NCBI Home Page NCBI Site Search page NCBI Guide that lists and describes the NCBI resources
Conserved domains on  [gi|1843908069|ref|WP_171339306|]
View 

topoisomerase DNA-binding C4 zinc finger domain-containing protein, partial [Acinetobacter baumannii]

Protein Classification

Graphical summary

 Zoom to residue level

show extra options »

Show site features     Horizontal zoom: ×

List of domain hits

 Name Accession Description Interval E-value
PRK06599 super family cl35498
DNA topoisomerase I; Validated
 5-92 3.34e-33

DNA topoisomerase I; Validated


The actual alignment was detected with superfamily member PRK06599:

Pssm-ID: 235840 [Multi-domain]  Cd Length: 675  Bit Score: 120.35  E-value: 3.34e-33
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1843908069   5 NEPCPQC-GAELVIRSGKHGPFLGCSRYPECDYVRPLKSQADG--HIVKILEGQLCPECGAVLVLRQGRFGMFIGCSQYP 81
Cdd:PRK06599  585 DETCPKCgGGPLVLKLGKNGKFLGCSGYPECKYTKNITRDEDEpiEEEEIVEEEKCPKCGGPLVLKKGRYGKFLACSGYP 664

                          90
                  ....*....|.
gi 1843908069  82 QCEHTVVIDKP 92
Cdd:PRK06599  665 ECKHIKPLEKP 675
 
Name Accession Description Interval E-value
PRK06599 PRK06599
DNA topoisomerase I; Validated
 5-92 3.34e-33

DNA topoisomerase I; Validated


Pssm-ID: 235840 [Multi-domain]  Cd Length: 675  Bit Score: 120.35  E-value: 3.34e-33
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1843908069   5 NEPCPQC-GAELVIRSGKHGPFLGCSRYPECDYVRPLKSQADG--HIVKILEGQLCPECGAVLVLRQGRFGMFIGCSQYP 81
Cdd:PRK06599  585 DETCPKCgGGPLVLKLGKNGKFLGCSGYPECKYTKNITRDEDEpiEEEEIVEEEKCPKCGGPLVLKKGRYGKFLACSGYP 664

                          90
                  ....*....|.
gi 1843908069  82 QCEHTVVIDKP 92
Cdd:PRK06599  665 ECKHIKPLEKP 675
YrdD COG0551
DNA topoisomerase I, ssDNA-binding Zn-finger and Zn-ribbon domains [Replication, recombination ...
 6-100 8.53e-33

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: 119.58  E-value: 8.53e-33
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1843908069   6 EPCPQCGAELVIRSGKHGPFLGCSRYPECDYVRPLKSqadghivKILEGQLCPECGAVLVLRQGRFGM-FIGCSQYPQCE 84
Cdd:COG0551   587 EKCPKCGKPLVIKKGRYGKFLGCSNYPECKYTKPLPK-------PEVTGVKCPKCGKKLVLRKSKKGKvFYGCSNYPKCK 659

                          90
                  ....*....|....*.
gi 1843908069  85 HTVvidKPDETAIACP 100
Cdd:COG0551   660 FTE---WDKPVKEPCP 672
zf-C4_Topoisom pfam01396
Topoisomerase DNA binding C4 zinc finger;
8-43 2.50e-12

Topoisomerase DNA binding C4 zinc finger;


Pssm-ID: 307520 [Multi-domain]  Cd Length: 39  Bit Score: 56.11  E-value: 2.50e-12
                          10        20        30
                  ....*....|....*....|....*....|....*.
gi 1843908069   8 CPQCGAELVIRSGKHGPFLGCSRYPECDYVRPLKSQ 43
Cdd:pfam01396   4 CPKCGGDLVLKRGRFGKFVGCSNYPECRFTRPLKKN 39
topA_arch TIGR01057
DNA topoisomerase I, archaeal; This model describes topoisomerase I from archaea. These ...
 8-34 1.91e-06

DNA topoisomerase I, archaeal; This model describes topoisomerase I from archaea. These enzymes are involved in the control of DNA topology. DNA topoisomerase I belongs to the type I topoisomerases, which are ATP-independent. [DNA metabolism, DNA replication, recombination, and repair]


