|
Name |
Accession |
Description |
Interval |
E-value |
| Rad51D |
cd19489 |
RAD51D recombinase; RAD51D recombinase, a RAD51 paralog, plays an important role in DNA repair ... |
94-254 |
2.27e-56 |
|
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: 180.14 E-value: 2.27e-56
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 485464614 94 DAGLYTGEVTEIVGGPGSGKTQ---------------------------------------------ASALQRIQVVRSF 128
Cdd:cd19489 1 GGGLRTGEITELVGESSSGKTQlcltaaanvasrsgqnvlyidtkssfsarrlaqilksraqdaeeiDKALQRIRVVRVF 80
|
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 485464614 129 DIFRMLDMLQDLRGTIAQQEATSSGAVKVVIVDSVTAVVAPLLGGQQR-EGLALMMQLARELKILARDLGVAVVVTNHLT 207
Cdd:cd19489 81 DPYELLDLLEELRNTLSQQQENLYSRLKLVIIDSLSALISPLLGGSKHsEGHALLASLARLLKKLAAEYQIAVLVTNLTV 160
|
170 180 190 200 210
....*....|....*....|....*....|....*....|....*....|
gi 485464614 208 RDWDGRRF---KPALGRSWSFVPSTRILLDVTEGAGTlGSSQRTVCLTKS 254
Cdd:cd19489 161 RGGDGGQQgstKPALGEYWESVPSTRLLLSRDENDPE-ESGVCTATLLKS 209
|
|
| recomb_radA |
TIGR02236 |
DNA repair and recombination protein RadA; This family consists exclusively of archaeal RadA ... |
10-260 |
4.23e-13 |
|
DNA repair and recombination protein RadA; This family consists exclusively of archaeal RadA protein, a homolog of bacterial RecA (TIGR02012), eukaryotic RAD51 (TIGR02239), and archaeal RadB (TIGR02237). This protein is involved in DNA repair and recombination. The member from Pyrococcus horikoshii contains an intein. [DNA metabolism, DNA replication, recombination, and repair]
Pssm-ID: 131290 [Multi-domain] Cd Length: 310 Bit Score: 68.23 E-value: 4.23e-13
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 485464614 10 PGLTEETVQLLRGRKIKTVADLAAADLEEVAQKCGLS----YKALVALRRvlLAQFSAFPlNGADLYEELKTSTAIlSTG 85
Cdd:TIGR02236 5 PGVGPATAEKLREAGYDTFEAIAVASPKELSEIAGISegtaAKIIQAARK--AADLGGFE-TADDVLERRKTIGKI-TTG 80
|
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 485464614 86 IGSLDKLLDAGLYTGEVTEIVGGPGSGKTQAS-----------------------------------------------A 118
Cdd:TIGR02236 81 SKELDELLGGGIETQAITEVFGEFGSGKTQIChqlavnvqlpeekgglggkavyidtentfrperimqmaeargldpdeV 160
|
170 180 190 200 210 220 230 240
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 485464614 119 LQRIQVVRSFDIFRMLDMLQDLRGTIAQQEatssGAVKVVIVDSVTAVV-APLLGgqqREGLALMMQ-LARELKILAR-- 194
Cdd:TIGR02236 161 LKNIYVARAYNSNHQMLLVEKAEDLIKELN----NPVKLLIVDSLTSHFrAEYVG---RGALAERQQkLNKHLHDLLRla 233
|
250 260 270 280 290 300 310
....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 485464614 195 DL-GVAVVVTNHLTRDWD---GRRFKPALGRSWSFVPSTRILLDVTEGagtlgsSQRTVCLTKSPRQPTG 260
Cdd:TIGR02236 234 DLyNAAVVVTNQVMARPDaffGDPTRPIGGHILGHAATFRVYLRKGKG------DKRIARLVDSPHLPEG 297
|
|
| radB |
PRK09361 |
DNA repair and recombination protein RadB; Provisional |
82-224 |
5.47e-13 |
|
DNA repair and recombination protein RadB; Provisional
Pssm-ID: 236482 [Multi-domain] Cd Length: 225 Bit Score: 66.81 E-value: 5.47e-13
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 485464614 82 LSTGIGSLDKLLDAGLYTGEVTEIVGGPGSGKTQASALQRIQVVRS-----------FDIFRMLDMLQDLRGTIA----- 145
Cdd:PRK09361 5 LPTGCKMLDELLGGGFERGTITQIYGPPGSGKTNICLQLAVEAAKNgkkviyidtegLSPERFKQIAGEDFEELLsniii 84
|
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 485464614 146 --------QQEATSSGA------VKVVIVDSVTAVVApLLGGQQREGLALMMQLARELKIL---ARDLGVAVVVTNHLTR 208
Cdd:PRK09361 85 fepssfeeQSEAIRKAEklakenVGLIVLDSATSLYR-LELEDEEDNSKLNRELGRQLTHLlklARKHDLAVVITNQVYS 163
|
170
....*....|....*....
gi 485464614 209 DWDGRRFKPALGRS---WS 224
Cdd:PRK09361 164 DIDSDGLRPLGGHTlehWS 182
|
|
| Rad51 |
pfam08423 |
Rad51; Rad51 is a DNA repair and recombination protein and is a homolog of the bacterial ... |
82-233 |
7.10e-10 |
|
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: 58.08 E-value: 7.10e-10
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 485464614 82 LSTGIGSLDKLLDAGLYTGEVTEIVGGPGSGKTQ---------------------------------------------- 115
Cdd:pfam08423 19 ITTGSKELDKLLGGGIETGSITEIFGEFRTGKTQlchtlcvtcqlplemgggegkalyidtegtfrperlvaiaerygld 98
|
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 485464614 116 -ASALQRIQVVRSFDIFRMLDMLQDLRGTIAQQEatssgaVKVVIVDSVTAVVAPLLGGqqREGLAL-MMQLARELKILA 193
Cdd:pfam08423 99 pEDVLDNVAYARAYNSEHQMQLLQQAAAMMSESR------FALLIVDSATALYRTDFSG--RGELAErQQHLAKFLRTLQ 170
|
170 180 190 200 210
....*....|....*....|....*....|....*....|....*....|
gi 485464614 194 R---DLGVAVVVTNHLTRDWDGRRF-------KPALGRSWSFVPSTRILL 233
Cdd:pfam08423 171 RladEFGVAVVITNQVVAQVDGAAGmfsgdpkKPIGGHIMAHASTTRLSL 220
|
|
| RAD55 |
COG0467 |
RecA-superfamily ATPase, KaiC/GvpD/RAD55 family [Signal transduction mechanisms]; |
82-207 |
3.85e-07 |
|
RecA-superfamily ATPase, KaiC/GvpD/RAD55 family [Signal transduction mechanisms];
Pssm-ID: 440235 [Multi-domain] Cd Length: 221 Bit Score: 49.91 E-value: 3.85e-07
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 485464614 82 LSTGIGSLDKLLDAGLYTGEVTEIVGGPGSGKTQ------ASALQR----------------IQVVRSFDI--------- 130
Cdd:COG0467 2 VPTGIPGLDELLGGGLPRGSSTLLSGPPGTGKTTlalqflAEGLRRgekglyvsfeespeqlLRRAESLGLdleeyiesg 81
|
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 485464614 131 ------FRMLDMLQDLRGTIAQ-QEATSSGAVKVVIVDSVTAVVapLLGGQQREGLALMMQLARELKilarDLGVAVVVT 203
Cdd:COG0467 82 llriidLSPEELGLDLEELLARlREAVEEFGAKRVVIDSLSGLL--LALPDPERLREFLHRLLRYLK----KRGVTTLLT 155
|
....
