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
molecule tags Isomerase
source organism Deinococcus radiodurans
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
2H7GX 1VCCA 2H7FX 1NH3A 1T8IA 1RR8C 3M4AA 1A41A 1A31A 1SC7A 1A36A 1SEUA 1K4TA 1A35A 1EJ9A 1K4SA 1TL8A 1R49A 2F4QA 3IGCA 1RRJA 2B9SA 1LPQA
chains in the Genus database with same CATH superfamily
1DD5A 2H7GX 2PMZA 3DU6A 3WVOA 1NH3A 2BE5D 1A36A 3GTQA 5C9HA 2YU9A 3GTPA 1V9MA 4QIWA 4FGUA 1EH1A 4C2MA 4D3YA 1I6VD 3K5LA 3MAQA 1K83A 2F4QA 3IGCA 4GFQA 4NOKA 3K5NA 1TWGA 4OYDB 1I3QA 1IS1A 1I50A 1RRJA 2JA5A 1YNJD 2A6HD 4IP9A 1Y698 3K58A 3GTLA 4L8IA 1VCCA 1IW7D 2H7FX 3GTGA 4D3ZA 3DU5A 3M4AA 1T8IA 1RR8C 3H0GA 4FYDA 3IAYA 3CQZA 4EJ3A 1HQMD 2CW0D 1A35A 3LHPS 1EJ9A 1TL8A 4JLRC 4F3EA 3GTJA 3K5MA 4FXDA 3GTKA 1ISEA 1WQFA 2E2HA 2R7ZA 2Y0SA 1EK8A 3FKIA 4KC6A 5MLC9 4Q5VA 4NOLA 2R92A 4Q5GA 3K5OA 1A41A 3GTMA 1GE9A 2A69D 2A68D 4NOMA 1TWHA 1SEUA 2O5JD 1K4TA 4O26A 1K4SA 1TWCA 1R49A 3HKZA 2B9SB 1WCMA 4AHCA 1WQGA 1TWAA 2NVYA 3P9AA 3KYLA 4IP8A 2WAQA 3LF9A 2R93A 4H3TA 1TWFA 2B9SA 1Y1WA 4KB4A 2NVXA 1LPQA 4KAWX 5JSBB 4AYBA 4AN8A 5JSNB 1R9TA 1A31A 3K59A 1SFOA 1SC7A 2WB1A 1Q8IA 3K57A 2JA6A 3GTOA 5CQGA 1YNND 1TGOA 1ZYRD 1R5ZA 4LMOA 1SMYD 2R4GA 4KB2A 4QCLA 2E2IA 1WQHA 2B63A 1MIUA 2A6ED 2VUMA 4KDDA 2JA7A 3SJRA 1Y1VA
chains in the Genus database with same CATH topology
1DD5A 2H7GX 2PMZA 3DU6A 3WVOA 1NH3A 2BE5D 1A36A 3GTQA 5C9HA 2YU9A 3GTPA 1V9MA 4QIWA 4FGUA 1EH1A 4C2MA 4D3YA 1I6VD 3K5LA 3MAQA 1K83A 2F4QA 3IGCA 4GFQA 4NOKA 3K5NA 1TWGA 4OYDB 1I3QA 1IS1A 1I50A 1RRJA 2JA5A 1YNJD 2A6HD 4IP9A 1Y698 3K58A 3GTLA 4L8IA 1VCCA 1IW7D 2H7FX 3GTGA 4D3ZA 3DU5A 3M4AA 1T8IA 1RR8C 3H0GA 4FYDA 3IAYA 3CQZA 4EJ3A 1HQMD 2CW0D 1A35A 3LHPS 1EJ9A 1TL8A 4JLRC 4F3EA 3GTJA 3K5MA 4FXDA 3GTKA 1ISEA 1WQFA 2E2HA 2R7ZA 2Y0SA 1EK8A 3FKIA 4KC6A 5MLC9 4Q5VA 4NOLA 2R92A 4Q5GA 3K5OA 1A41A 3GTMA 1GE9A 2A69D 2A68D 4NOMA 1TWHA 1SEUA 2O5JD 1K4TA 4O26A 1K4SA 1TWCA 1R49A 3HKZA 2B9SB 1WCMA 4AHCA 1WQGA 1TWAA 2NVYA 3P9AA 3KYLA 4IP8A 2WAQA 3LF9A 2R93A 4H3TA 1TWFA 2B9SA 1Y1WA 4KB4A 2NVXA 1LPQA 4KAWX 5JSBB 4AYBA 4AN8A 5JSNB 1R9TA 1A31A 3K59A 1SFOA 1SC7A 2WB1A 1Q8IA 3K57A 2JA6A 3GTOA 5CQGA 1YNND 1TGOA 1ZYRD 1R5ZA 4LMOA 1SMYD 2R4GA 4KB2A 4QCLA 2E2IA 1WQHA 2B63A 1MIUA 2A6ED 2VUMA 4KDDA 2JA7A 3SJRA 1Y1VA
chains in the Genus database with same CATH homology


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