Psyllid ID: psy12660

Local Sequence Feature Prediction

Prediction and (Method)Result
Residue Number Marker
Protein Sequence ?
Secondary Structure (PSIPRED) ?
Secondary Structure Prediction (SSPRO) ?
Coil and Loop (DISEMBL) ?
Flexible Loop (DISEMBL) ?
Low Complexity Region (SEG) ?
Disordered region (IsUnstruct) ?
Disordered Region (DISOPRED) ?
Disordered Region (DISEMBL) ?
Disordered Region (DISPRO) ?
Transmembrane Helix (TMHMM) ?
Transmembrane Helix (HMMTOP) ?
Transmembrane Helix (MEMSAT) ?
TM Helix, Signal Peptide (MEMSAT_SVM) ?
TM Helix, Signal Peptide (Phobius) ?
Signal Peptide (SignalP HMM Mode) ?
Signal Peptide (SignalP NN Mode) ?
Coiled Coils (COILS) ?
Positional Conservation ?
 
--------10--------20--------30--------40--------50--------60--------70--------80--------90-------100-------110-------120-------130-------140-------150-------160-------170-------180-------190-------200-------210-------220-------230-------240-------250-------260-------270-------280-------290----
MSHVGVYAEYQKANAGLVYDFQLINVEDFNGVGESEPNPYFYQNLAEAEYCVALFMYMRLLGYPAHKITILSTYNGQKHLIRDVINTRCADNPLIGRPHKVTTVDKYQGQQNDYILLSLVRTASVGHLRDVRRLIVAMSRARLGLYVFARVSLFRNCFELTPAFNQLMIRPQQLHIVPHETFPTSRLNTSRVPNSVAIQDMVHMTTLVYNFYMDKVNGMKKEFYSKAKLNADKWKKPGDIEEFYSKAKLNADKWKKPGDIEVKDVETHVAIHPGGDSDESGDEEEKEEEKMDTE
cccccccccHHcccccccccccccccccccccccccccccccccHHHHHHHHHHHHHHHHcccccccEEEEccHHHHHHHHHHHHHHHcccccccccccEEEEccccccccccEEEEEEEEcccccccccccHHHHHHHHcccccEEEEcHHHHHcccccHHHHHHHHcccccccccccccccccccccccccccccccccccHHHHHHHHHHHHHHHcHHHHHHHHcccccccccccccHHHHHHHHcccccccccccccccccccccccccccccccccccHHHHHHHHHcc
ccccccccHHHHHcccccccccccccccccccccccccccHHHcHHHHHHHHHHHHHHHHccccHHHEEEEEccHHHHHHHHHHHHHHccccccccccEEEEEEHHHccccccEEEEEEEEcccccccccHHHHHHHHHHHHccEEEEccHHHHHHHHHHHHHHHHHHHccccEEEcccccccccccccccccccEEcccHHHHHHHHHHHHHHHHHHHHHHHccccccccccccccccccccccccccccHHHHcccHccccccccccccccccccccccHHHHHHHHccccc
MSHVGVYAEYQkanaglvydfqlinvedfngvgesepnpyfyqNLAEAEYCVALFMYMRllgypahkitILSTYNGQKHLIRDVIntrcadnpligrphkvttvdkyqgqqnDYILLSLVRTASVGHLRDVRRLIVAMSRARLGLYVFARVSLFRNCFEltpafnqlmirpqqlhivphetfptsrlntsrvpnsvAIQDMVHMTTLVYNFYMDKVNGMKKEFYSKAKlnadkwkkpgdieEFYSKAKlnadkwkkpgdievkdvethvaihpggdsdesgdeeekeeekmdte
MSHVGVYAEYQKANAGLVYDFQLINVEDFNGVGESEPNPYFYQNLAEAEYCVALFMYMRLLGYPAHKITILSTYNGQKHLIRDVINTRCADNPLIGRPHKVTTVDKYQGQQNDYILLSLVrtasvghlrDVRRLIVAMSRARLGLYVFARVSLFRNCFELTPAFNQLMIRPQQLHIVPHETFPTSRLNTSRVPNSVAIQDMVHMTTLVYNFYMDKVNGMKKEFYSKAklnadkwkkpgdieefyskaklnadkwkkpGDIEVKDVethvaihpggdsdesgdeeekeeekmdte
MSHVGVYAEYQKANAGLVYDFQLINVEDFNGVGESEPNPYFYQNLAEAEYCVALFMYMRLLGYPAHKITILSTYNGQKHLIRDVINTRCADNPLIGRPHKVTTVDKYQGQQNDYILLSLVRTASVGHLRDVRRLIVAMSRARLGLYVFARVSLFRNCFELTPAFNQLMIRPQQLHIVPHETFPTSRLNTSRVPNSVAIQDMVHMTTLVYNFYMDKVNGMKKEFYSKAKLNADKWKKPGDIEEFYSKAKLNADKWKKPGDIEVKDVETHVAIHPggdsdesgdeeekeeekMDTE
***VGVYAEYQKANAGLVYDFQLINVEDFNGVGESEPNPYFYQNLAEAEYCVALFMYMRLLGYPAHKITILSTYNGQKHLIRDVINTRCADNPLIGRPHKVTTVDKYQGQQNDYILLSLVRTASVGHLRDVRRLIVAMSRARLGLYVFARVSLFRNCFELTPAFNQLMIRPQQLHIVPHETFPTSRLNTSRVPNSVAIQDMVHMTTLVYNFYMDKVNGMKKEFYSKAKLNADKWKKPGDIEEFYSKAKLNADKWK****I*V********************************
*SHVGVYAEYQKANAGLVYDFQLINVE******************AEAEYCVALFMYMRLLGYPAHKITILSTYNGQKHLIRDVINTRCADNPLIGRPHKVTTVDKYQGQQNDYILLSLVRTASVGHLRDVRRLIVAMSRARLGLYVFARVSLFRNCFELTPAFNQLMIRPQQLHIVPHETFPT**************************************************************************************************************
MSHVGVYAEYQKANAGLVYDFQLINVEDFNGVGESEPNPYFYQNLAEAEYCVALFMYMRLLGYPAHKITILSTYNGQKHLIRDVINTRCADNPLIGRPHKVTTVDKYQGQQNDYILLSLVRTASVGHLRDVRRLIVAMSRARLGLYVFARVSLFRNCFELTPAFNQLMIRPQQLHIVPHETFPTSRLNTSRVPNSVAIQDMVHMTTLVYNFYMDKVNGMKKEFYSKAKLNADKWKKPGDIEEFYSKAKLNADKWKKPGDIEVKDVETHVAIHPG********************
****GVYAEYQKANAGLVYDFQLINVEDFNGVGESEPNPYFYQNLAEAEYCVALFMYMRLLGYPAHKITILSTYNGQKHLIRDVINTRCADNPLIGRPHKVTTVDKYQGQQNDYILLSLVRTASVGHLRDVRRLIVAMSRARLGLYVFARVSLFRNCFELTPAFNQLMIRPQQLHIVPHETFPTSRLNTSRVPNSVAIQDMVHMTTLVYNFYMDKVNGMKKEFY**********************************************************************
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oooooooooooooooooooooooooooooooooooooooooooooooooooHHHHHHHHHHHHHHHHHHHHHHiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiHHHHHHHHHHHHHHHHHHHHHHooooooooooooooooooooooooooooooHHHHHHHHHHHHHHHHHHHiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiii
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oooooooooooooooooooooooooooooooooooooooooooooohhhhhhhhhhhhhhhhiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiii
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MSHVGVYAEYQKANAGLVYDFQLINVEDFNGVGESEPNPYFYQNLAEAEYCVALFMYMRLLGYPAHKITILSTYNGQKHLIRDVINTRCADNPLIGRPHKVTTVDKYQGQQNDYILLSLVRTASVGHLRDVRRLIVAMSRARLGLYVFARVSLFRNCFELTPAFNQLMIRPQQLHIVPHETFPTSRLNTSRVPNSVAIQDMVHMTTLVYNFYMDKVNGMKKEFYSKAKLNADKWKKPGDIEEFYSKAKLNADKWKKPGDIEVKDVETHVAIHPGGDSDESGDEEEKEEEKMDTE
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 ?
Query294 2.2.26 [Sep-21-2011]
Q8CFQ31481 Intron-binding protein aq yes N/A 0.724 0.143 0.752 1e-93
O603061485 Intron-binding protein aq yes N/A 0.724 0.143 0.742 3e-92
O945081284 Pre-mRNA-splicing factor yes N/A 0.693 0.158 0.325 5e-27
Q8R151 1909 NFX1-type zinc finger-con no N/A 0.363 0.056 0.387 4e-13
Q9P2E3 1918 NFX1-type zinc finger-con no N/A 0.363 0.055 0.379 2e-12
O74465999 Helicase required for RNA no N/A 0.408 0.120 0.404 2e-12
Q54I89 1331 Regulator of nonsense tra no N/A 0.479 0.105 0.292 4e-11
Q57568663 Uncharacterized ATP-depen yes N/A 0.411 0.182 0.313 3e-09
O765121069 Regulator of nonsense tra no N/A 0.384 0.105 0.293 4e-09
P30771971 ATP-dependent helicase NA yes N/A 0.455 0.138 0.307 4e-09
>sp|Q8CFQ3|AQR_MOUSE Intron-binding protein aquarius OS=Mus musculus GN=Aqr PE=2 SV=2 Back     alignment and function desciption
 Score =  342 bits (878), Expect = 1e-93,   Method: Compositional matrix adjust.
 Identities = 161/214 (75%), Positives = 181/214 (84%), Gaps = 1/214 (0%)

