Citrus Sinensis ID: 023062

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-------29
MADTICRTLRDGGLEGEHAPALTIKDSKASPFGFDVFNYVLTQLSNYILAGKSQSRGLVVVAYSRSPSFYVDLLKRRGIDIASSHDWIHILDCYTDPLGWKNWLIDKDISQEASSLSSFCQDVRNLDKLYSLIIEQGLIGQGKDRFSIAIDSVSEMVRHASISSVAGILSNLRSHDQVSSIFWLLHSDLHEIKFTSVLEYLSSMVASVEPFNQAAFGQRVDLENLSMLEQNFRKGKFHVRFKRRNGRVRVMCEEILVELAGIKFTPVLSEDEIINQRLLPKVSIIVLS
cHHHHHHHHHcccccccccccEEEEccccccccHHHHHHHHHHHHHHHHHccccccEEEEEEEcccHHHHHHHHHHccccccccccEEEEEEcccccccccccccccccccccccHHHHHHHHHHHHHHHHHHHHHcccccccccEEEEEccHHHHHHHccHHHHHHHHHHHHccccEEEEEEEEEcccccHHHHHHHHHHcEEEEEEEcccccccccccccHHHHHHHHHHcccEEEEEEEcccccEEEEEEEEEEEcccEEEEEcccccHHHHccccccEEEEEcc
cHHHHHHHHHccccccccccEEEEHccccccHHHHHHHHHHHHHHHHHHHHHHHcccEEEEEEcccHHHHHHHHHHccccccccccEEEEEEccccccccHHHHcccccccccccHHHHHHcHHcHHHHHHHHHHHccccccccEEEEEEccHHHHHHHccHHHHHHHHHHHcccHHHHHHHHHHcccccHHHHHHHHHHHHHHEEEEccccccccccccccHHcHHHHHcccccEEEEEEEEcccEEEEEEEEEEEEcccEEEEEEcccccEEEccccccEEEEEcc
MADTICRTlrdgglegehapaltikdskaspfgfDVFNYVLTQLSNYILAGKSQSRGLVVVAYSRSPSFYVDLLKRRgidiasshdwIHILDcytdplgwknwlidKDISQEASSLSSFCQDVRNLDKLYSLIIEQGligqgkdrfsIAIDSVSEMVRHASISSVAGILSNLRSHDQVSSIFWLLHSDLHEIKFTSVLEYLSSMVasvepfnqaafgqrvdlENLSMLEQNFRKGKFHVRFKRRNGRVRVMCEEILVELAgikftpvlsedeiinqrllpkVSIIVLS
madticrtlrdgglegehapaltikdskaspFGFDVFNYVLTQLSNYILAGKSQSRGLVVVAYSRSPSFYVDLLKRRGIDIASSHDWIHILDCYTDPLGWKNWLIDKDISQEASSLSSFCQDVRNLDKLYSLIIEQgligqgkdrFSIAIDSVSEMVRHASISSVAGILSNLRSHDQVSSIFWLLHSDLHEIKFTSVLEYLSSMVASVEPFNQAAFGQRVDLENLSMLEQnfrkgkfhvrfkrrngrvrVMCEEILVElagikftpvlsedeiinqrllpkvsiivls
MADTICRTLRDGGLEGEHAPALTIKDSKASPFGFDVFNYVLTQLSNYILAGKSQSRGLVVVAYSRSPSFYVDLLKRRGIDIASSHDWIHILDCYTDPLGWKNWLIDKDISQEASSLSSFCQDVRNLDKLYSLIIEQGLIGQGKDRFSIAIDSVSEMVRHASISSVAGILSNLRSHDQVSSIFWLLHSDLHEIKFTSVLEYLSSMVASVEPFNQAAFGQRVDLENLSMLEQNFRKGKFHVRFKRRNGRVRVMCEEILVELAGIKFTPVLSEDEIINQRLLPKVSIIVLS
**********************TI***KASPFGFDVFNYVLTQLSNYILAGKSQSRGLVVVAYSRSPSFYVDLLKRRGIDIASSHDWIHILDCYTDPLGWKNWLIDKDISQEASSLSSFCQDVRNLDKLYSLIIEQGLIGQGKDRFSIAIDSVSEMVRHASISSVAGILSNLRSHDQVSSIFWLLHSDLHEIKFTSVLEYLSSMVASVEPFNQAAFGQRVDLENLSMLEQNFRKGKFHVRFKRRNGRVRVMCEEILVELAGIKFTPVLSEDEIINQRLLPKVSIIV**
***TICRTLRDGGLEGEHAPALTIKDSKASPFGFDVFNYVLTQLSNYILA*KSQSRGLVVVAYSRSPSFYVDLLKRRGIDIASSHDWIHILDCYTDPLGWK*****************FCQDVRNLDKLYSL********QGKDRFSIAIDSVSEMVRHASISSVAGILSNLRSHDQVSSIFWLLHSDLHEIKFTSVLEYLSSMVASVE*****************MLEQNFRKG***********RVRVMCEEILVELAGIKFTPVLSEDEIINQRLLPKVSIIVLS
MADTICRTLRDGGLEGEHAPALTIKDSKASPFGFDVFNYVLTQLSNYILAGKSQSRGLVVVAYSRSPSFYVDLLKRRGIDIASSHDWIHILDCYTDPLGWKNWLIDKDISQEASSLSSFCQDVRNLDKLYSLIIEQGLIGQGKDRFSIAIDSVSEMVRHASISSVAGILSNLRSHDQVSSIFWLLHSDLHEIKFTSVLEYLSSMVASVEPFNQAAFGQRVDLENLSMLEQNFRKGKFHVRFKRRNGRVRVMCEEILVELAGIKFTPVLSEDEIINQRLLPKVSIIVLS
*****CRTLRDGGLEGEHAPALTIKDSKASPFGFDVFNYVLTQLSNYILAGKSQSRGLVVVAYSRSPSFYVDLLKRRGIDIASSHDWIHILDCYTDPLGWKNWLIDK*I**EASSLSSFCQDVRNLDKLYSLIIEQGLIGQGKDRFSIAIDSVSEMVRHASISSVAGILSNLRSHDQVSSIFWLLHSDLHEIKFTSVLEYLSSMVASVEPFNQAAFGQRVDLENLSMLEQNFRKGKFHVRFKRRNGRVRVMCEEILVELAGIKFTPVLSEDEIINQRLLPKVSIIVLS
oooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
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oooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooohhhhhhhhhhhhhhhhhhhhhhhhhiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiii
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oooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
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MADTICRTLRDGGLEGEHAPALTIKDSKASPFGFDVFNYVLTQLSNYILAGKSQSRGLVVVAYSRSPSFYVDLLKRRGIDIASSHDWIHILDCYTDPLGWKNWLIDKDISQEASSLSSFCQDVRNLDKLYSLIIEQGLIGQGKDRFSIAIDSVSEMVRHASISSVAGILSNLRSHDQVSSIFWLLHSDLHEIKFTSVLEYLSSMVASVEPFNQAAFGQRVDLENLSMLEQNFRKGKFHVRFKRRNGRVRVMCEEILVELAGIKFTPVLSEDEIINQRLLPKVSIIVLS
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 ?
Query288 2.2.26 [Sep-21-2011]
F4IQJ2374 Elongator complex protein no no 0.965 0.743 0.548 3e-82
A1A5V9296 Elongator complex protein yes no 0.371 0.361 0.301 0.0005
>sp|F4IQJ2|ELP5_ARATH Elongator complex protein 5 OS=Arabidopsis thaliana GN=ELP5 PE=1 SV=1 Back     alignment and function desciption
 Score =  305 bits (780), Expect = 3e-82,   Method: Compositional matrix adjust.
 Identities = 158/288 (54%), Positives = 213/288 (73%), Gaps = 10/288 (3%)

