Citrus Sinensis ID: 029525

---

Local Sequence Feature Prediction

Residue Number Marker
--------10--------20--------30--------40--------50--------60--------70--------80--------90-------100-------110-------120-------130-------140-------150-------160-------170-------180-------190--
Protein Sequence
MSSSSSPSVTTDAETLKRNRILSSKLYFDIPIFKLPLIYSPDYDISFLGIEKLHPFDSSKWGRICQFLSSEGFLDKNCIVEPLEASKEDLLVVHSESYLKSLQSSPNVSIIIEVPPVALFPNCLVQRKVLYPFRKQVGGTILAAKLAKERGWAINVGGGFHHCSADEGGGFCAYADISLCIHYAFVQLNISR
Secondary Structure (PSIPRED)
ccccccccccccHHHHHHHHccccccccccccccccEEEcccccccccccccccccccHHHHHHHHHHHHccccccccEEccccccHHHHHHHccHHHHHHHHcccccccccccccccccccccHHHHHHHHHHHHHHHHHHHHHHHHHccEEEEEcccHHccccccccccHHHcHHHHHHHHHHHHccccc
Secondary Structure Prediction (SSPRO)
ccccccccccccHHHHHHHHHHccccEEccccccccEEEccccccccccccccccccHHHHHHHHHHHHHcccccHHcEcccccccHHHHHHHccHHHHHHHHccccccHEcccccHcccccccccHHHHHHHHHHHHHHHHHHHHHHHcccEEEEccccccccccccccHHHHHHHHHHHHHHHHcccccc
Coil and Loop (DISEMBL)
mssssspsvttdaetlkrnrilssklyfdipifklpliyspdydisflgieklhpfdsskwgricqflssegfldkncivepleaskeDLLVVHSESYLKslqsspnvsiiievppvalfpnclvqrkvLYPFRKQVGGTILAAKLAKERGwainvgggfhhcsadegggfcayADISLCIHYAFVQLNISR
Flexible Loop (DISEMBL)
mssssspsvttdaetlkrnrilssklyFDIPIFKLPLIYSPDYDISFLGIEKLHPFDSSKWGRICQFLSSEGFLDKNCIVEPLEASKEDLLVVHSESYLKSLQSSPNVSIIIEVPPVALFPNCLVQRKVLYPFRKQVGGTILAAKLAKERGWAINVGGGFHHCSADEGGGFCAYADISLCIHYAFVQLNISR
Low Complexity Region (SEG)
MssssspsVTTDAETLKRNRILSSKLYFDIPIFKLPLIYSPDYDISFLGIEKLHPFDSSKWGRICQFLSSEGFLDKNCIVEPLEASKEDLLVVHSESYLKSLQSSPNVSIIIEVPPVALFPNCLVQRKVLYPFRKQVGGTILAAKLAKERGWAINVGGGFHHCSADEGGGFCAYADISLCIHYAFVQLNISR
Disordered region (IsUnstruct)
******************NRILSSKLYFDIPIFKLPLIYSPDYDISFLGIEKLHPFDSSKWGRICQFLSSEGFLDKNCIVEPLEASKEDLLVVHSESYLKSLQSSPNVSIIIEVPPVALFPNCLVQRKVLYPFRKQVGGTILAAKLAKERGWAINVGGGFHHCSADEGGGFCAYADISLCIHYAFVQLN***
Disordered Region (DISOPRED)
********************************FKLPLIYSPDYDISFLGIEKLHPFDSSKWGRICQFLSSEGFLDKNCIVEPLEASKEDLLVVHSESYLKSLQSSPNV*IIIEVPPVALFPNCLVQRKVLYPFRKQVGGTILAAKLAKERGWAINVGGGFHHCSADEGGGFCAYADISLCIHYAFVQLN***
Disordered Region (DISEMBL)
**************TLKRNRILSSKLYFDIPIFKLPLIYSPDYDISFLGIEKLHPFDSSKWGRICQFLSSEGFLDKNCIVEPLEASKEDLLVVHSESYLKSLQSSPNVSIIIEVPPVALFPNCLVQRKVLYPFRKQVGGTILAAKLAKERGWAINVGGGFHHCSADEGGGFCAYADISLCIHYAFVQLNISR
Disordered Region (DISPRO)
*************ETLKRNRILSSKLYFDIPIFKLPLIYSPDYDISFLGIEKLHPFDSSKWGRICQFLSSEGFLDKNCIVEPLEASKEDLLVVHSESYLKSLQSSPNVSIIIEVPPVALFPNCLVQRKVLYPFRKQVGGTILAAKLAKERGWAINVGGGFHHCSADEGGGFCAYADISLCIHYAFVQL****
Transmembrane Helix (TMHMM)
oooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
Transmembrane Helix (HMMTOP)
iiiiiiiiiiiiiiiiiiiiHHHHHHHHHHHHHHHHHHooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooHHHHHHHHHHHHHHHHHHiiiiii
Transmembrane Helix (MEMSAT)
ooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooohhhhhhhhhhhhhhhhhhhhiiiiiii
TM Helix, Signal Peptide (MEMSAT_SVM)
iiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiihhhhhhhhhhhhhhhhooooooooo
TM Helix, Signal Peptide (Phobius)
oooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
Signal Peptide (SignalP HMM Mode)
xxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxx
Signal Peptide (SignalP NN Mode)
xxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxx
Coiled Coils (COILS)
MSSSSSPSVTTDAETLKRNRILSSKLYFDIPIFKLPLIYSPDYDISFLGIEKLHPFDSSKWGRICQFLSSEGFLDKNCIVEPLEASKEDLLVVHSESYLKSLQSSPNVSIIIEVPPVALFPNCLVQRKVLYPFRKQVGGTILAAKLAKERGWAINVGGGFHHCSADEGGGFCAYADISLCIHYAFVQLNISR
Positional Conservation
no confident homologs detected

---

Close Homologs for Annotation Transfer

Close Homologs in SWISS-PROT Database Detected by BLAST

Original result of BLAST against SWISS-PROT Database

ID	Length	Definition	RBH(Q2H)	RBH(H2Q)	Q cover	H cover	Identity	E-value
Query	192	2.2.26 [Sep-21-2011]
Q944K3	387	Histone deacetylase 2 OS=	yes	no	0.994	0.493	0.732	7e-81
Q96DB2	347	Histone deacetylase 11 OS	yes	no	0.885	0.489	0.584	7e-57
Q9GKU5	347	Histone deacetylase 11 OS	N/A	no	0.885	0.489	0.584	8e-57
Q91WA3	347	Histone deacetylase 11 OS	yes	no	0.885	0.489	0.584	4e-56
P28606	300	Uncharacterized protein S	yes	no	0.697	0.446	0.295	7e-09
P39067	387	Acetoin utilization prote	yes	no	0.723	0.359	0.286	4e-08
Q6GFX3	389	Acetoin utilization prote	yes	no	0.697	0.344	0.267	4e-07
B1H369	369	Histone deacetylase 8 OS=	yes	no	0.593	0.308	0.316	7e-07
Q56195	385	Acetoin utilization prote	N/A	no	0.708	0.353	0.235	2e-06
Q8NW34	389	Acetoin utilization prote	yes	no	0.697	0.344	0.260	2e-06

>sp|Q944K3|HDA2_ARATH Histone deacetylase 2 OS=Arabidopsis thaliana GN=HDA2 PE=1 SV=2

 Score =  299 bits (766), Expect = 7e-81,   Method: Compositional matrix adjust.
 Identities = 140/191 (73%), Positives = 164/191 (85%)

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

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

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

Query: 182 HYAFVQLNISR 192
           H+AF++L ISR
Sbjct: 221 HFAFLRLRISR 231

Responsible for the deacetylation of lysine residues on the N-terminal part of the core histones (H2A, H2B, H3 and H4). Histone deacetylation gives a tag for epigenetic repression and plays an important role in transcriptional regulation, cell cycle progression and developmental events. Histone deacetylases act via the formation of large multiprotein complexes.
Arabidopsis thaliana (taxid: 3702)
EC: 3EC: .EC: 5EC: .EC: 1EC: .EC: 9EC: 8

>sp|Q96DB2|HDA11_HUMAN Histone deacetylase 11 OS=Homo sapiens GN=HDAC11 PE=1 SV=1

 Score =  219 bits (559), Expect = 7e-57,   Method: Compositional matrix adjust.
 Identities = 100/171 (58%), Positives = 127/171 (74%), Gaps = 1/171 (0%)

Query: 23  SSKLYFDIPIFKLPLIYSPDYDISFLGIEKLHPFDSSKWGRICQFLSSEGFLDKNCIVEP 82
           +++LY  +P  + P++YSP Y+I+F+G+EKLHPFD+ KWG++  FL  E  L  + +VE 
Sbjct: 4   TTQLYQHVPETRWPIVYSPRYNITFMGLEKLHPFDAGKWGKVINFLKEEKLLSDSMLVEA 63

Query: 83  LEASKEDLLVVHSESYLKSLQSSPNVSIIIEVPPVALFPNCLVQRKVLYPFRKQVGGTIL 142
            EAS+EDLLVVH+  YL  L+ S  V+ I E+PPV   PN LVQRKVL P R Q GGTI+
Sbjct: 64  REASEEDLLVVHTRRYLNELKWSFAVATITEIPPVIFLPNFLVQRKVLRPLRTQTGGTIM 123

Query: 143 AAKLAKERGWAINVGGGFHHCSADEGGGFCAYADISLCIHYAFVQL-NISR 192
           A KLA ERGWAINVGGGFHHCS+D GGGFCAYADI+L I + F ++  ISR
Sbjct: 124 AGKLAVERGWAINVGGGFHHCSSDRGGGFCAYADITLAIKFLFERVEGISR 174

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

>sp|Q9GKU5|HDA11_MACFA Histone deacetylase 11 OS=Macaca fascicularis GN=HDAC11 PE=2 SV=2

 Score =  219 bits (558), Expect = 8e-57,   Method: Compositional matrix adjust.
 Identities = 100/171 (58%), Positives = 127/171 (74%), Gaps = 1/171 (0%)

Query: 23  SSKLYFDIPIFKLPLIYSPDYDISFLGIEKLHPFDSSKWGRICQFLSSEGFLDKNCIVEP 82
           +++LY  +P  + P++YSP Y+I+F+G+EKLHPFD+ KWG++  FL  E  L  + +VE 
Sbjct: 4   TTQLYQHVPETRWPIVYSPRYNITFMGLEKLHPFDAGKWGKVINFLKEEKLLSDSMLVEA 63

Query: 83  LEASKEDLLVVHSESYLKSLQSSPNVSIIIEVPPVALFPNCLVQRKVLYPFRKQVGGTIL 142
            EAS+EDLLVVH+  YL  L+ S  V+ I E+PPV   PN LVQRKVL P R Q GGTI+
Sbjct: 64  REASEEDLLVVHTRRYLNELKWSFAVATITEIPPVIFLPNFLVQRKVLRPLRTQTGGTIM 123

Query: 143 AAKLAKERGWAINVGGGFHHCSADEGGGFCAYADISLCIHYAFVQL-NISR 192
           A KLA ERGWAINVGGGFHHCS+D GGGFCAYADI+L I + F ++  ISR
Sbjct: 124 AGKLAVERGWAINVGGGFHHCSSDRGGGFCAYADITLAIKFLFERVEGISR 174

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.

Macaca fascicularis (taxid: 9541)

EC: 3

EC: .

EC: 5

EC: .

EC: 1

EC: .

EC: 9

EC: 8

>sp|Q91WA3|HDA11_MOUSE Histone deacetylase 11 OS=Mus musculus GN=Hdac11 PE=2 SV=1

 Score =  217 bits (552), Expect = 4e-56,   Method: Compositional matrix adjust.
 Identities = 100/171 (58%), Positives = 126/171 (73%), Gaps = 1/171 (0%)

Query: 23  SSKLYFDIPIFKLPLIYSPDYDISFLGIEKLHPFDSSKWGRICQFLSSEGFLDKNCIVEP 82
           +++LY  +P  + P++YSP Y+I+F+G+EKLHPFD+ KWG++  FL  E  L    +VE 
Sbjct: 4   ATQLYQHVPEKRWPIVYSPRYNITFMGLEKLHPFDAGKWGKVINFLKEEKLLSDGMLVEA 63

Query: 83  LEASKEDLLVVHSESYLKSLQSSPNVSIIIEVPPVALFPNCLVQRKVLYPFRKQVGGTIL 142
            EAS+EDLLVVH+  YL  L+ S  V+ I E+PPV   PN LVQRKVL P R Q GGTI+
Sbjct: 64  REASEEDLLVVHTRRYLNELKWSFVVATITEIPPVIFLPNFLVQRKVLRPLRTQTGGTIM 123

Query: 143 AAKLAKERGWAINVGGGFHHCSADEGGGFCAYADISLCIHYAFVQL-NISR 192
           A KLA ERGWAINVGGGFHHCS+D GGGFCAYADI+L I + F ++  ISR
Sbjct: 124 AGKLAVERGWAINVGGGFHHCSSDRGGGFCAYADITLAIKFLFERVEGISR 174

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|P28606|Y1628_SYNP2 Uncharacterized protein SYNPCC7002_A1628 OS=Synechococcus sp. (strain ATCC 27264 / PCC 7002 / PR-6) GN=SYNPCC7002_A1628 PE=3 SV=2

 Score = 60.5 bits (145), Expect = 7e-09,   Method: Compositional matrix adjust.
 Identities = 44/149 (29%), Positives = 66/149 (44%), Gaps = 15/149 (10%)

Query: 35  LPLIYSPDYDISFLGIEKLHPFDSSKWGRICQFLSSEGFLDKNCIVEPLEASKEDLLVVH 94
            P++Y PDY      I + H F   K+  +   L  +G +    + +P    +  L +VH
Sbjct: 3   FPVVYHPDY---VTPIPEEHRFPMPKFRLLHGLLLEDGVIQPEQVYQPQLPDRAWLELVH 59

Query: 95  SESYLKSL---QSSPNVSIIIEVPPVALFPNCLVQRKVLYPFRKQVGGTILAAKLAKERG 151
              Y+ +      +P     I +P    +   +VQR +       VGGTIL A+LA E G
Sbjct: 60  EPDYVTAYCQGTLTPKAQRRIGLP----WSAGVVQRTL-----TAVGGTILTAQLALEHG 110

Query: 152 WAINVGGGFHHCSADEGGGFCAYADISLC 180
            A N  GG HH     G GFC   D+++ 
Sbjct: 111 LACNTAGGTHHAFPGYGSGFCILNDLAIA 139

Putative deacetylase.

Synechococcus sp. (strain ATCC 27264 / PCC 7002 / PR-6) (taxid: 32049)

>sp|P39067|ACUC_BACSU Acetoin utilization protein AcuC OS=Bacillus subtilis (strain 168) GN=acuC PE=3 SV=1

 Score = 58.2 bits (139), Expect = 4e-08,   Method: Compositional matrix adjust.
 Identities = 45/157 (28%), Positives = 67/157 (42%), Gaps = 18/157 (11%)

Query: 37  LIYSPDYDISFLGIEKLHPFDSSKWGRICQFLSSEGFLDKNCIVEPLEASKEDLLVVHSE 96
            IYSP Y       E  HPF+  +       L +    D   IV P  AS+E+L +VH++
Sbjct: 6   FIYSPSYQTYMFHQE--HPFNQQRVLLTYDLLKTINAFDDGDIVTPRLASEEELSLVHTD 63

Query: 97  SYLKS--------LQSSPNVSIIIEVPPVALFPNCLVQRKVLYPFRKQVGGTILAAK--L 146
            Y+++        L +    S  +      +F        +L      VGGT+ AA   +
Sbjct: 64  DYIQAVKLAGAGKLPAEEGESYGLGTEDTPVFAGMHEAASLL------VGGTLTAADWVM 117

Query: 147 AKERGWAINVGGGFHHCSADEGGGFCAYADISLCIHY 183
           + +   A N+GGG HH       GFC Y D ++ I Y
Sbjct: 118 SGQALHAANLGGGLHHGFRGRASGFCIYNDSAVAIQY 154

Role in growth and sporulation on acetoin or butanediol. Involved in the breakdown of these compounds used as a carbon source.

Bacillus subtilis (strain 168) (taxid: 224308)

>sp|Q6GFX3|ACUC_STAAR Acetoin utilization protein AcuC OS=Staphylococcus aureus (strain MRSA252) GN=acuC PE=3 SV=1

 Score = 54.7 bits (130), Expect = 4e-07,   Method: Compositional matrix adjust.
 Identities = 38/142 (26%), Positives = 65/142 (45%), Gaps = 8/142 (5%)

Query: 54  HPFDSSKWGRICQFLSSEGFLDKNCIVEPLEASKEDLLVVHSESYLKSLQSSPNVSIIIE 113
           HPF+  +     + L +   L    IV+P  A+ ++L+++H   Y+++++ + +  II E
Sbjct: 25  HPFNQMRLKLTTELLLNANLLSPEQIVQPRIATDDELMLIHKYDYVEAIKHASH-GIISE 83

Query: 114 VPPVALFPNCLVQRKVLYPFRKQ---VGGTILAAKLAKERGWAIN---VGGGFHHCSADE 167
              +    N     +  +  R     VGG +  A L    G A+N   +GGG HH     
Sbjct: 84  DEAMKYGLNDEENGQFKHMHRHSATIVGGALTLADLIMS-GKALNGCHLGGGLHHAQPGR 142

Query: 168 GGGFCAYADISLCIHYAFVQLN 189
             GFC Y DI++   Y   + N
Sbjct: 143 ASGFCIYNDIAITAQYLAKEYN 164

Role in growth on acetoin or butanediol. Involved in the breakdown of these compounds used as a carbon source.

Staphylococcus aureus (strain MRSA252) (taxid: 282458)

>sp|B1H369|HDAC8_XENTR Histone deacetylase 8 OS=Xenopus tropicalis GN=hdac8 PE=2 SV=1

 Score = 53.9 bits (128), Expect = 7e-07,   Method: Compositional matrix adjust.
 Identities = 38/120 (31%), Positives = 56/120 (46%), Gaps = 6/120 (5%)

Query: 67  FLSSEGFLDKNCIVEPLEASKEDLLVVHSESYLKSLQ--SSPNVSIIIEVPPVALFPNCL 124
            + + G L +  +V+P  AS E++   H++SYL+ L   S    +   E     L  +C 
Sbjct: 36  LIEAYGLLKEMRVVKPKVASMEEMAAFHTDSYLQHLHKVSEEGDNDDPETLEYGLGYDCP 95

Query: 125 VQRKVLYPFRKQVGGTILAAK---LAKERGWAINVGGGFHHCSADEGGGFCAYADISLCI 181
           +   + Y +   VGG  L A    +A +   AIN  GG+HH   DE  GFC   D  L I
Sbjct: 96  ITEGI-YDYAAAVGGATLTAAEQLMAGKTRIAINWPGGWHHAKKDEASGFCYLNDAVLGI 154

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.

Xenopus tropicalis (taxid: 8364)

EC: 3

EC: .

EC: 5

EC: .

EC: 1

EC: .

EC: 9

EC: 8

>sp|Q56195|ACUC_STAXY Acetoin utilization protein AcuC OS=Staphylococcus xylosus GN=acuC PE=3 SV=1

 Score = 52.0 bits (123), Expect = 2e-06,   Method: Compositional matrix adjust.
 Identities = 33/140 (23%), Positives = 64/140 (45%), Gaps = 4/140 (2%)

Query: 54  HPFDSSKWGRICQFLSSEGFLDKNCIVEPLEASKEDLLVVHSESYLKSLQ-SSPNVSIII 112
           HPF+  +     + L   G L ++ I+ P  A+ ++L ++H+  Y+++++ +S  +    
Sbjct: 25  HPFNQMRLKLTTELLMELGQLKQHHIISPRIATDDELSLIHAYDYIQAIRHASHGILSEN 84

Query: 113 EVPPVALFPNCLVQRKVLYPFRKQVGGTILAAKLAKERGWAIN---VGGGFHHCSADEGG 169
           E     L     +Q ++++    ++ G  L        G   N   +GGG HH       
Sbjct: 85  EAKKYGLDGEDTLQFRMMHKHSARIVGGALNLADQIMSGTLTNGCHLGGGLHHSLPGRAN 144

Query: 170 GFCAYADISLCIHYAFVQLN 189
           GFC Y D+++ I Y   + N
Sbjct: 145 GFCIYNDVAITISYLMQKYN 164

Role in growth on acetoin or butanediol. Involved in the breakdown of these compounds used as a carbon source.

Staphylococcus xylosus (taxid: 1288)

>sp|Q8NW34|ACUC_STAAW Acetoin utilization protein AcuC OS=Staphylococcus aureus (strain MW2) GN=acuC PE=3 SV=1

 Score = 52.0 bits (123), Expect = 2e-06,   Method: Compositional matrix adjust.
 Identities = 37/142 (26%), Positives = 63/142 (44%), Gaps = 8/142 (5%)

Query: 54  HPFDSSKWGRICQFLSSEGFLDKNCIVEPLEASKEDLLVVHSESYLKSLQSSPNVSIIIE 113
           HPF+  +     + L +   L    IV+P  A+ ++L+++H   Y+++++ + +  II E
Sbjct: 25  HPFNQMRLKLTTELLLNANLLSPEQIVQPRIATDDELMLIHKYDYVEAIKHASH-GIISE 83

Query: 114 VPPVALFPNCLVQRKVLYPFRKQ---VGGTILAAKLAKERGWAIN---VGGGFHHCSADE 167
                   N     +  +  R     VGG +  A L    G  +N   +GGG HH     
Sbjct: 84  DEAKKYGLNDEENSQFKHMHRHSATIVGGALTLADLIMS-GKVLNGCHLGGGLHHAQPGR 142

Query: 168 GGGFCAYADISLCIHYAFVQLN 189
             GFC Y DI++   Y   + N
Sbjct: 143 ASGFCIYNDIAITAQYLAKEYN 164

Role in growth on acetoin or butanediol. Involved in the breakdown of these compounds used as a carbon source.

