Citrus Sinensis ID: 022668

Local Sequence Feature Prediction

Prediction and (Method)Result
Residue Number Marker
Protein Sequence ?
Secondary Structure (PSIPRED) ?
Secondary Structure Prediction (SSPRO) ?
Coil and Loop (DISEMBL) ?
Flexible Loop (DISEMBL) ?
Low Complexity Region (SEG) ?
Disordered region (IsUnstruct) ?
Disordered Region (DISOPRED) ?
Disordered Region (DISEMBL) ?
Disordered Region (DISPRO) ?
Transmembrane Helix (TMHMM) ?
Transmembrane Helix (HMMTOP) ?
Transmembrane Helix (MEMSAT) ?
TM Helix, Signal Peptide (MEMSAT_SVM) ?
TM Helix, Signal Peptide (Phobius) ?
Signal Peptide (SignalP HMM Mode) ?
Signal Peptide (SignalP NN Mode) ?
Coiled Coils (COILS) ?
Positional Conservation ?
 
--------10--------20--------30--------40--------50--------60--------70--------80--------90-------100-------110-------120-------130-------140-------150-------160-------170-------180-------190-------200-------210-------220-------230-------240-------250-------260-------270-------280-------290----
MSSSSSPSVTTDAETLKRNRILSSKLYFDIPIFKLPLIYSPDYDISFLGIEKLHPFDSSKWGRICQFLSSEGFLDKNCIVEPLEASKEDLLVVHSESYLKSLQSSPNVSIIIEVPPVALFPNCLVQRKVLYPFRKQVGGTILAAKLAKERGWAINVGGGFHHCSADEGGGFCAYADISLCIHYAFVQLNISRVMIIDLDAHQGNGHEKDFSSDSRVYILDMFNPGIYPRDYEARRFIDQKVEVVSGTTTNEYLKKLDEALEVYMFKTFSVHVFHLLFFPKSFHHYWKEDCGCLL
ccccccccccccHHHHHHHHccccccccccccccccEEEcccccccccccccccccccHHHHHHHHHHHHccccccccEEccccccHHHHHHHccHHHHHHHHcccccccccccccccccccHHHHHHHHHHHHHHHHHHHHHHHHHHHHccEEEEccccccccccccccccHHcHHHHHHHHHHHHccccEEEEEEccccccHHHHHHHcccccEEEEEcccccccccccccccccccccccccccccHHHHHHHHHHHHHHHHHHHccccccEEEEEccccccccccccccc
ccccccccccccHHHHHccccccccccccccccccEEEEEEcccccccccccccccccHHHHHHHHHHHHccHHccEEEEccccccHHHHHHHccHHHHHHHHHccHHHHHHHHHHHHccccccccccHHHHHEEcccccHHHHHHHccccEEEEcccccHHccccccccHHHHHHHHHHHHHHHHHccccEEEEEEEEcccccccEEEEEccccEEEEEEcccccccccccHHHcccccccccccccHHHHHHHHHHHHHHHHHHHHHHccccEEEEEccccccccccccccc
mssssspsvttdaetlkrnrilssklyfdipifklpliyspdydisflgieklhpfdsskwgricqflssegfldkncivepleaskeDLLVVHSESYLKslqsspnvsiiievppvalfpnclvqrkvLYPFRKQVGGTILAAKLAKERGwainvgggfhhcsadegggfcayADISLCIHYAFVQLNISRVMIIdldahqgnghekdfssdsRVYILdmfnpgiyprdyeARRFIDQKVEVVSGTTTNEYLKKLDEALEVYMFKTFSVHVFhllffpksfhhywkedcgcll
mssssspsvttdaetlkrnrilssklyFDIPIFKLPLIYSPDYDISFLGIEKLHPFDSSKWGRICQFLSSEGFLDKNCIVEPLEASKEDLLVVHSESYLKSLQSSPNVSIIIEVPPVALFPNCLVQRKVLYPFRKQVGGTILAAKLAKERGWAINVGGGFHHCSADEGGGFCAYADISLCIHYAFVQLNISRVMIIDLDAHQGNghekdfssdsrVYILDMFNPGIYPRDYEARRFIDQKvevvsgtttneYLKKLDEALEVYMFKTFSVHVFHLLFFPKSFHHYWKEDCGCLL
MssssspsVTTDAETLKRNRILSSKLYFDIPIFKLPLIYSPDYDISFLGIEKLHPFDSSKWGRICQFLSSEGFLDKNCIVEPLEASKEDLLVVHSESYLKSLQSSPNVSIIIEVPPVALFPNCLVQRKVLYPFRKQVGGTILAAKLAKERGWAINVGGGFHHCSADEGGGFCAYADISLCIHYAFVQLNISRVMIIDLDAHQGNGHEKDFSSDSRVYILDMFNPGIYPRDYEARRFIDQKVEVVSGTTTNEYLKKLDEALEVYMFKTFSVHVFHLLFFPKSFHHYWKEDCGCLL
******************NRILSSKLYFDIPIFKLPLIYSPDYDISFLGIEKLHPFDSSKWGRICQFLSSEGFLDKNCIVEPLEASKEDLLVVHSESYLKSLQSSPNVSIIIEVPPVALFPNCLVQRKVLYPFRKQVGGTILAAKLAKERGWAINVGGGFHHCSADEGGGFCAYADISLCIHYAFVQLNISRVMIIDLDAHQGN*****FSSDSRVYILDMFNPGIYPRDYEARRFIDQKVEVVSGTTTNEYLKKLDEALEVYMFKTFSVHVFHLLFFPKSFHHYWKEDCGCL*
*****************************IPIFKLPLIYSPDYDISFLGIEKLHPFDSSKWGRICQFLSSEGFLDKNCIVEPLEASKEDLLVVHSESYLKSLQSSPN***IIEVPPVALFPNCLVQRKVLYPFRKQVGGTILAAKLAKERGWAINVGGGFHHCSADEGGGFCAYADISLCIHYAFVQLNISRVMIIDLDAHQGNGHEKDFSSDSRVYILDMFNPGIYPRDYEARRFIDQKVEVVSGTTTNEYLKKLDEALEVYMFKTFSVHVFHLLFFPKSFHHYWKEDCGCLL
**************TLKRNRILSSKLYFDIPIFKLPLIYSPDYDISFLGIEKLHPFDSSKWGRICQFLSSEGFLDKNCIVEPLEASKEDLLVVHSESYLKSLQSSPNVSIIIEVPPVALFPNCLVQRKVLYPFRKQVGGTILAAKLAKERGWAINVGGGFHHCSADEGGGFCAYADISLCIHYAFVQLNISRVMIIDLDAHQGNGHEKDFSSDSRVYILDMFNPGIYPRDYEARRFIDQKVEVVSGTTTNEYLKKLDEALEVYMFKTFSVHVFHLLFFPKSFHHYWKEDCGCLL
*****************RNRILSSKLYFDIPIFKLPLIYSPDYDISFLGIEKLHPFDSSKWGRICQFLSSEGFLDKNCIVEPLEASKEDLLVVHSESYLKSLQSSPNVSIIIEVPPVALFPNCLVQRKVLYPFRKQVGGTILAAKLAKERGWAINVGGGFHHCSADEGGGFCAYADISLCIHYAFVQLNISRVMIIDLDAHQGNGHEKDFSSDSRVYILDMFNPGIYPRDYEARRFIDQKVEVVSGTTTNEYLKKLDEALEVYMFKTFSVHVFHLLFFPKSFHHYWKEDCGCLL
oooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
iiiiiiiiiiiiiiiiiiiiHHHHHHHHHHHHHHHHHHoooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
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MSSSSSPSVTTDAETLKRNRILSSKLYFDIPIFKLPLIYSPDYDISFLGIEKLHPFDSSKWGRICQFLSSEGFLDKNCIVEPLEASKEDLLVVHSESYLKSLQSSPNVSIIIEVPPVALFPNCLVQRKVLYPFRKQVGGTILAAKLAKERGWAINVGGGFHHCSADEGGGFCAYADISLCIHYAFVQLNISRVMIIDLDAHQGNGHEKDFSSDSRVYILDMFNPGIYPRDYEARRFIDQKVEVVSGTTTNEYLKKLDEALEVYMFKTFSVHVFHLLFFPKSFHHYWKEDCGCLL
no confident homologs detected

Close Homologs for Annotation Transfer

Close Homologs in SWISS-PROT Database Detected by BLAST ?

