Citrus Sinensis ID: 032833

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Local Sequence Feature Prediction

Residue Number Marker
--------10--------20--------30--------40--------50--------60--------70--------80--------90-------100-------110-------120-------130--
Protein Sequence
MTHMLNALSGGKLLVILEGGYNLRSISSSATSVIKVLLGENPGCELGDSAPSKSGLVTVLEVLKIQMNFWPSLASRFTELQSLWEIYAAENKKKQIKKIRRADAPIWWKWGRKRLLYQIIKGHLRVRSRGVN
Secondary Structure (PSIPRED)
cHHHHHHHccccEEEEEccccccHHHHHHHHHHHHHHcccccccccccccccHHHHHHHHHHHHHHcccccccccccccHHHHHHHHHHHHHHHHHHHHcccccccHHHHHHHHHHHHHHHHHHHHcccccc
Secondary Structure Prediction (SSPRO)
ccHHHHHHccccEEEEEEccccHHHHHHHHHHHHHHHHccccccccccccccHHHHHHHHHHHHHHHHHHHHHccccccHHHHHHHHHHHHHHccccccccccccEEEEcccHHHHHHHHHHcccccccccc
Coil and Loop (DISEMBL)
mthmlnalsgGKLLVILEGGYNLRSISSSATSVIKVLLgenpgcelgdsapsksgLVTVLEVLKIQMNFWPSLASRFTELQSLWEIYAAENKKKQIKKIRRADAPIWWKWGRKRLLYQIIKGHLrvrsrgvn
Flexible Loop (DISEMBL)
mthmlnalsgGKLLVILEGGYNLRSISSSATSVIKVLLGENPGCELGDSAPSKSGLVTVLEVLKIQMNFWPSLASRFTELQSLWEIYAAEnkkkqikkirradapiwwkwgrkRLLYQIIkghlrvrsrgvn
Low Complexity Region (SEG)
MTHMLNALSGGKLLVILEGGYNLRSISSSATSVIKVLLGENPGCELGDSAPSKSGLVTVLEVLKIQMNFWPSLASRFTELQSLWEIYAAENKKKQIKKIRRADAPIWWKWGRKRLLYQIIKGHLRVRSRGVN
Disordered region (IsUnstruct)
******ALSGGKLLVILEGGYNLRSISSSATSVIKVLLGENPGCELG*****KSGLVTVLEVLKIQMNFWPSLASRFTELQSLWEIYAAENKKKQIKKIRRADAPIWWKWGRKRLLYQIIKGHLRV******
Disordered Region (DISOPRED)
*TH****LSGGKLLVILEGGYNLRSISSSATSVIKVLLGE************KSGLVTVLEVLKIQMNFWPSLA***************************ADAPIWWKWGRKRLLYQIIK***********
Disordered Region (DISEMBL)
MTHMLNALSGGKLLVILEGGYNLRSISSSATSVIKVLLGENPGCELGDSAPSKSGLVTVLEVLKIQMNFWPSLASRFTELQSLWEIYAAENKKKQIKKIRRADAPIWWKWGRKRLLYQIIKGHLRVRSRGVN
Disordered Region (DISPRO)
*THMLNALSGGKLLVILEGGYNLRSISSSATSVIKVLLGENPGCELGDSAPSKSGLVTVLEVLKIQMNFWPSLASRFTELQSLWEIYAAENK*KQIKKIRRADAPIWWKWGRKRLLYQIIKGHL********
Transmembrane Helix (TMHMM)
oooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
Transmembrane Helix (HMMTOP)
oooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
Transmembrane Helix (MEMSAT)
oooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooohhhhhhhhhhhhhhhhhhhhiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiii
TM Helix, Signal Peptide (MEMSAT_SVM)
oooooooooooooooooohhhhhhhhhhhhhhhhiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiii
TM Helix, Signal Peptide (Phobius)
oooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
Signal Peptide (SignalP HMM Mode)
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Signal Peptide (SignalP NN Mode)
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Coiled Coils (COILS)
MTHMLNALSGGKLLVILEGGYNLRSISSSATSVIKVLLGENPGCELGDSAPSKSGLVTVLEVLKIQMNFWPSLASRFTELQSLWEIYAAENKKKQIKKIRRADAPIWWKWGRKRLLYQIIKGHLRVRSRGVN
Positional Conservation
no confident homologs detected

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Close Homologs for Annotation Transfer

Close Homologs in SWISS-PROT Database Detected by BLAST

Original result of BLAST against SWISS-PROT Database

ID	Length	Definition	RBH(Q2H)	RBH(H2Q)	Q cover	H cover	Identity	E-value
Query	132	2.2.26 [Sep-21-2011]
Q8GXJ1	552	Histone deacetylase 15 OS	yes	no	0.969	0.231	0.584	3e-36
P53973	706	Histone deacetylase HDA1	yes	no	0.568	0.106	0.461	9e-11
Q9Z2V5	1149	Histone deacetylase 6 OS=	yes	no	0.757	0.087	0.364	2e-10
P56523	687	Histone deacetylase clr3	yes	no	0.522	0.100	0.457	7e-09
Q613L4	892	Histone deacetylase 4 OS=	N/A	no	0.613	0.090	0.395	2e-08
Q6P3E7	666	Histone deacetylase 10 OS	no	no	0.553	0.109	0.356	8e-08
Q9UBN7	1215	Histone deacetylase 6 OS=	yes	no	0.545	0.059	0.388	2e-07
Q20296	955	Histone deacetylase 6 OS=	no	no	0.553	0.076	0.378	4e-07
O17323	869	Histone deacetylase 4 OS=	no	no	0.598	0.090	0.344	9e-07
Q969S8	669	Histone deacetylase 10 OS	no	no	0.575	0.113	0.328	2e-06

>sp|Q8GXJ1|HDA15_ARATH Histone deacetylase 15 OS=Arabidopsis thaliana GN=HDA15 PE=2 SV=2

 Score =  149 bits (377), Expect = 3e-36,   Method: Composition-based stats.
 Identities = 76/130 (58%), Positives = 93/130 (71%), Gaps = 2/130 (1%)

Query: 1   MTHMLNALSGGKLLVILEGGYNLRSISSSATSVIKVLLGENPGCELG-DSAPSKSGLVTV 59
           MT ML  L GGK+LVILEGGYNLRSIS+SAT+VIKVLLGENP  EL   + PS +GL TV
Sbjct: 424 MTQMLGDLCGGKMLVILEGGYNLRSISASATAVIKVLLGENPENELPIATTPSVAGLQTV 483

Query: 60  LEVLKIQMNFWPSLASRFTELQSLWEIYAAENKKKQIKKIRRADAPIWWKWGRKRLLYQI 119
           L+VL IQ+ FWPSLA  +++L S  E    ENKK Q+K+ +    P WWKWGRK+LLY  
Sbjct: 484 LDVLNIQLEFWPSLAISYSKLLSELEARLIENKKNQMKR-KVVRVPTWWKWGRKKLLYNF 542

Query: 120 IKGHLRVRSR 129
           +   +  RS+
Sbjct: 543 LSARMISRSK 552

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|P53973|HDA1_YEAST Histone deacetylase HDA1 OS=Saccharomyces cerevisiae (strain ATCC 204508 / S288c) GN=HDA1 PE=1 SV=1

 Score = 65.5 bits (158), Expect = 9e-11,   Method: Composition-based stats.
 Identities = 36/78 (46%), Positives = 49/78 (62%), Gaps = 3/78 (3%)

Query: 1   MTHMLNALSGGKLLVILEGGYNLRSISSSATSVIKVLLGENPGCELGD--SAPSKSGLVT 58
           MTHML +L+ G L V+LEGGYNL +I+ SA SV KVL+GE P  EL D  S P    +  
Sbjct: 358 MTHMLKSLARGNLCVVLEGGYNLDAIARSALSVAKVLIGEPPD-ELPDPLSDPKPEVIEM 416

Query: 59  VLEVLKIQMNFWPSLASR 76
           + +V+++Q  +W     R
Sbjct: 417 IDKVIRLQSKYWNCFRRR 434

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.

Saccharomyces cerevisiae (strain ATCC 204508 / S288c) (taxid: 559292)

EC: 3

EC: .

EC: 5

EC: .

EC: 1

EC: .

EC: 9

EC: 8

>sp|Q9Z2V5|HDAC6_MOUSE Histone deacetylase 6 OS=Mus musculus GN=Hdac6 PE=1 SV=3

 Score = 64.7 bits (156), Expect = 2e-10,   Method: Composition-based stats.
 Identities = 39/107 (36%), Positives = 64/107 (59%), Gaps = 7/107 (6%)

Query: 1   MTHMLNALSGGKLLVILEGGYNLRSISSSATSVIKVLLGENPGCELGDSAPSKSG-LVTV 59
           +TH+L  L+GG++++ILEGGYNL SIS S  +    LLG+ P  +L    P +SG LV++
Sbjct: 761 LTHLLMGLAGGRIILILEGGYNLASISESMAACTHSLLGDPPP-QLTLLRPPQSGALVSI 819

Query: 60  LEVLKIQMNFWPSLASRFTELQSLWEIYAAENKKKQIKKIRRADAPI 106
            EV+++   +W SL  R  +++   E     + +  IKK+    +P+
Sbjct: 820 SEVIQVHRKYWRSL--RLMKMEDKEE---CSSSRLVIKKLPPTASPV 861

In addition to its protein deacetylase activity, plays a key role in the degradation of misfolded proteins: when misfolded proteins are too abundant to be degraded by the chaperone refolding system and the ubiquitin-proteasome, mediates the transport of misfolded proteins to a cytoplasmic juxtanuclear structure called aggresome. Probably acts as an adapter that recognizes polyubiquitinated misfolded proteins and target them to the aggresome, facilitating their clearance by autophagy.

Mus musculus (taxid: 10090)

EC: 3

EC: .

EC: 5

EC: .

EC: 1

EC: .

EC: 9

EC: 8

>sp|P56523|CLR3_SCHPO Histone deacetylase clr3 OS=Schizosaccharomyces pombe (strain 972 / ATCC 24843) GN=clr3 PE=1 SV=1

 Score = 59.3 bits (142), Expect = 7e-09,   Method: Composition-based stats.
 Identities = 32/70 (45%), Positives = 42/70 (60%), Gaps = 1/70 (1%)

Query: 1   MTHMLNALSGGKLLVILEGGYNLRSISSSATSVIKVLLGENPGCELGDSAPSKSGLVTVL 60
           MT ML  L+ GK+ + LEGGYNL SIS+SA +V + LLG  PG  L  +      + T+ 
Sbjct: 347 MTQMLMGLADGKVFISLEGGYNLDSISTSALAVAQSLLGIPPG-RLHTTYACPQAVATIN 405

Query: 61  EVLKIQMNFW 70
            V KIQ  +W
Sbjct: 406 HVTKIQSQYW 415

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. Required for proper positioning of nucleosomes at heterochromatic loci and for transcriptional gene silencing (TGS) function of the Snf2/Hdac-containing repressor complex (SHREC).

Schizosaccharomyces pombe (strain 972 / ATCC 24843) (taxid: 284812)

EC: 3

EC: .

EC: 5

EC: .

EC: 1

EC: .

EC: 9

EC: 8

>sp|Q613L4|HDA4_CAEBR Histone deacetylase 4 OS=Caenorhabditis briggsae GN=hda-4 PE=3 SV=1

 Score = 57.4 bits (137), Expect = 2e-08,   Method: Composition-based stats.
 Identities = 36/91 (39%), Positives = 54/91 (59%), Gaps = 10/91 (10%)

Query: 1   MTHMLNALSGGKLLVILEGGYNLRSISSSATSVIKVLLGE--NPGCELGDS---APSKSG 55
           MT  L + + GK+++ LEGGYNL SIS++A   ++ L+GE  + G    DS    P++S 
Sbjct: 780 MTKCLLSYANGKVVLALEGGYNLDSISAAAEQCVQALIGESDDAGRLCTDSLENLPNQSA 839

Query: 56  LVTVLEVLKIQMNFWPSL-----ASRFTELQ 81
           L T+ +V+ I   FWP+L     A   TE+Q
Sbjct: 840 LETLQKVIAIHKGFWPALHGQEAAINTTEMQ 870

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.

Caenorhabditis briggsae (taxid: 6238)

EC: 3

EC: .

EC: 5

EC: .

EC: 1

EC: .

EC: 9

EC: 8

>sp|Q6P3E7|HDA10_MOUSE Histone deacetylase 10 OS=Mus musculus GN=Hdac10 PE=2 SV=2

 Score = 55.8 bits (133), Expect = 8e-08,   Method: Composition-based stats.
 Identities = 26/73 (35%), Positives = 43/73 (58%)

Query: 1   MTHMLNALSGGKLLVILEGGYNLRSISSSATSVIKVLLGENPGCELGDSAPSKSGLVTVL 60
           +T +L  L+GG++  +LEGGY+L S++ S   +++ LLG+     LG   P +S L ++ 
Sbjct: 285 LTQLLQVLAGGRICAVLEGGYHLESLAQSVCMMVQTLLGDPTPPLLGLMVPCQSALESIQ 344

Query: 61  EVLKIQMNFWPSL 73
            V   Q  +W SL
Sbjct: 345 SVQTAQTPYWTSL 357

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.

Mus musculus (taxid: 10090)

EC: 3

EC: .

EC: 5

EC: .

EC: 1

EC: .

EC: 9

EC: 8

>sp|Q9UBN7|HDAC6_HUMAN Histone deacetylase 6 OS=Homo sapiens GN=HDAC6 PE=1 SV=2

 Score = 54.3 bits (129), Expect = 2e-07,   Method: Composition-based stats.
 Identities = 33/85 (38%), Positives = 48/85 (56%), Gaps = 13/85 (15%)

Query: 1   MTHMLNALSGGKLLVILEGGYNLRSISSSATSVIKVLLG------ENPGCELGDSAPSKS 54
           +TH+L  L+GGKL++ LEGGYNLR+++   ++ +  LLG      E+PG      AP +S
Sbjct: 366 LTHLLMGLAGGKLILSLEGGYNLRALAEGVSASLHTLLGDPCPMLESPG------APCRS 419

Query: 55  GLVTVLEVLKIQMNFWPSLASRFTE 79
              +V   L+    FW  L  R TE
Sbjct: 420 AQASVSCALEALEPFWEVLV-RSTE 443

In addition to its protein deacetylase activity, plays a key role in the degradation of misfolded proteins: when misfolded proteins are too abundant to be degraded by the chaperone refolding system and the ubiquitin-proteasome, mediates the transport of misfolded proteins to a cytoplasmic juxtanuclear structure called aggresome. Probably acts as an adapter that recognizes polyubiquitinated misfolded proteins and target them to the aggresome, facilitating their clearance by autophagy.

Homo sapiens (taxid: 9606)

EC: 3

EC: .

EC: 5

EC: .

EC: 1

EC: .

EC: 9

EC: 8

>sp|Q20296|HDA6_CAEEL Histone deacetylase 6 OS=Caenorhabditis elegans GN=hda-6 PE=2 SV=2

 Score = 53.1 bits (126), Expect = 4e-07,   Method: Composition-based stats.
 Identities = 31/82 (37%), Positives = 49/82 (59%), Gaps = 9/82 (10%)

Query: 1   MTHMLNALSGGKLLVILEGGYNLRSISSSATSVIKVLLGENPGCELGD------SAPSK- 53
           MT+ L++L+GG+++ +LEGGYNL SIS+SA +V +VL   +    L +      + P K 
Sbjct: 711 MTYQLSSLAGGRIITVLEGGYNLTSISNSAQAVCEVLQNRSMLRRLREEKEQFATKPQKI 770

Query: 54  --SGLVTVLEVLKIQMNFWPSL 73
             S + T+ EV  +Q  +W  L
Sbjct: 771 ESSCIKTIREVCAVQQKYWSIL 792

Probable histone deacetylase. Histone deacetylases are 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.

