Citrus Sinensis ID: 023377

---

Local Sequence Feature Prediction

Residue Number Marker
--------10--------20--------30--------40--------50--------60--------70--------80--------90-------100-------110-------120-------130-------140-------150-------160-------170-------180-------190-------200-------210-------220-------230-------240-------250-------260-------270-------280---
Protein Sequence
MADTICRTLRDGGLEGEHAPALTIKDSKASPFGFDVFNYVLTQLSNYILAGKSQSRGLVVVAYSRSPSFYVDLLKRRGIDIASSHDWIHILDCYTDPLGWKNWLIDKDISQEASSLSSFCQDVRNLDKLYSLIIEQGKGLIGQGKDRFSIAIDSVSEMVRHASISSVAGILSNLRSHDQVSSIFWLLHSDLHEIKFTSVLEYLSSMVASVEPFNQAAFGQRVDLENLSMLEQNFRKGKFHVRFKRRNGRVRVMVISMFLYFCGECADLLYRKSSYIYFTPLLV
Secondary Structure (PSIPRED)
cHHHHHHHHHcccccccccccEEEEccccccccHHHHHHHHHHHHHHHHHcccccccEEEEEccccHHHHHHHHHHHcccccccccEEEEEEcccccccccccccccccccccccHHHHHHHHHHHHHHHHHHHHHHccccccccccEEEEEEcHHHHHHHccHHHHHHHHHHHcccccEEEEEEEEccccccHHHHHHHHHccEEEEEEEcccccccccccccccHHHHHHHcccccEEEEEEEccccEEEEEEEEEEEcccccccccEEEccccccccccc
Secondary Structure Prediction (SSPRO)
cHHHHHHHHHccccccccccEEEEHccccccHHHHHHHHHHHHHHHHHHHHHHHcccEEEEEEcccHHHHHHHHHHccccccccccEEEEEEccccccccHHHHcccccccccccHHHHHHcHHHHHHHHHHHHHHcccHccccccEEEEEEccHHHHHHHccHHHHHHHHHHHcccHHHHHHHHHHcccccHHHHHHHHHHHHHHHEEEccccccccccccccHHcHHHHHcccccEEEEEEEEccccEEEEEEEEEEEEcccHHHHHHHHHccccEccEEc
Coil and Loop (DISEMBL)
MADTICRTlrdgglegehapaltikdskaspfgfDVFNYVLTQLSNYILAGKSQSRGLVVVAYSRSPSFYVDLLKRRgidiasshdwIHILDcytdplgwknwlidKDISQEASSLSSFCQDVRNLDKLYSLIIEQGkgligqgkdrfsIAIDSVSEMVRHASISSVAGILSNLRSHDQVSSIFWLLHSDLHEIKFTSVLEYLSSMVasvepfnqaafgqrvdlENLSMLEQNFRKGKFHVRFKRRNGRVRVMVISMFLYFCGECADllyrkssyiyftpllv
Flexible Loop (DISEMBL)
madticrtlrdgglegehapaltikdskaspFGFDVFNYVLTQLSNYILAGKSQSRGLVVVAYSRSPSFYVDLLKRRGIDIASSHDWIHILDCYTDPLGWKNWLIDKDISQEASSLSSFCQDVRNLDKLYSLIIEQgkgligqgkdRFSIAIDSVSEMVRHASISSVAGILSNLRSHDQVSSIFWLLHSDLHEIKFTSVLEYLSSMVASVEPFNQAAFGQRVDLENLSMLEQnfrkgkfhvrfkrrngrvRVMVISMFLYFCGECADLLYRKSSYIYFTPLLV
Low Complexity Region (SEG)
MADTICRTLRDGGLEGEHAPALTIKDSKASPFGFDVFNYVLTQLSNYILAGKSQSRGLVVVAYSRSPSFYVDLLKRRGIDIASSHDWIHILDCYTDPLGWKNWLIDKDISQEASSLSSFCQDVRNLDKLYSLIIEQGKGLIGQGKDRFSIAIDSVSEMVRHASISSVAGILSNLRSHDQVSSIFWLLHSDLHEIKFTSVLEYLSSMVASVEPFNQAAFGQRVDLENLSMLEQNFRKGKFHVRFKRRNGRVRVMVISMFLYFCGECADLLYRKSSYIYFTPLLV
Disordered region (IsUnstruct)
**********************TI***KASPFGFDVFNYVLTQLSNYILAGKSQSRGLVVVAYSRSPSFYVDLLKRRGIDIASSHDWIHILDCYTDPLGWKNWLIDKDISQEASSLSSFCQDVRNLDKLYSLIIEQGKGLIGQGKDRFSIAIDSVSEMVRHASISSVAGILSNLRSHDQVSSIFWLLHSDLHEIKFTSVLEYLSSMVASVEPFNQAAFGQRVDLENLSMLEQNFRKGKFHVRFKRRNGRVRVMVISMFLYFCGECADLLYRKSSYIYFTPL**
Disordered Region (DISOPRED)
***TICRTLRDGGLEGEHAPALTIKDSKASPFGFDVFNYVLTQLSNY*****SQSRGLVVVAYSRSPSFYVDLLKRRGIDIASSHDWIHILDCYTDPLGW******************FCQDVRNLDKLYSLIIEQ*****GQGKDRFSIAIDSVSEMVRHASISSVAGILSNLRSHDQVSSIFWLLHSDLHEIKFTSVLEYLSSMVASV******************MLEQNFRKGKFHVRFKRRNGRVRVMVISMFLYFCGECADLLYRKSSYIYFTPLLV
Disordered Region (DISEMBL)
MADTICRTLRDGGLEGEHAPALTIKDSKASPFGFDVFNYVLTQLSNYILAGKSQSRGLVVVAYSRSPSFYVDLLKRRGIDIASSHDWIHILDCYTDPLGWKNWLIDKDISQEASSLSSFCQDVRNLDKLYSLIIEQGKGLIGQGKDRFSIAIDSVSEMVRHASISSVAGILSNLRSHDQVSSIFWLLHSDLHEIKFTSVLEYLSSMVASVEPFNQAAFGQRVDLENLSMLEQNFRKGKFHVRFKRRNGRVRVMVISMFLYFCGECADLLYRKSSYIYFTPLLV
Disordered Region (DISPRO)
*****CRTLRDGGLEGEHAPALTIKDSKASPFGFDVFNYVLTQLSNYILAGKSQSRGLVVVAYSRSPSFYVDLLKRRGIDIASSHDWIHILDCYTDPLGWKNWLIDKDISQEASSLSSFCQDVRNLDKLYSLIIEQGKGLIGQGKDRFSIAIDSVSEMVRHASISSVAGILSNLRSHDQVSSIFWLLHSDLHEIKFTSVLEYLSSMVASVEPFNQAAFGQRVDLENLSMLEQNFRKGKFHVRFKRRNGRVRVMVISMFLYFCGECADLLYRKSSYIYFTPLLV
Transmembrane Helix (TMHMM)
iiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiHHHHHHHHHHHHHHHHHHHHHHHooooooooooooo
Transmembrane Helix (HMMTOP)
oooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooHHHHHHHHHHHHHHHHHHiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiHHHHHHHHHHHHHHHHHooooooooooooooooo
Transmembrane Helix (MEMSAT)
oooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooohhhhhhhhhhhhhhhhhhhiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiii
TM Helix, Signal Peptide (MEMSAT_SVM)
iiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiihhhhhhhhhhhhhhhhoooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
TM Helix, Signal Peptide (Phobius)
iiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiHHHHHHHHHHHHHHHHHHHooooooooooooo
Signal Peptide (SignalP HMM Mode)
xxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxx
Signal Peptide (SignalP NN Mode)
xxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxx
Coiled Coils (COILS)
MADTICRTLRDGGLEGEHAPALTIKDSKASPFGFDVFNYVLTQLSNYILAGKSQSRGLVVVAYSRSPSFYVDLLKRRGIDIASSHDWIHILDCYTDPLGWKNWLIDKDISQEASSLSSFCQDVRNLDKLYSLIIEQGKGLIGQGKDRFSIAIDSVSEMVRHASISSVAGILSNLRSHDQVSSIFWLLHSDLHEIKFTSVLEYLSSMVASVEPFNQAAFGQRVDLENLSMLEQNFRKGKFHVRFKRRNGRVRVMVISMFLYFCGECADLLYRKSSYIYFTPLLV
Positional Conservation
no confident homologs detected

---

Close Homologs for Annotation Transfer

Close Homologs in SWISS-PROT Database Detected by BLAST

Original result of BLAST against SWISS-PROT Database

ID	Length	Definition	RBH(Q2H)	RBH(H2Q)	Q cover	H cover	Identity	E-value
Query	283	2.2.26 [Sep-21-2011]
F4IQJ2	374	Elongator complex protein	no	no	0.879	0.665	0.560	2e-76

>sp|F4IQJ2|ELP5_ARATH Elongator complex protein 5 OS=Arabidopsis thaliana GN=ELP5 PE=1 SV=1

 Score =  285 bits (730), Expect = 2e-76,   Method: Compositional matrix adjust.
 Identities = 143/255 (56%), Positives = 193/255 (75%), Gaps = 6/255 (2%)

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 FCQDVRNLDKLYSLIIEQGKGLIGQGKDRFSIAIDSVSEMVRHASISSVAGILSNLRSHD 178
             + V +L KL+S IIE G+ L+G GK RF +AIDSV+E++RH+++  V+G+L++LRSH 
Sbjct: 117 LHKCVSDLKKLFSSIIEAGRELVGTGKTRFCVAIDSVNELLRHSAMPLVSGLLTDLRSHA 176

Query: 179 QVSSIFWLLHSDLHEIKFTSVLEYLSSMVASVEPFNQAAFGQRVDLENLSMLEQNFRKGK 238
           Q+SS+FW L++DLH+ K T+ LEY+S+M A++EP   ++ GQR  LENL  + Q+F KG+
Sbjct: 177 QISSVFWSLNTDLHQEKVTNALEYISTMKANLEPLCPSSDGQRNALENLFSVHQDFGKGR 236

Query: 239 FHVRFKRRNGRVRVM 253
           FHVRFK R GRVRVM
Sbjct: 237 FHVRFKLRKGRVRVM 251

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)

Close Homologs in the Non-Redundant Database Detected by BLAST

Original result of BLAST against Nonredundant Database

GI	Length	Definition	Q cover	H cover	Identity	E-value
Query	283
255559196	376	conserved hypothetical protein [Ricinus	0.893	0.672	0.715	1e-107
118485334	379	unknown [Populus trichocarpa]	0.893	0.667	0.720	1e-106
224077180	386	predicted protein [Populus trichocarpa]	0.893	0.655	0.701	1e-103
225452057	376	PREDICTED: uncharacterized protein LOC10	0.946	0.712	0.639	6e-95
356500866	373	PREDICTED: dermal papilla-derived protei	0.886	0.672	0.634	9e-87
363814366	372	uncharacterized protein LOC100792556 [Gl	0.886	0.674	0.628	3e-86
449455826	375	PREDICTED: elongator complex protein 5-l	0.890	0.672	0.575	3e-82
297832500	378	hypothetical protein ARALYDRAFT_319792 [	0.879	0.658	0.568	4e-76
79322467	306	uncharacterized protein [Arabidopsis tha	0.879	0.813	0.560	8e-75
42569125	374	uncharacterized protein [Arabidopsis tha	0.879	0.665	0.560	1e-74

>gi|255559196|ref|XP_002520619.1| conserved hypothetical protein [Ricinus communis] gi|223540180|gb|EEF41755.1| conserved hypothetical protein [Ricinus communis]

 Score =  392 bits (1007), Expect = e-107,   Method: Compositional matrix adjust.
 Identities = 184/257 (71%), Positives = 227/257 (88%), Gaps = 4/257 (1%)

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 SSFCQDVRNLDKLYSLIIEQGKGLIGQGKDRFSIAIDSVSEMVRHASISSVAGILSNLRS 176
           +  C+DV++LD LY+LI+E GKGL+GQGK RFS+AIDSV+EM+R AS+S VAG+LSNLRS
Sbjct: 121 AHLCKDVKDLDSLYTLILELGKGLVGQGKARFSVAIDSVNEMLRDASMSKVAGLLSNLRS 180

Query: 177 HDQVSSIFWLLHSDLHEIKFTSVLEYLSSMVASVEPFNQAAFGQRVDLENLSMLEQNFRK 236
           HDQ+SSI+WLLHSDLHE++ TS+LEY+SSMVAS+EP N++  GQR +LENLS L+QNF K
Sbjct: 181 HDQISSIYWLLHSDLHEVRVTSMLEYMSSMVASIEPLNRSGNGQRWNLENLSQLQQNFGK 240

Query: 237 GKFHVRFKRRNGRVRVM 253
           GK +VRFKRRNGRV VM
Sbjct: 241 GKLNVRFKRRNGRVSVM 257

Source: Ricinus communis

Species: Ricinus communis

Genus: Ricinus

Family: Euphorbiaceae

Order: Malpighiales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|118485334|gb|ABK94526.1| unknown [Populus trichocarpa]

 Score =  389 bits (999), Expect = e-106,   Method: Compositional matrix adjust.
 Identities = 186/258 (72%), Positives = 223/258 (86%), Gaps = 5/258 (1%)

Query: 1   MADTICRTLRDGGLEGEHAPALTIKDSKASPFGFDVFNYVLTQLSNYILAGKSQSRGLVV 60
           MA+++CRTLRDG LEGE APALTIKD+ ASPFGF VF++VL+QLS++ILA KSQSRG+V+
Sbjct: 1   MAESMCRTLRDGSLEGEQAPALTIKDTAASPFGFHVFSHVLSQLSSFILASKSQSRGIVI 60

Query: 61  VAYSRSPSFYVDLLKRRGIDIASSHDWIHILDCYTDPLGWKNWLIDK----DISQE-ASS 115
           VA+SRSPSFYVDLLK RGID+ SSH W+ ILDCYTDPL WK+ L+      D S E +SS
Sbjct: 61  VAFSRSPSFYVDLLKSRGIDVNSSHKWVQILDCYTDPLCWKDQLMGSGNFMDASHETSSS 120

Query: 116 LSSFCQDVRNLDKLYSLIIEQGKGLIGQGKDRFSIAIDSVSEMVRHASISSVAGILSNLR 175
           LS  C+DV++LDKLYS+I+E GKGL+GQGKDRFS+AID+++EM+RH S  +VAG+LSNLR
Sbjct: 121 LSRVCKDVKDLDKLYSMILELGKGLVGQGKDRFSVAIDTINEMLRHTSTPTVAGLLSNLR 180

Query: 176 SHDQVSSIFWLLHSDLHEIKFTSVLEYLSSMVASVEPFNQAAFGQRVDLENLSMLEQNFR 235
           SH+Q+SSIFWLLHSDLHEIK TS LEYLSS+VASVEP +Q A G+R DLENLS+LEQNF 
Sbjct: 181 SHEQISSIFWLLHSDLHEIKVTSALEYLSSVVASVEPLHQTAGGKRGDLENLSLLEQNFG 240

Query: 236 KGKFHVRFKRRNGRVRVM 253
           KGK  VRFKRRNGRVRV+
Sbjct: 241 KGKLQVRFKRRNGRVRVV 258

Source: Populus trichocarpa

Species: Populus trichocarpa

Genus: Populus

Family: Salicaceae

Order: Malpighiales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|224077180|ref|XP_002305167.1| predicted protein [Populus trichocarpa] gi|222848131|gb|EEE85678.1| predicted protein [Populus trichocarpa]

 Score =  381 bits (978), Expect = e-103,   Method: Compositional matrix adjust.
 Identities = 186/265 (70%), Positives = 223/265 (84%), Gaps = 12/265 (4%)

Query: 1   MADTICRTLRDGGLEGEHAPALTIKDSKASPFGFDVFNYVLTQLSNYILAGKSQSRGLVV 60
           MA+++CRTLRDG LEGE APALTIKD+ ASPFGF VF++VL+QLS++ILA KSQSRG+V+
Sbjct: 1   MAESMCRTLRDGSLEGEQAPALTIKDTAASPFGFHVFSHVLSQLSSFILASKSQSRGIVI 60

Query: 61  VAYSRSPSFYVDLLKRRGIDIASSHDWIHILDCYTDPLGWKNWLIDK----DISQE-ASS 115
           VA+SRSPSFYVDLLK RGID+ SSH W+ ILDCYTDPL WK+ L+      D S E +SS
Sbjct: 61  VAFSRSPSFYVDLLKSRGIDVNSSHKWVQILDCYTDPLCWKDQLMGSGNFMDASHETSSS 120

Query: 116 LSSFCQDVRNLDKLYSLIIEQGKG-------LIGQGKDRFSIAIDSVSEMVRHASISSVA 168
           LS  C+DV++LDKLYS+I+E GKG       L+GQGKDRFS+AID+++EM+RH S  +VA
Sbjct: 121 LSRVCKDVKDLDKLYSMILELGKGKFCVNFWLVGQGKDRFSVAIDTINEMLRHTSTPTVA 180

Query: 169 GILSNLRSHDQVSSIFWLLHSDLHEIKFTSVLEYLSSMVASVEPFNQAAFGQRVDLENLS 228
           G+LSNLRSH+Q+SSIFWLLHSDLHEIK TS LEYLSS+VASVEP +Q A G+R DLENLS
Sbjct: 181 GLLSNLRSHEQISSIFWLLHSDLHEIKVTSALEYLSSVVASVEPLHQTAGGKRGDLENLS 240

Query: 229 MLEQNFRKGKFHVRFKRRNGRVRVM 253
           +LEQNF KGK  VRFKRRNGRVRV+
Sbjct: 241 LLEQNFGKGKLQVRFKRRNGRVRVV 265

Source: Populus trichocarpa

Species: Populus trichocarpa

Genus: Populus

Family: Salicaceae

Order: Malpighiales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|225452057|ref|XP_002283938.1| PREDICTED: uncharacterized protein LOC100258368 [Vitis vinifera] gi|296087267|emb|CBI33641.3| unnamed protein product [Vitis vinifera]

 Score =  353 bits (905), Expect = 6e-95,   Method: Compositional matrix adjust.
 Identities = 183/286 (63%), Positives = 215/286 (75%), Gaps = 18/286 (6%)

Query: 1   MADTICRTLRDGGLEGEHAPALTIKDSKASPFGFDVFNYVLTQLSNYILAGKSQSRGLVV 60
           MA++ICR LRDG LEGEHAPAL+IKDS A+PFG DVFNYVLT+LS+ ILAGKSQS+G+V+
Sbjct: 1   MAESICRNLRDGALEGEHAPALSIKDSIATPFGSDVFNYVLTKLSSNILAGKSQSKGIVL 60

Query: 61  VAYSRSPSFYVDLLKRRGIDIASSHDWIHILDCYTDPLGWKNWLIDKDISQEASSLSS-- 118
           VA+SRSPSFYVD LK  GID+ S+  WI ILDCYTDPLGWK+ L    +  E  SL    
Sbjct: 61  VAFSRSPSFYVDFLKTNGIDLVSAKKWISILDCYTDPLGWKDSL-KGPLDTENFSLKDPI 119

Query: 119 ---FCQDVRNLDKLYSLIIEQGKGLIGQGKDRFSIAIDSVSEMVRHASISSVAGILSNLR 175
                + VRNLD L S IIE G+ L  QGK RFS++IDSV+EM+RHAS+SSVA +LS +R
Sbjct: 120 EAVLFRHVRNLDLLLSAIIEMGEALARQGKGRFSVSIDSVTEMLRHASLSSVANLLSKVR 179

Query: 176 SHDQVSSIFWLLHSDLHEIKFTSVLEYLSSMVASVEPFNQAAFGQRVDLENLSMLEQNFR 235
           SHD++SS FWLLHSDLHEI+  + LEYLSSMV S+EP N +  GQR DLE LS+LEQN R
Sbjct: 180 SHDRISSTFWLLHSDLHEIRAIAALEYLSSMVGSLEPMNLSLNGQRGDLEKLSLLEQNSR 239

Query: 236 KGKFHVRFKRRNGRVRVMVISMFLYFCGECADLLYRKSSYIYFTPL 281
           KGKFHVRFKRRNGRVRVM           C D  + K S I FTP+
Sbjct: 240 KGKFHVRFKRRNGRVRVM-----------CED-FHIKQSGINFTPV 273

Source: Vitis vinifera

Species: Vitis vinifera

Genus: Vitis

Family: Vitaceae

Order: Vitales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|356500866|ref|XP_003519251.1| PREDICTED: dermal papilla-derived protein 6 homolog [Glycine max]

 Score =  326 bits (835), Expect = 9e-87,   Method: Compositional matrix adjust.
 Identities = 163/257 (63%), Positives = 207/257 (80%), Gaps = 6/257 (2%)

Query: 1   MADTICRTLRDGGLEGEHAPALTIKDSKASPFGFDVFNYVLTQLSNYILAGKSQSRGLVV 60
           MAD+ICRTLRDG LEGE  P LTIKDS ASPF F VF+++L QLS++++A KSQS+G+V+
Sbjct: 1   MADSICRTLRDGALEGELVPTLTIKDSLASPFAFHVFSHILLQLSSHVIAQKSQSQGIVI 60

Query: 61  VAYSRSPSFYVDLLKRRGIDIASSHD-WIHILDCYTDPLGWKN----WLIDKDISQEASS 115
           VA SRSPS Y  LLK  G+D ASS++ WIHILDCYTDPLGWK+     +   + SQ+ S 
Sbjct: 61  VALSRSPSSYTSLLKMNGVDFASSNNKWIHILDCYTDPLGWKDKTRKTVNATNPSQQISL 120

Query: 116 LSSFCQDVRNLDKLYSLIIEQGKGLIGQGKDRFSIAIDSVSEMVRHASISSVAGILSNLR 175
            +S  + V+++DKL+S+I E G+GL+G+ K RF +AIDS+SE++RHAS+ SVAG+LSNLR
Sbjct: 121 ATSSYKSVKDVDKLFSVITELGRGLVGENKARFCVAIDSLSELLRHASLQSVAGLLSNLR 180

Query: 176 SHDQVSSIFWLLHSDLHEIKFTSVLEYLSSMVASVEPFNQAAFGQRVDLENLSMLEQNFR 235
           SHDQ+SSIF LLHSDLHE K  +VLEY+SSMVASV+P++ +A GQ+  LEN S+ EQNF 
Sbjct: 181 SHDQISSIFGLLHSDLHEEKAVAVLEYMSSMVASVDPYHHSADGQKECLEN-SVSEQNFT 239

Query: 236 KGKFHVRFKRRNGRVRV 252
           KGKF+ RFKRRNGRVRV
Sbjct: 240 KGKFNARFKRRNGRVRV 256

Source: Glycine max

Species: Glycine max

Genus: Glycine

Family: Fabaceae

Order: Fabales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|363814366|ref|NP_001242822.1| uncharacterized protein LOC100792556 [Glycine max] gi|255635746|gb|ACU18222.1| unknown [Glycine max]

 Score =  324 bits (830), Expect = 3e-86,   Method: Compositional matrix adjust.
 Identities = 161/256 (62%), Positives = 207/256 (80%), Gaps = 5/256 (1%)

Query: 1   MADTICRTLRDGGLEGEHAPALTIKDSKASPFGFDVFNYVLTQLSNYILAGKSQSRGLVV 60
           MAD+ICRTLRDG LEGE AP LTIKDS ASPF F VF+++L QLS++++A KSQS+G+V+
Sbjct: 1   MADSICRTLRDGALEGELAPTLTIKDSLASPFAFHVFSHILLQLSSHVIAQKSQSQGIVI 60

Query: 61  VAYSRSPSFYVDLLKRRGIDIASSHDWIHILDCYTDPLGWKNWLIDK----DISQEASSL 116
           VA SRSPS Y  LLK  G+D+ASS+ WIHILDCYTDPLGWK+         D SQ+ S  
Sbjct: 61  VALSRSPSSYTSLLKMNGMDVASSNKWIHILDCYTDPLGWKDKARKSANVTDPSQQISLA 120

Query: 117 SSFCQDVRNLDKLYSLIIEQGKGLIGQGKDRFSIAIDSVSEMVRHASISSVAGILSNLRS 176
           +S  + V+++DKL+ +I E G+GLIG+ K RF +AIDS+SE++RHAS+ SVAG+LSNLRS
Sbjct: 121 TSSYKTVKDVDKLFLVIAELGRGLIGENKARFCVAIDSLSELLRHASMQSVAGLLSNLRS 180

Query: 177 HDQVSSIFWLLHSDLHEIKFTSVLEYLSSMVASVEPFNQAAFGQRVDLENLSMLEQNFRK 236
           HDQ+SS+F LLHSDLHE +  +VLEY+SSMVASV+P++ +A GQ+  LE+ S+ +Q+F K
Sbjct: 181 HDQISSMFGLLHSDLHEERAVAVLEYMSSMVASVDPYHHSADGQKRCLES-SLYDQSFTK 239

Query: 237 GKFHVRFKRRNGRVRV 252
           GKF+VRFKRRNGRVRV
Sbjct: 240 GKFNVRFKRRNGRVRV 255

Source: Glycine max

Species: Glycine max

Genus: Glycine

Family: Fabaceae

Order: Fabales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|449455826|ref|XP_004145651.1| PREDICTED: elongator complex protein 5-like [Cucumis sativus]

 Score =  311 bits (796), Expect = 3e-82,   Method: Compositional matrix adjust.
 Identities = 148/257 (57%), Positives = 198/257 (77%), Gaps = 5/257 (1%)

Query: 1   MADTICRTLRDGGLEGEHAPALTIKDSKASPFGFDVFNYVLTQLSNYILAGKSQSRGLVV 60
           MA++ICR LRDG L+GE APALTIKD+  SPFGF  F++VLTQLS+ ILAGKSQSRGLV+
Sbjct: 1   MAESICRALRDGALQGELAPALTIKDNINSPFGFHAFSHVLTQLSSNILAGKSQSRGLVL 60

