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


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