Staphylococcus aureus (strain MW2) (taxid: 196620)

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	192
255550810	342	histone deacetylase, putative [Ricinus c	0.994	0.558	0.806	3e-87
357437493	350	Histone deacetylase [Medicago truncatula	0.984	0.54	0.835	3e-87
388493714	348	unknown [Lotus japonicus]	0.984	0.543	0.828	7e-86
225429480	359	PREDICTED: histone deacetylase 2 [Vitis	0.932	0.498	0.826	6e-85
356564065	348	PREDICTED: histone deacetylase 2-like [G	0.979	0.540	0.791	1e-84
326522206	352	predicted protein [Hordeum vulgare subsp	1.0	0.545	0.737	1e-80
297812823	387	hypothetical protein ARALYDRAFT_489451 [	0.994	0.493	0.738	8e-80
16226804	261	AT5g26040/T1N24_9 [Arabidopsis thaliana]	0.994	0.731	0.732	3e-79
30690103	387	histone deacetylase 2 [Arabidopsis thali	0.994	0.493	0.732	4e-79
449447110	351	PREDICTED: histone deacetylase 2-like [C	0.994	0.544	0.729	2e-78

>gi|255550810|ref|XP_002516453.1| histone deacetylase, putative [Ricinus communis] gi|223544273|gb|EEF45794.1| histone deacetylase, putative [Ricinus communis]

 Score =  326 bits (836), Expect = 3e-87,   Method: Compositional matrix adjust.
 Identities = 154/191 (80%), Positives = 173/191 (90%)

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

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

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

Query: 182 HYAFVQLNISR 192
           H+AFV+L ISR
Sbjct: 196 HFAFVRLRISR 206

Source: Ricinus communis

Species: Ricinus communis

Genus: Ricinus

Family: Euphorbiaceae

Order: Malpighiales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|357437493|ref|XP_003589022.1| Histone deacetylase [Medicago truncatula] gi|355478070|gb|AES59273.1| Histone deacetylase [Medicago truncatula]

 Score =  326 bits (835), Expect = 3e-87,   Method: Compositional matrix adjust.
 Identities = 158/189 (83%), Positives = 170/189 (89%)

Query: 4   SSSPSVTTDAETLKRNRILSSKLYFDIPIFKLPLIYSPDYDISFLGIEKLHPFDSSKWGR 63
           SS PS +   +TL RNRILS+KLYFD+P  K+PLIYS  YDISFLGIEKLHPFDSSKWGR
Sbjct: 2   SSPPSCSAADDTLMRNRILSTKLYFDVPPSKVPLIYSDSYDISFLGIEKLHPFDSSKWGR 61

Query: 64  ICQFLSSEGFLDKNCIVEPLEASKEDLLVVHSESYLKSLQSSPNVSIIIEVPPVALFPNC 123
           IC+FL S G LDKN IVEPLEASK+DLLVVHSESYL SL+ S NV+ IIEVPPVALFPNC
Sbjct: 62  ICKFLISFGVLDKNRIVEPLEASKDDLLVVHSESYLNSLKESSNVAKIIEVPPVALFPNC 121

Query: 124 LVQRKVLYPFRKQVGGTILAAKLAKERGWAINVGGGFHHCSADEGGGFCAYADISLCIHY 183
           LVQRKVL+PFRKQVGGTILAAKLAKERGWAINVGGGFHHCSA+ GGGFCAYADISLCIH+
Sbjct: 122 LVQRKVLFPFRKQVGGTILAAKLAKERGWAINVGGGFHHCSAENGGGFCAYADISLCIHF 181

Query: 184 AFVQLNISR 192
           AFVQLNISR
Sbjct: 182 AFVQLNISR 190

Source: Medicago truncatula

Species: Medicago truncatula

Genus: Medicago

Family: Fabaceae

Order: Fabales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|388493714|gb|AFK34923.1| unknown [Lotus japonicus]

 Score =  322 bits (824), Expect = 7e-86,   Method: Compositional matrix adjust.
 Identities = 159/192 (82%), Positives = 169/192 (88%), Gaps = 3/192 (1%)

Query: 1   MSSSSSPSVTTDAETLKRNRILSSKLYFDIPIFKLPLIYSPDYDISFLGIEKLHPFDSSK 60
           MSSSSS    TDA  L RNRILSSKLYFD+P  K+PLIYS  YDISFLGIEKLHPFDSSK
Sbjct: 1   MSSSSS---GTDALALARNRILSSKLYFDVPPSKVPLIYSESYDISFLGIEKLHPFDSSK 57

Query: 61  WGRICQFLSSEGFLDKNCIVEPLEASKEDLLVVHSESYLKSLQSSPNVSIIIEVPPVALF 120
           WGRIC FL S   LDK CIVEPLEASK+DLLVVHSESYL SL+ S NV+ IIEVPPVALF
Sbjct: 58  WGRICGFLVSFDVLDKKCIVEPLEASKDDLLVVHSESYLNSLKESSNVATIIEVPPVALF 117

Query: 121 PNCLVQRKVLYPFRKQVGGTILAAKLAKERGWAINVGGGFHHCSADEGGGFCAYADISLC 180
           PNCLVQ KVL+PFRKQVGGTILA KLAKERGWAINVGGGFHHCSA++GGGFCAYADISLC
Sbjct: 118 PNCLVQNKVLFPFRKQVGGTILAVKLAKERGWAINVGGGFHHCSAEKGGGFCAYADISLC 177

Query: 181 IHYAFVQLNISR 192
           IH+AFV+LNISR
Sbjct: 178 IHFAFVRLNISR 189

Source: Lotus japonicus

Species: Lotus japonicus

Genus: Lotus

Family: Fabaceae

Order: Fabales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|225429480|ref|XP_002277742.1| PREDICTED: histone deacetylase 2 [Vitis vinifera] gi|296081627|emb|CBI20632.3| unnamed protein product [Vitis vinifera]

 Score =  318 bits (815), Expect = 6e-85,   Method: Compositional matrix adjust.
 Identities = 148/179 (82%), Positives = 167/179 (93%)

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

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

Query: 134 RKQVGGTILAAKLAKERGWAINVGGGFHHCSADEGGGFCAYADISLCIHYAFVQLNISR 192
           RKQVGGTILAAKLAKERGWAINVGGGFHHCSA +GGGFCAYADISLCIHYAF++LNISR
Sbjct: 141 RKQVGGTILAAKLAKERGWAINVGGGFHHCSAGKGGGFCAYADISLCIHYAFIRLNISR 199

Source: Vitis vinifera

Species: Vitis vinifera

Genus: Vitis

Family: Vitaceae

Order: Vitales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|356564065|ref|XP_003550277.1| PREDICTED: histone deacetylase 2-like [Glycine max]

 Score =  318 bits (814), Expect = 1e-84,   Method: Compositional matrix adjust.
 Identities = 152/192 (79%), Positives = 169/192 (88%), Gaps = 4/192 (2%)

Query: 1   MSSSSSPSVTTDAETLKRNRILSSKLYFDIPIFKLPLIYSPDYDISFLGIEKLHPFDSSK 60
           MSSSS+     DAE L+RNRILSSKLYFD+   K+PLIYS  YDI FLGIEKLHPFDSSK
Sbjct: 1   MSSSSA----NDAEALRRNRILSSKLYFDVSPSKVPLIYSASYDIEFLGIEKLHPFDSSK 56

Query: 61  WGRICQFLSSEGFLDKNCIVEPLEASKEDLLVVHSESYLKSLQSSPNVSIIIEVPPVALF 120
           WGRIC FL S G LDK C+VEPLEASK+DLLVVHSESYL +L+ S  V++I+EVPPVAL 
Sbjct: 57  WGRICGFLVSFGILDKKCVVEPLEASKDDLLVVHSESYLNTLKQSSKVAMIVEVPPVALI 116

Query: 121 PNCLVQRKVLYPFRKQVGGTILAAKLAKERGWAINVGGGFHHCSADEGGGFCAYADISLC 180
           PNCLVQ+KVL+PFRKQVGGTILAAKLAKERGWAIN+GGGFHHCSA +GGGFCAYADISLC
Sbjct: 117 PNCLVQQKVLFPFRKQVGGTILAAKLAKERGWAINMGGGFHHCSAQKGGGFCAYADISLC 176

Query: 181 IHYAFVQLNISR 192
           IH+AFV+LNISR
Sbjct: 177 IHFAFVRLNISR 188

Source: Glycine max

Species: Glycine max

Genus: Glycine

Family: Fabaceae

Order: Fabales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|326522206|dbj|BAK04231.1| predicted protein [Hordeum vulgare subsp. vulgare]

 Score =  304 bits (778), Expect = 1e-80,   Method: Compositional matrix adjust.
 Identities = 143/194 (73%), Positives = 171/194 (88%), Gaps = 2/194 (1%)

Query: 1   MSSSSSPSV--TTDAETLKRNRILSSKLYFDIPIFKLPLIYSPDYDISFLGIEKLHPFDS 58
           MSSSS+ +V   T A+ L+RNRILSSKLYFD+P  K P++YS  YDI+FLGIEK+HPFDS
Sbjct: 1   MSSSSAAAVPGGTPADALRRNRILSSKLYFDVPGSKAPVVYSTAYDIAFLGIEKMHPFDS 60

Query: 59  SKWGRICQFLSSEGFLDKNCIVEPLEASKEDLLVVHSESYLKSLQSSPNVSIIIEVPPVA 118
           SKWGRIC+FL+ EG L+KN +VEPLEAS+EDLLVVH+E+YL SL+SS  V+ I+EVPP+ 
Sbjct: 61  SKWGRICRFLTKEGHLEKNRVVEPLEASQEDLLVVHTEAYLNSLRSSFRVAAIVEVPPLT 120

Query: 119 LFPNCLVQRKVLYPFRKQVGGTILAAKLAKERGWAINVGGGFHHCSADEGGGFCAYADIS 178
           L PN LVQ+++LYPFRKQVGG+IL+AKLA ERGWAINVGGGFHHCSA+EGGGFCAYADIS
Sbjct: 121 LIPNWLVQQRLLYPFRKQVGGSILSAKLALERGWAINVGGGFHHCSAEEGGGFCAYADIS 180

Query: 179 LCIHYAFVQLNISR 192
           LCI +AFV+LNISR
Sbjct: 181 LCIQFAFVRLNISR 194

Source: Hordeum vulgare subsp. vulgare

Species: Hordeum vulgare

Genus: Hordeum

Family: Poaceae

Order: Poales

Class: Liliopsida

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|297812823|ref|XP_002874295.1| hypothetical protein ARALYDRAFT_489451 [Arabidopsis lyrata subsp. lyrata] gi|297320132|gb|EFH50554.1| hypothetical protein ARALYDRAFT_489451 [Arabidopsis lyrata subsp. lyrata]

 Score =  301 bits (771), Expect = 8e-80,   Method: Compositional matrix adjust.
 Identities = 141/191 (73%), Positives = 165/191 (86%)

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

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

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

Query: 182 HYAFVQLNISR 192
           H+AF++L ISR
Sbjct: 221 HFAFLRLRISR 231

Source: Arabidopsis lyrata subsp. lyrata

Species: Arabidopsis lyrata

Genus: Arabidopsis

Family: Brassicaceae

Order: Brassicales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|16226804|gb|AAL16266.1|AF428336_1 AT5g26040/T1N24_9 [Arabidopsis thaliana] gi|25090256|gb|AAN72263.1| At5g26040/T1N24_9 [Arabidopsis thaliana]

 Score =  299 bits (766), Expect = 3e-79,   Method: Compositional matrix adjust.
 Identities = 140/191 (73%), Positives = 164/191 (85%)

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

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

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

Query: 182 HYAFVQLNISR 192
           H+AF++L ISR
Sbjct: 221 HFAFLRLRISR 231

Source: Arabidopsis thaliana

Species: Arabidopsis thaliana

Genus: Arabidopsis

Family: Brassicaceae

Order: Brassicales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|30690103|ref|NP_568480.2| histone deacetylase 2 [Arabidopsis thaliana] gi|145558941|sp|Q944K3.2|HDA2_ARATH RecName: Full=Histone deacetylase 2 gi|332006134|gb|AED93517.1| histone deacetylase 2 [Arabidopsis thaliana]

 Score =  299 bits (766), Expect = 4e-79,   Method: Compositional matrix adjust.
 Identities = 140/191 (73%), Positives = 164/191 (85%)

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

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

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

Query: 182 HYAFVQLNISR 192
           H+AF++L ISR
Sbjct: 221 HFAFLRLRISR 231

Source: Arabidopsis thaliana

Species: Arabidopsis thaliana

Genus: Arabidopsis

Family: Brassicaceae

Order: Brassicales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|449447110|ref|XP_004141312.1| PREDICTED: histone deacetylase 2-like [Cucumis sativus] gi|449486647|ref|XP_004157356.1| PREDICTED: histone deacetylase 2-like [Cucumis sativus]

 Score =  297 bits (760), Expect = 2e-78,   Method: Compositional matrix adjust.
 Identities = 140/192 (72%), Positives = 162/192 (84%), Gaps = 1/192 (0%)

Query: 1   MSSSSSPSVTTDAETLKRNRILSSKLYFDIPIFKLPLIYSPDYDISFLGIEKLHPFDSSK 60
           MSSS SP    D E ++R+RILSSKLYFD+P  K+P+IYS  YDISFLGIEKLHPFDS K
Sbjct: 1   MSSSLSPD-ANDGEAVRRDRILSSKLYFDVPSSKVPVIYSSSYDISFLGIEKLHPFDSKK 59

Query: 61  WGRICQFLSSEGFLDKNCIVEPLEASKEDLLVVHSESYLKSLQSSPNVSIIIEVPPVALF 120
           WGR+CQFL + G L K+ I++PLEA K DLLVVH ESYL SL++S NV+ IIEVPPVALF
Sbjct: 60  WGRVCQFLIAAGVLRKDQIIKPLEAKKNDLLVVHPESYLNSLKNSSNVAKIIEVPPVALF 119

Query: 121 PNCLVQRKVLYPFRKQVGGTILAAKLAKERGWAINVGGGFHHCSADEGGGFCAYADISLC 180
           P+C+V+ KV  PFR QVGG+ILA K+AKE+GWAINVGGGFHHCSA+ GGGFC YADISLC
Sbjct: 120 PHCVVKEKVQRPFRNQVGGSILAGKVAKEKGWAINVGGGFHHCSAERGGGFCVYADISLC 179

Query: 181 IHYAFVQLNISR 192
           IHYAFVQLNIS+
Sbjct: 180 IHYAFVQLNISK 191

Source: Cucumis sativus

Species: Cucumis sativus

Genus: Cucumis

Family: Cucurbitaceae

Order: Cucurbitales

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	192
TAIR|locus:2180657	387	HDA2 "AT5G26040" [Arabidopsis	0.958	0.475	0.739	9.6e-73
UNIPROTKB|Q96DB2	347	HDAC11 "Histone deacetylase 11	0.885	0.489	0.584	2.4e-51
UNIPROTKB|Q9GKU5	347	HDAC11 "Histone deacetylase 11	0.885	0.489	0.584	2.4e-51
UNIPROTKB|I3LTU6	275	LOC100738481 "Uncharacterized	0.885	0.618	0.584	5.1e-51
MGI|MGI:2385252	347	Hdac11 "histone deacetylase 11	0.885	0.489	0.584	5.1e-51
RGD|1311706	347	Hdac11 "histone deacetylase 11	0.885	0.489	0.584	5.1e-51
UNIPROTKB|C9J2I7	186	HDAC11 "Histone deacetylase 11	0.828	0.854	0.603	3.6e-50
ZFIN|ZDB-GENE-040704-7	366	hdac11 "histone deacetylase 11	0.843	0.442	0.586	3.6e-50
UNIPROTKB|F1NYW6	357	HDAC11 "Uncharacterized protei	0.843	0.453	0.586	7.4e-50
UNIPROTKB|F1MWX4	386	HDAC11 "Uncharacterized protei	0.843	0.419	0.592	7.4e-50

TAIR|locus:2180657 HDA2 "AT5G26040" [Arabidopsis thaliana (taxid:3702)]

 Score = 735 (263.8 bits), Expect = 9.6e-73, P = 9.6e-73
 Identities = 136/184 (73%), Positives = 160/184 (86%)

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

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

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

Query:   189 NISR 192
              ISR
Sbjct:   228 RISR 231

GO:0004407 "histone deacetylase activity" evidence=ISS

GO:0005634 "nucleus" evidence=ISM

GO:0008150 "biological_process" evidence=ND

UNIPROTKB|Q96DB2 HDAC11 "Histone deacetylase 11" [Homo sapiens (taxid:9606)]

 Score = 533 (192.7 bits), Expect = 2.4e-51, P = 2.4e-51
 Identities = 100/171 (58%), Positives = 127/171 (74%)

Query:    23 SSKLYFDIPIFKLPLIYSPDYDISFLGIEKLHPFDSSKWGRICQFLSSEGFLDKNCIVEP 82
             +++LY  +P  + P++YSP Y+I+F+G+EKLHPFD+ KWG++  FL  E  L  + +VE 
Sbjct:     4 TTQLYQHVPETRWPIVYSPRYNITFMGLEKLHPFDAGKWGKVINFLKEEKLLSDSMLVEA 63

Query:    83 LEASKEDLLVVHSESYLKSLQSSPNVSIIIEVPPVALFPNCLVQRKVLYPFRKQVGGTIL 142
              EAS+EDLLVVH+  YL  L+ S  V+ I E+PPV   PN LVQRKVL P R Q GGTI+
Sbjct:    64 REASEEDLLVVHTRRYLNELKWSFAVATITEIPPVIFLPNFLVQRKVLRPLRTQTGGTIM 123

Query:   143 AAKLAKERGWAINVGGGFHHCSADEGGGFCAYADISLCIHYAFVQLN-ISR 192
             A KLA ERGWAINVGGGFHHCS+D GGGFCAYADI+L I + F ++  ISR
Sbjct:   124 AGKLAVERGWAINVGGGFHHCSSDRGGGFCAYADITLAIKFLFERVEGISR 174

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

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

GO:0032041 "NAD-dependent histone deacetylase activity (H3-K14 specific)" 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:0097372 "NAD-dependent histone deacetylase activity (H3-K18 specific)" evidence=IEA

GO:0014003 "oligodendrocyte development" evidence=IEA

GO:0000118 "histone deacetylase complex" evidence=IDA

GO:0005634 "nucleus" evidence=IDA

GO:0016568 "chromatin modification" evidence=TAS

GO:0004407 "histone deacetylase activity" evidence=IDA

GO:0016575 "histone deacetylation" evidence=IDA

GO:0008134 "transcription factor binding" evidence=TAS

GO:0005886 "plasma membrane" evidence=IDA

UNIPROTKB|Q9GKU5 HDAC11 "Histone deacetylase 11" [Macaca fascicularis (taxid:9541)]

 Score = 533 (192.7 bits), Expect = 2.4e-51, P = 2.4e-51
 Identities = 100/171 (58%), Positives = 127/171 (74%)

Query:    23 SSKLYFDIPIFKLPLIYSPDYDISFLGIEKLHPFDSSKWGRICQFLSSEGFLDKNCIVEP 82
             +++LY  +P  + P++YSP Y+I+F+G+EKLHPFD+ KWG++  FL  E  L  + +VE 
Sbjct:     4 TTQLYQHVPETRWPIVYSPRYNITFMGLEKLHPFDAGKWGKVINFLKEEKLLSDSMLVEA 63

Query:    83 LEASKEDLLVVHSESYLKSLQSSPNVSIIIEVPPVALFPNCLVQRKVLYPFRKQVGGTIL 142
              EAS+EDLLVVH+  YL  L+ S  V+ I E+PPV   PN LVQRKVL P R Q GGTI+
Sbjct:    64 REASEEDLLVVHTRRYLNELKWSFAVATITEIPPVIFLPNFLVQRKVLRPLRTQTGGTIM 123

Query:   143 AAKLAKERGWAINVGGGFHHCSADEGGGFCAYADISLCIHYAFVQLN-ISR 192
             A KLA ERGWAINVGGGFHHCS+D GGGFCAYADI+L I + F ++  ISR
Sbjct:   124 AGKLAVERGWAINVGGGFHHCSSDRGGGFCAYADITLAIKFLFERVEGISR 174

GO:0000118 "histone deacetylase complex" evidence=TAS

GO:0004407 "histone deacetylase activity" evidence=TAS

GO:0005634 "nucleus" evidence=TAS

GO:0005737 "cytoplasm" evidence=TAS

GO:0008134 "transcription factor binding" evidence=TAS

GO:0016568 "chromatin modification" evidence=TAS

GO:0016575 "histone deacetylation" evidence=TAS

UNIPROTKB|I3LTU6 LOC100738481 "Uncharacterized protein" [Sus scrofa (taxid:9823)]

 Score = 530 (191.6 bits), Expect = 5.1e-51, P = 5.1e-51
 Identities = 100/171 (58%), Positives = 126/171 (73%)

Query:    23 SSKLYFDIPIFKLPLIYSPDYDISFLGIEKLHPFDSSKWGRICQFLSSEGFLDKNCIVEP 82
             +++LY  +P  + P++YSP Y+I+F+G+EKLHPFD+ KWG++  FL  E  L  + +VE 
Sbjct:     3 TTQLYQHVPETRWPIVYSPRYNITFMGLEKLHPFDAGKWGKVISFLKEEKLLTDSMLVEA 62

Query:    83 LEASKEDLLVVHSESYLKSLQSSPNVSIIIEVPPVALFPNCLVQRKVLYPFRKQVGGTIL 142
              EAS EDLLVVH+  YL  L+ S  V+ I E+PPV   PN LVQRKVL P R Q GGTI+
Sbjct:    63 REASDEDLLVVHTRRYLNELKWSFAVATITEIPPVIFLPNFLVQRKVLKPLRTQTGGTIM 122

Query:   143 AAKLAKERGWAINVGGGFHHCSADEGGGFCAYADISLCIHYAFVQLN-ISR 192
             A KLA ERGWAINVGGGFHHCS+D GGGFCAYADI+L I + F ++  ISR
Sbjct:   123 AGKLAVERGWAINVGGGFHHCSSDRGGGFCAYADITLAIKFLFERVEGISR 173

GO:0016787 "hydrolase activity" evidence=IEA

MGI|MGI:2385252 Hdac11 "histone deacetylase 11" [Mus musculus (taxid:10090)]

 Score = 530 (191.6 bits), Expect = 5.1e-51, P = 5.1e-51
 Identities = 100/171 (58%), Positives = 126/171 (73%)

Query:    23 SSKLYFDIPIFKLPLIYSPDYDISFLGIEKLHPFDSSKWGRICQFLSSEGFLDKNCIVEP 82
             +++LY  +P  + P++YSP Y+I+F+G+EKLHPFD+ KWG++  FL  E  L    +VE 
Sbjct:     4 ATQLYQHVPEKRWPIVYSPRYNITFMGLEKLHPFDAGKWGKVINFLKEEKLLSDGMLVEA 63

Query:    83 LEASKEDLLVVHSESYLKSLQSSPNVSIIIEVPPVALFPNCLVQRKVLYPFRKQVGGTIL 142
              EAS+EDLLVVH+  YL  L+ S  V+ I E+PPV   PN LVQRKVL P R Q GGTI+
Sbjct:    64 REASEEDLLVVHTRRYLNELKWSFVVATITEIPPVIFLPNFLVQRKVLRPLRTQTGGTIM 123

Query:   143 AAKLAKERGWAINVGGGFHHCSADEGGGFCAYADISLCIHYAFVQLN-ISR 192
             A KLA ERGWAINVGGGFHHCS+D GGGFCAYADI+L I + F ++  ISR
Sbjct:   124 AGKLAVERGWAINVGGGFHHCSSDRGGGFCAYADITLAIKFLFERVEGISR 174

GO:0000118 "histone deacetylase complex" evidence=ISO;TAS

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

GO:0005515 "protein binding" evidence=IPI

GO:0005634 "nucleus" evidence=ISO;TAS

GO:0005737 "cytoplasm" evidence=TAS

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

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

GO:0008134 "transcription factor binding" evidence=TAS

GO:0014003 "oligodendrocyte development" evidence=ISO

GO:0016568 "chromatin modification" evidence=TAS

GO:0016575 "histone deacetylation" evidence=ISO

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

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

GO:0070932 "histone H3 deacetylation" evidence=IEA

GO:0070933 "histone H4 deacetylation" evidence=IEA

RGD|1311706 Hdac11 "histone deacetylase 11" [Rattus norvegicus (taxid:10116)]

 Score = 530 (191.6 bits), Expect = 5.1e-51, P = 5.1e-51
 Identities = 100/171 (58%), Positives = 126/171 (73%)

Query:    23 SSKLYFDIPIFKLPLIYSPDYDISFLGIEKLHPFDSSKWGRICQFLSSEGFLDKNCIVEP 82
             +++LY  +P  + P++YSP Y+I+F+G+EKLHPFD+ KWG++  FL  E  L    +VE 
Sbjct:     4 ATQLYQHVPEKRWPIVYSPRYNITFMGLEKLHPFDAGKWGKVINFLKEEKLLSDGMLVEA 63

Query:    83 LEASKEDLLVVHSESYLKSLQSSPNVSIIIEVPPVALFPNCLVQRKVLYPFRKQVGGTIL 142
              EAS+EDLLVVH+  YL  L+ S  V+ I E+PPV   PN LVQRKVL P R Q GGTI+
Sbjct:    64 REASEEDLLVVHTRRYLNELKWSFVVATITEIPPVIFLPNFLVQRKVLRPLRTQTGGTIM 123

Query:   143 AAKLAKERGWAINVGGGFHHCSADEGGGFCAYADISLCIHYAFVQLN-ISR 192
             A KLA ERGWAINVGGGFHHCS+D GGGFCAYADI+L I + F ++  ISR
Sbjct:   124 AGKLAVERGWAINVGGGFHHCSSDRGGGFCAYADITLAIKFLFERVEGISR 174

GO:0000118 "histone deacetylase complex" evidence=IEA;ISO

GO:0003674 "molecular_function" evidence=ND

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

GO:0005634 "nucleus" evidence=ISO;IDA

GO:0005886 "plasma membrane" evidence=IEA;ISO

GO:0014003 "oligodendrocyte development" evidence=IMP

GO:0016575 "histone deacetylation" evidence=ISO

UNIPROTKB|C9J2I7 HDAC11 "Histone deacetylase 11" [Homo sapiens (taxid:9606)]

 Score = 522 (188.8 bits), Expect = 3.6e-50, P = 3.6e-50
 Identities = 96/159 (60%), Positives = 120/159 (75%)

Query:    23 SSKLYFDIPIFKLPLIYSPDYDISFLGIEKLHPFDSSKWGRICQFLSSEGFLDKNCIVEP 82
             +++LY  +P  + P++YSP Y+I+F+G+EKLHPFD+ KWG++  FL  E  L  + +VE 
Sbjct:     4 TTQLYQHVPETRWPIVYSPRYNITFMGLEKLHPFDAGKWGKVINFLKEEKLLSDSMLVEA 63

