Citrus Sinensis ID: 027721

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-------22
MASAPSKLYSDDVSLVVVLLDTNPFFWSSSSLSFSQFLTHVLAFLNAILTLNQLNQVVVIATGYNSCDYVYDSSSTGNQSVGNGRMPSLCATLLQNLEEFMNKDEQLGKQEPEGRIACSLLSGSLSMALCYIQRVFRSGLLHPQPRILCLQGSPDGPEQYVAIMNAIFSAQRSMVPIDSCYLGAQNSAFLQQCMSDRLLTLLVEYIISLNNWMGSFNIS
ccccccccccccccEEEEEEEcccHHHccccccHHHHHHHHHHHHHHHHHccccccEEEEEEccccEEEEEcccccccccccccccccHHHHHHHHHHHHHHHHHHcccccccccccccHHHHHHHHHHHHHHHHHHccccccccEEEEEEcccccHHHHHHHHHHHHHHHcccccEEEEEEccccHHHHHHHHHcccEEEEccccHHHHHHHHHHccc
ccccccccccccccEEEEEEEccHHHHHcccccHHHHHHHHHHHHHHHHHHcccccEEEEEEcccccEEEEcccccccccccccHHHHHHHHHHHHHHHHHHHHHHHcccccccccccHHHHHHHHHHHHHHHHHHHccccccccEEEEEEcccccHHHHHHHHHHHHHHHHccccEEEEEEcccccHHHHHHcccccEEEEcccHHHHHHHHHccccc
masapsklysddVSLVVVLLDtnpffwsssslsFSQFLTHVLAFLNAILTLNQLNQVVVIATGYNscdyvydssstgnqsvgngrmPSLCATLLQNLEEFMNkdeqlgkqepegriacSLLSGSLSMALCYIQRVfrsgllhpqprilclqgspdgpeQYVAIMNAIFSAqrsmvpidscylgaqnsAFLQQCMSDRLLTLLVEYIISLNNWMGSFNIS
masapsklysddVSLVVVLLDTNPFFWSSSSLSFSQFLTHVLAFLNAILTLNQLNQVVVIATGYNSCDYVYDSSSTGNQSVGNGRMPSLCATLLQNLEEFMNKDEQLGKQEPEGRIACSLLSGSLSMALCYIQRVFRSGLLHPQPRILCLQGSPDGPEQYVAIMNAIFSAQRSMVPIDSCYLGAQNSAFLQQCMSDRLLTLLVEYIISLnnwmgsfnis
MASAPSKLYsddvslvvvlldTNPffwsssslsfsqfLTHVLAFLNAILTLNQLNQVVVIATGYNSCDYVYDSSSTGNQSVGNGRMPSLCATLLQNLEEFMNKDEQLGKQEPEGRIACSLLSGSLSMALCYIQRVFRSGLLHPQPRILCLQGSPDGPEQYVAIMNAIFSAQRSMVPIDSCYLGAQNSAFLQQCMSDRLLTLLVEYIISLNNWMGSFNIS
********YSDDVSLVVVLLDTNPFFWSSSSLSFSQFLTHVLAFLNAILTLNQLNQVVVIATGYNSCDYVYD****************LCATLLQNL*****************RIACSLLSGSLSMALCYIQRVFRSGLLHPQPRILCLQGSPDGPEQYVAIMNAIFSAQRSMVPIDSCYLGAQNSAFLQQCMSDRLLTLLVEYIISLNNWMGSF***
************VSLVVVLLDTNPFFWSSSSLSFSQFLTHVLAFLNAILTLNQLNQVVVIATGYNSCDYV*********************TLLQNLEE**********************SGSLSMALCYIQ********************PDGPEQYVAIMNAIFSAQRSMVPIDSCYLGAQNSAFLQQCMSDRLLTLLVEYIISLNNWMGSFNIS
********YSDDVSLVVVLLDTNPFFWSSSSLSFSQFLTHVLAFLNAILTLNQLNQVVVIATGYNSCDYVYDSSSTGNQSVGNGRMPSLCATLLQNLEEFMNKDEQLGKQEPEGRIACSLLSGSLSMALCYIQRVFRSGLLHPQPRILCLQGSPDGPEQYVAIMNAIFSAQRSMVPIDSCYLGAQNSAFLQQCMSDRLLTLLVEYIISLNNWMGSFNIS
***********DVSLVVVLLDTNPFFWSSSSLSFSQFLTHVLAFLNAILTLNQLNQVVVIATGYNSCDYVYDSSSTGNQSVGNGRMPSLCATLLQNLEEFMNKDEQLG*******IACSLLSGSLSMALCYIQRVFRSGLLHPQPRILCLQGSPDGPEQYVAIMNAIFSAQRSMVPIDSCYLGAQNSAFLQQCMSDRLLTLLVEYIISLNNWMGSFN**
ooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
iiiiiiiiiiiiiiiiiiiiiiiiHHHHHHHHHHHHHHHHHHHHHHHHHoooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
iiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiihhhhhhhhhhhhhhhhhhhhoooooooooooooooooooooooooooooooooo
oooooooooooooooooooooooooooooooooooohhhhhhhhhhhhhhhhiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiii
ooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
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MASAPSKLYSDDVSLVVVLLDTNPFFWSSSSLSFSQFLTHVLAFLNAILTLNQLNQVVVIATGYNSCDYVYDSSSTGNQSVGNGRMPSLCATLLQNLEEFMNKDEQLGKQEPEGRIACSLLSGSLSMALCYIQRVFRSGLLHPQPRILCLQGSPDGPEQYVAIMNAIFSAQRSMVPIDSCYLGAQNSAFLQQCMSDRLLTLLVEYIISLNNWMGSFNIS
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 ?
Query219 2.2.26 [Sep-21-2011]
Q561R7309 General transcription fac yes no 0.812 0.576 0.271 5e-17
Q86IB5372 General transcription fac yes no 0.721 0.424 0.344 2e-16
Q8VD76309 General transcription fac yes no 0.812 0.576 0.271 3e-16
Q05B56309 General transcription fac yes no 0.826 0.585 0.294 3e-16
Q13889308 General transcription fac yes no 0.812 0.577 0.258 4e-15
Q6FWA7335 RNA polymerase II transcr yes no 0.826 0.540 0.338 2e-14
O74366297 RNA polymerase II transcr yes no 0.780 0.575 0.292 2e-13
Q12004338 RNA polymerase II transcr yes no 0.872 0.565 0.288 1e-12
Q75B93341 RNA polymerase II transcr yes no 0.849 0.545 0.303 2e-12
Q6BL86387 RNA polymerase II transcr yes no 0.794 0.449 0.255 2e-09
>sp|Q561R7|TF2H3_RAT General transcription factor IIH subunit 3 OS=Rattus norvegicus GN=Gtf2h3 PE=2 SV=1 Back     alignment and function desciption
 Score = 87.8 bits (216), Expect = 5e-17,   Method: Compositional matrix adjust.
 Identities = 57/210 (27%), Positives = 104/210 (49%), Gaps = 32/210 (15%)

Query: 10  SDDVSLVVVLLDTNPFFWSSSSLSFSQF-----LTHVLAFLNAILTLNQLNQVVVIATGY 64
            D+++L+V+++DTNP +W   +L  SQF     +  V+   NA L +N+ NQ+ VIA+  
Sbjct: 5   EDELNLLVIIVDTNPIWWGKQALKESQFTLSKCMDAVMVLANAHLFMNRSNQLAVIASHI 64