Original result of BLAST against SWISS-PROT Database

ID ?Alignment graph ?Length ? Definition ? RBH(Q2H) ? RBH(H2Q) ? Q cover ? H cover ? Identity ? E-value ?
Query294 2.2.26 [Sep-21-2011]
Q944K3387 Histone deacetylase 2 OS= yes no 0.887 0.674 0.758 1e-117
Q9GKU5347 Histone deacetylase 11 OS N/A no 0.812 0.688 0.575 2e-79
Q96DB2347 Histone deacetylase 11 OS yes no 0.812 0.688 0.570 5e-79
Q91WA3347 Histone deacetylase 11 OS yes no 0.802 0.680 0.578 4e-78
P28606300 Uncharacterized protein S yes no 0.717 0.703 0.283 8e-16
Q6GFX3 389 Acetoin utilization prote yes no 0.574 0.434 0.292 8e-14
B1H369 369 Histone deacetylase 8 OS= yes no 0.540 0.430 0.319 2e-13
Q20296 955 Histone deacetylase 6 OS= no no 0.659 0.203 0.279 4e-13
Q8NW34 389 Acetoin utilization prote yes no 0.574 0.434 0.286 5e-13
Q6G8J2 389 Acetoin utilization prote yes no 0.574 0.434 0.286 5e-13
>sp|Q944K3|HDA2_ARATH Histone deacetylase 2 OS=Arabidopsis thaliana GN=HDA2 PE=1 SV=2 Back     alignment and function desciption
 Score =  420 bits (1080), Expect = e-117,   Method: Compositional matrix adjust.
 Identities = 198/261 (75%), Positives = 227/261 (86%)

Query: 2   SSSSSPSVTTDAETLKRNRILSSKLYFDIPIFKLPLIYSPDYDISFLGIEKLHPFDSSKW 61
           S  SS S+ T  E L+R RIL+SKLYFD+P+ K+ +IYS  YDISF+GIEKLHPFDSSKW
Sbjct: 41  SEISSFSMATHPEALRRERILNSKLYFDVPLSKVSIIYSSSYDISFMGIEKLHPFDSSKW 100

Query: 62  GRICQFLSSEGFLDKNCIVEPLEASKEDLLVVHSESYLKSLQSSPNVSIIIEVPPVALFP 121
           GR+C+FL S+GFL++  IVEPLEASK DLLVVHSE+YL SL+SS  V+ I EV PVA FP
Sbjct: 101 GRVCKFLVSDGFLEEKAIVEPLEASKIDLLVVHSENYLNSLKSSATVARITEVAPVAFFP 160

Query: 122 NCLVQRKVLYPFRKQVGGTILAAKLAKERGWAINVGGGFHHCSADEGGGFCAYADISLCI 181
           N LVQ+KVLYPFRKQVGGTILAAKLA ERGWAIN+GGGFHHC+A+ GGGFCA+ADISLCI
Sbjct: 161 NFLVQQKVLYPFRKQVGGTILAAKLATERGWAINIGGGFHHCTAERGGGFCAFADISLCI 220

Query: 182 HYAFVQLNISRVMIIDLDAHQGNGHEKDFSSDSRVYILDMFNPGIYPRDYEARRFIDQKV 241
           H+AF++L ISRVMIIDLDAHQGNGHE D   D+RVYILDM+NP IYP DY ARRFIDQKV
Sbjct: 221 HFAFLRLRISRVMIIDLDAHQGNGHETDLGDDNRVYILDMYNPEIYPFDYRARRFIDQKV 280

Query: 242 EVVSGTTTNEYLKKLDEALEV 262
           EV+SGTTT+EYL+KLDEALEV
Sbjct: 281 EVMSGTTTDEYLRKLDEALEV 301
Responsible for the deacetylation of lysine residues on the N-terminal part of the core histones (H2A, H2B, H3 and H4). Histone deacetylation gives a tag for epigenetic repression and plays an important role in transcriptional regulation, cell cycle progression and developmental events. Histone deacetylases act via the formation of large multiprotein complexes.
Arabidopsis thaliana (taxid: 3702)
EC: 3EC: .EC: 5EC: .EC: 1EC: .EC: 9EC: 8
>sp|Q9GKU5|HDA11_MACFA Histone deacetylase 11 OS=Macaca fascicularis GN=HDAC11 PE=2 SV=2 Back     alignment and function description
>sp|Q96DB2|HDA11_HUMAN Histone deacetylase 11 OS=Homo sapiens GN=HDAC11 PE=1 SV=1 Back     alignment and function description
>sp|Q91WA3|HDA11_MOUSE Histone deacetylase 11 OS=Mus musculus GN=Hdac11 PE=2 SV=1 Back     alignment and function description
>sp|P28606|Y1628_SYNP2 Uncharacterized protein SYNPCC7002_A1628 OS=Synechococcus sp. (strain ATCC 27264 / PCC 7002 / PR-6) GN=SYNPCC7002_A1628 PE=3 SV=2 Back     alignment and function description
>sp|Q6GFX3|ACUC_STAAR Acetoin utilization protein AcuC OS=Staphylococcus aureus (strain MRSA252) GN=acuC PE=3 SV=1 Back     alignment and function description
>sp|B1H369|HDAC8_XENTR Histone deacetylase 8 OS=Xenopus tropicalis GN=hdac8 PE=2 SV=1 Back     alignment and function description
>sp|Q20296|HDA6_CAEEL Histone deacetylase 6 OS=Caenorhabditis elegans GN=hda-6 PE=2 SV=2 Back     alignment and function description
>sp|Q8NW34|ACUC_STAAW Acetoin utilization protein AcuC OS=Staphylococcus aureus (strain MW2) GN=acuC PE=3 SV=1 Back     alignment and function description
>sp|Q6G8J2|ACUC_STAAS Acetoin utilization protein AcuC OS=Staphylococcus aureus (strain MSSA476) GN=acuC PE=3 SV=1 Back     alignment and function description

Close Homologs in the Non-Redundant Database Detected by BLAST ?

Original result of BLAST against Nonredundant Database

GI ?Alignment Graph ?Length ? Definition ? Q cover ? H cover ? Identity ? E-value ?
Query294
225429480359 PREDICTED: histone deacetylase 2 [Vitis 0.846 0.693 0.839 1e-122
255550810342 histone deacetylase, putative [Ricinus c 0.887 0.763 0.800 1e-122
388493714348 unknown [Lotus japonicus] 0.880 0.744 0.824 1e-121
357437493350 Histone deacetylase [Medicago truncatula 0.880 0.74 0.822 1e-121
356564065348 PREDICTED: histone deacetylase 2-like [G 0.877 0.741 0.801 1e-120
449447110351 PREDICTED: histone deacetylase 2-like [C 0.887 0.743 0.770 1e-116
297812823387 hypothetical protein ARALYDRAFT_489451 [ 0.887 0.674 0.758 1e-115
30690103387 histone deacetylase 2 [Arabidopsis thali 0.887 0.674 0.758 1e-115
21105771340 HDA2 [Arabidopsis thaliana] 0.863 0.747 0.763 1e-114
326522206352 predicted protein [Hordeum vulgare subsp 0.891 0.744 0.731 1e-113
>gi|225429480|ref|XP_002277742.1| PREDICTED: histone deacetylase 2 [Vitis vinifera] gi|296081627|emb|CBI20632.3| unnamed protein product [Vitis vinifera] Back     alignment and taxonomy information
 Score =  445 bits (1144), Expect = e-122,   Method: Compositional matrix adjust.
 Identities = 209/249 (83%), Positives = 233/249 (93%)

Query: 14  ETLKRNRILSSKLYFDIPIFKLPLIYSPDYDISFLGIEKLHPFDSSKWGRICQFLSSEGF 73
           ETL+R RILSSKLYFD+P+ K+P+IYS  YDI+FLG+EKLHPFDSSKWGRIC+FL  +G 
Sbjct: 21  ETLRRGRILSSKLYFDVPLTKVPIIYSSSYDIAFLGMEKLHPFDSSKWGRICRFLILDGA 80

Query: 74  LDKNCIVEPLEASKEDLLVVHSESYLKSLQSSPNVSIIIEVPPVALFPNCLVQRKVLYPF 133
           L+KN IVEPLEASK+DLLVVHSESYL SL++S NV++IIEVPPVAL PNCLVQ+KVLYPF
Sbjct: 81  LEKNHIVEPLEASKDDLLVVHSESYLNSLKTSLNVAVIIEVPPVALLPNCLVQQKVLYPF 140

Query: 134 RKQVGGTILAAKLAKERGWAINVGGGFHHCSADEGGGFCAYADISLCIHYAFVQLNISRV 193
           RKQVGGTILAAKLAKERGWAINVGGGFHHCSA +GGGFCAYADISLCIHYAF++LNISRV
Sbjct: 141 RKQVGGTILAAKLAKERGWAINVGGGFHHCSAGKGGGFCAYADISLCIHYAFIRLNISRV 200

Query: 194 MIIDLDAHQGNGHEKDFSSDSRVYILDMFNPGIYPRDYEARRFIDQKVEVVSGTTTNEYL 253
           MIIDLDAHQGNGHE DFS+D RVYILDM+NPGIYP D+EARR+IDQKVEVVSGTTTNEYL
Sbjct: 201 MIIDLDAHQGNGHELDFSNDRRVYILDMYNPGIYPSDFEARRYIDQKVEVVSGTTTNEYL 260

