2F4QA

Crystal structure of deinococcus radiodurans topoisomerase ib
Total Genus 98
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The genus trace: a function that shows values of genus (vertical axis) for subchains spanned between the first residue, and all other residues (shown on horizontal axis). The number of the latter residue and the genus of a given subchain are shown interactively.

Total Genus
98
sequence length
336
structure length
309
Chain Sequence
PSRTELLAEEYLRREPQKFRLARIARLAVPPAYQDVYVSPDAENELQAFGRDAAGRLQYRYHPDFVQAGALKKWQRLTRFAGALPTLKVATTADLRASGLPPRKVMALMTRLLHVARFRVTYGLSTLRQRHVVVDGNTVTFRFKGKHGVSQHKATSDRTLAANMQKLLDLPGPWLFQTVDAGGGERRRIHSTELNAYLREVIGPFTAKDFRTWGGTLLAAEYLAQQGTESSERQAKKVLVDCVKFVADDLGNTPAVTRGSYICPVIFDRYLDGKVLDDYEPRTERQEAELEGLTRSEGALKRMLESERT
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The genus matrix. At position (x,y) a genus value for a subchain spanned between x’th and y’th residue is shown. Values of the genus are represented by color, according to the scale given on the right.

Structure visualization

After clicking on a point (x,y) in the genus matrix above, a subchain from x to y is shown in color.

Chord Diagram
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publication title Crystal structure of a bacterial type IB DNA topoisomerase reveals a preassembled active site in the absence of DNA.
pubmed doi rcsb
source organism Deinococcus radiodurans
molecule tags Isomerase
molecule keywords type I topoisomerase, putative
total genus 98
structure length 309
sequence length 336
ec nomenclature
pdb deposition date 2005-11-23

