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Conserved domains on  [gi|28071138|emb|CAD61950|]
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unnamed protein product [Homo sapiens]

Protein Classification

P-loop NTPase family protein( domain architecture ID 1562424)

P-loop NTPase (nucleoside triphosphate hydrolase) family protein contains two conserved sequence signatures, the Walker A motif (the P-loop proper) and Walker B motif which bind, respectively, the beta and gamma phosphate moieties of the bound nucleotide (typically ATP or GTP), and a Mg(2+) cation

Graphical summary

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List of domain hits

 Name Accession Description Interval E-value
P-loop_NTPase super family cl38936
P-loop containing Nucleoside Triphosphate Hydrolases; Members of the P-loop NTPase domain ...
 1-208 8.29e-74

P-loop containing Nucleoside Triphosphate Hydrolases; Members of the P-loop NTPase domain superfamily are characterized by a conserved nucleotide phosphate-binding motif, also referred to as the Walker A motif (GxxxxGK[S/T], where x is any residue), and the Walker B motif (hhhh[D/E], where h is a hydrophobic residue). The Walker A and B motifs bind the beta-gamma phosphate moiety of the bound nucleotide (typically ATP or GTP) and the Mg2+ cation, respectively. The P-loop NTPases are involved in diverse cellular functions, and they can be divided into two major structural classes: the KG (kinase-GTPase) class which includes Ras-like GTPases and its circularly permutated YlqF-like; and the ASCE (additional strand catalytic E) class which includes ATPase Binding Cassette (ABC), DExD/H-like helicases, 4Fe-4S iron sulfur cluster binding proteins of NifH family, RecA-like F1-ATPases, and ATPases Associated with a wide variety of Activities (AAA). Also included are a diverse set of nucleotide/nucleoside kinase families.


The actual alignment was detected with superfamily member cd19493:

Pssm-ID: 476819 [Multi-domain]  Cd Length: 222  Bit Score: 223.35  E-value: 8.29e-74
                        10        20        30        40        50        60        70        80
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 28071138   1 MMSILATLPTNMGGLEGAVVYIDTESAFSAERLVEIAESRFPRYF----NTEEKLLLTSSKVHLYRELTCDEVLQRIESL 76
Cdd:cd19493  30 TLASSAAMPARKGGLDGGVLYIDTESKFSAERLAEIAEARFPEAFsgfmEENERAEEMLKRVAVVRVTTLAQLLERLPNL 109

                        90       100       110       120       130       140       150       160
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 28071138  77 EEEIISKGIKLVILDSVASVVRKEFDAQLqGNLKERNKFLAREASSLKYLAEEFSIPVILTNQITTHLSGAlasqadlvs 156
Cdd:cd19493 110 EEHILSSGVRLVVIDSIAALVRREFGGSD-GEVTERHNALAREASSLKRLAEEFRIAVLVTNQATTHFGDA--------- 179

                       170       180       190       200       210
                ....*....|....*....|....*....|....*....|....*....|...
gi 28071138 157 paddlslsegTSGSSCVIAALGNTWSHSVNTRLILQYLDS-ERRQILIAKSPL 208
Cdd:cd19493 180 ----------GDGSSGVTAALGDAWAHAVNTRLRLERCLLqLRRVLEIVKSPL 222
 
Name Accession Description Interval E-value
Rad51B cd19493
RAD51B recombinase; RAD51B recombinase, a RAD51 paralog, plays an important role in DNA repair ...
 1-208 8.29e-74

RAD51B recombinase; RAD51B recombinase, a RAD51 paralog, plays an important role in DNA repair by homologous recombination (HR). HR is an important error-free repair mechanism for chromosomal double-strand break (DSB) which otherwise leads to cell cycle arrest and death. RAD51B, together with the other RAD51 paralogs, RAD51C, RAD51D, XRCC3, and XRCC2, helps recruit RAD51 to the break site.


Pssm-ID: 410901 [Multi-domain]  Cd Length: 222  Bit Score: 223.35  E-value: 8.29e-74
                        10        20        30        40        50        60        70        80
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 28071138   1 MMSILATLPTNMGGLEGAVVYIDTESAFSAERLVEIAESRFPRYF----NTEEKLLLTSSKVHLYRELTCDEVLQRIESL 76
Cdd:cd19493  30 TLASSAAMPARKGGLDGGVLYIDTESKFSAERLAEIAEARFPEAFsgfmEENERAEEMLKRVAVVRVTTLAQLLERLPNL 109

                        90       100       110       120       130       140       150       160
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 28071138  77 EEEIISKGIKLVILDSVASVVRKEFDAQLqGNLKERNKFLAREASSLKYLAEEFSIPVILTNQITTHLSGAlasqadlvs 156
Cdd:cd19493 110 EEHILSSGVRLVVIDSIAALVRREFGGSD-GEVTERHNALAREASSLKRLAEEFRIAVLVTNQATTHFGDA--------- 179

                       170       180       190       200       210
                ....*....|....*....|....*....|....*....|....*....|...
gi 28071138 157 paddlslsegTSGSSCVIAALGNTWSHSVNTRLILQYLDS-ERRQILIAKSPL 208
Cdd:cd19493 180 ----------GDGSSGVTAALGDAWAHAVNTRLRLERCLLqLRRVLEIVKSPL 222
Rad51 pfam08423
Rad51; Rad51 is a DNA repair and recombination protein and is a homolog of the bacterial ...
 2-222 3.52e-33

Rad51; Rad51 is a DNA repair and recombination protein and is a homolog of the bacterial ATPase RecA protein.


