Citrus Sinensis ID: 008057

Local Sequence Feature Prediction

Prediction and (Method)Result
Residue Number Marker
Protein Sequence ?
Secondary Structure (PSIPRED) ?
Secondary Structure Prediction (SSPRO) ?
Coil and Loop (DISEMBL) ?
Flexible Loop (DISEMBL) ?
Low Complexity Region (SEG) ?
Disordered region (IsUnstruct) ?
Disordered Region (DISOPRED) ?
Disordered Region (DISEMBL) ?
Disordered Region (DISPRO) ?
Transmembrane Helix (TMHMM) ?
Transmembrane Helix (HMMTOP) ?
Transmembrane Helix (MEMSAT) ?
TM Helix, Signal Peptide (MEMSAT_SVM) ?
TM Helix, Signal Peptide (Phobius) ?
Signal Peptide (SignalP HMM Mode) ?
Signal Peptide (SignalP NN Mode) ?
Coiled Coils (COILS) ?
Positional Conservation ?
 
--------10--------20--------30--------40--------50--------60--------70--------80--------90-------100-------110-------120-------130-------140-------150-------160-------170-------180-------190-------200-------210-------220-------230-------240-------250-------260-------270-------280-------290-------300-------310-------320-------330-------340-------350-------360-------370-------380-------390-------400-------410-------420-------430-------440-------450-------460-------470-------480-------490-------500-------510-------520-------530-------540-------550-------560-------570-------58
MEVKSGEGRTIKRRVGLLYDERMCKHNTPDGDYHPENPNRIKAIWNKLQAAGIPQRCVVLNAKEAKDKNLLSVHTENHVNLIKNISSKQFDSRRDRIASKLNSIYLNEGSSEAAYLAAGSVIEVAERVAEGELNSAFAIVRPPGHHAEPDEAMGFCLYNNVAVAASFLLNERPELGINKILIVDWDVHHGNSTQKMFWKDPRVLFFSVHRHEFGTFYPANDDGFYTMIGEGPGLGYNINVPWENGRCGDADYLAVWDHILLPVAKDFGPDIIIISAGFDAAAGDPLGGCRVTPYGYSVMLKKLMDFAQGKIVLALEGGYNLGSISNSVLACMNVLLEDKPVAGSSEAYPFESTWRVIQAVRKKLSAFWPTLADELPTKLTSLKAPPAHMISSSDSEDEDTKVETLEAVLQVALSKLKVDDGHAELGMATPWRSELSKVDVFYASFGSNMWKSRFLCYIEGGQVEGMQKPCSGSKDRNPPKEILWKTFPHHLFFGHDSSHTWGPGGVAFLNPECDCRHKAYLCLYRITLEQFNDVLLQENVYSDDVSSPLFDTNDLNSVANKKAVSLEALKVMLLQCFVP
ccccccccccccccEEEEEcHHHHcccccccccccccHHHHHHHHHHHHHcccccccEEcccccccHHHHHccccHHHHHHHHHHccccccccccccccccccEEccccHHHHHHHHHcHHHHHHHHHHccccccEEEEEcccccccccccccEEEEccHHHHHHHHHHHHcccccccEEEEEEccccccHHHHHHHHccccEEEEEEccccccccccccccccccccccccccccEEEEccccccccHHHHHHHHHHHHHHHHccccccEEEEccccccccccccccccccHHHHHHHHHHHHHHccccEEEEEcccccccHHHHHHHHHHHHHcccccccccccccccHHHHHHHHHHHHHHHcccccccccccccccccccccccccccccccccHHHHHHHHHHHHHHHHcccccccccccccccccccccccccEEEEcccccccccHHHHHHcccccccEEcccccccccccccccccccccccEEccccccccccccEEEEEcccccccccEEEEEEcEEEEEcccHHHHcccccccccccccccccHHcccccccccHHHHHHHHHHcccc
cccccccccccccEEEEEEcHHHHHHcccccccccccHHHHHHHHHHHHHcccHHHEEEEccccccHHHHHHHccHHHHHHHHHccHHHHHHHHHcccccccccccccccHHHHHHHHHHHHHHHHHHHHccHHHEEEEEcccccccccccccccHHHHHHHHHHHHHHHHccccccEEEEEEEEEcccccccEHHEcccccEEEEEEEEcccccccccccccccHHcccccccEEEEEEEccccccccHHHHHHHHHHHHHHHHHHcccEEEEEcccccccccccccccccHHHHHHHHHHHHHHcccEEEEEEcccccHHHHHHHHHHHHHHHHccccccccccccccHHHcHHHHHHHHHHHHHHHHHHHHHHHHHcccccccccEcccccccccccccccHHHcccccccccccccccccccccccccccccccEEEEEEcccccccccEEEEEEcccccccccccccccccccccccEEEccccEEEEccccccccccccEEEEcccccccccEEEEEEEEEHHHHHHHHHHHcccccccccccccHHHHHHHHccccEEEEHEEEEEHHHccc
mevksgegrtikRRVGllydermckhntpdgdyhpenpNRIKAIWNKLQaagipqrcVVLNAKeakdknllSVHTENHVNLIKNISSKQFDSRRDRIASKLNSIYLNEGSSEAAYLAAGSVIEVAERVAEGelnsafaivrppghhaepdeamgfclyNNVAVAASFLlnerpelginkILIVDWdvhhgnstqkmfwkdprvlffsvhrhefgtfypanddgfytmigegpglgyninvpwengrcgdadyLAVWDHILlpvakdfgpdiiiisagfdaaagdplggcrvtpyGYSVMLKKLMDFAQGKIVLALEGGYNLGSISNSVLACMNVLledkpvagsseaypfesTWRVIQAVRKKLSAFWPtladelptkltslkappahmisssdsededtKVETLEAVLQVALSKLkvddghaelgmatpwrselsKVDVFYASFGSNMWKSRFLCYieggqvegmqkpcsgskdrnppkeilwktfphhlffghdsshtwgpggvaflnpecdcrhKAYLCLYRITLEQFNDVLLqenvysddvssplfdtndlnsvaNKKAVSLEALKVMLLQCFVP
mevksgegrtikrrvgllydermckhntpdgdyhpeNPNRIKAIWNKLQAAGIPQRCVVLNAKEAKDKNLLSVHTENHVnliknisskqfdsrRDRIASKLNSIYLNEGSSEAAYLAAGSVIEVAERVAEGELNSAFAIVRPPGHHAEPDEAMGFCLYNNVAVAASFLLNERPELGINKILIVDWDVHHGNSTQKMFWKDPRVLFFSVHRHEFGTFYPANDDGFYTMIGEGPGLGYNINVPWENGRCGDADYLAVWDHILLPVAKDFGPDIIIISAGFDAAAGDPLGGCRVTPYGYSVMLKKLMDFAQGKIVLALEGGYNLGSISNSVLACMNVLLEDKPVAGSSEAYPFESTWRVIQAVRKKLSAFWPTLADELPTKLTSLKAPPAHMisssdsededTKVETLEAVLQVALSKLKVDDGHAELgmatpwrselsKVDVFYASFGSNMWKSRFLCYIEGGQVEGMQKPCSGSKDRNPPKEILWKTFPHHLFFGHDSSHTWGPGGVAFLNPECDCRHKAYLCLYRITLEQFNDVLLQENVYSDDVSSPLFDTNDLNSVANKKAVSLEALKVMLLQCFVP
MEVKSGEGRTIKRRVGLLYDERMCKHNTPDGDYHPENPNRIKAIWNKLQAAGIPQRCVVLNAKEAKDKNLLSVHTENHVNLIKNISSKQFDSRRDRIASKLNSIYLNEGSSEAAYLAAGSVIEVAERVAEGELNSAFAIVRPPGHHAEPDEAMGFCLYNNVAVAASFLLNERPELGINKILIVDWDVHHGNSTQKMFWKDPRVLFFSVHRHEFGTFYPANDDGFYTMIGEGPGLGYNINVPWENGRCGDADYLAVWDHILLPVAKDFGPDIIIISAGFDAAAGDPLGGCRVTPYGYSVMLKKLMDFAQGKIVLALEGGYNLGSISNSVLACMNVLLEDKPVAGSSEAYPFESTWRVIQAVRKKLSAFWPTLADELPTKLTSLKAPPAHMISSSDSEDEDTKVETLEAVLQVALSKLKVDDGHAELGMATPWRSELSKVDVFYASFGSNMWKSRFLCYIEGGQVEGMQKPCSGSKDRNPPKEILWKTFPHHLFFGHDSSHTWGPGGVAFLNPECDCRHKAYLCLYRITLEQFNDVLLQENVYSDDVSSPLFDTNDLNSVANKKAVSLEALKVMLLQCFVP
*************RVGLLYDERMCK*************NRIKAIWNKLQAAGIPQRCVVLNAKEAKDKNLLSVHTENHVNLIKNI***********IASKLNSIYLNEGSSEAAYLAAGSVIEVAERVAEGELNSAFAIVRPPGHHAEPDEAMGFCLYNNVAVAASFLLNERPELGINKILIVDWDVHHGNSTQKMFWKDPRVLFFSVHRHEFGTFYPANDDGFYTMIGEGPGLGYNINVPWENGRCGDADYLAVWDHILLPVAKDFGPDIIIISAGFDAAAGDPLGGCRVTPYGYSVMLKKLMDFAQGKIVLALEGGYNLGSISNSVLACMNVLLEDKPVAGSSEAYPFESTWRVIQAVRKKLSAFWPTLADEL*****************************LEAVLQVALSKLKVDDGHAELGMATPWRSELSKVDVFYASFGSNMWKSRFLCYIEGGQV*****************EILWKTFPHHLFFGHDSSHTWGPGGVAFLNPECDCRHKAYLCLYRITLEQFNDVLLQENVYSDDVSSPLFDTNDLNSVANKKAVSLEALKVMLLQCFV*
***************GLLYDERMCKHNTPDGDYHPENPNRIKAIWNKLQAAGIPQRCVVLNAKEAKDKNLLSVHTENHVNLIKN*************ASKLNSIYLNEGSSEAAYLAAGSVIEVAERVAEGELNSAFAIVRPPGHHAEPDEAMGFCLYNNVAVAASFLLNERPELGINKILIVDWDVHHGNSTQKMFWKDPRVLFFSVHRHEFGTFYPANDDGFYTMIGEGPGLGYNINVPWENGRCGDADYLAVWDHILLPVAKDFGPDIIIISAGFDAAAGDPLGGCRVTPYGYSVMLKKLMDFAQGKIVLALEGGYNLGSISNSVLACMNVLLEDKPV**********STWRVIQAVRKKLSAFWPTLA********************************************************************FYASF**NMWKSRFLCYIEGGQV********************WKTFPHHLFFGHDSSHTWGPGGVAFLNPECDCRHKAYLCLYRITLEQFNDVLLQENVYSDDVSSPLFDTNDLNSVANKKAVSLEALKVMLLQCFVP
********RTIKRRVGLLYDERMCKHNTPDGDYHPENPNRIKAIWNKLQAAGIPQRCVVLNAKEAKDKNLLSVHTENHVNLIKNISSKQFDSRRDRIASKLNSIYLNEGSSEAAYLAAGSVIEVAERVAEGELNSAFAIVRPPGHHAEPDEAMGFCLYNNVAVAASFLLNERPELGINKILIVDWDVHHGNSTQKMFWKDPRVLFFSVHRHEFGTFYPANDDGFYTMIGEGPGLGYNINVPWENGRCGDADYLAVWDHILLPVAKDFGPDIIIISAGFDAAAGDPLGGCRVTPYGYSVMLKKLMDFAQGKIVLALEGGYNLGSISNSVLACMNVLLEDKPVAGSSEAYPFESTWRVIQAVRKKLSAFWPTLADELPTKLTSLKAP****************VETLEAVLQVALSKLKVDDGHAELGMATPWRSELSKVDVFYASFGSNMWKSRFLCYIEGGQVEGMQKPCSGSKDRNPPKEILWKTFPHHLFFGHDSSHTWGPGGVAFLNPECDCRHKAYLCLYRITLEQFNDVLLQENVYSDDVSSPLFDTNDLNSVANKKAVSLEALKVMLLQCFVP
**********IKRRVGLLYDERMCKHNTPDGDYHPENPNRIKAIWNKLQAAGIPQRCVVLNAKEAKDKNLLSVHTENHVNLIKNISSKQFDSRRDRIASKLNSIYLNEGSSEAAYLAAGSVIEVAERVAEGELNSAFAIVRPPGHHAEPDEAMGFCLYNNVAVAASFLLNERPELGINKILIVDWDVHHGNSTQKMFWKDPRVLFFSVHRHEFGTFYPANDDGFYTMIGEGPGLGYNINVPWENGRCGDADYLAVWDHILLPVAKDFGPDIIIISAGFDAAAGDPLGGCRVTPYGYSVMLKKLMDFAQGKIVLALEGGYNLGSISNSVLACMNVLLEDKPVAGSSEAYPFESTWRVIQAVRKKLSAFWPTLADELPTKLTSLKAPP***********************************************ELSKVDVFYASFGSNMWKSRFLCYIEGGQVEGMQKPCSGSKDRNPPKEILWKTFPHHLFFGHDSSHTWGPGGVAFLNPECDCRHKAYLCLYRITLEQFNDVLLQENVYSDDVSSPLFDTNDLNSVANKKAVSLEALKVMLLQCFVP
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MEVKSGEGRTIKRRVGLLYDERMCKHNTPDGDYHPENPNRIKAIWNKLQAAGIPQRCVVLNAKEAKDKNLLSVHTENHVNLIKNISSKQFDSRRDRIASKLNSIYLNEGSSEAAYLAAGSVIEVAERVAEGELNSAFAIVRPPGHHAEPDEAMGFCLYNNVAVAASFLLNERPELGINKILIVDWDVHHGNSTQKMFWKDPRVLFFSVHRHEFGTFYPANDDGFYTMIGEGPGLGYNINVPWENGRCGDADYLAVWDHILLPVAKDFGPDIIIISAGFDAAAGDPLGGCRVTPYGYSVMLKKLMDFAQGKIVLALEGGYNLGSISNSVLACMNVLLEDKPVAGSSEAYPFESTWRVIQAVRKKLSAFWPTLADELPTKLTSLKAPPAHMISSSDSEDEDTKVETLEAVLQVALSKLKVDDGHAELGMATPWRSELSKVDVFYASFGSNMWKSRFLCYIEGGQVEGMQKPCSGSKDRNPPKEILWKTFPHHLFFGHDSSHTWGPGGVAFLNPECDCRHKAYLCLYRITLEQFNDVLLQENVYSDDVSSPLFDTNDLNSVANKKAVSLEALKVMLLQCFVP
no confident homologs detected