Query:    83 LEASKEDLLVVHSESYLKSLQSSPNVSIIIEVPPVALFPNCLVQRKVLYPFRKQVGGTIL 142
              EAS+EDLLVVH+  YL  L+ S  V+ I E+PPV   PN LVQRKVL P R Q GGTI+
Sbjct:    64 REASEEDLLVVHTRRYLNELKWSFAVATITEIPPVIFLPNFLVQRKVLRPLRTQTGGTIM 123

Query:   143 AAKLAKERGWAINVGGGFHHCSADEGGGFCAYADISLCI 181
             A KLA ERGWAINVGGGFHHCS+D GGGFCAYADI+L I
Sbjct:   124 AGKLAVERGWAINVGGGFHHCSSDRGGGFCAYADITLAI 162

GO:0016787 "hydrolase activity" evidence=IEA

ZFIN|ZDB-GENE-040704-7 hdac11 "histone deacetylase 11" [Danio rerio (taxid:7955)]

 Score = 522 (188.8 bits), Expect = 3.6e-50, P = 3.6e-50
 Identities = 95/162 (58%), Positives = 123/162 (75%)

Query:    24 SKLYFDIPIFKLPLIYSPDYDISFLGIEKLHPFDSSKWGRICQFLSSEGFLDKNCIVEPL 83
             ++LY ++P   LP++YSP+Y+I+F+G+EKLHPFD+ KWG++ +FL  E F+    IV   
Sbjct:    16 TELYAEVPASCLPIVYSPEYNITFMGLEKLHPFDAGKWGKVIRFLKEEQFITDEIIVLAR 75

Query:    84 EASKEDLLVVHSESYLKSLQSSPNVSIIIEVPPVALFPNCLVQRKVLYPFRKQVGGTILA 143
             EAS+ DLLVVH+  YL  L+ S  V+ I E+PP+   PN LVQRKVL P R Q GGTI+A
Sbjct:    76 EASEADLLVVHTARYLNRLKWSLVVATITEIPPLLFLPNFLVQRKVLRPLRTQTGGTIMA 135

Query:   144 AKLAKERGWAINVGGGFHHCSADEGGGFCAYADISLCIHYAF 185
              KLA +RGWAINVGGGFHHCS+D+GGGFCAYADI+L I + F
Sbjct:   136 GKLAIDRGWAINVGGGFHHCSSDKGGGFCAYADITLAIKFLF 177

GO:0016787 "hydrolase activity" evidence=IEA

UNIPROTKB|F1NYW6 HDAC11 "Uncharacterized protein" [Gallus gallus (taxid:9031)]

 Score = 519 (187.8 bits), Expect = 7.4e-50, P = 7.4e-50
 Identities = 95/162 (58%), Positives = 121/162 (74%)

Query:    24 SKLYFDIPIFKLPLIYSPDYDISFLGIEKLHPFDSSKWGRICQFLSSEGFLDKNCIVEPL 83
             ++LY  +P    P++YSPDY+I+F+G+EKLHPFD+ KWG++  FL  E  +  + IV+  
Sbjct:     4 TELYEGVPPTCWPIVYSPDYNITFMGLEKLHPFDAGKWGKVINFLKEEKLIGDDLIVQAR 63

Query:    84 EASKEDLLVVHSESYLKSLQSSPNVSIIIEVPPVALFPNCLVQRKVLYPFRKQVGGTILA 143
             EA+ EDLLVVH+  YL  L+ S  V+ I E+PPV   PN LVQRKVL P R Q GGTI+A
Sbjct:    64 EATDEDLLVVHTRRYLNKLKWSFVVATITEIPPVLFLPNFLVQRKVLKPLRTQTGGTIMA 123

Query:   144 AKLAKERGWAINVGGGFHHCSADEGGGFCAYADISLCIHYAF 185
              KLA +RGWAINVGGGFHHCS+D+GGGFCAYADI+L I + F
Sbjct:   124 GKLAVDRGWAINVGGGFHHCSSDKGGGFCAYADITLAIKFLF 165

GO:0000118 "histone deacetylase complex" evidence=IEA

GO:0004407 "histone deacetylase activity" evidence=IEA

GO:0005886 "plasma membrane" evidence=IEA

UNIPROTKB|F1MWX4 HDAC11 "Uncharacterized protein" [Bos taurus (taxid:9913)]

 Score = 519 (187.8 bits), Expect = 7.4e-50, P = 7.4e-50
 Identities = 96/162 (59%), Positives = 119/162 (73%)

Query:    24 SKLYFDIPIFKLPLIYSPDYDISFLGIEKLHPFDSSKWGRICQFLSSEGFLDKNCIVEPL 83
             ++LY  +P  + P++YSP Y+I+FLG+EKLHPFD+ KWG++   L  E  L  + +VE  
Sbjct:     4 TQLYQHVPDSRWPIVYSPRYNITFLGLEKLHPFDAGKWGKVISLLKEEKLLSDSMLVEAR 63

Query:    84 EASKEDLLVVHSESYLKSLQSSPNVSIIIEVPPVALFPNCLVQRKVLYPFRKQVGGTILA 143
             EAS EDLLVVH+  YL  L+ S  V+ I E+PPV   PN LVQRKVL P R Q GGTI+A
Sbjct:    64 EASDEDLLVVHTRRYLNELKWSFAVATITEIPPVIFLPNFLVQRKVLRPLRTQTGGTIMA 123

Query:   144 AKLAKERGWAINVGGGFHHCSADEGGGFCAYADISLCIHYAF 185
              KLA +RGWAINVGGGFHHCS+D GGGFCAYADI+L I + F
Sbjct:   124 GKLAVDRGWAINVGGGFHHCSSDRGGGFCAYADITLAIKFLF 165

GO:0005886 "plasma membrane" evidence=IEA

GO:0004407 "histone deacetylase activity" evidence=IEA

GO:0000118 "histone deacetylase complex" evidence=IEA

---

Prediction of Enzyme Commission (EC) Number

EC Number Prediction by Annotation Transfer from SWISS-PROT Entries

Original result of BLAST against SWISS-PROT

ID	Name	Annotated EC number	Identity	Query coverage	Hit coverage	RBH(Q2H)	RBH(H2Q)
Q944K3	HDA2_ARATH	3, ., 5, ., 1, ., 9, 8	0.7329	0.9947	0.4935	yes	no

EC Number Prediction by Ezypred Server

Original result from Ezypred Server

Fail to connect to Ezypred Server

EC Number Prediction by EFICAz Software

Prediction Level	EC number	Confidence of Prediction
3rd Layer	3.5.1.98	0.824
3rd Layer	3.5.1	0.766

---

Prediction of Functionally Associated Proteins

Functionally Associated Proteins Detected by STRING

Original result from the STRING server

Your Input: GSVIVG00032175001 SubName- Full=Chromosome chr4 scaffold_6, whole genome shotgun sequence; (351 aa) (Vitis vinifera)

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	192
cd09993	275	cd09993, HDAC_classIV, Histone deacetylase class I	4e-55
cd09301	279	cd09301, HDAC, Histone deacetylase (HDAC) classes	2e-29
pfam00850	300	pfam00850, Hist_deacetyl, Histone deacetylase doma	1e-27
COG0123	340	COG0123, AcuC, Deacetylases, including yeast histo	2e-18
cd09994	313	cd09994, HDAC_AcuC_like, Class I histone deacetyla	2e-15
cd10000	364	cd10000, HDAC8, Histone deacetylase 8 (HDAC8)	1e-12
cd09991	306	cd09991, HDAC_classI, Class I histone deacetylases	3e-12
cd11682	337	cd11682, HDAC6-dom1, Histone deacetylase 6, domain	6e-07
cd11680	294	cd11680, HDAC_Hos1, Class I histone deacetylases H	7e-07
cd10011	366	cd10011, HDAC2, Histone deacetylase 2 (HDAC2)	2e-06
cd10010	371	cd10010, HDAC1, Histone deacetylase 1 (HDAC1)	3e-06
cd09992	291	cd09992, HDAC_classII, Histone deacetylases and hi	5e-06
cd11598	311	cd11598, HDAC_Hos2, Class I histone deacetylases i	1e-05
cd09996	359	cd09996, HDAC_classII_1, Histone deacetylases and	4e-05
cd10002	336	cd10002, HDAC10_HDAC6-dom1, Histone deacetylase 6,	8e-05
cd10005	381	cd10005, HDAC3, Histone deacetylase 3 (HDAC3)	2e-04
PTZ00346	429	PTZ00346, PTZ00346, histone deacetylase; Provision	0.001

>gnl|CDD|212519 cd09993, HDAC_classIV, Histone deacetylase class IV also known as histone deacetylase 11

 Score =  175 bits (446), Expect = 4e-55
 Identities = 54/139 (38%), Positives = 73/139 (52%), Gaps = 6/139 (4%)

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

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

Query: 174 YADISLCIHYAFVQLNISR 192
           + DI++       +  + R
Sbjct: 115 FNDIAIAARVLLAEGLVRR 133

Class IV histone deacetylases (HDAC11; EC 3.5.1.98) are predicted Zn-dependent enzymes. This class includes animal HDAC11, plant HDA2 and related bacterial deacetylases. Enzymes in this subfamily participate in regulation of a number of different processes through protein modification (deacetylation). They catalyze hydrolysis of N(6)-acetyl-lysine of histones (or other proteins) to yield a deacetylated proteins. Histone deacetylases often act as members of large multi-protein complexes such as mSin3A or SMRT/N-CoR. Human HDAC11 does not associate with them but can interact with HDAC6 in vivo. It has been suggested that HDAC11 and HDAC6 may use non-histone proteins as their substrates and play a role other than to directly modulate chromatin structure. In normal tissues, expression of HDAC11 is limited to kidney, heart, brain, skeletal muscle and testis, suggesting that its function might be tissue-specific. In mammals, HDAC11 proteins are known to be involved in progression of various tumors. HDAC11 plays an essential role in regulating OX40 ligand (OX40L) expression in Hodgkin lymphoma (HL); selective inhibition of HDAC11 expression significantly up-regulates OX40L and induces apoptosis in HL cell lines. Thus, inhibition of HDAC11 could be a therapeutic drug option for antitumor immune response in HL patients. Length = 275

>gnl|CDD|212512 cd09301, HDAC, Histone deacetylase (HDAC) classes I, II, IV and related proteins

 Score =  109 bits (273), Expect = 2e-29
 Identities = 48/137 (35%), Positives = 68/137 (49%), Gaps = 6/137 (4%)

Query: 60  KWGRICQFLSSEGFLDKNCIVEPLEASKEDLLVVHSESYLKSLQSSPNVSIIIEVPPVAL 119
           +   + + L   G   K  ++E  EA++E LL VH+E YL  L+++  V+ I E  PV  
Sbjct: 1   RIRDLIEALKELGLRPKIELIECREATEELLLKVHTEEYLNELKANFAVATITESKPVIF 60

Query: 120 FPNCLVQRKVLYPFRKQVGGTILAAKLA----KERGWAINVGGGFHHCSADEGGGFCAYA 175
            PN  VQR      R   GG + AA+L      ER +A+ VG G HH       GFC + 
Sbjct: 61  GPNFPVQRHYFRGARLSTGGVVEAAELVAKGELERAFAV-VGAGGHHAGKSRAWGFCYFN 119

Query: 176 DISLCIHYAFVQLNISR 192
           D+ L I +   +  ISR
Sbjct: 120 DVVLAIKFLR-ERGISR 135

The HDAC/HDAC-like family includes Zn-dependent histone deacetylase classes I, II and IV (class III HDACs, also called sirtuins, are NAD-dependent and structurally unrelated, and therefore not part of this family). Histone deacetylases catalyze hydrolysis of N(6)-acetyl-lysine residues in histone amino termini to yield a deacetylated histone (EC 3.5.1.98), as opposed to the acetylation reaction by some histone acetyltransferases (EC 2.3.1.48). Deacetylases of this family are involved in signal transduction through histone and other protein modification, and can repress/activate transcription of a number of different genes. They usually act via the formation of large multiprotein complexes. They are involved in various cellular processes, including cell cycle regulation, DNA damage response, embryonic development, cytokine signaling important for immune response and post-translational control of the acetyl coenzyme A synthetase. In mammals, they are known to be involved in progression of different tumors. Specific inhibitors of mammalian histone deacetylases are an emerging class of promising novel anticancer drugs. Length = 279

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

 Score =  104 bits (263), Expect = 1e-27
 Identities = 36/143 (25%), Positives = 62/143 (43%), Gaps = 7/143 (4%)

Query: 53  LHPFDSSKWGRICQFLSSEGFLDKNCIVEPLEASKEDLLVVHSESYLKSLQSSPNVSIII 112
            HP +  +   I + L   G LD+   + P  A++E+LL+VHS  Y++ L+ +       
Sbjct: 8   GHPENPERLEAILELLKESGLLDRLEFIAPRPATEEELLLVHSPEYVEFLEEA--SLEEE 65

Query: 113 EVPPVALFPNCLVQRKVLYPFRKQVGGTILAAKLA---KERGWAINVGGGFHHCSADEGG 169
           E+  + L  +  V            GGT+ AA L    +    A+   G  HH   D   
Sbjct: 66  ELGRIGLDGDTPVSPGSYEAALLAAGGTLEAADLVLSGENAFAAVRPPG--HHAERDRAS 123

Query: 170 GFCAYADISLCIHYAFVQLNISR 192
           GFC + ++++   Y   +  + R
Sbjct: 124 GFCLFNNVAIAARYLLKRYGLKR 146

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

 Score = 81.3 bits (201), Expect = 2e-18
 Identities = 40/156 (25%), Positives = 61/156 (39%), Gaps = 11/156 (7%)

Query: 32  IFKLPLIYSPDYDISFLGIEKLHPFDSSKWGRICQFLSSEGFLDKNCIVEPLEASKEDLL 91
           + K  LIY P++          HP +  +   I + L S G  D   +VEP  A+ E+LL
Sbjct: 1   MMKTALIYHPEFLEHEPP--PGHPENPDRLRLILELLESSGLPDSLELVEPRPATLEELL 58

Query: 92  VVHSESYLKSLQS-SPNVSIIIEVPPVALFPNCLVQRKVLYPFRKQVGGTILAAKLAKE- 149
           +VHS  Y++ L+S S             + P    +   L       GG + A     E 
Sbjct: 59  LVHSPDYVEFLESLSEEEGYGNLDGDTPVSPG-TYEAARLA-----AGGALTAVDAVLEG 112

Query: 150 -RGWAINVGGGFHHCSADEGGGFCAYADISLCIHYA 184
                  V    HH   D   GFC + ++++   Y 
Sbjct: 113 EDNAFALVRPPGHHAGRDRASGFCLFNNVAIAAKYL 148

Length = 340

>gnl|CDD|212520 cd09994, HDAC_AcuC_like, Class I histone deacetylase AcuC (Acetoin utilization protein)-like enzymes

 Score = 72.2 bits (178), Expect = 2e-15
 Identities = 45/162 (27%), Positives = 66/162 (40%), Gaps = 27/162 (16%)

Query: 37  LIYSPDYDISFLGIEKLHPFDSSKWGRICQFLSSEGFLDKNCIVEPLEASKEDLLVVHSE 96
            IYS +Y     G    HPF+  +       L + G L    +V P  A++E+LL+ H+ 
Sbjct: 2   FIYSEEYLRYSFG--PNHPFNPPRLSLTKDLLRALGLLPPVDLVPPRPATEEELLLFHTP 59

Query: 97  SYLKSLQSSPNVSIIIEVPPVAL-------FPNC-----LVQRKVLYPFRKQVGGTILAA 144
            Y+++++ +           + L       FP       LV           VGGT+LAA
Sbjct: 60  DYIEAVKEASRGQEPEGRGRLGLGTEDNPVFPGMHEAAALV-----------VGGTLLAA 108

Query: 145 KL--AKERGWAINVGGGFHHCSADEGGGFCAYADISLCIHYA 184
           +L    E   A N  GG HH       GFC Y D ++ I   
Sbjct: 109 RLVLEGEARRAFNPAGGLHHAMRGRASGFCVYNDAAVAIERL 150

AcuC (Acetoin utilization protein) is a class I deacetylase found only in bacteria and is involved in post-translational control of the acetyl-coenzyme A synthetase (AcsA). Deacetylase AcuC works in coordination with deacetylase SrtN (class III), possibly to maintain AcsA in active (deacetylated) form and let the cell grow under low concentration of acetate. B. subtilis AcuC is a member of operon acuABC; this operon is repressed by the presence of glucose and does not show induction by acetoin; acetoin is a bacterial fermentation product that can be converted to acetate via the butanediol cycle in absence of other carbon sources. Inactivation of AcuC leads to slower growth and lower cell yield under low-acetate conditions in Bacillus subtilis. In general, Class I histone deacetylases (HDACs) are Zn-dependent enzymes that catalyze hydrolysis of N(6)-acetyl-lysine residues in histone amino termini to yield a deacetylated histone (EC 3.5.1.98). Enzymes belonging to this group participate in regulation of a number of processes through protein (mostly different histones) modification (deacetylation). Class I histone deacetylases in general act via the formation of large multiprotein complexes. Members of this class are involved in cell cycle regulation, DNA damage response, embryonic development, cytokine signaling important for immune response and in posttranslational control of the acetyl coenzyme A synthetase. Length = 313

>gnl|CDD|212524 cd10000, HDAC8, Histone deacetylase 8 (HDAC8)

 Score = 65.1 bits (159), Expect = 1e-12
 Identities = 38/129 (29%), Positives = 58/129 (44%), Gaps = 20/129 (15%)

Query: 68  LSSEGFLDKNCIVEPLEASKEDLLVVHSESYLKSLQSSPNVSIIIEVPPVA--------- 118
           + + G L +  +V+P  A++E+L   HS+ Y++ L+ + N     E P            
Sbjct: 30  IEAYGLLKQLRVVKPRVATEEELASFHSDEYIQFLKKASNEGDNDEEPSEQQEFGLGYDC 89

Query: 119 -LFPNCLVQRKVLYPFRKQVGG-TILAAKL--AKERGWAINVGGGFHHCSADEGGGFCAY 174
            +F         +Y +   V G T+ AA+L    +   AIN  GG+HH   DE  GFC  
Sbjct: 90  PIFEG-------IYDYAAAVAGATLTAAQLLIDGKCKVAINWFGGWHHAQRDEASGFCYV 142

Query: 175 ADISLCIHY 183
            DI L I  
Sbjct: 143 NDIVLGILK 151

HDAC8 is a Zn-dependent class I histone deacetylase 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. HDAC8 is found in human cytoskeleton-bound protein fraction and insoluble cell pellets. It plays a crucial role in intramembraneous bone formation; germline deletion of HDAC8 is detrimental to skull bone formation. HDAC8 is possibly associated with the smooth muscle actin cytockeleton and may regulate the contractive capacity of smooth muscle cells. HDAC8 is also involved in the metabolic control of the estrogen receptor related receptor (ERR)-alpha/peroxisome proliferator activated receptor (PPAR) gamma coactivator 1 alpha (PGC1-alpha) transcriptional complex as well as in the development of neuroblastoma and T-cell lymphoma. HDAC8-selective small-molecule inhibitors could be a therapeutic drug option for these diseases. Length = 364

>gnl|CDD|212517 cd09991, HDAC_classI, Class I histone deacetylases

 Score = 63.4 bits (155), Expect = 3e-12
 Identities = 52/164 (31%), Positives = 65/164 (39%), Gaps = 37/164 (22%)

Query: 38  IYSPDYDISFLGIEKLHPFDSSKWGRIC---QFLSSEGFLDKNCIVEPLEASKEDLLVVH 94
            Y PD    + G  + HP    K  RI      + S G   K  I  P  A+ E+L   H
Sbjct: 1   FYDPDVGNYYYG--QGHP---MKPHRIRMTHSLILSYGLYKKMEIYRPRPATAEELTKFH 55

Query: 95  SESYLKSLQSSP--------------NVSIIIEVPPVALFPNCLVQRKVLYPF-RKQVGG 139
           S+ Y+  L+S                NV    E  PV  F         LY + +   GG
Sbjct: 56  SDDYIDFLRSVSPDNMKEFKKQLERFNVG---EDCPV--FDG-------LYEYCQLYAGG 103

Query: 140 TILAA-KLAK-ERGWAINVGGGFHHCSADEGGGFCAYADISLCI 181
           +I AA KL + +   AIN  GG HH    E  GFC   DI L I
Sbjct: 104 SIAAAVKLNRGQADIAINWAGGLHHAKKSEASGFCYVNDIVLAI 147

Class I histone deacetylases (HDACs) are Zn-dependent enzymes that catalyze hydrolysis of N(6)-acetyl-lysine residues in histone amino termini to yield a deacetylated histone (EC 3.5.1.98). Enzymes belonging to this group participate in regulation of a number of processes through protein (mostly different histones) modification (deacetylation). Class I histone deacetylases in general act via the formation of large multiprotein complexes. This group includes animal HDAC1, HDAC2, HDAC3, HDAC8, fungal RPD3, HOS1 and HOS2, plant HDA9, protist, archaeal and bacterial (AcuC) deacetylases. Members of this class are involved in cell cycle regulation, DNA damage response, embryonic development, cytokine signaling important for immune response and in posttranslational control of the acetyl coenzyme A synthetase. In mammals, they are known to be involved in progression of various tumors. Specific inhibitors of mammalian histone deacetylases are an emerging class of promising novel anticancer drugs. Length = 306

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

 Score = 48.3 bits (115), Expect = 6e-07
 Identities = 40/136 (29%), Positives = 63/136 (46%), Gaps = 19/136 (13%)

Query: 68  LSSEGFLDKNCIVEPLEASKEDLLVVHSESYLKSLQSSPNVS------IIIEVPPVALFP 121
           L  EG L++   V+  EAS+E+LL+VHS  Y+  ++S+  ++      +      V L P
Sbjct: 21  LIQEGLLERCVSVQAREASEEELLLVHSPEYVALMKSTQYMTEEELRTLADTYDSVYLHP 80

Query: 122 N-----CLVQRKVLYPFRKQVGGTILAAKLAKERGWAINVGGGFHHCSADEGGGFCAYAD 176
           N     CL    VL    K +GG I         G AI    G HH   D+  G+C + +
Sbjct: 81  NSYSCACLAVGSVLQLVDKVLGGEI-------RNGLAIVRPPG-HHAQHDKMDGYCMFNN 132

Query: 177 ISLCIHYAFVQLNISR 192
           +++   YA  +  + R
Sbjct: 133 VAIAARYAQQKHGVQR 148

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|212543 cd11680, HDAC_Hos1, Class I histone deacetylases Hos1 and related proteins

 Score = 47.6 bits (114), Expect = 7e-07
 Identities = 30/113 (26%), Positives = 44/113 (38%), Gaps = 16/113 (14%)

Query: 74  LDKNC--IVEPLEASKEDLLVVHSESYLKSLQSSPNVSIIIEVPPVALFPNCLVQRKVLY 131
           L ++   I+EP  A+++DL   H + Y+  L       +  + P        +       
Sbjct: 34  LLQHFDEIIEPERATRKDLTKYHDKDYVDFLLK--KYGLEDDCPVFPFLSMYV------- 84

Query: 132 PFRKQVGGTILAAKLAK---ERGWAINVGGGFHHCSADEGGGFCAYADISLCI 181
             +   G ++  AK      ER  AIN  GG HH       GFC   DI L I
Sbjct: 85  --QLVAGSSLALAKHLITQVERDIAINWYGGRHHAQKSRASGFCYVNDIVLAI 135

Saccharomyces cerevisiae Hos1 is responsible for Smc3 deacetylation. Smc3 is an important player during the establishment of sister chromatid cohesion. Hos1 belongs to the class I histone deacetylases (HDACs). HDACs are Zn-dependent enzymes that catalyze hydrolysis of N(6)-acetyl-lysine residues in histone amino termini to yield a deacetylated histone (EC 3.5.1.98). Enzymes belonging to this group participate in regulation of a number of processes through protein (mostly different histones) modification (deacetylation). Class I histone deacetylases in general act via the formation of large multiprotein complexes. Other class I HDACs are animal HDAC1, HDAC2, HDAC3, HDAC8, fungal RPD3 and HOS2, plant HDA9, protist, archaeal and bacterial (AcuC) deacetylases. Members of this class are involved in cell cycle regulation, DNA damage response, embryonic development, cytokine signaling important for immune response and in posttranslational control of the acetyl coenzyme A synthetase. Length = 294

>gnl|CDD|212535 cd10011, HDAC2, Histone deacetylase 2 (HDAC2)