Caenorhabditis elegans (taxid: 6239)

EC: 3

EC: .

EC: 5

EC: .

EC: 1

EC: .

EC: 9

EC: 8

>sp|O17323|HDA4_CAEEL Histone deacetylase 4 OS=Caenorhabditis elegans GN=hda-4 PE=1 SV=3

 Score = 52.4 bits (124), Expect = 9e-07,   Method: Composition-based stats.
 Identities = 32/93 (34%), Positives = 54/93 (58%), Gaps = 14/93 (15%)

Query: 1   MTHMLNALSGGKLLVILEGGYNLRSISSSATSVIKVLLGENPGCELG-------DSAPSK 53
           MT  L   + GK+++ LEGGY+L+SIS +A   ++ L+GE+   + G       +S P+ 
Sbjct: 760 MTKSLLNYASGKVVLALEGGYDLKSISEAAQQCVQALIGESD--DAGRLSSVALESLPNP 817

Query: 54  SGLVTVLEVLKIQMNFWPSL-----ASRFTELQ 81
           S + T+ +V+ I  ++WP+L     A   TE+Q
Sbjct: 818 SAVETLQKVIAIHKSYWPALHGQEAAINTTEMQ 850

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 (By similarity). May be involved in muscle development.

Caenorhabditis elegans (taxid: 6239)

EC: 3

EC: .

EC: 5

EC: .

EC: 1

EC: .

EC: 9

EC: 8

>sp|Q969S8|HDA10_HUMAN Histone deacetylase 10 OS=Homo sapiens GN=HDAC10 PE=1 SV=1

 Score = 51.2 bits (121), Expect = 2e-06,   Method: Composition-based stats.
 Identities = 25/76 (32%), Positives = 41/76 (53%)

Query: 1   MTHMLNALSGGKLLVILEGGYNLRSISSSATSVIKVLLGENPGCELGDSAPSKSGLVTVL 60
           +T +L  L+GG++  +LEGGY+L S++ S    ++ LLG+      G  AP +S L ++ 
Sbjct: 285 LTQLLQVLAGGRVCAVLEGGYHLESLAESVCMTVQTLLGDPAPPLSGPMAPCQSALESIQ 344

Query: 61  EVLKIQMNFWPSLASR 76
                Q   W SL  +
Sbjct: 345 SARAAQAPHWKSLQQQ 360

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.

Homo sapiens (taxid: 9606)

EC: 3

EC: .

EC: 5

EC: .

EC: 1

EC: .

EC: 9

EC: 8

Close Homologs in the Non-Redundant Database Detected by BLAST

Original result of BLAST against Nonredundant Database

GI	Length	Definition	Q cover	H cover	Identity	E-value
Query	132
449442727	600	PREDICTED: histone deacetylase 15-like [	0.984	0.216	0.669	1e-43
224121378	503	hypothetical protein POPTRDRAFT_421550 [	0.954	0.250	0.710	2e-43
359490935	621	PREDICTED: histone deacetylase 15-like [	0.992	0.210	0.709	5e-42
297734170	697	unnamed protein product [Vitis vinifera]	0.992	0.187	0.709	9e-42
356513908	508	PREDICTED: histone deacetylase 15-like [	0.969	0.251	0.697	9e-40
449476300	176	PREDICTED: histone deacetylase 15-like [	0.962	0.721	0.646	2e-39
297830512	552	hypothetical protein ARALYDRAFT_479356 [	0.969	0.231	0.6	4e-36
356565230	547	PREDICTED: histone deacetylase 15-like [	0.871	0.210	0.706	5e-36
18401915	552	histone deacetylase 15 [Arabidopsis thal	0.969	0.231	0.584	3e-34
26451468	552	putative histone deacetylase [Arabidopsi	0.969	0.231	0.584	3e-34

>gi|449442727|ref|XP_004139132.1| PREDICTED: histone deacetylase 15-like [Cucumis sativus]

 Score =  181 bits (458), Expect = 1e-43,   Method: Composition-based stats.
 Identities = 89/133 (66%), Positives = 107/133 (80%), Gaps = 3/133 (2%)

Query: 1   MTHMLNALSGGKLLVILEGGYNLRSISSSATSVIKVLLGENPGCELGDSAPSKSGLVTVL 60
           MTH+LN +SGGKLLVILEGGYNLRSISSSAT+VIKVLLGE+P C+L D  PS +G+ TVL
Sbjct: 467 MTHLLNTVSGGKLLVILEGGYNLRSISSSATAVIKVLLGESPECDLDDHLPSSAGMKTVL 526

Query: 61  EVLKIQMNFWPSLASRFTELQSLWEIYAAE--NKKKQIKKIRRA-DAPIWWKWGRKRLLY 117
           +VL IQ NFWP L S F++LQS+ EI+A E   K K  K+ RRA  API W+WGRKRLLY
Sbjct: 527 DVLAIQKNFWPVLESSFSKLQSMLEIFATERRGKVKPCKQRRRAVVAPICWRWGRKRLLY 586

Query: 118 QIIKGHLRVRSRG 130
            ++KG +RVRS+G
Sbjct: 587 HLLKGQIRVRSKG 599

Source: Cucumis sativus

Species: Cucumis sativus

Genus: Cucumis

Family: Cucurbitaceae

Order: Cucurbitales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|224121378|ref|XP_002318567.1| hypothetical protein POPTRDRAFT_421550 [Populus trichocarpa] gi|222859240|gb|EEE96787.1| hypothetical protein POPTRDRAFT_421550 [Populus trichocarpa]

 Score =  180 bits (456), Expect = 2e-43,   Method: Compositional matrix adjust.
 Identities = 91/128 (71%), Positives = 103/128 (80%), Gaps = 2/128 (1%)

Query: 1   MTHMLNALSGGKLLVILEGGYNLRSISSSATSVIKVLLGENPGCELGDSAPSKSGLVTVL 60
           MT ML  L+GGKLLVILEGGYNLRSISSSATSVIKVLLGE PG ELG+ APS++GL TVL
Sbjct: 378 MTDMLYTLTGGKLLVILEGGYNLRSISSSATSVIKVLLGEGPGSELGNIAPSRAGLQTVL 437

Query: 61  EVLKIQMNFWPSLASRFTELQSLWEIYAAENKKKQIKKIRRADAPIWWKWGRKRLLYQII 120
           EV+KIQMNFWPSL S + +LQS W  Y   N +KQIKK +R + PIWWKWGRKRLLY I+
Sbjct: 438 EVMKIQMNFWPSLGSSYAKLQSQWGAYC--NTRKQIKKRQRTEPPIWWKWGRKRLLYHIL 495

Query: 121 KGHLRVRS 128
              L V+S
Sbjct: 496 VRRLHVKS 503

Source: Populus trichocarpa

Species: Populus trichocarpa

Genus: Populus

Family: Salicaceae

Order: Malpighiales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|359490935|ref|XP_002274270.2| PREDICTED: histone deacetylase 15-like [Vitis vinifera]

 Score =  175 bits (444), Expect = 5e-42,   Method: Composition-based stats.
 Identities = 93/131 (70%), Positives = 104/131 (79%)

Query: 1   MTHMLNALSGGKLLVILEGGYNLRSISSSATSVIKVLLGENPGCELGDSAPSKSGLVTVL 60
           MT MLN LSGGKLLVILEGGYNLRSISSSAT+VIKVLLGE PGCEL +  PSKSGL TVL
Sbjct: 491 MTDMLNVLSGGKLLVILEGGYNLRSISSSATAVIKVLLGETPGCELDNCLPSKSGLRTVL 550

Query: 61  EVLKIQMNFWPSLASRFTELQSLWEIYAAENKKKQIKKIRRADAPIWWKWGRKRLLYQII 120
           EVLKIQMNFW +LAS  T+L+S W     EN+KK  KK RRA AP  WKWGRK LLY ++
Sbjct: 551 EVLKIQMNFWSTLASTLTKLESEWGSCLVENRKKHTKKRRRAVAPKPWKWGRKTLLYHLL 610

Query: 121 KGHLRVRSRGV 131
            GHLR +S+ +
Sbjct: 611 SGHLRYKSKRI 621

Source: Vitis vinifera

Species: Vitis vinifera

Genus: Vitis

Family: Vitaceae

Order: Vitales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|297734170|emb|CBI15417.3| unnamed protein product [Vitis vinifera]

 Score =  174 bits (442), Expect = 9e-42,   Method: Composition-based stats.
 Identities = 93/131 (70%), Positives = 104/131 (79%)

Query: 1   MTHMLNALSGGKLLVILEGGYNLRSISSSATSVIKVLLGENPGCELGDSAPSKSGLVTVL 60
           MT MLN LSGGKLLVILEGGYNLRSISSSAT+VIKVLLGE PGCEL +  PSKSGL TVL
Sbjct: 567 MTDMLNVLSGGKLLVILEGGYNLRSISSSATAVIKVLLGETPGCELDNCLPSKSGLRTVL 626

Query: 61  EVLKIQMNFWPSLASRFTELQSLWEIYAAENKKKQIKKIRRADAPIWWKWGRKRLLYQII 120
           EVLKIQMNFW +LAS  T+L+S W     EN+KK  KK RRA AP  WKWGRK LLY ++
Sbjct: 627 EVLKIQMNFWSTLASTLTKLESEWGSCLVENRKKHTKKRRRAVAPKPWKWGRKTLLYHLL 686

Query: 121 KGHLRVRSRGV 131
            GHLR +S+ +
Sbjct: 687 SGHLRYKSKRI 697

Source: Vitis vinifera

Species: Vitis vinifera

Genus: Vitis

Family: Vitaceae

Order: Vitales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|356513908|ref|XP_003525650.1| PREDICTED: histone deacetylase 15-like [Glycine max]

 Score =  168 bits (425), Expect = 9e-40,   Method: Composition-based stats.
 Identities = 90/129 (69%), Positives = 105/129 (81%), Gaps = 1/129 (0%)

Query: 1   MTHMLNALSGGKLLVILEGGYNLRSISSSATSVIKVLLGENPGCELGDSAPSKSGLVTVL 60
           MT+MLNALSGGKLLVILEGGYNLRSISSSAT+VIKVLLGE+PGCEL +S PSK+GL TVL
Sbjct: 379 MTNMLNALSGGKLLVILEGGYNLRSISSSATAVIKVLLGESPGCELENSFPSKAGLQTVL 438

Query: 61  EVLKIQMNFWPSLASRFTELQSLWEIYAAENKKKQIKKIRRADAPIWWKWGRKRLLYQII 120
           EVLKIQMNFWP+L   F  L+S W +Y  E K+KQIKK RR   P+ W+WGRK LL+  +
Sbjct: 439 EVLKIQMNFWPALGPIFVNLESQWRMYCFERKRKQIKKRRRVLVPM-WRWGRKSLLFHFL 497

Query: 121 KGHLRVRSR 129
            GH  V+S+
Sbjct: 498 NGHHNVKSK 506

Source: Glycine max

Species: Glycine max

Genus: Glycine

Family: Fabaceae

Order: Fabales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|449476300|ref|XP_004154699.1| PREDICTED: histone deacetylase 15-like [Cucumis sativus]

 Score =  166 bits (421), Expect = 2e-39,   Method: Compositional matrix adjust.
 Identities = 84/130 (64%), Positives = 102/130 (78%), Gaps = 3/130 (2%)

Query: 1   MTHMLNALSGGKLLVILEGGYNLRSISSSATSVIKVLLGENPGCELGDSAPSKSGLVTVL 60
           MT +LN +SGGKLLVILEGGYNLRSISSSAT+VIKVLLGE+P C+L D  PS +G+ TVL
Sbjct: 45  MTQLLNTVSGGKLLVILEGGYNLRSISSSATAVIKVLLGESPECDLDDHLPSSAGMKTVL 104

Query: 61  EVLKIQMNFWPSLASRFTELQSLWEIYAAE--NKKKQIKKIRRA-DAPIWWKWGRKRLLY 117
           +VL IQ NFWP L S F++LQS+ EI+A E   K K  K+ RRA  API W+WGRKRLLY
Sbjct: 105 DVLAIQKNFWPVLESSFSKLQSMLEIFATERRGKVKPCKQRRRAVVAPICWRWGRKRLLY 164

Query: 118 QIIKGHLRVR 127
            ++KG +R +
Sbjct: 165 HLLKGQIRCQ 174

Source: Cucumis sativus

Species: Cucumis sativus

Genus: Cucumis

Family: Cucurbitaceae

Order: Cucurbitales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|297830512|ref|XP_002883138.1| hypothetical protein ARALYDRAFT_479356 [Arabidopsis lyrata subsp. lyrata] gi|297328978|gb|EFH59397.1| hypothetical protein ARALYDRAFT_479356 [Arabidopsis lyrata subsp. lyrata]

 Score =  155 bits (393), Expect = 4e-36,   Method: Composition-based stats.
 Identities = 78/130 (60%), Positives = 95/130 (73%), Gaps = 2/130 (1%)

Query: 1   MTHMLNALSGGKLLVILEGGYNLRSISSSATSVIKVLLGENPGCELGDSA-PSKSGLVTV 59
           MT ML  L GGK+LVILEGGYNLRSISSSAT+VIKVLLGE P   L  +A PS+ GL TV
Sbjct: 424 MTQMLGDLCGGKMLVILEGGYNLRSISSSATAVIKVLLGEIPENNLPIAATPSREGLQTV 483

Query: 60  LEVLKIQMNFWPSLASRFTELQSLWEIYAAENKKKQIKKIRRADAPIWWKWGRKRLLYQI 119
           L+V+ IQM FWPSLA  +++L S WE    ENKK Q+K+ +    P WWKWGRK+LLY+ 
Sbjct: 484 LDVMNIQMKFWPSLAISYSKLLSEWEARLIENKKNQMKR-KLVRVPTWWKWGRKKLLYKF 542

Query: 120 IKGHLRVRSR 129
           + G +  RS+
Sbjct: 543 LSGRMISRSK 552

Source: Arabidopsis lyrata subsp. lyrata

Species: Arabidopsis lyrata

Genus: Arabidopsis

Family: Brassicaceae

Order: Brassicales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|356565230|ref|XP_003550845.1| PREDICTED: histone deacetylase 15-like [Glycine max]

 Score =  155 bits (392), Expect = 5e-36,   Method: Composition-based stats.
 Identities = 82/116 (70%), Positives = 94/116 (81%), Gaps = 1/116 (0%)

Query: 1   MTHMLNALSGGKLLVILEGGYNLRSISSSATSVIKVLLGENPGCELGDSAPSKSGLVTVL 60
           MTHMLNALSGGKLLVILEGGYNLRSISSSAT+VIKVLLGE+PGCEL +S PSK+GL TVL
Sbjct: 426 MTHMLNALSGGKLLVILEGGYNLRSISSSATAVIKVLLGESPGCELENSFPSKAGLQTVL 485

Query: 61  EVLKIQMNFWPSLASRFTELQSLWEIYAAENKKKQIKKIRRADAPIWWKWGRKRLL 116
           EVLKIQMNFWP+L   F  L+S W +Y    K+K IKK  R   P+ W+WGRK ++
Sbjct: 486 EVLKIQMNFWPALGPIFVTLESQWRVYCFGKKRKHIKKRHRILVPM-WRWGRKFII 540

Source: Glycine max

Species: Glycine max

Genus: Glycine

Family: Fabaceae

Order: Fabales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|18401915|ref|NP_566612.1| histone deacetylase 15 [Arabidopsis thaliana] gi|357528804|sp|Q8GXJ1.2|HDA15_ARATH RecName: Full=Histone deacetylase 15 gi|332642589|gb|AEE76110.1| histone deacetylase 15 [Arabidopsis thaliana]

 Score =  149 bits (377), Expect = 3e-34,   Method: Composition-based stats.
 Identities = 76/130 (58%), Positives = 93/130 (71%), Gaps = 2/130 (1%)