Query: 254 KKLDEALEV 262
            KLDEAL+V
Sbjct: 261 TKLDEALKV 269

Source: Vitis vinifera

Species: Vitis vinifera

Genus: Vitis

Family: Vitaceae

Order: Vitales

Class:

Phylum: Streptophyta

Superkingdom: Eukaryota
>gi|255550810|ref|XP_002516453.1| histone deacetylase, putative [Ricinus communis] gi|223544273|gb|EEF45794.1| histone deacetylase, putative [Ricinus communis] Back     alignment and taxonomy information
>gi|388493714|gb|AFK34923.1| unknown [Lotus japonicus] Back     alignment and taxonomy information
>gi|357437493|ref|XP_003589022.1| Histone deacetylase [Medicago truncatula] gi|355478070|gb|AES59273.1| Histone deacetylase [Medicago truncatula] Back     alignment and taxonomy information
>gi|356564065|ref|XP_003550277.1| PREDICTED: histone deacetylase 2-like [Glycine max] Back     alignment and taxonomy information
>gi|449447110|ref|XP_004141312.1| PREDICTED: histone deacetylase 2-like [Cucumis sativus] gi|449486647|ref|XP_004157356.1| PREDICTED: histone deacetylase 2-like [Cucumis sativus] Back     alignment and taxonomy information
>gi|297812823|ref|XP_002874295.1| hypothetical protein ARALYDRAFT_489451 [Arabidopsis lyrata subsp. lyrata] gi|297320132|gb|EFH50554.1| hypothetical protein ARALYDRAFT_489451 [Arabidopsis lyrata subsp. lyrata] Back     alignment and taxonomy information
>gi|30690103|ref|NP_568480.2| histone deacetylase 2 [Arabidopsis thaliana] gi|145558941|sp|Q944K3.2|HDA2_ARATH RecName: Full=Histone deacetylase 2 gi|332006134|gb|AED93517.1| histone deacetylase 2 [Arabidopsis thaliana] Back     alignment and taxonomy information
>gi|21105771|gb|AAM34784.1|AF510671_1 HDA2 [Arabidopsis thaliana] Back     alignment and taxonomy information
>gi|326522206|dbj|BAK04231.1| predicted protein [Hordeum vulgare subsp. vulgare] Back     alignment and taxonomy information

Prediction of Gene Ontology (GO) Terms

Close Homologs with Gene Ontology terms Detected by BLAST ?

Original result of BLAST against Gene Ontology (AMIGO)

ID ? Alignment graph ? Length ? Definition ? Q cover ? H cover ? Identity ? E-value ?
Query294
TAIR|locus:2180657387 HDA2 "AT5G26040" [Arabidopsis 0.863 0.656 0.763 4.6e-105
UNIPROTKB|Q9GKU5347 HDAC11 "Histone deacetylase 11 0.812 0.688 0.575 3.2e-72
UNIPROTKB|Q96DB2347 HDAC11 "Histone deacetylase 11 0.812 0.688 0.570 8.6e-72
UNIPROTKB|I3LTU6275 LOC100738481 "Uncharacterized 0.812 0.869 0.575 1.8e-71
MGI|MGI:2385252347 Hdac11 "histone deacetylase 11 0.799 0.677 0.580 2.3e-71
RGD|1311706347 Hdac11 "histone deacetylase 11 0.799 0.677 0.580 2.3e-71
UNIPROTKB|F1MWX4 386 HDAC11 "Uncharacterized protei 0.809 0.616 0.569 4.8e-71
ZFIN|ZDB-GENE-040704-7366 hdac11 "histone deacetylase 11 0.795 0.639 0.570 9.9e-71
UNIPROTKB|F1NYW6357 HDAC11 "Uncharacterized protei 0.809 0.666 0.564 2.1e-70
UNIPROTKB|F1PSI9319 HDAC11 "Uncharacterized protei 0.727 0.670 0.590 3.2e-65
TAIR|locus:2180657 HDA2 "AT5G26040" [Arabidopsis thaliana (taxid:3702)] Back     alignment and assigned GO terms
 Score = 1040 (371.2 bits), Expect = 4.6e-105, P = 4.6e-105
 Identities = 194/254 (76%), Positives = 223/254 (87%)

Query:     9 VTTDAETLKRNRILSSKLYFDIPIFKLPLIYSPDYDISFLGIEKLHPFDSSKWGRICQFL 68
             + T  E L+R RIL+SKLYFD+P+ K+ +IYS  YDISF+GIEKLHPFDSSKWGR+C+FL
Sbjct:    48 MATHPEALRRERILNSKLYFDVPLSKVSIIYSSSYDISFMGIEKLHPFDSSKWGRVCKFL 107

Query:    69 SSEGFLDKNCIVEPLEASKEDLLVVHSESYLKSLQSSPNVSIIIEVPPVALFPNCLVQRK 128
              S+GFL++  IVEPLEASK DLLVVHSE+YL SL+SS  V+ I EV PVA FPN LVQ+K
Sbjct:   108 VSDGFLEEKAIVEPLEASKIDLLVVHSENYLNSLKSSATVARITEVAPVAFFPNFLVQQK 167

Query:   129 VLYPFRKQVGGTILAAKLAKERGWAINVGGGFHHCSADEGGGFCAYADISLCIHYAFVQL 188
             VLYPFRKQVGGTILAAKLA ERGWAIN+GGGFHHC+A+ GGGFCA+ADISLCIH+AF++L
Sbjct:   168 VLYPFRKQVGGTILAAKLATERGWAINIGGGFHHCTAERGGGFCAFADISLCIHFAFLRL 227

Query:   189 NISRVMIIDLDAHQGNGHEKDFSSDSRVYILDMFNPGIYPRDYEARRFIDQKVEVVSGTT 248
              ISRVMIIDLDAHQGNGHE D   D+RVYILDM+NP IYP DY ARRFIDQKVEV+SGTT
Sbjct:   228 RISRVMIIDLDAHQGNGHETDLGDDNRVYILDMYNPEIYPFDYRARRFIDQKVEVMSGTT 287

Query:   249 TNEYLKKLDEALEV 262
             T+EYL+KLDEALEV
Sbjct:   288 TDEYLRKLDEALEV 301
GO:0004407 "histone deacetylase activity" evidence=ISS
GO:0005634 "nucleus" evidence=ISM
GO:0008150 "biological_process" evidence=ND
UNIPROTKB|Q9GKU5 HDAC11 "Histone deacetylase 11" [Macaca fascicularis (taxid:9541)] Back     alignment and assigned GO terms
UNIPROTKB|Q96DB2 HDAC11 "Histone deacetylase 11" [Homo sapiens (taxid:9606)] Back     alignment and assigned GO terms
UNIPROTKB|I3LTU6 LOC100738481 "Uncharacterized protein" [Sus scrofa (taxid:9823)] Back     alignment and assigned GO terms
MGI|MGI:2385252 Hdac11 "histone deacetylase 11" [Mus musculus (taxid:10090)] Back     alignment and assigned GO terms
RGD|1311706 Hdac11 "histone deacetylase 11" [Rattus norvegicus (taxid:10116)] Back     alignment and assigned GO terms
UNIPROTKB|F1MWX4 HDAC11 "Uncharacterized protein" [Bos taurus (taxid:9913)] Back     alignment and assigned GO terms
ZFIN|ZDB-GENE-040704-7 hdac11 "histone deacetylase 11" [Danio rerio (taxid:7955)] Back     alignment and assigned GO terms
UNIPROTKB|F1NYW6 HDAC11 "Uncharacterized protein" [Gallus gallus (taxid:9031)] Back     alignment and assigned GO terms
UNIPROTKB|F1PSI9 HDAC11 "Uncharacterized protein" [Canis lupus familiaris (taxid:9615)] Back     alignment and assigned GO terms

Prediction of Enzyme Commission (EC) Number

EC Number Prediction by Annotation Transfer from SWISS-PROT Entries ?

Original result of BLAST against SWISS-PROT

ID ?Name ?Annotated EC number ?Identity ?Query coverage ?Hit coverage ?RBH(Q2H) ?RBH(H2Q) ?
Q91WA3HDA11_MOUSE3, ., 5, ., 1, ., 9, 80.57800.80270.6801yesno
Q944K3HDA2_ARATH3, ., 5, ., 1, ., 9, 80.75860.88770.6744yesno
Q96DB2HDA11_HUMAN3, ., 5, ., 1, ., 9, 80.57080.81290.6887yesno

EC Number Prediction by Ezypred Server ?

Original result from Ezypred Server

Fail to connect to Ezypred Server

EC Number Prediction by EFICAz Software ?