 Score = 46.6 bits (110), Expect = 2e-06
 Identities = 43/153 (28%), Positives = 67/153 (43%), Gaps = 5/153 (3%)

Query: 34  KLPLIYSPDYDISFLGIEKLHPFDSSKWGRICQFLSSEGFLDKNCIVEPLEASKEDLLVV 93
           K  + Y  D DI      + HP    +       L + G   K  I  P +A+ E++   
Sbjct: 1   KKKVCYYYDGDIGNYYYGQGHPMKPHRIRMTHNLLLNYGLYRKMEIYRPHKATAEEMTKY 60

Query: 94  HSESYLKSLQS--SPNVS-IIIEVPPVALFPNCLVQRKVLYPFRKQVGGTILAA-KLAKE 149
           HS+ Y+K L+S    N+S    ++    +  +C V   +    +   GG++  A KL ++
Sbjct: 61  HSDEYIKFLRSIRPDNMSEYSKQMQRFNVGEDCPVFDGLFEFCQLSTGGSVAGAVKLNRQ 120

Query: 150 R-GWAINVGGGFHHCSADEGGGFCAYADISLCI 181
           +   A+N  GG HH    E  GFC   DI L I
Sbjct: 121 QTDMAVNWAGGLHHAKKSEASGFCYVNDIVLAI 153

Histone deacetylase 2 (HDAC2) is a Zn-dependent class I 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. HDAC2 is involved in regulation through association with DNA binding proteins to target specific chromatin regions. It forms transcriptional repressor complexes by associating with several proteins, including the mammalian zinc-finger transcription factor YY1, thus playing an important role in transcriptional regulation, cell cycle progression and developmental events. Additionally, a few non-histone HDAC2 substrates have been found. HDAC2 plays a role in embryonic development and cytokine signaling important for immune response, and is over-expressed in several solid tumors including oral, prostate, ovarian, endometrial and gastric cancer. It participates in DNA-damage response, along with HDAC1; together, they can promote DNA non-homologous end-joining. HDAC2 is considered an important cancer prognostic marker. Inhibitors specifically targeting HDAC2 could be a therapeutic drug option. Length = 366

>gnl|CDD|212534 cd10010, HDAC1, Histone deacetylase 1 (HDAC1)

 Score = 46.2 bits (109), Expect = 3e-06
 Identities = 43/153 (28%), Positives = 68/153 (44%), Gaps = 5/153 (3%)

Query: 34  KLPLIYSPDYDISFLGIEKLHPFDSSKWGRICQFLSSEGFLDKNCIVEPLEASKEDLLVV 93
           K  + Y  D D+      + HP    +       L + G   K  I  P +A+ E++   
Sbjct: 5   KKKVCYYYDGDVGNYYYGQGHPMKPHRIRMTHNLLLNYGLYRKMEIYRPHKANAEEMTKY 64

Query: 94  HSESYLKSLQS--SPNVS-IIIEVPPVALFPNCLVQRKVLYPFRKQVGGTILAA-KLAKE 149
           HS+ Y+K L+S    N+S    ++    +  +C V   +    +   GG++ +A KL K+
Sbjct: 65  HSDDYIKFLRSIRPDNMSEYSKQMQRFNVGEDCPVFDGLFEFCQLSAGGSVASAVKLNKQ 124

Query: 150 R-GWAINVGGGFHHCSADEGGGFCAYADISLCI 181
           +   A+N  GG HH    E  GFC   DI L I
Sbjct: 125 QTDIAVNWAGGLHHAKKSEASGFCYVNDIVLAI 157

Histone deacetylase 1 (HDAC1) is a Zn-dependent class I 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. HDAC1 is involved in regulation through association with DNA binding proteins to target specific chromatin regions. In particular, HDAC1 appears to play a major role in pre-implantation embryogenesis in establishing a repressive chromatin state. Its interaction with retinoblastoma tumor-suppressor protein is essential in the control of cell proliferation and differentiation. Together with metastasis-associated protein-2 (MTA2), it deacetylates p53, thereby modulating its effect on cell growth and apoptosis. It participates in DNA-damage response, along with HDAC2; together, they promote DNA non-homologous end-joining. HDAC1 is also involved in tumorogenesis; its overexpression modulates cancer progression. Specific inhibitors of HDAC1 are currently used in cancer therapy. Length = 371

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

 Score = 45.6 bits (109), Expect = 5e-06
 Identities = 35/137 (25%), Positives = 54/137 (39%), Gaps = 17/137 (12%)

Query: 63  RICQFLSSEGFLDKNCIVEPLEASKEDLLVVHSESYLKSLQSSPNVSIIIEVPPVALFPN 122
            I + L  EG LD+   VEP  A++E+LL VH+  Y++ ++         E     L P+
Sbjct: 10  AILEALEEEGLLDRLVFVEPRPATEEELLRVHTPEYIERVEE------TCEAGGGYLDPD 63

Query: 123 CLVQRKVLYPFRKQVGGTILAAKLAKERGWAINVGGGF-------HHCSADEGGGFCAYA 175
             V            G  + A       G A N    F       HH   D   GFC + 
Sbjct: 64  TYVSPGSYEAALLAAGAALAAVDAV-LSGEAEN---AFALVRPPGHHAEPDRAMGFCLFN 119

Query: 176 DISLCIHYAFVQLNISR 192
           ++++   YA  +  + R
Sbjct: 120 NVAIAARYAQKRYGLKR 136

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|212540 cd11598, HDAC_Hos2, Class I histone deacetylases including ScHos2 and SpPhd1

 Score = 44.0 bits (104), Expect = 1e-05
 Identities = 35/110 (31%), Positives = 47/110 (42%), Gaps = 8/110 (7%)

Query: 79  IVEPLEASKEDLLVVHSESYLKSL-QSSP---NVSIIIEVPPVALFPNCLVQRKVLYPFR 134
             E   A++E+L   H   YL  L + SP   N     +  P  +  +C V    +Y + 
Sbjct: 43  TYEARAATREELRQFHDADYLDFLSKVSPENANQLRFDKAEPFNIGDDCPVFDG-MYDYC 101

Query: 135 KQVGGTILAA--KL-AKERGWAINVGGGFHHCSADEGGGFCAYADISLCI 181
           +   G  L A  KL + +   AIN  GG HH    E  GFC   DI L I
Sbjct: 102 QLYAGASLDAARKLCSGQSDIAINWSGGLHHAKKSEASGFCYVNDIVLAI 151

This subfamily includes Class I histone deacetylase (HDAC) Hos2 from Saccharomyces cerevisiae as well as a histone deacetylase Phd1 from Schizosaccharomyces pombe. Hos2 binds to the coding regions of genes during gene activation, specifically it deacetylates the lysines in H3 and H4 histone tails. It is preferentially associated with genes of high activity genome-wide and is shown to be necessary for efficient transcription. Thus, Hos2 is directly required for gene activation in contrast to other class I histone deacetylases. Protein encoded by phd1 is inhibited by trichostatin A (TSA), a specific inhibitor of histone deacetylase, and is involved in the meiotic cell cycle in S. pombe. Class 1 HDACs are Zn-dependent enzymes that catalyze hydrolysis of N(6)-acetyl-lysine residues in histone amino termini to yield a deacetylated histone (EC 3.5.1.98). Length = 311

>gnl|CDD|212521 cd09996, HDAC_classII_1, Histone deacetylases and histone-like deacetylases, classII

 Score = 42.9 bits (102), Expect = 4e-05
 Identities = 33/149 (22%), Positives = 52/149 (34%), Gaps = 41/149 (27%)

Query: 63  RICQFLSSEGFLDKNCIVEPLEASKEDLLVVHSESYL---KSLQSSPNVSIIIEVPPVAL 119
           RI   L   G  D   ++ P  A+ E+LL VH+  Y+   K+  ++       E      
Sbjct: 42  RIKNLLEVSGLSDHLVLITPRPATDEELLRVHTPEYIDRVKAASAAGGG----EAGGGTP 97

Query: 120 FPNCLVQRKVLYPFRKQVGGTILAAKLAKERGWAIN---------VGGGF-------HHC 163
           F                  G+   A LA   G AI          V   +       HH 
Sbjct: 98  FGP----------------GSYEIALLAA--GGAIAAVDAVLDGEVDNAYALVRPPGHHA 139

Query: 164 SADEGGGFCAYADISLCIHYAFVQLNISR 192
             D+G GFC + ++++   +A     + R
Sbjct: 140 EPDQGMGFCLFNNVAIAARHALAVGGVKR 168

This subfamily includes bacterial as well as eukaryotic 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. Included in this family is a bacterial HDAC-like amidohydrolase (Bordetella/Alcaligenes species FB18817, denoted as FB188 HDAH) shown to be most similar in sequence and function to class II HDAC6 domain 3 or b (HDAC6b). FB188 HDAH is able to remove the acetyl moiety from acetylated histones, and can be inhibited by common HDAC inhibitors such as SAHA (suberoylanilide hydroxamic acid) as well as class II-specific but not class I specific inhibitors. Length = 359

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

 Score = 41.9 bits (99), Expect = 8e-05
 Identities = 28/137 (20%), Positives = 59/137 (43%), Gaps = 11/137 (8%)

Query: 63  RICQFLSSEGFLDKNCIVEPLEASKEDLLVVHSESYLKSLQSSPNVSIIIEVPPVALFPN 122
            I + L+ +G L++   +   EA ++++L+VHS+ Y+  ++S+  +         + + +
Sbjct: 16  AILERLTQDGLLERCVKIPAREAEEDEILLVHSQEYIDLVKSTETMEKEELESLCSGYDS 75

Query: 123 CLVQRKVLYPFRKQVGGTILAAKLAKERGWAINVGGGF-------HHCSADEGGGFCAYA 175
             +        R   G TI   K          +  GF       HH   +E  G+C + 
Sbjct: 76  VYLCPSTYEAARLAAGSTIELVKAVMAGK----IQNGFALIRPPGHHAMRNEANGYCIFN 131

Query: 176 DISLCIHYAFVQLNISR 192
           ++++   YA  +L + R
Sbjct: 132 NVAIAAKYAIEKLGLKR 148

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|212529 cd10005, HDAC3, Histone deacetylase 3 (HDAC3)

 Score = 41.2 bits (97), Expect = 2e-04
 Identities = 39/123 (31%), Positives = 47/123 (38%), Gaps = 21/123 (17%)

Query: 72  GFLDKNCIVEPLEASKEDLLVVHSESYLKSLQS-SPNVSIIIEVPPVALFPNCLVQRKV- 129
           G   K  + +P  AS  D+   HSE Y+  LQ  +P          +  F   L Q  V 
Sbjct: 38  GLYKKMQVYKPYRASAHDMCRFHSEDYIDFLQRVTPQ--------NIQGFTKSLNQFNVG 89

Query: 130 --------LYPFRKQVGGTIL--AAKL-AKERGWAINVGGGFHHCSADEGGGFCAYADIS 178
                   L+ F     G  L  A KL  K    AIN  GG HH    E  GFC   DI 
Sbjct: 90  DDCPVFPGLFDFCSMYTGASLEGATKLNHKICDIAINWSGGLHHAKKFEASGFCYVNDIV 149

Query: 179 LCI 181
           + I
Sbjct: 150 IAI 152

HDAC3 is a Zn-dependent class I histone deacetylase 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. In order to target specific chromatin regions, HDAC3 can interact with DNA-binding proteins (transcriptional factors) either directly or after forming complexes with a number of other proteins, as observed for the SMPT/N-CoR complex which recruits human HDAC3 to specific chromatin loci and activates deacetylation. Human HDAC3 is also involved in deacetylation of non-histone substrates such as RelA, SPY and p53 factors. This protein can also down-regulate p53 function and subsequently modulate cell growth and apoptosis. This gene is therefore regarded as a potential tumor suppressor gene. HDAC3 plays a role in various physiological processes, including subcellular protein localization, cell cycle progression, cell differentiation, apoptosis and survival. HDAC3 has been found to be overexpressed in some tumors including leukemia, lung carcinoma, colon cancer and maxillary carcinoma. Thus, inhibitors precisely targeting HDAC3 (in some cases together with retinoic acid or hyperthermia) could be a therapeutic drug option. Length = 381

>gnl|CDD|240374 PTZ00346, PTZ00346, histone deacetylase; Provisional

 Score = 38.9 bits (90), Expect = 0.001
 Identities = 41/150 (27%), Positives = 66/150 (44%), Gaps = 12/150 (8%)

Query: 39  YSPDYDIS-FLGIEKLHPFDSSKWGRICQFLSSEGFLDKNC--IVEPLEASKEDLLVVHS 95
           Y+ D +IS F+    + P+       I + L     +D +C  +V PL    E+L+  H+
Sbjct: 30  YASDMNISAFVPQHAMKPYRVLAAMEIVRSLK----IDAHCRTVVPPL-VKVEELMAYHT 84

Query: 96  ESYLKSLQSSPNVSII--IEVPPVALFPNCLVQRKVLYPFRKQVGGTILAAKL--AKERG 151
           ++YL +L      S +   E   V    +C     ++        GT++ A L  + +  
Sbjct: 85  DTYLANLGLHSCRSWLWNAETSKVFFSGDCPPVEGLMEHSIATASGTLMGAVLLNSGQVD 144

Query: 152 WAINVGGGFHHCSADEGGGFCAYADISLCI 181
            A++ GGG HH    E  GFC   DI L I
Sbjct: 145 VAVHWGGGMHHSKCGECSGFCYVNDIVLGI 174

Length = 429

Conserved Domains Detected by HHsearch

Original result of HHsearch against CDD database

ID	Length	Definition	Probability
Query	192
PTZ00063	436	histone deacetylase; Provisional	100.0
COG0123	340	AcuC Deacetylases, including yeast histone deacety	100.0
PTZ00346	429	histone deacetylase; Provisional	100.0
PF00850	311	Hist_deacetyl: Histone deacetylase domain; InterPr	100.0
KOG1342	425	consensus Histone deacetylase complex, catalytic c	99.97
KOG1344	324	consensus Predicted histone deacetylase [Chromatin	99.96
KOG1343	797	consensus Histone deacetylase complex, catalytic c	99.6
KOG1343	797	consensus Histone deacetylase complex, catalytic c	99.48

>PTZ00063 histone deacetylase; Provisional

Probab=100.00  E-value=7.6e-39  Score=285.48  Aligned_cols=155  Identities=21%  Similarity=0.303  Sum_probs=136.5

Q ss_pred             CCCcceEecCCCceeeccccccCCCCCcchHHHHHHhhhcCccCCCceecccccCccceEEEecHHHHhhcccCceeeee
Q 029525           32 IFKLPLIYSPDYDISFLGIEKLHPFDSSKWGRICQFLSSEGFLDKNCIVEPLEASKEDLLVVHSESYLKSLQSSPNVSII  111 (192)
Q Consensus        32 ~~~~~iiy~~~~~~h~~~~~~~Hpe~p~R~~~i~~~L~~~gl~~~~~~~~p~~a~~e~l~~vH~~~Yv~~l~~~~~~~~~  111 (192)
                      ++++.++||+++..|.+  +.+|||+|.|++.+.++|+++|+...++++.|++|+.++|++||+++||++|++.++....
T Consensus         3 ~~~v~~~yd~~~~~h~~--g~~HP~~P~Rl~~~~~ll~~~gl~~~~~~~~p~~At~eeL~~vHs~~YI~~L~~~~~~~~~   80 (436)
T PTZ00063          3 RKRVSYFYDPDIGSYYY--GPGHPMKPQRIRMAHALILSYDLYKHMEIYRPHKSVEPELVLFHDEEYVDFLSSISPENYR   80 (436)
T ss_pred             CceEEEEECccccCcCC--cCcCCcChHHHHHHHHHHHhCCCcccCeEecCCCCCHHHHHHhCCHHHHHHHHHhChhhcc
Confidence            45689999999999975  5689999999999999999999998899999999999999999999999999987654211


Q ss_pred             ---eecCCceec--chhhhhhcccccccccccceeeehhhhhhh--ceeEeecCCcccccCCCCCeeeEechhhhhHhhh
Q 029525          112 ---IEVPPVALF--PNCLVQRKVLYPFRKQVGGTILAAKLAKER--GWAINVGGGFHHCSADEGGGFCAYADISLCIHYA  184 (192)
Q Consensus       112 ---~e~~~~~~~--~d~~~~~~~~~~a~~aaGg~l~aa~~~l~~--~~a~~rppG~HHA~~~~a~GFC~fNnvAIAa~~l  184 (192)
                         ..+..++++  .|||+++++|+++++++||+|.|++.++++  +||++||||+|||++++|+|||+||||||||++|
T Consensus        81 ~~~~~~~~f~lg~~~D~pv~~gl~~~a~~aaGgsl~Aa~~l~~g~~~iAin~~GG~HHA~~~~A~GFC~~NdiaiAi~~L  160 (436)
T PTZ00063         81 DFTYQLKRFNVGEATDCPVFDGLFEFQQSCAGASIDGAYKLNNHQADICVNWSGGLHHAKRSEASGFCYINDIVLGILEL  160 (436)
T ss_pred             cchhhhhhcccCCCCCCCcccHHHHHHHHHHhHHHHHHHHHHcCCCCEEeeCCCCCCCCccCCCCceeeecHHHHHHHHH
Confidence               011223444  599999999999999999999999999864  5999999999999999999999999999999999


Q ss_pred             hhhc
Q 029525          185 FVQL  188 (192)
Q Consensus       185 ~~~~  188 (192)
                      ++.+
T Consensus       161 ~~~~  164 (436)
T PTZ00063        161 LKYH  164 (436)
T ss_pred             HHhC
Confidence            9865

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

Probab=100.00  E-value=1.2e-37  Score=271.59  Aligned_cols=152  Identities=28%  Similarity=0.419  Sum_probs=138.3

Q ss_pred             CCCcceEecCCCceeeccccccCCCCCcchHHHHHHhhhcCccCCCceecccccCccceEEEecHHHHhhcccCceeeee
Q 029525           32 IFKLPLIYSPDYDISFLGIEKLHPFDSSKWGRICQFLSSEGFLDKNCIVEPLEASKEDLLVVHSESYLKSLQSSPNVSII  111 (192)
Q Consensus        32 ~~~~~iiy~~~~~~h~~~~~~~Hpe~p~R~~~i~~~L~~~gl~~~~~~~~p~~a~~e~l~~vH~~~Yv~~l~~~~~~~~~  111 (192)
                      .|++.++||+.+..|.  .+.+|||+|.|++.+.++|++.++...+++++|++++.++|++||+++||++|++.+...+ 
T Consensus         1 ~~~~~~~~~~~~~~~~--~~~~Hpe~p~R~~~~~~~l~~~~~~~~~~~~~p~~~~~~~l~~vH~~~yv~~l~~~~~~~~-   77 (340)
T COG0123           1 MMKTALIYHPEFLEHE--PPPGHPENPDRLRLILELLESSGLPDSLELVEPRPATLEELLLVHSPDYVEFLESLSEEEG-   77 (340)
T ss_pred             CCcceEeeCHHHhcCC--CCCCCCCChHHHHHHHHHHHhcCccccccccCCCcCCHHHHHhhCCHHHHHHHHHhccccc-
Confidence            3678999999999986  4678999999999999999999988888999999999999999999999999999886521 


Q ss_pred             eecCCceecchhhhhhcccccccccccceeeehhhhhhh---ceeEeecCCcccccCCCCCeeeEechhhhhHhhhhhhc
Q 029525          112 IEVPPVALFPNCLVQRKVLYPFRKQVGGTILAAKLAKER---GWAINVGGGFHHCSADEGGGFCAYADISLCIHYAFVQL  188 (192)
Q Consensus       112 ~e~~~~~~~~d~~~~~~~~~~a~~aaGg~l~aa~~~l~~---~~a~~rppG~HHA~~~~a~GFC~fNnvAIAa~~l~~~~  188 (192)
                          ...++.|||+++.++++|++++||+++|++.++++   .|++.|||| |||++++++|||+|||+||||++|+++ 
T Consensus        78 ----~~~~d~d~~~s~~~~~~a~~a~G~al~A~~~v~~g~~~~~~~~rppg-HHA~~~~a~GFC~fNn~Aiaa~~l~~~-  151 (340)
T COG0123          78 ----YGNLDGDTPVSPGTYEAARLAAGGALTAVDAVLEGEDNAFALVRPPG-HHAGRDRASGFCLFNNVAIAAKYLLKK-  151 (340)
T ss_pred             ----cccccCCCccChHHHHHHHHHhhHHHHHHHHHHcCccceEEECCCCc-ccccCCCCceeeeecHHHHHHHHHHHc-
Confidence                24578999999999999999999999999999974   689999999 999999999999999999999999998 


Q ss_pred             ccCC
Q 029525          189 NISR  192 (192)
Q Consensus       189 g~~R  192 (192)
                      |++|
T Consensus       152 ~~~R  155 (340)
T COG0123         152 GVKR  155 (340)
T ss_pred             CCCc
Confidence            7665

>PTZ00346 histone deacetylase; Provisional

Probab=100.00  E-value=4.9e-37  Score=272.67  Aligned_cols=155  Identities=25%  Similarity=0.297  Sum_probs=131.2

Q ss_pred             CCCcceE----ecCCCceeeccccccCCCCCcchHHHHHHhhhcCccCCCceecccccCccceEEEecHHHHhhcccCce
Q 029525           32 IFKLPLI----YSPDYDISFLGIEKLHPFDSSKWGRICQFLSSEGFLDKNCIVEPLEASKEDLLVVHSESYLKSLQSSPN  107 (192)
Q Consensus        32 ~~~~~ii----y~~~~~~h~~~~~~~Hpe~p~R~~~i~~~L~~~gl~~~~~~~~p~~a~~e~l~~vH~~~Yv~~l~~~~~  107 (192)
                      ..++.+|    |.+++..+.  ++.+|||+|+|++.++++|++.|+...++++.|++|+.++|++||+++||++|++...
T Consensus        19 ~~~~~~~~~~~y~~~~~~~~--~~~~HPe~P~Rl~~~~~ll~~~gl~~~~~~~~p~~At~eeL~~vHs~~YI~~l~~~~~   96 (429)
T PTZ00346         19 RGRVALIDTSGYASDMNISA--FVPQHAMKPYRVLAAMEIVRSLKIDAHCRTVVPPLVKVEELMAYHTDTYLANLGLHSC   96 (429)
T ss_pred             cceeEEEecCcccccccccc--CCCcCCCCHHHHHHHHHHHHhcCCcccCeeecCCCCCHHHHHHhCCHHHHHHHHHhcc
Confidence            4567899    555565554  4578999999999999999999998889999999999999999999999999987432


Q ss_pred             eee--eeecCCceecchhhhhhcccccccccccceeeehhhhhhh--ceeEeecCCcccccCCCCCeeeEechhhhhHhh
Q 029525          108 VSI--IIEVPPVALFPNCLVQRKVLYPFRKQVGGTILAAKLAKER--GWAINVGGGFHHCSADEGGGFCAYADISLCIHY  183 (192)
Q Consensus       108 ~~~--~~e~~~~~~~~d~~~~~~~~~~a~~aaGg~l~aa~~~l~~--~~a~~rppG~HHA~~~~a~GFC~fNnvAIAa~~  183 (192)
                      ...  ..+.....+++|||+++++|+++++++||++.|++.++++  .+|++||||+|||+++++||||+||||||||++
T Consensus        97 ~~~~~~~~~~~~~~d~Dtpv~~~~~~~a~laaGgsl~Aa~~v~~g~~~~Ai~~pGG~HHA~~~~a~GFC~fNdvAIAa~~  176 (429)
T PTZ00346         97 RSWLWNAETSKVFFSGDCPPVEGLMEHSIATASGTLMGAVLLNSGQVDVAVHWGGGMHHSKCGECSGFCYVNDIVLGILE  176 (429)
T ss_pred             cccccccccccccccCCCCCChHHHHHHHHHHHHHHHHHHHHHcCCCCEEEeCCCCcCcCCCCCCCcchHHhHHHHHHHH
Confidence            110  0111223467899999999999999999999999999864  589999999999999999999999999999999


Q ss_pred             hhhhc
Q 029525          184 AFVQL  188 (192)
Q Consensus       184 l~~~~  188 (192)
                      |++++
T Consensus       177 ll~~~  181 (429)
T PTZ00346        177 LLKCH  181 (429)
T ss_pred             HHHcC
Confidence            99864

>PF00850 Hist_deacetyl: Histone deacetylase domain; InterPro: IPR023801 Regulation of transcription is, in part, modulated by reversible histone acetylation on several lysine

Probab=100.00  E-value=6.3e-36  Score=258.46  Aligned_cols=143  Identities=24%  Similarity=0.383  Sum_probs=108.3