gi 485464614 204 NHLT 207
Cdd:COG0467 156 SETG 159
|
|
| AAA |
smart00382 |
ATPases associated with a variety of cellular activities; AAA - ATPases associated with a ... |
99-221 |
5.78e-04 |
|
ATPases associated with a variety of cellular activities; AAA - ATPases associated with a variety of cellular activities. This profile/alignment only detects a fraction of this vast family. The poorly conserved N-terminal helix is missing from the alignment.
Pssm-ID: 214640 [Multi-domain] Cd Length: 148 Bit Score: 39.28 E-value: 5.78e-04
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 485464614 99 TGEVTEIVGGPGSGKTQ-ASALQRIQVVRSFDIF-------RMLDMLQDLRGTIAQQEATSSGA--------------VK 156
Cdd:smart00382 1 PGEVILIVGPPGSGKTTlARALARELGPPGGGVIyidgediLEEVLDQLLLIIVGGKKASGSGElrlrlalalarklkPD 80
|
90 100 110 120 130 140
....*....|....*....|....*....|....*....|....*....|....*....|....*
gi 485464614 157 VVIVDSVTAvvaplLGGQQREGLALMMQLARELKILARDLGVAVVVTNHLTRDWDGRRFKPALGR 221
Cdd:smart00382 81 VLILDEITS-----LLDAEQEALLLLLEELRLLLLLKSEKNLTVILTTNDEKDLGPALLRRRFDR 140
|
|
| PRK09302 |
PRK09302 |
circadian clock protein KaiC; Reviewed |
61-114 |
1.77e-03 |
|
circadian clock protein KaiC; Reviewed
Pssm-ID: 236461 [Multi-domain] Cd Length: 509 Bit Score: 39.48 E-value: 1.77e-03
10 20 30 40 50
....*....|....*....|....*....|....*....|....*....|....
gi 485464614 61 FSAFPLNGADLyeELKTSTAILSTGIGSLDKLLDAGLYTGEVTEIVGGPGSGKT 114
Cdd:PRK09302 236 ISVLPLTAMRL--TQRSSNERISSGVPDLDEMLGGGFFRGSIILVSGATGTGKT 287
|
|
| |
|
Name |
Accession |
Description |
Interval |
E-value |
| Rad51D |
cd19489 |
RAD51D recombinase; RAD51D recombinase, a RAD51 paralog, plays an important role in DNA repair ... |
94-254 |
2.27e-56 |
|
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: 180.14 E-value: 2.27e-56
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 485464614 94 DAGLYTGEVTEIVGGPGSGKTQ---------------------------------------------ASALQRIQVVRSF 128
Cdd:cd19489 1 GGGLRTGEITELVGESSSGKTQlcltaaanvasrsgqnvlyidtkssfsarrlaqilksraqdaeeiDKALQRIRVVRVF 80
|
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 485464614 129 DIFRMLDMLQDLRGTIAQQEATSSGAVKVVIVDSVTAVVAPLLGGQQR-EGLALMMQLARELKILARDLGVAVVVTNHLT 207
Cdd:cd19489 81 DPYELLDLLEELRNTLSQQQENLYSRLKLVIIDSLSALISPLLGGSKHsEGHALLASLARLLKKLAAEYQIAVLVTNLTV 160
|
170 180 190 200 210
....*....|....*....|....*....|....*....|....*....|
gi 485464614 208 RDWDGRRF---KPALGRSWSFVPSTRILLDVTEGAGTlGSSQRTVCLTKS 254
Cdd:cd19489 161 RGGDGGQQgstKPALGEYWESVPSTRLLLSRDENDPE-ESGVCTATLLKS 209
|
|
| RecA-like |
cd01393 |
RecA family; RecA is a bacterial enzyme which has roles in homologous recombination, DNA ... |
100-234 |
3.89e-24 |
|
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: 95.88 E-value: 3.89e-24
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 485464614 100 GEVTEIVGGPGSGKTQ------ASALQRIQVV--------------------------------RSFDIFRMLDMLQDLR 141
Cdd:cd01393 1 GKITEIYGPPGSGKTQlalqlaANALLLGGGVvwidtegafppsrlvqileaspsselelaealSRLLYFRPPDTLAHLL 80
|
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 485464614 142 GTIAQQEAT-SSGAVKVVIVDSVTAVVAPLLGGQ------QREGLALMMQLARELKILARDLGVAVVVTNHLTRDWDGR- 213
Cdd:cd01393 81 ALDSLPESLfPPPNTSLVVVDSVSALFRKAFPRGgdgdssSSLRARLLSQLARALQKLAAQFNLAVVVTNQVTTKIRGGs 160
|
170 180
....*....|....*....|....
