Citrus Sinensis ID: 030537

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-----
MAHFQAPPSMGWQGLPGIPTAPVVKRVIRLDVPVDKYPNQFNFVGRILGPRGNSLKRVEAMTECTVFIRGQSSVKDSLKEGKIRYEHLNEPLHVLGEAEFPEDIINSRLDHAVAILENLLKPVDESLDHYKKQQLREFATLNGTLREESPSMSPSMSPSMWPFNSAGMKRAKTRR
cccccccccccccccccccccccEEEEEEEEcccccccccccEEEEEEcccccHHHHHHHHHccEEEEEcccccccccccccccccccccccEEEEEEcccHHHHHHHHHHHHHHHHHHcccccHHHHHHHHHHHHHHHHHcccccccccccccccccccccccccccccccccc
cccccccccccccccccccccccEEEEEEEEEEcccccccccEEEEEccccccHHHHHHHHcccEEEEEEcccccccccccccccHHcccccEEEEEEEccHHHHHHHHHHHHHHHHHHccccccccHHHHHHHHHHHHHHcccccccccccccccccccccccccccccccccc
mahfqappsmgwqglpgiptapvvkrvirldvpvdkypnqfnfvgrilgprgnsLKRVEAMTECTVFIRGQSSVKDSLKEGKIryehlneplhvlgeaefpediINSRLDHAVAILENLLKPVDESLDHYKKQQLREFATLngtlreespsmspsmspsmwpfnsagmkraktrr
mahfqappsmgwqglpgiPTAPVVKRVIRLdvpvdkypnqfnfvgrilgprgnSLKRVEAMTEctvfirgqssvkdsLKEGKIRYEHLNEPLHVLGEAEFPEDIINSRLDHAVAILENLLKPVDESLDHYKKQQLREFATLngtlreespsmspsmspsmwpfnsagmkraktrr
MAHFQAPPSMGWQGLPGIPTAPVVKRVIRLDVPVDKYPNQFNFVGRILGPRGNSLKRVEAMTECTVFIRGQSSVKDSLKEGKIRYEHLNEPLHVLGEAEFPEDIINSRLDHAVAILENLLKPVDESLDHYKKQQLREFATLNGTLREEspsmspsmspsmWPFNSAGMKRAKTRR
***********WQGLPGIPTAPVVKRVIRLDVPVDKYPNQFNFVGRILGPRGNSLKRVEAMTECTVFIRGQSSVKDSLKEGKIRYEHLNEPLHVLGEAEFPEDIINSRLDHAVAILENLLKPVDESLDHY*********************************************
**********************VVKRVIRLDVPVDKYPNQFNFVGRILGPRGNSLKRVEAMTECTVFIRG******************NEPLHVLGEAEFPEDIINSRLDHAVAILENLLKPVDESLDHYKKQQLREFA************************************
********SMGWQGLPGIPTAPVVKRVIRLDVPVDKYPNQFNFVGRILGPRGNSLKRVEAMTECTVFIRGQSSVKDSLKEGKIRYEHLNEPLHVLGEAEFPEDIINSRLDHAVAILENLLKPVDESLDHYKKQQLREFATLNGTL***********SPSMWPFNS**********
*******************TAPVVKRVIRLDVPVDKYPNQFNFVGRILGPRGNSLKRVEAMTECTVFIRGQSSVKDSLKEGKIRYEHLNEPLHVLGEAEFPEDIINSRLDHAVAILENLLKPVDESLDHYKKQQLREFATLNGTL******************************
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MAHFQAPPSMGWQGLPGIPTAPVVKRVIRLDVPVDKYPNQFNFVGRILGPRGNSLKRVEAMTECTVFIRGQSSVKDSLKEGKIRYEHLNEPLHVLGEAEFPEDIINSRLDHAVAILENLLKPVDESLDHYKKQQLREFATLNGTLREESPSMSPSMSPSMWPFNSAGMKRAKTRR
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 ?
Query175 2.2.26 [Sep-21-2011]
Q8GWR3298 KH domain-containing prot yes no 0.948 0.557 0.698 1e-63
Q75GR5281 KH domain-containing prot no no 0.908 0.565 0.644 5e-54
Q0WLR1308 KH domain-containing prot no no 0.925 0.525 0.614 9e-52
Q9FKT4315 KH domain-containing prot no no 0.925 0.514 0.608 4e-51
Q8GYR4283 KH domain-containing prot no no 0.925 0.572 0.596 4e-49
Q9ZVI3286 KH domain-containing prot no no 0.92 0.562 0.617 6e-49
Q32NN2 341 Protein quaking-A OS=Xeno N/A no 0.788 0.404 0.445 1e-24
Q6IRN2 342 Protein quaking-B OS=Xeno N/A no 0.788 0.403 0.445 2e-24
Q5W9D5 341 Protein quaking OS=Sus sc yes no 0.777 0.398 0.451 2e-24
Q9QYS9 341 Protein quaking OS=Mus mu yes no 0.777 0.398 0.451 2e-24
>sp|Q8GWR3|QKIL5_ARATH KH domain-containing protein At1g09660 OS=Arabidopsis thaliana GN=At1g09660 PE=2 SV=1 Back     alignment and function desciption
 Score =  242 bits (617), Expect = 1e-63,   Method: Compositional matrix adjust.
 Identities = 123/176 (69%), Positives = 145/176 (82%), Gaps = 10/176 (5%)

Query: 4   FQAPPSMGWQGLPGIPTAPVVKRVIRLDVPVDKYPNQFNFVGRILGPRGNSLKRVEAMTE 63
           F+ P  +GW G+PG+P  P+VK+VIRLDVPVDKYP+ +NFVGRILGPRGNSLKRVE  T 
Sbjct: 125 FRGPSPVGWIGMPGLPNPPIVKKVIRLDVPVDKYPS-YNFVGRILGPRGNSLKRVELATH 183

Query: 64  CTVFIRGQSSVKDSLKEGKIR----YEHLNEPLHVLGEAEFPEDIINSRLDHAVAILENL 119
           C VFIRG+ SVKD++KE K++    YEHL EPLHVL EAE PEDIINSRL+HAV  LE+L
Sbjct: 184 CRVFIRGRGSVKDTVKEEKLKGKPGYEHLCEPLHVLIEAELPEDIINSRLEHAVHFLESL 243

Query: 120 LKPVDESLDHYKKQQLREFATLNGTLREE--SPSMSPSMSPSMWPFNSAGMKRAKT 173
           LKP+DES+DHYK++QL+E A LNGTLREE  SPS+SP +SPSM PFNS   KRAKT
Sbjct: 244 LKPMDESMDHYKREQLKELAALNGTLREESPSPSLSPCLSPSMSPFNS---KRAKT 296

Arabidopsis thaliana (taxid: 3702)
>sp|Q75GR5|SPIN1_ORYSJ KH domain-containing protein SPIN1 OS=Oryza sativa subsp. japonica GN=SPIN1 PE=1 SV=1 Back     alignment and function description
>sp|Q0WLR1|QKIL1_ARATH KH domain-containing protein At4g26480 OS=Arabidopsis thaliana GN=At4g26480 PE=2 SV=1 Back     alignment and function description
>sp|Q9FKT4|QKIL2_ARATH KH domain-containing protein At5g56140 OS=Arabidopsis thaliana GN=At5g56140 PE=2 SV=1 Back     alignment and function description
>sp|Q8GYR4|QKIL4_ARATH KH domain-containing protein At3g08620 OS=Arabidopsis thaliana GN=At3g08620 PE=2 SV=1 Back     alignment and function description
>sp|Q9ZVI3|QKIL3_ARATH KH domain-containing protein At2g38610 OS=Arabidopsis thaliana GN=At2g38610 PE=1 SV=1 Back     alignment and function description
>sp|Q32NN2|QKIA_XENLA Protein quaking-A OS=Xenopus laevis GN=qki-a PE=1 SV=2 Back     alignment and function description
>sp|Q6IRN2|QKIB_XENLA Protein quaking-B OS=Xenopus laevis GN=qki-b PE=1 SV=1 Back     alignment and function description
>sp|Q5W9D5|QKI_PIG Protein quaking OS=Sus scrofa GN=QKI PE=2 SV=1 Back     alignment and function description
>sp|Q9QYS9|QKI_MOUSE Protein quaking OS=Mus musculus GN=Qki 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 ?
Query175
357445253 312 KH domain-containing protein [Medicago t 0.994 0.557 0.815 1e-67
224129440 294 predicted protein [Populus trichocarpa] 0.988 0.588 0.804 7e-66
225465191 295 PREDICTED: KH domain-containing protein 0.988 0.586 0.821 8e-66
255570966 295 nucleic acid binding protein, putative [ 0.988 0.586 0.787 1e-65
115441499 290 Os01g0886300 [Oryza sativa Japonica Grou 0.937 0.565 0.736 6e-65
224120082 294 predicted protein [Populus trichocarpa] 0.948 0.564 0.812 1e-64
357126240 288 PREDICTED: KH domain-containing protein 0.977 0.593 0.709 5e-63
414879338 293 TPA: hypothetical protein ZEAMMB73_28287 0.937 0.559 0.713 6e-63
226494061 285 hypothetical protein [Zea mays] gi|19470 0.937 0.575 0.713 7e-63
297849268 298 hypothetical protein ARALYDRAFT_471067 [ 0.948 0.557 0.704 1e-62
>gi|357445253|ref|XP_003592904.1| KH domain-containing protein [Medicago truncatula] gi|92893883|gb|ABE91933.1| KH [Medicago truncatula] gi|355481952|gb|AES63155.1| KH domain-containing protein [Medicago truncatula] Back     alignment and taxonomy information
 Score =  261 bits (666), Expect = 1e-67,   Method: Compositional matrix adjust.
 Identities = 146/179 (81%), Positives = 156/179 (87%), Gaps = 5/179 (2%)