pfam database annotations

chain Pfam Accession Code Pfam Family Identifier Pfam Description
A PF01028 Topoisom_I Eukaryotic DNA topoisomerase I, catalytic core
Image from the rcsb pdb (www.rcsb.org)
cath code
ClassArchitectureTopologyHomologyDomain
1.10.132.120 Mainly Alpha Orthogonal Bundle Topoisomerase I; Chain A, domain 4 Topoisomerase I; Chain A, domain 4 2f4qA02
3.30.66.10 Alpha Beta 2-Layer Sandwich Viral Topoisomerase I DNA topoisomerase I domain 2f4qA01
3.90.15.10 Alpha Beta Alpha-Beta Complex Topoisomerase I; Chain A, domain 3 Topoisomerase I; Chain A, domain 3 2f4qA03
1SC7A 1R49A 1K4TA 1K4SA 1RR8C 2H7FX 1LPQA 3M4AA 1VCCA 1A31A 1RRJA 1T8IA 2F4QA 1A41A 1NH3A 1TL8A 1A35A 1EJ9A 2H7GX 3IGCA 1A36A 2B9SA 1SEUA
chains in the Genus database with same CATH superfamily
4KB2A 3GTQA 3GTLA 1EK8A 2CW0D 1V9MA 3WVOA 4H3TA 1I6VD 2NVYA 4Q5GA 4OYDB 3K58A 3GTOA 3K59A 2VUMA 3FKIA 1WQFA 3K5OA 1GE9A 3CQZA 2O5JD 2BE5D 1HQMD 5MLC9 1I3QA 2H7GX 4AHCA 2YU9A 1YNND 1SFOA 1SC7A 2B63A 3LHPS 1K4TA 4EJ3A 1MIUA 1K4SA 4KDDA 1I50A 3K5LA 4NOMA 1TWGA 3P9AA 1RR8C 1LPQA 3LF9A 4AYBA 3KYLA 4F3EA 1RRJA 1WQGA 4IP9A 4QIWA 1TWFA 4D3YA 1IS1A 4Q5VA 1ZYRD 2A6ED 1WCMA 3K5MA 2B9SA 1Y1WA 2R92A 1A35A 1TGOA 4KC6A 3GTJA 1Q8IA 4L8IA 4AN8A 3GTGA 3GTPA 4KAWX 1TWHA 2E2IA 4O26A 2NVXA 2JA7A 4FXDA 1R49A 1SMYD 1TWCA 2WB1A 4D3ZA 3IAYA 3MAQA 2H7FX 1IW7D 1EH1A 3M4AA 3H0GA 2A68D 4FGUA 4FYDA 5C9HA 1A31A 2A6HD 4QCLA 2A69D 4NOKA 1A41A 4LMOA 5JSNB 1TL8A 1EJ9A 3HKZA 3GTMA 3IGCA 3K57A 4C2MA 1R5ZA 4GFQA 4IP8A 2JA5A 5CQGA 3SJRA 1ISEA 2B9SB 2Y0SA 2R4GA 2R7ZA 1VCCA 4NOLA 2JA6A 2PMZA 1Y698 3K5NA 1T8IA 2R93A 2F4QA 5JSBB 1NH3A 2E2HA 3GTKA 1K83A 4KB4A 1YNJD 4JLRC 1DD5A 3DU6A 1TWAA 2WAQA 1R9TA 3DU5A 1A36A 1Y1VA 1WQHA 1SEUA
chains in the Genus database with same CATH topology
4KB2A 3GTQA 3GTLA 1EK8A 2CW0D 1V9MA 3WVOA 4H3TA 1I6VD 2NVYA 4Q5GA 4OYDB 3K58A 3GTOA 3K59A 2VUMA 3FKIA 1WQFA 3K5OA 1GE9A 3CQZA 2O5JD 2BE5D 1HQMD 5MLC9 1I3QA 2H7GX 4AHCA 2YU9A 1YNND 1SFOA 1SC7A 2B63A 3LHPS 1K4TA 4EJ3A 1MIUA 1K4SA 4KDDA 1I50A 3K5LA 4NOMA 1TWGA 3P9AA 1RR8C 1LPQA 3LF9A 4AYBA 3KYLA 4F3EA 1RRJA 1WQGA 4IP9A 4QIWA 1TWFA 4D3YA 1IS1A 4Q5VA 1ZYRD 2A6ED 1WCMA 3K5MA 2B9SA 1Y1WA 2R92A 1A35A 1TGOA 4KC6A 3GTJA 1Q8IA 4L8IA 4AN8A 3GTGA 3GTPA 4KAWX 1TWHA 2E2IA 4O26A 2NVXA 2JA7A 4FXDA 1R49A 1SMYD 1TWCA 2WB1A 4D3ZA 3IAYA 3MAQA 2H7FX 1IW7D 1EH1A 3M4AA 3H0GA 2A68D 4FGUA 4FYDA 5C9HA 1A31A 2A6HD 4QCLA 2A69D 4NOKA 1A41A 4LMOA 5JSNB 1TL8A 1EJ9A 3HKZA 3GTMA 3IGCA 3K57A 4C2MA 1R5ZA 4GFQA 4IP8A 2JA5A 5CQGA 3SJRA 1ISEA 2B9SB 2Y0SA 2R4GA 2R7ZA 1VCCA 4NOLA 2JA6A 2PMZA 1Y698 3K5NA 1T8IA 2R93A 2F4QA 5JSBB 1NH3A 2E2HA 3GTKA 1K83A 4KB4A 1YNJD 4JLRC 1DD5A 3DU6A 1TWAA 2WAQA 1R9TA 3DU5A 1A36A 1Y1VA 1WQHA 1SEUA
chains in the Genus database with same CATH homology