Query: 1    MSHVGVYAEYQKANAGLVYDFQLINVEDFNGVGESEPNPYFYQNLAEAEYCVALFMYMRL 60
            + HV +  E+  ANAGL+YDFQLINVEDF GVGESEPNPYFYQNL EAEY VALFMYM L
Sbjct: 1161 LPHVQLLPEFSTANAGLLYDFQLINVEDFQGVGESEPNPYFYQNLGEAEYVVALFMYMCL 1220

Query: 61   LGYPAHKITILSTYNGQKHLIRDVINTRCADNPLIGRPHKVTTVDKYQGQQNDYILLSLV 120
            LGYPA KI+IL+TYNGQKHLIRD+IN RC +NPLIGRP+KVTTVD++QGQQNDYILLSLV
Sbjct: 1221 LGYPADKISILTTYNGQKHLIRDIINRRCGNNPLIGRPNKVTTVDRFQGQQNDYILLSLV 1280

Query: 121  RTASVGHLRDVRRLIVAMSRARLGLYVFARVSLFRNCFELTPAFNQLMIRPQQLHIVPHE 180
            RT +VGHLRDVRRL+VAMSRARLGLY+FARVSLF+NCFELTPAF+QL  RP  LHI+P E
Sbjct: 1281 RTRAVGHLRDVRRLVVAMSRARLGLYIFARVSLFQNCFELTPAFSQLTARPLHLHIIPTE 1340