Query: 65  NSCDYVY-------------------DSSSTGNQSVGNGRMPSLCATLLQNLEEFMNKDE 105
               ++Y                   D + +G++      + +    + + +++ M K +
Sbjct: 65  QESRFLYPGKNGRLGDFFGDPGNALPDCNPSGSKDGKYELLTAANEVIAEEIKDLMTKSD 124

Query: 106 QLGKQEPEGRIACSLLSGSLSMALCYIQRVFRSGLLHPQ--PRILCLQGSPDGPEQYVAI 163
             G+         +LL+GSL+ ALCYI R  ++   + +   RIL ++ + D   QY+  
Sbjct: 125 IKGQHTE------TLLAGSLAKALCYIHRASKAVKDNQEMKSRILVIKAAEDSALQYMNF 178

Query: 164 MNAIFSAQRSMVPIDSCYLGAQNSAFLQQC 193
           MN IF+AQ+  + ID+C L + +    Q C
Sbjct: 179 MNVIFAAQKQNILIDACVLDSDSGLLQQAC 208
Component of the core-TFIIH basal transcription factor involved in nucleotide excision repair (NER) of DNA and, when complexed to CAK, in RNA transcription by RNA polymerase II. Anchors XPB.
Rattus norvegicus (taxid: 10116)
>sp|Q86IB5|TF2H3_DICDI General transcription factor IIH subunit 3 OS=Dictyostelium discoideum GN=gtf2h3 PE=3 SV=1 Back     alignment and function description
>sp|Q8VD76|TF2H3_MOUSE General transcription factor IIH subunit 3 OS=Mus musculus GN=Gtf2h3 PE=1 SV=1 Back     alignment and function description
>sp|Q05B56|TF2H3_BOVIN General transcription factor IIH subunit 3 OS=Bos taurus GN=GTF2H3 PE=2 SV=1 Back     alignment and function description
>sp|Q13889|TF2H3_HUMAN General transcription factor IIH subunit 3 OS=Homo sapiens GN=GTF2H3 PE=1 SV=2 Back     alignment and function description
>sp|Q6FWA7|TFB4_CANGA RNA polymerase II transcription factor B subunit 4 OS=Candida glabrata (strain ATCC 2001 / CBS 138 / JCM 3761 / NBRC 0622 / NRRL Y-65) GN=TFB4 PE=3 SV=1 Back     alignment and function description
>sp|O74366|TFB4_SCHPO RNA polymerase II transcription factor B subunit 4 OS=Schizosaccharomyces pombe (strain 972 / ATCC 24843) GN=tfb4 PE=1 SV=1 Back     alignment and function description
>sp|Q12004|TFB4_YEAST RNA polymerase II transcription factor B subunit 4 OS=Saccharomyces cerevisiae (strain ATCC 204508 / S288c) GN=TFB4 PE=1 SV=1 Back     alignment and function description
>sp|Q75B93|TFB4_ASHGO RNA polymerase II transcription factor B subunit 4 OS=Ashbya gossypii (strain ATCC 10895 / CBS 109.51 / FGSC 9923 / NRRL Y-1056) GN=TFB4 PE=3 SV=1 Back     alignment and function description
>sp|Q6BL86|TFB4_DEBHA RNA polymerase II transcription factor B subunit 4 OS=Debaryomyces hansenii (strain ATCC 36239 / CBS 767 / JCM 1990 / NBRC 0083 / IGC 2968) GN=TFB4 PE=3 SV=2 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 ?
Query219
255584434266 RNA polymerase II transcription factor B 0.876 0.721 0.787 1e-78
449470273295 PREDICTED: general transcription factor 0.876 0.650 0.776 4e-78
225459534297 PREDICTED: general transcription factor 0.876 0.646 0.761 2e-74
357461529 340 General transcription factor IIH subunit 0.867 0.558 0.712 1e-71
18394597301 transcription initiation factor TFIIH su 0.872 0.634 0.741 5e-70
297850232301 hypothetical protein ARALYDRAFT_472054 [ 0.872 0.634 0.741 9e-70
449527735187 PREDICTED: general transcription factor 0.808 0.946 0.768 1e-68
224084866289 predicted protein [Populus trichocarpa] 0.835 0.633 0.8 4e-68
356509424294 PREDICTED: general transcription factor 0.876 0.653 0.685 2e-64
363806998294 uncharacterized protein LOC100776751 [Gl 0.876 0.653 0.670 9e-63
>gi|255584434|ref|XP_002532948.1| RNA polymerase II transcription factor B subunit, putative [Ricinus communis] gi|223527277|gb|EEF29432.1| RNA polymerase II transcription factor B subunit, putative [Ricinus communis] Back     alignment and taxonomy information
 Score =  298 bits (762), Expect = 1e-78,   Method: Compositional matrix adjust.
 Identities = 152/193 (78%), Positives = 171/193 (88%), Gaps = 1/193 (0%)

Query: 1   MASAPSKLYSDDVSLVVVLLDTNPFFWSSSSLSFSQFLTHVLAFLNAILTLNQLNQVVVI 60
           MAS PSKLYSDDVSLV+VLLDTNPFFW++SSL FSQFL+HVLAFLN+IL LNQLNQVVVI
Sbjct: 1   MASVPSKLYSDDVSLVMVLLDTNPFFWTTSSLPFSQFLSHVLAFLNSILLLNQLNQVVVI 60

Query: 61  ATGYNSCDYVYDSSSTGNQSVGNGRMPSLCATLLQNLEEFMNKDEQLGK-QEPEGRIACS 119
           A GYNSCDY+YDSS   N S   GR+P+L + LLQ LE+FM +DE+LGK +E + +IA S
Sbjct: 61  ANGYNSCDYIYDSSLVMNHSSDEGRIPALYSDLLQKLEDFMIRDEKLGKGEESKRKIASS 120

Query: 120 LLSGSLSMALCYIQRVFRSGLLHPQPRILCLQGSPDGPEQYVAIMNAIFSAQRSMVPIDS 179
           LLSGSLSMALCYIQR+FRSG LHPQPRILCLQGSPDGPEQYVA+MN+IFSAQRSMVPIDS
Sbjct: 121 LLSGSLSMALCYIQRIFRSGPLHPQPRILCLQGSPDGPEQYVAVMNSIFSAQRSMVPIDS 180

Query: 180 CYLGAQNSAFLQQ 192
           CY+G  NSAFLQQ
Sbjct: 181 CYVGGHNSAFLQQ 193

Source: Ricinus communis

Species: Ricinus communis

Genus: Ricinus

Family: Euphorbiaceae

Order: Malpighiales

Class:

Phylum: Streptophyta

Superkingdom: Eukaryota
>gi|449470273|ref|XP_004152842.1| PREDICTED: general transcription factor IIH subunit 3-like [Cucumis sativus] Back     alignment and taxonomy information
>gi|225459534|ref|XP_002284465.1| PREDICTED: general transcription factor IIH subunit 3 [Vitis vinifera] gi|302141830|emb|CBI19033.3| unnamed protein product [Vitis vinifera] Back     alignment and taxonomy information
>gi|357461529|ref|XP_003601046.1| General transcription factor IIH subunit [Medicago truncatula] gi|355490094|gb|AES71297.1| General transcription factor IIH subunit [Medicago truncatula] Back     alignment and taxonomy information
>gi|18394597|ref|NP_564050.1| transcription initiation factor TFIIH subunit H3 [Arabidopsis thaliana] gi|21537277|gb|AAM61618.1| unknown [Arabidopsis thaliana] gi|92856638|gb|ABE77412.1| At1g18340 [Arabidopsis thaliana] gi|332191584|gb|AEE29705.1| transcription initiation factor TFIIH subunit H3 [Arabidopsis thaliana] Back     alignment and taxonomy information
>gi|297850232|ref|XP_002892997.1| hypothetical protein ARALYDRAFT_472054 [Arabidopsis lyrata subsp. lyrata] gi|297338839|gb|EFH69256.1| hypothetical protein ARALYDRAFT_472054 [Arabidopsis lyrata subsp. lyrata] Back     alignment and taxonomy information
>gi|449527735|ref|XP_004170865.1| PREDICTED: general transcription factor IIH subunit 3-like [Cucumis sativus] Back     alignment and taxonomy information
>gi|224084866|ref|XP_002307429.1| predicted protein [Populus trichocarpa] gi|222856878|gb|EEE94425.1| predicted protein [Populus trichocarpa] Back     alignment and taxonomy information
>gi|356509424|ref|XP_003523449.1| PREDICTED: general transcription factor IIH subunit 3-like [Glycine max] Back     alignment and taxonomy information
>gi|363806998|ref|NP_001242062.1| uncharacterized protein LOC100776751 [Glycine max] gi|255647869|gb|ACU24393.1| unknown [Glycine max] 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 ?
Query219
TAIR|locus:2014124301 AT1G18340 [Arabidopsis thalian 0.872 0.634 0.649 3.9e-60
DICTYBASE|DDB_G0275517372 gtf2h3 "general transcription 0.694 0.408 0.351 6.1e-18
ZFIN|ZDB-GENE-040718-302296 gtf2h3 "general transcription 0.789 0.584 0.291 4.8e-13
FB|FBgn0031309299 Tfb4 "Tfb4" [Drosophila melano 0.675 0.494 0.329 5.7e-11
RGD|1305494309 Gtf2h3 "general transcription 0.785 0.556 0.285 1.4e-10
MGI|MGI:1277143309 Gtf2h3 "general transcription 0.789 0.559 0.281 1.8e-10
UNIPROTKB|F5GX35200 GTF2H3 "General transcription 0.666 0.73 0.291 4.1e-10
UNIPROTKB|Q13889308 GTF2H3 "General transcription 0.789 0.561 0.272 4.9e-10
UNIPROTKB|B4DNZ6267 GTF2H3 "cDNA FLJ53013, highly 0.767 0.629 0.274 5.2e-10
UNIPROTKB|G3X6N2305 GTF2H3 "General transcription 0.789 0.567 0.281 6.1e-10
TAIR|locus:2014124 AT1G18340 [Arabidopsis thaliana (taxid:3702)] Back     alignment and assigned GO terms
 Score = 616 (221.9 bits), Expect = 3.9e-60, P = 3.9e-60
 Identities = 128/197 (64%), Positives = 144/197 (73%)

Query:     1 MASAPSKLYXXXXXXXXXXXXTNPXXXXXXXXXXXXXLTHVLAFLNAILTLNQLNQVVVI 60
             M +  SK Y            TNP             L+HVLAFLNA+L LNQLNQVVVI
Sbjct:     1 MPAIASKQYSDDVSLLVLLLDTNPLFWSTTSITFSQFLSHVLAFLNAVLGLNQLNQVVVI 60

Query:    61 ATGYNSCDYVYDSSSTGN----QSVGNGRMPSLCATLLQNLEEFMNKDEQLGKQE-PEGR 115
             ATGY+SCDY+YDSS T N    +S G G MP++  +LL+ LEEF+ KDE+L K+E  E R
Sbjct:    61 ATGYSSCDYIYDSSLTSNHGNFESNGTG-MPAIFGSLLKKLEEFVTKDEELSKEEVSEDR 119

Query:   116 IACSLLSGSLSMALCYIQRVFRSGLLHPQPRILCLQGSPDGPEQYVAIMNAIFSAQRSMV 175
             I   LLSGSLSMALCYIQRVFRSG LHPQPRILCLQGSPDGPEQYVA+MN+IFSAQR MV
Sbjct:   120 IPSCLLSGSLSMALCYIQRVFRSGHLHPQPRILCLQGSPDGPEQYVAVMNSIFSAQRLMV 179

Query:   176 PIDSCYLGAQNSAFLQQ 192
             PIDSCY+G QNSAFLQQ
Sbjct:   180 PIDSCYIGVQNSAFLQQ 196
GO:0000439 "core TFIIH complex" evidence=IEA
GO:0005634 "nucleus" evidence=ISM
GO:0006281 "DNA repair" evidence=IEA
GO:0006355 "regulation of transcription, DNA-dependent" evidence=IEA
GO:0000394 "RNA splicing, via endonucleolytic cleavage and ligation" evidence=RCA
GO:0006366 "transcription from RNA polymerase II promoter" evidence=RCA
DICTYBASE|DDB_G0275517 gtf2h3 "general transcription factor IIH, polypeptide 3" [Dictyostelium discoideum (taxid:44689)] Back     alignment and assigned GO terms
ZFIN|ZDB-GENE-040718-302 gtf2h3 "general transcription factor IIH, polypeptide 3" [Danio rerio (taxid:7955)] Back     alignment and assigned GO terms
FB|FBgn0031309 Tfb4 "Tfb4" [Drosophila melanogaster (taxid:7227)] Back     alignment and assigned GO terms
RGD|1305494 Gtf2h3 "general transcription factor IIH, polypeptide 3" [Rattus norvegicus (taxid:10116)] Back     alignment and assigned GO terms
MGI|MGI:1277143 Gtf2h3 "general transcription factor IIH, polypeptide 3" [Mus musculus (taxid:10090)] Back     alignment and assigned GO terms
UNIPROTKB|F5GX35 GTF2H3 "General transcription factor IIH subunit 3" [Homo sapiens (taxid:9606)] Back     alignment and assigned GO terms
UNIPROTKB|Q13889 GTF2H3 "General transcription factor IIH subunit 3" [Homo sapiens (taxid:9606)] Back     alignment and assigned GO terms
UNIPROTKB|B4DNZ6 GTF2H3 "cDNA FLJ53013, highly similar to TFIIH basal transcription factor complex p34 subunit" [Homo sapiens (taxid:9606)] Back     alignment and assigned GO terms
UNIPROTKB|G3X6N2 GTF2H3 "General transcription factor IIH subunit 3" [Bos taurus (taxid:9913)] 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 ?

No EC number assignment, probably not an enzyme!

Prediction of Functionally Associated Proteins

Functionally Associated Proteins Detected by STRING ?