Pssm-ID: 462471 [Multi-domain]  Cd Length: 255  Bit Score: 120.10  E-value: 3.52e-33
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 28071138     2 MSILATLPTNMGGLEGAVVYIDTESAFSAERLVEIAEsrfpRY-FNTEEKLlltsSKVHLYRELTCDEVLQRIESLEEEI 80
Cdd:pfam08423  57 LCVTCQLPLEMGGGEGKALYIDTEGTFRPERLVAIAE----RYgLDPEDVL----DNVAYARAYNSEHQMQLLQQAAAMM 128

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 28071138    81 ISKGIKLVILDSVASVVRKEFDAqlQGNLKERNKFLAREASSLKYLAEEFSIPVILTNQITTHLSG-ALASQADLVSPad 159
Cdd:pfam08423 129 SESRFALLIVDSATALYRTDFSG--RGELAERQQHLAKFLRTLQRLADEFGVAVVITNQVVAQVDGaAGMFSGDPKKP-- 204

                         170       180       190       200       210       220
                  ....*....|....*....|....*....|....*....|....*....|....*....|...
gi 28071138   160 dlslsegtsgsscviaALGNTWSHSVNTRLILQYLDSERRQILIAKSPLAPFTSFVYTIKEEG 222
Cdd:pfam08423 205 ----------------IGGHIMAHASTTRLSLRKGRGEQRICKIYDSPCLPESEAVFAIGSGG 251
recomb_DMC1 TIGR02238
meiotic recombinase Dmc1; This model describes DMC1, a subfamily of a larger family of DNA ...
 2-223 3.19e-23

meiotic recombinase Dmc1; This model describes DMC1, a subfamily of a larger family of DNA repair and recombination proteins. It is eukaryotic only and most closely related to eukaryotic RAD51. It also resembles archaeal RadA (TIGR02236) and RadB (TIGR02237) and bacterial RecA (TIGR02012). It has been characterized for human as a recombinase active only in meiosis.


Pssm-ID: 131292 [Multi-domain]  Cd Length: 313  Bit Score: 95.23  E-value: 3.19e-23
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 28071138     2 MSILATLPTNMGGLEGAVVYIDTESAFSAERLVEIAEsrfpRYFNTEEKLLltsSKVHLYRELTCDEVLQRIESLEEEII 81
Cdd:TIGR02238 116 LCVTAQLPREMGGGNGKVAYIDTEGTFRPDRIRAIAE----RFGVDPDAVL---DNILYARAYTSEHQMELLDYLAAKFS 188

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 28071138    82 SKGIKLVILDSVASVVRKEFDAqlQGNLKERNKFLAREASSLKYLAEEFSIPVILTNQITTHLSGALASQADLVSPADdl 161
Cdd:TIGR02238 189 EEPFRLLIVDSIMALFRVDFSG--RGELSERQQKLAQMLSRLNKISEEFNVAVFVTNQVQADPGATMTFIADPKKPIG-- 264

                         170       180       190       200       210       220
                  ....*....|....*....|....*....|....*....|....*....|....*....|..
gi 28071138   162 slsegtsgsscviaalGNTWSHSVNTRLILQYLDSERRQILIAKSPLAPFTSFVYTIKEEGL 223
Cdd:TIGR02238 265 ----------------GHVLAHASTTRILLRKGRGEERVAKLYDSPDMPEAEASFQITEGGI 310
PTZ00035 PTZ00035
Rad51 protein; Provisional
 2-224 3.41e-23

Rad51 protein; Provisional


Pssm-ID: 185407 [Multi-domain]  Cd Length: 337  Bit Score: 95.45  E-value: 3.41e-23
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 28071138    2 MSILATLPTNMGGLEGAVVYIDTESAFSAERLVEIAEsrfpRY-FNTEEKLlltsSKVHLYRELTCDEVLQRIESLEEEI 80
Cdd:PTZ00035 138 LCVTCQLPIEQGGGEGKVLYIDTEGTFRPERIVQIAE----RFgLDPEDVL----DNIAYARAYNHEHQMQLLSQAAAKM 209

                         90       100       110       120       130       140       150       160
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 28071138   81 ISKGIKLVILDSVASVVRKEFDAqlQGNLKERNKFLAREASSLKYLAEEFSIPVILTNQITTHLSGALASQADLVSPADd 160
Cdd:PTZ00035 210 AEERFALLIVDSATALFRVDYSG--RGELAERQQHLGKFLRALQKLADEFNVAVVITNQVMADVDGASMFVADPKKPIG- 286

                        170       180       190       200       210       220
                 ....*....|....*....|....*....|....*....|....*....|....*....|....
gi 28071138  161 lslsegtsgsscviaalGNTWSHSVNTRLILQYLDSERRQILIAKSPLAPFTSFVYTIKEEGLV 224
Cdd:PTZ00035 287 -----------------GHIIAHASTTRLSLRKGRGEQRICKIYDSPNLPESEAVFAISEGGII 333
 
Name Accession Description Interval E-value
Rad51B cd19493
RAD51B recombinase; RAD51B recombinase, a RAD51 paralog, plays an important role in DNA repair ...
 1-208 8.29e-74

RAD51B recombinase; RAD51B recombinase, a RAD51 paralog, plays an important role in DNA repair by homologous recombination (HR). HR is an important error-free repair mechanism for chromosomal double-strand break (DSB) which otherwise leads to cell cycle arrest and death. RAD51B, together with the other RAD51 paralogs, RAD51C, RAD51D, XRCC3, and XRCC2, helps recruit RAD51 to the break site.