Query: 1   MAHFQAPPSMGWQGLPGIPTAPVVKRVIRLDVPVDKYPNQFNFVGRILGPRGNSLKRVEA 60
           M  FQA P +GW G  GIPT P+VKRVIRLDVPVDKYPNQ+NFVGRILGPRGNSLKRVEA
Sbjct: 135 MGSFQASP-VGWHGPQGIPTTPIVKRVIRLDVPVDKYPNQYNFVGRILGPRGNSLKRVEA 193

Query: 61  MTECTVFIRGQSSVKDSLKEGKIR----YEHLNEPLHVLGEAEFPEDIINSRLDHAVAIL 116
           MTEC V+IRG  SVKDS+KE K++    YEHL EPLH+L EAEFPEDIINSRLDHAVA+L
Sbjct: 194 MTECRVYIRGCGSVKDSIKEEKLKDKPGYEHLKEPLHLLVEAEFPEDIINSRLDHAVAVL 253

Query: 117 ENLLKPVDESLDHYKKQQLREFATLNGTLREESPSMSPSMSPSMWPFNSAGMKRAKTRR 175
           ENLLKPVDESLDHYKKQQLRE A +NGTLREESPSMSPSMSPSM PFNS GMKRAKT R
Sbjct: 254 ENLLKPVDESLDHYKKQQLRELAMINGTLREESPSMSPSMSPSMSPFNSNGMKRAKTGR 312

Source: Medicago truncatula

Species: Medicago truncatula

Genus: Medicago

Family: Fabaceae

Order: Fabales

Class:

Phylum: Streptophyta

Superkingdom: Eukaryota
>gi|224129440|ref|XP_002328717.1| predicted protein [Populus trichocarpa] gi|222839015|gb|EEE77366.1| predicted protein [Populus trichocarpa] Back     alignment and taxonomy information
>gi|225465191|ref|XP_002263798.1| PREDICTED: KH domain-containing protein At1g09660 [Vitis vinifera] gi|297739511|emb|CBI29693.3| unnamed protein product [Vitis vinifera] Back     alignment and taxonomy information
>gi|255570966|ref|XP_002526434.1| nucleic acid binding protein, putative [Ricinus communis] gi|223534214|gb|EEF35929.1| nucleic acid binding protein, putative [Ricinus communis] Back     alignment and taxonomy information
>gi|115441499|ref|NP_001045029.1| Os01g0886300 [Oryza sativa Japonica Group] gi|56784311|dbj|BAD82237.1| QUAKING isoform 5-like [Oryza sativa Japonica Group] gi|56785233|dbj|BAD82121.1| QUAKING isoform 5-like [Oryza sativa Japonica Group] gi|113534560|dbj|BAF06943.1| Os01g0886300 [Oryza sativa Japonica Group] gi|125528639|gb|EAY76753.1| hypothetical protein OsI_04709 [Oryza sativa Indica Group] gi|125572899|gb|EAZ14414.1| hypothetical protein OsJ_04338 [Oryza sativa Japonica Group] gi|215694363|dbj|BAG89356.1| unnamed protein product [Oryza sativa Japonica Group] Back     alignment and taxonomy information
>gi|224120082|ref|XP_002331132.1| predicted protein [Populus trichocarpa] gi|118487494|gb|ABK95574.1| unknown [Populus trichocarpa] gi|222872860|gb|EEF09991.1| predicted protein [Populus trichocarpa] Back     alignment and taxonomy information
>gi|357126240|ref|XP_003564796.1| PREDICTED: KH domain-containing protein At1g09660-like [Brachypodium distachyon] Back     alignment and taxonomy information
>gi|414879338|tpg|DAA56469.1| TPA: hypothetical protein ZEAMMB73_282873 [Zea mays] Back     alignment and taxonomy information
>gi|226494061|ref|NP_001142049.1| hypothetical protein [Zea mays] gi|194706914|gb|ACF87541.1| unknown [Zea mays] gi|414879339|tpg|DAA56470.1| TPA: hypothetical protein ZEAMMB73_282873 [Zea mays] Back     alignment and taxonomy information
>gi|297849268|ref|XP_002892515.1| hypothetical protein ARALYDRAFT_471067 [Arabidopsis lyrata subsp. lyrata] gi|297338357|gb|EFH68774.1| hypothetical protein ARALYDRAFT_471067 [Arabidopsis lyrata subsp. lyrata] 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 ?
Query175
TAIR|locus:2024326298 AT1G09660 "AT1G09660" [Arabido 0.948 0.557 0.647 3.4e-54
UNIPROTKB|Q75GR5281 SPIN1 "KH domain-containing pr 0.937 0.583 0.614 2e-49
TAIR|locus:2161845315 AT5G56140 "AT5G56140" [Arabido 0.925 0.514 0.584 3.8e-46
TAIR|locus:2077818283 AT3G08620 "AT3G08620" [Arabido 0.925 0.572 0.567 1.2e-45
TAIR|locus:2064097286 AT2G38610 "AT2G38610" [Arabido 0.92 0.562 0.588 3.9e-44
UNIPROTKB|F1N7N1 315 QKI "Protein quaking" [Bos tau 0.737 0.409 0.470 5.3e-24
UNIPROTKB|Q5W9D7 341 QKI "Protein quaking" [Bos tau 0.737 0.378 0.470 5.3e-24
UNIPROTKB|F1PLY2 310 QKI "Protein quaking" [Canis l 0.737 0.416 0.470 5.3e-24
UNIPROTKB|F1PX61 339 QKI "Protein quaking" [Canis l 0.737 0.380 0.470 5.3e-24
UNIPROTKB|J9NVZ6 286 QKI "Protein quaking" [Canis l 0.737 0.451 0.470 5.3e-24
TAIR|locus:2024326 AT1G09660 "AT1G09660" [Arabidopsis thaliana (taxid:3702)] Back     alignment and assigned GO terms
 Score = 560 (202.2 bits), Expect = 3.4e-54, P = 3.4e-54
 Identities = 114/176 (64%), Positives = 134/176 (76%)

Query:     4 FQAPPSMGWQGLPGIPTAPVVKRVIRLDVPVDKYPNQFNFVGRILGPRGNSLKRVEAMTE 63
             F+ P  +GW G+PG+P  P+VK+VIRLDVPVDKYP+ +NFVGRILGPRGNSLKRVE  T 
Sbjct:   125 FRGPSPVGWIGMPGLPNPPIVKKVIRLDVPVDKYPS-YNFVGRILGPRGNSLKRVELATH 183

Query:    64 CTVFIRGQSSVKDSLKEGKIR----YEHLNEPLHVLGEAEFPEDIINSRLDHAVAILENL 119
             C VFIRG+ SVKD++KE K++    YEHL EPLHVL EAE PEDIINSRL+HAV  LE+L
Sbjct:   184 CRVFIRGRGSVKDTVKEEKLKGKPGYEHLCEPLHVLIEAELPEDIINSRLEHAVHFLESL 243