Query: 1   MADTICRTLRDGGLEGEHAPALTIKDSKASPFGFDVFNYVLTQLSNYILAGKSQSRGLVV 60
           MA++I R LRDGG EGE APALTI+++ ASPFG DV  Y+LT LS+ ILAGKS S+GLV+
Sbjct: 1   MAESIFRKLRDGGEEGELAPALTIEETVASPFGLDVSGYLLTNLSSSILAGKSSSQGLVL 60

Query: 61  VAYSRSPSFYVDLLKRRGIDIASSHDWIHILDCYTDPLGWKNWLIDKDISQEASS--LSS 118
           + +SRSPSFY+ LLK++GI ++SS  WI ILDCYTDPLGW    ID+  +  +    L  
Sbjct: 61  ITFSRSPSFYLQLLKQKGIVVSSSSKWIRILDCYTDPLGW----IDQSSTSFSEGSSLIK 116

Query: 119 FCQDVRNLDKLYSLIIEQG--LIGQGKDRFSIAIDSVSEMVRHASISSVAGILSNLRSHD 176
             + V +L KL+S IIE G  L+G GK RF +AIDSV+E++RH+++  V+G+L++LRSH 
Sbjct: 117 LHKCVSDLKKLFSSIIEAGRELVGTGKTRFCVAIDSVNELLRHSAMPLVSGLLTDLRSHA 176

Query: 177 QVSSIFWLLHSDLHEIKFTSVLEYLSSMVASVEPFNQAAFGQRVDLENLSMLEQNFRKGK 236
           Q+SS+FW L++DLH+ K T+ LEY+S+M A++EP   ++ GQR  LENL  + Q+F KG+
Sbjct: 177 QISSVFWSLNTDLHQEKVTNALEYISTMKANLEPLCPSSDGQRNALENLFSVHQDFGKGR 236

Query: 237 FHVRFKRRNGRVRVMCEEILVELAGIKFTPVLSEDEII--NQRLLPKV 282
           FHVRFK R GRVRVM EE  V+ +GI F+P+ S D +I   + LLPKV
Sbjct: 237 FHVRFKLRKGRVRVMSEEYHVDQSGINFSPISSVDTVIAATKSLLPKV 284
Acts as subunit of the RNA polymerase II elongator complex, which is a histone acetyltransferase component of the RNA polymerase II (Pol II) holoenzyme and is involved in transcriptional elongation. Elongator may play a role in chromatin remodeling and is involved in acetylation of histones H3 and probably H4.
Arabidopsis thaliana (taxid: 3702)
>sp|A1A5V9|ELP5_DANRE Elongator complex protein 5 OS=Danio rerio GN=elp5 PE=2 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 ?
Query288
255559196376 conserved hypothetical protein [Ricinus 0.979 0.75 0.694 1e-115
118485334379 unknown [Populus trichocarpa] 0.979 0.744 0.678 1e-109
224077180386 predicted protein [Populus trichocarpa] 0.979 0.730 0.662 1e-107
225452057376 PREDICTED: uncharacterized protein LOC10 0.975 0.747 0.671 1e-104
363814366372 uncharacterized protein LOC100792556 [Gl 0.975 0.755 0.607 7e-93
356500866373 PREDICTED: dermal papilla-derived protei 0.975 0.753 0.612 7e-92
449455826375 PREDICTED: elongator complex protein 5-l 0.975 0.749 0.569 7e-91
297832500378 hypothetical protein ARALYDRAFT_319792 [ 0.979 0.746 0.551 2e-82
147841345368 hypothetical protein VITISV_011366 [Viti 0.868 0.679 0.554 2e-81
79322467306 uncharacterized protein [Arabidopsis tha 0.982 0.924 0.542 2e-80
>gi|255559196|ref|XP_002520619.1| conserved hypothetical protein [Ricinus communis] gi|223540180|gb|EEF41755.1| conserved hypothetical protein [Ricinus communis] Back     alignment and taxonomy information
 Score =  422 bits (1084), Expect = e-115,   Method: Compositional matrix adjust.
 Identities = 200/288 (69%), Positives = 248/288 (86%), Gaps = 6/288 (2%)

Query: 1   MADTICRTLRDGGLEGEHAPALTIKDSKASPFGFDVFNYVLTQLSNYILAGKSQSRGLVV 60
           MA++ICRTLRDG LEGEHAPALTIKD+ ASPFGFD+F +VL++LS++ILA KSQ +G+VV
Sbjct: 1   MAESICRTLRDGALEGEHAPALTIKDTSASPFGFDMFAHVLSRLSSFILAQKSQFQGIVV 60

Query: 61  VAYSRSPSFYVDLLKRRGIDIASSHDWIHILDCYTDPLGWKNWLIDK----DISQEASSL 116
           +AY+RSPSFYVDLLKRR ID+ASSH WI+ILDCYTDPLGWK+ L++     DIS EASS+
Sbjct: 61  LAYTRSPSFYVDLLKRRKIDVASSHKWIYILDCYTDPLGWKDKLVEPGSRMDISHEASSV 120

Query: 117 SSFCQDVRNLDKLYSLIIE--QGLIGQGKDRFSIAIDSVSEMVRHASISSVAGILSNLRS 174
           +  C+DV++LD LY+LI+E  +GL+GQGK RFS+AIDSV+EM+R AS+S VAG+LSNLRS
Sbjct: 121 AHLCKDVKDLDSLYTLILELGKGLVGQGKARFSVAIDSVNEMLRDASMSKVAGLLSNLRS 180

Query: 175 HDQVSSIFWLLHSDLHEIKFTSVLEYLSSMVASVEPFNQAAFGQRVDLENLSMLEQNFRK 234
           HDQ+SSI+WLLHSDLHE++ TS+LEY+SSMVAS+EP N++  GQR +LENLS L+QNF K
Sbjct: 181 HDQISSIYWLLHSDLHEVRVTSMLEYMSSMVASIEPLNRSGNGQRWNLENLSQLQQNFGK 240

Query: 235 GKFHVRFKRRNGRVRVMCEEILVELAGIKFTPVLSEDEIINQRLLPKV 282
           GK +VRFKRRNGRV VMCEE  +E +G+ FT + SED IINQ L PKV
Sbjct: 241 GKLNVRFKRRNGRVSVMCEEFEIEQSGMNFTSISSEDAIINQGLCPKV 288

Source: Ricinus communis

Species: Ricinus communis

Genus: Ricinus

Family: Euphorbiaceae

Order: Malpighiales

Class:

Phylum: Streptophyta

Superkingdom: Eukaryota
>gi|118485334|gb|ABK94526.1| unknown [Populus trichocarpa] Back     alignment and taxonomy information
>gi|224077180|ref|XP_002305167.1| predicted protein [Populus trichocarpa] gi|222848131|gb|EEE85678.1| predicted protein [Populus trichocarpa] Back     alignment and taxonomy information
>gi|225452057|ref|XP_002283938.1| PREDICTED: uncharacterized protein LOC100258368 [Vitis vinifera] gi|296087267|emb|CBI33641.3| unnamed protein product [Vitis vinifera] Back     alignment and taxonomy information
>gi|363814366|ref|NP_001242822.1| uncharacterized protein LOC100792556 [Glycine max] gi|255635746|gb|ACU18222.1| unknown [Glycine max] Back     alignment and taxonomy information
>gi|356500866|ref|XP_003519251.1| PREDICTED: dermal papilla-derived protein 6 homolog [Glycine max] Back     alignment and taxonomy information
>gi|449455826|ref|XP_004145651.1| PREDICTED: elongator complex protein 5-like [Cucumis sativus] Back     alignment and taxonomy information
>gi|297832500|ref|XP_002884132.1| hypothetical protein ARALYDRAFT_319792 [Arabidopsis lyrata subsp. lyrata] gi|297329972|gb|EFH60391.1| hypothetical protein ARALYDRAFT_319792 [Arabidopsis lyrata subsp. lyrata] Back     alignment and taxonomy information
>gi|147841345|emb|CAN60180.1| hypothetical protein VITISV_011366 [Vitis vinifera] Back     alignment and taxonomy information
>gi|79322467|ref|NP_001031371.1| uncharacterized protein [Arabidopsis thaliana] gi|330251673|gb|AEC06767.1| uncharacterized protein [Arabidopsis thaliana] Back     alignment and taxonomy information

Prediction of Gene Ontology (GO) Terms

Close Homologs with Gene Ontology terms Detected by BLAST ?

Original result of BLAST against Gene Ontology (AMIGO)

ID ? Alignment graph ? Length ? Definition ? Q cover ? H cover ? Identity ? E-value ?
Query288
TAIR|locus:2062190374 AT2G18410 "AT2G18410" [Arabido 0.965 0.743 0.559 4.3e-77
TAIR|locus:2062190 AT2G18410 "AT2G18410" [Arabidopsis thaliana (taxid:3702)] Back     alignment and assigned GO terms
 Score = 776 (278.2 bits), Expect = 4.3e-77, P = 4.3e-77
 Identities = 161/288 (55%), Positives = 215/288 (74%)

Query:     1 MADTICRTLRDGGLEGEHAPALTIKDSKASPFGFDVFNYVLTQLSNYILAGKSQSRGLVV 60
             MA++I R LRDGG EGE APALTI+++ ASPFG DV  Y+LT LS+ ILAGKS S+GLV+
Sbjct:     1 MAESIFRKLRDGGEEGELAPALTIEETVASPFGLDVSGYLLTNLSSSILAGKSSSQGLVL 60

Query:    61 VAYSRSPSFYVDLLKRRGIDIASSHDWIHILDCYTDPLGWKNWLIDKDISQ--EASSLSS 118
             + +SRSPSFY+ LLK++GI ++SS  WI ILDCYTDPLGW    ID+  +   E SSL  
Sbjct:    61 ITFSRSPSFYLQLLKQKGIVVSSSSKWIRILDCYTDPLGW----IDQSSTSFSEGSSLIK 116

Query:   119 FCQDVRNLDKLYSLIIEQG--LIGQGKDRFSIAIDSVSEMVRHASISSVAGILSNLRSHD 176
               + V +L KL+S IIE G  L+G GK RF +AIDSV+E++RH+++  V+G+L++LRSH 
Sbjct:   117 LHKCVSDLKKLFSSIIEAGRELVGTGKTRFCVAIDSVNELLRHSAMPLVSGLLTDLRSHA 176

Query:   177 QVSSIFWLLHSDLHEIKFTSVLEYLSSMVASVEPFNQAAFGQRVDLENLSMLEQNFRKGK 236
             Q+SS+FW L++DLH+ K T+ LEY+S+M A++EP   ++ GQR  LENL  + Q+F KG+
Sbjct:   177 QISSVFWSLNTDLHQEKVTNALEYISTMKANLEPLCPSSDGQRNALENLFSVHQDFGKGR 236

Query:   237 FHVRFKRRNGRVRVMCEEILVELAGIKFTPVLSEDEII--NQRLLPKV 282
             FHVRFK R GRVRVM EE  V+ +GI F+P+ S D +I   + LLPKV
Sbjct:   237 FHVRFKLRKGRVRVMSEEYHVDQSGINFSPISSVDTVIAATKSLLPKV 284


Parameters:
  V=100
  filter=SEG
  E=0.001

  ctxfactor=1.00

  Query                        -----  As Used  -----    -----  Computed  ----
  Frame  MatID Matrix name     Lambda    K       H      Lambda    K       H
   +0      0   BLOSUM62        0.322   0.137   0.396    same    same    same
               Q=9,R=2         0.244   0.0300  0.180     n/a     n/a     n/a

  Query
  Frame  MatID  Length  Eff.Length     E     S W   T  X   E2     S2
   +0      0      288       288   0.00087  115 3  11 22  0.48    33
                                                     33  0.43    37


Statistics:

  Database:  /share/blast/go-seqdb.fasta
   Title:  go_20130330-seqdb.fasta
   Posted:  5:47:42 AM PDT Apr 1, 2013
   Created:  5:47:42 AM PDT Apr 1, 2013
   Format:  XDF-1
   # of letters in database:  169,044,731
   # of sequences in database:  368,745
   # of database sequences satisfying E:  1
  No. of states in DFA:  605 (64 KB)
  Total size of DFA:  203 KB (2114 KB)
  Time to generate neighborhood:  0.00u 0.00s 0.00t   Elapsed:  00:00:00
  No. of threads or processors used:  24
  Search cpu time:  24.63u 0.09s 24.72t   Elapsed:  00:00:02
  Total cpu time:  24.63u 0.09s 24.72t   Elapsed:  00:00:02
  Start:  Sat May 11 09:07:58 2013   End:  Sat May 11 09:08:00 2013
GO:0003674 "molecular_function" evidence=ND
GO:0005634 "nucleus" evidence=ISM
GO:0008150 "biological_process" evidence=ND
GO:0006626 "protein targeting to mitochondrion" evidence=RCA

Prediction of Enzyme Commission (EC) Number

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

Original result of BLAST against SWISS-PROT

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

EC Number Prediction by Ezypred Server ?

Original result from Ezypred Server

Fail to connect to Ezypred Server

EC Number Prediction by EFICAz Software ?

No EC number assignment, probably not an enzyme!

Prediction of Functionally Associated Proteins

Functionally Associated Proteins Detected by STRING ?

Original result from the STRING server

Your Input:
estExt_Genewise1_v1.C_LG_IV3252
SubName- Full=Putative uncharacterized protein; (386 aa)
(Populus trichocarpa)
Predicted Functional Partners:
 
Sorry, there are no predicted associations at the current settings.
 

Conserved Domains and Related Protein Families

Conserved Domains Detected by RPS-BLAST ?

Original result of RPS-BLAST against CDD database part I

Conserved Domains Detected by HHsearch ?