Query: 61  VAYSRSPSFYVDLLKRRGIDIASSHDWIHILDCYTDPLGWKNWLID----KDISQEASSL 116
           +++SRSP++YV LLK+RG+D+ SS  WI ILDCYTDPLGWK   ++     ++ QE S+L
Sbjct: 61  LSFSRSPAYYVQLLKKRGLDVGSSAKWIQILDCYTDPLGWKQRFMEGENVSNVDQEVSNL 120

Query: 117 SSFCQDVRNLDKLYSLIIEQGKGLIGQGKDRFSIAIDSVSEMVRHASISSVAGILSNLRS 176
           S  C +V ++DKL+S II  GKG +G+G  RF +A+DSV+ M+RH+SIS++AG+LS+LRS
Sbjct: 121 SHLCTNVGDMDKLFSSIIALGKGFVGEGTVRFCVAVDSVTNMLRHSSISALAGLLSSLRS 180

Query: 177 HDQVSSIFWLLHSDLHEIKFTSVLEYLSSMVASVEPFNQAAFGQRVDLENLSMLEQNFRK 236
           +D VSS  WL+H DLHE K  +  EY+SS+VA++E    + +  R +++N S LE    K
Sbjct: 181 NDSVSSTLWLVHEDLHEEKVIAAFEYMSSIVATLEALTPSPYVSRSNMDN-SYLEHRSTK 239

Query: 237 GKFHVRFKRRNGRVRVM 253
           G+FHVR KRRNGRVRV+
Sbjct: 240 GRFHVRMKRRNGRVRVI 256

Source: Cucumis sativus

Species: Cucumis sativus

Genus: Cucumis

Family: Cucurbitaceae

Order: Cucurbitales

Phylum: Streptophyta

Superkingdom: Eukaryota

>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]

 Score =  290 bits (743), Expect = 4e-76,   Method: Compositional matrix adjust.
 Identities = 145/255 (56%), Positives = 195/255 (76%), Gaps = 6/255 (2%)

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

Query: 61  VAYSRSPSFYVDLLKRRGIDIASSHDWIHILDCYTDPLGWKNWLIDKDIS--QEASSLSS 118
           + +SRSPSFY+ LLK+RGI ++SS  WI ILDCYTDPLGW    I +  S   E SSL  
Sbjct: 61  ITFSRSPSFYLQLLKQRGIVVSSSSKWIRILDCYTDPLGW----IHEPSSGFSEGSSLIK 116

Query: 119 FCQDVRNLDKLYSLIIEQGKGLIGQGKDRFSIAIDSVSEMVRHASISSVAGILSNLRSHD 178
             + V +L KL+S +IE G+ L+G GK  F +AIDSV+E++RH+S+  V+G+L++LRSH 
Sbjct: 117 LHKCVSDLRKLFSTVIEAGRELVGAGKTHFCVAIDSVNELLRHSSMPLVSGLLTDLRSHA 176

Query: 179 QVSSIFWLLHSDLHEIKFTSVLEYLSSMVASVEPFNQAAFGQRVDLENLSMLEQNFRKGK 238
           Q++S+FW L++DLH+ K T+ LEY+S+M A++EP   ++ GQR  LENL ++ Q+F KG+
Sbjct: 177 QITSVFWSLNTDLHQEKVTNALEYISTMKANLEPLCPSSDGQRNALENLFLVHQDFGKGR 236

Query: 239 FHVRFKRRNGRVRVM 253
           FHVRFK R GRVRVM
Sbjct: 237 FHVRFKLRKGRVRVM 251

Source: Arabidopsis lyrata subsp. lyrata

Species: Arabidopsis lyrata

Genus: Arabidopsis

Family: Brassicaceae

Order: Brassicales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|79322467|ref|NP_001031371.1| uncharacterized protein [Arabidopsis thaliana] gi|330251673|gb|AEC06767.1| uncharacterized protein [Arabidopsis thaliana]

 Score =  286 bits (732), Expect = 8e-75,   Method: Compositional matrix adjust.
 Identities = 143/255 (56%), Positives = 193/255 (75%), Gaps = 6/255 (2%)

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 FCQDVRNLDKLYSLIIEQGKGLIGQGKDRFSIAIDSVSEMVRHASISSVAGILSNLRSHD 178
             + V +L KL+S IIE G+ L+G GK RF +AIDSV+E++RH+++  V+G+L++LRSH 
Sbjct: 117 LHKCVSDLKKLFSSIIEAGRELVGTGKTRFCVAIDSVNELLRHSAMPLVSGLLTDLRSHA 176

Query: 179 QVSSIFWLLHSDLHEIKFTSVLEYLSSMVASVEPFNQAAFGQRVDLENLSMLEQNFRKGK 238
           Q+SS+FW L++DLH+ K T+ LEY+S+M A++EP   ++ GQR  LENL  + Q+F KG+
Sbjct: 177 QISSVFWSLNTDLHQEKVTNALEYISTMKANLEPLCPSSDGQRNALENLFSVHQDFGKGR 236

Query: 239 FHVRFKRRNGRVRVM 253
           FHVRFK R GRVRVM
Sbjct: 237 FHVRFKLRKGRVRVM 251

Source: Arabidopsis thaliana

Species: Arabidopsis thaliana

Genus: Arabidopsis

Family: Brassicaceae

Order: Brassicales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|42569125|ref|NP_179432.3| uncharacterized protein [Arabidopsis thaliana] gi|385178681|sp|F4IQJ2.1|ELP5_ARATH RecName: Full=Elongator complex protein 5; Short=AtELP5; AltName: Full=Elongator component 5 gi|330251672|gb|AEC06766.1| uncharacterized protein [Arabidopsis thaliana]

 Score =  285 bits (730), Expect = 1e-74,   Method: Compositional matrix adjust.
 Identities = 143/255 (56%), Positives = 193/255 (75%), Gaps = 6/255 (2%)

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 FCQDVRNLDKLYSLIIEQGKGLIGQGKDRFSIAIDSVSEMVRHASISSVAGILSNLRSHD 178
             + V +L KL+S IIE G+ L+G GK RF +AIDSV+E++RH+++  V+G+L++LRSH 
Sbjct: 117 LHKCVSDLKKLFSSIIEAGRELVGTGKTRFCVAIDSVNELLRHSAMPLVSGLLTDLRSHA 176

Query: 179 QVSSIFWLLHSDLHEIKFTSVLEYLSSMVASVEPFNQAAFGQRVDLENLSMLEQNFRKGK 238
           Q+SS+FW L++DLH+ K T+ LEY+S+M A++EP   ++ GQR  LENL  + Q+F KG+
Sbjct: 177 QISSVFWSLNTDLHQEKVTNALEYISTMKANLEPLCPSSDGQRNALENLFSVHQDFGKGR 236

Query: 239 FHVRFKRRNGRVRVM 253
           FHVRFK R GRVRVM
Sbjct: 237 FHVRFKLRKGRVRVM 251

Source: Arabidopsis thaliana

Species: Arabidopsis thaliana

Genus: Arabidopsis

Family: Brassicaceae

Order: Brassicales

Phylum: Streptophyta

Superkingdom: Eukaryota

---

Prediction of Gene Ontology (GO) Terms

Close Homologs with Gene Ontology terms Detected by BLAST

Original result of BLAST against Gene Ontology (AMIGO)

ID	Length	Definition	Q cover	H cover	Identity	E-value
Query	283
TAIR|locus:2062190	374	AT2G18410 "AT2G18410" [Arabido	0.879	0.665	0.572	1.1e-71

TAIR|locus:2062190 AT2G18410 "AT2G18410" [Arabidopsis thaliana (taxid:3702)]

 Score = 725 (260.3 bits), Expect = 1.1e-71, P = 1.1e-71
 Identities = 146/255 (57%), Positives = 195/255 (76%)

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 FCQDVRNLDKLYSLIIEQGKGLIGQGKDRFSIAIDSVSEMVRHASISSVAGILSNLRSHD 178
               + V +L KL+S IIE G+ L+G GK RF +AIDSV+E++RH+++  V+G+L++LRSH 
Sbjct:   117 LHKCVSDLKKLFSSIIEAGRELVGTGKTRFCVAIDSVNELLRHSAMPLVSGLLTDLRSHA 176

Query:   179 QVSSIFWLLHSDLHEIKFTSVLEYLSSMVASVEPFNQAAFGQRVDLENLSMLEQNFRKGK 238
             Q+SS+FW L++DLH+ K T+ LEY+S+M A++EP   ++ GQR  LENL  + Q+F KG+
Sbjct:   177 QISSVFWSLNTDLHQEKVTNALEYISTMKANLEPLCPSSDGQRNALENLFSVHQDFGKGR 236

Query:   239 FHVRFKRRNGRVRVM 253
             FHVRFK R GRVRVM
Sbjct:   237 FHVRFKLRKGRVRVM 251


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        0.323   0.137   0.409    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      283       283   0.00084  115 3  11 22  0.45    33
                                                     33  0.42    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:  607 (65 KB)
  Total size of DFA:  206 KB (2116 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:  24.14u 0.11s 24.25t   Elapsed:  00:00:01
  Total cpu time:  24.14u 0.11s 24.25t   Elapsed:  00:00:01
  Start:  Thu May  9 23:32:44 2013   End:  Thu May  9 23:32:45 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

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

Conserved Domains Detected by HHsearch

Original result of HHsearch against CDD database

ID	Length	Definition	Probability
Query	283
PF10483	280	Elong_Iki1: Elongator subunit Iki1; InterPro: IPR0	99.92
PF09807	249	DUF2348: Uncharacterized conserved protein (DUF234	99.21
PF06745	226	KaiC: KaiC; InterPro: IPR014774 This entry represe	98.25
TIGR03877	237	thermo_KaiC_1 KaiC domain protein, Ph0284 family.	97.94
PRK06067	234	flagellar accessory protein FlaH; Validated	97.83
PRK04328	249	hypothetical protein; Provisional	97.8
COG2874	235	FlaH Predicted ATPases involved in biogenesis of a	97.44
PRK09302	509	circadian clock protein KaiC; Reviewed	97.11
PRK09302	509	circadian clock protein KaiC; Reviewed	96.87
TIGR03881	229	KaiC_arch_4 KaiC domain protein, PAE1156 family. M	96.24
cd01124	187	KaiC KaiC is a circadian clock protein primarily f	96.01
TIGR02655	484	circ_KaiC circadian clock protein KaiC. Members of	95.9
COG0467	260	RAD55 RecA-superfamily ATPases implicated in signa	95.85
TIGR02655	484	circ_KaiC circadian clock protein KaiC. Members of	95.68
TIGR03878	259	thermo_KaiC_2 KaiC domain protein, AF_0795 family.	95.47
PF05625	363	PAXNEB: PAXNEB protein; InterPro: IPR008728 The RN	95.26
KOG4723	248	consensus Uncharacterized conserved protein [Funct	95.13
TIGR03880	224	KaiC_arch_3 KaiC domain protein, AF_0351 family. T	94.82
PRK08533	230	flagellar accessory protein FlaH; Reviewed	94.35
TIGR02237	209	recomb_radB DNA repair and recombination protein R	93.5
PRK05973	237	replicative DNA helicase; Provisional	93.22
PRK04301	317	radA DNA repair and recombination protein RadA; Va	91.86
TIGR02236	310	recomb_radA DNA repair and recombination protein R	91.75
PRK09361	225	radB DNA repair and recombination protein RadB; Pr	91.49
cd00984	242	DnaB_C DnaB helicase C terminal domain. The hexame	91.45
PRK11823	446	DNA repair protein RadA; Provisional	89.7
cd01121	372	Sms Sms (bacterial radA) DNA repair protein. This	89.56
cd01393	226	recA_like RecA is a bacterial enzyme which has rol	89.49
cd01123	235	Rad51_DMC1_radA Rad51_DMC1_radA,B. This group of r	89.06
cd01125	239	repA Hexameric Replicative Helicase RepA. RepA is	86.36
PTZ00035	337	Rad51 protein; Provisional	86.22
TIGR02238	313	recomb_DMC1 meiotic recombinase Dmc1. This model d	85.99
cd01394	218	radB RadB. The archaeal protein radB shares simila	83.32
TIGR02239	316	recomb_RAD51 DNA repair protein RAD51. This eukary	83.16
PLN03187	344	meiotic recombination protein DMC1 homolog; Provis	81.86

>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)

Probab=99.92  E-value=5.3e-25  Score=203.83  Aligned_cols=184  Identities=23%  Similarity=0.240  Sum_probs=111.9

Q ss_pred             CCCCceeecccCCCCchhhHHHHHHHHHHHHHHhhccccceeEEEEeecChHHHHHHHhhcCcCccCCCCeEEEEeccCC
Q 023377           17 EHAPALTIKDSKASPFGFDVFNYVLTQLSNYILAGKSQSRGLVVVAYSRSPSFYVDLLKRRGIDIASSHDWIHILDCYTD   96 (283)
Q Consensus        17 e~ap~l~i~Dsl~~~~g~~~~~h~~~~l~s~i~a~~~q~~~Vhvl~fe~Spe~y~~~lk~~G~d~~s~~~ri~i~D~ySD   96 (283)
                      |..|+++|.||++.|+ ..+++++       |+..+.++..||+|+||.+++  .+     |+|... +.+         
T Consensus        10 d~spl~Li~DSl~q~a-~~Ll~e~-------i~~a~~~~~~V~~lsfEt~~~--~~-----~~d~~~-~~~---------   64 (280)
T PF10483_consen   10 DASPLTLILDSLEQSA-RPLLKEF-------IRRAKSRNEKVHFLSFETLNK--PE-----YADSFI-NAR---------   64 (280)
T ss_dssp             S--SEEEEEEBTTB-S-HHHHHHH-------HHHHTS----EEEEESS--S----T-----T-SEEE-ETT---------
T ss_pred             CCCCeEEEEEcccccC-HHHHHHH-------HHHHHcCCCeEEEEEeEeCCC--cc-----cCCeec-ccc---------
Confidence            3789999999999984 6666665       445688999999999999888  44     667444 222         


Q ss_pred             CCCCcccccCCccccccccccccccchhhhhHHHHHHHHhccCccCCCCCcEEEEEechhHHHHhcChHHHHHHHHhhhc
Q 023377           97 PLGWKNWLIDKDISQEASSLSSFCQDVRNLDKLYSLIIEQGKGLIGQGKDRFSIAIDSVSEMVRHASISSVAGILSNLRS  176 (283)
Q Consensus        97 PLGW~~~~~~~~~~~~~s~~~~~~~~v~~L~sl~~si~e~~r~~~~~~k~~~tVaIDSLS~LL~h~s~~~vc~lL~~Lr~  176 (283)
                        +|+                        +.+++..|.........+++.+++|+||||+||++|+++ .++++|++|.+
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              222                        122223333331112222344699999999999999999 99999999998


Q ss_pred             CCceeEEEeeecccc-------cchhhHhHHhhhheeEEEeecCCcccccccccchhhhhhh------ccccceeEEEEE
Q 023377          177 HDQVSSIFWLLHSDL-------HEIKFTSVLEYLSSMVASVEPFNQAAFGQRVDLENLSMLE------QNFRKGKFHVRF  243 (283)
Q Consensus       177 ~~~vssVl~LLHsDL-------He~~~v~ALe~LSstvvtv~P~~~~~~~~~~~~~~~~~l~------~n~~k~~~~vr~  243 (283)
                      +++ ++|+|++|+|+       |+|+++++|+|||||+++|+|.......+++.-+++..++      .|..+.++++++
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            787 78999999999       9999999999999999999999998877776666665554      556689999999


Q ss_pred             eccCCceehh
Q 023377          244 KRRNGRVRVM  253 (283)
Q Consensus       244 KrRnGRV~~~  253 (283)
                      |||+||+...
T Consensus       197 RrksGR~~~e  206 (280)
T PF10483_consen  197 RRKSGRVVSE  206 (280)
T ss_dssp             E-TTS-EEEE
T ss_pred             EcCCCCcEeE
Confidence            9999997653

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

Probab=99.21  E-value=6.7e-10  Score=102.13  Aligned_cols=203  Identities=19%  Similarity=0.264  Sum_probs=141.0

Q ss_pred             CCCceeecccCCCCchhhHHHHHHHHHHHHHHhhccccceeEEEEeecChHHHHHHHhhcCcCccCC--CCeEEEEeccC
Q 023377           18 HAPALTIKDSKASPFGFDVFNYVLTQLSNYILAGKSQSRGLVVVAYSRSPSFYVDLLKRRGIDIASS--HDWIHILDCYT   95 (283)
Q Consensus        18 ~ap~l~i~Dsl~~~~g~~~~~h~~~~l~s~i~a~~~q~~~Vhvl~fe~Spe~y~~~lk~~G~d~~s~--~~ri~i~D~yS   95 (283)
                      ..-.++|+|+ .++ |.=+..|++   +..++    .+..|.+|+|..+.+.|...++|-|.+-...  +.+++++|..+
T Consensus        18 ~g~~ili~d~-~~d-gsFLlh~~L---~~~Lk----~~~~V~fv~~~q~~~HY~~v~~KLG~NL~~~~~~gql~fiD~l~   88 (249)
T PF09807_consen   18 PGKLILIEDC-ETD-GSFLLHHFL---SQYLK----AGCKVCFVAFSQSFSHYNNVAQKLGVNLSAAKEKGQLVFIDGLK   88 (249)
T ss_pred             CCeEEEEEcC-CCC-chhHHHHHH---HHHhc----CCCcEEEEEccCCHHHHHHHHHhhEecchHhccCCcEEEeehhh
Confidence            3446999999 887 566777884   44444    5568999999999999999999999997752  34799999999


Q ss_pred             CCCCCcccccCCccccccccccccccchhhhhHHHHHHHHhccCccCCCCCcEEEEEechhHHHH-hcChHHHHHHHHhh
Q 023377           96 DPLGWKNWLIDKDISQEASSLSSFCQDVRNLDKLYSLIIEQGKGLIGQGKDRFSIAIDSVSEMVR-HASISSVAGILSNL  174 (283)
Q Consensus        96 DPLGW~~~~~~~~~~~~~s~~~~~~~~v~~L~sl~~si~e~~r~~~~~~k~~~tVaIDSLS~LL~-h~s~~~vc~lL~~L  174 (283)
                      ++++|--....++...  +..+.--.+...|.+++..|.+..+...+ .++ ++|+||-||.|+- ..+..+|-.+++.+
T Consensus        89 ~~~~~l~~~~~~~~~~--~~~~l~~~~~~~L~~L~~~I~~~l~~~~~-~~~-~~liIDdls~Ll~lG~s~~~vldF~~yc  164 (249)
T PF09807_consen   89 SSLDLLFDEDSSDEPN--PLKFLREDNASSLRSLYEFIQEALSPADS-NGS-VVLIIDDLSVLLSLGVSSNDVLDFIHYC  164 (249)
T ss_pred             hhhhhhhccccccCCc--cccccccCCcchHHHHHHHHHHHHhhccC-CCC-eEEEEeCHHHHHHcCCCHHHHHHHHHHH
Confidence            8887742211000100  11111111234588898988888883333 333 8999999999997 34455788899888


Q ss_pred             hc---CCceeEEEeeeccccc---c-h-hhHhHHhhhheeEEEeecCCcccccccccchhhhhhhccccceeEEEEEecc
Q 023377          175 RS---HDQVSSIFWLLHSDLH---E-I-KFTSVLEYLSSMVASVEPFNQAAFGQRVDLENLSMLEQNFRKGKFHVRFKRR  246 (283)
Q Consensus       175 r~---~~~vssVl~LLHsDLH---e-~-~~v~ALe~LSstvvtv~P~~~~~~~~~~~~~~~~~l~~n~~k~~~~vr~KrR  246 (283)
                      +.   ...-.+++.|+|.|--   + . .....|+|+|..+|+++|+.-+-  ++.            =-|+++|.-|+.
T Consensus       165 ra~l~~~~~~~lVvl~h~d~~~~~e~~~~l~~~L~h~a~l~i~v~~L~TG~--s~D------------VhGqL~v~~r~~  230 (249)
T PF09807_consen  165 RATLCSESNGSLVVLVHCDIDDEDEENDLLLNSLAHMADLVITVEPLPTGY--SKD------------VHGQLTVLWRGN  230 (249)
T ss_pred             HHHhccccCCCEEEEEecCCCCccchHHHHHHHHHHHhcEEEEecCCCCcc--ccc------------ceEEEEEEEccC
Confidence            84   2234588899998865   2 2 27899999999999999965533  111            137888866654


Q ss_pred             C
Q 023377          247 N  247 (283)
Q Consensus       247 n  247 (283)
                      .
T Consensus       231 ~  231 (249)
T PF09807_consen  231 S  231 (249)
T ss_pred             C
Confidence            3

>PF06745 KaiC: KaiC; InterPro: IPR014774 This entry represents a domain within bacterial and archaeal proteins, most of which are hypothetical

Probab=98.25  E-value=4.9e-06  Score=73.22  Aligned_cols=137  Identities=20%  Similarity=0.241  Sum_probs=90.0

Q ss_pred             hhccc-cceeEEEEeecChHHHHHHHhhcCcCccCC--CCeEEEEeccCCCCCCcccccCCccccccccccccccchhhh
Q 023377           50 AGKSQ-SRGLVVVAYSRSPSFYVDLLKRRGIDIASS--HDWIHILDCYTDPLGWKNWLIDKDISQEASSLSSFCQDVRNL  126 (283)
Q Consensus        50 a~~~q-~~~Vhvl~fe~Spe~y~~~lk~~G~d~~s~--~~ri~i~D~ySDPLGW~~~~~~~~~~~~~s~~~~~~~~v~~L  126 (283)
                      ++..+ ++.+..+.+|-+|+++.+-++..|+|.+..  +.+++++|+++...+|...                  ++..+
T Consensus        42 ~~~~~~ge~vlyvs~ee~~~~l~~~~~s~g~d~~~~~~~g~l~~~d~~~~~~~~~~~------------------~~~~l  103 (226)
T PF06745_consen   42 NGLKNFGEKVLYVSFEEPPEELIENMKSFGWDLEEYEDSGKLKIIDAFPERIGWSPN------------------DLEEL  103 (226)
T ss_dssp             HHHHHHT--EEEEESSS-HHHHHHHHHTTTS-HHHHHHTTSEEEEESSGGGST-TSC------------------CHHHH
T ss_pred             HhhhhcCCcEEEEEecCCHHHHHHHHHHcCCcHHHHhhcCCEEEEeccccccccccc------------------CHHHH
Confidence            46677 999999999999999999999999876542  3359999999999988821                  22233


Q ss_pred             hHHHHHHHHhccCccCCCCCcEEEEEechhHHHHhcChHHHHHHHHhhhcC---CceeEEEeeecccccchhhHhHHhh-
Q 023377          127 DKLYSLIIEQGKGLIGQGKDRFSIAIDSVSEMVRHASISSVAGILSNLRSH---DQVSSIFWLLHSDLHEIKFTSVLEY-  202 (283)
Q Consensus       127 ~sl~~si~e~~r~~~~~~k~~~tVaIDSLS~LL~h~s~~~vc~lL~~Lr~~---~~vssVl~LLHsDLHe~~~v~ALe~-  202 (283)
                      ...+...++..+       + -.|+||||+.+....+....-..+++|.+.   ..+..++-.-..+-+++.....+++ 
T Consensus       104 ~~~i~~~i~~~~-------~-~~vVIDsls~l~~~~~~~~~r~~l~~l~~~l~~~~~t~llt~~~~~~~~~~~~~~i~~~  175 (226)
T PF06745_consen  104 LSKIREAIEELK-------P-DRVVIDSLSALLLYDDPEELRRFLRALIKFLKSRGVTTLLTSEMPSGSEDDGTFGIEHY  175 (226)
T ss_dssp             HHHHHHHHHHHT-------S-SEEEEETHHHHTTSSSGGGHHHHHHHHHHHHHHTTEEEEEEEEESSSSSSSSSTSHHHH
T ss_pred             HHHHHHHHHhcC-------C-CEEEEECHHHHhhcCCHHHHHHHHHHHHHHHHHCCCEEEEEEccccCcccccccchhhh
Confidence            322233333222       2 489999999996667766666666666542   3455554444344555666666766 


Q ss_pred             hheeEEEeec
Q 023377          203 LSSMVASVEP  212 (283)
Q Consensus       203 LSstvvtv~P  212 (283)
                      ++.++|.+.=
T Consensus       176 l~D~vI~L~~  185 (226)
T PF06745_consen  176 LADGVIELRY  185 (226)
T ss_dssp             HSSEEEEEEE
T ss_pred             cccEEEEEEE
Confidence            9999999964

More than one copy is sometimes found in each protein in this entry. These include KaiC, which is one of the Kai proteins among which direct protein-protein association may be a critical process in the generation of circadian rhythms in cyanobacteria []. The circadian clock protein KaiC, is encoded in the kaiABC operon that controls circadian rhythms and may be universal in Cyanobacteria. Each member contains two copies of this domain, which is also found in other proteins. KaiC performs autophosphorylation and acts as its own transcriptional repressor. RadA/Sms is a highly conserved eubacterial protein that shares sequence similarity with both RecA strand transferase and lon protease. The RadA/Sms family are probable ATP-dependent proteases involved in both DNA repair and degradation of proteins, peptides, glycopeptides. They are classified in as non-peptidase homologues and unassigned peptidases in MEROPS peptidase family S16 (lon protease family, clan SJ). RadA/Sms is involved in recombination and recombinational repair, most likely involving the stabilisation or processing of branched DNA molecules or blocked replication forks because of its genetic redundancy with RecG and RuvABC [].; PDB: 2W0M_A 2ZTS_C 4DUG_B 3K0E_B 3K09_B 3S1A_E 3JZM_E 2GBL_B 3DVL_A 1TF7_C ....

