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Conserved domains on  [gi|1121241739|ref|WP_073559707|]
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MULTISPECIES: recombinase family protein [Enterobacteriaceae]

Protein Classification

Graphical summary

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List of domain hits

 Name Accession Description Interval E-value
SR_Res_par cd03767
Serine recombinase (SR) family, Partitioning (par)-Resolvase subfamily, catalytic domain; ...
 10-153 2.82e-71

Serine recombinase (SR) family, Partitioning (par)-Resolvase subfamily, catalytic domain; Serine recombinases catalyze site-specific recombination of DNA molecules by a concerted, four-strand cleavage and rejoining mechanism which involves a transient phosphoserine linkage between DNA and the enzyme. They are functionally versatile and include resolvases, invertases, integrases, and transposases. This subgroup is composed of proteins similar to the E. coli resolvase found in the par region of the RP4 plasmid, which encodes a highly efficient partitioning system. This protein is part of a complex stabilization system involved in the resolution of plasmid dimers during cell division. Similar to Tn3 and other resolvases, members of this family may contain a C-terminal DNA binding domain.


:

Pssm-ID: 239736 [Multi-domain]  Cd Length: 146  Bit Score: 213.34  E-value: 2.82e-71
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1121241739  10 VRAYLRASTAEQDASRALETIEAFARERGLIICSYYIENESGTRLERPELFRLLRDCQQNDILLIEDVDRLSRLSGEDWN 89
Cdd:cd03767     1 IRAYLRASTDEQDATRAKESLEAFATERGFYIAGFYVENASGAKLDRPELFRLLDDAQSGDVLLVEQIDRLSRLPLDDWE 80

                          90       100       110       120       130       140
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*.
gi 1121241739  90 TLKKMIRQKDIRVMAVNVPTTW--INSGMSEFDSRLFAAINDMLLDMLAAVARRDYEQRRERQKQG 153
Cdd:cd03767    81 TLKASIAAKGLRVVSLDLPTSHsaLAAEDNDFTGRILSAINDMLLDLLAAMARKDYEDRRERQKQG 146
HTH_CRP super family cl46859
helix_turn_helix, cAMP Regulatory protein C-terminus; DNA binding domain of prokaryotic ...
 165-204 1.29e-03

helix_turn_helix, cAMP Regulatory protein C-terminus; DNA binding domain of prokaryotic regulatory proteins belonging to the catabolite activator protein family.


The actual alignment was detected with superfamily member cd00569:

Pssm-ID: 481199 [Multi-domain]  Cd Length: 42  Bit Score: 35.38  E-value: 1.29e-03
                          10        20        30        40
                  ....*....|....*....|....*....|....*....|..
gi 1121241739 165 GRKP--NQARHDAIIRLIESGSSWTQVQKVLGCSRGTISNAL 204
Cdd:cd00569     1 GRPPklTPEQIAEARRLLAAGESVAEIARELGVSRSTLYRYL 42
 
Name Accession Description Interval E-value
SR_Res_par cd03767
Serine recombinase (SR) family, Partitioning (par)-Resolvase subfamily, catalytic domain; ...
 10-153 2.82e-71

Serine recombinase (SR) family, Partitioning (par)-Resolvase subfamily, catalytic domain; Serine recombinases catalyze site-specific recombination of DNA molecules by a concerted, four-strand cleavage and rejoining mechanism which involves a transient phosphoserine linkage between DNA and the enzyme. They are functionally versatile and include resolvases, invertases, integrases, and transposases. This subgroup is composed of proteins similar to the E. coli resolvase found in the par region of the RP4 plasmid, which encodes a highly efficient partitioning system. This protein is part of a complex stabilization system involved in the resolution of plasmid dimers during cell division. Similar to Tn3 and other resolvases, members of this family may contain a C-terminal DNA binding domain.