Query: 1   MTHMLNALSGGKLLVILEGGYNLRSISSSATSVIKVLLGENPGCELG-DSAPSKSGLVTV 59
           MT ML  L GGK+LVILEGGYNLRSIS+SAT+VIKVLLGENP  EL   + PS +GL TV
Sbjct: 424 MTQMLGDLCGGKMLVILEGGYNLRSISASATAVIKVLLGENPENELPIATTPSVAGLQTV 483

Query: 60  LEVLKIQMNFWPSLASRFTELQSLWEIYAAENKKKQIKKIRRADAPIWWKWGRKRLLYQI 119
           L+VL IQ+ FWPSLA  +++L S  E    ENKK Q+K+ +    P WWKWGRK+LLY  
Sbjct: 484 LDVLNIQLEFWPSLAISYSKLLSELEARLIENKKNQMKR-KVVRVPTWWKWGRKKLLYNF 542

Query: 120 IKGHLRVRSR 129
           +   +  RS+
Sbjct: 543 LSARMISRSK 552

Source: Arabidopsis thaliana

Species: Arabidopsis thaliana

Genus: Arabidopsis

Family: Brassicaceae

Order: Brassicales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|26451468|dbj|BAC42833.1| putative histone deacetylase [Arabidopsis thaliana]

 Score =  149 bits (377), Expect = 3e-34,   Method: Composition-based stats.
 Identities = 76/130 (58%), Positives = 93/130 (71%), Gaps = 2/130 (1%)

Query: 1   MTHMLNALSGGKLLVILEGGYNLRSISSSATSVIKVLLGENPGCELG-DSAPSKSGLVTV 59
           MT ML  L GGK+LVILEGGYNLRSIS+SAT+VIKVLLGENP  EL   + PS +GL TV
Sbjct: 424 MTQMLGDLCGGKMLVILEGGYNLRSISASATAVIKVLLGENPENELPIATTPSVAGLQTV 483

Query: 60  LEVLKIQMNFWPSLASRFTELQSLWEIYAAENKKKQIKKIRRADAPIWWKWGRKRLLYQI 119
           L+VL IQ+ FWPSLA  +++L S  E    ENKK Q+K+ +    P WWKWGRK+LLY  
Sbjct: 484 LDVLNIQLEFWPSLAISYSKLLSELEARLIENKKNQMKR-KVVRVPTWWKWGRKKLLYNF 542

Query: 120 IKGHLRVRSR 129
           +   +  RS+
Sbjct: 543 LSARMISRSK 552

Source: Arabidopsis thaliana

Species: Arabidopsis thaliana

Genus: Arabidopsis

Family: Brassicaceae

Order: Brassicales

Phylum: Streptophyta

Superkingdom: Eukaryota

---

Prediction of Gene Ontology (GO) Terms

Close Homologs with Gene Ontology terms Detected by BLAST

Original result of BLAST against Gene Ontology (AMIGO)

ID	Length	Definition	Q cover	H cover	Identity	E-value
Query	132
TAIR|locus:2095087	564	HDA15 "AT3G18520" [Arabidopsis	0.924	0.216	0.520	5e-23
ASPGD|ASPL0000014944	766	hdaA [Emericella nidulans (tax	0.628	0.108	0.428	4.3e-12
CGD|CAL0003359	833	HDA1 [Candida albicans (taxid:	0.772	0.122	0.425	4.4e-11
UNIPROTKB|Q5A960	833	HDA1 "Likely class II histone	0.772	0.122	0.425	4.4e-11
UNIPROTKB|F1LSE3	1155	Hdac6 "Protein Hdac6" [Rattus	0.757	0.086	0.355	1.4e-10
SGD|S000004966	706	HDA1 "Putative catalytic subun	0.522	0.097	0.486	2.5e-10
MGI|MGI:1333752	1149	Hdac6 "histone deacetylase 6"	0.757	0.087	0.364	2.9e-10
ZFIN|ZDB-GENE-030131-3232	1081	hdac6 "histone deacetylase 6"	0.590	0.072	0.425	5.2e-09
UNIPROTKB|F1PN11	1157	HDAC6 "Uncharacterized protein	0.545	0.062	0.418	1.9e-08
POMBASE|SPBC800.03	687	clr3 "histone deacetylase (cla	0.522	0.100	0.457	2.1e-08

TAIR|locus:2095087 HDA15 "AT3G18520" [Arabidopsis thaliana (taxid:3702)]

 Score = 273 (101.2 bits), Expect = 5.0e-23, P = 5.0e-23
 Identities = 64/123 (52%), Positives = 79/123 (64%)

Query:     1 MTHMLNALSGGKLLVILEGGYNLRSISSSATSVIKVLLGENPGCELG-DSAPSKSGLVTV 59
             MT ML  L GGK+LVILEGGYNLRSIS+SAT+VIKVLLGENP  EL   + PS +GL TV
Sbjct:   424 MTQMLGDLCGGKMLVILEGGYNLRSISASATAVIKVLLGENPENELPIATTPSVAGLQTV 483

Query:    60 LEVLKIQMNFWPSLASRFTELQSLWEIYAAENKKKQIKKIRRADAPIWWKWGRKRLLYQI 119
             L+VL IQ+ FWPSLA  +++L S  E    ENK ++  +          + G K    Q+
Sbjct:   484 LDVLNIQLEFWPSLAISYSKLLSELEARLIENKSEKSDEKEGCSGSDMVEMGTKEAFVQL 543

Query:   120 IKG 122
               G
Sbjct:   544 SLG 546

GO:0004407 "histone deacetylase activity" evidence=ISS

GO:0005622 "intracellular" evidence=IEA

GO:0005634 "nucleus" evidence=ISM

GO:0008270 "zinc ion binding" evidence=IEA

GO:0016575 "histone deacetylation" evidence=ISS

GO:0009294 "DNA mediated transformation" evidence=IMP

GO:0048573 "photoperiodism, flowering" evidence=RCA

ASPGD|ASPL0000014944 hdaA [Emericella nidulans (taxid:162425)]

 Score = 174 (66.3 bits), Expect = 4.3e-12, P = 4.3e-12
 Identities = 36/84 (42%), Positives = 52/84 (61%)

Query:     1 MTHMLNALSGGKLLVILEGGYNLRSISSSATSVIKVLLGENPGCELGDSAPSKSGLVTVL 60
             MTHML  L+ GK+ V LEGGYN RSIS SA +V K L+G NP   L  + PS++ + T+ 
Sbjct:   420 MTHMLMTLAQGKVAVCLEGGYNFRSISKSALAVTKTLMG-NPPDRLSFTCPSEAAISTIR 478

Query:    61 EVLKIQMNFWPSLASRFTELQSLW 84
              V  IQ ++W  +  +  + + +W
Sbjct:   479 RVSSIQSDYWKCMYPKAIKNEGVW 502

GO:0004407 "histone deacetylase activity" evidence=IMP;IDA

GO:0016575 "histone deacetylation" evidence=IMP;IDA

GO:0006348 "chromatin silencing at telomere" evidence=IMP

GO:0034599 "cellular response to oxidative stress" evidence=IMP

GO:1900376 "regulation of secondary metabolite biosynthetic process" evidence=IMP

GO:1900197 "negative regulation of penicillin biosynthetic process" evidence=IMP

GO:0042316 "penicillin metabolic process" evidence=IMP

GO:0045460 "sterigmatocystin metabolic process" evidence=IMP

GO:0010913 "regulation of sterigmatocystin biosynthetic process" evidence=IMP

GO:0033553 "rDNA heterochromatin" evidence=IEA

GO:0031934 "mating-type region heterochromatin" evidence=IEA

GO:0031933 "telomeric heterochromatin" evidence=IEA

GO:0030874 "nucleolar chromatin" evidence=IEA

GO:0016581 "NuRD complex" evidence=IEA

GO:0005721 "centromeric heterochromatin" evidence=IEA

GO:0031078 "histone deacetylase activity (H3-K14 specific)" evidence=IEA

GO:0030466 "chromatin silencing at silent mating-type cassette" evidence=IEA

GO:0071585 "detoxification of cadmium ion" evidence=IEA

GO:0016584 "nucleosome positioning" evidence=IEA

GO:0030702 "chromatin silencing at centromere" evidence=IEA

GO:0000122 "negative regulation of transcription from RNA polymerase II promoter" evidence=IEA

GO:0031060 "regulation of histone methylation" evidence=IEA

GO:0000183 "chromatin silencing at rDNA" evidence=IEA

GO:0071276 "cellular response to cadmium ion" evidence=IEA

CGD|CAL0003359 HDA1 [Candida albicans (taxid:5476)]

 Score = 165 (63.1 bits), Expect = 4.4e-11, P = 4.4e-11
 Identities = 46/108 (42%), Positives = 62/108 (57%)

Query:     1 MTHMLNALSGGKLLVILEGGYNLRSISSSATSVIKVLLGENPGCELGDSAPSKSGLVTVL 60
             MTH L  ++ GKL VILEGGYNL SIS SA +V KVL+GE P   +    P    +  V 
Sbjct:   419 MTHTLKGIARGKLAVILEGGYNLDSISKSALAVAKVLVGEPPENTI-TLRPQAEAIEVVD 477

Query:    61 EVLKIQMNFWPSLASRFTELQSLWE-IY-AAENKKKQIKKIRRADAPI 106
             EV+KIQ  ++ SL +       ++E +Y  A+ +K   K +  AD PI
Sbjct:   478 EVIKIQSKYFKSLRNGIPN--GIFEDVYDLADVEKSNYKLVNIAD-PI 522

GO:0004407 "histone deacetylase activity" evidence=IEA;ISS

GO:0006357 "regulation of transcription from RNA polymerase II promoter" evidence=IMP

GO:0036166 "phenotypic switching" evidence=IMP

GO:0033553 "rDNA heterochromatin" evidence=IEA

GO:0031934 "mating-type region heterochromatin" evidence=IEA

GO:0031933 "telomeric heterochromatin" evidence=IEA

GO:0030874 "nucleolar chromatin" evidence=IEA

GO:0070823 "HDA1 complex" evidence=IEA

GO:0016581 "NuRD complex" evidence=IEA

GO:0005721 "centromeric heterochromatin" evidence=IEA

GO:0030447 "filamentous growth" evidence=IMP

GO:0009267 "cellular response to starvation" evidence=IMP

GO:0036170 "filamentous growth of a population of unicellular organisms in response to starvation" evidence=IMP

GO:1900436 "positive regulation of filamentous growth of a population of unicellular organisms in response to starvation" evidence=IMP

GO:0036177 "filamentous growth of a population of unicellular organisms in response to pH" evidence=IMP

GO:1900743 "positive regulation of filamentous growth of a population of unicellular organisms in response to pH" evidence=IMP

GO:0071469 "cellular response to alkalinity" evidence=IMP

GO:0036180 "filamentous growth of a population of unicellular organisms in response to biotic stimulus" evidence=IMP

GO:1900445 "positive regulation of filamentous growth of a population of unicellular organisms in response to biotic stimulus" evidence=IMP

GO:0071216 "cellular response to biotic stimulus" evidence=IMP

GO:0030466 "chromatin silencing at silent mating-type cassette" evidence=IEA

GO:0034401 "regulation of transcription by chromatin organization" evidence=IEA

GO:0031047 "gene silencing by RNA" evidence=IEA

GO:0010978 "gene silencing involved in chronological cell aging" evidence=IEA

GO:0006348 "chromatin silencing at telomere" evidence=IEA

GO:0030702 "chromatin silencing at centromere" evidence=IEA

GO:0016584 "nucleosome positioning" evidence=IEA

GO:0000122 "negative regulation of transcription from RNA polymerase II promoter" evidence=IEA

GO:0010621 "negative regulation of transcription by transcription factor localization" evidence=IEA

GO:0031938 "regulation of chromatin silencing at telomere" evidence=IEA

GO:0031060 "regulation of histone methylation" evidence=IEA

GO:0045944 "positive regulation of transcription from RNA polymerase II promoter" evidence=IEA

GO:0000183 "chromatin silencing at rDNA" evidence=IEA

GO:0001308 "negative regulation of chromatin silencing involved in replicative cell aging" evidence=IEA

GO:0016575 "histone deacetylation" evidence=IEA

GO:1900239 "regulation of phenotypic switching" evidence=IMP

GO:0031078 "histone deacetylase activity (H3-K14 specific)" evidence=IEA

GO:0003682 "chromatin binding" evidence=IEA

UNIPROTKB|Q5A960 HDA1 "Likely class II histone deacetylase subunit Hda1p" [Candida albicans SC5314 (taxid:237561)]

 Score = 165 (63.1 bits), Expect = 4.4e-11, P = 4.4e-11
 Identities = 46/108 (42%), Positives = 62/108 (57%)

Query:     1 MTHMLNALSGGKLLVILEGGYNLRSISSSATSVIKVLLGENPGCELGDSAPSKSGLVTVL 60
             MTH L  ++ GKL VILEGGYNL SIS SA +V KVL+GE P   +    P    +  V 
Sbjct:   419 MTHTLKGIARGKLAVILEGGYNLDSISKSALAVAKVLVGEPPENTI-TLRPQAEAIEVVD 477

Query:    61 EVLKIQMNFWPSLASRFTELQSLWE-IY-AAENKKKQIKKIRRADAPI 106
             EV+KIQ  ++ SL +       ++E +Y  A+ +K   K +  AD PI
Sbjct:   478 EVIKIQSKYFKSLRNGIPN--GIFEDVYDLADVEKSNYKLVNIAD-PI 522

GO:0004407 "histone deacetylase activity" evidence=ISS

GO:0006357 "regulation of transcription from RNA polymerase II promoter" evidence=IMP

GO:0009267 "cellular response to starvation" evidence=IMP

GO:0016575 "histone deacetylation" evidence=ISS

GO:0030447 "filamentous growth" evidence=IMP

GO:0036166 "phenotypic switching" evidence=IMP

GO:0036170 "filamentous growth of a population of unicellular organisms in response to starvation" evidence=IMP

GO:0036177 "filamentous growth of a population of unicellular organisms in response to pH" evidence=IMP

GO:0036180 "filamentous growth of a population of unicellular organisms in response to biotic stimulus" evidence=IMP

GO:0071216 "cellular response to biotic stimulus" evidence=IMP

GO:0071469 "cellular response to alkalinity" evidence=IMP

GO:1900239 "regulation of phenotypic switching" evidence=IMP

GO:1900436 "positive regulation of filamentous growth of a population of unicellular organisms in response to starvation" evidence=IMP

GO:1900445 "positive regulation of filamentous growth of a population of unicellular organisms in response to biotic stimulus" evidence=IMP

GO:1900743 "positive regulation of filamentous growth of a population of unicellular organisms in response to pH" evidence=IMP

UNIPROTKB|F1LSE3 Hdac6 "Protein Hdac6" [Rattus norvegicus (taxid:10116)]

 Score = 162 (62.1 bits), Expect = 1.4e-10, P = 1.4e-10
 Identities = 38/107 (35%), Positives = 65/107 (60%)

Query:     1 MTHMLNALSGGKLLVILEGGYNLRSISSSATSVIKVLLGENPGCELGDSAPSKSG-LVTV 59
             +TH+L  L+GG++++ILEGGYNL SIS S  +    LLG+ P  +L    P +SG L ++
Sbjct:   764 LTHLLMGLAGGRIILILEGGYNLTSISESMAACTHSLLGDPPP-QLTSLRPPQSGALASI 822

Query:    60 LEVLKIQMNFWPSLASRFTELQSLWEIYAAENKKKQIKKIRRADAPI 106
              EV+++   +W SL  R  +++   E     + +  IKK+ ++ +P+
Sbjct:   823 SEVIQVHRKYWRSL--RLMKMEDKEE---RSSSRLVIKKLPQSASPV 864

