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


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