Close Homologs for Annotation Transfer

Close Homologs in SWISS-PROT Database Detected by BLAST ?

Original result of BLAST against SWISS-PROT Database

ID ?Alignment graph ?Length ? Definition ? RBH(Q2H) ? RBH(H2Q) ? Q cover ? H cover ? Identity ? E-value ?
Query579 2.2.26 [Sep-21-2011]
Q8RX28660 Histone deacetylase 5 OS= yes no 0.960 0.842 0.683 0.0
Q8LRK8682 Histone deacetylase 18 OS no no 0.656 0.557 0.703 1e-164
Q9Z2V5 1149 Histone deacetylase 6 OS= yes no 0.607 0.306 0.441 4e-86
Q9UBN7 1215 Histone deacetylase 6 OS= yes no 0.540 0.257 0.453 4e-81
P56523687 Histone deacetylase clr3 yes no 0.685 0.577 0.388 4e-76
P565241084 Histone deacetylase 4 OS= no no 0.664 0.355 0.381 1e-73
Q99P991077 Histone deacetylase 4 OS= no no 0.668 0.359 0.383 1e-73
Q613L4892 Histone deacetylase 4 OS= N/A no 0.611 0.396 0.408 1e-73
Q8WUI4952 Histone deacetylase 7 OS= no no 0.613 0.372 0.400 1e-73
Q6NZM91076 Histone deacetylase 4 OS= no no 0.547 0.294 0.420 5e-73
>sp|Q8RX28|HDA5_ARATH Histone deacetylase 5 OS=Arabidopsis thaliana GN=HDA5 PE=2 SV=1 Back     alignment and function desciption
 Score =  802 bits (2071), Expect = 0.0,   Method: Compositional matrix adjust.
 Identities = 383/560 (68%), Positives = 459/560 (81%), Gaps = 4/560 (0%)

Query: 12  KRRVGLLYDERMCKHNTPDGDYHPENPNRIKAIWNKLQAAGIPQRCVVLNAKEAKDKNLL 71
           +R+VGL+YDE MCKH+TPDG+ HPE P+RI+ IW KLQ AG+ QRCVVL + +A+DK+L 
Sbjct: 24  QRKVGLIYDETMCKHDTPDGEDHPECPDRIRVIWEKLQLAGVSQRCVVLGSSKAEDKHLQ 83

Query: 72  SVHTENHVNLIKNISSKQFDSRRDRIASKLNSIYLNEGSSEAAYLAAGSVIEVAERVAEG 131
            VHT++HVNL+K+IS+KQ D RR+RIAS+LNSIYLN GSSEAAYLAAGSV+++AE+VAEG
Sbjct: 84  LVHTKDHVNLVKSISTKQKDYRRNRIASQLNSIYLNGGSSEAAYLAAGSVVKLAEKVAEG 143

Query: 132 ELNSAFAIVRPPGHHAEPDEAMGFCLYNNVAVAASFLLNERPELGINKILIVDWDVHHGN 191
           EL+  FAIVRPPGHHAE DEAMGFCL+NNVAVAASFLLNERP+LG+ KILIVDWDVHHGN
Sbjct: 144 ELDCGFAIVRPPGHHAEADEAMGFCLFNNVAVAASFLLNERPDLGVKKILIVDWDVHHGN 203

Query: 192 STQKMFWKDPRVLFFSVHRHEFGTFYPANDDGFYTMIGEGPGLGYNINVPWENGRCGDAD 251
            TQKMFWKDPRVLFFSVHRHE+G FYPA DDG Y M+GEGPG G+NINVPW+ GRCGDAD
Sbjct: 204 GTQKMFWKDPRVLFFSVHRHEYGGFYPAGDDGDYNMVGEGPGEGFNINVPWDQGRCGDAD 263

Query: 252 YLAVWDHILLPVAKDFGPDIIIISAGFDAAAGDPLGGCRVTPYGYSVMLKKLMDFAQGKI 311
           YLA WDHIL+PVA++F PD+I +SAGFDAA  DPLGGC VTPYGYSVMLKKLM+FAQGKI
Sbjct: 264 YLAAWDHILIPVAREFNPDVIFLSAGFDAAINDPLGGCCVTPYGYSVMLKKLMEFAQGKI 323

Query: 312 VLALEGGYNLGSISNSVLACMNVLLEDKPVAGSSEAYPFESTWRVIQAVRKKLSAFWPTL 371
           VLALEGGYNL SI+ S LAC+ VLLEDK + G  EAYPFESTWRVIQAVRK+L  +WP+L
Sbjct: 324 VLALEGGYNLDSIAKSSLACVQVLLEDKQIQGPPEAYPFESTWRVIQAVRKRLCTYWPSL 383

Query: 372 ADELPTKLTSLKAP-PAHMISSSDSEDEDTKVETLEAVLQVALSKLK--VDDGHAELGMA 428
           ADEL  KL + K P P  +ISSSDSE ED     L+ + ++++   +  + + H     +
Sbjct: 384 ADELSWKLINQKTPTPIILISSSDSETEDNAQGLLDQMSKLSIENPQGTLLENHQVEPAS 443

Query: 429 TPWRSELSKVDVFYASFGSNMWKSRFLCYIEGGQVEGMQKPCSGSKDRNPPKEILWKTFP 488
           T WR++L+KVDV+YASFGSNMWK RFLCYI+GGQV+G++K C GS D++PPKE +W+TFP
Sbjct: 444 TSWRADLAKVDVWYASFGSNMWKPRFLCYIQGGQVDGLKKVCVGSMDKSPPKETVWETFP 503

Query: 489 HHLFFGHDSSHTWGPGGVAFLNPECDCRHKAYLCLYRITLEQFNDVLLQENVYSDDVSSP 548
           H LFFG +SS  WG GGVAF NP  +   + ++CLYRITLEQFNDVL QEN  + D  SP
Sbjct: 504 HRLFFGRESSVGWGVGGVAFTNPLANLIDQTHMCLYRITLEQFNDVLSQENGLNVDSDSP 563

Query: 549 LFDTNDLNSVANKKAVSLEA 568
           +FD   L  V NK ++ LEA
Sbjct: 564 VFDLAALQLVDNKGSI-LEA 582
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|Q8LRK8|HDA18_ARATH Histone deacetylase 18 OS=Arabidopsis thaliana GN=HDA18 PE=2 SV=1 Back     alignment and function description
>sp|Q9Z2V5|HDAC6_MOUSE Histone deacetylase 6 OS=Mus musculus GN=Hdac6 PE=1 SV=3 Back     alignment and function description
>sp|Q9UBN7|HDAC6_HUMAN Histone deacetylase 6 OS=Homo sapiens GN=HDAC6 PE=1 SV=2 Back     alignment and function description
>sp|P56523|CLR3_SCHPO Histone deacetylase clr3 OS=Schizosaccharomyces pombe (strain 972 / ATCC 24843) GN=clr3 PE=1 SV=1 Back     alignment and function description
>sp|P56524|HDAC4_HUMAN Histone deacetylase 4 OS=Homo sapiens GN=HDAC4 PE=1 SV=3 Back     alignment and function description
>sp|Q99P99|HDAC4_RAT Histone deacetylase 4 OS=Rattus norvegicus GN=Hdac4 PE=1 SV=2 Back     alignment and function description
>sp|Q613L4|HDA4_CAEBR Histone deacetylase 4 OS=Caenorhabditis briggsae GN=hda-4 PE=3 SV=1 Back     alignment and function description
>sp|Q8WUI4|HDAC7_HUMAN Histone deacetylase 7 OS=Homo sapiens GN=HDAC7 PE=1 SV=2 Back     alignment and function description
>sp|Q6NZM9|HDAC4_MOUSE Histone deacetylase 4 OS=Mus musculus GN=Hdac4 PE=1 SV=1 Back     alignment and function description