Original result of HHsearch against CDD database

ID ?Alignment Graph ?Length ? Definition ? Probability ?
Query 288
PF10483280 Elong_Iki1: Elongator subunit Iki1; InterPro: IPR0 99.95
PF09807249 DUF2348: Uncharacterized conserved protein (DUF234 99.32
PF06745226 KaiC: KaiC; InterPro: IPR014774 This entry represe 99.06
TIGR03877237 thermo_KaiC_1 KaiC domain protein, Ph0284 family. 98.83
PRK06067234 flagellar accessory protein FlaH; Validated 98.78
PRK04328249 hypothetical protein; Provisional 98.56
COG2874235 FlaH Predicted ATPases involved in biogenesis of a 98.38
PRK09302509 circadian clock protein KaiC; Reviewed 98.2
PRK09302 509 circadian clock protein KaiC; Reviewed 98.08
TIGR02655484 circ_KaiC circadian clock protein KaiC. Members of 98.0
PRK08533230 flagellar accessory protein FlaH; Reviewed 97.99
TIGR03881229 KaiC_arch_4 KaiC domain protein, PAE1156 family. M 97.96
TIGR02655 484 circ_KaiC circadian clock protein KaiC. Members of 97.79
TIGR03878259 thermo_KaiC_2 KaiC domain protein, AF_0795 family. 97.78
TIGR03880224 KaiC_arch_3 KaiC domain protein, AF_0351 family. T 97.77
COG0467260 RAD55 RecA-superfamily ATPases implicated in signa 97.55
cd01124187 KaiC KaiC is a circadian clock protein primarily f 97.41
cd01121372 Sms Sms (bacterial radA) DNA repair protein. This 97.08
TIGR02237209 recomb_radB DNA repair and recombination protein R 97.01
PRK11823 446 DNA repair protein RadA; Provisional 97.01
cd01122271 GP4d_helicase GP4d_helicase is a homohexameric 5'- 96.48
PRK09361225 radB DNA repair and recombination protein RadB; Pr 96.47
cd01123235 Rad51_DMC1_radA Rad51_DMC1_radA,B. This group of r 96.4
cd01394218 radB RadB. The archaeal protein radB shares simila 96.37
TIGR00416 454 sms DNA repair protein RadA. The gene protuct code 96.16
TIGR02238313 recomb_DMC1 meiotic recombinase Dmc1. This model d 96.0
KOG4723248 consensus Uncharacterized conserved protein [Funct 95.83
PRK04301317 radA DNA repair and recombination protein RadA; Va 95.66
PTZ00035337 Rad51 protein; Provisional 95.47
PLN03186342 DNA repair protein RAD51 homolog; Provisional 95.46
PLN03187344 meiotic recombination protein DMC1 homolog; Provis 95.31
TIGR02239316 recomb_RAD51 DNA repair protein RAD51. This eukary 95.13
cd01393226 recA_like RecA is a bacterial enzyme which has rol 95.06
cd00984242 DnaB_C DnaB helicase C terminal domain. The hexame 94.94
TIGR02236310 recomb_radA DNA repair and recombination protein R 94.88
PRK05973237 replicative DNA helicase; Provisional 94.31
PF05625363 PAXNEB: PAXNEB protein; InterPro: IPR008728 The RN 94.19
PF08423256 Rad51: Rad51; InterPro: IPR013632 This domain is f 93.36
cd01120165 RecA-like_NTPases RecA-like NTPases. This family i 93.32
cd01125239 repA Hexameric Replicative Helicase RepA. RepA is 92.79
PF07088 484 GvpD: GvpD gas vesicle protein; InterPro: IPR00978 91.55
TIGR00665434 DnaB replicative DNA helicase. This model describe 90.02
PF05763136 DUF835: Protein of unknown function (DUF835); Inte 90.01
PHA02542473 41 41 helicase; Provisional 84.17
PF03192210 DUF257: Pyrococcus protein of unknown function, DU 81.76
>PF10483 Elong_Iki1: Elongator subunit Iki1; InterPro: IPR019519 Histone acetylation protein (Hap) 2 (also known as Elongator complex protein 5) is one of three histone acetyltransferases proteins that, in yeasts, are found associated with elongating forms of RNA polymerase II (Elongator) Back     alignment and domain information 
Probab=99.95  E-value=3.6e-27  Score=220.02  Aligned_cols=214  Identities=21%  Similarity=0.254  Sum_probs=116.5

Q ss_pred             CCCCeeEeecCCCCCchhhHHHHHHHHHHHHHHhhccccCcEEEEEecCChHHHHHHHHhcCCCcCCCCCeEEEEecccC
Q 023062           17 EHAPALTIKDSKASPFGFDVFNYVLTQLSNYILAGKSQSRGLVVVAYSRSPSFYVDLLKRRGIDIASSHDWIHILDCYTD   96 (288)
Q Consensus        17 e~ap~l~i~dsl~~~~g~~~~~h~~~~l~s~i~a~~~q~~~V~vlafe~spe~y~~~lk~~G~d~~~~~~~v~i~D~fsD   96 (288)
                      |..|+++|.||++.|+. .++++++       ...+.++..||+|+||.+++  .+     |+|..        ++|-  
T Consensus        10 d~spl~Li~DSl~q~a~-~Ll~e~i-------~~a~~~~~~V~~lsfEt~~~--~~-----~~d~~--------~~~~--   64 (280)
T PF10483_consen   10 DASPLTLILDSLEQSAR-PLLKEFI-------RRAKSRNEKVHFLSFETLNK--PE-----YADSF--------INAR--   64 (280)
T ss_dssp             S--SEEEEEEBTTB-SH-HHHHHHH-------HHHTS----EEEEESS--S----T-----T-SEE--------EETT--
T ss_pred             CCCCeEEEEEcccccCH-HHHHHHH-------HHHHcCCCeEEEEEeEeCCC--cc-----cCCee--------cccc--
Confidence            37899999999999954 6666663       34467788999999999876  33     55532        2222  


Q ss_pred             CCCCcccccCccccccccccccccccccchhhHHHHHHHhh--cccCCCCcEEEEEechhHHHhhCChHHHHHHHHhhhc
Q 023062           97 PLGWKNWLIDKDISQEASSLSSFCQDVRNLDKLYSLIIEQG--LIGQGKDRFSIAIDSVSEMVRHASISSVAGILSNLRS  174 (288)
Q Consensus        97 PlgW~~~~~~~~~~~~~s~~~~~~~~v~~L~sl~~~i~~~~--~~~~~~~~~~VvIDSLs~LL~~~s~~~l~~~L~~L~~  174 (288)
                        +|+                        +.+++..|...-  ...+.+++++|+|||||||+.+.++ .+++||++|+.
T Consensus        65 --~~~------------------------~~~i~~~i~s~~~~~~~~~~~~~lVvIDSLn~ll~~~~~-~l~~fLssl~~  117 (280)
T PF10483_consen   65 --GKS------------------------LQDIVKEIKSHLPSSSSSPTKKFLVVIDSLNYLLNHHPC-QLSQFLSSLLS  117 (280)
T ss_dssp             --SS-------------------------HHHHHHHHHHTS--SS-SS---EEEEES-GGGS-GG----GHHHHHHHH--
T ss_pred             --CCC------------------------HHHHHHHHHhhcccccccCCCCeEEEEEcchHHHHHHHH-HHHHHHHhccc
Confidence              332                        122222223321  3355667899999999999999999 99999999998


