Citrus Sinensis ID: 005276

Local Sequence Feature Prediction

Prediction and (Method)Result
Residue Number Marker
Protein Sequence ?
Secondary Structure (PSIPRED) ?
Secondary Structure Prediction (SSPRO) ?
Coil and Loop (DISEMBL) ?
Flexible Loop (DISEMBL) ?
Low Complexity Region (SEG) ?
Disordered region (IsUnstruct) ?
Disordered Region (DISOPRED) ?
Disordered Region (DISEMBL) ?
Disordered Region (DISPRO) ?
Transmembrane Helix (TMHMM) ?
Transmembrane Helix (HMMTOP) ?
Transmembrane Helix (MEMSAT) ?
TM Helix, Signal Peptide (MEMSAT_SVM) ?
TM Helix, Signal Peptide (Phobius) ?
Signal Peptide (SignalP HMM Mode) ?
Signal Peptide (SignalP NN Mode) ?
Coiled Coils (COILS) ?
Positional Conservation ?
 
--------10--------20--------30--------40--------50--------60--------70--------80--------90-------100-------110-------120-------130-------140-------150-------160-------170-------180-------190-------200-------210-------220-------230-------240-------250-------260-------270-------280-------290-------300-------310-------320-------330-------340-------350-------360-------370-------380-------390-------400-------410-------420-------430-------440-------450-------460-------470-------480-------490-------500-------510-------520-------530-------540-------550-------560-------570-------580-------590-------600-------610-------620-------630-------640-------650-------660-------670-------680-------690-------700----
MGSKNKNKRKNRSKDGSDNNKNKKIITDSRFASVHSDPRFQNVPKQKSKVAIDSRFDRMFTDKNFASSTAPFDKRGKPKKNLKTSKSSLQHYYRIEAEDKKSDEDEEIEEEERRNETDSESELKEAADVSSGSGTEEEDDDDVSESTTDDEEEDVDFDEGPEEEEEAIPEIDNETHRLAIVNMDWRHVKAVDLLVILSSFLPKDGQILSVAVYPSEFGIQRMKEEEVRGPVGLFDSQNENSDDEDNDEIDEEKLRAYEKSRLRYYYAVVECDSSATADYLYRACDGVEFERSSNKLDLRFIPDTMEFKYPPRDVATEAPANYGGLDFFTKALQHSNVQLSWDDDEPDRVKTLKRKFNADQVAELELKEFLASDESETDDEDDNVADEQSDKKSKKQDKYRALLESGDGSDEDGEEDGQDMEVTFNTGLEDISKRILEKKDKKSETIWEAYLRKRREKKKAGKNKSKYSSDDEASDTDREAIEEPDDFFVEEPKGKKGEEAGGNHRREEKEQQDTDKEATASTAELELLLADDKGAENGLKGYNMKPKKRKGKKGKEVPDEDKIPTADYDDPRFSALFTSPLFALDPTDPQFKRSAVYARQIAQKKQKGDQREQVIRESTKIPTNAQMPSDDPDRHRHMKSDVSSLKRENHEVSLLVKSLKMKSKQIQLPSEPKKDEGVQSKEVEENNGLSNLVQSLKKTKKLKK
cccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccHHHHHHHHHHHHccccccHHHHHHHHHHHcccHHHHHHHHHHccccccccccccccccccccccccccccccccccccccccccccccccccEEEEEcccccccHHHHHHHHHccccccccEEEEEEEEcHHHHHHHHHHHHccccccccccccccccccccHHHHHHHHHHHHHHHccEEEEEEEccHHHHHHHHHHcccccHHcccccccccccccccccccccccccccccccccccHHHHHHHccccccccccccHHHHHHHHHHHccHHHHHHHHHHHHHcccccccccccccccHHHHHHHHHHHHHHHHHHcccccccccccccccccEEEEcccccHHHHHHHHHcccccccHHHHHHHHHHHHHHHcccccccccccccccccccccccccccccccccccccccccccccHHHHHccccHHHHHHHHHHHHHHHHccccccccccccccHHHHHHccccccccccccccccccccccccccccccccccccccccccccHHHHHHHHHHHHHHHHHHHHHHcccccccccccccccccccccccccccccccccHHHHHHHHHHHHHHHHccccccccccccccHHHHHHHHccHHHHHHHHHHHHccc
ccccccccccccccccccccccccccccHHHHHHccccccccccccccEEEEcHHHHHHccccccccccccccccccEcccccccHHHHHHHHccccccccccHHHHHHHHHHHHcccHHHHHHccccHcccccccccccccccccccccccccccHHHcHHHHHcccccccccccEEEEEEcccHHccHHHHHHHHHHccccccEEEEEEEEccHHHHHHHHHHHccccHHHHccccccccccccccccHHHHHHHHHHHHHEEEEEEEcccHHHHHHHHHHccccEEEccccEEEEEEccccccccccccccHccccccccccHHHHHHHHcccEEEEcccccHHHHHHHHHHccHHHHHHHHHHHHHccccccccccccccccccccHHHHHHHHHHHHHHHccccccccccccccEEEEEcccHHHHHHHHHcccccccccHHHHHHHHHHHHHHHHHHHHHHHHcccccccccccccccccccccccccccHHHHHHHHHHHccccccccHHHHHHHHHHHHHHHcccccccccccccHHHHHHHHHHHccccccccccccccccHHHHHHHccccccccccccccccHHHHHHHHHHHHHHHHHccccccccccccccccccccccHHHHHHHHHHHccccccHHHHHHHHHHHHHHHHHccccccccccccccccccccccHHHHHHHccccccccc
mgsknknkrknrskdgsdnnknkkiitdsrfasvhsdprfqnvpkqkskvAIDSRFdrmftdknfasstapfdkrgkpkknlktskSSLQHYYRIeaedkksdedeEIEEEerrnetdseselkeaadvssgsgteeeddddvsesttddeeedvdfdegpeeeeeaipeidneTHRLAIVNMDWRHVKAVDLLVILSsflpkdgqilsvavypsefgiqrmkeeevrgpvglfdsqnensddedndeiDEEKLRAYEKSRLRYYYAVVECDSSATADYLYRACdgveferssnkldlrfipdtmefkypprdvateapanyggldFFTKALQHsnvqlswdddepDRVKTLKRKFNADQVAELELKEFlasdesetddeddnvadeqsdkkskkQDKYRALLesgdgsdedgeedgqDMEVTFNTGLEDISKRILEKKDKKSETIWEAYLRKRREKKkagknkskyssddeasdtdreaieepddffveepkgkkgeeaggnhrreekeqqdtdkeATASTAELELLLADdkgaenglkgynmkpkkrkgkkgkevpdedkiptadyddprfsalftsplfaldptdpqfkrSAVYARQIAQKKQKGDQREQVIREstkiptnaqmpsddpdrhrhmksdvsslkrenHEVSLLVKSLKMKskqiqlpsepkkdegvqskeveenngLSNLVQSLKKTKKLKK
mgsknknkrknrskdgsdnnknkkiitdsrfasvhsdprfqnvpkqkskvaidSRFDRmftdknfasstapfdkrgkpkknlktsksslqhyyrieaedkksdedeeieeeerrnetdseselkeaadvssgsgteeeddddvsesttddeeedvdfdegpeeeeeaipeidneTHRLAIVNMDWRHVKAVDLLVILSsflpkdgqilSVAVYPSEFGIQRMKEEEVRgpvglfdsqnensddedndeideEKLRAYEKSRLRYYYAVVECDSSATADYLYRACDgveferssnkldlrfipDTMEFKYPPRDVATEAPANYGGLDFFTKALQHSNVQLSWDDDEPDRVKTLKRKFNADQVAELELKEflasdesetddeddnvadeqsdkkskkqdkyRALLesgdgsdedgeedgQDMEVTfntglediskrilekkdkksetiWEAYLRkrrekkkagknkskyssddeasdtdreaieepddffveepkgkkgeeaggnhrreekeqqdtdkeATASTAELEllladdkgaenglkgynmkpkkrkgkkgkevpdedkiptadyddprFSALFTSPLFALDPTDPQFKRSAVYARQIaqkkqkgdqreqvirestkiptnaqmpsddpdrhRHMKSdvsslkrenHEVSLLVKslkmkskqiqlpsepkkdegvqskeveennglsnlvqslkktkklkk
MGsknknkrknrskdgsdnnknkkIITDSRFASVHSDPRFQNVPKQKSKVAIDSRFDRMFTDKNFASSTAPFDKRGKPKKNLKTSKSSLQHYYRieaedkksdedeeieeeerrnetdseseLKEAAdvssgsgteeeddddvsesttddeeedvdfdegpeeeeeAIPEIDNETHRLAIVNMDWRHVKAVDLLVILSSFLPKDGQILSVAVYPSEFGIQRMKEEEVRGPVGLFDSQnensddedndeideeKLRAYEKSRLRYYYAVVECDSSATADYLYRACDGVEFERSSNKLDLRFIPDTMEFKYPPRDVATEAPANYGGLDFFTKALQHSNVQLSWDDDEPDRVKTLKRKFNADQVAELELKEFLAsdesetddeddNVADEqsdkkskkqdkYRALLesgdgsdedgeedgQDMEVTFNTGLEDISKRILEKKDKKSETIWEAYLrkrrekkkagknkskyssDDEASDTDREAIEEPDDFFVeepkgkkgeeaggNHRREEKEQQDTDKeatastaelelllaDDKGAENGLkgynmkpkkrkgkkgkEVPDEDKIPTADYDDPRFSALFTSPLFALDPTDPQFKRSAVYARQIAQKKQKGDQREQVIRESTKIPTNAQMPSDDPDRHRHMKSDVSSLKRENHEvsllvkslkmkskQIQLPSEPKKDEGVQSKEVEENNGLSNLVQSlkktkklkk
******************************************************************************************************************************************************************************THRLAIVNMDWRHVKAVDLLVILSSFLPKDGQILSVAVYPSEFGIQ************************************YEKSRLRYYYAVVECDSSATADYLYRACDGVEFERSSNKLDLRFIPDTMEFKYPPRDVATEAPANYGGLDFFTKALQHSNVQLSW****************************************************************************************************************************************************************************************************************************************SALFTSPLFAL************************************************************************************************************************
********************************SVHSDP*************************************************************************************************************************************DNETHRLAIVNMDWRHVKAVDLLVILSSFLPKDGQILSVAVYPSE**********************************EEKLRAYEKSRLRYYYAVVECDSSATADYLYRACDGVEFERSSNKLDLRFIPDTMEFKYPPRDVATEAPANYGGLDFFTKALQHSNVQLSWDDDEPDRVKTLK***N***VAEL**********************************************************************************************************************************************************************************************************DYDDPRFSALFTSPLFALDPTDPQFKRSA*************************************************************************************************************
*******************NKNKKIITDSRFASVHSDPRFQNVPKQKSKVAIDSRFDRMFTDKNFASSTAPF*************KSSLQHYYRIEAE*********************************************************************IPEIDNETHRLAIVNMDWRHVKAVDLLVILSSFLPKDGQILSVAVYPSEFGIQRMKEEEVRGPVGLFDSQ************DEEKLRAYEKSRLRYYYAVVECDSSATADYLYRACDGVEFERSSNKLDLRFIPDTMEFKYPPRDVATEAPANYGGLDFFTKALQHSNVQLSWDDDEPDRVKTLKRKFNADQVAELELKEFLA**********************************************QDMEVTFNTGLEDISKRILEKKDKKSETIWEAYLRKR************************EAIEEPDDFFVEEPKG*************************ASTAELELLLADDKGAENGLKGYNMK**************EDKIPTADYDDPRFSALFTSPLFALDPTDPQFKRSAVY****************VIRESTKIPT************************ENHEVSLLVKSLK**********************VEENNGLSNLVQSLKKTKKLKK
**************************TDSRFASVHSDPRFQNVPKQKSKVAIDSRFDRMFTDKNFASSTAPFDKRGKPKKNLKTSKSSLQHYYRIEA**********************************************************************IPEIDNETHRLAIVNMDWRHVKAVDLLVILSSFLPKDGQILSVAVYPSEFGIQRMKEEEVRGPVGLFDS*********NDEIDEEKLRAYEKSRLRYYYAVVECDSSATADYLYRACDGVEFERSSNKLDLRFIPDTMEFKYPPRDVATEAPANYGGLDFFTKALQHSNVQLSWDDDEPDRVKTLKRKFNADQVAELELKEFLA*************************DKYRALLESGDGSDE*G*EDGQDMEVTFNTGLEDISKRIL*****KSETIWEAYLRKRREKKK******************************************************************ELLLADDKGAENGLKGYNMKPKKRKGKKG********IPTADYDDPRFSALFTSPLFALDPTDPQFKRSAVYARQIAQKKQK*****************************************NHEVSLLVKSLKMKSKQIQ*************************************
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MGSKNKNKRKNRSKDGSDNNKNKKIITDSRFASVHSDPRFQNVPKQKSKVAIDSRFDRMFTDKNFASSTAPFDKRGKPKKNLKTSKSSLQHYYxxxxxxxxxxxxxxxxxxxxxNETDSESELKEAADVSSGSGTEEEDDDDVSESTTDDEEEDVDFDEGPEEEEEAIPEIDNETHRLAIVNMDWRHVKAVDLLVILSSFLPKDGQILSVAVYPSEFGIQRMKEEEVRGPVGLFDSQNENSDDEDNDEIDEEKLRAYEKSRLRYYYAVVECDSSATADYLYRACDGVEFERSSNKLDLRFIPDTMEFKYPPRDVATEAPANYGGLDFFTKALQHSNVQLSWDDDEPDRVKTLKRKFNADQVAELELKEFLASDESETDDEDDNVADEQSDKKSKKQDKYRALLESGDGSDEDGEEDGQDMEVTFNTGLEDISKRILEKKDKKSETIWEAYLRKRREKKKAGKNKSKYSSDDEASDTDREAIEEPDDFFVEEPKGKKGEEAGGNHRREEKEQQDTDKEATASTAELELLLADDKGAENGLKGYNMKPKKRKGKKGKEVPDEDKIPTADYDDPRFSALFTSPLFALDPTDPQFKRSAVYARQIAQKKQKGDQREQVIRESTKIPTNAQMPSDDPDRHRHMKSDVSSLKRENHEVSLLVKSLKMKSKQIQLPSEPKKDEGVQSKEVEENNGLSNLVQSLKKTKKLKK
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 ?
Query704 2.2.26 [Sep-21-2011]
O74828682 Pre-rRNA-processing prote yes no 0.798 0.824 0.356 1e-74
Q06344628 Pre-rRNA-processing prote yes no 0.742 0.832 0.325 4e-64
Q76MT4842 ESF1 homolog OS=Rattus no yes no 0.723 0.604 0.349 2e-63
Q9H501851 ESF1 homolog OS=Homo sapi yes no 0.714 0.591 0.341 2e-62
Q3V1V3845 ESF1 homolog OS=Mus muscu yes no 0.813 0.678 0.304 1e-58
Q756J5619 Pre-rRNA-processing prote yes no 0.339 0.386 0.397 2e-51
>sp|O74828|ESF1_SCHPO Pre-rRNA-processing protein esf1 OS=Schizosaccharomyces pombe (strain 972 / ATCC 24843) GN=esf1 PE=1 SV=1 Back     alignment and function desciption
 Score =  281 bits (720), Expect = 1e-74,   Method: Compositional matrix adjust.
 Identities = 234/657 (35%), Positives = 331/657 (50%), Gaps = 95/657 (14%)

