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Conserved domains on  [gi|19114485|ref|NP_593573|]
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RAD51D-like protein 1 [Schizosaccharomyces pombe]

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 ...
 28-150 1.57e-13

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 cd19489:

Pssm-ID: 476819 [Multi-domain]  Cd Length: 209  Bit Score: 66.89  E-value: 1.57e-13
                        10        20        30        40        50        60        70        80
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 19114485  28 DRIMWIDTLGTFNP-------------AALPLPCLEKTMLVRSFDAQGLKDAVDELESNLKSSEDQAYA----LCIDSFS 90
Cdd:cd19489  37 QNVLYIDTKSSFSArrlaqilksraqdAEEIDKALQRIRVVRVFDPYELLDLLEELRNTLSQQQENLYSrlklVIIDSLS 116

                        90       100       110       120       130       140
                ....*....|....*....|....*....|....*....|....*....|....*....|...
gi 19114485  91 NPIGLLMAQGNISFAHAFMMTLGRKCRILTRKFRLAVYLSTSLVY---IKQLHLSKPALGNSW 150
Cdd:cd19489 117 ALISPLLGGSKHSEGHALLASLARLLKKLAAEYQIAVLVTNLTVRggdGGQQGSTKPALGEYW 179
 
Name Accession Description Interval E-value
Rad51D cd19489
RAD51D recombinase; RAD51D recombinase, a RAD51 paralog, plays an important role in DNA repair ...
 28-150 1.57e-13

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: 66.89  E-value: 1.57e-13
                        10        20        30        40        50        60        70        80
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 19114485  28 DRIMWIDTLGTFNP-------------AALPLPCLEKTMLVRSFDAQGLKDAVDELESNLKSSEDQAYA----LCIDSFS 90
Cdd:cd19489  37 QNVLYIDTKSSFSArrlaqilksraqdAEEIDKALQRIRVVRVFDPYELLDLLEELRNTLSQQQENLYSrlklVIIDSLS 116

                        90       100       110       120       130       140
                ....*....|....*....|....*....|....*....|....*....|....*....|...
gi 19114485  91 NPIGLLMAQGNISFAHAFMMTLGRKCRILTRKFRLAVYLSTSLVY---IKQLHLSKPALGNSW 150
Cdd:cd19489 117 ALISPLLGGSKHSEGHALLASLARLLKKLAAEYQIAVLVTNLTVRggdGGQQGSTKPALGEYW 179
 
Name Accession Description Interval E-value
Rad51D cd19489
RAD51D recombinase; RAD51D recombinase, a RAD51 paralog, plays an important role in DNA repair ...
 28-150 1.57e-13

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: 66.89  E-value: 1.57e-13
                        10        20        30        40        50        60        70        80
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 19114485  28 DRIMWIDTLGTFNP-------------AALPLPCLEKTMLVRSFDAQGLKDAVDELESNLKSSEDQAYA----LCIDSFS 90
Cdd:cd19489  37 QNVLYIDTKSSFSArrlaqilksraqdAEEIDKALQRIRVVRVFDPYELLDLLEELRNTLSQQQENLYSrlklVIIDSLS 116

                        90       100       110       120       130       140
                ....*....|....*....|....*....|....*....|....*....|....*....|...
gi 19114485  91 NPIGLLMAQGNISFAHAFMMTLGRKCRILTRKFRLAVYLSTSLVY---IKQLHLSKPALGNSW 150
Cdd:cd19489 117 ALISPLLGGSKHSEGHALLASLARLLKKLAAEYQIAVLVTNLTVRggdGGQQGSTKPALGEYW 179
 
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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