2V5WA

Crystal structure of hdac8-substrate complex
Total Genus 136
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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
136
sequence length
363
structure length
363
Chain Sequence
b'VPVYIYSPEYVSMCDSLAKIPKRASMVHSLIEAYALHKQMRIVKPKVASMEEMATFHTDAYLQHLQKVSQEGDDDHPDSIEYGLGYDCPATEGIFDYAAAIGGATITAAQCLIDGMCKVAINWSGGWHHAKKDEASGFCYLNDAVLGILRLRRKFERILYVDLDLHHGDGVEDAFSFTSKVMTVSLHKFSPGFFPGTGDVSDVGLGKGRYYSVNVPIQDGIQDEKYYQICESVLKEVYQAFNPKAVVLQLGADTIAGDPMCSFNMTPVGIGKCLKYILQWQLATLILGGGGFNLANTARCWTYLTGVILGKTLSSEIPDHEFFTAYGPDYVLEITPSCRPDRNEPHRIQQILNYIKGNLKHVV'
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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 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
molecule tags Hydrolase/hydrolase substrate
total genus 136
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 2v5wA00
3SFFA 4QA2A 5DC7A 1C3RA 3Q9CA 5G17A 1T67A 5EENA 5G10A 3Q9FA 3EWFA 5EFGA 4QA1A 1W22A 3C10A 4BZ5A 5G11A 3MZ6A 5EFBD 5G1BA 1T69A 3C0YA 5FCWA 4ZUPA 2VQMA 5IWGA 4BZ7A 4LXZA 5G0XA 3EW8A 5DC5A 3C0ZA 5DC6A 4QA7A 3Q9EA 2VQQA 5EF8A 4ZURA 4RN1A 4CBYA 4BZ6A 5G12A 5G0YA 3Q9BA 4RN0A 5THVA 5BWZA 5G0GA 5ICNB 5G0HA 5G3WA 4CBTA 5EF7A 2GH6A 3RQDA 5EEIA 4BZ8A 3MZ3A 4CQFA 3EZTA 5EEKA 4QA0A 5THTA 4QA3A 4QA4A 4A69A 5G13A 4ZUQA 5D1DA 5EFJD 4ZUOA 3ZNRA 5G1AA 2VCGA 4BKXB 1ZZ1A 2VQOA 5FUEA 3F06A 5THUA 4BZ9A 5D1BA 5D1CA 5EFNA 3F07A 3MZ7A 3MZ4A 4QA5A 2VQWG 5G0IA 4RN2A 4LY1A 5EFHA 3EZPA 5DC8A 2VQJA 5A2SA 1ZZ3A 1VKGA 5G0JA 5EEFA 3SFHA 2V5WA 1T64A 5IX0A 2VQVA 5JI5A 5G1CA 1ZZ0A 4QA6A 3MENA 4ZUNA 3MAXA 5EEMA 1C3SA 1C3PA 4ZUMA 5LI3A 2V5XA 3ZNSA 5EFKB 3F0RA 5THSA
chains in the Genus database with same CATH superfamily
3SFFA 1T4PA 4QA2A 4RHIA 5DC7A 3SL1A 3THEA 4GWDA 1C3RA 1T5FA 1T4TA 2EF5A 3Q9CA 1WOHA 5G17A 1T67A 5EENA 5G10A 3F0RA 3LHLA 3EWFA 3Q9FA 1R1OA 4ITYA 4IXUA 4Q3UA 4QA1A 5EFGA 1W22A 4Q3VA 1P8SA 4IE3A 3C10A 1PQ3A 4BZ5A 1WOIA 3GMZA 3MZ6A 5G11A 2PLLA 3LP7A 3NIQA 5EFBD 1T69A 5G1BA 3C0YA 5FCWA 4ZUPA 4RHMA 1WVAA 1XFKA 2VQMA 5IWGA 4Q41A 4BZ7A 4RHJA 3E6VA 4IU1A 3EW8A 4LXZA 5DC5A 5G0XA 