Original result from the STRING server

Your Input:
AT1G18340
basal transcription factor complex subunit-related; basal transcription factor complex subunit-related; FUNCTIONS IN- general RNA polymerase II transcription factor activity; INVOLVED IN- DNA repair, regulation of transcription, DNA-dependent; LOCATED IN- core TFIIH complex; EXPRESSED IN- 17 plant structures; EXPRESSED DURING- 9 growth stages; CONTAINS InterPro DOMAIN/s- Transcription factor Tfb4 (InterPro-IPR004600); Has 258 Blast hits to 253 proteins in 126 species- Archae - 0; Bacteria - 0; Metazoa - 105; Fungi - 95; Plants - 19; Viruses - 0; Other Eukaryotes - 39 (source- NCBI BLink). (301 aa)
(Arabidopsis thaliana)
Predicted Functional Partners:
UVH6
UVH6 (ULTRAVIOLET HYPERSENSITIVE 6); ATP binding / ATP-dependent DNA helicase/ ATP-dependent he [...] (758 aa)
   •••• 0.998
AT4G17020
transcription factor-related; transcription factor-related; FUNCTIONS IN- RNA polymerase II tra [...] (462 aa)
    ••• 0.991
AT1G55750
transcription factor-related; transcription factor-related; LOCATED IN- cellular_component unkn [...] (591 aa)
     •• 0.981
GTF2H2
GTF2H2 (GENERAL TRANSCRIPTION FACTOR IIH 2); general RNA polymerase II transcription factor; Me [...] (421 aa)
   •••• 0.972
CYCH;1
CYCH;1 (CYCLIN H;1); cyclin-dependent protein kinase/ protein binding / protein kinase; core ce [...] (336 aa)
   •••• 0.970
SPT42
SPT42 (SPT4 HOMOLOG 2); positive transcription elongation factor/ zinc ion binding; SPT4 HOMOLO [...] (116 aa)
   • •  0.958
CAK4
CAK4 (CDK-ACTIVATING KINASE 4); kinase/ protein binding / protein serine/threonine kinase; CDK- [...] (348 aa)
     •• 0.954
TFIIA-S
transcription initiation factor IIA gamma chain / TFIIA-gamma (TFIIA-S); transcription initiati [...] (106 aa)
     •• 0.953
NRPB1
NRPB1 (RNA POLYMERASE II LARGE SUBUNIT); DNA binding / DNA-directed RNA polymerase; Encodes the [...] (1840 aa)
    ••  0.944
TAF13
TAF13 (TBP-ASSOCIATED FACTOR 13); DNA binding / RNA polymerase II transcription factor; TBP-ASS [...] (126 aa)
   • •  0.943

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 ?
Query219
pfam03850270 pfam03850, Tfb4, Transcription factor Tfb4 2e-61
TIGR00627279 TIGR00627, tfb4, transcription factor tfb4 6e-22
COG5242296 COG5242, TFB4, RNA polymerase II transcription ini 2e-21
>gnl|CDD|217761 pfam03850, Tfb4, Transcription factor Tfb4 Back     alignment and domain information 
 Score =  192 bits (490), Expect = 2e-61
 Identities = 79/190 (41%), Positives = 110/190 (57%), Gaps = 11/190 (5%)

Query: 13  VSLVVVLLDTNPFFWS--SSSLSFSQFLTHVLAFLNAILTLNQLNQVVVIATGYNSCDYV 70
            SL+VV+LDTNP  W+  +S L+ S+ L  +L FLNA L LN  NQV VIA+      Y+
Sbjct: 1   PSLLVVVLDTNPRSWATLASKLTLSKVLAALLVFLNAHLALNNSNQVAVIASHSQGAKYL 60

Query: 71  YDSSSTGNQSVGNGRMPSLCAT---LLQNLEEFMNKD-EQLGKQEPEGRIAC--SLLSGS 124
           Y S      + G+  M  +        +N+EE + ++  +L     +   A   S L+G+
Sbjct: 61  YPSP-LSASNDGDVEMSGVGDNKYRQFRNVEETVLEELRKLLSSTSKDEDATETSTLAGA 119

Query: 125 LSMALCYIQRVFRSG--LLHPQPRILCLQGSPDGPEQYVAIMNAIFSAQRSMVPIDSCYL 182
           LS+ALCYI RV R        + RIL L GSPD   QY+ IMN+IF+AQ+  +PID C L
Sbjct: 120 LSLALCYINRVSRLDTAGTSLKSRILVLSGSPDSASQYIPIMNSIFAAQKLKIPIDVCKL 179

Query: 183 GAQNSAFLQQ 192
           G ++S+FLQQ
Sbjct: 180 GGEDSSFLQQ 189

This family appears to be distantly related to the VWA domain. Length = 270
>gnl|CDD|233059 TIGR00627, tfb4, transcription factor tfb4 Back     alignment and domain information
>gnl|CDD|227567 COG5242, TFB4, RNA polymerase II transcription initiation/nucleotide excision repair factor TFIIH, subunit TFB4 [Transcription / 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 219
PF03850276 Tfb4: Transcription factor Tfb4; InterPro: IPR0046 100.0
TIGR00627279 tfb4 transcription factor tfb4. This family is bas 100.0
KOG2487314 consensus RNA polymerase II transcription initiati 100.0
COG5242296 TFB4 RNA polymerase II transcription initiation/nu 100.0
cd01452187 VWA_26S_proteasome_subunit 26S proteasome plays a 97.95
cd01453183 vWA_transcription_factor_IIH_type Transcription fa 97.83
cd01465170 vWA_subgroup VWA subgroup: Von Willebrand factor t 97.16
smart00327177 VWA von Willebrand factor (vWF) type A domain. VWA 96.87
cd01482164 vWA_collagen_alphaI-XII-like Collagen: The extrace 96.63
cd01480186 vWA_collagen_alpha_1-VI-type VWA_collagen alpha(VI 96.58
PF04056193 Ssl1: Ssl1-like; InterPro: IPR007198 Ssl1-like pro 96.48
cd01461171 vWA_interalpha_trypsin_inhibitor vWA_interalpha tr 96.16
cd00198161 vWFA Von Willebrand factor type A (vWA) domain was 96.05
PF13519172 VWA_2: von Willebrand factor type A domain; PDB: 3 96.04
cd01472164 vWA_collagen von Willebrand factor (vWF) type A do 95.98
PRK13685326 hypothetical protein; Provisional 95.95
cd01451178 vWA_Magnesium_chelatase Magnesium chelatase: Mg-ch 95.3
cd01467180 vWA_BatA_type VWA BatA type: Von Willebrand factor 95.15
cd01466155 vWA_C3HC4_type VWA C3HC4-type: Von Willebrand fact 95.0
cd01469177 vWA_integrins_alpha_subunit Integrins are a class 94.46
cd01458218 vWA_ku Ku70/Ku80 N-terminal domain. The Ku78 heter 94.32
PF13768155 VWA_3: von Willebrand factor type A domain 93.9
TIGR03436296 acidobact_VWFA VWFA-related Acidobacterial domain. 92.59
PRK13406584 bchD magnesium chelatase subunit D; Provisional 92.49
cd01476163 VWA_integrin_invertebrates VWA_integrin (invertebr 91.92
cd01475224 vWA_Matrilin VWA_Matrilin: In cartilaginous plate, 91.65
cd01450161 vWFA_subfamily_ECM Von Willebrand factor type A (v 91.32
cd01474185 vWA_ATR ATR (Anthrax Toxin Receptor): Anthrax toxi 91.03
PF03731224 Ku_N: Ku70/Ku80 N-terminal alpha/beta domain; Inte 90.24
cd01463190 vWA_VGCC_like VWA Voltage gated Calcium channel li 89.65
cd01462152 VWA_YIEM_type VWA YIEM type: Von Willebrand factor 88.71
cd01471186 vWA_micronemal_protein Micronemal proteins: The To 86.33
TIGR00868 863 hCaCC calcium-activated chloride channel protein 1 84.07
TIGR02031589 BchD-ChlD magnesium chelatase ATPase subunit D. Th 83.6
cd01464176 vWA_subfamily VWA subfamily: Von Willebrand factor 80.75
>PF03850 Tfb4: Transcription factor Tfb4; InterPro: IPR004600 Members of this family are part of the TFIIH complex which is involved in the initiation of transcription and nucleotide excision repair Back     alignment and domain information 
Probab=100.00  E-value=5.2e-64  Score=444.01  Aligned_cols=198  Identities=42%  Similarity=0.645  Sum_probs=171.3

