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Conserved domains on  [gi|2739812469|ref|WP_348689270|]
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MULTISPECIES: topoisomerase DNA-binding C4 zinc finger domain-containing protein [unclassified Pseudoalteromonas]

Protein Classification

Graphical summary

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List of domain hits

 Name Accession Description Interval E-value
YrdD super family cl33943
DNA topoisomerase I, ssDNA-binding Zn-finger and Zn-ribbon domains [Replication, recombination ...
 2-34 2.07e-08

DNA topoisomerase I, ssDNA-binding Zn-finger and Zn-ribbon domains [Replication, recombination and repair];


The actual alignment was detected with superfamily member COG0551:

Pssm-ID: 440317 [Multi-domain]  Cd Length: 695  Bit Score: 47.17  E-value: 2.07e-08
                          10        20        30
                  ....*....|....*....|....*....|...
gi 2739812469   2 CSRCGEKMILRKAKKGTnignTFFGCSAFPKCR 34
Cdd:COG0551   631 CPKCGKKLVLRKSKKGK----VFYGCSNYPKCK 659
 
Name Accession Description Interval E-value
YrdD COG0551
DNA topoisomerase I, ssDNA-binding Zn-finger and Zn-ribbon domains [Replication, recombination ...
 2-34 2.07e-08

DNA topoisomerase I, ssDNA-binding Zn-finger and Zn-ribbon domains [Replication, recombination and repair];


Pssm-ID: 440317 [Multi-domain]  Cd Length: 695  Bit Score: 47.17  E-value: 2.07e-08
                          10        20        30
                  ....*....|....*....|....*....|...
gi 2739812469   2 CSRCGEKMILRKAKKGTnignTFFGCSAFPKCR 34
Cdd:COG0551   631 CPKCGKKLVLRKSKKGK----VFYGCSNYPKCK 659
PRK07220 PRK07220
DNA topoisomerase I; Validated
 2-36 4.58e-06

DNA topoisomerase I; Validated


Pssm-ID: 180892 [Multi-domain]  Cd Length: 740  Bit Score: 40.13  E-value: 4.58e-06
                          10        20        30
                  ....*....|....*....|....*....|....*
gi 2739812469   2 CSRCGEKMILRKAKKGTNigntFFGCSAFPKCRNS 36
Cdd:PRK07220  592 CPLCGSDLMVRRSKRGSR----FIGCEGYPECTFS 622
zf-C4_Topoisom pfam01396
Topoisomerase DNA binding C4 zinc finger;
2-39 3.15e-04

Topoisomerase DNA binding C4 zinc finger;


Pssm-ID: 307520 [Multi-domain]  Cd Length: 39  Bit Score: 33.00  E-value: 3.15e-04
                         10        20        30
                 ....*....|....*....|....*....|....*...
gi 2739812469  2 CSRCGEKMILRKAKKGTnigntFFGCSAFPKCRNSVEI 39
Cdd:pfam01396  4 CPKCGGDLVLKRGRFGK-----FVGCSNYPECRFTRPL 36
 
Name Accession Description Interval E-value
YrdD COG0551
DNA topoisomerase I, ssDNA-binding Zn-finger and Zn-ribbon domains [Replication, recombination ...
 2-34 2.07e-08

DNA topoisomerase I, ssDNA-binding Zn-finger and Zn-ribbon domains [Replication, recombination and repair];


Pssm-ID: 440317 [Multi-domain]  Cd Length: 695  Bit Score: 47.17  E-value: 2.07e-08
                          10        20        30
                  ....*....|....*....|....*....|...
gi 2739812469   2 CSRCGEKMILRKAKKGTnignTFFGCSAFPKCR 34
Cdd:COG0551   631 CPKCGKKLVLRKSKKGK----VFYGCSNYPKCK 659
YrdD COG0551
DNA topoisomerase I, ssDNA-binding Zn-finger and Zn-ribbon domains [Replication, recombination ...
 2-35 5.28e-07

DNA topoisomerase I, ssDNA-binding Zn-finger and Zn-ribbon domains [Replication, recombination and repair];