>TIGR03877 thermo_KaiC_1 KaiC domain protein, Ph0284 family

Probab=97.94  E-value=0.00013  Score=65.54  Aligned_cols=143  Identities=17%  Similarity=0.181  Sum_probs=85.8

Q ss_pred             hccccceeEEEEeecChHHHHHHHhhcCcCccC--CCCeEEEEeccCCCCCCcccccCCccccccccccccccchhhhhH
Q 023377           51 GKSQSRGLVVVAYSRSPSFYVDLLKRRGIDIAS--SHDWIHILDCYTDPLGWKNWLIDKDISQEASSLSSFCQDVRNLDK  128 (283)
Q Consensus        51 ~~~q~~~Vhvl~fe~Spe~y~~~lk~~G~d~~s--~~~ri~i~D~ySDPLGW~~~~~~~~~~~~~s~~~~~~~~v~~L~s  128 (283)
                      +..+++.+..+.+|-+|+++.+-++..|+|...  -..++.++|+|++-.++......           -+..+..++..
T Consensus        45 ~~~~ge~~lyvs~ee~~~~i~~~~~~~g~~~~~~~~~g~l~~~d~~~~~~~~~~~~~~-----------~~~~~~~~~~~  113 (237)
T TIGR03877        45 GLQMGEPGIYVALEEHPVQVRRNMAQFGWDVRKYEEEGKFAIVDAFTGGIGEAAEREK-----------YVVKDPTDVRE  113 (237)
T ss_pred             HHHcCCcEEEEEeeCCHHHHHHHHHHhCCCHHHHhhcCCEEEEecccccccccccccc-----------ccccCcccHHH
Confidence            446799999999999999999999999988542  13479999999985554432110           11112234455


Q ss_pred             HHHHHHHhccCccCCCCCcEEEEEechhHHHHhcCh---HHHHHHHHhhhcCCceeEEEeeecccccchhh-HhHHhhhh
Q 023377          129 LYSLIIEQGKGLIGQGKDRFSIAIDSVSEMVRHASI---SSVAGILSNLRSHDQVSSIFWLLHSDLHEIKF-TSVLEYLS  204 (283)
Q Consensus       129 l~~si~e~~r~~~~~~k~~~tVaIDSLS~LL~h~s~---~~vc~lL~~Lr~~~~vssVl~LLHsDLHe~~~-v~ALe~LS  204 (283)
                      ++..+.+..+    +.++ -.|+||||+.++...+.   ..+-++.+.+++.+ +..++ .-|.+..+... ...++|++
T Consensus       114 ~~~~i~~~i~----~~~~-~~vVIDSls~l~~~~~~~~r~~l~~l~~~lk~~~-~t~ll-t~~~~~~~~~~~~~~~~~~~  186 (237)
T TIGR03877       114 LIDVLRQAIR----DINA-KRVVIDSVTTLYITKPAMARSIVMQLKRVLSGLG-CTSIF-VSQVSVGERGFGGPGVEHAV  186 (237)
T ss_pred             HHHHHHHHHH----HhCC-CEEEEcChhHhhcCChHHHHHHHHHHHHHHHhCC-CEEEE-EECcccccccccccceEEEE
Confidence            5555555444    1122 27999999998764432   12333444455433 33333 23332222111 12478999


Q ss_pred             eeEEEee
Q 023377          205 SMVASVE  211 (283)
Q Consensus       205 stvvtv~  211 (283)
                      -++|.+.
T Consensus       187 D~vI~L~  193 (237)
T TIGR03877       187 DGIIRLD  193 (237)
T ss_pred             eEEEEEE
Confidence            9999886

Members of this family contain a single copy of the KaiC domain (pfam06745) that occurs in two copies of the circadian clock protein kinase KaiC itself. Members occur primarily in thermophilic archaea and in Thermotoga.

>PRK06067 flagellar accessory protein FlaH; Validated

Probab=97.83  E-value=0.00069  Score=60.22  Aligned_cols=137  Identities=20%  Similarity=0.270  Sum_probs=94.8

Q ss_pred             hccccceeEEEEeecChHHHHHHHhhcCcCccCC--CCeEEEEeccCCCCCCcccccCCccccccccccccccchhhhhH
Q 023377           51 GKSQSRGLVVVAYSRSPSFYVDLLKRRGIDIASS--HDWIHILDCYTDPLGWKNWLIDKDISQEASSLSSFCQDVRNLDK  128 (283)
Q Consensus        51 ~~~q~~~Vhvl~fe~Spe~y~~~lk~~G~d~~s~--~~ri~i~D~ySDPLGW~~~~~~~~~~~~~s~~~~~~~~v~~L~s  128 (283)
                      +..+++.+..+.+|.+|+++.+-+++.|+|....  ...+.++|.+..+..|...                  +.   ..
T Consensus        49 ~~~~g~~~~y~~~e~~~~~~~~~~~~~g~~~~~~~~~g~l~i~~~~~~~~~~~~~------------------~~---~~  107 (234)
T PRK06067         49 ALKQGKKVYVITTENTSKSYLKQMESVKIDISDFFLWGYLRIFPLNTEGFEWNST------------------LA---NK  107 (234)
T ss_pred             HHhCCCEEEEEEcCCCHHHHHHHHHHCCCChhHHHhCCCceEEeccccccccCcc------------------hH---HH
Confidence            4457999999999999999999999999886541  3357777777666655432                  11   22


Q ss_pred             HHHHHHHhccCccCCCCCcEEEEEechhHHHHhcChHHHHHHHHhhhcC-CceeEEEeeecccccchhhHhHHhhhheeE
Q 023377          129 LYSLIIEQGKGLIGQGKDRFSIAIDSVSEMVRHASISSVAGILSNLRSH-DQVSSIFWLLHSDLHEIKFTSVLEYLSSMV  207 (283)
Q Consensus       129 l~~si~e~~r~~~~~~k~~~tVaIDSLS~LL~h~s~~~vc~lL~~Lr~~-~~vssVl~LLHsDLHe~~~v~ALe~LSstv  207 (283)
                      ++..+.+..+    +.++ -.|+|||++.++...+...+.+++..|+.. ..=..++...|.+.+.+.....+++++-.+
T Consensus       108 ll~~l~~~i~----~~~~-~~iviDs~t~~~~~~~~~~~~~~l~~l~~l~~~g~tvllt~~~~~~~~~~~~~~~~l~Dgv  182 (234)
T PRK06067        108 LLELIIEFIK----SKRE-DVIIIDSLTIFATYAEEDDILNFLTEAKNLVDLGKTILITLHPYAFSEELLSRIRSICDVY  182 (234)
T ss_pred             HHHHHHHHHH----hcCC-CEEEEecHHHHHhcCCHHHHHHHHHHHHHHHhCCCEEEEEecCCcCCHHHHHHHHhheEEE
Confidence            3333333333    1122 379999999998878887777775555331 122456777787777777778899999999


Q ss_pred             EEeecC
Q 023377          208 ASVEPF  213 (283)
Q Consensus       208 vtv~P~  213 (283)
                      +.+.-.
T Consensus       183 I~L~~~  188 (234)
T PRK06067        183 LKLRAE  188 (234)
T ss_pred             EEEEee
Confidence            999753

>PRK04328 hypothetical protein; Provisional

Probab=97.80  E-value=0.00032  Score=63.85  Aligned_cols=144  Identities=19%  Similarity=0.177  Sum_probs=86.7

Q ss_pred             hhccccceeEEEEeecChHHHHHHHhhcCcCccC--CCCeEEEEeccCCCCCCcccccCCccccccccccccccchhhhh
Q 023377           50 AGKSQSRGLVVVAYSRSPSFYVDLLKRRGIDIAS--SHDWIHILDCYTDPLGWKNWLIDKDISQEASSLSSFCQDVRNLD  127 (283)
Q Consensus        50 a~~~q~~~Vhvl~fe~Spe~y~~~lk~~G~d~~s--~~~ri~i~D~ySDPLGW~~~~~~~~~~~~~s~~~~~~~~v~~L~  127 (283)
                      .+..+++.+..+.+|-+|+.+++-+++.|+|...  -+.++.++|+|+.-.|.......           -+..+..++.
T Consensus        46 ~~~~~ge~~lyis~ee~~~~i~~~~~~~g~d~~~~~~~~~l~iid~~~~~~~~~~~~~~-----------~~~~~~~~~~  114 (249)
T PRK04328         46 NGLQMGEPGVYVALEEHPVQVRRNMRQFGWDVRKYEEEGKFAIVDAFTGGIGSAAKREK-----------YVVKDPDDVR  114 (249)
T ss_pred             HHHhcCCcEEEEEeeCCHHHHHHHHHHcCCCHHHHhhcCCEEEEecccccccccccccc-----------ccccCcccHH
Confidence            3567799999999999999999999999987543  13479999999987765431110           1112233455


Q ss_pred             HHHHHHHHhccCccCCCCCcEEEEEechhHHHHhcCh---HHHHHHHHhhhcCCceeEEEeeecccccchhh-HhHHhhh
Q 023377          128 KLYSLIIEQGKGLIGQGKDRFSIAIDSVSEMVRHASI---SSVAGILSNLRSHDQVSSIFWLLHSDLHEIKF-TSVLEYL  203 (283)
Q Consensus       128 sl~~si~e~~r~~~~~~k~~~tVaIDSLS~LL~h~s~---~~vc~lL~~Lr~~~~vssVl~LLHsDLHe~~~-v~ALe~L  203 (283)
                      .++..+.+..+    +.++ -.|+||||+.|.+..+-   ..+.++.+.|++.+ +..++- .|.+..+... -..++|+
T Consensus       115 ~~~~~i~~~i~----~~~~-~~vVIDSlt~l~~~~~~~~r~~~~~l~~~lk~~g-~t~llt-~e~~~~~~~~~~~~~~~~  187 (249)
T PRK04328        115 ELIDVLRQAIK----DIGA-KRVVIDSVSTLYLTKPAMARSIVMQLKRVLSGLG-CTAIFV-SQVSVGERGFGGPGVEHA  187 (249)
T ss_pred             HHHHHHHHHHH----hhCC-CEEEEeChhHhhcCChHHHHHHHHHHHHHHHhCC-CEEEEE-ECccccccccCCCCcEEE
Confidence            55555555444    1122 37999999998764321   12344445555533 333322 2333222111 1246889


Q ss_pred             heeEEEee
Q 023377          204 SSMVASVE  211 (283)
Q Consensus       204 Sstvvtv~  211 (283)
                      +-++|.+.
T Consensus       188 ~D~vI~L~  195 (249)
T PRK04328        188 VDGIIRLD  195 (249)
T ss_pred             EEEEEEEE
Confidence            99999885

>COG2874 FlaH Predicted ATPases involved in biogenesis of archaeal flagella [Cell motility and secretion / Intracellular trafficking and secretion]

Probab=97.44  E-value=0.0066  Score=56.44  Aligned_cols=168  Identities=15%  Similarity=0.146  Sum_probs=123.9

Q ss_pred             cc-cCCCCCceeecccCCCCchhhHHHHHHHHHHHHHHhhccccceeEEEEeecChHHHHHHHhhcCcCccC--CCCeEE
Q 023377           13 GL-EGEHAPALTIKDSKASPFGFDVFNYVLTQLSNYILAGKSQSRGLVVVAYSRSPSFYVDLLKRRGIDIAS--SHDWIH   89 (283)
Q Consensus        13 ~l-~ge~ap~l~i~Dsl~~~~g~~~~~h~~~~l~s~i~a~~~q~~~Vhvl~fe~Spe~y~~~lk~~G~d~~s--~~~ri~   89 (283)
                      +| .|=+.|.|++-.-=.+++=..+.+-++       -..-.++..+..+.-|.+--+|..-|..-|.|..-  ++.++.
T Consensus        20 rLGGGiP~GsL~lIEGd~~tGKSvLsqr~~-------YG~L~~g~~v~yvsTe~T~refi~qm~sl~ydv~~~~l~G~l~   92 (235)
T COG2874          20 RLGGGIPVGSLILIEGDNGTGKSVLSQRFA-------YGFLMNGYRVTYVSTELTVREFIKQMESLSYDVSDFLLSGRLL   92 (235)
T ss_pred             hccCCCccCeEEEEECCCCccHHHHHHHHH-------HHHHhCCceEEEEEechhHHHHHHHHHhcCCCchHHHhcceeE
Confidence            45 346666665433333333233222221       13556788999999999999999999988877554  566777


Q ss_pred             EEeccCCCCCCcccccCCccccccccccccccchhhhhHHHHHHHHhccCccCCCCCcEEEEEechhHHHHhcChHHHHH
Q 023377           90 ILDCYTDPLGWKNWLIDKDISQEASSLSSFCQDVRNLDKLYSLIIEQGKGLIGQGKDRFSIAIDSVSEMVRHASISSVAG  169 (283)
Q Consensus        90 i~D~ySDPLGW~~~~~~~~~~~~~s~~~~~~~~v~~L~sl~~si~e~~r~~~~~~k~~~tVaIDSLS~LL~h~s~~~vc~  169 (283)
                      |.-...+|..|+....                     +++++.++|..| .-.  +.  +|.|||||..+.+.+..++-+
T Consensus        93 ~~~~~~~~~~~~~~~~---------------------~~~L~~l~~~~k-~~~--~d--ViIIDSls~~~~~~~~~~vl~  146 (235)
T COG2874          93 FFPVNLEPVNWGRRSA---------------------RKLLDLLLEFIK-RWE--KD--VIIIDSLSAFATYDSEDAVLN  146 (235)
T ss_pred             EEEecccccccChHHH---------------------HHHHHHHHhhHH-hhc--CC--EEEEecccHHhhcccHHHHHH
Confidence            8777779999998633                     334455566555 222  44  899999999999999999999


Q ss_pred             HHHhhhc-CCceeEEEeeecccccchhhHhHHhhhheeEEEeecC
Q 023377          170 ILSNLRS-HDQVSSIFWLLHSDLHEIKFTSVLEYLSSMVASVEPF  213 (283)
Q Consensus       170 lL~~Lr~-~~~vssVl~LLHsDLHe~~~v~ALe~LSstvvtv~P~  213 (283)
                      ++..+|+ +++=.-|+--+|.+.-.+.++.-++..+++-+.++-.
T Consensus       147 fm~~~r~l~d~gKvIilTvhp~~l~e~~~~rirs~~d~~l~L~~~  191 (235)
T COG2874         147 FMTFLRKLSDLGKVIILTVHPSALDEDVLTRIRSACDVYLRLRLE  191 (235)
T ss_pred             HHHHHHHHHhCCCEEEEEeChhhcCHHHHHHHHHhhheeEEEEhh
Confidence            9999998 4566778889999999999999999999999888653

>PRK09302 circadian clock protein KaiC; Reviewed

Probab=97.11  E-value=0.0031  Score=62.79  Aligned_cols=132  Identities=16%  Similarity=0.223  Sum_probs=83.7

Q ss_pred             hhccccceeEEEEeecChHHHHHHHhhcCcCccC--CCCeEEEEeccCCCCCCcccccCCccccccccccccccchhhhh
Q 023377           50 AGKSQSRGLVVVAYSRSPSFYVDLLKRRGIDIAS--SHDWIHILDCYTDPLGWKNWLIDKDISQEASSLSSFCQDVRNLD  127 (283)
Q Consensus        50 a~~~q~~~Vhvl~fe~Spe~y~~~lk~~G~d~~s--~~~ri~i~D~ySDPLGW~~~~~~~~~~~~~s~~~~~~~~v~~L~  127 (283)
                      .+..+++.+..+.||-+|+.+.+-++..|+|.+.  -+..+.+++.+.++.+|+..                        
T Consensus       296 ~~~~~g~~~~yis~e~~~~~i~~~~~~~g~~~~~~~~~g~l~i~~~~~~~~~~~~~------------------------  351 (509)
T PRK09302        296 AACRRGERCLLFAFEESRAQLIRNARSWGIDLEKMEEKGLLKIICARPESYGLEDH------------------------  351 (509)
T ss_pred             HHHhCCCcEEEEEecCCHHHHHHHHHHcCCChHHHhhcCCceeecCCcccCCHHHH------------------------
Confidence            3456799999999999999999999988887544  12356778877666544321                        


Q ss_pred             HHHHHHHHhccCccCCCCCcEEEEEechhHHHHhcChHHHHHHHHhhhcC---CceeEEEeee-cccc-cchhhHhHHhh
Q 023377          128 KLYSLIIEQGKGLIGQGKDRFSIAIDSVSEMVRHASISSVAGILSNLRSH---DQVSSIFWLL-HSDL-HEIKFTSVLEY  202 (283)
Q Consensus       128 sl~~si~e~~r~~~~~~k~~~tVaIDSLS~LL~h~s~~~vc~lL~~Lr~~---~~vssVl~LL-HsDL-He~~~v~ALe~  202 (283)
                        +..+.+..+    +.++ -.|+||||+.+....+...+-+.|..|.+.   -.+..++-.. +.+. +.+.....++|
T Consensus       352 --~~~i~~~i~----~~~~-~~vVIDslt~l~~~~~~~~~~~~l~~l~~~~k~~~~t~l~t~~~~~~~g~~~~~~~~~~~  424 (509)
T PRK09302        352 --LIIIKREIE----EFKP-SRVAIDPLSALARGGSLNEFRQFVIRLTDYLKSEEITGLFTNLTPDFMGSHSITESHISS  424 (509)
T ss_pred             --HHHHHHHHH----HcCC-CEEEEcCHHHHHHhCCHHHHHHHHHHHHHHHHhCCCeEEEEeccccccCCCCCCcCceEE
Confidence              112222222    1233 379999999999877766555555544331   3455555433 2222 23333345899


Q ss_pred             hheeEEEeec
Q 023377          203 LSSMVASVEP  212 (283)
Q Consensus       203 LSstvvtv~P  212 (283)
                      ++.++|.+.=
T Consensus       425 l~D~vI~L~~  434 (509)
T PRK09302        425 LTDTWILLQY  434 (509)
T ss_pred             eeeEEEEEEE
Confidence            9999999963

>PRK09302 circadian clock protein KaiC; Reviewed

Probab=96.87  E-value=0.012  Score=58.56  Aligned_cols=137  Identities=18%  Similarity=0.175  Sum_probs=87.3

Q ss_pred             hhccc-cceeEEEEeecChHHHHHHHhhcCcCccCC--CCeEEEEeccCCCCCCcccccCCccccccccccccccchhhh
Q 023377           50 AGKSQ-SRGLVVVAYSRSPSFYVDLLKRRGIDIASS--HDWIHILDCYTDPLGWKNWLIDKDISQEASSLSSFCQDVRNL  126 (283)
Q Consensus        50 a~~~q-~~~Vhvl~fe~Spe~y~~~lk~~G~d~~s~--~~ri~i~D~ySDPLGW~~~~~~~~~~~~~s~~~~~~~~v~~L  126 (283)
                      .+..+ ++.+..+.+|-+|+++.+-++.-|+|.+..  +.++.+.|.+.+|..|... .                 ..++
T Consensus        54 ~~~~~~ge~~lyis~ee~~~~i~~~~~~~g~d~~~~~~~g~l~~~~~~~~~~~~~~~-~-----------------~~~~  115 (509)
T PRK09302         54 NGIKRFDEPGVFVTFEESPEDIIRNVASFGWDLQKLIDEGKLFILDASPDPSEQEEA-G-----------------EYDL  115 (509)
T ss_pred             HHHHhcCCCEEEEEccCCHHHHHHHHHHcCCCHHHHhhCCeEEEEecCccccccccc-c-----------------cccH
Confidence            34555 899999999999999999999999986552  3469999999999888642 1                 0133


Q ss_pred             hHHHHHHHHhccCccCCCCCcEEEEEechhHHHHhcChH-----HHHHHHHhhhcCCceeEEEeeeccccc-c-hhhHhH
Q 023377          127 DKLYSLIIEQGKGLIGQGKDRFSIAIDSVSEMVRHASIS-----SVAGILSNLRSHDQVSSIFWLLHSDLH-E-IKFTSV  199 (283)
Q Consensus       127 ~sl~~si~e~~r~~~~~~k~~~tVaIDSLS~LL~h~s~~-----~vc~lL~~Lr~~~~vssVl~LLHsDLH-e-~~~v~A  199 (283)
                      .+++..+.+..+    +.++ -.|+|||++.+.......     .+.+++..|++. .+..++. -|..-. + ....+.
T Consensus       116 ~~l~~~l~~~i~----~~~~-~~vVIDSls~l~~~~d~~~~~r~~l~~L~~~Lk~~-g~TvLlt-~~~~~~~~~~~~~~~  188 (509)
T PRK09302        116 EALFIRIEYAID----KIGA-KRVVLDSIEALFSGFSNEAVVRRELRRLFAWLKQK-GVTAVIT-GERGDEYGPLTRYGV  188 (509)
T ss_pred             HHHHHHHHHHHH----hhCC-CEEEECCHHHHHhhccCHHHHHHHHHHHHHHHHhC-CCEEEEE-ECCccCcCCccccCc
Confidence            444455555444    1222 369999999987654332     344455555543 3333333 353321 1 111234


Q ss_pred             HhhhheeEEEee
Q 023377          200 LEYLSSMVASVE  211 (283)
Q Consensus       200 Le~LSstvvtv~  211 (283)
                      .++++..++.+.
T Consensus       189 ~~~laDgVI~L~  200 (509)
T PRK09302        189 EEFVSDCVIILR  200 (509)
T ss_pred             eEEEeeEEEEEe
Confidence            588999999886

>TIGR03881 KaiC_arch_4 KaiC domain protein, PAE1156 family

Probab=96.24  E-value=0.17  Score=44.54  Aligned_cols=137  Identities=14%  Similarity=0.146  Sum_probs=76.9

Q ss_pred             ccccceeEEEEeecChHHHHHHHhhcCcCccCC--CCeEEEEeccCCCC--CCcccccCCccccccccccccccchhhhh
Q 023377           52 KSQSRGLVVVAYSRSPSFYVDLLKRRGIDIASS--HDWIHILDCYTDPL--GWKNWLIDKDISQEASSLSSFCQDVRNLD  127 (283)
Q Consensus        52 ~~q~~~Vhvl~fe~Spe~y~~~lk~~G~d~~s~--~~ri~i~D~ySDPL--GW~~~~~~~~~~~~~s~~~~~~~~v~~L~  127 (283)
                      ..+++.+..+.+|.+++.+.+-+++.|++....  +.++.+.|.++...  .|.-.            ..    ++.++.
T Consensus        45 ~~~g~~~~~is~e~~~~~i~~~~~~~g~~~~~~~~~~~l~i~d~~~~~~~~~~~~~------------~~----~~~~~~  108 (229)
T TIGR03881        45 LRDGDPVIYVTTEESRESIIRQAAQFGMDFEKAIEEGKLVIIDALMKEKEDEWSLR------------EL----SIEELL  108 (229)
T ss_pred             HhcCCeEEEEEccCCHHHHHHHHHHhCCCHHHHhhcCCEEEEEccccccccccccc------------cC----CHHHHH
Confidence            346889999999999999998888899886642  34688888765431  12210            01    222332


Q ss_pred             HHHHHHHHhccCccCCCCCcEEEEEechhHHHHhcChHHHHHHHHhhhc---CCceeEEEeeecccc-cchhhHhHHhhh
Q 023377          128 KLYSLIIEQGKGLIGQGKDRFSIAIDSVSEMVRHASISSVAGILSNLRS---HDQVSSIFWLLHSDL-HEIKFTSVLEYL  203 (283)
Q Consensus       128 sl~~si~e~~r~~~~~~k~~~tVaIDSLS~LL~h~s~~~vc~lL~~Lr~---~~~vssVl~LLHsDL-He~~~v~ALe~L  203 (283)
                         ..+.+..+ ..+ .++ -.|+|||++.++...+.. .-+.+..|.+   ...+..++ .-|-.. -++.....++|+
T Consensus       109 ---~~i~~~~~-~~~-~~~-~~vvIDsl~~l~~~~~~~-~r~~~~~l~~~l~~~~~tvil-~~~~~~~~~~~~~~~~~~l  180 (229)
T TIGR03881       109 ---NKVIEAKK-YLG-YGH-ARLVIDSMSAFWLDKPAM-ARKYSYYLKRVLNRWNFTILL-TSQYAITTSQAFGFGIEHV  180 (229)
T ss_pred             ---HHHHHHHH-hhc-cCc-eEEEecCchhhhccChHH-HHHHHHHHHHHHHhCCCEEEE-EecccccCCCCcccceEEE
Confidence               33333332 111 122 478999999998755432 2222222322   12333333 344222 222222357899


Q ss_pred             heeEEEeec
Q 023377          204 SSMVASVEP  212 (283)
Q Consensus       204 Sstvvtv~P  212 (283)
                      +-.+|.+.-
T Consensus       181 ~D~vI~L~~  189 (229)
T TIGR03881       181 ADGIIRFRK  189 (229)
T ss_pred             EeEEEEEEE
Confidence            999998874

Members of this protein family are archaeal single-domain KaiC_related proteins, homologous to the Cyanobacterial circadian clock cycle protein KaiC, an autokinase/autophosphorylase that has two copies of the domain.