Query:   120 LKPVDESLDHYKKQQLREFATLNGTLREEXXXXXXX--XXXXXWPFNSAGMKRAKT 173
             LKP+DES+DHYK++QL+E A LNGTLREE               PFNS   KRAKT
Sbjct:   244 LKPMDESMDHYKREQLKELAALNGTLREESPSPSLSPCLSPSMSPFNS---KRAKT 296
GO:0003676 "nucleic acid binding" evidence=ISS
GO:0003723 "RNA binding" evidence=IEA
GO:0005634 "nucleus" evidence=ISM
GO:0008150 "biological_process" evidence=ND
UNIPROTKB|Q75GR5 SPIN1 "KH domain-containing protein SPIN1" [Oryza sativa Japonica Group (taxid:39947)] Back     alignment and assigned GO terms
TAIR|locus:2161845 AT5G56140 "AT5G56140" [Arabidopsis thaliana (taxid:3702)] Back     alignment and assigned GO terms
TAIR|locus:2077818 AT3G08620 "AT3G08620" [Arabidopsis thaliana (taxid:3702)] Back     alignment and assigned GO terms
TAIR|locus:2064097 AT2G38610 "AT2G38610" [Arabidopsis thaliana (taxid:3702)] Back     alignment and assigned GO terms
UNIPROTKB|F1N7N1 QKI "Protein quaking" [Bos taurus (taxid:9913)] Back     alignment and assigned GO terms
UNIPROTKB|Q5W9D7 QKI "Protein quaking" [Bos taurus (taxid:9913)] Back     alignment and assigned GO terms
UNIPROTKB|F1PLY2 QKI "Protein quaking" [Canis lupus familiaris (taxid:9615)] Back     alignment and assigned GO terms
UNIPROTKB|F1PX61 QKI "Protein quaking" [Canis lupus familiaris (taxid:9615)] Back     alignment and assigned GO terms
UNIPROTKB|J9NVZ6 QKI "Protein quaking" [Canis lupus familiaris (taxid:9615)] 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

Fail to connect to STRING server

Conserved Domains and Related Protein Families

Conserved Domains Detected by RPS-BLAST ?

Original result of RPS-BLAST against CDD database part I

ID ?Alignment Graph ?Length ? Definition ? E-value ?
Query175
cd02395120 cd02395, SF1_like-KH, Splicing factor 1 (SF1) K ho 3e-43
COG5176269 COG5176, MSL5, Splicing factor (branch point bindi 8e-18
smart0032268 smart00322, KH, K homology RNA-binding domain 0.001
cd0010564 cd00105, KH-I, K homology RNA-binding domain, type 0.002
>gnl|CDD|239088 cd02395, SF1_like-KH, Splicing factor 1 (SF1) K homology RNA-binding domain (KH) Back     alignment and domain information 
 Score =  139 bits (352), Expect = 3e-43
 Identities = 62/122 (50%), Positives = 79/122 (64%), Gaps = 8/122 (6%)

Query: 29  RLDVPVDKYPNQFNFVGRILGPRGNSLKRVEAMTECTVFIRGQSSVKDSLKEGKIR---Y 85
           ++ +PV +YP  +NFVG ILGPRGN+LK++E  T   + IRG+ S+KD  KE ++R   Y
Sbjct: 3   KVYIPVKQYPK-YNFVGLILGPRGNTLKQLEKETGAKISIRGKGSMKDGKKEEELRGPKY 61

Query: 86  EHLNEPLHVLGEAEFPEDIINSRLDHAVAILENLLKPVDESL-DHYKKQQLREFATLNGT 144
            HLNEPLHVL  AE P +     L  AV  +E LLKP  E   D  K++QLRE A LNGT
Sbjct: 62  AHLNEPLHVLITAETPPEE---ALAKAVEAIEELLKPAIEGGNDELKREQLRELALLNGT 118

Query: 145 LR 146
            R
Sbjct: 119 YR 120

Splicing factor 1 (SF1) specifically recognizes the intron branch point sequence (BPS) UACUAAC in the pre-mRNA transcripts during spliceosome assembly. We show that the KH-QUA2 region of SF1 defines an enlarged KH (hnRNP K) fold which is necessary and sufficient for BPS binding. KH binds single-stranded RNA or DNA. It is found in a wide variety of proteins including ribosomal proteins, transcription factors and post-transcriptional modifiers of mRNA. Length = 120
>gnl|CDD|227503 COG5176, MSL5, Splicing factor (branch point binding protein) [RNA processing and modification] Back     alignment and domain information
>gnl|CDD|197652 smart00322, KH, K homology RNA-binding domain Back     alignment and domain information
>gnl|CDD|238053 cd00105, KH-I, K homology RNA-binding domain, type I Back     alignment and domain information

Conserved Domains Detected by HHsearch ?

Original result of HHsearch against CDD database

ID ?Alignment Graph ?Length ? Definition ? Probability ?
Query 175
KOG1588259 consensus RNA-binding protein Sam68 and related KH 100.0
cd02395120 SF1_like-KH Splicing factor 1 (SF1) K homology RNA 100.0
KOG0119 554 consensus Splicing factor 1/branch point binding p 100.0
COG5176269 MSL5 Splicing factor (branch point binding protein 99.97
cd0239361 PNPase_KH Polynucleotide phosphorylase (PNPase) K 98.94
cd0010564 KH-I K homology RNA-binding domain, type I. KH bin 98.72
PF0001360 KH_1: KH domain syndrome, contains KH motifs.; Int 98.72
cd0239462 vigilin_like_KH K homology RNA-binding domain_vigi 98.53
smart0032269 KH K homology RNA-binding domain. 98.52
KOG1960 531 consensus Predicted RNA-binding protein, contains 98.5
cd0239665 PCBP_like_KH K homology RNA-binding domain, PCBP_l 98.45
PF1301443 KH_3: KH domain 98.39
TIGR02696719 pppGpp_PNP guanosine pentaphosphate synthetase I/p 98.16
PRK13763180 putative RNA-processing protein; Provisional 98.07
TIGR03665172 arCOG04150 arCOG04150 universal archaeal KH domain 98.02
TIGR03665172 arCOG04150 arCOG04150 universal archaeal KH domain 97.96
TIGR03591684 polynuc_phos polyribonucleotide nucleotidyltransfe 97.94
PRK13763180 putative RNA-processing protein; Provisional 97.9
PLN00207891 polyribonucleotide nucleotidyltransferase; Provisi 97.64
KOG1676 600 consensus K-homology type RNA binding proteins [RN 97.42
COG1094194 Predicted RNA-binding protein (contains KH domains 97.42
PRK04163235 exosome complex RNA-binding protein Rrp4; Provisio 97.28
KOG1676 600 consensus K-homology type RNA binding proteins [RN 97.2
PRK11824693 polynucleotide phosphorylase/polyadenylase; Provis 97.16
KOG2874356 consensus rRNA processing protein [Translation, ri 96.8
KOG2193 584 consensus IGF-II mRNA-binding protein IMP, contain 96.59
KOG2191 402 consensus RNA-binding protein NOVA1/PASILLA and re 96.46
KOG2191 402 consensus RNA-binding protein NOVA1/PASILLA and re 96.41
KOG2193 584 consensus IGF-II mRNA-binding protein IMP, contain 96.41
KOG2190 485 consensus PolyC-binding proteins alphaCP-1 and rel 96.24
COG1185692 Pnp Polyribonucleotide nucleotidyltransferase (pol 96.15
KOG2814 345 consensus Transcription coactivator complex, P50 c 95.61
KOG1960 531 consensus Predicted RNA-binding protein, contains 94.8
PRK00106 535 hypothetical protein; Provisional 94.74
TIGR03319 514 YmdA_YtgF conserved hypothetical protein YmdA/YtgF 94.39
PRK12704 520 phosphodiesterase; Provisional 94.37
cd0213461 NusA_KH NusA_K homology RNA-binding domain (KH). N 94.05
KOG0336 629 consensus ATP-dependent RNA helicase [RNA processi 93.01
KOG2190485 consensus PolyC-binding proteins alphaCP-1 and rel 92.83
KOG1067760 consensus Predicted RNA-binding polyribonucleotide 89.33
COG1097239 RRP4 RNA-binding protein Rrp4 and related proteins 89.32
PF1318469 KH_5: NusA-like KH domain; PDB: 1HH2_P 1L2F_A 2ATW 87.54
KOG2192390 consensus PolyC-binding hnRNP-K protein HRB57A/hnR 87.0
COG1094194 Predicted RNA-binding protein (contains KH domains 86.52
KOG2113 394 consensus Predicted RNA binding protein, contains 86.5
PRK12705 508 hypothetical protein; Provisional 85.52
cd0240968 KH-II KH-II (K homology RNA-binding domain, type I 85.36
>KOG1588 consensus RNA-binding protein Sam68 and related KH domain proteins [RNA processing and modification] Back     alignment and domain information 
Probab=100.00  E-value=8.6e-51  Score=346.39  Aligned_cols=154  Identities=52%  Similarity=0.715  Sum_probs=141.0