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

Original result of BLAST against Nonredundant Database

GI ?Alignment Graph ?Length ? Definition ? Q cover ? H cover ? Identity ? E-value ?
Query579
359491637646 PREDICTED: histone deacetylase 5-like [V 0.970 0.869 0.783 0.0
255547205654 histone deacetylase hda1, putative [Rici 0.984 0.871 0.743 0.0
224079409646 histone deacetylase [Populus trichocarpa 0.965 0.865 0.753 0.0
356511847656 PREDICTED: histone deacetylase 5-like [G 0.962 0.849 0.734 0.0
356564935652 PREDICTED: histone deacetylase 5-like [G 0.981 0.871 0.708 0.0
449440846659 PREDICTED: histone deacetylase 5-like [C 0.958 0.842 0.692 0.0
22327994660 histone deacetylase 5 [Arabidopsis thali 0.960 0.842 0.683 0.0
334188535664 histone deacetylase 5 [Arabidopsis thali 0.960 0.837 0.679 0.0
297797055660 hypothetical protein ARALYDRAFT_919345 [ 0.965 0.846 0.667 0.0
218199973 695 hypothetical protein OsI_26768 [Oryza sa 0.960 0.8 0.571 0.0
>gi|359491637|ref|XP_002280859.2| PREDICTED: histone deacetylase 5-like [Vitis vinifera] gi|297733877|emb|CBI15124.3| unnamed protein product [Vitis vinifera] Back     alignment and taxonomy information
 Score =  931 bits (2407), Expect = 0.0,   Method: Compositional matrix adjust.
 Identities = 449/573 (78%), Positives = 508/573 (88%), Gaps = 11/573 (1%)

Query: 1   MEVKSGEGRTIKRRVGLLYDERMCKHNTPDGDYHPENPNRIKAIWNKLQAAGIPQRCVVL 60
           MEV S +G   +RRVGL+YD+RMC+H T DGD HPENP+RI+AIW KL++AGIPQRCVV 
Sbjct: 1   MEVNSEKGDR-RRRVGLVYDDRMCEHATADGDPHPENPDRIRAIWKKLESAGIPQRCVVF 59

Query: 61  NAKEAKDKNLLSVHTENHVNLIKNISSKQFDSRRDRIASKLNSIYLNEGSSEAAYLAAGS 120
           NAKEA+DK++LSVH+ NHVNLIKNISSKQFDSRR+RIASK NSIY+NEGSSEAAYLAAGS
Sbjct: 60  NAKEAEDKHILSVHSNNHVNLIKNISSKQFDSRRNRIASKFNSIYMNEGSSEAAYLAAGS 119

Query: 121 VIEVAERVAEGELNSAFAIVRPPGHHAEPDEAMGFCLYNNVAVAASFLLNERPELGINKI 180
           VIEVAERVA+GEL+SAFAIVRPPGHHAE +E MGFCLYNNVA+A SFLLNERP+  I KI
Sbjct: 120 VIEVAERVAKGELSSAFAIVRPPGHHAEQNEPMGFCLYNNVAIATSFLLNERPD--IKKI 177

Query: 181 LIVDWDVHHGNSTQKMFWKDPRVLFFSVHRHEFGTFYPANDDGFYTMIGEGPGLGYNINV 240
           LIVDWDVHHGN TQKMFWKDPRVLFFSVHRHEFG+FYPAND+GFY M GEGPG GYNINV
Sbjct: 178 LIVDWDVHHGNGTQKMFWKDPRVLFFSVHRHEFGSFYPANDEGFYAMTGEGPGAGYNINV 237

Query: 241 PWENGRCGDADYLAVWDHILLPVAKDFGPDIIIISAGFDAAAGDPLGGCRVTPYGYSVML 300
           PWENGRCGDADYLAVWDHIL+PVAKDF PDI+IISAGFDAA GDPLGGC VTPYGYSVML
Sbjct: 238 PWENGRCGDADYLAVWDHILIPVAKDFNPDIVIISAGFDAAIGDPLGGCHVTPYGYSVML 297

Query: 301 KKLMDFAQGKIVLALEGGYNLGSISNSVLACMNVLLEDKPVAGSSEAYPFESTWRVIQAV 360
           KKLM+F++GKI++ALEGGYNL S++NSVLAC+ VLLEDKP+AGSSEAYPFESTWRVIQAV
Sbjct: 298 KKLMEFSEGKIIMALEGGYNLVSLANSVLACVEVLLEDKPIAGSSEAYPFESTWRVIQAV 357

Query: 361 RKKLSAFWPTLADELPTKLTSLKAPPAH-MISSSDSEDED-----TKVETLEAVLQVALS 414
           R++LSAFWPTLADELP KLTS KA P   +++SSDSEDE       + E LEAV+Q  LS
Sbjct: 358 RQELSAFWPTLADELPKKLTSCKASPLQLLVASSDSEDESDIDLHIRAENLEAVVQDGLS 417

Query: 415 KLKVDDGHAELGMATPWRSELSKVDVFYASFGSNMWKSRFLCYIEGGQVEGMQKPCSGSK 474
           KLKVD+   +L +AT WRSELSK+DV+YASFGSNMWKSRFLCYIEGGQ+EGM+K CSGS 
Sbjct: 418 KLKVDEDSHDL-VAT-WRSELSKIDVWYASFGSNMWKSRFLCYIEGGQLEGMEKRCSGSV 475

Query: 475 DRNPPKEILWKTFPHHLFFGHDSSHTWGPGGVAFLNPECDCRHKAYLCLYRITLEQFNDV 534
           DRNPPKEI+WKT PH LFFG D S TWGPGGVAFLNPE + + +AY+CLYRITLEQFNDV
Sbjct: 476 DRNPPKEIMWKTVPHRLFFGRDHSSTWGPGGVAFLNPEENNQDRAYICLYRITLEQFNDV 535

Query: 535 LLQENVYSDDVSSPLFDTNDLNSVANKKAVSLE 567
           LLQEN  S D+SSPLFD   LNS+A+K+++S+E
Sbjct: 536 LLQENASSYDISSPLFDLVALNSIADKQSISVE 568

Source: Vitis vinifera

Species: Vitis vinifera

Genus: Vitis

Family: Vitaceae

Order: Vitales

Class:

Phylum: Streptophyta

Superkingdom: Eukaryota
>gi|255547205|ref|XP_002514660.1| histone deacetylase hda1, putative [Ricinus communis] gi|223546264|gb|EEF47766.1| histone deacetylase hda1, putative [Ricinus communis] Back     alignment and taxonomy information
>gi|224079409|ref|XP_002305854.1| histone deacetylase [Populus trichocarpa] gi|222848818|gb|EEE86365.1| histone deacetylase [Populus trichocarpa] Back     alignment and taxonomy information
>gi|356511847|ref|XP_003524633.1| PREDICTED: histone deacetylase 5-like [Glycine max] Back     alignment and taxonomy information
>gi|356564935|ref|XP_003550702.1| PREDICTED: histone deacetylase 5-like [Glycine max] Back     alignment and taxonomy information
>gi|449440846|ref|XP_004138195.1| PREDICTED: histone deacetylase 5-like [Cucumis sativus] Back     alignment and taxonomy information
>gi|22327994|ref|NP_200914.2| histone deacetylase 5 [Arabidopsis thaliana] gi|75247631|sp|Q8RX28.1|HDA5_ARATH RecName: Full=Histone deacetylase 5 gi|20259320|gb|AAM13986.1| putative histone deacetylase [Arabidopsis thaliana] gi|21539579|gb|AAM53342.1| histone deacetylase-like protein [Arabidopsis thaliana] gi|23197730|gb|AAN15392.1| histone deacetylase-like protein [Arabidopsis thaliana] gi|332010034|gb|AED97417.1| histone deacetylase 5 [Arabidopsis thaliana] Back     alignment and taxonomy information
>gi|334188535|ref|NP_001190583.1| histone deacetylase 5 [Arabidopsis thaliana] gi|332010035|gb|AED97418.1| histone deacetylase 5 [Arabidopsis thaliana] Back     alignment and taxonomy information
>gi|297797055|ref|XP_002866412.1| hypothetical protein ARALYDRAFT_919345 [Arabidopsis lyrata subsp. lyrata] gi|297312247|gb|EFH42671.1| hypothetical protein ARALYDRAFT_919345 [Arabidopsis lyrata subsp. lyrata] Back     alignment and taxonomy information
>gi|218199973|gb|EEC82400.1| hypothetical protein OsI_26768 [Oryza sativa Indica Group] Back     alignment and taxonomy information

Prediction of Gene Ontology (GO) Terms

Close Homologs with Gene Ontology terms Detected by BLAST ?

Original result of BLAST against Gene Ontology (AMIGO)

ID ? Alignment graph ? Length ? Definition ? Q cover ? H cover ? Identity ? E-value ?
Query579
TAIR|locus:2159461682 HDA18 "AT5G61070" [Arabidopsis 0.720 0.611 0.651 3.4e-148
UNIPROTKB|F1LSE3 1155 Hdac6 "Protein Hdac6" [Rattus 0.614 0.308 0.451 8.1e-81
MGI|MGI:1333752 1149 Hdac6 "histone deacetylase 6" 0.559 0.281 0.465 1.8e-79
ZFIN|ZDB-GENE-030131-32321081 hdac6 "histone deacetylase 6" 0.628 0.336 0.417 2.6e-79
UNIPROTKB|Q9UBN7 1215 HDAC6 "Histone deacetylase 6" 0.644 0.306 0.423 1.2e-77
UNIPROTKB|B4DZH6 1229 HDAC6 "Histone deacetylase 6" 0.644 0.303 0.423 1.5e-77
UNIPROTKB|F1MQP31128 HDAC6 "Uncharacterized protein 0.557 0.286 0.465 2.6e-77
UNIPROTKB|I3LEZ71130 HDAC6 "Uncharacterized protein 0.564 0.289 0.454 6e-77
UNIPROTKB|F1PN11 1157 HDAC6 "Uncharacterized protein 0.563 0.281 0.450 4.9e-76
CGD|CAL0003359 833 HDA1 [Candida albicans (taxid: 0.616 0.428 0.424 5.7e-75
TAIR|locus:2159461 HDA18 "AT5G61070" [Arabidopsis thaliana (taxid:3702)] Back     alignment and assigned GO terms
 Score = 1447 (514.4 bits), Expect = 3.4e-148, P = 3.4e-148
 Identities = 278/427 (65%), Positives = 338/427 (79%)

Query:     6 GEGRTI---KRRVGLLYDERMCKHNTPDGDYHPENPNRIKAIWNKLQAAGIPQRCVVLNA 62
             G+G+     +R+VGL+YDE MCKH+TP+G    E P+RI+ IW KLQ AG+ QRCVVL  
Sbjct:    48 GDGKVAGKSQRKVGLVYDETMCKHDTPNGKVDVECPDRIRVIWEKLQLAGVTQRCVVLGG 107

Query:    63 KEAKDKNLLSVHTENHVNLIKNISSKQFDSRRDRIASKLNSIYLNEGSSEAAYLAAGSVI 122
              +A+DK+L  VHT+ HVNL+K+IS+K+ DSRR++IAS+L+SIYLN GSSEAAYLAAGSV+
Sbjct:   108 SKAEDKHLKLVHTKKHVNLVKSISTKKKDSRRNKIASQLDSIYLNGGSSEAAYLAAGSVV 167

