Citrus Sinensis ID: 025519

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-
MSSSSSPSVTTDAETLKRNRILSSKLYFDIPIFKLPLIYSPDYDISFLGIEKLHPFDSSKWGRICQFLSSEGFLDKNCIVEPLEASKEDLLVVHSESYLKSLQSSPNVSIIIEVPPVALFPNCLVQRKVLYPFRKQVGGTILAAKLAKERGWAINVGGGFHHCSADEGGGFCAYADISLCIHYAFVQLNISRVMIIDLDAHQGNGHEKDFSSDSRVYILDMFNPGIYPRDYEARRFIDQKVEVVVNNQYTS
ccccccccccccHHHHHHHHHcccccccccccccccEEEcccccccccccccccccccHHHHHHHHHHHHccccccccEEccccccHHHHHccccHHHHHHHHccccccccccccccccccccHHHHHHHHHHHHHHHHHHHHHHHHHHccEEEEEccccccccccccccccHHcHHHHHHHHHHHHccccEEEEEEccccccHHHHHHHcccccEEEEEccccccccccccccccccccccccccccccc
ccccccccccccHHHHHHccccccccEEcccccccEEEEEEcccccccccccccccccHHHHHHHHHHHHcccHcccEEEccccccHHHHHHHccHHHHHHHHHccHHHHHHHHHHHHccccccccccccHHHEEccccHHHHHHHHccccEEEEcccccHcccccccccHHHHHHHHHHHHHHHHHccccEEEEEEEEcccccccEEHEcccccEEEEEEcccccccccccHHHHHccEEEEEEcccccc
mssssspsvttdaetlkrnrilssklyfdipifklpliyspdydisflgieklhpfdsskwgricqflssegfldkncivepleaskeDLLVVHSESYLKslqsspnvsiiievppvalfpnclvqrkvLYPFRKQVGGTILAAKLAKERGwainvgggfhhcsadegggfcayADISLCIHYAFVQLNISRVMIIdldahqgnghekdfssdsRVYILdmfnpgiyprdyeaRRFIDQKVEVVVNNQYTS
mssssspsvttdaetlkrnrilssklyFDIPIFKLPLIYSPDYDISFLGIEKLHPFDSSKWGRICQFLSSEGFLDKNCIVEPLEASKEDLLVVHSESYLKSLQSSPNVSIIIEVPPVALFPNCLVQRKVLYPFRKQVGGTILAAKLAKERGWAINVGGGFHHCSADEGGGFCAYADISLCIHYAFVQLNISRVMIIDLDAHQGNghekdfssdsrVYILDMFNPGIYPRDYEARRFIDQKVEVVVNNQYTS
MssssspsVTTDAETLKRNRILSSKLYFDIPIFKLPLIYSPDYDISFLGIEKLHPFDSSKWGRICQFLSSEGFLDKNCIVEPLEASKEDLLVVHSESYLKSLQSSPNVSIIIEVPPVALFPNCLVQRKVLYPFRKQVGGTILAAKLAKERGWAINVGGGFHHCSADEGGGFCAYADISLCIHYAFVQLNISRVMIIDLDAHQGNGHEKDFSSDSRVYILDMFNPGIYPRDYEARRFIDQKVEVVVNNQYTS
******************NRILSSKLYFDIPIFKLPLIYSPDYDISFLGIEKLHPFDSSKWGRICQFLSSEGFLDKNCIVEPLEASKEDLLVVHSESYLKSLQSSPNVSIIIEVPPVALFPNCLVQRKVLYPFRKQVGGTILAAKLAKERGWAINVGGGFHHCSADEGGGFCAYADISLCIHYAFVQLNISRVMIIDLDAHQGN*****FSSDSRVYILDMFNPGIYPRDYEARRFIDQKVEVVVN*****
*****************************IPIFKLPLIYSPDYDISFLGIEKLHPFDSSKWGRICQFLSSEGFLDKNCIVEPLEASKEDLLVVHSESYLKSLQSSP**********VALFPNCLVQRKVLYPFRKQVGGTILAAKLAKERGWAINVGGGFHHCSADEGGGFCAYADISLCIHYAFVQLNISRVMIIDLDAHQGNGHEKDFSSDSRVYILDMFNPGIYPRDYEARRFIDQK***********
**************TLKRNRILSSKLYFDIPIFKLPLIYSPDYDISFLGIEKLHPFDSSKWGRICQFLSSEGFLDKNCIVEPLEASKEDLLVVHSESYLKSLQSSPNVSIIIEVPPVALFPNCLVQRKVLYPFRKQVGGTILAAKLAKERGWAINVGGGFHHCSADEGGGFCAYADISLCIHYAFVQLNISRVMIIDLDAHQGNGHEKDFSSDSRVYILDMFNPGIYPRDYEARRFIDQKVEVVVNNQYTS
***************LKRNRILSSKLYFDIPIFKLPLIYSPDYDISFLGIEKLHPFDSSKWGRICQFLSSEGFLDKNCIVEPLEASKEDLLVVHSESYLKSLQSSPNVSIIIEVPPVALFPNCLVQRKVLYPFRKQVGGTILAAKLAKERGWAINVGGGFHHCSADEGGGFCAYADISLCIHYAFVQLNISRVMIIDLDAHQGNGHEKDFSSDSRVYILDMFNPGIYPRDYEARRFIDQKVEVVVNN****
ooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
