2V5XA

Crystal structure of hdac8-inhibitor complex
Total Genus 131
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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
131
sequence length
363
structure length
363
Chain Sequence
LVPVYIYSPEYVSMCDSLAKIPKRADMVHSLIEAYALHKQMRIVKPKVASMEEMATFHTDAYLQHLQKVSQEGDDDHPDSIEYGLGYDCPATEGIFDYAAAIGGATITAAQCLIDGMCKVAINWSGGWHHAKKDEASGFCYLNDAVLGILRLRRKFERILYVDLDLHHGDGVEDAFSFTSKVMTVSLHKFSPGFFPGTGDVSDVGLGKGRYYSVNVPIQDGIQDEKYYQICESVLKEVYQAFNPKAVVLQLGADTIAGDPMCSFNMTPVGIGKCLKYILQWQLATLILGGGGYNLANTARCWTYLTGVILGKTLSSEIPDHEFFTAYGPDYVLEITPSCRPDRNEPHRIQQILNYIKGNLKHV
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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 tags Hydrolase
molecule keywords HISTONE DEACETYLASE 8
publication title Substrate Binding to Histone Deacetylases as Revealed by Crystal Structure of Hdac8-Substrate Complex
pubmed doi rcsb
source organism Homo sapiens
total genus 131
structure length 363
sequence length 363
chains with identical sequence B
ec nomenclature ec 3.5.1.98: Histone deacetylase.
pdb deposition date 2007-07-10

pfam database annotations

chain Pfam Accession Code Pfam Family Identifier Pfam Description
A PF00850 Hist_deacetyl Histone deacetylase domain
Image from the rcsb pdb (www.rcsb.org)
cath code
ClassArchitectureTopologyHomologyDomain
3.40.800.20 Alpha Beta 3-Layer(aba) Sandwich Arginase; Chain A Histone deacetylase domain 2v5xA00
4LY1A 2VQWG 3Q9CA 5ICNB 5G0XA 2V5WA 5EENA 3ZNSA 2V5XA 4ZUPA 5G13A 5G3WA 3SFHA 4CBYA 5BWZA 5FCWA 4RN1A 5EF8A 5A2SA 3MZ3A 3Q9FA 4ZUQA 1T67A 5EEKA 2VQMA 4BZ9A 5DC7A 4QA6A 4QA2A 4CBTA 5EFHA 5EF7A 3Q9EA 5EFJD 4ZURA 4ZUOA 5G0IA 3EW8A 5G1BA 5THVA 5G0HA 4ZUMA 5EEMA 4QA3A 5DC5A 4RN0A 5EFGA 1C3SA 3F07A 4BZ8A 4QA0A 3SFFA 3Q9BA 4QA5A 1C3PA 3MZ7A 5D1DA 2VQJA 2VCGA 5G0YA 5DC6A 5JI5A 4QA7A 5IX0A 4LXZA 1W22A 5DC8A 1ZZ0A 3C0ZA 3C10A 5EFBD 3F06A 3EWFA 2VQQA 3MAXA 4BZ5A 1T69A 4ZUNA 5IWGA 4A69A 3ZNRA 5G1AA 5G1CA 5THUA 3MZ4A 3RQDA 1ZZ1A 4CQFA 5G0JA 4BZ7A 4RN2A 5D1BA 5EEFA 2VQVA 3MENA 4BKXB 5LI3A 1ZZ3A 2GH6A 5G0GA 5THTA 5FUEA 5D1CA 2VQOA 5EEIA 3C0YA 5G10A 1T64A 5EFKB 3F0RA 5EFNA 3EZPA 1VKGA 5THSA 4QA4A 4QA1A 5G11A 4BZ6A 5G17A 5G12A 3MZ6A 1C3RA 3EZTA
chains in the Genus database with same CATH superfamily