Query:   123 EVAERVAEGELNSAFAIVRPPGHHAEPDEAMGFCLYNNVAVAASFLLNERPELGINKILI 182
             +VAE+VAEGEL+  FAIVRPPGHHAE DEAMGFCL+NNVAVAASFLLNERP+L + KILI
Sbjct:   168 KVAEKVAEGELDCGFAIVRPPGHHAESDEAMGFCLFNNVAVAASFLLNERPDLDVKKILI 227

Query:   183 VDWDVHHGNSTQKMFWKDPRVLFFSVHRHEFGTFYPANDDGFYTMIGEGPGLGYNINVPW 242
             VDWD+HHGN TQKMFWKD RVL FSVHRH+ G+FYP  DDG + M+GEGPG G+NINVPW
Sbjct:   228 VDWDIHHGNGTQKMFWKDSRVLIFSVHRHDHGSFYPFGDDGDFNMVGEGPGEGFNINVPW 287

Query:   243 ENGRCGDADYLAVWDHILLPVAKDFGPDIIIISAGFDAAAGDPLGGCRVTPYGYSVMLKK 302
             E G CGDADYLAVW+HIL+PV K+F PDII++SAGFDAA GDPLGGC VTPYGYSVMLKK
Sbjct:   288 EQGGCGDADYLAVWNHILIPVTKEFKPDIILLSAGFDAAIGDPLGGCCVTPYGYSVMLKK 347

Query:   303 LMDFAQGKIVLALEGGYNLGSISNSVLACMNVLLEDKPVAGSSEAYPFESTWRVIQAVRK 362
             LM+FA GKIVLALEGGYNL S+  S LAC+ VLLEDK + GSSE YP EST RVIQAVR+
Sbjct:   348 LMEFAHGKIVLALEGGYNLESLGKSSLACVQVLLEDKQIHGSSETYPLESTRRVIQAVRE 407

Query:   363 KLSAFWPTLADELPTKLTSLKAPPAHMISSSDS---EDEDTK--VETLEAVLQVALSKLK 417
             +L  +WP+L   + +   +LK P A   +S+D+   E E+ K  +   +  L+    +LK
Sbjct:   408 RLCTYWPSLDASMASN-ENLKNPSAER-NSADALLREVEELKSLMAARDGELEARRKELK 465

Query:   418 VDDGHAE 424
               +   E
Sbjct:   466 AKNKELE 472
GO:0004407 "histone deacetylase activity" evidence=ISS;IDA
GO:0005634 "nucleus" evidence=ISM;IDA
GO:0016575 "histone deacetylation" evidence=ISS
GO:0004402 "histone acetyltransferase activity" evidence=ISS
GO:0006338 "chromatin remodeling" evidence=ISS
GO:0045604 "regulation of epidermal cell differentiation" evidence=IMP
GO:0005737 "cytoplasm" evidence=IDA
GO:0010053 "root epidermal cell differentiation" evidence=IMP
UNIPROTKB|F1LSE3 Hdac6 "Protein Hdac6" [Rattus norvegicus (taxid:10116)] Back     alignment and assigned GO terms
MGI|MGI:1333752 Hdac6 "histone deacetylase 6" [Mus musculus (taxid:10090)] Back     alignment and assigned GO terms
ZFIN|ZDB-GENE-030131-3232 hdac6 "histone deacetylase 6" [Danio rerio (taxid:7955)] Back     alignment and assigned GO terms
UNIPROTKB|Q9UBN7 HDAC6 "Histone deacetylase 6" [Homo sapiens (taxid:9606)] Back     alignment and assigned GO terms
UNIPROTKB|B4DZH6 HDAC6 "Histone deacetylase 6" [Homo sapiens (taxid:9606)] Back     alignment and assigned GO terms
UNIPROTKB|F1MQP3 HDAC6 "Uncharacterized protein" [Bos taurus (taxid:9913)] Back     alignment and assigned GO terms
UNIPROTKB|I3LEZ7 HDAC6 "Uncharacterized protein" [Sus scrofa (taxid:9823)] Back     alignment and assigned GO terms
UNIPROTKB|F1PN11 HDAC6 "Uncharacterized protein" [Canis lupus familiaris (taxid:9615)] Back     alignment and assigned GO terms
CGD|CAL0003359 HDA1 [Candida albicans (taxid:5476)] Back     alignment and assigned GO terms

Prediction of Enzyme Commission (EC) Number

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

Original result of BLAST against SWISS-PROT

ID ?Name ?Annotated EC number ?Identity ?Query coverage ?Hit coverage ?RBH(Q2H) ?RBH(H2Q) ?
Q8RX28HDA5_ARATH3, ., 5, ., 1, ., 9, 80.68390.96020.8424yesno

EC Number Prediction by Ezypred Server ?

Original result from Ezypred Server

Fail to connect to Ezypred Server

EC Number Prediction by EFICAz Software ?

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

Prediction of Functionally Associated Proteins

Functionally Associated Proteins Detected by STRING ?

Original result from the STRING server

Fail to connect to STRING server

Conserved Domains and Related Protein Families

Conserved Domains Detected by RPS-BLAST ?

Original result of RPS-BLAST against CDD database part I

ID ?Alignment Graph ?Length ? Definition ? E-value ?
Query579
cd09992291 cd09992, HDAC_classII, Histone deacetylases and hi 1e-144
cd10003350 cd10003, HDAC6-dom2, Histone deacetylase 6, domain 1e-143
cd11600313 cd11600, HDAC_Clr3, Class II Histone deacetylase C 1e-135
cd11681377 cd11681, HDAC_classIIa, Histone deacetylases, clas 1e-126
pfam00850300 pfam00850, Hist_deacetyl, Histone deacetylase doma 1e-125
cd10002336 cd10002, HDAC10_HDAC6-dom1, Histone deacetylase 6, 1e-116
cd11682337 cd11682, HDAC6-dom1, Histone deacetylase 6, domain 1e-102
cd09996359 cd09996, HDAC_classII_1, Histone deacetylases and 1e-100
COG0123340 COG0123, AcuC, Deacetylases, including yeast histo 2e-97
cd10008378 cd10008, HDAC7, Histone deacetylase 7 1e-94
cd10007420 cd10007, HDAC5, Histone deacetylase 5 5e-93
cd11683337 cd11683, HDAC10, Histone deacetylase 10 4e-92
cd11599288 cd11599, HDAC_classII_2, Histone deacetylases and 3e-91
cd10006409 cd10006, HDAC4, Histone deacetylase 4 1e-90
cd10009379 cd10009, HDAC9, Histone deacetylase 9 1e-89
cd10001298 cd10001, HDAC_classII_APAH, Histone deacetylase cl 6e-87
cd09301279 cd09301, HDAC, Histone deacetylase (HDAC) classes 4e-66
cd09994313 cd09994, HDAC_AcuC_like, Class I histone deacetyla 2e-62
cd10000364 cd10000, HDAC8, Histone deacetylase 8 (HDAC8) 6e-39
cd09993275 cd09993, HDAC_classIV, Histone deacetylase class I 2e-32
cd11680294 cd11680, HDAC_Hos1, Class I histone deacetylases H 5e-32
cd09991306 cd09991, HDAC_classI, Class I histone deacetylases 2e-30
cd11598311 cd11598, HDAC_Hos2, Class I histone deacetylases i 1e-27
cd10004375 cd10004, RPD3-like, reduced potassium dependency-3 1e-27
cd10010371 cd10010, HDAC1, Histone deacetylase 1 (HDAC1) 9e-24
cd09998353 cd09998, HDAC_Hos3, Class II histone deacetylases 3e-22
cd10005381 cd10005, HDAC3, Histone deacetylase 3 (HDAC3) 4e-21
cd10011366 cd10011, HDAC2, Histone deacetylase 2 (HDAC2) 6e-19
PTZ00063436 PTZ00063, PTZ00063, histone deacetylase; Provision 2e-18
PTZ00346429 PTZ00346, PTZ00346, histone deacetylase; Provision 2e-17
cd09987217 cd09987, Arginase_HDAC, Arginase-like and histone- 4e-06
>gnl|CDD|212518 cd09992, HDAC_classII, Histone deacetylases and histone-like deacetylases, classII Back     alignment and domain information 
 Score =  416 bits (1073), Expect = e-144
 Identities = 137/307 (44%), Positives = 190/307 (61%), Gaps = 20/307 (6%)

Query: 34  HPENPNRIKAIWNKLQAAGIPQRCVVLNAKEAKDKNLLSVHTENHVNLIKNISSKQFDSR 93
           HPE P R+ AI   L+  G+  R V +  + A ++ LL VHT  ++  ++          
Sbjct: 1   HPERPERLLAILEALEEEGLLDRLVFVEPRPATEEELLRVHTPEYIERVEETCEA----- 55

Query: 94  RDRIASKLNSIYLNEGSSEAAYLAAGSVIEVAERVAEGELNSAFAIVRPPGHHAEPDEAM 153
                      Y++ GS EAA LAAG+ +   + V  GE  +AFA+VRPPGHHAEPD AM
Sbjct: 56  --GGGYLDPDTYVSPGSYEAALLAAGAALAAVDAVLSGEAENAFALVRPPGHHAEPDRAM 113

Query: 154 GFCLYNNVAVAASFLLNERPELGINKILIVDWDVHHGNSTQKMFWKDPRVLFFSVHRHEF 213
           GFCL+NNVA+AA +        G+ ++LIVDWDVHHGN TQ +F+ DP VL+FS+H++  
Sbjct: 114 GFCLFNNVAIAARYAQK---RYGLKRVLIVDWDVHHGNGTQDIFYDDPSVLYFSIHQYP- 169

Query: 214 GTFYPANDDGFYTMIGEGPGLGYNINVPWENGRCGDADYLAVWDHILLPVAKDFGPDIII 273
             FYP    G     G G G G+ INVP   G  GDA+YLA ++ +LLP+A++F PD+++
Sbjct: 170 --FYPG--TGAAEETGGGAGEGFTINVPLPPG-SGDAEYLAAFEEVLLPIAREFQPDLVL 224

Query: 274 ISAGFDAAAGDPLGGCRVTPYGYSVMLKKLMDFA----QGKIVLALEGGYNLGSISNSVL 329
           +SAGFDA  GDPLGG  +TP GY+ + + L + A     G++V  LEGGYNL +++ SVL
Sbjct: 225 VSAGFDAHRGDPLGGMNLTPEGYARLTRLLKELADEHCGGRLVFVLEGGYNLEALAESVL 284