Query: 25  IITDSRFASVHSDPRFQNVPKQKSKVAIDSRFDRMFTDKNFASSTAPFDKRGKPKKNLKT 84
           ++ D RF SVHSDPRF  + +   KV +D RF  +  DK+F  +TA  D+ G+P    K 
Sbjct: 19  VVADPRFQSVHSDPRFSRLKRGNFKVKVDERFKSLKEDKDF-KTTASVDRYGRPLNQDKA 77

Query: 85  SKSSLQHYYRIEAEDKKSDEDEEIEEEERRNE-----------TDSESELKEAADVSSGS 133
           +K   + Y         S E  EI + E               TD ESE +E  D + G 
Sbjct: 78  TKEIDRLYELENEGSSSSSESSEITDNEEVASASSKSTKSEELTDEESEDEEVYDPARGE 137

Query: 134 GT---EEEDDDDVSESTTDDEEEDVDFDEGPEEEEEAIPEIDNETHRLAIVNMDWRHVKA 190
           G     E  D+  +ES T+ + E  +      E EE IP   +ET+RLA+VNMDW +++A
Sbjct: 138 GIISTSESSDESDAESETEAQPEISEL--AGIEPEENIPR-GSETNRLAVVNMDWDNLQA 194

Query: 191 VDLLVILSSFLPKDGQILSVAVYPSEFGIQRMKEEEVRGP-------------------- 230
           VDL V LSSF P  G++L V++YPSEFG  RM  E V+GP                    
Sbjct: 195 VDLFVALSSFCPPGGKLLKVSIYPSEFGKSRMAAEHVQGPPRDIFTPADNQPSSAELHEA 254

Query: 231 --VGLFDSQNENSDDED-------NDEIDEEKLRAYEKSRLRYYYAVVECDSSATADYLY 281
              G FD+   + D+ED        +E D  KLR Y+  RLRYYYAVVECDS  TA  +Y
Sbjct: 255 QKFG-FDNNESDQDEEDALIEEDLGNEFDMVKLRQYQLERLRYYYAVVECDSVRTAKVIY 313

Query: 282 RACDGVEFERSSNKLDLRFIPDTMEF-KYPPRDVATEAPANYGGLDFFTKALQHSNVQLS 340
             CDG E+E S+N  DLRFIPD + F     R+V T+AP  Y   DF T ALQHS V+LS
Sbjct: 314 ETCDGAEYETSANIYDLRFIPDDVTFDDDESREVCTKAPEKYEPRDFVTDALQHSKVKLS 373

Query: 341 WDDDEPDRVKTLKRKFNADQVAELELKEFLASDESETDDEDDNVADEQSDKKSKKQDKYR 400
           WD ++P R   +K+ F +  + +L+   ++AS ESE  DED +V           + +Y+
Sbjct: 374 WDAEDPHRKDLIKKAFTSQDIEDLDFSAYIASSESE--DEDVDVI----------RSRYQ 421

Query: 401 ALLESGDGSD---------EDGEEDGQD--MEVTFNTGLEDISKRILEKKDKKSETIWEA 449
            LL SGD  D         +D + +G +  MEVTF +G  D+         +K ET  E 
Sbjct: 422 KLL-SGDADDFQANSNPFEDDDKLEGANGEMEVTFTSGF-DVDNNA--NSSEKDETTIEK 477

Query: 450 YLRKRREKKKAGK--NKSKYSSDDEASDTDREAIEEPDDFFVEEPKGKKGEEAGGNHRRE 507
           Y RK  E+K+  K   + K + DDE   +D        D   ++P  K  + +  N + +
Sbjct: 478 YKRKAAERKQRRKELRQLKKTKDDEGEGSDV-------DLGFDDPFFKDKDASRNNKKNK 530

Query: 508 EKEQQDTDKEATASTAELELLLADDKGAENGLKGYNMKPKKRKGKKGKEVPDEDKIPT-- 565
           + +    +    AS  ELE L+ +D+     L  ++MK   +  K  K    + K     
Sbjct: 531 KGKHTQIEDPTAASKEELENLVREDENDSEQLDHFDMKSILKAEKFKKNRKLKKKASNLE 590

Query: 566 -------ADYDDPRFSALFTSPLFALDPTDPQFKRSAVYARQIAQ-KKQKGDQREQV 614
                  AD  DPRF+AL+T+  FALDPT+P FKR+    + + + +K++ +Q EQ 
Sbjct: 591 GLQEGFEADVSDPRFAALYTNHNFALDPTNPHFKRTKTVEKIMDESRKRRSNQLEQT 647
Involved in the 18S rRNA synthesis. Required for the early cleavages at sites A0, A1 and A2.
Schizosaccharomyces pombe (strain 972 / ATCC 24843) (taxid: 284812)
>sp|Q06344|ESF1_YEAST Pre-rRNA-processing protein ESF1 OS=Saccharomyces cerevisiae (strain ATCC 204508 / S288c) GN=ESF1 PE=1 SV=1 Back     alignment and function description
>sp|Q76MT4|ESF1_RAT ESF1 homolog OS=Rattus norvegicus GN=Esf1 PE=1 SV=1 Back     alignment and function description
>sp|Q9H501|ESF1_HUMAN ESF1 homolog OS=Homo sapiens GN=ESF1 PE=1 SV=1 Back     alignment and function description
>sp|Q3V1V3|ESF1_MOUSE ESF1 homolog OS=Mus musculus GN=Esf1 PE=1 SV=1 Back     alignment and function description
>sp|Q756J5|ESF1_ASHGO Pre-rRNA-processing protein ESF1 OS=Ashbya gossypii (strain ATCC 10895 / CBS 109.51 / FGSC 9923 / NRRL Y-1056) GN=ESF1 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 ?
Query704
359496964726 PREDICTED: pre-rRNA-processing protein e 0.980 0.950 0.606 0.0
296084697738 unnamed protein product [Vitis vinifera] 0.970 0.925 0.608 0.0
255586854722 Pre-rRNA-processing protein ESF1, putati 0.931 0.908 0.623 0.0
449477946735 PREDICTED: pre-rRNA-processing protein e 0.920 0.881 0.596 0.0
449433022740 PREDICTED: pre-rRNA-processing protein e 0.920 0.875 0.592 0.0
356559250696 PREDICTED: pre-rRNA-processing protein e 0.938 0.949 0.570 0.0
356502684695 PREDICTED: ESF1 homolog [Glycine max] 0.938 0.951 0.569 0.0
145337843713 uncharacterized protein [Arabidopsis tha 0.893 0.882 0.528 1e-163
357476435737 Pre-rRNA-processing protein ESF1 [Medica 0.930 0.888 0.540 1e-158
224134000485 predicted protein [Populus trichocarpa] 0.623 0.905 0.709 1e-152
>gi|359496964|ref|XP_002269957.2| PREDICTED: pre-rRNA-processing protein esf1-like [Vitis vinifera] Back     alignment and taxonomy information
 Score =  772 bits (1993), Expect = 0.0,   Method: Compositional matrix adjust.
 Identities = 446/735 (60%), Positives = 559/735 (76%), Gaps = 45/735 (6%)

Query: 1   MGSKNKNKRKNR--------SKDGSDNNKNK---KIITDSRFASVHSDPRFQNVPKQKSK 49
           MGSK  N RK +        S  G+++ ++K   KI+TD+RF+S+HSDPRFQ VPK K+K
Sbjct: 1   MGSKKSNDRKKKEKEKEESDSAGGAEDRRSKNGGKIVTDARFSSLHSDPRFQKVPKHKTK 60

Query: 50  VAIDSRFDRMFTDKNFASSTAPFDKRGKPKKNLKTSKSSLQHYYRIEAEDKKSDEDEEIE 109
           V IDSRF+RMF DK+F SS+AP DKRGKPKK+   S ++L HYYR+E ++++  + E   
Sbjct: 61  VEIDSRFNRMFHDKSFTSSSAPLDKRGKPKKD--RSGNTLSHYYRLEEQEEEEKKKEISS 118

Query: 110 EEERR---------NETDSESELKEAADVSSGSGTEEEDDDDVSESTTDDEEEDVDFDEG 160
           EE+           +E+D ESEL       SG+  + E D   + S TD+E++ V  +E 
Sbjct: 119 EEDEDENEIRKLSASESDGESEL-------SGAEYDSESDASSTGSDTDEEDDGVYSEEE 171

Query: 161 PEEEEEAIPEIDNETHRLAIVNMDWRHVKAVDLLVILSSFLPKDGQILSVAVYPSEFGIQ 220
              +EE IP I+ ETHRLA+VNM+WR VKAVDL ++LSSFLPKDG ILSVA+YPSEFG++
Sbjct: 172 SPAQEENIPVIEQETHRLAVVNMEWRQVKAVDLFMVLSSFLPKDGHILSVAIYPSEFGLK 231