Prediction LevelEC numberConfidence of Prediction
3rd Layer3.5.1.980.946
3rd Layer3.5.10.963

Prediction of Functionally Associated Proteins

Functionally Associated Proteins Detected by STRING ?

Original result from the STRING server

Fail to connect to STRING server

Conserved Domains and Related Protein Families

Conserved Domains Detected by RPS-BLAST ?

Original result of RPS-BLAST against CDD database part I

ID ?Alignment Graph ?Length ? Definition ? E-value ?
Query294
cd09993275 cd09993, HDAC_classIV, Histone deacetylase class I 1e-87
cd09301279 cd09301, HDAC, Histone deacetylase (HDAC) classes 2e-49
pfam00850300 pfam00850, Hist_deacetyl, Histone deacetylase doma 3e-46
COG0123340 COG0123, AcuC, Deacetylases, including yeast histo 1e-30
cd09994313 cd09994, HDAC_AcuC_like, Class I histone deacetyla 6e-24
cd10000 364 cd10000, HDAC8, Histone deacetylase 8 (HDAC8) 2e-22
cd09991306 cd09991, HDAC_classI, Class I histone deacetylases 5e-18
cd09992291 cd09992, HDAC_classII, Histone deacetylases and hi 4e-15
cd11680294 cd11680, HDAC_Hos1, Class I histone deacetylases H 6e-15
cd09996359 cd09996, HDAC_classII_1, Histone deacetylases and 9e-15
cd11682337 cd11682, HDAC6-dom1, Histone deacetylase 6, domain 8e-14
cd11599288 cd11599, HDAC_classII_2, Histone deacetylases and 4e-13
PTZ00346 429 PTZ00346, PTZ00346, histone deacetylase; Provision 4e-12
cd10002336 cd10002, HDAC10_HDAC6-dom1, Histone deacetylase 6, 2e-11
cd10003350 cd10003, HDAC6-dom2, Histone deacetylase 6, domain 3e-11
cd11598311 cd11598, HDAC_Hos2, Class I histone deacetylases i 8e-11
cd10011 366 cd10011, HDAC2, Histone deacetylase 2 (HDAC2) 1e-10
cd10010 371 cd10010, HDAC1, Histone deacetylase 1 (HDAC1) 1e-10
cd10009379 cd10009, HDAC9, Histone deacetylase 9 9e-10
cd11683337 cd11683, HDAC10, Histone deacetylase 10 3e-09
cd11600313 cd11600, HDAC_Clr3, Class II Histone deacetylase C 4e-09
cd10005 381 cd10005, HDAC3, Histone deacetylase 3 (HDAC3) 9e-08
cd09998353 cd09998, HDAC_Hos3, Class II histone deacetylases 9e-08
PTZ00063 436 PTZ00063, PTZ00063, histone deacetylase; Provision 1e-07
cd11681377 cd11681, HDAC_classIIa, Histone deacetylases, clas 3e-07
cd10004 375 cd10004, RPD3-like, reduced potassium dependency-3 4e-07
cd10007 420 cd10007, HDAC5, Histone deacetylase 5 4e-06
cd10006 409 cd10006, HDAC4, Histone deacetylase 4 6e-06
cd10001298 cd10001, HDAC_classII_APAH, Histone deacetylase cl 6e-05
cd10008378 cd10008, HDAC7, Histone deacetylase 7 2e-04
>gnl|CDD|212519 cd09993, HDAC_classIV, Histone deacetylase class IV also known as histone deacetylase 11 Back     alignment and domain information 
 Score =  262 bits (672), Expect = 1e-87
 Identities = 81/208 (38%), Positives = 108/208 (51%), Gaps = 9/208 (4%)

Query: 54  HPFDSSKWGRICQFLSSEGFLDKNCIVEPLEASKEDLLVVHSESYLKSLQSSPNVSIIIE 113
           H F   K+G + + L  EG +    IVEP  A++EDLL VH   YL+SL+S     +  E
Sbjct: 1   HRFPMRKYGLLREALLEEGLVLPEDIVEPEPATREDLLRVHDPEYLESLKSG---ELSRE 57

Query: 114 VPPVALFPNCLVQRKVLYPFRKQVGGTILAAKLAKERGWAINVGGGFHHCSADEGGGFCA 173
                 FP      +++   R  VGGTILAA+LA E G AIN+ GG HH   D G GFC 
Sbjct: 58  EIRRIGFPWSP---ELVERTRLAVGGTILAARLALEHGLAINLAGGTHHAFPDRGEGFCV 114

Query: 174 YADISLCIHYAFVQLNISRVMIIDLDAHQGNGHEKDFSSDSRVYILDMFNPGIYPRDYEA 233
           + DI++       +  + RV+I+DLD HQGNG    F+ D  V+   M     YP     
Sbjct: 115 FNDIAIAARVLLAEGLVRRVLIVDLDVHQGNGTAAIFADDPSVFTFSMHGEKNYPFR--- 171

Query: 234 RRFIDQKVEVVSGTTTNEYLKKLDEALE 261
           +   D  V +  GT  +EYL  L+EAL 
Sbjct: 172 KEPSDLDVPLPDGTGDDEYLAALEEALP 199

Class IV histone deacetylases (HDAC11; EC 3.5.1.98) are predicted Zn-dependent enzymes. This class includes animal HDAC11, plant HDA2 and related bacterial deacetylases. Enzymes in this subfamily participate in regulation of a number of different processes through protein modification (deacetylation). They catalyze hydrolysis of N(6)-acetyl-lysine of histones (or other proteins) to yield a deacetylated proteins. Histone deacetylases often act as members of large multi-protein complexes such as mSin3A or SMRT/N-CoR. Human HDAC11 does not associate with them but can interact with HDAC6 in vivo. It has been suggested that HDAC11 and HDAC6 may use non-histone proteins as their substrates and play a role other than to directly modulate chromatin structure. In normal tissues, expression of HDAC11 is limited to kidney, heart, brain, skeletal muscle and testis, suggesting that its function might be tissue-specific. In mammals, HDAC11 proteins are known to be involved in progression of various tumors. HDAC11 plays an essential role in regulating OX40 ligand (OX40L) expression in Hodgkin lymphoma (HL); selective inhibition of HDAC11 expression significantly up-regulates OX40L and induces apoptosis in HL cell lines. Thus, inhibition of HDAC11 could be a therapeutic drug option for antitumor immune response in HL patients. Length = 275
>gnl|CDD|212512 cd09301, HDAC, Histone deacetylase (HDAC) classes I, II, IV and related proteins Back     alignment and domain information
>gnl|CDD|216151 pfam00850, Hist_deacetyl, Histone deacetylase domain Back     alignment and domain information
>gnl|CDD|223201 COG0123, AcuC, Deacetylases, including yeast histone deacetylase and acetoin utilization protein [Chromatin structure and dynamics / Secondary metabolites biosynthesis, transport, and catabolism] Back     alignment and domain information
>gnl|CDD|212520 cd09994, HDAC_AcuC_like, Class I histone deacetylase AcuC (Acetoin utilization protein)-like enzymes Back     alignment and domain information
>gnl|CDD|212524 cd10000, HDAC8, Histone deacetylase 8 (HDAC8) Back     alignment and domain information
>gnl|CDD|212517 cd09991, HDAC_classI, Class I histone deacetylases Back     alignment and domain information
>gnl|CDD|212518 cd09992, HDAC_classII, Histone deacetylases and histone-like deacetylases, classII Back     alignment and domain information
>gnl|CDD|212543 cd11680, HDAC_Hos1, Class I histone deacetylases Hos1 and related proteins Back     alignment and domain information
>gnl|CDD|212521 cd09996, HDAC_classII_1, Histone deacetylases and histone-like deacetylases, classII Back     alignment and domain information
>gnl|CDD|212545 cd11682, HDAC6-dom1, Histone deacetylase 6, domain 1 Back     alignment and domain information
>gnl|CDD|212541 cd11599, HDAC_classII_2, Histone deacetylases and histone-like deacetylases, classII Back     alignment and domain information
>gnl|CDD|240374 PTZ00346, PTZ00346, histone deacetylase; Provisional Back     alignment and domain information
>gnl|CDD|212526 cd10002, HDAC10_HDAC6-dom1, Histone deacetylase 6, domain 1 and histone deacetylase 10 Back     alignment and domain information
>gnl|CDD|212527 cd10003, HDAC6-dom2, Histone deacetylase 6, domain 2 Back     alignment and domain information
>gnl|CDD|212540 cd11598, HDAC_Hos2, Class I histone deacetylases including ScHos2 and SpPhd1 Back     alignment and domain information
>gnl|CDD|212535 cd10011, HDAC2, Histone deacetylase 2 (HDAC2) Back     alignment and domain information
>gnl|CDD|212534 cd10010, HDAC1, Histone deacetylase 1 (HDAC1) Back     alignment and domain information
>gnl|CDD|212533 cd10009, HDAC9, Histone deacetylase 9 Back     alignment and domain information
>gnl|CDD|212546 cd11683, HDAC10, Histone deacetylase 10 Back     alignment and domain information
>gnl|CDD|212542 cd11600, HDAC_Clr3, Class II Histone deacetylase Clr3 and similar proteins Back     alignment and domain information
>gnl|CDD|212529 cd10005, HDAC3, Histone deacetylase 3 (HDAC3) Back     alignment and domain information
>gnl|CDD|212522 cd09998, HDAC_Hos3, Class II histone deacetylases Hos3 and related proteins Back     alignment and domain information
>gnl|CDD|240251 PTZ00063, PTZ00063, histone deacetylase; Provisional Back     alignment and domain information
>gnl|CDD|212544 cd11681, HDAC_classIIa, Histone deacetylases, class IIa Back     alignment and domain information
>gnl|CDD|212528 cd10004, RPD3-like, reduced potassium dependency-3 (RPD3)-like Back     alignment and domain information
>gnl|CDD|212531 cd10007, HDAC5, Histone deacetylase 5 Back     alignment and domain information
>gnl|CDD|212530 cd10006, HDAC4, Histone deacetylase 4 Back     alignment and domain information
>gnl|CDD|212525 cd10001, HDAC_classII_APAH, Histone deacetylase class IIa Back     alignment and domain information
>gnl|CDD|212532 cd10008, HDAC7, Histone deacetylase 7 Back     alignment and domain information

