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


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