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


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