Pssm-ID: 410901 [Multi-domain]  Cd Length: 222  Bit Score: 223.35  E-value: 8.29e-74
                        10        20        30        40        50        60        70        80
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 28071138   1 MMSILATLPTNMGGLEGAVVYIDTESAFSAERLVEIAESRFPRYF----NTEEKLLLTSSKVHLYRELTCDEVLQRIESL 76
Cdd:cd19493  30 TLASSAAMPARKGGLDGGVLYIDTESKFSAERLAEIAEARFPEAFsgfmEENERAEEMLKRVAVVRVTTLAQLLERLPNL 109

                        90       100       110       120       130       140       150       160
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 28071138  77 EEEIISKGIKLVILDSVASVVRKEFDAQLqGNLKERNKFLAREASSLKYLAEEFSIPVILTNQITTHLSGAlasqadlvs 156
Cdd:cd19493 110 EEHILSSGVRLVVIDSIAALVRREFGGSD-GEVTERHNALAREASSLKRLAEEFRIAVLVTNQATTHFGDA--------- 179

                       170       180       190       200       210
                ....*....|....*....|....*....|....*....|....*....|...
gi 28071138 157 paddlslsegTSGSSCVIAALGNTWSHSVNTRLILQYLDS-ERRQILIAKSPL 208
Cdd:cd19493 180 ----------GDGSSGVTAALGDAWAHAVNTRLRLERCLLqLRRVLEIVKSPL 222
RecA-like cd01393
RecA family; RecA is a bacterial enzyme which has roles in homologous recombination, DNA ...
 7-193 5.71e-48

RecA family; RecA is a bacterial enzyme which has roles in homologous recombination, DNA repair, and the induction of the SOS response. RecA couples ATP hydrolysis to DNA strand exchange. While prokaryotes have a single RecA protein, eukaryotes have multiple RecA homologs such as Rad51, DMC1 and Rad55/57. Archaea have the RecA-like homologs RadA and RadB.


Pssm-ID: 410881 [Multi-domain]  Cd Length: 185  Bit Score: 155.97  E-value: 5.71e-48
                        10        20        30        40        50        60        70        80
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 28071138   7 TLPTNMGGLEGAVVYIDTESAFSAERLVEIAESrfprYFNTEEKLLLTSSKVHLYRELTCDEVLQRIESLEEEIIS-KGI 85
Cdd:cd01393  20 QLAANALLLGGGVVWIDTEGAFPPSRLVQILEA----SPSSELELAEALSRLLYFRPPDTLAHLLALDSLPESLFPpPNT 95

                        90       100       110       120       130       140       150       160
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 28071138  86 KLVILDSVASVVRKEFDAQLQG--NLKERNKFLAREASSLKYLAEEFSIPVILTNQITTHLSGAlasqadlvspaddlsl 163
Cdd:cd01393  96 SLVVVDSVSALFRKAFPRGGDGdsSSSLRARLLSQLARALQKLAAQFNLAVVVTNQVTTKIRGG---------------- 159

                       170       180       190
                ....*....|....*....|....*....|
gi 28071138 164 segtSGSSCVIAALGNTWSHSVNTRLILQY 193
Cdd:cd01393 160 ----SGASLVPPALGNTWEHSVSTRLLLYR 185
Rad51 pfam08423
Rad51; Rad51 is a DNA repair and recombination protein and is a homolog of the bacterial ...
 2-222 3.52e-33

Rad51; Rad51 is a DNA repair and recombination protein and is a homolog of the bacterial ATPase RecA protein.


Pssm-ID: 462471 [Multi-domain]  Cd Length: 255  Bit Score: 120.10  E-value: 3.52e-33
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 28071138     2 MSILATLPTNMGGLEGAVVYIDTESAFSAERLVEIAEsrfpRY-FNTEEKLlltsSKVHLYRELTCDEVLQRIESLEEEI 80
Cdd:pfam08423  57 LCVTCQLPLEMGGGEGKALYIDTEGTFRPERLVAIAE----RYgLDPEDVL----DNVAYARAYNSEHQMQLLQQAAAMM 128

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 28071138    81 ISKGIKLVILDSVASVVRKEFDAqlQGNLKERNKFLAREASSLKYLAEEFSIPVILTNQITTHLSG-ALASQADLVSPad 159
Cdd:pfam08423 129 SESRFALLIVDSATALYRTDFSG--RGELAERQQHLAKFLRTLQRLADEFGVAVVITNQVVAQVDGaAGMFSGDPKKP-- 204

                         170       180       190       200       210       220
                  ....*....|....*....|....*....|....*....|....*....|....*....|...
gi 28071138   160 dlslsegtsgsscviaALGNTWSHSVNTRLILQYLDSERRQILIAKSPLAPFTSFVYTIKEEG 222
Cdd:pfam08423 205 ----------------IGGHIMAHASTTRLSLRKGRGEQRICKIYDSPCLPESEAVFAIGSGG 251
XRCC3 cd19491
XRCC3 recombinase; XRCC3 (X-ray repair complementing defective repair in Chinese hamster cells ...
 2-207 8.07e-32

XRCC3 recombinase; XRCC3 (X-ray repair complementing defective repair in Chinese hamster cells 3) recombinase, a RAD51 paralog, plays an important role in DNA repair by homologous recombination (HR). HR is an important error-free repair mechanism for chromosomal double-strand break (DSB) which otherwise leads to cell cycle arrest and death. XRCC3, together with the other RAD51 paralogs, RAD51B, RAD51C, RAD51D, and XRCC2, helps recruit RAD51 to the break site.