Conserved Domains Detected by HHsearch ?

Original result of HHsearch against CDD database

ID ?Alignment Graph ?Length ? Definition ? Probability ?
Query 294
COG0123340 AcuC Deacetylases, including yeast histone deacety 100.0
PTZ00063 436 histone deacetylase; Provisional 100.0
PTZ00346 429 histone deacetylase; Provisional 100.0
PF00850311 Hist_deacetyl: Histone deacetylase domain; InterPr 100.0
KOG1342 425 consensus Histone deacetylase complex, catalytic c 100.0
KOG1344324 consensus Predicted histone deacetylase [Chromatin 100.0
KOG1343797 consensus Histone deacetylase complex, catalytic c 100.0
KOG1343 797 consensus Histone deacetylase complex, catalytic c 99.98
>COG0123 AcuC Deacetylases, including yeast histone deacetylase and acetoin utilization protein [Chromatin structure and dynamics / Secondary metabolites biosynthesis, transport, and catabolism] Back     alignment and domain information 
Probab=100.00  E-value=4.2e-71  Score=520.81  Aligned_cols=249  Identities=27%  Similarity=0.392  Sum_probs=228.5

Q ss_pred             CceEEEECcccCcccCCCCCCCCCCchHHHHHHHHHHHCCCCCCceeecCCCCCHHHHhccCCHHHHHHHhcCCCccccc
Q 022668           33 FKLPLIYSPDYDISFLGIEKLHPFDSSKWGRICQFLSSEGFLDKNCIVEPLEASKEDLLVVHSESYLKSLQSSPNVSIII  112 (294)
Q Consensus        33 ~~~~iiy~~~~~~h~~~~~~~Hpe~p~R~~~i~~~L~~~gl~~~~~~~~p~~a~~e~L~~vHs~~Yi~~l~~~~~~~~~~  112 (294)
                      +.+.++|++.+..|..  +..|||+|.|++.+.++|++.++...+++++|++++.++|++||+++||+.|++.+...+  
T Consensus         2 ~~~~~~~~~~~~~~~~--~~~Hpe~p~R~~~~~~~l~~~~~~~~~~~~~p~~~~~~~l~~vH~~~yv~~l~~~~~~~~--   77 (340)
T COG0123           2 MKTALIYHPEFLEHEP--PPGHPENPDRLRLILELLESSGLPDSLELVEPRPATLEELLLVHSPDYVEFLESLSEEEG--   77 (340)
T ss_pred             CcceEeeCHHHhcCCC--CCCCCCChHHHHHHHHHHHhcCccccccccCCCcCCHHHHHhhCCHHHHHHHHHhccccc--
Confidence            5788999999998875  479999999999999999999988888999999999999999999999999999887521  


Q ss_pred             cCCCccccCCcccCcccHHHHHHHHhHHHHHHHHHHhc--CcEEecCCCCCCCCCCCCCCccccCcHHHHHHHHHHhCCC
Q 022668          113 EVPPVALFPNCLVQRKVLYPFRKQVGGTILAAKLAKER--GWAINVGGGFHHCSADEGGGFCAYADISLCIHYAFVQLNI  190 (294)
Q Consensus       113 e~~~~~~~~d~~~~~~~~~~a~~aag~~~~aa~~~~~~--~~a~~~~~GgHHA~~~~~~GFC~fNnvAiAa~~~~~~~~~  190 (294)
                         ...++.||++++++++++++++|++++|++.+++.  ..+++..||||||.+++++|||+|||+||||++|+++ +.
T Consensus        78 ---~~~~d~d~~~s~~~~~~a~~a~G~al~A~~~v~~g~~~~~~~~rppgHHA~~~~a~GFC~fNn~Aiaa~~l~~~-~~  153 (340)
T COG0123          78 ---YGNLDGDTPVSPGTYEAARLAAGGALTAVDAVLEGEDNAFALVRPPGHHAGRDRASGFCLFNNVAIAAKYLLKK-GV  153 (340)
T ss_pred             ---cccccCCCccChHHHHHHHHHhhHHHHHHHHHHcCccceEEECCCCcccccCCCCceeeeecHHHHHHHHHHHc-CC
Confidence               24678999999999999999999999999999875  4555555566999999999999999999999999998 89


Q ss_pred             CeEEEEecCCcCChhhhhhhhcCCCEEEEeecCC--CCCCCCCcC------CCceeEeeeCCCCCChHHHHHHHHHHHHH
Q 022668          191 SRVMIIDLDAHQGNGHEKDFSSDSRVYILDMFNP--GIYPRDYEA------RRFIDQKVEVVSGTTTNEYLKKLDEALEV  262 (294)
Q Consensus       191 ~RV~IiD~DvHhGnGtq~if~~d~~Vl~iSiH~~--~~yP~~g~~------~~~~nvNvpl~~g~~d~~yl~~~~~~l~~  262 (294)
                      +||+|||||+|||||||+|||+|++|+|+|+|+.  .+||+++..      ++++++|||||+|++|++|+.+|++++.+
T Consensus       154 ~RVaIiD~DvHHGnGTqeify~~~~V~~~S~H~~~~~~yPgtg~~~e~g~g~~g~~vNiPLp~g~~d~~y~~a~~~~v~~  233 (340)
T COG0123         154 KRVAIIDFDVHHGNGTQEIFYDDDDVLTVSLHQDGRPFYPGTGGADEIGEGKEGNNVNIPLPPGTGDDSYLEALEEIVLP  233 (340)
T ss_pred             CcEEEEEecCCCChhhHHHHccCCCeEEEeccCCCCCCCCcCCCccccccCcccceEeeecCCCCCcHHHHHHHHHHHHH
Confidence            9999999999999999999999999999999995  799999862      24699999999999999999999999999


Q ss_pred             HHhccCCCCCccEEEEeecCCCCCCCCCCCC
Q 022668          263 YMFKTFSVHVFHLLFFPKSFHHYWKEDCGCL  293 (294)
Q Consensus       263 ~~~~~f~P~~~~liv~~~G~D~~~~Dp~G~~  293 (294)
                      ++++ |+|   |+||||||||+|.+||+|+|
T Consensus       234 ~~~~-f~P---dlvivsaG~D~h~~Dpl~~~  260 (340)
T COG0123         234 LLEE-FKP---DLVIVSAGFDAHRGDPLGRL  260 (340)
T ss_pred             HHHh-cCC---CEEEEecCcccCCCCcccee
Confidence            9998 999   99999999999999999987

>PTZ00063 histone deacetylase; Provisional Back     alignment and domain information
>PTZ00346 histone deacetylase; Provisional Back     alignment and domain information
>PF00850 Hist_deacetyl: Histone deacetylase domain; InterPro: IPR023801 Regulation of transcription is, in part, modulated by reversible histone acetylation on several lysine Back     alignment and domain information
>KOG1342 consensus Histone deacetylase complex, catalytic component RPD3 [Chromatin structure and dynamics] Back     alignment and domain information
>KOG1344 consensus Predicted histone deacetylase [Chromatin structure and dynamics] Back     alignment and domain information
>KOG1343 consensus Histone deacetylase complex, catalytic component HDA1 [Chromatin structure and dynamics] Back     alignment and domain information
>KOG1343 consensus Histone deacetylase complex, catalytic component HDA1 [Chromatin structure and dynamics] Back     alignment and domain information

Homologous Structure Templates

Structure Templates Detected by BLAST ?

