4RN0A

Crystal structure of s39d hdac8 in complex with a largazole analogue.
Total Genus 133
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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
133
sequence length
365
structure length
359
Chain Sequence
b'LVPVYIYSPEYVSMCDSLAKIPKRADMVHSLIEAYALHKQMRIVKPKVASMEEMATFHTDAYLQHLQKVSQEGSIEYGLGYDCPATEGIFDYAAAIGGATITAAQCLIDGMCKVAINWSGGWHHAKKDEASGFCYLNDAVLGILRLRRKFERILYVDLDLHHGDGVEDAFSFTSKVMTVSLHKFSPGFFPGTGDVSDVGLGKGRYYSVNVPIQDGIQDEKYYQICESVLKEVYQAFNPKAVVLQLGADTIAGDPMCSFNMTPVGIGKCLKYILQWQLATLILGGGGYNLANTARCWTYLTGVILGKTLSSEIPDHEFFTAYGPDYVLEITPSCRPDRNEPHRIQQILNYIKGNLKHVVI'
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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 Variable Active Site Loop Conformations Accommodate the Binding of Macrocyclic Largazole Analogues to HDAC8.
pubmed doi rcsb
source organism Homo sapiens
molecule tags Hydrolase/hydrolase inhibitor
total genus 133
structure length 359
sequence length 365
chains with identical sequence B
ec nomenclature ec 3.5.1.98: Histone deacetylase.
pdb deposition date 2014-10-22