Pssm-ID: 273420 [Multi-domain]  Cd Length: 618  Bit Score: 44.43  E-value: 1.91e-06
                          10        20
                  ....*....|....*....|....*..
gi 1843908069   8 CPQCGAELVIRSGKHGPFLGCSRYPEC 34
Cdd:TIGR01057 592 CPKCGGKLVSKYAKKGRFVGCSNYPEC 618
 
Name Accession Description Interval E-value
PRK06599 PRK06599
DNA topoisomerase I; Validated
 5-92 3.34e-33

DNA topoisomerase I; Validated


Pssm-ID: 235840 [Multi-domain]  Cd Length: 675  Bit Score: 120.35  E-value: 3.34e-33
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1843908069   5 NEPCPQC-GAELVIRSGKHGPFLGCSRYPECDYVRPLKSQADG--HIVKILEGQLCPECGAVLVLRQGRFGMFIGCSQYP 81
Cdd:PRK06599  585 DETCPKCgGGPLVLKLGKNGKFLGCSGYPECKYTKNITRDEDEpiEEEEIVEEEKCPKCGGPLVLKKGRYGKFLACSGYP 664

                          90
                  ....*....|.
gi 1843908069  82 QCEHTVVIDKP 92
Cdd:PRK06599  665 ECKHIKPLEKP 675
YrdD COG0551
DNA topoisomerase I, ssDNA-binding Zn-finger and Zn-ribbon domains [Replication, recombination ...
 6-100 8.53e-33

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: 119.58  E-value: 8.53e-33
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1843908069   6 EPCPQCGAELVIRSGKHGPFLGCSRYPECDYVRPLKSqadghivKILEGQLCPECGAVLVLRQGRFGM-FIGCSQYPQCE 84
Cdd:COG0551   587 EKCPKCGKPLVIKKGRYGKFLGCSNYPECKYTKPLPK-------PEVTGVKCPKCGKKLVLRKSKKGKvFYGCSNYPKCK 659

                          90
                  ....*....|....*.
gi 1843908069  85 HTVvidKPDETAIACP 100
Cdd:COG0551   660 FTE---WDKPVKEPCP 672
PRK07219 PRK07219
DNA topoisomerase I; Validated
 7-86 2.53e-26

DNA topoisomerase I; Validated


Pssm-ID: 235971 [Multi-domain]  Cd Length: 822  Bit Score: 100.85  E-value: 2.53e-26
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1843908069   7 PCPQCGAELVIRSGKHGPFLGCSRYPECDYVRPLKSQADghiVKILEGQlCPECGAVLVLRQGRFGMFIGCSQYPQCEHT 86
Cdd:PRK07219  690 PCPKCGGELAIKQLKYGSFLGCTNYPKCKYTLPLPRRGK---ITVTDEK-CPECGLPLLRVKGGFGDELGCCNNPKCNYT 765
YrdD COG0551
DNA topoisomerase I, ssDNA-binding Zn-finger and Zn-ribbon domains [Replication, recombination ...
 47-100 1.03e-22

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: 90.69  E-value: 1.03e-22
                          10        20        30        40        50
                  ....*....|....*....|....*....|....*....|....*....|....
gi 1843908069  47 HIVKILEGQLCPECGAVLVLRQGRFGMFIGCSQYPQCEHTVVIDKPDETAIACP 100
Cdd:COG0551   579 SEEDEVLGEKCPKCGKPLVIKKGRYGKFLGCSNYPECKYTKPLPKPEVTGVKCP 632
PRK07219 PRK07219
DNA topoisomerase I; Validated
 7-86 3.18e-22

DNA topoisomerase I; Validated


Pssm-ID: 235971 [Multi-domain]  Cd Length: 822  Bit Score: 89.29  E-value: 3.18e-22
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1843908069   7 PCPQCGAELVIRSGKHGP-FLGCSRYPECDYVRPLKSQA------------DGHIVKILEGQL----------------- 56
Cdd:PRK07219  604 KCPECGGDLIIIRTDKGSrFVGCSGYPDCRNTFPLPSTGrikvldevcekcGLPVIKILRGKQtfvvgcpdceaekeeed 683