iiiiiiiiiiiiiiiiiiiiHHHHHHHHHHHHHHHHHHooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
oooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooohhhhhhhhhhhhhhhhhhhhhhhhiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiii
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ooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
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MSSSSSPSVTTDAETLKRNRILSSKLYFDIPIFKLPLIYSPDYDISFLGIEKLHPFDSSKWGRICQFLSSEGFLDKNCIVEPLEASKEDLLVVHSESYLKSLQSSPNVSIIIEVPPVALFPNCLVQRKVLYPFRKQVGGTILAAKLAKERGWAINVGGGFHHCSADEGGGFCAYADISLCIHYAFVQLNISRVMIIDLDAHQGNGHEKDFSSDSRVYILDMFNPGIYPRDYEARRFIDQKVEVVVNNQYTS
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 ?
Query251 2.2.26 [Sep-21-2011]
Q944K3387 Histone deacetylase 2 OS= yes no 0.968 0.627 0.748 1e-108
Q96DB2 347 Histone deacetylase 11 OS yes no 0.880 0.636 0.590 4e-76
Q9GKU5 347 Histone deacetylase 11 OS N/A no 0.880 0.636 0.590 4e-76
Q91WA3 347 Histone deacetylase 11 OS yes no 0.880 0.636 0.590 3e-75
P28606300 Uncharacterized protein S yes no 0.697 0.583 0.3 2e-15
B1H369 369 Histone deacetylase 8 OS= yes no 0.633 0.430 0.319 6e-14
Q6GFX3 389 Acetoin utilization prote yes no 0.673 0.434 0.292 9e-14
Q20296 955 Histone deacetylase 6 OS= no no 0.772 0.203 0.279 3e-13
P39067 387 Acetoin utilization prote yes no 0.721 0.467 0.301 5e-13
Q8NW34 389 Acetoin utilization prote yes no 0.673 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 =  389 bits (1000), Expect = e-108,   Method: Compositional matrix adjust.
 Identities = 182/243 (74%), Positives = 209/243 (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 EVV 244
           EV+
Sbjct: 281 EVM 283
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|Q96DB2|HDA11_HUMAN Histone deacetylase 11 OS=Homo sapiens GN=HDAC11 PE=1 SV=1 Back     alignment and function description
>sp|Q9GKU5|HDA11_MACFA Histone deacetylase 11 OS=Macaca fascicularis GN=HDAC11 PE=2 SV=2 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|B1H369|HDAC8_XENTR Histone deacetylase 8 OS=Xenopus tropicalis GN=hdac8 PE=2 SV=1 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|Q20296|HDA6_CAEEL Histone deacetylase 6 OS=Caenorhabditis elegans GN=hda-6 PE=2 SV=2 Back     alignment and function description
>sp|P39067|ACUC_BACSU Acetoin utilization protein AcuC OS=Bacillus subtilis (strain 168) GN=acuC PE=3 SV=1 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