Pssm-ID: 239736 [Multi-domain]  Cd Length: 146  Bit Score: 213.34  E-value: 2.82e-71
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1121241739  10 VRAYLRASTAEQDASRALETIEAFARERGLIICSYYIENESGTRLERPELFRLLRDCQQNDILLIEDVDRLSRLSGEDWN 89
Cdd:cd03767     1 IRAYLRASTDEQDATRAKESLEAFATERGFYIAGFYVENASGAKLDRPELFRLLDDAQSGDVLLVEQIDRLSRLPLDDWE 80

                          90       100       110       120       130       140
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*.
gi 1121241739  90 TLKKMIRQKDIRVMAVNVPTTW--INSGMSEFDSRLFAAINDMLLDMLAAVARRDYEQRRERQKQG 153
Cdd:cd03767    81 TLKASIAAKGLRVVSLDLPTSHsaLAAEDNDFTGRILSAINDMLLDLLAAMARKDYEDRRERQKQG 146
SpoIVCA COG1961
Site-specific DNA recombinase SpoIVCA/DNA invertase PinE [Replication, recombination and ...
 10-211 1.35e-29

Site-specific DNA recombinase SpoIVCA/DNA invertase PinE [Replication, recombination and repair];


Pssm-ID: 441564 [Multi-domain]  Cd Length: 388  Bit Score: 113.20  E-value: 1.35e-29
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1121241739  10 VRAYLRASTAEQDAS---RALETIEAFARERGLIICSYYIENE-SGTRLERPELFRLLRDCQQN--DILLIEDVDRLSRl 83
Cdd:COG1961     4 AAGYARVSTDDQEGLsleRQREALRAYAEKAGWEIVRIYVDEGvSGTSKDRPGLQRLLADLRAGkfDTLVVWKLDRLGR- 82

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1121241739  84 SGEDWNTLKKMIRQKDIRVMAVNVPttwinsgmseFDSRlfAAINDMLLDMLAAVARRDYEQRRERQKQGIEKARKDGKY 163
Cdd:COG1961    83 NLADLLELVEELKERGVRLISLTEG----------IDTS--TPMGRLLLTILAAFAEFERELISERTRAGLAAAKARGKY 150

                         170       180       190       200       210       220
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*...
gi 1121241739 164 KGRKPNQARHD--------------AIIRLIESGSSWTQV------QKVLGCSRGTISNALKRKTGQK 211
Cdd:COG1961   151 LGRPPYGYRDPkklvideeeaevvrRIFELYLEGKSLREIarelneRGIPTWSRSTVYRILKNPVYGG 218
Resolvase smart00857
Resolvase, N terminal domain; The N-terminal domain of the resolvase family contains the ...
 10-163 4.32e-29

Resolvase, N terminal domain; The N-terminal domain of the resolvase family contains the active site and the dimer interface. The extended arm at the C-terminus of this domain connects to the C-terminal helix-turn-helix domain of resolvase.


Pssm-ID: 214861 [Multi-domain]  Cd Length: 148  Bit Score: 105.78  E-value: 4.32e-29
                           10        20        30        40        50        60        70        80
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1121241739   10 VRAYLRASTAEQDAS---RALETIEAFARERGLIICSYYIEN-ESGTRLERPELFRLLRDCQQNDI--LLIEDVDRLSRl 83
Cdd:smart00857   1 AAGYARVSTDDQADGsleRQLEALRAYAERNGWEVVRIYEDEgVSGKKADRPGLQRLLADLRAGDIdvLVVYKLDRLGR- 79

                           90       100       110       120       130       140       150       160
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1121241739   84 SGEDWNTLKKMIRQKDIRVMAVNVPTTWINSGMSEfdsrlfaaindMLLDMLAAVARRDYEQRRERQKQGIEKARKDGKY 163
Cdd:smart00857  80 SLRDLLALLELLEEKGVRLVSLKEGILDTSTPAGR-----------LLLDILAALAEFERELISERTKAGLARAAARGRW 148
Resolvase pfam00239
Resolvase, N terminal domain; The N-terminal domain of the resolvase family (this family) ...
 12-163 5.72e-23

Resolvase, N terminal domain; The N-terminal domain of the resolvase family (this family) contains the active site and the dimer interface. The extended arm at the C-terminus of this domain connects to the C-terminal helix-turn-helix domain of resolvase - see pfam02796.