4LY1A 1D3VA 4MXRA 1P8SA 2VQWG 3Q9CA 4CEVA 1CEVA 1ZPEA 5ICNB 4Q3TA 5G0XA 3NIQA 2V5WA 5EENA 4Q42A 3ZNSA 1T5GA 1T4PA 2PHAA 2V5XA 4ZUPA 4Q3PA 5G3WA 5G13A 3SFHA 4CBYA 5BWZA 4G3HA 5FCWA 1HQGA 4RN1A 5EF8A 1WOIA 1T4TA 5HJ9A 4GSVA 1ZPGA 5A2SA 3MZ3A 4Q3UA 3Q9FA 4RHIA 1T67A 5EEKA 2VQMA 1GQ7A 1HQXA 4BZ9A 5DC7A 4ZUQA 3E9BA 4QA6A 1P8PA 4QA2A 4CBTA 1XFKA 5EFHA 5EF7A 3F80A 3Q9EA 1RLAA 4FCKA 4RHJA 5EFJD 3TH7A 4ZURA 2EF4A 3THJA 4ZUOA 3GN0A 5G0IA 3EW8A 5G1BA 5CEVA 4ITYA 4IU1A 5THVA 4Q3VA 5G0HA 4ZUMA 2A0MA 4GSZA 5EEMA 2ZAVA 4QA3A 3THHA 2EF5A 4FCIA 4Q3RC 4RN0A 1C3SA 1WVBA 3E6VA 3F07A 4Q3RA 5DC5A 5EFGA 3NIPA 4QA0A 3SFFA 1R1OA 2RLAA 4MYFA 4HZEA 3LP7A 3Q9BA 4QA5A 1C3PA 3MZ7A 1TA1A 5D1DA 2VQJA 2VCGA 5G0YA 1WVAA 4RLAA 3E6KA 5DC6A 2EIVA 4BZ8A 5JI5A 3SL1A 3CEVA 1TBJA 4QA7A 5RLAA 4GWCA 3MJLA 3DJ8A 5IX0A 4LXZA 1W22A 1ZZ0A 5DC8A 3C0ZA 3C10A 4IXVA 3RLAA 4MYNA 5EFBD 1TBLA 3F06A 3E8QA 3EWFA 2VQQA 4HXQA 1P8NA 3MAXA 4BZ5A 3M1RA 1T69A 4ZUNA 5IWGA 2AEBA 4GWDA 4IE2A 3SKKA 4I06A 4DZ4A 1T5FA 4A69A 1GQ6A 3ZNRA 1P8OA 5G1AA 1HQ5A 3THEA 5G1CA 5THUA 3MZ4A 3RQDA 1PQ3A 1TBHA 1ZZ1A 4CQFA 5G0JA 4RHQA 3MFVA 4Q41A 3MFWA 4IU4A 1P8RA 4RN2A 4BZ7A 3KV2A 3SL0A 5D1BA 5EEFA 1HQHA 2VQVA 3GMZA 3MENA 4RHKA 4BKXB 3SJTA 4MYKA 3PZLA 5LI3A 1ZZ3A 2GH6A 5G0GA 4Q3QA 2CEVA 3E8ZA 2PLLA 1WOGA 5THTA 1T4RA 5FUEA 4IU5A 5D1CA 2VQOA 5EEIA 3C0YA 4RHLA 5G10A 3NIOA 1P8QA 1HQFA 1T64A 4GSMA 5EFKB 3F0RA 4MYLA 3EZPA 4IXUA 5EFNA 3TF3A 1VKGA 4HWWA 1P8MA 4Q40A 5HJAA 4RHMA 3LHLA 5THSA 4QA4A 4QA1A 4IU0A 1T4SA 4Q3SA 5G11A 4IE1A 3MMRA 1WOHA 4BZ6A 2PHOA 5G17A 3LP4A 4IE3A 5G12A 3MZ6A 1C3RA 3EZTA
chains in the Genus database with same CATH topology
4LY1A 2VQWG 3Q9CA 5ICNB 5G0XA 2V5WA 5EENA 3ZNSA 2V5XA 4ZUPA 5G13A 5G3WA 3SFHA 4CBYA 5BWZA 5FCWA 4RN1A 5EF8A 5A2SA 3MZ3A 3Q9FA 4ZUQA 1T67A 5EEKA 2VQMA 4BZ9A 5DC7A 4QA6A 4QA2A 4CBTA 5EFHA 5EF7A 3Q9EA 5EFJD 4ZURA 4ZUOA 5G0IA 3EW8A 5G1BA 5THVA 5G0HA 4ZUMA 5EEMA 4QA3A 5DC5A 4RN0A 5EFGA 1C3SA 3F07A 4BZ8A 4QA0A 3SFFA 3Q9BA 4QA5A 1C3PA 3MZ7A 5D1DA 2VQJA 2VCGA 5G0YA 5DC6A 5JI5A 4QA7A 5IX0A 4LXZA 1W22A 5DC8A 1ZZ0A 3C0ZA 3C10A 5EFBD 3F06A 3EWFA 2VQQA 3MAXA 4BZ5A 1T69A 4ZUNA 5IWGA 4A69A 3ZNRA 5G1AA 5G1CA 5THUA 3MZ4A 3RQDA 1ZZ1A 4CQFA 5G0JA 4BZ7A 4RN2A 5D1BA 5EEFA 2VQVA 3MENA 4BKXB 5LI3A 1ZZ3A 2GH6A 5G0GA 5THTA 5FUEA 5D1CA 2VQOA 5EEIA 3C0YA 5G10A 1T64A 5EFKB 3F0RA 5EFNA 3EZPA 1VKGA 5THSA 4QA4A 4QA1A 5G11A 4BZ6A 5G17A 5G12A 3MZ6A 1C3RA 3EZTA
chains in the Genus database with same CATH homology


 
#chains in the Genus database with same CATH superfamily
