Citrus Sinensis ID: 044416

Local Sequence Feature Prediction

Prediction and (Method)Result
Residue Number Marker
Protein Sequence ?
Secondary Structure (PSIPRED) ?
Secondary Structure Prediction (SSPRO) ?
Coil and Loop (DISEMBL) ?
Flexible Loop (DISEMBL) ?
Low Complexity Region (SEG) ?
Disordered region (IsUnstruct) ?
Disordered Region (DISOPRED) ?
Disordered Region (DISEMBL) ?
Disordered Region (DISPRO) ?
Transmembrane Helix (TMHMM) ?
Transmembrane Helix (HMMTOP) ?
Transmembrane Helix (MEMSAT) ?
TM Helix, Signal Peptide (MEMSAT_SVM) ?
TM Helix, Signal Peptide (Phobius) ?
Signal Peptide (SignalP HMM Mode) ?
Signal Peptide (SignalP NN Mode) ?
Coiled Coils (COILS) ?
Positional Conservation ?
 
--------10--------20--------30--------40--------50--------60--------70--------80--------90-------100-------110-------120-------130-------140-------150-------160-------170-------180-------190-------200-------210-------220-------230-------240-----
NIYPSIQHNYSDPAYLKERAILTPKNEMVHELNEMIMNIIPGQGRTYFSSDSICKASANTNDEDVLYPTEFLNSLKFNGIPNHDIRLKEGAPVMLLRNLNQIEGLCNGTRLIVTRLGKWSIRGDIISGTNIGQNVTIQRIIMSPNESRWPFKLNRRQLPLAPCFAMMINKSQGQSLKHVGLYLSKQVFTHGQLYVAVSRVTTREGLTILNADQEVEDRTFIKNIVYKEVFQNIHTSAHKIKVSHF
cccccHHHccccHHHHcccEEEccccHHHHHHHHHHHHHcccccEEEEcccccccccccccccccccHHHHHHccccccccccEEEEcccccEEEEEEccccccccccEEEEEEEEccccEEEEEccccccccEEEEEEEEccccccccccEEEEEEccccccEEEEEEcccccccEEEEEEccccEEEccccEEEEEEEEccccEEEEEccccccccccEEEEEcHHHHHcccccccccccccc
cccccHHHHcccHHHHHHcEEEccccHHHHHHHHHHHHHcccccEEEEEcccccccccccccccccccHHHHHccccccccccEEEEEccccEEEEEccccccccccccEEEEEcccccEEEEEEEEccccccEEEEEcccccccccccccEEEEccccEEEEEEEEEEccccccccccEEEcccccEcccEEEEEEEEEEcccccEEEEEccccccccccEEEEHHHHHHHcccccccEEEEEc
niypsiqhnysdpaylkerailtpknEMVHELNEMIMNiipgqgrtyfssdsickasantndedvlypteflnslkfngipnhdirlkegaPVMLLRNLNQIEGLCNGTRLIVTRLgkwsirgdiisgtnigqnvTIQRIimspnesrwpfklnrrqlplapcfAMMINksqgqslkHVGLYLSKQVFTHGQLYVAVSRVTTREGLTILNADQEVEDRTFIKNIVYKEVFQNIHTSAhkikvshf
niypsiqhnysdpayLKERAILTPKNEMVHELNEMIMNIIPGQGRTYFSSDSICKASANTNDEDVLYPTEFLNSLKFNGIPNHDIRLKEGAPVMLLRNLNQIEGLCNGTRLIVTRLGKWsirgdiisgtnigqnvtIQRIIMSPNESRWPFKLNRRQLPLAPCFAMMINKSQGQSLKHVGLYLSKQVFTHGQLYVAVSRVTTREGltilnadqevedrTFIKNIVYKEVFQnihtsahkikvshf
NIYPSIQHNYSDPAYLKERAILTPKNEMVHELNEMIMNIIPGQGRTYFSSDSICKASANTNDEDVLYPTEFLNSLKFNGIPNHDIRLKEGAPVMLLRNLNQIEGLCNGTRLIVTRLGKWSIRGDIISGTNIGQNVTIQRIIMSPNESRWPFKLNRRQLPLAPCFAMMINKSQGQSLKHVGLYLSKQVFTHGQLYVAVSRVTTREGLTILNADQEVEDRTFIKNIVYKEVFQNIHTSAHKIKVSHF
*************AYLKERAILTPKNEMVHELNEMIMNIIPGQGRTYFSSDSICKASANTNDEDVLYPTEFLNSLKFNGIPNHDIRLKEGAPVMLLRNLNQIEGLCNGTRLIVTRLGKWSIRGDIISGTNIGQNVTIQRIIMSPNESRWPFKLNRRQLPLAPCFAMMINKSQGQSLKHVGLYLSKQVFTHGQLYVAVSRVTTREGLTILNADQEVEDRTFIKNIVYKEVFQNIHTSA********
NIYPSIQHNYSDPAYLKERAILTPKNEMVHELNEMIMNIIPGQGRTYFSSDSICKASANTNDEDVLYPTEFLNSLKFNGIPNHDIRLKEGAPVMLLRNLNQIEGLCNGTRLIVTRLGKWSIRGDIISGTNIGQNVTIQRIIMSPNESRWPFKLNRRQLPLAPCFAMMINKSQGQSLKHVGLYLSKQVFTHGQLYVAVSRVTTREGLTILNADQEVEDRTFIKNIVYKEVFQNIHTSAHKI**S**
NIYPSIQHNYSDPAYLKERAILTPKNEMVHELNEMIMNIIPGQGRTYFSSDSICKASANTNDEDVLYPTEFLNSLKFNGIPNHDIRLKEGAPVMLLRNLNQIEGLCNGTRLIVTRLGKWSIRGDIISGTNIGQNVTIQRIIMSPNESRWPFKLNRRQLPLAPCFAMMINKSQGQSLKHVGLYLSKQVFTHGQLYVAVSRVTTREGLTILNADQEVEDRTFIKNIVYKEVFQNIHTSAHKIKVSHF
NIYPSIQHNYSDPAYLKERAILTPKNEMVHELNEMIMNIIPGQGRTYFSSDSICKASANTNDEDVLYPTEFLNSLKFNGIPNHDIRLKEGAPVMLLRNLNQIEGLCNGTRLIVTRLGKWSIRGDIISGTNIGQNVTIQRIIMSPNESRWPFKLNRRQLPLAPCFAMMINKSQGQSLKHVGLYLSKQVFTHGQLYVAVSRVTTREGLTILNADQEVEDRTFIKNIVYKEVFQNIHTSAHKIKVSHF
ooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
ooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
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NIYPSIQHNYSDPAYLKERAILTPKNEMVHELNEMIMNIIPGQGRTYFSSDSICKASANTNDEDVLYPTEFLNSLKFNGIPNHDIRLKEGAPVMLLRNLNQIEGLCNGTRLIVTRLGKWSIRGDIISGTNIGQNVTIQRIIMSPNESRWPFKLNRRQLPLAPCFAMMINKSQGQSLKHVGLYLSKQVFTHGQLYVAVSRVTTREGLTILNADQEVEDRTFIKNIVYKEVFQNIHTSAHKIKVSHF
no confident homologs detected

Close Homologs for Annotation Transfer

Close Homologs in SWISS-PROT Database Detected by BLAST ?