>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

Probab=96.01  E-value=0.14  Score=42.88  Aligned_cols=136  Identities=18%  Similarity=0.119  Sum_probs=82.0

Q ss_pred             hccccceeEEEEeecChHHHHHHHhhcCcCccCC--CCeEEEEeccCCCCCCcccccCCccccccccccccccchhhhhH
Q 023377           51 GKSQSRGLVVVAYSRSPSFYVDLLKRRGIDIASS--HDWIHILDCYTDPLGWKNWLIDKDISQEASSLSSFCQDVRNLDK  128 (283)
Q Consensus        51 ~~~q~~~Vhvl~fe~Spe~y~~~lk~~G~d~~s~--~~ri~i~D~ySDPLGW~~~~~~~~~~~~~s~~~~~~~~v~~L~s  128 (283)
                      +..+++.+.++.+|-+++.+.+-+++.|++.+.+  +..+.+.|.+...+...+. .                ...   .
T Consensus        23 ~~~~g~~v~~~s~e~~~~~~~~~~~~~g~~~~~l~~~g~l~~~d~~~~~~s~~~~-~----------------~~~---~   82 (187)
T cd01124          23 GLARGEPGLYVTLEESPEELIENAESLGWDLERLEDEGLLAIVDADPDEIGPAES-S----------------LRL---E   82 (187)
T ss_pred             HHHCCCcEEEEECCCCHHHHHHHHHHcCCChHHHHhcCCeEEEecCccccchhhh-h----------------hhH---H
Confidence            4467899999999999999999999889885531  2346777755444421110 0                000   1


Q ss_pred             HHHHHHHhccCccCCCCCcEEEEEechhHHHH---hcChHHHHHHHHhhhcCCceeEEEeeeccccc-c-hhhHhHHhhh
Q 023377          129 LYSLIIEQGKGLIGQGKDRFSIAIDSVSEMVR---HASISSVAGILSNLRSHDQVSSIFWLLHSDLH-E-IKFTSVLEYL  203 (283)
Q Consensus       129 l~~si~e~~r~~~~~~k~~~tVaIDSLS~LL~---h~s~~~vc~lL~~Lr~~~~vssVl~LLHsDLH-e-~~~v~ALe~L  203 (283)
                      ++..+.+..+    +.++ -.|+||+++.++.   ......+-+++..|++. .+. ++..-|..-. + ......++++
T Consensus        83 ~~~~i~~~~~----~~~~-~~lviD~~~~~~~~~~~~~~~~i~~l~~~l~~~-g~t-vi~v~~~~~~~~~~~~~~~~~~~  155 (187)
T cd01124          83 LIQRLKDAIE----EFKA-KRVVIDSVSGLLLMEQSTARLEIRRLLFALKRF-GVT-TLLTSEQSGLEGTGFGGGDVEYL  155 (187)
T ss_pred             HHHHHHHHHH----HhCC-CEEEEeCcHHHhhcChHHHHHHHHHHHHHHHHC-CCE-EEEEeccccCCCcccCcCceeEe
Confidence            2222332222    1122 4899999999987   44445566777777764 333 3333443222 1 2334678999


Q ss_pred             heeEEEeecC
Q 023377          204 SSMVASVEPF  213 (283)
Q Consensus       204 Sstvvtv~P~  213 (283)
                      +..++.++-.
T Consensus       156 aD~ii~l~~~  165 (187)
T cd01124         156 VDGVIRLRLD  165 (187)
T ss_pred             eeEEEEEEEE
Confidence            9999988653

A related protein is found in archaea.

>TIGR02655 circ_KaiC circadian clock protein KaiC

Probab=95.90  E-value=0.14  Score=51.36  Aligned_cols=130  Identities=16%  Similarity=0.235  Sum_probs=76.8

Q ss_pred             hhccccceeEEEEeecChHHHHHHHhhcCcCccC--CCCeEEEEeccCCCCCCcccccCCccccccccccccccchhhhh
Q 023377           50 AGKSQSRGLVVVAYSRSPSFYVDLLKRRGIDIAS--SHDWIHILDCYTDPLGWKNWLIDKDISQEASSLSSFCQDVRNLD  127 (283)
Q Consensus        50 a~~~q~~~Vhvl~fe~Spe~y~~~lk~~G~d~~s--~~~ri~i~D~ySDPLGW~~~~~~~~~~~~~s~~~~~~~~v~~L~  127 (283)
                      +++.+++.+..+.||=|++++..=+++-|+|.+.  ...++.+++.+....+.                          .
T Consensus       286 ~~~~~ge~~~y~s~eEs~~~i~~~~~~lg~~~~~~~~~g~l~~~~~~p~~~~~--------------------------~  339 (484)
T TIGR02655       286 NACANKERAILFAYEESRAQLLRNAYSWGIDFEEMEQQGLLKIICAYPESAGL--------------------------E  339 (484)
T ss_pred             HHHHCCCeEEEEEeeCCHHHHHHHHHHcCCChHHHhhCCcEEEEEcccccCCh--------------------------H
Confidence            3556889999999999999999999999987543  12358888865432211                          1


Q ss_pred             HHHHHHHHhccCccCCCCCcEEEEEechhHHHHhcChHHHHHHHH----hhhcCCceeEEEeeecccc--cchhhHhHHh
Q 023377          128 KLYSLIIEQGKGLIGQGKDRFSIAIDSVSEMVRHASISSVAGILS----NLRSHDQVSSIFWLLHSDL--HEIKFTSVLE  201 (283)
Q Consensus       128 sl~~si~e~~r~~~~~~k~~~tVaIDSLS~LL~h~s~~~vc~lL~----~Lr~~~~vssVl~LLHsDL--He~~~v~ALe  201 (283)
                      ..+..+.+..+    +.++ -.|+||||+.+....+..++-..++    .|++ ..+..++...=.++  +.+-.-.-++
T Consensus       340 ~~~~~i~~~i~----~~~~-~~vvIDsi~~~~~~~~~~~~r~~~~~l~~~lk~-~~it~~~t~~~~~~~~~~~~~~~~~s  413 (484)
T TIGR02655       340 DHLQIIKSEIA----DFKP-ARIAIDSLSALARGVSNNAFRQFVIGVTGYAKQ-EEITGFFTNTSDQFMGSHSITDSHIS  413 (484)
T ss_pred             HHHHHHHHHHH----HcCC-CEEEEcCHHHHHHhcCHHHHHHHHHHHHHHHhh-CCCeEEEeecccccccCCccCCCCee
Confidence            12223333232    1122 3799999999987666665544333    3443 44554444322221  1111113468


Q ss_pred             hhheeEEEee
Q 023377          202 YLSSMVASVE  211 (283)
Q Consensus       202 ~LSstvvtv~  211 (283)
                      ||+-.+|.+.
T Consensus       414 ~l~D~ii~l~  423 (484)
T TIGR02655       414 TITDTILMLQ  423 (484)
T ss_pred             EeeeEEEEEE
Confidence            8888888774

Members of this family are the circadian clock protein KaiC, part of the kaiABC operon that controls circadian rhythm. It may be universal in Cyanobacteria. Each member has two copies of the KaiC domain (Pfam model pfam06745), which is also found in other proteins. KaiC performs autophosphorylation and acts as its own transcriptional repressor.

>COG0467 RAD55 RecA-superfamily ATPases implicated in signal transduction [Signal transduction mechanisms]

Probab=95.85  E-value=0.11  Score=47.00  Aligned_cols=147  Identities=19%  Similarity=0.214  Sum_probs=92.5

Q ss_pred             hhccccceeEEEEeecChHHHHHHHhhcCcCccC--CCCeEEEEeccCCCCCCcccccCCccccccccccccccchhhhh
Q 023377           50 AGKSQSRGLVVVAYSRSPSFYVDLLKRRGIDIAS--SHDWIHILDCYTDPLGWKNWLIDKDISQEASSLSSFCQDVRNLD  127 (283)
Q Consensus        50 a~~~q~~~Vhvl~fe~Spe~y~~~lk~~G~d~~s--~~~ri~i~D~ySDPLGW~~~~~~~~~~~~~s~~~~~~~~v~~L~  127 (283)
                      .++..++.+..+.+|-+|++.++-+++.|.|.+.  -+..+.++|.++.+.+=...               .-.+..++.
T Consensus        46 ~~~~~ge~vlyvs~~e~~~~l~~~~~~~g~d~~~~~~~g~l~i~d~~~~~~~~~~~---------------~~~~~~~~~  110 (260)
T COG0467          46 EGAREGEPVLYVSTEESPEELLENARSFGWDLEVYIEKGKLAILDAFLSEKGLVSI---------------VVGDPLDLE  110 (260)
T ss_pred             HHHhcCCcEEEEEecCCHHHHHHHHHHcCCCHHHHhhcCCEEEEEccccccccccc---------------cccCCccHH
Confidence            4566699999999999999999999999998753  23458899988877632210               001122444


Q ss_pred             HHHHHHHHhccCccCCCCCcEEEEEechhHHHHhcChHHHH-HHHHhhhcC-CceeEEEeeecccccchhhH--hHHhhh
Q 023377          128 KLYSLIIEQGKGLIGQGKDRFSIAIDSVSEMVRHASISSVA-GILSNLRSH-DQVSSIFWLLHSDLHEIKFT--SVLEYL  203 (283)
Q Consensus       128 sl~~si~e~~r~~~~~~k~~~tVaIDSLS~LL~h~s~~~vc-~lL~~Lr~~-~~vssVl~LLHsDLHe~~~v--~ALe~L  203 (283)
                      ++...|.+..+ ..   + ...++|||++.+......+... ..+..+.+. ..-. +.+++.+|.......  +-.+++
T Consensus       111 ~l~~~I~~~~~-~~---~-~~~~ViDsi~~~~~~~~~~~~~r~~~~~l~~~~~~~~-~t~~~~~~~~~~~~~~~~~~~~~  184 (260)
T COG0467         111 ELLDRIREIVE-KE---G-ADRVVIDSITELTLYLNDPALVRRILLLLKRFLKKLG-VTSLLTTEAPVEERGESGVEEYI  184 (260)
T ss_pred             HHHHHHHHHHH-Hh---C-CCEEEEeCCchHhhhcCchHHHHHHHHHHHHHHHhCC-CEEEEEecccccCCCccceEEEE
Confidence            45555555555 11   1 2689999999766666666554 444444442 2222 445555554332222  466678


Q ss_pred             heeEEEeecCCccc
Q 023377          204 SSMVASVEPFNQAA  217 (283)
Q Consensus       204 Sstvvtv~P~~~~~  217 (283)
                      +..++.+.......
T Consensus       185 vdgvI~l~~~~~~~  198 (260)
T COG0467         185 VDGVIRLDLKEIEG  198 (260)
T ss_pred             EEEEEEEeeecccC
Confidence            88999887754433

>TIGR02655 circ_KaiC circadian clock protein KaiC

Probab=95.68  E-value=0.14  Score=51.35  Aligned_cols=137  Identities=19%  Similarity=0.187  Sum_probs=83.9

Q ss_pred             hhccc-cceeEEEEeecChHHHHHHHhhcCcCccCC--CCeEEEEeccCCCCCCcccccCCccccccccccccccchhhh
Q 023377           50 AGKSQ-SRGLVVVAYSRSPSFYVDLLKRRGIDIASS--HDWIHILDCYTDPLGWKNWLIDKDISQEASSLSSFCQDVRNL  126 (283)
Q Consensus        50 a~~~q-~~~Vhvl~fe~Spe~y~~~lk~~G~d~~s~--~~ri~i~D~ySDPLGW~~~~~~~~~~~~~s~~~~~~~~v~~L  126 (283)
                      +++.+ ++.+..+.||=+|+++.+-+++.|+|-+..  ..++.++|.+..+  |.....                +--++
T Consensus        44 ~g~~~~ge~~lyvs~eE~~~~l~~~~~~~G~~~~~~~~~g~l~~~~~~~~~--~~~~~~----------------~~~~l  105 (484)
T TIGR02655        44 NGIIHFDEPGVFVTFEESPQDIIKNARSFGWDLQKLVDEGKLFILDASPDP--EGQDVV----------------GGFDL  105 (484)
T ss_pred             HHHHhCCCCEEEEEEecCHHHHHHHHHHcCCCHHHHhhcCceEEEecCchh--cccccc----------------ccCCH
Confidence            45566 899999999999999999999999986531  3468888875332  222110                00123


Q ss_pred             hHHHHHHHHhccCccCCCCCcEEEEEechhHHHHhcChH-----HHHHHHHhhhcCCceeEEEeeec-ccccch-hhHhH
Q 023377          127 DKLYSLIIEQGKGLIGQGKDRFSIAIDSVSEMVRHASIS-----SVAGILSNLRSHDQVSSIFWLLH-SDLHEI-KFTSV  199 (283)
Q Consensus       127 ~sl~~si~e~~r~~~~~~k~~~tVaIDSLS~LL~h~s~~-----~vc~lL~~Lr~~~~vssVl~LLH-sDLHe~-~~v~A  199 (283)
                      ..++..+.+...   + +++ --|+|||++.+....+..     .+.++++.|++. .+..++- -| .+...+ ...+.
T Consensus       106 ~~~l~~i~~~ls---~-g~~-qRVvIDSl~aL~~~~~~~~~~r~~l~~Li~~L~~~-g~TvLLt-sh~~~~~~~~~~~~~  178 (484)
T TIGR02655       106 SALIERINYAIR---K-YKA-KRVSIDSVTAVFQQYDAVSVVRREIFRLVARLKQI-GVTTVMT-TERIEEYGPIARYGV  178 (484)
T ss_pred             HHHHHHHHHHHH---H-hCC-cEEEEeehhHhhhhcCchHHHHHHHHHHHHHHHHC-CCEEEEE-ecCcccccccccCCc
Confidence            344444444333   1 233 479999999987655542     345566667642 3444443 34 232221 12223


Q ss_pred             HhhhheeEEEee
Q 023377          200 LEYLSSMVASVE  211 (283)
Q Consensus       200 Le~LSstvvtv~  211 (283)
                      .+|++-.+|.+.
T Consensus       179 ~e~laDgVI~L~  190 (484)
T TIGR02655       179 EEFVSDNVVILR  190 (484)
T ss_pred             eeEeeeeEEEEE
Confidence            599999999986

Members of this family are the circadian clock protein KaiC, part of the kaiABC operon that controls circadian rhythm. It may be universal in Cyanobacteria. Each member has two copies of the KaiC domain (Pfam model pfam06745), which is also found in other proteins. KaiC performs autophosphorylation and acts as its own transcriptional repressor.

>TIGR03878 thermo_KaiC_2 KaiC domain protein, AF_0795 family

Probab=95.47  E-value=0.15  Score=46.84  Aligned_cols=134  Identities=13%  Similarity=0.103  Sum_probs=72.8

Q ss_pred             hccccceeEEEEeecChHH----HHHHHhhcCcCccCCCCeEEEEeccCCCCCCcccccCCccccccccccccccchhhh
Q 023377           51 GKSQSRGLVVVAYSRSPSF----YVDLLKRRGIDIASSHDWIHILDCYTDPLGWKNWLIDKDISQEASSLSSFCQDVRNL  126 (283)
Q Consensus        51 ~~~q~~~Vhvl~fe~Spe~----y~~~lk~~G~d~~s~~~ri~i~D~ySDPLGW~~~~~~~~~~~~~s~~~~~~~~v~~L  126 (283)
                      ++.+++.+..+.+|-++++    ++.-.++.|+|.+...++++++|..+.+--     .                  .++
T Consensus        60 ~a~~Ge~vlyis~Ee~~~~~~~~l~~~a~~~g~d~~~~~~~l~~id~~~~~~~-----~------------------~~~  116 (259)
T TIGR03878        60 QASRGNPVLFVTVESPANFVYTSLKERAKAMGVDFDKIEENIILIDAASSTEL-----R------------------ENV  116 (259)
T ss_pred             HHhCCCcEEEEEecCCchHHHHHHHHHHHHcCCCHHHHhCCEEEEECCCchhh-----h------------------hhH
Confidence            4567999999999976653    333345667776554567888886653210     0                  123


Q ss_pred             hHHHHHHHHhccCccCCCCCcEEEEEechhHHHHhcChH---HHHHHHHhhhcCCceeEEEeeecccc---cc-hhhHhH
Q 023377          127 DKLYSLIIEQGKGLIGQGKDRFSIAIDSVSEMVRHASIS---SVAGILSNLRSHDQVSSIFWLLHSDL---HE-IKFTSV  199 (283)
Q Consensus       127 ~sl~~si~e~~r~~~~~~k~~~tVaIDSLS~LL~h~s~~---~vc~lL~~Lr~~~~vssVl~LLHsDL---He-~~~v~A  199 (283)
                      ..++..+.+..+    +.++ =.|+|||++.+.+.....   .+-++++.|++.+.-.-++.-.+.+.   .. +..-..
T Consensus       117 ~~l~~~l~~~i~----~~~~-~~vVIDSls~l~~~~~~~~r~~~~~L~~~lk~~~~t~ll~~e~~~~~~~~~~~~~~~~~  191 (259)
T TIGR03878       117 PNLLATLAYAIK----EYKV-KNTVIDSITGLYEAKEMMAREIVRQLFNFMKKWYQTALFVSQKRSGHEELSAEAAGGYA  191 (259)
T ss_pred             HHHHHHHHHHHH----hhCC-CEEEEcCchHhcccchHHHHHHHHHHHHHHHHcCCeEEEEeccccCcccccccccCCcc
Confidence            334444444333    1122 379999999876543321   12334444454333222333333322   11 111125


Q ss_pred             HhhhheeEEEeec
Q 023377          200 LEYLSSMVASVEP  212 (283)
Q Consensus       200 Le~LSstvvtv~P  212 (283)
                      ++|++-.+|.+.=
T Consensus       192 ~~~l~D~vI~L~~  204 (259)
T TIGR03878       192 VSHIVDGTIVLAK  204 (259)
T ss_pred             eeEeeccEEEEee
Confidence            8999999998873

This KaiC domain-containing protein family occurs sporadically across a broad taxonomic range (Euryarchaeota, Aquificae, Dictyoglomi, Epsilonproteobacteria, and Firmicutes), but exclusively in thermophiles.

>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 [, ]

Probab=95.26  E-value=0.16  Score=49.46  Aligned_cols=90  Identities=20%  Similarity=0.142  Sum_probs=58.3

Q ss_pred             hhHHHHHHHHhccCc--cCCCCCcEEEEEechhHHHHhcCh----HHHHHHHHhhhc----CCceeEEEeeeccccc--c
Q 023377          126 LDKLYSLIIEQGKGL--IGQGKDRFSIAIDSVSEMVRHASI----SSVAGILSNLRS----HDQVSSIFWLLHSDLH--E  193 (283)
Q Consensus       126 L~sl~~si~e~~r~~--~~~~k~~~tVaIDSLS~LL~h~s~----~~vc~lL~~Lr~----~~~vssVl~LLHsDLH--e  193 (283)
                      .+.+++.|.+..+..  .. ++.-.=|+|-||..-+-..+-    ..+.++|+.||.    +..-..++--+=.+|-  .
T Consensus       179 ~~~ll~~i~~~i~~~~~~~-~~~v~RI~I~sl~SP~w~~~~~~~~~~ll~FL~~LR~LlR~~~s~~v~~iTlP~~L~~~~  257 (363)
T PF05625_consen  179 YRSLLQQIQQIISKSGFSP-PSKVLRIVIPSLGSPLWYPPSASQPSELLRFLHSLRALLRKYSSNAVAMITLPSHLYPRS  257 (363)
T ss_dssp             HHHHHHHHHHHHHH----T-TTSEEEEEETTTT-TTTS-GGGGBHHHHHHHHHHHHHHHHHTTTTEEEEEEEEGTTS---
T ss_pred             HHHHHHHHHHHHHhhccCC-CCceEEEEEcCCCCcccCCcccccHHHHHHHHHHHHHHHhccCCCEEEEEEECHHHhccC
Confidence            455555555554421  12 232267899887665543322    248999999987    3555555556677777  7


Q ss_pred             hhhHhHHhhhheeEEEeecCCcc
Q 023377          194 IKFTSVLEYLSSMVASVEPFNQA  216 (283)
Q Consensus       194 ~~~v~ALe~LSstvvtv~P~~~~  216 (283)
                      +..+..||+++-++|.|+|....
T Consensus       258 ~~~~~~l~~l~D~vi~Le~F~~~  280 (363)
T PF05625_consen  258 PSLVRRLEHLADGVIELESFAGS  280 (363)
T ss_dssp             HHHHHHHHHHSSEEEEEEE--HH
T ss_pred             hHHHHHHHHhCCEEEEeecCCCc
Confidence            99999999999999999999876

It may also play some role in wobble uridine tRNA modification []. This entry represents the ELP4 subunit. ELP4 is not required for the association of the complex with nascent RNA transcript, but is required for complex integrity and histone acetyltransferase activity. It is also required for an early step in synthesis of 5-methoxycarbonylmethyl (mcm5) and 5-carbamoylmethyl (ncm5) groups present on uridines at the wobble position in tRNA in yeast species.; GO: 0006357 regulation of transcription from RNA polymerase II promoter, 0033588 Elongator holoenzyme complex; PDB: 4EJS_A 4A8J_A.

>KOG4723 consensus Uncharacterized conserved protein [Function unknown]

Probab=95.13  E-value=0.11  Score=48.21  Aligned_cols=73  Identities=21%  Similarity=0.378  Sum_probs=57.9

Q ss_pred             CCCCCceeecccCCCCchhhHHHHHHHHHHHHHHhhccccceeEEEEeecChHHHHHHHhhcCcCccC--CCCeEEEEec
Q 023377           16 GEHAPALTIKDSKASPFGFDVFNYVLTQLSNYILAGKSQSRGLVVVAYSRSPSFYVDLLKRRGIDIAS--SHDWIHILDC   93 (283)
Q Consensus        16 ge~ap~l~i~Dsl~~~~g~~~~~h~~~~l~s~i~a~~~q~~~Vhvl~fe~Spe~y~~~lk~~G~d~~s--~~~ri~i~D~   93 (283)
                      .|+--..+++|+..+| |.-+|-|++   +-..+++    +.+.+++|.++.+.|--.+++-|.|-..  .+.+++++|.
T Consensus        16 ~EqgkltLl~d~~eT~-gsFl~H~~l---~~~Lkan----~~~cFlaf~k~fshy~i~~rKlG~~l~t~k~rgqlvF~dg   87 (248)
T KOG4723|consen   16 PEQGKLTLLLDTRETP-GSFLFHYYL---YHALKAN----ESTCFLAFSKTFSHYAISMRKLGMDLKTKKNRGQLVFIDG   87 (248)
T ss_pred             CCCccEEEEeecccCC-ceeeHHHHH---HHHHhcC----CcEEEEEeecchhHHHHHHHHhCCceeecccCCcEEEEhh
Confidence            4666789999999998 577777774   3333333    8999999999999999999999999877  2335999998


Q ss_pred             cCC
Q 023377           94 YTD   96 (283)
Q Consensus        94 ySD   96 (283)
                      ++=
T Consensus        88 l~~   90 (248)
T KOG4723|consen   88 LSM   90 (248)
T ss_pred             hhh
Confidence            873

>TIGR03880 KaiC_arch_3 KaiC domain protein, AF_0351 family

Probab=94.82  E-value=0.47  Score=41.82  Aligned_cols=130  Identities=14%  Similarity=0.152  Sum_probs=75.7

Q ss_pred             hccccceeEEEEeecChHHHHHHHhhcCcCccC-CCCeEEEEeccCCCCCCcccccCCccccccccccccccchhhhhHH
Q 023377           51 GKSQSRGLVVVAYSRSPSFYVDLLKRRGIDIAS-SHDWIHILDCYTDPLGWKNWLIDKDISQEASSLSSFCQDVRNLDKL  129 (283)
Q Consensus        51 ~~~q~~~Vhvl~fe~Spe~y~~~lk~~G~d~~s-~~~ri~i~D~ySDPLGW~~~~~~~~~~~~~s~~~~~~~~v~~L~sl  129 (283)
                      +..+++.+..+.+|-+++.+.+-++..|++... .++++.++|....-.                     ...++.+.  
T Consensus        40 ~~~~g~~~~y~s~e~~~~~l~~~~~~~~~~~~~~~~~~l~~~~~~~~~~---------------------~~~~~~l~--   96 (224)
T TIGR03880        40 GLKNGEKAMYISLEEREERILGYAKSKGWDLEDYIDKSLYIVRLDPSDF---------------------KTSLNRIK--   96 (224)
T ss_pred             HHhCCCeEEEEECCCCHHHHHHHHHHcCCChHHHHhCCeEEEecCHHHH---------------------HhhHHHHH--
Confidence            445689999999999999999999888877543 122466666321100                     00111222  


Q ss_pred             HHHHHHhccCccCCCCCcEEEEEechhHHHHhcCh-----HHHHHHHHhhhcCCceeEEEeeecccccch--hhHhHHhh
Q 023377          130 YSLIIEQGKGLIGQGKDRFSIAIDSVSEMVRHASI-----SSVAGILSNLRSHDQVSSIFWLLHSDLHEI--KFTSVLEY  202 (283)
Q Consensus       130 ~~si~e~~r~~~~~~k~~~tVaIDSLS~LL~h~s~-----~~vc~lL~~Lr~~~~vssVl~LLHsDLHe~--~~v~ALe~  202 (283)
                       ..+.+..+    +.++ -.|+|||++.+-.-.+.     ..+..++..|++. .+ .++-.-|.+-+.+  ...+.+++
T Consensus        97 -~~~~~~i~----~~~~-~~vVIDsls~l~~~~~~~~~~r~~l~~l~~~lk~~-~~-tvll~s~~~~~~~~~~~~~~~~~  168 (224)
T TIGR03880        97 -NELPILIK----ELGA-SRVVIDPISLLETLFDDDAERRTELFRFYSSLRET-GV-TTILTSEADKTNVFASKYGLIEY  168 (224)
T ss_pred             -HHHHHHHH----HhCC-CEEEEcChHHHhhhcCCHHHHHHHHHHHHHHHHhC-CC-EEEEEEcccCCCCCccCCCceEE
Confidence             22222221    1122 36789999987222222     3556777777754 33 3444456543332  22456899


Q ss_pred             hheeEEEee
Q 023377          203 LSSMVASVE  211 (283)
Q Consensus       203 LSstvvtv~  211 (283)
                      ++..++.+.
T Consensus       169 l~D~vI~L~  177 (224)
T TIGR03880       169 LADGVIILK  177 (224)
T ss_pred             EEeEEEEEe
Confidence            999999994

This model represents a rather narrowly distributed archaeal protein family in which members have a single copy of the KaiC domain. This stands in contrast to the circadian clock protein KaiC itself, with two copies of the domain. Members are expected to have weak ATPase activity, by homology to the autokinase/autophosphorylase KaiC itself.