Query: 181  TFPTSRLNTSRVPNSV-AIQDMVHMTTLVYNFYM 213
             FPTSR N  R P+ V  I++M  M   VYN YM
Sbjct: 1341 PFPTSRKNGERPPHEVQVIKNMPQMANFVYNMYM 1374
Intron-binding spliceosomal protein required to link pre-mRNA splicing and snoRNP (small nucleolar ribonucleoprotein) biogenesis. Plays a key role in position-dependent assembly of intron-encoded box C/D small snoRNP, splicing being required for snoRNP assembly. May act by helping the folding of the snoRNA sequence. Binds to intron of pre-mRNAs in a sequence-independent manner, contacting the region between snoRNA and the branchpoint of introns (40 nucleotides upstream of the branchpoint) during the late stages of splicing.
Mus musculus (taxid: 10090)
>sp|O60306|AQR_HUMAN Intron-binding protein aquarius OS=Homo sapiens GN=AQR PE=1 SV=4 Back     alignment and function description
>sp|O94508|CWF11_SCHPO Pre-mRNA-splicing factor cwf11 OS=Schizosaccharomyces pombe (strain 972 / ATCC 24843) GN=cwf11 PE=1 SV=1 Back     alignment and function description
>sp|Q8R151|ZNFX1_MOUSE NFX1-type zinc finger-containing protein 1 OS=Mus musculus GN=Znfx1 PE=2 SV=3 Back     alignment and function description
>sp|Q9P2E3|ZNFX1_HUMAN NFX1-type zinc finger-containing protein 1 OS=Homo sapiens GN=ZNFX1 PE=1 SV=2 Back     alignment and function description
>sp|O74465|HRR1_SCHPO Helicase required for RNAi-mediated heterochromatin assembly 1 OS=Schizosaccharomyces pombe (strain 972 / ATCC 24843) GN=hrr1 PE=1 SV=2 Back     alignment and function description
>sp|Q54I89|RENT1_DICDI Regulator of nonsense transcripts 1 OS=Dictyostelium discoideum GN=upf1 PE=3 SV=1 Back     alignment and function description
>sp|Q57568|Y104_METJA Uncharacterized ATP-dependent helicase MJ0104 OS=Methanocaldococcus jannaschii (strain ATCC 43067 / DSM 2661 / JAL-1 / JCM 10045 / NBRC 100440) GN=MJ0104 PE=3 SV=1 Back     alignment and function description
>sp|O76512|RENT1_CAEEL Regulator of nonsense transcripts 1 OS=Caenorhabditis elegans GN=smg-2 PE=1 SV=1 Back     alignment and function description
>sp|P30771|NAM7_YEAST ATP-dependent helicase NAM7 OS=Saccharomyces cerevisiae (strain ATCC 204508 / S288c) GN=NAM7 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 ?
Query294
91085659 1453 PREDICTED: similar to Intron-binding pro 0.860 0.174 0.647 1e-101
383859427 1445 PREDICTED: intron-binding protein aquari 0.897 0.182 0.604 7e-98
242017285 1462 conserved hypothetical protein [Pediculu 0.863 0.173 0.622 3e-97
380024866 1442 PREDICTED: intron-binding protein aquari 0.867 0.176 0.629 3e-97
340714490 1448 PREDICTED: intron-binding protein aquari 0.870 0.176 0.635 4e-97
328784311 1442 PREDICTED: intron-binding protein aquari 0.867 0.176 0.629 5e-97
350422268 1448 PREDICTED: intron-binding protein aquari 0.904 0.183 0.615 5e-97
332027102 1151 Intron-binding protein aquarius [Acromyr 0.833 0.212 0.634 1e-96
307210786 1153 Intron-binding protein aquarius [Harpegn 0.789 0.201 0.703 9e-96
307176772 1145 Intron-binding protein aquarius [Campono 0.836 0.214 0.633 3e-95
>gi|91085659|ref|XP_971350.1| PREDICTED: similar to Intron-binding protein aquarius (Intron-binding protein of 160 kDa) (IBP160) [Tribolium castaneum] Back     alignment and taxonomy information
 Score =  372 bits (956), Expect = e-101,   Method: Compositional matrix adjust.
 Identities = 180/278 (64%), Positives = 209/278 (75%), Gaps = 25/278 (8%)

Query: 1    MSHVGVYAEYQKANAGLVYDFQLINVEDFNGVGESEPNPYFYQNLAEAEYCVALFMYMRL 60
            ++HV  +AEY+ ANAG  +DFQLI+ +DFNGVGESEP+PYFYQNLAEAEYCVA+FMYMRL
Sbjct: 1147 LAHVLNWAEYRTANAGFAFDFQLIDTQDFNGVGESEPSPYFYQNLAEAEYCVAVFMYMRL 1206

Query: 61   LGYPAHKITILSTYNGQKHLIRDVINTRCADNPLIGRPHKVTTVDKYQGQQNDYILLSLV 120
            +GYPAHKITIL+TYNGQKHLIRDVIN RCA+NPLIGRPHKVTTVDKYQGQQND+ILLSLV
Sbjct: 1207 IGYPAHKITILTTYNGQKHLIRDVINARCANNPLIGRPHKVTTVDKYQGQQNDFILLSLV 1266

Query: 121  RTASVGHLRDVRRLIVAMSRARLGLYVFARVSLFRNCFELTPAFNQLMIRPQQLHIVPHE 180
            RT +VGHLRDVRRL+VAMSRARLGLYVFARV+LF+NCFELTPAF QL  RP +LH+V +E
Sbjct: 1267 RTKAVGHLRDVRRLVVAMSRARLGLYVFARVALFQNCFELTPAFEQLTQRPTKLHLVVNE 1326

Query: 181  TFPTSRLNTSRVPNSVAIQDMVHMTTLVYNFYMDKVNGMKKEFYSKAKLNADKWKKPGDI 240
            T+P  R N  +    V  QDM +M   VY FY  +V  M KE+Y + +            
Sbjct: 1327 TYPAKRYNDEKPQEVVVSQDMTYMANFVYTFYTQRVKQM-KEYYEQTQ------------ 1373

Query: 241  EEFYSKAKLNADKWKKPGDIEVKDVETHVAIHPGGDSD 278
                        KW KPG  EVK+ E  V+ HPG D D
Sbjct: 1374 ------------KWMKPGACEVKEHEYFVSSHPGEDRD 1399