Pssm-ID: 425548 [Multi-domain]  Cd Length: 144  Bit Score: 90.02  E-value: 5.72e-23
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1121241739  12 AYLRASTAEQDAS--RALETIEAFARERGLIIcsYYIE-NESGTRLERPELFRLLRDCQQN--DILLIEDVDRLSRlSGE 86
Cdd:pfam00239   3 GYARVSTEDQDDSleRQLEALRAYAACNGKIV--EFEDkGVSGRKLDRPGLQRLLALLRAGkgDVLVVYKLDRLGR-SLR 79

                          90       100       110       120       130       140       150
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*..
gi 1121241739  87 DWNTLKKMIRQKDIRVMAVNvpttwinsgmSEFDSRlfAAINDMLLDMLAAVARRDYEQRRERQKQGIEKARKDGKY 163
Cdd:pfam00239  80 DLLTLVEELREKGVDLVSLD----------EGIDTS--TPMGRLLLTILAALAEFERALIRERTRAGLAAAAARGKL 144
mpi PRK13413
master DNA invertase Mpi family serine-type recombinase;
10-206 2.39e-12

master DNA invertase Mpi family serine-type recombinase;


Pssm-ID: 184041 [Multi-domain]  Cd Length: 200  Bit Score: 63.20  E-value: 2.39e-12
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1121241739  10 VRAYLRASTAEQDASRALETIEAFARERGLIICSYYIENESGTR-LERPELFRLLRDCQQNDILLIEDVDRLSRLSGEDW 88
Cdd:PRK13413    2 IYAYIRVSTDKQTVENQRFEITNFAEKNNLTIDKWIEETISGTKsYKDRKLGKLLKKMRKGDILIVSELSRLGRNLMEIM 81

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1121241739  89 NTLKKMIrQKDIRVMAVN---VPTTWINSGMSEFDSRLFAAINDMLLDMLA--AVARRdyeqRRERQKQGIEKARKDGKY 163
Cdd:PRK13413   82 SILNICM-EKEVIVYTIKegyELGDDINSKVLAFAFGLSAEIERNLISQRTkeALARK----KAEGVTLGRPKGSTPKKY 156

                         170       180       190       200
                  ....*....|....*....|....*....|....*....|...
gi 1121241739 164 KGRkpnqARHDAIIRLIESGSSWTQVQKVLGCSRGTISNALKR 206
Cdd:PRK13413  157 KLT----GKEEKIKKLLDKGTSKSEIARKLGVSRTTLARFLKT 195
HTH_Hin_like cd00569
Helix-turn-helix domain of Hin and related proteins; This domain model summarizes a family of ...
 165-204 1.29e-03

Helix-turn-helix domain of Hin and related proteins; This domain model summarizes a family of DNA-binding domains unique to bacteria and represented by the Hin protein of Salmonella. The basic HTH domain is a simple fold comprised of three core helices that form a right-handed helical bundle. The principal DNA-protein interface is formed by the third helix, the recognition helix, inserting itself into the major groove of the DNA. A diverse array of HTH domains participate in a variety of functions that depend on their DNA-binding properties. HTH_Hin represents one of the simplest versions of the HTH domains; the characterization of homologous relationships between various sequence-diverse HTH domain families remains difficult. The Hin recombinase induces the site-specific inversion of a chromosomal DNA segment containing a promoter, which controls the alternate expression of two genes by reversibly switching orientation. The Hin recombinase consists of a single polypeptide chain containing a C-terminal DNA-binding domain (HTH_Hin) and a catalytic domain.


Pssm-ID: 259851 [Multi-domain]  Cd Length: 42  Bit Score: 35.38  E-value: 1.29e-03
                          10        20        30        40
                  ....*....|....*....|....*....|....*....|..
gi 1121241739 165 GRKP--NQARHDAIIRLIESGSSWTQVQKVLGCSRGTISNAL 204
Cdd:cd00569     1 GRPPklTPEQIAEARRLLAAGESVAEIARELGVSRSTLYRYL 42
 
Name Accession Description Interval E-value
SR_Res_par cd03767
Serine recombinase (SR) family, Partitioning (par)-Resolvase subfamily, catalytic domain; ...
 10-153 2.82e-71

Serine recombinase (SR) family, Partitioning (par)-Resolvase subfamily, catalytic domain; Serine recombinases catalyze site-specific recombination of DNA molecules by a concerted, four-strand cleavage and rejoining mechanism which involves a transient phosphoserine linkage between DNA and the enzyme. They are functionally versatile and include resolvases, invertases, integrases, and transposases. This subgroup is composed of proteins similar to the E. coli resolvase found in the par region of the RP4 plasmid, which encodes a highly efficient partitioning system. This protein is part of a complex stabilization system involved in the resolution of plasmid dimers during cell division. Similar to Tn3 and other resolvases, members of this family may contain a C-terminal DNA binding domain.


