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Conserved domains on  [gi|398365443|ref|NP_010361|]
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putative DNA-dependent ATPase RAD55 [Saccharomyces cerevisiae S288C]

Protein Classification

RAD55 family ATPase( domain architecture ID 11422034)

RAD55 family ATPase similar to Saccharomyces cerevisiae DNA repair protein RAD55 that is required for radiation resistance and meiotic viability and presumably acts in recombination and recombinational DNA repair pathways

Graphical summary

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List of domain hits

 Name Accession Description Interval E-value
RAD55 COG0467
RecA-superfamily ATPase, KaiC/GvpD/RAD55 family [Signal transduction mechanisms];
18-138 3.28e-11

RecA-superfamily ATPase, KaiC/GvpD/RAD55 family [Signal transduction mechanisms];


:

Pssm-ID: 440235 [Multi-domain]  Cd Length: 221  Bit Score: 62.63  E-value: 3.28e-11
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 398365443  18 LSSGITGLDEILNLGFQARSIYEIFGPPGIGKTNFGIQLVCNSLEgiqqseiNDDKILWIeTFQEmPINILRERFQKFKI 97
Cdd:COG0467    2 VPTGIPGLDELLGGGLPRGSSTLLSGPPGTGKTTLALQFLAEGLR-------RGEKGLYV-SFEE-SPEQLLRRAESLGL 72

                         90       100       110       120       130
                 ....*....|....*....|....*....|....*....|....*....|
gi 398365443  98 -VEENVK--RVRITKFGQLLY------FFQNLFKLSQSVRYKLVIIDGFS 138
Cdd:COG0467   73 dLEEYIEsgLLRIIDLSPEELgldleeLLARLREAVEEFGAKRVVIDSLS 122
 
Name Accession Description Interval E-value
RAD55 COG0467
RecA-superfamily ATPase, KaiC/GvpD/RAD55 family [Signal transduction mechanisms];
18-138 3.28e-11

RecA-superfamily ATPase, KaiC/GvpD/RAD55 family [Signal transduction mechanisms];


Pssm-ID: 440235 [Multi-domain]  Cd Length: 221  Bit Score: 62.63  E-value: 3.28e-11
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 398365443  18 LSSGITGLDEILNLGFQARSIYEIFGPPGIGKTNFGIQLVCNSLEgiqqseiNDDKILWIeTFQEmPINILRERFQKFKI 97
Cdd:COG0467    2 VPTGIPGLDELLGGGLPRGSSTLLSGPPGTGKTTLALQFLAEGLR-------RGEKGLYV-SFEE-SPEQLLRRAESLGL 72

                         90       100       110       120       130
                 ....*....|....*....|....*....|....*....|....*....|
gi 398365443  98 -VEENVK--RVRITKFGQLLY------FFQNLFKLSQSVRYKLVIIDGFS 138
Cdd:COG0467   73 dLEEYIEsgLLRIIDLSPEELgldleeLLARLREAVEEFGAKRVVIDSLS 122
archRadB cd01394
archaeal RadB; The archaeal protein RadB shares similarity RadA, the archaeal functional ...
 18-140 7.30e-11

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: 61.56  E-value: 7.30e-11
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 398365443  18 LSSGITGLDEILNLGFQARSIYEIFGPPGIGKTNFGIQLVCNSLEGIQQSEINDDKILWIETFQEmpinILRERFQKfki 97
Cdd:cd01394    1 LSTGSKSLDSLLGGGVERGTITQIYGPPGSGKTNICLQLAVEAAKQGKKVVYIDTEGLSPERFQQ----IAGERFES--- 73

                         90       100       110       120
                 ....*....|....*....|....*....|....*....|...
gi 398365443  98 VEENVKRVRITKFGQLLYFFQNLFKLSQSVRYKLVIIDGFSQL 140
Cdd:cd01394   74 IASNIIVFEPYSFDEQGVAIQEAEKLLKSDKVDLVVVDSATAL 116
recomb_radB TIGR02237
DNA repair and recombination protein RadB; This family consists exclusively of archaeal RadB ...
 25-140 8.53e-11