1TBHA 3F80A 4MXRA 3C0ZA 3THJA 1TBLA 3NIOA 1ZPEA 4G3HA 1HQHA 5DC6A 4Q3PA 3MFVA 4QA7A 4IXVA 5CEVA 3Q9EA 2VQQA 1HQFA 5EF8A 1P8NA 4ZURA 4IE2A 1T4SA 4RN1A 3MFWA 3MMRA 2PHAA 4RHKA 3CEVA 5HJAA 3RLAA 4RHQA 4DZ4A 4CBYA 4BZ6A 5G12A 5G0YA 4I06A 3Q9BA 4RN0A 5THVA 5BWZA 5G0GA 1P8MA 2CEVA 4GWCA 5ICNB 5G0HA 5G3WA 1GQ7A 3TH7A 4CBTA 2GH6A 5EF7A 3E6KA 1WOGA 2ZAVA 3RQDA 5EEIA 1CEVA 4BZ8A 3MZ3A 4RLAA 3E8ZA 2EIVA 3EZTA 4CQFA 5EEKA 4QA0A 3PZLA 5THTA 4QA3A 3TF3A 4QA4A 4A69A 5G13A 1HQGA 1RLAA 4HWWA 4ZUQA 1T4RA 5D1DA 5EFJD 4Q3RA 4FCKA 4ZUOA 3SJTA 4IE1A 4Q3SA 2VCGA 5G1AA 3ZNRA 1P8RA 3E8QA 4Q3QA 4BKXB 1ZZ1A 2VQOA 5RLAA 5FUEA 3F06A 4Q42A 5THUA 1TBJA 5D1BA 5D1CA 3M1RA 5EFNA 4BZ9A 3F07A 3DJ8A 1HQXA 3MZ7A 3MZ4A 1HQ5A 3KV2A 4QA5A 2VQWG 5G0IA 4RN2A 4LY1A 4MYNA 5EFHA 4CEVA 3SL0A 3MJLA 3EZPA 2PHOA 4Q3RC 5DC8A 3LP4A 1P8PA 2VQJA 5A2SA 4GSMA 1ZZ3A 4GSVA 1D3VA 3NIPA 1P8OA 4MYKA 4HZEA 4GSZA 3GN0A 4Q3TA 5HJ9A 4HXQA 4IU4A 2RLAA 1ZPGA 1T5GA 1VKGA 3E9BA 1WVBA 5G0JA 5EEFA 3SFHA 2V5WA 4IU5A 1T64A 4MYFA 2AEBA 5IX0A 2VQVA 1TA1A 4IU0A 5JI5A 5G1CA 1ZZ0A 4Q40A 4QA6A 3MENA 4FCIA 2EF4A 4ZUNA 3THHA 1GQ6A 3MAXA 4MYLA 5EEMA 1C3SA 3SKKA 1P8QA 1C3PA 4ZUMA 5LI3A 4RHLA 2V5XA 3ZNSA 5EFKB 2A0MA 5THSA
chains in the Genus database with same CATH topology
3SFFA 4QA2A 5DC7A 1C3RA 3Q9CA 5G17A 1T67A 5EENA 5G10A 3Q9FA 3EWFA 5EFGA 4QA1A 1W22A 3C10A 4BZ5A 5G11A 3MZ6A 5EFBD 5G1BA 1T69A 3C0YA 5FCWA 4ZUPA 2VQMA 5IWGA 4BZ7A 4LXZA 5G0XA 3EW8A 5DC5A 3C0ZA 5DC6A 4QA7A 3Q9EA 2VQQA 5EF8A 4ZURA 4RN1A 4CBYA 4BZ6A 5G12A 5G0YA 3Q9BA 4RN0A 5THVA 5BWZA 5G0GA 5ICNB 5G0HA 5G3WA 4CBTA 5EF7A 2GH6A 3RQDA 5EEIA 4BZ8A 3MZ3A 4CQFA 3EZTA 5EEKA 4QA0A 5THTA 4QA3A 4QA4A 4A69A 5G13A 4ZUQA 5D1DA 5EFJD 4ZUOA 3ZNRA 5G1AA 2VCGA 4BKXB 1ZZ1A 2VQOA 5FUEA 3F06A 5THUA 4BZ9A 5D1BA 5D1CA 5EFNA 3F07A 3MZ7A 3MZ4A 4QA5A 2VQWG 5G0IA 4RN2A 4LY1A 5EFHA 3EZPA 5DC8A 2VQJA 5A2SA 1ZZ3A 1VKGA 5G0JA 5EEFA 3SFHA 2V5WA 1T64A 5IX0A 2VQVA 5JI5A 5G1CA 1ZZ0A 4QA6A 3MENA 4ZUNA 3MAXA 5EEMA 1C3SA 1C3PA 4ZUMA 5LI3A 2V5XA 3ZNSA 5EFKB 3F0RA 5THSA
chains in the Genus database with same CATH homology


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