Q ss_pred             CCCCCCceeEEEEEEccCCCCCCCcceeEEEeCCCCchHHHHHhhhCceEEEeccCCCCCccccC----CCCCCCCCCCc
Q 030537           17 GIPTAPVVKRVIRLDVPVDKYPNQFNFVGRILGPRGNSLKRVEAMTECTVFIRGQSSVKDSLKEG----KIRYEHLNEPL   92 (175)
Q Consensus        17 ~~~~~~~~k~~~Ki~IPv~~yP~~~NfvGrIiGPrG~TlK~ie~eTgckI~IRGkGS~k~~~~e~----~p~~e~~~epL   92 (175)
                      ..+++..+|++.||+|||++||+ ||||||||||||+|+|+||++|||||+||||||+||..+|+    +|+|+|+++||
T Consensus        83 ~~~~~~~vk~~~Kv~vPv~~yP~-fNFVGRILGPrGnSlkrLe~eTgCki~IrGrgSmrD~~KEE~lR~~p~yeHL~epL  161 (259)
T KOG1588|consen   83 DVYSGKPVKLTEKVLVPVKEYPK-FNFVGRILGPRGNSLKRLEEETGCKIMIRGRGSMRDKAKEEELRGDPGYEHLNEPL  161 (259)
T ss_pred             cCccCCceeEEEEEEeccCCCCC-CccccccccCCcchHHHHHHHHCCeEEEecCCcccchHHHHHhhcCcchHHhCCCc
Confidence            58899999999999999999999 99999999999999999999999999999999999999987    89999999999


Q ss_pred             EEEEEeeCchhhHHHHHHHHHHHHHhccCCCCcchHHHHHHHHHHHHHhcCc-cCCCCCCCCCCCCCCCcccCccccccc
Q 030537           93 HVLGEAEFPEDIINSRLDHAVAILENLLKPVDESLDHYKKQQLREFATLNGT-LREESPSMSPSMSPSMWPFNSAGMKRA  171 (175)
Q Consensus        93 HV~Isa~~~~~~~~~~l~~A~e~Ie~lL~p~~e~~de~K~~QL~eLA~lNGt-~r~~~~~~~g~~~~~~~p~~~~~~~~~  171 (175)
                      ||+|++++++++|+.+|++|++.|++||+|++++.|  |++||+|||++||| +++.+...+|.. -|+-||+..+++|.
T Consensus       162 HVlIe~~~p~~ea~~rl~~AleeI~klL~P~~e~~d--k~~QL~ELa~lngt~~~~~~~~~~g~~-~~~~~~~~~~~~r~  238 (259)
T KOG1588|consen  162 HVLIETEAPPAEAYARLAYALEEIKKLLVPDHEDED--KREQLRELAILNGTYLRSESRKPSGGN-GRGVPGNSAGGKRG  238 (259)
T ss_pred             EEEEEEeCCHHHHHHHHHHHHHHHHHhcCCCCCCch--HHHHHHHHhhcCCccccccccccCCCC-CcCCCCCCCCcccc
Confidence            999999999999999999999999999999988777  99999999999999 555555555543 35568999999888


Q ss_pred             ccc
Q 030537          172 KTR  174 (175)
Q Consensus       172 ~~~  174 (175)
                      ++.
T Consensus       239 ~~~  241 (259)
T KOG1588|consen  239 KTG  241 (259)
T ss_pred             cCC
Confidence            763

>cd02395 SF1_like-KH Splicing factor 1 (SF1) K homology RNA-binding domain (KH) Back     alignment and domain information
>KOG0119 consensus Splicing factor 1/branch point binding protein (RRM superfamily) [RNA processing and modification] Back     alignment and domain information
>COG5176 MSL5 Splicing factor (branch point binding protein) [RNA processing and modification] Back     alignment and domain information
>cd02393 PNPase_KH Polynucleotide phosphorylase (PNPase) K homology RNA-binding domain (KH) Back     alignment and domain information
>cd00105 KH-I K homology RNA-binding domain, type I Back     alignment and domain information
>PF00013 KH_1: KH domain syndrome, contains KH motifs Back     alignment and domain information
>cd02394 vigilin_like_KH K homology RNA-binding domain_vigilin_like Back     alignment and domain information
>smart00322 KH K homology RNA-binding domain Back     alignment and domain information
>KOG1960 consensus Predicted RNA-binding protein, contains KH domains [RNA processing and modification] Back     alignment and domain information
>cd02396 PCBP_like_KH K homology RNA-binding domain, PCBP_like Back     alignment and domain information
>PF13014 KH_3: KH domain Back     alignment and domain information
>TIGR02696 pppGpp_PNP guanosine pentaphosphate synthetase I/polynucleotide phosphorylase Back     alignment and domain information
>PRK13763 putative RNA-processing protein; Provisional Back     alignment and domain information
>TIGR03665 arCOG04150 arCOG04150 universal archaeal KH domain protein Back     alignment and domain information
>TIGR03665 arCOG04150 arCOG04150 universal archaeal KH domain protein Back     alignment and domain information
>TIGR03591 polynuc_phos polyribonucleotide nucleotidyltransferase Back     alignment and domain information
>PRK13763 putative RNA-processing protein; Provisional Back     alignment and domain information
>PLN00207 polyribonucleotide nucleotidyltransferase; Provisional Back     alignment and domain information
>KOG1676 consensus K-homology type RNA binding proteins [RNA processing and modification] Back     alignment and domain information
>COG1094 Predicted RNA-binding protein (contains KH domains) [General function prediction only] Back     alignment and domain information
>PRK04163 exosome complex RNA-binding protein Rrp4; Provisional Back     alignment and domain information
>KOG1676 consensus K-homology type RNA binding proteins [RNA processing and modification] Back     alignment and domain information
>PRK11824 polynucleotide phosphorylase/polyadenylase; Provisional Back     alignment and domain information
>KOG2874 consensus rRNA processing protein [Translation, ribosomal structure and biogenesis; Cell cycle control, cell division, chromosome partitioning] Back     alignment and domain information
>KOG2193 consensus IGF-II mRNA-binding protein IMP, contains RRM and KH domains [RNA processing and modification; General function prediction only] Back     alignment and domain information
>KOG2191 consensus RNA-binding protein NOVA1/PASILLA and related KH domain proteins [RNA processing and modification; General function prediction only] Back     alignment and domain information
>KOG2191 consensus RNA-binding protein NOVA1/PASILLA and related KH domain proteins [RNA processing and modification; General function prediction only] Back     alignment and domain information
>KOG2193 consensus IGF-II mRNA-binding protein IMP, contains RRM and KH domains [RNA processing and modification; General function prediction only] Back     alignment and domain information
>KOG2190 consensus PolyC-binding proteins alphaCP-1 and related KH domain proteins [RNA processing and modification; General function prediction only] Back     alignment and domain information
>COG1185 Pnp Polyribonucleotide nucleotidyltransferase (polynucleotide phosphorylase) [Translation, ribosomal structure and biogenesis] Back     alignment and domain information
>KOG2814 consensus Transcription coactivator complex, P50 component (LigT RNA ligase/phosphodiesterase family) [Transcription] Back     alignment and domain information
>KOG1960 consensus Predicted RNA-binding protein, contains KH domains [RNA processing and modification] Back     alignment and domain information
>PRK00106 hypothetical protein; Provisional Back     alignment and domain information
>TIGR03319 YmdA_YtgF conserved hypothetical protein YmdA/YtgF Back     alignment and domain information
>PRK12704 phosphodiesterase; Provisional Back     alignment and domain information
>cd02134 NusA_KH NusA_K homology RNA-binding domain (KH) Back     alignment and domain information
>KOG0336 consensus ATP-dependent RNA helicase [RNA processing and modification] Back     alignment and domain information
>KOG2190 consensus PolyC-binding proteins alphaCP-1 and related KH domain proteins [RNA processing and modification; General function prediction only] Back     alignment and domain information
>KOG1067 consensus Predicted RNA-binding polyribonucleotide nucleotidyltransferase [General function prediction only] Back     alignment and domain information
>COG1097 RRP4 RNA-binding protein Rrp4 and related proteins (contain S1 domain and KH domain) [Translation, ribosomal structure and biogenesis] Back     alignment and domain information
>PF13184 KH_5: NusA-like KH domain; PDB: 1HH2_P 1L2F_A 2ATW_A 1K0R_B 2ASB_A Back     alignment and domain information
>KOG2192 consensus PolyC-binding hnRNP-K protein HRB57A/hnRNP, contains KH domain [RNA processing and modification; General function prediction only] Back     alignment and domain information
>COG1094 Predicted RNA-binding protein (contains KH domains) [General function prediction only] Back     alignment and domain information
>KOG2113 consensus Predicted RNA binding protein, contains KH domain [General function prediction only] Back     alignment and domain information
>PRK12705 hypothetical protein; Provisional Back     alignment and domain information
>cd02409 KH-II KH-II (K homology RNA-binding domain, type II) 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 ?
Query175
2bl5_A140 Solution Structure Of The Kh-Qua2 Region Of The Xen 3e-23
1k1g_A131 Structural Basis For Recognition Of The Intron Bran 1e-15
>pdb|2BL5|A Chain A, Solution Structure Of The Kh-Qua2 Region Of The Xenopus Star-Gsg Quaking Protein Length = 140 Back     alignment and structure 
Iteration: 1

