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


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

 
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