>PRK08533 flagellar accessory protein FlaH; Reviewed

Probab=94.35  E-value=0.67  Score=41.96  Aligned_cols=130  Identities=13%  Similarity=0.193  Sum_probs=74.8

Q ss_pred             cccceeEEEEeecChHHHHHHHhhcCcCccC--CCCeEEEEeccCCCCCCcccccCCccccccccccccccchhhhhHHH
Q 023377           53 SQSRGLVVVAYSRSPSFYVDLLKRRGIDIAS--SHDWIHILDCYTDPLGWKNWLIDKDISQEASSLSSFCQDVRNLDKLY  130 (283)
Q Consensus        53 ~q~~~Vhvl~fe~Spe~y~~~lk~~G~d~~s--~~~ri~i~D~ySDPLGW~~~~~~~~~~~~~s~~~~~~~~v~~L~sl~  130 (283)
                      .+++.+..+.+|.+++++.+.+++.|+|.+.  ....+.+++++..-.++                       .+.+..+
T Consensus        50 ~~g~~~~yi~~e~~~~~~~~~~~~~g~~~~~~~~~~~l~~~~~~~~~~~~-----------------------~~~~~~l  106 (230)
T PRK08533         50 QNGYSVSYVSTQLTTTEFIKQMMSLGYDINKKLISGKLLYIPVYPLLSGN-----------------------SEKRKFL  106 (230)
T ss_pred             hCCCcEEEEeCCCCHHHHHHHHHHhCCchHHHhhcCcEEEEEecccccCh-----------------------HHHHHHH
Confidence            4678889999999999999999988887653  23456777766321111                       1112222


Q ss_pred             HHHHHhccCccCCCCCcEEEEEechhHHHHhcCh----HHHHHHHHhhhcCCceeEEEeeecccccchhhHhHHhhhhee
Q 023377          131 SLIIEQGKGLIGQGKDRFSIAIDSVSEMVRHASI----SSVAGILSNLRSHDQVSSIFWLLHSDLHEIKFTSVLEYLSSM  206 (283)
Q Consensus       131 ~si~e~~r~~~~~~k~~~tVaIDSLS~LL~h~s~----~~vc~lL~~Lr~~~~vssVl~LLHsDLHe~~~v~ALe~LSst  206 (283)
                      ..+.+..+ .   .++ -.++||+++.++....-    ..+.++|..|++...  .++-..|.+.=......-++|++-+
T Consensus       107 ~~il~~~~-~---~~~-~~lVIDe~t~~l~~~~d~~~~~~l~~~l~~l~~~g~--tvi~t~~~~~~~~~~~~~~~~~~Dg  179 (230)
T PRK08533        107 KKLMNTRR-F---YEK-DVIIIDSLSSLISNDASEVAVNDLMAFFKRISSLNK--VIILTANPKELDESVLTILRTAATM  179 (230)
T ss_pred             HHHHHHHH-h---cCC-CEEEEECccHHhcCCcchHHHHHHHHHHHHHHhCCC--EEEEEecccccccccceeEEEeeeE
Confidence            33333322 1   123 37999999999854322    345666666655322  2222222111112222357899999


Q ss_pred             EEEeec
Q 023377          207 VASVEP  212 (283)
Q Consensus       207 vvtv~P  212 (283)
                      +|.+.=
T Consensus       180 vI~L~~  185 (230)
T PRK08533        180 LIRLEV  185 (230)
T ss_pred             EEEEEE
Confidence            888863

>TIGR02237 recomb_radB DNA repair and recombination protein RadB

Probab=93.50  E-value=1.2  Score=38.63  Aligned_cols=125  Identities=14%  Similarity=0.143  Sum_probs=65.7

Q ss_pred             cccceeEEEEeec-ChHHHHHHHhhcCcCccCCCCeEEEEeccCCCCCCcccccCCccccccccccccccchhhhhHHHH
Q 023377           53 SQSRGLVVVAYSR-SPSFYVDLLKRRGIDIASSHDWIHILDCYTDPLGWKNWLIDKDISQEASSLSSFCQDVRNLDKLYS  131 (283)
Q Consensus        53 ~q~~~Vhvl~fe~-Spe~y~~~lk~~G~d~~s~~~ri~i~D~ySDPLGW~~~~~~~~~~~~~s~~~~~~~~v~~L~sl~~  131 (283)
                      .+++.+..+.+|. +|+.+.+.++.. ++  ....++++++++ |+.                          ++...+.
T Consensus        38 ~~g~~v~yi~~e~~~~~rl~~~~~~~-~~--~~~~~i~~~~~~-~~~--------------------------~~~~~~~   87 (209)
T TIGR02237        38 RQGKKVVYIDTEGLSPERFKQIAEDR-PE--RALSNFIVFEVF-DFD--------------------------EQGVAIQ   87 (209)
T ss_pred             hCCCeEEEEECCCCCHHHHHHHHHhC-hH--HHhcCEEEEECC-CHH--------------------------HHHHHHH
Confidence            3578999999996 899888866643 12  113567877763 111                          1111223


Q ss_pred             HHHHhccCccCCCCCcEEEEEechhHHHHhcCh-------HHHHHHHHhhhc---CCceeEEE-eeecccccc----hhh
Q 023377          132 LIIEQGKGLIGQGKDRFSIAIDSVSEMVRHASI-------SSVAGILSNLRS---HDQVSSIF-WLLHSDLHE----IKF  196 (283)
Q Consensus       132 si~e~~r~~~~~~k~~~tVaIDSLS~LL~h~s~-------~~vc~lL~~Lr~---~~~vssVl-~LLHsDLHe----~~~  196 (283)
                      .+.+...   . .++ =.|+||||+.+.+....       ..+.+.+..|++   ...+.-++ .-+-.+.++    |--
T Consensus        88 ~l~~~~~---~-~~~-~lvVIDSis~l~~~~~~~~~~~~~~~l~~~~~~L~~~~~~~~v~vl~t~~~~~~~~~~~~~~~g  162 (209)
T TIGR02237        88 KTSKFID---R-DSA-SLVVVDSFTALYRLELSDDRISRNRELARQLTLLLSLARKKNLAVVITNQVYTDVNNGTLRPLG  162 (209)
T ss_pred             HHHHHHh---h-cCc-cEEEEeCcHHHhHHHhCCccHHHHHHHHHHHHHHHHHHHHcCCEEEEEcccEEecCCCCCcCCC
Confidence            3333222   1 122 37999999998763311       123333333432   22222222 222233332    221


Q ss_pred             HhHHhhhheeEEEeec
Q 023377          197 TSVLEYLSSMVASVEP  212 (283)
Q Consensus       197 v~ALe~LSstvvtv~P  212 (283)
                      -..++|++.+++.++-
T Consensus       163 g~~~~~~~d~vi~l~~  178 (209)
T TIGR02237       163 GHLLEHWSKVILRLEK  178 (209)
T ss_pred             cchhheeeeEEEEEEe
Confidence            2368999999998864

This family consists exclusively of archaeal RadB protein, a homolog of bacterial RecA (TIGR02012), eukaryotic RAD51 (TIGR02239) and DMC1 (TIGR02238), and archaeal RadA (TIGR02236).

>PRK05973 replicative DNA helicase; Provisional

Probab=93.22  E-value=1.9  Score=40.00  Aligned_cols=62  Identities=13%  Similarity=-0.025  Sum_probs=40.7

Q ss_pred             cCCCCCceeecccCCCCchhhHHHHHHHHHHHHHHhhccccceeEEEEeecChHHHHHHHhhcCcCccC
Q 023377           15 EGEHAPALTIKDSKASPFGFDVFNYVLTQLSNYILAGKSQSRGLVVVAYSRSPSFYVDLLKRRGIDIAS   83 (283)
Q Consensus        15 ~ge~ap~l~i~Dsl~~~~g~~~~~h~~~~l~s~i~a~~~q~~~Vhvl~fe~Spe~y~~~lk~~G~d~~s   83 (283)
                      .|=..+.+++---=...+=+.+..+++.       .+..+++.|.++.+|-+|++..+=++..|+|.+.
T Consensus        59 GGl~~Gsl~LIaG~PG~GKT~lalqfa~-------~~a~~Ge~vlyfSlEes~~~i~~R~~s~g~d~~~  120 (237)
T PRK05973         59 SQLKPGDLVLLGARPGHGKTLLGLELAV-------EAMKSGRTGVFFTLEYTEQDVRDRLRALGADRAQ  120 (237)
T ss_pred             CCCCCCCEEEEEeCCCCCHHHHHHHHHH-------HHHhcCCeEEEEEEeCCHHHHHHHHHHcCCChHH
Confidence            4555554444332233333444444432       3445689999999999999999999999988665

>PRK04301 radA DNA repair and recombination protein RadA; Validated

Probab=91.86  E-value=2.8  Score=39.51  Aligned_cols=39  Identities=21%  Similarity=0.269  Sum_probs=30.6

Q ss_pred             ceeEEEEeec--ChHHHHHHHhhcCcCccCCCCeEEEEecc
Q 023377           56 RGLVVVAYSR--SPSFYVDLLKRRGIDIASSHDWIHILDCY   94 (283)
Q Consensus        56 ~~Vhvl~fe~--Spe~y~~~lk~~G~d~~s~~~ri~i~D~y   94 (283)
                      ..+..+.+|.  +|+.+.+.+++.|+|.+..-+++++++++
T Consensus       137 ~~~~yi~te~~f~~~rl~~~~~~~g~~~~~~l~~i~~~~~~  177 (317)
T PRK04301        137 GKAVYIDTEGTFRPERIEQMAEALGLDPDEVLDNIHVARAY  177 (317)
T ss_pred             ceEEEEeCCCCcCHHHHHHHHHHcCCChHhhhccEEEEeCC
Confidence            5788999998  69999999988888876544567777654

>TIGR02236 recomb_radA DNA repair and recombination protein RadA

Probab=91.75  E-value=1.9  Score=40.16  Aligned_cols=38  Identities=18%  Similarity=0.279  Sum_probs=29.2

Q ss_pred             eeEEEEeec--ChHHHHHHHhhcCcCccCCCCeEEEEecc
Q 023377           57 GLVVVAYSR--SPSFYVDLLKRRGIDIASSHDWIHILDCY   94 (283)
Q Consensus        57 ~Vhvl~fe~--Spe~y~~~lk~~G~d~~s~~~ri~i~D~y   94 (283)
                      .+..+.+|-  +|+.+.+.++..|++.+...+++.+..++
T Consensus       131 ~~~yi~te~~f~~~rl~~~~~~~gl~~~~~~~~i~i~~~~  170 (310)
T TIGR02236       131 KAVYIDTENTFRPERIMQMAEARGLDPDEVLKNIYVARAY  170 (310)
T ss_pred             eEEEEECCCCCCHHHHHHHHHHcCCCHHHHhhceEEEecC
Confidence            788888888  79999999998888865545567776653

This family consists exclusively of archaeal RadA protein, a homolog of bacterial RecA (TIGR02012), eukaryotic RAD51 (TIGR02239), and archaeal RadB (TIGR02237). This protein is involved in DNA repair and recombination. The member from Pyrococcus horikoshii contains an intein.

>PRK09361 radB DNA repair and recombination protein RadB; Provisional

Probab=91.49  E-value=9.1  Score=33.62  Aligned_cols=124  Identities=17%  Similarity=0.148  Sum_probs=65.3

Q ss_pred             cccceeEEEEee-cChHHHHHHHhhcCcCccCCCCeEEEEeccCCCCCCcccccCCccccccccccccccchhhhhHHHH
Q 023377           53 SQSRGLVVVAYS-RSPSFYVDLLKRRGIDIASSHDWIHILDCYTDPLGWKNWLIDKDISQEASSLSSFCQDVRNLDKLYS  131 (283)
Q Consensus        53 ~q~~~Vhvl~fe-~Spe~y~~~lk~~G~d~~s~~~ri~i~D~ySDPLGW~~~~~~~~~~~~~s~~~~~~~~v~~L~sl~~  131 (283)
                      .+++.+..+.+| .+++-+.+..+.   +.+...+++++.+.    ..+.                       ++...+.
T Consensus        49 ~~~~~v~yi~~e~~~~~r~~~~~~~---~~~~~~~~~~~~~~----~~~~-----------------------~~~~~i~   98 (225)
T PRK09361         49 KNGKKVIYIDTEGLSPERFKQIAGE---DFEELLSNIIIFEP----SSFE-----------------------EQSEAIR   98 (225)
T ss_pred             HCCCeEEEEECCCCCHHHHHHHHhh---ChHhHhhCeEEEeC----CCHH-----------------------HHHHHHH
Confidence            357899999999 566666664442   21221234555552    2111                       2222222


Q ss_pred             HHHHhccCccCCCCCcEEEEEechhHHHHhc-----C----hHHHHHHHHhhhc----CCceeEEEeeecccccc----h
Q 023377          132 LIIEQGKGLIGQGKDRFSIAIDSVSEMVRHA-----S----ISSVAGILSNLRS----HDQVSSIFWLLHSDLHE----I  194 (283)
Q Consensus       132 si~e~~r~~~~~~k~~~tVaIDSLS~LL~h~-----s----~~~vc~lL~~Lr~----~~~vssVl~LLHsDLHe----~  194 (283)
                      .+.+..+     .++ =.|+|||++.+.+..     .    ...+.+.++.|++    +....=+..-++.+.+.    +
T Consensus        99 ~~~~~~~-----~~~-~lvVIDsi~al~~~~~~~~~~~~~~~~~l~~~l~~L~~~a~~~~v~vi~tnq~~~~~~~~~~~~  172 (225)
T PRK09361         99 KAEKLAK-----ENV-GLIVLDSATSLYRLELEDEEDNSKLNRELGRQLTHLLKLARKHDLAVVITNQVYSDIDSDGLRP  172 (225)
T ss_pred             HHHHHHH-----hcc-cEEEEeCcHHHhHHHhcCCccHHHHHHHHHHHHHHHHHHHHHhCCEEEEEccceecCCCCcccC
Confidence            3332222     122 389999999987642     1    1234554444433    33333333444555542    2


Q ss_pred             hhHhHHhhhheeEEEeec
Q 023377          195 KFTSVLEYLSSMVASVEP  212 (283)
Q Consensus       195 ~~v~ALe~LSstvvtv~P  212 (283)
                      ---..++|++++++.+..
T Consensus       173 ~gg~~~~~~~d~ii~l~~  190 (225)
T PRK09361        173 LGGHTLEHWSKTILRLEK  190 (225)
T ss_pred             CCcchhhhhccEEEEEEE
Confidence            112378999999999876

>cd00984 DnaB_C DnaB helicase C terminal domain

Probab=91.45  E-value=0.67  Score=40.83  Aligned_cols=67  Identities=18%  Similarity=0.119  Sum_probs=38.8

Q ss_pred             EEEEEechhHHHHhc----ChHHHHHHHHhhhcC-CceeEEEeeecc------c-------ccchhhHhHHhhhheeEEE
Q 023377          148 FSIAIDSVSEMVRHA----SISSVAGILSNLRSH-DQVSSIFWLLHS------D-------LHEIKFTSVLEYLSSMVAS  209 (283)
Q Consensus       148 ~tVaIDSLS~LL~h~----s~~~vc~lL~~Lr~~-~~vssVl~LLHs------D-------LHe~~~v~ALe~LSstvvt  209 (283)
                      -.|+||+++.+-...    .-..+...+..|+.- .+.-..++++|.      +       ++.-+-.+++++.|.+++.
T Consensus       125 ~~vvID~l~~l~~~~~~~~~~~~~~~~~~~L~~la~~~~~~ii~~~q~~r~~~~~~~~~~~~~~~~gS~~i~~~aD~vi~  204 (242)
T cd00984         125 GLIVIDYLQLMSGSKKKGNRQQEVAEISRSLKLLAKELNVPVIALSQLSRGVESRADKRPMLSDLRESGSIEQDADVVMF  204 (242)
T ss_pred             CEEEEcCchhcCCCCCCCCHHHHHHHHHHHHHHHHHHhCCeEEEecccChhhhccCCCCCCHHHHhhhcccccCCCEEEE
Confidence            489999999664332    113344555555531 223333444441      1       2333445788999999999


Q ss_pred             eecCC
Q 023377          210 VEPFN  214 (283)
Q Consensus       210 v~P~~  214 (283)
                      +.+..
T Consensus       205 l~~~~  209 (242)
T cd00984         205 LYRDE  209 (242)
T ss_pred             Eeccc
Confidence            98754

The hexameric helicase DnaB unwinds the DNA duplex at the chromosome replication fork. Although the mechanism by which DnaB both couples ATP hydrolysis to translocation along DNA and denatures the duplex is unknown, a change in the quaternary structure of the protein involving dimerization of the N-terminal domain has been observed and may occur during the enzymatic cycle. This C-terminal domain contains an ATP-binding site and is therefore probably the site of ATP hydrolysis.

>PRK11823 DNA repair protein RadA; Provisional

Probab=89.70  E-value=19  Score=36.06  Aligned_cols=115  Identities=21%  Similarity=0.195  Sum_probs=62.7

Q ss_pred             cccceeEEEEeecChHHHHHHHhhcCcCccCCCCeEEEEeccCCCCCCcccccCCccccccccccccccchhhhhHHHHH
Q 023377           53 SQSRGLVVVAYSRSPSFYVDLLKRRGIDIASSHDWIHILDCYTDPLGWKNWLIDKDISQEASSLSSFCQDVRNLDKLYSL  132 (283)
Q Consensus        53 ~q~~~Vhvl~fe~Spe~y~~~lk~~G~d~~s~~~ri~i~D~ySDPLGW~~~~~~~~~~~~~s~~~~~~~~v~~L~sl~~s  132 (283)
                      .+++.|..+.+|-+++....-.++.|++    .+++.+.+   +        .                   ++..+...
T Consensus       106 ~~g~~vlYvs~Ees~~qi~~ra~rlg~~----~~~l~~~~---e--------~-------------------~l~~i~~~  151 (446)
T PRK11823        106 AAGGKVLYVSGEESASQIKLRAERLGLP----SDNLYLLA---E--------T-------------------NLEAILAT  151 (446)
T ss_pred             hcCCeEEEEEccccHHHHHHHHHHcCCC----hhcEEEeC---C--------C-------------------CHHHHHHH
Confidence            3578889999999999887767777776    22333221   0        0                   12222222


Q ss_pred             HHHhccCccCCCCCcEEEEEechhHHHHh------cChHHHHHHHHhhhc---CCceeEE-EeeecccccchhhHhHHhh
Q 023377          133 IIEQGKGLIGQGKDRFSIAIDSVSEMVRH------ASISSVAGILSNLRS---HDQVSSI-FWLLHSDLHEIKFTSVLEY  202 (283)
Q Consensus       133 i~e~~r~~~~~~k~~~tVaIDSLS~LL~h------~s~~~vc~lL~~Lr~---~~~vssV-l~LLHsDLHe~~~v~ALe~  202 (283)
                      +    +    +.++ -.|+|||++.+...      .+..++-..+..|.+   ...+.-+ ++-+..|-+-.+. ..++|
T Consensus       152 i----~----~~~~-~lVVIDSIq~l~~~~~~~~~g~~~qvr~~~~~L~~~ak~~~itvilv~hvtk~~~~ag~-~~leh  221 (446)
T PRK11823        152 I----E----EEKP-DLVVIDSIQTMYSPELESAPGSVSQVRECAAELMRLAKQRGIAVFLVGHVTKEGAIAGP-RVLEH  221 (446)
T ss_pred             H----H----hhCC-CEEEEechhhhccccccCCCCCHHHHHHHHHHHHHHHHHcCCEEEEEeeccCCCCcCCc-chhhh
Confidence            2    2    1233 47999999998752      123344333333333   1223222 2223233222222 56999


Q ss_pred             hheeEEEee
Q 023377          203 LSSMVASVE  211 (283)
Q Consensus       203 LSstvvtv~  211 (283)
                      ++.+++.++
T Consensus       222 lvD~Vi~le  230 (446)
T PRK11823        222 MVDTVLYFE  230 (446)
T ss_pred             hCeEEEEEE
Confidence            999999886

>cd01121 Sms Sms (bacterial radA) DNA repair protein

Probab=89.56  E-value=22  Score=34.92  Aligned_cols=115  Identities=20%  Similarity=0.184  Sum_probs=62.2

Q ss_pred             ccceeEEEEeecChHHHHHHHhhcCcCccCCCCeEEEEeccCCCCCCcccccCCccccccccccccccchhhhhHHHHHH
Q 023377           54 QSRGLVVVAYSRSPSFYVDLLKRRGIDIASSHDWIHILDCYTDPLGWKNWLIDKDISQEASSLSSFCQDVRNLDKLYSLI  133 (283)
Q Consensus        54 q~~~Vhvl~fe~Spe~y~~~lk~~G~d~~s~~~ri~i~D~ySDPLGW~~~~~~~~~~~~~s~~~~~~~~v~~L~sl~~si  133 (283)
                      +++.|..+.+|-+++....-.++-|++    ..++.+.+.                              .++..++..+
T Consensus       109 ~g~~VlYvs~EEs~~qi~~Ra~rlg~~----~~~l~l~~e------------------------------~~le~I~~~i  154 (372)
T cd01121         109 RGGKVLYVSGEESPEQIKLRADRLGIS----TENLYLLAE------------------------------TNLEDILASI  154 (372)
T ss_pred             cCCeEEEEECCcCHHHHHHHHHHcCCC----cccEEEEcc------------------------------CcHHHHHHHH
Confidence            457788889999998877766666665    233433210                              0122222222


Q ss_pred             HHhccCccCCCCCcEEEEEechhHHHHhc------ChHHHHHHHHhhhc---CCceeEE-EeeecccccchhhHhHHhhh
Q 023377          134 IEQGKGLIGQGKDRFSIAIDSVSEMVRHA------SISSVAGILSNLRS---HDQVSSI-FWLLHSDLHEIKFTSVLEYL  203 (283)
Q Consensus       134 ~e~~r~~~~~~k~~~tVaIDSLS~LL~h~------s~~~vc~lL~~Lr~---~~~vssV-l~LLHsDLHe~~~v~ALe~L  203 (283)
                          +    +.++ -.|+|||++.+....      +..++-..+..|.+   ...+.-+ ++-+..|-+-.+ .+.|+|+
T Consensus       155 ----~----~~~~-~lVVIDSIq~l~~~~~~~~~g~~~qvr~~~~~L~~lak~~~itvilvghvtk~g~~aG-~~~leh~  224 (372)
T cd01121         155 ----E----ELKP-DLVIIDSIQTVYSSELTSAPGSVSQVRECTAELMRFAKERNIPIFIVGHVTKEGSIAG-PKVLEHM  224 (372)
T ss_pred             ----H----hcCC-cEEEEcchHHhhccccccCCCCHHHHHHHHHHHHHHHHHcCCeEEEEeeccCCCcccC-cccchhh
Confidence                1    1233 479999999996532      13444333333333   2223222 222333332222 2589999


Q ss_pred             heeEEEeec
Q 023377          204 SSMVASVEP  212 (283)
Q Consensus       204 Sstvvtv~P  212 (283)
                      +.+++.++-
T Consensus       225 vD~Vi~le~  233 (372)
T cd01121         225 VDTVLYFEG  233 (372)
T ss_pred             ceEEEEEEc
Confidence            999998764

This protein is not related to archael radA any more than is to other RecA-like NTPases. Sms has a role in recombination and recombinational repair and is responsible for the stabilization or processing of branched DNA molecules.

>cd01393 recA_like RecA is a bacterial enzyme which has roles in homologous recombination, DNA repair, and the induction of the SOS response

Probab=89.49  E-value=7.1  Score=33.98  Aligned_cols=74  Identities=20%  Similarity=0.213  Sum_probs=45.1

Q ss_pred             ceeEEEEeecC--hHHHHHHHhhcCcCccCCCCeEEEEeccCCCCCCcccccCCccccccccccccccchhhhhHHHHHH
Q 023377           56 RGLVVVAYSRS--PSFYVDLLKRRGIDIASSHDWIHILDCYTDPLGWKNWLIDKDISQEASSLSSFCQDVRNLDKLYSLI  133 (283)
Q Consensus        56 ~~Vhvl~fe~S--pe~y~~~lk~~G~d~~s~~~ri~i~D~ySDPLGW~~~~~~~~~~~~~s~~~~~~~~v~~L~sl~~si  133 (283)
                      ..|..+..|.+  ++.+.+.....+.+.....+++++.++++                           ..++...+..+
T Consensus        54 ~~v~yi~~e~~~~~~rl~~~~~~~~~~~~~~~~~i~~~~~~~---------------------------~~~~~~~l~~~  106 (226)
T cd01393          54 GKVVYIDTEGAFRPERLVQLAVRFGLDPEEVLDNIYVARPYN---------------------------GEQQLEIVEEL  106 (226)
T ss_pred             ceEEEEecCCCCCHHHHHHHHHHhccchhhhhccEEEEeCCC---------------------------HHHHHHHHHHH
Confidence            77888888876  66777777777666554455677776531                           12233333333


Q ss_pred             HHhccCccCCCCCcEEEEEechhHHHHh
Q 023377          134 IEQGKGLIGQGKDRFSIAIDSVSEMVRH  161 (283)
Q Consensus       134 ~e~~r~~~~~~k~~~tVaIDSLS~LL~h  161 (283)
                      .+..+    +.+. -.|+||||+.+.+.
T Consensus       107 ~~~~~----~~~~-~lvVIDsis~l~~~  129 (226)
T cd01393         107 ERIMS----SGRV-DLVVVDSVAALFRK  129 (226)
T ss_pred             HHHhh----cCCe-eEEEEcCcchhhhh
Confidence            33211    1233 48999999998764

RecA couples ATP hydrolysis to DNA strand exchange. While prokaryotes have a single RecA protein, eukaryotes have multiple RecA homologs such as Rad51, DMC1 and Rad55/57. Archaea have the RecA-like homologs radA and radB.