Query: 221 RMKEEEVRGPVGLFDSQNENSDDEDNDEIDEEKLRAYEKSRLRYYYAVVECDSSATADYL 280
           RM+EE V GP+GLFD + E SDD+ ++EID+EKLRAYEKSRL YYYAVV+CDSSATADYL
Sbjct: 232 RMEEEAVHGPIGLFDDEKEQSDDDGDNEIDDEKLRAYEKSRLSYYYAVVDCDSSATADYL 291

Query: 281 YRACDGVEFERSSNKLDLRFIPDTMEFKYPPRDVATEAPANYGGLDFFTKALQHSNVQLS 340
           Y+ACDG+EFERSSN LDLRFIPD+MEFK+PP D+ATEAPA Y GLDF T+ALQHS + +S
Sbjct: 292 YKACDGIEFERSSNVLDLRFIPDSMEFKHPPHDIATEAPAKYEGLDFHTRALQHSKIHIS 351

Query: 341 WDDDEPDRVKTLKRKFNADQVAELELKEFLAS--DESETDDEDDNVADEQSDKKSKKQDK 398
           WD+DEP R KTLKRK+N D+VAEL +KEFLAS  DESET   DDN  D+QSDK+ K+Q+K
Sbjct: 352 WDEDEPQRAKTLKRKYNDDEVAELAMKEFLASDTDESET---DDNENDDQSDKEHKRQNK 408

Query: 399 YRALLESGDGSDEDGEEDGQDMEVTFNTGLEDISKRILEKKDKKSETIWEAYLRKRREKK 458
           Y ALLESGDGSD D EEDGQDMEVTFNTGLEDISKRILEK++KKSET+WEAYL+KR EK+
Sbjct: 409 YLALLESGDGSDRDDEEDGQDMEVTFNTGLEDISKRILEKREKKSETVWEAYLKKRSEKR 468

Query: 459 KAGKNKSKYSSDDEASDTDREAIEEPDDFFVEE--PKGKKGEEAGGNHRREEKEQQDTDK 516
           KA KN+SKYSS+DE+ DTD+E +E+PDDFFVEE   KG K    G N ++++K QQ+T K
Sbjct: 469 KARKNRSKYSSEDESDDTDQELMEQPDDFFVEEHSAKGTKEVTQGKNDKKKKKLQQETGK 528

Query: 517 EATASTAELELLLADDKGAENGLKGYNMKPKKRKGKKGKEVPDEDKIPTADYDDPRFSAL 576
           EA  S AELELLLAD++GA+  +KGYN+K KK KG+KG+E PDEDKIP  DYDDPRFS+L
Sbjct: 529 EAEVSRAELELLLADEEGADTSVKGYNLKRKKSKGRKGQEAPDEDKIPAVDYDDPRFSSL 588

Query: 577 FTSPLFALDPTDPQFKRSAVYARQIAQK-KQKGDQREQVIRESTKIPTNAQMPSDDPDRH 635
           FTSPLFALDPTDPQFKRSA YARQ+AQK +QK D      +E+ K+    +  SD P+ +
Sbjct: 589 FTSPLFALDPTDPQFKRSATYARQLAQKQQQKSDGDALRGKEAMKLQKQTRPSSDGPEAN 648

Query: 636 RH--MKSDVSSLKRENHEVSLLVKSLKMKSKQIQLPS---EPKKDEGVQSKEVEENNG-- 688
           +   + SDV S KRE HE+S LV+S+K KSKQ++LPS   +P+K E +   + EE     
Sbjct: 649 KDEPLMSDVLSSKREKHELSSLVRSIKTKSKQVKLPSNGKKPRKSENMLFNKKEEKGQDR 708

Query: 689 -LSNLVQSLKKTKKL 702
            LS+LVQS+KK  ++
Sbjct: 709 ELSSLVQSVKKKARV 723

Source: Vitis vinifera

Species: Vitis vinifera

Genus: Vitis

Family: Vitaceae

Order: Vitales

Class:

Phylum: Streptophyta

Superkingdom: Eukaryota
>gi|296084697|emb|CBI25839.3| unnamed protein product [Vitis vinifera] Back     alignment and taxonomy information
>gi|255586854|ref|XP_002534037.1| Pre-rRNA-processing protein ESF1, putative [Ricinus communis] gi|223525944|gb|EEF28341.1| Pre-rRNA-processing protein ESF1, putative [Ricinus communis] Back     alignment and taxonomy information
>gi|449477946|ref|XP_004155170.1| PREDICTED: pre-rRNA-processing protein esf1-like [Cucumis sativus] Back     alignment and taxonomy information
>gi|449433022|ref|XP_004134297.1| PREDICTED: pre-rRNA-processing protein esf1-like [Cucumis sativus] Back     alignment and taxonomy information
>gi|356559250|ref|XP_003547913.1| PREDICTED: pre-rRNA-processing protein esf1-like [Glycine max] Back     alignment and taxonomy information
>gi|356502684|ref|XP_003520147.1| PREDICTED: ESF1 homolog [Glycine max] Back     alignment and taxonomy information
>gi|145337843|ref|NP_566132.2| uncharacterized protein [Arabidopsis thaliana] gi|6714472|gb|AAF26158.1|AC008261_15 hypothetical protein [Arabidopsis thaliana] gi|332640097|gb|AEE73618.1| uncharacterized protein [Arabidopsis thaliana] Back     alignment and taxonomy information
>gi|357476435|ref|XP_003608503.1| Pre-rRNA-processing protein ESF1 [Medicago truncatula] gi|355509558|gb|AES90700.1| Pre-rRNA-processing protein ESF1 [Medicago truncatula] Back     alignment and taxonomy information
>gi|224134000|ref|XP_002327731.1| predicted protein [Populus trichocarpa] gi|222836816|gb|EEE75209.1| predicted protein [Populus trichocarpa] 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 ?
Query704
TAIR|locus:2102127713 AT3G01160 "AT3G01160" [Arabido 0.664 0.656 0.474 6.5e-123
ZFIN|ZDB-GENE-030131-4917757 esf1 "ESF1, nucleolar pre-rRNA 0.288 0.268 0.446 2.7e-66
UNIPROTKB|F1SBJ2858 ESF1 "Uncharacterized protein" 0.397 0.326 0.357 1.2e-64
MGI|MGI:1913830845 Esf1 "ESF1, nucleolar pre-rRNA 0.394 0.328 0.372 3.7e-64
RGD|1306067842 Esf1 "ESF1, nucleolar pre-rRNA 0.394 0.330 0.373 4.3e-64
UNIPROTKB|E1BKI4856 ESF1 "Uncharacterized protein" 0.394 0.324 0.37 6.6e-64
UNIPROTKB|Q9H501851 ESF1 "ESF1 homolog" [Homo sapi 0.394 0.326 0.372 1.2e-63
UNIPROTKB|E2REW3849 ESF1 "Uncharacterized protein" 0.397 0.329 0.357 3.7e-63
FB|FBgn0024364785 CG11417 [Drosophila melanogast 0.278 0.249 0.462 5.2e-54
CGD|CAL0000677672 orf19.2319 [Candida albicans ( 0.262 0.275 0.363 2.8e-51
TAIR|locus:2102127 AT3G01160 "AT3G01160" [Arabidopsis thaliana (taxid:3702)] Back     alignment and assigned GO terms
 Score = 1038 (370.5 bits), Expect = 6.5e-123, Sum P(2) = 6.5e-123
 Identities = 236/497 (47%), Positives = 295/497 (59%)

Query:   168 IPEIDNETHRLAIVNMDWRHVKAVDLLVILSSFLPKDGQILSVAVYPSEFGIQRMKEEEV 227
             IP I  ETHRLAIVNMDWRHV A DL V+L+SFLPKDG+ILSVAVYPSEFG++RMKEEE+
Sbjct:   192 IPLIQEETHRLAIVNMDWRHVSAKDLYVVLNSFLPKDGRILSVAVYPSEFGLERMKEEEI 251

Query:   228 RGPVGLFD-----SQXXXXXXXXXXXXXXXKLRAYEKSRLRYYYAVVECDSSATADYLYR 282
              GPV   D     S                KLRAYE SRL+YY+AV ECDSSATADYLY+
Sbjct:   252 HGPVIDGDKKNDASDDEDEEEEEDEDVINQKLRAYEISRLKYYFAVAECDSSATADYLYK 311

Query:   283 ACDGVEFERSSNKLDLRFIPDTMEFKYPPRDVATEAPANYGGLDFFTKALQHSNVQLSWD 342
             +CDG+EFERSSNKLDLRFIPD+MEFK+PPRD+A+EAPA Y GLDF ++ALQ S V LSWD
Sbjct:   312 SCDGIEFERSSNKLDLRFIPDSMEFKHPPRDIASEAPAGYEGLDFQSRALQMSKVNLSWD 371

Query:   343 DDEPDRVKTLKRKFNADQVAELELKEFLAXXXXXXXXXXX--NVADEXXXXXXXXXXXYR 400
             +DEP R+KTL +KFN +Q+A LE+KEFLA             N               YR
Sbjct:   372 EDEPHRIKTLNQKFNPEQLANLEMKEFLASDESDSDEEDDLGNEVINQSKKKDKKKDKYR 431

Query:   401 ALLXXXXXXXXXXXXXX--QDMEVTFNTGLEDISKRILEKKDKKSETIWEAYLXXXXXXX 458
             AL+                QDMEVTFNTGLED+SK IL+KKD +SE++WE YL       
Sbjct:   432 ALIEAEDVDSDKDLEEENDQDMEVTFNTGLEDLSKEILKKKDNQSESVWETYLRQRREKK 491

Query:   459 XXXXXXX----XXXXDDEASDTDREAIEEP--DDFFVXXXXXXXXXXXXXNHRREEKEQQ 512
                            DD+  + DR+A+++   DDFF+               ++EE   +
Sbjct:   492 RARKNKQKDDDSSPDDDDDYNIDRKAVKDDGDDDFFMEEPPLKKKKKEGKT-KKEEVAAE 550

Query:   513 DTDKXXXXXXXXXXXXXXDDKGAENGLXXXXXXXXXXXXXXXXEVPDEDKIPTADYDDPR 572
             +  +              ++ G  NGL                    EDKIP A+ DDPR
Sbjct:   551 EKSRAELELLLAD-----ENAGDGNGLKGYNIKRKAKKGKTDIS---EDKIPAAELDDPR 602

Query:   573 FSALFTSPLFALDPTDPQFKRSAVYARQIAQKKQ---KGDQREQVIRESTKIPTNAQMPS 629
             FSALF+SP +ALDPTDPQFKRSA YARQ+A K++   KG +  +  +E  ++ ++  + S
Sbjct:   603 FSALFSSPYYALDPTDPQFKRSATYARQLALKQKEDPKGHEDVKAPKEKQELNSDGNLGS 662