GO:0008270 "zinc ion binding" evidence=IEA

GO:0016787 "hydrolase activity" evidence=IEA

SGD|S000004966 HDA1 "Putative catalytic subunit of the HDA1 histone deacetylase complex" [Saccharomyces cerevisiae (taxid:4932)]

 Score = 157 (60.3 bits), Expect = 2.5e-10, P = 2.5e-10
 Identities = 35/72 (48%), Positives = 48/72 (66%)

Query:     1 MTHMLNALSGGKLLVILEGGYNLRSISSSATSVIKVLLGENPGCELGD--SAPSKSGLVT 58
             MTHML +L+ G L V+LEGGYNL +I+ SA SV KVL+GE P  EL D  S P    +  
Sbjct:   358 MTHMLKSLARGNLCVVLEGGYNLDAIARSALSVAKVLIGEPPD-ELPDPLSDPKPEVIEM 416

Query:    59 VLEVLKIQMNFW 70
             + +V+++Q  +W
Sbjct:   417 IDKVIRLQSKYW 428

GO:0046970 "NAD-dependent histone deacetylase activity (H4-K16 specific)" evidence=IEA

GO:0031047 "gene silencing by RNA" evidence=IMP

GO:0001308 "negative regulation of chromatin silencing involved in replicative cell aging" evidence=IGI;IMP

GO:0006355 "regulation of transcription, DNA-dependent" evidence=IEA

GO:0016568 "chromatin modification" evidence=IEA

GO:0070932 "histone H3 deacetylation" evidence=IEA

GO:0070933 "histone H4 deacetylation" evidence=IEA

GO:0097372 "NAD-dependent histone deacetylase activity (H3-K18 specific)" evidence=IEA

GO:0000122 "negative regulation of transcription from RNA polymerase II promoter" evidence=IMP

GO:0031938 "regulation of chromatin silencing at telomere" evidence=IMP

GO:0016575 "histone deacetylation" evidence=IMP;IDA

GO:0034401 "regulation of transcription by chromatin organization" evidence=IMP

GO:0010621 "negative regulation of transcription by transcription factor localization" evidence=IGI

GO:0045944 "positive regulation of transcription from RNA polymerase II promoter" evidence=IMP

GO:0010978 "gene silencing involved in chronological cell aging" evidence=IGI;IMP

GO:0070823 "HDA1 complex" evidence=IDA;IPI

GO:0003682 "chromatin binding" evidence=IDA

GO:0004407 "histone deacetylase activity" evidence=IDA

GO:0005634 "nucleus" evidence=IEA

GO:0006351 "transcription, DNA-dependent" evidence=IEA

GO:0016787 "hydrolase activity" evidence=IEA

GO:0031078 "histone deacetylase activity (H3-K14 specific)" evidence=IEA

GO:0032041 "NAD-dependent histone deacetylase activity (H3-K14 specific)" evidence=IEA

GO:0032129 "histone deacetylase activity (H3-K9 specific)" evidence=IEA

GO:0034739 "histone deacetylase activity (H4-K16 specific)" evidence=IEA

GO:0046969 "NAD-dependent histone deacetylase activity (H3-K9 specific)" evidence=IEA

MGI|MGI:1333752 Hdac6 "histone deacetylase 6" [Mus musculus (taxid:10090)]

 Score = 159 (61.0 bits), Expect = 2.9e-10, P = 2.9e-10
 Identities = 39/107 (36%), Positives = 64/107 (59%)

Query:     1 MTHMLNALSGGKLLVILEGGYNLRSISSSATSVIKVLLGENPGCELGDSAPSKSG-LVTV 59
             +TH+L  L+GG++++ILEGGYNL SIS S  +    LLG+ P  +L    P +SG LV++
Sbjct:   761 LTHLLMGLAGGRIILILEGGYNLASISESMAACTHSLLGDPPP-QLTLLRPPQSGALVSI 819

Query:    60 LEVLKIQMNFWPSLASRFTELQSLWEIYAAENKKKQIKKIRRADAPI 106
              EV+++   +W SL  R  +++   E     + +  IKK+    +P+
Sbjct:   820 SEVIQVHRKYWRSL--RLMKMEDKEE---CSSSRLVIKKLPPTASPV 861

GO:0000118 "histone deacetylase complex" evidence=ISO

GO:0000209 "protein polyubiquitination" evidence=IDA

GO:0003779 "actin binding" evidence=IEA

GO:0004407 "histone deacetylase activity" evidence=ISO;IDA

GO:0005515 "protein binding" evidence=IPI

GO:0005634 "nucleus" evidence=IDA;TAS

GO:0005737 "cytoplasm" evidence=IDA

GO:0005829 "cytosol" evidence=IDA

GO:0005874 "microtubule" evidence=ISO

GO:0005875 "microtubule associated complex" evidence=ISO

GO:0005881 "cytoplasmic microtubule" evidence=IDA

GO:0005901 "caveola" evidence=ISO

GO:0006351 "transcription, DNA-dependent" evidence=IEA

GO:0006355 "regulation of transcription, DNA-dependent" evidence=IEA

GO:0006476 "protein deacetylation" evidence=ISO;IDA

GO:0006511 "ubiquitin-dependent protein catabolic process" evidence=IGI;IMP

GO:0006515 "misfolded or incompletely synthesized protein catabolic process" evidence=ISO

GO:0006886 "intracellular protein transport" evidence=ISO

GO:0007026 "negative regulation of microtubule depolymerization" evidence=IDA

GO:0008013 "beta-catenin binding" evidence=ISO

GO:0008017 "microtubule binding" evidence=ISO;IDA

GO:0008270 "zinc ion binding" evidence=IEA

GO:0009636 "response to toxic substance" evidence=ISO

GO:0009967 "positive regulation of signal transduction" evidence=ISO

GO:0010033 "response to organic substance" evidence=ISO

GO:0010469 "regulation of receptor activity" evidence=ISO

GO:0010634 "positive regulation of epithelial cell migration" evidence=ISO

GO:0010870 "positive regulation of receptor biosynthetic process" evidence=ISO

GO:0016234 "inclusion body" evidence=ISO

GO:0016235 "aggresome" evidence=ISO

GO:0016236 "macroautophagy" evidence=ISO

GO:0016568 "chromatin modification" evidence=IEA

GO:0016575 "histone deacetylation" evidence=ISO

GO:0016787 "hydrolase activity" evidence=IEA

GO:0031078 "histone deacetylase activity (H3-K14 specific)" evidence=IEA

GO:0031252 "cell leading edge" evidence=ISO

GO:0031593 "polyubiquitin binding" evidence=ISO

GO:0032041 "NAD-dependent histone deacetylase activity (H3-K14 specific)" evidence=IEA

GO:0032129 "histone deacetylase activity (H3-K9 specific)" evidence=IEA

GO:0032418 "lysosome localization" evidence=ISO

GO:0034739 "histone deacetylase activity (H4-K16 specific)" evidence=IEA

GO:0034983 "peptidyl-lysine deacetylation" evidence=ISO

GO:0035967 "cellular response to topologically incorrect protein" evidence=ISO

GO:0042826 "histone deacetylase binding" evidence=ISO

GO:0042903 "tubulin deacetylase activity" evidence=ISO;IDA

GO:0043014 "alpha-tubulin binding" evidence=ISO

GO:0043065 "positive regulation of apoptotic process" evidence=ISO

GO:0043130 "ubiquitin binding" evidence=IDA

GO:0043162 "ubiquitin-dependent protein catabolic process via the multivesicular body sorting pathway" evidence=IMP

GO:0043234 "protein complex" evidence=IPI

GO:0043241 "protein complex disassembly" evidence=IGI

GO:0043242 "negative regulation of protein complex disassembly" evidence=ISO

GO:0045861 "negative regulation of proteolysis" evidence=ISO

GO:0046872 "metal ion binding" evidence=IEA

GO:0046969 "NAD-dependent histone deacetylase activity (H3-K9 specific)" evidence=IEA

GO:0046970 "NAD-dependent histone deacetylase activity (H4-K16 specific)" evidence=IEA

GO:0048156 "tau protein binding" evidence=ISO

GO:0048471 "perinuclear region of cytoplasm" evidence=ISO

GO:0048487 "beta-tubulin binding" evidence=IDA

GO:0051788 "response to misfolded protein" evidence=ISO

GO:0051879 "Hsp90 protein binding" evidence=ISO

GO:0070201 "regulation of establishment of protein localization" evidence=IMP

GO:0070301 "cellular response to hydrogen peroxide" evidence=ISO

GO:0070840 "dynein complex binding" evidence=ISO

GO:0070842 "aggresome assembly" evidence=ISO;IGI

GO:0070845 "polyubiquitinated misfolded protein transport" evidence=ISO

GO:0070846 "Hsp90 deacetylation" evidence=ISO;IMP

GO:0070848 "response to growth factor stimulus" evidence=ISO

GO:0070932 "histone H3 deacetylation" evidence=IEA

GO:0070933 "histone H4 deacetylation" evidence=IEA

GO:0071218 "cellular response to misfolded protein" evidence=IMP

GO:0090035 "positive regulation of chaperone-mediated protein complex assembly" evidence=ISO

GO:0090042 "tubulin deacetylation" evidence=ISO;IDA;IMP

ZFIN|ZDB-GENE-030131-3232 hdac6 "histone deacetylase 6" [Danio rerio (taxid:7955)]

 Score = 147 (56.8 bits), Expect = 5.2e-09, P = 5.2e-09
 Identities = 34/80 (42%), Positives = 47/80 (58%)

Query:     1 MTHMLNALSGGKLLVILEGGYNLRSISSSATSVIKVLLGENPGCELGDSAPSK-SGLVTV 59
             +TH L +L+ G++L+ILEGGYNL SIS S +    +LLG++P   L    P K S  V++
Sbjct:   725 LTHQLMSLAAGRVLIILEGGYNLTSISESMSMCTSMLLGDSPP-SLDHLTPLKTSATVSI 783

Query:    60 LEVLKIQMNFWPSLASRFTE 79
               VL+    FW SL     E
Sbjct:   784 NNVLRAHAPFWSSLRVNIPE 803

GO:0008270 "zinc ion binding" evidence=IEA

GO:0006476 "protein deacetylation" evidence=IGI

GO:0001525 "angiogenesis" evidence=IGI;IMP

GO:0016787 "hydrolase activity" evidence=IEA

UNIPROTKB|F1PN11 HDAC6 "Uncharacterized protein" [Canis lupus familiaris (taxid:9615)]

 Score = 142 (55.0 bits), Expect = 1.9e-08, P = 1.9e-08
 Identities = 31/74 (41%), Positives = 47/74 (63%)

Query:     1 MTHMLNALSGGKLLVILEGGYNLRSISSSATSVIKVLLGENPGCELGDSAPSKSG-LVTV 59
             +TH+L  L+ G++++ILEGGYNL SIS S  +  + LLG+ P   L  S P  SG L ++
Sbjct:   775 LTHLLMGLANGRVVLILEGGYNLTSISESMAACTRSLLGDPPPL-LTLSRPPLSGALASI 833

Query:    60 LEVLKIQMNFWPSL 73
              E +++   +W SL
Sbjct:   834 TETIQVHRRYWRSL 847

GO:0090035 "positive regulation of chaperone-mediated protein complex assembly" evidence=IEA

GO:0071218 "cellular response to misfolded protein" evidence=IEA

GO:0070848 "response to growth factor stimulus" evidence=IEA

GO:0070846 "Hsp90 deacetylation" evidence=IEA

GO:0070845 "polyubiquitinated misfolded protein transport" evidence=IEA

GO:0070842 "aggresome assembly" evidence=IEA

GO:0070840 "dynein complex binding" evidence=IEA

GO:0070301 "cellular response to hydrogen peroxide" evidence=IEA

GO:0051879 "Hsp90 protein binding" evidence=IEA

GO:0048487 "beta-tubulin binding" evidence=IEA

GO:0048471 "perinuclear region of cytoplasm" evidence=IEA

GO:0048156 "tau protein binding" evidence=IEA

GO:0045861 "negative regulation of proteolysis" evidence=IEA

GO:0043241 "protein complex disassembly" evidence=IEA

GO:0043162 "ubiquitin-dependent protein catabolic process via the multivesicular body sorting pathway" evidence=IEA

GO:0043065 "positive regulation of apoptotic process" evidence=IEA

GO:0043014 "alpha-tubulin binding" evidence=IEA

GO:0042903 "tubulin deacetylase activity" evidence=IEA

GO:0042826 "histone deacetylase binding" evidence=IEA

GO:0034983 "peptidyl-lysine deacetylation" evidence=IEA

GO:0032418 "lysosome localization" evidence=IEA

GO:0031593 "polyubiquitin binding" evidence=IEA

GO:0031252 "cell leading edge" evidence=IEA

GO:0030286 "dynein complex" evidence=IEA

GO:0016236 "macroautophagy" evidence=IEA

GO:0016235 "aggresome" evidence=IEA

GO:0010870 "positive regulation of receptor biosynthetic process" evidence=IEA

GO:0010634 "positive regulation of epithelial cell migration" evidence=IEA

GO:0010469 "regulation of receptor activity" evidence=IEA

GO:0009967 "positive regulation of signal transduction" evidence=IEA

GO:0009636 "response to toxic substance" evidence=IEA

GO:0008017 "microtubule binding" evidence=IEA

GO:0008013 "beta-catenin binding" evidence=IEA

GO:0007026 "negative regulation of microtubule depolymerization" evidence=IEA

GO:0006515 "misfolded or incompletely synthesized protein catabolic process" evidence=IEA

GO:0005901 "caveola" evidence=IEA

GO:0005881 "cytoplasmic microtubule" evidence=IEA

GO:0005829 "cytosol" evidence=IEA

GO:0004407 "histone deacetylase activity" evidence=IEA

GO:0000209 "protein polyubiquitination" evidence=IEA

GO:0000118 "histone deacetylase complex" evidence=IEA

GO:0008270 "zinc ion binding" evidence=IEA

POMBASE|SPBC800.03 clr3 "histone deacetylase (class II) Clr3" [Schizosaccharomyces pombe (taxid:4896)]

 Score = 139 (54.0 bits), Expect = 2.1e-08, P = 2.1e-08
 Identities = 32/70 (45%), Positives = 42/70 (60%)

Query:     1 MTHMLNALSGGKLLVILEGGYNLRSISSSATSVIKVLLGENPGCELGDSAPSKSGLVTVL 60
             MT ML  L+ GK+ + LEGGYNL SIS+SA +V + LLG  PG  L  +      + T+ 
Sbjct:   347 MTQMLMGLADGKVFISLEGGYNLDSISTSALAVAQSLLGIPPG-RLHTTYACPQAVATIN 405

Query:    61 EVLKIQMNFW 70
              V KIQ  +W
Sbjct:   406 HVTKIQSQYW 415

GO:0000122 "negative regulation of transcription from RNA polymerase II promoter" evidence=IGI;IMP

GO:0000183 "chromatin silencing at rDNA" evidence=IMP

GO:0000790 "nuclear chromatin" evidence=IDA

GO:0004407 "histone deacetylase activity" evidence=IMP;IDA

GO:0005634 "nucleus" evidence=IDA

GO:0005721 "centromeric heterochromatin" evidence=IDA

GO:0006348 "chromatin silencing at telomere" evidence=IMP

GO:0016575 "histone deacetylation" evidence=IMP

GO:0016584 "nucleosome positioning" evidence=IMP

GO:0030466 "chromatin silencing at silent mating-type cassette" evidence=IMP

GO:0030702 "chromatin silencing at centromere" evidence=IMP

GO:0030874 "nucleolar chromatin" evidence=IDA

GO:0031060 "regulation of histone methylation" evidence=IMP

GO:0031078 "histone deacetylase activity (H3-K14 specific)" evidence=IMP

GO:0031933 "telomeric heterochromatin" evidence=IDA

GO:0031934 "mating-type region heterochromatin" evidence=IDA

GO:0033553 "rDNA heterochromatin" evidence=IDA

GO:0035391 "maintenance of chromatin silencing at silent mating-type cassette" evidence=NAS

GO:0070824 "SHREC complex" evidence=IDA

GO:0071276 "cellular response to cadmium ion" evidence=IMP

GO:0071585 "detoxification of cadmium ion" evidence=IMP

---

Prediction of Enzyme Commission (EC) Number

EC Number Prediction by Annotation Transfer from SWISS-PROT Entries

Original result of BLAST against SWISS-PROT

No confident hit for EC number transfering in SWISSPROT detected by BLAST

EC Number Prediction by Ezypred Server

Original result from Ezypred Server

Fail to connect to Ezypred Server

EC Number Prediction by EFICAz Software

No EC number assignment, probably not an enzyme!