                          90       100       110
                  ....*....|....*....|....*....|....*..
gi 1843908069  57 -------CPECGAVLVLRQGRFGMFIGCSQYPQCEHT 86
Cdd:PRK07219  684 pdevigpCPKCGGELAIKQLKYGSFLGCTNYPKCKYT 720
PRK06319 PRK06319
DNA topoisomerase I/SWI domain fusion protein; Validated
 8-100 9.71e-20

DNA topoisomerase I/SWI domain fusion protein; Validated


Pssm-ID: 235778 [Multi-domain]  Cd Length: 860  Bit Score: 82.18  E-value: 9.71e-20
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1843908069   8 CPQC-GAELVIRSGKHGPFLGCSRYPECDYVRP---LKSQADGHIVKILEGQLCPECGAVLVLRQGRFGMFIGCSQYPQC 83
Cdd:PRK06319  595 CPKChKGKLVKIWAKNRYFYGCSEYPECDYKTSeeeLTFNKEDYAEDTPWDSPCPLCGGEMKVRHGRFGTFLGCENYPEC 674

                          90       100
                  ....*....|....*....|...
gi 1843908069  84 EHTVVIDKPDETA------IACP 100
Cdd:PRK06319  675 RGIINIHKKGEEGiepeetVPCP 697
PRK06319 PRK06319
DNA topoisomerase I/SWI domain fusion protein; Validated
 5-83 1.63e-17

DNA topoisomerase I/SWI domain fusion protein; Validated


Pssm-ID: 235778 [Multi-domain]  Cd Length: 860  Bit Score: 76.01  E-value: 1.63e-17
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1843908069   5 NEPCPQCGAELVIRSGKHGPFLGCSRYPECDYVRPLKSQADgHIVKILEGQLCP--ECGAVLVLRQGRFG-MFIGCSQYP 81
Cdd:PRK06319  645 DSPCPLCGGEMKVRHGRFGTFLGCENYPECRGIINIHKKGE-EGIEPEETVPCPaiGCTGHIVKRRSRFNkMFYSCSEYP 723


                  ..
gi 1843908069  82 QC 83
Cdd:PRK06319  724 AC 725
YrdD COG0551
DNA topoisomerase I, ssDNA-binding Zn-finger and Zn-ribbon domains [Replication, recombination ...
 5-85 3.35e-17

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: 74.90  E-value: 3.35e-17
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1843908069   5 NEPCPQCGAELVIRSGKHG-PFLGCSRYPECDYVRPLKSQADghivkilegqLCPECGAVLVLRQGRFgmfiGCSQYpQC 83
Cdd:COG0551   628 GVKCPKCGKKLVLRKSKKGkVFYGCSNYPKCKFTEWDKPVKE----------PCPKCGSPLVEKKTKK----GCANK-LC 692


                  ..
gi 1843908069  84 EH 85
Cdd:COG0551   693 GY 694
PRK07561 PRK07561
DNA topoisomerase I subunit omega; Validated
 2-75 2.77e-15

DNA topoisomerase I subunit omega; Validated


Pssm-ID: 236048 [Multi-domain]  Cd Length: 859  Bit Score: 69.44  E-value: 2.77e-15
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1843908069   2 VRKNEPCPQCGAELVIRSGKHGPFLGCSRY---PECDYVRPLKSqaDGHIVKILEG--------QLCPECGAVLVLRQGR 70
Cdd:PRK07561  584 VITDRDCPTCGRGMGIRTGKTGVFLGCSGYalkERCKTTRNLTP--EEETLNVLEGedaetralGADPECGTAMVLRSGR 661


                  ....*
gi 1843908069  71 FGMFI 75
Cdd:PRK07561  662 FGPYV 666
PRK06599 PRK06599
DNA topoisomerase I; Validated
 2-41 2.63e-13

DNA topoisomerase I; Validated


Pssm-ID: 235840 [Multi-domain]  Cd Length: 675  Bit Score: 63.72  E-value: 2.63e-13
                          10        20        30        40
                  ....*....|....*....|....*....|....*....|
gi 1843908069   2 VRKNEPCPQCGAELVIRSGKHGPFLGCSRYPECDYVRPLK 41
Cdd:PRK06599  634 IVEEEKCPKCGGPLVLKKGRYGKFLACSGYPECKHIKPLE 673
PRK07220 PRK07220
DNA topoisomerase I; Validated
 7-83 2.20e-12