Q ss_pred             cCCCceeeccccccCCCCCcchHHHHHHhhhc-CccCCCceecccccCccceEEEecHHHHhhcccCceeeeeee-cCCc
Q 029525           40 SPDYDISFLGIEKLHPFDSSKWGRICQFLSSE-GFLDKNCIVEPLEASKEDLLVVHSESYLKSLQSSPNVSIIIE-VPPV  117 (192)
Q Consensus        40 ~~~~~~h~~~~~~~Hpe~p~R~~~i~~~L~~~-gl~~~~~~~~p~~a~~e~l~~vH~~~Yv~~l~~~~~~~~~~e-~~~~  117 (192)
                      ||.|. |.  ++++|||+|+|++.+.+.|++. ++++.      ++++.++|++||+++||+.|++.+......+ ....
T Consensus         1 ~~~~~-~~--~~~~Hpe~p~R~~~i~~~L~~~~~l~~~------~~a~~~~L~~vH~~~Yv~~l~~~~~~~~~~~~~~~~   71 (311)
T PF00850_consen    1 HPQYQ-HQ--LGDGHPESPERLESIVEALKESYGLLPR------RPATDEELLRVHDPEYVDFLESASKEAKEEEEAGSP   71 (311)
T ss_dssp             ----T-T---CCTTSSSCTHHHHHHHHHHHHTTTGGGG----------HHHHTTTS-HHHHHHHHHHHHHTSGCTHHHHH
T ss_pred             CCccc-CC--CCCCcCCCHHHHHHHHHHHHHhcCCCCC------CCCCHHHHHHcCCHHHHHHHHHhccccccccccccc
Confidence            56776 43  5678999999999999999886 76543      9999999999999999999998775322111 0000


Q ss_pred             ---e-e-cchhhhhhcccccccccccceeeehhhhhh----hceeEeecCCcccccCCCCCeeeEechhhhhHhhhhhhc
Q 029525          118 ---A-L-FPNCLVQRKVLYPFRKQVGGTILAAKLAKE----RGWAINVGGGFHHCSADEGGGFCAYADISLCIHYAFVQL  188 (192)
Q Consensus       118 ---~-~-~~d~~~~~~~~~~a~~aaGg~l~aa~~~l~----~~~a~~rppG~HHA~~~~a~GFC~fNnvAIAa~~l~~~~  188 (192)
                         . + +.|||+++++++++++++||++.|++.+++    ++||++|||| |||.+++++|||+||||||||+||++++
T Consensus        72 ~~~~~~~~~dt~~~~~~~~~a~~a~g~~l~a~~~v~~g~~~~~~a~~rppg-HHA~~~~a~GFC~~Nnvaiaa~~l~~~~  150 (311)
T PF00850_consen   72 EFPNILDDGDTPISPGSWEAARLAAGGTLEAADAVLSGEIKNAFALVRPPG-HHAERDRAMGFCYFNNVAIAAKYLRKKY  150 (311)
T ss_dssp             HHCCBTSSSSSEBCTTHHHHHHHHHHHHHHHHHHHHTTSSSEEEEEESS---TT-BTTBBBTTBSS-HHHHHHHHHHHTT
T ss_pred             ccccccCCCCcceehHHHHHHHHHHHHHHHHHHhhhcccccceeeecCccc-cccCcCcCcceeeeccHHHHHHHHhhcc
Confidence               0 1 578999999999999999999999999994    4799999999 9999999999999999999999999988


Q ss_pred             ccCC
Q 029525          189 NISR  192 (192)
Q Consensus       189 g~~R  192 (192)
                      |++|
T Consensus       151 ~~~r  154 (311)
T PF00850_consen  151 GLKR  154 (311)
T ss_dssp             TTSS
T ss_pred             ccce
Confidence            8887

Histone deacetylases (HDA) catalyse the removal of the acetyl group. Histone deacetylases, acetoin utilization proteins and acetylpolyamine amidohydrolases are all members of this ancient protein superfamily []. HDAs function in multi-subunit complexes, reversing the acetylation of histones by histone acetyltransferases [, ], and are also believed to deacetylate general transcription factors such as TFIIF and sequence-specific transcription factors such as p53 []. Thus, HDAs contribute to the regulation of transcription, in particular transcriptional repression []. At N-terminal tails of histones, removal of the acetyl group from the epsilon-amino group of a lysine side chain will restore its positivecharge, which may stabilise the histone-DNA interaction and prevent activating transcription factors binding to promoter elements []. HDAs play important roles in the cell cycle and differentiation, and their deregulation can contribute to the development of cancer [, ]. This entry represents the structural domain found in histone deacetylases. It consists of a 3-layer(alpha-beta-alpha) sandwich.; PDB: 4A69_A 2VQV_A 2VQO_A 2VQJ_A 2VQQ_B 2VQM_A 2VQW_G 3MAX_C 3MEN_D 1T64_B ....

>KOG1342 consensus Histone deacetylase complex, catalytic component RPD3 [Chromatin structure and dynamics]

Probab=99.97  E-value=3.5e-32  Score=235.13  Aligned_cols=157  Identities=25%  Similarity=0.329  Sum_probs=140.2

Q ss_pred             CCCCcceEecCCCceeeccccccCCCCCcchHHHHHHhhhcCccCCCceecccccCccceEEEecHHHHhhcccCceeee
Q 029525           31 PIFKLPLIYSPDYDISFLGIEKLHPFDSSKWGRICQFLSSEGFLDKNCIVEPLEASKEDLLVVHSESYLKSLQSSPNVSI  110 (192)
Q Consensus        31 ~~~~~~iiy~~~~~~h~~~~~~~Hpe~p~R~~~i~~~L~~~gl~~~~~~~~p~~a~~e~l~~vH~~~Yv~~l~~~~~~~~  110 (192)
                      .+.++.+.|+++-...  .++.+||++|.|++....++..+||...+++..|..|+.+|+.++|+.+||++|+..++...
T Consensus         5 ~k~~V~y~yd~~vg~~--~Yg~~hpmkP~R~~mth~Lv~~YgL~k~M~i~~p~~a~~~dm~~FHt~eYi~fL~~V~p~n~   82 (425)
T KOG1342|consen    5 IKRRVSYFYDPDVGNF--HYGQGHPMKPHRIRMTHSLVLNYGLYKKMEIYRPDKASAQDMTRFHTDEYINFLQSVTPENM   82 (425)
T ss_pred             CCceEEEEecCccccc--cccCCCCCCcceehhhhHHHHhcchhhceeeccCCCCCHHHHHhhchHHHHHHHhhCCcccc
Confidence            4667888899888754  46789999999999999999999999999999999999999999999999999999887543


Q ss_pred             e---eecCCceecchhhhhhcccccccccccceeeehhhhhhh--ceeEeecCCcccccCCCCCeeeEechhhhhHhhhh
Q 029525          111 I---IEVPPVALFPNCLVQRKVLYPFRKQVGGTILAAKLAKER--GWAINVGGGFHHCSADEGGGFCAYADISLCIHYAF  185 (192)
Q Consensus       111 ~---~e~~~~~~~~d~~~~~~~~~~a~~aaGg~l~aa~~~l~~--~~a~~rppG~HHA~~~~a~GFC~fNnvAIAa~~l~  185 (192)
                      .   .++..++++.|||+++++|+.+++++||+|.||+.+..+  .+|+||+||+|||++++|+|||++|||++||..|+
T Consensus        83 ~~~~~~~~~fNvg~DCPvF~gL~~fC~~~~GgSl~aa~kLn~~~~dIaINW~GGlHHAKK~eASGFCYvNDIVL~ILeLl  162 (425)
T KOG1342|consen   83 ETFNKELKQFNVGEDCPVFDGLYDYCQLYTGGSLNAAQKLNRGECDIAINWAGGLHHAKKSEASGFCYVNDIVLGILELL  162 (425)
T ss_pred             cccchHHHhcCCCCCCccccCHHHHHHHhcccchHHHHHhCCCCceEEEecCcccccccccccCcceeehHHHHHHHHHH
Confidence            1   233456788999999999999999999999999988753  59999999999999999999999999999999999


Q ss_pred             hhcc
Q 029525          186 VQLN  189 (192)
Q Consensus       186 ~~~g  189 (192)
                      |.+.
T Consensus       163 K~h~  166 (425)
T KOG1342|consen  163 KYHK  166 (425)
T ss_pred             HhCC
Confidence            8653

>KOG1344 consensus Predicted histone deacetylase [Chromatin structure and dynamics]

Probab=99.96  E-value=6.3e-30  Score=209.73  Aligned_cols=173  Identities=58%  Similarity=1.034  Sum_probs=163.2

Q ss_pred             cccccceeeecCCCCcceEecCCCceeeccccccCCCCCcchHHHHHHhhhcCccCCCceecccccCccceEEEecHHHH
Q 029525           20 RILSSKLYFDIPIFKLPLIYSPDYDISFLGIEKLHPFDSSKWGRICQFLSSEGFLDKNCIVEPLEASKEDLLVVHSESYL   99 (192)
Q Consensus        20 ~~~~~~~~~~~~~~~~~iiy~~~~~~h~~~~~~~Hpe~p~R~~~i~~~L~~~gl~~~~~~~~p~~a~~e~l~~vH~~~Yv   99 (192)
                      +++|+++++.+|..+++|+|++.|...+.++...||++..++..+.+.|.+.++++.-.+++|..++.++|++||+.+|+
T Consensus         1 ~v~~~kly~~vp~~k~pIvyS~~Y~i~FmGlEkLHPFDa~Kwg~v~kfL~~~~~l~d~~lvEp~e~t~e~L~rvHtr~YL   80 (324)
T KOG1344|consen    1 EVVWVKLYDAVPAGKLPIVYSRNYAIRFMGLEKLHPFDAAKWGHVHKFLCAMNLLTDETLVEPNEATKEDLLRVHTRKYL   80 (324)
T ss_pred             CceeeeecccCccccccEEecCccceeecchhhcCcCcccchhHHHHHHHHhccccccccccCcccCHHHHHhHhhHHHH
Confidence            36899999999999999999999999988888999999999999999999999998888999999999999999999999


Q ss_pred             hhcccCceeeeeeecCCceecchhhhhhcccccccccccceeeehhhhhhhceeEeecCCcccccCCCCCeeeEechhhh
Q 029525          100 KSLQSSPNVSIIIEVPPVALFPNCLVQRKVLYPFRKQVGGTILAAKLAKERGWAINVGGGFHHCSADEGGGFCAYADISL  179 (192)
Q Consensus       100 ~~l~~~~~~~~~~e~~~~~~~~d~~~~~~~~~~a~~aaGg~l~aa~~~l~~~~a~~rppG~HHA~~~~a~GFC~fNnvAI  179 (192)
                      +.++..-..+.+.|+|...+.|.|++....+...++-+||++.|++++++.|+|+|..|||||+..++++|||.|.|+.+
T Consensus        81 kslr~s~~vA~I~EiP~v~flPn~~iqrk~LrPlR~QagGtilA~kLAle~GWAINvGGGFHHcss~rGGGFC~yADItl  160 (324)
T KOG1344|consen   81 KSLRWSIKVAQITEIPFVGFLPNCIIQRKLLRPLRLQAGGTILAAKLALERGWAINVGGGFHHCSSSRGGGFCAYADITL  160 (324)
T ss_pred             HHhhccceeeEEEeccccccCchhhhhhhhccceeeccCceeehhhhhhhcCeEEeecCccceeccCCCCceeehhhHHH
Confidence            99999888888889998888899999999999999999999999999999999999999999999999999999999999


Q ss_pred             hHhhhhhhcccCC
Q 029525          180 CIHYAFVQLNISR  192 (192)
Q Consensus       180 Aa~~l~~~~g~~R  192 (192)
                      |+..|-++..++|
T Consensus       161 ~I~~lFer~~isr  173 (324)
T KOG1344|consen  161 AIFFLFERKAISR  173 (324)
T ss_pred             HHHHHHhhhhhhh
Confidence            9999987765544

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

Probab=99.60  E-value=1.8e-16  Score=150.33  Aligned_cols=125  Identities=22%  Similarity=0.281  Sum_probs=87.3

Q ss_pred             cCCCCCcchHHHHHHhhhcCccCCCceecccccCccceEEEecHHHHhhcccCceeee---e----eecCCceecchhhh
Q 029525           53 LHPFDSSKWGRICQFLSSEGFLDKNCIVEPLEASKEDLLVVHSESYLKSLQSSPNVSI---I----IEVPPVALFPNCLV  125 (192)
Q Consensus        53 ~Hpe~p~R~~~i~~~L~~~gl~~~~~~~~p~~a~~e~l~~vH~~~Yv~~l~~~~~~~~---~----~e~~~~~~~~d~~~  125 (192)
                      +|++.|.|.   .-.+. .|++..|+.+    |+.++|+.||+.+||..+...-..+.   .    .++...+.++|+.+
T Consensus       464 ~~~~~p~r~---~t~~~-~gl~~~c~r~----at~~el~~vHs~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~~~~dt~~  535 (797)
T KOG1343|consen  464 RSPESPARF---TTGLH-TGLLGKCERI----ATLEELQLVHSEAHVLLYGSRKLLGDLSLKFESRLPCGGIGVDSDTWW  535 (797)
T ss_pred             CCcccchhh---hcccc-cccccccccc----cchhhhhhcccchhhcccchhhhcccccchhhhhccccceeecccHHH
Confidence            689999992   22222 7888888776    99999999999999999662111100   0    01112233455554


Q ss_pred             hhcccccccccccceeeehhhhhh------hceeEeecCCcccccCCCCCeeeEechhhhhHhhhhhhcccCC
Q 029525          126 QRKVLYPFRKQVGGTILAAKLAKE------RGWAINVGGGFHHCSADEGGGFCAYADISLCIHYAFVQLNISR  192 (192)
Q Consensus       126 ~~~~~~~a~~aaGg~l~aa~~~l~------~~~a~~rppG~HHA~~~~a~GFC~fNnvAIAa~~l~~~~g~~R  192 (192)
                      +      ...++|++..+++.+++      .|||++|||| |||.+..+||||+|||+|||+++++..+.++|
T Consensus       536 ~------~~~ssga~~~av~~v~~~~~~~~~g~avvRppG-Hha~~~~a~gfc~fn~vaiaak~l~~~~~~~r  601 (797)
T KOG1343|consen  536 N------ELHSSGAARLAVGCVIELAFKVASGFAVVRPPG-HHAEASTAMGFCFFNSVAIAAKLLQQRSKASR  601 (797)
T ss_pred             H------HHHHHHHHHHhcchhhhhhhhhhcceeEecCCc-cccccCCcceeeeecchhhhhHHhhhhhhhcc
Confidence            4      44555555555554422      3899999999 99999999999999999999999998874443

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

Probab=99.48  E-value=5.5e-15  Score=140.29  Aligned_cols=158  Identities=15%  Similarity=0.105  Sum_probs=124.2

Q ss_pred             CCCcceEecCCCceeeccccccC-CCCCcchHHHHHHhhhcCccCCCceecc-cccCccceEEEecHHHHhhcccCceee
Q 029525           32 IFKLPLIYSPDYDISFLGIEKLH-PFDSSKWGRICQFLSSEGFLDKNCIVEP-LEASKEDLLVVHSESYLKSLQSSPNVS  109 (192)
Q Consensus        32 ~~~~~iiy~~~~~~h~~~~~~~H-pe~p~R~~~i~~~L~~~gl~~~~~~~~p-~~a~~e~l~~vH~~~Yv~~l~~~~~~~  109 (192)
                      .+.+.++|++.+..|.......| ++.++|++.+.+.+.+.++...+.+..+ +.+++++++.+|+++|++.+.......
T Consensus        28 ~~~~~l~~~~~~~~h~~~~~~~~~~~~~e~~~~~~~~~~~~~~~~~~~~~~~~~~a~~~~~~~v~~ke~~~~~~~t~~~~  107 (797)
T KOG1343|consen   28 QIQKQLLFAEFQKQHENQQELLEKEEKLERLRQIEEELERHRLEQPLLILRNKREAKESAVASVHVKEKLQEFLLSKKMT  107 (797)
T ss_pred             hhhhhhhhhhhhhhhhcccccccchhhhhHHHHHHHHhhccCCccccccccchhhcccchhcccccHHHHHHHHhhhhhc
Confidence            56789999999999953222334 4889999999999999998877766555 899999999999999999998766211


Q ss_pred             eeeecCC-ceecchhhhhhcccccccccccceeeehhhhh----hhceeEeecCCcccccCCCCCeeeEechhhhhHhhh
Q 029525          110 IIIEVPP-VALFPNCLVQRKVLYPFRKQVGGTILAAKLAK----ERGWAINVGGGFHHCSADEGGGFCAYADISLCIHYA  184 (192)
Q Consensus       110 ~~~e~~~-~~~~~d~~~~~~~~~~a~~aaGg~l~aa~~~l----~~~~a~~rppG~HHA~~~~a~GFC~fNnvAIAa~~l  184 (192)
                      ....... ..-.+..++++.++..+..++|+.+...+.++    .++++.+|||| |||.++...|||+|||||++++..
T Consensus       108 ~e~~l~~~~~~~~~~~~~~~s~~~a~~a~~~~~~~~~~~~~~~~~n~~a~v~p~~-hhsep~~~~~~cl~n~Va~~~~~~  186 (797)
T KOG1343|consen  108 AEEGLNHSSSRYPSLYYTSASHSSADQASGSLSGSYKAVLAGKASNGKADFRPPG-HHSEPNLKVGFCLFNNVAERRSSP  186 (797)
T ss_pred             chhhhhcccCCCCcceecCCchhhhcccCcccccccccccCCcccCccCcCCCCC-CccccchhcchhHHHHHHHHhhcc
Confidence            1000100 01245677888899999999999999777765    36899999999 999999999999999999999987


Q ss_pred             hhhccc
Q 029525          185 FVQLNI  190 (192)
Q Consensus       185 ~~~~g~  190 (192)
                      ..++.+
T Consensus       187 ~~~~~~  192 (797)
T KOG1343|consen  187 LLRRKK  192 (797)
T ss_pred             cccccc
Confidence            766543

---

Homologous Structure Templates

Structure Templates Detected by BLAST

Original result of BLAST against Protein Data Bank

ID	Length	Definition	E-value
Query	192
3max_A	367	Crystal Structure Of Human Hdac2 Complexed With An		6e-07
3ezp_A	388	Crystal Structure Analysis Of Human Hdac8 D101n Var		8e-06
1t64_A	377	Crystal Structure Of Human Hdac8 Complexed With Tri		3e-05
3f07_A	388	Crystal Structure Analysis Of Human Hdac8 Complexed		3e-05
2v5w_A	388	Crystal Structure Of Hdac8-Substrate Complex Length		3e-05
3sff_A	378	Crystal Structure Of Human Hdac8 Inhibitor Complex,		3e-05
3mz3_A	389	Crystal Structure Of Co2+ Hdac8 Complexed With M344		3e-05
2v5x_A	388	Crystal Structure Of Hdac8-Inhibitor Complex Length		3e-05
3ezt_A	388	Crystal Structure Analysis Of Human Hdac8 D101e Var		4e-05
4a69_A	376	Structure Of Hdac3 Bound To Corepressor And Inosito		5e-05
1c3p_A	375	Crystal Structure Of An Hdac Homolog From Aquifex A		6e-05
3ew8_A	388	Crystal Structure Analysis Of Human Hdac8 D101l Var		6e-05
3f06_A	388	Crystal Structure Analysis Of Human Hdac8 D101a Var		6e-05
3mz4_A	389	Crystal Structure Of D101l Mn2+ Hdac8 Complexed Wit		7e-05
1c3r_A	375	Crystal Structure Of An Hdac Homolog Complexed With		7e-05
3ewf_A	388	Crystal Structure Analysis Of Human Hdac8 H143a Var		4e-04

>pdb|3MAX|A Chain A, Crystal Structure Of Human Hdac2 Complexed With An N-(2-Amin Benzamide Length = 367

Iteration: 1
 Score = 50.4 bits (119), Expect = 6e-07,   Method: Compositional matrix adjust.
 Identities = 43/153 (28%), Positives = 67/153 (43%), Gaps = 5/153 (3%)
Query: 34  KLPLIYSPDYDISFLGIEKLHPFDSSKWGRICQFLSSEGFLDKNCIVEPLEASKEDLLVV 93
           K  + Y  D DI      + HP    +       L + G   K  I  P +A+ E++   
Sbjct: 2   KKKVCYYYDGDIGNYYYGQGHPMKPHRIRMTHNLLLNYGLYRKMEIYRPHKATAEEMTKY 61
Query: 94  HSESYLKSLQS--SPNVS-IIIEVPPVALFPNCLVQRKVLYPFRKQVGGTILAA-KLAKE 149
           HS+ Y+K L+S    N+S    ++    +  +C V   +    +   GG++  A KL ++
Sbjct: 62  HSDEYIKFLRSIRPDNMSEYSKQMQRFNVGEDCPVFDGLFEFCQLSTGGSVAGAVKLNRQ 121
Query: 150 R-GWAINVGGGFHHCSADEGGGFCAYADISLCI 181
           +   A+N  GG HH    E  GFC   DI L I
Sbjct: 122 QTDMAVNWAGGLHHAKKSEASGFCYVNDIVLAI 154

>pdb|3EZP|A Chain A, Crystal Structure Analysis Of Human Hdac8 D101n Variant Length = 388

Iteration: 1
 Score = 46.6 bits (109), Expect = 8e-06,   Method: Compositional matrix adjust.
 Identities = 41/157 (26%), Positives = 66/157 (42%), Gaps = 14/157 (8%)
Query: 30  IPIFKLPLIYSPDYDISFLGIEKLHPFDSSKWGRICQFLSSEGFLDKNCIVEPLEASKED 89
           +P++    IYSP+Y      + K+      +   +   + +     +  IV+P  AS E+
Sbjct: 15  VPVY----IYSPEYVSMCDSLAKI----PKRASMVHSLIEAYALHKQMRIVKPKVASMEE 66
Query: 90  LLVVHSESYLKSLQ--SSPNVSIIIEVPPVALFPNCLVQRKVLYPFRKQVGGTILAAKLA 147
           +   H+++YL+ LQ  S        +     L  NC     + + +   +GG  + A   
Sbjct: 67  MATFHTDAYLQHLQKVSQEGDDDHPDSIEYGLGYNCPATEGI-FDYAAAIGGATITAAQC 125
Query: 148 KERGW---AINVGGGFHHCSADEGGGFCAYADISLCI 181
              G    AIN  GG+HH   DE  GFC   D  L I
Sbjct: 126 LIDGMCKVAINWSGGWHHAKKDEASGFCYLNDAVLGI 162

>pdb|1T64|A Chain A, Crystal Structure Of Human Hdac8 Complexed With Trichostatin A Length = 377

Iteration: 1
 Score = 45.1 bits (105), Expect = 3e-05,   Method: Compositional matrix adjust.
 Identities = 40/157 (25%), Positives = 66/157 (42%), Gaps = 14/157 (8%)
Query: 30  IPIFKLPLIYSPDYDISFLGIEKLHPFDSSKWGRICQFLSSEGFLDKNCIVEPLEASKED 89
           +P++    IYSP+Y      + K+      +   +   + +     +  IV+P  AS E+
Sbjct: 15  VPVY----IYSPEYVSMCDSLAKI----PKRASMVHSLIEAYALHKQMRIVKPKVASMEE 66
Query: 90  LLVVHSESYLKSLQ--SSPNVSIIIEVPPVALFPNCLVQRKVLYPFRKQVGGTILAAKLA 147
           +   H+++YL+ LQ  S        +     L  +C     + + +   +GG  + A   
Sbjct: 67  MATFHTDAYLQHLQKVSQEGDDDHPDSIEYGLGYDCPATEGI-FDYAAAIGGATITAAQC 125
Query: 148 KERGW---AINVGGGFHHCSADEGGGFCAYADISLCI 181
              G    AIN  GG+HH   DE  GFC   D  L I
Sbjct: 126 LIDGMCKVAINWSGGWHHAKKDEASGFCYLNDAVLGI 162

>pdb|3F07|A Chain A, Crystal Structure Analysis Of Human Hdac8 Complexed With Apha In A New Monoclinic Crystal Form Length = 388