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: 61.28  E-value: 8.53e-11
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 398365443   25 LDEILNLGFQARSIYEIFGPPGIGKTNFGIQLVCNSLEGIQQSEINDDKILWIETFQEMPINIlrerfqkFKIVEENVKR 104
Cdd:TIGR02237   1 IDELLGGGVERGTITQIYGPPGSGKTNICMILAVNAARQGKKVVYIDTEGLSPERFKQIAEDR-------PERALSNFIV 73

                          90       100       110
                  ....*....|....*....|....*....|....*.
gi 398365443  105 VRITKFGQLLYFFQNLFKLSQSVRYKLVIIDGFSQL 140
Cdd:TIGR02237  74 FEVFDFDEQGVAIQKTSKFIDRDSASLVVVDSFTAL 109
radB PRK09361
DNA repair and recombination protein RadB; Provisional
 15-140 3.29e-10

DNA repair and recombination protein RadB; Provisional


Pssm-ID: 236482 [Multi-domain]  Cd Length: 225  Bit Score: 59.49  E-value: 3.29e-10
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 398365443  15 PKPLSSGITGLDEILNLGFQARSIYEIFGPPGIGKTNFGIQLVCNSLEgiqqseiNDDKILWIETfqEmpiNILRERFQk 94
Cdd:PRK09361   2 DERLPTGCKMLDELLGGGFERGTITQIYGPPGSGKTNICLQLAVEAAK-------NGKKVIYIDT--E---GLSPERFK- 68

                         90       100       110       120       130
                 ....*....|....*....|....*....|....*....|....*....|....*..
gi 398365443  95 fKIVEENVKRVritkFGQLLYF-----------FQNLFKLSQSvRYKLVIIDGFSQL 140
Cdd:PRK09361  69 -QIAGEDFEEL----LSNIIIFepssfeeqseaIRKAEKLAKE-NVGLIVLDSATSL 119
ATPase pfam06745
KaiC; This family is in the P-loop NTPase superfamily and is found in archaea, bacteria and ...
 18-95 1.98e-06

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: 48.40  E-value: 1.98e-06
                          10        20        30        40        50        60        70
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*...
gi 398365443   18 LSSGITGLDEILNLGFQARSIYEIFGPPGIGKTNFGIQLVcnslegIQQSEINDDKILWIeTFQEMPINIlRERFQKF 95
Cdd:pfam06745   1 VKTGIPGLDEILKGGFPEGRVVLITGGPGTGKTIFGLQFL------YNGALKYGEPGVFV-TLEEPPEDL-RENARSF 70
 
Name Accession Description Interval E-value
RAD55 COG0467
RecA-superfamily ATPase, KaiC/GvpD/RAD55 family [Signal transduction mechanisms];
18-138 3.28e-11

RecA-superfamily ATPase, KaiC/GvpD/RAD55 family [Signal transduction mechanisms];


Pssm-ID: 440235 [Multi-domain]  Cd Length: 221  Bit Score: 62.63  E-value: 3.28e-11
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 398365443  18 LSSGITGLDEILNLGFQARSIYEIFGPPGIGKTNFGIQLVCNSLEgiqqseiNDDKILWIeTFQEmPINILRERFQKFKI 97
Cdd:COG0467    2 VPTGIPGLDELLGGGLPRGSSTLLSGPPGTGKTTLALQFLAEGLR-------RGEKGLYV-SFEE-SPEQLLRRAESLGL 72

                         90       100       110       120       130
                 ....*....|....*....|....*....|....*....|....*....|
gi 398365443  98 -VEENVK--RVRITKFGQLLY------FFQNLFKLSQSVRYKLVIIDGFS 138
Cdd:COG0467   73 dLEEYIEsgLLRIIDLSPEELgldleeLLARLREAVEEFGAKRVVIDSLS 122
archRadB cd01394
archaeal RadB; The archaeal protein RadB shares similarity RadA, the archaeal functional ...
 18-140 7.30e-11