Pssm-ID: 410899 [Multi-domain]  Cd Length: 250  Bit Score: 116.62  E-value: 8.07e-32
                        10        20        30        40        50        60        70        80
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 28071138   2 MSILATLPTNMGGLEGAVVYIDTESAFSAERLVEIAESRFPRYFNTEEKLLLTSSKVHLYREL-TCDEVLQriESLEEEI 80
Cdd:cd19491  32 LALTVQLPRELGGLGGGAVYICTESSFPSKRLQQLASSLPKRYHLEKAKNFLDNIFVEHVADLeTLEHCLN--YQLPALL 109

                        90       100       110       120       130       140       150       160
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 28071138  81 ISKGIKLVILDSVASVVRKEFDAQlQGNLKERNKFLAREASSLKYLAEEFSIPVILTNQITTHL-SGALASQADLVSPAD 159
Cdd:cd19491 110 ERGPIRLVVIDSIAALFRSEFDTS-RSDLVERAKYLRRLADHLKRLADKYNLAVVVVNQVTDRFdSSSDASGLGVLDYLS 188

                       170       180       190       200
                ....*....|....*....|....*....|....*....|....*...
gi 28071138 160 DLSLSEGTSGSSCVIAALGNTWSHSVNTRLILQYLDSERRQILIAKSP 207
Cdd:cd19491 189 QFSSFSGGVSGNRKVPALGLTWANLVNTRLMLSRTPKRITDSSAASIS 236
Rad51C cd19492
RAD51C recombinase; RAD51C recombinase, a RAD51 paralog, plays an important role in DNA repair ...
 8-207 6.19e-28

RAD51C recombinase; RAD51C recombinase, a RAD51 paralog, plays an important role in DNA repair by homologous recombination (HR). HR is an important error-free repair mechanism for chromosomal double-strand break (DSB) which otherwise leads to cell cycle arrest and death. RAD51C, together with the other RAD51 paralogs, RAD51B, RAD51D, XRCC3, and XRCC2, helps recruit RAD51 to the break site. Additionally, RAD51C acts as a mediator in the early steps of DNA damage signaling.


Pssm-ID: 410900 [Multi-domain]  Cd Length: 172  Bit Score: 104.23  E-value: 6.19e-28
                        10        20        30        40        50        60        70        80
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 28071138   8 LPTNMGGLEGAVVYIDTESAFsaerlveiaesrfpryfnteekllltssKVHLYRELTCDEVLQRIESLEEEIIS-KGIK 86
Cdd:cd19492  27 IPKCFGGLAGEAIYIDTEGSF----------------------------NIHYFRVHDYVELLALINSLPKFLEDhPKVK 78

                        90       100       110       120       130       140       150       160
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 28071138  87 LVILDSVASVVRKEFDaqlqgNLKERNKFLAREASSLKYLAEEFSIPVILTNQITTHLSgalasqadlvspaddlslseg 166
Cdd:cd19492  79 LIVVDSIAFPFRHDFD-----DLAQRTRLLNGLAQLLHSLARQHNLAVVLTNQVTTKIS--------------------- 132

                       170       180       190       200
                ....*....|....*....|....*....|....*....|.
gi 28071138 167 TSGSSCVIAALGNTWSHSVNTRLILqYLDSERRQILIAKSP 207
Cdd:cd19492 133 EDGQSQLVPALGESWSHACTTRLFL-TWDEKQRFAHLYKSP 172
Rad51_DMC1_archRadA cd01123
recombinase Rad51, DMC1, and archaeal RadA; This group of recombinases includes the eukaryotic ...
 2-223 6.27e-28

recombinase Rad51, DMC1, and archaeal RadA; This group of recombinases includes the eukaryotic proteins RAD51, RAD55/57 and the meiosis-specific protein DMC1, and the archaeal protein RadA. They are closely related to the bacterial RecA group. Rad51 proteins catalyze a similar recombination reaction as RecA, using ATP-dependent DNA binding activity and a DNA-dependent ATPase. However, this reaction is less efficient and requires accessory proteins such as RAD55/57 .


Pssm-ID: 410868 [Multi-domain]  Cd Length: 234  Bit Score: 106.08  E-value: 6.27e-28
                        10        20        30        40        50        60        70        80
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 28071138   2 MSILATLPTNMGGLEGAVVYIDTESAFSAERLVEIAESrfpryFNTEEKLLLtsSKVHLYRELTCDEVLQRIESLEEEII 81
Cdd:cd01123  39 LAVTCQLPIDRGGGEGKAIYIDTEGTFRPERLRAIAQR-----FGLDPDDVL--DNVAYARAFNSDHQTQLLDQAAAMMV 111

                        90       100       110       120       130       140       150       160
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 28071138  82 SKGIKLVILDSVASVVRKEFDAqlQGNLKERNKFLAREASSLKYLAEEFSIPVILTNQITTHLSGALASQADLVSPADdl 161
Cdd:cd01123 112 ESRFKLLIVDSATALYRTDYSG--RGELSARQMHLAKFLRMLQRLADEFGVAVVVTNQVVAQVDGAMMFAADPKKPIG-- 187

                       170       180       190       200       210       220
                ....*....|....*....|....*....|....*....|....*....|....*....|..
gi 28071138 162 slsegtsgsscviaalGNTWSHSVNTRLILQYLDSERRQILIAKSPLAPFTSFVYTIKEEGL 223
Cdd:cd01123 188 ----------------GNILAHASTTRLYLRKGRGETRICKIYDSPCLPEAEAVFAITADGV 233
DMC1 cd19514
homologous-pairing protein DMC1; DMC1 has a central role in homologous recombination in ...
 2-223 1.09e-24

homologous-pairing protein DMC1; DMC1 has a central role in homologous recombination in meiosis. It assembles at the sites of programmed DNA double-strand breaks and carries out a search for allelic DNA sequences located on homologous chromatids. It forms octameric rings.