gi 485464614 214 ---RFKPALGRSWSFVPSTRILLD 234
Cdd:cd01393 161 gasLVPPALGNTWEHSVSTRLLLY 184
|
|
| Rad51C |
cd19492 |
RAD51C recombinase; RAD51C recombinase, a RAD51 paralog, plays an important role in DNA repair ... |
100-255 |
3.28e-21 |
|
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: 88.05 E-value: 3.28e-21
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 485464614 100 GEVTEIVGGPGSGKTQAsALQ---RIQVVR----------------SFDI--FRMLDMLQdLRGTIAQQEA--TSSGAVK 156
Cdd:cd19492 1 GKITEICGVPGVGKTQL-CMQlavNVQIPKcfgglageaiyidtegSFNIhyFRVHDYVE-LLALINSLPKflEDHPKVK 78
|
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 485464614 157 VVIVDSVTAvvaPLLGGQQREGL--ALMMQLARELKILARDLGVAVVVTNHLT---RDWDGRRFKPALGRSWSFVPSTRI 231
Cdd:cd19492 79 LIVVDSIAF---PFRHDFDDLAQrtRLLNGLAQLLHSLARQHNLAVVLTNQVTtkiSEDGQSQLVPALGESWSHACTTRL 155
|
170 180
....*....|....*....|....
gi 485464614 232 LLdvtegagTLGSSQRTVCLTKSP 255
Cdd:cd19492 156 FL-------TWDEKQRFAHLYKSP 172
|
|
| Rad51B |
cd19493 |
RAD51B recombinase; RAD51B recombinase, a RAD51 paralog, plays an important role in DNA repair ... |
90-255 |
2.12e-15 |
|
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: 73.51 E-value: 2.12e-15
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 485464614 90 DKLLDAGLYTGEVTEIVGGPGSGKTQ--------------------------------ASALQRIQVVRSFDIFRM---- 133
Cdd:cd19493 1 DTALAGGLPLGAITEITGASGSGKTQfaltlassaamparkggldggvlyidteskfsAERLAEIAEARFPEAFSGfmee 80
|
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 485464614 134 ----LDMLQDLR----GTIAQ--------QEATSSGAVKVVIVDSVTAVVAPLLGGQQREGLALMMQLARE---LKILAR 194
Cdd:cd19493 81 neraEEMLKRVAvvrvTTLAQllerlpnlEEHILSSGVRLVVIDSIAALVRREFGGSDGEVTERHNALAREassLKRLAE 160
|
170 180 190 200 210 220
....*....|....*....|....*....|....*....|....*....|....*....|....*.
gi 485464614 195 DLGVAVVVTNHL-TRDWDGRRF----KPALGRSWSFVPSTRILLDVtegagTLGSSQRTVCLTKSP 255
Cdd:cd19493 161 EFRIAVLVTNQAtTHFGDAGDGssgvTAALGDAWAHAVNTRLRLER-----CLLQLRRVLEIVKSP 221
|
|
| XRCC3 |
cd19491 |
XRCC3 recombinase; XRCC3 (X-ray repair complementing defective repair in Chinese hamster cells ... |
89-255 |
1.98e-13 |
|
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: 68.47 E-value: 1.98e-13
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 485464614 89 LDKLLDAGLYTGEVTEIVGGPGSGKTQAsALQ---RIQ-----------VV-----RSFDIFRMLDMLQDLR-------- 141
Cdd:cd19491 1 LDELLGGGIPVGGITEIAGESGAGKTQL-CLQlalTVQlprelgglgggAVyicteSSFPSKRLQQLASSLPkryhleka 79
|
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 485464614 142 ------------GTIAQQEAT---------SSGAVKVVIVDSVTAVV-----APLLGGQQREglALMMQLARELKILARD 195
Cdd:cd19491 80 knfldnifvehvADLETLEHClnyqlpallERGPIRLVVIDSIAALFrsefdTSRSDLVERA--KYLRRLADHLKRLADK 157
|
170 180 190 200 210 220 230 240
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 485464614 196 LGVAVVVTNHLTRDWD-------------------------GRRFKPALGRSWSFVPSTRILLDVTEGAGTLGSSQ---- 246
Cdd:cd19491 158 YNLAVVVVNQVTDRFDsssdasglgvldylsqfssfsggvsGNRKVPALGLTWANLVNTRLMLSRTPKRITDSSAAsisv 237
|
....*....
gi 485464614 247 RTVCLTKSP 255
Cdd:cd19491 238 RRLEVVFSP 246
|
|
| recomb_radA |
TIGR02236 |
DNA repair and recombination protein RadA; This family consists exclusively of archaeal RadA ... |
10-260 |
4.23e-13 |
|
DNA repair and recombination protein RadA; This family consists exclusively of archaeal RadA protein, a homolog of bacterial RecA (TIGR02012), eukaryotic RAD51 (TIGR02239), and archaeal RadB (TIGR02237). This protein is involved in DNA repair and recombination. The member from Pyrococcus horikoshii contains an intein. [DNA metabolism, DNA replication, recombination, and repair]
Pssm-ID: 131290 [Multi-domain] Cd Length: 310 Bit Score: 68.23 E-value: 4.23e-13
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 485464614 10 PGLTEETVQLLRGRKIKTVADLAAADLEEVAQKCGLS----YKALVALRRvlLAQFSAFPlNGADLYEELKTSTAIlSTG 85
Cdd:TIGR02236 5 PGVGPATAEKLREAGYDTFEAIAVASPKELSEIAGISegtaAKIIQAARK--AADLGGFE-TADDVLERRKTIGKI-TTG 80
|
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 485464614 86 IGSLDKLLDAGLYTGEVTEIVGGPGSGKTQAS-----------------------------------------------A 118
Cdd:TIGR02236 81 SKELDELLGGGIETQAITEVFGEFGSGKTQIChqlavnvqlpeekgglggkavyidtentfrperimqmaeargldpdeV 160
|
170 180 190 200 210 220 230 240
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 485464614 119 LQRIQVVRSFDIFRMLDMLQDLRGTIAQQEatssGAVKVVIVDSVTAVV-APLLGgqqREGLALMMQ-LARELKILAR-- 194
Cdd:TIGR02236 161 LKNIYVARAYNSNHQMLLVEKAEDLIKELN----NPVKLLIVDSLTSHFrAEYVG---RGALAERQQkLNKHLHDLLRla 233
|
250 260 270 280 290 300 310
....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 485464614 195 DL-GVAVVVTNHLTRDWD---GRRFKPALGRSWSFVPSTRILLDVTEGagtlgsSQRTVCLTKSPRQPTG 260
Cdd:TIGR02236 234 DLyNAAVVVTNQVMARPDaffGDPTRPIGGHILGHAATFRVYLRKGKG------DKRIARLVDSPHLPEG 297
|
|
| radB |
PRK09361 |
DNA repair and recombination protein RadB; Provisional |
82-224 |
5.47e-13 |
|
DNA repair and recombination protein RadB; Provisional
Pssm-ID: 236482 [Multi-domain] Cd Length: 225 Bit Score: 66.81 E-value: 5.47e-13
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 485464614 82 LSTGIGSLDKLLDAGLYTGEVTEIVGGPGSGKTQASALQRIQVVRS-----------FDIFRMLDMLQDLRGTIA----- 145
Cdd:PRK09361 5 LPTGCKMLDELLGGGFERGTITQIYGPPGSGKTNICLQLAVEAAKNgkkviyidtegLSPERFKQIAGEDFEELLsniii 84
|
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 485464614 146 --------QQEATSSGA------VKVVIVDSVTAVVApLLGGQQREGLALMMQLARELKIL---ARDLGVAVVVTNHLTR 208
Cdd:PRK09361 85 fepssfeeQSEAIRKAEklakenVGLIVLDSATSLYR-LELEDEEDNSKLNRELGRQLTHLlklARKHDLAVVITNQVYS 163
|
170
....*....|....*....
