5D1DA

Crystal structure of p91l-y306f hdac8 in complex with a tetrapeptide substrate
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
364
structure length
364
Chain Sequence
LVPVYIYSPEYVSMCDSLAKIPKRASMVHSLIEAYALHKQMRIVKPKVASMEEMATFHTDAYLQHLQKVSQEGDDDHLDSIEYGLGYDCPATEGIFDYAAAIGGATITAAQCLIDGMCKVAINWSGGWHHAKKDEASGFCYLNDAVLGILRLRRKFERILYVDLDLHHGDGVEDAFSFTSKVMTVSLHKFSPGFFPGTGDVSDVGLGKGRYYSVNVPIQDGIQDEKYYQICESVLKEVYQAFNPKAVVLQLGADTIAGDPMCSFNMTPVGIGKCLKYILQWQLATLILGGGGFNLANTARCWTYLTGVILGKTLSSEIPDHEFFTAYGPDYVLEITPSCRPDRNEPHRIQQILNYIKGNLKHVV
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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 Biochemical and Structural Characterization of HDAC8 Mutants Associated with Cornelia de Lange Syndrome Spectrum Disorders.
pubmed doi rcsb
source organism Homo sapiens
molecule tags Hydrolase
total genus 130
structure length 364
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 5d1dA00
5A2SA 5G0XA 2VQOA 4CQFA 5EF8A 2V5WA 5G11A 3C10A 5EF7A 3MZ4A 4ZUMA 5EEMA 1VKGA 5D1CA 5G0HA 3EZPA 5G1AA 5EFNA 5IX0A 4ZUOA 3ZNSA 2VQMA 2V5XA 5EFKB 2VQQA 4QA3A 4BZ6A 5G0YA 1ZZ0A 4ZURA 4QA7A 3C0YA 5EFBD 3EW8A 5EENA 4BZ8A 5DC6A 5G0GA 5DC8A 3F06A 1ZZ3A 5G0IA 3MZ6A 4ZUPA 5EFHA 3MZ7A 4BZ5A 5G0JA 5G10A 4LXZA 1T64A 5EEFA 5ICNB 5G12A 5LI3A 5THVA 3MENA 5G1BA 3F0RA 5THSA 3F07A 3ZNRA 3EZTA 4QA1A 3MAXA 4RN2A 1T69A 4ZUQA 5JI5A 3EWFA 5D1BA 5FCWA 5G17A 3C0ZA 5BWZA 5IWGA 2VCGA 3SFFA 3Q9EA 2VQVA 2VQWG 3Q9CA 3Q9BA 4CBTA 4BKXB 4QA4A 4RN0A 5D1DA 5EEIA 5THUA 4QA2A 4BZ7A 4QA5A 1C3SA 5G13A 5G3WA 1C3RA 4QA0A 3MZ3A 4LY1A 4BZ9A 5DC7A 5DC5A 3RQDA 1T67A 1W22A 2VQJA 1C3PA 3Q9FA 5EEKA 5THTA 5G1CA 4ZUNA 4QA6A 5FUEA 2GH6A 4A69A 1ZZ1A 5EFGA 4CBYA 5EFJD 3SFHA 4RN1A
chains in the Genus database with same CATH superfamily
5A2SA 4GSVA 3PZLA 5G0XA 2VQOA 1WVBA 4CQFA 5EF8A 2V5WA 5G11A 3C10A 4Q3SA 5EF7A 1HQGA 3MJLA 1TBJA 3E6KA 3MZ4A 1R1OA 1WOGA 5EEMA 4ZUMA 2PHAA 2RLAA 1XFKA 1VKGA 5D1CA 5G0HA 3CEVA 3EZPA 5G1AA 2CEVA 2EF5A 5EFNA 4IU4A 1HQXA 4IE1A 5IX0A 3TH7A 4ZUOA 3ZNSA 5HJAA 2VQMA 2V5XA 5EFKB 2VQQA 4QA3A 1HQHA 4BZ6A 4FCKA 5G0YA 4IXVA 3SJTA 1ZZ0A 4ZURA 3NIPA 4QA7A 4MXRA 