4RN1A

Crystal structure of s39d hdac8 in complex with a largazole analogue.
Total Genus 130
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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
130
sequence length
365
structure length
361
Chain Sequence
LVPVYIYSPEYVSMCDSLAKIPKRADMVHSLIEAYALHKQMRIVKPKVASMEEMATFHTDAYLQHLQKVSQEGDDSIEYGLGYDCPATEGIFDYAAAIGGATITAAQCLIDGMCKVAINWSGGWHHAKKDEASGFCYLNDAVLGILRLRRKFERILYVDLDLHHGDGVEDAFSFTSKVMTVSLHKFSPGFFPGTGDVSDVGLGKGRYYSVNVPIQDGIQDEKYYQICESVLKEVYQAFNPKAVVLQLGADTIAGDPMCSFNMTPVGIGKCLKYILQWQLATLILGGGGYNLANTARCWTYLTGVILGKTLSSEIPDHEFFTAYGPDYVLEITPSCRPDRNEPHRIQQILNYIKGNLKHVVI
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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/hydrolase inhibitor
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
total genus 130
structure length 361
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 4rn1A00
5G0JA 1C3RA 3C10A 5EEMA 3RQDA 2GH6A 4QA2A 4BZ9A 5G10A 4QA0A 5EEKA 4CBYA 5BWZA 4LXZA 5D1BA 5G1BA 5G0GA 5G12A 3F0RA 1ZZ0A 5EFHA 4QA3A 4ZUNA 5DC7A 5EEFA 4BZ7A 2VQQA 5EF7A 5G17A 5JI5A 5G0XA 3Q9EA 3F06A 2VQJA 4BKXB 4LY1A 4RN2A 4QA4A 5EFBD 5IX0A 4ZUQA 2VCGA 4QA7A 5G0IA 5FUEA 3C0YA 3MAXA 1T64A 3ZNSA 4A69A 4BZ5A 5EFNA 3MZ7A 4QA1A 5G11A 5A2SA 3Q9CA 1W22A 1C3SA 4CBTA 3EZTA 5THVA 5DC5A 3F07A 3MZ6A 3MZ3A 5G0YA 3Q9FA 5EF8A 5ICNB 5EFJD 5EEIA 4ZUMA 3EWFA 4RN0A 3C0ZA 5EFGA 1VKGA 1C3PA 5G1AA 4QA6A 4CQFA 2V5WA 4QA5A 1ZZ1A 5D1DA 2VQVA 4ZUPA 5EENA 5D1CA 5G0HA 5G3WA 3ZNRA 1T69A 3SFHA 1T67A 4RN1A 2VQMA 5DC8A 5EFKB 4ZUOA 4ZURA 5IWGA 5FCWA 4BZ8A 5G1CA 4BZ6A 2VQOA 5THSA 1ZZ3A 5THTA 2V5XA 3Q9BA 2VQWG 3EW8A 3MZ4A 5THUA 3MENA 5LI3A 3EZPA 3SFFA 5G13A 5DC6A
chains in the Genus database with same CATH superfamily
5G0JA 1C3RA 3C10A 5EEMA 3RQDA 1ZPEA 4Q42A 4FCKA 2GH6A 4QA2A 4BZ9A 3MMRA 4IE1A 5G10A 1GQ6A 4QA0A 1WVBA 5EEKA 4Q3PA 4CBYA 4LXZA 4IE3A 4IXUA 4RHMA 5D1BA 5G1BA 5RLAA 3THJA 5G0GA 5G12A 3F0RA 1T4TA 1ZZ0A 5EFHA 4QA3A 4ZUNA 4MXRA 5DC7A 5EEFA 3SJTA 4Q3RA 4BZ7A 1TA1A 2VQQA 4GWCA 5EF7A 5G17A 5JI5A 4IU5A 5G0XA 4GWDA 3NIOA 3Q9EA 3F06A 1D3VA 2A0MA 2VQJA 4BKXB 4LY1A 4RN2A 4QA4A 