In the second rejoining step, a terminal 5' hydroxyl attacks the covalent adduct to release the enzyme and generate duplex DNA. Many DNA breaking-rejoining enzymes also have N-terminal domains, which show little sequence or structure similarity.


Pssm-ID: 271186 [Multi-domain]  Cd Length: 184  Bit Score: 48.18  E-value: 1.16e-06
                        10        20        30        40        50        60        70        80
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 84316431 124 LTSRQAKEVLasietDTEEGLRNYAILSLMVTGGLRTIEV-----SRADVGD----LRTVGENTVLFLQGKGREEKteyI 194
Cdd:cd01186   2 LTPREVQELI-----NACNNLRDKFLLALLYETGLRIGEAlglriEDIDMADnqieLVPREDNTNEARAKSMRERR---I 73

                        90       100       110       120       130       140       150       160
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 84316431 195 KISAPVEKAIRNYLKARGN--VEEGQPLFTSTSNNSRGKRISTRTVSAIVKNALKNAGYDsarLTAHSLRHTAITLALLA 272
Cdd:cd01186  74 PVSQDLIDLYADYLTYIYCeeAEFSITVFVNVKGGNQGKAMNYSDVYDLVRRLKKRTGID---FTPHMFRHTHATALIRA 150

                       170       180
                ....*....|....*....|....*....
gi 84316431 273 GREITEVQQFARHANLNTTM-IYNHALDQ 300
Cdd:cd01186 151 GWSIEVVARRLGHAHVQTTLnTYGHLSEE 179
INT_P4_C cd00801
Bacteriophage P4 integrase, C-terminal catalytic domain; P4-like integrases are found in ...
 130-297 2.03e-06

Bacteriophage P4 integrase, C-terminal catalytic domain; P4-like integrases are found in temperate bacteriophages, integrative plasmids, pathogenicity and symbiosis islands, and other mobile genetic elements. The P4 integrase mediates integrative and excisive site-specific recombination between two sites, called attachment sites, located on the phage genome and the bacterial chromosome. The phage attachment site is often found adjacent to the integrase gene, while the host attachment sites are typically situated near tRNA genes. This family belongs to the superfamily of DNA breaking-rejoining enzymes, which share the same fold in their catalytic domain and the overall reaction mechanism. The catalytic domain contains six conserved active site residues. Their overall reaction mechanism involves cleavage of a single strand of a DNA duplex by nucleophilic attack of a conserved tyrosine to give a 3' phosphotyrosyl protein-DNA adduct. In the second rejoining step, a terminal 5' hydroxyl attacks the covalent adduct to release the enzyme and generate duplex DNA.


Pssm-ID: 271182 [Multi-domain]  Cd Length: 180  Bit Score: 47.26  E-value: 2.03e-06
                        10        20        30        40        50        60        70        80
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 84316431 130 KEVLASIETDTEEGLRNYAILSLMVTGgLRTIEVSRA-------DVGDLRTVGENTvlflqgKGREEKTEYIkiSAPVEK 202
Cdd:cd00801   6 PELWRALDTANLSPPTKLALRLLLLTG-QRIGELARArwseidlEEKTWTIPAERT------KNKRPHRVPL--SDQALE 76

                        90       100       110       120       130       140       150       160
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 84316431 203 AIRNYLKARGNveeGQPLFTSTSNnsRGKRISTRTVSAivknALKNAGYDSARLTAHSLRHTAITLALLAG--REITEVQ 280
Cdd:cd00801  77 ILEELKEFTGD---SGYLFPSRRK--KKKPISENTINK----ALKRLGYKGKEFTPHDLRRTFSTLLNELGidPEVIERL 147

                       170
                ....*....|....*...
gi 84316431 281 QfaRHANLNTTM-IYNHA 297
Cdd:cd00801 148 L--NHVLGGVVRaAYNRY 163
INT_C_like_3 cd01192
Uncharacterized site-specific tyrosine recombinase, C-terminal catalytic domain; Tyrosine ...
 141-294 2.15e-05

Uncharacterized site-specific tyrosine recombinase, C-terminal catalytic domain; Tyrosine recombinase (integrase) belongs to a DNA breaking-rejoining enzyme superfamily. The catalytic domain contains six conserved active site residues. The recombination reaction involves cleavage of a single strand of a DNA duplex by nucleophilic attack of a conserved tyrosine to give a 3' phosphotyrosyl protein-DNA adduct. In the second rejoining step, a terminal 5' hydroxyl attacks the covalent adduct to release the enzyme and generate duplex DNA. Many DNA breaking-rejoining enzymes also have N-terminal domains, which show little sequence or structure similarity.