Original result of BLAST against SWISS-PROT Database

ID ?Alignment graph ?Length ? Definition ? RBH(Q2H) ? RBH(H2Q) ? Q cover ? H cover ? Identity ? E-value ?
Query245 2.2.26 [Sep-21-2011]
Q0R4F1635 ATP-dependent DNA helicas N/A no 0.632 0.244 0.326 5e-15
Q7ZV90639 ATP-dependent DNA helicas yes no 0.481 0.184 0.375 9e-12
Q1HG60637 ATP-dependent DNA helicas yes no 0.481 0.185 0.361 2e-11
Q9H611641 ATP-dependent DNA helicas yes no 0.546 0.209 0.342 4e-11
Q80SX8650 ATP-dependent DNA helicas yes no 0.481 0.181 0.354 9e-11
A6ZM04859 DNA repair and recombinat N/A no 0.261 0.074 0.485 2e-08
P07271859 DNA repair and recombinat yes no 0.261 0.074 0.485 2e-08
Q9UUA2805 DNA repair and recombinat yes no 0.228 0.069 0.508 3e-08
P38766723 ATP-dependent helicase RR no no 0.240 0.081 0.433 1e-07
>sp|Q0R4F1|PIF1_XENLA ATP-dependent DNA helicase PIF1 OS=Xenopus laevis GN=pif1 PE=2 SV=1 Back     alignment and function desciption
 Score = 81.6 bits (200), Expect = 5e-15,   Method: Compositional matrix adjust.
 Identities = 63/193 (32%), Positives = 96/193 (49%), Gaps = 38/193 (19%)

Query: 33  NEMIMNIIPGQGRTYFSSDSICKASANTNDEDVLYPTEFLNSLKFNGIPNHDIRLKEGAP 92
           NE  +  +PG+  +Y + DS           D +     + ++      N  I+LK+GA 
Sbjct: 437 NERRLQQLPGESHSYEALDS-----------DPM----LVKTINAQCPVNQQIQLKKGAQ 481

Query: 93  VMLLRNLNQIEGLCNGTRLIVTRLGKWSIRGDIISGTNIGQNVTIQRIIMSPNE----SR 148
           VML +NL+   GL NG R +V +  + +            +N+ + R +    E     R
Sbjct: 482 VMLAKNLDVSRGLVNGARGVVIKFEEGN------------KNLPVVRFLCGVTEVIKPDR 529

Query: 149 WPFK------LNRRQLPLAPCFAMMINKSQGQSLKHVGLYLSKQVFTHGQLYVAVSRVTT 202
           W FK      L+R+QLPL   +A+ I+KSQG SL  V + LS+ VF  GQ YVA+SR   
Sbjct: 530 WVFKGHGGIYLSRQQLPLKLAWAISIHKSQGMSLDCVEISLSR-VFESGQAYVALSRARN 588

Query: 203 REGLTILNADQEV 215
            EGL +++ D +V
Sbjct: 589 LEGLRVMDFDPKV 601
DNA-dependent ATPase and DNA helicase inhibiting telomerase activity.
Xenopus laevis (taxid: 8355)
EC: 3EC: .EC: 6EC: .EC: 4EC: .EC: 1EC: 2
>sp|Q7ZV90|PIF1_DANRE ATP-dependent DNA helicase PIF1 OS=Danio rerio GN=pif1 PE=2 SV=1 Back     alignment and function description
>sp|Q1HG60|PIF1_RAT ATP-dependent DNA helicase PIF1 OS=Rattus norvegicus GN=Pif1 PE=2 SV=1 Back     alignment and function description
>sp|Q9H611|PIF1_HUMAN ATP-dependent DNA helicase PIF1 OS=Homo sapiens GN=PIF1 PE=1 SV=2 Back     alignment and function description
>sp|Q80SX8|PIF1_MOUSE ATP-dependent DNA helicase PIF1 OS=Mus musculus GN=Pif1 PE=1 SV=2 Back     alignment and function description
>sp|A6ZM04|PIF1_YEAS7 DNA repair and recombination protein PIF1 OS=Saccharomyces cerevisiae (strain YJM789) GN=PIF1 PE=3 SV=1 Back     alignment and function description
>sp|P07271|PIF1_YEAST DNA repair and recombination protein PIF1 OS=Saccharomyces cerevisiae (strain ATCC 204508 / S288c) GN=PIF1 PE=1 SV=2 Back     alignment and function description
>sp|Q9UUA2|PIF1_SCHPO DNA repair and recombination protein pif1, mitochondrial OS=Schizosaccharomyces pombe (strain 972 / ATCC 24843) GN=pif1 PE=1 SV=1 Back     alignment and function description
>sp|P38766|RRM3_YEAST ATP-dependent helicase RRM3 OS=Saccharomyces cerevisiae (strain ATCC 204508 / S288c) GN=RRM3 PE=1 SV=1 Back     alignment and function description

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

Original result of BLAST against Nonredundant Database

GI ?Alignment Graph ?Length ? Definition ? Q cover ? H cover ? Identity ? E-value ?
Query245
14140296 1573 putative helicase [Oryza sativa Japonica 0.934 0.145 0.620 9e-78
55168168 1634 putative helicase [Oryza sativa Japonica 0.938 0.140 0.608 2e-77
77552150 1682 AT hook motif-containing protein, putati 0.938 0.136 0.608 3e-77
77552439 1682 AT hook motif-containing protein, putati 0.938 0.136 0.608 3e-77
77551837 1618 AT hook motif-containing protein, putati 0.938 0.142 0.608 3e-77
52353642 1525 unknown protein [Oryza sativa Japonica G 0.938 0.150 0.604 8e-77
218200559 937 hypothetical protein OsI_28021 [Oryza sa 0.938 0.245 0.593 4e-76
297727649 698 Os10g0457932 [Oryza sativa Japonica Grou 0.934 0.328 0.606 1e-74
110289187 1517 expressed protein [Oryza sativa Japonica 0.934 0.150 0.606 3e-74
14140286 1501 putative helicase [Oryza sativa Japonica 0.934 0.152 0.606 3e-74
>gi|14140296|gb|AAK54302.1|AC034258_20 putative helicase [Oryza sativa Japonica Group] gi|31432486|gb|AAP54108.1| AT hook motif-containing protein, putative [Oryza sativa Japonica Group] Back     alignment and taxonomy information
 Score =  295 bits (756), Expect = 9e-78,   Method: Compositional matrix adjust.
 Identities = 142/229 (62%), Positives = 176/229 (76%)