Pssm-ID: 440317 [Multi-domain]  Cd Length: 695  Bit Score: 42.93  E-value: 5.28e-07
                          10        20        30
                  ....*....|....*....|....*....|....
gi 2739812469   2 CSRCGEKMILRKAKKGTnigntFFGCSAFPKCRN 35
Cdd:COG0551   589 CPKCGKPLVIKKGRYGK-----FLGCSNYPECKY 617
PRK07220 PRK07220
DNA topoisomerase I; Validated
 2-36 4.58e-06

DNA topoisomerase I; Validated


Pssm-ID: 180892 [Multi-domain]  Cd Length: 740  Bit Score: 40.13  E-value: 4.58e-06
                          10        20        30
                  ....*....|....*....|....*....|....*
gi 2739812469   2 CSRCGEKMILRKAKKGTNigntFFGCSAFPKCRNS 36
Cdd:PRK07220  592 CPLCGSDLMVRRSKRGSR----FIGCEGYPECTFS 622
PRK07219 PRK07219
DNA topoisomerase I; Validated
 2-36 9.39e-06

DNA topoisomerase I; Validated


Pssm-ID: 235971 [Multi-domain]  Cd Length: 822  Bit Score: 39.21  E-value: 9.39e-06
                          10        20        30
                  ....*....|....*....|....*....|....*
gi 2739812469   2 CSRCGEKMILRKAKKGTNigntFFGCSAFPKCRNS 36
Cdd:PRK07219  605 CPECGGDLIIIRTDKGSR----FVGCSGYPDCRNT 635
PRK06599 PRK06599
DNA topoisomerase I; Validated
 1-39 8.60e-05

DNA topoisomerase I; Validated


Pssm-ID: 235840 [Multi-domain]  Cd Length: 675  Bit Score: 36.76  E-value: 8.60e-05
                          10        20        30        40
                  ....*....|....*....|....*....|....*....|
gi 2739812469   1 MCSRCGEK-MILRKAKKGTnigntFFGCSAFPKCRNSVEI 39
Cdd:PRK06599  587 TCPKCGGGpLVLKLGKNGK-----FLGCSGYPECKYTKNI 621
PRK06319 PRK06319
DNA topoisomerase I/SWI domain fusion protein; Validated
 2-39 1.08e-04

DNA topoisomerase I/SWI domain fusion protein; Validated


Pssm-ID: 235778 [Multi-domain]  Cd Length: 860  Bit Score: 36.34  E-value: 1.08e-04
                          10        20        30
                  ....*....|....*....|....*....|....*...
gi 2739812469   2 CSRCGEKMILRKAKKGTnigntFFGCSAFPKCRNSVEI 39
Cdd:PRK06319  648 CPLCGGEMKVRHGRFGT-----FLGCENYPECRGIINI 680
zf-C4_Topoisom pfam01396
Topoisomerase DNA binding C4 zinc finger;
2-39 3.15e-04

Topoisomerase DNA binding C4 zinc finger;


Pssm-ID: 307520 [Multi-domain]  Cd Length: 39  Bit Score: 33.00  E-value: 3.15e-04
                         10        20        30
                 ....*....|....*....|....*....|....*...
gi 2739812469  2 CSRCGEKMILRKAKKGTnigntFFGCSAFPKCRNSVEI 39
Cdd:pfam01396  4 CPKCGGDLVLKRGRFGK-----FVGCSNYPECRFTRPL 36
PRK06599 PRK06599
DNA topoisomerase I; Validated
 2-35 4.12e-04

DNA topoisomerase I; Validated


Pssm-ID: 235840 [Multi-domain]  Cd Length: 675  Bit Score: 34.83  E-value: 4.12e-04
                          10        20        30
                  ....*....|....*....|....*....|....
gi 2739812469   2 CSRCGEKMILRKAKKGTnigntFFGCSAFPKCRN 35
Cdd:PRK06599  640 CPKCGGPLVLKKGRYGK-----FLACSGYPECKH 668
PRK07219 PRK07219
DNA topoisomerase I; Validated
 2-33 6.42e-04

DNA topoisomerase I; Validated


Pssm-ID: 235971 [Multi-domain]  Cd Length: 822  Bit Score: 34.21  E-value: 6.42e-04
                          10        20        30
                  ....*....|....*....|....*....|..
gi 2739812469   2 CSRCGEKMILRKAKKGTnigntFFGCSAFPKC 33
Cdd:PRK07219  691 CPKCGGELAIKQLKYGS-----FLGCTNYPKC 717
 
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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