>cd01123 Rad51_DMC1_radA Rad51_DMC1_radA,B

Probab=89.06  E-value=3.5  Score=36.15  Aligned_cols=75  Identities=19%  Similarity=0.186  Sum_probs=48.9

Q ss_pred             cceeEEEEeec--ChHHHHHHHhhcCcCccCCCCeEEEEeccCCCCCCcccccCCccccccccccccccchhhhhHHHHH
Q 023377           55 SRGLVVVAYSR--SPSFYVDLLKRRGIDIASSHDWIHILDCYTDPLGWKNWLIDKDISQEASSLSSFCQDVRNLDKLYSL  132 (283)
Q Consensus        55 ~~~Vhvl~fe~--Spe~y~~~lk~~G~d~~s~~~ri~i~D~ySDPLGW~~~~~~~~~~~~~s~~~~~~~~v~~L~sl~~s  132 (283)
                      .+++..+..|.  +++.+.+.+++.|.+.....+++++.++|+                           ..++..++..
T Consensus        53 ~~~viyi~~e~~~~~~rl~~~~~~~~~~~~~~~~~i~~~~~~~---------------------------~~~l~~~l~~  105 (235)
T cd01123          53 EGKAVYIDTEGTFRPERLVQIAERFGLDPEEVLDNIYVARAYN---------------------------SDHQLQLLEE  105 (235)
T ss_pred             CccEEEEeCCCCcCHHHHHHHHHHhccChHhHhcCEEEEecCC---------------------------HHHHHHHHHH
Confidence            46788888888  578888888888887666566777777542                           1123333344


Q ss_pred             HHHhccCccCCCCCcEEEEEechhHHHH
Q 023377          133 IIEQGKGLIGQGKDRFSIAIDSVSEMVR  160 (283)
Q Consensus       133 i~e~~r~~~~~~k~~~tVaIDSLS~LL~  160 (283)
                      +.+..+   ..+++ =.|+|||++.+.+
T Consensus       106 l~~~l~---~~~~~-~liVIDSis~~~~  129 (235)
T cd01123         106 LEAILI---ESSRI-KLVIVDSVTALFR  129 (235)
T ss_pred             HHHHHh---hcCCe-eEEEEeCcHHHHH
Confidence            433333   11133 5899999999875

This group of recombinases includes the eukaryotic proteins RAD51, RAD55/57 and the meiosis-specific protein DMC1, and the archaeal proteins radA and radB. They are closely related to the bacterial RecA group. Rad51 proteins catalyze a similiar recombination reaction as RecA, using ATP-dependent DNA binding activity and a DNA-dependent ATPase. However, this reaction is less efficient and requires accessory proteins such as RAD55/57 .

>cd01125 repA Hexameric Replicative Helicase RepA

Probab=86.36  E-value=16  Score=32.62  Aligned_cols=142  Identities=13%  Similarity=0.077  Sum_probs=74.9

Q ss_pred             cccceeEEEEeecChHHHHHHHhhcCcCc--cCCCCeEEEEeccCCCCCCcccccCCccccccccccccccchhhhhHHH
Q 023377           53 SQSRGLVVVAYSRSPSFYVDLLKRRGIDI--ASSHDWIHILDCYTDPLGWKNWLIDKDISQEASSLSSFCQDVRNLDKLY  130 (283)
Q Consensus        53 ~q~~~Vhvl~fe~Spe~y~~~lk~~G~d~--~s~~~ri~i~D~ySDPLGW~~~~~~~~~~~~~s~~~~~~~~v~~L~sl~  130 (283)
                      .+...|.+++.|-++++..+=++..+..-  +....++.+.+....|+.+...                  +.......+
T Consensus        39 ~~~~~Vlyi~~Ed~~~~i~~Rl~~i~~~~~~~~~~~rl~~~~g~~~~l~~~~~------------------~~~~~~~~~  100 (239)
T cd01125          39 TEPGRVVYLSAEDPREEIHRRLEAILQHLEPDDAGDRLFIDSGRIQPISIARE------------------GRIIVVPEF  100 (239)
T ss_pred             CCCceEEEEECCCCHHHHHHHHHHHHhhcCCcCcccceEEeccCCCceecccC------------------CcccccHHH
Confidence            35678999999999998776555543321  1113455544322222222110                  000112233


Q ss_pred             HHHHHhccCccCCCCCcEEEEEechhHHHH--hcChHHHHHHHHhhhcC-CceeEEEeeecccccch----------hhH
Q 023377          131 SLIIEQGKGLIGQGKDRFSIAIDSVSEMVR--HASISSVAGILSNLRSH-DQVSSIFWLLHSDLHEI----------KFT  197 (283)
Q Consensus       131 ~si~e~~r~~~~~~k~~~tVaIDSLS~LL~--h~s~~~vc~lL~~Lr~~-~~vssVl~LLHsDLHe~----------~~v  197 (283)
                      ..+++..+ .   .++ -.|+||+++.+-.  .......-+++..|++. .+-...+.++|.+-...          +=.
T Consensus       101 ~~l~~~~~-~---~~~-~lvviDpl~~~~~~~~~d~~~~~~~~~~L~~~a~~~g~avl~v~H~~K~~~~~~~~~~~~rGs  175 (239)
T cd01125         101 ERIIEQLL-I---RRI-DLVVIDPLVSFHGVSENDNGAMDAVIKALRRIAAQTGAAILLVHHVRKGSAKDGDTQEAARGA  175 (239)
T ss_pred             HHHHHHHH-h---cCC-CEEEECChHHhCCCCcCCHHHHHHHHHHHHHHHHHhCCEEEEEeccCcccccCcccccccCcH
Confidence            44454443 1   133 5899999988711  12233444445554431 22334555667666432          225


Q ss_pred             hHHhhhheeEEEeecCCccc
Q 023377          198 SVLEYLSSMVASVEPFNQAA  217 (283)
Q Consensus       198 ~ALe~LSstvvtv~P~~~~~  217 (283)
                      .||..-+.++..+.|.....
T Consensus       176 sal~~~~r~~~~l~~~~~~~  195 (239)
T cd01125         176 SALVDGARWVRALTRMTSEE  195 (239)
T ss_pred             HHHhcccceEEEEeeCCHHH
Confidence            67777788888888877655

RepA is encoded by a plasmid, which is found in most Gram negative bacteria. RepA is a 5'-3' DNA helicase which can utilize ATP, GTP and CTP to a lesser extent.

>PTZ00035 Rad51 protein; Provisional

Probab=86.22  E-value=16  Score=35.24  Aligned_cols=40  Identities=20%  Similarity=0.272  Sum_probs=28.8

Q ss_pred             cceeEEEEeec--ChHHHHHHHhhcCcCccCCCCeEEEEecc
Q 023377           55 SRGLVVVAYSR--SPSFYVDLLKRRGIDIASSHDWIHILDCY   94 (283)
Q Consensus        55 ~~~Vhvl~fe~--Spe~y~~~lk~~G~d~~s~~~ri~i~D~y   94 (283)
                      +..+..+..|.  +|+...+..++.|++.+..-.++.+.++|
T Consensus       152 ~g~vvyIdtE~~f~~eri~~ia~~~g~~~~~~l~nI~~~~~~  193 (337)
T PTZ00035        152 EGKVLYIDTEGTFRPERIVQIAERFGLDPEDVLDNIAYARAY  193 (337)
T ss_pred             CceEEEEEccCCCCHHHHHHHHHHhCCChHhHhhceEEEccC
Confidence            45677788887  48888888888888876655667666544

>TIGR02238 recomb_DMC1 meiotic recombinase Dmc1

Probab=85.99  E-value=16  Score=35.04  Aligned_cols=41  Identities=17%  Similarity=0.208  Sum_probs=32.1

Q ss_pred             ccceeEEEEeecC--hHHHHHHHhhcCcCccCCCCeEEEEecc
Q 023377           54 QSRGLVVVAYSRS--PSFYVDLLKRRGIDIASSHDWIHILDCY   94 (283)
Q Consensus        54 q~~~Vhvl~fe~S--pe~y~~~lk~~G~d~~s~~~ri~i~D~y   94 (283)
                      .+..+..+..|-+  |+...+.+++.|+|++..-+++.+.++|
T Consensus       129 ~~~~vvYIdtE~~f~~eRi~~~a~~~g~d~~~~l~~i~~~~~~  171 (313)
T TIGR02238       129 GNGKVAYIDTEGTFRPDRIRAIAERFGVDPDAVLDNILYARAY  171 (313)
T ss_pred             CCCeEEEEEcCCCCCHHHHHHHHHHcCCChHHhcCcEEEecCC
Confidence            3568889999994  9999999999999877655667766554

This model describes DMC1, a subfamily of a larger family of DNA repair and recombination proteins. It is eukaryotic only and most closely related to eukaryotic RAD51. It also resembles archaeal RadA (TIGR02236) and RadB (TIGR02237) and bacterial RecA (TIGR02012). It has been characterized for human as a recombinase active only in meiosis.

>cd01394 radB RadB

Probab=83.32  E-value=24  Score=30.69  Aligned_cols=64  Identities=23%  Similarity=0.127  Sum_probs=35.3

Q ss_pred             EEEEEechhHHHHhcCh---------HHHHHHHHhhhc----CCceeEEEeeeccccc----chhhHhHHhhhheeEEEe
Q 023377          148 FSIAIDSVSEMVRHASI---------SSVAGILSNLRS----HDQVSSIFWLLHSDLH----EIKFTSVLEYLSSMVASV  210 (283)
Q Consensus       148 ~tVaIDSLS~LL~h~s~---------~~vc~lL~~Lr~----~~~vssVl~LLHsDLH----e~~~v~ALe~LSstvvtv  210 (283)
                      -.|+|||++.+.+....         ..+.+.++.|+.    +....=+.+-+..+..    .|.--..++|++.+++.+
T Consensus       105 ~lvvIDsi~~l~~~~~~~~~~~~~~~~~l~~~~~~L~~~a~~~~~~vi~t~q~~~~~~~~~~~p~~g~~~~~~~d~~i~l  184 (218)
T cd01394         105 DLVVVDSATALYRLELGDDDTTIKNYRELAKQLTFLLWLARKHDVAVVITNQVYSDVGSGSVRPLGGHTLEHWSKVILRL  184 (218)
T ss_pred             cEEEEechHHhhhHHhcCccchHHHHHHHHHHHHHHHHHHHHhCCEEEEecCCEEcCCCCcccccCCcchhcceeEEEEE
Confidence            48999999999753221         134555444443    3333223333333332    122122689999999998


Q ss_pred             e
Q 023377          211 E  211 (283)
Q Consensus       211 ~  211 (283)
                      .
T Consensus       185 ~  185 (218)
T cd01394         185 E  185 (218)
T ss_pred             E
Confidence            6

The archaeal protein radB shares similarity radA, the archaeal functional homologue to the bacterial RecA. The precise function of radB is unclear.

>TIGR02239 recomb_RAD51 DNA repair protein RAD51

Probab=83.16  E-value=34  Score=32.73  Aligned_cols=39  Identities=13%  Similarity=0.217  Sum_probs=27.6

Q ss_pred             ceeEEEEeec--ChHHHHHHHhhcCcCccCCCCeEEEEecc
Q 023377           56 RGLVVVAYSR--SPSFYVDLLKRRGIDIASSHDWIHILDCY   94 (283)
Q Consensus        56 ~~Vhvl~fe~--Spe~y~~~lk~~G~d~~s~~~ri~i~D~y   94 (283)
                      ..+..+..|.  +|+-+.+..++.|++++..-+++++.++|
T Consensus       131 ~~vvyIdtE~~f~~~Rl~~ia~~~~~~~~~~l~~i~~~~~~  171 (316)
T TIGR02239       131 GKALYIDTEGTFRPERLLAIAERYGLNPEDVLDNVAYARAY  171 (316)
T ss_pred             ceEEEEECCCCCCHHHHHHHHHHcCCChHHhhccEEEEecC
Confidence            4677788888  68888888888888866545566666543

This eukaryotic sequence family consists of RAD51, a protein involved in DNA homologous recombination and repair. It is similar in sequence the exclusively meiotic recombinase DMC1 (TIGR02238), to archaeal families RadA (TIGR02236) and RadB (TIGR02237), and to bacterial RecA (TIGR02012).

>PLN03187 meiotic recombination protein DMC1 homolog; Provisional

Probab=81.86  E-value=13  Score=36.45  Aligned_cols=39  Identities=21%  Similarity=0.256  Sum_probs=31.6

Q ss_pred             ceeEEEEeec--ChHHHHHHHhhcCcCccCCCCeEEEEecc
Q 023377           56 RGLVVVAYSR--SPSFYVDLLKRRGIDIASSHDWIHILDCY   94 (283)
Q Consensus        56 ~~Vhvl~fe~--Spe~y~~~lk~~G~d~~s~~~ri~i~D~y   94 (283)
                      ..+..+.+|.  +|+-+.+..++.|+|++..-++|++.++|
T Consensus       161 ~~vvyIdTE~tF~peRl~~ia~~~g~d~~~~l~~I~~~~~~  201 (344)
T PLN03187        161 GKVAYIDTEGTFRPDRIVPIAERFGMDADAVLDNIIYARAY  201 (344)
T ss_pred             ceEEEEEcCCCCCHHHHHHHHHHcCCChhhhcCeEEEecCC
Confidence            5788999998  79999999999999877655677766654

---

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	Length	Definition	Probability
Query	283
4a8j_B	270	Elongator complex protein 5; transcription; 2.10A	98.75
4a8j_C	280	Elongator complex protein 6; transcription; 2.10A	97.95
3bs4_A	260	Uncharacterized protein PH0321; structural genomic	97.85
2zts_A	251	Putative uncharacterized protein PH0186; KAIC like	95.87
2dr3_A	247	UPF0273 protein PH0284; RECA superfamily ATPase, h	94.51
3bh0_A	315	DNAB-like replicative helicase; ATPase, replicatio	94.44
2w0m_A	235	SSO2452; RECA, SSPF, unknown FUN; 2.0A {Sulfolobus	92.76
2i1q_A	322	DNA repair and recombination protein RADA; ATPase,	92.35
2z43_A	324	DNA repair and recombination protein RADA; archaea	90.32
4a8j_A	361	Elongator complex protein 4; transcription; 2.10A	89.86
2cvh_A	220	DNA repair and recombination protein RADB; filamen	89.84
2q6t_A	444	DNAB replication FORK helicase; hydrolase; 2.90A {	88.95
3bgw_A	444	DNAB-like replicative helicase; ATPase, replicatio	87.72
1q57_A	503	DNA primase/helicase; dntpase, DNA replication, tr	86.76
2r6a_A	454	DNAB helicase, replicative helicase; replication,	82.88
3cmu_A	2050	Protein RECA, recombinase A; homologous recombinat	81.55

>4a8j_B Elongator complex protein 5; transcription; 2.10A {Saccharomyces cerevisiae} PDB: 4ejs_B

Probab=98.75  E-value=5.8e-08  Score=89.67  Aligned_cols=178  Identities=14%  Similarity=0.161  Sum_probs=113.3

Q ss_pred             CCceeecccCCCCchhhHHHHHHHHHHHHHHhhccccceeEEEEeecChHHHHHHHhhcCcCccCCCCeEEEEeccCCCC
Q 023377           19 APALTIKDSKASPFGFDVFNYVLTQLSNYILAGKSQSRGLVVVAYSRSPSFYVDLLKRRGIDIASSHDWIHILDCYTDPL   98 (283)
Q Consensus        19 ap~l~i~Dsl~~~~g~~~~~h~~~~l~s~i~a~~~q~~~Vhvl~fe~Spe~y~~~lk~~G~d~~s~~~ri~i~D~ySDPL   98 (283)
                      .|++++.|||+-++ ..+.+-++.    ..+.. .+...|.+|.||---.       =.|.        -+++||..   
T Consensus        22 SPltLvLDSLeQsA-~pLi~E~i~----rak~~-~~k~~IIyvSFETl~k-------P~~a--------d~FI~a~~---   77 (270)
T 4a8j_B           22 SPFILCLDSIAQTS-YKLIQEFVH----QSKSK-GNEYPIVYISFETVNK-------PSYC--------TQFIDATQ---   77 (270)
T ss_dssp             CSEEEEEEBTTBCS-HHHHHHHHH----HHHHT-SCCCCEEEEESSCCSC-------CTTC--------SEEEETTS---
T ss_pred             CCeEEEeecccccC-hHHHHHHHH----HHhhc-cCCCcEEEEEeecccC-------CCCC--------CeeeEcCC---
Confidence            79999999999885 544444433    22211 1344599999985321       0012        23666432   


Q ss_pred             CCcccccCCccccccccccccccchhhhhHHHHHHHHhccCccCCCCCcEEEEEechhHHHHhcChHHHHHHHHhhhcCC
Q 023377           99 GWKNWLIDKDISQEASSLSSFCQDVRNLDKLYSLIIEQGKGLIGQGKDRFSIAIDSVSEMVRHASISSVAGILSNLRSHD  178 (283)
Q Consensus        99 GW~~~~~~~~~~~~~s~~~~~~~~v~~L~sl~~si~e~~r~~~~~~k~~~tVaIDSLS~LL~h~s~~~vc~lL~~Lr~~~  178 (283)
                         ..                      +..+...|.....+.....+.+..|+||||..++.    ..+.++++.+-+ |
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               21                      12222233333321111113348999999999986    578888888885 5


Q ss_pred             ceeEEEeeeccccc-------------chhhHhHHhhhheeEEEeecCCcccccccccchhhhhh----hccccceeEEE
Q 023377          179 QVSSIFWLLHSDLH-------------EIKFTSVLEYLSSMVASVEPFNQAAFGQRVDLENLSML----EQNFRKGKFHV  241 (283)
Q Consensus       179 ~vssVl~LLHsDLH-------------e~~~v~ALe~LSstvvtv~P~~~~~~~~~~~~~~~~~l----~~n~~k~~~~v  241 (283)
                       -.++++--|.|+.             .|....-|.|||+++++|.|...+..-.|.--+.++-+    .-|...=++.+
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             4589999999974             56677889999999999999988775444322233322    45777778899


Q ss_pred             EEeccCCcee
Q 023377          242 RFKRRNGRVR  251 (283)
Q Consensus       242 r~KrRnGRV~  251 (283)
                      ..||++||=.
T Consensus       207 tnrRKSGRsl  216 (270)
T 4a8j_B          207 VNKRKSGRSL  216 (270)
T ss_dssp             EEECTTSCEE
T ss_pred             EeccccCcce
Confidence            9999999953

>4a8j_C Elongator complex protein 6; transcription; 2.10A {Saccharomyces cerevisiae} PDB: 4ejs_C

Probab=97.95  E-value=0.00025  Score=65.97  Aligned_cols=172  Identities=13%  Similarity=0.168  Sum_probs=110.6

Q ss_pred             cC-CCCCceeecccCCCCchhhHHHHHHHHHHHHHHhhc--------------cccceeEEEEeecChHHHHHHHhhcCc
Q 023377           15 EG-EHAPALTIKDSKASPFGFDVFNYVLTQLSNYILAGK--------------SQSRGLVVVAYSRSPSFYVDLLKRRGI   79 (283)
Q Consensus        15 ~g-e~ap~l~i~Dsl~~~~g~~~~~h~~~~l~s~i~a~~--------------~q~~~Vhvl~fe~Spe~y~~~lk~~G~   79 (283)
                      ++ +..-+++|..++.+..     +|++..+.....-|.              .....|+++.|-+.+++|.+.+||-|+
T Consensus        31 ~~~~~~~L~liT~~~gTsp-----~WLin~lves~L~G~~~~~n~~~~~~~~~~~~~~Vv~~SF~~~~~fy~~~~~Klgi  105 (280)
T 4a8j_C           31 QDSNSHNLFFITHQSCTQP-----LWMINALVETHVLGSPSSLNESSSSMLPSSTRSHAVLASFIHEQNYFTNSLNKLKI  105 (280)
T ss_dssp             TSSSCCEEEEEEECTTSCC-----HHHHHHHHHHHHHSSCHHHHCC----CCCCCCCEEEEEESSSCHHHHHHHHHHTTC
T ss_pred             CCCCCceEEEEccccCCCh-----HHHHHHHHHHHhcCCcccccccccccccCCCCceEEEEEeecCHHHHHHHHHHhCC
Confidence            55 6777888999885443     233333322222111              133579999999999999999999999


Q ss_pred             CccCCCCeEEEEeccCCCCCCccc-ccCCccccccccccccccchhhhhHHHHHHHHhccCccCCCCCcEEEEEechhHH
Q 023377           80 DIASSHDWIHILDCYTDPLGWKNW-LIDKDISQEASSLSSFCQDVRNLDKLYSLIIEQGKGLIGQGKDRFSIAIDSVSEM  158 (283)
Q Consensus        80 d~~s~~~ri~i~D~ySDPLGW~~~-~~~~~~~~~~s~~~~~~~~v~~L~sl~~si~e~~r~~~~~~k~~~tVaIDSLS~L  158 (283)
                      |.    .++.++|||||..  .++ ..  .+   ..      +..+++.+++..++....      + +.+|+||..-.|
T Consensus       106 dl----~~f~fvD~~tdl~--~~~~~~--kp---~~------~~l~~v~~~f~~~i~~~~------~-~~vlIldqpdlL  161 (280)
T 4a8j_C          106 PS----NNYNVLDFLSDFI--VNNIHN--KP---RD------KILSDVLAKFSAAIQNNP------T-DTIVIIEQPELL  161 (280)
T ss_dssp             CG----GGEEEEESSTTHH--HHHTTT--CC---HH------HHHHHHHHHHHHHHHTST------T-SEEEEEECGGGH
T ss_pred             Ch----hheeEEEecchhh--hhcccC--Cc---ch------hhhHHHHHHHhhhhhccC------C-CeEEEEcChHHH
Confidence            95    5799999999998  111 01  00   00      012455555555444321      2 379999999888


Q ss_pred             HHh---cChHHH-HHHHHhhhcCCceeEEEeeecccc---cc----------hhhHhHHhhhheeEEEeecCCccc
Q 023377          159 VRH---ASISSV-AGILSNLRSHDQVSSIFWLLHSDL---HE----------IKFTSVLEYLSSMVASVEPFNQAA  217 (283)
Q Consensus       159 L~h---~s~~~v-c~lL~~Lr~~~~vssVl~LLHsDL---He----------~~~v~ALe~LSstvvtv~P~~~~~  217 (283)
                      |--   ....++ -..|..|++... ..|+.+ ..|.   |+          ..++-.+-|.|.++++|.|+.-+-
T Consensus       162 La~t~~it~~~L~~~~I~~L~k~~~-~lvvt~-saD~pli~~~~~t~~~~e~a~f~~~l~H~A~~visLrpL~TG~  235 (280)
T 4a8j_C          162 LSLVSGLTCSELNNKFITPLLRQCK-VLIIVS-NSDIFNIDEYDASVHSSNLQNFYKSSFIKSMINLNLNPLKTGF  235 (280)
T ss_dssp             HHHSTTCCHHHHHHHTHHHHHHTCS-EEEEEE-ECGGGCCSSCCHHHHTHHHHHHHHHHHHHCSEEEEEECCCC--
T ss_pred             HHhccCCCHHHHHHHHHHHHHHhcc-eEEEEe-ccCccccccCCCCchHHHHHHHHHHHHHHhheEEeecccCCcc
Confidence            774   456666 888899987432 223332 3333   31          357788999999999999976543

>3bs4_A Uncharacterized protein PH0321; structural genomics, unknown function, PSI-2, protein struct initiative; 1.60A {Pyrococcus horikoshii}

Probab=97.85  E-value=0.00024  Score=64.68  Aligned_cols=165  Identities=13%  Similarity=0.111  Sum_probs=101.1

Q ss_pred             chhhHHHHHHHHHHHHHHhhccccceeEEEEeecChHHHHHHHhhcCcCccCC--CCeEEEEeccCCCCCCcccccCCcc
Q 023377           32 FGFDVFNYVLTQLSNYILAGKSQSRGLVVVAYSRSPSFYVDLLKRRGIDIASS--HDWIHILDCYTDPLGWKNWLIDKDI  109 (283)
Q Consensus        32 ~g~~~~~h~~~~l~s~i~a~~~q~~~Vhvl~fe~Spe~y~~~lk~~G~d~~s~--~~ri~i~D~ySDPLGW~~~~~~~~~  109 (283)
                      +|..+..+|+       .++..+++.+.+++||-+|++++.-++..|+|.+..  +.++.++|.|++..++......   
T Consensus        33 ~~~~l~~qfl-------~~g~~~Ge~~~~~~~~e~~~~l~~~~~~~G~dl~~~~~~g~l~i~d~~~~~~~~~~~~~~---  102 (260)
T 3bs4_A           33 RGKDILFYIL-------SRKLKSDNLVGMFSISYPLQLIIRILSRFGVDVIKYLENHRLAIVDTFGSFHGIKATMPG---  102 (260)
T ss_dssp             CHHHHHHHHH-------HHHHHTTCEEEEEECSSCHHHHHHHHHHTTCCHHHHHHTTSEEEECHHHHHHTC---CTT---
T ss_pred             cHHHHHHHHH-------HHHHHCCCcEEEEEEeCCHHHHHHHHHHcCCCHHHHhhCCcEEEEEcccccccccccccc---
Confidence            4555445553       357788999999999999999999999999997641  3579999998855544332000   