Query: 3    YPSIQHNYSDPAYLKERAILTPKNEMVHELNEMIMNIIPGQGRTYFSSDSICKASANTND 62
            YP +Q+N   P YL+ERAIL P N+ V+ELNE IM+ I G   TY S DS+ K+ + +++
Sbjct: 1345 YPGLQYNCCKPKYLEERAILCPTNDDVNELNEYIMDQIQGDKVTYLSHDSVSKSMSYSHE 1404

Query: 63   EDVLYPTEFLNSLKFNGIPNHDIRLKEGAPVMLLRNLNQIEGLCNGTRLIVTRLGKWSIR 122
             ++LYPTEFLNSLK  GIPNH ++LK G PVMLLRN+NQ  GLCNGTR+ +TR GK  I 
Sbjct: 1405 MEMLYPTEFLNSLKHPGIPNHQLKLKVGLPVMLLRNINQNAGLCNGTRMRITRFGKRVIE 1464

Query: 123  GDIISGTNIGQNVTIQRIIMSPNESRWPFKLNRRQLPLAPCFAMMINKSQGQSLKHVGLY 182
             +II+GT+IG  V I +IIMSPNE +WPF LNR+Q PL+ CFAM INKSQGQ+L  VGLY
Sbjct: 1465 AEIITGTHIGDMVCIPQIIMSPNERKWPFVLNRKQFPLSVCFAMTINKSQGQTLNKVGLY 1524

Query: 183  LSKQVFTHGQLYVAVSRVTTREGLTILNADQEVEDRTFIKNIVYKEVFQ 231
            L +QVFTHGQLYVAVSRVT+R+GL I+ AD+E      +KNIVYKE+FQ
Sbjct: 1525 LPRQVFTHGQLYVAVSRVTSRDGLKIMIADKECPGEGMVKNIVYKEIFQ 1573

Source: Oryza sativa Japonica Group

Species: Oryza sativa

Genus: Oryza

Family: Poaceae

Order: Poales

Class: Liliopsida

Phylum: Streptophyta

Superkingdom: Eukaryota
>gi|55168168|gb|AAV44035.1| putative helicase [Oryza sativa Japonica Group] Back     alignment and taxonomy information
>gi|77552150|gb|ABA94947.1| AT hook motif-containing protein, putative [Oryza sativa Japonica Group] Back     alignment and taxonomy information
>gi|77552439|gb|ABA95236.1| AT hook motif-containing protein, putative, expressed [Oryza sativa Japonica Group] Back     alignment and taxonomy information
>gi|77551837|gb|ABA94634.1| AT hook motif-containing protein, putative [Oryza sativa Japonica Group] Back     alignment and taxonomy information
>gi|52353642|gb|AAU44208.1| unknown protein [Oryza sativa Japonica Group] Back     alignment and taxonomy information
>gi|218200559|gb|EEC82986.1| hypothetical protein OsI_28021 [Oryza sativa Indica Group] Back     alignment and taxonomy information
>gi|297727649|ref|NP_001176188.1| Os10g0457932 [Oryza sativa Japonica Group] gi|255679464|dbj|BAH94916.1| Os10g0457932 [Oryza sativa Japonica Group] Back     alignment and taxonomy information
>gi|110289187|gb|ABB47755.2| expressed protein [Oryza sativa Japonica Group] Back     alignment and taxonomy information
>gi|14140286|gb|AAK54292.1|AC034258_10 putative helicase [Oryza sativa Japonica Group] Back     alignment and taxonomy information

Prediction of Gene Ontology (GO) Terms

Close Homologs with Gene Ontology terms Detected by BLAST ?

Original result of BLAST against Gene Ontology (AMIGO)

ID ? Alignment graph ? Length ? Definition ? Q cover ? H cover ? Identity ? E-value ?
Query245
TAIR|locus:2184256337 AT5G28780 "AT5G28780" [Arabido 0.922 0.670 0.504 7e-54
TAIR|locus:2098297344 AT3G51700 "AT3G51700" [Arabido 0.934 0.665 0.420 9.3e-43
TAIR|locus:2098292331 AT3G51690 "AT3G51690" [Arabido 0.889 0.658 0.421 4e-42
UNIPROTKB|F1NHS6622 PIF1 "Uncharacterized protein" 0.497 0.196 0.408 2.8e-11
RGD|1586053637 Pif1 "Pif1/Rrm3 DNA-helicase-l 0.510 0.196 0.380 1.2e-10
RGD|1592175644 LOC690796 "similar to PIF1 hom 0.510 0.194 0.380 1.2e-10
UNIPROTKB|E2QU17642 PIF1 "Uncharacterized protein" 0.497 0.190 0.394 1.7e-10
UNIPROTKB|F6UY05654 PIF1 "Uncharacterized protein" 0.497 0.186 0.394 1.7e-10
MGI|MGI:2143057650 Pif1 "PIF1 5'-to-3' DNA helica 0.510 0.192 0.373 4.6e-10
ZFIN|ZDB-GENE-030131-4928639 pif1 "PIF1 5'-to-3' DNA helica 0.542 0.208 0.357 6.3e-10
TAIR|locus:2184256 AT5G28780 "AT5G28780" [Arabidopsis thaliana (taxid:3702)] Back     alignment and assigned GO terms
 Score = 557 (201.1 bits), Expect = 7.0e-54, P = 7.0e-54
 Identities = 116/230 (50%), Positives = 153/230 (66%)

Query:     6 IQHNYSDP--AYLKERAILTPKNEMVHELNEMIMNIIPGQGRTYFSSDSICKASANTNDE 63
             +Q + S P   YL ER ILTP NE V E+N  +++ + G  + Y SS SI KA     D 
Sbjct:   103 VQFSVSQPNFQYLTERGILTPHNEYVDEINAYMLSQVGGDSKEYLSSYSIGKADTIGADY 162

Query:    64 DVLYPTEFLNSLKFNGIPNHDIRLKEGAPVMLLRNLNQIEGLCNGTRLIVTRLGKWSIRG 123
             + LY  ++LNSL+F  +P H I LK+G P+M +RN NQ EGLCNGTRLIVT LG+  I  
Sbjct:   163 EALYHVKYLNSLEFPSLPKHKISLKKGVPIMQMRNFNQKEGLCNGTRLIVTNLGEQVIEA 222

Query:   124 DIISGTNIGQNVTIQRIIMSPNESRWPFKLNRRQLPLAPCFAMMINKSQGQSLKHVGLYL 183
              I++GT+ G+ V+I R I+SP +S  PF L R+Q P+  C+AM I K+QGQSLK   LYL
Sbjct:   223 QIVTGTHAGKMVSIPRFILSPPQSEHPFTLRRQQFPMRVCYAMTIIKNQGQSLKSDVLYL 282