gi 485464614 209 DWDGRRFKPALGRS---WS 224
Cdd:PRK09361 164 DIDSDGLRPLGGHTlehWS 182
|
|
| archRadB |
cd01394 |
archaeal RadB; The archaeal protein RadB shares similarity RadA, the archaeal functional ... |
82-267 |
2.03e-12 |
|
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: 65.03 E-value: 2.03e-12
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 485464614 82 LSTGIGSLDKLLDAGLYTGEVTEIVGGPGSGKTQASALQRIQVVRS-----------FDIFRMLDMLQDLRGTIAQQ--- 147
Cdd:cd01394 1 LSTGSKSLDSLLGGGVERGTITQIYGPPGSGKTNICLQLAVEAAKQgkkvvyidtegLSPERFQQIAGERFESIASNiiv 80
|
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 485464614 148 -EATS----------------SGAVKVVIVDSVTAVVAPLLGGQQREGLALMMQLARELKIlARDLGVAVVVTNHLTRDW 210
Cdd:cd01394 81 fEPYSfdeqgvaiqeaekllkSDKVDLVVVDSATALYRLELGDDSEANRELSRQMSKLLSI-ARKYDIPVVITNQVYSDI 159
|
170 180 190 200 210
....*....|....*....|....*....|....*....|....*....|....*..
gi 485464614 211 DGRRFKPALGRSWSFVPSTRILLDVTEGagtlgsSQRTVCLTKSPRQPTGLQEMIDI 267
Cdd:cd01394 160 DDDRLKPVGGTLLEHWSKAIIRLEKSPP------GLRRATLEKHRSRPEGQSAGFRI 210
|
|
| radA |
PRK04301 |
DNA repair and recombination protein RadA; Validated |
10-204 |
3.06e-12 |
|
DNA repair and recombination protein RadA; Validated
Pssm-ID: 235273 [Multi-domain] Cd Length: 317 Bit Score: 65.67 E-value: 3.06e-12
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 485464614 10 PGLTEETVQLLRGRKIKTVADLAAADLEEVAQKCGLSYKA----LVALRRVL-LAQFSAfplnGADLYEELKtSTAILST 84
Cdd:PRK04301 12 PGVGPATAEKLREAGYDTVEAIAVASPKELSEAAGIGESTaakiIEAAREAAdIGGFET----ALEVLERRK-NVGKITT 86
|
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 485464614 85 GIGSLDKLLDAGLYTGEVTEIVGGPGSGKTQ-----------------------------------------------AS 117
Cdd:PRK04301 87 GSKELDELLGGGIETQSITEFYGEFGSGKTQichqlavnvqlpeekgglegkavyidtegtfrperieqmaealgldpDE 166
|
170 180 190 200 210 220 230 240
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 485464614 118 ALQRIQVVRSFDI---FRMLDMLQDLrgtIAQQEatssgAVKVVIVDSVTAVV-APLLGgqqREGLA-----LMMQLARE 188
Cdd:PRK04301 167 VLDNIHVARAYNSdhqMLLAEKAEEL---IKEGE-----NIKLVIVDSLTAHFrAEYVG---RGNLAerqqkLNKHLHDL 235
|
250
....*....|....*.
gi 485464614 189 LKiLARDLGVAVVVTN 204
Cdd:PRK04301 236 LR-LADLYNAAVVVTN 250
|
|
| Rad51 |
pfam08423 |
Rad51; Rad51 is a DNA repair and recombination protein and is a homolog of the bacterial ... |
82-233 |
7.10e-10 |
|
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: 58.08 E-value: 7.10e-10
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 485464614 82 LSTGIGSLDKLLDAGLYTGEVTEIVGGPGSGKTQ---------------------------------------------- 115
Cdd:pfam08423 19 ITTGSKELDKLLGGGIETGSITEIFGEFRTGKTQlchtlcvtcqlplemgggegkalyidtegtfrperlvaiaerygld 98
|
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 485464614 116 -ASALQRIQVVRSFDIFRMLDMLQDLRGTIAQQEatssgaVKVVIVDSVTAVVAPLLGGqqREGLAL-MMQLARELKILA 193
Cdd:pfam08423 99 pEDVLDNVAYARAYNSEHQMQLLQQAAAMMSESR------FALLIVDSATALYRTDFSG--RGELAErQQHLAKFLRTLQ 170
|
170 180 190 200 210
....*....|....*....|....*....|....*....|....*....|
gi 485464614 194 R---DLGVAVVVTNHLTRDWDGRRF-------KPALGRSWSFVPSTRILL 233
Cdd:pfam08423 171 RladEFGVAVVITNQVVAQVDGAAGmfsgdpkKPIGGHIMAHASTTRLSL 220
|
|
| PLN03186 |
PLN03186 |
DNA repair protein RAD51 homolog; Provisional |
11-233 |
7.28e-10 |
|
DNA repair protein RAD51 homolog; Provisional
Pssm-ID: 178728 [Multi-domain] Cd Length: 342 Bit Score: 58.98 E-value: 7.28e-10
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 485464614 11 GLTEETVQLLRGRKIKTVADLAAADLEEVAQKCGLS-YKALvalrRVLLAQFSAFPL---NGADLYEElKTSTAILSTGI 86
Cdd:PLN03186 35 GIAALDIKKLKDAGIHTVESLAYAPKKDLLQIKGISeAKVE----KILEAASKLVPLgftTASQLHAQ-RQEIIQITTGS 109
|
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 485464614 87 GSLDKLLDAGLYTGEVTEIVGGPGSGKTQ-----------------------------------------------ASAL 119
Cdd:PLN03186 110 RELDKILEGGIETGSITEIYGEFRTGKTQlchtlcvtcqlpldqgggegkamyidtegtfrpqrliqiaerfglngADVL 189
|
170 180 190 200 210 220 230 240
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 485464614 120 QRIQVVRSFDIFRMLDMLQDLRGTIAQQEatssgaVKVVIVDSVTAVVAPLLGGQQrEGLALMMQLARELKILAR---DL 196
Cdd:PLN03186 190 ENVAYARAYNTDHQSELLLEAASMMAETR------FALMIVDSATALYRTEFSGRG-ELSARQMHLGKFLRSLQRladEF 262
|
250 260 270 280
....*....|....*....|....*....|....*....|...