Q ss_pred             CCeEEEEEeCCcccccc--CcccHHHHHHHHHHHHHHHHhcCCCCcEEEEEEcCCcceEEecCCCCCC---CC----C--
Q 027721           13 VSLVVVLLDTNPFFWSS--SSLSFSQFLTHVLAFLNAILTLNQLNQVVVIATGYNSCDYVYDSSSTGN---QS----V--   81 (219)
Q Consensus        13 ~slLviIlD~np~~W~~--~~~~l~~~l~~llvFlNahL~~~~~N~vaVia~~~~~~~~LYp~~~~~~---~~----~--   81 (219)
                      ||||+||||+||.+|+.  +.++|++++++++||+||||++++.|+|||||+|+++++||||++....   ..    .  
T Consensus         1 pSLLvIILD~nP~~W~~~~~~~~l~~~l~~llvFlNahL~l~~~N~vaVIAs~~~~s~~LYP~~~~~~~~~~~~~~~~~~   80 (276)
T PF03850_consen    1 PSLLVIILDTNPLAWGQLSDQLSLSQFLDSLLVFLNAHLALNHSNQVAVIASHSNSSKFLYPSPSSSESSNSGDVEMNSS   80 (276)
T ss_pred             CcEEEEEEECCHHHHhhccccccHHHHHHHHHHHHHHHHhhCccCCEEEEEEcCCccEEEeCCCccccccCCCccccccc
Confidence            79999999999999998  5699999999999999999999999999999999999999999988321   10    0  


Q ss_pred             --CCCCchhHH-HHHHHHHHHHHHhhhhcCCCCCCccccccchhhHHHHHHHHHhhhhccCC---CCCCceEEE-EecCC
Q 027721           82 --GNGRMPSLC-ATLLQNLEEFMNKDEQLGKQEPEGRIACSLLSGSLSMALCYIQRVFRSGL---LHPQPRILC-LQGSP  154 (219)
Q Consensus        82 --~~~~~~~~~-~~v~~~l~~li~~~~~~~~~~~~~~~~~s~LagALs~ALCyINR~~~~~~---~~~~~RILv-is~S~  154 (219)
                        +..+.+..+ +.|.++++++++++......     +.+++|+||||||||||||+.|+..   .++++|||| +++|+
T Consensus        81 ~~~~y~~f~~v~~~v~~~l~~l~~~~~~~~~~-----~~~s~LagALS~ALCyINR~~~~~~~~~~~~~~RILv~~s~s~  155 (276)
T PF03850_consen   81 DSNKYRQFRNVDETVLEELKKLMSETSESSDS-----TTSSLLAGALSMALCYINRISRESPSGGTSLKSRILVIVSGSP  155 (276)
T ss_pred             ccchhHHHHHHHHHHHHHHHHHHhhccccccc-----ccchhhHHHHHHHHHHHhhhhhcccCCCCCcCccEEEEEecCC
Confidence              011122223 45889999999986554432     2248999999999999999988764   589999999 99999


Q ss_pred             CCchhhhHHHHHHHHhhhCCceeeEeeeCCCCchhhhhh--------ccccchhHHHHHHHHhcCCCCC
Q 027721          155 DGPEQYVAIMNAIFSAQRSMVPIDSCYLGAQNSAFLQQC--------MSDRLLTLLVEYIISLNNWMGS  215 (219)
Q Consensus       155 d~~~QYi~lMN~iFaAqK~~V~IDvc~L~~~~s~fLQQA--------~~~~~~~gLlQyLl~~~~~~~~  215 (219)
                      |.++||||+|||||||||++|+||||+|+.++++|||||        +++++++||+|||||.|+++++
T Consensus       156 d~~~QYi~~MN~iFaAqk~~v~IDv~~L~~~~s~fLqQa~d~T~G~y~~~~~~~~l~q~L~~~fl~~~~  224 (276)
T PF03850_consen  156 DSSSQYIPLMNCIFAAQKQKVPIDVCKLGGKDSTFLQQASDITGGIYLKVSKPEGLLQYLLTAFLPDPS  224 (276)
T ss_pred             CccHHHHHHHHHHHHHhcCCceeEEEEecCCchHHHHHHHHHhCceeeccCccccHHHHHHHhhcCCHH
Confidence            999999999999999999999999999987799999999        9999999999999999999864