Pssm-ID: 239736 [Multi-domain]  Cd Length: 146  Bit Score: 213.34  E-value: 2.82e-71
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1121241739  10 VRAYLRASTAEQDASRALETIEAFARERGLIICSYYIENESGTRLERPELFRLLRDCQQNDILLIEDVDRLSRLSGEDWN 89
Cdd:cd03767     1 IRAYLRASTDEQDATRAKESLEAFATERGFYIAGFYVENASGAKLDRPELFRLLDDAQSGDVLLVEQIDRLSRLPLDDWE 80

                          90       100       110       120       130       140
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*.
gi 1121241739  90 TLKKMIRQKDIRVMAVNVPTTW--INSGMSEFDSRLFAAINDMLLDMLAAVARRDYEQRRERQKQG 153
Cdd:cd03767    81 TLKASIAAKGLRVVSLDLPTSHsaLAAEDNDFTGRILSAINDMLLDLLAAMARKDYEDRRERQKQG 146
SpoIVCA COG1961
Site-specific DNA recombinase SpoIVCA/DNA invertase PinE [Replication, recombination and ...
 10-211 1.35e-29

Site-specific DNA recombinase SpoIVCA/DNA invertase PinE [Replication, recombination and repair];


Pssm-ID: 441564 [Multi-domain]  Cd Length: 388  Bit Score: 113.20  E-value: 1.35e-29
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1121241739  10 VRAYLRASTAEQDAS---RALETIEAFARERGLIICSYYIENE-SGTRLERPELFRLLRDCQQN--DILLIEDVDRLSRl 83
Cdd:COG1961     4 AAGYARVSTDDQEGLsleRQREALRAYAEKAGWEIVRIYVDEGvSGTSKDRPGLQRLLADLRAGkfDTLVVWKLDRLGR- 82

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1121241739  84 SGEDWNTLKKMIRQKDIRVMAVNVPttwinsgmseFDSRlfAAINDMLLDMLAAVARRDYEQRRERQKQGIEKARKDGKY 163
Cdd:COG1961    83 NLADLLELVEELKERGVRLISLTEG----------IDTS--TPMGRLLLTILAAFAEFERELISERTRAGLAAAKARGKY 150

                         170       180       190       200       210       220
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*...
gi 1121241739 164 KGRKPNQARHD--------------AIIRLIESGSSWTQV------QKVLGCSRGTISNALKRKTGQK 211
Cdd:COG1961   151 LGRPPYGYRDPkklvideeeaevvrRIFELYLEGKSLREIarelneRGIPTWSRSTVYRILKNPVYGG 218
Resolvase smart00857
Resolvase, N terminal domain; The N-terminal domain of the resolvase family contains the ...
 10-163 4.32e-29

Resolvase, N terminal domain; The N-terminal domain of the resolvase family contains the active site and the dimer interface. The extended arm at the C-terminus of this domain connects to the C-terminal helix-turn-helix domain of resolvase.