Query:   184 SKQVFTHGQLYVAVSRVTTREGLTILNADQEVEDRTFIKNIVYKEVFQNI 233
                VF+H QLYVA+SRVT+  GLTIL+ D +  D   +KNIVYKE + ++
Sbjct:   283 PNPVFSHVQLYVALSRVTSPIGLTILHGDDQKNDE--VKNIVYKEFYNDL 330
GO:0003674 "molecular_function" evidence=ND
GO:0005634 "nucleus" evidence=ISM
GO:0008150 "biological_process" evidence=ND
TAIR|locus:2098297 AT3G51700 "AT3G51700" [Arabidopsis thaliana (taxid:3702)] Back     alignment and assigned GO terms
TAIR|locus:2098292 AT3G51690 "AT3G51690" [Arabidopsis thaliana (taxid:3702)] Back     alignment and assigned GO terms
UNIPROTKB|F1NHS6 PIF1 "Uncharacterized protein" [Gallus gallus (taxid:9031)] Back     alignment and assigned GO terms
RGD|1586053 Pif1 "Pif1/Rrm3 DNA-helicase-like protein" [Rattus norvegicus (taxid:10116)] Back     alignment and assigned GO terms
RGD|1592175 LOC690796 "similar to PIF1 homolog" [Rattus norvegicus (taxid:10116)] Back     alignment and assigned GO terms
UNIPROTKB|E2QU17 PIF1 "Uncharacterized protein" [Canis lupus familiaris (taxid:9615)] Back     alignment and assigned GO terms
UNIPROTKB|F6UY05 PIF1 "Uncharacterized protein" [Canis lupus familiaris (taxid:9615)] Back     alignment and assigned GO terms
MGI|MGI:2143057 Pif1 "PIF1 5'-to-3' DNA helicase homolog (S. cerevisiae)" [Mus musculus (taxid:10090)] Back     alignment and assigned GO terms
ZFIN|ZDB-GENE-030131-4928 pif1 "PIF1 5'-to-3' DNA helicase homolog (S. cerevisiae)" [Danio rerio (taxid:7955)] Back     alignment and assigned GO terms

Prediction of Enzyme Commission (EC) Number

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

Original result of BLAST against SWISS-PROT

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 ?

Prediction LevelEC numberConfidence of Prediction
3rd Layer3.6.4.12LOW CONFIDENCE prediction!
3rd Layer3.6.4LOW CONFIDENCE prediction!

Prediction of Functionally Associated Proteins

Functionally Associated Proteins Detected by STRING ?

Original result from the STRING server

Your Input:
OsI_33895
retrotransposon protein, putative, unclassified (1573 aa)
(Oryza sativa Japonica)
Predicted Functional Partners:
 
Sorry, there are no predicted associations at the current settings.
 

Conserved Domains and Related Protein Families

Conserved Domains Detected by RPS-BLAST ?

Original result of RPS-BLAST against CDD database part I

ID ?Alignment Graph ?Length ? Definition ? E-value ?
Query245
pfam05970364 pfam05970, PIF1, PIF1-like helicase 6e-54
COG0507696 COG0507, RecD, ATP-dependent exoDNAse (exonuclease 4e-08
>gnl|CDD|191413 pfam05970, PIF1, PIF1-like helicase Back     alignment and domain information 
 Score =  177 bits (450), Expect = 6e-54
 Identities = 72/115 (62%), Positives = 88/115 (76%)

Query: 2   IYPSIQHNYSDPAYLKERAILTPKNEMVHELNEMIMNIIPGQGRTYFSSDSICKASANTN 61
           +YP I  N +DP YL ERAIL P NE V E+N  I++ +PG+ + Y SSDSI K+  +  
Sbjct: 250 VYPDIVQNSTDPNYLCERAILCPTNEDVDEINNYILSQLPGEEKIYLSSDSISKSDTDIP 309

Query: 62  DEDVLYPTEFLNSLKFNGIPNHDIRLKEGAPVMLLRNLNQIEGLCNGTRLIVTRL 116
           D+D LYPTEFLNSLK NG+PNH ++LK GAPVMLLRNL+Q  GLCNGTRLIVT+L
Sbjct: 310 DDDALYPTEFLNSLKANGLPNHVLKLKVGAPVMLLRNLDQSAGLCNGTRLIVTQL 364

This family includes homologues of the PIF1 helicase, which inhibits telomerase activity and is cell cycle regulated. This family includes a large number of largely uncharacterized plant proteins. This family includes a P-loop motif that is involved in nucleotide binding. Length = 364
>gnl|CDD|223581 COG0507, RecD, ATP-dependent exoDNAse (exonuclease V), alpha subunit - helicase superfamily I member [DNA replication, recombination, and repair] Back     alignment and domain information

Conserved Domains Detected by HHsearch ?

Original result of HHsearch against CDD database

ID ?Alignment Graph ?Length ? Definition ? Probability ?
Query 245
KOG0987540 consensus DNA helicase PIF1/RRM3 [Cell cycle contr 99.88
TIGR02768744 TraA_Ti Ti-type conjugative transfer relaxase TraA 99.88
PRK13826 1102 Dtr system oriT relaxase; Provisional 99.87
PRK13889 988 conjugal transfer relaxase TraA; Provisional 99.87
TIGR01448720 recD_rel helicase, putative, RecD/TraA family. Thi 99.85
PF05970364 PIF1: PIF1-like helicase; InterPro: IPR010285 This 99.84
TIGR01447586 recD exodeoxyribonuclease V, alpha subunit. This f 99.84
PRK10875615 recD exonuclease V subunit alpha; Provisional 99.83
COG0507696 RecD ATP-dependent exoDNAse (exonuclease V), alpha 99.79
PF02689818 Herpes_Helicase: Helicase; InterPro: IPR003840 Thi 99.68
PRK13709 1747 conjugal transfer nickase/helicase TraI; Provision 99.62
TIGR02760 1960 TraI_TIGR conjugative transfer relaxase protein Tr 99.56
PRK14712 1623 conjugal transfer nickase/helicase TraI; Provision 99.51
PF13538104 UvrD_C_2: UvrD-like helicase C-terminal domain; PD 99.5
PHA03311828 helicase-primase subunit BBLF4; Provisional 99.44
TIGR02760 1960 TraI_TIGR conjugative transfer relaxase protein Tr 99.06
PRK13709 1747 conjugal transfer nickase/helicase TraI; Provision 98.44
PF01443234 Viral_helicase1: Viral (Superfamily 1) RNA helicas 98.07
PRK10919672 ATP-dependent DNA helicase Rep; Provisional 97.49
PF13361351 UvrD_C: UvrD-like helicase C-terminal domain; PDB: 97.4
TIGR01075715 uvrD DNA helicase II. Designed to identify uvrD me 97.31
TIGR01073726 pcrA ATP-dependent DNA helicase PcrA. Designed to 97.27
PRK11773721 uvrD DNA-dependent helicase II; Provisional 97.25
TIGR01074664 rep ATP-dependent DNA helicase Rep. Designed to id 96.86
PRK13909 910 putative recombination protein RecB; Provisional 96.75
PRK11054684 helD DNA helicase IV; Provisional 96.45
COG1074 1139 RecB ATP-dependent exoDNAse (exonuclease V) beta s 96.29
PF13087200 AAA_12: AAA domain; PDB: 2XZO_A 2WJY_A 2WJV_A 2XZP 96.23
TIGR02785 1232 addA_Gpos recombination helicase AddA, Firmicutes 96.23
TIGR02784 1141 addA_alphas double-strand break repair helicase Ad 95.82
TIGR00609 1087 recB exodeoxyribonuclease V, beta subunit. All pro 95.75
PRK10876 1181 recB exonuclease V subunit beta; Provisional 95.37
PRK14712 1623 conjugal transfer nickase/helicase TraI; Provision 94.18
COG0210655 UvrD Superfamily I DNA and RNA helicases [DNA repl 93.87
TIGR00376637 DNA helicase, putative. The gene product may repre 92.84
>KOG0987 consensus DNA helicase PIF1/RRM3 [Cell cycle control, cell division, chromosome partitioning] Back     alignment and domain information 
Probab=99.88  E-value=2.6e-23  Score=196.17  Aligned_cols=178  Identities=50%  Similarity=0.853  Sum_probs=161.3