Query:   630 DDPDRHRHMKSDVSSLK 646
                +RH  + S V SLK
Sbjct:   663 KK-ERHE-LTSTVKSLK 677
GO:0003674 "molecular_function" evidence=ND
GO:0005634 "nucleus" evidence=ISM;IEA;IDA
GO:0008150 "biological_process" evidence=ND
GO:0005829 "cytosol" evidence=IDA
GO:0000741 "karyogamy" evidence=RCA
GO:0009560 "embryo sac egg cell differentiation" evidence=RCA
ZFIN|ZDB-GENE-030131-4917 esf1 "ESF1, nucleolar pre-rRNA processing protein, homolog (S. cerevisiae)" [Danio rerio (taxid:7955)] Back     alignment and assigned GO terms
UNIPROTKB|F1SBJ2 ESF1 "Uncharacterized protein" [Sus scrofa (taxid:9823)] Back     alignment and assigned GO terms
MGI|MGI:1913830 Esf1 "ESF1, nucleolar pre-rRNA processing protein, homolog (S. cerevisiae)" [Mus musculus (taxid:10090)] Back     alignment and assigned GO terms
RGD|1306067 Esf1 "ESF1, nucleolar pre-rRNA processing protein, homolog (S. cerevisiae)" [Rattus norvegicus (taxid:10116)] Back     alignment and assigned GO terms
UNIPROTKB|E1BKI4 ESF1 "Uncharacterized protein" [Bos taurus (taxid:9913)] Back     alignment and assigned GO terms
UNIPROTKB|Q9H501 ESF1 "ESF1 homolog" [Homo sapiens (taxid:9606)] Back     alignment and assigned GO terms
UNIPROTKB|E2REW3 ESF1 "Uncharacterized protein" [Canis lupus familiaris (taxid:9615)] Back     alignment and assigned GO terms
FB|FBgn0024364 CG11417 [Drosophila melanogaster (taxid:7227)] Back     alignment and assigned GO terms
CGD|CAL0000677 orf19.2319 [Candida albicans (taxid:5476)] 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 ?
Query704
COG5638622 COG5638, COG5638, Uncharacterized conserved protei 5e-60
pfam0815930 pfam08159, NUC153, NUC153 domain 5e-05
PTZ001081388 PTZ00108, PTZ00108, DNA topoisomerase 2-like prote 8e-05
>gnl|CDD|227925 COG5638, COG5638, Uncharacterized conserved protein [Function unknown] Back     alignment and domain information 
 Score =  212 bits (541), Expect = 5e-60
 Identities = 215/655 (32%), Positives = 316/655 (48%), Gaps = 72/655 (10%)

Query: 23  KKIITDSRFASVHSDPRFQNVPKQKSKVAIDSRFDRMFTDKNFASSTAPFDKRGKPKKNL 82
           K    D RF SVHSDPRF  + +   KV +D RF +   DK+F  +TA  D+ G+P    
Sbjct: 7   KSESADPRFQSVHSDPRFSRLKRGNFKVKVDERFKK--EDKDF-KTTASVDRYGRPLNQD 63

Query: 83  KTSKSSLQHYYRIEAEDKKSDEDEEIEEEERRNETDSESELKEAADVSSGSGTEEEDDDD 142
           K +K  +   Y +E E  +S E  + EE        + SEL +  D + G G        
Sbjct: 64  KATKE-IDRLYELENESSESSEITDNEEVAS-----ASSELTDEYDPARGEGIIS----T 113

Query: 143 VSESTTDDEEEDVDFDEGPEEEEEAIPEIDNETHRLAIVNMDWRHVKAVDLLVILSSFLP 202
              S    EE + +      E+  A+PE  N T RLA+VNMDW  V A DL  I SSFLP
Sbjct: 114 SESSDESREESEEEKANEISEKAGAVPEEGNPTKRLAVVNMDWDRVDAKDLFKIFSSFLP 173

Query: 203 KDGQILSVAVYPSEFGIQRMKEEEVRGPVGLF--------DSQNENSDDEDND------- 247
             G++  V +YPSEFG +RM  E V+GP             SQ    D+  +D       
Sbjct: 174 YGGKLSKVKIYPSEFGKERMAAEHVQGPPRDIFTPADNQPSSQKFGDDNVFSDRDAGEDA 233

Query: 248 --------EIDEEKLRAYEKSRLRYYYAVVECDSSATADYLYRACDGVEFERSSNKLDLR 299
                   E D  KLR Y+  RLRYYYAVVEC+   T+  +Y ACDGVE+E S+N LDLR
Sbjct: 234 LIEGDRGNEFDMVKLRQYQLERLRYYYAVVECEDIETSKNIYSACDGVEYENSANVLDLR 293

Query: 300 FIPDTMEFKYPPRDVATEAPANYGGLDFFTKALQHSNVQLSWDDDEPDRVKTLKRKFNAD 359
           F+PD++ F    R+V T+AP  Y   DF T ALQHS V+LSWD ++P R    K  F  D
Sbjct: 294 FVPDSLTFDDDSREVCTKAPEKYEPRDFVTDALQHSKVKLSWDAEDPHRKDLCKEAFTDD 353

Query: 360 QVAELELKEFLASDESETDDEDDNVADEQSDK-KSKKQDKYRALLESGDGSDEDGEEDGQ 418
            + + +   + AS  S  D++DD+V + +  K  S+K+  +    E  D SD+    +  
Sbjct: 354 GIRDKDFSAYTASKLS--DEDDDSVMESKMQKLFSEKEIDFGLNSELVDMSDDG---ENG 408

Query: 419 DMEVTFNTGLEDISKRILEKKDKKSETIWEAYLRKRREKKKAGKNKSKYSSDDEASDTDR 478
           +ME TF + L   ++    + D K ET  E   RK RE+++  K +    + D++     
Sbjct: 409 EMEDTFTSHLPASNES---ESDDKLETTIEKLDRKLRERQENRKERQLKKTKDDS----- 460

Query: 479 EAIEEPDDFFVEEPKGKKGEEAGGNHRREEKEQQDTDKEATASTAELELLLADDKGAENG 538
                      +     K E     +++ +   + T     AS  ELEL+ ADD+  E  
Sbjct: 461 -----------DVDLKDKKESINKKNKKGKHAIERT----AASKEELELIKADDEDDEQ- 504

Query: 539 LKGYNMKPKKRKGKKGKEVPDEDKIP------TADYDDPRFSALFTSPLFALDPTDPQFK 592
           L  ++MK   +  K  K    + K          D  DPRF A+F    FA+DPT P+FK
Sbjct: 505 LDHFDMKSILKAEKFKKNRKLKKKASNLEEGFVFDPKDPRFVAIFEDHNFAIDPTHPEFK 564

Query: 593 RSAVYARQIAQKKQKGDQREQVIRESTKIPTNAQMPSDDPDRHRHMKSDVSSLKR 647
           ++    + + +K+++     +  ++        +  ++  D+ + +   V S+KR
Sbjct: 565 KTGGMKKIMDEKRKRLKNNIEQTQDGKPELKIKKRKAEKGDQRQELDRIVKSIKR 619

Length = 622
>gnl|CDD|203864 pfam08159, NUC153, NUC153 domain Back     alignment and domain information
>gnl|CDD|240271 PTZ00108, PTZ00108, DNA topoisomerase 2-like protein; Provisional Back     alignment and domain information

Conserved Domains Detected by HHsearch ?

Original result of HHsearch against CDD database

ID ?Alignment Graph ?Length ? Definition ? Probability ?
Query 704
KOG2318650 consensus Uncharacterized conserved protein [Funct 100.0
COG5638622 Uncharacterized conserved protein [Function unknow 100.0
PF0815930 NUC153: NUC153 domain; InterPro: IPR012580 This sm 99.22
PLN03134144 glycine-rich RNA-binding protein 4; Provisional 92.32
cd0059074 RRM RRM (RNA recognition motif), also known as RBD 92.29
PF1425970 RRM_6: RNA recognition motif (a.k.a. RRM, RBD, or 88.16
TIGR01649481 hnRNP-L_PTB hnRNP-L/PTB/hephaestus splicing factor 88.15
TIGR01649481 hnRNP-L_PTB hnRNP-L/PTB/hephaestus splicing factor 87.79
TIGR01648578 hnRNP-R-Q heterogeneous nuclear ribonucleoprotein 87.15
TIGR01642509 U2AF_lg U2 snRNP auxilliary factor, large subunit, 86.24
smart0036071 RRM RNA recognition motif. 86.18
TIGR01642509 U2AF_lg U2 snRNP auxilliary factor, large subunit, 85.17
smart0036272 RRM_2 RNA recognition motif. 82.66
TIGR01659346 sex-lethal sex-lethal family splicing factor. This 82.4
PF0007670 RRM_1: RNA recognition motif. (a.k.a. RRM, RBD, or 80.12
>KOG2318 consensus Uncharacterized conserved protein [Function unknown] Back     alignment and domain information 
Probab=100.00  E-value=1.2e-151  Score=1232.27  Aligned_cols=607  Identities=43%  Similarity=0.694  Sum_probs=427.7

Q ss_pred             CCCCcccccCCCCCCCCCCCcCCCcccccccccccccCcCCCCCCCCcccCCCCCCCccCchhhhhhhhcccccccCCch
Q 005276           25 IITDSRFASVHSDPRFQNVPKQKSKVAIDSRFDRMFTDKNFASSTAPFDKRGKPKKNLKTSKSSLQHYYRIEAEDKKSDE  104 (704)
Q Consensus        25 ~~~D~RFa~i~tDPRFr~~~kk~~KVkID~RF~~mf~D~~F~~~~a~VDKyGR~i~k~~~~~~~L~kfY~le~ee~~~~~  104 (704)
                      ||.||||++|||||||+++|++++||+||+||++||+|+.|.+ .+.||+|||||++.  ++.+|+.||+|++-.....+
T Consensus        10 v~~D~RF~~~~tDPrF~~~~~~d~KvkiDkRF~~m~~dk~fk~-~~~VDk~gr~~~~~--t~~dlref~eldd~~ek~~E   86 (650)
T KOG2318|consen   10 VVIDPRFASALTDPRFSRMPKVDRKVKIDKRFQGMFMDKKFKL-KSAVDKYGRPINKS--TKEDLREFYELDDFDEKSGE   86 (650)
T ss_pred             ccccHHHHhhhcChhhcccccccchhhhhhhhccccchhhhhh-cchhhhcCCccccc--chhhhHHHhhhccchhcccc
Confidence            8999999999999999999999999999999999999999998 58899999999865  38999999999863221110


Q ss_pred             ---------hHHHH--HHhh----ccccccHHHHHH-hhhcCCCCCCC-CCCccCcCCCCCC-cccccccCCCCCchhcc
Q 005276          105 ---------DEEIE--EEER----RNETDSESELKE-AADVSSGSGTE-EEDDDDVSESTTD-DEEEDVDFDEGPEEEEE  166 (704)
Q Consensus       105 ---------~e~~~--~ee~----~~e~e~e~e~~~-~~~~~~~s~~e-ssss~d~~~~dee-~~~e~~~~~~~~e~e~e  166 (704)
                               ..+..  .++.    ..++..+.++.. +.-.+|+.-.+ |+||+++++++.+ ++++...++.+. +..+
T Consensus        87 es~~~esde~sEi~d~~~e~~a~~~seE~~~~~~k~~lD~ar~E~~~s~s~SSdE~Se~E~E~eede~e~~d~a~-~~pE  165 (650)
T KOG2318|consen   87 ESLKDESDEESEINDEEEEDSAEEESEEESDDELKRALDSARGEGNVSDSESSDEDSEDESEDEEDEKEISDLAN-LDPE  165 (650)
T ss_pred             ccccccccchhhhhhhhhhhhhhhhhhhcccchhhhhcccccccccccccccccccccccccCchhhhhhhhhcc-cCcc
Confidence                     00000  0000    000111111211 22222222222 2222121111111 111111111111 1123


Q ss_pred             cCCCCCCCCceeEEeccCCCccchhhHHHHHhcccCCCCceEEEEEecChhhHHhHHHHHhhCCc-cccCCCCCC----C
Q 005276          167 AIPEIDNETHRLAIVNMDWRHVKAVDLLVILSSFLPKDGQILSVAVYPSEFGIQRMKEEEVRGPV-GLFDSQNEN----S  241 (704)
Q Consensus       167 d~p~~~~~T~RLAvvNmDWD~IrA~DL~vlf~SF~P~gG~I~sV~IYPSeFGkeRM~~Ee~~GP~-~l~~~~~~~----~  241 (704)
                      ..|..+++|+||||||||||||+|.|||||||||||+||+|+||.||||+||++||++|+||||| .||......    .
T Consensus       166 ~~~~~~~~T~RLAVvNMDWd~v~AkDL~v~~nSFlP~gGsilSV~IYpSeFGkeRM~eEeV~GP~~el~~~~e~~~~s~s  245 (650)
T KOG2318|consen  166 ENPVLGEETKRLAVVNMDWDRVKAKDLFVLFNSFLPKGGSILSVKIYPSEFGKERMKEEEVHGPPKELFKPVEEYKESES  245 (650)
T ss_pred             cccccccccceeeEeccccccccHHHHHHHHHhhcCCCCceeEEEechhhhhHHHhhhhcccCChhhhccccccCccccc
Confidence            33566789999999999999999999999999999999999999999999999999999999997 688654322    2