Pssm-ID: 214861 [Multi-domain]  Cd Length: 148  Bit Score: 105.78  E-value: 4.32e-29
                           10        20        30        40        50        60        70        80
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1121241739   10 VRAYLRASTAEQDAS---RALETIEAFARERGLIICSYYIEN-ESGTRLERPELFRLLRDCQQNDI--LLIEDVDRLSRl 83
Cdd:smart00857   1 AAGYARVSTDDQADGsleRQLEALRAYAERNGWEVVRIYEDEgVSGKKADRPGLQRLLADLRAGDIdvLVVYKLDRLGR- 79

                           90       100       110       120       130       140       150       160
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1121241739   84 SGEDWNTLKKMIRQKDIRVMAVNVPTTWINSGMSEfdsrlfaaindMLLDMLAAVARRDYEQRRERQKQGIEKARKDGKY 163
Cdd:smart00857  80 SLRDLLALLELLEEKGVRLVSLKEGILDTSTPAGR-----------LLLDILAALAEFERELISERTKAGLARAAARGRW 148
Resolvase pfam00239
Resolvase, N terminal domain; The N-terminal domain of the resolvase family (this family) ...
 12-163 5.72e-23

Resolvase, N terminal domain; The N-terminal domain of the resolvase family (this family) contains the active site and the dimer interface. The extended arm at the C-terminus of this domain connects to the C-terminal helix-turn-helix domain of resolvase - see pfam02796.


Pssm-ID: 425548 [Multi-domain]  Cd Length: 144  Bit Score: 90.02  E-value: 5.72e-23
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1121241739  12 AYLRASTAEQDAS--RALETIEAFARERGLIIcsYYIE-NESGTRLERPELFRLLRDCQQN--DILLIEDVDRLSRlSGE 86
Cdd:pfam00239   3 GYARVSTEDQDDSleRQLEALRAYAACNGKIV--EFEDkGVSGRKLDRPGLQRLLALLRAGkgDVLVVYKLDRLGR-SLR 79

                          90       100       110       120       130       140       150
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*..
gi 1121241739  87 DWNTLKKMIRQKDIRVMAVNvpttwinsgmSEFDSRlfAAINDMLLDMLAAVARRDYEQRRERQKQGIEKARKDGKY 163
Cdd:pfam00239  80 DLLTLVEELREKGVDLVSLD----------EGIDTS--TPMGRLLLTILAALAEFERALIRERTRAGLAAAAARGKL 144
Ser_Recombinase cd00338
Serine Recombinase family, catalytic domain; a DNA binding domain may be present either N- or ...
 12-153 3.55e-19

Serine Recombinase family, catalytic domain; a DNA binding domain may be present either N- or C-terminal to the catalytic domain. These enzymes perform site-specific recombination of DNA molecules by a concerted, four-strand cleavage and rejoining mechanism which involves a transient phosphoserine linkage between DNA and serine recombinase. Serine recombinases demonstrate functional versatility and include resolvases, invertases, integrases, and transposases. Resolvases and invertases (i.e. Tn3, gamma-delta, Tn5044 resolvases, Gin and Hin invertases) in this family contain a C-terminal DNA binding domain and comprise a major phylogenic group. Also included are phage- and bacterial-encoded recombinases such as phiC31 integrase, SpoIVCA excisionase, and Tn4451 TnpX transposase. These integrases and transposases have larger C-terminal domains compared to resolvases/invertases and are referred to as large serine recombinases. Also belonging to this family are proteins with N-terminal DNA binding domains similar to IS607- and IS1535-transposases from Helicobacter and Mycobacterium.


Pssm-ID: 238206 [Multi-domain]  Cd Length: 137  Bit Score: 80.00  E-value: 3.55e-19
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1121241739  12 AYLRASTAEQDASRALET----IEAFARERGLIICSYYIENESG--TRLERPELFRLLRDCQQN--DILLIEDVDRLSRl 83
Cdd:cd00338     1 IYARVSTDKQEQGDSLERqreaLREYAARNGLEVVGEYEDAGSSatSLVDRPGLQRLLADVKAGkiDVVLVEKLDRLSR- 79

                          90       100       110       120       130       140       150
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1121241739  84 SGEDWNTLKKMIRQKDIRVMAVNvpttwinsgmSEFDsrLFAAINDMLLDMLAAVARRDYEQRRERQKQG 153
Cdd:cd00338    80 NLVDLLELLELLEAHGVRVVTAD----------GEID--LDSEDGRLMLGILAAMAEEESKLISERTKRG 137
SR_ResInv cd03768
Serine Recombinase (SR) family, Resolvase and Invertase subfamily, catalytic domain; members ...
 12-153 4.96e-19