Query: 330 ACMNVLL 336
           A +  LL
Sbjct: 285 AVLEALL 291

Class II histone deacetylases are Zn-dependent enzymes that catalyze hydrolysis of N(6)-acetyl-lysine residues of histones (EC 3.5.1.98) and possibly other proteins to yield deacetylated histones/other proteins. This group includes animal HDAC4,5,6,7,8,9,10, fungal HOS3 and HDA1, plant HDA5 and HDA15 as well as other eukaryotes, archaeal and bacterial histone-like deacetylases. Eukaryotic deacetylases mostly use histones (H2, H3, H4) as substrates for deacetylation; however, non-histone substrates are known (for example, tubulin). Substrates for prokaryotic histone-like deacetylases are not known. Histone acetylation/deacetylation process is important for mediation of transcriptional regulation of many genes. Histone deacetylases usually act via association with DNA binding proteins to target specific chromatin regions. Interaction partners of class II deacetylases include 14-3-3 proteins, MEF2 family of transcriptional factors, CtBP, calmodulin (CaM), SMRT, N-CoR, BCL6, HP1alpha and SUMO. Histone deacetylases play a role in the regulation of cell cycle, cell differentiation and survival. Class II mammalian HDACs are differentially inhibited by structurally diverse compounds with known antitumor activities, thus presenting them as potential drug targets for human diseases resulting from aberrant acetylation. Length = 291
>gnl|CDD|212527 cd10003, HDAC6-dom2, Histone deacetylase 6, domain 2 Back     alignment and domain information
>gnl|CDD|212542 cd11600, HDAC_Clr3, Class II Histone deacetylase Clr3 and similar proteins Back     alignment and domain information
>gnl|CDD|212544 cd11681, HDAC_classIIa, Histone deacetylases, class IIa Back     alignment and domain information
>gnl|CDD|216151 pfam00850, Hist_deacetyl, Histone deacetylase domain Back     alignment and domain information
>gnl|CDD|212526 cd10002, HDAC10_HDAC6-dom1, Histone deacetylase 6, domain 1 and histone deacetylase 10 Back     alignment and domain information
>gnl|CDD|212545 cd11682, HDAC6-dom1, Histone deacetylase 6, domain 1 Back     alignment and domain information
>gnl|CDD|212521 cd09996, HDAC_classII_1, Histone deacetylases and histone-like deacetylases, classII Back     alignment and domain information
>gnl|CDD|223201 COG0123, AcuC, Deacetylases, including yeast histone deacetylase and acetoin utilization protein [Chromatin structure and dynamics / Secondary metabolites biosynthesis, transport, and catabolism] Back     alignment and domain information
>gnl|CDD|212532 cd10008, HDAC7, Histone deacetylase 7 Back     alignment and domain information
>gnl|CDD|212531 cd10007, HDAC5, Histone deacetylase 5 Back     alignment and domain information
>gnl|CDD|212546 cd11683, HDAC10, Histone deacetylase 10 Back     alignment and domain information
>gnl|CDD|212541 cd11599, HDAC_classII_2, Histone deacetylases and histone-like deacetylases, classII Back     alignment and domain information
>gnl|CDD|212530 cd10006, HDAC4, Histone deacetylase 4 Back     alignment and domain information
>gnl|CDD|212533 cd10009, HDAC9, Histone deacetylase 9 Back     alignment and domain information
>gnl|CDD|212525 cd10001, HDAC_classII_APAH, Histone deacetylase class IIa Back     alignment and domain information
>gnl|CDD|212512 cd09301, HDAC, Histone deacetylase (HDAC) classes I, II, IV and related proteins Back     alignment and domain information
>gnl|CDD|212520 cd09994, HDAC_AcuC_like, Class I histone deacetylase AcuC (Acetoin utilization protein)-like enzymes Back     alignment and domain information
>gnl|CDD|212524 cd10000, HDAC8, Histone deacetylase 8 (HDAC8) Back     alignment and domain information
>gnl|CDD|212519 cd09993, HDAC_classIV, Histone deacetylase class IV also known as histone deacetylase 11 Back     alignment and domain information
>gnl|CDD|212543 cd11680, HDAC_Hos1, Class I histone deacetylases Hos1 and related proteins Back     alignment and domain information
>gnl|CDD|212517 cd09991, HDAC_classI, Class I histone deacetylases Back     alignment and domain information
>gnl|CDD|212540 cd11598, HDAC_Hos2, Class I histone deacetylases including ScHos2 and SpPhd1 Back     alignment and domain information
>gnl|CDD|212528 cd10004, RPD3-like, reduced potassium dependency-3 (RPD3)-like Back     alignment and domain information
>gnl|CDD|212534 cd10010, HDAC1, Histone deacetylase 1 (HDAC1) Back     alignment and domain information
>gnl|CDD|212522 cd09998, HDAC_Hos3, Class II histone deacetylases Hos3 and related proteins Back     alignment and domain information
>gnl|CDD|212529 cd10005, HDAC3, Histone deacetylase 3 (HDAC3) Back     alignment and domain information
>gnl|CDD|212535 cd10011, HDAC2, Histone deacetylase 2 (HDAC2) Back     alignment and domain information
>gnl|CDD|240251 PTZ00063, PTZ00063, histone deacetylase; Provisional Back     alignment and domain information
>gnl|CDD|240374 PTZ00346, PTZ00346, histone deacetylase; Provisional Back     alignment and domain information
>gnl|CDD|212513 cd09987, Arginase_HDAC, Arginase-like and histone-like hydrolases Back     alignment and domain information

Conserved Domains Detected by HHsearch ?

Original result of HHsearch against CDD database

ID ?Alignment Graph ?Length ? Definition ? Probability ?
Query 579
PTZ00063436 histone deacetylase; Provisional 100.0
COG0123340 AcuC Deacetylases, including yeast histone deacety 100.0
PTZ00346429 histone deacetylase; Provisional 100.0
PF00850311 Hist_deacetyl: Histone deacetylase domain; InterPr 100.0
KOG1342425 consensus Histone deacetylase complex, catalytic c 100.0
KOG1343797 consensus Histone deacetylase complex, catalytic c 100.0
KOG1343 797 consensus Histone deacetylase complex, catalytic c 100.0
KOG1344324 consensus Predicted histone deacetylase [Chromatin 100.0
PHA03014163 hypothetical protein; Provisional 97.77
KOG4059193 consensus Uncharacterized conserved protein [Funct 97.46
cd0666199 GGCT_like GGCT-like domains, also called AIG2-like 90.52
>PTZ00063 histone deacetylase; Provisional Back     alignment and domain information 
Probab=100.00  E-value=5.9e-82  Score=676.08  Aligned_cols=376  Identities=22%  Similarity=0.383  Sum_probs=323.9

Q ss_pred             CCeEEEEecccccccCCCCCCCCCCChHHHHHHHHHHHHcCCCCcceEecCCCCCHHHHhccCCHHHHHHHHHhcccchh
Q 008057           12 KRRVGLLYDERMCKHNTPDGDYHPENPNRIKAIWNKLQAAGIPQRCVVLNAKEAKDKNLLSVHTENHVNLIKNISSKQFD   91 (579)
Q Consensus        12 ~~~~~lvyd~~~~~H~~~~~~~HpE~P~Rl~~i~~~L~~~gl~~~~~~~~p~~a~~~eL~~VHs~~YI~~l~~~~~~~~~   91 (579)
                      +++|+++||+.+..|..+.  .|||+|+|++.++++|++.|+...+.++.|++|+.++|++|||++||++|++.+.....
T Consensus         3 ~~~v~~~yd~~~~~h~~g~--~HP~~P~Rl~~~~~ll~~~gl~~~~~~~~p~~At~eeL~~vHs~~YI~~L~~~~~~~~~   80 (436)
T PTZ00063          3 RKRVSYFYDPDIGSYYYGP--GHPMKPQRIRMAHALILSYDLYKHMEIYRPHKSVEPELVLFHDEEYVDFLSSISPENYR   80 (436)
T ss_pred             CceEEEEECccccCcCCcC--cCCcChHHHHHHHHHHHhCCCcccCeEecCCCCCHHHHHHhCCHHHHHHHHHhChhhcc
Confidence            5679999999999999864  59999999999999999999999899999999999999999999999999987654211


Q ss_pred             h---hhhhhccc-cCceecccChHHHHHHHHhHHHHHHHHHHcCCCceEEEEeCCCC-CCCCCCCCccccccCcHHHHHH
Q 008057           92 S---RRDRIASK-LNSIYLNEGSSEAAYLAAGSVIEVAERVAEGELNSAFAIVRPPG-HHAEPDEAMGFCLYNNVAVAAS  166 (579)
Q Consensus        92 ~---~~~~~~~~-~~d~y~~~~s~eaA~lAaG~~l~aad~V~~g~~~~afalvRPPG-HHA~~~~a~GFC~fNnVAIAA~  166 (579)
                      .   ....+... ..|++++++++++|++++|++|.|++++++|+.  .||++|||| |||.+++|+|||+||||||||+
T Consensus        81 ~~~~~~~~f~lg~~~D~pv~~gl~~~a~~aaGgsl~Aa~~l~~g~~--~iAin~~GG~HHA~~~~A~GFC~~NdiaiAi~  158 (436)
T PTZ00063         81 DFTYQLKRFNVGEATDCPVFDGLFEFQQSCAGASIDGAYKLNNHQA--DICVNWSGGLHHAKRSEASGFCYINDIVLGIL  158 (436)
T ss_pred             cchhhhhhcccCCCCCCCcccHHHHHHHHHHhHHHHHHHHHHcCCC--CEEeeCCCCCCCCccCCCCceeeecHHHHHHH
Confidence            0   00111111 138999999999999999999999999999986  489999999 9999999999999999999999


Q ss_pred             HHHhhCCcCCcceEEEEEcccccCCccccccccCCceEEEecccCCCCCCCCCCCCCCCccccCCCCCcceEeeeCCCCC
Q 008057          167 FLLNERPELGINKILIVDWDVHHGNSTQKMFWKDPRVLFFSVHRHEFGTFYPANDDGFYTMIGEGPGLGYNINVPWENGR  246 (579)
Q Consensus       167 ~l~~~~~~~g~~RVlIVD~DvHHGNGTq~iF~~Dp~VL~iSiH~~~~g~fyPgt~~G~~~eiG~g~G~G~niNVPLp~g~  246 (579)
                      +|++.     .+||||||||||||||||+|||+||+|||+|+|++.  .|||+|  |..+++|.|.|+||++|||||+| 
T Consensus       159 ~L~~~-----~~RVliID~DvHHGdGtqe~F~~~~~VltvS~H~~~--~ffPgt--G~~~e~G~g~G~g~~vNvPL~~G-  228 (436)
T PTZ00063        159 ELLKY-----HARVMYIDIDVHHGDGVEEAFYVTHRVMTVSFHKFG--DFFPGT--GDVTDIGVAQGKYYSVNVPLNDG-  228 (436)
T ss_pred             HHHHh-----CCeEEEEeCCCCCCcchHHHhccCCCeEEEEeccCC--CcCCCC--CCccccCCCCCCceEEEeeCCCC-
Confidence            99874     379999999999999999999999999999999984  599986  89999999999999999999998 


Q ss_pred             CChhHHHHHHHHHHHHHHHHhCCCEEEEecCCCCCCCCCCCCccCChhhHHHHHHHHHhccCCcEEEEeCCCCCcchHHH
Q 008057          247 CGDADYLAVWDHILLPVAKDFGPDIIIISAGFDAAAGDPLGGCRVTPYGYSVMLKKLMDFAQGKIVLALEGGYNLGSISN  326 (579)
Q Consensus       247 ~gD~~Yl~af~~iv~Pil~~f~PdlIvvsaGfDa~~~DpLG~l~lT~~gy~~l~~~l~~~a~grvv~vLEGGY~~~~la~  326 (579)
                      ++|++|+.+|+.+|.|++++|+||+||||||||+|.+||||+++||.+||.++++.++++ ++|+++++||||++.++++
T Consensus       229 ~~D~~Y~~~f~~ii~~~i~~f~Pd~IvvqaG~D~~~~DpLg~l~Lt~~g~~~~~~~~~~~-~~pil~l~gGGY~~~~lar  307 (436)
T PTZ00063        229 IDDDSFVDLFKPVISKCVEVYRPGAIVLQCGADSLTGDRLGRFNLTIKGHAACVEFVRSL-NIPLLVLGGGGYTIRNVAR  307 (436)
T ss_pred             CCHHHHHHHHHHHHHHHHHHhCCCEEEEECCccccCCCCCCCcccCHHHHHHHHHHHHhc-CCCEEEEeCccCCchHHHH
Confidence            999999999999999999999999999999999999999999999999999999999987 5799999999999999999