gi 485464614 197 GVAVVVTNHLTRDWDGRRF------KPALGRSWSFVPSTRILL 233
Cdd:PLN03186 263 GVAVVITNQVVAQVDGSAFfagpqlKPIGGNIMAHASTTRLAL 305
|
|
| archRadA |
cd19515 |
archaeal recombinase Rad51/RadA; This group includes the archaeal protein RadA which is a ... |
82-260 |
1.51e-08 |
|
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: 53.91 E-value: 1.51e-08
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 485464614 82 LSTGIGSLDKLLDAGLYTGEVTEIVGGPGSGKTQ---------------------------------------------- 115
Cdd:cd19515 1 ISTGSKELDKLLGGGIETQAITEVFGEFGSGKTQlchqlavnvqlppeegglngkavyidtentfrperimqmakalgld 80
|
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 485464614 116 -ASALQRIQVVRSFDIFRMLDMLQDLRGTIAQQEatssgAVKVVIVDSVTAVV-APLLGgqqREGLALMMQ-LARELKIL 192
Cdd:cd19515 81 pDEVLDNIYVARAYNSNHQMLLVEKAEDLIKEGN-----NIKLLIVDSLTSHFrAEYVG---RGTLAERQQkLNKHLHDL 152
|
170 180 190 200 210 220 230
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....
gi 485464614 193 AR--DL-GVAVVVTNHLTRDWD---GRRFKPALGRSWSFVPSTRILLDVTEGagtlgsSQRTVCLTKSPRQPTG 260
Cdd:cd19515 153 HRlaDLyNIAVLVTNQVMAKPDaffGDPTQAIGGHILGHAATFRVYLRKGKG------GKRIARLVDSPHLPEG 220
|
|
| Rad51_DMC1_archRadA |
cd01123 |
recombinase Rad51, DMC1, and archaeal RadA; This group of recombinases includes the eukaryotic ... |
82-260 |
3.83e-08 |
|
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: 52.92 E-value: 3.83e-08
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 485464614 82 LSTGIGSLDKLLDAGLYTGEVTEIVGGPGSGKTQAS-------------------------------------------- 117
Cdd:cd01123 1 ITTGSKELDKLLGGGIETGSITEMFGEFRTGKTQLChtlavtcqlpidrgggegkaiyidtegtfrperlraiaqrfgld 80
|
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 485464614 118 ---ALQRIQVVRSFDIFRMLDMLQDLRGTIAQQEatssgaVKVVIVDSVTAVVAPLLGGQQrEGLALMMQLARELKILAR 194
Cdd:cd01123 81 pddVLDNVAYARAFNSDHQTQLLDQAAAMMVESR------FKLLIVDSATALYRTDYSGRG-ELSARQMHLAKFLRMLQR 153
|
170 180 190 200 210 220 230
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*
gi 485464614 195 ---DLGVAVVVTNHLTRDWDGRRF------KPALGRSWSFVPSTRILLDVTEGagtlgsSQRTVCLTKSPRQPTG 260
Cdd:cd01123 154 ladEFGVAVVVTNQVVAQVDGAMMfaadpkKPIGGNILAHASTTRLYLRKGRG------ETRICKIYDSPCLPEA 222
|
|
| Rad51 |
cd19513 |
RAD51D recombinase; RAD51 recombinase plays an essential role in DNA repair by homologous ... |
82-212 |
1.81e-07 |
|
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: 50.78 E-value: 1.81e-07
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 485464614 82 LSTGIGSLDKLLDAGLYTGEVTEIVGGPGSGKTQ---------------------------------------------- 115
Cdd:cd19513 1 ITTGSKELDKLLGGGIETGSITELFGEFRTGKTQlchtlavtcqlpidqgggegkalyidtegtfrperllaiaerygln 80
|
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 485464614 116 -ASALQRIQVVRSFDIFRMLDMLQDLRGTIAQQEatssgaVKVVIVDSVTAVVAPLLGGQQrEGLALMMQLARELKILAR 194
Cdd:cd19513 81 gEDVLDNVAYARAYNTDHQMQLLIQASAMMAESR------YALLIVDSATALYRTDYSGRG-ELSARQMHLAKFLRMLQR 153
|
170 180
....*....|....*....|.