 
#chains in the Genus database with same CATH superfamily
 1SC7 A;  1R49 A;  1K4T A;  1K4S A;  1RR8 C;  2H7F X;  1LPQ A;  3M4A A;  1VCC A;  1A31 A;  1RRJ A;  1T8I A;  2F4Q A;  1A41 A;  1NH3 A;  1TL8 A;  1A35 A;  1EJ9 A;  2H7G X;  3IGC A;  1A36 A;  2B9S A;  1SEU A; 
#chains in the Genus database with same CATH topology
 4KB2 A;  3GTQ A;  3GTL A;  1EK8 A;  2CW0 D;  1V9M A;  3WVO A;  4H3T A;  1I6V D;  2NVY A;  4Q5G A;  4OYD B;  3K58 A;  3GTO A;  3K59 A;  2VUM A;  3FKI A;  1WQF A;  3K5O A;  1GE9 A;  3CQZ A;  2O5J D;  2BE5 D;  1HQM D;  5MLC 9;  1I3Q A;  2H7G X;  4AHC A;  2YU9 A;  1YNN D;  1SFO A;  1SC7 A;  2B63 A;  3LHP S;  1K4T A;  4EJ3 A;  1MIU A;  1K4S A;  4KDD A;  1I50 A;  3K5L A;  4NOM A;  1TWG A;  3P9A A;  1RR8 C;  1LPQ A;  3LF9 A;  4AYB A;  3KYL A;  4F3E A;  1RRJ A;  1WQG A;  4IP9 A;  4QIW A;  1TWF A;  4D3Y A;  1IS1 A;  4Q5V A;  1ZYR D;  2A6E D;  1WCM A;  3K5M A;  2B9S A;  1Y1W A;  2R92 A;  1A35 A;  1TGO A;  4KC6 A;  3GTJ A;  1Q8I A;  4L8I A;  4AN8 A;  3GTG A;  3GTP A;  4KAW X;  1TWH A;  2E2I A;  4O26 A;  2NVX A;  2JA7 A;  4FXD A;  1R49 A;  1SMY D;  1TWC A;  2WB1 A;  4D3Z A;  3IAY A;  3MAQ A;  2H7F X;  1IW7 D;  1EH1 A;  3M4A A;  3H0G A;  2A68 D;  4FGU A;  4FYD A;  5C9H A;  1A31 A;  2A6H D;  4QCL A;  2A69 D;  4NOK A;  1A41 A;  4LMO A;  5JSN B;  1TL8 A;  1EJ9 A;  3HKZ A;  3GTM A;  3IGC A;  3K57 A;  4C2M A;  1R5Z A;  4GFQ A;  4IP8 A;  2JA5 A;  5CQG A;  3SJR A;  1ISE A;  2B9S B;  2Y0S A;  2R4G A;  2R7Z A;  1VCC A;  4NOL A;  2JA6 A;  2PMZ A;  1Y69 8;  3K5N A;  1T8I A;  2R93 A;  2F4Q A;  5JSB B;  1NH3 A;  2E2H A;  3GTK A;  1K83 A;  4KB4 A;  1YNJ D;  4JLR C;  1DD5 A;  3DU6 A;  1TWA A;  2WAQ A;  1R9T A;  3DU5 A;  1A36 A;  1Y1V A;  1WQH A;  1SEU A; 
#chains in the Genus database with same CATH homology
 4KB2 A;  3GTQ A;  3GTL A;  1EK8 A;  2CW0 D;  1V9M A;  3WVO A;  4H3T A;  1I6V D;  2NVY A;  4Q5G A;  4OYD B;  3K58 A;  3GTO A;  3K59 A;  2VUM A;  3FKI A;  1WQF A;  3K5O A;  1GE9 A;  3CQZ A;  2O5J D;  2BE5 D;  1HQM D;  5MLC 9;  1I3Q A;  2H7G X;  4AHC A;  2YU9 A;  1YNN D;  1SFO A;  1SC7 A;  2B63 A;  3LHP S;  1K4T A;  4EJ3 A;  1MIU A;  1K4S A;  4KDD A;  1I50 A;  3K5L A;  4NOM A;  1TWG A;  3P9A A;  1RR8 C;  1LPQ A;  3LF9 A;  4AYB A;  3KYL A;  4F3E A;  1RRJ A;  1WQG A;  4IP9 A;  4QIW A;  1TWF A;  4D3Y A;  1IS1 A;  4Q5V A;  1ZYR D;  2A6E D;  1WCM A;  3K5M A;  2B9S A;  1Y1W A;  2R92 A;  1A35 A;  1TGO A;  4KC6 A;  3GTJ A;  1Q8I A;  4L8I A;  4AN8 A;  3GTG A;  3GTP A;  4KAW X;  1TWH A;  2E2I A;  4O26 A;  2NVX A;  2JA7 A;  4FXD A;  1R49 A;  1SMY D;  1TWC A;  2WB1 A;  4D3Z A;  3IAY A;  3MAQ A;  2H7F X;  1IW7 D;  1EH1 A;  3M4A A;  3H0G A;  2A68 D;  4FGU A;  4FYD A;  5C9H A;  1A31 A;  2A6H D;  4QCL A;  2A69 D;  4NOK A;  1A41 A;  4LMO A;  5JSN B;  1TL8 A;  1EJ9 A;  3HKZ A;  3GTM A;  3IGC A;  3K57 A;  4C2M A;  1R5Z A;  4GFQ A;  4IP8 A;  2JA5 A;  5CQG A;  3SJR A;  1ISE A;  2B9S B;  2Y0S A;  2R4G A;  2R7Z A;  1VCC A;  4NOL A;  2JA6 A;  2PMZ A;  1Y69 8;  3K5N A;  1T8I A;  2R93 A;  2F4Q A;  5JSB B;  1NH3 A;  2E2H A;  3GTK A;  1K83 A;  4KB4 A;  1YNJ D;  4JLR C;  1DD5 A;  3DU6 A;  1TWA A;  2WAQ A;  1R9T A;  3DU5 A;  1A36 A;  1Y1V A;  1WQH A;  1SEU A; 
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similar chains in the Genus database (?% sequence similarity)
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similar chains in the pdb database (?% sequence similarity)

 
#similar chains in the Genus database (?% sequence similarity)
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#similar chains, but unknotted
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