Source: Tribolium castaneum

Species: Tribolium castaneum

Genus: Tribolium

Family: Tenebrionidae

Order: Coleoptera

Class: Insecta

Phylum: Arthropoda

Superkingdom: Eukaryota
>gi|383859427|ref|XP_003705196.1| PREDICTED: intron-binding protein aquarius [Megachile rotundata] Back     alignment and taxonomy information
>gi|242017285|ref|XP_002429122.1| conserved hypothetical protein [Pediculus humanus corporis] gi|212513986|gb|EEB16384.1| conserved hypothetical protein [Pediculus humanus corporis] Back     alignment and taxonomy information
>gi|380024866|ref|XP_003696210.1| PREDICTED: intron-binding protein aquarius [Apis florea] Back     alignment and taxonomy information
>gi|340714490|ref|XP_003395761.1| PREDICTED: intron-binding protein aquarius-like [Bombus terrestris] Back     alignment and taxonomy information
>gi|328784311|ref|XP_396990.3| PREDICTED: intron-binding protein aquarius [Apis mellifera] Back     alignment and taxonomy information
>gi|350422268|ref|XP_003493110.1| PREDICTED: intron-binding protein aquarius-like [Bombus impatiens] Back     alignment and taxonomy information
>gi|332027102|gb|EGI67198.1| Intron-binding protein aquarius [Acromyrmex echinatior] Back     alignment and taxonomy information
>gi|307210786|gb|EFN87169.1| Intron-binding protein aquarius [Harpegnathos saltator] Back     alignment and taxonomy information
>gi|307176772|gb|EFN66172.1| Intron-binding protein aquarius [Camponotus floridanus] 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 ?
Query294
MGI|MGI:12761021481 Aqr "aquarius" [Mus musculus ( 0.724 0.143 0.752 3.5e-83
UNIPROTKB|F1MUW21466 F1MUW2 "Uncharacterized protei 0.724 0.145 0.747 4e-82
UNIPROTKB|F1PA161483 AQR "Uncharacterized protein" 0.724 0.143 0.747 4.2e-82
UNIPROTKB|O603061485 AQR "Intron-binding protein aq 0.724 0.143 0.742 6.9e-82
UNIPROTKB|F1NPB81416 AQR "Uncharacterized protein" 0.748 0.155 0.698 1e-79
RGD|13062231353 Aqr "aquarius homolog (mouse)" 0.632 0.137 0.801 7.3e-78
ZFIN|ZDB-GENE-040426-11891525 aqr "aquarius homolog (mouse)" 0.717 0.138 0.699 2.5e-77
FB|FBgn00513681486 CG31368 [Drosophila melanogast 0.785 0.155 0.652 1.3e-76
WB|WBGene000012581467 emb-4 [Caenorhabditis elegans 0.911 0.182 0.487 1.9e-63
TAIR|locus:20641581509 EMB2765 "EMBRYO DEFECTIVE 2765 0.673 0.131 0.625 5.3e-60
MGI|MGI:1276102 Aqr "aquarius" [Mus musculus (taxid:10090)] Back     alignment and assigned GO terms
 Score = 843 (301.8 bits), Expect = 3.5e-83, P = 3.5e-83
 Identities = 161/214 (75%), Positives = 181/214 (84%)

Query:     1 MSHVGVYAEYQKANAGLVYDFQLINVEDFNGVGESEPNPYFYQNLAEAEYCVALFMYMRL 60
             + HV +  E+  ANAGL+YDFQLINVEDF GVGESEPNPYFYQNL EAEY VALFMYM L
Sbjct:  1161 LPHVQLLPEFSTANAGLLYDFQLINVEDFQGVGESEPNPYFYQNLGEAEYVVALFMYMCL 1220

Query:    61 LGYPAHKITILSTYNGQKHLIRDVINTRCADNPLIGRPHKVTTVDKYQGQQNDYILLSLV 120
             LGYPA KI+IL+TYNGQKHLIRD+IN RC +NPLIGRP+KVTTVD++QGQQNDYILLSLV
Sbjct:  1221 LGYPADKISILTTYNGQKHLIRDIINRRCGNNPLIGRPNKVTTVDRFQGQQNDYILLSLV 1280

Query:   121 RTASVGHLRDVRRLIVAMSRARLGLYVFARVSLFRNCFELTPAFNQLMIRPQQLHIVPHE 180
             RT +VGHLRDVRRL+VAMSRARLGLY+FARVSLF+NCFELTPAF+QL  RP  LHI+P E
Sbjct:  1281 RTRAVGHLRDVRRLVVAMSRARLGLYIFARVSLFQNCFELTPAFSQLTARPLHLHIIPTE 1340

Query:   181 TFPTSRLNTSRVPNSV-AIQDMVHMTTLVYNFYM 213
              FPTSR N  R P+ V  I++M  M   VYN YM
Sbjct:  1341 PFPTSRKNGERPPHEVQVIKNMPQMANFVYNMYM 1374
GO:0000398 "mRNA splicing, via spliceosome" evidence=IEA
GO:0003674 "molecular_function" evidence=ND
GO:0003723 "RNA binding" evidence=IEA
GO:0005634 "nucleus" evidence=IEA
GO:0005681 "spliceosomal complex" evidence=IEA
GO:0006397 "mRNA processing" evidence=IEA
GO:0008150 "biological_process" evidence=ND
GO:0008380 "RNA splicing" evidence=IEA
GO:0071013 "catalytic step 2 spliceosome" evidence=ISO
GO:0097157 "pre-mRNA intronic binding" evidence=IEA
UNIPROTKB|F1MUW2 F1MUW2 "Uncharacterized protein" [Bos taurus (taxid:9913)] Back     alignment and assigned GO terms
UNIPROTKB|F1PA16 AQR "Uncharacterized protein" [Canis lupus familiaris (taxid:9615)] Back     alignment and assigned GO terms
UNIPROTKB|O60306 AQR "Intron-binding protein aquarius" [Homo sapiens (taxid:9606)] Back     alignment and assigned GO terms
UNIPROTKB|F1NPB8 AQR "Uncharacterized protein" [Gallus gallus (taxid:9031)] Back     alignment and assigned GO terms
RGD|1306223 Aqr "aquarius homolog (mouse)" [Rattus norvegicus (taxid:10116)] Back     alignment and assigned GO terms
ZFIN|ZDB-GENE-040426-1189 aqr "aquarius homolog (mouse)" [Danio rerio (taxid:7955)] Back     alignment and assigned GO terms
FB|FBgn0051368 CG31368 [Drosophila melanogaster (taxid:7227)] Back     alignment and assigned GO terms
WB|WBGene00001258 emb-4 [Caenorhabditis elegans (taxid:6239)] Back     alignment and assigned GO terms
TAIR|locus:2064158 EMB2765 "EMBRYO DEFECTIVE 2765" [Arabidopsis thaliana (taxid:3702)] Back     alignment and assigned GO terms

Prediction of Enzyme Commission (EC) Number

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

Original result of BLAST against SWISS-PROT

ID ?Name ?Annotated EC number ?Identity ?Query coverage ?Hit coverage ?RBH(Q2H) ?RBH(H2Q) ?
O60306AQR_HUMANNo assigned EC number0.74290.72440.1434yesN/A
Q8CFQ3AQR_MOUSENo assigned EC number0.75230.72440.1438yesN/A

EC Number Prediction by EFICAz Software ?

No EC number assignment, probably not an enzyme!

Prediction of Functionally Associated Proteins

Conserved Domains and Related Protein Families

Conserved Domains Detected by RPS-BLAST ?