gi 485464614 195 ---DLGVAVVVTNHLTRDWDG 212
Cdd:cd19513 154 ladEFGVAVVITNQVVAQVDG 174
|
|
| PTZ00035 |
PTZ00035 |
Rad51 protein; Provisional |
11-212 |
2.65e-07 |
|
Rad51 protein; Provisional
Pssm-ID: 185407 [Multi-domain] Cd Length: 337 Bit Score: 51.15 E-value: 2.65e-07
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 485464614 11 GLTEETVQLLRGRKIKTVADLAAADLEEVAQKCGLSY----KALVALRRVLLAQFsafpLNGADLYEeLKTSTAILSTGI 86
Cdd:PTZ00035 30 GINAADIKKLKEAGICTVESVAYATKKDLCNIKGISEakveKIKEAASKLVPMGF----ISATEYLE-ARKNIIRITTGS 104
|
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 485464614 87 GSLDKLLDAGLYTGEVTEIVGGPGSGKTQ-----------------------------------------------ASAL 119
Cdd:PTZ00035 105 TQLDKLLGGGIETGSITELFGEFRTGKTQlchtlcvtcqlpieqgggegkvlyidtegtfrperivqiaerfgldpEDVL 184
|
170 180 190 200 210 220 230 240
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 485464614 120 QRIQVVRSFDIFRMLDMLQDLRGTIAQQEatssgaVKVVIVDSVTAVV-------APLLGGQQRegLALMMqlaRELKIL 192
Cdd:PTZ00035 185 DNIAYARAYNHEHQMQLLSQAAAKMAEER------FALLIVDSATALFrvdysgrGELAERQQH--LGKFL---RALQKL 253
|
250 260
....*....|....*....|
gi 485464614 193 ARDLGVAVVVTNHLTRDWDG 212
Cdd:PTZ00035 254 ADEFNVAVVITNQVMADVDG 273
|
|
| RAD55 |
COG0467 |
RecA-superfamily ATPase, KaiC/GvpD/RAD55 family [Signal transduction mechanisms]; |
82-207 |
3.85e-07 |
|
RecA-superfamily ATPase, KaiC/GvpD/RAD55 family [Signal transduction mechanisms];
Pssm-ID: 440235 [Multi-domain] Cd Length: 221 Bit Score: 49.91 E-value: 3.85e-07
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 485464614 82 LSTGIGSLDKLLDAGLYTGEVTEIVGGPGSGKTQ------ASALQR----------------IQVVRSFDI--------- 130
Cdd:COG0467 2 VPTGIPGLDELLGGGLPRGSSTLLSGPPGTGKTTlalqflAEGLRRgekglyvsfeespeqlLRRAESLGLdleeyiesg 81
|
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 485464614 131 ------FRMLDMLQDLRGTIAQ-QEATSSGAVKVVIVDSVTAVVapLLGGQQREGLALMMQLARELKilarDLGVAVVVT 203
Cdd:COG0467 82 llriidLSPEELGLDLEELLARlREAVEEFGAKRVVIDSLSGLL--LALPDPERLREFLHRLLRYLK----KRGVTTLLT 155
|
....
gi 485464614 204 NHLT 207
Cdd:COG0467 156 SETG 159
|
|
| recomb_RAD51 |
TIGR02239 |
DNA repair protein RAD51; This eukaryotic sequence family consists of RAD51, a protein ... |
11-212 |
1.85e-06 |
|
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: 48.57 E-value: 1.85e-06
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 485464614 11 GLTEETVQLLRGRKIKTVADLAAADLEEVAQKCGLS-YKAlvalRRVLLAQFSAFPLN--GADLYEELKTSTAILSTGIG 87
Cdd:TIGR02239 8 GITAADIKKLQEAGLHTVESVAYAPKKQLLEIKGISeAKA----DKILAEAAKLVPMGftTATEFHQRRQEVIQLTTGSK 83
|
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 485464614 88 SLDKLLDAGLYTGEVTEIVGGPGSGKTQ-----------------------------------------------ASALQ 120
Cdd:TIGR02239 84 ELDKLLGGGIETGSITEIFGEFRTGKTQlchtlavtcqlpidqgggegkalyidtegtfrperllaiaeryglnpEDVLD 163
|
170 180 190 200 210 220 230 240
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 485464614 121 RIQVVRSFDIFRMLDMLQDLRGTIAQQEATssgavkVVIVDSVTAVVAPLLGGQQrEGLALMMQLA---RELKILARDLG 197
Cdd:TIGR02239 164 NVAYARAYNTDHQLQLLQQAAAMMSESRFA------LLIVDSATALYRTDFSGRG-ELSARQMHLArflRSLQRLADEFG 236
|
250
....*....|....*
gi 485464614 198 VAVVVTNHLTRDWDG 212
Cdd:TIGR02239 237 VAVVITNQVVAQVDG 251
|
|
| XRCC2 |
cd19490 |
XRCC2 recombinase; XRCC2 (X-ray repair complementing defective repair in Chinese hamster cells ... |
103-233 |
6.86e-06 |
|
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: 46.19 E-value: 6.86e-06
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 485464614 103 TEIVGGPGSGKTQASALQRIQVVRSFDIFRMLDMLQDLRGTIAQQEAtsSGAVKVVIVDSVTA------VVAPLLGGQQR 176
Cdd:cd19490 73 NSSDDEEDVEEIARECLQRLHIFRCHSSLQLLATLLSLENYLLSLSA--NPELGLLLIDSISAfywqdrFSAELARAAPL 150
|
90 100 110 120 130 140 150
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....
gi 485464614 177 EGLALMMQLARELKILARDLGVAVVVTNHL---TRDWDGRR--------------FKPALGRSWSFVPSTRILL 233
Cdd:cd19490 151 LQEAALRAILRELRRLRRRFQLVVIATKQAlfpGKSASTDNpaannavskasapsHREYLPRPWQRLVTHRLVL 224
|
|
| RadA_SMS_N |
cd01121 |
bacterial RadA DNA repair protein; Sms or bacterial RadA is a DNA repair protein that plays a ... |
82-209 |
2.06e-05 |
|
bacterial RadA DNA repair protein; Sms or bacterial RadA is a DNA repair protein that plays a role in recombination and recombinational repair of DNA damaged by UV radiation, X-rays, and chemical agent and is responsible for the stabilization or processing of branched DNA molecules.
Pssm-ID: 410866 [Multi-domain] Cd Length: 268 Bit Score: 44.83 E-value: 2.06e-05
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 485464614 82 LSTGIGSLDKLLDAGLYTGEVTEIVGGPGSGKT----QASAL------------------------QRIQVVRSfDIFRM 133
Cdd:cd01121 64 ISTGIGELDRVLGGGLVPGSVVLIGGDPGIGKStlllQVAARlaqrggkvlyvsgeeslsqiklraERLGLGSD-NLYLL 142
|
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 485464614 134 LDM-LQDLRGTIAQQEAtssgavKVVIVDSVTAVVAPLLGG------QQREGLALMMQLARElkilardLGVAVVVTNHL 206
Cdd:cd01121 143 AETnLEAILAEIEELKP------SLVVIDSIQTVYSPELTSspgsvsQVRECAAELLRLAKE-------TGIPVFLVGHV 209
|
...