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 ?
Query251
255550810342 histone deacetylase, putative [Ricinus c 0.964 0.707 0.805 1e-114
225429480 359 PREDICTED: histone deacetylase 2 [Vitis 0.948 0.662 0.809 1e-114
357437493350 Histone deacetylase [Medicago truncatula 0.956 0.685 0.825 1e-113
388493714348 unknown [Lotus japonicus] 0.956 0.689 0.827 1e-113
356564065348 PREDICTED: histone deacetylase 2-like [G 0.952 0.686 0.802 1e-112
449447110351 PREDICTED: histone deacetylase 2-like [C 0.968 0.692 0.758 1e-106
297812823 387 hypothetical protein ARALYDRAFT_489451 [ 0.968 0.627 0.748 1e-106
326522206 352 predicted protein [Hordeum vulgare subsp 0.988 0.704 0.728 1e-106
30690103 387 histone deacetylase 2 [Arabidopsis thali 0.968 0.627 0.748 1e-106
21105771340 HDA2 [Arabidopsis thaliana] 0.940 0.694 0.754 1e-104
>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
 Score =  417 bits (1071), Expect = e-114,   Method: Compositional matrix adjust.
 Identities = 195/242 (80%), Positives = 219/242 (90%)

Query: 2   SSSSSPSVTTDAETLKRNRILSSKLYFDIPIFKLPLIYSPDYDISFLGIEKLHPFDSSKW 61
           S   S S T D+ TL+RNRI+SSKLYFDIP+ K+P+IYSP YDISFLGIEKLHPFDSSKW
Sbjct: 16  SRQMSSSTTADSLTLRRNRIISSKLYFDIPLSKVPIIYSPAYDISFLGIEKLHPFDSSKW 75

Query: 62  GRICQFLSSEGFLDKNCIVEPLEASKEDLLVVHSESYLKSLQSSPNVSIIIEVPPVALFP 121
           GR+C+FL +EG LDKN IVEPLEASK+DLLVVH ESYL SL+SS NV+ IIEVPPV+LFP
Sbjct: 76  GRVCRFLVTEGVLDKNSIVEPLEASKDDLLVVHLESYLSSLRSSANVATIIEVPPVSLFP 135

Query: 122 NCLVQRKVLYPFRKQVGGTILAAKLAKERGWAINVGGGFHHCSADEGGGFCAYADISLCI 181
           NCLVQ+KVL+PFRKQVGGTILAAKLAKERGWAINVGGGFHHCS+ +GGGFCAYADISLCI
Sbjct: 136 NCLVQQKVLFPFRKQVGGTILAAKLAKERGWAINVGGGFHHCSSGKGGGFCAYADISLCI 195

Query: 182 HYAFVQLNISRVMIIDLDAHQGNGHEKDFSSDSRVYILDMFNPGIYPRDYEARRFIDQKV 241
           H+AFV+L ISRVMIIDLDAHQGNGHE DF  D+R+YILDM+NPGIYP DYEAR +IDQKV
Sbjct: 196 HFAFVRLRISRVMIIDLDAHQGNGHEMDFYDDNRIYILDMYNPGIYPLDYEARNYIDQKV 255

Query: 242 EV 243
           E+
Sbjct: 256 EI 257

Source: Ricinus communis

Species: Ricinus communis

Genus: Ricinus

Family: Euphorbiaceae

Order: Malpighiales

Class:

Phylum: Streptophyta

Superkingdom: Eukaryota
>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
>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|388493714|gb|AFK34923.1| unknown [Lotus japonicus] 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|326522206|dbj|BAK04231.1| predicted protein [Hordeum vulgare subsp. vulgare] 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