Q ss_pred             hhhhcCCccccCcceEEccchHHHHHHHHHHHhhcCCCccEEEEecccccccCCCCCCcccchhhhhhccccCCCCCcce
Q 044416            6 IQHNYSDPAYLKERAILTPKNEMVHELNEMIMNIIPGQGRTYFSSDSICKASANTNDEDVLYPTEFLNSLKFNGIPNHDI   85 (245)
Q Consensus         6 ~~~~~~d~~~~~~~~iL~~tn~~v~~iN~~~l~~l~g~~~~~~a~d~~~~~~~~~~~~~~~~~~~~~~~~~~~gl~~~~l   85 (245)
                      ...+..|+.++....+|+|+|.+|..+|++++..+.++...|.+.+++......... ...+..++++....+++|.+.+
T Consensus       362 ~~~~~~d~~~~~~r~iL~p~~~~v~~in~~~l~~~~~~~~~~l~~~si~~~~~~~~~-~~~~~~~~ln~~~~~~lp~~~l  440 (540)
T KOG0987|consen  362 ILFEARDPNFFTERAILTPKNEDVLKINAQVLLQLNGEEKIYLSSDSIGPVDTFSDD-NLVYTREFLNSIKFSGLPNHKL  440 (540)
T ss_pred             ccccccCcccccccccccCcchhHHHHHHHHHHhcccccceeeecCccccccccccc-CcccchhhhcccccccCCccce
Confidence            344667777777777999999999999999999999999999999987765544333 4566789999999999999999


Q ss_pred             eeeeccceEeeeccCCCCCeeecceEEEEecCCcceEEEEEeeccCCeeEEEEEEeeCCCCCCcCcceeeeccCcceeee
Q 044416           86 RLKEGAPVMLLRNLNQIEGLCNGTRLIVTRLGKWSIRGDIISGTNIGQNVTIQRIIMSPNESRWPFKLNRRQLPLAPCFA  165 (245)
Q Consensus        86 ~l~~G~~Vml~~Nl~~~~gl~NG~~g~V~~i~~~~~~~~~~~~~~~g~~v~i~~~~~~~~~~~~~~~~~r~q~Pl~~ayA  165 (245)
                      .+++|.|+|+++|+++..|++||++..|+.+....+.++++.+...|..+.++++.+.+.+.+.++...|+|||+.+|||
T Consensus       441 ~l~~G~p~mll~nl~~~~gl~~~trl~it~l~~~~~~~~~~~g~r~~~~v~i~r~~~~~~~~~~~~~~~r~qfp~~~~~a  520 (540)
T KOG0987|consen  441 SLKVGAPIMLLRNLDPKGGLCNGTRLQITLLGVFLLEARIVTGSRAGKFVLIPRFDISPSDTNLPFRMRRRQFPLSLAFA  520 (540)
T ss_pred             eEeecCchHhhhccchhhhhhccchhhhhcccCcccceeeeecccccceEEecccccCccccCcccccccccccceeeee
Confidence            99999999999999999999999999999999999999999998889999999999999999999999999999999999


Q ss_pred             eehhhhcCCccceEEEEcC
Q 044416          166 MMINKSQGQSLKHVGLYLS  184 (245)
Q Consensus       166 ~TiHKsQG~t~d~v~v~l~  184 (245)
                      +|||||||+|+.+|.++++
T Consensus       521 ~~i~ksqgqsl~~v~~~l~  539 (540)
T KOG0987|consen  521 MTINKSQGQSLEKVGLYLP  539 (540)
T ss_pred             cccChhhhhhHHhhcCcCC
Confidence            9999999999999998875