Q ss_pred             ccccccccccccchhhhhHHHHHHHHhccC---ccC-CCCCcEEEEEechhHHHHhcChHHHHHHHHhhh----------
Q 023377          110 SQEASSLSSFCQDVRNLDKLYSLIIEQGKG---LIG-QGKDRFSIAIDSVSEMVRHASISSVAGILSNLR----------  175 (283)
Q Consensus       110 ~~~~s~~~~~~~~v~~L~sl~~si~e~~r~---~~~-~~k~~~tVaIDSLS~LL~h~s~~~vc~lL~~Lr----------  175 (283)
                      --+.+..+    ++..+-.....+++..|+   ... -+..|+.++||||+.+..-.+....-+.+.++.          
T Consensus       103 v~~~~~e~----d~~~l~~~i~~iv~~~~~~~~i~~~~~~~rvv~vidsldsl~~~~~~~~~~~~~~~ll~~~~~~~~~~  178 (260)
T 3bs4_A          103 VWYLEGML----SSETLPIKYAKAVEDHKKVWMDLNLFEGRELYGFAISMSGYLEVFTPEETLRYLETSAEVRYGHPAYK  178 (260)
T ss_dssp             EECCCSCC----CTTTHHHHHHHHHHHHHHHHHHTTCSTTCCEEEEEETGGGGGGTSCHHHHHHHHHHHHHHHHHCHHHH
T ss_pred             eecccccC----CHHHHHHHHHHHHHhhccccchhhccCCceEEEEEeecchHHHHhChhhHHHHHHHHHHhhhhHHHHh
Confidence            00000001    233332224455554210   011 123457788888887777666655544444442          


Q ss_pred             cCCceeEEEeeecccccchhhHhHHhhhheeEEEeec
Q 023377          176 SHDQVSSIFWLLHSDLHEIKFTSVLEYLSSMVASVEP  212 (283)
Q Consensus       176 ~~~~vssVl~LLHsDLHe~~~v~ALe~LSstvvtv~P  212 (283)
                      +...+..++ ++. |.+.+.....+.++|-.||.+.-
T Consensus       179 ~~~~~ttil-~~~-~~~~~~~~~~l~~laD~VI~lr~  213 (260)
T 3bs4_A          179 KYPRGTNFW-LWE-GVKDKRVLLSVYRRADYVLKTRS  213 (260)
T ss_dssp             SSCCCEEEE-EEE-SCSCHHHHHHHHHHCSEEEEEEE
T ss_pred             ccCCcEEEE-EEC-CCcccccccceEEEeeEEEEEEE
Confidence            214454444 455 78787778899999999999954

>2zts_A Putative uncharacterized protein PH0186; KAIC like protein, ATP-binding, nucleotide-binding, ATP- binding protein; HET: ADP; 2.07A {Pyrococcus horikoshii}

Probab=95.87  E-value=0.21  Score=41.54  Aligned_cols=172  Identities=13%  Similarity=0.074  Sum_probs=83.4

Q ss_pred             CCCCCceeecccCCCCchhhHHHHHHHHHHHHHHhhccccceeEEEEeecChHHHHHHHhhcCcCccC--CCCeEEEEec
Q 023377           16 GEHAPALTIKDSKASPFGFDVFNYVLTQLSNYILAGKSQSRGLVVVAYSRSPSFYVDLLKRRGIDIAS--SHDWIHILDC   93 (283)
Q Consensus        16 ge~ap~l~i~Dsl~~~~g~~~~~h~~~~l~s~i~a~~~q~~~Vhvl~fe~Spe~y~~~lk~~G~d~~s--~~~ri~i~D~   93 (283)
                      |=+++.+++----...+=+.+..+++.      .+.+.+++.|.++.+|-+++...+-+.+.|.+.+.  ...++.+.|.
T Consensus        26 Gl~~G~l~~i~G~pG~GKT~l~l~~~~------~~~~~~~~~v~~~s~E~~~~~~~~~~~~~~~~~~~~~~~~~~~~~d~   99 (251)
T 2zts_A           26 GFPEGTTVLLTGGTGTGKTTFAAQFIY------KGAEEYGEPGVFVTLEERARDLRREMASFGWDFEKYEKEGKIAIVDG   99 (251)
T ss_dssp             SEETTCEEEEECCTTSSHHHHHHHHHH------HHHHHHCCCEEEEESSSCHHHHHHHHHTTTCCHHHHHHTTSEEEEC-
T ss_pred             CCCCCeEEEEEeCCCCCHHHHHHHHHH------HHHHhcCCCceeecccCCHHHHHHHHHHcCCChHHHHhcCcchhhhh
Confidence            445554444333333343444444432      12334577899999999999999988887776443  2346889998


Q ss_pred             cCCCCCCcccccCCccccccccccccccchhhhhHHHHHHHHhccCccCCCCCcEEEEEechhHHHHhcC-hHHHHHHHH
Q 023377           94 YTDPLGWKNWLIDKDISQEASSLSSFCQDVRNLDKLYSLIIEQGKGLIGQGKDRFSIAIDSVSEMVRHAS-ISSVAGILS  172 (283)
Q Consensus        94 ySDPLGW~~~~~~~~~~~~~s~~~~~~~~v~~L~sl~~si~e~~r~~~~~~k~~~tVaIDSLS~LL~h~s-~~~vc~lL~  172 (283)
                      ++...+.......            ...+..+...+...+.+..+    +.++ -.|+||+++.+....+ ...+-..++
T Consensus       100 ~~~~~~~~~~~~~------------~~~~~~~~~~~~~~~~~~~~----~~~~-~~vviD~~~~l~~~~~~~~~~~~~~~  162 (251)
T 2zts_A          100 VSSVVGLPSEEKF------------VLEDRFNVDNFLRYIYRVVK----AINA-KRLVIDSIPSIALRLEEERKIREVLL  162 (251)
T ss_dssp             ------------------------------CCHHHHHHHHHHHHH----HTTC-SEEEEECHHHHHHHSSSGGGHHHHHH
T ss_pred             HHHHhhcccchhc------------cccccccHHHHHHHHHHHHH----hcCC-cEEEEEcHHHHhhhccChHHHHHHHH
Confidence            8766543322110            00011112222333333333    1122 3789999999987553 233344444


Q ss_pred             hhhcC---CceeEEEeeecc---cccchhhHhHHhhhheeEEEee
Q 023377          173 NLRSH---DQVSSIFWLLHS---DLHEIKFTSVLEYLSSMVASVE  211 (283)
Q Consensus       173 ~Lr~~---~~vssVl~LLHs---DLHe~~~v~ALe~LSstvvtv~  211 (283)
                      .|.+.   -.+. ++.+-|.   +.......+.++++|.+++.+.
T Consensus       163 ~L~~~a~~~~i~-vi~~~q~~~~~~~~~~~~~~~~~~aD~vi~l~  206 (251)
T 2zts_A          163 KLNTILLEMGVT-TILTTEAPDPQHGKLSRYGIEEFIARGVIVLD  206 (251)
T ss_dssp             HHHHHHHHHCCE-EEEEECCC----CCSSSSSCGGGGCSEEEEEE
T ss_pred             HHHHHHHHcCCC-eEEEEEEecccccccccCCceeEEeeEEEEEE
Confidence            44441   1111 2222221   1112233457889999998884

>2dr3_A UPF0273 protein PH0284; RECA superfamily ATPase, hexamer, structural genomics; HET: ADP; 2.00A {Pyrococcus horikoshii}

Probab=94.51  E-value=0.52  Score=39.16  Aligned_cols=142  Identities=12%  Similarity=0.144  Sum_probs=73.8

Q ss_pred             cccceeEEEEeecChHHHHHHHhhcCcCccCC--CCeEEEEeccCCCCCCcccccCCccccccccccccccchhhhhHHH
Q 023377           53 SQSRGLVVVAYSRSPSFYVDLLKRRGIDIASS--HDWIHILDCYTDPLGWKNWLIDKDISQEASSLSSFCQDVRNLDKLY  130 (283)
Q Consensus        53 ~q~~~Vhvl~fe~Spe~y~~~lk~~G~d~~s~--~~ri~i~D~ySDPLGW~~~~~~~~~~~~~s~~~~~~~~v~~L~sl~  130 (283)
                      .+++.+.++.+|.++++..+-+++.|++....  ..++.+.|+|.+-.+.......          +.. .+..++..+.
T Consensus        49 ~~~~~v~~~~~e~~~~~~~~~~~~~g~~~~~~~~~~~l~~~~~~~~~~~~~~~~~~----------~~~-~~~~~~~~~~  117 (247)
T 2dr3_A           49 KMGEPGIYVALEEHPVQVRQNMAQFGWDVKPYEEKGMFAMVDAFTAGIGKSKEYEK----------YIV-HDLTDIREFI  117 (247)
T ss_dssp             HTTCCEEEEESSSCHHHHHHHHHTTTCCCHHHHHHTSEEEEECSTTTTCC--CCCS----------CBC-SCCSSHHHHH
T ss_pred             hcCCeEEEEEccCCHHHHHHHHHHcCCCHHHHhhCCcEEEEecchhhccccccccc----------ccc-cCccCHHHHH
Confidence            35789999999999999988888888875431  2368999987654432111000          000 0111222232


Q ss_pred             HHHHHhccCccCCCCCcEEEEEechhHHHHhcChHHHHHHHHhhhc---CCceeEEEeeecccccchhh-HhHHhhhhee
Q 023377          131 SLIIEQGKGLIGQGKDRFSIAIDSVSEMVRHASISSVAGILSNLRS---HDQVSSIFWLLHSDLHEIKF-TSVLEYLSSM  206 (283)
Q Consensus       131 ~si~e~~r~~~~~~k~~~tVaIDSLS~LL~h~s~~~vc~lL~~Lr~---~~~vssVl~LLHsDLHe~~~-v~ALe~LSst  206 (283)
                      ..+.+..+ .   .++ -.|+||+++.++. ......-+.+..|.+   ... ..|+..-|..-.+... -.++++.+.+
T Consensus       118 ~~i~~~~~-~---~~~-~~vviD~~~~l~~-~~~~~~~~~l~~l~~~~~~~~-~~vi~~~h~~~~~~~~~~~~~~~~~D~  190 (247)
T 2dr3_A          118 EVLRQAIR-D---INA-KRVVVDSVTTLYI-NKPAMARSIILQLKRVLAGTG-CTSIFVSQVSVGERGFGGPGVEHGVDG  190 (247)
T ss_dssp             HHHHHHHH-H---HTC-CEEEEETSGGGTT-TCGGGHHHHHHHHHHHHHHTT-CEEEEEEECC----CCC-CCHHHHSSE
T ss_pred             HHHHHHHH-H---hCC-CEEEECCchHhhc-CCHHHHHHHHHHHHHHHHHCC-CeEEEEecCCCCcccccccccceeEEE
Confidence            33333332 0   123 3799999998872 222223333333332   122 2455455543221100 0036788888


Q ss_pred             EEEeec
Q 023377          207 VASVEP  212 (283)
Q Consensus       207 vvtv~P  212 (283)
                      ++.+..
T Consensus       191 vi~L~~  196 (247)
T 2dr3_A          191 IIRLDL  196 (247)
T ss_dssp             EEEEEE
T ss_pred             EEEEEE
Confidence            888865

>3bh0_A DNAB-like replicative helicase; ATPase, replication; 2.35A {Bacillus phage SPP1}

Probab=94.44  E-value=0.35  Score=43.78  Aligned_cols=65  Identities=12%  Similarity=0.162  Sum_probs=37.0

Q ss_pred             EEEEEechhHHHHhcC----hHHHHHHHHhhhc---CCceeEEEeeec--ccc----------cchhhHhHHhhhheeEE
Q 023377          148 FSIAIDSVSEMVRHAS----ISSVAGILSNLRS---HDQVSSIFWLLH--SDL----------HEIKFTSVLEYLSSMVA  208 (283)
Q Consensus       148 ~tVaIDSLS~LL~h~s----~~~vc~lL~~Lr~---~~~vssVl~LLH--sDL----------He~~~v~ALe~LSstvv  208 (283)
                      ..|+||+|+.|-...+    ...+...++.|++   .-.+ .|+.+-|  .+.          ..-+-.+++|++|.+++
T Consensus       183 ~lVVID~l~~l~~~~~~~~r~~~i~~~~~~Lk~lAk~~~i-~vi~lsql~r~~e~r~~~~p~l~dlr~sg~ie~~aD~vi  261 (315)
T 3bh0_A          183 VIVMIDYLQLLEPAKANDSRTNQISQISRDLKKMARELDV-VVIALSQLSRQVEQRQDKRPMLSDLRESGQLEQDADIIE  261 (315)
T ss_dssp             EEEEEECGGGSBCSCTTSCHHHHHHHHHHHHHHHHHHHTC-EEEEEECCCGGGTTSSSCCCCGGGGTTTSHHHHHCSEEE
T ss_pred             eEEEEeCchhcCCCCCCCCHHHHHHHHHHHHHHHHHHhCC-eEEEEeecCcccccCCCCCCCHHHhhhhhhhHhhCCEEE
Confidence            4899999998753211    1445555555543   1122 2444434  111          11223478999999999


Q ss_pred             EeecC
Q 023377          209 SVEPF  213 (283)
Q Consensus       209 tv~P~  213 (283)
                      .+...
T Consensus       262 ~L~r~  266 (315)
T 3bh0_A          262 FLYRD  266 (315)
T ss_dssp             EEEEH
T ss_pred             EEecc
Confidence            99753

>2w0m_A SSO2452; RECA, SSPF, unknown FUN; 2.0A {Sulfolobus solfataricus P2}

Probab=92.76  E-value=2.2  Score=34.67  Aligned_cols=138  Identities=12%  Similarity=0.074  Sum_probs=72.9

Q ss_pred             ccceeEEEEeecChHHHHHHHhhcCcCccCC-CCeEEEEeccCCCCCCcccccCCccccccccccccccchhhhhHHHHH
Q 023377           54 QSRGLVVVAYSRSPSFYVDLLKRRGIDIASS-HDWIHILDCYTDPLGWKNWLIDKDISQEASSLSSFCQDVRNLDKLYSL  132 (283)
Q Consensus        54 q~~~Vhvl~fe~Spe~y~~~lk~~G~d~~s~-~~ri~i~D~ySDPLGW~~~~~~~~~~~~~s~~~~~~~~v~~L~sl~~s  132 (283)
                      ++..|.++++|.+++.....+++.|++.... ..++.++|.+....+ ......           ..  +..++...+..
T Consensus        50 ~~~~v~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~-~~~~~~-----------~~--~~~~~~~~~~~  115 (235)
T 2w0m_A           50 DGDPCIYVTTEESRDSIIRQAKQFNWDFEEYIEKKLIIIDALMKEKE-DQWSLV-----------NL--TPEELVNKVIE  115 (235)
T ss_dssp             HTCCEEEEESSSCHHHHHHHHHHTTCCCGGGBTTTEEEEECCC-----CTTBCS-----------SC--CHHHHHHHHHH
T ss_pred             CCCeEEEEEcccCHHHHHHHHHHhcchHHHHhhCCEEEEeccccccC-ceeeec-----------CC--CHHHHHHHHHH
Confidence            4668999999999998888777777775431 225778887765543 110000           00  22333332222


Q ss_pred             HHHhccCccCCCCCcEEEEEechhHHHH--hcChHHHHHHHHhhhcCCceeEEEeeecccccchhhH-hHHhhhheeEEE
Q 023377          133 IIEQGKGLIGQGKDRFSIAIDSVSEMVR--HASISSVAGILSNLRSHDQVSSIFWLLHSDLHEIKFT-SVLEYLSSMVAS  209 (283)
Q Consensus       133 i~e~~r~~~~~~k~~~tVaIDSLS~LL~--h~s~~~vc~lL~~Lr~~~~vssVl~LLHsDLHe~~~v-~ALe~LSstvvt  209 (283)
                      ..+..+     ++ ...|+||+++.++.  ......+.+.|..+.+...+ .|+..-|..-.+.+.. ..+++++..++.
T Consensus       116 ~~~~~~-----~~-~~llilDe~~~~~~~d~~~~~~~~~~l~~~~~~~~~-~vi~~~h~~~~~~~~~~~~~~~~~d~vi~  188 (235)
T 2w0m_A          116 AKQKLG-----YG-KARLVIDSVSALFLDKPAMARKISYYLKRVLNKWNF-TIYATSQYAITTSQAFGFGVEHVADGIIR  188 (235)
T ss_dssp             HHHHHC-----SS-CEEEEEETGGGGSSSCGGGHHHHHHHHHHHHHHTTE-EEEEEEC-----------CHHHHCSEEEE
T ss_pred             HHHhhC-----CC-ceEEEEECchHhhcCCHHHHHHHHHHHHHHHHhCCC-eEEEEeccCcccccccccchheeeeEEEE
Confidence            222211     22 25899999999873  22345566666666432232 4444444321222222 458889999888


Q ss_pred             eec
Q 023377          210 VEP  212 (283)
Q Consensus       210 v~P  212 (283)
                      +.-
T Consensus       189 l~~  191 (235)
T 2w0m_A          189 FRR  191 (235)
T ss_dssp             EEE
T ss_pred             EEE
Confidence            865

>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*

Probab=92.35  E-value=0.35  Score=43.25  Aligned_cols=125  Identities=11%  Similarity=0.069  Sum_probs=70.2

Q ss_pred             ceeEEEEeecC--hHHHHHHHhhcCcCccCCCCeEEEEeccCCCCCCcccccCCccccccccccccccchhhhhHHHHHH
Q 023377           56 RGLVVVAYSRS--PSFYVDLLKRRGIDIASSHDWIHILDCYTDPLGWKNWLIDKDISQEASSLSSFCQDVRNLDKLYSLI  133 (283)
Q Consensus        56 ~~Vhvl~fe~S--pe~y~~~lk~~G~d~~s~~~ri~i~D~ySDPLGW~~~~~~~~~~~~~s~~~~~~~~v~~L~sl~~si  133 (283)
                      ..|..+.+|.+  |+...+.+++.|+|.+..-+++.+.+.++                           ..++..++..+
T Consensus       143 ~~v~yi~~e~~~~~~~l~~~~~~~g~~~~~~~~~l~~~~~~~---------------------------~~~~~~~l~~l  195 (322)
T 2i1q_A          143 PKAVYIDTEGTFRPERIMQMAEHAGIDGQTVLDNTFVARAYN---------------------------SDMQMLFAEKI  195 (322)
T ss_dssp             EEEEEEESSSCCCHHHHHHHHHHHTCCHHHHHHTEEEEECSS---------------------------HHHHHHHHHTH
T ss_pred             ceEEEEECCCCCCHHHHHHHHHHcCCCHHHHhcCEEEEeCCC---------------------------HHHHHHHHHHH
Confidence            78999999987  88888888888887543223466555321                           11111222223


Q ss_pred             HHhccCccCCCCCcEEEEEechhHHHHhcC-----h----HHHHHHHHhhhcC---CceeEEEeeec--cccc-------
Q 023377          134 IEQGKGLIGQGKDRFSIAIDSVSEMVRHAS-----I----SSVAGILSNLRSH---DQVSSIFWLLH--SDLH-------  192 (283)
Q Consensus       134 ~e~~r~~~~~~k~~~tVaIDSLS~LL~h~s-----~----~~vc~lL~~Lr~~---~~vssVl~LLH--sDLH-------  192 (283)
                      .+..+.   ..++ -.|+||||+.+.+..-     .    ..+.+.++.|++.   -.+ .|+..-|  .+..       
T Consensus       196 ~~~~~~---~~~~-~lvVIDsl~~l~~~~~~~~~~~~~r~~~~~~~~~~L~~la~~~~~-~vi~~nq~~~~~~~~~g~~~  270 (322)
T 2i1q_A          196 EDLIQE---GNNI-KLVVIDSLTSTFRNEYTGRGKLAERQQKLGRHMATLNKLADLFNC-VVLVTNQVSAKPDAFFGMAE  270 (322)
T ss_dssp             HHHHHT---TCEE-EEEEEECSSHHHHHHCCCTTSHHHHHHHHHHHHHHHHHHHHHTTC-EEEEEECEECC-------CC
T ss_pred             HHHHhh---ccCc-cEEEEECcHHHHHHHhcCCccHHHHHHHHHHHHHHHHHHHHHhCC-EEEEECceeecCCCCCCCCc
Confidence            333330   0223 5899999999986411     1    2356666666541   122 2222222  2222       


Q ss_pred             chhhHhHHhhhheeEEEeec
Q 023377          193 EIKFTSVLEYLSSMVASVEP  212 (283)
Q Consensus       193 e~~~v~ALe~LSstvvtv~P  212 (283)
                      .|.--.++++.+.+++.+..
T Consensus       271 ~~~g~~~~~~~~d~~i~l~~  290 (322)
T 2i1q_A          271 QAIGGHIVGHAATFRFFVRK  290 (322)
T ss_dssp             EESSHHHHHHHCSEEEEEEE
T ss_pred             CCCCcHHHHhcCcEEEEEEe
Confidence            23334589999999999975

>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*

Probab=90.32  E-value=0.76  Score=41.53  Aligned_cols=127  Identities=14%  Similarity=0.047  Sum_probs=61.6

Q ss_pred             cceeEEEEeecC--hHHHHHHHhhcCcCccCCCCeEEEEeccCCCCCCcccccCCccccccccccccccchhhhhHHHHH
Q 023377           55 SRGLVVVAYSRS--PSFYVDLLKRRGIDIASSHDWIHILDCYTDPLGWKNWLIDKDISQEASSLSSFCQDVRNLDKLYSL  132 (283)
Q Consensus        55 ~~~Vhvl~fe~S--pe~y~~~lk~~G~d~~s~~~ri~i~D~ySDPLGW~~~~~~~~~~~~~s~~~~~~~~v~~L~sl~~s  132 (283)
                      +..+..+.+|.+  |+...+.+++.|++.+..-+++.+.+.++                           ..++..++..
T Consensus       141 ~~~vlyi~~e~~~~~~~l~~~~~~~g~~~~~~~~~l~~~~~~~---------------------------~~~~~~~l~~  193 (324)
T 2z43_A          141 SGKAVYIDTEGTFRWERIENMAKALGLDIDNVMNNIYYIRAIN---------------------------TDHQIAIVDD  193 (324)
T ss_dssp             SCEEEEEESSSCCCHHHHHHHHHHTTCCHHHHHHTEEEEECCS---------------------------HHHHHHHHHH
T ss_pred             CCeEEEEECCCCCCHHHHHHHHHHhCCCHHHHhccEEEEeCCC---------------------------HHHHHHHHHH
Confidence            678999999987  88888888888887543223455554321                           1111122233


Q ss_pred             HHHhccCccCCCCCcEEEEEechhHHHHhc-----Ch----HHHHHHHHhhhcC----CceeEEEeeeccccc-------
Q 023377          133 IIEQGKGLIGQGKDRFSIAIDSVSEMVRHA-----SI----SSVAGILSNLRSH----DQVSSIFWLLHSDLH-------  192 (283)
Q Consensus       133 i~e~~r~~~~~~k~~~tVaIDSLS~LL~h~-----s~----~~vc~lL~~Lr~~----~~vssVl~LLHsDLH-------  192 (283)
                      +.+..+.   ..++ -.|+|||++.+.+..     ..    ..+.+.++.|++.    ....=++.-+..+..       
T Consensus       194 l~~~~~~---~~~~-~lvVIDsl~~l~~~~~~~~g~~~~r~~~~~~~l~~L~~la~~~~~~Vi~~nq~~~~~~~~~~~~~  269 (324)
T 2z43_A          194 LQELVSK---DPSI-KLIVVDSVTSHFRAEYPGRENLAVRQQKLNKHLHQLTRLAEVYDIAVIITNQVMARPDMFYGDPT  269 (324)
T ss_dssp             HHHHHHH---CTTE-EEEEETTTTHHHHHHSCTTTSHHHHHHHHHHHHHHHHHHHHHHTCEEEEEEEC------------
T ss_pred             HHHHHHh---ccCC-CEEEEeCcHHHhhhhhcCcccHHHHHHHHHHHHHHHHHHHHHhCCEEEEEcceeecCCCcCCCCC
Confidence            3333330   0133 589999999998641     11    2356666666552    111111112222222       


Q ss_pred             chhhHhHHhhhheeEEEeec
Q 023377          193 EIKFTSVLEYLSSMVASVEP  212 (283)
Q Consensus       193 e~~~v~ALe~LSstvvtv~P  212 (283)
                      .|.--.++++.+.+++.+..
T Consensus       270 ~~~gg~~l~~~~d~~l~l~r  289 (324)
T 2z43_A          270 VAVGGHTLYHVPGIRIQLKK  289 (324)
T ss_dssp             ------------CEEEEEEE
T ss_pred             CCCchHHHHhhCcEEEEEEE
Confidence            22333479999999999975

>4a8j_A Elongator complex protein 4; transcription; 2.10A {Saccharomyces cerevisiae} PDB: 4ejs_A

Probab=89.86  E-value=0.93  Score=43.31  Aligned_cols=89  Identities=22%  Similarity=0.262  Sum_probs=66.3

