5D1BA

Crystal structure of g117e hdac8 in complex with tsa
Total Genus 122
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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
122
sequence length
364
structure length
356
Chain Sequence
LVPVYIYSPEYVSMCDSLAKIPKRASMVHSLIEAYALHKQMRIVKPKVASMEEMATFHTDAYLQHLQKVSQEGEYGLGYDCPATEGIFDYAAAIGEATITAAQCLIDGMCKVAINWSGGWHHAKKDEASGFCYLNDAVLGILRLRRKFERILYVDLDLHHGDGVEDAFSFTSKVMTVSLHKFSPGFFPGTGDVSDVGLGKGRYYSVNVPIQDGIQDEKYYQICESVLKEVYQAFNPKAVVLQLGADTIAGDPMCSFNMTPVGIGKCLKYILQWQLATLILGGGGYNLANTARCWTYLTGVILGKTLSSEIPDHEFFTAYGPDYVLEITPSCRPDRNEPHRIQQILNYIKGNLKHVV
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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
molecule keywords Histone deacetylase 8
publication title Biochemical and Structural Characterization of HDAC8 Mutants Associated with Cornelia de Lange Syndrome Spectrum Disorders.
pubmed doi rcsb
source organism Homo sapiens
total genus 122
structure length 356
sequence length 364
chains with identical sequence B
ec nomenclature ec 3.5.1.98: Histone deacetylase.
pdb deposition date 2015-08-04