Pssm-ID: 410922 [Multi-domain]  Cd Length: 236  Bit Score: 97.43  E-value: 1.09e-24
                        10        20        30        40        50        60        70        80
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 28071138   2 MSILATLPTNMGGLEGAVVYIDTESAFSAERLVEIAESrfpryFNTEEKLLLTSSkvhLY-RELTCDEVLQRIESLEEEI 80
Cdd:cd19514  39 LCVTAQLPGSMGGGGGKVAYIDTEGTFRPDRIRPIAER-----FGVDHDAVLDNI---LYaRAYTSEHQMELLDYVAAKF 110

                        90       100       110       120       130       140       150       160
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 28071138  81 ISKGI-KLVILDSVASVVRKEFDAqlQGNLKERNKFLAREASSLKYLAEEFSIPVILTNQITTHLSGALASQADLVSPAD 159
Cdd:cd19514 111 HEEAVfRLLIIDSIMALFRVDFSG--RGELAERQQKLAQMLSRLQKISEEYNVAVFITNQVTADPGAAMTFQADPKKPIG 188

                       170       180       190       200       210       220
                ....*....|....*....|....*....|....*....|....*....|....*....|....
gi 28071138 160 dlslsegtsgsscviaalGNTWSHSVNTRLILQYLDSERRQILIAKSPLAPFTSFVYTIKEEGL 223
Cdd:cd19514 189 ------------------GHILAHASTTRISLRKGRGEERIAKIYDSPDLPENEATFAITAGGI 234
Rad51 cd19513
RAD51D recombinase; RAD51 recombinase plays an essential role in DNA repair by homologous ...
 1-222 1.46e-23

RAD51D recombinase; RAD51 recombinase plays an essential role in DNA repair by homologous recombination (HR). HR is an important error-free repair mechanism for chromosomal double-strand break (DSB) which otherwise leads to cell cycle arrest and death. RAD51 is recruited to the break site with the help of its paralogs, RAD51D, RAD51B, RAD51C, XRCC3, and XRCC2, where it forms long helical polymers which wrap around the ssDNA tail at the break which leads to pairing and strand invasion.


Pssm-ID: 410921 [Multi-domain]  Cd Length: 235  Bit Score: 94.31  E-value: 1.46e-23
                        10        20        30        40        50        60        70        80
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 28071138   1 MMSILATLPTNMGGLEGAVVYIDTESAFSAERLVEIAEsrfpRY-FNTEEKLlltsSKVHLYRELTCDEVLQRIESLEEE 79
Cdd:cd19513  38 TLAVTCQLPIDQGGGEGKALYIDTEGTFRPERLLAIAE----RYgLNGEDVL----DNVAYARAYNTDHQMQLLIQASAM 109

                        90       100       110       120       130       140       150       160
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 28071138  80 IISKGIKLVILDSVASVVRKEFDAqlQGNLKERNKFLAREASSLKYLAEEFSIPVILTNQITTHLSGALASQADLVSPAD 159
Cdd:cd19513 110 MAESRYALLIVDSATALYRTDYSG--RGELSARQMHLAKFLRMLQRLADEFGVAVVITNQVVAQVDGAAMFAGDPKKPIG 187

                       170       180       190       200       210       220
                ....*....|....*....|....*....|....*....|....*....|....*....|...
gi 28071138 160 dlslsegtsgsscviaalGNTWSHSVNTRLILQYLDSERRQILIAKSPLAPFTSFVYTIKEEG 222
Cdd:cd19513 188 ------------------GNIMAHASTTRLYLRKGRGETRICKIYDSPCLPEAEAVFAITEDG 232
recomb_DMC1 TIGR02238
meiotic recombinase Dmc1; This model describes DMC1, a subfamily of a larger family of DNA ...
 2-223 3.19e-23

meiotic recombinase Dmc1; This model describes DMC1, a subfamily of a larger family of DNA repair and recombination proteins. It is eukaryotic only and most closely related to eukaryotic RAD51. It also resembles archaeal RadA (TIGR02236) and RadB (TIGR02237) and bacterial RecA (TIGR02012). It has been characterized for human as a recombinase active only in meiosis.


Pssm-ID: 131292 [Multi-domain]  Cd Length: 313  Bit Score: 95.23  E-value: 3.19e-23
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 28071138     2 MSILATLPTNMGGLEGAVVYIDTESAFSAERLVEIAEsrfpRYFNTEEKLLltsSKVHLYRELTCDEVLQRIESLEEEII 81
Cdd:TIGR02238 116 LCVTAQLPREMGGGNGKVAYIDTEGTFRPDRIRAIAE----RFGVDPDAVL---DNILYARAYTSEHQMELLDYLAAKFS 188

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 28071138    82 SKGIKLVILDSVASVVRKEFDAqlQGNLKERNKFLAREASSLKYLAEEFSIPVILTNQITTHLSGALASQADLVSPADdl 161
Cdd:TIGR02238 189 EEPFRLLIVDSIMALFRVDFSG--RGELSERQQKLAQMLSRLNKISEEFNVAVFVTNQVQADPGATMTFIADPKKPIG-- 264

                         170       180       190       200       210       220
                  ....*....|....*....|....*....|....*....|....*....|....*....|..
gi 28071138   162 slsegtsgsscviaalGNTWSHSVNTRLILQYLDSERRQILIAKSPLAPFTSFVYTIKEEGL 223
Cdd:TIGR02238 265 ----------------GHVLAHASTTRILLRKGRGEERVAKLYDSPDMPEAEASFQITEGGI 310
PTZ00035 PTZ00035
Rad51 protein; Provisional
 2-224 3.41e-23