Q ss_pred             hhhHHHHHHHHhccCccCCCCCcEEEEEechhHHHHhc----ChHHHHHHHHhhhc----CCceeEEEeeecccccchhh
Q 023377          125 NLDKLYSLIIEQGKGLIGQGKDRFSIAIDSVSEMVRHA----SISSVAGILSNLRS----HDQVSSIFWLLHSDLHEIKF  196 (283)
Q Consensus       125 ~L~sl~~si~e~~r~~~~~~k~~~tVaIDSLS~LL~h~----s~~~vc~lL~~Lr~----~~~vssVl~LLHsDLHe~~~  196 (283)
                      .+.+++..|.+..++  + ++.-.=|+|=||..-+...    ....+-++|+.||.    +.....++--++.+|-.+..
T Consensus       199 ~y~~lL~~I~~~i~~--~-~~~ilRIvI~SLgSP~wy~~~~~~~~~ll~FL~~LRaLlR~~~~~~v~~iTlP~~l~~~~l  275 (361)
T 4a8j_A          199 PVSTILSQIEQTIKR--N-DKKLIRIVIPSLLHPAMYPPKMFESSEIIGLMHGVRSLVKKYYERVVLFASISIDIITPPL  275 (361)
T ss_dssp             CHHHHHHHHHHHHHH--T-TTSEEEEEETTTTCTTTSCGGGGBHHHHHHHHHHHHHHHHHTTTTEEEEEEEECTTSCHHH
T ss_pred             hHHHHHHHHHHHHhc--C-CCceEEEEecCCCCcccCCCcccCHHHHHHHHHHHHHHHhhcCCceEEEEEEChHHcChHH
Confidence            456666666666652  2 2332678898887665433    36778999999987    34444567779999999999


Q ss_pred             HhHHhhhheeEEEeecCCcc
Q 023377          197 TSVLEYLSSMVASVEPFNQA  216 (283)
Q Consensus       197 v~ALe~LSstvvtv~P~~~~  216 (283)
                      +.-+|+|+-+++.|+|.+..
T Consensus       276 ~~rle~l~D~vi~L~pF~~~  295 (361)
T 4a8j_A          276 LVLLRNMFDSVINLEPFNQE  295 (361)
T ss_dssp             HHHHHHHCSEEEEEEECCHH
T ss_pred             HHHHHHhCcEEEEeeecCCc
Confidence            99999999999999998653

>2cvh_A DNA repair and recombination protein RADB; filament formation, homologous recombination, ATPase domain, hyperthermophIle; HET: DNA; 2.20A {Thermococcus kodakarensis} PDB: 2cvf_A*

Probab=89.84  E-value=2.6  Score=34.35  Aligned_cols=127  Identities=11%  Similarity=0.185  Sum_probs=68.6

Q ss_pred             cccceeEEEEeec--ChHHHHHHHhhcCcCccCCCCeEEEEeccCCCCCCcccccCCccccccccccccccchhhhhHHH
Q 023377           53 SQSRGLVVVAYSR--SPSFYVDLLKRRGIDIASSHDWIHILDCYTDPLGWKNWLIDKDISQEASSLSSFCQDVRNLDKLY  130 (283)
Q Consensus        53 ~q~~~Vhvl~fe~--Spe~y~~~lk~~G~d~~s~~~ri~i~D~ySDPLGW~~~~~~~~~~~~~s~~~~~~~~v~~L~sl~  130 (283)
                      .++..+.++..|.  +++.+.+.++..|++.+....++.+.+    |.++                       .++...+
T Consensus        43 ~~~~~v~~i~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~----~~~~-----------------------~~~~~~~   95 (220)
T 2cvh_A           43 LSGKKVAYVDTEGGFSPERLVQMAETRGLNPEEALSRFILFT----PSDF-----------------------KEQRRVI   95 (220)
T ss_dssp             HHCSEEEEEESSCCCCHHHHHHHHHTTTCCHHHHHHHEEEEC----CTTT-----------------------SHHHHHH
T ss_pred             HcCCcEEEEECCCCCCHHHHHHHHHhcCCChHHHhhcEEEEe----cCCH-----------------------HHHHHHH
Confidence            4577899999988  888888877766665332122333332    2111                       1122222


Q ss_pred             HHHHHhccCccCCCCCcEEEEEechhHHHHhcCh-----HH---HHHHHHhhhcCCceeEEEeeecc--cc----cchhh
Q 023377          131 SLIIEQGKGLIGQGKDRFSIAIDSVSEMVRHASI-----SS---VAGILSNLRSHDQVSSIFWLLHS--DL----HEIKF  196 (283)
Q Consensus       131 ~si~e~~r~~~~~~k~~~tVaIDSLS~LL~h~s~-----~~---vc~lL~~Lr~~~~vssVl~LLHs--DL----He~~~  196 (283)
                      ..+..+.+    + ++ -.|+||+++.++...+-     ..   +.+.|.++.+...+ .|+..-|.  +.    ..|.-
T Consensus        96 ~~~~~l~~----~-~~-~lliiD~~~~~l~~~~~~~~~~~~~~~~~~~L~~l~~~~~~-~vi~~~h~~~~~~~~~~~p~~  168 (220)
T 2cvh_A           96 GSLKKTVD----S-NF-ALVVVDSITAHYRAEENRSGLIAELSRQLQVLLWIARKHNI-PVIVINQVHFDSRTEMTKPVA  168 (220)
T ss_dssp             HHHHHHCC----T-TE-EEEEEECCCCCTTGGGGSSTTHHHHHHHHHHHHHHHHHHTC-CEEEEECSSSSCTTSSCCSCC
T ss_pred             HHHHHHhh----c-CC-CEEEEcCcHHHhhhcCchHHHHHHHHHHHHHHHHHHHHcCC-EEEEEeeEEEcCCCCccccCC
Confidence            22222232    2 33 58999999998865322     33   44445555432122 24433342  11    11222


Q ss_pred             HhHHhhhheeEEEeecC
Q 023377          197 TSVLEYLSSMVASVEPF  213 (283)
Q Consensus       197 v~ALe~LSstvvtv~P~  213 (283)
                      ...+++++..++.+...
T Consensus       169 ~~~~~~~~d~vi~l~~~  185 (220)
T 2cvh_A          169 EQTLGYRCKDILRLDKL  185 (220)
T ss_dssp             CHHHHHTSSEEEEEEEC
T ss_pred             CcceeecCcEEEEEEEe
Confidence            34889999999999764

>2q6t_A DNAB replication FORK helicase; hydrolase; 2.90A {Thermus aquaticus}

Probab=88.95  E-value=4  Score=38.48  Aligned_cols=30  Identities=10%  Similarity=0.138  Sum_probs=21.3

Q ss_pred             ccceeEEEEeecChHHHHHHH--hhcCcCccC
Q 023377           54 QSRGLVVVAYSRSPSFYVDLL--KRRGIDIAS   83 (283)
Q Consensus        54 q~~~Vhvl~fe~Spe~y~~~l--k~~G~d~~s   83 (283)
                      +++.|.++.+|-++++...-+  ...|++...
T Consensus       228 ~g~~vl~~slE~~~~~l~~R~~~~~~~i~~~~  259 (444)
T 2q6t_A          228 EGVGVGIYSLEMPAAQLTLRMMCSEARIDMNR  259 (444)
T ss_dssp             TCCCEEEEESSSCHHHHHHHHHHHHTTCCTTT
T ss_pred             CCCeEEEEECCCCHHHHHHHHHHHHcCCCHHH
Confidence            467899999999999877632  244666433

>3bgw_A DNAB-like replicative helicase; ATPase, replication; 3.91A {Bacillus phage SPP1}

Probab=87.72  E-value=3.6  Score=39.31  Aligned_cols=52  Identities=6%  Similarity=-0.095  Sum_probs=29.9

Q ss_pred             CCCCCceeecccCCCCchhhHHHHHHHHHHHHHHhhccccceeEEEEeecChHHHHHHH
Q 023377           16 GEHAPALTIKDSKASPFGFDVFNYVLTQLSNYILAGKSQSRGLVVVAYSRSPSFYVDLL   74 (283)
Q Consensus        16 ge~ap~l~i~Dsl~~~~g~~~~~h~~~~l~s~i~a~~~q~~~Vhvl~fe~Spe~y~~~l   74 (283)
                      |=+++.+.+----...+=+.+..+++..       .+.+++.|.++.+|-|+++...=+
T Consensus       193 Gl~~G~liiIaG~pG~GKTtlal~ia~~-------~a~~g~~vl~fSlEms~~ql~~R~  244 (444)
T 3bgw_A          193 GYKRRNFVLIAARPSMGKTAFALKQAKN-------MSDNDDVVNLHSLEMGKKENIKRL  244 (444)
T ss_dssp             SBCSSCEEEEEECSSSSHHHHHHHHHHH-------HHHTTCEEEEECSSSCTTHHHHHH
T ss_pred             CCCCCcEEEEEeCCCCChHHHHHHHHHH-------HHHcCCEEEEEECCCCHHHHHHHH
Confidence            4444444443333333334444444321       222478899999999999887643

>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

Probab=86.76  E-value=7.1  Score=37.16  Aligned_cols=26  Identities=8%  Similarity=0.009  Sum_probs=19.2

Q ss_pred             cceeEEEEeecChHHHHHHH--hhcCcC
Q 023377           55 SRGLVVVAYSRSPSFYVDLL--KRRGID   80 (283)
Q Consensus        55 ~~~Vhvl~fe~Spe~y~~~l--k~~G~d   80 (283)
                      ++.|.++.+|-++++...=+  ...|++
T Consensus       271 g~~vl~~s~E~s~~~l~~r~~~~~~~~~  298 (503)
T 1q57_A          271 GKKVGLAMLEESVEETAEDLIGLHNRVR  298 (503)
T ss_dssp             CCCEEEEESSSCHHHHHHHHHHHHTTSC
T ss_pred             CCcEEEEeccCCHHHHHHHHHHHHcCCC
Confidence            78899999999999876632  334554

>2r6a_A DNAB helicase, replicative helicase; replication, DNAB; 2.90A {Geobacillus stearothermophilus} PDB: 2r6c_A 2r6d_A 2r6e_A 2vyf_A 2vye_A

Probab=82.88  E-value=11  Score=35.45  Aligned_cols=66  Identities=20%  Similarity=0.171  Sum_probs=37.9

Q ss_pred             EEEEEechhHHHHhc-----ChHHH---HHHHHhhhcCCceeEEEeeec--c------c----ccchhhHhHHhhhheeE
Q 023377          148 FSIAIDSVSEMVRHA-----SISSV---AGILSNLRSHDQVSSIFWLLH--S------D----LHEIKFTSVLEYLSSMV  207 (283)
Q Consensus       148 ~tVaIDSLS~LL~h~-----s~~~v---c~lL~~Lr~~~~vssVl~LLH--s------D----LHe~~~v~ALe~LSstv  207 (283)
                      -.|+||++..+....     ....+   .+.|.+|-+.-.+ .|+.+-|  .      |    +..-+-.+++++.|.++
T Consensus       315 ~livID~l~~~~~~~~~~~~~~~~i~~i~~~Lk~lAke~~i-~vi~~sql~r~~e~~~~~~p~lsdlr~Sg~ie~~aD~v  393 (454)
T 2r6a_A          315 GMIVIDYLQLIQGSGRSKENRQQEVSEISRSLKALARELEV-PVIALSQLSRSVEQRQDKRPMMSDIRESGSIEQDADIV  393 (454)
T ss_dssp             CEEEEECGGGSCCSCC----CHHHHHHHHHHHHHHHHHHTC-CEEEEECCCTTSTTC---CCCTHHHHTTCSHHHHCSEE
T ss_pred             CEEEEccHHHhccCCCCCCCHHHHHHHHHHHHHHHHHHhCC-eEEEEecCCcccccCCCCCCcHHHhhccchhHhhCCEE
Confidence            489999999987421     23344   4445444332122 3555555  1      1    11122235899999999


Q ss_pred             EEeecCC
Q 023377          208 ASVEPFN  214 (283)
Q Consensus       208 vtv~P~~  214 (283)
                      +.+....
T Consensus       394 i~l~r~~  400 (454)
T 2r6a_A          394 AFLYRDD  400 (454)
T ss_dssp             EEEEETT
T ss_pred             EEEeccc
Confidence            9997543

>3cmu_A Protein RECA, recombinase A; homologous recombination, recombination/DNA complex; HET: DNA ADP; 4.20A {Escherichia coli}

Probab=81.55  E-value=1.8  Score=49.50  Aligned_cols=120  Identities=12%  Similarity=0.158  Sum_probs=70.2

Q ss_pred             ccccceeEEEEeecChHHHHHHHhhcCcCccCCCCeEEEEeccCCCCCCcccccCCccccccccccccccchhhhhHHHH
Q 023377           52 KSQSRGLVVVAYSRSPSFYVDLLKRRGIDIASSHDWIHILDCYTDPLGWKNWLIDKDISQEASSLSSFCQDVRNLDKLYS  131 (283)
Q Consensus        52 ~~q~~~Vhvl~fe~Spe~y~~~lk~~G~d~~s~~~ri~i~D~ySDPLGW~~~~~~~~~~~~~s~~~~~~~~v~~L~sl~~  131 (283)
                      ..+++.+..+.+|.+++..+  ++..|+|.+    ++.+.    +|.    .                   ..++..++.
T Consensus        59 ~~~Ge~vlYI~tEes~~~~r--a~~lG~dl~----~i~v~----~p~----~-------------------~e~ll~il~  105 (2050)
T 3cmu_A           59 QREGKTCAFIDAEHALDPIY--ARKLGVDID----NLLCS----QPD----T-------------------GEQALEICD  105 (2050)
T ss_dssp             HTTTCCEEEECTTSCCCHHH--HHHTTCCTT----TCEEE----CCS----S-------------------HHHHHHHHH
T ss_pred             hccCCceEEEEccCcchhhH--HhhhccCcc----cceec----CCC----c-------------------HHHHHHHHH
Confidence            34688999999999999887  466787733    34433    341    0                   112333333


Q ss_pred             HHHHhccCccCCCCCcEEEEEechhHHHHhcCh-------------HHHHHHHHhhhc----CCceeEEE-------eee
Q 023377          132 LIIEQGKGLIGQGKDRFSIAIDSVSEMVRHASI-------------SSVAGILSNLRS----HDQVSSIF-------WLL  187 (283)
Q Consensus       132 si~e~~r~~~~~~k~~~tVaIDSLS~LL~h~s~-------------~~vc~lL~~Lr~----~~~vssVl-------~LL  187 (283)
                      .+.+..       ++ -.|+||||+.+.+....             ..+-+.+..|.+    +....=+.       +..
T Consensus       106 ~L~~~~-------~~-~lVVIDSISaL~~~~e~~~e~~d~~~~~raR~l~~~l~~L~~~ak~~gitVVlTNQv~~~~g~~  177 (2050)
T 3cmu_A          106 ALARSG-------AV-DVIVVDSVAALTPKAEIEGEIGDSHMGLAARMMSQAMRKLAGNLKQSNTLLIFINQIRMKIGVM  177 (2050)
T ss_dssp             HHHHHT-------CC-SEEEESCGGGCCCHHHHHSCSSSCCTTHHHHHHHHHHHHHHHHHHTTTCEEEEEECCEECTTCC
T ss_pred             HHHhcc-------CC-cEEEEcChHHhhhhcccccccccchhhHHHHHHHHHHHHHHHHHHHhCCeEEEEEecccccccc
Confidence            333321       22 48999999999875321             123344444443    32111111       112


Q ss_pred             cccccchhhHhHHhhhheeEEEeec
Q 023377          188 HSDLHEIKFTSVLEYLSSMVASVEP  212 (283)
Q Consensus       188 HsDLHe~~~v~ALe~LSstvvtv~P  212 (283)
                      +++-+.+..-.+++|++.+++.++=
T Consensus       178 fg~~~~~~gG~~l~~iaD~VI~L~r  202 (2050)
T 3cmu_A          178 FGNPETTTGGNALKFYASVRLDIRR  202 (2050)
T ss_dssp             SSCCEECSSHHHHHHHEEEEEEEEE
T ss_pred             cCcccccCCcchhhhhCcEEEEEEe
Confidence            3455667778899999999999953

---

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	Length	Definition	Probability
Query	283
d1tf7a2	242	Circadian clock protein KaiC {Synechococcus sp. st	95.75
d1tf7a1	242	Circadian clock protein KaiC {Synechococcus sp. st	89.78
d1xp8a1	268	RecA protein, ATPase-domain {Deinococcus radiodura	83.25

>d1tf7a2 c.37.1.11 (A:256-497) Circadian clock protein KaiC {Synechococcus sp. strain PCC 7942 (Anacystis nidulans R2) [TaxId: 1140]}

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=95.75  E-value=0.026  Score=45.55  Aligned_cols=129  Identities=16%  Similarity=0.221  Sum_probs=78.5

Q ss_pred             hccccceeEEEEeecChHHHHHHHhhcCcCccC--CCCeEEEEeccCCCCCCcccccCCccccccccccccccchhhhhH
Q 023377           51 GKSQSRGLVVVAYSRSPSFYVDLLKRRGIDIAS--SHDWIHILDCYTDPLGWKNWLIDKDISQEASSLSSFCQDVRNLDK  128 (283)
Q Consensus        51 ~~~q~~~Vhvl~fe~Spe~y~~~lk~~G~d~~s--~~~ri~i~D~ySDPLGW~~~~~~~~~~~~~s~~~~~~~~v~~L~s  128 (283)
                      ...+++.+..+.+|-+++.+..-+++.|++.+.  -...+.+.|.|..                          ..++..
T Consensus        50 ~~~~~~~~~~is~e~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~--------------------------~~~~~~  103 (242)
T d1tf7a2          50 ACANKERAILFAYEESRAQLLRNAYSWGMDFEEMERQNLLKIVCAYPE--------------------------SAGLED  103 (242)
T ss_dssp             HHTTTCCEEEEESSSCHHHHHHHHHTTSCCHHHHHHTTSEEECCCCGG--------------------------GSCHHH
T ss_pred             HHHhccccceeeccCCHHHHHHHHHHcCCChHHHhhcCceEEEEeecc--------------------------hhhHHH
Confidence            456788899999999999999988887776432  0112333322211                          011222


Q ss_pred             HHHHHHHhccCccCCCCCcEEEEEechhHHHHhcChHHHHHHHHhhhcC---CceeEEEeeecccccc---hhhHhHHhh
Q 023377          129 LYSLIIEQGKGLIGQGKDRFSIAIDSVSEMVRHASISSVAGILSNLRSH---DQVSSIFWLLHSDLHE---IKFTSVLEY  202 (283)
Q Consensus       129 l~~si~e~~r~~~~~~k~~~tVaIDSLS~LL~h~s~~~vc~lL~~Lr~~---~~vssVl~LLHsDLHe---~~~v~ALe~  202 (283)
                      ++..+.+..+    +.++ -.++|||++.++...+...+-..+..|.+.   ..+. ++...|...-.   ......+++
T Consensus       104 ~~~~i~~~i~----~~~~-~~vviDs~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~-~i~~~~~~~~~~~~~~~~~~~~~  177 (242)
T d1tf7a2         104 HLQIIKSEIN----DFKP-ARIAIDSLSALARGVSNNAFRQFVIGVTGYAKQEEIT-GLFTNTSDQFMGAHSITDSHIST  177 (242)
T ss_dssp             HHHHHHHHHH----TTCC-SEEEEECHHHHTSSSCHHHHHHHHHHHHHHHHHTTCE-EEEEEECSSSSCCCSSCSSCCTT
T ss_pred             HHHHHHHHHH----hcCC-ceeeeecchhhhcCCCHHHHHHHHHHHHHHHHHcCCe-EEEEEeeEeeccccccCCcceee
Confidence            2334443333    1233 478999999999999988888777776652   2232 34444432221   222456889


Q ss_pred             hheeEEEee
Q 023377          203 LSSMVASVE  211 (283)
Q Consensus       203 LSstvvtv~  211 (283)
                      ++.+++.+.
T Consensus       178 ~ad~vi~l~  186 (242)
T d1tf7a2         178 ITDTIILLQ  186 (242)
T ss_dssp             TCSEEEEEE
T ss_pred             ecceEEEEE
Confidence            999998884

>d1tf7a1 c.37.1.11 (A:14-255) Circadian clock protein KaiC {Synechococcus sp. strain PCC 7942 (Anacystis nidulans R2) [TaxId: 1140]}

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=89.78  E-value=1.4  Score=33.68  Aligned_cols=134  Identities=21%  Similarity=0.207  Sum_probs=72.8

Q ss_pred             ccceeEEEEeecChHHHHHHHhhcCcCccC--CCCeEEEEeccCCCCCCcccccCCccccccccccccccchhhhhHHHH
Q 023377           54 QSRGLVVVAYSRSPSFYVDLLKRRGIDIAS--SHDWIHILDCYTDPLGWKNWLIDKDISQEASSLSSFCQDVRNLDKLYS  131 (283)
Q Consensus        54 q~~~Vhvl~fe~Spe~y~~~lk~~G~d~~s--~~~ri~i~D~ySDPLGW~~~~~~~~~~~~~s~~~~~~~~v~~L~sl~~  131 (283)
                      .+..+..+.+|-+++.+...+...+.+...  ...+....+...++.+|....                  ..+...+++
T Consensus        54 ~~~~~~~~s~e~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~------------------~~~~~~l~~  115 (242)
T d1tf7a1          54 FDEPGVFVTFEETPQDIIKNARSFGWDLAKLVDEGKLFILDASPDPEGQEVVG------------------GFDLSALIE  115 (242)
T ss_dssp             HCCCEEEEESSSCHHHHHHHHGGGTCCHHHHHHTTSEEEEECCCCSSCCSCCS------------------SHHHHHHHH
T ss_pred             cCCCcccccccCCHHHHHHHHHHcCCChHHHHHhcchhhhhhccchhhhhhhc------------------cccHHHHHH
Confidence            445788899999999998888877666433  122355555555555544321                  112233333


Q ss_pred             HHHHhccCccCCCCCcEEEEEechhHHHHhcChHHH-H----HHHHhhhcCCceeEEEeeec-cc-ccchhhHhHHhhhh
Q 023377          132 LIIEQGKGLIGQGKDRFSIAIDSVSEMVRHASISSV-A----GILSNLRSHDQVSSIFWLLH-SD-LHEIKFTSVLEYLS  204 (283)
Q Consensus       132 si~e~~r~~~~~~k~~~tVaIDSLS~LL~h~s~~~v-c----~lL~~Lr~~~~vssVl~LLH-sD-LHe~~~v~ALe~LS  204 (283)
                      .+.+..+    +.++ -.++||+++.+.....-... -    +++..+++.. +. ++.+.| .+ .......+++++++
T Consensus       116 ~l~~~i~----~~~~-~~viiD~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~-~~-~~~~~~~~~~~~~~~~~~~~~~~~  188 (242)
T d1tf7a1         116 RINYAIQ----KYRA-RRVSIDSVTSVFQQYDASSVVRRELFRLVARLKQIG-AT-TVMTTERIEEYGPIARYGVEEFVS  188 (242)
T ss_dssp             HHHHHHH----HHTC-SEEEEECSTTTSTTTCCHHHHHHHHHHHHHHHHHHT-CE-EEEEEECSSSSSCSSTTSCHHHHC
T ss_pred             HHHHHHH----hhcc-chhhhhHHHHHHHhccChhHHHHHHHHHHHHHHhcC-Cc-eEEeecccccccccccCcceeeec
Confidence            3333333    1223 26899999988766553332 2    2233333222 22 222222 22 23344456788899


Q ss_pred             eeEEEeec
Q 023377          205 SMVASVEP  212 (283)
Q Consensus       205 stvvtv~P  212 (283)
                      .+++.+.-
T Consensus       189 d~i~~~~~  196 (242)
T d1tf7a1         189 DNVVILRN  196 (242)
T ss_dssp             SEEEEEEE
T ss_pred             cEEEEEEE
Confidence            99888864

>d1xp8a1 c.37.1.11 (A:15-282) RecA protein, ATPase-domain {Deinococcus radiodurans [TaxId: 1299]}

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: RecA protein, ATPase-domain
species: Deinococcus radiodurans [TaxId: 1299]

Probab=83.25  E-value=2.1  Score=36.49  Aligned_cols=66  Identities=17%  Similarity=0.205  Sum_probs=32.0

Q ss_pred             EEEEEechhHHHHhcC-------------hHHHHHHHHhhhc----C-------CceeEEEeeecccccchhhHhHHhhh
Q 023377          148 FSIAIDSVSEMVRHAS-------------ISSVAGILSNLRS----H-------DQVSSIFWLLHSDLHEIKFTSVLEYL  203 (283)
Q Consensus       148 ~tVaIDSLS~LL~h~s-------------~~~vc~lL~~Lr~----~-------~~vssVl~LLHsDLHe~~~v~ALe~L  203 (283)
                      -.|+|||++.|.-+..             ...+...++.|.+    +       .|+.+-.+..+++-=.+.==.+|.|.
T Consensus       137 ~liIiDSi~al~~r~e~~~~~~~~~~~~~a~~l~~~lr~l~~~~~~~~~~vi~tNQv~~~~g~~~g~~~~~~GG~al~~~  216 (268)
T d1xp8a1         137 DVVVVDSVAALTPRAEIEGDMGDSLPGLQARLMSQALRKLTAILSKTGTAAIFINQVREKIGVMYGNPETTTGGRALKFY  216 (268)
T ss_dssp             SEEEEECTTTCCCSTTC--------CCHHHHHHHHHHHHHHHHHTTTCCEEEEEEEC---------------CHHHHHHH
T ss_pred             cEEEEecccccccHHHHcccccchhHHHHHHHHHHHHHHHHhhhhhcCCeEEEEeEEeeccccccCcceeecccchhhhc
Confidence            4899999998872221             1123444444443    2       23333333334431112223799999


Q ss_pred             heeEEEeecC
Q 023377          204 SSMVASVEPF  213 (283)
Q Consensus       204 Sstvvtv~P~  213 (283)
                      |++.+.+...
T Consensus       217 ss~rl~l~k~  226 (268)
T d1xp8a1         217 ASVRLDVRKI  226 (268)
T ss_dssp             CSEEEEEEEE
T ss_pred             eeEEEEEEec
Confidence            9999999654