Serine Recombinase (SR) family, Resolvase and Invertase subfamily, catalytic domain; members contain a C-terminal DNA binding domain. Serine recombinases catalyze site-specific recombination of DNA molecules by a concerted, four-strand cleavage and rejoining mechanism which involves a transient phosphoserine linkage between DNA and the enzyme. They are functionally versatile and include resolvases, invertases, integrases, and transposases. Resolvases and invertases affect resolution or inversion and comprise a major phylogenic group. Resolvases (e.g. Tn3, gamma-delta, and Tn5044) normally recombine two sites in direct repeat causing deletion of the DNA between the sites. Invertases (e.g. Gin and Hin) recombine sites in inverted repeat to invert the DNA between the sites. Cointegrate resolution with gamma-delta resolvase requires the formation of a synaptosome of three resolvase dimers bound to each of two res sites on the DNA. Also included in this subfamily are some putative integrases including a sequence from bacteriophage phi-FC1.


Pssm-ID: 239737 [Multi-domain]  Cd Length: 126  Bit Score: 79.06  E-value: 4.96e-19
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1121241739  12 AYLRASTAEQDASRALETIEAFARERGLiicsyYIENESGTRLERPELFRLLRDCQQNDILLIEDVDRLSRlSGEDWNTL 91
Cdd:cd03768     3 GYARVSTDDQSLERQLEALKAAGECDKI-----FEEKGSGGKKERPELQKLLEDLREGDTLVVTKLDRLGR-STKDLLEI 76

                          90       100       110       120       130       140
                  ....*....|....*....|....*....|....*....|....*....|....*....|..
gi 1121241739  92 KKMIRQKDIRVMAVNVPttwinsgmseFDSRlfAAINDMLLDMLAAVARRDYEQRRERQKQG 153
Cdd:cd03768    77 VEELREKGVSLRSLTEG----------IDTS--TPSGKLMLTILGAFAEFERELIRERTKEG 126
mpi PRK13413
master DNA invertase Mpi family serine-type recombinase;
10-206 2.39e-12

master DNA invertase Mpi family serine-type recombinase;


Pssm-ID: 184041 [Multi-domain]  Cd Length: 200  Bit Score: 63.20  E-value: 2.39e-12
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1121241739  10 VRAYLRASTAEQDASRALETIEAFARERGLIICSYYIENESGTR-LERPELFRLLRDCQQNDILLIEDVDRLSRLSGEDW 88
Cdd:PRK13413    2 IYAYIRVSTDKQTVENQRFEITNFAEKNNLTIDKWIEETISGTKsYKDRKLGKLLKKMRKGDILIVSELSRLGRNLMEIM 81

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1121241739  89 NTLKKMIrQKDIRVMAVN---VPTTWINSGMSEFDSRLFAAINDMLLDMLA--AVARRdyeqRRERQKQGIEKARKDGKY 163
Cdd:PRK13413   82 SILNICM-EKEVIVYTIKegyELGDDINSKVLAFAFGLSAEIERNLISQRTkeALARK----KAEGVTLGRPKGSTPKKY 156

                         170       180       190       200
                  ....*....|....*....|....*....|....*....|...
gi 1121241739 164 KGRkpnqARHDAIIRLIESGSSWTQVQKVLGCSRGTISNALKR 206
Cdd:PRK13413  157 KLT----GKEEKIKKLLDKGTSKSEIARKLGVSRTTLARFLKT 195
SR_TndX_transposase cd03770
Serine Recombinase (SR) family, TndX-like transposase subfamily, catalytic domain; composed of ...
 30-106 1.07e-08

Serine Recombinase (SR) family, TndX-like transposase subfamily, catalytic domain; composed of large serine recombinases similar to Clostridium TndX and TnpX transposases. Serine recombinases catalyze site-specific recombination of DNA molecules by a concerted, four-strand cleavage and rejoining mechanism which involves a transient phosphoserine linkage between DNA and the enzyme. They are functionally versatile and include resolvases, invertases, integrases, and transposases. TndX mediates the excision and circularization of the conjugative transposon Tn5397 from Clostridium difficile. TnpX is responsible for the movement of the nonconjugative chloramphenicol resistance elements of the Tn4451/3 family. Mobile genetic elements such as transposons are important vehicles for the transmission of virulence and antibiotic resistance in many microorganisms.