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: 61.56  E-value: 7.30e-11
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 398365443  18 LSSGITGLDEILNLGFQARSIYEIFGPPGIGKTNFGIQLVCNSLEGIQQSEINDDKILWIETFQEmpinILRERFQKfki 97
Cdd:cd01394    1 LSTGSKSLDSLLGGGVERGTITQIYGPPGSGKTNICLQLAVEAAKQGKKVVYIDTEGLSPERFQQ----IAGERFES--- 73

                         90       100       110       120
                 ....*....|....*....|....*....|....*....|...
gi 398365443  98 VEENVKRVRITKFGQLLYFFQNLFKLSQSVRYKLVIIDGFSQL 140
Cdd:cd01394   74 IASNIIVFEPYSFDEQGVAIQEAEKLLKSDKVDLVVVDSATAL 116
recomb_radB TIGR02237
DNA repair and recombination protein RadB; This family consists exclusively of archaeal RadB ...
 25-140 8.53e-11

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: 61.28  E-value: 8.53e-11
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 398365443   25 LDEILNLGFQARSIYEIFGPPGIGKTNFGIQLVCNSLEGIQQSEINDDKILWIETFQEMPINIlrerfqkFKIVEENVKR 104
Cdd:TIGR02237   1 IDELLGGGVERGTITQIYGPPGSGKTNICMILAVNAARQGKKVVYIDTEGLSPERFKQIAEDR-------PERALSNFIV 73

                          90       100       110
                  ....*....|....*....|....*....|....*.
gi 398365443  105 VRITKFGQLLYFFQNLFKLSQSVRYKLVIIDGFSQL 140
Cdd:TIGR02237  74 FEVFDFDEQGVAIQKTSKFIDRDSASLVVVDSFTAL 109
radB PRK09361
DNA repair and recombination protein RadB; Provisional
 15-140 3.29e-10

DNA repair and recombination protein RadB; Provisional


Pssm-ID: 236482 [Multi-domain]  Cd Length: 225  Bit Score: 59.49  E-value: 3.29e-10
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 398365443  15 PKPLSSGITGLDEILNLGFQARSIYEIFGPPGIGKTNFGIQLVCNSLEgiqqseiNDDKILWIETfqEmpiNILRERFQk 94
Cdd:PRK09361   2 DERLPTGCKMLDELLGGGFERGTITQIYGPPGSGKTNICLQLAVEAAK-------NGKKVIYIDT--E---GLSPERFK- 68

                         90       100       110       120       130
                 ....*....|....*....|....*....|....*....|....*....|....*..
gi 398365443  95 fKIVEENVKRVritkFGQLLYF-----------FQNLFKLSQSvRYKLVIIDGFSQL 140
Cdd:PRK09361  69 -QIAGEDFEEL----LSNIIIFepssfeeqseaIRKAEKLAKE-NVGLIVLDSATSL 119
RecA-like cd01393
RecA family; RecA is a bacterial enzyme which has roles in homologous recombination, DNA ...
 37-192 4.82e-09

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: 55.44  E-value: 4.82e-09
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 398365443  37 SIYEIFGPPGIGKTNFGIQLVCNSLEGIQQseinddkILWIETFQEMPINILRERFQKFKIVEENVKRVritkFGQLLYF 116
Cdd:cd01393    2 KITEIYGPPGSGKTQLALQLAANALLLGGG-------VVWIDTEGAFPPSRLVQILEASPSSELELAEA----LSRLLYF 70

                         90       100       110       120       130       140       150       160
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 398365443 117 --------FQNLFKLSQSV----RYKLVIIDGFSQLV-CDhlctlskRGGGMIDKTIHELKCRHLILIFTVMTKYTHSTG 183
Cdd:cd01393   71 rppdtlahLLALDSLPESLfpppNTSLVVVDSVSALFrKA-------FPRGGDGDSSSSLRARLLSQLARALQKLAAQFN 143