Original result of RPS-BLAST against CDD database

ID ?Alignment Graph ?Length ? Definition ? E-value ?
Query294
pfam13087195 pfam13087, AAA_12, AAA domain 3e-25
COG1112767 COG1112, COG1112, Superfamily I DNA and RNA helica 2e-14
TIGR00376637 TIGR00376, TIGR00376, DNA helicase, putative 2e-13
>gnl|CDD|221913 pfam13087, AAA_12, AAA domain Back     alignment and domain information 
 Score = 99.2 bits (248), Expect = 3e-25
 Identities = 45/132 (34%), Positives = 66/132 (50%), Gaps = 11/132 (8%)

Query: 21  FQLINVEDFNGVGESEPNPYFYQNLAEAEYCVALFMYMRLLGYPAH-KITILSTYNGQKH 79
              I+V+   G  E E     Y N AEAE  V L   +   G   +  I I++ Y  Q  
Sbjct: 67  LVFIDVD---GSEEEEEKSTSYSNEAEAELVVQLVEKLLKSGPEKNKDIGIITPYRAQVR 123

Query: 80  LIRDVINTRCADNPLIGRPHKVTTVDKYQGQQNDYILLSLVRT---ASVGHLRDVRRLIV 136
           LI+ ++  +    P I    +V TVD +QG++ D I+ S VR+     +G L D RRL V
Sbjct: 124 LIKKLLKRKFGGEPDI----EVNTVDGFQGREKDVIIFSTVRSNEKGGIGFLSDPRRLNV 179

Query: 137 AMSRARLGLYVF 148
           A++RA+ GL + 
Sbjct: 180 ALTRAKRGLIIV 191

This family of domains contain a P-loop motif that is characteristic of the AAA superfamily. Many of the proteins in this family are conjugative transfer proteins. Length = 195
>gnl|CDD|224037 COG1112, COG1112, Superfamily I DNA and RNA helicases and helicase subunits [DNA replication, recombination, and repair] Back     alignment and domain information
>gnl|CDD|232945 TIGR00376, TIGR00376, DNA helicase, putative Back     alignment and domain information

Conserved Domains Detected by HHsearch ?

Original result of HHsearch against CDD database

ID ?Alignment Graph ?Length ? Definition ? Probability ?
Query 294
KOG1806|consensus1320 100.0
KOG1802|consensus935 99.97
TIGR00376637 DNA helicase, putative. The gene product may repre 99.96
PF13087200 AAA_12: AAA domain; PDB: 2XZO_A 2WJY_A 2WJV_A 2XZP 99.96
KOG1803|consensus649 99.96
KOG1807|consensus1025 99.93
KOG1805|consensus1100 99.92
COG1112767 Superfamily I DNA and RNA helicases and helicase s 99.86
KOG1801|consensus827 99.74
KOG1804|consensus775 99.6
PF13538104 UvrD_C_2: UvrD-like helicase C-terminal domain; PD 98.22
PRK11054684 helD DNA helicase IV; Provisional 98.21
PF01443234 Viral_helicase1: Viral (Superfamily 1) RNA helicas 97.35
TIGR01448720 recD_rel helicase, putative, RecD/TraA family. Thi 97.33
PF13361351 UvrD_C: UvrD-like helicase C-terminal domain; PDB: 97.11
TIGR01447586 recD exodeoxyribonuclease V, alpha subunit. This f 97.08
COG0507696 RecD ATP-dependent exoDNAse (exonuclease V), alpha 97.06
TIGR02768744 TraA_Ti Ti-type conjugative transfer relaxase TraA 96.89
PRK10875615 recD exonuclease V subunit alpha; Provisional 96.85
PRK10919672 ATP-dependent DNA helicase Rep; Provisional 96.49
COG1074 1139 RecB ATP-dependent exoDNAse (exonuclease V) beta s 96.3
COG3973747 Superfamily I DNA and RNA helicases [General funct 96.27
TIGR02785 1232 addA_Gpos recombination helicase AddA, Firmicutes 96.27
TIGR01073726 pcrA ATP-dependent DNA helicase PcrA. Designed to 96.18
TIGR01075715 uvrD DNA helicase II. Designed to identify uvrD me 96.18
PRK11773721 uvrD DNA-dependent helicase II; Provisional 96.05
PRK13909910 putative recombination protein RecB; Provisional 95.84
TIGR01074664 rep ATP-dependent DNA helicase Rep. Designed to id 95.47
TIGR02784 1141 addA_alphas double-strand break repair helicase Ad 95.47
TIGR00609 1087 recB exodeoxyribonuclease V, beta subunit. All pro 95.09
PRK13826 1102 Dtr system oriT relaxase; Provisional 94.49
PRK10876 1181 recB exonuclease V subunit beta; Provisional 94.34
PRK13889 988 conjugal transfer relaxase TraA; Provisional 92.55
PF09848352 DUF2075: Uncharacterized conserved protein (DUF207 92.14
COG0210655 UvrD Superfamily I DNA and RNA helicases [DNA repl 91.44
PRK13709 1747 conjugal transfer nickase/helicase TraI; Provision 89.13
COG3972660 Superfamily I DNA and RNA helicases [General funct 89.01
PRK14712 1623 conjugal transfer nickase/helicase TraI; Provision 88.15
KOG1804|consensus 775 81.97
>KOG1806|consensus Back     alignment and domain information 
Probab=100.00  E-value=3.2e-42  Score=353.08  Aligned_cols=218  Identities=63%  Similarity=1.046  Sum_probs=212.9

Q ss_pred             CCCCCcchhhhhhcCCCCCCceEEecCCCCCCccccCCCCcccCHHHHHHHHHHHHHHHHcCCCCCceEEEeccHHHHHH
Q psy12660          1 MSHVGVYAEYQKANAGLVYDFQLINVEDFNGVGESEPNPYFYQNLAEAEYCVALFMYMRLLGYPAHKITILSTYNGQKHL   80 (294)
Q Consensus         1 lp~~~~~p~~~~~n~G~~~~~q~Idv~~~~G~~e~~~~~~s~~N~~EA~~vv~lv~~L~~~g~~~~~IgIITpY~~Q~~l   80 (294)
                      |||++..|.|+.+|.||.|++|||||+|+.|.++++|++++|+|.+||+++++++.||+..|||.++|.|+|+|++|+.+
T Consensus      1093 l~~v~~lp~f~~aNagf~~~~qlinv~Df~g~gEt~p~p~fyQnlgeaey~vAly~YMr~Lgypa~Kisilttyngq~~l 1172 (1320)
T KOG1806|consen 1093 LPHVSPLPRFQYANAGFAYEFQFINVPDFKGSGETEPSPGFYQNLGEAEYAVALFQYMRLLGYPANKISILTTYNGQKSL 1172 (1320)
T ss_pred             CcCCccchhhhccccCceeeEEEecchhhccccccCCCcccccCCchhhhHHHHHHHHHHhCCchhHeeEEEeecchHHH
Confidence            69999999999999999999999999999999999999999999999999999999999999999999999999999999