---

Prediction of Functionally Associated Proteins

Functionally Associated Proteins Detected by STRING

Original result from the STRING server

Your Input: gw1.XII.10.1 hypothetical protein (503 aa) (Populus trichocarpa)

Predicted Functional Partners:

Sorry, there are no predicted associations at the current settings.

---

Conserved Domains and Related Protein Families

Conserved Domains Detected by RPS-BLAST

Original result of RPS-BLAST against CDD database part I

ID	Length	Definition	E-value
Query	132
cd10003	350	cd10003, HDAC6-dom2, Histone deacetylase 6, domain	3e-20
cd11600	313	cd11600, HDAC_Clr3, Class II Histone deacetylase C	2e-19
cd10002	336	cd10002, HDAC10_HDAC6-dom1, Histone deacetylase 6,	7e-13
cd11682	337	cd11682, HDAC6-dom1, Histone deacetylase 6, domain	5e-12
cd11683	337	cd11683, HDAC10, Histone deacetylase 10	1e-11
cd09992	291	cd09992, HDAC_classII, Histone deacetylases and hi	8e-10
cd11681	377	cd11681, HDAC_classIIa, Histone deacetylases, clas	3e-09
pfam00850	300	pfam00850, Hist_deacetyl, Histone deacetylase doma	1e-07
cd10006	409	cd10006, HDAC4, Histone deacetylase 4	1e-06
cd10007	420	cd10007, HDAC5, Histone deacetylase 5	6e-06
cd10008	378	cd10008, HDAC7, Histone deacetylase 7	2e-05
COG0123	340	COG0123, AcuC, Deacetylases, including yeast histo	4e-05
cd11599	288	cd11599, HDAC_classII_2, Histone deacetylases and	5e-04
cd10009	379	cd10009, HDAC9, Histone deacetylase 9	0.002

>gnl|CDD|212527 cd10003, HDAC6-dom2, Histone deacetylase 6, domain 2

 Score = 83.9 bits (208), Expect = 3e-20
 Identities = 34/74 (45%), Positives = 46/74 (62%)

Query: 1   MTHMLNALSGGKLLVILEGGYNLRSISSSATSVIKVLLGENPGCELGDSAPSKSGLVTVL 60
           MTHML +L+GG+++VILEGGYNL SIS S +   K LLG+ P        P  S L ++ 
Sbjct: 277 MTHMLMSLAGGRVIVILEGGYNLTSISESMSMCTKTLLGDPPPVLDLPRPPCSSALKSIN 336

Query: 61  EVLKIQMNFWPSLA 74
            VL++   +W SL 
Sbjct: 337 NVLQVHQKYWKSLR 350

Histone deacetylase 6 is a class IIb Zn-dependent enzyme that catalyzes hydrolysis of N(6)-acetyl-lysine residue of a histone to yield a deacetylated histone (EC 3.5.1.98). Histone acetylation/deacetylation process is important for mediation of transcriptional regulation of many genes. HDACs usually act via association with DNA binding proteins to target specific chromatin regions. HDAC6 is the only histone deacetylase with internal duplication of two catalytic domains which appear to function independently of each other, and also has a C-terminal ubiquitin-binding domain. It is located in the cytoplasm and associates with microtubule motor complex, functioning as the tubulin deacetylase and regulating microtubule-dependent cell motility. Known interaction partners of HDAC6 are alpha tubulin and ubiquitin-like modifier FAT10 (also known as Ubiquitin D or UBD). Length = 350

>gnl|CDD|212542 cd11600, HDAC_Clr3, Class II Histone deacetylase Clr3 and similar proteins

 Score = 81.2 bits (201), Expect = 2e-19
 Identities = 30/43 (69%), Positives = 35/43 (81%)

Query: 1   MTHMLNALSGGKLLVILEGGYNLRSISSSATSVIKVLLGENPG 43
           MTHML +L+GGKL+V LEGGYNL +IS SA +V KVLLGE P 
Sbjct: 268 MTHMLMSLAGGKLVVALEGGYNLDAISDSALAVAKVLLGEAPP 310

Clr3 is a class II Histone deacetylase Zn-dependent enzyme that catalyzes hydrolysis of an N(6)-acetyl-lysine residue of a histone to yield a deacetylated histone (EC 3.5.1.98). Clr3 is the homolog of the class-II HDAC HdaI in S. cerevisiae, and is essential for silencing in heterochromatin regions, such as centromeric regions, ribosomal DNA, the mating-type region and telomeric loci. Clr3 has also been implicated in the regulation of stress-related genes; the histone acetyltransferase, Gcn5, in S. cerevisiae, preferentially acetylates global histone H3K14 while Clr3 preferentially deacetylates H3K14ac, and therefore, interplay between Gcn5 and Clr3 is crucial for the regulation of many stress-response genes. Length = 313

>gnl|CDD|212526 cd10002, HDAC10_HDAC6-dom1, Histone deacetylase 6, domain 1 and histone deacetylase 10

 Score = 63.5 bits (155), Expect = 7e-13
 Identities = 27/70 (38%), Positives = 41/70 (58%), Gaps = 1/70 (1%)

Query: 1   MTHMLNALSGGKLLVILEGGYNLRSISSSATSVIKVLLGENPGCELGDSAPSKSGLVTVL 60
           +T +L  L+GGKLL++LEGGY L S++ S +  ++ LLG+ P   L    P +S L T+L
Sbjct: 268 LTRLLMGLAGGKLLLVLEGGYLLESLAESVSMTLRGLLGD-PLPPLAPPIPIRSVLETIL 326

Query: 61  EVLKIQMNFW 70
             +      W
Sbjct: 327 NAIAHLSPRW 336

Histone deacetylases 6 and 10 are class IIb Zn-dependent enzymes that catalyze hydrolysis of N(6)-acetyl-lysine of a histone to yield a deacetylated histone (EC 3.5.1.98). Histone acetylation/deacetylation process is important for mediation of transcriptional regulation of many genes. HDACs usually act via association with DNA binding proteins to target specific chromatin regions. HDAC6 is the only histone deacetylase with internal duplication of two catalytic domains which appear to function independently of each other, and also has a C-terminal ubiquitin-binding domain. It is located in the cytoplasm and associates with microtubule motor complex, functioning as the tubulin deacetylase and regulating microtubule-dependent cell motility. HDAC10 has an N-terminal deacetylase domain and a C-terminal pseudo-repeat that shares significant similarity with its catalytic domain. It is located in the nucleus and cytoplasm, and is involved in regulation of melanogenesis. It transcriptionally down-regulates thioredoxin-interacting protein (TXNIP), leading to altered reactive oxygen species (ROS) signaling in human gastric cancer cells. Known interaction partners of HDAC6 are alpha tubulin (substrate) and ubiquitin-like modifier FAT10 (also known as Ubiquitin D or UBD) while interaction partners of HDAC10 are Pax3, KAP1, hsc70 and HDAC3 proteins. Length = 336

>gnl|CDD|212545 cd11682, HDAC6-dom1, Histone deacetylase 6, domain 1

 Score = 61.0 bits (148), Expect = 5e-12
 Identities = 30/72 (41%), Positives = 45/72 (62%), Gaps = 4/72 (5%)

Query: 1   MTHMLNALSGGKLLVILEGGYNLRSISSSATSVIKVLLGENPGCELGDS--APSKSGLVT 58
           +TH+L  L+GGKL++ LEGGYNLRS++    + +K LLG+   C + +S  AP +S L +
Sbjct: 268 LTHLLMGLAGGKLILSLEGGYNLRSLAEGVCASLKALLGDP--CPMLESPGAPCRSALAS 325

Query: 59  VLEVLKIQMNFW 70
           V   +     FW
Sbjct: 326 VSCTISALEPFW 337

Histone deacetylases 6 are class IIb Zn-dependent enzymes that catalyze hydrolysis of N(6)-acetyl-lysine of a histone to yield a deacetylated histone (EC 3.5.1.98). Histone acetylation/deacetylation process is important for mediation of transcriptional regulation of many genes. HDACs usually act via association with DNA binding proteins to target specific chromatin regions. HDAC6 is the only histone deacetylase with internal duplication of two catalytic domains which appear to function independently of each other, and also has a C-terminal ubiquitin-binding domain. It is located in the cytoplasm and associates with microtubule motor complex, functioning as the tubulin deacetylase and regulating microtubule-dependent cell motility. Known interaction partners of HDAC6 are alpha tubulin (substrate) and ubiquitin-like modifier FAT10 (also known as Ubiquitin D or UBD). Length = 337

>gnl|CDD|212546 cd11683, HDAC10, Histone deacetylase 10

 Score = 59.9 bits (145), Expect = 1e-11
 Identities = 26/70 (37%), Positives = 41/70 (58%)

Query: 1   MTHMLNALSGGKLLVILEGGYNLRSISSSATSVIKVLLGENPGCELGDSAPSKSGLVTVL 60
           +TH+L  L+GGKL  +LEGGY+L S++ S    ++ LLG+      G+  P +S L ++ 
Sbjct: 268 LTHLLMVLAGGKLCAVLEGGYHLESLAESVCMTVQTLLGDPLPRLSGEMTPCQSALESIQ 327

Query: 61  EVLKIQMNFW 70
            V   Q  +W
Sbjct: 328 NVRAAQAPYW 337

Histone deacetylases 10 are class IIb Zn-dependent enzymes that catalyze hydrolysis of N(6)-acetyl-lysine of a histone to yield a deacetylated histone (EC 3.5.1.98). Histone acetylation/deacetylation process is important for mediation of transcriptional regulation of many genes. HDACs usually act via association with DNA binding proteins to target specific chromatin regions. HDAC10 has an N-terminal deacetylase domain and a C-terminal pseudo-repeat that shares significant similarity with its catalytic domain. It is located in the nucleus and cytoplasm, and is involved in regulation of melanogenesis. It transcriptionally down-regulates thioredoxin-interacting protein (TXNIP), leading to altered reactive oxygen species (ROS) signaling in human gastric cancer cells. Known interaction partners of HDAC10 are Pax3, KAP1, hsc70 and HDAC3 proteins. Length = 337

>gnl|CDD|212518 cd09992, HDAC_classII, Histone deacetylases and histone-like deacetylases, classII

 Score = 54.4 bits (132), Expect = 8e-10
 Identities = 17/42 (40%), Positives = 28/42 (66%), Gaps = 4/42 (9%)

Query: 1   MTHMLNAL----SGGKLLVILEGGYNLRSISSSATSVIKVLL 38
           +T +L  L     GG+L+ +LEGGYNL +++ S  +V++ LL
Sbjct: 250 LTRLLKELADEHCGGRLVFVLEGGYNLEALAESVLAVLEALL 291

Class II histone deacetylases are Zn-dependent enzymes that catalyze hydrolysis of N(6)-acetyl-lysine residues of histones (EC 3.5.1.98) and possibly other proteins to yield deacetylated histones/other proteins. This group includes animal HDAC4,5,6,7,8,9,10, fungal HOS3 and HDA1, plant HDA5 and HDA15 as well as other eukaryotes, archaeal and bacterial histone-like deacetylases. Eukaryotic deacetylases mostly use histones (H2, H3, H4) as substrates for deacetylation; however, non-histone substrates are known (for example, tubulin). Substrates for prokaryotic histone-like deacetylases are not known. Histone acetylation/deacetylation process is important for mediation of transcriptional regulation of many genes. Histone deacetylases usually act via association with DNA binding proteins to target specific chromatin regions. Interaction partners of class II deacetylases include 14-3-3 proteins, MEF2 family of transcriptional factors, CtBP, calmodulin (CaM), SMRT, N-CoR, BCL6, HP1alpha and SUMO. Histone deacetylases play a role in the regulation of cell cycle, cell differentiation and survival. Class II mammalian HDACs are differentially inhibited by structurally diverse compounds with known antitumor activities, thus presenting them as potential drug targets for human diseases resulting from aberrant acetylation. Length = 291

>gnl|CDD|212544 cd11681, HDAC_classIIa, Histone deacetylases, class IIa

 Score = 53.1 bits (128), Expect = 3e-09
 Identities = 23/73 (31%), Positives = 44/73 (60%), Gaps = 3/73 (4%)

Query: 1   MTHMLNALSGGKLLVILEGGYNLRSISSSATSVIKVLLGENP---GCELGDSAPSKSGLV 57
           MT  L  L+GGK+++ LEGGY+L +I  ++ + ++ LLG+       E  +  P+ + + 
Sbjct: 305 MTRQLMNLAGGKVVLALEGGYDLTAICDASEACVRALLGDELDPLSEEELERRPNPNAVT 364

Query: 58  TVLEVLKIQMNFW 70
           ++ +V+ IQ  +W
Sbjct: 365 SLEKVIAIQSPYW 377

Class IIa histone deacetylases are Zn-dependent enzymes that catalyze hydrolysis of N(6)-acetyl-lysine residues of histones (EC 3.5.1.98) to yield deacetylated histones. This subclass includes animal HDAC4, HDAC5, HDAC7, and HDCA9. Histone acetylation/deacetylation process is important for mediation of transcriptional regulation of many genes. Histone deacetylases usually act via association with DNA binding proteins to target specific chromatin regions. Class IIa histone deacetylases are signal-dependent co-repressors, they have N-terminal regulatory domain with two or three conserved serine residues, phosphorylation of these residues is important for ability to shuttle between the nucleus and cytoplasm and act as transcriptional co-repressors. HDAC9 is involved in regulation of gene expression and dendritic growth in developing cortical neurons. It also plays a role in hematopoiesis. HDAC7 is involved in regulation of myocyte migration and differentiation. HDAC5 is involved in integration of chronic drug (cocaine) addiction and depression with changes in chromatin structure and gene expression. HDAC4 participates in regulation of chondrocyte hypertrophy and skeletogenesis. Length = 377

>gnl|CDD|216151 pfam00850, Hist_deacetyl, Histone deacetylase domain

 Score = 48.4 bits (116), Expect = 1e-07
 Identities = 16/41 (39%), Positives = 25/41 (60%), Gaps = 3/41 (7%)

Query: 1   MTHML---NALSGGKLLVILEGGYNLRSISSSATSVIKVLL 38
            T +L       GG ++ +LEGGYNL +++ SA +V+  LL
Sbjct: 260 RTRLLLELADAYGGPVVSVLEGGYNLDALARSAAAVLAGLL 300

Histones can be reversibly acetylated on several lysine residues. Regulation of transcription is caused in part by this mechanism. Histone deacetylases catalyze the removal of the acetyl group. Histone deacetylases are related to other proteins. Length = 300

>gnl|CDD|212530 cd10006, HDAC4, Histone deacetylase 4

 Score = 45.8 bits (108), Expect = 1e-06
 Identities = 27/99 (27%), Positives = 55/99 (55%), Gaps = 4/99 (4%)

Query: 1   MTHMLNALSGGKLLVILEGGYNLRSISSSATSVIKVLLGE--NPGCE-LGDSAPSKSGLV 57
           +T  L  L+GG++++ LEGG++L +I  ++ + +  LLG   +P  E +    P+ + + 
Sbjct: 308 LTKQLMGLAGGRIVLALEGGHDLTAICDASEACVSALLGNELDPLPEKVLQQRPNANAVR 367