Q ss_pred             CCceeEEEEEeeCcc-------CCcchHhHHhhhceeEEEEeecCccccccccchhhhhhh------hhcccceeEEEEE
Q 023062          175 HDQVSSIFWLLHSDL-------HEIKFTSVLEYLSSMVASVEPFNQAAFGQRVDLENLSML------EQNFRKGKFHVRF  241 (288)
Q Consensus       175 ~~~v~SVv~llH~DL-------h~p~~l~aL~~LAttvitv~p~~~~~~~~~~~~~~~~~~------~~n~~~~~~~Vr~  241 (288)
                      ++. ++|||+||+|+       |+|+++++|+|||||+++|+|..+.....++.-+++.-.      +.|..+..+++++
T Consensus       118 ~p~-~svv~~~H~Dl~~~~~~~~~P~~l~lL~~LATtii~v~~~~~~~~~~~~~~~~l~~~~~g~~~~~~~~~~~~~l~~  196 (280)
T PF10483_consen  118 SPQ-SSVVGLYHTDLLPPSQNPYYPSPLSLLSYLATTIITVEPLSHISADKEALDRSLSKPEFGLGEGLNGVGFVLELEN  196 (280)
T ss_dssp             -TT-EEEEEEEETTS---TTB-TS--HHHHHHHH-SEEEEEEE---SS--HHHHHHHHHTT---SS---S-SEEEEEEEE
T ss_pred             CCC-cEEEEEEccCcCcccccccCcCHHHHHHHhceEEEEEcccCccchhHHHHHhhhhhcccChhhhccCceEEEEEEE
Confidence            777 78999999999       999999999999999999999988765555554544433      2566689999999


Q ss_pred             ecCCCCeeeeEeEEEEEcCceEEEeCCC------cchhhhccCCcceEEE
Q 023062          242 KRRNGRVRVMCEEILVELAGIKFTPVLS------EDEIINQRLLPKVSII  285 (288)
Q Consensus       242 kRr~GRV~~~~E~f~i~~~~~~f~~~~~------~~~~~~~~~~~~v~~~  285 (288)
                      |||+||+..  |||.|..++..+..+..      ...+...++.|+++|-
T Consensus       197 RrksGR~~~--e~~~~~~~~~~~~~~~~~~e~~~~~~~~p~~~~~~~TFN  244 (280)
T PF10483_consen  197 RRKSGRVVS--EWFVIDINSHIYEQVSEKKEVEEEPEEDPESLQPNLTFN  244 (280)
T ss_dssp             E-TTS-EEE--EEEEEETTTTEEEE-------------------------
T ss_pred             EcCCCCcEe--EEEEEecCCCcceeecccccccCCCCCCcccccccceEe
Confidence            999999766  46666666655544443      2234667888888884

The Haps can be isolated in two forms, as a six-subunit complex with Elongator, and as a complex of the three proteins on their own. The role of the Hap complex in transcription is still speculative, being possibly to keep the histone acetylation activity of free Elongator in check, allowing histone acetylation only in the presence of a transcribing polymerase, or the interaction with Haps might render Elongator susceptible to modifications thereby altering its activity []. This protein family also contains Dermal papilla-derived protein 6, which also belong to the ELP5 family. ; PDB: 4A8J_B 4EJS_B.
>PF09807 DUF2348: Uncharacterized conserved protein (DUF2348); InterPro: IPR018627 Members of this family of putative uncharacterised proteins have no known function Back     alignment and domain information
>PF06745 KaiC: KaiC; InterPro: IPR014774 This entry represents a domain within bacterial and archaeal proteins, most of which are hypothetical Back     alignment and domain information
>TIGR03877 thermo_KaiC_1 KaiC domain protein, Ph0284 family Back     alignment and domain information
>PRK06067 flagellar accessory protein FlaH; Validated Back     alignment and domain information
>PRK04328 hypothetical protein; Provisional Back     alignment and domain information
>COG2874 FlaH Predicted ATPases involved in biogenesis of archaeal flagella [Cell motility and secretion / Intracellular trafficking and secretion] Back     alignment and domain information
>PRK09302 circadian clock protein KaiC; Reviewed Back     alignment and domain information
>PRK09302 circadian clock protein KaiC; Reviewed Back     alignment and domain information
>TIGR02655 circ_KaiC circadian clock protein KaiC Back     alignment and domain information
>PRK08533 flagellar accessory protein FlaH; Reviewed Back     alignment and domain information
>TIGR03881 KaiC_arch_4 KaiC domain protein, PAE1156 family Back     alignment and domain information
>TIGR02655 circ_KaiC circadian clock protein KaiC Back     alignment and domain information
>TIGR03878 thermo_KaiC_2 KaiC domain protein, AF_0795 family Back     alignment and domain information
>TIGR03880 KaiC_arch_3 KaiC domain protein, AF_0351 family Back     alignment and domain information
>COG0467 RAD55 RecA-superfamily ATPases implicated in signal transduction [Signal transduction mechanisms] Back     alignment and domain information
>cd01124 KaiC KaiC is a circadian clock protein primarily found in cyanobacteria KaiC is a RecA-like ATPase, having both Walker A and Walker B motifs Back     alignment and domain information
>cd01121 Sms Sms (bacterial radA) DNA repair protein Back     alignment and domain information
>TIGR02237 recomb_radB DNA repair and recombination protein RadB Back     alignment and domain information
>PRK11823 DNA repair protein RadA; Provisional Back     alignment and domain information
>cd01122 GP4d_helicase GP4d_helicase is a homohexameric 5'-3' helicases Back     alignment and domain information
>PRK09361 radB DNA repair and recombination protein RadB; Provisional Back     alignment and domain information
>cd01123 Rad51_DMC1_radA Rad51_DMC1_radA,B Back     alignment and domain information
>cd01394 radB RadB Back     alignment and domain information
>TIGR00416 sms DNA repair protein RadA Back     alignment and domain information
>TIGR02238 recomb_DMC1 meiotic recombinase Dmc1 Back     alignment and domain information
>KOG4723 consensus Uncharacterized conserved protein [Function unknown] Back     alignment and domain information
>PRK04301 radA DNA repair and recombination protein RadA; Validated Back     alignment and domain information
>PTZ00035 Rad51 protein; Provisional Back     alignment and domain information
>PLN03186 DNA repair protein RAD51 homolog; Provisional Back     alignment and domain information
>PLN03187 meiotic recombination protein DMC1 homolog; Provisional Back     alignment and domain information
>TIGR02239 recomb_RAD51 DNA repair protein RAD51 Back     alignment and domain information
>cd01393 recA_like RecA is a bacterial enzyme which has roles in homologous recombination, DNA repair, and the induction of the SOS response Back     alignment and domain information
>cd00984 DnaB_C DnaB helicase C terminal domain Back     alignment and domain information
>TIGR02236 recomb_radA DNA repair and recombination protein RadA Back     alignment and domain information
>PRK05973 replicative DNA helicase; Provisional Back     alignment and domain information
>PF05625 PAXNEB: PAXNEB protein; InterPro: IPR008728 The RNA polymerase II elongator complex is a major histone acetyltransferase component of the RNA polymerase II (RNAPII) holoenzyme and is involved in transcriptional elongation [, ] Back     alignment and domain information
>PF08423 Rad51: Rad51; InterPro: IPR013632 This domain is found at the C terminus of the DNA repair and recombination protein Rad51 Back     alignment and domain information
>cd01120 RecA-like_NTPases RecA-like NTPases Back     alignment and domain information
>cd01125 repA Hexameric Replicative Helicase RepA Back     alignment and domain information
>PF07088 GvpD: GvpD gas vesicle protein; InterPro: IPR009788 This family consists of several archaeal GvpD gas vesicle proteins Back     alignment and domain information
>TIGR00665 DnaB replicative DNA helicase Back     alignment and domain information
>PF05763 DUF835: Protein of unknown function (DUF835); InterPro: IPR008553 The members of this archaebacterial protein entry are around 250-300 amino acid residues in length Back     alignment and domain information
>PHA02542 41 41 helicase; Provisional Back     alignment and domain information
>PF03192 DUF257: Pyrococcus protein of unknown function, DUF257; InterPro: IPR005489 This family of proteins is of unknown function Back     alignment and domain information

Homologous Structure Templates

Structure Templates Detected by BLAST ?