Original result of BLAST against Protein Data Bank

ID ?Alignment Graph ?Length ? Definition ? E-value ?
Query294
3ezp_A 388 Crystal Structure Analysis Of Human Hdac8 D101n Var 1e-12
1t64_A377 Crystal Structure Of Human Hdac8 Complexed With Tri 4e-12
3sff_A378 Crystal Structure Of Human Hdac8 Inhibitor Complex, 4e-12
2v5w_A 388 Crystal Structure Of Hdac8-Substrate Complex Length 4e-12
3f07_A 388 Crystal Structure Analysis Of Human Hdac8 Complexed 4e-12
3mz3_A 389 Crystal Structure Of Co2+ Hdac8 Complexed With M344 4e-12
2v5x_A 388 Crystal Structure Of Hdac8-Inhibitor Complex Length 5e-12
3ezt_A 388 Crystal Structure Analysis Of Human Hdac8 D101e Var 7e-12
3ew8_A 388 Crystal Structure Analysis Of Human Hdac8 D101l Var 8e-12
3f06_A 388 Crystal Structure Analysis Of Human Hdac8 D101a Var 8e-12
3mz4_A 389 Crystal Structure Of D101l Mn2+ Hdac8 Complexed Wit 8e-12
1c3p_A 375 Crystal Structure Of An Hdac Homolog From Aquifex A 1e-11
1c3r_A 375 Crystal Structure Of An Hdac Homolog Complexed With 1e-11
3max_A 367 Crystal Structure Of Human Hdac2 Complexed With An 3e-11
3ewf_A 388 Crystal Structure Analysis Of Human Hdac8 H143a Var 5e-11
4a69_A 376 Structure Of Hdac3 Bound To Corepressor And Inosito 2e-08
1zz0_A369 Crystal Structure Of A Hdac-Like Protein With Aceta 2e-07
2vcg_A375 Crystal Structure Of A Hdac-like Protein Hdah From 2e-07
3c0y_A 423 Crystal Structure Of Catalytic Domain Of Human Hist 7e-06
2vqo_A 413 Structure Of Hdac4 Catalytic Domain With A Gain-Of- 2e-05
2vqq_A 413 Structure Of Hdac4 Catalytic Domain (A Double Cyste 2e-05
2vqj_A 413 Structure Of Hdac4 Catalytic Domain Bound To A Trif 2e-05
2vqw_G 413 Structure Of Inhibitor-Free Hdac4 Catalytic Domain 2e-05
>pdb|3EZP|A Chain A, Crystal Structure Analysis Of Human Hdac8 D101n Variant Length = 388 Back     alignment and structure 
Iteration: 1

 Score = 70.5 bits (171), Expect = 1e-12,   Method: Compositional matrix adjust.
 Identities = 65/249 (26%), Positives = 107/249 (42%), Gaps = 26/249 (10%)
Query: 30  IPIFKLPLIYSPDYDISFLGIEKLHPFDSSKWGRICQFLSSEGFLDKNCIVEPLEASKED 89
           +P++    IYSP+Y      + K+      +   +   + +     +  IV+P  AS E+
Sbjct: 15  VPVY----IYSPEYVSMCDSLAKI----PKRASMVHSLIEAYALHKQMRIVKPKVASMEE 66
Query: 90  LLVVHSESYLKSLQ--SSPNVSIIIEVPPVALFPNCLVQRKVLYPFRKQVGGTILAAKLA 147
           +   H+++YL+ LQ  S        +     L  NC     + + +   +GG  + A   
Sbjct: 67  MATFHTDAYLQHLQKVSQEGDDDHPDSIEYGLGYNCPATEGI-FDYAAAIGGATITAAQC 125
Query: 148 KERGW---AINVGGGFHHCSADEGGGFCAYADISLCIHYAFVQLNISRVMIIDLDAHQGN 204
              G    AIN  GG+HH   DE  GFC   D  L I    ++    R++ +DLD H G+
Sbjct: 126 LIDGMCKVAINWSGGWHHAKKDEASGFCYLNDAVLGI--LRLRRKFERILYVDLDLHHGD 183
Query: 205 GHEKDFSSDSRVYILDM--FNPGIYPRDYEAR-------RFIDQKVEVVSGTTTNEYLKK 255
           G E  FS  S+V  + +  F+PG +P   +         R+    V +  G    +Y + 
Sbjct: 184 GVEDAFSFTSKVMTVSLHKFSPGFFPGTGDVSDVGLGKGRYYSVNVPIQDGIQDEKYYQI 243
Query: 256 LDEAL-EVY 263
            +  L EVY
Sbjct: 244 CESVLKEVY 252
>pdb|1T64|A Chain A, Crystal Structure Of Human Hdac8 Complexed With Trichostatin A Length = 377 Back     alignment and structure
>pdb|3SFF|A Chain A, Crystal Structure Of Human Hdac8 Inhibitor Complex, An Amino Acid Derived Inhibitor Length = 378 Back     alignment and structure
>pdb|2V5W|A Chain A, Crystal Structure Of Hdac8-Substrate Complex Length = 388 Back     alignment and structure
>pdb|3F07|A Chain A, Crystal Structure Analysis Of Human Hdac8 Complexed With Apha In A New Monoclinic Crystal Form Length = 388 Back     alignment and structure
>pdb|3MZ3|A Chain A, Crystal Structure Of Co2+ Hdac8 Complexed With M344 Length = 389 Back     alignment and structure
>pdb|2V5X|A Chain A, Crystal Structure Of Hdac8-Inhibitor Complex Length = 388 Back     alignment and structure
>pdb|3EZT|A Chain A, Crystal Structure Analysis Of Human Hdac8 D101e Variant Length = 388 Back     alignment and structure
>pdb|3EW8|A Chain A, Crystal Structure Analysis Of Human Hdac8 D101l Variant Length = 388 Back     alignment and structure
>pdb|3F06|A Chain A, Crystal Structure Analysis Of Human Hdac8 D101a Variant. Length = 388 Back     alignment and structure
>pdb|3MZ4|A Chain A, Crystal Structure Of D101l Mn2+ Hdac8 Complexed With M344 Length = 389 Back     alignment and structure
>pdb|1C3P|A Chain A, Crystal Structure Of An Hdac Homolog From Aquifex Aeolicus Length = 375 Back     alignment and structure
>pdb|1C3R|A Chain A, Crystal Structure Of An Hdac Homolog Complexed With Trichostatin A Length = 375 Back     alignment and structure
>pdb|3MAX|A Chain A, Crystal Structure Of Human Hdac2 Complexed With An N-(2-Amin Benzamide Length = 367 Back     alignment and structure
>pdb|3EWF|A Chain A, Crystal Structure Analysis Of Human Hdac8 H143a Variant Complexed With Substrate. Length = 388 Back     alignment and structure
>pdb|4A69|A Chain A, Structure Of Hdac3 Bound To Corepressor And Inositol Tetraphosphate Length = 376 Back     alignment and structure
>pdb|1ZZ0|A Chain A, Crystal Structure Of A Hdac-Like Protein With Acetate Bound Length = 369 Back     alignment and structure
>pdb|2VCG|A Chain A, Crystal Structure Of A Hdac-like Protein Hdah From Bordetella Sp. With The Bound Inhibitor St-17 Length = 375 Back     alignment and structure
>pdb|3C0Y|A Chain A, Crystal Structure Of Catalytic Domain Of Human Histone Deacetylase Hdac7 Length = 423 Back     alignment and structure
>pdb|2VQO|A Chain A, Structure Of Hdac4 Catalytic Domain With A Gain-Of-Function Muation Bound To A Trifluoromethylketone Inhbitor Length = 413 Back     alignment and structure
>pdb|2VQQ|A Chain A, Structure Of Hdac4 Catalytic Domain (A Double Cysteine-To- Alanine Mutant) Bound To A Trifluoromethylketone Inhbitor Length = 413 Back     alignment and structure
>pdb|2VQJ|A Chain A, Structure Of Hdac4 Catalytic Domain Bound To A Trifluoromethylketone Inhbitor Length = 413 Back     alignment and structure
>pdb|2VQW|G Chain G, Structure Of Inhibitor-Free Hdac4 Catalytic Domain (With Gain-Of-Function Mutation His332tyr) Length = 413 Back     alignment and structure

Structure Templates Detected by RPS-BLAST ?