Q ss_pred             CCCCChhhhHHHHHHHHhhccceeEEEEEeCCHHHHHHHHHhcCccccccccccccccccCCCCccCCCCccccccCCCC
Q 005276          242 DDEDNDEIDEEKLRAYEKSRLRYYYAVVECDSSATADYLYRACDGVEFERSSNKLDLRFIPDTMEFKYPPRDVATEAPAN  321 (704)
Q Consensus       242 ~~~~~~e~d~e~LR~YQl~RLRYYYAVvecDSv~TA~~IY~ecDG~E~E~San~lDLRFVPDd~~F~~~prd~ct~~P~~  321 (704)
                      +.+.+++|++++||+|||+|||||||||+|||+.||.+||.+|||+|||+|||+||||||||+|+|++.|||+|+++|.+
T Consensus       246 D~ee~~~~~~~kLR~Yq~~rLkYYyAVvecDsi~tA~~vYe~CDG~EfEsS~~~~DLRFIPDdm~Fddd~rd~cseap~~  325 (650)
T KOG2318|consen  246 DDEEEEDVDREKLRQYQLNRLKYYYAVVECDSIETAKAVYEECDGIEFESSANKLDLRFIPDDMTFDDDPRDECSEAPGN  325 (650)
T ss_pred             chhhhhhHHHHHHHHHHhhhheeEEEEEEecCchHHHHHHHhcCcceeccccceeeeeecCCCCccccccHhHhhhcccc
Confidence            44555679999999999999999999999999999999999999999999999999999999999998899999999987


Q ss_pred             -CCCCccccccccccccccccCCCchHHHHHHHhhCChhHHHhHHHHHHhcCCCCCCccccccc--hhhhhhhhHHHHHH
Q 005276          322 -YGGLDFFTKALQHSNVQLSWDDDEPDRVKTLKRKFNADQVAELELKEFLASDESETDDEDDNV--ADEQSDKKSKKQDK  398 (704)
Q Consensus       322 -Ykp~~F~T~ALqhSkVkLTWDe~d~~R~k~~~r~f~~~el~e~D~kaYLASdsse~dde~~~~--~~~~~~~k~k~~~k  398 (704)
                       |+|..|+|+|||||+|+||||+|+|+|++++.++|+..+|+++||++||||+++++++.++.+  .......+.....+
T Consensus       326 ~Ykpk~Fst~Alq~s~vkltWDE~d~~R~~l~~~kf~~~~l~d~d~~~~laS~~sde~d~d~~~~e~~~~l~s~d~~kdk  405 (650)
T KOG2318|consen  326 GYKPKDFSTRALQHSKVKLTWDETDPHRKKLFNEKFNGEELEDLDFSAYLASSDSDEEDGDEAESEVDNKLKSKDDQKDK  405 (650)
T ss_pred             ccCchhhhHHHHHhccccccccccCHHHHHHHHHhhcchhhhhchHHHhhcCCcccccchhhHhHHHHHHhhccccccch
Confidence             999999999999999999999999999999999999999999999999999777665443211  11111111113344


Q ss_pred             HHHHhhCCCCCCCCCCCCCCceEEEec-CCcchhhHHHhhhccCCCCChHHHHHHHHHHHHHHhhhhcccCCCCcccccc
Q 005276          399 YRALLESGDGSDEDGEEDGQDMEVTFN-TGLEDISKRILEKKDKKSETIWEAYLRKRREKKKAGKNKSKYSSDDEASDTD  477 (704)
Q Consensus       399 yraLL~~~~~~~~~~~~~~~dMEITf~-pgL~~~~~~~~~k~~~~~eT~~EkylrK~kEKkk~rK~k~k~~~~~~~~~~~  477 (704)
                      |++.-... ..+...++..++|||||+ |+++....   ..+.+..+||||+|+|+++||+++||.+.+...-... ...
T Consensus       406 ~~~~sk~e-~~ekk~ke~~~dmE~t~~~~~~e~~~~---k~k~kk~~t~~E~~~~k~~Ekk~~rK~~~~~ke~~~~-~~~  480 (650)
T KOG2318|consen  406 FLANSKEE-EKEKKEKENDGDMEVTFVTDDFEGFNN---KQKDKKEETPIEKYKRKRKEKKRARKKKGKLKEIKDE-KGL  480 (650)
T ss_pred             hhhhcccc-chhhhcccccccceeEecCchhhcccc---ccccccccChHHHHHHHhhhhHHHHHHhhhhhhhhhh-hcc
Confidence            44433221 112223456899999999 66654432   3456778999999999999999999977653321111 113


Q ss_pred             ccccCCCCcccccCCCCCCCcccCCCCcchhhhhhcchHHHhhcHHHHHHHhcccccccCCCCCCCCch----hhccccC
Q 005276          478 REAIEEPDDFFVEEPKGKKGEEAGGNHRREEKEQQDTDKEATASTAELELLLADDKGAENGLKGYNMKP----KKRKGKK  553 (704)
Q Consensus       478 ~~~~d~~D~fF~~e~~~k~~kk~~~~k~k~~~~~~~~~~e~~~~kaELELLm~dd~~~~~~~khf~mk~----kK~K~Kk  553 (704)
                      +..++..||||.+.+.....||     .++.+...++..+++.+.+|||||||+++.. ++    ||.+    .+.|+|+
T Consensus       481 ~~d~d~~~~~~~~k~k~~~~KK-----~kk~~~~~eE~~~~k~~~~ElElLl~d~d~~-d~----n~~kil~~e~~kkk~  550 (650)
T KOG2318|consen  481 GSDKDEKDDYFKDKFKQENPKK-----KKKGKKTKEEDAEAKRQEKELELLLMDEDAD-DE----NMNKILKIEKKKKKK  550 (650)
T ss_pred             cccccccCccchhhhhhccccc-----cccccccchhhhhhhhhHHHHHHHhcccccc-ch----hHHHHHHHHHHHhhh
Confidence            4456677889988654211111     1122233566677888899999999988754 22    5532    1111111


Q ss_pred             CCCCCCCCCCCCCCCCCchhhccccCCCcccCCCCccccccHHHHHHHHHHHhhcchhhhhhhccccCCCCCCCCCCCcc
Q 005276          554 GKEVPDEDKIPTADYDDPRFSALFTSPLFALDPTDPQFKRSAVYARQIAQKKQKGDQREQVIRESTKIPTNAQMPSDDPD  633 (704)
Q Consensus       554 ~k~~~~e~~~~~iDv~DpRF~alf~sh~FAIDPTnP~FKkT~~m~~~L~ek~~kr~~~~~~e~~~~~~~~~~~~~~~~~~  633 (704)
                      ++-.. +..+..++|+||||+|||+||.||||||||+||+|++|.+||.++++++.  .+.+..   ++...+.+     
T Consensus       551 ~~l~k-~~~ie~~~l~D~RFsAlftsh~yaiDPt~p~FK~tk~m~kil~ek~Kr~k--~~~e~~---~~~~~~e~-----  619 (650)
T KOG2318|consen  551 KKLKK-EDNIEEANLNDPRFSALFTSHAYAIDPTDPHFKGTKTMEKILEEKSKRRK--NQEEKK---AADGKQEL-----  619 (650)
T ss_pred             hhhcc-hhhccccccccHHHHHHhcccccccCCCCccccchHHHHHHHHHHhccch--hhcccc---ccccccch-----
Confidence            11111 33455899999999999999999999999999999999999999987442  222211   11111100     


Q ss_pred             ccccccccccccccchHHHHHHHHHHhhhhccccC
Q 005276          634 RHRHMKSDVSSLKRENHEVSLLVKSLKMKSKQIQL  668 (704)
Q Consensus       634 ~~~~~~~d~~~~~~~~~els~LVkSlKrK~k~~q~  668 (704)
                        ..   .  ..+..+...++||+|||||++++|.
T Consensus       620 --~~---~--~~~~~kk~~~~~vkslk~k~~~~~~  647 (650)
T KOG2318|consen  620 --NK---Q--ANKWRKKKRGSLVKSLKRKMKSKQS  647 (650)
T ss_pred             --hh---h--cchhhhhhhhHHHHHHHHHHHhHHh
Confidence              00   0  0111223349999999999999884

>COG5638 Uncharacterized conserved protein [Function unknown] Back     alignment and domain information
>PF08159 NUC153: NUC153 domain; InterPro: IPR012580 This small domain is found in a novel nucleolar family [] Back     alignment and domain information
>PLN03134 glycine-rich RNA-binding protein 4; Provisional Back     alignment and domain information
>cd00590 RRM RRM (RNA recognition motif), also known as RBD (RNA binding domain) or RNP (ribonucleoprotein domain), is a highly abundant domain in eukaryotes found in proteins involved in post-transcriptional gene expression processes including mRNA and rRNA processing, RNA export, and RNA stability Back     alignment and domain information
>PF14259 RRM_6: RNA recognition motif (a Back     alignment and domain information
>TIGR01649 hnRNP-L_PTB hnRNP-L/PTB/hephaestus splicing factor family Back     alignment and domain information
>TIGR01649 hnRNP-L_PTB hnRNP-L/PTB/hephaestus splicing factor family Back     alignment and domain information
>TIGR01648 hnRNP-R-Q heterogeneous nuclear ribonucleoprotein R, Q family Back     alignment and domain information
>TIGR01642 U2AF_lg U2 snRNP auxilliary factor, large subunit, splicing factor Back     alignment and domain information
>smart00360 RRM RNA recognition motif Back     alignment and domain information
>TIGR01642 U2AF_lg U2 snRNP auxilliary factor, large subunit, splicing factor Back     alignment and domain information
>smart00362 RRM_2 RNA recognition motif Back     alignment and domain information
>TIGR01659 sex-lethal sex-lethal family splicing factor Back     alignment and domain information
>PF00076 RRM_1: RNA recognition motif Back     alignment and domain information

Homologous Structure Templates

Structure Templates Detected by BLAST ?

Original result of BLAST against Protein Data Bank

No homologous structure with e-value below 0.005

Structure Templates Detected by RPS-BLAST ?

Original result of RPS-BLAST against PDB70 database

ID ?Alignment Graph ?Length ? Definition ? E-value ?
Query704
1vt4_I 1221 APAF-1 related killer DARK; drosophila apoptosome, 2e-10
1vt4_I 1221 APAF-1 related killer DARK; drosophila apoptosome, 1e-04
>1vt4_I APAF-1 related killer DARK; drosophila apoptosome, apoptosis, programmed cell death; HET: DTP; 6.90A {Drosophila melanogaster} PDB: 3iz8_A* Length = 1221 Back     alignment and structure
 Score = 63.3 bits (153), Expect = 2e-10
 Identities = 55/334 (16%), Positives = 101/334 (30%), Gaps = 85/334 (25%)

Query: 124 KEAADVSSGSGTEEEDDDDVSESTTDDEEE-------DVDFDEGPEEEEEAIP------- 169
           K+  D  S + T     D  S + T DE +       D    + P E     P       
Sbjct: 275 KQVTDFLSAATTTHISLDHHSMTLTPDEVKSLLLKYLDCRPQDLPREVLTTNPRRLSIIA 334

Query: 170 -EIDNETHRLAIVNMD-WRHVKAVDLLVILSSFL----PKDGQIL--SVAVYPSEFGIQR 221
             I +          D W+HV    L  I+ S L    P + + +   ++V+P       
Sbjct: 335 ESIRDGLATW-----DNWKHVNCDKLTTIIESSLNVLEPAEYRKMFDRLSVFP------- 382

Query: 222 MKEEEVRGPVGLFDSQNENSDDEDNDEIDEE--KLRAYEKSRLRYYYAV--VECDSSATA 277
                   P  L      +    D   +  +  K    EK       ++  +  +     
Sbjct: 383 ---PSAHIPTILLSLIWFDVIKSDVMVVVNKLHKYSLVEKQPKESTISIPSIYLELKVKL 439

Query: 278 D---YLYRACDGVEFERSSNKLDLRFIPDTMEFKY------------PPRDVATEAPANY 322
           +    L+R+   V+        D   +      +Y               +  T     +
Sbjct: 440 ENEYALHRSI--VDHYNIPKTFDSDDLIPPYLDQYFYSHIGHHLKNIEHPERMTLFRMVF 497

Query: 323 GGLDF-FTKA-LQHSNVQLSWDDDEPDRVKTLK--RKFNADQVAELE-----LKEFLASD 373
             LDF F +  ++H +   +      + ++ LK  + +  D   + E     + +FL   
Sbjct: 498 --LDFRFLEQKIRHDSTAWNASGSILNTLQQLKFYKPYICDNDPKYERLVNAILDFLPKI 555

Query: 374 ES------ETD-------DEDDNVADE---QSDK 391
           E        TD        ED+ + +E   Q  +
Sbjct: 556 EENLICSKYTDLLRIALMAEDEAIFEEAHKQVQR 589
>1vt4_I APAF-1 related killer DARK; drosophila apoptosome, apoptosis, programmed cell death; HET: DTP; 6.90A {Drosophila melanogaster} PDB: 3iz8_A* Length = 1221 Back     alignment and structure

Structure Templates Detected by HHsearch ?