The core-TFIIH basal transcription factor complex has six subunits, this is the p34 subunit.; GO: 0006281 DNA repair, 0006355 regulation of transcription, DNA-dependent, 0000439 core TFIIH complex
>TIGR00627 tfb4 transcription factor tfb4 Back     alignment and domain information
>KOG2487 consensus RNA polymerase II transcription initiation/nucleotide excision repair factor TFIIH, subunit TFB4 [Transcription; Replication, recombination and repair] Back     alignment and domain information
>COG5242 TFB4 RNA polymerase II transcription initiation/nucleotide excision repair factor TFIIH, subunit TFB4 [Transcription / DNA replication, recombination, and repair] Back     alignment and domain information
>cd01452 VWA_26S_proteasome_subunit 26S proteasome plays a major role in eukaryotic protein breakdown, especially for ubiquitin-tagged proteins Back     alignment and domain information
>cd01453 vWA_transcription_factor_IIH_type Transcription factors IIH type: TFIIH is a multiprotein complex that is one of the five general transcription factors that binds RNA polymerase II holoenzyme Back     alignment and domain information
>cd01465 vWA_subgroup VWA subgroup: Von Willebrand factor type A (vWA) domain was originally found in the blood coagulation protein von Willebrand factor (vWF) Back     alignment and domain information
>smart00327 VWA von Willebrand factor (vWF) type A domain Back     alignment and domain information
>cd01482 vWA_collagen_alphaI-XII-like Collagen: The extracellular matrix represents a complex alloy of variable members of diverse protein families defining structural integrity and various physiological functions Back     alignment and domain information
>cd01480 vWA_collagen_alpha_1-VI-type VWA_collagen alpha(VI) type: The extracellular matrix represents a complex alloy of variable members of diverse protein families defining structural integrity and various physiological functions Back     alignment and domain information
>PF04056 Ssl1: Ssl1-like; InterPro: IPR007198 Ssl1-like proteins are 40 kDa subunits of the transcription factor II H complex Back     alignment and domain information
>cd01461 vWA_interalpha_trypsin_inhibitor vWA_interalpha trypsin inhibitor (ITI): ITI is a glycoprotein composed of three polypeptides- two heavy chains and one light chain (bikunin) Back     alignment and domain information
>cd00198 vWFA Von Willebrand factor type A (vWA) domain was originally found in the blood coagulation protein von Willebrand factor (vWF) Back     alignment and domain information
>PF13519 VWA_2: von Willebrand factor type A domain; PDB: 3IBS_B 3RAG_B 2X5N_A Back     alignment and domain information
>cd01472 vWA_collagen von Willebrand factor (vWF) type A domain; equivalent to the I-domain of integrins Back     alignment and domain information
>PRK13685 hypothetical protein; Provisional Back     alignment and domain information
>cd01451 vWA_Magnesium_chelatase Magnesium chelatase: Mg-chelatase catalyses the insertion of Mg into protoporphyrin IX (Proto) Back     alignment and domain information
>cd01467 vWA_BatA_type VWA BatA type: Von Willebrand factor type A (vWA) domain was originally found in the blood coagulation protein von Willebrand factor (vWF) Back     alignment and domain information
>cd01466 vWA_C3HC4_type VWA C3HC4-type: Von Willebrand factor type A (vWA) domain was originally found in the blood coagulation protein von Willebrand factor (vWF) Back     alignment and domain information
>cd01469 vWA_integrins_alpha_subunit Integrins are a class of adhesion receptors that link the extracellular matrix to the cytoskeleton and cooperate with growth factor receptors to promote celll survival, cell cycle progression and cell migration Back     alignment and domain information
>cd01458 vWA_ku Ku70/Ku80 N-terminal domain Back     alignment and domain information
>PF13768 VWA_3: von Willebrand factor type A domain Back     alignment and domain information
>TIGR03436 acidobact_VWFA VWFA-related Acidobacterial domain Back     alignment and domain information
>PRK13406 bchD magnesium chelatase subunit D; Provisional Back     alignment and domain information
>cd01476 VWA_integrin_invertebrates VWA_integrin (invertebrates): Integrins are a family of cell surface receptors that have diverse functions in cell-cell and cell-extracellular matrix interactions Back     alignment and domain information
>cd01475 vWA_Matrilin VWA_Matrilin: In cartilaginous plate, extracellular matrix molecules mediate cell-matrix and matrix-matrix interactions thereby providing tissue integrity Back     alignment and domain information
>cd01450 vWFA_subfamily_ECM Von Willebrand factor type A (vWA) domain was originally found in the blood coagulation protein von Willebrand factor (vWF) Back     alignment and domain information
>cd01474 vWA_ATR ATR (Anthrax Toxin Receptor): Anthrax toxin is a key virulence factor for Bacillus anthracis, the causative agent of anthrax Back     alignment and domain information
>PF03731 Ku_N: Ku70/Ku80 N-terminal alpha/beta domain; InterPro: IPR005161 The Ku heterodimer (composed of Ku70 P12956 from SWISSPROT and Ku80 P13010 from SWISSPROT) contributes to genomic integrity through its ability to bind DNA double-strand breaks and facilitate repair by the non-homologous end-joining pathway Back     alignment and domain information
>cd01463 vWA_VGCC_like VWA Voltage gated Calcium channel like: Voltage-gated calcium channels are a complex of five proteins: alpha 1, beta 1, gamma, alpha 2 and delta Back     alignment and domain information
>cd01462 VWA_YIEM_type VWA YIEM type: Von Willebrand factor type A (vWA) domain was originally found in the blood coagulation protein von Willebrand factor (vWF) Back     alignment and domain information
>cd01471 vWA_micronemal_protein Micronemal proteins: The Toxoplasma lytic cycle begins when the parasite actively invades a target cell Back     alignment and domain information
>TIGR00868 hCaCC calcium-activated chloride channel protein 1 Back     alignment and domain information
>TIGR02031 BchD-ChlD magnesium chelatase ATPase subunit D Back     alignment and domain information
>cd01464 vWA_subfamily VWA subfamily: Von Willebrand factor type A (vWA) domain was originally found in the blood coagulation protein von Willebrand factor (vWF) Back     alignment and domain information

Homologous Structure Templates

Structure Templates Detected by BLAST ?

Original result of BLAST against Protein Data Bank

No homologous structure with e-value below 0.005

Structure Templates Detected by RPS-BLAST ?

Original result of RPS-BLAST against PDB70 database

No hit with e-value below 0.005

Structure Templates Detected by HHsearch ?

Original result of HHsearch against PDB70 database

ID ?Alignment Graph ?Length ? Definition ? Probability ?
Query219
2x5n_A192 SPRPN10, 26S proteasome regulatory subunit RPN10; 97.76
4b4t_W268 RPN10, 26S proteasome regulatory subunit RPN10; hy 97.75
3n2n_F185 Anthrax toxin receptor 1; rossmann fold; 1.80A {Ho 97.02
1shu_X182 Anthrax toxin receptor 2; alpha/beta rossmann fold 96.97
3ibs_A218 Conserved hypothetical protein BATB; structural ge 96.79
1atz_A189 VON willebrand factor; collagen-binding, hemostasi 96.5
1ijb_A202 VON willebrand factor; dinucleotide-binding fold, 95.74
2xgg_A178 Microneme protein 2; A/I domain, cell adhesion, hy 95.65
4fx5_A 464 VON willebrand factor type A; structural genomics, 95.48
1q0p_A223 Complement factor B; VON willebrand factor, MAC-1, 94.93
4hqf_A281 Thrombospondin-related anonymous protein, trap; ma 94.16
2b2x_A223 Integrin alpha-1; computational design, antibody-a 93.79
2odp_A 509 Complement C2; C3/C5 convertase, complement serin 93.13
4hqo_A266 Sporozoite surface protein 2; malaria, gliding mot 92.94
3hrz_D 741 Complement factor B; serine protease, glycosilated 92.57
3zqk_A199 VON willebrand factor; blood clotting, adamts-13, 92.26
1pt6_A213 Integrin alpha-1; cell adhesion; 1.87A {Homo sapie 92.23
1n3y_A198 Integrin alpha-X; alpha/beta rossmann fold, cell a 91.95
1mf7_A194 Integrin alpha M; cell adhesion; 1.25A {Homo sapie 91.62
1rrk_A 497 Complement factor B; BB, hydrolase; 2.00A {Homo sa 90.63
1jey_A 609 KU70; double-strand DNA break repair, non-homologo 88.35
1v7p_C200 Integrin alpha-2; snake venom, C-type lectin, anta 88.25
1jey_B 565 KU80; double-strand DNA break repair, non-homologo 84.96
2x31_A189 Magnesium-chelatase 60 kDa subunit; ligase, bacter 84.46
1mjn_A179 Integrin alpha-L; rossmann fold, immune system; 1. 81.49
>2x5n_A SPRPN10, 26S proteasome regulatory subunit RPN10; nuclear protein, nucleus, ubiquitin; 1.30A {Schizosaccharomyces pombe} Back     alignment and structure
Probab=97.76  E-value=0.0012  Score=54.25  Aligned_cols=149  Identities=17%  Similarity=0.162  Sum_probs=100.8

Q ss_pred             CeEEEEEeCCcccccc--CcccHHHHHHHHHHHHHHHHhcCCCCcEEEEEEcCCcceEEecCCCCCCCCCCCCCchhHHH
Q 027721           14 SLVVVLLDTNPFFWSS--SSLSFSQFLTHVLAFLNAILTLNQLNQVVVIATGYNSCDYVYDSSSTGNQSVGNGRMPSLCA   91 (219)
Q Consensus        14 slLviIlD~np~~W~~--~~~~l~~~l~~llvFlNahL~~~~~N~vaVia~~~~~~~~LYp~~~~~~~~~~~~~~~~~~~   91 (219)
                      .-++++||++..=-..  .+--|......+..|+++++..+...++.+|+.....++.+-|....               
T Consensus         3 e~lvlvlD~S~SM~~~D~~psRl~~ak~~~~~~~~~~~~~~~~d~vGLV~fa~~~a~~~~plT~d---------------   67 (192)
T 2x5n_A            3 EATMILIDNSEWMINGDYIPTRFEAQKDTVHMIFNQKINDNPENMCGLMTIGDNSPQVLSTLTRD---------------   67 (192)
T ss_dssp             EEEEEEECCSGGGGCTTSSSCHHHHHHHHHHHHHHHHHHHCTTCEEEEEECCTTSCCEEEEEESC---------------
T ss_pred             eEEEEEEECCHhhccCCCCCCHHHHHHHHHHHHHHHHHhcCCCCeEEEEEEcCCCcEEecCCCCC---------------
Confidence            3589999998765544  23347778888899999999999999999999977667767554322               