Original result of RPS-BLAST against PDB70 database

ID ?Alignment Graph ?Length ? Definition ? E-value ?
Query294
3ew8_A 388 HD8, histone deacetylase 8; hydrolase, HDAC, metal 6e-33
1c3p_A 375 Protein (HDLP (histone deacetylase-like protein) ) 3e-30
3max_A 367 HD2, histone deacetylase 2; class 2, HDAC, foot po 3e-29
4a69_A 376 Histone deacetylase 3,; transcription, hydrolase; 2e-28
2pqp_A421 HD7A, histone deacetylase 7A; HDAC, structural gen 4e-19
3q9b_A341 Acetylpolyamine amidohydrolase; HDAC, polyamines, 6e-17
1zz1_A369 Histone deacetylase-like amidohydrolase; HET: SHH; 7e-17
3men_A362 Acetylpolyamine aminohydrolase; histone deacetylas 3e-15
>3ew8_A HD8, histone deacetylase 8; hydrolase, HDAC, metalloenzyme, arginase fold, HDAC8, histon deacetylase, hydroxamate inhibitor, unliganded; HET: B3N; 1.80A {Homo sapiens} PDB: 3f06_A* 3ezp_A* 3ezt_A* 3f0r_A* 3f07_A* 2v5w_A* 2v5x_A* 3ewf_A* 3mz4_A* 3mz6_A* 3mz7_A* 3rqd_A* 3mz3_A* 1t64_A* 1t67_A* 1t69_A* 1vkg_A* 1w22_A* 3sff_A* 3sfh_A* Length = 388 Back     alignment and structure
 Score =  123 bits (311), Expect = 6e-33
 Identities = 55/198 (27%), Positives = 84/198 (42%), Gaps = 12/198 (6%)

Query: 37  LIYSPDYDISFLGIEKLHPFDSSKWGRICQFLSSEGFLDKNCIVEPLEASKEDLLVVHSE 96
            IYSP+Y    + +         +   +   + +     +  IV+P  AS E++   H++
Sbjct: 18  YIYSPEY----VSMCDSLAKIPKRASMVHSLIEAYALHKQMRIVKPKVASMEEMATFHTD 73

Query: 97  SYLKSLQ--SSPNVSIIIEVPPVALFPNCLVQRKVLYPFRKQVGGTILAAK--LAKERGW 152
           +YL+ LQ  S        +     L   C     +        G TI AA+  +      
Sbjct: 74  AYLQHLQKVSQEGDDDHPDSIEYGLGYLCPATEGIFDYAAAIGGATITAAQCLIDGMCKV 133

Query: 153 AINVGGGFHHCSADEGGGFCAYADISLCIHYAFVQLNISRVMIIDLDAHQGNGHEKDFSS 212
           AIN  GG+HH   DE  GFC   D  L I     +    R++ +DLD H G+G E  FS 
Sbjct: 134 AINWSGGWHHAKKDEASGFCYLNDAVLGILRL--RRKFERILYVDLDLHHGDGVEDAFSF 191

Query: 213 DSRVYILD--MFNPGIYP 228
            S+V  +    F+PG +P
Sbjct: 192 TSKVMTVSLHKFSPGFFP 209
>1c3p_A Protein (HDLP (histone deacetylase-like protein) ); alpha/beta fold, lyase; 1.80A {Aquifex aeolicus} SCOP: c.42.1.2 PDB: 1c3r_A* 1c3s_A* Length = 375 Back     alignment and structure
>3max_A HD2, histone deacetylase 2; class 2, HDAC, foot pocket, hydrolase; HET: LLX NHE; 2.05A {Homo sapiens} Length = 367 Back     alignment and structure
>4a69_A Histone deacetylase 3,; transcription, hydrolase; HET: I0P; 2.06A {Homo sapiens} Length = 376 Back     alignment and structure
>3q9b_A Acetylpolyamine amidohydrolase; HDAC, polyamines, arginase fold, deacetylase, hydrolase-HYDR inhibitor complex; HET: B3N; 2.25A {Mycoplana ramosa} PDB: 3q9f_A* 3q9c_A* 3q9e_A* Length = 341 Back     alignment and structure
>1zz1_A Histone deacetylase-like amidohydrolase; HET: SHH; 1.57A {Alcaligenaceae bacterium} PDB: 1zz0_A* 1zz3_A* 2gh6_A* 2vcg_A* Length = 369 Back     alignment and structure
>3men_A Acetylpolyamine aminohydrolase; histone deacetylase; 2.20A {Burkholderia pseudomallei 1710B} Length = 362 Back     alignment and structure

Structure Templates Detected by HHsearch ?

Original result of HHsearch against PDB70 database

ID ?Alignment Graph ?Length ? Definition ? Probability ?
Query294
2pqp_A421 HD7A, histone deacetylase 7A; HDAC, structural gen 100.0
1zz1_A369 Histone deacetylase-like amidohydrolase; HET: SHH; 100.0
4a69_A 376 Histone deacetylase 3,; transcription, hydrolase; 100.0
3max_A367 HD2, histone deacetylase 2; class 2, HDAC, foot po 100.0
1c3p_A 375 Protein (HDLP (histone deacetylase-like protein) ) 100.0
3ew8_A 388 HD8, histone deacetylase 8; hydrolase, HDAC, metal 100.0
3q9b_A341 Acetylpolyamine amidohydrolase; HDAC, polyamines, 100.0
2vqm_A 413 HD4, histone deacetylase 4; inhibitor, repressor, 100.0
3men_A362 Acetylpolyamine aminohydrolase; histone deacetylas 100.0
>1zz1_A Histone deacetylase-like amidohydrolase; HET: SHH; 1.57A {Alcaligenaceae bacterium} PDB: 1zz0_A* 1zz3_A* 2gh6_A* 2vcg_A* Back     alignment and structure
>4a69_A Histone deacetylase 3,; transcription, hydrolase; HET: I0P; 2.06A {Homo sapiens} Back     alignment and structure
>3max_A HD2, histone deacetylase 2; class 2, HDAC, foot pocket, hydrolase; HET: LLX NHE; 2.05A {Homo sapiens} Back     alignment and structure
>1c3p_A Protein (HDLP (histone deacetylase-like protein) ); alpha/beta fold, lyase; 1.80A {Aquifex aeolicus} SCOP: c.42.1.2 PDB: 1c3r_A* 1c3s_A* Back     alignment and structure
>3ew8_A HD8, histone deacetylase 8; hydrolase, HDAC, metalloenzyme, arginase fold, HDAC8, histon deacetylase, hydroxamate inhibitor, unliganded; HET: B3N; 1.80A {Homo sapiens} SCOP: c.42.1.2 PDB: 3f06_A* 3ezp_A* 3ezt_A* 3f0r_A* 3f07_A* 2v5w_A* 2v5x_A* 3ewf_A* 3mz4_A* 3mz6_A* 3mz7_A* 3rqd_A* 3mz3_A* 1t64_A* 1t67_A* 1t69_A* 1vkg_A* 1w22_A* 3sff_A* 3sfh_A* Back     alignment and structure
>3q9b_A Acetylpolyamine amidohydrolase; HDAC, polyamines, arginase fold, deacetylase, hydrolase-HYDR inhibitor complex; HET: B3N; 2.25A {Mycoplana ramosa} PDB: 3q9f_A* 3q9c_A* 3q9e_A* Back     alignment and structure
>2vqm_A HD4, histone deacetylase 4; inhibitor, repressor, chromatin, coiled coil, transcription regulation, UBL conjugation, chromatin regulator; HET: HA3; 1.8A {Homo sapiens} PDB: 2vqj_A* 2vqw_G 2vqq_A* 2vqo_A* 2vqv_A* 3c10_A* 3c0z_A 3c0y_A* Back     alignment and structure
>3men_A Acetylpolyamine aminohydrolase; histone deacetylase; 2.20A {Burkholderia pseudomallei 1710B} Back     alignment and structure

Homologous Structure Domains

Structure Domains Detected by RPS-BLAST ?

Original result of RPS-BLAST against SCOP70(version1.75) database

ID ?Alignment Graph ?Length ? Definition ? E-value ?
Query 294
d1c3pa_ 372 c.42.1.2 (A:) HDAC homologue {Aquifex aeolicus [Ta 2e-21
d1t64a_ 364 c.42.1.2 (A:) Histone deacetylase 8, HDAC8 {Human 4e-17
d3c10a1386 c.42.1.2 (A:515-900) Histone deacetylase 7, HDAC7 2e-15
>d1c3pa_ c.42.1.2 (A:) HDAC homologue {Aquifex aeolicus [TaxId: 63363]} Length = 372 Back     information, alignment and structure

class: Alpha and beta proteins (a/b)
fold: Arginase/deacetylase
superfamily: Arginase/deacetylase
family: Histone deacetylase, HDAC
domain: HDAC homologue
species: Aquifex aeolicus [TaxId: 63363]

 Score = 90.7 bits (224), Expect = 2e-21
 Identities = 46/202 (22%), Positives = 84/202 (41%), Gaps = 6/202 (2%)

Query: 34  KLPLIYSPDYDISFLGIEKLHPFDSSKWGRICQFLSSEGFLDKNCIVEPLEASKEDLLVV 93
           K+ LI + DY          HP    +   + +F  +   +D+  +++   A+KE+LL+ 
Sbjct: 2   KVKLIGTLDYGKYRYPKN--HPLKIPRVSLLLRFKDAMNLIDEKELIKSRPATKEELLLF 59