 Score =  104 bits (259), Expect = 3e-23,   Method: Compositional matrix adjust.
 Identities = 59/123 (47%), Positives = 78/123 (63%), Gaps = 5/123 (4%)
Query: 29  RLDVPVDKYPNQFNFVGRILGPRGNSLKRVEAMTECTVFIRGQSSVKDSLKE----GKIR 84
           +L VPV +YP+ FNFVGRILGPRG + K++EA T C + +RG+ S++D  KE    GK  
Sbjct: 5   KLYVPVKEYPD-FNFVGRILGPRGLTAKQLEAETGCKIMVRGKGSMRDKKKEEQNRGKPN 63
Query: 85  YEHLNEPLHVLGEAEFPEDIINSRLDHAVAILENLLKPVDESLDHYKKQQLREFATLNGT 144
           +EHLNE LHVL   E  ++    +L  AV  ++ LL P  E  D  KK +L E A LNGT
Sbjct: 64  WEHLNEDLHVLITVEDAQNRAELKLKRAVEEVKKLLVPAAEGEDSLKKMKLMELAILNGT 123
Query: 145 LRE 147
            R+
Sbjct: 124 YRD 126
>pdb|1K1G|A Chain A, Structural Basis For Recognition Of The Intron Branch Site Rna By Splicing Factor 1 Length = 131 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 ?
Query175
2bl5_A140 MGC83862 protein, quaking protein; STAR proteins, 3e-45
1k1g_A131 SF1-BO isoform; splicing, branch point sequence, p 3e-42
2yqr_A119 KIAA0907 protein; structure genomics, KH domain, s 5e-26
>1k1g_A SF1-BO isoform; splicing, branch point sequence, protein/RNA recognition, complex E, KH domain, QUA2 homology; NMR {Homo sapiens} SCOP: d.51.1.1 Length = 131 Back     alignment and structure
>2yqr_A KIAA0907 protein; structure genomics, KH domain, structural genomics, NPPSFA, national project on protein structural and functional analyses; NMR {Homo sapiens} Length = 119 Back     alignment and structure

Structure Templates Detected by HHsearch ?

Original result of HHsearch against PDB70 database

ID ?Alignment Graph ?Length ? Definition ? Probability ?
Query175
2bl5_A140 MGC83862 protein, quaking protein; STAR proteins, 100.0
1k1g_A131 SF1-BO isoform; splicing, branch point sequence, p 100.0
2yqr_A119 KIAA0907 protein; structure genomics, KH domain, s 99.97
2opv_A85 KHSRP protein; KH domain, RNA binding protein, KSR 99.12
1dtj_A76 RNA-binding neurooncological ventral antigen 2; KH 99.08
1x4m_A94 FAR upstream element binding protein 1; KH domain, 98.97
1x4n_A92 FAR upstream element binding protein 1; KH domain, 98.95
2dgr_A83 Ring finger and KH domain-containing protein 1; st 98.91
1wvn_A82 Poly(RC)-binding protein 1; KH domain, RNA binding 98.89
1we8_A104 Tudor and KH domain containing protein; structural 98.89
1ec6_A87 RNA-binding protein NOVA-2; KH domain, alpha-beta 98.89
2hh2_A107 KH-type splicing regulatory protein; KH-RNA bindin 98.88
1zzk_A82 Heterogeneous nuclear ribonucleoprotein K; KH domi 98.86
2p2r_A76 Poly(RC)-binding protein 2; protein-DNA complex, R 98.85
1vig_A71 Vigilin; RNA-binding protein, ribonucleoprotein; N 98.83
1j5k_A89 Heterogeneous nuclear ribonucleoprotein K; single- 98.82
2ctk_A104 Vigilin; K homology type I domain, RNA-binding, ce 98.79
2cte_A94 Vigilin; K homology type I domain, RNA-binding, ce 98.79
2hh3_A106 KH-type splicing regulatory protein; KH-RNA bindin 98.78
2axy_A73 Poly(RC)-binding protein 2; protein-DNA complex, D 98.77
2ctl_A97 Vigilin; K homology type I domain, RNA-binding, ce 98.65
2ctm_A95 Vigilin; K homology type I domain, RNA-binding, ce 98.64
3krm_A163 Insulin-like growth factor 2 mRNA-binding protein 98.57
2jvz_A164 KH type-splicing, FAR upstream element-binding pro 98.44
1j4w_A174 FUSE binding protein; single-stranded DNA binding 98.43
2ctj_A95 Vigilin; K homology type I domain, RNA-binding, ce 98.38
2jvz_A164 KH type-splicing, FAR upstream element-binding pro 98.35
2cpq_A91 FragIle X mental retardation syndrome related prot 98.34
2jzx_A160 Poly(RC)-binding protein 2; PCBP2, KH domains, RNA 98.3
1j4w_A174 FUSE binding protein; single-stranded DNA binding 98.28
2jzx_A160 Poly(RC)-binding protein 2; PCBP2, KH domains, RNA 98.26
2anr_A178 Neuro-oncological ventral antigen 1; protein-RNA c 98.21
2anr_A178 Neuro-oncological ventral antigen 1; protein-RNA c 98.19
3krm_A163 Insulin-like growth factor 2 mRNA-binding protein 98.13
3u1k_A630 Polyribonucleotide nucleotidyltransferase 1, MITO; 98.1
1tua_A191 Hypothetical protein APE0754; structural genomics, 97.87
2e3u_A219 PH-DIM2P, hypothetical protein PH1566; PRE-ribosom 97.65
2e3u_A219 PH-DIM2P, hypothetical protein PH1566; PRE-ribosom 97.59
4aid_A726 Polyribonucleotide nucleotidyltransferase; transfe 97.57
2qnd_A144 FMR1 protein; KH domain, eukaryotic KH domains, ta 97.45
3n89_A 376 Defective in GERM LINE development protein 3, ISO; 96.86
2ctf_A102 Vigilin; K homology type I domain, RNA-binding, ce 96.74
2qnd_A144 FMR1 protein; KH domain, eukaryotic KH domains, ta 96.51
3cdi_A723 Polynucleotide phosphorylase; mRNA turnover, RNAse 96.34
1e3p_A757 Guanosine pentaphosphate synthetase; polyribonucle 95.49
1tua_A191 Hypothetical protein APE0754; structural genomics, 94.9
3v69_A140 Protein filia; RNA-binding, embryogenesis, KH doma 94.23
3n89_A376 Defective in GERM LINE development protein 3, ISO; 91.26
2z0s_A235 Probable exosome complex RNA-binding protein 1; al 82.53
>2bl5_A MGC83862 protein, quaking protein; STAR proteins, GSG proteins, RNA binding; NMR {Xenopus laevis} SCOP: d.51.1.1 Back     alignment and structure
Probab=100.00  E-value=2.5e-50  Score=317.00  Aligned_cols=130  Identities=45%  Similarity=0.677  Sum_probs=122.6

Q ss_pred             eEEEEEEccCCCCCCCcceeEEEeCCCCchHHHHHhhhCceEEEeccCCCCCccccC----CCCCCCCCCCcEEEEEeeC
Q 030537           25 KRVIRLDVPVDKYPNQFNFVGRILGPRGNSLKRVEAMTECTVFIRGQSSVKDSLKEG----KIRYEHLNEPLHVLGEAEF  100 (175)
Q Consensus        25 k~~~Ki~IPv~~yP~~~NfvGrIiGPrG~TlK~ie~eTgckI~IRGkGS~k~~~~e~----~p~~e~~~epLHV~Isa~~  100 (175)
                      ++++|||||+++||+ |||||+||||||+|+|+||++|||||.|||+||++++++|+    +|+|+|++|||||+|++++
T Consensus         1 ~~~~Ki~IP~~~~P~-~NfiG~IiGPrG~t~K~ie~eTg~kI~IrGkGS~kd~~~e~~~~g~~~~~~~~epLHV~Isa~~   79 (140)
T 2bl5_A            1 QLQEKLYVPVKEYPD-FNFVGRILGPRGLTAKQLEAETGCKIMVRGKGSMRDKKKEEQNRGKPNWEHLNEDLHVLITVED   79 (140)
T ss_dssp             CEEEEEECCTTTCSS-SCHHHHHTTTTHHHHHHHHHHHSEEEEEESTTSSCCHHHHHTSTTSHHHHTTTSCCEEEEEECS
T ss_pred             CceeEEEcCcccCCC-CCeeeEEECCCcchHHHHHHHHCCeEEEecCCCcccccccccccCCCCccccCCCcEEEEEecC
Confidence            368999999999999 99999999999999999999999999999999999988764    5678899999999999999