Original result of BLAST against Protein Data Bank

No homologous structure with e-value below 0.005

Structure Templates Detected by RPS-BLAST ?

Original result of RPS-BLAST against PDB70 database

No hit with e-value below 0.005

Structure Templates Detected by HHsearch ?

Original result of HHsearch against PDB70 database

ID ?Alignment Graph ?Length ? Definition ? Probability ?
Query288
4a8j_B270 Elongator complex protein 5; transcription; 2.10A 99.51
4a8j_C280 Elongator complex protein 6; transcription; 2.10A 98.53
3bs4_A260 Uncharacterized protein PH0321; structural genomic 98.47
2zts_A251 Putative uncharacterized protein PH0186; KAIC like 98.06
2dr3_A247 UPF0273 protein PH0284; RECA superfamily ATPase, h 97.77
2w0m_A235 SSO2452; RECA, SSPF, unknown FUN; 2.0A {Sulfolobus 97.31
2cvh_A220 DNA repair and recombination protein RADB; filamen 97.16
2i1q_A322 DNA repair and recombination protein RADA; ATPase, 97.15
2z43_A324 DNA repair and recombination protein RADA; archaea 96.75
1q57_A503 DNA primase/helicase; dntpase, DNA replication, tr 96.36
1v5w_A343 DMC1, meiotic recombination protein DMC1/LIM15 hom 96.09
3bh0_A315 DNAB-like replicative helicase; ATPase, replicatio 95.73
2ehv_A251 Hypothetical protein PH0186; KAIC, RECA ATPase, un 95.15
2r6a_A454 DNAB helicase, replicative helicase; replication, 93.93
2q6t_A444 DNAB replication FORK helicase; hydrolase; 2.90A { 93.47
4a8j_A361 Elongator complex protein 4; transcription; 2.10A 93.42
1n0w_A243 DNA repair protein RAD51 homolog 1; DNA repair, ho 93.14
3bgw_A444 DNAB-like replicative helicase; ATPase, replicatio 92.99
3lda_A400 DNA repair protein RAD51; DNA binding protein, ATP 92.29
3cmu_A 2050 Protein RECA, recombinase A; homologous recombinat 92.06
1pzn_A349 RAD51, DNA repair and recombination protein RAD51, 89.66
1xp8_A366 RECA protein, recombinase A; recombination, radior 88.41
1tf7_A525 KAIC; homohexamer, hexamer, circadian clock protei 87.09
3cmw_A 1706 Protein RECA, recombinase A; homologous recombinat 82.12
2zr9_A349 Protein RECA, recombinase A; recombination, RECA m 80.62
>4a8j_B Elongator complex protein 5; transcription; 2.10A {Saccharomyces cerevisiae} PDB: 4ejs_B Back     alignment and structure
Probab=99.51  E-value=5.2e-13  Score=122.80  Aligned_cols=194  Identities=13%  Similarity=0.154  Sum_probs=123.9

Q ss_pred             CCeeEeecCCCCCchhhHHHHHHHHHHHHHHhhccccCcEEEEEecCChHHHHHHHHhcCCCcCCCCCeEEEEecccCCC
Q 023062           19 APALTIKDSKASPFGFDVFNYVLTQLSNYILAGKSQSRGLVVVAYSRSPSFYVDLLKRRGIDIASSHDWIHILDCYTDPL   98 (288)
Q Consensus        19 ap~l~i~dsl~~~~g~~~~~h~~~~l~s~i~a~~~q~~~V~vlafe~spe~y~~~lk~~G~d~~~~~~~v~i~D~fsDPl   98 (288)
                      .|+.++.|||+-++- .+    +.++....+... +...|.+|+||---        +   +.    .-=+++||..   
T Consensus        22 SPltLvLDSLeQsA~-pL----i~E~i~rak~~~-~k~~IIyvSFETl~--------k---P~----~ad~FI~a~~---   77 (270)
T 4a8j_B           22 SPFILCLDSIAQTSY-KL----IQEFVHQSKSKG-NEYPIVYISFETVN--------K---PS----YCTQFIDATQ---   77 (270)
T ss_dssp             CSEEEEEEBTTBCSH-HH----HHHHHHHHHHTS-CCCCEEEEESSCCS--------C---CT----TCSEEEETTS---
T ss_pred             CCeEEEeecccccCh-HH----HHHHHHHHhhcc-CCCcEEEEEeeccc--------C---CC----CCCeeeEcCC---
Confidence            799999999999955 33    333333333221 23469999999432        0   11    1123566533   


Q ss_pred             CCcccccCccccccccccccccccccchhhHHHHHHHhh--cccCCCCcEEEEEechhHHHhhCChHHHHHHHHhhhcCC
Q 023062           99 GWKNWLIDKDISQEASSLSSFCQDVRNLDKLYSLIIEQG--LIGQGKDRFSIAIDSVSEMVRHASISSVAGILSNLRSHD  176 (288)
Q Consensus        99 gW~~~~~~~~~~~~~s~~~~~~~~v~~L~sl~~~i~~~~--~~~~~~~~~~VvIDSLs~LL~~~s~~~l~~~L~~L~~~~  176 (288)
                         ..                      +..++..|....  .....+.+.+|+|||||.++.    ..+.+||+++.. |
T Consensus        78 ---ks----------------------l~~i~~eI~s~~p~~~~~~~~k~LVIIDSLN~l~~----~~L~~FlsSi~s-P  127 (270)
T 4a8j_B           78 ---MD----------------------FVHLVKQIISYLPAATATQAKKHMVIIDSLNYIST----EYITRFLSEIAS-P  127 (270)
T ss_dssp             ---SC----------------------HHHHHHHHHHTCC-----CCCCEEEEESCGGGSCG----GGHHHHHHHHCC-T
T ss_pred             ---CC----------------------HHHHHHHHHHhCCCccCCCCcceEEEEecCcchhh----hhHHHHHHHhhc-C
Confidence               11                      122222222111  001123467999999999995    589999999985 4