Query: 94  HSESYLKSLQSSPNVSIIIEVPPVALFP---NCLVQRKVLYPFRKQVGGTILAAKLAKER 150
           H+E Y+ +L  +     + +              V   +        G T+ A +   + 
Sbjct: 60  HTEDYINTLMEAERCQCVPKGAREKYNIGGYENPVSYAMFTGSSLATGSTVQAIEEFLKG 119

Query: 151 GWAINVGGGFHHCSADEGGGFCAYADISLCIHYAFVQLNISRVMIIDLDAHQGNGHEKDF 210
             A N  GG HH       GFC   + ++ I Y   +    R++ IDLDAH  +G ++ F
Sbjct: 120 NVAFNPAGGMHHAFKSRANGFCYINNPAVGIEYLR-KKGFKRILYIDLDAHHCDGVQEAF 178

Query: 211 SSDSRVYILDMFNPGIYPRDYE 232
               +V++L +     Y   +E
Sbjct: 179 YDTDQVFVLSLHQSPEYAFPFE 200
>d1t64a_ c.42.1.2 (A:) Histone deacetylase 8, HDAC8 {Human (Homo sapiens) [TaxId: 9606]} Length = 364 Back     information, alignment and structure
>d3c10a1 c.42.1.2 (A:515-900) Histone deacetylase 7, HDAC7 {Human (Homo sapiens) [TaxId: 9606]} Length = 386 Back     information, alignment and structure

Homologous Domains Detected by HHsearch ?

Original result of HHsearch against SCOP70(version1.75) database

ID ?Alignment Graph ?Length ? Definition ? Probability ?
Query294
d1t64a_364 Histone deacetylase 8, HDAC8 {Human (Homo sapiens) 100.0
d1c3pa_ 372 HDAC homologue {Aquifex aeolicus [TaxId: 63363]} 100.0
d3c10a1386 Histone deacetylase 7, HDAC7 {Human (Homo sapiens) 100.0
>d1t64a_ c.42.1.2 (A:) Histone deacetylase 8, HDAC8 {Human (Homo sapiens) [TaxId: 9606]} Back     information, alignment and structure
class: Alpha and beta proteins (a/b)
fold: Arginase/deacetylase
superfamily: Arginase/deacetylase
family: Histone deacetylase, HDAC
domain: Histone deacetylase 8, HDAC8
species: Human (Homo sapiens) [TaxId: 9606]

Probab=100.00  E-value=1.7e-70  Score=518.75  Aligned_cols=247  Identities=23%  Similarity=0.336  Sum_probs=223.0

Q ss_pred             EEECcccCcccCCCCCCCCCCchHHHHHHHHHHHCCCCCCceeecCCCCCHHHHhccCCHHHHHHHhcCCCccccc--cC
Q 022668           37 LIYSPDYDISFLGIEKLHPFDSSKWGRICQFLSSEGFLDKNCIVEPLEASKEDLLVVHSESYLKSLQSSPNVSIII--EV  114 (294)
Q Consensus        37 iiy~~~~~~h~~~~~~~Hpe~p~R~~~i~~~L~~~gl~~~~~~~~p~~a~~e~L~~vHs~~Yi~~l~~~~~~~~~~--e~  114 (294)
                      +||||+|..+.    ..|||+|.|++.+.++|+++||++.+++++|++|+.|+|++|||++||++|++.+......  +.
T Consensus         5 yiy~~~~~~~~----~~hP~~P~R~~~~~~ll~~~gl~~~~~~v~p~~At~~el~~vHs~~Yi~~l~~~~~~~~~~~~~~   80 (364)
T d1t64a_           5 YIYSPEYVSMC----DSLAKIPKRASMVHSLIEAYALHKQMRIVKPKVASMEEMATFHTDAYLQHLQKVSQEGDDDHPDS   80 (364)
T ss_dssp             EECCHHHHHHH----TCSSSSCCHHHHHHHHHHHTTGGGGSEEECCCCCCHHHHTTTSCHHHHHHHHHHHHHCSSCCTTT
T ss_pred             EEeCHHHhccC----CCCCCCcHHHHHHHHHHHHcCCccCCEEeCCCCCCHHHHHHhCCHHHHHHHHHhhhccccccchh
Confidence            48999998774    4799999999999999999999999999999999999999999999999998865433211  11


Q ss_pred             CCccccCCcccCcccHHHHHHHHhHHHHHHHHHHhc--CcEEecCCCCCCCCCCCCCCccccCcHHHHHHHHHHhCCCCe
Q 022668          115 PPVALFPNCLVQRKVLYPFRKQVGGTILAAKLAKER--GWAINVGGGFHHCSADEGGGFCAYADISLCIHYAFVQLNISR  192 (294)
Q Consensus       115 ~~~~~~~d~~~~~~~~~~a~~aag~~~~aa~~~~~~--~~a~~~~~GgHHA~~~~~~GFC~fNnvAiAa~~~~~~~~~~R  192 (294)
                      ....++.||++++++++++++++|+++.|++.++++  ..|++++||||||.+++++|||+|||+||||+++++  +.+|
T Consensus        81 ~~~~l~~d~p~~~~~~~~~~~~aG~~l~A~~~~~~g~~~~a~~~~gg~HHA~~~~a~GFC~~NdvaiA~~~~~~--~~~R  158 (364)
T d1t64a_          81 IEYGLGYDCPATEGIFDYAAAIGGATITAAQCLIDGMCKVAINWSGGWHHAKKDEASGFCYLNDAVLGILRLRR--KFER  158 (364)
T ss_dssp             TTTTCBTTBCCCTTHHHHHHHHHHHHHHHHHHHHTTSCSEEEETTCCCTTCBTTBCBTTBSSCHHHHHHHHHTT--TCSC
T ss_pred             eeecCCCCCCCCchHHHHHHHHhhhHHHHHHHHHcCCcccccccCccccccccccccccccccHHHHHHHHHHh--hhce
Confidence            223567799999999999999999999999999865  478999999999999999999999999999998765  4799


Q ss_pred             EEEEecCCcCChhhhhhhhcCCCEEEEeecCC--CCCCCCCc-------CCCceeEeeeCCCCCChHHHHHHHHHHHHHH
Q 022668          193 VMIIDLDAHQGNGHEKDFSSDSRVYILDMFNP--GIYPRDYE-------ARRFIDQKVEVVSGTTTNEYLKKLDEALEVY  263 (294)
Q Consensus       193 V~IiD~DvHhGnGtq~if~~d~~Vl~iSiH~~--~~yP~~g~-------~~~~~nvNvpl~~g~~d~~yl~~~~~~l~~~  263 (294)
                      |+|||||+|||||||+|||+|++|+|+|+|+.  ++||++|.       .++++++|||||+|++|++|+.+|++++.++
T Consensus       159 V~iiD~DvHhGnGtq~iF~~d~~V~~~SiH~~~~~~~Pgtg~~~e~G~g~g~~~~~NvPL~~g~~d~~y~~~~~~~i~~~  238 (364)
T d1t64a_         159 ILYVDLDLHHGDGVEDAFSFTSKVMTVSLHKFSPGFFPGTGDVSDVGLGKGRYYSVNVPIQDGIQDEKYYQICESVLKEV  238 (364)
T ss_dssp             EEEEECSSSCCHHHHHHHTTCSSEEEEEEEECCTTCTTCCCCTTCCCCGGGTTCEEEEEECTTCCHHHHHHHHHHHHHHH
T ss_pred             EEEEecccCCCCceeeeeecCCcccccccccccCCCCCCCCChhccCCcccccceeeeecccccChHHHHHHHHHhhHHH
Confidence            99999999999999999999999999999985  49999985       2457899999999999999999999999999


Q ss_pred             HhccCCCCCccEEEEeecCCCCCCCCCCCC
Q 022668          264 MFKTFSVHVFHLLFFPKSFHHYWKEDCGCL  293 (294)
Q Consensus       264 ~~~~f~P~~~~liv~~~G~D~~~~Dp~G~~  293 (294)
                      +++ |+|   |+||+|||||++.+||+|.|
T Consensus       239 ~~~-f~P---d~IvvsaG~D~~~~Dplg~~  264 (364)
T d1t64a_         239 YQA-FNP---KAVVLQLGADTIAGDPMCSF  264 (364)
T ss_dssp             HHH-HCC---SEEEEECCSTTBTTCTTCCC
T ss_pred             hhc-CCC---CEEEEECCccCCCCCCCCCC
Confidence            998 999   99999999999999999986
>d1c3pa_ c.42.1.2 (A:) HDAC homologue {Aquifex aeolicus [TaxId: 63363]} Back     information, alignment and structure
>d3c10a1 c.42.1.2 (A:515-900) Histone deacetylase 7, HDAC7 {Human (Homo sapiens) [TaxId: 9606]} Back     information, alignment and structure