Q ss_pred             HHHHHHHHHHHhhhhcCCCCCCccccccchhhHHHHHHHHHhhhhccCCCCCCceEEEEecCCCCchhhhHHHHHHHHhh
Q 027721           92 TLLQNLEEFMNKDEQLGKQEPEGRIACSLLSGSLSMALCYIQRVFRSGLLHPQPRILCLQGSPDGPEQYVAIMNAIFSAQ  171 (219)
Q Consensus        92 ~v~~~l~~li~~~~~~~~~~~~~~~~~s~LagALs~ALCyINR~~~~~~~~~~~RILvis~S~d~~~QYi~lMN~iFaAq  171 (219)
                        .+.+.+++.+-.   .      ...+.+..||.+|.-.+.+..   ...-+.||+|+..++... .--.+...+-.++
T Consensus        68 --~~~i~~~L~~l~---~------~g~t~l~~aL~~A~~~l~~~~---~~~~~~riiil~~~~~~~-~~~~~~~~a~~lk  132 (192)
T 2x5n_A           68 --YGKFLSAMHDLP---V------RGNAKFGDGIQIAQLALKHRE---NKIQRQRIVAFVGSPIVE-DEKNLIRLAKRMK  132 (192)
T ss_dssp             --HHHHHHHHTTCC---C------CSCCCHHHHHHHHHHHHHTCS---CTTSEEEEEEEECSCCSS-CHHHHHHHHHHHH
T ss_pred             --HHHHHHHHHcCC---C------CCCchHHHHHHHHHHHHHhcc---ccCCCceEEEEEECCCCC-CchhHHHHHHHHH
Confidence              344555555411   1      125678888988875554421   123466887777654321 1234567788889


Q ss_pred             hCCceeeEeeeCCCC--chhhhhh
Q 027721          172 RSMVPIDSCYLGAQN--SAFLQQC  193 (219)
Q Consensus       172 K~~V~IDvc~L~~~~--s~fLQQA  193 (219)
                      |.+|.|++..+|.++  .. ||+-
T Consensus       133 ~~gi~v~~Ig~G~~~~~~~-l~~l  155 (192)
T 2x5n_A          133 KNNVAIDIIHIGELQNESA-LQHF  155 (192)
T ss_dssp             HTTEEEEEEEESCC---CH-HHHH
T ss_pred             HCCCEEEEEEeCCCCccHH-HHHH
Confidence            999999999998642  24 7764
>4b4t_W RPN10, 26S proteasome regulatory subunit RPN10; hydrolase, AAA-atpases, protein degradation, ubiquitin-prote pathway; 7.40A {Saccharomyces cerevisiae} Back     alignment and structure
>3n2n_F Anthrax toxin receptor 1; rossmann fold; 1.80A {Homo sapiens} SCOP: c.62.1.1 Back     alignment and structure
>1shu_X Anthrax toxin receptor 2; alpha/beta rossmann fold, membrane protein; 1.50A {Homo sapiens} SCOP: c.62.1.1 PDB: 1tzn_a 1sht_X 1t6b_Y* Back     alignment and structure
>3ibs_A Conserved hypothetical protein BATB; structural genomics, protein structure, midwest center for S genomics, MCSG, PSI-2; HET: MSE; 2.10A {Bacteroides thetaiotaomicron} Back     alignment and structure
>1atz_A VON willebrand factor; collagen-binding, hemostasis, dinucleotide binding fold; 1.80A {Homo sapiens} SCOP: c.62.1.1 PDB: 4dmu_B 2adf_A 1fe8_A 1ao3_A Back     alignment and structure
>1ijb_A VON willebrand factor; dinucleotide-binding fold, blood clotting; 1.80A {Homo sapiens} SCOP: c.62.1.1 PDB: 1ijk_A 1auq_A 1u0n_A 3hxo_A 1uex_C 3hxq_A 1sq0_A 1m10_A 1fns_A 1oak_A 1u0o_C Back     alignment and structure
>2xgg_A Microneme protein 2; A/I domain, cell adhesion, hydrolase; 2.05A {Toxoplasma gondii} Back     alignment and structure
>4fx5_A VON willebrand factor type A; structural genomics, PSI-biology, midwest center for structu genomics, MCSG, blood clotting; HET: MSE; 1.73A {Catenulispora acidiphila} Back     alignment and structure
>1q0p_A Complement factor B; VON willebrand factor, MAC-1, I domain, A domain, hydrolase; 1.80A {Homo sapiens} SCOP: c.62.1.1 Back     alignment and structure
>4hqf_A Thrombospondin-related anonymous protein, trap; malaria, parasite motility, I domain, TSR domain, receptor O sporozoite, vaccine target; 2.20A {Plasmodium falciparum} PDB: 4hqk_A 2bbx_A Back     alignment and structure
>2b2x_A Integrin alpha-1; computational design, antibody-antigen complex, immune syste; 2.20A {Rattus norvegicus} SCOP: c.62.1.1 Back     alignment and structure
>2odp_A Complement C2; C3/C5 convertase, complement serin protease, human complement system, glycoprotein, SP, VWFA,; HET: NAG; 1.90A {Homo sapiens} PDB: 2odq_A* 2i6q_A* 2i6s_A* Back     alignment and structure
>4hqo_A Sporozoite surface protein 2; malaria, gliding motility, VWA domain, TSR domain, extensibl ribbon, receptor on sporozoite, vaccine target; HET: FUC BGC; 2.19A {Plasmodium vivax} PDB: 4hql_A* 4hqn_A* Back     alignment and structure
>3hrz_D Complement factor B; serine protease, glycosilated, multi-domain, complement SYST convertase, complement alternate pathway; HET: NAG P6G; 2.20A {Homo sapiens} PDB: 2xwj_I* 3hs0_D* 2ok5_A* 2xwb_F* Back     alignment and structure
>3zqk_A VON willebrand factor; blood clotting, adamts-13, force sensor, VON willebrand DISE domain, haemostasis; HET: NAG; 1.70A {Homo sapiens} PDB: 3ppv_A 3ppx_A 3ppw_A 3ppy_A 3gxb_A* Back     alignment and structure
>1pt6_A Integrin alpha-1; cell adhesion; 1.87A {Homo sapiens} SCOP: c.62.1.1 PDB: 4a0q_A 1qcy_A 1qc5_A 1qc5_B 1ck4_A 1mhp_A Back     alignment and structure
>1n3y_A Integrin alpha-X; alpha/beta rossmann fold, cell adhesion; 1.65A {Homo sapiens} SCOP: c.62.1.1 Back     alignment and structure
>1mf7_A Integrin alpha M; cell adhesion; 1.25A {Homo sapiens} SCOP: c.62.1.1 PDB: 1na5_A 1jlm_A 1ido_A 1m1u_A 3q3g_G 1n9z_A 1bhq_1 1bho_1 1idn_1 3qa3_G Back     alignment and structure
>1rrk_A Complement factor B; BB, hydrolase; 2.00A {Homo sapiens} SCOP: b.47.1.2 c.62.1.1 PDB: 1rs0_A* 1rtk_A* 2win_I* 1dle_A Back     alignment and structure
>1jey_A KU70; double-strand DNA break repair, non-homologous END-joining, protein/nucleic acid complex, alpha/beta domain, beta barrel; HET: DNA; 2.50A {Homo sapiens} SCOP: b.131.1.1 c.62.1.3 PDB: 1jeq_A* 3rzx_B Back     alignment and structure
>1v7p_C Integrin alpha-2; snake venom, C-type lectin, antagonist, cell adhes glycoprotein, toxin-cell adhesion complex; HET: NAG; 1.90A {Homo sapiens} SCOP: c.62.1.1 PDB: 1aox_A 1dzi_A Back     alignment and structure
>1jey_B KU80; double-strand DNA break repair, non-homologous END-joining, protein/nucleic acid complex, alpha/beta domain, beta barrel; HET: DNA; 2.50A {Homo sapiens} SCOP: b.131.1.2 c.62.1.4 PDB: 1jeq_B* Back     alignment and structure
>2x31_A Magnesium-chelatase 60 kDa subunit; ligase, bacteriochlorophyll biosynthesis, photosynthesis; 7.50A {Rhodobacter capsulatus} Back     alignment and structure
>1mjn_A Integrin alpha-L; rossmann fold, immune system; 1.30A {Homo sapiens} SCOP: c.62.1.1 PDB: 3hi6_A 1mq8_B* 3eoa_I 3eob_I 1rd4_A* 1lfa_A 1zon_A 1zoo_A 1zop_A 1dgq_A 1xdd_A* 1xdg_A* 1xuo_A* 3e2m_A* 3bqn_B* 1cqp_A* 3bqm_B* 2ica_A* 2o7n_A* 3m6f_A* ... Back     alignment and structure