DNA topoisomerase I; Validated


Pssm-ID: 180892 [Multi-domain]  Cd Length: 740  Bit Score: 61.31  E-value: 2.20e-12
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1843908069   7 PCPQCGAELVIRSGKHGP-FLGCSRYPECDYVRPL-KSqadGHIvkILEGQLCPECGA--VLVLRQGRFGMFIGCsqyPQ 82
Cdd:PRK07220  591 KCPLCGSDLMVRRSKRGSrFIGCEGYPECTFSLPLpKS---GQI--IVTDKVCEAHGLnhIRIINGGKRPWDLGC---PQ 662


                  .
gi 1843908069  83 C 83
Cdd:PRK07220  663 C 663
zf-C4_Topoisom pfam01396
Topoisomerase DNA binding C4 zinc finger;
8-43 2.50e-12

Topoisomerase DNA binding C4 zinc finger;


Pssm-ID: 307520 [Multi-domain]  Cd Length: 39  Bit Score: 56.11  E-value: 2.50e-12
                          10        20        30
                  ....*....|....*....|....*....|....*.
gi 1843908069   8 CPQCGAELVIRSGKHGPFLGCSRYPECDYVRPLKSQ 43
Cdd:pfam01396   4 CPKCGGDLVLKRGRFGKFVGCSNYPECRFTRPLKKN 39
zf-C4_Topoisom pfam01396
Topoisomerase DNA binding C4 zinc finger;
54-91 1.74e-11

Topoisomerase DNA binding C4 zinc finger;


Pssm-ID: 307520 [Multi-domain]  Cd Length: 39  Bit Score: 53.80  E-value: 1.74e-11
                          10        20        30
                  ....*....|....*....|....*....|....*...
gi 1843908069  54 GQLCPECGAVLVLRQGRFGMFIGCSQYPQCEHTVVIDK 91
Cdd:pfam01396   1 GGKCPKCGGDLVLKRGRFGKFVGCSNYPECRFTRPLKK 38
PRK06599 PRK06599
DNA topoisomerase I; Validated
 50-98 3.34e-10

DNA topoisomerase I; Validated


Pssm-ID: 235840 [Multi-domain]  Cd Length: 675  Bit Score: 54.86  E-value: 3.34e-10
                          10        20        30        40        50
                  ....*....|....*....|....*....|....*....|....*....|
gi 1843908069  50 KILEGQLCPEC-GAVLVLRQGRFGMFIGCSQYPQCEHTVVIDKPDETAIA 98
Cdd:PRK06599  581 QEETDETCPKCgGGPLVLKLGKNGKFLGCSGYPECKYTKNITRDEDEPIE 630
PRK14973 PRK14973
DNA topoisomerase I; Provisional
 7-85 5.23e-09

DNA topoisomerase I; Provisional


Pssm-ID: 184936 [Multi-domain]  Cd Length: 936  Bit Score: 51.77  E-value: 5.23e-09
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1843908069   7 PCPQCGAELVIRSGKHGPFLGCSRYPECDYVRPLKSQADGHIVKILEgqLCPECGA--VLVLRQGRFGMFIGCsqyPQCE 84
Cdd:PRK14973  590 PCPVCGKDLRIKHIGSSQFIGCSGYPDCTFNIGLPGTTWGWAIRTDE--VCPIHHLnhVRLIRKGARPWDIGC---PLCS 664


                  .
gi 1843908069  85 H 85
Cdd:PRK14973  665 H 665
PRK07561 PRK07561
DNA topoisomerase I subunit omega; Validated
 49-96 2.93e-08

DNA topoisomerase I subunit omega; Validated


Pssm-ID: 236048 [Multi-domain]  Cd Length: 859  Bit Score: 49.41  E-value: 2.93e-08
                          10        20        30        40        50
                  ....*....|....*....|....*....|....*....|....*....|.
gi 1843908069  49 VKILEGQLCPECGAVLVLRQGRFGMFIGCSQY---PQCEHTVVIDKPDETA 96
Cdd:PRK07561  582 QMVITDRDCPTCGRGMGIRTGKTGVFLGCSGYalkERCKTTRNLTPEEETL 632
COG1754 COG1754
Uncharacterized C-terminal domain of topoisomerase IA [Function unknown];
8-72 3.81e-08

