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


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