 4LY1 A;  2VQW G;  3Q9C A;  5ICN B;  5G0X A;  2V5W A;  5EEN A;  3ZNS A;  2V5X A;  4ZUP A;  5G13 A;  5G3W A;  3SFH A;  4CBY A;  5BWZ A;  5FCW A;  4RN1 A;  5EF8 A;  5A2S A;  3MZ3 A;  3Q9F A;  4ZUQ A;  1T67 A;  5EEK A;  2VQM A;  4BZ9 A;  5DC7 A;  4QA6 A;  4QA2 A;  4CBT A;  5EFH A;  5EF7 A;  3Q9E A;  5EFJ D;  4ZUR A;  4ZUO A;  5G0I A;  3EW8 A;  5G1B A;  5THV A;  5G0H A;  4ZUM A;  5EEM A;  4QA3 A;  5DC5 A;  4RN0 A;  5EFG A;  1C3S A;  3F07 A;  4BZ8 A;  4QA0 A;  3SFF A;  3Q9B A;  4QA5 A;  1C3P A;  3MZ7 A;  5D1D A;  2VQJ A;  2VCG A;  5G0Y A;  5DC6 A;  5JI5 A;  4QA7 A;  5IX0 A;  4LXZ A;  1W22 A;  5DC8 A;  1ZZ0 A;  3C0Z A;  3C10 A;  5EFB D;  3F06 A;  3EWF A;  2VQQ A;  3MAX A;  4BZ5 A;  1T69 A;  4ZUN A;  5IWG A;  4A69 A;  3ZNR A;  5G1A A;  5G1C A;  5THU A;  3MZ4 A;  3RQD A;  1ZZ1 A;  4CQF A;  5G0J A;  4BZ7 A;  4RN2 A;  5D1B A;  5EEF A;  2VQV A;  3MEN A;  4BKX B;  5LI3 A;  1ZZ3 A;  2GH6 A;  5G0G A;  5THT A;  5FUE A;  5D1C A;  2VQO A;  5EEI A;  3C0Y A;  5G10 A;  1T64 A;  5EFK B;  3F0R A;  5EFN A;  3EZP A;  1VKG A;  5THS A;  4QA4 A;  4QA1 A;  5G11 A;  4BZ6 A;  5G17 A;  5G12 A;  3MZ6 A;  1C3R A;  3EZT A; 
#chains in the Genus database with same CATH topology
 4LY1 A;  1D3V A;  4MXR A;  1P8S A;  2VQW G;  3Q9C A;  4CEV A;  1CEV A;  1ZPE A;  5ICN B;  4Q3T A;  5G0X A;  3NIQ A;  2V5W A;  5EEN A;  4Q42 A;  3ZNS A;  1T5G A;  1T4P A;  2PHA A;  2V5X A;  4ZUP A;  4Q3P A;  5G3W A;  5G13 A;  3SFH A;  4CBY A;  5BWZ A;  4G3H A;  5FCW A;  1HQG A;  4RN1 A;  5EF8 A;  1WOI A;  1T4T A;  5HJ9 A;  4GSV A;  1ZPG A;  5A2S A;  3MZ3 A;  4Q3U A;  3Q9F A;  4RHI A;  1T67 A;  5EEK A;  2VQM A;  1GQ7 A;  1HQX A;  4BZ9 A;  5DC7 A;  4ZUQ A;  3E9B A;  4QA6 A;  1P8P A;  4QA2 A;  4CBT A;  1XFK A;  5EFH A;  5EF7 A;  3F80 A;  3Q9E A;  1RLA A;  4FCK A;  4RHJ A;  5EFJ D;  3TH7 A;  4ZUR A;  2EF4 A;  3THJ A;  4ZUO A;  3GN0 A;  5G0I A;  3EW8 A;  5G1B A;  5CEV A;  4ITY A;  4IU1 A;  5THV A;  4Q3V A;  5G0H A;  4ZUM A;  2A0M A;  4GSZ A;  5EEM A;  2ZAV A;  4QA3 A;  3THH A;  2EF5 A;  4FCI A;  4Q3R C;  4RN0 A;  1C3S A;  1WVB A;  3E6V A;  3F07 A;  4Q3R A;  5DC5 A;  5EFG A;  3NIP A;  4QA0 A;  3SFF A;  1R1O A;  2RLA A;  4MYF A;  4HZE A;  3LP7 A;  3Q9B A;  4QA5 A;  1C3P A;  3MZ7 A;  1TA1 A;  5D1D A;  2VQJ A;  2VCG A;  5G0Y A;  1WVA A;  4RLA A;  3E6K A;  5DC6 A;  2EIV A;  4BZ8 A;  5JI5 A;  3SL1 A;  3CEV A;  1TBJ A;  4QA7 A;  5RLA A;  4GWC A;  3MJL A;  3DJ8 A;  5IX0 A;  4LXZ A;  1W22 A;  1ZZ0 A;  5DC8 A;  