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


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