Iteration: 1
 Score = 45.1 bits (105), Expect = 3e-05,   Method: Compositional matrix adjust.
 Identities = 40/157 (25%), Positives = 66/157 (42%), Gaps = 14/157 (8%)
Query: 30  IPIFKLPLIYSPDYDISFLGIEKLHPFDSSKWGRICQFLSSEGFLDKNCIVEPLEASKED 89
           +P++    IYSP+Y      + K+      +   +   + +     +  IV+P  AS E+
Sbjct: 15  VPVY----IYSPEYVSMCDSLAKI----PKRASMVHSLIEAYALHKQMRIVKPKVASMEE 66
Query: 90  LLVVHSESYLKSLQ--SSPNVSIIIEVPPVALFPNCLVQRKVLYPFRKQVGGTILAAKLA 147
           +   H+++YL+ LQ  S        +     L  +C     + + +   +GG  + A   
Sbjct: 67  MATFHTDAYLQHLQKVSQEGDDDHPDSIEYGLGYDCPATEGI-FDYAAAIGGATITAAQC 125
Query: 148 KERGW---AINVGGGFHHCSADEGGGFCAYADISLCI 181
              G    AIN  GG+HH   DE  GFC   D  L I
Sbjct: 126 LIDGMCKVAINWSGGWHHAKKDEASGFCYLNDAVLGI 162

>pdb|2V5W|A Chain A, Crystal Structure Of Hdac8-Substrate Complex Length = 388

Iteration: 1
 Score = 45.1 bits (105), Expect = 3e-05,   Method: Compositional matrix adjust.
 Identities = 40/157 (25%), Positives = 66/157 (42%), Gaps = 14/157 (8%)
Query: 30  IPIFKLPLIYSPDYDISFLGIEKLHPFDSSKWGRICQFLSSEGFLDKNCIVEPLEASKED 89
           +P++    IYSP+Y      + K+      +   +   + +     +  IV+P  AS E+
Sbjct: 15  VPVY----IYSPEYVSMCDSLAKI----PKRASMVHSLIEAYALHKQMRIVKPKVASMEE 66
Query: 90  LLVVHSESYLKSLQ--SSPNVSIIIEVPPVALFPNCLVQRKVLYPFRKQVGGTILAAKLA 147
           +   H+++YL+ LQ  S        +     L  +C     + + +   +GG  + A   
Sbjct: 67  MATFHTDAYLQHLQKVSQEGDDDHPDSIEYGLGYDCPATEGI-FDYAAAIGGATITAAQC 125
Query: 148 KERGW---AINVGGGFHHCSADEGGGFCAYADISLCI 181
              G    AIN  GG+HH   DE  GFC   D  L I
Sbjct: 126 LIDGMCKVAINWSGGWHHAKKDEASGFCYLNDAVLGI 162

>pdb|3SFF|A Chain A, Crystal Structure Of Human Hdac8 Inhibitor Complex, An Amino Acid Derived Inhibitor Length = 378

Iteration: 1
 Score = 45.1 bits (105), Expect = 3e-05,   Method: Compositional matrix adjust.
 Identities = 40/157 (25%), Positives = 66/157 (42%), Gaps = 14/157 (8%)
Query: 30  IPIFKLPLIYSPDYDISFLGIEKLHPFDSSKWGRICQFLSSEGFLDKNCIVEPLEASKED 89
           +P++    IYSP+Y      + K+      +   +   + +     +  IV+P  AS E+
Sbjct: 16  VPVY----IYSPEYVSMCDSLAKI----PKRASMVHSLIEAYALHKQMRIVKPKVASMEE 67
Query: 90  LLVVHSESYLKSLQ--SSPNVSIIIEVPPVALFPNCLVQRKVLYPFRKQVGGTILAAKLA 147
           +   H+++YL+ LQ  S        +     L  +C     + + +   +GG  + A   
Sbjct: 68  MATFHTDAYLQHLQKVSQEGDDDHPDSIEYGLGYDCPATEGI-FDYAAAIGGATITAAQC 126
Query: 148 KERGW---AINVGGGFHHCSADEGGGFCAYADISLCI 181
              G    AIN  GG+HH   DE  GFC   D  L I
Sbjct: 127 LIDGMCKVAINWSGGWHHAKKDEASGFCYLNDAVLGI 163

>pdb|3MZ3|A Chain A, Crystal Structure Of Co2+ Hdac8 Complexed With M344 Length = 389

Iteration: 1
 Score = 45.1 bits (105), Expect = 3e-05,   Method: Compositional matrix adjust.
 Identities = 40/157 (25%), Positives = 66/157 (42%), Gaps = 14/157 (8%)
Query: 30  IPIFKLPLIYSPDYDISFLGIEKLHPFDSSKWGRICQFLSSEGFLDKNCIVEPLEASKED 89
           +P++    IYSP+Y      + K+      +   +   + +     +  IV+P  AS E+
Sbjct: 15  VPVY----IYSPEYVSMCDSLAKI----PKRASMVHSLIEAYALHKQMRIVKPKVASMEE 66
Query: 90  LLVVHSESYLKSLQ--SSPNVSIIIEVPPVALFPNCLVQRKVLYPFRKQVGGTILAAKLA 147
           +   H+++YL+ LQ  S        +     L  +C     + + +   +GG  + A   
Sbjct: 67  MATFHTDAYLQHLQKVSQEGDDDHPDSIEYGLGYDCPATEGI-FDYAAAIGGATITAAQC 125
Query: 148 KERGW---AINVGGGFHHCSADEGGGFCAYADISLCI 181
              G    AIN  GG+HH   DE  GFC   D  L I
Sbjct: 126 LIDGMCKVAINWSGGWHHAKKDEASGFCYLNDAVLGI 162

>pdb|2V5X|A Chain A, Crystal Structure Of Hdac8-Inhibitor Complex Length = 388

Iteration: 1
 Score = 44.7 bits (104), Expect = 3e-05,   Method: Compositional matrix adjust.
 Identities = 33/108 (30%), Positives = 48/108 (44%), Gaps = 6/108 (5%)
Query: 79  IVEPLEASKEDLLVVHSESYLKSLQ--SSPNVSIIIEVPPVALFPNCLVQRKVLYPFRKQ 136
           IV+P  AS E++   H+++YL+ LQ  S        +     L  +C     + + +   
Sbjct: 56  IVKPKVASMEEMATFHTDAYLQHLQKVSQEGDDDHPDSIEYGLGYDCPATEGI-FDYAAA 114
Query: 137 VGGTILAAKLAKERGW---AINVGGGFHHCSADEGGGFCAYADISLCI 181
           +GG  + A      G    AIN  GG+HH   DE  GFC   D  L I
Sbjct: 115 IGGATITAAQCLIDGMCKVAINWSGGWHHAKKDEASGFCYLNDAVLGI 162

>pdb|3EZT|A Chain A, Crystal Structure Analysis Of Human Hdac8 D101e Variant Length = 388

Iteration: 1
 Score = 44.3 bits (103), Expect = 4e-05,   Method: Compositional matrix adjust.
 Identities = 40/157 (25%), Positives = 65/157 (41%), Gaps = 14/157 (8%)
Query: 30  IPIFKLPLIYSPDYDISFLGIEKLHPFDSSKWGRICQFLSSEGFLDKNCIVEPLEASKED 89
           +P++    IYSP+Y      + K+      +   +   + +     +  IV+P  AS E+
Sbjct: 15  VPVY----IYSPEYVSMCDSLAKI----PKRASMVHSLIEAYALHKQMRIVKPKVASMEE 66
Query: 90  LLVVHSESYLKSLQ--SSPNVSIIIEVPPVALFPNCLVQRKVLYPFRKQVGGTILAAKLA 147
           +   H+++YL+ LQ  S        +     L   C     + + +   +GG  + A   
Sbjct: 67  MATFHTDAYLQHLQKVSQEGDDDHPDSIEYGLGYECPATEGI-FDYAAAIGGATITAAQC 125
Query: 148 KERGW---AINVGGGFHHCSADEGGGFCAYADISLCI 181
              G    AIN  GG+HH   DE  GFC   D  L I
Sbjct: 126 LIDGMCKVAINWSGGWHHAKKDEASGFCYLNDAVLGI 162

>pdb|4A69|A Chain A, Structure Of Hdac3 Bound To Corepressor And Inositol Tetraphosphate Length = 376

Iteration: 1
 Score = 43.9 bits (102), Expect = 5e-05,   Method: Compositional matrix adjust.
 Identities = 36/148 (24%), Positives = 55/148 (37%), Gaps = 5/148 (3%)
Query: 39  YSPDYDISFLGIEKLHPFDSSKWGRICQFLSSEGFLDKNCIVEPLEASKEDLLVVHSESY 98
           Y  D D+        HP    +       +   G   K  + +P +AS+ D+   HSE Y
Sbjct: 7   YFYDPDVGNFHYGAGHPMKPHRLALTHSLVLHYGLYKKMIVFKPYQASQHDMCRFHSEDY 66
Query: 99  LKSLQSSPNVSIIIEVPPVALF---PNCLVQRKVLYPFRKQVGGTILAAKLAKER--GWA 153
           +  LQ     ++      +  F    +C V   +     +  G ++  A     +    A
Sbjct: 67  IDFLQRVSPTNMQGFTKSLNAFNVGDDCPVFPGLFEFCSRYTGASLQGATQLNNKICDIA 126
Query: 154 INVGGGFHHCSADEGGGFCAYADISLCI 181
           IN  GG HH    E  GFC   DI + I
Sbjct: 127 INWAGGLHHAKKFEASGFCYVNDIVIGI 154

>pdb|1C3P|A Chain A, Crystal Structure Of An Hdac Homolog From Aquifex Aeolicus Length = 375

Iteration: 1
 Score = 43.9 bits (102), Expect = 6e-05,   Method: Compositional matrix adjust.
 Identities = 31/136 (22%), Positives = 57/136 (41%), Gaps = 5/136 (3%)
Query: 52  KLHPFDSSKWGRICQFLSSEGFLDKNCIVEPLEASKEDLLVVHSESYLKSLQSSPNVSII 111
           K HP    +   + +F  +   +D+  +++   A+KE+LL+ H+E Y+ +L  +     +
Sbjct: 19  KNHPLKIPRVSLLLRFKDAMNLIDEKELIKSRPATKEELLLFHTEDYINTLMEAERCQCV 78
Query: 112 ----IEVPPVALFPNCLVQRKVLYPFRKQVGGTILAAKLAKERGWAINVGGGFHHCSADE 167
                E   +  + N  V   +        G T+ A +   +   A N  GG HH     
Sbjct: 79  PKGAREKYNIGGYENP-VSYAMFTGSSLATGSTVQAIEEFLKGNVAFNPAGGMHHAFKSR 137
Query: 168 GGGFCAYADISLCIHY 183
             GFC   + ++ I Y
Sbjct: 138 ANGFCYINNPAVGIEY 153

>pdb|3EW8|A Chain A, Crystal Structure Analysis Of Human Hdac8 D101l Variant Length = 388

Iteration: 1
 Score = 43.9 bits (102), Expect = 6e-05,   Method: Compositional matrix adjust.
 Identities = 41/160 (25%), Positives = 67/160 (41%), Gaps = 20/160 (12%)
Query: 30  IPIFKLPLIYSPDYDISFLGIEKLHPFDSSKWGRICQFLSSEGFLDKNCIVEPLEASKED 89
           +P++    IYSP+Y      + K+      +   +   + +     +  IV+P  AS E+
Sbjct: 15  VPVY----IYSPEYVSMCDSLAKI----PKRASMVHSLIEAYALHKQMRIVKPKVASMEE 66
Query: 90  LLVVHSESYLKSLQ-----SSPNVSIIIEVPPVALFPNCLVQRKVLYPFRKQVGGTILAA 144
           +   H+++YL+ LQ        +    IE     L P      + ++ +   +GG  + A
Sbjct: 67  MATFHTDAYLQHLQKVSQEGDDDHPDSIEYGLGYLCP----ATEGIFDYAAAIGGATITA 122
Query: 145 KLAKERGW---AINVGGGFHHCSADEGGGFCAYADISLCI 181
                 G    AIN  GG+HH   DE  GFC   D  L I
Sbjct: 123 AQCLIDGMCKVAINWSGGWHHAKKDEASGFCYLNDAVLGI 162

>pdb|3F06|A Chain A, Crystal Structure Analysis Of Human Hdac8 D101a Variant. Length = 388

Iteration: 1
 Score = 43.5 bits (101), Expect = 6e-05,   Method: Compositional matrix adjust.
 Identities = 40/157 (25%), Positives = 65/157 (41%), Gaps = 14/157 (8%)
Query: 30  IPIFKLPLIYSPDYDISFLGIEKLHPFDSSKWGRICQFLSSEGFLDKNCIVEPLEASKED 89
           +P++    IYSP+Y      + K+      +   +   + +     +  IV+P  AS E+
Sbjct: 15  VPVY----IYSPEYVSMCDSLAKI----PKRASMVHSLIEAYALHKQMRIVKPKVASMEE 66
Query: 90  LLVVHSESYLKSLQ--SSPNVSIIIEVPPVALFPNCLVQRKVLYPFRKQVGGTILAAKLA 147
           +   H+++YL+ LQ  S        +     L   C     + + +   +GG  + A   
Sbjct: 67  MATFHTDAYLQHLQKVSQEGDDDHPDSIEYGLGYACPATEGI-FDYAAAIGGATITAAQC 125
Query: 148 KERGW---AINVGGGFHHCSADEGGGFCAYADISLCI 181
              G    AIN  GG+HH   DE  GFC   D  L I
Sbjct: 126 LIDGMCKVAINWSGGWHHAKKDEASGFCYLNDAVLGI 162

>pdb|3MZ4|A Chain A, Crystal Structure Of D101l Mn2+ Hdac8 Complexed With M344 Length = 389

Iteration: 1
 Score = 43.5 bits (101), Expect = 7e-05,   Method: Compositional matrix adjust.
 Identities = 41/160 (25%), Positives = 67/160 (41%), Gaps = 20/160 (12%)
Query: 30  IPIFKLPLIYSPDYDISFLGIEKLHPFDSSKWGRICQFLSSEGFLDKNCIVEPLEASKED 89
           +P++    IYSP+Y      + K+      +   +   + +     +  IV+P  AS E+
Sbjct: 15  VPVY----IYSPEYVSMCDSLAKI----PKRASMVHSLIEAYALHKQMRIVKPKVASMEE 66
Query: 90  LLVVHSESYLKSLQ-----SSPNVSIIIEVPPVALFPNCLVQRKVLYPFRKQVGGTILAA 144
           +   H+++YL+ LQ        +    IE     L P      + ++ +   +GG  + A
Sbjct: 67  MATFHTDAYLQHLQKVSQEGDDDHPDSIEYGLGYLCP----ATEGIFDYAAAIGGATITA 122
Query: 145 KLAKERGW---AINVGGGFHHCSADEGGGFCAYADISLCI 181
                 G    AIN  GG+HH   DE  GFC   D  L I
Sbjct: 123 AQCLIDGMCKVAINWSGGWHHAKKDEASGFCYLNDAVLGI 162

>pdb|1C3R|A Chain A, Crystal Structure Of An Hdac Homolog Complexed With Trichostatin A Length = 375

Iteration: 1
 Score = 43.5 bits (101), Expect = 7e-05,   Method: Compositional matrix adjust.
 Identities = 31/136 (22%), Positives = 57/136 (41%), Gaps = 5/136 (3%)
Query: 52  KLHPFDSSKWGRICQFLSSEGFLDKNCIVEPLEASKEDLLVVHSESYLKSLQSSPNVSII 111
           K HP    +   + +F  +   +D+  +++   A+KE+LL+ H+E Y+ +L  +     +
Sbjct: 19  KNHPLKIPRVSLLLRFKDAMNLIDEKELIKSRPATKEELLLFHTEDYINTLMEAERSQSV 78
Query: 112 ----IEVPPVALFPNCLVQRKVLYPFRKQVGGTILAAKLAKERGWAINVGGGFHHCSADE 167
                E   +  + N  V   +        G T+ A +   +   A N  GG HH     
Sbjct: 79  PKGAREKYNIGGYENP-VSYAMFTGSSLATGSTVQAIEEFLKGNVAFNPAGGMHHAFKSR 137
Query: 168 GGGFCAYADISLCIHY 183
             GFC   + ++ I Y
Sbjct: 138 ANGFCYINNPAVGIEY 153

>pdb|3EWF|A Chain A, Crystal Structure Analysis Of Human Hdac8 H143a Variant Complexed With Substrate. Length = 388

Iteration: 1
 Score = 41.2 bits (95), Expect = 4e-04,   Method: Compositional matrix adjust.
 Identities = 39/157 (24%), Positives = 65/157 (41%), Gaps = 14/157 (8%)
Query: 30  IPIFKLPLIYSPDYDISFLGIEKLHPFDSSKWGRICQFLSSEGFLDKNCIVEPLEASKED 89
           +P++    IYSP+Y      + K+      +   +   + +     +  IV+P  AS E+
Sbjct: 15  VPVY----IYSPEYVSMCDSLAKI----PKRASMVHSLIEAYALHKQMRIVKPKVASMEE 66
Query: 90  LLVVHSESYLKSLQ--SSPNVSIIIEVPPVALFPNCLVQRKVLYPFRKQVGGTILAAKLA 147
           +   H+++YL+ LQ  S        +     L  +C     + + +   +GG  + A   
Sbjct: 67  MATFHTDAYLQHLQKVSQEGDDDHPDSIEYGLGYDCPATEGI-FDYAAAIGGATITAAQC 125
Query: 148 KERGW---AINVGGGFHHCSADEGGGFCAYADISLCI 181
              G    AIN  GG+H    DE  GFC   D  L I
Sbjct: 126 LIDGMCKVAINWSGGWHAAKKDEASGFCYLNDAVLGI 162

Structure Templates Detected by RPS-BLAST

Original result of RPS-BLAST against PDB70 database

ID	Length	Definition	E-value
Query	192
3ew8_A	388	HD8, histone deacetylase 8; hydrolase, HDAC, metal	3e-22
1c3p_A	375	Protein (HDLP (histone deacetylase-like protein) )	3e-20
3max_A	367	HD2, histone deacetylase 2; class 2, HDAC, foot po	8e-20
4a69_A	376	Histone deacetylase 3,; transcription, hydrolase;	5e-19
2pqp_A	421	HD7A, histone deacetylase 7A; HDAC, structural gen	3e-09
3q9b_A	341	Acetylpolyamine amidohydrolase; HDAC, polyamines,	2e-08
3men_A	362	Acetylpolyamine aminohydrolase; histone deacetylas	2e-07
1zz1_A	369	Histone deacetylase-like amidohydrolase; HET: SHH;	4e-06

>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 = 91.2 bits (227), Expect = 3e-22
 Identities = 39/152 (25%), Positives = 59/152 (38%), Gaps = 8/152 (5%)

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

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

Query: 153 AINVGGGFHHCSADEGGGFCAYADISLCIHYA 184
           AIN  GG+HH   DE  GFC   D  L I   
Sbjct: 134 AINWSGGWHHAKKDEASGFCYLNDAVLGILRL 165

>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 = 85.5 bits (212), Expect = 3e-20
 Identities = 33/160 (20%), Positives = 60/160 (37%), Gaps = 23/160 (14%)

Query: 37  LIYSPDYDISFLGIEKLHPFDSSKWGRICQFLSSEGFLDKNCIVEPLEASKEDLLVVHSE 96
           LI + DY          HP    +   + +F  +   +D+  +++   A+KE+LL+ H+E
Sbjct: 6   LIGTLDYGKYRYPKN--HPLKIPRVSLLLRFKDAMNLIDEKELIKSRPATKEELLLFHTE 63

Query: 97  SYLKSLQSSPNVSIIIEVP-----------PVALFPNCLVQRKVLYPF-RKQVGGTILAA 144
            Y+ +L  +     + +             PV            ++       G T+ A 
Sbjct: 64  DYINTLMEAERCQCVPKGAREKYNIGGYENPV--SYA-------MFTGSSLATGSTVQAI 114

Query: 145 KLAKERGWAINVGGGFHHCSADEGGGFCAYADISLCIHYA 184
           +   +   A N  GG HH       GFC   + ++ I Y 
Sbjct: 115 EEFLKGNVAFNPAGGMHHAFKSRANGFCYINNPAVGIEYL 154

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

 Score = 84.3 bits (209), Expect = 8e-20
 Identities = 38/153 (24%), Positives = 61/153 (39%), Gaps = 7/153 (4%)

Query: 37  LIYSPDYDISFLGIEKLHPFDSSKWGRICQFLSSEGFLDKNCIVEPLEASKEDLLVVHSE 96
             Y  D    + G  + HP    +       L + G   K  I  P +A+ E++   HS+
Sbjct: 7   YYYDGDIGNYYYG--QGHPMKPHRIRMTHNLLLNYGLYRKMEIYRPHKATAEEMTKYHSD 64

Query: 97  SYLKSLQS-SPN--VSIIIEVPPVALFPNCLVQRKVLYPFRKQVGGTILAAK--LAKERG 151
            Y+K L+S  P+       ++    +  +C V   +    +   GG++  A     ++  
Sbjct: 65  EYIKFLRSIRPDNMSEYSKQMQRFNVGEDCPVFDGLFEFCQLSTGGSVAGAVKLNRQQTD 124

Query: 152 WAINVGGGFHHCSADEGGGFCAYADISLCIHYA 184
            A+N  GG HH    E  GFC   DI L I   
Sbjct: 125 MAVNWAGGLHHAKKSEASGFCYVNDIVLAILEL 157

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

 Score = 82.4 bits (204), Expect = 5e-19
 Identities = 38/153 (24%), Positives = 55/153 (35%), Gaps = 7/153 (4%)

Query: 37  LIYSPDYDISFLGIEKLHPFDSSKWGRICQFLSSEGFLDKNCIVEPLEASKEDLLVVHSE 96
             Y PD      G    HP    +       +   G   K  + +P +AS+ D+   HSE
Sbjct: 7   YFYDPDVGNFHYG--AGHPMKPHRLALTHSLVLHYGLYKKMIVFKPYQASQHDMCRFHSE 64

Query: 97  SYLKSLQSSPNVSIIIEVPPVALF---PNCLVQRKVLYPFRKQVGGTILAAK--LAKERG 151
            Y+  LQ     ++      +  F    +C V   +     +  G ++  A     K   
Sbjct: 65  DYIDFLQRVSPTNMQGFTKSLNAFNVGDDCPVFPGLFEFCSRYTGASLQGATQLNNKICD 124

Query: 152 WAINVGGGFHHCSADEGGGFCAYADISLCIHYA 184
            AIN  GG HH    E  GFC   DI + I   
Sbjct: 125 IAINWAGGLHHAKKFEASGFCYVNDIVIGILEL 157

>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 = 51.6 bits (124), Expect = 2e-08
 Identities = 30/152 (19%), Positives = 47/152 (30%), Gaps = 35/152 (23%)

Query: 63  RICQFLSSEGFLDKNCIVEPLEASKEDLLVVHSESYLKSLQSSPNVSIIIEVPPVALFPN 122
            I   +   GF D   +V P     E +L VH   YL  L+++ +          A+  +
Sbjct: 35  WILAAVKEAGFDD---VVAPARHGLETVLKVHDAGYLNFLETAWDRWKAAGYKGEAIATS 91

Query: 123 CLVQRKVLYPFRKQVG---------------GTILAAKLAKERGWAIN----VGGGF--- 160
             V+R          G               GT  AA  +     AI+    +  G    
Sbjct: 92  FPVRRTSPRIPTDIEGQIGYYCNAAETAISPGTWEAALSSM--ASAIDGADLIAAGHKAA 149

Query: 161 --------HHCSADEGGGFCAYADISLCIHYA 184
                   HH   D  GG+C   + ++     
Sbjct: 150 FSLCRPPGHHAGIDMFGGYCFINNAAVAAQRL 181

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

 Score = 48.6 bits (116), Expect = 2e-07
 Identities = 29/182 (15%), Positives = 49/182 (26%), Gaps = 41/182 (22%)

Query: 38  IYSPDY------DISFLGIEKLHPFDSSKWGRICQFLSSEGFLDKNCIVEPLEASKEDLL 91
            + PD            G  ++      +  R+     + GF     + EP +     + 
Sbjct: 25  YFHPDQSLHHPRTYFSRGRMRMPQEVPERAARLVAAAFAMGFP----VREPDDFGIAPIA 80

Query: 92  VVHSESYLKSLQS-SPNVSIIIEVPPVALFPNCLVQR-KVLYPFRKQVG----------- 138
            VH   YL+ L++       + E        N  V+    L     Q             
Sbjct: 81  AVHDTHYLRFLETVHREWKAMPEDWGDEAMSNIFVREPNALRGVLAQAARHLADGSCPVG 140