Homologous Structure Domains

Structure Domains Detected by RPS-BLAST ?

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

No hit with e-value below 0.005

Homologous Domains Detected by HHsearch ?

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

ID ?Alignment Graph ?Length ? Definition ? Probability ?
Query219
d1jeyb2236 Ku80 subunit N-terminal domain {Human (Homo sapien 97.01
d1shux_181 Capillary morphogenesis protein 2 domain {Human (H 95.05
d1atza_184 von Willebrand factor A3 domain, vWA3 {Human (Homo 94.9
d1jeya2220 Ku70 subunit N-terminal domain {Human (Homo sapien 94.28
d1ijba_202 von Willebrand factor A1 domain, vWA1 {Human (Homo 89.35
>d1jeyb2 c.62.1.4 (B:6-241) Ku80 subunit N-terminal domain {Human (Homo sapiens) [TaxId: 9606]} Back     information, alignment and structure
class: Alpha and beta proteins (a/b)
fold: vWA-like
superfamily: vWA-like
family: Ku80 subunit N-terminal domain
domain: Ku80 subunit N-terminal domain
species: Human (Homo sapiens) [TaxId: 9606]

Probab=97.01  E-value=0.029  Score=43.65  Aligned_cols=157  Identities=13%  Similarity=0.051  Sum_probs=92.4

Q ss_pred             CeEEEEEeCCcccccc---CcccHHHHHHHHHHHHHHHHhcCCCCcEEEEEEcCCcceEEecCCCCCCCCCCCCCchhHH
Q 027721           14 SLVVVLLDTNPFFWSS---SSLSFSQFLTHVLAFLNAILTLNQLNQVVVIATGYNSCDYVYDSSSTGNQSVGNGRMPSLC   90 (219)
Q Consensus        14 slLviIlD~np~~W~~---~~~~l~~~l~~llvFlNahL~~~~~N~vaVia~~~~~~~~LYp~~~~~~~~~~~~~~~~~~   90 (219)
                      .-++++||++..=...   .+-.|+.+.+.+-.|+..-...+...+|.+|..+........+.....   ....-.....
T Consensus         3 ~aiv~~lD~S~SM~~~~~~~~srl~~ak~~~~~~v~~~~~~~~~d~vglV~f~~~~t~~~~~~~~~~---~~i~~~~~~~   79 (236)
T d1jeyb2           3 AAVVLCMDVGFTMSNSIPGIESPFEQAKKVITMFVQRQVFAENKDEIALVLFGTDGTDNPLSGGDQY---QNITVHRHLM   79 (236)
T ss_dssp             EEEEEEEECCGGGGCCBTTBCCHHHHHHHHHHHHHHHHHHTTCCCEEEEEEESCSSCBSTTCTTTCS---TTEEEEEEEE
T ss_pred             ceEEEEEECChhhccCCCCCCCHHHHHHHHHHHHHHHHhcCCCCCeEEEEEEcCCCccccccccccc---ceEEEEeccc
Confidence            4589999998776654   234589999999999999999999999999999766432111100000   0000000000


Q ss_pred             HHHHHHHHHHHHhhhhcCCCCCCccccccchhhHHHHHHHHHhhhhccCCCCCCceEEEEecCCCCchhhhHHHHHHHHh
Q 027721           91 ATLLQNLEEFMNKDEQLGKQEPEGRIACSLLSGSLSMALCYIQRVFRSGLLHPQPRILCLQGSPDGPEQYVAIMNAIFSA  170 (219)
Q Consensus        91 ~~v~~~l~~li~~~~~~~~~~~~~~~~~s~LagALs~ALCyINR~~~~~~~~~~~RILvis~S~d~~~QYi~lMN~iFaA  170 (219)
                      ..-.+.+..+.... ...       ...+.+..||-.|+....+..+. ....+.||+++|-..+..+ .-.+--++=.+
T Consensus        80 ~~~~~~~~~~~~~~-~~~-------~~~~~~~~al~~a~~~~~~~~~~-~~~~~r~IiL~TDG~~~~~-~~~~~~~a~~l  149 (236)
T d1jeyb2          80 LPDFDLLEDIESKI-QPG-------SQQADFLDALIVSMDVIQHETIG-KKFEKRHIEIFTDLSSRFS-KSQLDIIIHSL  149 (236)
T ss_dssp             CCCHHHHHHHHTTC-CCC-------SSCCCHHHHHHHHHHHHHHHSSS-SCCSEEEEEEECCCCSCCC-CTTHHHHHHHH
T ss_pred             cchhhHHHHHhhhc-ccc-------ccccchhHHHHHHHHHHHHhhhc-ccccccEEEEEecCCCCcC-hHHHHHHHHHH
Confidence            00012222222111 111       13456788999999988876543 1234567888886544211 11223445667


Q ss_pred             hhCCceeeEeeeC
Q 027721          171 QRSMVPIDSCYLG  183 (219)
Q Consensus       171 qK~~V~IDvc~L~  183 (219)
                      ++++|.|++..+|
T Consensus       150 ~~~~I~i~~ig~g  162 (236)
T d1jeyb2         150 KKCDISLQFFLPF  162 (236)
T ss_dssp             HHTTEEEEEEESS
T ss_pred             HHcCCEEEEEecC
Confidence            8999999999986
>d1shux_ c.62.1.1 (X:) Capillary morphogenesis protein 2 domain {Human (Homo sapiens) [TaxId: 9606]} Back     information, alignment and structure
>d1atza_ c.62.1.1 (A:) von Willebrand factor A3 domain, vWA3 {Human (Homo sapiens) [TaxId: 9606]} Back     information, alignment and structure
>d1jeya2 c.62.1.3 (A:34-253) Ku70 subunit N-terminal domain {Human (Homo sapiens) [TaxId: 9606]} Back     information, alignment and structure
>d1ijba_ c.62.1.1 (A:) von Willebrand factor A1 domain, vWA1 {Human (Homo sapiens) [TaxId: 9606]} Back     information, alignment and structure