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


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