Q ss_pred             HHHHHHHHHcCCCCCCCCCCCCCChhHHHHHHHHHHHHhcccchhhccccccccccCCCCCccccCCCChhhhhh----H
Q 008057          327 SVLACMNVLLEDKPVAGSSEAYPFESTWRVIQAVRKKLSAFWPTLADELPTKLTSLKAPPAHMISSSDSEDEDTK----V  402 (579)
Q Consensus       327 ~~~a~~~~Llg~~~~~~~~~~~p~~~~~~~i~~v~~~~~~~W~~l~~~l~~~~~~~~~~~~~~~~~~~~~~e~~~----~  402 (579)
                      ||.+++..++|.....  +...|..              .||+...            |...|+. ..++++|.|    +
T Consensus       308 ~w~~~t~~~~~~~~~~--~~~iP~~--------------~~~~~~~------------~~~~l~~-~~~~~~n~n~~~~l  358 (436)
T PTZ00063        308 CWAYETGVILNKHDEM--SDQISLN--------------DYYDYYA------------PDFQLHL-QPSNIPNYNSPEHL  358 (436)
T ss_pred             HHHHHHHHHhCCcccC--CccCCCC--------------cchhhcC------------CCeEeec-CcccccCCCCHHHH
Confidence            9999999999963111  1122322              3444432            2233433 234566655    8


Q ss_pred             HHHHHHHHHHhhcccCCCCCcccCCCCcc
Q 008057          403 ETLEAVLQVALSKLKVDDGHAELGMATPW  431 (579)
Q Consensus       403 ~~~~~~~~~~l~~l~~~~s~~i~~~s~tW  431 (579)
                      +.++..|+|+|+.|+++||.|.+..+++-
T Consensus       359 ~~~~~~~~~~l~~~~~ap~v~~~~~~~~~  387 (436)
T PTZ00063        359 EKIKVKILENLRYLEHAPGVQFAYVPPDF  387 (436)
T ss_pred             HHHHHHHHHHHhcCCCCCeeccccCCccc
Confidence            99999999999999999999987765543

>COG0123 AcuC Deacetylases, including yeast histone deacetylase and acetoin utilization protein [Chromatin structure and dynamics / Secondary metabolites biosynthesis, transport, and catabolism] Back     alignment and domain information
>PTZ00346 histone deacetylase; Provisional Back     alignment and domain information
>PF00850 Hist_deacetyl: Histone deacetylase domain; InterPro: IPR023801 Regulation of transcription is, in part, modulated by reversible histone acetylation on several lysine Back     alignment and domain information
>KOG1342 consensus Histone deacetylase complex, catalytic component RPD3 [Chromatin structure and dynamics] Back     alignment and domain information
>KOG1343 consensus Histone deacetylase complex, catalytic component HDA1 [Chromatin structure and dynamics] Back     alignment and domain information
>KOG1343 consensus Histone deacetylase complex, catalytic component HDA1 [Chromatin structure and dynamics] Back     alignment and domain information
>KOG1344 consensus Predicted histone deacetylase [Chromatin structure and dynamics] Back     alignment and domain information
>PHA03014 hypothetical protein; Provisional Back     alignment and domain information
>KOG4059 consensus Uncharacterized conserved protein [Function unknown] Back     alignment and domain information
>cd06661 GGCT_like GGCT-like domains, also called AIG2-like family Back     alignment and domain information

Homologous Structure Templates

Structure Templates Detected by BLAST ?

Original result of BLAST against Protein Data Bank

ID ?Alignment Graph ?Length ? Definition ? E-value ?
Query579
3c0y_A423 Crystal Structure Of Catalytic Domain Of Human Hist 8e-75
2vqo_A413 Structure Of Hdac4 Catalytic Domain With A Gain-Of- 9e-75
2vqw_G413 Structure Of Inhibitor-Free Hdac4 Catalytic Domain 2e-74
2vqq_A413 Structure Of Hdac4 Catalytic Domain (A Double Cyste 4e-74
2vqj_A413 Structure Of Hdac4 Catalytic Domain Bound To A Trif 6e-74
1zz0_A369 Crystal Structure Of A Hdac-Like Protein With Aceta 2e-50
2vcg_A375 Crystal Structure Of A Hdac-like Protein Hdah From 2e-50
3ew8_A388 Crystal Structure Analysis Of Human Hdac8 D101l Var 6e-26
3mz4_A389 Crystal Structure Of D101l Mn2+ Hdac8 Complexed Wit 6e-26
3f06_A388 Crystal Structure Analysis Of Human Hdac8 D101a Var 8e-26
3ezp_A388 Crystal Structure Analysis Of Human Hdac8 D101n Var 1e-25
3ezt_A388 Crystal Structure Analysis Of Human Hdac8 D101e Var 1e-25
3f07_A388 Crystal Structure Analysis Of Human Hdac8 Complexed 1e-25
3sff_A378 Crystal Structure Of Human Hdac8 Inhibitor Complex, 1e-25
3mz3_A389 Crystal Structure Of Co2+ Hdac8 Complexed With M344 1e-25
1t64_A377 Crystal Structure Of Human Hdac8 Complexed With Tri 1e-25
2v5x_A388 Crystal Structure Of Hdac8-Inhibitor Complex Length 1e-25
2v5w_A388 Crystal Structure Of Hdac8-Substrate Complex Length 3e-25
3ewf_A388 Crystal Structure Analysis Of Human Hdac8 H143a Var 2e-24
3q9b_A341 Crystal Structure Of Apah Complexed With M344 Lengt 2e-23
3q9c_A341 Crystal Structure Of H159a Apah Complexed With N8-A 2e-22
3men_A362 Crystal Structure Of Acetylpolyamine Aminohydrolase 8e-22
3max_A367 Crystal Structure Of Human Hdac2 Complexed With An 3e-21
1c3r_A375 Crystal Structure Of An Hdac Homolog Complexed With 4e-20
1c3p_A375 Crystal Structure Of An Hdac Homolog From Aquifex A 9e-20
4a69_A376 Structure Of Hdac3 Bound To Corepressor And Inosito 3e-19
>pdb|3C0Y|A Chain A, Crystal Structure Of Catalytic Domain Of Human Histone Deacetylase Hdac7 Length = 423 Back     alignment and structure 
Iteration: 1

 Score =  278 bits (710), Expect = 8e-75,   Method: Compositional matrix adjust.
 Identities = 155/387 (40%), Positives = 228/387 (58%), Gaps = 32/387 (8%)
Query: 9   RTIKRRVGLLYDERMCKHNTPDGD--YHPENPNRIKAIWNKLQAAGIPQRCVVLNAKEAK 66
           RT+    GL+YD  M KH    GD   HPE+  RI++IW++LQ  G+  +C  L  ++A 
Sbjct: 34  RTLPFTTGLIYDSVMLKHQCSCGDNSRHPEHAGRIQSIWSRLQERGLRSQCECLRGRKAS 93
Query: 67  DKNLLSVHTENHVNLIKNISSKQFDSRRDRIASKL-----------------NSIYLNEG 109
            + L SVH+E HV L       +      ++A  L                 ++I+    
Sbjct: 94  LEELQSVHSERHVLLYGTNPLSRLKLDNGKLAGLLAQRMFVMLPCGGVGVDTDTIWNELH 153
Query: 110 SSEAAYLAAGSVIEVAERVAEGELNSAFAIVRPPGHHAEPDEAMGFCLYNNVAVAASFLL 169
           SS AA  AAGSV ++A +VA  EL + FA+VRPPGHHA+   AMGFC +N+VA+A   L 
Sbjct: 154 SSNAARWAAGSVTDLAFKVASRELKNGFAVVRPPGHHADHSTAMGFCFFNSVAIACRQLQ 213
Query: 170 NERPELGINKILIVDWDVHHGNSTQKMFWKDPRVLFFSVHRHEFGTFYPANDDGFYTMIG 229
            +      +KILIVDWDVHHGN TQ+ F++DP VL+ S+HRH+ G F+P +  G    +G
Sbjct: 214 QQSKA---SKILIVDWDVHHGNGTQQTFYQDPSVLYISLHRHDDGNFFPGS--GAVDEVG 268
Query: 230 EGPGLGYNINVPWENGR---CGDADYLAVWDHILLPVAKDFGPDIIIISAGFDAAAGD-- 284
            G G G+N+NV W  G     GD +YLA +  +++P+A++F PD++++SAGFDAA G   
Sbjct: 269 AGSGEGFNVNVAWAGGLDPPMGDPEYLAAFRIVVMPIAREFSPDLVLVSAGFDAAEGHPA 328
Query: 285 PLGGCRVTPYGYSVMLKKLMDFAQGKIVLALEGGYNLGSISNSVLACMNVLLEDKPVAGS 344
           PLGG  V+   +  M ++LM+ A G +VLALEGG++L +I ++  AC+  LL ++    S
Sbjct: 329 PLGGYHVSAKCFGYMTQQLMNLAGGAVVLALEGGHDLTAICDASEACVAALLGNRVDPLS 388
Query: 345 SEAY---PFESTWRVIQAVRKKLSAFW 368
            E +   P  +  R ++AV +  S +W
Sbjct: 389 EEGWKQKPNLNAIRSLEAVIRVHSKYW 415
>pdb|2VQO|A Chain A, Structure Of Hdac4 Catalytic Domain With A Gain-Of-Function Muation Bound To A Trifluoromethylketone Inhbitor Length = 413 Back     alignment and structure
>pdb|2VQW|G Chain G, Structure Of Inhibitor-Free Hdac4 Catalytic Domain (With Gain-Of-Function Mutation His332tyr) Length = 413 Back     alignment and structure
>pdb|2VQQ|A Chain A, Structure Of Hdac4 Catalytic Domain (A Double Cysteine-To- Alanine Mutant) Bound To A Trifluoromethylketone Inhbitor Length = 413 Back     alignment and structure
>pdb|2VQJ|A Chain A, Structure Of Hdac4 Catalytic Domain Bound To A Trifluoromethylketone Inhbitor Length = 413 Back     alignment and structure
>pdb|1ZZ0|A Chain A, Crystal Structure Of A Hdac-Like Protein With Acetate Bound Length = 369 Back     alignment and structure
>pdb|2VCG|A Chain A, Crystal Structure Of A Hdac-like Protein Hdah From Bordetella Sp. With The Bound Inhibitor St-17 Length = 375 Back     alignment and structure
>pdb|3EW8|A Chain A, Crystal Structure Analysis Of Human Hdac8 D101l Variant Length = 388 Back     alignment and structure
>pdb|3MZ4|A Chain A, Crystal Structure Of D101l Mn2+ Hdac8 Complexed With M344 Length = 389 Back     alignment and structure
>pdb|3F06|A Chain A, Crystal Structure Analysis Of Human Hdac8 D101a Variant. Length = 388 Back     alignment and structure
>pdb|3EZP|A Chain A, Crystal Structure Analysis Of Human Hdac8 D101n Variant Length = 388 Back     alignment and structure
>pdb|3EZT|A Chain A, Crystal Structure Analysis Of Human Hdac8 D101e Variant Length = 388 Back     alignment and structure
>pdb|3F07|A Chain A, Crystal Structure Analysis Of Human Hdac8 Complexed With Apha In A New Monoclinic Crystal Form Length = 388 Back     alignment and structure
>pdb|3SFF|A Chain A, Crystal Structure Of Human Hdac8 Inhibitor Complex, An Amino Acid Derived Inhibitor Length = 378 Back     alignment and structure
>pdb|3MZ3|A Chain A, Crystal Structure Of Co2+ Hdac8 Complexed With M344 Length = 389 Back     alignment and structure
>pdb|1T64|A Chain A, Crystal Structure Of Human Hdac8 Complexed With Trichostatin A Length = 377 Back     alignment and structure
>pdb|2V5X|A Chain A, Crystal Structure Of Hdac8-Inhibitor Complex Length = 388 Back     alignment and structure
>pdb|2V5W|A Chain A, Crystal Structure Of Hdac8-Substrate Complex Length = 388 Back     alignment and structure
>pdb|3EWF|A Chain A, Crystal Structure Analysis Of Human Hdac8 H143a Variant Complexed With Substrate. Length = 388 Back     alignment and structure
>pdb|3Q9B|A Chain A, Crystal Structure Of Apah Complexed With M344 Length = 341 Back     alignment and structure
>pdb|3Q9C|A Chain A, Crystal Structure Of H159a Apah Complexed With N8-Acetylspermidine Length = 341 Back     alignment and structure
>pdb|3MEN|A Chain A, Crystal Structure Of Acetylpolyamine Aminohydrolase From Burkholderia Pseudomallei, Iodide Soak Length = 362 Back     alignment and structure
>pdb|3MAX|A Chain A, Crystal Structure Of Human Hdac2 Complexed With An N-(2-Amin Benzamide Length = 367 Back     alignment and structure
>pdb|1C3R|A Chain A, Crystal Structure Of An Hdac Homolog Complexed With Trichostatin A Length = 375 Back     alignment and structure
>pdb|1C3P|A Chain A, Crystal Structure Of An Hdac Homolog From Aquifex Aeolicus Length = 375 Back     alignment and structure
>pdb|4A69|A Chain A, Structure Of Hdac3 Bound To Corepressor And Inositol Tetraphosphate Length = 376 Back     alignment and structure