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 5d1bA00
5G0IA 4QA6A 5G13A 3F0RA 4BZ7A 5THVA 5EF7A 4ZUNA 3MZ6A 1ZZ3A 5EFHA 3C0YA 5EEFA 1VKGA 5THUA 3EZPA 4BZ6A 5EFGA 5D1CA 3EWFA 5BWZA 3C0ZA 4ZUQA 1T67A 5G3WA 5D1DA 3EZTA 1ZZ1A 4BKXB 1T69A 4BZ5A 4A69A 5G0HA 5EF8A 4ZUMA 4BZ9A 5THTA 3MZ7A 3ZNSA 4QA2A 5G10A 5G12A 5G1CA 5G0XA 3Q9FA 3SFFA 5G0JA 5EEMA 4CQFA 5DC6A 4QA7A 3Q9EA 5DC8A 5FUEA 1C3PA 5EFKB 5ICNB 4BZ8A 3MZ3A 3MENA 4QA1A 3Q9CA 1T64A 5G1BA 5EEIA 5IWGA 2VQWG 5FCWA 4LXZA 5EFJD 5THSA 4QA3A 5D1BA 2GH6A 3MZ4A 5G0YA 5IX0A 5LI3A 3SFHA 3MAXA 1ZZ0A 4QA5A 5G0GA 3F06A 4LY1A 3Q9BA 3F07A 4CBYA 3EW8A 5G1AA 5EENA 4QA4A 5G17A 3ZNRA 5A2SA 2VQQA 5DC7A 5EFBD 2VQVA 2VCGA 5EFNA 2V5WA 5G11A 1C3RA 3C10A 4RN1A 2VQMA 1W22A 2V5XA 1C3SA 3RQDA 4RN0A 2VQOA 4RN2A 4ZUOA 4ZURA 4CBTA 5JI5A 4QA0A 2VQJA 5EEKA 5DC5A 4ZUPA
chains in the Genus database with same CATH superfamily
1P8SA 4GSMA 5G0IA 3LP4A 3SKKA 1GQ7A 3GN0A 3E8ZA 4Q3PA 4QA6A 5G13A 3F0RA 4BZ7A 5THVA 5EF7A 4Q42A 1RLAA 4ZUNA 3MZ6A 1ZZ3A 4RHLA 3C0YA 4FCIA 4GWCA 4MYFA 5EFHA 5EEFA 1VKGA 5THUA 3CEVA 3EZPA 4BZ6A 3NIQA 4IE3A 3NIPA 5EFGA 4Q3TA 5D1CA 1P8QA 4GWDA 3EWFA 5BWZA 3C0ZA 3F80A 1T67A 4FCKA 4IU1A 4ZUQA 4HZEA 2PHOA 4CEVA 4ITYA 4RHMA 1GQ6A 5D1DA 1HQXA 3EZTA 5G3WA 1ZZ1A 1T4PA 3E9BA 1HQFA 1T69A 3MMRA 3NIOA 4RHKA 4BKXB 4BZ5A 4A69A 4RLAA 5G0HA 1TBJA 3MFVA 4Q3UA 3LP7A 5EF8A 4ZUMA 5THTA 3MZ7A 3LHLA 2RLAA 3THHA 3ZNSA 4BZ9A 4QA2A 1T4SA 5G10A 5G12A 5G1CA 1WVAA 4Q3RA 5G0XA 3Q9FA 4MYKA 1P8MA 4MXRA 3THJA 3SFFA 1T5GA 5G0JA 1HQHA 5EEMA 4CQFA 5DC6A 4QA7A 3Q9EA 4HXQA 3TF3A 4IE2A 5DC8A 5FUEA 1C3PA 4MYNA 4IXVA 5EFKB 2PHAA 5ICNB 4BZ8A 4GSVA 5RLAA 4Q3QA 3MZ3A 3MENA 4QA1A 3Q9CA 4Q3SA 1PQ3A 1T64A 5EEIA 1P8OA 4IU4A 4RHQA 5G1BA 5IWGA 3MFWA 4Q41A 2VQWG 4IU5A 2PLLA 5FCWA 3THEA 4LXZA 5EFJD 5THSA 5HJ9A 4G3HA 3E8QA 4QA3A 4HWWA 1WOGA 5D1BA 4Q40A 2GH6A 1P8RA 3MZ4A 1ZPGA 3E6KA 1P8PA 1XFKA 1D3VA 3DJ8A 2EF4A 3E6VA 5G0YA 4RHJA 5IX0A 5LI3A 1HQGA 3SFHA 3MAXA 1ZZ0A 1T5FA 4QA5A 1TBLA 2EF5A 5G0GA 3SL0A 1TA1A 3F06A 4LY1A 3Q9BA 3F07A 3SL1A 4CBYA 3EW8A 1WOHA 2CEVA 5G1AA 5EENA 4QA4A 5G17A 4IE1A 4IU0A 4RHIA 3GMZA 3ZNRA 2VQQA 4IXUA 5A2SA 5DC7A 5DC5A 5EFBD 1T4TA 2EIVA 1TBHA 1WVBA 2AEBA 1R1OA 2VCGA 2VQVA 3KV2A 5EFNA 5CEVA 2V5WA 3MJLA 4Q3VA 5G11A 1C3RA 1T4RA 5HJAA 3C10A 3TH7A 4RN1A 2VQMA 1HQ5A 4MYLA 1W22A 2V5XA 1P8NA 1C3SA 3RQDA 4RN0A 3PZLA 2VQOA 1CEVA 4RN2A 4DZ4A 4ZUOA 3M1RA 4ZURA 1ZPEA 4CBTA 5JI5A 2A0MA 4QA0A 2VQJA 2ZAVA 1WOIA 4Q3RC 3SJTA 5EEKA 4I06A 4ZUPA 4GSZA 3RLAA
chains in the Genus database with same CATH topology
5G0IA 4QA6A 5G13A 3F0RA 4BZ7A 5THVA 5EF7A 4ZUNA 3MZ6A 1ZZ3A 5EFHA 3C0YA 5EEFA 1VKGA 5THUA 3EZPA 4BZ6A 5EFGA 5D1CA 3EWFA 5BWZA 3C0ZA 4ZUQA 1T67A 5G3WA 5D1DA 3EZTA 1ZZ1A 4BKXB 1T69A 4BZ5A 4A69A 5G0HA 5EF8A 4ZUMA 4BZ9A 5THTA 3MZ7A 3ZNSA 4QA2A 5G10A 5G12A 5G1CA 5G0XA 3Q9FA 3SFFA 5G0JA 5EEMA 4CQFA 5DC6A 4QA7A 3Q9EA 5DC8A 5FUEA 1C3PA 5EFKB 5ICNB 4BZ8A 3MZ3A 3MENA 4QA1A 3Q9CA 1T64A 5G1BA 5EEIA 5IWGA 2VQWG 5FCWA 4LXZA 5EFJD 5THSA 4QA3A 5D1BA 2GH6A 3MZ4A 5G0YA 5IX0A 5LI3A 3SFHA 3MAXA 1ZZ0A 4QA5A 5G0GA 3F06A 4LY1A 3Q9BA 3F07A 4CBYA 3EW8A 5G1AA 5EENA 4QA4A 5G17A 3ZNRA 5A2SA 2VQQA 5DC7A 5EFBD 2VQVA 2VCGA 5EFNA 2V5WA 5G11A 1C3RA 3C10A 4RN1A 2VQMA 1W22A 2V5XA 1C3SA 3RQDA 4RN0A 2VQOA 4RN2A 4ZUOA 4ZURA 4CBTA 5JI5A 4QA0A 2VQJA 5EEKA 5DC5A 4ZUPA
chains in the Genus database with same CATH homology


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