Query: 58  TVLEVLKIQMNFWPSLA-SRFTELQSLWEIYAAENKKKQ 95
           ++ +V++I   +W  L  +  T   SL E    EN++ +
Sbjct: 368 SMEKVMEIHSKYWRCLQRTTSTAGYSLIEAQTCENEEAE 406

Histone deacetylase 4 is a class IIa Zn-dependent enzyme that catalyzes hydrolysis of an N(6)-acetyl-lysine residue of a histone to yield a deacetylated histone (EC 3.5.1.98). Histone acetylation/deacetylation process is important for mediation of transcriptional regulation of many genes. Histone deacetylases usually act via association with DNA binding proteins to target specific chromatin regions. Class IIa histone deacetylases are signal-dependent co-repressors, having N-terminal regulatory domain with two or three conserved serine residues; phosphorylation of these residues is important for ability to shuttle between the nucleus and cytoplasm and act as transcriptional co-repressors. HDAC4 participates in regulation of chondrocyte hypertrophy and skeletogenesis. However, biological substrates for HDAC4 have not been identified; only low lysine deacetylation activity has been demonstrated and active site mutant has enhanced activity toward acetylated lysines. HDAC4 does not bind DNA directly, but through transcription factors MEF2C (myocyte enhancer factor-2C) and MEF2D. Other known interaction partners of the protein are 14-3-3 proteins, SMRT and N-CoR co-repressors, BCL6, HP1, SUMO-1 ubiquitin-like protein, and ANKRA2. It appears to interact in a multiprotein complex with RbAp48 and HDAC3. Furthermore, HDAC4 is required for TGFbeta1-induced myofibroblastic differentiation. Length = 409

>gnl|CDD|212531 cd10007, HDAC5, Histone deacetylase 5

 Score = 43.8 bits (103), Expect = 6e-06
 Identities = 26/94 (27%), Positives = 46/94 (48%), Gaps = 4/94 (4%)

Query: 1   MTHMLNALSGGKLLVILEGGYNLRSISSSATSVIKVLLGENPG---CELGDSAPSKSGLV 57
           +T  L  L+GG++++ LEGG++L +I  ++ + +  LLG         +    P+ + + 
Sbjct: 308 LTKQLMTLAGGRVVLALEGGHDLTAICDASEACVSALLGMELTPLDNTVLQQKPNDNAVA 367

Query: 58  TVLEVLKIQMNFWPSLASRFTEL-QSLWEIYAAE 90
           T+  V++IQ   W  L      L  SL E    E
Sbjct: 368 TLERVIEIQSKHWSCLKRFAATLGFSLLEAQRGE 401

Histone deacetylase 5 is a class IIa Zn-dependent enzyme that catalyzes hydrolysis of an N(6)-acetyl-lysine residue of a histone to yield a deacetylated histone (EC 3.5.1.98). Histone acetylation/deacetylation process is important for mediation of transcriptional regulation of many genes. Histone deacetylases usually act via association with DNA binding proteins to target specific chromatin regions. Class IIa histone deacetylases are signal-dependent co-repressors, having N-terminal regulatory domain with two or three conserved serine residues; phosphorylation of these residues is important for ability to shuttle between the nucleus and cytoplasm and act as transcriptional co-repressors. HDAC5 is involved in integration of chronic drug (cocaine) addiction and depression with changes in chromatin structure and gene expression; cocaine regulates HDAC5 function to antagonize the rewarding impact of cocaine, possibly by blocking drug-stimulated gene expression that supports drug-induced behavioral change. It is also involved in regulation of angiogenesis and cell cycle as well as immune system development. HDAC5 and HDAC9 have been found to be significantly up-regulated in high-risk medulloblastoma compared with low-risk and may potentially be novel drug targets. Length = 420

>gnl|CDD|212532 cd10008, HDAC7, Histone deacetylase 7

 Score = 41.9 bits (98), Expect = 2e-05
 Identities = 20/73 (27%), Positives = 41/73 (56%), Gaps = 3/73 (4%)

Query: 1   MTHMLNALSGGKLLVILEGGYNLRSISSSATSVIKVLLGE--NPGCELG-DSAPSKSGLV 57
           MT  L  L+GG +++ LEGG++L +I  ++ + +  LLG   +P  E      P+ + + 
Sbjct: 306 MTQQLMNLAGGAVVLALEGGHDLTAICDASEACVAALLGNEVDPLSEESWKQKPNLNAIR 365

Query: 58  TVLEVLKIQMNFW 70
           ++  V+++   +W
Sbjct: 366 SLEAVIRVHSKYW 378

Histone deacetylase 7 is a class IIa Zn-dependent enzyme that catalyzes hydrolysis of an N(6)-acetyl-lysine residue of a histone to yield a deacetylated histone (EC 3.5.1.98). Histone acetylation/deacetylation process is important for mediation of transcriptional regulation of many genes. Histone deacetylases usually act via association with DNA binding proteins to target specific chromatin regions. Class IIa histone deacetylases are signal-dependent co-repressors, having N-terminal regulatory domain with two or three conserved serine residues; phosphorylation of these residues is important for ability to shuttle between the nucleus and cytoplasm and act as transcriptional co-repressors. HDAC7 is involved in regulation of myocyte migration and differentiation. Known interaction partners of class IIa HDAC7 are myocyte enhancer factors - MEF2A, -2C, and -2D, 14-3-3 proteins, SMRT and N-CoR co-repressors, HDAC3, ETA (endothelin receptor). This enzyme is also involved in the development of the immune system as well as brain and heart development. Multiple alternatively spliced transcript variants encoding several isoforms have been found for this gene. Length = 378

>gnl|CDD|223201 COG0123, AcuC, Deacetylases, including yeast histone deacetylase and acetoin utilization protein [Chromatin structure and dynamics / Secondary metabolites biosynthesis, transport, and catabolism]

 Score = 41.2 bits (97), Expect = 4e-05
 Identities = 13/43 (30%), Positives = 24/43 (55%), Gaps = 3/43 (6%)

Query: 1   MTHMLNALS---GGKLLVILEGGYNLRSISSSATSVIKVLLGE 40
           +   +  L+   GG ++ +LEGGYNL +++ S  + +  L G 
Sbjct: 270 IGRAVRKLAEGYGGPVVAVLEGGYNLDALARSLVAFLAGLAGL 312

Length = 340

>gnl|CDD|212541 cd11599, HDAC_classII_2, Histone deacetylases and histone-like deacetylases, classII

 Score = 37.9 bits (89), Expect = 5e-04
 Identities = 11/42 (26%), Positives = 25/42 (59%), Gaps = 4/42 (9%)

Query: 1   MTHML----NALSGGKLLVILEGGYNLRSISSSATSVIKVLL 38
           +T  L    +    G+++ +LEGGY+L +++ S  + ++ L+
Sbjct: 247 ITEQLMDVADRYCDGRIVSVLEGGYDLSALARSVAAHVRALM 288

This subfamily includes eukaryotic as well as bacterial Class II histone deacetylase (HDAC) and related proteins. Deacetylases of class II are Zn-dependent enzymes that catalyze hydrolysis of N(6)-acetyl-lysine residues of histones (EC 3.5.1.98) and possibly other proteins to yield deacetylated histones/other proteins. In D. discoideum, where four homologs (HdaA, HdaB, HdaC, HdaD) have been identified, HDAC activity is important for regulating the timing of gene expression during development. Also, inhibition of HDAC activity by trichostatin A is shown to cause hyperacetylation of the histone and a delay in cell aggregation and differentiation. Length = 288

>gnl|CDD|212533 cd10009, HDAC9, Histone deacetylase 9

 Score = 36.5 bits (84), Expect = 0.002
 Identities = 18/73 (24%), Positives = 45/73 (61%), Gaps = 3/73 (4%)

Query: 1   MTHMLNALSGGKLLVILEGGYNLRSISSSATSVIKVLLG---ENPGCELGDSAPSKSGLV 57
           +T  L  L+ G++++ LEGG++L +I  ++ + +  LLG   E    ++   +P+ + ++
Sbjct: 306 LTKQLMTLADGRVVLALEGGHDLTAICDASEACVNALLGNELEPLAEDILHQSPNMNAVI 365

Query: 58  TVLEVLKIQMNFW 70
           ++ ++++IQ  +W
Sbjct: 366 SLQKIIEIQSKYW 378

Histone deacetylase 9 is a class IIa Zn-dependent enzyme that catalyzes hydrolysis of an N(6)-acetyl-lysine residue of a histone to yield a deacetylated histone (EC 3.5.1.98). Histone acetylation/deacetylation process is important for mediation of transcriptional regulation of many genes. Histone deacetylases usually act via association with DNA binding proteins to target specific chromatin regions. Class IIa histone deacetylases are signal-dependent co-repressors, they have N-terminal regulatory domain with two or three conserved serine residues, phosphorylation of these residues is important for ability to shuttle between the nucleus and cytoplasm and act as transcriptional co-repressors. HDAC9 is involved in regulation of gene expression and dendritic growth in developing cortical neurons. It also plays a role in hematopoiesis. Its deregulated expression may be associated with some human cancers. HDAC5 and HDAC9 have been found to be significantly up-regulated in high-risk medulloblastoma compared with low-risk and may potentially be novel drug targets. Length = 379

Conserved Domains Detected by HHsearch

Original result of HHsearch against CDD database

ID	Length	Definition	Probability
Query	132
KOG1343	797	consensus Histone deacetylase complex, catalytic c	99.3
KOG1343	797	consensus Histone deacetylase complex, catalytic c	98.3
PTZ00346	429	histone deacetylase; Provisional	97.71
COG0123	340	AcuC Deacetylases, including yeast histone deacety	97.45
PTZ00063	436	histone deacetylase; Provisional	96.71
PF09757	178	Arb2: Arb2 domain; InterPro: IPR019154 The fission	90.28

>KOG1343 consensus Histone deacetylase complex, catalytic component HDA1 [Chromatin structure and dynamics]

Probab=99.30  E-value=4.3e-12  Score=115.30  Aligned_cols=74  Identities=32%  Similarity=0.643  Sum_probs=67.3

Q ss_pred             ChhHHhhccCCcEEEEecCCCCcchHHHHHHHHHHHHcCCCCCCCCC---CCCCChhHHHHHHHHHHHHhccCcchh
Q 032833            1 MTHMLNALSGGKLLVILEGGYNLRSISSSATSVIKVLLGENPGCELG---DSAPSKSGLVTVLEVLKIQMNFWPSLA   74 (132)
Q Consensus         1 mt~~L~~l~~Grlv~vLEGGYnl~sLa~sv~avlr~Llg~~~~~~~~---~~~ps~~~~~~i~~v~~~h~~yW~~l~   74 (132)
                      ||++|+++++||++++||||||+.++++|+.+|+++|+|++.+.++.   +.+|+..+..+++.++.+|++||.|++
T Consensus       719 lt~~l~~lagGRvv~~LEggy~lt~is~s~~~~~~~llg~~~p~~~~~~~~~~~~~~a~~~l~~~~~~~~~~w~~~~  795 (797)
T KOG1343|consen  719 LTQQLMGLAGGRVVLALEGGYDLTAISDSAEACVRALLGDSLPPLSEAYLPQKPNSNAVATLEKVIEVQSKYWSCLQ  795 (797)
T ss_pred             HHHHHHHhcCCcEEEEecCCcchhhhhHHHHHHHHhccCCCCCCccccccCCCcchHHHHHHHHHHHhhhccccccc
Confidence            68999999999999999999999999999999999999988766332   467788899999999999999999986

>KOG1343 consensus Histone deacetylase complex, catalytic component HDA1 [Chromatin structure and dynamics]

Probab=98.30  E-value=5.3e-07  Score=82.52  Aligned_cols=65  Identities=29%  Similarity=0.474  Sum_probs=58.8

Q ss_pred             CCcEEEEecCCCCcchHHHHHHHHHHHHcCCCCCCCCCCCCCChhHHHHHHHHHHHHhccCcchhh
Q 032833           10 GGKLLVILEGGYNLRSISSSATSVIKVLLGENPGCELGDSAPSKSGLVTVLEVLKIQMNFWPSLAS   75 (132)
Q Consensus        10 ~Grlv~vLEGGYnl~sLa~sv~avlr~Llg~~~~~~~~~~~ps~~~~~~i~~v~~~h~~yW~~l~~   75 (132)
                      +|+++++|||||+++.++.+ ..++..|+|++++....+..|..++.+++..+.++|.+||+|+..
T Consensus       326 r~~l~v~~e~gy~le~l~~~-~~~~~~llg~~~~~~~~~~~p~~~~~e~~~~~~~~~~~~w~~~~~  390 (797)
T KOG1343|consen  326 RGQLVVVLEGGYFLEKLAQS-QLVLNKLLGKPIEQLRQPGSPKEEAEEELQSVQAVQEDRWPCEGG  390 (797)
T ss_pred             cCccceecchhHHHHHHHHh-hhhHHhhcCCCccccccCCCchHHHHHHhhhhHHHhhcccccccC
Confidence            38999999999999999999 999999999987776666668899999999999999999999964

>PTZ00346 histone deacetylase; Provisional

Probab=97.71  E-value=0.00014  Score=62.81  Aligned_cols=41  Identities=22%  Similarity=0.368  Sum_probs=35.3

Q ss_pred             hhHHhhccCCcEEEEecCCCCcchHHHHHHHHHHHHcCCCCC
Q 032833            2 THMLNALSGGKLLVILEGGYNLRSISSSATSVIKVLLGENPG   43 (132)
Q Consensus         2 t~~L~~l~~Grlv~vLEGGYnl~sLa~sv~avlr~Llg~~~~   43 (132)
                      ++++.++ +++++++||||||+.++++|.+.++..|+|.+.+
T Consensus       300 ~~~l~~~-~~plv~vleGGY~~~~lar~w~~~t~~l~g~~i~  340 (429)
T PTZ00346        300 VQAVRDL-GIPMLALGGGGYTIRNVAKLWAYETSILTGHPLP  340 (429)
T ss_pred             HHHHHhc-CCCEEEEeCCcCCccHHHHHHHHHHHHHcCCCCC
Confidence            4555554 6799999999999999999999999999998744

>COG0123 AcuC Deacetylases, including yeast histone deacetylase and acetoin utilization protein [Chromatin structure and dynamics / Secondary metabolites biosynthesis, transport, and catabolism]

Probab=97.45  E-value=0.00017  Score=60.52  Aligned_cols=34  Identities=35%  Similarity=0.635  Sum_probs=30.9

Q ss_pred             CCcEEEEecCCCCcchHHHHHHHHHHHHcCCCCC
Q 032833           10 GGKLLVILEGGYNLRSISSSATSVIKVLLGENPG   43 (132)
Q Consensus        10 ~Grlv~vLEGGYnl~sLa~sv~avlr~Llg~~~~   43 (132)
                      +|+++++|||||++++++.++.+++.+|.|.+..
T Consensus       282 ~~~~~~vleGGY~~~~l~~~~~~~~~~l~~~~~~  315 (340)
T COG0123         282 GGPVVAVLEGGYNLDALARSLVAFLAGLAGLVEE  315 (340)
T ss_pred             CCCeEEEecCCCChHHHHHHHHHHHHHHcCCCcc
Confidence            5799999999999999999999999999996533

>PTZ00063 histone deacetylase; Provisional

Probab=96.71  E-value=0.0019  Score=56.04  Aligned_cols=38  Identities=24%  Similarity=0.393  Sum_probs=32.8

Q ss_pred             hhHHhhccCCcEEEEecCCCCcchHHHHHHHHHHHHcCC
Q 032833            2 THMLNALSGGKLLVILEGGYNLRSISSSATSVIKVLLGE   40 (132)
Q Consensus         2 t~~L~~l~~Grlv~vLEGGYnl~sLa~sv~avlr~Llg~   40 (132)
                      ++.+.+ .++++++++||||++.+++.|.+.....++|.
T Consensus       282 ~~~~~~-~~~pil~l~gGGY~~~~lar~w~~~t~~~~~~  319 (436)
T PTZ00063        282 VEFVRS-LNIPLLVLGGGGYTIRNVARCWAYETGVILNK  319 (436)
T ss_pred             HHHHHh-cCCCEEEEeCccCCchHHHHHHHHHHHHHhCC
Confidence            345555 46799999999999999999999999999985

>PF09757 Arb2: Arb2 domain; InterPro: IPR019154 The fission yeast Argonaute siRNA chaperone (ARC) complex contains the Argonaute protein Ago1 and two previously uncharacterised proteins, Arb1 and Arb2, both of which are required for histone H3 Lys9 (H3-K9) methylation, heterochromatin assembly and siRNA generation []

Probab=90.28  E-value=0.26  Score=37.36  Aligned_cols=26  Identities=35%  Similarity=0.544  Sum_probs=20.7

Q ss_pred             CCChhHHHHHHHHHHHHhccCcchhh
Q 032833           50 APSKSGLVTVLEVLKIQMNFWPSLAS   75 (132)
Q Consensus        50 ~ps~~~~~~i~~v~~~h~~yW~~l~~   75 (132)
                      .+++.+.+++.+|+.+|++||+||.+
T Consensus         9 ~~~~~a~~~v~~v~~~qs~yw~~l~~   34 (178)
T PF09757_consen    9 VASPSAFETVKNVRRIQSKYWKCLNP   34 (178)
T ss_dssp             ---HHHHHHHHHHHHHHTTT-GGGTS
T ss_pred             CCCHHHeeeHHHHHHHHHHHHHHhcC
Confidence            45788999999999999999999965

This entry represents a region found in both Arb2 and the Hda1 protein. ; PDB: 2VQV_A 2VQO_A 2VQJ_A 2VQQ_B 2VQM_A 2VQW_G.