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 ?
Query251
TAIR|locus:2180657387 HDA2 "AT5G26040" [Arabidopsis 0.940 0.609 0.754 1.8e-96
UNIPROTKB|Q96DB2 347 HDAC11 "Histone deacetylase 11 0.880 0.636 0.590 1e-68
UNIPROTKB|Q9GKU5 347 HDAC11 "Histone deacetylase 11 0.880 0.636 0.590 1e-68
UNIPROTKB|I3LTU6275 LOC100738481 "Uncharacterized 0.880 0.803 0.590 2.1e-68
MGI|MGI:2385252 347 Hdac11 "histone deacetylase 11 0.880 0.636 0.590 2.7e-68
RGD|1311706 347 Hdac11 "histone deacetylase 11 0.880 0.636 0.590 2.7e-68
UNIPROTKB|F1NYW6 357 HDAC11 "Uncharacterized protei 0.876 0.616 0.579 2.4e-67
ZFIN|ZDB-GENE-040704-7 366 hdac11 "histone deacetylase 11 0.876 0.601 0.574 3.1e-67
UNIPROTKB|F1MWX4 386 HDAC11 "Uncharacterized protei 0.876 0.569 0.579 4e-67
UNIPROTKB|B5MCV5204 HDAC11 "Histone deacetylase 11 0.780 0.960 0.614 3.8e-62
TAIR|locus:2180657 HDA2 "AT5G26040" [Arabidopsis thaliana (taxid:3702)] Back     alignment and assigned GO terms
 Score = 959 (342.6 bits), Expect = 1.8e-96, P = 1.8e-96
 Identities = 178/236 (75%), Positives = 205/236 (86%)

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 NISRVMIIDLDAHQGNGHEKDFSSDSRVYILDMFNPGIYPRDYEARRFIDQKVEVV 244
              ISRVMIIDLDAHQGNGHE D   D+RVYILDM+NP IYP DY ARRFIDQKVEV+
Sbjct:   228 RISRVMIIDLDAHQGNGHETDLGDDNRVYILDMYNPEIYPFDYRARRFIDQKVEVM 283
GO:0004407 "histone deacetylase activity" evidence=ISS
GO:0005634 "nucleus" evidence=ISM
GO:0008150 "biological_process" evidence=ND
UNIPROTKB|Q96DB2 HDAC11 "Histone deacetylase 11" [Homo sapiens (taxid:9606)] Back     alignment and assigned GO terms
UNIPROTKB|Q9GKU5 HDAC11 "Histone deacetylase 11" [Macaca fascicularis (taxid:9541)] 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|F1NYW6 HDAC11 "Uncharacterized protein" [Gallus gallus (taxid:9031)] 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|F1MWX4 HDAC11 "Uncharacterized protein" [Bos taurus (taxid:9913)] Back     alignment and assigned GO terms
UNIPROTKB|B5MCV5 HDAC11 "Histone deacetylase 11" [Homo sapiens (taxid:9606)] 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, 80.59000.88040.6368yesno
Q944K3HDA2_ARATH3, ., 5, ., 1, ., 9, 80.74890.96810.6279yesno
Q96DB2HDA11_HUMAN3, ., 5, ., 1, ., 9, 80.59000.88040.6368yesno

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 Layer3.5.1.980.914
3rd Layer3.5.10.921

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 ?
Query251
cd09993275 cd09993, HDAC_classIV, Histone deacetylase class I 2e-81
cd09301279 cd09301, HDAC, Histone deacetylase (HDAC) classes 3e-47
pfam00850300 pfam00850, Hist_deacetyl, Histone deacetylase doma 4e-46
COG0123 340 COG0123, AcuC, Deacetylases, including yeast histo 6e-30
cd09994313 cd09994, HDAC_AcuC_like, Class I histone deacetyla 1e-24
cd10000 364 cd10000, HDAC8, Histone deacetylase 8 (HDAC8) 5e-23
cd09991306 cd09991, HDAC_classI, Class I histone deacetylases 5e-19
cd09992291 cd09992, HDAC_classII, Histone deacetylases and hi 1e-15
cd11680294 cd11680, HDAC_Hos1, Class I histone deacetylases H 2e-15
cd09996 359 cd09996, HDAC_classII_1, Histone deacetylases and 3e-15
cd11682 337 cd11682, HDAC6-dom1, Histone deacetylase 6, domain 3e-14
cd11599288 cd11599, HDAC_classII_2, Histone deacetylases and 2e-13
cd10002 336 cd10002, HDAC10_HDAC6-dom1, Histone deacetylase 6, 1e-11
cd10003 350 cd10003, HDAC6-dom2, Histone deacetylase 6, domain 1e-11
cd11598311 cd11598, HDAC_Hos2, Class I histone deacetylases i 3e-11
cd10011 366 cd10011, HDAC2, Histone deacetylase 2 (HDAC2) 4e-11
cd10010 371 cd10010, HDAC1, Histone deacetylase 1 (HDAC1) 6e-11
PTZ00346 429 PTZ00346, PTZ00346, histone deacetylase; Provision 1e-10
cd10009 379 cd10009, HDAC9, Histone deacetylase 9 5e-10
cd11683 337 cd11683, HDAC10, Histone deacetylase 10 1e-09
cd11600 313 cd11600, HDAC_Clr3, Class II Histone deacetylase C 2e-09
cd10005 381 cd10005, HDAC3, Histone deacetylase 3 (HDAC3) 3e-08
cd09998 353 cd09998, HDAC_Hos3, Class II histone deacetylases 5e-08
PTZ00063 436 PTZ00063, PTZ00063, histone deacetylase; Provision 7e-08
cd11681 377 cd11681, HDAC_classIIa, Histone deacetylases, clas 1e-07
cd10004 375 cd10004, RPD3-like, reduced potassium dependency-3 2e-07
cd10007 420 cd10007, HDAC5, Histone deacetylase 5 2e-06
cd10006 409 cd10006, HDAC4, Histone deacetylase 4 4e-06
cd10001298 cd10001, HDAC_classII_APAH, Histone deacetylase cl 3e-05
cd10008 378 cd10008, HDAC7, Histone deacetylase 7 1e-04
>gnl|CDD|212519 cd09993, HDAC_classIV, Histone deacetylase class IV also known as histone deacetylase 11 Back     alignment and domain information 
 Score =  245 bits (627), Expect = 2e-81
 Identities = 72/190 (37%), Positives = 97/190 (51%), Gaps = 9/190 (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 RRFIDQKVEV 243
           +   D  V +
Sbjct: 172 KEPSDLDVPL 181