Pssm-ID: 239739 [Multi-domain]  Cd Length: 140  Bit Score: 51.99  E-value: 1.07e-08
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1121241739  30 IEAFARERGLIICSYYIE-NESGTRLERPELFRLLRDCQQN--DILLIEDVDRLSRLSGEDWNTLKKMIRQKDIRVMAVN 106
Cdd:cd03770    27 LEEYAKENGLENIRHYIDdGFSGTTFDRPGFNRMIEDIEAGkiDIVIVKDMSRLGRNYLKVGLYMEILFPKKGVRFIAIN 106
SR_IS607_transposase_like cd03769
Serine Recombinase (SR) family, IS607-like transposase subfamily, catalytic domain; members ...
 12-151 3.04e-06

Serine Recombinase (SR) family, IS607-like transposase subfamily, catalytic domain; members contain a DNA binding domain with homology to MerR/SoxR located N-terminal to the catalytic domain. Serine recombinases catalyze site-specific recombination of DNA molecules by a concerted, four-strand cleavage and rejoining mechanism which involves a transient phosphoserine linkage between DNA and the enzyme. They are functionally versatile and include resolvases, invertases, integrases, and transposases. This subfamily is composed of proteins that catalyze the transposition of insertion sequence (IS) elements such as IS607 from Helicobacter and IS1535 from Mycobacterium, and similar proteins from other bacteria and several archaeal species. IS elements are DNA segments that move to new sites in prokaryotic and eukaryotic genomes causing insertion mutations and gene rearrangements.


Pssm-ID: 239738  Cd Length: 134  Bit Score: 44.94  E-value: 3.04e-06
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1121241739  12 AYLRASTAEQ--DASRALETIEAFARERGLIIcSYYIENESGTRLERPELFRLLRDCQQN--DILLIEDVDRLSRLSGEd 87
Cdd:cd03769     3 LYARVSSHDQkdDLERQIERLEAYATAQGWIV-EVIKDIGSGLNEKRKGLLKLLEDVLAGkvERVVITYKDRLARFGFE- 80

                          90       100       110       120       130       140
                  ....*....|....*....|....*....|....*....|....*....|....*....|....
gi 1121241739  88 wnTLKKMIRQKDIRVMAVNvpttwiNSGMSEFDSRLFaainDMLLDMLAAVARRDYEQRRERQK 151
Cdd:cd03769    81 --LLEELFKAYGVEIVVIN------QEENEELEQELV----EDLIEIITSFSARLYGKRSHKKK 132
HTH_Hin_like cd00569
Helix-turn-helix domain of Hin and related proteins; This domain model summarizes a family of ...
 165-204 1.29e-03

Helix-turn-helix domain of Hin and related proteins; This domain model summarizes a family of DNA-binding domains unique to bacteria and represented by the Hin protein of Salmonella. The basic HTH domain is a simple fold comprised of three core helices that form a right-handed helical bundle. The principal DNA-protein interface is formed by the third helix, the recognition helix, inserting itself into the major groove of the DNA. A diverse array of HTH domains participate in a variety of functions that depend on their DNA-binding properties. HTH_Hin represents one of the simplest versions of the HTH domains; the characterization of homologous relationships between various sequence-diverse HTH domain families remains difficult. The Hin recombinase induces the site-specific inversion of a chromosomal DNA segment containing a promoter, which controls the alternate expression of two genes by reversibly switching orientation. The Hin recombinase consists of a single polypeptide chain containing a C-terminal DNA-binding domain (HTH_Hin) and a catalytic domain.


Pssm-ID: 259851 [Multi-domain]  Cd Length: 42  Bit Score: 35.38  E-value: 1.29e-03
                          10        20        30        40
                  ....*....|....*....|....*....|....*....|..
gi 1121241739 165 GRKP--NQARHDAIIRLIESGSSWTQVQKVLGCSRGTISNAL 204
Cdd:cd00569     1 GRPPklTPEQIAEARRLLAAGESVAEIARELGVSRSTLYRYL 42
 
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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