Q ss_pred             HHHHHHhhcCCCCCCCCCceeccccCCCCCCCceEEEeeeecCCCCCcCcchhhhhhcccccceeEEEechhhhhccccc
Q psy12660         81 IRDVINTRCADNPLIGRPHKVTTVDKYQGQQNDYILLSLVRTASVGHLRDVRRLIVAMSRARLGLYVFARVSLFRNCFEL  160 (294)
Q Consensus        81 I~~~L~~~~~~~~~~~~~i~V~TVd~fQG~E~DvVIlS~Vrs~~~gfL~d~rRLNVAlSRAr~gLiIVGn~~~l~~~~~~  160 (294)
                      |++++..+|..+|++|.|.+|+|||+|||+++|+||+|+|+++.+|+++|++|+.||+||||.||||+++.+++.+|.++
T Consensus      1173 irdii~rrc~~nPfig~pAkv~tvdk~qgqqndfiIlslv~tr~~gh~rdvrrlvva~srarlglyv~~r~~lf~~c~eL 1252 (1320)
T KOG1806|consen 1173 IRDIINRRCSHNPFIGQPAKVTTVDKFQGQQNDFIILSLVRTREVGHLRDVRRLVVAMSRARLGLYVLCRRSLFRSCREL 1252 (1320)
T ss_pred             HHHHHHHhccCCCccCCcccCCccccccccccceEEeeehhhhhhhhhccHHHHHHHHHHhhccchhHHHHHHHHHHHhc
Confidence            99999999999999999999999999999999999999999999999999999999999999999999999999999999


Q ss_pred             hHHHHHHHhcccccCcccCCCCCccccCCCCCCCceeecChhHHHHHHHHHHHHHHHHH
Q psy12660        161 TPAFNQLMIRPQQLHIVPHETFPTSRLNTSRVPNSVAIQDMVHMTTLVYNFYMDKVNGM  219 (294)
Q Consensus       161 ~~~~~~l~~~~~~l~l~~~e~~~~~r~~~~~~~~~~~i~~~~~~~~~v~~~~~~~~~~~  219 (294)
                      .+.|+.|.+++.++.+.+++.+|+.|.. ++..++++|+|+.||+++|++||+..+...
T Consensus      1253 tp~~~~l~k~p~~lll~~~ei~pt~r~~-~~~~~~~~I~nm~~m~~~v~e~~~~~~~t~ 1310 (1320)
T KOG1806|consen 1253 TPAFNELEKRPDKLLLTPGEIYPTSRKI-GSSVETFEIENLLHMANFVVEMYMKRLQTN 1310 (1320)
T ss_pred             cHHHHHHhhCcchhccccCcccccccCC-CcccccHHHHhHHHHHHHHHHHHHHHHHHH
Confidence            9999999999999999999999999976 666778999999999999999999998865

>KOG1802|consensus Back     alignment and domain information
>TIGR00376 DNA helicase, putative 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
>KOG1803|consensus Back     alignment and domain information
>KOG1807|consensus Back     alignment and domain information
>KOG1805|consensus Back     alignment and domain information
>COG1112 Superfamily I DNA and RNA helicases and helicase subunits [DNA replication, recombination, and repair] Back     alignment and domain information
>KOG1801|consensus Back     alignment and domain information
>KOG1804|consensus 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
>PRK11054 helD DNA helicase IV; 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
>TIGR01448 recD_rel helicase, putative, RecD/TraA family 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
>TIGR01447 recD exodeoxyribonuclease V, alpha subunit 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
>TIGR02768 TraA_Ti Ti-type conjugative transfer relaxase TraA Back     alignment and domain information
>PRK10875 recD exonuclease V subunit alpha; Provisional Back     alignment and domain information
>PRK10919 ATP-dependent DNA helicase Rep; 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
>COG3973 Superfamily I DNA and RNA helicases [General function prediction only] Back     alignment and domain information
>TIGR02785 addA_Gpos recombination helicase AddA, Firmicutes type Back     alignment and domain information
>TIGR01073 pcrA ATP-dependent DNA helicase PcrA Back     alignment and domain information
>TIGR01075 uvrD DNA helicase II Back     alignment and domain information
>PRK11773 uvrD DNA-dependent helicase II; Provisional Back     alignment and domain information
>PRK13909 putative recombination protein RecB; Provisional Back     alignment and domain information
>TIGR01074 rep ATP-dependent DNA helicase Rep 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
>PRK13826 Dtr system oriT relaxase; Provisional Back     alignment and domain information
>PRK10876 recB exonuclease V subunit beta; Provisional Back     alignment and domain information
>PRK13889 conjugal transfer relaxase TraA; Provisional Back     alignment and domain information
>PF09848 DUF2075: Uncharacterized conserved protein (DUF2075); InterPro: IPR018647 This domain, found in putative ATP/GTP binding proteins, has no known function Back     alignment and domain information
>COG0210 UvrD Superfamily I DNA and RNA helicases [DNA replication, recombination, and repair] Back     alignment and domain information
>PRK13709 conjugal transfer nickase/helicase TraI; Provisional Back     alignment and domain information
>COG3972 Superfamily I DNA and RNA helicases [General function prediction only] Back     alignment and domain information
>PRK14712 conjugal transfer nickase/helicase TraI; Provisional Back     alignment and domain information
>KOG1804|consensus Back     alignment and domain information

Homologous Structure Templates

Structure Templates Detected by BLAST ?