---

Homologous Structure Templates

Structure Templates Detected by BLAST

Original result of BLAST against Protein Data Bank

ID	Length	Definition	E-value
Query	132
2vqw_G	413	Structure Of Inhibitor-Free Hdac4 Catalytic Domain		2e-05
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		7e-05
2vqj_A	413	Structure Of Hdac4 Catalytic Domain Bound To A Trif		7e-05
3c0y_A	423	Crystal Structure Of Catalytic Domain Of Human Hist		4e-04

>pdb|2VQW|G Chain G, Structure Of Inhibitor-Free Hdac4 Catalytic Domain (With Gain-Of-Function Mutation His332tyr) Length = 413

Iteration: 1
 Score = 44.7 bits (104), Expect = 2e-05,   Method: Composition-based stats.
 Identities = 28/99 (28%), Positives = 56/99 (56%), Gaps = 4/99 (4%)
Query: 1   MTHMLNALSGGKLLVILEGGYNLRSISSSATSVIKVLLGE--NPGCE-LGDSAPSKSGLV 57
           +T  L  L+GG++++ LEGGY+L +I  ++ + +  LLG   +P  E +    P+ + + 
Sbjct: 312 LTKQLMGLAGGRIVLALEGGYDLTAICDASEACVSALLGNELDPLPEKVLQQRPNANAVR 371
Query: 58  TVLEVLKIQMNFWPSLA-SRFTELQSLWEIYAAENKKKQ 95
           ++ +V++I   +W  L  +  T  +SL E    EN++ +
Sbjct: 372 SMEKVMEIHSKYWRCLQRTTSTAGRSLIEAQTCENEEAE 410

>pdb|2VQO|A Chain A, Structure Of Hdac4 Catalytic Domain With A Gain-Of-Function Muation Bound To A Trifluoromethylketone Inhbitor Length = 413

Iteration: 1
 Score = 44.7 bits (104), Expect = 2e-05,   Method: Composition-based stats.
 Identities = 28/99 (28%), Positives = 56/99 (56%), Gaps = 4/99 (4%)
Query: 1   MTHMLNALSGGKLLVILEGGYNLRSISSSATSVIKVLLGE--NPGCE-LGDSAPSKSGLV 57
           +T  L  L+GG++++ LEGGY+L +I  ++ + +  LLG   +P  E +    P+ + + 
Sbjct: 312 LTKQLMGLAGGRIVLALEGGYDLTAICDASEACVSALLGNELDPLPEKVLQQRPNANAVR 371
Query: 58  TVLEVLKIQMNFWPSLA-SRFTELQSLWEIYAAENKKKQ 95
           ++ +V++I   +W  L  +  T  +SL E    EN++ +
Sbjct: 372 SMEKVMEIHSKYWRCLQRTTSTAGRSLIEAQTCENEEAE 410

>pdb|2VQQ|A Chain A, Structure Of Hdac4 Catalytic Domain (A Double Cysteine-To- Alanine Mutant) Bound To A Trifluoromethylketone Inhbitor Length = 413

Iteration: 1
 Score = 42.4 bits (98), Expect = 7e-05,   Method: Composition-based stats.
 Identities = 27/99 (27%), Positives = 56/99 (56%), Gaps = 4/99 (4%)
Query: 1   MTHMLNALSGGKLLVILEGGYNLRSISSSATSVIKVLLGE--NPGCE-LGDSAPSKSGLV 57
           +T  L  L+GG++++ LEGG++L +I  ++ + +  LLG   +P  E +    P+ + + 
Sbjct: 312 LTKQLMGLAGGRIVLALEGGHDLTAICDASEACVSALLGNELDPLPEKVLQQRPNANAVR 371
Query: 58  TVLEVLKIQMNFWPSLA-SRFTELQSLWEIYAAENKKKQ 95
           ++ +V++I   +W  L  +  T  +SL E    EN++ +
Sbjct: 372 SMEKVMEIHSKYWRCLQRTTSTAGRSLIEAQTCENEEAE 410

>pdb|2VQJ|A Chain A, Structure Of Hdac4 Catalytic Domain Bound To A Trifluoromethylketone Inhbitor Length = 413

Iteration: 1
 Score = 42.4 bits (98), Expect = 7e-05,   Method: Composition-based stats.
 Identities = 27/99 (27%), Positives = 56/99 (56%), Gaps = 4/99 (4%)
Query: 1   MTHMLNALSGGKLLVILEGGYNLRSISSSATSVIKVLLGE--NPGCE-LGDSAPSKSGLV 57
           +T  L  L+GG++++ LEGG++L +I  ++ + +  LLG   +P  E +    P+ + + 
Sbjct: 312 LTKQLMGLAGGRIVLALEGGHDLTAICDASEACVSALLGNELDPLPEKVLQQRPNANAVR 371
Query: 58  TVLEVLKIQMNFWPSLA-SRFTELQSLWEIYAAENKKKQ 95
           ++ +V++I   +W  L  +  T  +SL E    EN++ +
Sbjct: 372 SMEKVMEIHSKYWRCLQRTTSTAGRSLIEAQTCENEEAE 410

>pdb|3C0Y|A Chain A, Crystal Structure Of Catalytic Domain Of Human Histone Deacetylase Hdac7 Length = 423

Iteration: 1
 Score = 40.0 bits (92), Expect = 4e-04,   Method: Composition-based stats.
 Identities = 21/73 (28%), Positives = 42/73 (57%), Gaps = 3/73 (4%)
Query: 1   MTHMLNALSGGKLLVILEGGYNLRSISSSATSVIKVLLGE--NPGCELG-DSAPSKSGLV 57
           MT  L  L+GG +++ LEGG++L +I  ++ + +  LLG   +P  E G    P+ + + 
Sbjct: 343 MTQQLMNLAGGAVVLALEGGHDLTAICDASEACVAALLGNRVDPLSEEGWKQKPNLNAIR 402
Query: 58  TVLEVLKIQMNFW 70
           ++  V+++   +W
Sbjct: 403 SLEAVIRVHSKYW 415

Structure Templates Detected by RPS-BLAST

Original result of RPS-BLAST against PDB70 database

ID	Length	Definition	E-value
Query	132
2pqp_A	421	HD7A, histone deacetylase 7A; HDAC, structural gen	6e-22
1zz1_A	369	Histone deacetylase-like amidohydrolase; HET: SHH;	7e-15
3men_A	362	Acetylpolyamine aminohydrolase; histone deacetylas	7e-11
3q9b_A	341	Acetylpolyamine amidohydrolase; HDAC, polyamines,	2e-10
4a69_A	376	Histone deacetylase 3,; transcription, hydrolase;	4e-08
3max_A	367	HD2, histone deacetylase 2; class 2, HDAC, foot po	5e-08
1c3p_A	375	Protein (HDLP (histone deacetylase-like protein) )	3e-07
3ew8_A	388	HD8, histone deacetylase 8; hydrolase, HDAC, metal	3e-07

>1zz1_A Histone deacetylase-like amidohydrolase; HET: SHH; 1.57A {Alcaligenaceae bacterium} PDB: 1zz0_A* 1zz3_A* 2gh6_A* 2vcg_A* Length = 369

 Score = 68.5 bits (168), Expect = 7e-15
 Identities = 13/85 (15%), Positives = 31/85 (36%), Gaps = 7/85 (8%)

Query: 1   MTHML----NALSGGKLLVILEGGYNLRSISSSATSVIKVLLGENPGCELGDSAPSKSGL 56
           M          +  G+++ + EGGY+   +     +VI+ L G     +      +  G 
Sbjct: 288 MARRTIDCAADICDGRIVFVQEGGYSPHYLPFCGLAVIEELTGVRSLPDPYHEFLAGMGG 347

Query: 57  VTVLEVLKIQMNFWPSLASRFTELQ 81
            T+L+    +      +     +++
Sbjct: 348 NTLLDA---ERAAIEEIVPLLADIR 369

>3men_A Acetylpolyamine aminohydrolase; histone deacetylase; 2.20A {Burkholderia pseudomallei 1710B} Length = 362

 Score = 57.1 bits (138), Expect = 7e-11
 Identities = 10/39 (25%), Positives = 21/39 (53%), Gaps = 1/39 (2%)

Query: 1   MTHMLNALSGGKLLVILEGGYNLRSISSSATSVIKVLLG 39
           + H++ AL     +++ EGGY++ S+ ++A S       
Sbjct: 322 LGHLIGAL-RLPTVIVQEGGYHIESLEANARSFFGGFGA 359

>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

 Score = 56.3 bits (136), Expect = 2e-10
 Identities = 14/39 (35%), Positives = 22/39 (56%), Gaps = 1/39 (2%)

Query: 1   MTHMLNALSGGKLLVILEGGYNLRSISSSATSVIKVLLG 39
           M   + A  G  LLV++EGGY +  I  +  +V+K + G
Sbjct: 304 MGRTIAAS-GVPLLVVMEGGYGVPEIGLNVANVLKGVAG 341

>4a69_A Histone deacetylase 3,; transcription, hydrolase; HET: I0P; 2.06A {Homo sapiens} Length = 376

 Score = 49.3 bits (118), Expect = 4e-08
 Identities = 19/101 (18%), Positives = 37/101 (36%), Gaps = 19/101 (18%)

Query: 1   MTHMLNALSGGKLLVILEGGYNLRSISSSATSVIKVLLGENPGCELGDSAPSKSGLVTVL 60
               + +     LLV+  GGY +R+++   T    +L+ E    EL  S           
Sbjct: 279 CVEYVKSF-NIPLLVLGGGGYTVRNVARCWTYETSLLVEEAISEELPYS----------- 326

Query: 61  EVLKIQMNFWPSLASRFTELQSLWEIYAAENKKKQIKKIRR 101
                   ++   A  FT    +      +N ++ + +IR+
Sbjct: 327 -------EYFEYFAPDFTLHPDVSTRIENQNSRQYLDQIRQ 360

>3max_A HD2, histone deacetylase 2; class 2, HDAC, foot pocket, hydrolase; HET: LLX NHE; 2.05A {Homo sapiens} Length = 367

 Score = 48.8 bits (117), Expect = 5e-08
 Identities = 11/46 (23%), Positives = 19/46 (41%), Gaps = 1/46 (2%)

Query: 1   MTHMLNALSGGKLLVILEGGYNLRSISSSATSVIKVLLGENPGCEL 46
              ++       LL++  GGY +R+++   T    V L      EL
Sbjct: 278 CVEVVKTF-NLPLLMLGGGGYTIRNVARCWTYETAVALDCEIPNEL 322

>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

 Score = 47.0 bits (112), Expect = 3e-07
 Identities = 9/52 (17%), Positives = 24/52 (46%), Gaps = 1/52 (1%)

Query: 1   MTHMLNALSGGKLLVILEGGYNLRSISSSATSVIKVLLGENPGCELGDSAPS 52
             +++  +  G+ + +  GGY+  +++ + T +   L G     +L + A  
Sbjct: 278 AFNIVREV-FGEGVYLGGGGYHPYALARAWTLIWCELSGREVPEKLNNKAKE 328

>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

 Score = 46.9 bits (112), Expect = 3e-07
 Identities = 11/46 (23%), Positives = 20/46 (43%), Gaps = 1/46 (2%)

Query: 1   MTHMLNALSGGKLLVILEGGYNLRSISSSATSVIKVLLGENPGCEL 46
               +        L++  GGYNL + +   T +  V+LG+    E+
Sbjct: 287 CLKYILQW-QLATLILGGGGYNLANTARCWTYLTGVILGKTLSSEI 331

Structure Templates Detected by HHsearch

Original result of HHsearch against PDB70 database

ID	Length	Definition	Probability
Query	132
2pqp_A	421	HD7A, histone deacetylase 7A; HDAC, structural gen	99.64
2vqm_A	413	HD4, histone deacetylase 4; inhibitor, repressor,	99.56
1zz1_A	369	Histone deacetylase-like amidohydrolase; HET: SHH;	98.61
1c3p_A	375	Protein (HDLP (histone deacetylase-like protein) )	97.85
4a69_A	376	Histone deacetylase 3,; transcription, hydrolase;	97.58
3max_A	367	HD2, histone deacetylase 2; class 2, HDAC, foot po	97.35
3ew8_A	388	HD8, histone deacetylase 8; hydrolase, HDAC, metal	97.22

>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*

Probab=99.56  E-value=3.5e-15  Score=125.81  Aligned_cols=76  Identities=25%  Similarity=0.531  Sum_probs=68.1

Q ss_pred             ChhHHhhccCCcEEEEecCCCCcchHHHHHHHHHHHHcCCCCCCCCC---CCCCChhHHHHHHHHHHHHhccCcchhhh
Q 032833            1 MTHMLNALSGGKLLVILEGGYNLRSISSSATSVIKVLLGENPGCELG---DSAPSKSGLVTVLEVLKIQMNFWPSLASR   76 (132)
Q Consensus         1 mt~~L~~l~~Grlv~vLEGGYnl~sLa~sv~avlr~Llg~~~~~~~~---~~~ps~~~~~~i~~v~~~h~~yW~~l~~~   76 (132)
                      ||+++.++|+||++++||||||+++++.|+.+++++|+|++.++++.   ...|+..+.++|++|+++|++||+||+..
T Consensus       312 ~~~~l~~~a~~~~v~vleGGY~~~~l~~~~~~~~~~l~g~~~~~~p~~~~~~~p~~~~~~~~~~v~~~~~~~W~~l~~~  390 (413)
T 2vqm_A          312 LTKQLMGLAGGRIVLALEGGHDLTAICDASEACVSALLGNELDPLPEKVLQQRPNANAVRSMEKVMEIHSKYWRCLQRT  390 (413)
T ss_dssp             HHHHHHTSGGGCEEEEECCCCCHHHHHHHHHHHHHHHTTCCCCCCCHHHHHCCCCHHHHHHHHHHHHHHHTTCGGGTSC
T ss_pred             HHHHHHHhcCCCEEEEeCcCCChHHHHHHHHHHHHHHcCCCCCCCChhhhhcCCChHHHHHHHHHHHHHHHHhhhhhcc
Confidence            57889999999999999999999999999999999999988665543   25788999999999999999999999763