Original result of HHsearch against PDB70 database

ID ?Alignment Graph ?Length ? Definition ? Probability ?
Query704
2cpd_A99 Apobec-1 stimulating protein; RNA recognition moti 96.12
2kvi_A96 Nuclear polyadenylated RNA-binding protein 3; RNA- 96.02
2ytc_A85 PRE-mRNA-splicing factor RBM22; RRM domain, RBD, s 96.01
2xnq_A97 Nuclear polyadenylated RNA-binding protein 3; tran 95.96
2dgt_A92 RNA-binding protein 30; RRM domain, structural gen 95.78
1why_A97 Hypothetical protein riken cDNA 1810017N16; RNA re 95.73
2cq2_A114 Hypothetical protein LOC91801; RRM domain, structu 95.7
2dgu_A103 Heterogeneous nuclear ribonucleoprotein Q; RRM dom 95.67
1x4g_A109 Nucleolysin TIAR; structural genomics, RRM domain, 95.65
3zzy_A130 Polypyrimidine tract-binding protein 1; protein bi 95.61
2cq3_A103 RNA-binding protein 9; RRM domain, structural geno 95.53
2hzc_A87 Splicing factor U2AF 65 kDa subunit; RNA splicing, 95.49
2ywk_A95 Putative RNA-binding protein 11; RRM-domain, struc 95.48
2cpf_A98 RNA binding motif protein 19; RNA recognition moti 95.46
2e5i_A124 Heterogeneous nuclear ribonucleoprotein L-like; RR 95.43
2d9p_A103 Polyadenylate-binding protein 3; RRM domain, struc 95.36
1x4c_A108 Splicing factor, arginine/serine-rich 1; structura 95.35
3ulh_A107 THO complex subunit 4; nuclear protein, RNA bindin 95.31
2cqc_A95 Arginine/serine-rich splicing factor 10; RNA recog 95.29
1wex_A104 Hypothetical protein (riken cDNA 2810036L13); stru 95.29
2fy1_A116 RNA-binding motif protein, Y chromosome, family 1 95.29
2dnp_A90 RNA-binding protein 14; RRM domain, RBD, structura 95.27
2dnq_A90 RNA-binding protein 4B; RRM domain,RBD, structural 95.14
3beg_B115 Splicing factor, arginine/serine-rich 1; kinase, S 95.1
2cpj_A99 Non-POU domain-containing octamer-binding protein; 95.02
1sjr_A164 Polypyrimidine tract-binding protein 1; extended b 94.92
2dgv_A92 HnRNP M, heterogeneous nuclear ribonucleoprotein M 94.91
2do0_A114 HnRNP M, heterogeneous nuclear ribonucleoprotein M 94.91
2jrs_A108 RNA-binding protein 39; RNA binding motif of RBM39 94.89
2dnm_A103 SRP46 splicing factor; RRM domain, RBD, structural 94.87
1p27_B106 RNA-binding protein 8A; nuclear protein, mRNA spli 94.82
3lqv_A115 PRE-mRNA branch site protein P14; cysless mutant, 94.8
3tht_A345 Alkylated DNA repair protein ALKB homolog 8; struc 94.76
1x4a_A109 Splicing factor, arginine/serine-rich 1 (splicing 94.74
1whw_A99 Hypothetical protein riken cDNA 1200009A02; RNA re 94.74
2cq0_A103 Eukaryotic translation initiation factor 3 subunit 94.74
1wf1_A110 RNA-binding protein RALY; structural genomics, RRM 94.69
2cq1_A101 PTB-like protein L; RRM domain, structural genomic 94.66
2x1f_A96 MRNA 3'-END-processing protein RNA15; transcriptio 94.63
2cqi_A103 Nucleolysin TIAR; RNA recognition motif, RRM, RNA 94.61
2cph_A107 RNA binding motif protein 19; RNA recognition moti 94.5
2jvo_A108 Nucleolar protein 3; nucleus, phosphorylation, rib 94.46
3bs9_A87 Nucleolysin TIA-1 isoform P40; RNA recognition mot 94.45
3r27_A100 HnRNP L, heterogeneous nuclear ribonucleoprotein L 94.44
2ad9_A119 Polypyrimidine tract-binding protein 1; RBD, RRM, 94.43
2dnz_A95 Probable RNA-binding protein 23; RNA recognition m 94.42
1x5u_A105 Splicing factor 3B subunit 4 (spliceosome associat 94.41
2la4_A101 Nuclear and cytoplasmic polyadenylated RNA-bindin 94.34
2kxn_B129 Transformer-2 protein homolog beta; SR protein, RR 94.25
2cqb_A102 Peptidyl-prolyl CIS-trans isomerase E; RNA recogni 94.25
1whx_A111 Hypothetical protein riken cDNA 1200009A02; RNA re 94.22
1nu4_A97 U1A RNA binding domain; RNA recognition motif, U1 94.21
2do4_A100 Squamous cell carcinoma antigen recognized by T- c 94.21
2dgo_A115 Cytotoxic granule-associated RNA binding protein 1 94.17
1x4e_A85 RNA binding motif, single-stranded interacting pro 94.16
1h2v_Z156 20 kDa nuclear CAP binding protein; CAP-binding-co 94.11
2cpz_A115 CUG triplet repeat RNA-binding protein 1; RRM doma 94.02
1x4f_A112 Matrin 3; structural genomics, RRM domain, NPPSFA, 93.91
2adc_A229 Polypyrimidine tract-binding protein 1; RBD, RRM, 93.87
2i2y_A150 Fusion protein consists of immunoglobin G- binding 93.8
1rk8_A165 CG8781-PA, CG8781-PA protein; mRNA processing, RRM 93.77
1x5s_A102 Cold-inducible RNA-binding protein; structure geno 93.77
1qm9_A198 Polypyrimidine tract-binding protein; ribonucleopr 93.74
3md1_A83 Nuclear and cytoplasmic polyadenylated RNA-bindin 93.66
2dnh_A105 Bruno-like 5, RNA binding protein; RRM domain, RBD 93.56
1x4d_A102 Matrin 3; structural genomics, RRM domain, NPPSFA, 93.47
2khc_A118 Testis-specific RNP-type RNA binding protein; RRM, 93.43
1x4h_A111 RNA-binding protein 28; structural genomics, RRM d 93.4
2e5h_A94 Zinc finger CCHC-type and RNA-binding motif- conta 93.37
3mdf_A85 Peptidyl-prolyl CIS-trans isomerase E; RRM domain, 93.31
2dhg_A104 TRNA selenocysteine associated protein (SECP43); R 93.22
1x5t_A96 Splicing factor 3B subunit 4; structure genomics, 93.22
2hvz_A101 Splicing factor, arginine/serine-rich 7; RRM, RNA 93.22
3ex7_B126 RNA-binding protein 8A; protein-RNA complex, mRNA 93.21
1p1t_A104 Cleavage stimulation factor, 64 kDa subunit; RNA r 93.18
2div_A99 TRNA selenocysteine associated protein; structural 93.18
1oo0_B110 CG8781-PA, drosophila Y14; RNA recognition motif, 93.06
1x5o_A114 RNA binding motif, single-stranded interacting pro 92.96
3pgw_S437 U1-70K; protein-RNA complex, U1 snRNA, SM fold, SM 92.9
3tyt_A205 Heterogeneous nuclear ribonucleoprotein L; ferredo 92.87
2adc_A229 Polypyrimidine tract-binding protein 1; RBD, RRM, 92.85
1fxl_A167 Paraneoplastic encephalomyelitis antigen HUD; prot 92.83
2cqd_A116 RNA-binding region containing protein 1; RNA recog 92.81
1sjq_A105 Polypyrimidine tract-binding protein 1; babbab mot 92.77
3pgw_A282 U1-A; protein-RNA complex, U1 snRNA, SM fold, SM c 92.76
2dgx_A96 KIAA0430 protein; RRM domain, structural genomics, 92.72
2e5g_A94 U6 snRNA-specific terminal uridylyltransferase 1; 92.71
4f25_A115 Polyadenylate-binding protein 1; RRM fold, transla 92.7
2dgp_A106 Bruno-like 4, RNA binding protein; RRM domain, str 92.7
2nlw_A105 Eukaryotic translation initiation factor 3 subunit 92.62
3s8s_A110 Histone-lysine N-methyltransferase SETD1A; chromat 92.6
2j76_E100 EIF-4B, EIF4B, eukaryotic translation initiation f 92.54
2dng_A103 Eukaryotic translation initiation factor 4H; RRM d 92.44
2la6_A99 RNA-binding protein FUS; structural genomics, nort 92.44
4a8x_A88 RNA-binding protein with serine-rich domain 1; tra 92.41
2err_A109 Ataxin-2-binding protein 1; protein-RNA complex, R 92.35
2dgs_A99 DAZ-associated protein 1; RRM domain, structural g 92.32
4fxv_A99 ELAV-like protein 1; RNA recognition motif, putati 92.2
2kt5_A124 RNA and export factor-binding protein 2; chaperone 92.18
1u6f_A139 Tcubp1, RNA-binding protein UBP1; trypanosome, mRN 92.15
2ku7_A140 MLL1 PHD3-CYP33 RRM chimeric protein; transcriptio 92.03
2lea_A135 Serine/arginine-rich splicing factor 2; SR protein 91.86
2dh8_A105 DAZ-associated protein 1; RRM domain, structural g 91.71
2jwn_A124 Embryonic polyadenylate-binding protein 2-B; epabp 91.6
1wi8_A104 EIF-4B, eukaryotic translation initiation factor 4 91.49
1b7f_A168 Protein (SXL-lethal protein), RNA (5'-R(P*GP*UP*UP 91.23
1b7f_A168 Protein (SXL-lethal protein), RNA (5'-R(P*GP*UP*UP 91.08
1x5p_A97 Negative elongation factor E; structure genomics, 91.03
3ucg_A89 Polyadenylate-binding protein 2; ferredoxin-like, 91.03
2cpx_A115 Hypothetical protein FLJ11016; RRM domain, structu 90.88
2jvr_A111 Nucleolar protein 3; RNA recognition motif, nucleu 90.88
2cqh_A93 IGF-II mRNA-binding protein 2 isoform A; RNA recog 90.82
2cq4_A114 RNA binding motif protein 23; RRM domain, structur 90.73
2g4b_A172 Splicing factor U2AF 65 kDa subunit; protein-RNA c 90.71
3md3_A166 Nuclear and cytoplasmic polyadenylated RNA-bindin 90.65
1qm9_A198 Polypyrimidine tract-binding protein; ribonucleopr 90.61
3nmr_A175 Cugbp ELAV-like family member 1; RRM, PRE-mRNA spl 90.48
2dit_A112 HIV TAT specific factor 1 variant; structural geno 90.48
2a3j_A127 U1 small nuclear ribonucleoprotein A; computationa 90.25
2qfj_A216 FBP-interacting repressor; protein-DNA complex; HE 90.13
2dis_A109 Unnamed protein product; structural genomics, RRM 90.09
1wg1_A88 KIAA1579 protein, homolog EXC-7; RBD, structural g 90.06
2yh0_A198 Splicing factor U2AF 65 kDa subunit; PRE-mRNA spli 89.9
2cpe_A113 RNA-binding protein EWS; RNA recognition motif, RR 89.78
2dgw_A91 Probable RNA-binding protein 19; RRM domain, struc 89.68
2fc9_A101 NCL protein; structure genomics, RRM_1 domain, str 89.37
2g4b_A172 Splicing factor U2AF 65 kDa subunit; protein-RNA c 89.34
2cqg_A103 TDP-43, TAR DNA-binding protein-43; RNA recognitio 89.02
1fxl_A167 Paraneoplastic encephalomyelitis antigen HUD; prot 88.94
1s79_A103 Lupus LA protein; RRM, alpha/beta, RNA binding pro 88.94
2qfj_A216 FBP-interacting repressor; protein-DNA complex; HE 88.72
1wf0_A88 TDP-43, TAR DNA-binding protein-43; structural gen 88.64
3nmr_A175 Cugbp ELAV-like family member 1; RRM, PRE-mRNA spl 88.59
2yh0_A198 Splicing factor U2AF 65 kDa subunit; PRE-mRNA spli 88.52
3pgw_A282 U1-A; protein-RNA complex, U1 snRNA, SM fold, SM c 88.38
2wbr_A89 GW182, gawky, LD47780P; DNA-binding protein, RRM, 88.04
3tyt_A205 Heterogeneous nuclear ribonucleoprotein L; ferredo 87.97
3smz_A284 Protein raver-1, ribonucleoprotein PTB-binding 1; 87.92
2f3j_A177 RNA and export factor binding protein 2; RRM domai 87.81
2ghp_A292 U4/U6 snRNA-associated splicing factor PRP24; RNA 87.66
2cpi_A111 CCR4-NOT transcription complex subunit 4; RNA reco 87.64
4f02_A213 Polyadenylate-binding protein 1; mRNA, eukaryotic 87.62
2xs2_A102 Deleted in azoospermia-like; RNA binding protein-R 87.32
2krb_A81 Eukaryotic translation initiation factor 3 subunit 87.09
3sde_A261 Paraspeckle component 1; RRM, anti parallel right 87.01
2bz2_A121 Negative elongation factor E; NELF E, RNA recognit 86.99
3md3_A166 Nuclear and cytoplasmic polyadenylated RNA-bindin 86.96
2e5j_A97 Methenyltetrahydrofolate synthetase domain contain 86.73
2cqp_A98 RNA-binding protein 12; RNA recognition motif, RRM 86.6
3n9u_C156 Cleavage and polyadenylation specificity factor S; 86.3
3s7r_A87 Heterogeneous nuclear ribonucleoprotein A/B; ferre 86.12
2cpy_A114 RNA-binding protein 12; RRM domain, structural gen 86.05
2e44_A96 Insulin-like growth factor 2 mRNA binding protein 86.03
3u1l_A240 PRE-mRNA-splicing factor CWC2; CSMP, zinc finger; 85.78
2ki2_A90 SS-DNA binding protein 12RNP2; HP0827, RRM, SS-DNA 85.55
2lmi_A107 GRSF-1, G-rich sequence factor 1; G-rich RNA seque 85.45
1l3k_A196 Heterogeneous nuclear ribonucleoprotein A1; nuclea 85.43
3egn_A143 RNA-binding protein 40; RNA recognition motif (RRM 84.88
2ghp_A292 U4/U6 snRNA-associated splicing factor PRP24; RNA 84.83
3q2s_C229 Cleavage and polyadenylation specificity factor S; 84.53
2mss_A75 Protein (musashi1); RNA-binding domain, RNA bindin 84.43
2db1_A118 Heterogeneous nuclear ribonucleoprotein F; RRM dom 83.54
1x4b_A116 Heterogeneous nuclear ribonucleoproteins A2/B1; st 83.42
2dnl_A114 Cytoplasmic polyadenylation element binding protei 83.39
1fjc_A96 Nucleolin RBD2, protein C23; RNP, RRM, RNA binding 83.29
2kn4_A158 Immunoglobulin G-binding protein G, splicing FACT 83.28
3smz_A284 Protein raver-1, ribonucleoprotein PTB-binding 1; 83.13
2fc8_A102 NCL protein; structure genomics, RRM_1 domain, str 82.96
1l3k_A196 Heterogeneous nuclear ribonucleoprotein A1; nuclea 82.94
1fje_B175 Nucleolin RBD12, protein C23; RNP, RRM, RNA bindin 82.84
2cjk_A167 Nuclear polyadenylated RNA-binding protein 4; HRP1 82.59
3ns6_A100 Eukaryotic translation initiation factor 3 subuni; 82.25
3d2w_A89 TAR DNA-binding protein 43; DP-43 proteinopathy, T 81.89
2rs2_A109 Musashi-1, RNA-binding protein musashi homolog 1; 81.46
4f02_A213 Polyadenylate-binding protein 1; mRNA, eukaryotic 81.25
1wg5_A104 Heterogeneous nuclear ribonucleoprotein H; structu 80.83
2lcw_A116 RNA-binding protein FUS; RRM, nucleic acid binding 81.83
2dha_A123 FLJ20171 protein; RRM domain, structural genomics, 80.11
>2cpd_A Apobec-1 stimulating protein; RNA recognition motif, RRM, RNP, structural genomics, NPPSFA; NMR {Homo sapiens} SCOP: d.58.7.1 Back     alignment and structure
Probab=96.12  E-value=0.027  Score=47.87  Aligned_cols=73  Identities=15%  Similarity=0.191  Sum_probs=61.4