Rad51 protein; Provisional


Pssm-ID: 185407 [Multi-domain]  Cd Length: 337  Bit Score: 95.45  E-value: 3.41e-23
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 28071138    2 MSILATLPTNMGGLEGAVVYIDTESAFSAERLVEIAEsrfpRY-FNTEEKLlltsSKVHLYRELTCDEVLQRIESLEEEI 80
Cdd:PTZ00035 138 LCVTCQLPIEQGGGEGKVLYIDTEGTFRPERIVQIAE----RFgLDPEDVL----DNIAYARAYNHEHQMQLLSQAAAKM 209

                         90       100       110       120       130       140       150       160
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 28071138   81 ISKGIKLVILDSVASVVRKEFDAqlQGNLKERNKFLAREASSLKYLAEEFSIPVILTNQITTHLSGALASQADLVSPADd 160
Cdd:PTZ00035 210 AEERFALLIVDSATALFRVDYSG--RGELAERQQHLGKFLRALQKLADEFNVAVVITNQVMADVDGASMFVADPKKPIG- 286

                        170       180       190       200       210       220
                 ....*....|....*....|....*....|....*....|....*....|....*....|....
gi 28071138  161 lslsegtsgsscviaalGNTWSHSVNTRLILQYLDSERRQILIAKSPLAPFTSFVYTIKEEGLV 224
Cdd:PTZ00035 287 -----------------GHIIAHASTTRLSLRKGRGEQRICKIYDSPNLPESEAVFAISEGGII 333
recomb_RAD51 TIGR02239
DNA repair protein RAD51; This eukaryotic sequence family consists of RAD51, a protein ...
 8-223 3.50e-23

DNA repair protein RAD51; This eukaryotic sequence family consists of RAD51, a protein involved in DNA homologous recombination and repair. It is similar in sequence the exclusively meiotic recombinase DMC1 (TIGR02238), to archaeal families RadA (TIGR02236) and RadB (TIGR02237), and to bacterial RecA (TIGR02012).


Pssm-ID: 274048 [Multi-domain]  Cd Length: 316  Bit Score: 95.18  E-value: 3.50e-23
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 28071138     8 LPTNMGGLEGAVVYIDTESAFSAERLVEIAEsrfpRY-FNTEEKLlltsSKVHLYRELTCDEVLQRIESLEEEIISKGIK 86
Cdd:TIGR02239 122 LPIDQGGGEGKALYIDTEGTFRPERLLAIAE----RYgLNPEDVL----DNVAYARAYNTDHQLQLLQQAAAMMSESRFA 193

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 28071138    87 LVILDSVASVVRKEFDAqlQGNLKERNKFLAREASSLKYLAEEFSIPVILTNQITTHLSGALAS-QADLVSPADdlslse 165
Cdd:TIGR02239 194 LLIVDSATALYRTDFSG--RGELSARQMHLARFLRSLQRLADEFGVAVVITNQVVAQVDGAGSMfAGDPKKPIG------ 265

                         170       180       190       200       210
                  ....*....|....*....|....*....|....*....|....*....|....*...
gi 28071138   166 gtsgsscviaalGNTWSHSVNTRLILQYLDSERRQILIAKSPLAPFTSFVYTIKEEGL 223
Cdd:TIGR02239 266 ------------GNIMAHASTTRLSLRKGRGEQRICKIYDSPCLPESEAMFAIYEDGI 311
archRadA cd19515
archaeal recombinase Rad51/RadA; This group includes the archaeal protein RadA which is a ...
 2-224 4.60e-22

archaeal recombinase Rad51/RadA; This group includes the archaeal protein RadA which is a homolog of Rad51. RAD51 recombinase plays an essential role in DNA repair by homologous recombination (HR)


Pssm-ID: 410923 [Multi-domain]  Cd Length: 233  Bit Score: 90.50  E-value: 4.60e-22
                        10        20        30        40        50        60        70        80
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 28071138   2 MSILATLPTNMGGLEGAVVYIDTESAFSAERLVEIAESrfpRYFNTEEKLlltsSKVHLYRELTCDEVLQRIESLeEEII 81
Cdd:cd19515  39 LAVNVQLPPEEGGLNGKAVYIDTENTFRPERIMQMAKA---LGLDPDEVL----DNIYVARAYNSNHQMLLVEKA-EDLI 110

                        90       100       110       120       130       140       150       160
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 28071138  82 SKG--IKLVILDSVASVVRKEFDAqlQGNLKERNKFLAREASSLKYLAEEFSIPVILTNQitthlsgalasqadlVSPAD 159
Cdd:cd19515 111 KEGnnIKLLIVDSLTSHFRAEYVG--RGTLAERQQKLNKHLHDLHRLADLYNIAVLVTNQ---------------VMAKP 173

                       170       180       190       200       210       220
                ....*....|....*....|....*....|....*....|....*....|....*....|....*
gi 28071138 160 DLSLSEGTSgsscviAALGNTWSHSVNTRLILQYLDSERRQILIAKSPLAPFTSFVYTIKEEGLV 224
Cdd:cd19515 174 DAFFGDPTQ------AIGGHILGHAATFRVYLRKGKGGKRIARLVDSPHLPEGEAVFRITEKGIE 232
Rad51D cd19489
RAD51D recombinase; RAD51D recombinase, a RAD51 paralog, plays an important role in DNA repair ...
 18-206 6.06e-21

RAD51D recombinase; RAD51D recombinase, a RAD51 paralog, plays an important role in DNA repair by homologous recombination (HR). HR is an important error-free repair mechanism for chromosomal double-strand break (DSB) which otherwise leads to cell cycle arrest and death. RAD51D, together with the other RAD51 paralogs, RAD51B, RAD51C, XRCC3, and XRCC2, helps recruit RAD51 to the break site.


