4OYDB

Crystal structure of a computationally designed inhibitor of an epstein-barr viral bcl-2 protein
Total Genus 53
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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
53
sequence length
117
structure length
117
Chain Sequence
ADPKKVLDKAKDQAENRVRELKQKLEELYKEARKLDLTQEMRRKLELRYIAAMLMAIGDIYNAIRQAKQEADKLKKAGLVNSQQLDELKRRLEELKEEASRKARDYGREFQLKLEYG
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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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publication title A computationally designed inhibitor of an epstein-barr viral bcl-2 protein induces apoptosis in infected cells.
pubmed doi rcsb
molecule tags Viral protein/inhibitor
source organism Epstein-barr virus
molecule keywords Apoptosis regulator BHRF1
total genus 53
structure length 117
sequence length 117
chains with identical sequence D
ec nomenclature
pdb deposition date 2014-02-11
Image from the rcsb pdb (www.rcsb.org)
cath code
ClassArchitectureTopologyHomologyDomain
1.10.132.20 Mainly Alpha Orthogonal Bundle Topoisomerase I; Chain A, domain 4 Topoisomerase I; Chain A, domain 4 4oydB00
1IS1A 3LHPS 1WQHA 4GFQA 3LF9A 4JLRC 1WQGA 5JSBB 4L8IA 4KAWX 1EH1A 4KB2A 4KDDA 1EK8A 1WQFA 4OYDB 5MLC9 1DD5A 1GE9A 1Y698 1ISEA 4KB4A 5JSNB 4KC6A
chains in the Genus database with same CATH superfamily
3K59A 2VUMA 3DU5A 4Q5VA 2A69D 1MIUA 5C9HA 4GFQA 2NVYA 2WB1A 3HKZA 1TWAA 1YNJD 3GTKA 4IP9A 1SEUA 4L8IA 3MAQA 1TL8A 2E2IA 1WQFA 5MLC9 1DD5A 3SJRA 1YNND 1TWFA 1GE9A 4EJ3A 2B63A 1I3QA 1NH3A 1TWCA 4AHCA 4FGUA 4KB4A 4NOLA 4KC6A 4Q5GA 1IS1A 3LHPS 1HQMD 2YU9A 1A36A 2BE5D 2A68D 4D3ZA 3GTLA 4FYDA 3K57A 4QIWA 3GTOA 5JSBB 1Y1WA 1IW7D 3GTGA 3K5LA 1V9MA 1R9TA 1A31A 2Y0SA 4AYBA 4F3EA 2R7ZA 4OYDB 4H3TA 4NOKA 2O5JD 3K58A 1ISEA 4O26A 1RRJA 4D3YA 2R93A 3WVOA 4QCLA 3K5NA 2A6ED 3DU6A 4NOMA 4IP8A 1K4TA 3GTMA 1TGOA 1ZYRD 2CW0D 1SC7A 1SFOA 4C2MA 1RR8C 3H0GA 1TWGA 3K5MA 1EH1A 4KDDA 3GTJA 1EK8A 2JA6A 1T8IA 2B9SB 3CQZA 1TWHA 2E2HA 4FXDA 3FKIA 4AN8A 4LMOA 1I50A 2F4QA 1WCMA 1WQHA 3M4AA 1EJ9A 3IAYA 1I6VD 3LF9A 4JLRC 1WQGA 2NVXA 3KYLA 2WAQA 2JA7A 1SMYD 1R49A 3K5OA 3GTQA 5CQGA 1Q8IA 3P9AA 1K4SA 2JA5A 4KAWX 1LPQA 1A35A 4KB2A 3GTPA 2A6HD 1K83A 1R5ZA 1Y1VA 1Y698 2R92A 2PMZA 2R4GA 5JSNB
chains in the Genus database with same CATH topology
3K59A 2VUMA 3DU5A 4Q5VA 2A69D 1MIUA 5C9HA 4GFQA 2NVYA 2WB1A 3HKZA 1TWAA 1YNJD 3GTKA 4IP9A 1SEUA 4L8IA 3MAQA 1TL8A 2E2IA 1WQFA 5MLC9 1DD5A 3SJRA 1YNND 1TWFA 1GE9A 4EJ3A 2B63A 1I3QA 1NH3A 1TWCA 4AHCA 4FGUA 4KB4A 4NOLA 4KC6A 4Q5GA 1IS1A 3LHPS 1HQMD 2YU9A 1A36A 2BE5D 2A68D 4D3ZA 3GTLA 4FYDA 3K57A 4QIWA 3GTOA 5JSBB 1Y1WA 1IW7D 3GTGA 3K5LA 1V9MA 1R9TA 1A31A 2Y0SA 4AYBA 4F3EA 2R7ZA 4OYDB 4H3TA 4NOKA 2O5JD 3K58A 1ISEA 4O26A 1RRJA 4D3YA 2R93A 3WVOA 4QCLA 3K5NA 2A6ED 3DU6A 4NOMA 4IP8A 1K4TA 3GTMA 1TGOA 1ZYRD 2CW0D 1SC7A 1SFOA 4C2MA 1RR8C 3H0GA 1TWGA 3K5MA 1EH1A 4KDDA 3GTJA 1EK8A 2JA6A 1T8IA 2B9SB 3CQZA 1TWHA 2E2HA 4FXDA 3FKIA 4AN8A 4LMOA 1I50A 2F4QA 1WCMA 1WQHA 3M4AA 1EJ9A 3IAYA 1I6VD 3LF9A 4JLRC 1WQGA 2NVXA 3KYLA 2WAQA 2JA7A 1SMYD 1R49A 3K5OA 3GTQA 5CQGA 1Q8IA 3P9AA 1K4SA 2JA5A 4KAWX 1LPQA 1A35A 4KB2A 3GTPA 2A6HD 1K83A 1R5ZA 1Y1VA 1Y698 2R92A 2PMZA 2R4GA 5JSNB
chains in the Genus database with same CATH homology


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