>1zz1_A Histone deacetylase-like amidohydrolase; HET: SHH; 1.57A {Alcaligenaceae bacterium} PDB: 1zz0_A* 1zz3_A* 2gh6_A* 2vcg_A*

Probab=98.61  E-value=3.4e-08  Score=82.11  Aligned_cols=63  Identities=16%  Similarity=0.241  Sum_probs=46.6

Q ss_pred             hhccCCcEEEEecCCCCcchHHHHHHHHHHHHcCCCCCCCCCC------CCCChhHHHHHHHHHHHHhccC
Q 032833            6 NALSGGKLLVILEGGYNLRSISSSATSVIKVLLGENPGCELGD------SAPSKSGLVTVLEVLKIQMNFW   70 (132)
Q Consensus         6 ~~l~~Grlv~vLEGGYnl~sLa~sv~avlr~Llg~~~~~~~~~------~~ps~~~~~~i~~v~~~h~~yW   70 (132)
                      .++|+||++++||||||+++++.|+.+++++|+|.++  .+++      ..|+.+..+.+.++++..+.+|
T Consensus       297 ~~~~~g~vv~vleGGY~~~~l~~~~~~~~~~l~g~~~--~~~p~~~~~~~~~~~~~~~~~~~~i~~~~~~~  365 (369)
T 1zz1_A          297 ADICDGRIVFVQEGGYSPHYLPFCGLAVIEELTGVRS--LPDPYHEFLAGMGGNTLLDAERAAIEEIVPLL  365 (369)
T ss_dssp             HHHSTTCEEEEECCCCCTTTHHHHHHHHHHHHHCCCC--CCCTTHHHHHTTCCCSCCHHHHHHHHTTGGGG
T ss_pred             HHhCCCCEEEEECCCCCccHHHHHHHHHHHHHhCCCC--CCCchhHHHhhccccchHHHHHHHHHHHHHHh
Confidence            3457999999999999999999999999999999876  2221      2233344455566666666666

>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*

Probab=97.85  E-value=8.5e-06  Score=67.79  Aligned_cols=62  Identities=11%  Similarity=0.102  Sum_probs=46.3

Q ss_pred             ChhHHhhccCCcEEEEecCCCCcchHHHHHHHHHHHHcCCCCCCCCCCCCCChhHHHHHHHHHHHHhccCcchh
Q 032833            1 MTHMLNALSGGKLLVILEGGYNLRSISSSATSVIKVLLGENPGCELGDSAPSKSGLVTVLEVLKIQMNFWPSLA   74 (132)
Q Consensus         1 mt~~L~~l~~Grlv~vLEGGYnl~sLa~sv~avlr~Llg~~~~~~~~~~~ps~~~~~~i~~v~~~h~~yW~~l~   74 (132)
                      |++++.+++. +++++||||||+.+++.|+.+++++|+|.+.+..    -|. ...      -..+..+|++..
T Consensus       278 ~~~~l~~~a~-~vv~vleGGY~~~~l~~~~~~~~~~l~g~~~~~~----lp~-~~~------~~~~~~~~~~~~  339 (375)
T 1c3p_A          278 AFNIVREVFG-EGVYLGGGGYHPYALARAWTLIWCELSGREVPEK----LNN-KAK------ELLKSIDFEEFD  339 (375)
T ss_dssp             HHHHHHHHHC-SCEEECCCCCCHHHHHHHHHHHHHHHHTCCCCSS----CCH-HHH------HHHHHSCCCCSS
T ss_pred             HHHHHHHhcc-ceEEEECCCCChHHHHHHHHHHHHHHcCCCCCcc----CCH-HHH------HHHHhcCccccc
Confidence            4677888876 5999999999999999999999999999764321    221 122      223568899875

>4a69_A Histone deacetylase 3,; transcription, hydrolase; HET: I0P; 2.06A {Homo sapiens}

Probab=97.58  E-value=5.3e-05  Score=63.14  Aligned_cols=41  Identities=24%  Similarity=0.373  Sum_probs=35.3

Q ss_pred             hhHHhhccCCcEEEEecCCCCcchHHHHHHHHHHHHcCCCCC
Q 032833            2 THMLNALSGGKLLVILEGGYNLRSISSSATSVIKVLLGENPG   43 (132)
Q Consensus         2 t~~L~~l~~Grlv~vLEGGYnl~sLa~sv~avlr~Llg~~~~   43 (132)
                      ++++.++ ++|+++++||||++.+++.|.+.+...++|.+.+
T Consensus       280 ~~~l~~~-~~p~v~v~eGGY~~~~var~w~~~~a~l~g~~~~  320 (376)
T 4a69_A          280 VEYVKSF-NIPLLVLGGGGYTVRNVARCWTYETSLLVEEAIS  320 (376)
T ss_dssp             HHHHHTT-CCCEEEECCCCCSHHHHHHHHHHHHHHHTTCCCC
T ss_pred             HHHHHHc-CCCEEEEECCCCChhHHHHHHHHHHHHhcCCCcc
Confidence            4556665 6899999999999999999999999999997643

>3max_A HD2, histone deacetylase 2; class 2, HDAC, foot pocket, hydrolase; HET: LLX NHE; 2.05A {Homo sapiens}

Probab=97.35  E-value=0.00016  Score=60.08  Aligned_cols=41  Identities=22%  Similarity=0.271  Sum_probs=35.2

Q ss_pred             hhHHhhccCCcEEEEecCCCCcchHHHHHHHHHHHHcCCCCC
Q 032833            2 THMLNALSGGKLLVILEGGYNLRSISSSATSVIKVLLGENPG   43 (132)
Q Consensus         2 t~~L~~l~~Grlv~vLEGGYnl~sLa~sv~avlr~Llg~~~~   43 (132)
                      ++++.+ +++|+++++||||++.+++.|.+.+...++|.+.+
T Consensus       279 ~~~~~~-~~~p~v~~~eGGY~~~~var~wt~~ta~~~~~~i~  319 (367)
T 3max_A          279 VEVVKT-FNLPLLMLGGGGYTIRNVARCWTYETAVALDCEIP  319 (367)
T ss_dssp             HHHHHT-TCCCEEEECCCCCSHHHHHHHHHHHHHHHTTCCCC
T ss_pred             HHHHHh-cCCCEEEEeCCCCChhHHHHHHHHHHHHHhhcccc
Confidence            455555 47899999999999999999999999999997644

>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*

Probab=97.22  E-value=0.00023  Score=59.54  Aligned_cols=41  Identities=24%  Similarity=0.317  Sum_probs=34.3

Q ss_pred             hhHHhhccCCcEEEEecCCCCcchHHHHHHHHHHHHcCCCCC
Q 032833            2 THMLNALSGGKLLVILEGGYNLRSISSSATSVIKVLLGENPG   43 (132)
Q Consensus         2 t~~L~~l~~Grlv~vLEGGYnl~sLa~sv~avlr~Llg~~~~   43 (132)
                      ++++.+. +.++++++||||++.+++.|.+.+...|+|.+.+
T Consensus       288 ~~~l~~~-~~p~l~~~gGGY~~~~var~w~~~~~~l~g~~l~  328 (388)
T 3ew8_A          288 LKYILQW-QLATLILGGGGYNLANTARCWTYLTGVILGKTLS  328 (388)
T ss_dssp             HHHHHTT-CCEEEEECCCCCSHHHHHHHHHHHHHHHHTCCCC
T ss_pred             HHHHHhc-CCCEEEEECCCCChhHHHHHHHHHHHHHcCCCCC
Confidence            3455554 4689999999999999999999999999997643

---

Homologous Structure Domains

Structure Domains Detected by RPS-BLAST

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

ID	Length	Definition	E-value
Query	132
d3c10a1	386	c.42.1.2 (A:515-900) Histone deacetylase 7, HDAC7	6e-17
d1c3pa_	372	c.42.1.2 (A:) HDAC homologue {Aquifex aeolicus [Ta	8e-09
d1t64a_	364	c.42.1.2 (A:) Histone deacetylase 8, HDAC8 {Human	9e-07

>d3c10a1 c.42.1.2 (A:515-900) Histone deacetylase 7, HDAC7 {Human (Homo sapiens) [TaxId: 9606]} Length = 386

class: Alpha and beta proteins (a/b)
fold: Arginase/deacetylase
superfamily: Arginase/deacetylase
family: Histone deacetylase, HDAC
domain: Histone deacetylase 7, HDAC7
species: Human (Homo sapiens) [TaxId: 9606]

 Score = 73.4 bits (179), Expect = 6e-17
 Identities = 18/76 (23%), Positives = 40/76 (52%), Gaps = 3/76 (3%)

Query: 1   MTHMLNALSGGKLLVILEGGYNLRSISSSATSVIKVLLGENPGCELGDS---APSKSGLV 57
           MT  L  L+GG +++ LEGG++L +I  ++ + +  LLG        +     P+ + + 
Sbjct: 309 MTQQLMNLAGGAVVLALEGGHDLTAICDASEACVAALLGNRVDPLSEEGWKQKPNLNAIR 368

Query: 58  TVLEVLKIQMNFWPSL 73
           ++  V+++   +W  +
Sbjct: 369 SLEAVIRVHSKYWGCM 384

>d1c3pa_ c.42.1.2 (A:) HDAC homologue {Aquifex aeolicus [TaxId: 63363]} Length = 372

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 = 50.3 bits (119), Expect = 8e-09
 Identities = 9/52 (17%), Positives = 24/52 (46%), Gaps = 1/52 (1%)

Query: 1   MTHMLNALSGGKLLVILEGGYNLRSISSSATSVIKVLLGENPGCELGDSAPS 52
             +++  +  G+ + +  GGY+  +++ + T +   L G     +L + A  
Sbjct: 277 AFNIVREV-FGEGVYLGGGGYHPYALARAWTLIWCELSGREVPEKLNNKAKE 327

>d1t64a_ c.42.1.2 (A:) Histone deacetylase 8, HDAC8 {Human (Homo sapiens) [TaxId: 9606]} Length = 364

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]

 Score = 44.0 bits (103), Expect = 9e-07
 Identities = 12/48 (25%), Positives = 21/48 (43%), Gaps = 1/48 (2%)

Query: 1   MTHMLNALSGGKLLVILEGGYNLRSISSSATSVIKVLLGENPGCELGD 48
               +        L++  GGYNL + +   T +  V+LG+    E+ D
Sbjct: 274 CLKYILQW-QLATLILGGGGYNLANTARCWTYLTGVILGKTLSSEIPD 320

Homologous Domains Detected by HHsearch

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

ID	Length	Definition	Probability
Query	132
d3c10a1	386	Histone deacetylase 7, HDAC7 {Human (Homo sapiens)	99.56
d1c3pa_	372	HDAC homologue {Aquifex aeolicus [TaxId: 63363]}	98.21
d1t64a_	364	Histone deacetylase 8, HDAC8 {Human (Homo sapiens)	97.55

>d3c10a1 c.42.1.2 (A:515-900) Histone deacetylase 7, HDAC7 {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: Arginase/deacetylase
superfamily: Arginase/deacetylase
family: Histone deacetylase, HDAC
domain: Histone deacetylase 7, HDAC7
species: Human (Homo sapiens) [TaxId: 9606]

Probab=99.56  E-value=1.7e-15  Score=124.17  Aligned_cols=75  Identities=24%  Similarity=0.511  Sum_probs=66.3

Q ss_pred             ChhHHhhccCCcEEEEecCCCCcchHHHHHHHHHHHHcCCCCCCCCC---CCCCChhHHHHHHHHHHHHhccCcchhh
Q 032833            1 MTHMLNALSGGKLLVILEGGYNLRSISSSATSVIKVLLGENPGCELG---DSAPSKSGLVTVLEVLKIQMNFWPSLAS   75 (132)
Q Consensus         1 mt~~L~~l~~Grlv~vLEGGYnl~sLa~sv~avlr~Llg~~~~~~~~---~~~ps~~~~~~i~~v~~~h~~yW~~l~~   75 (132)
                      |++++.++|+||++++||||||++++++|+.+++++|+|++.++...   ...|+.+..+++++++++|++||+||++
T Consensus       309 ~~~~l~~~~~~~vv~vleGGY~~~~l~~~~~~~~~~l~g~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~w~~~~~  386 (386)
T d3c10a1         309 MTQQLMNLAGGAVVLALEGGHDLTAICDASEACVAALLGNRVDPLSEEGWKQKPNLNAIRSLEAVIRVHSKYWGCMQR  386 (386)
T ss_dssp             HHHHHTTSGGGCEEEEECSCCCHHHHHHHHHHHHHHHHTCCCCGGGCSGGGSCCCHHHHHHHHHHHHHHTTTCGGGCC
T ss_pred             HHHHHHHHcCCCEEEEeCCCCChhHHHHHHHHHHHHHhCCCCCCCCccccccCCCHHHHHHHHHHHHHHHHhhHhhcC
Confidence            57889999999999999999999999999999999999987554332   3578888999999999999999999963

>d1c3pa_ c.42.1.2 (A:) HDAC homologue {Aquifex aeolicus [TaxId: 63363]}

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]

Probab=98.21  E-value=3.1e-07  Score=74.23  Aligned_cols=42  Identities=17%  Similarity=0.219  Sum_probs=37.0

Q ss_pred             ChhHHhhccCCcEEEEecCCCCcchHHHHHHHHHHHHcCCCCC
Q 032833            1 MTHMLNALSGGKLLVILEGGYNLRSISSSATSVIKVLLGENPG   43 (132)
Q Consensus         1 mt~~L~~l~~Grlv~vLEGGYnl~sLa~sv~avlr~Llg~~~~   43 (132)
                      |++++.+++ ||++++||||||+.++++|+++++.+|+|.+.+
T Consensus       277 ~~~~~~~~~-~~~~~vleGGY~~~~~a~~~~~~~~~l~g~~~~  318 (372)
T d1c3pa_         277 AFNIVREVF-GEGVYLGGGGYHPYALARAWTLIWCELSGREVP  318 (372)
T ss_dssp             HHHHHHHHH-CSCEEECCCCCCHHHHHHHHHHHHHHHHTCCCC
T ss_pred             HHHHHHHhC-CCeEEEEcCCCcHHHHHHHHHHHHHHHhCCCCC
Confidence            467777765 799999999999999999999999999997643

>d1t64a_ c.42.1.2 (A:) Histone deacetylase 8, HDAC8 {Human (Homo sapiens) [TaxId: 9606]}

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=97.55  E-value=2.5e-05  Score=62.69  Aligned_cols=41  Identities=24%  Similarity=0.317  Sum_probs=35.2

Q ss_pred             hhHHhhccCCcEEEEecCCCCcchHHHHHHHHHHHHcCCCCC
Q 032833            2 THMLNALSGGKLLVILEGGYNLRSISSSATSVIKVLLGENPG   43 (132)
Q Consensus         2 t~~L~~l~~Grlv~vLEGGYnl~sLa~sv~avlr~Llg~~~~   43 (132)
                      ++++.++ ++++++++|||||+.+++.|.+.+..+|+|.+.+
T Consensus       275 ~~~l~~~-~~p~~~~~~GGY~~~~~ar~w~~~~~~l~g~~~~  315 (364)
T d1t64a_         275 LKYILQW-QLATLILGGGGYNLANTARCWTYLTGVILGKTLS  315 (364)
T ss_dssp             HHHHHTT-CCEEEEECCCCCSHHHHHHHHHHHHHHHHTCCCC
T ss_pred             HHHHHhc-CCCEEEEECCCCCHHHHHHHHHHHHHHHcCCCCC
Confidence            5566665 4699999999999999999999999999997643