gi 485464614 207 TRD 209
Cdd:cd01121 210 TKD 212
|
|
| RecA |
COG0468 |
RecA/RadA recombinase [Replication, recombination and repair]; |
83-206 |
9.33e-05 |
|
RecA/RadA recombinase [Replication, recombination and repair];
Pssm-ID: 440236 [Multi-domain] Cd Length: 351 Bit Score: 43.24 E-value: 9.33e-05
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 485464614 83 STGIGSLDKLL-DAGLYTGEVTEIVGGPGSGKTQ------ASAlQR-------IQVVRSFDIFR---------------- 132
Cdd:COG0468 45 STGSLALDIALgVGGLPRGRIVEIYGPESSGKTTlalhaiAEA-QKaggiaafIDAEHALDPEYakklgvdidnllvsqp 123
|
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 485464614 133 --------MLDMLqdlrgtiaqqeaTSSGAVKVVIVDSVTAVV----------APLLGGQQReglaLMMQLARELKILAR 194
Cdd:COG0468 124 dtgeqaleIAETL------------VRSGAVDLIVVDSVAALVpkaeiegemgDSHVGLQAR----LMSQALRKLTGAIS 187
|
170
....*....|..
gi 485464614 195 DLGVAVVVTNHL 206
Cdd:COG0468 188 KSNTTVIFINQL 199
|
|
| RecA-like_Gp4D_helicase |
cd19483 |
RecA-like domain of Escherichia coli bacteriophage T7 Gp4D helicase; This family includes the ... |
152-214 |
9.76e-05 |
|
RecA-like domain of Escherichia coli bacteriophage T7 Gp4D helicase; This family includes the RecA-like domain of the Gp4D fragment of the Gene4 helicase-primase (Gp4) from bacteriophage T7. Gp4D (residues 241-566) is the minimal fragment of the Gp4 that forms hexameric rings, it contains the helicase domain and the linker connecting the helicase and primase domains. Helicases are ring-shaped oligomeric enzymes that unwind DNA at the replication fork; they couple NTP hydrolysis to the unwinding of nucleic acid duplexes into their component strands. This family belongs to the RecA-like NTPase superfamily which includes the NTP binding domain of F1 and V1 H(+)ATPases, DnaB and related helicases as well as bacterial RecA and related eukaryotic and archaeal recombinases. The RecA-like NTPase family also includes bacterial conjugation proteins and related DNA transfer proteins involved in type II and type IV secretion.
Pssm-ID: 410891 [Multi-domain] Cd Length: 231 Bit Score: 42.56 E-value: 9.76e-05
10 20 30 40 50 60
....*....|....*....|....*....|....*....|....*....|....*....|...
gi 485464614 152 SGAVKVVIVDSVTAVVAPLLGGQQREGLALMMQlarELKILARDLGVAVVVTNHLTRDWDGRR 214
Cdd:cd19483 106 VLGCKVIVLDHLTILVSGLDSSDERKELDEIMT---ELAALVKELGVTIILVSHLRRPGGGKG 165
|
|
| ATPase |
pfam06745 |
KaiC; This family is in the P-loop NTPase superfamily and is found in archaea, bacteria and ... |
82-192 |
1.23e-04 |
|
KaiC; This family is in the P-loop NTPase superfamily and is found in archaea, bacteria and eukaryotes. More than one copy is sometimes found in each protein. This family includes KaiC, which is one of the Kai proteins among which direct protein-protein association may be a critical process in the generation of circadian rhythms in cyanobacteria.
Pssm-ID: 429095 [Multi-domain] Cd Length: 231 Bit Score: 42.23 E-value: 1.23e-04
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 485464614 82 LSTGIGSLDKLLDAGLYTGEVTEIVGGPGSGKT---------QA--------------SALQRIQVVRSFDI-------- 130
Cdd:pfam06745 1 VKTGIPGLDEILKGGFPEGRVVLITGGPGTGKTifglqflynGAlkygepgvfvtleePPEDLRENARSFGWdlekleee 80
|
90 100 110 120 130 140 150
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*..
gi 485464614 131 --FRMLDMLQDLRGTIAQ-------------QEATSSGAVKVVIVDSVTAVVAPLLGGQQREglaLMMQLARELKIL 192
Cdd:pfam06745 81 gkLAIIDASTSGIGIAEVedrfdleelierlREAIREIGAKRVVIDSITTLFYLLKPAVARE---ILRRLKRVLKGL 154
|
|
| RecA-like_superfamily |
cd01120 |
RecA-like_NTPases; RecA-like NTPases. This superfamily includes the NTP binding domain of F1 ... |
103-224 |
2.15e-04 |
|
RecA-like_NTPases; RecA-like NTPases. This superfamily includes the NTP binding domain of F1 and V1 H(+)ATPases, DnaB and related helicases as well as bacterial RecA and related eukaryotic and archaeal recombinases. This group also includes bacterial conjugation proteins and related DNA transfer proteins involved in type II and type IV secretion.
Pssm-ID: 410865 [Multi-domain] Cd Length: 119 Bit Score: 40.18 E-value: 2.15e-04
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 485464614 103 TEIVGGPGSGKT-------QASALQRIQVVrSFDIFRMLDMLqdlrgtiAQQEATSsGAVKVVIVDSVTAVVAPLLGGQQ 175
Cdd:cd01120 1 ILITGPPGSGKTtlllqfaEQALLSDEPVI-FISFLDTILEA-------IEDLIEE-KKLDIIIIDSLSSLARASQGDRS 71
|
90 100 110 120
....*....|....*....|....*....|....*....|....*....
gi 485464614 176 REGLALMMQLARelkiLARDLGVAVVVTNHLTRDWDGRRFKPALGRSWS 224
Cdd:cd01120 72 SELLEDLAKLLR----AARNTGITVIATIHSDKFDIDRGGSSNDERLLK 116
|
|
| AAA |
smart00382 |
ATPases associated with a variety of cellular activities; AAA - ATPases associated with a ... |
99-221 |
5.78e-04 |
|
ATPases associated with a variety of cellular activities; AAA - ATPases associated with a variety of cellular activities. This profile/alignment only detects a fraction of this vast family. The poorly conserved N-terminal helix is missing from the alignment.