Q ss_pred             ceeEEEEEeeCccC-------------CcchHhHHhhhceeEEEEeecCccccccccchhhhhhh----hhcccceeEEE
Q 023062          177 QVSSIFWLLHSDLH-------------EIKFTSVLEYLSSMVASVEPFNQAAFGQRVDLENLSML----EQNFRKGKFHV  239 (288)
Q Consensus       177 ~v~SVv~llH~DLh-------------~p~~l~aL~~LAttvitv~p~~~~~~~~~~~~~~~~~~----~~n~~~~~~~V  239 (288)
                       -.++||+||+|++             .|.++..|+|||||+++|+|......-.|++-..++-+    .-|...=++.+
T Consensus       128 -~~sLv~vYH~DvP~~~~~~~~~~n~y~Ps~LtLL~ylATTIl~v~~~~~~~~deE~l~~~l~k~~~P~glN~~~f~l~l  206 (270)
T 4a8j_B          128 -HCTMVATYHKDIKDENRTVIPDWNNNYPDKLTLLQFMATTIVDIDVVLTGTLDTEEVSELLNEFRIPRGLNNDIFQLRL  206 (270)
T ss_dssp             -TEEEEEEEETTSCCC------CTTBCCCCHHHHHHHHCSEEEEEEECCCSSCCHHHHHHHHHTTCCCSSCSCSEEEEEE
T ss_pred             -CcEEEEEecCCCCCCCccccccccCCCCChHHHHHHhhhheEEEecCCCCCccHHHHHHHhhheecccccCCCeEEEEE
Confidence             4689999999987             46788999999999999999977543334333333332    34667778889


Q ss_pred             EEecCCCCeeeeEeEEEEEcCceEEEeCCC
Q 023062          240 RFKRRNGRVRVMCEEILVELAGIKFTPVLS  269 (288)
Q Consensus       240 r~kRr~GRV~~~~E~f~i~~~~~~f~~~~~  269 (288)
                      ..|||+||-..  -.|.|+.+.=.+.-...
T Consensus       207 tnrRKSGRsl~--y~f~ids~~H~Yev~~~  234 (270)
T 4a8j_B          207 VNKRKSGRSLE--YDFIVNSNTHEYELLST  234 (270)
T ss_dssp             EEECTTSCEEE--EEEEEETTTTEEEEC--
T ss_pred             EeccccCcceE--EEEEEcCCCceEEEeec
Confidence            99999999753  46777777754444333
>4a8j_C Elongator complex protein 6; transcription; 2.10A {Saccharomyces cerevisiae} PDB: 4ejs_C Back     alignment and structure
>3bs4_A Uncharacterized protein PH0321; structural genomics, unknown function, PSI-2, protein struct initiative; 1.60A {Pyrococcus horikoshii} Back     alignment and structure
>2zts_A Putative uncharacterized protein PH0186; KAIC like protein, ATP-binding, nucleotide-binding, ATP- binding protein; HET: ADP; 2.07A {Pyrococcus horikoshii} Back     alignment and structure
>2dr3_A UPF0273 protein PH0284; RECA superfamily ATPase, hexamer, structural genomics; HET: ADP; 2.00A {Pyrococcus horikoshii} Back     alignment and structure
>2w0m_A SSO2452; RECA, SSPF, unknown FUN; 2.0A {Sulfolobus solfataricus P2} Back     alignment and structure
>2cvh_A DNA repair and recombination protein RADB; filament formation, homologous recombination, ATPase domain, hyperthermophIle; HET: DNA; 2.20A {Thermococcus kodakarensis} PDB: 2cvf_A* Back     alignment and structure
>2i1q_A DNA repair and recombination protein RADA; ATPase, recombinase, ATP complex, calcium stimulation, RECA, DMC1; HET: DNA ANP; 1.90A {Methanococcus voltae} SCOP: a.60.4.1 c.37.1.11 PDB: 1xu4_A* 2b21_A* 2fpk_A* 2fpl_A* 2fpm_A* 1t4g_A* 3fyh_A* 2f1j_A* 2f1i_A* 2f1h_A* 3ntu_A* 3ewa_A* 3ew9_A* 3etl_A* 4dc9_A* 2gdj_A* Back     alignment and structure
>2z43_A DNA repair and recombination protein RADA; archaea, filament, DNA binding, molecular SWI RECA, DMC1; HET: DNA; 1.93A {Sulfolobus solfataricus} PDB: 2bke_A* 2dfl_A* 2zub_A* 2zuc_A* 2zud_A* Back     alignment and structure
>1q57_A DNA primase/helicase; dntpase, DNA replication, transferase; HET: DNA; 3.45A {Enterobacteria phage T7} SCOP: c.37.1.11 e.13.1.2 Back     alignment and structure
>1v5w_A DMC1, meiotic recombination protein DMC1/LIM15 homolog; DNA-binding protein, ring protein, octamer, AAA ATPase; 3.20A {Homo sapiens} SCOP: c.37.1.11 PDB: 2zjb_A Back     alignment and structure
>3bh0_A DNAB-like replicative helicase; ATPase, replication; 2.35A {Bacillus phage SPP1} Back     alignment and structure
>2r6a_A DNAB helicase, replicative helicase; replication, DNAB; 2.90A {Geobacillus stearothermophilus} PDB: 2r6c_A 2r6d_A 2r6e_A 2vyf_A 2vye_A Back     alignment and structure
>2q6t_A DNAB replication FORK helicase; hydrolase; 2.90A {Thermus aquaticus} Back     alignment and structure
>4a8j_A Elongator complex protein 4; transcription; 2.10A {Saccharomyces cerevisiae} PDB: 4ejs_A Back     alignment and structure
>1n0w_A DNA repair protein RAD51 homolog 1; DNA repair, homologous recombination, breast cancer susceptibility, RECA-like ATPase, protein complex; HET: DNA MSE; 1.70A {Homo sapiens} SCOP: c.37.1.11 Back     alignment and structure
>3bgw_A DNAB-like replicative helicase; ATPase, replication; 3.91A {Bacillus phage SPP1} Back     alignment and structure
>3lda_A DNA repair protein RAD51; DNA binding protein, ATP-binding, DNA damage, DNA recombinat repair, nucleotide-binding; HET: DNA; 2.50A {Saccharomyces cerevisiae} PDB: 1szp_A* Back     alignment and structure
>3cmu_A Protein RECA, recombinase A; homologous recombination, recombination/DNA complex; HET: DNA ADP; 4.20A {Escherichia coli} Back     alignment and structure
>1pzn_A RAD51, DNA repair and recombination protein RAD51, RADA; heptameric ring, heptamer, ring, oligomer, RAD51 polymerizat motif; HET: DNA; 2.85A {Pyrococcus furiosus} SCOP: a.60.4.1 c.37.1.11 Back     alignment and structure
>1xp8_A RECA protein, recombinase A; recombination, radioresistance, DNA-repair, ATPase, DNA-BIND protein, DNA binding protein; HET: AGS; 2.50A {Deinococcus radiodurans} SCOP: c.37.1.11 d.48.1.1 Back     alignment and structure
>1tf7_A KAIC; homohexamer, hexamer, circadian clock protein; HET: ATP; 2.80A {Synechococcus SP} SCOP: c.37.1.11 c.37.1.11 PDB: 3s1a_A* 1u9i_A* 2gbl_A* 3dvl_A* 3k0a_A* 3k09_A* 3jzm_A* 3k0e_A* 4dug_A* 3ua2_A* 3k0c_A* 3k0f_A* Back     alignment and structure
>3cmw_A Protein RECA, recombinase A; homologous recombination, recombination/DNA complex; HET: DNA ADP; 2.80A {Escherichia coli} PDB: 3cmt_A* 3cmx_A* 3cmv_A* Back     alignment and structure
>2zr9_A Protein RECA, recombinase A; recombination, RECA mutants, DNA-repair, ATP-binding, DNA DA recombination, DNA repair, DNA-binding; HET: DTP; 2.50A {Mycobacterium smegmatis str} PDB: 2zr0_A* 2zra_A* 2zrb_A 2zrm_A* 1ubc_A* 1ubf_A* 1ubg_A* 1ube_A* 2g88_A* 2odw_A* 2oe2_A 2oep_A* 2oes_A 2ofo_A 2zr7_A 2odn_A* 2zrn_A 2zro_A* 2zrp_A* 2zre_A* ... Back     alignment and structure

Homologous Structure Domains

Structure Domains Detected by RPS-BLAST ?