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|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|240374 PTZ00346, PTZ00346, histone deacetylase; Provisional 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 251
PTZ00063 436 histone deacetylase; Provisional 100.0
COG0123 340 AcuC Deacetylases, including yeast histone deacety 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
KOG1343 797 consensus Histone deacetylase complex, catalytic c 99.97
KOG1343 797 consensus Histone deacetylase complex, catalytic c 99.92
KOG0121153 consensus Nuclear cap-binding protein complex, sub 80.31
>PTZ00063 histone deacetylase; Provisional Back     alignment and domain information 
Probab=100.00  E-value=8.3e-61  Score=449.23  Aligned_cols=216  Identities=23%  Similarity=0.365  Sum_probs=191.0

Q ss_pred             CCceeEEECcccCcccCCCCCCCCCCchHHHHHHHHHHHCCCCCCceeecCCCCCHHHHhccCCHHHHHHHhcCCCcccc
Q 025519           32 IFKLPLIYSPDYDISFLGIEKLHPFDSSKWGRICQFLSSEGFLDKNCIVEPLEASKEDLLVVHSESYLKSLQSSPNVSII  111 (251)
Q Consensus        32 ~~~~~~vy~~~~~~h~~~~~~~Hpe~p~R~~~i~~~L~~~gl~~~~~~~~p~~as~~~L~~vHs~~Yv~~l~~~~~~~~~  111 (251)
                      +.++.++|+|+|..|.++  .+|||+|.|+++++++|.+.|+...+++++|++|+.++|.+||+++||++|++..+....
T Consensus         3 ~~~v~~~yd~~~~~h~~g--~~HP~~P~Rl~~~~~ll~~~gl~~~~~~~~p~~At~eeL~~vHs~~YI~~L~~~~~~~~~   80 (436)
T PTZ00063          3 RKRVSYFYDPDIGSYYYG--PGHPMKPQRIRMAHALILSYDLYKHMEIYRPHKSVEPELVLFHDEEYVDFLSSISPENYR   80 (436)
T ss_pred             CceEEEEECccccCcCCc--CcCCcChHHHHHHHHHHHhCCCcccCeEecCCCCCHHHHHHhCCHHHHHHHHHhChhhcc
Confidence            467899999999999764  689999999999999999999999899999999999999999999999999987653211