Pssm-ID: 214640 [Multi-domain] Cd Length: 148 Bit Score: 39.28 E-value: 5.78e-04
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 485464614 99 TGEVTEIVGGPGSGKTQ-ASALQRIQVVRSFDIF-------RMLDMLQDLRGTIAQQEATSSGA--------------VK 156
Cdd:smart00382 1 PGEVILIVGPPGSGKTTlARALARELGPPGGGVIyidgediLEEVLDQLLLIIVGGKKASGSGElrlrlalalarklkPD 80
|
90 100 110 120 130 140
....*....|....*....|....*....|....*....|....*....|....*....|....*
gi 485464614 157 VVIVDSVTAvvaplLGGQQREGLALMMQLARELKILARDLGVAVVVTNHLTRDWDGRRFKPALGR 221
Cdd:smart00382 81 VLILDEITS-----LLDAEQEALLLLLEELRLLLLLKSEKNLTVILTTNDEKDLGPALLRRRFDR 140
|
|
| KaiC-like |
cd01124 |
Circadian Clock Protein KaiC; KaiC is a circadian clock protein, most studied in cyanobacteria. ... |
82-114 |
8.68e-04 |
|
Circadian Clock Protein KaiC; KaiC is a circadian clock protein, most studied in cyanobacteria. KaiC, an autokinase, autophosphatase, and ATPase, is part of the core oscillator, composed of three proteins: KaiA, KaiB, and KaiC. The circadian oscillation is regulated via KaiC phosphorylation.
Pssm-ID: 410869 [Multi-domain] Cd Length: 222 Bit Score: 39.94 E-value: 8.68e-04
10 20 30
....*....|....*....|....*....|...
gi 485464614 82 LSTGIGSLDKLLDAGLYTGEVTEIVGGPGSGKT 114
Cdd:cd01124 1 VKTGIPGLDELLGGGIPKGSVTLLTGGPGTGKT 33
|
|
| AAA_24 |
pfam13479 |
AAA domain; This AAA domain is found in a wide variety of presumed phage proteins. |
105-220 |
1.09e-03 |
|
AAA domain; This AAA domain is found in a wide variety of presumed phage proteins.
Pssm-ID: 433243 Cd Length: 199 Bit Score: 39.23 E-value: 1.09e-03
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 485464614 105 IVGGPGSGKT-QASALQRIQV-----------VRSFDIFRMLDMLQDLRGTIAQQEATSSGAVKVVIVDSVTAVVAPLLG 172
Cdd:pfam13479 7 IYGPSGIGKTtFAKTLPKPLFldtekgskaldGDRFPDIVIRDSWQDFLDAIDELTAAELADYKTIVIDTVDWLERLCLA 86
|
90 100 110 120 130 140 150
....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 485464614 173 --------GQQREGL-------ALMMQLARELKILaRDLGVAVVVTNHLTRDWDGR-------RFKPALG 220
Cdd:pfam13479 87 yickqngkGSSIEDGgygkgygELGEEFRRLLDAL-QELGKNVIFTAHAKTRKDEDpdgekytRYEPKLG 155
|
|
| PRK09302 |
PRK09302 |
circadian clock protein KaiC; Reviewed |
61-114 |
1.77e-03 |
|
circadian clock protein KaiC; Reviewed
Pssm-ID: 236461 [Multi-domain] Cd Length: 509 Bit Score: 39.48 E-value: 1.77e-03
10 20 30 40 50
....*....|....*....|....*....|....*....|....*....|....
gi 485464614 61 FSAFPLNGADLyeELKTSTAILSTGIGSLDKLLDAGLYTGEVTEIVGGPGSGKT 114
Cdd:PRK09302 236 ISVLPLTAMRL--TQRSSNERISSGVPDLDEMLGGGFFRGSIILVSGATGTGKT 287
|
|
| KaiC-like_C |
cd19487 |
C-terminal domain of KaiC family protein; uncharacterized subfamily; KaiC is a circadian clock ... |
82-204 |
2.49e-03 |
|
C-terminal domain of KaiC family protein; uncharacterized subfamily; KaiC is a circadian clock protein, most studied in cyanobacteria. KaiC, an autokinase, autophosphatase, and ATPase, is part of the core oscillator, composed of three proteins: KaiA, KaiB, and KaiC. The circadian oscillation is regulated via KaiC phosphorylation.
Pssm-ID: 410895 [Multi-domain] Cd Length: 219 Bit Score: 38.43 E-value: 2.49e-03
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 485464614 82 LSTGIGSLDKLLDAGLYTGEVTEIVGGPGSGKTQ------ASALQRIQ--VVRSFD------------------------ 129
Cdd:cd19487 1 VSSGVPELDELLGGGLERGTSTLLIGPAGVGKSTlalqfaKAAAARGErsVLFSFDesigtlfersealgidlramvekg 80
|
90 100 110 120 130 140 150
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....
gi 485464614 130 --IFRMLDMLQDLRGTIAQQEATS--SGAVKVVIVDSVTAVVAPLlggqqREGLALMMQLARELKILARdLGVAVVVTN 204
Cdd:cd19487 81 llSIEQIDPAELSPGEFAQRVRTSveQEDARVVVIDSLNGYLNAM-----PDERFLILQMHELLSYLNN-QGVTTLLIV 153
|
|
| KaiC-N |
cd19485 |
N-terminal domain of Circadian Clock Protein Kaic; KaiC is a circadian clock protein, most ... |
82-209 |
8.08e-03 |
|
N-terminal domain of Circadian Clock Protein Kaic; KaiC is a circadian clock protein, most studied in cyanobacteria. KaiC, an autokinase, autophosphatase, and ATPase, is part of the core oscillator, composed of three proteins: KaiA, KaiB, and KaiC. The circadian oscillation is regulated via KaiC phosphorylation.
Pssm-ID: 410893 [Multi-domain] Cd Length: 226 Bit Score: 36.96 E-value: 8.08e-03
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 485464614 82 LSTGIGSLDKLLDAGLYTGEVTEIVGGPGSGKT-----------------------QASALQRIQVVRSF--DIFRMLDM 136
Cdd:cd19485 1 LPTGIEGFDDITHGGLPKGRPTLICGTAGTGKTlfaaqflvngikefgepgvfvtfEESPEDIIKNMASFgwDLPKLVAE 80
|
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 485464614 137 LQ-------------------DLRGTIA--QQEATSSGAVKVVIvDSVTAVVApllggqqreGLALMMQLARELKILA-- 193
Cdd:cd19485 81 GKllildaspepseeevtgeyDLEALLIriEYAIRKIGAKRVSL-DSLEAVFS---------GLSDSAVVRAELLRLFaw 150
|
170
....*....|....*..
gi 485464614 194 -RDLGVAVVVTNHLTRD 209
Cdd:cd19485 151 lKQKGVTAIMTGERGED 167
|
|
| |