Query: 139 -GTILAAKLAKERGWAI--------NVGGGF-------HHCSADEGGGFCAYADISLCIH 182
             T  AA  +     A+             +       HH   D  GGFC   + ++   
Sbjct: 141 EHTWRAAYWSA--QSALAAAAAVRDGAPAAYALCRPPGHHARVDAAGGFCYLNNAAIAAQ 198

Query: 183 YA 184
             
Sbjct: 199 AL 200

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

 Score = 45.0 bits (107), Expect = 4e-06
 Identities = 24/137 (17%), Positives = 51/137 (37%), Gaps = 15/137 (10%)

Query: 63  RICQFLSSEGFLDKNCIVEPLEASKEDLLVVHSESYLKSLQSSPNVSIIIEVPPVALFPN 122
           R  + + + G ++    +  + A+  D+L  HS ++L++++   N    +          
Sbjct: 45  RFHELVCASGQIEHLTPIAAVAATDADILRAHSAAHLENMKRVSN----LPTGGDTGDGI 100

Query: 123 CLVQRKVLYPFRKQVGGTILAAKLAKERGWAINVGGGF-------HHCSADEGGGFCAYA 175
            ++    L   R   GG +   +          +  G+       HH   +   GFC + 
Sbjct: 101 TMMGNGGLEIARLSAGGAVELTRRVATG----ELSAGYALVNPPGHHAPHNAAMGFCIFN 156

Query: 176 DISLCIHYAFVQLNISR 192
           + S+   YA   L + R
Sbjct: 157 NTSVAAGYARAVLGMER 173

Structure Templates Detected by HHsearch

Original result of HHsearch against PDB70 database

ID	Length	Definition	Probability
Query	192
1zz1_A	369	Histone deacetylase-like amidohydrolase; HET: SHH;	100.0
2pqp_A	421	HD7A, histone deacetylase 7A; HDAC, structural gen	100.0
3max_A	367	HD2, histone deacetylase 2; class 2, HDAC, foot po	100.0
1c3p_A	375	Protein (HDLP (histone deacetylase-like protein) )	100.0
4a69_A	376	Histone deacetylase 3,; transcription, hydrolase;	100.0
2vqm_A	413	HD4, histone deacetylase 4; inhibitor, repressor,	100.0
3q9b_A	341	Acetylpolyamine amidohydrolase; HDAC, polyamines,	100.0
3ew8_A	388	HD8, histone deacetylase 8; hydrolase, HDAC, metal	100.0
3men_A	362	Acetylpolyamine aminohydrolase; histone deacetylas	100.0

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

Probab=100.00  E-value=4.7e-42  Score=301.22  Aligned_cols=151  Identities=19%  Similarity=0.297  Sum_probs=137.5

Q ss_pred             CCcceEecCCCceeecccccc----------------CCCCCcchHHHHHHhhhcCccCCCceecccccCccceEEEecH
Q 029525           33 FKLPLIYSPDYDISFLGIEKL----------------HPFDSSKWGRICQFLSSEGFLDKNCIVEPLEASKEDLLVVHSE   96 (192)
Q Consensus        33 ~~~~iiy~~~~~~h~~~~~~~----------------Hpe~p~R~~~i~~~L~~~gl~~~~~~~~p~~a~~e~l~~vH~~   96 (192)
                      |+++++|||+|+.|.++  .+                |||+|+|++.|.++|++.|+++.+++++|+++++++|++||++
T Consensus         1 m~t~~~y~~~~~~h~~~--~~~~~~~~~g~~~~~~~~Hpe~p~R~~~i~~~l~~~gl~~~~~~~~p~~a~~~~l~~vH~~   78 (369)
T 1zz1_A            1 MAIGYVWNTLYGWVDTG--TGSLAAANLTARMQPISHHLAHPDTKRRFHELVCASGQIEHLTPIAAVAATDADILRAHSA   78 (369)
T ss_dssp             -CEEEECCGGGGGCCCC--SSSSSCCBTTTTBCCCSSCTTCTHHHHHHHHHHHHTTGGGGSEECCCCCCCHHHHHTTSCH
T ss_pred             CeEEEEEchHHcccCCC--CcccccccccccccccCCCCCCHHHHHHHHHHHHhcCCCccceEeCCCcCCHHHHHHhccH
Confidence            57899999999999754  44                9999999999999999999998899999999999999999999


Q ss_pred             HHHhhcccCce-eeeeeecCCceecc-hhhhhhcccccccccccceeeehhhhhh----hceeEeecCCcccccCCCCCe
Q 029525           97 SYLKSLQSSPN-VSIIIEVPPVALFP-NCLVQRKVLYPFRKQVGGTILAAKLAKE----RGWAINVGGGFHHCSADEGGG  170 (192)
Q Consensus        97 ~Yv~~l~~~~~-~~~~~e~~~~~~~~-d~~~~~~~~~~a~~aaGg~l~aa~~~l~----~~~a~~rppG~HHA~~~~a~G  170 (192)
                      +||++|++.+. ..      ...++. |||+++++++++++++||++.|++.+++    ++||++|||| |||++++++|
T Consensus        79 ~Yv~~l~~~~~~~~------~~~l~~~dtp~~~~~~~~a~~aaG~~l~aa~~v~~g~~~~afa~~rppG-HHA~~~~a~G  151 (369)
T 1zz1_A           79 AHLENMKRVSNLPT------GGDTGDGITMMGNGGLEIARLSAGGAVELTRRVATGELSAGYALVNPPG-HHAPHNAAMG  151 (369)
T ss_dssp             HHHHHHHHHHHSTT------CEECSSSSCEECTTTHHHHHHHHHHHHHHHHHHHTTSCSEEEECCSSCC-TTCCTTCCBT
T ss_pred             HHHHHHHHhCcccc------ceecCCCCCCCChHHHHHHHHHHHHHHHHHHHHHhCCCcceEEEecCCc-cCcCCCCCCC
Confidence            99999998764 22      123566 9999999999999999999999999986    4799999999 9999999999


Q ss_pred             eeEechhhhhHhhhhhhcccCC
Q 029525          171 FCAYADISLCIHYAFVQLNISR  192 (192)
Q Consensus       171 FC~fNnvAIAa~~l~~~~g~~R  192 (192)
                      ||+|||+||||++|++++|++|
T Consensus       152 FC~fNnvAiAa~~l~~~~g~~R  173 (369)
T 1zz1_A          152 FCIFNNTSVAAGYARAVLGMER  173 (369)
T ss_dssp             TBSSCHHHHHHHHHHHTSCCSC
T ss_pred             chHhhHHHHHHHHHHHhcCCCe
Confidence            9999999999999999999887

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

Probab=100.00  E-value=4.5e-41  Score=294.10  Aligned_cols=155  Identities=24%  Similarity=0.332  Sum_probs=136.7

Q ss_pred             CCCcceEecCCCceeeccccccCCCCCcchHHHHHHhhhcCccCCCceecccccCccceEEEecHHHHhhcccCceeeee
Q 029525           32 IFKLPLIYSPDYDISFLGIEKLHPFDSSKWGRICQFLSSEGFLDKNCIVEPLEASKEDLLVVHSESYLKSLQSSPNVSII  111 (192)
Q Consensus        32 ~~~~~iiy~~~~~~h~~~~~~~Hpe~p~R~~~i~~~L~~~gl~~~~~~~~p~~a~~e~l~~vH~~~Yv~~l~~~~~~~~~  111 (192)
                      +.++.++||++|..|.+  +++|||+|+|++.|.++|++.|+++.+++++|++|++++|++||+++||++|++.+.....
T Consensus         2 ~~~v~~~y~~~~~~~~~--g~~HPe~P~Rl~~i~~~L~~~gl~~~~~~~~p~~At~e~L~~vHs~~Yi~~l~~~~~~~~~   79 (367)
T 3max_A            2 KKKVCYYYDGDIGNYYY--GQGHPMKPHRIRMTHNLLLNYGLYRKMEIYRPHKATAEEMTKYHSDEYIKFLRSIRPDNMS   79 (367)
T ss_dssp             CCCEEEECCGGGGGCCC--CTTCSCCTHHHHHHHHHHHHTTGGGGSEEECCCCCCHHHHTTTSCHHHHHHHHHCCGGGGG
T ss_pred             CCeEEEEECccccCcCC--CCCCCCCHHHHHHHHHHHHhcCCcccCeeeCCCCCCHHHHHhhCCHHHHHHHHHhCccccc
Confidence            45789999999999975  5789999999999999999999999999999999999999999999999999987653210


Q ss_pred             ---eecCCceecchhhhhhcccccccccccceeeehhhhhh--hceeEeecCCcccccCCCCCeeeEechhhhhHhhhhh
Q 029525          112 ---IEVPPVALFPNCLVQRKVLYPFRKQVGGTILAAKLAKE--RGWAINVGGGFHHCSADEGGGFCAYADISLCIHYAFV  186 (192)
Q Consensus       112 ---~e~~~~~~~~d~~~~~~~~~~a~~aaGg~l~aa~~~l~--~~~a~~rppG~HHA~~~~a~GFC~fNnvAIAa~~l~~  186 (192)
                         .+...+++++|||+++++|+++++++||++.|++.+++  .++|++||||+|||.++++||||+||||||||++|++
T Consensus        80 ~~~~~~~~~~l~~Dtp~~~~~~e~a~~aaGgsl~aa~~v~~~~~~~Ai~~pgG~HHA~~~~a~GFC~~NdvaiAa~~l~~  159 (367)
T 3max_A           80 EYSKQMQRFNVGEDCPVFDGLFEFCQLSTGGSVAGAVKLNRQQTDMAVNWAGGLHHAKKSEASGFCYVNDIVLAILELLK  159 (367)
T ss_dssp             GCHHHHHHTTCSSSSCCCTTHHHHHHHHHHHHHHHHHHHHTTSCSEEEETTCCCTTCBTTBCBTTBCSCHHHHHHHHHTT
T ss_pred             hhhhHhhhcCCCCCCCCchHHHHHHHHHHHHHHHHHHHhcccCcceEecCCCCCCcCCcCCCCCchhhhHHHHHHHHHHH
Confidence               01112356789999999999999999999999998875  4799999999999999999999999999999999997


Q ss_pred             hc
Q 029525          187 QL  188 (192)
Q Consensus       187 ~~  188 (192)
                      .+
T Consensus       160 ~~  161 (367)
T 3max_A          160 YH  161 (367)
T ss_dssp             TC
T ss_pred             cC
Confidence            53

>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=100.00  E-value=8.4e-41  Score=293.83  Aligned_cols=157  Identities=22%  Similarity=0.306  Sum_probs=137.1

Q ss_pred             CCcceEecCCCceeeccccccCCCCCcchHHHHHHhhhcCccCCCceecccccCccceEEEecHHHHhhcccCceeee--
Q 029525           33 FKLPLIYSPDYDISFLGIEKLHPFDSSKWGRICQFLSSEGFLDKNCIVEPLEASKEDLLVVHSESYLKSLQSSPNVSI--  110 (192)
Q Consensus        33 ~~~~iiy~~~~~~h~~~~~~~Hpe~p~R~~~i~~~L~~~gl~~~~~~~~p~~a~~e~l~~vH~~~Yv~~l~~~~~~~~--  110 (192)
                      ++++++||++|..|.+  +.+|||+|+|++.|+++|++.|+++.+++++|++|++++|++||+++||++|++.+....  
T Consensus         2 ~~t~~vy~~~~~~h~~--g~~Hpe~p~R~~~i~~~l~~~gl~~~~~~~~p~~at~~~l~~vH~~~Yv~~l~~~~~~~~~~   79 (375)
T 1c3p_A            2 KKVKLIGTLDYGKYRY--PKNHPLKIPRVSLLLRFKDAMNLIDEKELIKSRPATKEELLLFHTEDYINTLMEAERCQCVP   79 (375)
T ss_dssp             CCEEEEECGGGGGSCC--CTTCGGGSCCHHHHHHHHHHTTCCCGGGEEECCCCCHHHHTTTSCHHHHHHHHHHHHHTSCC
T ss_pred             ceEEEEECHHHcCCCC--CCCCCCCHHHHHHHHHHHHhcCCCCCCeEeCCCCCCHHHHHHhCCHHHHHHHHHhccccCCC
Confidence            4689999999999964  578999999999999999999999888999999999999999999999999998764210  


Q ss_pred             eeecCCcee-cchhhhhhcccccccccccceeeehhhhhhhceeEeecCCcccccCCCCCeeeEechhhhhHhhhhhhcc
Q 029525          111 IIEVPPVAL-FPNCLVQRKVLYPFRKQVGGTILAAKLAKERGWAINVGGGFHHCSADEGGGFCAYADISLCIHYAFVQLN  189 (192)
Q Consensus       111 ~~e~~~~~~-~~d~~~~~~~~~~a~~aaGg~l~aa~~~l~~~~a~~rppG~HHA~~~~a~GFC~fNnvAIAa~~l~~~~g  189 (192)
                      ..+...+++ +.|||+++++++++++++||++.|++.+++++.|+++|||+|||.++++||||+||||||||++|+++ |
T Consensus        80 ~~~~~~~~l~~~dtp~~~~~~~~a~~aaGg~l~aa~~v~~g~~a~~ppGG~HHA~~~~a~GFC~fNnvAiAa~~l~~~-g  158 (375)
T 1c3p_A           80 KGAREKYNIGGYENPVSYAMFTGSSLATGSTVQAIEEFLKGNVAFNPAGGMHHAFKSRANGFCYINNPAVGIEYLRKK-G  158 (375)
T ss_dssp             TTHHHHHCCSSSSSCSSTTTTHHHHHHHHHHHHHHHHHHTTCEEEETTCCCTTCBTTBCBTTBSSCHHHHHHHHHHHT-T
T ss_pred             hHHhhccccCCCCcccChhHHHHHHHHhhHHHHHHHHHHcCCceeecCcccceeeeccCCCceeecHHHHHHHHHHHh-C
Confidence            001112234 68999999999999999999999999999988888888889999999999999999999999999876 5


Q ss_pred             cCC
Q 029525          190 ISR  192 (192)
Q Consensus       190 ~~R  192 (192)
                      ++|
T Consensus       159 ~~R  161 (375)
T 1c3p_A          159 FKR  161 (375)
T ss_dssp             CCC
T ss_pred             CCe
Confidence            565

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

Probab=100.00  E-value=1.1e-40  Score=292.79  Aligned_cols=155  Identities=23%  Similarity=0.338  Sum_probs=136.4

Q ss_pred             CCCcceEecCCCceeeccccccCCCCCcchHHHHHHhhhcCccCCCceecccccCccceEEEecHHHHhhcccCceeeee
Q 029525           32 IFKLPLIYSPDYDISFLGIEKLHPFDSSKWGRICQFLSSEGFLDKNCIVEPLEASKEDLLVVHSESYLKSLQSSPNVSII  111 (192)
Q Consensus        32 ~~~~~iiy~~~~~~h~~~~~~~Hpe~p~R~~~i~~~L~~~gl~~~~~~~~p~~a~~e~l~~vH~~~Yv~~l~~~~~~~~~  111 (192)
                      +.++.++|||+|..|.+  +++|||+|+|++.|.++|++.|+++.+++++|++|++++|++||+++||++|++.+.....
T Consensus         2 ~~~~~~~y~~~~~~~~~--g~~HPe~p~Rl~~i~~~l~~~gl~~~~~~~~p~~At~e~L~~vHs~~Yi~~l~~~~~~~~~   79 (376)
T 4a69_A            2 AKTVAYFYDPDVGNFHY--GAGHPMKPHRLALTHSLVLHYGLYKKMIVFKPYQASQHDMCRFHSEDYIDFLQRVSPTNMQ   79 (376)
T ss_dssp             CCCEEEECCTTTTCCCC--CTTCSCCTHHHHHHHHHHHHTTGGGGSEEECCCCCCHHHHTTTSCHHHHHHHHHCCTTTGG
T ss_pred             CCeEEEEEChHHhCcCC--CCCCCcCHHHHHHHHHHHHhcCCCCCceEeCCCCCCHHHHHHhCCHHHHHHHHHhCcccch
Confidence            35789999999999964  5789999999999999999999999999999999999999999999999999987643110


Q ss_pred             ---eecCCceecchhhhhhcccccccccccceeeehhhhhhh--ceeEeecCCcccccCCCCCeeeEechhhhhHhhhhh
Q 029525          112 ---IEVPPVALFPNCLVQRKVLYPFRKQVGGTILAAKLAKER--GWAINVGGGFHHCSADEGGGFCAYADISLCIHYAFV  186 (192)
Q Consensus       112 ---~e~~~~~~~~d~~~~~~~~~~a~~aaGg~l~aa~~~l~~--~~a~~rppG~HHA~~~~a~GFC~fNnvAIAa~~l~~  186 (192)
                         .+...++++.|||+++++++++++++||++.|++.++++  ++|+++|||+|||+++++||||+||||||||++|++
T Consensus        80 ~~~~~~~~~~l~~Dtpv~~~~~e~a~~aaGgtl~Aa~~v~~g~~~~A~~~~gG~HHA~~~~a~GFC~~NdvAiAa~~l~~  159 (376)
T 4a69_A           80 GFTKSLNAFNVGDDCPVFPGLFEFCSRYTGASLQGATQLNNKICDIAINWAGGLHHAKKFEASGFCYVNDIVIGILELLK  159 (376)
T ss_dssp             GGHHHHHHHTCSSSSCCCTTHHHHHHHHHHHHHHHHHHHHTTSCSEEEETTCCCTTCBTTBCBTTBSSCHHHHHHHHHTT
T ss_pred             hhhhhhceeccCCCCCcchHHHHHHHHHHHHHHHHHHHHHcCCcceeeeCCCCCCcCCcCCCCcchhhhHHHHHHHHHHH
Confidence               011123567899999999999999999999999998764  589999999999999999999999999999999998


Q ss_pred             hc
Q 029525          187 QL  188 (192)
Q Consensus       187 ~~  188 (192)
                      ++
T Consensus       160 ~~  161 (376)
T 4a69_A          160 YH  161 (376)
T ss_dssp             TC
T ss_pred             hC
Confidence            64

>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=100.00  E-value=1.6e-40  Score=295.30  Aligned_cols=162  Identities=20%  Similarity=0.230  Sum_probs=133.6

Q ss_pred             cCCCCcceEecCCCceeeccc--cccCCCCCcchHHHHHHhhhcCccCCCceecccccCccceEEEecHHHHhhcccCce
Q 029525           30 IPIFKLPLIYSPDYDISFLGI--EKLHPFDSSKWGRICQFLSSEGFLDKNCIVEPLEASKEDLLVVHSESYLKSLQSSPN  107 (192)
Q Consensus        30 ~~~~~~~iiy~~~~~~h~~~~--~~~Hpe~p~R~~~i~~~L~~~gl~~~~~~~~p~~a~~e~l~~vH~~~Yv~~l~~~~~  107 (192)
                      .|.|+|++|||++|+.|.++.  ...|||+|+|++.|+++|++.||++.+++++|++|++++|++||+++||+.++....
T Consensus         5 ~p~~~Tg~vyd~~~l~H~~~~g~~~~HPE~P~Rl~~i~~~L~~~gl~~~~~~~~p~~At~eeL~~vHs~~Yv~~~~~~~~   84 (413)
T 2vqm_A            5 KPRFTTGLVYDTLMLKHQCTCGSSSSHPEHAGRIQSIWSRLQETGLRGKCECIRGRKATLEELQTVHSEAHTLLYGTNPL   84 (413)
T ss_dssp             -CCSSEEEECCGGGCSCCCTTC-------CCCHHHHHHHHHHHHTHHHHSEEECCCCCCHHHHTTTSCHHHHHHHHSCGG
T ss_pred             CCCCeEEEEEcHHHhccCCCCCCCCCCCCCHHHHHHHHHHHHhCCCCcCCeEeCCCCCCHHHHHHhCCHHHHHHHhcCch
Confidence            478999999999999998653  356999999999999999999999999999999999999999999999988765432


Q ss_pred             eeee--------------ee--cCCceecchhhhhh-cccccccccccceeeehhhhhh----hceeEeecCCcccccCC
Q 029525          108 VSII--------------IE--VPPVALFPNCLVQR-KVLYPFRKQVGGTILAAKLAKE----RGWAINVGGGFHHCSAD  166 (192)
Q Consensus       108 ~~~~--------------~e--~~~~~~~~d~~~~~-~~~~~a~~aaGg~l~aa~~~l~----~~~a~~rppG~HHA~~~  166 (192)
                      ....              ..  .....++.|++++. .++++|++++|++++|++.++.    ++||++|||| |||.++
T Consensus        85 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~d~dt~~~~~~s~~aA~laaG~~l~a~~~v~~g~~~~afa~vrppG-HHA~~~  163 (413)
T 2vqm_A           85 NRQKLDSKKLLGSLASVFVRLPCGGVGVDSDTIWNEVHSAGAARLAVGCVVELVFKVATGELKNGFAVVRPPG-HHAEES  163 (413)
T ss_dssp             GGCC----HHHHHHHHHEEECTTSCEEECTTSTHHHHHHHHHHHHHHHHHHHHHHHHHTTSSSEEEECCCSCC-TTCBTT
T ss_pred             hhhHhhhhhhccchhhhhhccccCCcCccCCccccchhHHHHHHHHHHHHHHHHHHHhcCCccceeeeccccc-ccCcCC
Confidence            1100              00  11234567777664 7889999999999999999975    4799999999 999999


Q ss_pred             CCCeeeEechhhhhHhhhhhhcccCC
Q 029525          167 EGGGFCAYADISLCIHYAFVQLNISR  192 (192)
Q Consensus       167 ~a~GFC~fNnvAIAa~~l~~~~g~~R  192 (192)
                      +++|||+||||||||++|+++++++|
T Consensus       164 ~a~GFC~~Nnvaiaa~~~~~~~~~~R  189 (413)
T 2vqm_A          164 TPMGFCYFNSVAVAAKLLQQRLSVSK  189 (413)
T ss_dssp             BCBTTBSSCHHHHHHHHHHHHSCCSC
T ss_pred             CCCCccccchHHHHHHHHHHhcCCCe
Confidence            99999999999999999999999887

>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*

Probab=100.00  E-value=9.8e-40  Score=283.25  Aligned_cols=153  Identities=17%  Similarity=0.186  Sum_probs=130.8

Q ss_pred             cceEecCCCceeeccc------cccCCCCCcchHHHHHHhhhcCccCCCceecccccCccceEEEecHHHHhhcccCcee
Q 029525           35 LPLIYSPDYDISFLGI------EKLHPFDSSKWGRICQFLSSEGFLDKNCIVEPLEASKEDLLVVHSESYLKSLQSSPNV  108 (192)
Q Consensus        35 ~~iiy~~~~~~h~~~~------~~~Hpe~p~R~~~i~~~L~~~gl~~~~~~~~p~~a~~e~l~~vH~~~Yv~~l~~~~~~  108 (192)
                      +.++|||+|+.|..+.      ...|||+|+|++.|+++|++.|+.   ++++|+++++++|++||+++||++|++.+..
T Consensus         1 m~~v~~~~~~~H~~~~~~~~G~~~~HPE~P~Rl~~i~~~L~~~gl~---~~~~p~~at~e~L~~vHs~~Yi~~l~~~~~~   77 (341)
T 3q9b_A            1 MRVIFSEDHKLRNAKTELYGGELVPPFEAPFRAEWILAAVKEAGFD---DVVAPARHGLETVLKVHDAGYLNFLETAWDR   77 (341)
T ss_dssp             CEEECCGGGGGCCCSCEEETTEEECCSSCTHHHHHHHHHHHHTTCC---CEECCCCCCSTTGGGTSCHHHHHHHHHHHHH
T ss_pred             CEEEECcHHhccCCcccccCCCcCCCCCChHHHHHHHHHHHhCCCC---ceeCCCCCCHHHHHHhCCHHHHHHHHHhhhh
Confidence            4689999999997642      136999999999999999999984   6789999999999999999999999986531