Q ss_pred             CCCceeEEeccCCCccchhhHHHHHhcccCCCCceEEEEEecChhhHHhHHHHHhhCCccccCCCCCCCCCCCChhhhHH
Q 005276          173 NETHRLAIVNMDWRHVKAVDLLVILSSFLPKDGQILSVAVYPSEFGIQRMKEEEVRGPVGLFDSQNENSDDEDNDEIDEE  252 (704)
Q Consensus       173 ~~T~RLAvvNmDWD~IrA~DL~vlf~SF~P~gG~I~sV~IYPSeFGkeRM~~Ee~~GP~~l~~~~~~~~~~~~~~e~d~e  252 (704)
                      ..+++|=|-||.|+ +...||..+|+.|-|  |.|.+|.|-                 .                     
T Consensus        13 ~~~~~l~V~nLp~~-~t~~~l~~~F~~~g~--g~v~~~~~~-----------------~---------------------   51 (99)
T 2cpd_A           13 SSVKILYVRNLMLS-TSEEMIEKEFNNIKP--GAVERVKKI-----------------R---------------------   51 (99)
T ss_dssp             SCCCEEEEESCCTT-CCHHHHHHHHHTTST--TCEEEEEEC-----------------S---------------------
T ss_pred             CCcCEEEEeCCCCC-CCHHHHHHHHHhcCC--cceEEEEEe-----------------C---------------------
Confidence            47899999999997 999999999999987  899998752                 1                     