Q ss_pred             ---cccCCcccC--CCcccccccHHHHHHHhcHHHHHHHHHHHc--CceeecCCCCCCCCCCCCCCccccccHHHHHHHH
Q 025519          112 ---IEVPPVALF--PNCLVQRKVLYPFRKQVGGTILAAKLAKER--GWAINVGGGFHHCSADEGGGFCAYADISLCIHYA  184 (251)
Q Consensus       112 ---~e~~~~~~~--~d~~~~~~~~~~a~~a~G~~l~aa~~~~~~--~~a~~~~~G~HHA~~~~~~GFC~fNnvAiAa~~l  184 (251)
                         ..+....++  .||++++++++++++++||+|.||+.++++  ++|++|+||+|||++++++|||+||||||||++|
T Consensus        81 ~~~~~~~~f~lg~~~D~pv~~gl~~~a~~aaGgsl~Aa~~l~~g~~~iAin~~GG~HHA~~~~A~GFC~~NdiaiAi~~L  160 (436)
T PTZ00063         81 DFTYQLKRFNVGEATDCPVFDGLFEFQQSCAGASIDGAYKLNNHQADICVNWSGGLHHAKRSEASGFCYINDIVLGILEL  160 (436)
T ss_pred             cchhhhhhcccCCCCCCCcccHHHHHHHHHHhHHHHHHHHHHcCCCCEEeeCCCCCCCCccCCCCceeeecHHHHHHHHH
Confidence               011111233  599999999999999999999999998753  5899999999999999999999999999999999


Q ss_pred             HHhCCCCeEEEEccCCcCChhhhHhhhCCCCEEEEeecCCC-CCCCCccc-------CCceeeeccCCCCCCCCC
Q 025519          185 FVQLNISRVMIIDLDAHQGNGHEKDFSSDSRVYILDMFNPG-IYPRDYEA-------RRFIDQKVEVVVNNQYTS  251 (251)
Q Consensus       185 ~~~~~~~rV~IiD~DvHhGnGtq~if~~d~~Vl~iSiH~~~-~yP~tg~~-------~~~~~~~vpl~~g~~d~~  251 (251)
                      ++.+  +||+|||||||||||||++||+||+|||+|+|+.+ |||+||..       ++++++||||++|++|++
T Consensus       161 ~~~~--~RVliID~DvHHGdGtqe~F~~~~~VltvS~H~~~~ffPgtG~~~e~G~g~G~g~~vNvPL~~G~~D~~  233 (436)
T PTZ00063        161 LKYH--ARVMYIDIDVHHGDGVEEAFYVTHRVMTVSFHKFGDFFPGTGDVTDIGVAQGKYYSVNVPLNDGIDDDS  233 (436)
T ss_pred             HHhC--CeEEEEeCCCCCCcchHHHhccCCCeEEEEeccCCCcCCCCCCccccCCCCCCceEEEeeCCCCCCHHH
Confidence            9864  79999999999999999999999999999999975 99999864       357899999999999963

>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
>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
>KOG0121 consensus Nuclear cap-binding protein complex, subunit CBP20 (RRM superfamily) [RNA processing and modification] 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 ?
Query251
3ezp_A 388 Crystal Structure Analysis Of Human Hdac8 D101n Var 6e-13
3sff_A 378 Crystal Structure Of Human Hdac8 Inhibitor Complex, 2e-12
1t64_A 377 Crystal Structure Of Human Hdac8 Complexed With Tri 2e-12
2v5w_A 388 Crystal Structure Of Hdac8-Substrate Complex Length 2e-12
3f07_A 388 Crystal Structure Analysis Of Human Hdac8 Complexed 2e-12
3mz3_A 389 Crystal Structure Of Co2+ Hdac8 Complexed With M344 2e-12
2v5x_A 388 Crystal Structure Of Hdac8-Inhibitor Complex Length 2e-12
3ezt_A 388 Crystal Structure Analysis Of Human Hdac8 D101e Var 3e-12
3ew8_A 388 Crystal Structure Analysis Of Human Hdac8 D101l Var 4e-12
3mz4_A 389 Crystal Structure Of D101l Mn2+ Hdac8 Complexed Wit 4e-12
3f06_A 388 Crystal Structure Analysis Of Human Hdac8 D101a Var 5e-12
3max_A 367 Crystal Structure Of Human Hdac2 Complexed With An 2e-11
3ewf_A 388 Crystal Structure Analysis Of Human Hdac8 H143a Var 3e-11
1c3p_A 375 Crystal Structure Of An Hdac Homolog From Aquifex A 2e-10
1c3r_A 375 Crystal Structure Of An Hdac Homolog Complexed With 3e-10
4a69_A 376 Structure Of Hdac3 Bound To Corepressor And Inosito 1e-08
1zz0_A 369 Crystal Structure Of A Hdac-Like Protein With Aceta 7e-07
2vcg_A 375 Crystal Structure Of A Hdac-like Protein Hdah From 7e-07
3c0y_A 423 Crystal Structure Of Catalytic Domain Of Human Hist 4e-06
2vqw_G 413 Structure Of Inhibitor-Free Hdac4 Catalytic Domain 8e-06
2vqj_A 413 Structure Of Hdac4 Catalytic Domain Bound To A Trif 8e-06
2vqo_A 413 Structure Of Hdac4 Catalytic Domain With A Gain-Of- 8e-06
2vqq_A 413 Structure Of Hdac4 Catalytic Domain (A Double Cyste 9e-06
>pdb|3EZP|A Chain A, Crystal Structure Analysis Of Human Hdac8 D101n Variant Length = 388 Back     alignment and structure 
Iteration: 1