Structure Templates Detected by RPS-BLAST ?

Original result of RPS-BLAST against PDB70 database

ID ?Alignment Graph ?Length ? Definition ? E-value ?
Query579
2pqp_A421 HD7A, histone deacetylase 7A; HDAC, structural gen 1e-162
1zz1_A369 Histone deacetylase-like amidohydrolase; HET: SHH; 1e-150
3men_A362 Acetylpolyamine aminohydrolase; histone deacetylas 1e-123
3q9b_A341 Acetylpolyamine amidohydrolase; HDAC, polyamines, 1e-119
1c3p_A375 Protein (HDLP (histone deacetylase-like protein) ) 1e-115
3max_A367 HD2, histone deacetylase 2; class 2, HDAC, foot po 1e-115
3ew8_A388 HD8, histone deacetylase 8; hydrolase, HDAC, metal 1e-114
4a69_A376 Histone deacetylase 3,; transcription, hydrolase; 1e-112
>1zz1_A Histone deacetylase-like amidohydrolase; HET: SHH; 1.57A {Alcaligenaceae bacterium} PDB: 1zz0_A* 1zz3_A* 2gh6_A* 2vcg_A* Length = 369 Back     alignment and structure
>3men_A Acetylpolyamine aminohydrolase; histone deacetylase; 2.20A {Burkholderia pseudomallei 1710B} Length = 362 Back     alignment and structure
>3q9b_A Acetylpolyamine amidohydrolase; HDAC, polyamines, arginase fold, deacetylase, hydrolase-HYDR inhibitor complex; HET: B3N; 2.25A {Mycoplana ramosa} PDB: 3q9f_A* 3q9c_A* 3q9e_A* Length = 341 Back     alignment and structure
>1c3p_A Protein (HDLP (histone deacetylase-like protein) ); alpha/beta fold, lyase; 1.80A {Aquifex aeolicus} SCOP: c.42.1.2 PDB: 1c3r_A* 1c3s_A* Length = 375 Back     alignment and structure
>3max_A HD2, histone deacetylase 2; class 2, HDAC, foot pocket, hydrolase; HET: LLX NHE; 2.05A {Homo sapiens} Length = 367 Back     alignment and structure
>3ew8_A HD8, histone deacetylase 8; hydrolase, HDAC, metalloenzyme, arginase fold, HDAC8, histon deacetylase, hydroxamate inhibitor, unliganded; HET: B3N; 1.80A {Homo sapiens} PDB: 3f06_A* 3ezp_A* 3ezt_A* 3f0r_A* 3f07_A* 2v5w_A* 2v5x_A* 3ewf_A* 3mz4_A* 3mz6_A* 3mz7_A* 3rqd_A* 3mz3_A* 1t64_A* 1t67_A* 1t69_A* 1vkg_A* 1w22_A* 3sff_A* 3sfh_A* Length = 388 Back     alignment and structure
>4a69_A Histone deacetylase 3,; transcription, hydrolase; HET: I0P; 2.06A {Homo sapiens} Length = 376 Back     alignment and structure

Structure Templates Detected by HHsearch ?

Original result of HHsearch against PDB70 database

ID ?Alignment Graph ?Length ? Definition ? Probability ?
Query579
2pqp_A421 HD7A, histone deacetylase 7A; HDAC, structural gen 100.0
2vqm_A413 HD4, histone deacetylase 4; inhibitor, repressor, 100.0
1zz1_A369 Histone deacetylase-like amidohydrolase; HET: SHH; 100.0
4a69_A376 Histone deacetylase 3,; transcription, hydrolase; 100.0
3ew8_A388 HD8, histone deacetylase 8; hydrolase, HDAC, metal 100.0
3max_A367 HD2, histone deacetylase 2; class 2, HDAC, foot po 100.0
3q9b_A341 Acetylpolyamine amidohydrolase; HDAC, polyamines, 100.0
1c3p_A375 Protein (HDLP (histone deacetylase-like protein) ) 100.0
3men_A362 Acetylpolyamine aminohydrolase; histone deacetylas 100.0
2qik_A285 UPF0131 protein YKQA; NESG, SR631, structural geno 98.33
3cry_A188 Gamma-glutamyl cyclotransferase; enzyme, oxoprolin 98.31
2g0q_A173 AT5G39720.1 protein; structural genomics, protein 86.06
>2vqm_A HD4, histone deacetylase 4; inhibitor, repressor, chromatin, coiled coil, transcription regulation, UBL conjugation, chromatin regulator; HET: HA3; 1.8A {Homo sapiens} PDB: 2vqj_A* 2vqw_G 2vqq_A* 2vqo_A* 2vqv_A* 3c10_A* 3c0z_A 3c0y_A* Back     alignment and structure
>1zz1_A Histone deacetylase-like amidohydrolase; HET: SHH; 1.57A {Alcaligenaceae bacterium} PDB: 1zz0_A* 1zz3_A* 2gh6_A* 2vcg_A* Back     alignment and structure
>4a69_A Histone deacetylase 3,; transcription, hydrolase; HET: I0P; 2.06A {Homo sapiens} Back     alignment and structure
>3ew8_A HD8, histone deacetylase 8; hydrolase, HDAC, metalloenzyme, arginase fold, HDAC8, histon deacetylase, hydroxamate inhibitor, unliganded; HET: B3N; 1.80A {Homo sapiens} SCOP: c.42.1.2 PDB: 3f06_A* 3ezp_A* 3ezt_A* 3f0r_A* 3f07_A* 2v5w_A* 2v5x_A* 3ewf_A* 3mz4_A* 3mz6_A* 3mz7_A* 3rqd_A* 3mz3_A* 1t64_A* 1t67_A* 1t69_A* 1vkg_A* 1w22_A* 3sff_A* 3sfh_A* Back     alignment and structure
>3max_A HD2, histone deacetylase 2; class 2, HDAC, foot pocket, hydrolase; HET: LLX NHE; 2.05A {Homo sapiens} Back     alignment and structure
>3q9b_A Acetylpolyamine amidohydrolase; HDAC, polyamines, arginase fold, deacetylase, hydrolase-HYDR inhibitor complex; HET: B3N; 2.25A {Mycoplana ramosa} PDB: 3q9f_A* 3q9c_A* 3q9e_A* Back     alignment and structure
>1c3p_A Protein (HDLP (histone deacetylase-like protein) ); alpha/beta fold, lyase; 1.80A {Aquifex aeolicus} SCOP: c.42.1.2 PDB: 1c3r_A* 1c3s_A* Back     alignment and structure
>3men_A Acetylpolyamine aminohydrolase; histone deacetylase; 2.20A {Burkholderia pseudomallei 1710B} Back     alignment and structure
>2qik_A UPF0131 protein YKQA; NESG, SR631, structural genomics, PSI-2, protein structure initiative, northeast structural genomics consortium; HET: CIT; 1.35A {Bacillus subtilis} Back     alignment and structure
>3cry_A Gamma-glutamyl cyclotransferase; enzyme, oxoproline; 1.70A {Homo sapiens} PDB: 2pn7_A 2rbh_A 2i5t_A* 2q53_A Back     alignment and structure
>2g0q_A AT5G39720.1 protein; structural genomics, protein structure initiative, center for eukaryotic structural genomics, CESG, unknown function; NMR {Arabidopsis thaliana} Back     alignment and structure

Homologous Structure Domains

Structure Domains Detected by RPS-BLAST ?