Q ss_pred             chhhHHHHHHHHHHHHHhccCCCCcchHHHHHHHHHHHHHhcCccCCCCCCCCCC
Q 030537          101 PEDIINSRLDHAVAILENLLKPVDESLDHYKKQQLREFATLNGTLREESPSMSPS  155 (175)
Q Consensus       101 ~~~~~~~~l~~A~e~Ie~lL~p~~e~~de~K~~QL~eLA~lNGt~r~~~~~~~g~  155 (175)
                      ++++|+++|++|+++|++||.|+++++|++|++||+|||+||||||++....|.-
T Consensus        80 ~~~~~~~~l~~A~~~I~~lL~p~~e~~de~K~~QL~eLA~lNGt~r~~~~~~~~~  134 (140)
T 2bl5_A           80 AQNRAELKLKRAVEEVKKLLVPAAEGEDSLKKMKLMELAILNGTYRDANLKSPAL  134 (140)
T ss_dssp             CCHHHHHHHHHHHHHHHHHSSCCSSSSSHHHHHHHTGGGSSSTTTSGGGGSCTTC
T ss_pred             chhhHHHHHHHHHHHHHHHCCCCCcchhHHHHHHHHHHHHhcCCcCCCcccchhh
Confidence            9999999999999999999999999999999999999999999999998877643
>1k1g_A SF1-BO isoform; splicing, branch point sequence, protein/RNA recognition, complex E, KH domain, QUA2 homology; NMR {Homo sapiens} SCOP: d.51.1.1 Back     alignment and structure
>2yqr_A KIAA0907 protein; structure genomics, KH domain, structural genomics, NPPSFA, national project on protein structural and functional analyses; NMR {Homo sapiens} Back     alignment and structure
>2opv_A KHSRP protein; KH domain, RNA binding protein, KSRP; NMR {Homo sapiens} Back     alignment and structure
>1dtj_A RNA-binding neurooncological ventral antigen 2; KH domain, alpha-beta fold RNA-binding motif, immune system; 2.00A {Homo sapiens} SCOP: d.51.1.1 PDB: 1dt4_A Back     alignment and structure
>1x4m_A FAR upstream element binding protein 1; KH domain, structural genomics, NPPSFA, national project on protein structural and functional analyses; NMR {Mus musculus} SCOP: d.51.1.1 Back     alignment and structure
>1x4n_A FAR upstream element binding protein 1; KH domain, structural genomics, NPPSFA, national project on protein structural and functional analyses; NMR {Mus musculus} SCOP: d.51.1.1 PDB: 2opu_A Back     alignment and structure
>2dgr_A Ring finger and KH domain-containing protein 1; structural genomics, NPPSFA, national project on protein structural and functional analyses; NMR {Homo sapiens} Back     alignment and structure
>1wvn_A Poly(RC)-binding protein 1; KH domain, RNA binding domain, RNA binding protein; 2.10A {Homo sapiens} SCOP: d.51.1.1 Back     alignment and structure
>1we8_A Tudor and KH domain containing protein; structural genomics, riken structural genomics/proteomics initiative, RSGI, RNA binding protein; NMR {Mus musculus} SCOP: d.51.1.1 Back     alignment and structure
>1ec6_A RNA-binding protein NOVA-2; KH domain, alpha-beta fold, RNA-binding motif, protein/RNA structure, RNA binding protein/RNA complex; 2.40A {Homo sapiens} SCOP: d.51.1.1 Back     alignment and structure
>2hh2_A KH-type splicing regulatory protein; KH-RNA binding domain, RNA binding protein; NMR {Homo sapiens} Back     alignment and structure
>1zzk_A Heterogeneous nuclear ribonucleoprotein K; KH domian, alpha-beta fold, DNA binding protein; 0.95A {Homo sapiens} SCOP: d.51.1.1 PDB: 1zzj_A 1zzi_A Back     alignment and structure
>2p2r_A Poly(RC)-binding protein 2; protein-DNA complex, RNA and DNA binding protein/DNA complex; 1.60A {Homo sapiens} Back     alignment and structure
>1vig_A Vigilin; RNA-binding protein, ribonucleoprotein; NMR {Homo sapiens} SCOP: d.51.1.1 PDB: 1vih_A Back     alignment and structure
>1j5k_A Heterogeneous nuclear ribonucleoprotein K; single-stranded DNA binding protein, transcription factor, hnRNP K, CT element, C-MYC oncogene; NMR {Homo sapiens} SCOP: d.51.1.1 PDB: 1khm_A Back     alignment and structure
>2ctk_A Vigilin; K homology type I domain, RNA-binding, cell sterol metabolism, beta-alpha-alpha-beta-BETA-alpha structure, structural genomics, NPPSFA; NMR {Homo sapiens} SCOP: d.51.1.1 Back     alignment and structure
>2cte_A Vigilin; K homology type I domain, RNA-binding, cell sterol metabolism, beta-alpha-alpha-beta-BETA-alpha structure, structural genomics, NPPSFA; NMR {Homo sapiens} SCOP: d.51.1.1 Back     alignment and structure
>2hh3_A KH-type splicing regulatory protein; KH-RNA binding domain, RNA binding protein; NMR {Homo sapiens} Back     alignment and structure
>2axy_A Poly(RC)-binding protein 2; protein-DNA complex, DNA binding protein-DNA complex; 1.70A {Homo sapiens} SCOP: d.51.1.1 PDB: 2pqu_A 2py9_A 1ztg_A 3vke_A* Back     alignment and structure
>2ctl_A Vigilin; K homology type I domain, RNA-binding, cell sterol metabolism, beta-alpha-alpha-beta-BETA-alpha structure, structural genomics, NPPSFA; NMR {Homo sapiens} SCOP: d.51.1.1 Back     alignment and structure
>2ctm_A Vigilin; K homology type I domain, RNA-binding, cell sterol metabolism, beta-alpha-alpha-beta-BETA-alpha structure, structural genomics, NPPSFA; NMR {Homo sapiens} SCOP: d.51.1.1 Back     alignment and structure
>3krm_A Insulin-like growth factor 2 mRNA-binding protein 1; KH domain, cell projection, cytoplasm, nucleus, phosphoprotein, translation regulation; 2.75A {Homo sapiens} Back     alignment and structure
>2jvz_A KH type-splicing, FAR upstream element-binding protein 2; RNA binding protein, KH domain, KSRP, posttranscriptional regulation, mRNA decay; NMR {Homo sapiens} Back     alignment and structure
>1j4w_A FUSE binding protein; single-stranded DNA binding protein; HET: DNA; NMR {Homo sapiens} SCOP: d.51.1.1 d.51.1.1 Back     alignment and structure
>2ctj_A Vigilin; K homology type I domain, RNA-binding, cell sterol metabolism, beta-alpha-alpha-beta-BETA-alpha structure, structural genomics, NPPSFA; NMR {Homo sapiens} SCOP: d.51.1.1 Back     alignment and structure
>2jvz_A KH type-splicing, FAR upstream element-binding protein 2; RNA binding protein, KH domain, KSRP, posttranscriptional regulation, mRNA decay; NMR {Homo sapiens} Back     alignment and structure
>2cpq_A FragIle X mental retardation syndrome related protein 1, isoform B'; KH domain, structural genomics, NPPSFA; NMR {Homo sapiens} SCOP: d.51.1.1 Back     alignment and structure
>2jzx_A Poly(RC)-binding protein 2; PCBP2, KH domains, RNA binding, DNA-binding, nucleus, phosph ribonucleoprotein, RNA-binding, RNA binding protein; NMR {Homo sapiens} Back     alignment and structure
>1j4w_A FUSE binding protein; single-stranded DNA binding protein; HET: DNA; NMR {Homo sapiens} SCOP: d.51.1.1 d.51.1.1 Back     alignment and structure
>2jzx_A Poly(RC)-binding protein 2; PCBP2, KH domains, RNA binding, DNA-binding, nucleus, phosph ribonucleoprotein, RNA-binding, RNA binding protein; NMR {Homo sapiens} Back     alignment and structure
>2anr_A Neuro-oncological ventral antigen 1; protein-RNA complex, KH domain, hairpin, RNA-binding protein complex; HET: 5BU; 1.94A {Homo sapiens} PDB: 2ann_A* Back     alignment and structure
>2anr_A Neuro-oncological ventral antigen 1; protein-RNA complex, KH domain, hairpin, RNA-binding protein complex; HET: 5BU; 1.94A {Homo sapiens} PDB: 2ann_A* Back     alignment and structure
>3krm_A Insulin-like growth factor 2 mRNA-binding protein 1; KH domain, cell projection, cytoplasm, nucleus, phosphoprotein, translation regulation; 2.75A {Homo sapiens} Back     alignment and structure
>3u1k_A Polyribonucleotide nucleotidyltransferase 1, MITO; RNAse PH, KH domain, exoribonuclease; HET: CIT; 2.13A {Homo sapiens} Back     alignment and structure
>1tua_A Hypothetical protein APE0754; structural genomics, protein structure initiative, MCSG, four layers alpha-beta sandwich, PSI; 1.50A {Aeropyrum pernix} SCOP: d.51.1.1 d.51.1.1 Back     alignment and structure
>2e3u_A PH-DIM2P, hypothetical protein PH1566; PRE-ribosomal RNA processing factor, RNA binding protein; 2.30A {Pyrococcus horikoshii} PDB: 3aev_B Back     alignment and structure
>2e3u_A PH-DIM2P, hypothetical protein PH1566; PRE-ribosomal RNA processing factor, RNA binding protein; 2.30A {Pyrococcus horikoshii} PDB: 3aev_B Back     alignment and structure
>4aid_A Polyribonucleotide nucleotidyltransferase; transferase-peptide complex; 2.60A {Caulobacter vibrioides} PDB: 4aim_A 4am3_A Back     alignment and structure
>2qnd_A FMR1 protein; KH domain, eukaryotic KH domains, tandem KH domains, type I domains, fragIle X mental retardation protein, RNA BI protein; 1.90A {Homo sapiens} PDB: 2fmr_A Back     alignment and structure
>3n89_A Defective in GERM LINE development protein 3, ISO; KH domains, RNA binding, cell cycle; 2.79A {Caenorhabditis elegans} Back     alignment and structure
>2ctf_A Vigilin; K homology type I domain, RNA-binding, cell sterol metabolism, beta-alpha-alpha-beta-BETA-alpha structure, structural genomics, NPPSFA; NMR {Homo sapiens} SCOP: d.51.1.1 Back     alignment and structure
>2qnd_A FMR1 protein; KH domain, eukaryotic KH domains, tandem KH domains, type I domains, fragIle X mental retardation protein, RNA BI protein; 1.90A {Homo sapiens} PDB: 2fmr_A Back     alignment and structure
>3cdi_A Polynucleotide phosphorylase; mRNA turnover, RNAse, RNA degradation, kinase, transferase; 2.60A {Escherichia coli} PDB: 1sro_A Back     alignment and structure
>1e3p_A Guanosine pentaphosphate synthetase; polyribonucleotide transferase, ATP-GTP diphosphotransferase RNA processing, RNA degradation; 2.5A {Streptomyces antibioticus} SCOP: a.4.9.1 b.40.4.5 d.14.1.4 d.14.1.4 d.52.3.1 d.101.1.1 d.101.1.1 PDB: 1e3h_A Back     alignment and structure
>1tua_A Hypothetical protein APE0754; structural genomics, protein structure initiative, MCSG, four layers alpha-beta sandwich, PSI; 1.50A {Aeropyrum pernix} SCOP: d.51.1.1 d.51.1.1 Back     alignment and structure
>3v69_A Protein filia; RNA-binding, embryogenesis, KH domain, RNA binding, P binding; 2.20A {Mus musculus} Back     alignment and structure
>3n89_A Defective in GERM LINE development protein 3, ISO; KH domains, RNA binding, cell cycle; 2.79A {Caenorhabditis elegans} Back     alignment and structure
>2z0s_A Probable exosome complex RNA-binding protein 1; alpha/beta protein, cytoplasm, structural genomics, NPPSFA; 3.20A {Aeropyrum pernix} SCOP: b.40.4.5 d.51.1.1 Back     alignment and structure