Uncharacterized C-terminal domain of topoisomerase IA [Function unknown];


Pssm-ID: 441360 [Multi-domain]  Cd Length: 892  Bit Score: 49.04  E-value: 3.81e-08
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1843908069   8 CPQCGAELVIRSGKHGPFLGCSRY-------PECDYVRPL---------KSQADGhiVKILeGQlCPECGAVLVLRQGRF 71
Cdd:COG1754   605 CPLGTGGLSLRVGRYGPFIECSNYeprrasiPECLAPDELtpekaeellEAPADG--PRVL-GT-DPETGKPIVLKDGRF 680


                  .
gi 1843908069  72 G 72
Cdd:COG1754   681 G 681
PRK07219 PRK07219
DNA topoisomerase I; Validated
 6-46 4.95e-08

DNA topoisomerase I; Validated


Pssm-ID: 235971 [Multi-domain]  Cd Length: 822  Bit Score: 48.84  E-value: 4.95e-08
                          10        20        30        40
                  ....*....|....*....|....*....|....*....|.
gi 1843908069   6 EPCPQCGAELVIRSGKHGPFLGCSRYPECDYVRPLKSQADG 46
Cdd:PRK07219  734 EKCPECGLPLLRVKGGFGDELGCCNNPKCNYTEKQKKEKES 774
topA_arch TIGR01057
DNA topoisomerase I, archaeal; This model describes topoisomerase I from archaea. These ...
 8-34 1.91e-06

DNA topoisomerase I, archaeal; This model describes topoisomerase I from archaea. These enzymes are involved in the control of DNA topology. DNA topoisomerase I belongs to the type I topoisomerases, which are ATP-independent. [DNA metabolism, DNA replication, recombination, and repair]


Pssm-ID: 273420 [Multi-domain]  Cd Length: 618  Bit Score: 44.43  E-value: 1.91e-06
                          10        20
                  ....*....|....*....|....*..
gi 1843908069   8 CPQCGAELVIRSGKHGPFLGCSRYPEC 34
Cdd:TIGR01057 592 CPKCGGKLVSKYAKKGRFVGCSNYPEC 618
PRK07561 PRK07561
DNA topoisomerase I subunit omega; Validated
 7-77 2.49e-06

DNA topoisomerase I subunit omega; Validated


Pssm-ID: 236048 [Multi-domain]  Cd Length: 859  Bit Score: 44.01  E-value: 2.49e-06
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1843908069   7 PCPQCGAELVIRSGKHGPFLGC-SRYPECD---------YVRPLKSQADGHIVKilEGQ------LCPECGAVLVLRQGR 70
Cdd:PRK07561  705 EHPECGSEIQAKIGRFGPYVKCgGTYASLKntrkvltigLNRAVELLAEPKRPK--EDPvplpelGCPKSGAPFVLRDGR 782


                  ....*..
gi 1843908069  71 FGMFIGC 77
Cdd:PRK07561  783 YGPYVKH 789
PRK07726 PRK07726
DNA topoisomerase 3;
6-34 2.79e-05

DNA topoisomerase 3;


Pssm-ID: 236078 [Multi-domain]  Cd Length: 658  Bit Score: 40.92  E-value: 2.79e-05
                          10        20
                  ....*....|....*....|....*....
gi 1843908069   6 EPCPQCGAELVIRSGKHGPFLGCSRYPEC 34
Cdd:PRK07726  611 PKCPDCGKPMLKVKGKNGKMLVCQDRECG 639
PRK07726 PRK07726
DNA topoisomerase 3;
41-100 2.13e-03

DNA topoisomerase 3;


Pssm-ID: 236078 [Multi-domain]  Cd Length: 658  Bit Score: 35.52  E-value: 2.13e-03
                          10        20        30        40        50        60
                  ....*....|....*....|....*....|....*....|....*....|....*....|
gi 1843908069  41 KSQADGHIVKILEGQLCPECGAVLVLRQGRFGMFIGCSQYPqCEHTVVIDKPdeTAIACP 100
Cdd:PRK07726  597 KQSSEKYKFDNLTGPKCPDCGKPMLKVKGKNGKMLVCQDRE-CGKRKNVSKK--TNARCP 653
 
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.
Help | Disclaimer | Write to the Help Desk
NCBI | NLM | NIH