 Score = 70.9 bits (172), Expect = 6e-13,   Method: Compositional matrix adjust.
 Identities = 57/206 (27%), Positives = 93/206 (45%), Gaps = 18/206 (8%)
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--FNPGIYP 228
           G E  FS  S+V  + +  F+PG +P
Sbjct: 184 GVEDAFSFTSKVMTVSLHKFSPGFFP 209
>pdb|3SFF|A Chain A, Crystal Structure Of Human Hdac8 Inhibitor Complex, An Amino Acid Derived Inhibitor Length = 378 Back     alignment and structure
>pdb|1T64|A Chain A, Crystal Structure Of Human Hdac8 Complexed With Trichostatin A Length = 377 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|3MZ4|A Chain A, Crystal Structure Of D101l Mn2+ Hdac8 Complexed With M344 Length = 389 Back     alignment and structure
>pdb|3F06|A Chain A, Crystal Structure Analysis Of Human Hdac8 D101a Variant. Length = 388 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|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|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|2VQW|G Chain G, Structure Of Inhibitor-Free Hdac4 Catalytic Domain (With Gain-Of-Function Mutation His332tyr) 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|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

Structure Templates Detected by RPS-BLAST ?

Original result of RPS-BLAST against PDB70 database

ID ?Alignment Graph ?Length ? Definition ? E-value ?
Query251
3ew8_A 388 HD8, histone deacetylase 8; hydrolase, HDAC, metal 7e-34
1c3p_A 375 Protein (HDLP (histone deacetylase-like protein) ) 4e-31
3max_A 367 HD2, histone deacetylase 2; class 2, HDAC, foot po 4e-30
4a69_A 376 Histone deacetylase 3,; transcription, hydrolase; 4e-29
2pqp_A 421 HD7A, histone deacetylase 7A; HDAC, structural gen 1e-19
3q9b_A341 Acetylpolyamine amidohydrolase; HDAC, polyamines, 1e-17
1zz1_A 369 Histone deacetylase-like amidohydrolase; HET: SHH; 2e-17
3men_A362 Acetylpolyamine aminohydrolase; histone deacetylas 7e-16
>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 =  124 bits (314), Expect = 7e-34
 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 ?
Query251
2pqp_A 421 HD7A, histone deacetylase 7A; HDAC, structural gen 100.0
1zz1_A 369 Histone deacetylase-like amidohydrolase; HET: SHH; 100.0
4a69_A 376 Histone deacetylase 3,; transcription, hydrolase; 100.0
3max_A 367 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
3men_A362 Acetylpolyamine aminohydrolase; histone deacetylas 100.0
2vqm_A 413 HD4, histone deacetylase 4; inhibitor, repressor, 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
>3men_A Acetylpolyamine aminohydrolase; histone deacetylase; 2.20A {Burkholderia pseudomallei 1710B} 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