>TIGR02768 TraA_Ti Ti-type conjugative transfer relaxase TraA Back     alignment and domain information
>PRK13826 Dtr system oriT relaxase; Provisional Back     alignment and domain information
>PRK13889 conjugal transfer relaxase TraA; Provisional Back     alignment and domain information
>TIGR01448 recD_rel helicase, putative, RecD/TraA family Back     alignment and domain information
>PF05970 PIF1: PIF1-like helicase; InterPro: IPR010285 This entry represents PIF1 helicase and related proteins Back     alignment and domain information
>TIGR01447 recD exodeoxyribonuclease V, alpha subunit Back     alignment and domain information
>PRK10875 recD exonuclease V subunit alpha; Provisional Back     alignment and domain information
>COG0507 RecD ATP-dependent exoDNAse (exonuclease V), alpha subunit - helicase superfamily I member [DNA replication, recombination, and repair] Back     alignment and domain information
>PF02689 Herpes_Helicase: Helicase; InterPro: IPR003840 This entry consists of DNA helicases from a number of different organisms Back     alignment and domain information
>PRK13709 conjugal transfer nickase/helicase TraI; Provisional Back     alignment and domain information
>TIGR02760 TraI_TIGR conjugative transfer relaxase protein TraI Back     alignment and domain information
>PRK14712 conjugal transfer nickase/helicase TraI; Provisional Back     alignment and domain information
>PF13538 UvrD_C_2: UvrD-like helicase C-terminal domain; PDB: 1W36_G 3K70_G 3DMN_A 3UPU_B 3GPL_A 3E1S_A 3GP8_A Back     alignment and domain information
>PHA03311 helicase-primase subunit BBLF4; Provisional Back     alignment and domain information
>TIGR02760 TraI_TIGR conjugative transfer relaxase protein TraI Back     alignment and domain information
>PRK13709 conjugal transfer nickase/helicase TraI; Provisional Back     alignment and domain information
>PF01443 Viral_helicase1: Viral (Superfamily 1) RNA helicase; InterPro: IPR000606 This entry includes RNA and DNA helicases Back     alignment and domain information
>PRK10919 ATP-dependent DNA helicase Rep; Provisional Back     alignment and domain information
>PF13361 UvrD_C: UvrD-like helicase C-terminal domain; PDB: 1UAA_B 3U4Q_A 3U44_A 1W36_B 3K70_B 2IS6_B 3LFU_A 2IS2_B 2IS1_B 2IS4_A Back     alignment and domain information
>TIGR01075 uvrD DNA helicase II Back     alignment and domain information
>TIGR01073 pcrA ATP-dependent DNA helicase PcrA Back     alignment and domain information
>PRK11773 uvrD DNA-dependent helicase II; Provisional Back     alignment and domain information
>TIGR01074 rep ATP-dependent DNA helicase Rep Back     alignment and domain information
>PRK13909 putative recombination protein RecB; Provisional Back     alignment and domain information
>PRK11054 helD DNA helicase IV; Provisional Back     alignment and domain information
>COG1074 RecB ATP-dependent exoDNAse (exonuclease V) beta subunit (contains helicase and exonuclease domains) [DNA replication, recombination, and repair] Back     alignment and domain information
>PF13087 AAA_12: AAA domain; PDB: 2XZO_A 2WJY_A 2WJV_A 2XZP_A 2GK6_A 2GK7_A 2GJK_A 2XZL_A Back     alignment and domain information
>TIGR02785 addA_Gpos recombination helicase AddA, Firmicutes type Back     alignment and domain information
>TIGR02784 addA_alphas double-strand break repair helicase AddA, alphaproteobacterial type Back     alignment and domain information
>TIGR00609 recB exodeoxyribonuclease V, beta subunit Back     alignment and domain information
>PRK10876 recB exonuclease V subunit beta; Provisional Back     alignment and domain information
>PRK14712 conjugal transfer nickase/helicase TraI; Provisional Back     alignment and domain information
>COG0210 UvrD Superfamily I DNA and RNA helicases [DNA replication, recombination, and repair] Back     alignment and domain information
>TIGR00376 DNA helicase, putative Back     alignment and domain information

Homologous Structure Templates

Structure Templates Detected by BLAST ?

Original result of BLAST against Protein Data Bank

No homologous structure with e-value below 0.005

Structure Templates Detected by RPS-BLAST ?

Original result of RPS-BLAST against PDB70 database

ID ?Alignment Graph ?Length ? Definition ? E-value ?
Query245
3upu_A459 ATP-dependent DNA helicase DDA; RECA-like domain, 5e-07
>3upu_A ATP-dependent DNA helicase DDA; RECA-like domain, SH3 domain, PIN-tower interface, coupling hydrolysis to DNA unwinding, ssDNA; 3.30A {Enterobacteria phage T4} Length = 459 Back     alignment and structure
 Score = 48.9 bits (116), Expect = 5e-07
 Identities = 30/201 (14%), Positives = 61/201 (30%), Gaps = 18/201 (8%)

Query: 16  LKERAILTPKNEMVHELNEMIMNIIPGQGRTYFSSDSICKASANTNDEDVLYPTEFLNSL 75
           L E  ++   N+ V +LN +I   I    + +   + I            +        +
Sbjct: 252 LFENRVMAFTNKSVDKLNSIIRKKIFETDKDFIVGEIIVMQEPLFK-TYKIDGKPVSEII 310

Query: 76  KFNGIPNHDIRLKEGAPVMLLRNLNQIEGLCNGTRLIVTRLGKWSIRGDIISGTNIGQNV 135
             NG     I  +  +  +  R +     + +    + T       R  I   ++  +  
Sbjct: 311 FNNGQLVRIIEAEYTSTFVKARGVPGEYLIRHWDLTVETYGDDEYYREKIKIISSDEELY 370

Query: 136 TIQRIIMSPNESR-----------WPFKLNRRQLP-LAPCFAMMINKSQGQSLKHVGLYL 183
                +    E+              F   + Q   +    A   +K+QG S+    +Y 
Sbjct: 371 KFNLFLGKTAETYKNWNKGGKAPWSDFWDAKSQFSKVKALPASTFHKAQGMSVDRAFIYT 430

Query: 184 SKQVFTHGQ-----LYVAVSR 199
               +   +     LYV V+R
Sbjct: 431 PCIHYADVELAQQLLYVGVTR 451

Structure Templates Detected by HHsearch ?

Original result of HHsearch against PDB70 database

ID ?Alignment Graph ?Length ? Definition ? Probability ?
Query245
1w36_D608 RECD, exodeoxyribonuclease V alpha chain; recombin 99.8
3e1s_A574 Exodeoxyribonuclease V, subunit RECD; alpha and be 99.8
3upu_A459 ATP-dependent DNA helicase DDA; RECA-like domain, 99.12
3dmn_A174 Putative DNA helicase; APC89291.2, lactobacillus p 97.75
3vkw_A446 Replicase large subunit; alpha/beta domain, helica 97.18
1uaa_A673 REP helicase, protein (ATP-dependent DNA helicase 96.46
1pjr_A724 PCRA; DNA repair, DNA replication, SOS response, h 96.31
2gk6_A624 Regulator of nonsense transcripts 1; UPF1, helicas 96.27
3lfu_A647 DNA helicase II; SF1 helicase, ATP-binding, DNA da 96.22
2wjy_A800 Regulator of nonsense transcripts 1; nonsense medi 95.92
3u4q_A 1232 ATP-dependent helicase/nuclease subunit A; helicas 95.36
1w36_B 1180 RECB, exodeoxyribonuclease V beta chain; recombina 95.36
2xzl_A802 ATP-dependent helicase NAM7; hydrolase-RNA complex 94.68
4b3f_X646 DNA-binding protein smubp-2; hydrolase, helicase; 94.35
1w36_C 1122 RECC, exodeoxyribonuclease V gamma chain; recombin 80.73
>1w36_D RECD, exodeoxyribonuclease V alpha chain; recombination, helicase, hydrolase, DNA repair; HET: DNA; 3.1A {Escherichia coli} SCOP: c.37.1.19 c.37.1.19 PDB: 3k70_D* Back     alignment and structure
Probab=99.80  E-value=6.3e-21  Score=181.62  Aligned_cols=142  Identities=30%  Similarity=0.404  Sum_probs=70.2