Pssm-ID: 410897 [Multi-domain]  Cd Length: 209  Bit Score: 86.92  E-value: 6.06e-21
                        10        20        30        40        50        60        70        80
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 28071138  18 AVVYIDTESAFSAERLVEIAESRfpryFNTEEKLLLTSSKVHLYRELTCDEVLQRIESL------EEEIISKGIKLVILD 91
Cdd:cd19489  38 NVLYIDTKSSFSARRLAQILKSR----AQDAEEIDKALQRIRVVRVFDPYELLDLLEELrntlsqQQENLYSRLKLVIID 113

                        90       100       110       120       130       140       150       160
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 28071138  92 SVASVVRKEFDA--QLQGNLkernkFLAREASSLKYLAEEFSIPVILTNQITThlsgalasqadlvspaddlSLSEGTSG 169
Cdd:cd19489 114 SLSALISPLLGGskHSEGHA-----LLASLARLLKKLAAEYQIAVLVTNLTVR-------------------GGDGGQQG 169

                       170       180       190       200
                ....*....|....*....|....*....|....*....|..
gi 28071138 170 SSCviAALGNTWSHSVNTRLILQYLD-----SERRQILIAKS 206
Cdd:cd19489 170 STK--PALGEYWESVPSTRLLLSRDEndpeeSGVCTATLLKS 209
PLN03186 PLN03186
DNA repair protein RAD51 homolog; Provisional
 6-223 3.08e-20

DNA repair protein RAD51 homolog; Provisional


Pssm-ID: 178728 [Multi-domain]  Cd Length: 342  Bit Score: 87.48  E-value: 3.08e-20
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 28071138    6 ATLPTNMGGLEGAVVYIDTESAFSAERLVEIAEsRF-------------PRYFNTEEKLlltsskvhlyreltcdEVLQR 72
Cdd:PLN03186 147 CQLPLDQGGGEGKAMYIDTEGTFRPQRLIQIAE-RFglngadvlenvayARAYNTDHQS----------------ELLLE 209

                         90       100       110       120       130       140       150       160
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 28071138   73 IESLeeeIISKGIKLVILDSVASVVRKEFDAqlQGNLKERNKFLAREASSLKYLAEEFSIPVILTNQITTHLSGALASQA 152
Cdd:PLN03186 210 AASM---MAETRFALMIVDSATALYRTEFSG--RGELSARQMHLGKFLRSLQRLADEFGVAVVITNQVVAQVDGSAFFAG 284

                        170       180       190       200       210       220       230
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|.
gi 28071138  153 DLVSPADdlslsegtsgsscviaalGNTWSHSVNTRLILQYLDSERRQILIAKSPLAPFTSFVYTIKEEGL 223
Cdd:PLN03186 285 PQLKPIG------------------GNIMAHASTTRLALRKGRGENRICKVISSPCLPEAEARFSISSEGV 337
PLN03187 PLN03187
meiotic recombination protein DMC1 homolog; Provisional
 8-224 2.26e-18

meiotic recombination protein DMC1 homolog; Provisional


Pssm-ID: 215620 [Multi-domain]  Cd Length: 344  Bit Score: 82.13  E-value: 2.26e-18
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 28071138    8 LPTNMGGLEGAVVYIDTESAFSAERLVEIAESrfpryFNTEEKLLLtsSKVHLYRELTCDEVLQRIESLEEEIISKGIKL 87
Cdd:PLN03187 152 LPTEMGGGNGKVAYIDTEGTFRPDRIVPIAER-----FGMDADAVL--DNIIYARAYTYEHQYNLLLGLAAKMAEEPFRL 224

                         90       100       110       120       130       140       150       160
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 28071138   88 VILDSVASVVRKEFDAqlQGNLKERNKFLAREASSLKYLAEEFSIPVILTNQItthlsgalasQADlvsPADDLSLSEGT 167
Cdd:PLN03187 225 LIVDSVIALFRVDFTG--RGELAERQQKLAQMLSRLTKIAEEFNVAVYMTNQV----------IAD---PGGGMFISDPK 289

                        170       180       190       200       210
                 ....*....|....*....|....*....|....*....|....*....|....*..
gi 28071138  168 SgsscviAALGNTWSHSVNTRLILQYLDSERRQILIAKSPLAPFTSFVYTIKEEGLV 224
Cdd:PLN03187 290 K------PAGGHVLAHAATIRLMLRKGKGEQRVCKVFDAPNLPEAEAEFQITSGGIM 340
radA PRK04301
DNA repair and recombination protein RadA; Validated
 2-140 2.59e-18

DNA repair and recombination protein RadA; Validated


Pssm-ID: 235273 [Multi-domain]  Cd Length: 317  Bit Score: 81.85  E-value: 2.59e-18
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 28071138    2 MSILATLPTNMGGLEGAVVYIDTESAFSAERLVEIAESrfpRYFNTEEKLlltsSKVHLYRELTCDEVLQRIESLeEEII 81
Cdd:PRK04301 122 LAVNVQLPEEKGGLEGKAVYIDTEGTFRPERIEQMAEA---LGLDPDEVL----DNIHVARAYNSDHQMLLAEKA-EELI 193

                         90       100       110       120       130       140
                 ....*....|....*....|....*....|....*....|....*....|....*....|.
gi 28071138   82 SKG--IKLVILDSVASVVRKEFDAqlQGNLKERNKFLAREASSLKYLAEEFSIPVILTNQI 140
Cdd:PRK04301 194 KEGenIKLVIVDSLTAHFRAEYVG--RGNLAERQQKLNKHLHDLLRLADLYNAAVVVTNQV 252
archRadB cd01394
archaeal RadB; The archaeal protein RadB shares similarity RadA, the archaeal functional ...
 17-142 7.07e-16

archaeal RadB; The archaeal protein RadB shares similarity RadA, the archaeal functional homologue to the bacterial RecA. The precise function of RadB is unclear.