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 251
d1c3pa_ 372 c.42.1.2 (A:) HDAC homologue {Aquifex aeolicus [Ta 2e-22
d1t64a_ 364 c.42.1.2 (A:) Histone deacetylase 8, HDAC8 {Human 6e-18
d3c10a1 386 c.42.1.2 (A:515-900) Histone deacetylase 7, HDAC7 3e-16
>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 = 92.6 bits (229), Expect = 2e-22
 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 ?
Query251
d1t64a_ 364 Histone deacetylase 8, HDAC8 {Human (Homo sapiens) 100.0
d3c10a1 386 Histone deacetylase 7, HDAC7 {Human (Homo sapiens) 100.0
d1c3pa_ 372 HDAC homologue {Aquifex aeolicus [TaxId: 63363]} 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=4.9e-60  Score=435.41  Aligned_cols=208  Identities=26%  Similarity=0.363  Sum_probs=183.9

Q ss_pred             EEECcccCcccCCCCCCCCCCchHHHHHHHHHHHCCCCCCceeecCCCCCHHHHhccCCHHHHHHHhcCCCccccc--cc
Q 025519           37 LIYSPDYDISFLGIEKLHPFDSSKWGRICQFLSSEGFLDKNCIVEPLEASKEDLLVVHSESYLKSLQSSPNVSIII--EV  114 (251)
Q Consensus        37 ~vy~~~~~~h~~~~~~~Hpe~p~R~~~i~~~L~~~gl~~~~~~~~p~~as~~~L~~vHs~~Yv~~l~~~~~~~~~~--e~  114 (251)
                      +||+|+|..+.    .+|||+|.|++++.++|+++||++.+++++|++|+.++|++|||++||++|++.+......  +.
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            48999998763    4799999999999999999999999999999999999999999999999998765432211  11


Q ss_pred             CCcccCCCcccccccHHHHHHHhcHHHHHHHHHHHc--CceeecCCCCCCCCCCCCCCccccccHHHHHHHHHHhCCCCe
Q 025519          115 PPVALFPNCLVQRKVLYPFRKQVGGTILAAKLAKER--GWAINVGGGFHHCSADEGGGFCAYADISLCIHYAFVQLNISR  192 (251)
Q Consensus       115 ~~~~~~~d~~~~~~~~~~a~~a~G~~l~aa~~~~~~--~~a~~~~~G~HHA~~~~~~GFC~fNnvAiAa~~l~~~~~~~r  192 (251)
                      ....++.||++++++++++++++|+++.|++.++++  ..|++++||||||++++++|||+|||+||||+++++  +.+|
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            123456799999999999999999999999999864  478999999999999999999999999999998754  4799


Q ss_pred             EEEEccCCcCChhhhHhhhCCCCEEEEeecCC--CCCCCCccc-------CCceeeeccCCCCCCCC
Q 025519          193 VMIIDLDAHQGNGHEKDFSSDSRVYILDMFNP--GIYPRDYEA-------RRFIDQKVEVVVNNQYT  250 (251)
Q Consensus       193 V~IiD~DvHhGnGtq~if~~d~~Vl~iSiH~~--~~yP~tg~~-------~~~~~~~vpl~~g~~d~  250 (251)
                      |+|||||||||||||+||++||+|+|+|+|+.  +|||+||..       ++++++|||||+|++|+
T Consensus       159 V~iiD~DvHhGnGtq~iF~~d~~V~~~SiH~~~~~~~Pgtg~~~e~G~g~g~~~~~NvPL~~g~~d~  225 (364)
T d1t64a_         159 ILYVDLDLHHGDGVEDAFSFTSKVMTVSLHKFSPGFFPGTGDVSDVGLGKGRYYSVNVPIQDGIQDE  225 (364)
T ss_dssp             EEEEECSSSCCHHHHHHHTTCSSEEEEEEEECCTTCTTCCCCTTCCCCGGGTTCEEEEEECTTCCHH
T ss_pred             EEEEecccCCCCceeeeeecCCcccccccccccCCCCCCCCChhccCCcccccceeeeecccccChH
Confidence            99999999999999999999999999999985  499999964       35799999999999985
>d3c10a1 c.42.1.2 (A:515-900) Histone deacetylase 7, HDAC7 {Human (Homo sapiens) [TaxId: 9606]} Back     information, alignment and structure
>d1c3pa_ c.42.1.2 (A:) HDAC homologue {Aquifex aeolicus [TaxId: 63363]} Back     information, alignment and structure