Q ss_pred             cCcceEEccchH---HHHHHHHHHHhhcCCCccEEEEecccccccCCCCCCcccchhhhhhccccCCCCCcceeeeeccc
Q 044416           16 LKERAILTPKNE---MVHELNEMIMNIIPGQGRTYFSSDSICKASANTNDEDVLYPTEFLNSLKFNGIPNHDIRLKEGAP   92 (245)
Q Consensus        16 ~~~~~iL~~tn~---~v~~iN~~~l~~l~g~~~~~~a~d~~~~~~~~~~~~~~~~~~~~~~~~~~~gl~~~~l~l~~G~~   92 (245)
                      +++..+|||.++   .|+.+|..+.+.+...... .                                +.....+++|+|
T Consensus       435 ~~~~~vL~~~~~g~~gv~~lN~~i~~~l~~~~~~-~--------------------------------~~~~~~~~~Gd~  481 (608)
T 1w36_D          435 FNEYQLLCALREGPFGVAGLNERIEQFMQQKRKI-H--------------------------------RHPHSRWYEGRP  481 (608)
T ss_dssp             HTTEEEEESCSSSSSSHHHHHHHHHGGGTSCC------------------------------------------------
T ss_pred             HhhhhhhCCccCCchhHHHHHHHHHHHhCccCcc-c--------------------------------ccccccccCCCe
Confidence            357789999998   7999999988877543211 0                                013557899999


Q ss_pred             eEeeeccCCCCCeeecceEEEEecCCcceEEEEEeeccCCeeEEEEEEeeCCCCCCcCcceeeeccC-cceeeeeehhhh
Q 044416           93 VMLLRNLNQIEGLCNGTRLIVTRLGKWSIRGDIISGTNIGQNVTIQRIIMSPNESRWPFKLNRRQLP-LAPCFAMMINKS  171 (245)
Q Consensus        93 Vml~~Nl~~~~gl~NG~~g~V~~i~~~~~~~~~~~~~~~g~~v~i~~~~~~~~~~~~~~~~~r~q~P-l~~ayA~TiHKs  171 (245)
                      ||+++| +.+.|++||++|+|+.++. .+.+.+..  .+|..+.                +...++| +.+|||+|||||
T Consensus       482 Vm~~~N-d~~~gl~NGdiG~V~~~~~-~l~v~f~~--~dg~~~~----------------~~~~~l~~l~~~~a~Tihks  541 (608)
T 1w36_D          482 VMIARN-DSALGLFNGDIGIALDRGQ-GTRVWFAM--PDGNIKS----------------VQPSRLPEHETTWAMTVHKS  541 (608)
T ss_dssp             -------------------------------------------------------------CCSCCCSCSSCSEEETTTT
T ss_pred             eeEeee-chhhcccCCCeEEEEEcCC-eEEEEEEC--CCCcEEE----------------echHHCCccceEEEEEEEec
Confidence            999999 8999999999999998742 22222221  1222211                1223444 999999999999


Q ss_pred             cCCccceEEEEcCC---CcCcCCCeEEEeecccCCCCcEEEecC
Q 044416          172 QGQSLKHVGLYLSK---QVFTHGQLYVAVSRVTTREGLTILNAD  212 (245)
Q Consensus       172 QG~t~d~v~v~l~~---~~~~~g~~YvAlSR~~~~~~l~i~~~~  212 (245)
                      ||+|+|.|++.++.   ..++++++|||+||+|  +.|.|+..+
T Consensus       542 qG~e~~~v~~~~~~~~~~~~~~~~~Yva~tRa~--~~l~l~~~~  583 (608)
T 1w36_D          542 QGSEFDHAALILPSQRTPVVTRELVYTAVTRAR--RRLSLYADE  583 (608)
T ss_dssp             TTCCBSEEEEECCSSCCSSSCHHHHHHHHTTBS--SCEEEECCT
T ss_pred             ccccCCeEEEEeCCCccchhhhhhHHhhhhhhh--ceEEEEECH
Confidence            99999999999874   3578889999999999  588888743
>3e1s_A Exodeoxyribonuclease V, subunit RECD; alpha and beta protein, ATP-binding, nucleotide-binding, HYD; 2.20A {Deinococcus radiodurans} PDB: 3gp8_A 3gpl_A* Back     alignment and structure
>3upu_A ATP-dependent DNA helicase DDA; RECA-like domain, SH3 domain, PIN-tower interface, coupling hydrolysis to DNA unwinding, ssDNA; 3.30A {Enterobacteria phage T4} Back     alignment and structure
>3dmn_A Putative DNA helicase; APC89291.2, lactobacillus plantarum WCFS1, STR genomics, PSI-2, midwest center for structural genomics; HET: MSE; 1.66A {Lactobacillus plantarum} Back     alignment and structure
>3vkw_A Replicase large subunit; alpha/beta domain, helicase, transferase; 1.90A {Tomato mosaic virus} Back     alignment and structure
>1uaa_A REP helicase, protein (ATP-dependent DNA helicase REP.); complex (helicase/DNA), DNA unwinding, hydrolase/DNA complex; HET: DNA; 3.00A {Escherichia coli} SCOP: c.37.1.19 c.37.1.19 Back     alignment and structure
>1pjr_A PCRA; DNA repair, DNA replication, SOS response, helicase, ATP- binding, DNA-binding; 2.50A {Geobacillus stearothermophilus} SCOP: c.37.1.19 c.37.1.19 PDB: 1qhg_A* 3pjr_A* 2pjr_A* 1qhh_B* 1qhh_D* 1qhh_A* 1qhh_C* 2pjr_B* Back     alignment and structure
>2gk6_A Regulator of nonsense transcripts 1; UPF1, helicase, NMD, hydrolase; HET: ADP; 2.40A {Homo sapiens} PDB: 2gjk_A* 2gk7_A 2xzo_A* 2xzp_A Back     alignment and structure
>3lfu_A DNA helicase II; SF1 helicase, ATP-binding, DNA damage, DNA REP replication, DNA-binding, hydrolase, nucleotide-B SOS response; HET: DNA; 1.80A {Escherichia coli} PDB: 2is6_A* 2is2_A* 2is1_A* 2is4_A* Back     alignment and structure
>2wjy_A Regulator of nonsense transcripts 1; nonsense mediated decay, zinc-finger, ATP-binding, metal-BIN UPF2, UPF1, helicase, hydrolase; 2.50A {Homo sapiens} PDB: 2wjv_A 2iyk_A Back     alignment and structure
>3u4q_A ATP-dependent helicase/nuclease subunit A; helicase, nuclease, double strand DNA repair, protein-DNA CO hydrolase-DNA complex; HET: DNA; 2.80A {Bacillus subtilis} PDB: 3u44_A* Back     alignment and structure
>1w36_B RECB, exodeoxyribonuclease V beta chain; recombination, helicase, hydrolase, DNA repair; HET: DNA; 3.1A {Escherichia coli} SCOP: c.37.1.19 c.37.1.19 c.52.1.24 PDB: 3k70_B* Back     alignment and structure
>2xzl_A ATP-dependent helicase NAM7; hydrolase-RNA complex, NMD, RNA degradation, allosteric REGU; HET: ADP 1PE; 2.40A {Saccharomyces cerevisiae} Back     alignment and structure
>4b3f_X DNA-binding protein smubp-2; hydrolase, helicase; 2.50A {Homo sapiens} PDB: 4b3g_A Back     alignment and structure
>1w36_C RECC, exodeoxyribonuclease V gamma chain; recombination, helicase, hydrolase, DNA repair; HET: DNA; 3.1A {Escherichia coli} SCOP: c.37.1.19 c.37.1.19 c.52.1.25 PDB: 3k70_C* Back     alignment and structure

Homologous Structure Domains

Structure Domains Detected by RPS-BLAST ?

