2B9SB

Crystal structure of heterodimeric l. donovani topoisomerase i-vanadate-dna complex
Total Genus 9
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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
9
sequence length
52
structure length
52
Chain Sequence
KAVSLGTSKINYIDPRIICSWAKAQDVPINKIFSATIQKKFPWAMNAENFDF
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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.

publication title The Structure of the Transition State of the Heterodimeric Topoisomerase I of Leishmania donovani as a Vanadate Complex with Nicked DNA.
pubmed doi rcsb
molecule tags Isomerase/dna
source organism Leishmania donovani
molecule keywords 5'-D(*AP*AP*AP*AP*AP*GP*AP*CP*TP*T)-3'
total genus 9
structure length 52
sequence length 52
ec nomenclature ec 5.99.1.2: Transferred entry: 5.6.2.2.
pdb deposition date 2005-10-12
Image from the rcsb pdb (www.rcsb.org)
cath code
ClassArchitectureTopologyHomologyDomain
1.10.132.10 Mainly Alpha Orthogonal Bundle Topoisomerase I; Chain A, domain 4 Topoisomerase I; Chain A, domain 4 2b9sB00
1RRJA 1R49A 1A36A 1T8IA 1A35A 1A31A 1EJ9A 1TL8A 1RR8C 1K4TA 1SC7A 2B9SB 1LPQA 1K4SA 1SEUA 1NH3A
chains in the Genus database with same CATH superfamily
4NOMA 4FYDA 4H3TA 1IS1A 1RR8C 1SC7A 2WAQA 2F4QA 1K83A 1TWFA 1HQMD 1A35A 4LMOA 2A69D 1DD5A 1EK8A 3MAQA 1NH3A 1ZYRD 3GTOA 3GTQA 4IP9A 3CQZA 4QIWA 1TWHA 1A31A 3K5NA 1TWAA 1RRJA 4NOLA 3IAYA 4KAWX 3GTMA 2NVXA 4AHCA 3GTKA 4F3EA 3H0GA 3P9AA 4C2MA 3GTLA 4Q5GA 3SJRA 2BE5D 1IW7D 2R7ZA 4JLRC 2E2IA 1T8IA 3HKZA 4KC6A 1WQHA 3K5LA 1R5ZA 3LF9A 5CQGA 4QCLA 1I50A 2JA7A 4Q5VA 3K59A 1ISEA 5MLC9 3WVOA 1YNJD 2NVYA 4KDDA 2Y0SA 4FGUA 1I3QA 2YU9A 2WB1A 2PMZA 4O26A 1SFOA 2VUMA 3DU5A 1EJ9A 1K4TA 1V9MA 4IP8A 1EH1A 1YNND 2R92A 1WQGA 3GTGA 4KB4A 2JA6A 1Q8IA 1WQFA 2A6HD 4AN8A 2E2HA 2CW0D 3FKIA 1R49A 4D3YA 2R4GA 1A36A 3GTPA 3GTJA 4KB2A 3DU6A 4EJ3A 4AYBA 1I6VD 5JSNB 4L8IA 2A6ED 1Y1WA 4NOKA 2B63A 1K4SA 1WCMA 2O5JD 5C9HA 3K58A 1TGOA 3K5OA 1Y698 1Y1VA 2JA5A 1SMYD 3K57A 4OYDB 1LPQA 2R93A 4GFQA 3M4AA 3LHPS 3K5MA 1TL8A 2B9SB 1SEUA 1TWCA 1R9TA 4D3ZA 5JSBB 1MIUA 4FXDA 2A68D 1GE9A 3KYLA 1TWGA
chains in the Genus database with same CATH topology
4NOMA 4FYDA 4H3TA 1IS1A 1RR8C 1SC7A 2WAQA 2F4QA 1K83A 1TWFA 1HQMD 1A35A 4LMOA 2A69D 1DD5A 1EK8A 3MAQA 1NH3A 1ZYRD 3GTOA 3GTQA 4IP9A 3CQZA 4QIWA 1TWHA 1A31A 3K5NA 1TWAA 1RRJA 4NOLA 3IAYA 4KAWX 3GTMA 2NVXA 4AHCA 3GTKA 4F3EA 3H0GA 3P9AA 4C2MA 3GTLA 4Q5GA 3SJRA 2BE5D 1IW7D 2R7ZA 4JLRC 2E2IA 1T8IA 3HKZA 4KC6A 1WQHA 3K5LA 1R5ZA 3LF9A 5CQGA 4QCLA 1I50A 2JA7A 4Q5VA 3K59A 1ISEA 5MLC9 3WVOA 1YNJD 2NVYA 4KDDA 2Y0SA 4FGUA 1I3QA 2YU9A 2WB1A 2PMZA 4O26A 1SFOA 2VUMA 3DU5A 1EJ9A 1K4TA 1V9MA 4IP8A 1EH1A 1YNND 2R92A 1WQGA 3GTGA 4KB4A 2JA6A 1Q8IA 1WQFA 2A6HD 4AN8A 2E2HA 2CW0D 3FKIA 1R49A 4D3YA 2R4GA 1A36A 3GTPA 3GTJA 4KB2A 3DU6A 4EJ3A 4AYBA 1I6VD 5JSNB 4L8IA 2A6ED 1Y1WA 4NOKA 2B63A 1K4SA 1WCMA 2O5JD 5C9HA 3K58A 1TGOA 3K5OA 1Y698 1Y1VA 2JA5A 1SMYD 3K57A 4OYDB 1LPQA 2R93A 4GFQA 3M4AA 3LHPS 3K5MA 1TL8A 2B9SB 1SEUA 1TWCA 1R9TA 4D3ZA 5JSBB 1MIUA 4FXDA 2A68D 1GE9A 3KYLA 1TWGA
chains in the Genus database with same CATH homology


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