Pssm-ID: 410882 [Multi-domain]  Cd Length: 216  Bit Score: 73.50  E-value: 7.07e-16
                        10        20        30        40        50        60        70        80
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 28071138  17 GAVVYIDTEsAFSAERLVEIAESRFPRyfnteeklllTSSKVHLYRELTCDEVLQRIESLEEEIISKGIKLVILDSVASV 96
Cdd:cd01394  48 KKVVYIDTE-GLSPERFQQIAGERFES----------IASNIIVFEPYSFDEQGVAIQEAEKLLKSDKVDLVVVDSATAL 116

                        90       100       110       120
                ....*....|....*....|....*....|....*....|....*.
gi 28071138  97 VRKEfdaqlQGNLKERNKFLAREASSLKYLAEEFSIPVILTNQITT 142
Cdd:cd01394 117 YRLE-----LGDDSEANRELSRQMSKLLSIARKYDIPVVITNQVYS 157
radB PRK09361
DNA repair and recombination protein RadB; Provisional
 16-142 8.03e-16

DNA repair and recombination protein RadB; Provisional


Pssm-ID: 236482 [Multi-domain]  Cd Length: 225  Bit Score: 73.36  E-value: 8.03e-16
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 28071138   16 EGAVVYIDTESaFSAERLVEIAESRFpryfnteEKLLltsSKVHLYRELTCDEVLQRIESLEEeIISKGIKLVILDSVAS 95
Cdd:PRK09361  51 GKKVIYIDTEG-LSPERFKQIAGEDF-------EELL---SNIIIFEPSSFEEQSEAIRKAEK-LAKENVGLIVLDSATS 118

                         90       100       110       120
                 ....*....|....*....|....*....|....*....|....*..
gi 28071138   96 VVRKEFDAQLQGnlKERNKFLAREASSLKYLAEEFSIPVILTNQITT 142
Cdd:PRK09361 119 LYRLELEDEEDN--SKLNRELGRQLTHLLKLARKHDLAVVITNQVYS 163
XRCC2 cd19490
XRCC2 recombinase; XRCC2 (X-ray repair complementing defective repair in Chinese hamster cells ...
 4-192 3.82e-15

XRCC2 recombinase; XRCC2 (X-ray repair complementing defective repair in Chinese hamster cells 2) recombinase, a RAD51 paralog, plays an important role in DNA repair by homologous recombination (HR). HR is an important error-free repair mechanism for chromosomal double-strand break (DSB) which otherwise leads to cell cycle arrest and death. XRCC2, together with the other RAD51 paralogs, RAD51B, RAD51C, RAD51D, and XRCC3, helps recruit RAD51 to the break site.


Pssm-ID: 410898 [Multi-domain]  Cd Length: 226  Bit Score: 71.61  E-value: 3.82e-15
                        10        20        30        40        50        60        70        80
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 28071138   4 ILATLPTN-----MGGLEGAVVYIDTESAFSAERLVEIAESRF----------PRYFNTEEKLLLTSSKVHLYRELTCDE 68
Cdd:cd19490  23 ARCILPSSwggvpLGGLEAAVVFIDTDGRFDILRLRSILEARIraaiqaanssDDEEDVEEIARECLQRLHIFRCHSSLQ 102

                        90       100       110       120       130       140       150       160
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 28071138  69 VLQRIESLEEEIIS----KGIKLVILDSVAS---VVRKEFDAQLQGNLKERNkFLAREASSLKYLAEEFSIPVILTNQIT 141
Cdd:cd19490 103 LLATLLSLENYLLSlsanPELGLLLIDSISAfywQDRFSAELARAAPLLQEA-ALRAILRELRRLRRRFQLVVIATKQAL 181

                       170       180       190       200       210
                ....*....|....*....|....*....|....*....|....*....|.
gi 28071138 142 THLSGALASQADLVSPADDLSLSEGTSgsscviaALGNTWSHSVNTRLILQ 192
Cdd:cd19490 182 FPGKSASTDNPAANNAVSKASAPSHRE-------YLPRPWQRLVTHRLVLS 225
recomb_radB TIGR02237
DNA repair and recombination protein RadB; This family consists exclusively of archaeal RadB ...
 17-142 2.63e-14

DNA repair and recombination protein RadB; This family consists exclusively of archaeal RadB protein, a homolog of bacterial RecA (TIGR02012), eukaryotic RAD51 (TIGR02239) and DMC1 (TIGR02238), and archaeal RadA (TIGR02236).


Pssm-ID: 274047 [Multi-domain]  Cd Length: 209  Bit Score: 68.98  E-value: 2.63e-14
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 28071138    17 GAVVYIDTEsAFSAERLVEIAESRFPRYFnteekllltsSKVHLYRELTCDEVLQRIESLEEEIISKGIKLVILDSVASV 96
Cdd:TIGR02237  41 KKVVYIDTE-GLSPERFKQIAEDRPERAL----------SNFIVFEVFDFDEQGVAIQKTSKFIDRDSASLVVVDSFTAL 109

                          90       100       110       120
                  ....*....|....*....|....*....|....*....|....*.
gi 28071138    97 VRKEfdaqLQGNLKERNKFLAREASSLKYLAEEFSIPVILTNQITT 142
Cdd:TIGR02237 110 YRLE----LSDDRISRNRELARQLTLLLSLARKKNLAVVITNQVYT 151
 
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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