                 ....*....
gi 398365443 184 STIIVLNDC 192
Cdd:cd01393  144 LAVVVTNQV 152
KaiC-like cd01124
Circadian Clock Protein KaiC; KaiC is a circadian clock protein, most studied in cyanobacteria. ...
 18-140 1.62e-08

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: 54.58  E-value: 1.62e-08
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 398365443  18 LSSGITGLDEILNLGFQARSIYEIFGPPGIGKTNFGIQLVCNSLEgiqqseiNDDKILWIeTFQEMPINILRERFQKF-- 95
Cdd:cd01124    1 VKTGIPGLDELLGGGIPKGSVTLLTGGPGTGKTLFGLQFLYAGAK-------NGEPGLFF-TFEESPERLLRNAKSFGwd 72

                         90       100       110       120       130
                 ....*....|....*....|....*....|....*....|....*....|..
gi 398365443  96 ---KIVEENVKRVRITKFGQLLYFFQNLF-KLSQSVR---YKLVIIDGFSQL 140
Cdd:cd01124   73 fdeMEDEGKLIIVDAPPTEAGRFSLDELLsRILSIIKsfkAKRVVIDSLSGL 124
Rad51B cd19493
RAD51B recombinase; RAD51B recombinase, a RAD51 paralog, plays an important role in DNA repair ...
 26-141 1.62e-07

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: 51.55  E-value: 1.62e-07
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 398365443  26 DEILNLGFQARSIYEIFGPPGIGKTNFGIQLVCNSLEGIQQSEINDDkILWIET----FQEMPINILRERFQKFK----- 96
Cdd:cd19493    1 DTALAGGLPLGAITEITGASGSGKTQFALTLASSAAMPARKGGLDGG-VLYIDTeskfSAERLAEIAEARFPEAFsgfme 79

                         90       100       110       120       130
                 ....*....|....*....|....*....|....*....|....*....|.
gi 398365443  97 ---IVEENVKRVRITK---FGQLLYFFQNLFKLSQSVRYKLVIIDGFSQLV 141
Cdd:cd19493   80 eneRAEEMLKRVAVVRvttLAQLLERLPNLEEHILSSGVRLVVIDSIAALV 130
ATPase pfam06745
KaiC; This family is in the P-loop NTPase superfamily and is found in archaea, bacteria and ...
 18-95 1.98e-06

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: 48.40  E-value: 1.98e-06
                          10        20        30        40        50        60        70
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*...
gi 398365443   18 LSSGITGLDEILNLGFQARSIYEIFGPPGIGKTNFGIQLVcnslegIQQSEINDDKILWIeTFQEMPINIlRERFQKF 95
Cdd:pfam06745   1 VKTGIPGLDEILKGGFPEGRVVLITGGPGTGKTIFGLQFL------YNGALKYGEPGVFV-TLEEPPEDL-RENARSF 70
Rad51C cd19492
RAD51C recombinase; RAD51C recombinase, a RAD51 paralog, plays an important role in DNA repair ...
 36-138 2.63e-06

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: 47.22  E-value: 2.63e-06
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 398365443  36 RSIYEIFGPPGIGKTNFGIQLVCN-----SLEGIQqseindDKILWIETfqEMPINILrerfqkfkiveenvkRVRITKF 110
Cdd:cd19492    1 GKITEICGVPGVGKTQLCMQLAVNvqipkCFGGLA------GEAIYIDT--EGSFNIH---------------YFRVHDY 57

                         90       100
                 ....*....|....*....|....*....
gi 398365443 111 GQLLYFFQNLFK-LSQSVRYKLVIIDGFS 138
Cdd:cd19492   58 VELLALINSLPKfLEDHPKVKLIVVDSIA 86
PRK04328 PRK04328
hypothetical protein; Provisional
 16-62 9.11e-06

hypothetical protein; Provisional


Pssm-ID: 235281  Cd Length: 249  Bit Score: 46.61  E-value: 9.11e-06
                         10        20        30        40
                 ....*....|....*....|....*....|....*....|....*..
gi 398365443  16 KPLSSGITGLDEILNLGFQARSIYEIFGPPGIGKTNFGIQLVCNSLE 62
Cdd:PRK04328   3 KRVKTGIPGMDEILYGGIPERNVVLLSGGPGTGKSIFSQQFLWNGLQ 49
KaiC-like_N cd19488
N-terminal domain of KaiC family protein; uncharacterized subfamily; KaiC is a circadian clock ...
 18-83 1.32e-05