3RLAA 3C0YA 5EFBD 1TBHA 3E9BA 3EW8A 1T4RA 5EENA 3MMRA 4BZ8A 5DC6A 3LHLA 4IU1A 4RHJA 4RHQA 5G0GA 5DC8A 1TBLA 3F06A 1ZZ3A 5G0IA 3MZ6A 4ZUPA 5EFHA 1P8NA 3MZ7A 4GWDA 4I06A 1P8OA 4BZ5A 3E8ZA 5G0JA 4G3HA 5G10A 4HWWA 4LXZA 3NIOA 1T64A 2PLLA 5EEFA 4RHMA 4MYFA 4MYNA 5ICNB 5G12A 5LI3A 4Q3RC 4GSZA 5THVA 3MENA 5G1BA 4Q41A 3F0RA 1TA1A 5THSA 3F07A 3ZNRA 3EZTA 4Q3VA 4QA1A 3MAXA 1GQ7A 3E6VA 4RN2A 1T69A 4CEVA 4IE2A 4ZUQA 1D3VA 5JI5A 3EWFA 3MFVA 5D1BA 1P8MA 2ZAVA 5FCWA 4Q3QA 5G17A 3MFWA 4RLAA 4GSMA 3C0ZA 3SL0A 5BWZA 5IWGA 3THJA 1WVAA 1P8QA 2EF4A 2VCGA 1GQ6A 2EIVA 3SFFA 3Q9EA 1WOIA 1T4PA 2VQVA 1HQFA 2VQWG 3Q9CA 3TF3A 3Q9BA 4CBTA 1ZPGA 1P8PA 3E8QA 5RLAA 4Q3RA 4BKXB 4QA4A 4RN0A 5D1DA 5EEIA 5THUA 3GMZA 4QA2A 4BZ7A 3LP4A 4IE3A 3NIQA 1C3SA 4QA5A 4ITYA 5G13A 4Q42A 3F80A 5G3WA 4RHIA 3M1RA 1C3RA 2A0MA 4Q40A 1T4SA 2PHOA 4MYKA 1CEVA 4QA0A 3GN0A 3MZ3A 4RHLA 4LY1A 4IXUA 4IU5A 4BZ9A 3THEA 1PQ3A 5DC7A 5DC5A 4Q3PA 3RQDA 3THHA 1T67A 4Q3TA 3KV2A 1T4TA 4HXQA 1W22A 2VQJA 1C3PA 3Q9FA 4Q3UA 5CEVA 5EEKA 4IU0A 4FCIA 5THTA 4MYLA 1T5GA 5G1CA 4ZUNA 4HZEA 4QA6A 1RLAA 5HJ9A 1WOHA 1P8SA 1ZPEA 2GH6A 2AEBA 4GWCA 4RHKA 1ZZ1A 3LP7A 5FUEA 5EFGA 3SKKA 3DJ8A 4A69A 4CBYA 1HQ5A 1T5FA 5EFJD 3SFHA 4DZ4A 4RN1A 1P8RA 3SL1A
chains in the Genus database with same CATH topology
5A2SA 5G0XA 2VQOA 4CQFA 5EF8A 2V5WA 5G11A 3C10A 5EF7A 3MZ4A 4ZUMA 5EEMA 1VKGA 5D1CA 5G0HA 3EZPA 5G1AA 5EFNA 5IX0A 4ZUOA 3ZNSA 2VQMA 2V5XA 5EFKB 2VQQA 4QA3A 4BZ6A 5G0YA 1ZZ0A 4ZURA 4QA7A 3C0YA 5EFBD 3EW8A 5EENA 4BZ8A 5DC6A 5G0GA 5DC8A 3F06A 1ZZ3A 5G0IA 3MZ6A 4ZUPA 5EFHA 3MZ7A 4BZ5A 5G0JA 5G10A 4LXZA 1T64A 5EEFA 5ICNB 5G12A 5LI3A 5THVA 3MENA 5G1BA 3F0RA 5THSA 3F07A 3ZNRA 3EZTA 4QA1A 3MAXA 4RN2A 1T69A 4ZUQA 5JI5A 3EWFA 5D1BA 5FCWA 5G17A 3C0ZA 5BWZA 5IWGA 2VCGA 3SFFA 3Q9EA 2VQVA 2VQWG 3Q9CA 3Q9BA 4CBTA 4BKXB 4QA4A 4RN0A 5D1DA 5EEIA 5THUA 4QA2A 4BZ7A 4QA5A 1C3SA 5G13A 5G3WA 1C3RA 4QA0A 3MZ3A 4LY1A 4BZ9A 5DC7A 5DC5A 3RQDA 1T67A 1W22A 2VQJA 1C3PA 3Q9FA 5EEKA 5THTA 5G1CA 4ZUNA 4QA6A 5FUEA 2GH6A 4A69A 1ZZ1A 5EFGA 4CBYA 5EFJD 3SFHA 4RN1A
chains in the Genus database with same CATH homology


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