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

No hit with e-value below 0.005

Homologous Domains Detected by HHsearch ?

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

ID ?Alignment Graph ?Length ? Definition ? Probability ?
Query288
d1tf7a2242 Circadian clock protein KaiC {Synechococcus sp. st 98.11
d1tf7a1242 Circadian clock protein KaiC {Synechococcus sp. st 97.55
d1cr2a_277 Gene 4 protein (g4p, DNA primase), helicase domain 95.75
d1mo6a1269 RecA protein, ATPase-domain {Mycobacterium tubercu 91.68
d1xp8a1268 RecA protein, ATPase-domain {Deinococcus radiodura 90.72
d1nlfa_274 Hexameric replicative helicase repA {Escherichia c 90.37
d1u94a1263 RecA protein, ATPase-domain {Escherichia coli [Tax 89.87
>d1tf7a2 c.37.1.11 (A:256-497) Circadian clock protein KaiC {Synechococcus sp. strain PCC 7942 (Anacystis nidulans R2) [TaxId: 1140]} Back     information, alignment and structure
class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: RecA protein-like (ATPase-domain)
domain: Circadian clock protein KaiC
species: Synechococcus sp. strain PCC 7942 (Anacystis nidulans R2) [TaxId: 1140]

Probab=98.11  E-value=7.7e-06  Score=68.54  Aligned_cols=170  Identities=16%  Similarity=0.188  Sum_probs=101.3

Q ss_pred             cccCcEEEEEecCChHHHHHHHHhcCCCcCC--CCCeEEEEecccCCCCCcccccCccccccccccccccccccchhhHH
Q 023062           53 SQSRGLVVVAYSRSPSFYVDLLKRRGIDIAS--SHDWIHILDCYTDPLGWKNWLIDKDISQEASSLSSFCQDVRNLDKLY  130 (288)
Q Consensus        53 ~q~~~V~vlafe~spe~y~~~lk~~G~d~~~--~~~~v~i~D~fsDPlgW~~~~~~~~~~~~~s~~~~~~~~v~~L~sl~  130 (288)
                      .++..+.++.+|-+++.+.+-+++.|.+.+.  -...+.+.|.|..-                          ..+..++
T Consensus        52 ~~~~~~~~is~e~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~--------------------------~~~~~~~  105 (242)
T d1tf7a2          52 ANKERAILFAYEESRAQLLRNAYSWGMDFEEMERQNLLKIVCAYPES--------------------------AGLEDHL  105 (242)
T ss_dssp             TTTCCEEEEESSSCHHHHHHHHHTTSCCHHHHHHTTSEEECCCCGGG--------------------------SCHHHHH
T ss_pred             HhccccceeeccCCHHHHHHHHHHcCCChHHHhhcCceEEEEeecch--------------------------hhHHHHH
Confidence            4567899999999999999988888776422  01123333322110                          0111111


Q ss_pred             HHHHHhhcccCCCCcEEEEEechhHHHhhCChHHHHHHHHhhhcC---CceeEEEEEeeCccCCc---chHhHHhhhcee
Q 023062          131 SLIIEQGLIGQGKDRFSIAIDSVSEMVRHASISSVAGILSNLRSH---DQVSSIFWLLHSDLHEI---KFTSVLEYLSSM  204 (288)
Q Consensus       131 ~~i~~~~~~~~~~~~~~VvIDSLs~LL~~~s~~~l~~~L~~L~~~---~~v~SVv~llH~DLh~p---~~l~aL~~LAtt  204 (288)
                      ..+..  ...+. ++-.++|||++.++...+...+..++..|.+.   .. ..++.+.|......   ..-..++|+|++
T Consensus       106 ~~i~~--~i~~~-~~~~vviDs~~~~~~~~~~~~~~~~~~~l~~~~~~~~-~~~i~~~~~~~~~~~~~~~~~~~~~~ad~  181 (242)
T d1tf7a2         106 QIIKS--EINDF-KPARIAIDSLSALARGVSNNAFRQFVIGVTGYAKQEE-ITGLFTNTSDQFMGAHSITDSHISTITDT  181 (242)
T ss_dssp             HHHHH--HHHTT-CCSEEEEECHHHHTSSSCHHHHHHHHHHHHHHHHHTT-CEEEEEEECSSSSCCCSSCSSCCTTTCSE
T ss_pred             HHHHH--HHHhc-CCceeeeecchhhhcCCCHHHHHHHHHHHHHHHHHcC-CeEEEEEeeEeeccccccCCcceeeecce
Confidence            11111  11222 34488999999999988888888888777662   22 23555566543332   234568999999


Q ss_pred             EEEEeecCccccccccchhhhhhhhhcccceeEEEEEecCCCCeeeeEeEEEEEcCceEEEeCCC
Q 023062          205 VASVEPFNQAAFGQRVDLENLSMLEQNFRKGKFHVRFKRRNGRVRVMCEEILVELAGIKFTPVLS  269 (288)
Q Consensus       205 vitv~p~~~~~~~~~~~~~~~~~~~~n~~~~~~~Vr~kRr~GRV~~~~E~f~i~~~~~~f~~~~~  269 (288)
                      ++.++-....                +...-.+.| .|-|.++.....-+|.|...|++..+.-.
T Consensus       182 vi~l~~~~~~----------------~~~~R~i~v-~K~R~~~~~~~~~~f~I~~~Gi~i~~~~~  229 (242)
T d1tf7a2         182 IILLQYVEIR----------------GEMSRAINV-FKMRGSWHDKAIREFMISDKGPDIKDSFR  229 (242)
T ss_dssp             EEEEEEEEET----------------TEEEEEEEE-EEESSSCCCCBCEEEEECSSCEEEEEECT
T ss_pred             EEEEEEeecC----------------CceEEEEEE-EecCCCCCCCeEEEEEEeCCcEEEcCccc
Confidence            9999743221                001122344 34466666666677999999988664333
>d1tf7a1 c.37.1.11 (A:14-255) Circadian clock protein KaiC {Synechococcus sp. strain PCC 7942 (Anacystis nidulans R2) [TaxId: 1140]} Back     information, alignment and structure
>d1cr2a_ c.37.1.11 (A:) Gene 4 protein (g4p, DNA primase), helicase domain {Bacteriophage T7 [TaxId: 10760]} Back     information, alignment and structure
>d1mo6a1 c.37.1.11 (A:1-269) RecA protein, ATPase-domain {Mycobacterium tuberculosis [TaxId: 1773]} Back     information, alignment and structure
>d1xp8a1 c.37.1.11 (A:15-282) RecA protein, ATPase-domain {Deinococcus radiodurans [TaxId: 1299]} Back     information, alignment and structure
>d1nlfa_ c.37.1.11 (A:) Hexameric replicative helicase repA {Escherichia coli [TaxId: 562]} Back     information, alignment and structure
>d1u94a1 c.37.1.11 (A:6-268) RecA protein, ATPase-domain {Escherichia coli [TaxId: 562]} Back     information, alignment and structure