Original result of BLAST against Protein Data Bank

ID ?Alignment Graph ?Length ? Definition ? E-value ?
Query294
2xzl_A802 Upf1-Rna Complex Length = 802 5e-10
2gjk_A624 Structural And Functional Insights Into The Human U 2e-07
2xzo_A623 Upf1 Helicase - Rna Complex Length = 623 2e-07
2wjv_A800 Crystal Structure Of The Complex Between Human Nons 2e-07
4b3g_A646 Crystal Structure Of Ighmbp2 Helicase In Complex Wi 4e-06
4b3f_X646 Crystal Structure Of 1ghmbp2 Helicase Length = 646 4e-06
>pdb|2XZL|A Chain A, Upf1-Rna Complex Length = 802 Back     alignment and structure 
Iteration: 1

 Score = 61.6 bits (148), Expect = 5e-10,   Method: Compositional matrix adjust.
 Identities = 44/143 (30%), Positives = 70/143 (48%), Gaps = 9/143 (6%)
Query: 31  GVGESEPNPYFYQNLAEAEYCVALFMYMRLLGYPAHKITILSTYNGQKHLIRDVINTRCA 90
           G  E   N   + N  EA  C  +   +   G    +I +++ Y GQ+  I   +    +
Sbjct: 641 GREEISANGTSFLNRIEAMNCERIITKLFRDGVKPEQIGVITPYEGQRAYILQYMQMNGS 700
Query: 91  DNPLIGRPHKVTTVDKYQGQQNDYILLSLVRT---ASVGHLRDVRRLIVAMSRARLGLYV 147
            +  +    +V +VD +QG++ DYI+LS VR     ++G LRD RRL V ++RA+ GL +
Sbjct: 701 LDKDLYIKVEVASVDAFQGREKDYIILSCVRANEQQAIGFLRDPRRLNVGLTRAKYGLVI 760
Query: 148 FARV-SLFRNCFELTPAFNQLMI 169
                SL RN       +N L+I
Sbjct: 761 LGNPRSLARNTL-----WNHLLI 778
>pdb|2GJK|A Chain A, Structural And Functional Insights Into The Human Upf1 Helicase Core Length = 624 Back     alignment and structure
>pdb|2XZO|A Chain A, Upf1 Helicase - Rna Complex Length = 623 Back     alignment and structure
>pdb|2WJV|A Chain A, Crystal Structure Of The Complex Between Human Nonsense Mediated Decay Factors Upf1 And Upf2 Length = 800 Back     alignment and structure
>pdb|4B3G|A Chain A, Crystal Structure Of Ighmbp2 Helicase In Complex With Rna Length = 646 Back     alignment and structure
>pdb|4B3F|X Chain X, Crystal Structure Of 1ghmbp2 Helicase Length = 646 Back     alignment and structure

Structure Templates Detected by RPS-BLAST ?

Original result of RPS-BLAST against PDB70 database

ID ?Alignment Graph ?Length ? Definition ? E-value ?
Query294
2gk6_A624 Regulator of nonsense transcripts 1; UPF1, helicas 3e-24
2wjy_A800 Regulator of nonsense transcripts 1; nonsense medi 3e-22
2xzl_A802 ATP-dependent helicase NAM7; hydrolase-RNA complex 2e-21
>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 Length = 624 Back     alignment and structure
 Score =  101 bits (252), Expect = 3e-24
 Identities = 38/145 (26%), Positives = 66/145 (45%), Gaps = 13/145 (8%)

Query: 27  EDFNGVGESEPNPYFYQNLAEAEYCVALFMYMRLLGYPAHKITILSTYNGQKHLIRDVIN 86
           E+    G S      Y N  EA     +   +   G    +I I++ Y GQ+  +   + 
Sbjct: 465 EEIASSGTS------YLNRTEAANVEKITTKLLKAGAKPDQIGIITPYEGQRSYLVQYMQ 518

Query: 87  TRCADNPLIGRPHKVTTVDKYQGQQNDYILLSLVRT---ASVGHLRDVRRLIVAMSRARL 143
              + +  + +  ++ +VD +QG++ D+I+LS VR      +G L D RRL VA++RAR 
Sbjct: 519 FSGSLHTKLYQEVEIASVDAFQGREKDFIILSCVRANEHQGIGFLNDPRRLNVALTRARY 578

Query: 144 GLYVFARVSLFRNCFELTPAFNQLM 168
           G+ +              P +N L+
Sbjct: 579 GVIIVGNPKALSKQ----PLWNHLL 599
>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 Length = 800 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} Length = 802 Back     alignment and structure

Structure Templates Detected by HHsearch ?

Original result of HHsearch against PDB70 database

ID ?Alignment Graph ?Length ? Definition ? Probability ?
Query294
4b3f_X646 DNA-binding protein smubp-2; hydrolase, helicase; 99.97
2gk6_A624 Regulator of nonsense transcripts 1; UPF1, helicas 99.93
2xzl_A802 ATP-dependent helicase NAM7; hydrolase-RNA complex 99.93
2wjy_A800 Regulator of nonsense transcripts 1; nonsense medi 99.93
3dmn_A174 Putative DNA helicase; APC89291.2, lactobacillus p 99.25
3e1s_A574 Exodeoxyribonuclease V, subunit RECD; alpha and be 98.29
3upu_A459 ATP-dependent DNA helicase DDA; RECA-like domain, 97.56
1w36_D608 RECD, exodeoxyribonuclease V alpha chain; recombin 97.36
3lfu_A647 DNA helicase II; SF1 helicase, ATP-binding, DNA da 97.35
3vkw_A446 Replicase large subunit; alpha/beta domain, helica 97.05
1uaa_A673 REP helicase, protein (ATP-dependent DNA helicase 95.94
1pjr_A724 PCRA; DNA repair, DNA replication, SOS response, h 95.2
3u4q_A 1232 ATP-dependent helicase/nuclease subunit A; helicas 94.72
1w36_B 1180 RECB, exodeoxyribonuclease V beta chain; recombina 94.47
1w36_C 1122 RECC, exodeoxyribonuclease V gamma chain; recombin 86.42
>4b3f_X DNA-binding protein smubp-2; hydrolase, helicase; 2.50A {Homo sapiens} PDB: 4b3g_A Back     alignment and structure
Probab=99.97  E-value=4.4e-32  Score=275.67  Aligned_cols=147  Identities=25%  Similarity=0.310  Sum_probs=126.4