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 4rn0A00
3ZNSA 5DC5A 1VKGA 5THVA 5EFJD 4BZ5A 5EEFA 4ZUNA 5THTA 5BWZA 4QA7A 5FCWA 4CBTA 3Q9BA 1T69A 5G0HA 4QA4A 1ZZ0A 2VCGA 4BZ6A 4LY1A 5EFGA 4ZUQA 5EFNA 4QA6A 3MZ4A 5G3WA 5IX0A 4QA5A 2V5WA 5FUEA 4ZUMA 5THUA 4QA1A 4A69A 2VQQA 5DC7A 3F07A 5EF7A 5G1CA 5G0GA 1C3RA 5EEMA 5LI3A 3MZ7A 2VQJA 5IWGA 3SFHA 3Q9FA 4RN2A 1C3SA 5G0IA 2VQWG 5EFBD 5G10A 4RN0A 4CBYA 4LXZA 2VQOA 5D1BA 3EZTA 4QA3A 5EEKA 5G0XA 5JI5A 3EZPA 1ZZ1A 4BZ8A 3Q9EA 4ZUOA 4QA0A 2VQVA 5ICNB 5G0YA 5EFKB 4CQFA 5DC8A 2GH6A 5A2SA 5G12A 5G1BA 3MAXA 3MZ3A 5G11A 3Q9CA 3F0RA 5DC6A 3F06A 4ZURA 1C3PA 5D1DA 3C0YA 5EF8A 5G1AA 5EFHA 3MZ6A 3SFFA 5EEIA 5G13A 4ZUPA 5D1CA 1T64A 5EENA 3C10A 1ZZ3A 5G0JA 4BZ9A 3MENA 5THSA 5G17A 2V5XA 3ZNRA 4BKXB 1T67A 4BZ7A 4RN1A 3EW8A 3RQDA 4QA2A 2VQMA 3C0ZA 1W22A 3EWFA
chains in the Genus database with same CATH superfamily
4RHKA 3ZNSA 1T4SA 1HQ5A 1VKGA 5DC5A 1WOHA 5THVA 1GQ6A 3TF3A 1P8MA 1ZPEA 5EFJD 3GN0A 4BZ5A 5EEFA 4ZUNA 5THTA 1TBHA 5BWZA 3LP7A 4QA7A 4Q3UA 3M1RA 5FCWA 4CBTA 1T5FA 3NIPA 3Q9BA 1T69A 5RLAA 5G0HA 3MMRA 4QA4A 1ZZ0A 2VCGA 4BZ6A 4LY1A 3E8QA 3NIOA 1PQ3A 5EFGA 4ZUQA 3E6KA 5EFNA 4IU5A 4QA6A 4Q3RA 4Q3QA 4RHJA 4G3HA 3MZ4A 5G3WA 5IX0A 4QA5A 4MXRA 2V5WA 1P8RA 3F80A 4IU0A 5FUEA 4ZUMA 3SKKA 5THUA 4QA1A 4A69A 1D3VA 2VQQA 5DC7A 4IXVA 3F07A 5EF7A 5G1CA 4DZ4A 5G0GA 1C3RA 4GSMA 3LP4A 5EEMA 2EF5A 3MZ7A 5LI3A 1ZPGA 1R1OA 2VQJA 1RLAA 5IWGA 3SFHA 1HQFA 2PLLA 3Q9FA 4RN2A 4GSVA 5HJ9A 2A0MA 1C3SA 5G0IA 2VQWG 2PHOA 1WOGA 1TBLA 3KV2A 5EFBD 1GQ7A 4RHMA 5G10A 3THEA 4RN0A 4GWDA 4RHQA 4GSZA 4CBYA 4IU4A 4ITYA 4LXZA 4IE2A 2VQOA 3MFVA 4FCKA 5D1BA 4Q3SA 3SL1A 1T4RA 3EZTA 4QA3A 4IE1A 5EEKA 5G0XA 5JI5A 3EZPA 4FCIA 1ZZ1A 4BZ8A 5HJAA 4IE3A 3Q9EA 4ZUOA 2PHAA 4QA0A 3LHLA 3NIQA 4MYFA 2RLAA 4RLAA 2VQVA 3THHA 5ICNB 4RHIA 5G0YA 4I06A 3MJLA 4Q3PA 5EFKB 1TA1A 4CQFA 2EF4A 3E9BA 1WOIA 3THJA 5DC8A 1WVBA 2GH6A 5A2SA 3CEVA 5G12A 4RHLA 3SJTA 5G1BA 3E8ZA 3MFWA 3MAXA 1P8SA 3MZ3A 5G11A 3DJ8A 3Q9CA 3F0RA 1P8OA 2CEVA 5DC6A 3PZLA 4GWCA 3F06A 4ZURA 2EIVA 1C3PA 5D1DA 3C0YA 4Q3RC 2ZAVA 5EF8A 4IU1A 1TBJA 3GMZA 1CEVA 5G1AA 5EFHA 3MZ6A 3SFFA 1XFKA 5EEIA 1HQGA 1HQHA 4MYLA 5G13A 4MYKA 5CEVA 4ZUPA 5D1CA 1T64A 1P8PA 3C10A 1T4TA 1ZZ3A 5EENA 5G0JA 4CEVA 1T4PA 4Q41A 4BZ9A 3MENA 5THSA 5G17A 1P8NA 2V5XA 3ZNRA 4Q40A 1WVAA 4BKXB 4HXQA 1T67A 4IXUA 4MYNA 4RN1A 4BZ7A 3EW8A 1HQXA 1P8QA 4Q3VA 3RLAA 3RQDA 4Q3TA 1T5GA 2AEBA 4Q42A 4QA2A 3SL0A 2VQMA 3C0ZA 4HZEA 1W22A 3E6VA 3TH7A 4HWWA 3EWFA
chains in the Genus database with same CATH topology
3ZNSA 5DC5A 1VKGA 5THVA 5EFJD 4BZ5A 5EEFA 4ZUNA 5THTA 5BWZA 4QA7A 5FCWA 4CBTA 3Q9BA 1T69A 5G0HA 4QA4A 1ZZ0A 2VCGA 4BZ6A 4LY1A 5EFGA 4ZUQA 5EFNA 4QA6A 3MZ4A 5G3WA 5IX0A 4QA5A 2V5WA 5FUEA 4ZUMA 5THUA 4QA1A 4A69A 2VQQA 5DC7A 3F07A 5EF7A 5G1CA 5G0GA 1C3RA 5EEMA 5LI3A 3MZ7A 2VQJA 5IWGA 3SFHA 3Q9FA 4RN2A 1C3SA 5G0IA 2VQWG 5EFBD 5G10A 4RN0A 4CBYA 4LXZA 2VQOA 5D1BA 3EZTA 4QA3A 5EEKA 5G0XA 5JI5A 3EZPA 1ZZ1A 4BZ8A 3Q9EA 4ZUOA 4QA0A 2VQVA 5ICNB 5G0YA 5EFKB 4CQFA 5DC8A 2GH6A 5A2SA 5G12A 5G1BA 3MAXA 3MZ3A 5G11A 3Q9CA 3F0RA 5DC6A 3F06A 4ZURA 1C3PA 5D1DA 3C0YA 5EF8A 5G1AA 5EFHA 3MZ6A 3SFFA 5EEIA 5G13A 4ZUPA 5D1CA 1T64A 5EENA 3C10A 1ZZ3A 5G0JA 4BZ9A 3MENA 5THSA 5G17A 2V5XA 3ZNRA 4BKXB 1T67A 4BZ7A 4RN1A 3EW8A 3RQDA 4QA2A 2VQMA 3C0ZA 1W22A 3EWFA
chains in the Genus database with same CATH homology


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