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

No hit with e-value below 0.005

Homologous Domains Detected by HHsearch ?

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

ID ?Alignment Graph ?Length ? Definition ? Probability ?
Query245
d1w36d2246 Exodeoxyribonuclease V alpha chain (RecD) {Escheri 99.88
d1w36b2395 Exodeoxyribonuclease V beta chain (RecB), N-termin 97.58
d1uaaa2333 DEXX box DNA helicase {Escherichia coli, RepD [Tax 97.37
g1qhh.1623 DEXX box DNA helicase {Bacillus stearothermophilus 97.34
d1pjra2333 DEXX box DNA helicase {Bacillus stearothermophilus 96.94
d1w36c2470 Exodeoxyribonuclease V gamma chain (RecC), N-termi 91.73
>d1w36d2 c.37.1.19 (D:361-606) Exodeoxyribonuclease V alpha chain (RecD) {Escherichia coli [TaxId: 562]} Back     information, alignment and structure
class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Tandem AAA-ATPase domain
domain: Exodeoxyribonuclease V alpha chain (RecD)
species: Escherichia coli [TaxId: 562]

Probab=99.88  E-value=1.4e-24  Score=183.00  Aligned_cols=142  Identities=30%  Similarity=0.384  Sum_probs=69.2

Q ss_pred             cCcceEEccchH---HHHHHHHHHHhhcCCCccEEEEecccccccCCCCCCcccchhhhhhccccCCCCCcceeeeeccc
Q 044416           16 LKERAILTPKNE---MVHELNEMIMNIIPGQGRTYFSSDSICKASANTNDEDVLYPTEFLNSLKFNGIPNHDIRLKEGAP   92 (245)
Q Consensus        16 ~~~~~iL~~tn~---~v~~iN~~~l~~l~g~~~~~~a~d~~~~~~~~~~~~~~~~~~~~~~~~~~~gl~~~~l~l~~G~~   92 (245)
                      +++..+|||+++   .|+++|..+.+.+........                                 .....+.+|++
T Consensus        75 ~~~~qvL~~~r~G~~Gv~~lN~~~q~~~~~~~~~~~---------------------------------~~~~~~~~Gd~  121 (246)
T d1w36d2          75 FNEYQLLCALREGPFGVAGLNERIEQFMQQKRKIHR---------------------------------HPHSRWYEGRP  121 (246)
T ss_dssp             HTTEEEEESCSSSSSSHHHHHHHHHGGGTSCC------------------------------------------------
T ss_pred             HHHHHHHHHHccchHHHHHHHHHHHHHhccccCccc---------------------------------cCCceeeCCCe
Confidence            468899999998   599999999887754322110                                 01234678999


Q ss_pred             eEeeeccCCCCCeeecceEEEEecCCcceEEEEEeeccCCeeEEEEEEeeCCCCCCcCcceeeeccCcceeeeeehhhhc
Q 044416           93 VMLLRNLNQIEGLCNGTRLIVTRLGKWSIRGDIISGTNIGQNVTIQRIIMSPNESRWPFKLNRRQLPLAPCFAMMINKSQ  172 (245)
Q Consensus        93 Vml~~Nl~~~~gl~NG~~g~V~~i~~~~~~~~~~~~~~~g~~v~i~~~~~~~~~~~~~~~~~r~q~Pl~~ayA~TiHKsQ  172 (245)
                      ||+++| |.+.++.||++|+|.++.... .+.+.  ..+|..+.++     +.          ..-.+.+|||+||||||
T Consensus       122 V~~t~N-d~~~~v~NGd~g~v~~~~~~~-~~~~~--~~~~~~~~~~-----~~----------~l~~~~~ayA~TiHkaQ  182 (246)
T d1w36d2         122 VMIARN-DSALGLFNGDIGIALDRGQGT-RVWFA--MPDGNIKSVQ-----PS----------RLPEHETTWAMTVHKSQ  182 (246)
T ss_dssp             ---------------------------------------------C-----CS----------CCCSCSSCSEEETTTTT
T ss_pred             EEEecc-CcccccccccceEEEecCCCc-EEEEE--ecCCcEEEee-----hH----------hchhhhhheeccHHHhc
Confidence            999999 899999999999998875431 11111  1122222111     10          01137899999999999


Q ss_pred             CCccceEEEEcCC---CcCcCCCeEEEeecccCCCCcEEEec
Q 044416          173 GQSLKHVGLYLSK---QVFTHGQLYVAVSRVTTREGLTILNA  211 (245)
Q Consensus       173 G~t~d~v~v~l~~---~~~~~g~~YvAlSR~~~~~~l~i~~~  211 (245)
                      |+|++.|++.+++   .+++..++|||+||+|  +.+.|+..
T Consensus       183 Gse~~~v~~~l~~~~~~~~~r~l~YtaiTRAk--~~~~l~~~  222 (246)
T d1w36d2         183 GSEFDHAALILPSQRTPVVTRELVYTAVTRAR--RRLSLYAD  222 (246)
T ss_dssp             TCCBSEEEEECCSSCCSSSCHHHHHHHHTTBS--SCEEEECC
T ss_pred             cCCCCcceeccCcccccccchhhHHHHHhhhh--CeEEEEEC
Confidence            9999999998864   3567889999999999  78988874
>d1w36b2 c.37.1.19 (B:486-880) Exodeoxyribonuclease V beta chain (RecB), N-terminal domain {Escherichia coli [TaxId: 562]} Back     information, alignment and structure
>d1uaaa2 c.37.1.19 (A:308-640) DEXX box DNA helicase {Escherichia coli, RepD [TaxId: 562]} Back     information, alignment and structure
>d1pjra2 c.37.1.19 (A:319-651) DEXX box DNA helicase {Bacillus stearothermophilus, PcrA [TaxId: 1422]} Back     information, alignment and structure
>d1w36c2 c.37.1.19 (C:348-817) Exodeoxyribonuclease V gamma chain (RecC), N-terminal domain {Escherichia coli [TaxId: 562]} Back     information, alignment and structure