Q ss_pred             e-----e---eee------------------cCCceecchhhhhhcccccccccccceeeehhhhhh---hceeEeecCC
Q 029525          109 S-----I---IIE------------------VPPVALFPNCLVQRKVLYPFRKQVGGTILAAKLAKE---RGWAINVGGG  159 (192)
Q Consensus       109 ~-----~---~~e------------------~~~~~~~~d~~~~~~~~~~a~~aaGg~l~aa~~~l~---~~~a~~rppG  159 (192)
                      .     +   ..+                  ...+.+++|||+++++|++|++++||++.|++.+++   ++||++||||
T Consensus        78 ~~~~~~~~~~~~~~~p~~~~~~~~p~~~~~~~g~~~~d~dt~~~~~~~~aa~~aaG~~l~a~~~v~~g~~~afal~rppG  157 (341)
T 3q9b_A           78 WKAAGYKGEAIATSFPVRRTSPRIPTDIEGQIGYYCNAAETAISPGTWEAALSSMASAIDGADLIAAGHKAAFSLCRPPG  157 (341)
T ss_dssp             HHHTTCSSCBCCCBCCCTTCCCCCCSSHHHHHHHTBSBTTCCBCTTHHHHHHHHHHHHHHHHHHHHHTCSEEEECCSSCC
T ss_pred             hhhcccccccccccccccccccccccchhcccceeccCCCCCcChhHHHHHHHHHHHHHHHHHHHHhCCCceEecCCCCC
Confidence            0     0   000                  011346789999999999999999999999999986   4799999999


Q ss_pred             cccccCCCCCeeeEechhhhhHhhhhhhcccCC
Q 029525          160 FHHCSADEGGGFCAYADISLCIHYAFVQLNISR  192 (192)
Q Consensus       160 ~HHA~~~~a~GFC~fNnvAIAa~~l~~~~g~~R  192 (192)
                       |||.+++++|||+||||||||++|+++ |++|
T Consensus       158 -HHA~~~~a~GFC~~NnvaiAa~~l~~~-g~~R  188 (341)
T 3q9b_A          158 -HHAGIDMFGGYCFINNAAVAAQRLLDK-GAKK  188 (341)
T ss_dssp             -TTCBTTBBBTTBSSCHHHHHHHHHHHT-TCSC
T ss_pred             -CCCCCCCCCCccccCHHHHHHHHHHHc-CCCe
Confidence             999999999999999999999999985 6776

>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=100.00  E-value=6.3e-40  Score=288.32  Aligned_cols=154  Identities=25%  Similarity=0.262  Sum_probs=133.6

Q ss_pred             cCCCCcceEecCCCceeeccccccCCCCCcchHHHHHHhhhcCccCCCceecccccCccceEEEecHHHHhhcccCceee
Q 029525           30 IPIFKLPLIYSPDYDISFLGIEKLHPFDSSKWGRICQFLSSEGFLDKNCIVEPLEASKEDLLVVHSESYLKSLQSSPNVS  109 (192)
Q Consensus        30 ~~~~~~~iiy~~~~~~h~~~~~~~Hpe~p~R~~~i~~~L~~~gl~~~~~~~~p~~a~~e~l~~vH~~~Yv~~l~~~~~~~  109 (192)
                      .++.++.++||++|+.|.    .+|||+|+|++.|.++|++.|+++.+++++|++|++++|++||+++||++|++.+...
T Consensus        11 ~~~~~~~~~y~~~~~~~~----~~HPe~P~Rl~~i~~ll~~~gl~~~~~~~~p~~At~e~L~~vHs~~Yi~~l~~~~~~~   86 (388)
T 3ew8_A           11 GQSLVPVYIYSPEYVSMC----DSLAKIPKRASMVHSLIEAYALHKQMRIVKPKVASMEEMATFHTDAYLQHLQKVSQEG   86 (388)
T ss_dssp             ---CCCEEECCHHHHHHH----TTCTTSTTHHHHHHHHHHHTTGGGGSEEECCCCCCHHHHTTTSCHHHHHHHHHHHHHC
T ss_pred             CCCCcEEEEEChHHhccC----CCCCCCcHHHHHHHHHHHHcCCcccCeEeCCCCCCHHHHHhhCCHHHHHHHHHhcccc
Confidence            346789999999999872    4799999999999999999999999999999999999999999999999999876432


Q ss_pred             ee--eecCCceecchhhhhhcccccccccccceeeehhhhhhh--ceeEeecCCcccccCCCCCeeeEechhhhhHhhhh
Q 029525          110 II--IEVPPVALFPNCLVQRKVLYPFRKQVGGTILAAKLAKER--GWAINVGGGFHHCSADEGGGFCAYADISLCIHYAF  185 (192)
Q Consensus       110 ~~--~e~~~~~~~~d~~~~~~~~~~a~~aaGg~l~aa~~~l~~--~~a~~rppG~HHA~~~~a~GFC~fNnvAIAa~~l~  185 (192)
                      ..  .+...++++.|||+++++|+++++++||+|.|++.++++  ++|++||||+|||.+++++|||+||||||||++|+
T Consensus        87 ~~~~~~~~~~~lg~Dtp~~~~~~e~a~~aaGgsl~Aa~~v~~g~~~~Ai~~pGG~HHA~~~~a~GFC~~NdiaiAa~~l~  166 (388)
T 3ew8_A           87 DDDHPDSIEYGLGYLCPATEGIFDYAAAIGGATITAAQCLIDGMCKVAINWSGGWHHAKKDEASGFCYLNDAVLGILRLR  166 (388)
T ss_dssp             --------CCSCSSSSCCCTTHHHHHHHHHHHHHHHHHHHHTTSCSEEEETTCCCTTCBTTBCBTTBSSCHHHHHHHHHT
T ss_pred             cccchhhhhccCCCCCCCChhHHHHHHHHHHHHHHHHHHHHcCCCceeeecCCcccceeecCCCCchhhhHHHHHHHHHH
Confidence            11  112234566799999999999999999999999999975  68999999999999999999999999999999998


Q ss_pred             hh
Q 029525          186 VQ  187 (192)
Q Consensus       186 ~~  187 (192)
                      +.
T Consensus       167 ~~  168 (388)
T 3ew8_A          167 RK  168 (388)
T ss_dssp             TT
T ss_pred             hc
Confidence            75

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

Probab=100.00  E-value=4.2e-39  Score=280.92  Aligned_cols=148  Identities=18%  Similarity=0.244  Sum_probs=127.7

Q ss_pred             cceEecCCCceeeccc------cccCCCCCcchHHHHHHhhhcCccCCCceecccccCccceEEEecHHHHhhcccCcee
Q 029525           35 LPLIYSPDYDISFLGI------EKLHPFDSSKWGRICQFLSSEGFLDKNCIVEPLEASKEDLLVVHSESYLKSLQSSPNV  108 (192)
Q Consensus        35 ~~iiy~~~~~~h~~~~------~~~Hpe~p~R~~~i~~~L~~~gl~~~~~~~~p~~a~~e~l~~vH~~~Yv~~l~~~~~~  108 (192)
                      +.++|||+|+.|.++.      ...|||+|+|++.|+++|++.|+    ++++|+++++++|++||+++||++|++.+..
T Consensus        22 M~~~~~~~~~~H~~~~~~~~G~~~~HPE~P~Rl~~i~~~L~~~gl----~~~~p~~At~e~L~~vHs~~YI~~l~~~~~~   97 (362)
T 3men_A           22 MLTYFHPDQSLHHPRTYFSRGRMRMPQEVPERAARLVAAAFAMGF----PVREPDDFGIAPIAAVHDTHYLRFLETVHRE   97 (362)
T ss_dssp             CEEECCGGGGGCCCCCEEETTEEECCCSCTHHHHHHHHHHHHTTC----CEECCCCCCSHHHHTTSCHHHHHHHHHHHHH
T ss_pred             eEEEEChHHHhhCCccccccCCcCCCCCChHHHHHHHHHHHhCCC----eEeCCCCCCHHHHHHhCCHHHHHHHHHhhhh
Confidence            4699999999998642      13699999999999999999997    6899999999999999999999999876521


Q ss_pred             ------eeeee-cC------------------Cceecchhhhhhcccccccccccceeeehhhhhh---hceeEeecCCc
Q 029525          109 ------SIIIE-VP------------------PVALFPNCLVQRKVLYPFRKQVGGTILAAKLAKE---RGWAINVGGGF  160 (192)
Q Consensus       109 ------~~~~e-~~------------------~~~~~~d~~~~~~~~~~a~~aaGg~l~aa~~~l~---~~~a~~rppG~  160 (192)
                            +...| ++                  .+.+++|||+++++|++|++++|+++.|++.+++   ++||++|||| 
T Consensus        98 ~~~~~~~~~~e~~p~~~p~~~~~p~~~~~~~g~~~~d~Dtpv~~~~~~aa~~aaG~~l~aa~~v~~g~~~afal~rPpG-  176 (362)
T 3men_A           98 WKAMPEDWGDEAMSNIFVREPNALRGVLAQAARHLADGSCPVGEHTWRAAYWSAQSALAAAAAVRDGAPAAYALCRPPG-  176 (362)
T ss_dssp             HHTSCGGGCSSBCCCBCCCSSCCCCSHHHHHHHHBCBTTCCBCTTHHHHHHHHHHHHHHHHHHHHTTCSEEEECCSSCC-
T ss_pred             hhhcccccccccccccccccccccccccccccccccCCCCccchhHHHHHHHHHHHHHHHHHHHHcCCCceEEeCCCCC-
Confidence                  00000 00                  1246789999999999999999999999999986   4799999999 


Q ss_pred             ccccCCCCCeeeEechhhhhHhhhhhh
Q 029525          161 HHCSADEGGGFCAYADISLCIHYAFVQ  187 (192)
Q Consensus       161 HHA~~~~a~GFC~fNnvAIAa~~l~~~  187 (192)
                      |||.+++++|||+||||||||++|+++
T Consensus       177 HHA~~~~a~GFC~fNnvAiAa~~l~~~  203 (362)
T 3men_A          177 HHARVDAAGGFCYLNNAAIAAQALRAR  203 (362)
T ss_dssp             TTCBTTBBBTTBSSCHHHHHHHHHTTT
T ss_pred             CCCCCCCCCCccccCHHHHHHHHHHHc
Confidence            999999999999999999999999987

---

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	192
d1c3pa_	372	c.42.1.2 (A:) HDAC homologue {Aquifex aeolicus [Ta	9e-18
d1t64a_	364	c.42.1.2 (A:) Histone deacetylase 8, HDAC8 {Human	1e-13
d3c10a1	386	c.42.1.2 (A:515-900) Histone deacetylase 7, HDAC7	3e-12

>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 = 77.6 bits (190), Expect = 9e-18
 Identities = 33/155 (21%), Positives = 60/155 (38%), Gaps = 5/155 (3%)

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

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

Query: 151 GWAINVGGGFHHCSADEGGGFCAYADISLCIHYAF 185
             A N  GG HH       GFC   + ++ I Y  
Sbjct: 120 NVAFNPAGGMHHAFKSRANGFCYINNPAVGIEYLR 154

>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 = 66.0 bits (160), Expect = 1e-13
 Identities = 40/164 (24%), Positives = 65/164 (39%), Gaps = 12/164 (7%)

Query: 30  IPIFKLPLIYSPDYDISFLGIEKLHPFDSSKWGRICQFLSSEGFLDKNCIVEPLEASKED 89
           +P++    IYSP+Y    + +         +   +   + +     +  IV+P  AS E+
Sbjct: 2   VPVY----IYSPEY----VSMCDSLAKIPKRASMVHSLIEAYALHKQMRIVKPKVASMEE 53

Query: 90  LLVVHSESYLKSLQ--SSPNVSIIIEVPPVALFPNCLVQRKVLYPFRKQVGGTILAAK-- 145
           +   H+++YL+ LQ  S        +     L  +C     +        G TI AA+  
Sbjct: 54  MATFHTDAYLQHLQKVSQEGDDDHPDSIEYGLGYDCPATEGIFDYAAAIGGATITAAQCL 113

Query: 146 LAKERGWAINVGGGFHHCSADEGGGFCAYADISLCIHYAFVQLN 189
           +      AIN  GG+HH   DE  GFC   D  L I     +  
Sbjct: 114 IDGMCKVAINWSGGWHHAKKDEASGFCYLNDAVLGILRLRRKFE 157

>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 = 61.9 bits (149), Expect = 3e-12
 Identities = 27/177 (15%), Positives = 51/177 (28%), Gaps = 23/177 (12%)

Query: 37  LIYSPDYD--ISFLGIEKLHPFDSSKWGRICQFLSSEGFLDKNCIVEPLEASKEDLLVVH 94
           LIY           G    HP  + +   I   L   G   +   +   +AS E+L  VH
Sbjct: 8   LIYDSVMLKHQCSCGDNSRHPEHAGRIQSIWSRLQERGLRSQCECLRGRKASLEELQSVH 67

Query: 95  SESYLKSLQSSP-----------------NVSIIIEVPPVALFPNCLVQRKVLYPFRKQV 137
           SE ++    ++P                  + +++    V +  + +          +  
Sbjct: 68  SERHVLLYGTNPLSRLKLDNGKLAGLLAQRMFVMLPCGGVGVDTDTIWNELHSSNAARWA 127

Query: 138 GGTILAAKLAKERG----WAINVGGGFHHCSADEGGGFCAYADISLCIHYAFVQLNI 190
            G++                  V    HH       GFC +  +++       Q   
Sbjct: 128 AGSVTDLAFKVASRELKNGFAVVRPPGHHADHSTAMGFCFFNSVAIACRQLQQQSKA 184

Homologous Domains Detected by HHsearch

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

ID	Length	Definition	Probability
Query	192
d3c10a1	386	Histone deacetylase 7, HDAC7 {Human (Homo sapiens)	100.0
d1c3pa_	372	HDAC homologue {Aquifex aeolicus [TaxId: 63363]}	100.0
d1t64a_	364	Histone deacetylase 8, HDAC8 {Human (Homo sapiens)	100.0

>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=100.00  E-value=2.8e-39  Score=283.32  Aligned_cols=159  Identities=20%  Similarity=0.228  Sum_probs=135.1

Q ss_pred             CCcceEecCCCceeeccc--cccCCCCCcchHHHHHHhhhcCccCCCceecccccCccceEEEecHHHHhhcccCceeee
Q 029525           33 FKLPLIYSPDYDISFLGI--EKLHPFDSSKWGRICQFLSSEGFLDKNCIVEPLEASKEDLLVVHSESYLKSLQSSPNVSI  110 (192)
Q Consensus        33 ~~~~iiy~~~~~~h~~~~--~~~Hpe~p~R~~~i~~~L~~~gl~~~~~~~~p~~a~~e~l~~vH~~~Yv~~l~~~~~~~~  110 (192)
                      .+|++|||++|+.|.++.  ...|||+|+|++.|++.|++.|+...+++++|++|+.++|++||+++||++++.......
T Consensus         4 ~~Tg~vyd~~~l~H~~~~g~~~~HPE~p~Rl~~i~~~L~~~gl~~~~~~~~p~~a~~~~L~~vH~~~YI~~l~~~~~~~~   83 (386)
T d3c10a1           4 FTTGLIYDSVMLKHQCSCGDNSRHPEHAGRIQSIWSRLQERGLRSQCECLRGRKASLEELQSVHSERHVLLYGTNPLSRL   83 (386)
T ss_dssp             TCEEEECCGGGGGCCCTTCCGGGCSSCTHHHHHHHHHHHHTTCGGGSEEECCCCCCHHHHTTTSCHHHHHHHHCCTTCSC
T ss_pred             CCEEEEECHHHhcCCCCCCCCCCCCCCHHHHHHHHHHHHhcCCccCCeEeCCCCCCHHHHHHhCCHHHHHHHhhchhhhh
Confidence            468999999999998653  346999999999999999999999999999999999999999999999998875432110


Q ss_pred             --------------ee---ecCCceecchhhhhh-cccccccccccceeeehhhhhh----hceeEeecCCcccccCCCC
Q 029525          111 --------------II---EVPPVALFPNCLVQR-KVLYPFRKQVGGTILAAKLAKE----RGWAINVGGGFHHCSADEG  168 (192)
Q Consensus       111 --------------~~---e~~~~~~~~d~~~~~-~~~~~a~~aaGg~l~aa~~~l~----~~~a~~rppG~HHA~~~~a  168 (192)
                                    ..   ......+++|+++++ .+++++++++|+++.|++.+++    ++||++|||| |||.++++
T Consensus        84 ~~~~~~~~~~~~~~~~~~~~~~~~~~d~dt~~~~~~s~~Aa~~aaG~~~~a~~~v~~~~~~~afa~~rppG-HHA~~~~~  162 (386)
T d3c10a1          84 KLDNGKLAGLLAQRMFVMLPCGGVGVDTDTIWNELHSSNAARWAAGSVTDLAFKVASRELKNGFAVVRPPG-HHADHSTA  162 (386)
T ss_dssp             CCCHHHHHHHHHC---CBCTTSCEESSSSCEECTTTHHHHHHHHHHHHHHHHHHHHTTSSSEEEECCSSCC-TTCBTTBC
T ss_pred             cccccccchhhhhhhhcccCCCCcccCCCcccCcchHHHHHHHHhhHHHHHHhhhhcCccccccccccccc-cccccccc
Confidence                          00   001223567787776 6889999999999999999875    4799999999 99999999


Q ss_pred             CeeeEechhhhhHhhhhhhcccCC
Q 029525          169 GGFCAYADISLCIHYAFVQLNISR  192 (192)
Q Consensus       169 ~GFC~fNnvAIAa~~l~~~~g~~R  192 (192)
                      +|||+||||||||++|+++++++|
T Consensus       163 ~GFC~fNdvAiaa~~l~~~~~~~r  186 (386)
T d3c10a1         163 MGFCFFNSVAIACRQLQQQSKASK  186 (386)
T ss_dssp             BTTBSSCHHHHHHHHHHHHSTTCC
T ss_pred             CCcccccHHHHHHHHHHhhcccCC
Confidence            999999999999999999998887

>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=100.00  E-value=3.3e-38  Score=275.27  Aligned_cols=157  Identities=22%  Similarity=0.319  Sum_probs=133.4

Q ss_pred             CCcceEecCCCceeeccccccCCCCCcchHHHHHHhhhcCccCCCceecccccCccceEEEecHHHHhhcccCceeeeee
Q 029525           33 FKLPLIYSPDYDISFLGIEKLHPFDSSKWGRICQFLSSEGFLDKNCIVEPLEASKEDLLVVHSESYLKSLQSSPNVSIII  112 (192)
Q Consensus        33 ~~~~iiy~~~~~~h~~~~~~~Hpe~p~R~~~i~~~L~~~gl~~~~~~~~p~~a~~e~l~~vH~~~Yv~~l~~~~~~~~~~  112 (192)
                      +++++||+++|..|.  ++++|||+|+|+..++++|++.|+++.+++++|++|+.++|++||+++||++|++.+......
T Consensus         1 ~k~~li~~~d~~~~~--~g~~HPe~p~Rl~~i~~~L~~~gl~~~~~~~~p~~At~e~L~~vHs~~Yi~~l~~~~~~~~~~   78 (372)
T d1c3pa_           1 KKVKLIGTLDYGKYR--YPKNHPLKIPRVSLLLRFKDAMNLIDEKELIKSRPATKEELLLFHTEDYINTLMEAERCQCVP   78 (372)
T ss_dssp             CCEEEEECGGGGGSC--CCTTCGGGSCCHHHHHHHHHHTTCCCGGGEEECCCCCHHHHTTTSCHHHHHHHHHHHHHTSCC
T ss_pred             CeEEEEeChhhcCCC--CCCccCcCHHHHHHHHHHHHHcCCCCCCcEEcCCCCCHHHHHHhCCHHHHHHHHHhcccccCc
Confidence            478999999999986  467899999999999999999999999999999999999999999999999998765322110


Q ss_pred             ec--CCcee-cchhhhhhcccccccccccceeeehhhhhhhceeEeecCCcccccCCCCCeeeEechhhhhHhhhhhhcc
Q 029525          113 EV--PPVAL-FPNCLVQRKVLYPFRKQVGGTILAAKLAKERGWAINVGGGFHHCSADEGGGFCAYADISLCIHYAFVQLN  189 (192)
Q Consensus       113 e~--~~~~~-~~d~~~~~~~~~~a~~aaGg~l~aa~~~l~~~~a~~rppG~HHA~~~~a~GFC~fNnvAIAa~~l~~~~g  189 (192)
                      +.  ....+ ..++|+++.+++++++++|+++.|++.+.++..++++|||+|||.+++++|||+|||+||||+++++. +
T Consensus        79 ~~~~~~~~~~~~~~p~~~~~~~~a~~~~g~~~~a~~~~~~g~~a~~ppGG~HHA~~~~a~GFC~fNnvAiaa~~l~~~-~  157 (372)
T d1c3pa_          79 KGAREKYNIGGYENPVSYAMFTGSSLATGSTVQAIEEFLKGNVAFNPAGGMHHAFKSRANGFCYINNPAVGIEYLRKK-G  157 (372)
T ss_dssp             TTHHHHHCCSSSSSCSSTTTTHHHHHHHHHHHHHHHHHHTTCEEEETTCCCTTCBTTBCBTTBSSCHHHHHHHHHHHT-T
T ss_pred             ccccccccCCCcCCCCCHHHHHHHHHhhhhHHHHhhhhccccceeeccccccccccccceeeeecchHHHHHHHHHHh-c
Confidence            00  00111 24788999999999999999999999998776777788888999999999999999999999998875 4


Q ss_pred             cCC
Q 029525          190 ISR  192 (192)
Q Consensus       190 ~~R  192 (192)
                      ++|
T Consensus       158 ~~R  160 (372)
T d1c3pa_         158 FKR  160 (372)
T ss_dssp             CCC
T ss_pred             cCc
Confidence            665

>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=100.00  E-value=2.5e-37  Score=268.87  Aligned_cols=147  Identities=26%  Similarity=0.302  Sum_probs=129.3

Q ss_pred             eEecCCCceeeccccccCCCCCcchHHHHHHhhhcCccCCCceecccccCccceEEEecHHHHhhcccCceeeeee--ec
Q 029525           37 LIYSPDYDISFLGIEKLHPFDSSKWGRICQFLSSEGFLDKNCIVEPLEASKEDLLVVHSESYLKSLQSSPNVSIII--EV  114 (192)
Q Consensus        37 iiy~~~~~~h~~~~~~~Hpe~p~R~~~i~~~L~~~gl~~~~~~~~p~~a~~e~l~~vH~~~Yv~~l~~~~~~~~~~--e~  114 (192)
                      +||||+|..|    .+.|||+|.|++.+.++|+++||++.+++++|++|+.++|++||+++||++|++.+..+...  +.
T Consensus         5 yiy~~~~~~~----~~~hP~~P~R~~~~~~ll~~~gl~~~~~~v~p~~At~~el~~vHs~~Yi~~l~~~~~~~~~~~~~~   80 (364)
T d1t64a_           5 YIYSPEYVSM----CDSLAKIPKRASMVHSLIEAYALHKQMRIVKPKVASMEEMATFHTDAYLQHLQKVSQEGDDDHPDS   80 (364)
T ss_dssp             EECCHHHHHH----HTCSSSSCCHHHHHHHHHHHTTGGGGSEEECCCCCCHHHHTTTSCHHHHHHHHHHHHHCSSCCTTT
T ss_pred             EEeCHHHhcc----CCCCCCCcHHHHHHHHHHHHcCCccCCEEeCCCCCCHHHHHHhCCHHHHHHHHHhhhccccccchh
Confidence            4899999876    35799999999999999999999999999999999999999999999999999876543211  11


Q ss_pred             CCceecchhhhhhcccccccccccceeeehhhhhhh--ceeEeecCCcccccCCCCCeeeEechhhhhHhhhhhh
Q 029525          115 PPVALFPNCLVQRKVLYPFRKQVGGTILAAKLAKER--GWAINVGGGFHHCSADEGGGFCAYADISLCIHYAFVQ  187 (192)
Q Consensus       115 ~~~~~~~d~~~~~~~~~~a~~aaGg~l~aa~~~l~~--~~a~~rppG~HHA~~~~a~GFC~fNnvAIAa~~l~~~  187 (192)
                      ..++++.|||+++++++++++++||++.|++.++++  .+|++++||+|||.+++++|||+||||||||+++++.
T Consensus        81 ~~~~l~~d~p~~~~~~~~~~~~aG~~l~A~~~~~~g~~~~a~~~~gg~HHA~~~~a~GFC~~NdvaiA~~~~~~~  155 (364)
T d1t64a_          81 IEYGLGYDCPATEGIFDYAAAIGGATITAAQCLIDGMCKVAINWSGGWHHAKKDEASGFCYLNDAVLGILRLRRK  155 (364)
T ss_dssp             TTTTCBTTBCCCTTHHHHHHHHHHHHHHHHHHHHTTSCSEEEETTCCCTTCBTTBCBTTBSSCHHHHHHHHHTTT
T ss_pred             eeecCCCCCCCCchHHHHHHHHhhhHHHHHHHHHcCCcccccccCccccccccccccccccccHHHHHHHHHHhh
Confidence            234567899999999999999999999999999975  4788888888999999999999999999999998764