Homologous Structure Domains

Structure Domains Detected by RPS-BLAST ?

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

ID ?Alignment Graph ?Length ? Definition ? E-value ?
Query 175
d2bl5a1134 d.51.1.1 (A:1-134) Quaking protein A (Xqua) {Afric 1e-47
d1k1ga_122 d.51.1.1 (A:) RNA splicing factor 1 {Human (Homo s 3e-38
d1dtja_74 d.51.1.1 (A:) Neuro-oncological ventral antigen 2, 2e-04
>d2bl5a1 d.51.1.1 (A:1-134) Quaking protein A (Xqua) {African clawed frog (Xenopus laevis) [TaxId: 8355]} Length = 134 Back     information, alignment and structure

class: Alpha and beta proteins (a+b)
fold: Eukaryotic type KH-domain (KH-domain type I)
superfamily: Eukaryotic type KH-domain (KH-domain type I)
family: Eukaryotic type KH-domain (KH-domain type I)
domain: Quaking protein A (Xqua)
species: African clawed frog (Xenopus laevis) [TaxId: 8355]

 Score =  149 bits (378), Expect = 1e-47
 Identities = 58/126 (46%), Positives = 79/126 (62%), Gaps = 5/126 (3%)

Query: 29  RLDVPVDKYPNQFNFVGRILGPRGNSLKRVEAMTECTVFIRGQSSVKDSLKEGKIR---- 84
           +L VPV +YP+ FNFVGRILGPRG + K++EA T C + +RG+ S++D  KE + R    
Sbjct: 5   KLYVPVKEYPD-FNFVGRILGPRGLTAKQLEAETGCKIMVRGKGSMRDKKKEEQNRGKPN 63

Query: 85  YEHLNEPLHVLGEAEFPEDIINSRLDHAVAILENLLKPVDESLDHYKKQQLREFATLNGT 144
           +EHLNE LHVL   E  ++    +L  AV  ++ LL P  E  D  KK +L E A LNGT
Sbjct: 64  WEHLNEDLHVLITVEDAQNRAELKLKRAVEEVKKLLVPAAEGEDSLKKMKLMELAILNGT 123

Query: 145 LREESP 150
            R+ + 
Sbjct: 124 YRDANL 129
>d1k1ga_ d.51.1.1 (A:) RNA splicing factor 1 {Human (Homo sapiens) [TaxId: 9606]} Length = 122 Back     information, alignment and structure
>d1dtja_ d.51.1.1 (A:) Neuro-oncological ventral antigen 2, nova-2, KH3 {Human (Homo sapiens) [TaxId: 9606]} Length = 74 Back     information, alignment and structure

Homologous Domains Detected by HHsearch ?

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

ID ?Alignment Graph ?Length ? Definition ? Probability ?
Query175
d2bl5a1134 Quaking protein A (Xqua) {African clawed frog (Xen 100.0
d1k1ga_122 RNA splicing factor 1 {Human (Homo sapiens) [TaxId 100.0
d1dtja_74 Neuro-oncological ventral antigen 2, nova-2, KH3 { 99.0
d1x4ma181 Far upstream binding element, FBP {Mouse (Mus musc 98.92
d2cpqa178 Fragile X mental retardation syndrome related prot 98.9
d1j4wa271 Far upstream binding element, FBP {Human (Homo sap 98.87
d1zzka175 HnRNP K, KH3 {Human (Homo sapiens) [TaxId: 9606]} 98.84
d1j4wa174 Far upstream binding element, FBP {Human (Homo sap 98.82
d1x4na179 Far upstream binding element, FBP {Mouse (Mus musc 98.81
d1we8a_104 Tudor and KH domain containing protein, Tdrkh {Mou 98.79
d1wvna170 Poly(RC)-binding protein 1 {Human (Homo sapiens) [ 98.75
d2ctka191 Vigilin {Human (Homo sapiens) [TaxId: 9606]} 98.74
d1tuaa2104 Hypothetical protein APE0754 {Aeropyrum pernix [Ta 98.69
d2z0sa287 Exosome complex RNA-binding protein 1, ECR1 {Aerop 98.67
d2axya171 Poly(RC)-binding protein 2 {Human (Homo sapiens) [ 98.66
d2ctma181 Vigilin {Human (Homo sapiens) [TaxId: 9606]} 98.64
d1tuaa184 Hypothetical protein APE0754 {Aeropyrum pernix [Ta 98.63
d2je6i369 Exosome complex RNA-binding protein 1, ECR1 {Sulfo 98.62
d2ba0a384 Exosome complex RNA-binding protein 1, ECR1 {Archa 98.62
d2ctea181 Vigilin {Human (Homo sapiens) [TaxId: 9606]} 98.61
d1viga_71 Vigilin {Human (Homo sapiens) [TaxId: 9606]} 98.6
d2ctla184 Vigilin {Human (Homo sapiens) [TaxId: 9606]} 98.42
d2ctja182 Vigilin {Human (Homo sapiens) [TaxId: 9606]} 98.28
d1e3ha454 Polynucleotide phosphorylase/guanosine pentaphosph 98.26
d2ctfa190 Vigilin {Human (Homo sapiens) [TaxId: 9606]} 98.08
d2ja9a285 Ribosomal RNA-processing protein 40, RRP40 {Saccha 92.55
>d2bl5a1 d.51.1.1 (A:1-134) Quaking protein A (Xqua) {African clawed frog (Xenopus laevis) [TaxId: 8355]} Back     information, alignment and structure
class: Alpha and beta proteins (a+b)
fold: Eukaryotic type KH-domain (KH-domain type I)
superfamily: Eukaryotic type KH-domain (KH-domain type I)
family: Eukaryotic type KH-domain (KH-domain type I)
domain: Quaking protein A (Xqua)
species: African clawed frog (Xenopus laevis) [TaxId: 8355]