N-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: 410896 [Multi-domain]  Cd Length: 225  Bit Score: 45.80  E-value: 1.32e-05
                         10        20        30        40        50        60
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....
gi 398365443  18 LSSGITGLDEILNLGFQARSIYEIFGPPGIGKTNFGIQLVcnsLEGIQqseiNDDKILWI---ETFQEM 83
Cdd:cd19488    1 ISTGIPGLDDILRGGLPPRRLYLVEGAPGTGKTTLALQFL---LEGAA----NGETGLYItlsETEQEL 62
KaiC_arch cd19486
KaiC family protein; uncharacterized subfamily similar to Pyrococcus horikoshii PH0284; KaiC ...
 18-62 4.87e-05

KaiC family protein; uncharacterized subfamily similar to Pyrococcus horikoshii PH0284; 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: 410894  Cd Length: 230  Bit Score: 44.39  E-value: 4.87e-05
                         10        20        30        40
                 ....*....|....*....|....*....|....*....|....*
gi 398365443  18 LSSGITGLDEILNLGFQARSIYEIFGPPGIGKTNFGIQLVCNSLE 62
Cdd:cd19486    1 VKTGIPGMDEILHGGIPERNVVLLSGGPGTGKSIFSQQFLWNGLK 45
KaiC_arch_3 TIGR03880
KaiC domain protein, AF_0351 family; This model represents a rather narrowly distributed ...
 21-81 1.25e-04

KaiC domain protein, AF_0351 family; This model represents a rather narrowly distributed archaeal protein family in which members have a single copy of the KaiC domain. This stands in contrast to the circadian clock protein KaiC itself, with two copies of the domain. Members are expected to have weak ATPase activity, by homology to the autokinase/autophosphorylase KaiC itself.


Pssm-ID: 163592  Cd Length: 224  Bit Score: 43.16  E-value: 1.25e-04
                          10        20        30        40        50        60
                  ....*....|....*....|....*....|....*....|....*....|....*....|.
gi 398365443   21 GITGLDEILNLGFQARSIYEIFGPPGIGKTNFGIQLVCNSLegiqqseINDDKILWIETFQ 81
Cdd:TIGR03880   1 GIPGLDEMLGGGFPEGHVIVVIGEYGTGKTTFSLQFLYQGL-------KNGEKAMYISLEE 54
KaiC-like_C cd19487
C-terminal domain of KaiC family protein; uncharacterized subfamily; KaiC is a circadian clock ...
 18-57 2.54e-04

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: 41.90  E-value: 2.54e-04
                         10        20        30        40
                 ....*....|....*....|....*....|....*....|
gi 398365443  18 LSSGITGLDEILNLGFQARSIYEIFGPPGIGKTNFGIQLV 57
Cdd:cd19487    1 VSSGVPELDELLGGGLERGTSTLLIGPAGVGKSTLALQFA 40
XRCC3 cd19491
XRCC3 recombinase; XRCC3 (X-ray repair complementing defective repair in Chinese hamster cells ...
 25-56 2.56e-04

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: 42.28  E-value: 2.56e-04
                         10        20        30
                 ....*....|....*....|....*....|..
gi 398365443  25 LDEILNLGFQARSIYEIFGPPGIGKTNFGIQL 56
Cdd:cd19491    1 LDELLGGGIPVGGITEIAGESGAGKTQLCLQL 32
Rad51 pfam08423
Rad51; Rad51 is a DNA repair and recombination protein and is a homolog of the bacterial ...
 18-135 7.04e-04