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

ID ?Alignment Graph ?Length ? Definition ? E-value ?
Query 579
d3c10a1386 c.42.1.2 (A:515-900) Histone deacetylase 7, HDAC7 1e-82
d1t64a_364 c.42.1.2 (A:) Histone deacetylase 8, HDAC8 {Human 6e-65
d1c3pa_372 c.42.1.2 (A:) HDAC homologue {Aquifex aeolicus [Ta 4e-59
>d3c10a1 c.42.1.2 (A:515-900) Histone deacetylase 7, HDAC7 {Human (Homo sapiens) [TaxId: 9606]} Length = 386 Back     information, alignment and structure

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

 Score =  261 bits (668), Expect = 1e-82
 Identities = 153/389 (39%), Positives = 227/389 (58%), Gaps = 32/389 (8%)

Query: 10  TIKRRVGLLYDERMCKHNTPDGD--YHPENPNRIKAIWNKLQAAGIPQRCVVLNAKEAKD 67
           T+    GL+YD  M KH    GD   HPE+  RI++IW++LQ  G+  +C  L  ++A  
Sbjct: 1   TLPFTTGLIYDSVMLKHQCSCGDNSRHPEHAGRIQSIWSRLQERGLRSQCECLRGRKASL 60

Query: 68  KNLLSVHTENHVNLIKNISSKQFDSRRDRIASKL-----------------NSIYLNEGS 110
           + L SVH+E HV L       +      ++A  L                 ++I+    S
Sbjct: 61  EELQSVHSERHVLLYGTNPLSRLKLDNGKLAGLLAQRMFVMLPCGGVGVDTDTIWNELHS 120

Query: 111 SEAAYLAAGSVIEVAERVAEGELNSAFAIVRPPGHHAEPDEAMGFCLYNNVAVAASFLLN 170
           S AA  AAGSV ++A +VA  EL + FA+VRPPGHHA+   AMGFC +N+VA+A   L  
Sbjct: 121 SNAARWAAGSVTDLAFKVASRELKNGFAVVRPPGHHADHSTAMGFCFFNSVAIACRQLQQ 180

Query: 171 ERPELGINKILIVDWDVHHGNSTQKMFWKDPRVLFFSVHRHEFGTFYPANDDGFYTMIGE 230
           +      +KILIVDWDVHHGN TQ+ F++DP VL+ S+HRH+ G F+P    G    +G 
Sbjct: 181 QSK---ASKILIVDWDVHHGNGTQQTFYQDPSVLYISLHRHDDGNFFP--GSGAVDEVGA 235

Query: 231 GPGLGYNINVPWE---NGRCGDADYLAVWDHILLPVAKDFGPDIIIISAGFDAAAGD--P 285
           G G G+N+NV W    +   GD +YLA +  +++P+A++F PD++++SAGFDAA G   P
Sbjct: 236 GSGEGFNVNVAWAGGLDPPMGDPEYLAAFRIVVMPIAREFSPDLVLVSAGFDAAEGHPAP 295

Query: 286 LGGCRVTPYGYSVMLKKLMDFAQGKIVLALEGGYNLGSISNSVLACMNVLLEDKPVAGSS 345
           LGG  V+   +  M ++LM+ A G +VLALEGG++L +I ++  AC+  LL ++    S 
Sbjct: 296 LGGYHVSAKCFGYMTQQLMNLAGGAVVLALEGGHDLTAICDASEACVAALLGNRVDPLSE 355

Query: 346 EAY---PFESTWRVIQAVRKKLSAFWPTL 371
           E +   P  +  R ++AV +  S +W  +
Sbjct: 356 EGWKQKPNLNAIRSLEAVIRVHSKYWGCM 384
>d1t64a_ c.42.1.2 (A:) Histone deacetylase 8, HDAC8 {Human (Homo sapiens) [TaxId: 9606]} Length = 364 Back     information, alignment and structure
>d1c3pa_ c.42.1.2 (A:) HDAC homologue {Aquifex aeolicus [TaxId: 63363]} Length = 372 Back     information, alignment and structure

Homologous Domains Detected by HHsearch ?

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

ID ?Alignment Graph ?Length ? Definition ? Probability ?
Query579
d3c10a1386 Histone deacetylase 7, HDAC7 {Human (Homo sapiens) 100.0
d1t64a_364 Histone deacetylase 8, HDAC8 {Human (Homo sapiens) 100.0
d1c3pa_372 HDAC homologue {Aquifex aeolicus [TaxId: 63363]} 100.0
>d3c10a1 c.42.1.2 (A:515-900) Histone deacetylase 7, HDAC7 {Human (Homo sapiens) [TaxId: 9606]} Back     information, alignment and structure
class: Alpha and beta proteins (a/b)
fold: Arginase/deacetylase
superfamily: Arginase/deacetylase
family: Histone deacetylase, HDAC
domain: Histone deacetylase 7, HDAC7
species: Human (Homo sapiens) [TaxId: 9606]

Probab=100.00  E-value=2.9e-89  Score=726.18  Aligned_cols=356  Identities=42%  Similarity=0.757  Sum_probs=317.4

Q ss_pred             CeEEEEecccccccCCCCC--CCCCCChHHHHHHHHHHHHcCCCCcceEecCCCCCHHHHhccCCHHHHHHHHHhcccch
Q 008057           13 RRVGLLYDERMCKHNTPDG--DYHPENPNRIKAIWNKLQAAGIPQRCVVLNAKEAKDKNLLSVHTENHVNLIKNISSKQF   90 (579)
Q Consensus        13 ~~~~lvyd~~~~~H~~~~~--~~HpE~P~Rl~~i~~~L~~~gl~~~~~~~~p~~a~~~eL~~VHs~~YI~~l~~~~~~~~   90 (579)
                      -+|++|||++|++|.++.+  ..|||+|+|++.|+++|++.|+...+++++|++|+.++|++|||++||+.+++......
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            4699999999999998754  45999999999999999999999999999999999999999999999999875432211


Q ss_pred             hhhhh--------h--------hccccCceeccc-ChHHHHHHHHhHHHHHHHHHHcCCCceEEEEeCCCCCCCCCCCCc
Q 008057           91 DSRRD--------R--------IASKLNSIYLNE-GSSEAAYLAAGSVIEVAERVAEGELNSAFAIVRPPGHHAEPDEAM  153 (579)
Q Consensus        91 ~~~~~--------~--------~~~~~~d~y~~~-~s~eaA~lAaG~~l~aad~V~~g~~~~afalvRPPGHHA~~~~a~  153 (579)
                      .....        .        ......++++++ +|+++|++|+|++++|++.|++|+++++||++|||||||.+++++
T Consensus        84 ~~~~~~~~~~~~~~~~~~~~~~~~~~d~dt~~~~~~s~~Aa~~aaG~~~~a~~~v~~~~~~~afa~~rppGHHA~~~~~~  163 (386)
T d3c10a1          84 KLDNGKLAGLLAQRMFVMLPCGGVGVDTDTIWNELHSSNAARWAAGSVTDLAFKVASRELKNGFAVVRPPGHHADHSTAM  163 (386)
T ss_dssp             CCCHHHHHHHHHC---CBCTTSCEESSSSCEECTTTHHHHHHHHHHHHHHHHHHHHTTSSSEEEECCSSCCTTCBTTBCB
T ss_pred             cccccccchhhhhhhhcccCCCCcccCCCcccCcchHHHHHHHHhhHHHHHHhhhhcCcccccccccccccccccccccC
Confidence            00000        0        001123566655 899999999999999999999999999999999999999999999


Q ss_pred             cccccCcHHHHHHHHHhhCCcCCcceEEEEEcccccCCccccccccCCceEEEecccCCCCCCCCCCCCCCCccccCCCC
Q 008057          154 GFCLYNNVAVAASFLLNERPELGINKILIVDWDVHHGNSTQKMFWKDPRVLFFSVHRHEFGTFYPANDDGFYTMIGEGPG  233 (579)
Q Consensus       154 GFC~fNnVAIAA~~l~~~~~~~g~~RVlIVD~DvHHGNGTq~iF~~Dp~VL~iSiH~~~~g~fyPgt~~G~~~eiG~g~G  233 (579)
                      |||+||||||||++|++++   +++||+|||||||||||||+|||+||+|+|+|||+++.+.|||+|  |+.+|+|.|.|
T Consensus       164 GFC~fNdvAiaa~~l~~~~---~~~rV~iiD~DvHhGnGTq~if~~~~~V~~~SiH~~~~~~~~p~t--G~~~e~G~g~g  238 (386)
T d3c10a1         164 GFCFFNSVAIACRQLQQQS---KASKILIVDWDVHHGNGTQQTFYQDPSVLYISLHRHDDGNFFPGS--GAVDEVGAGSG  238 (386)
T ss_dssp             TTBSSCHHHHHHHHHHHHS---TTCCEEEEECSSSCCHHHHHHHTTCTTEEEEEEEECTTTTSTTCC--CCTTCCCCGGG
T ss_pred             CcccccHHHHHHHHHHhhc---ccCCceEEecccCCCCceeeEeeccccccccccccccccccCCCC--CCHHhcCCCCC
Confidence            9999999999999999863   589999999999999999999999999999999999988999986  99999999999


Q ss_pred             CcceEeeeCCCC---CCChhHHHHHHHHHHHHHHHHhCCCEEEEecCCCCCCCC--CCCCccCChhhHHHHHHHHHhccC
Q 008057          234 LGYNINVPWENG---RCGDADYLAVWDHILLPVAKDFGPDIIIISAGFDAAAGD--PLGGCRVTPYGYSVMLKKLMDFAQ  308 (579)
Q Consensus       234 ~G~niNVPLp~g---~~gD~~Yl~af~~iv~Pil~~f~PdlIvvsaGfDa~~~D--pLG~l~lT~~gy~~l~~~l~~~a~  308 (579)
                      +|+|+|+|||.+   +++|++|+.+|+++|.|++++|+||+||||||||+|++|  |||+|+||+++|.+++++|+++|+
T Consensus       239 ~g~~~n~pl~~~l~~~~~d~~yl~~~~~~l~~~~~~f~PdlIvvsaG~D~~~~D~~pLg~l~lt~~~~~~~~~~l~~~~~  318 (386)
T d3c10a1         239 EGFNVNVAWAGGLDPPMGDPEYLAAFRIVVMPIAREFSPDLVLVSAGFDAAEGHPAPLGGYHVSAKCFGYMTQQLMNLAG  318 (386)
T ss_dssp             TTCEEEEEECSCSSSCCBHHHHHHHHHHTHHHHHHHHCCSEEEEEECCTTBTTCCGGGCCCBBCHHHHHHHHHHHTTSGG
T ss_pred             cccccccccccccCCCCChHHHHHHHHHHHHHHHHhcCCCEEEEeCCccccccCcchhhcCccCHHHHHHHHHHHHHHcC
Confidence            999999999832   388999999999999999999999999999999999999  899999999999999999999999


Q ss_pred             CcEEEEeCCCCCcchHHHHHHHHHHHHcCCCCCCCCC---CCCCChhHHHHHHHHHHHHhcccchhhc
Q 008057          309 GKIVLALEGGYNLGSISNSVLACMNVLLEDKPVAGSS---EAYPFESTWRVIQAVRKKLSAFWPTLAD  373 (579)
Q Consensus       309 grvv~vLEGGY~~~~la~~~~a~~~~Llg~~~~~~~~---~~~p~~~~~~~i~~v~~~~~~~W~~l~~  373 (579)
                      +|++++||||||++++++++.+++++|+|.+..+..+   ...|..+..+.++++++.+++||+||++
T Consensus       319 ~~vv~vleGGY~~~~l~~~~~~~~~~l~g~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~w~~~~~  386 (386)
T d3c10a1         319 GAVVLALEGGHDLTAICDASEACVAALLGNRVDPLSEEGWKQKPNLNAIRSLEAVIRVHSKYWGCMQR  386 (386)
T ss_dssp             GCEEEEECSCCCHHHHHHHHHHHHHHHHTCCCCGGGCSGGGSCCCHHHHHHHHHHHHHHTTTCGGGCC
T ss_pred             CCEEEEeCCCCChhHHHHHHHHHHHHHhCCCCCCCCccccccCCCHHHHHHHHHHHHHHHHhhHhhcC
Confidence            9999999999999999999999999999976543222   2357788899999999999999999963
>d1t64a_ c.42.1.2 (A:) Histone deacetylase 8, HDAC8 {Human (Homo sapiens) [TaxId: 9606]} Back     information, alignment and structure
>d1c3pa_ c.42.1.2 (A:) HDAC homologue {Aquifex aeolicus [TaxId: 63363]} Back     information, alignment and structure