1R1OA 5EFBD 5IX0A 4ZUQA 4IU4A 2VCGA 4QA7A 4GSZA 5G0IA 1TBLA 5FUEA 3C0YA 3MAXA 1T64A 3MJLA 3NIQA 3ZNSA 1P8RA 4A69A 4BZ5A 5EFNA 4HXQA 3MZ7A 4GSMA 3MFVA 4QA1A 5G11A 1WVAA 1XFKA 3E8QA 4MYLA 5A2SA 3Q9CA 1T5FA 3DJ8A 5CEVA 1W22A 4IU0A 1C3SA 4CBTA 3EZTA 3CEVA 5DC5A 5THVA 1TBHA 1P8SA 3F07A 3MZ6A 2EF4A 3MZ3A 5G0YA 1P8NA 3Q9FA 5EF8A 4Q3RC 4RHJA 3TH7A 2PHOA 4FCIA 5ICNB 5EEIA 5EFJD 1WOHA 4ZUMA 3EWFA 3SL1A 4MYNA 4RN0A 3SKKA 3SL0A 1WOIA 3M1RA 4GSVA 3F80A 3C0ZA 1RLAA 2RLAA 1VKGA 1C3PA 3LP4A 4QA6A 2PLLA 5EFGA 5G1AA 4CQFA 2AEBA 3PZLA 2CEVA 2V5WA 1HQGA 4QA5A 1HQ5A 3GN0A 1ZZ1A 4Q40A 1T4RA 4G3HA 4Q3UA 4Q3TA 5BWZA 5D1DA 2VQVA 1P8MA 3E8ZA 4ITYA 5EENA 4ZUPA 3TF3A 5D1CA 5G0HA 5G3WA 3RLAA 4IXVA 4HWWA 3ZNRA 1T69A 1WOGA 3MFWA 4IU1A 3SFHA 1CEVA 1P8OA 1P8QA 3GMZA 1T67A 1T4PA 2EF5A 3THHA 2ZAVA 4RN1A 4CEVA 4RLAA 1T5GA 1P8PA 2VQMA 1HQHA 4Q3QA 1T4SA 5DC8A 1PQ3A 2PHAA 3KV2A 4DZ4A 4RHIA 5EFKB 4I06A 1GQ7A 4ZUOA 4ZURA 5IWGA 4Q41A 5FCWA 1TBJA 3LP7A 4Q3SA 1HQXA 4BZ8A 5G1CA 1HQFA 3LHLA 4BZ6A 3E9BA 2VQOA 5THSA 1ZZ3A 4MYFA 5HJ9A 5HJAA 3E6VA 1ZPGA 4RHKA 5THTA 4MYKA 2V5XA 4RHQA 3THEA 3E6KA 3Q9BA 2VQWG 2EIVA 3EW8A 4RHLA 3MZ4A 5THUA 3MENA 3NIPA 5LI3A 3EZPA 3SFFA 5G13A 5DC6A 4Q3VA 4IE2A 4HZEA
chains in the Genus database with same CATH topology
5G0JA 1C3RA 3C10A 5EEMA 3RQDA 2GH6A 4QA2A 4BZ9A 5G10A 4QA0A 5EEKA 4CBYA 5BWZA 4LXZA 5D1BA 5G1BA 5G0GA 5G12A 3F0RA 1ZZ0A 5EFHA 4QA3A 4ZUNA 5DC7A 5EEFA 4BZ7A 2VQQA 5EF7A 5G17A 5JI5A 5G0XA 3Q9EA 3F06A 2VQJA 4BKXB 4LY1A 4RN2A 4QA4A 5EFBD 5IX0A 4ZUQA 2VCGA 4QA7A 5G0IA 5FUEA 3C0YA 3MAXA 1T64A 3ZNSA 4A69A 4BZ5A 5EFNA 3MZ7A 4QA1A 5G11A 5A2SA 3Q9CA 1W22A 1C3SA 4CBTA 3EZTA 5THVA 5DC5A 3F07A 3MZ6A 3MZ3A 5G0YA 3Q9FA 5EF8A 5ICNB 5EFJD 5EEIA 4ZUMA 3EWFA 4RN0A 3C0ZA 5EFGA 1VKGA 1C3PA 5G1AA 4QA6A 4CQFA 2V5WA 4QA5A 1ZZ1A 5D1DA 2VQVA 4ZUPA 5EENA 5D1CA 5G0HA 5G3WA 3ZNRA 1T69A 3SFHA 1T67A 4RN1A 2VQMA 5DC8A 5EFKB 4ZUOA 4ZURA 5IWGA 5FCWA 4BZ8A 5G1CA 4BZ6A 2VQOA 5THSA 1ZZ3A 5THTA 2V5XA 3Q9BA 2VQWG 3EW8A 3MZ4A 5THUA 3MENA 5LI3A 3EZPA 3SFFA 5G13A 5DC6A
chains in the Genus database with same CATH homology


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