Probab=100.00  E-value=4.8e-52  Score=322.82  Aligned_cols=128  Identities=45%  Similarity=0.692  Sum_probs=120.9

Q ss_pred             eEEEEEEccCCCCCCCcceeEEEeCCCCchHHHHHhhhCceEEEeccCCCCCccccC----CCCCCCCCCCcEEEEEeeC
Q 030537           25 KRVIRLDVPVDKYPNQFNFVGRILGPRGNSLKRVEAMTECTVFIRGQSSVKDSLKEG----KIRYEHLNEPLHVLGEAEF  100 (175)
Q Consensus        25 k~~~Ki~IPv~~yP~~~NfvGrIiGPrG~TlK~ie~eTgckI~IRGkGS~k~~~~e~----~p~~e~~~epLHV~Isa~~  100 (175)
                      |+++|||||+++||+ |||+|+||||||+|+|+||++|||||+||||||++++++++    .++++|++|||||+|++++
T Consensus         1 kl~eKv~IP~~~~P~-~NfvG~IiGPrG~t~K~le~eTg~kI~IrGrGS~k~~~~~~~~~~~~~~~~~~epLHv~I~a~~   79 (134)
T d2bl5a1           1 QLQEKLYVPVKEYPD-FNFVGRILGPRGLTAKQLEAETGCKIMVRGKGSMRDKKKEEQNRGKPNWEHLNEDLHVLITVED   79 (134)
T ss_dssp             CEEEEEECCTTTCSS-SCHHHHHTTTTHHHHHHHHHHHSEEEEEESTTSSCCHHHHHTSTTSHHHHTTTSCCEEEEEECS
T ss_pred             CcceEEeCCCCCCCC-CCeeEEEECCCCchHHHHHHHHCCEEEEEecCCCcCccccccccCCCCCcCCCCCCEEEEEecC
Confidence            678999999999999 99999999999999999999999999999999999988765    4567899999999999999


Q ss_pred             chhhHHHHHHHHHHHHHhccCCCCcchHHHHHHHHHHHHHhcCccCCCCCCCC
Q 030537          101 PEDIINSRLDHAVAILENLLKPVDESLDHYKKQQLREFATLNGTLREESPSMS  153 (175)
Q Consensus       101 ~~~~~~~~l~~A~e~Ie~lL~p~~e~~de~K~~QL~eLA~lNGt~r~~~~~~~  153 (175)
                      ++..|+.+|++|+++|++||.|+++++|++|++||+|||+||||||+++..++
T Consensus        80 ~~~~a~~kl~~A~~~I~~lL~p~~e~~de~k~~QL~eLa~lNGt~r~~~~~~~  132 (134)
T d2bl5a1          80 AQNRAELKLKRAVEEVKKLLVPAAEGEDSLKKMKLMELAILNGTYRDANLKSP  132 (134)
T ss_dssp             CCHHHHHHHHHHHHHHHHHSSCCSSSSSHHHHHHHTGGGSSSTTTSGGGGSCT
T ss_pred             cHHHHHHHHHHHHHHHHHHcCCCccchHHHHHHHHHHHHHhcCccccccCCCC
Confidence            99999999999999999999999999999999999999999999999987653
>d1k1ga_ d.51.1.1 (A:) RNA splicing factor 1 {Human (Homo sapiens) [TaxId: 9606]} Back     information, alignment and structure
>d1dtja_ d.51.1.1 (A:) Neuro-oncological ventral antigen 2, nova-2, KH3 {Human (Homo sapiens) [TaxId: 9606]} Back     information, alignment and structure
>d1x4ma1 d.51.1.1 (A:8-88) Far upstream binding element, FBP {Mouse (Mus musculus) [TaxId: 10090]} Back     information, alignment and structure
>d2cpqa1 d.51.1.1 (A:212-289) Fragile X mental retardation syndrome related protein 1, FXR1 {Human (Homo sapiens) [TaxId: 9606]} Back     information, alignment and structure
>d1j4wa2 d.51.1.1 (A:104-174) Far upstream binding element, FBP {Human (Homo sapiens) [TaxId: 9606]} Back     information, alignment and structure
>d1zzka1 d.51.1.1 (A:11-85) HnRNP K, KH3 {Human (Homo sapiens) [TaxId: 9606]} Back     information, alignment and structure
>d1j4wa1 d.51.1.1 (A:1-74) Far upstream binding element, FBP {Human (Homo sapiens) [TaxId: 9606]} Back     information, alignment and structure
>d1x4na1 d.51.1.1 (A:8-86) Far upstream binding element, FBP {Mouse (Mus musculus) [TaxId: 10090]} Back     information, alignment and structure
>d1we8a_ d.51.1.1 (A:) Tudor and KH domain containing protein, Tdrkh {Mouse (Mus musculus) [TaxId: 10090]} Back     information, alignment and structure
>d1wvna1 d.51.1.1 (A:5-74) Poly(RC)-binding protein 1 {Human (Homo sapiens) [TaxId: 9606]} Back     information, alignment and structure
>d2ctka1 d.51.1.1 (A:8-98) Vigilin {Human (Homo sapiens) [TaxId: 9606]} Back     information, alignment and structure
>d1tuaa2 d.51.1.1 (A:85-188) Hypothetical protein APE0754 {Aeropyrum pernix [TaxId: 56636]} Back     information, alignment and structure
>d2z0sa2 d.51.1.1 (A:148-234) Exosome complex RNA-binding protein 1, ECR1 {Aeropyrum pernix [TaxId: 56636]} Back     information, alignment and structure
>d2axya1 d.51.1.1 (A:11-81) Poly(RC)-binding protein 2 {Human (Homo sapiens) [TaxId: 9606]} Back     information, alignment and structure
>d2ctma1 d.51.1.1 (A:8-88) Vigilin {Human (Homo sapiens) [TaxId: 9606]} Back     information, alignment and structure
>d1tuaa1 d.51.1.1 (A:1-84) Hypothetical protein APE0754 {Aeropyrum pernix [TaxId: 56636]} Back     information, alignment and structure
>d2je6i3 d.51.1.1 (I:153-221) Exosome complex RNA-binding protein 1, ECR1 {Sulfolobus solfataricus [TaxId: 2287]} Back     information, alignment and structure
>d2ba0a3 d.51.1.1 (A:136-219) Exosome complex RNA-binding protein 1, ECR1 {Archaeoglobus fulgidus [TaxId: 2234]} Back     information, alignment and structure
>d2ctea1 d.51.1.1 (A:8-88) Vigilin {Human (Homo sapiens) [TaxId: 9606]} Back     information, alignment and structure
>d1viga_ d.51.1.1 (A:) Vigilin {Human (Homo sapiens) [TaxId: 9606]} Back     information, alignment and structure
>d2ctla1 d.51.1.1 (A:8-91) Vigilin {Human (Homo sapiens) [TaxId: 9606]} Back     information, alignment and structure
>d2ctja1 d.51.1.1 (A:8-89) Vigilin {Human (Homo sapiens) [TaxId: 9606]} Back     information, alignment and structure
>d1e3ha4 d.52.3.1 (A:579-632) Polynucleotide phosphorylase/guanosine pentaphosphate synthase (PNPase/GPSI), domain 6 {Streptomyces antibioticus [TaxId: 1890]} Back     information, alignment and structure
>d2ctfa1 d.51.1.1 (A:7-96) Vigilin {Human (Homo sapiens) [TaxId: 9606]} Back     information, alignment and structure
>d2ja9a2 d.51.1.1 (A:152-236) Ribosomal RNA-processing protein 40, RRP40 {Saccharomyces cerevisiae [TaxId: 4932]} Back     information, alignment and structure