Q ss_pred             CCCceEEecCCCCCCccccCCCCcccCHHHHHHHHHHHHHHHHcCCCCCceEEEeccHHHHHHHHHHHHhhcCCCCCCCC
Q psy12660         18 VYDFQLINVEDFNGVGESEPNPYFYQNLAEAEYCVALFMYMRLLGYPAHKITILSTYNGQKHLIRDVINTRCADNPLIGR   97 (294)
Q Consensus        18 ~~~~q~Idv~~~~G~~e~~~~~~s~~N~~EA~~vv~lv~~L~~~g~~~~~IgIITpY~~Q~~lI~~~L~~~~~~~~~~~~   97 (294)
                      ..++.|+|+.+.......+..+.|+.|..||++|+.+++.|+..|+++++|||||||++|+.+|++.|....       .
T Consensus       483 ~~p~~f~d~~g~~~~~~~~~~~~s~~N~~EA~~V~~~v~~L~~~gv~~~dIgVItpYraQ~~~l~~~l~~~~-------~  555 (646)
T 4b3f_X          483 GVPLLLVDTAGCGLFELEEEDEQSKGNPGEVRLVSLHIQALVDAGVPARDIAVVSPYNLQVDLLRQSLVHRH-------P  555 (646)
T ss_dssp             TCSEEEEECTTSSCCCCC-----CCCCHHHHHHHHHHHHHHHHHTCCGGGEEEEESCHHHHHHHHHHHTTTC-------T
T ss_pred             CCceEEEecCCCccccccccCCccccCHHHHHHHHHHHHHHHhcCCCcCcEEEECCCHHHHHHHHHHHHHhC-------C
Confidence            447889999875444556667889999999999999999999999999999999999999999999997653       2


Q ss_pred             CceeccccCCCCCCCceEEEeeeecC---CCCCcCcchhhhhhcccccceeEEEechhhhhccccchHHHHHHHhccccc
Q psy12660         98 PHKVTTVDKYQGQQNDYILLSLVRTA---SVGHLRDVRRLIVAMSRARLGLYVFARVSLFRNCFELTPAFNQLMIRPQQL  174 (294)
Q Consensus        98 ~i~V~TVd~fQG~E~DvVIlS~Vrs~---~~gfL~d~rRLNVAlSRAr~gLiIVGn~~~l~~~~~~~~~~~~l~~~~~~l  174 (294)
                      .++|+|||+|||+|+|+||+|+||++   .+|||.|+||||||+||||.+||||||..+|++    .++|+.|++++...
T Consensus       556 ~i~v~TVd~fQG~E~dvII~S~vrsn~~~~iGFl~~~rRlNVAlTRAk~~liivGn~~~l~~----~~~~~~li~~~~~~  631 (646)
T 4b3f_X          556 ELEIKSVDGFQGREKEAVILSFVRSNRKGEVGFLAEDRRINVAVTRARRHVAVICDSRTVNN----HAFLKTLVEYFTQH  631 (646)
T ss_dssp             TCEEEEGGGGTTCCEEEEEEECCCCCTTCCCCSTTCHHHHHHHHHTEEEEEEEEECHHHHTT----SHHHHHHHHHHHHS
T ss_pred             CCEECChhhcccccCCEEEEEeccCCCCCCccccCCcCcEEeEhhhhhCeEEEEEchHHhcC----CHHHHHHHHHHHHC
Confidence            48999999999999999999999986   689999999999999999999999999999987    57888888777654


Q ss_pred             C
Q psy12660        175 H  175 (294)
Q Consensus       175 ~  175 (294)
                      .
T Consensus       632 g  632 (646)
T 4b3f_X          632 G  632 (646)
T ss_dssp             S
T ss_pred             C
Confidence            3
>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
>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
>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
>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
>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
>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
>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
>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
>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
>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 ?
Query294
d1w36d2246 Exodeoxyribonuclease V alpha chain (RecD) {Escheri 97.92
d1uaaa2333 DEXX box DNA helicase {Escherichia coli, RepD [Tax 97.31
d1w36b2395 Exodeoxyribonuclease V beta chain (RecB), N-termin 97.18
g1qhh.1623 DEXX box DNA helicase {Bacillus stearothermophilus 97.03
d1pjra2333 DEXX box DNA helicase {Bacillus stearothermophilus 96.59
d1w36c2470 Exodeoxyribonuclease V gamma chain (RecC), N-termi 94.39
d1pjra2333 DEXX box DNA helicase {Bacillus stearothermophilus 87.76
>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=97.92  E-value=3.3e-06  Score=73.79  Aligned_cols=53  Identities=26%  Similarity=0.256  Sum_probs=43.4

Q ss_pred             eccccCCCCCCCceEEEeeeecCCCCCcCcchhhhhhcccccceeEEEechhhhh
Q psy12660        101 VTTVDKYQGQQNDYILLSLVRTASVGHLRDVRRLIVAMSRARLGLYVFARVSLFR  155 (294)
Q Consensus       101 V~TVd~fQG~E~DvVIlS~Vrs~~~gfL~d~rRLNVAlSRAr~gLiIVGn~~~l~  155 (294)
                      ..|||+.||.|+|.||+-+...  ...+.+.+.+.||+||||..++|||+...|.
T Consensus       175 A~TiHkaQGse~~~v~~~l~~~--~~~~~~r~l~YtaiTRAk~~~~l~~~~~~l~  227 (246)
T d1w36d2         175 AMTVHKSQGSEFDHAALILPSQ--RTPVVTRELVYTAVTRARRRLSLYADERILS  227 (246)
T ss_dssp             EEETTTTTTCCBSEEEEECCSS--CCSSSCHHHHHHHHTTBSSCEEEECCTTHHH
T ss_pred             eccHHHhccCCCCcceeccCcc--cccccchhhHHHHHhhhhCeEEEEECHHHHH
Confidence            6799999999999999976432  2335567789999999999999999987654
>d1uaaa2 c.37.1.19 (A:308-640) DEXX box DNA helicase {Escherichia coli, RepD [TaxId: 562]} Back     information, alignment and structure
>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
>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
>d1pjra2 c.37.1.19 (A:319-651) DEXX box DNA helicase {Bacillus stearothermophilus, PcrA [TaxId: 1422]} Back     information, alignment and structure