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: 41.13  E-value: 7.04e-04
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 398365443   18 LSSGITGLDEILNLGFQARSIYEIFGPPGIGKTNFGIQLVCNSLEGIQQSEINdDKILWIET---FQEMPINILRERFQ- 93
Cdd:pfam08423  19 ITTGSKELDKLLGGGIETGSITEIFGEFRTGKTQLCHTLCVTCQLPLEMGGGE-GKALYIDTegtFRPERLVAIAERYGl 97

                          90       100       110       120
                  ....*....|....*....|....*....|....*....|..
gi 398365443   94 KFKIVEENVKRVRITKFGQLLYFFQNLFKLSQSVRYKLVIID 135
Cdd:pfam08423  98 DPEDVLDNVAYARAYNSEHQMQLLQQAAAMMSESRFALLIVD 139
Rad51_DMC1_archRadA cd01123
recombinase Rad51, DMC1, and archaeal RadA; This group of recombinases includes the eukaryotic ...
 18-140 7.65e-04

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: 40.59  E-value: 7.65e-04
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 398365443  18 LSSGITGLDEILNLGFQARSIYEIFGPPGIGKTnfgiQLvCNSLEGIQQSEIN----DDKILWIETFQEMPINILRERFQ 93
Cdd:cd01123    1 ITTGSKELDKLLGGGIETGSITEMFGEFRTGKT----QL-CHTLAVTCQLPIDrgggEGKAIYIDTEGTFRPERLRAIAQ 75

                         90       100       110       120       130
                 ....*....|....*....|....*....|....*....|....*....|..
gi 398365443  94 KFKI----VEENVKRVR-ITKFGQLLYFFQNLFKLSQSvRYKLVIIDGFSQL 140
Cdd:cd01123   76 RFGLdpddVLDNVAYARaFNSDHQTQLLDQAAAMMVES-RFKLLIVDSATAL 126
radA PRK04301
DNA repair and recombination protein RadA; Validated
 18-59 1.28e-03

DNA repair and recombination protein RadA; Validated


Pssm-ID: 235273 [Multi-domain]  Cd Length: 317  Bit Score: 40.63  E-value: 1.28e-03
                         10        20        30        40
                 ....*....|....*....|....*....|....*....|..
gi 398365443  18 LSSGITGLDEILNLGFQARSIYEIFGPPGIGKTNFGIQLVCN 59
Cdd:PRK04301  84 ITTGSKELDELLGGGIETQSITEFYGEFGSGKTQICHQLAVN 125
archRadA cd19515
archaeal recombinase Rad51/RadA; This group includes the archaeal protein RadA which is a ...
 18-59 2.99e-03

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: 38.88  E-value: 2.99e-03
                         10        20        30        40
                 ....*....|....*....|....*....|....*....|..
gi 398365443  18 LSSGITGLDEILNLGFQARSIYEIFGPPGIGKTNFGIQLVCN 59
Cdd:cd19515    1 ISTGSKELDKLLGGGIETQAITEVFGEFGSGKTQLCHQLAVN 42
RadA_SMS_N cd01121
bacterial RadA DNA repair protein; Sms or bacterial RadA is a DNA repair protein that plays a ...
 5-135 5.57e-03

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: 38.28  E-value: 5.57e-03
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 398365443   5 IPLSQLIVESPKPLSSGITGLDEILNLGFQARSIYEIFGPPGIGKTNFGIQLVCNslegIQQSEInddKILWI---ETFQ 81
Cdd:cd01121   51 LPLSDVEAEEEERISTGIGELDRVLGGGLVPGSVVLIGGDPGIGKSTLLLQVAAR----LAQRGG---KVLYVsgeESLS 123

                         90       100       110       120       130
                 ....*....|....*....|....*....|....*....|....*....|....
gi 398365443  82 EmpiniLRERFQKFKIVEENVKRVRITKfgqllyfFQNLFKLSQSVRYKLVIID 135
Cdd:cd01121  124 Q-----IKLRAERLGLGSDNLYLLAETN-------LEAILAEIEELKPSLVVID 165
 
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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