Pssm-ID: 271192 [Multi-domain]  Cd Length: 178  Bit Score: 44.21  E-value: 2.15e-05
                        10        20        30        40        50        60        70        80
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 84316431 141 EEGLRNYAILSLMVTGGLRTIEVSRADVGDLRTVGENTVlflqgkgREEKT---EYIKISAPVEKAIRNYLKARGNVEEg 217
Cdd:cd01192  21 KANPRNYLLFIVGINTGLRISDLLSLKVEDVTNKDKLSI-------KEQKTgkqKTFPLNPTLVKALKEYIDDLDLKRN- 92

                        90       100       110       120       130       140       150
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*..
gi 84316431 218 qPLFTSTSNNSRGKRISTRTVSAIVKNALKNAGYDSArLTAHSLRHTAITLALLAGREITEVQQFARHANLNTTMIY 294
Cdd:cd01192  93 -DYLFKSLKQGPEKPISRKQAYKILKKAADDLGLNYN-IGTHSLRKTFGYHVYKQGKDIELLMKLLNHSSPSITLRY 167
PRK15417 PRK15417
integron integrase;
229-298 1.51e-04

integron integrase;


Pssm-ID: 185315 [Multi-domain]  Cd Length: 337  Bit Score: 42.73  E-value: 1.51e-04
                         10        20        30        40        50        60        70
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 84316431  229 RGKRISTRTVSAIVKNALKNAGYdSARLTAHSLRHTAITLALLAGREITEVQQFARHANLNTTMIYNHAL 298
Cdd:PRK15417 248 RRHHMYDQTFQRAFKRAVEQAGI-TKPATPHTLRHSFATALLRSGYDIRTVQDLLGHSDVSTTMIYTHVL 316
PRK09870 PRK09870
tyrosine recombinase; Provisional
 118-294 1.29e-03

tyrosine recombinase; Provisional


Pssm-ID: 182125  Cd Length: 200  Bit Score: 39.15  E-value: 1.29e-03
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 84316431  118 NHKKDYLTSRQAKEVLASIETDTEeGLRNYAILSLMVTGGLRTIEVSRADVGDLRTVGENTVLFLQGKGREekTEYIKIS 197
Cdd:PRK09870   7 NKKRNFLTHSEIESLLKAANTGPH-AARNYCLTLLCFIHGFRASEICRLRISDIDLKAKCIYIHRLKKGFS--TTHPLLN 83

                         90       100       110       120       130       140       150       160
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 84316431  198 APVeKAIRNYLKARGNVE--EGQPLFTStsnnSRGKRISTRTVSAIVKNALKNAGYdSARLTAHSLRHT-AITLALLaGR 274
Cdd:PRK09870  84 KEI-QALKNWLSIRTSYPhaESEWVFLS----RKGNPLSRQQFYHIISTSGGNAGL-SLEIHPHMLRHScGFALANM-GI 156

                        170       180
                 ....*....|....*....|
gi 84316431  275 EITEVQQFARHANLNTTMIY 294
Cdd:PRK09870 157 DTRLIQDYLGHRNIRHTVWY 176
 
Blast search parameters
Data Source: Precalculated data, version = cdd.v.3.21
Preset Options:Database: CDSEARCH/cdd   Low complexity filter: no  Composition Based Adjustment: yes   E-value threshold: 0.01

References:

  • Wang J et al. (2023), "The conserved domain database in 2023", Nucleic Acids Res.51(D)384-8.
  • Lu S et al. (2020), "The conserved domain database in 2020", Nucleic Acids Res.48(D)265-8.
  • Marchler-Bauer A et al. (2017), "CDD/SPARCLE: functional classification of proteins via subfamily domain architectures.", Nucleic Acids Res.45(D)200-3.
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