3C0Z A;  3C10 A;  4IXV A;  3RLA A;  4MYN A;  5EFB D;  1TBL A;  3F06 A;  3E8Q A;  3EWF A;  2VQQ A;  4HXQ A;  1P8N A;  3MAX A;  4BZ5 A;  3M1R A;  1T69 A;  4ZUN A;  5IWG A;  2AEB A;  4GWD A;  4IE2 A;  3SKK A;  4I06 A;  4DZ4 A;  1T5F A;  4A69 A;  1GQ6 A;  3ZNR A;  1P8O A;  5G1A A;  1HQ5 A;  3THE A;  5G1C A;  5THU A;  3MZ4 A;  3RQD A;  1PQ3 A;  1TBH A;  1ZZ1 A;  4CQF A;  5G0J A;  4RHQ A;  3MFV A;  4Q41 A;  3MFW A;  4IU4 A;  1P8R A;  4RN2 A;  4BZ7 A;  3KV2 A;  3SL0 A;  5D1B A;  5EEF A;  1HQH A;  2VQV A;  3GMZ A;  3MEN A;  4RHK A;  4BKX B;  3SJT A;  4MYK A;  3PZL A;  5LI3 A;  1ZZ3 A;  2GH6 A;  5G0G A;  4Q3Q A;  2CEV A;  3E8Z A;  2PLL A;  1WOG A;  5THT A;  1T4R A;  5FUE A;  4IU5 A;  5D1C A;  2VQO A;  5EEI A;  3C0Y A;  4RHL A;  5G10 A;  3NIO A;  1P8Q A;  1HQF A;  1T64 A;  4GSM A;  5EFK B;  3F0R A;  4MYL A;  3EZP A;  4IXU A;  5EFN A;  3TF3 A;  1VKG A;  4HWW A;  1P8M A;  4Q40 A;  5HJA A;  4RHM A;  3LHL A;  5THS A;  4QA4 A;  4QA1 A;  4IU0 A;  1T4S A;  4Q3S A;  5G11 A;  4IE1 A;  3MMR A;  1WOH A;  4BZ6 A;  2PHO A;  5G17 A;  3LP4 A;  4IE3 A;  5G12 A;  3MZ6 A;  1C3R A;  3EZT A; 
#chains in the Genus database with same CATH homology
 4LY1 A;  2VQW G;  3Q9C A;  5ICN B;  5G0X A;  2V5W A;  5EEN A;  3ZNS A;  2V5X A;  4ZUP A;  5G13 A;  5G3W A;  3SFH A;  4CBY A;  5BWZ A;  5FCW A;  4RN1 A;  5EF8 A;  5A2S A;  3MZ3 A;  3Q9F A;  4ZUQ A;  1T67 A;  5EEK A;  2VQM A;  4BZ9 A;  5DC7 A;  4QA6 A;  4QA2 A;  4CBT A;  5EFH A;  5EF7 A;  3Q9E A;  5EFJ D;  4ZUR A;  4ZUO A;  5G0I A;  3EW8 A;  5G1B A;  5THV A;  5G0H A;  4ZUM A;  5EEM A;  4QA3 A;  5DC5 A;  4RN0 A;  5EFG A;  1C3S A;  3F07 A;  4BZ8 A;  4QA0 A;  3SFF A;  3Q9B A;  4QA5 A;  1C3P A;  3MZ7 A;  5D1D A;  2VQJ A;  2VCG A;  5G0Y A;  5DC6 A;  5JI5 A;  4QA7 A;  5IX0 A;  4LXZ A;  1W22 A;  5DC8 A;  1ZZ0 A;  3C0Z A;  3C10 A;  5EFB D;  3F06 A;  3EWF A;  2VQQ A;  3MAX A;  4BZ5 A;  1T69 A;  4ZUN A;  5IWG A;  4A69 A;  3ZNR A;  5G1A A;  5G1C A;  5THU A;  3MZ4 A;  3RQD A;  1ZZ1 A;  4CQF A;  5G0J A;  4BZ7 A;  4RN2 A;  5D1B A;  5EEF A;  2VQV A;  3MEN A;  4BKX B;  5LI3 A;  1ZZ3 A;  2GH6 A;  5G0G A;  5THT A;  5FUE A;  5D1C A;  2VQO A;  5EEI A;  3C0Y A;  5G10 A;  1T64 A;  5EFK B;  3F0R A;  5EFN A;  3EZP A;  1VKG A;  5THS A;  4QA4 A;  4QA1 A;  5G11 A;  4BZ6 A;  5G17 A;  5G12 A;  3MZ6 A;  1C3R A;  3EZT 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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