Q ss_pred             HHHHHHhhccceeEEEEEeCCHHHHHHHHHhcCccccccccccccccc
Q 005276          253 KLRAYEKSRLRYYYAVVECDSSATADYLYRACDGVEFERSSNKLDLRF  300 (704)
Q Consensus       253 ~LR~YQl~RLRYYYAVvecDSv~TA~~IY~ecDG~E~E~San~lDLRF  300 (704)
                                  =||.|+|.+.+.|......++|..+.  +..|-++|
T Consensus        52 ------------g~afV~f~~~~~A~~A~~~l~g~~~~--g~~l~v~~   85 (99)
T 2cpd_A           52 ------------DYAFVHFSNREDAVEAMKALNGKVLD--GSPIEVTL   85 (99)
T ss_dssp             ------------SEEEEEESSHHHHHHHHHHHSSEEET--TEEEEEEC
T ss_pred             ------------CeEEEEeCCHHHHHHHHHHhCCCEeC--CcEEEEEE
Confidence                        08999999999999999999999886  34444443
>2kvi_A Nuclear polyadenylated RNA-binding protein 3; RNA-binding motif, RRM, transcription termination, NUC phosphoprotein; NMR {Saccharomyces cerevisiae} Back     alignment and structure
>2ytc_A PRE-mRNA-splicing factor RBM22; RRM domain, RBD, structural genomics, NPPSFA, national project on protein structural and functional analyses; NMR {Homo sapiens} Back     alignment and structure
>2xnq_A Nuclear polyadenylated RNA-binding protein 3; transcription termination, RNA processi recognition, RRM; HET: CAF; 1.30A {Saccharomyces cerevisiae} PDB: 2xnr_A 2l41_A Back     alignment and structure
>2dgt_A RNA-binding protein 30; RRM domain, structural genomics, NPPSFA, national project on protein structural and functional analyses; NMR {Homo sapiens} Back     alignment and structure
>1why_A Hypothetical protein riken cDNA 1810017N16; RNA recognition motif, RRM, RNA binding domain, RBD, RNP, structural genomics; NMR {Mus musculus} SCOP: d.58.7.1 Back     alignment and structure
>2cq2_A Hypothetical protein LOC91801; RRM domain, structural genomics, NPPSFA, national project on protein structural and functional analyses; NMR {Homo sapiens} SCOP: d.58.7.1 Back     alignment and structure
>2dgu_A Heterogeneous nuclear ribonucleoprotein Q; RRM domain, structural genomics, NPPSFA, national project on protein structural and functional analyses; NMR {Homo sapiens} PDB: 2dk2_A Back     alignment and structure
>1x4g_A Nucleolysin TIAR; structural genomics, RRM domain, TIA-1 related protein, NPPSFA, national project on protein structural and functional analyses; NMR {Homo sapiens} SCOP: d.58.7.1 Back     alignment and structure
>3zzy_A Polypyrimidine tract-binding protein 1; protein binding, peptide binding, RNA recognition motif; 1.40A {Homo sapiens} PDB: 3zzz_A Back     alignment and structure
>2cq3_A RNA-binding protein 9; RRM domain, structural genomics, NPPSFA, national project on protein structural and functional analyses; NMR {Homo sapiens} SCOP: d.58.7.1 Back     alignment and structure
>2hzc_A Splicing factor U2AF 65 kDa subunit; RNA splicing, RRM, RNA recognition, alternative conformation binding protein; HET: P6G; 1.47A {Homo sapiens} PDB: 1u2f_A Back     alignment and structure
>2ywk_A Putative RNA-binding protein 11; RRM-domain, structural genomics, NPPSFA, national project on protein structural and functional analyses; 1.54A {Homo sapiens} Back     alignment and structure
>2cpf_A RNA binding motif protein 19; RNA recognition motif, RRM, RNP, structural genomics, NPPSFA; NMR {Mus musculus} SCOP: d.58.7.1 Back     alignment and structure
>2e5i_A Heterogeneous nuclear ribonucleoprotein L-like; RRM domain, RBD, structural genomics, NPPSFA; NMR {Mus musculus} Back     alignment and structure
>2d9p_A Polyadenylate-binding protein 3; RRM domain, structural genomics, NPPSFA, national project on protein structural and functional analyses; NMR {Homo sapiens} Back     alignment and structure
>1x4c_A Splicing factor, arginine/serine-rich 1; structural genomics, RRM domain, NPPSFA, national project on protein structural and functional analyses; NMR {Mus musculus} SCOP: d.58.7.1 Back     alignment and structure
>3ulh_A THO complex subunit 4; nuclear protein, RNA binding, structural genomi center for structural genomics, JCSG, protein structure INI PSI-biology; 2.54A {Homo sapiens} PDB: 1no8_A Back     alignment and structure
>2cqc_A Arginine/serine-rich splicing factor 10; RNA recognition motif, structural genomics, NPPSFA; NMR {Homo sapiens} SCOP: d.58.7.1 Back     alignment and structure
>1wex_A Hypothetical protein (riken cDNA 2810036L13); structural genomics, RRM domain, riken structural genomics/proteomics initiative, RSGI; NMR {Mus musculus} SCOP: d.58.7.1 Back     alignment and structure
>2fy1_A RNA-binding motif protein, Y chromosome, family 1 member A1; RNA binding protein, structure, protein-RNA complex, RNA stem-loop, structural protein/RNA complex; NMR {Homo sapiens} Back     alignment and structure
>2dnp_A RNA-binding protein 14; RRM domain, RBD, structural genomics, NPPSFA, national project on protein structural and functional analyses; NMR {Homo sapiens} Back     alignment and structure
>2dnq_A RNA-binding protein 4B; RRM domain,RBD, structural genomics, NPPSFA, national project on protein structural and functional analyses; NMR {Homo sapiens} Back     alignment and structure
>3beg_B Splicing factor, arginine/serine-rich 1; kinase, SR protein kinase, SR protein, PRE-mRNA splicing, at binding, chromosome partition; HET: SEP ANP; 2.90A {Homo sapiens} SCOP: d.58.7.1 PDB: 2o3d_A 1wg4_A Back     alignment and structure
>2cpj_A Non-POU domain-containing octamer-binding protein; RNA recognition motif, RRM, RNP, structural genomics, NPPSFA; NMR {Mus musculus} SCOP: d.58.7.1 Back     alignment and structure
>1sjr_A Polypyrimidine tract-binding protein 1; extended babbab motif, RNA binding protein; NMR {Homo sapiens} SCOP: d.58.7.1 PDB: 2adb_A Back     alignment and structure
>2dgv_A HnRNP M, heterogeneous nuclear ribonucleoprotein M; RRM domain, structural genomics, NPPSFA; NMR {Homo sapiens} PDB: 2dh9_A Back     alignment and structure
>2do0_A HnRNP M, heterogeneous nuclear ribonucleoprotein M; RNA recognition motif, RRM, RNA binding domain, RBD, structural genomics, NPPSFA; NMR {Homo sapiens} Back     alignment and structure
>2jrs_A RNA-binding protein 39; RNA binding motif of RBM39_human (caper), RRM2 domain, solution structure, structural genomics, PSI-2; NMR {Homo sapiens} Back     alignment and structure
>2dnm_A SRP46 splicing factor; RRM domain, RBD, structural genomics, NPPSFA, national project on protein structural and functional analyses; NMR {Homo sapiens} Back     alignment and structure
>1p27_B RNA-binding protein 8A; nuclear protein, mRNA splicing; 2.00A {Homo sapiens} SCOP: d.58.7.1 Back     alignment and structure
>3lqv_A PRE-mRNA branch site protein P14; cysless mutant, PRE-mRNA splicing, adenine, mRNA processing, nucleus, phosphoprotein, RNA-binding; HET: ADE; 2.38A {Homo sapiens} SCOP: d.58.7.1 PDB: 2f9d_A 2f9j_A 2fho_B Back     alignment and structure
>3tht_A Alkylated DNA repair protein ALKB homolog 8; structural genomics, PSI-biology, northeast structural genom consortium, NESG; HET: AKG; 3.01A {Homo sapiens} PDB: 3thp_A* Back     alignment and structure
>1x4a_A Splicing factor, arginine/serine-rich 1 (splicing factor 2, alternate splicing factor)...; structure genomics, SURP domain, splicing factor SF2; NMR {Homo sapiens} SCOP: d.58.7.1 Back     alignment and structure
>1whw_A Hypothetical protein riken cDNA 1200009A02; RNA recognition motif, RRM, RNA binding domain, RBD, RNP, structural genomics; NMR {Mus musculus} SCOP: d.58.7.1 Back     alignment and structure
>2cq0_A Eukaryotic translation initiation factor 3 subunit 4; RRM domain, structural genomics, NPPSFA; NMR {Homo sapiens} SCOP: d.58.7.1 Back     alignment and structure
>1wf1_A RNA-binding protein RALY; structural genomics, RRM domain, riken structural genomics/proteomics initiative, RSGI; NMR {Homo sapiens} SCOP: d.58.7.1 PDB: 1wf2_A Back     alignment and structure
>2cq1_A PTB-like protein L; RRM domain, structural genomics, NPPSFA, national project on protein structural and functional analyses; NMR {Homo sapiens} SCOP: d.58.7.1 Back     alignment and structure
>2x1f_A MRNA 3'-END-processing protein RNA15; transcription-RNA complex, mRNA processing; 1.60A {Saccharomyces cerevisiae} PDB: 2x1b_A 2x1a_A 2km8_B Back     alignment and structure
>2cqi_A Nucleolysin TIAR; RNA recognition motif, RRM, RNA binding domain, RBD, RNP, ST genomics, NPPSFA; NMR {Homo sapiens} SCOP: d.58.7.1 Back     alignment and structure
>2cph_A RNA binding motif protein 19; RNA recognition motif, RRM, RNP, structural genomics, NPPSFA; NMR {Mus musculus} SCOP: d.58.7.1 Back     alignment and structure
>2jvo_A Nucleolar protein 3; nucleus, phosphorylation, ribonucleoprotein, ribosome biogenesis, RNA-binding, rRNA processing; NMR {Saccharomyces cerevisiae} PDB: 2osq_A Back     alignment and structure
>3bs9_A Nucleolysin TIA-1 isoform P40; RNA recognition motif, RRM, RNA binding domain, RBD, RNA splicing, apoptosis, phosphoprotein, RNA-binding; 1.95A {Homo sapiens} Back     alignment and structure
>3r27_A HnRNP L, heterogeneous nuclear ribonucleoprotein L; RBD fold, protein binding, nucleus; 2.04A {Homo sapiens} Back     alignment and structure
>2ad9_A Polypyrimidine tract-binding protein 1; RBD, RRM, protein-RNA complex, RNA binding protein/RNA complex; NMR {Homo sapiens} SCOP: d.58.7.1 Back     alignment and structure
>2dnz_A Probable RNA-binding protein 23; RNA recognition motif, RRM, RNA binding domain, RBD, RNP, structural genomics, NPPSFA; NMR {Homo sapiens} Back     alignment and structure
>1x5u_A Splicing factor 3B subunit 4 (spliceosome associated protein 49) (SAP 49) (SF3B50)...; structure genomics,RRM domain,splicing factor 3B; NMR {Homo sapiens} SCOP: d.58.7.1 Back     alignment and structure
>2la4_A Nuclear and cytoplasmic polyadenylated RNA-bindin PUB1; RRM, RNA recognition, stress granules, nucleus, RNA-binding, transcription; NMR {Saccharomyces cerevisiae} Back     alignment and structure
>2kxn_B Transformer-2 protein homolog beta; SR protein, RRM, splicing factor, RNA protein complex, SMN, binding protein-RNA complex; NMR {Homo sapiens} PDB: 2rra_A 2rrb_A Back     alignment and structure
>2cqb_A Peptidyl-prolyl CIS-trans isomerase E; RNA recognition motif, structural genomics, NPPSFA; NMR {Homo sapiens} SCOP: d.58.7.1 Back     alignment and structure
>1whx_A Hypothetical protein riken cDNA 1200009A02; RNA recognition motif, RRM, RNA binding domain, RBD, RNP, structural genomics; NMR {Mus musculus} SCOP: d.58.7.1 Back     alignment and structure
>1nu4_A U1A RNA binding domain; RNA recognition motif, U1 small nuclear ribonucleoprotein, R binding domain, RNA binding protein; HET: MLA; 1.80A {Homo sapiens} SCOP: d.58.7.1 PDB: 1drz_A* 1urn_A 3hhn_B* 3egz_A* 1zzn_A* 1u6b_A* 3cun_A* 3cul_A* 3g8s_A* 3g8t_A* 3g96_A* 3g9c_A* 3irw_P* 3mum_P* 3mur_P* 3mut_P* 3muv_P* 3mxh_P* 3p49_B 3r1h_A* ... Back     alignment and structure
>2do4_A Squamous cell carcinoma antigen recognized by T- cells 3; RRM domaim, RDB, structural genomics, NPPSFA; NMR {Homo sapiens} Back     alignment and structure
>2dgo_A Cytotoxic granule-associated RNA binding protein 1; RRM domain, structural genomics, NPPSFA; NMR {Mus musculus} PDB: 2rne_A 2dh7_A Back     alignment and structure
>1x4e_A RNA binding motif, single-stranded interacting protein 2; structural genomics, RRM domain, NPPSFA; NMR {Homo sapiens} SCOP: d.58.7.1 Back     alignment and structure
>1h2v_Z 20 kDa nuclear CAP binding protein; CAP-binding-complex, RNP domain, MIF4G domain, RNA maturation, RNA export, nuclear protein, RNA-binding; 2.0A {Homo sapiens} SCOP: d.58.7.1 PDB: 1h2u_X* 1h2t_Z 1n52_B* 1n54_B 3fex_B 3fey_B 1h6k_X Back     alignment and structure
>2cpz_A CUG triplet repeat RNA-binding protein 1; RRM domain, structural genomics, NPPSFA, national project on protein structural and functional analyses; NMR {Homo sapiens} SCOP: d.58.7.1 PDB: 2rq4_A 2rqc_A Back     alignment and structure
>1x4f_A Matrin 3; structural genomics, RRM domain, NPPSFA, national project on protein structural and functional analyses; NMR {Mus musculus} SCOP: d.58.7.1 Back     alignment and structure
>2adc_A Polypyrimidine tract-binding protein 1; RBD, RRM, protein-RNA complex, RNA binding protein/RNA complex; NMR {Homo sapiens} SCOP: d.58.7.1 d.58.7.1 PDB: 2evz_A Back     alignment and structure
>2i2y_A Fusion protein consists of immunoglobin G- binding protein G and splicing factor,...; protein-RNA complex RRM alpha-beta sandwich BETA1-alpha1- BETA2-BETA3-alpha2-BETA4; NMR {Streptococcus SP} PDB: 2i38_A Back     alignment and structure
>1rk8_A CG8781-PA, CG8781-PA protein; mRNA processing, RRM, RBD, NMD, oskar mRNA localization, translation; 1.90A {Drosophila melanogaster} SCOP: d.58.7.1 PDB: 1hl6_A 2x1g_A Back     alignment and structure
>1x5s_A Cold-inducible RNA-binding protein; structure genomics, RRM domain, structural genomics, NPPSFA; NMR {Homo sapiens} SCOP: d.58.7.1 Back     alignment and structure
>1qm9_A Polypyrimidine tract-binding protein; ribonucleoprotein, RNP, RNA, spicing, translation; NMR {Homo sapiens} SCOP: d.58.7.1 d.58.7.1 Back     alignment and structure
>3md1_A Nuclear and cytoplasmic polyadenylated RNA-bindin PUB1; RRM, RBD, RNP, poly(U) binding, nucleus, RNA-binding, binding protein; 1.60A {Saccharomyces cerevisiae} SCOP: d.58.7.0 Back     alignment and structure
>2dnh_A Bruno-like 5, RNA binding protein; RRM domain, RBD, structural genomics, NPPSFA, national project on protein structural and functional analyses; NMR {Homo sapiens} PDB: 2dnk_A 2dno_A Back     alignment and structure
>1x4d_A Matrin 3; structural genomics, RRM domain, NPPSFA, national project on protein structural and functional analyses; NMR {Mus musculus} SCOP: d.58.7.1 Back     alignment and structure
>2khc_A Testis-specific RNP-type RNA binding protein; RRM, RNA recognition motif, bruno; NMR {Drosophila melanogaster} Back     alignment and structure
>1x4h_A RNA-binding protein 28; structural genomics, RRM domain, NPPSFA, national project on protein structural and functional analyses; NMR {Mus musculus} SCOP: d.58.7.1 Back     alignment and structure
>2e5h_A Zinc finger CCHC-type and RNA-binding motif- containing protein 1; RRM domain, RBD, structural genomics, NPPSFA; NMR {Homo sapiens} Back     alignment and structure
>3mdf_A Peptidyl-prolyl CIS-trans isomerase E; RRM domain, PHD finger, CYP33, MLL, RNA binding protein, ISO mRNA processing, mRNA splicing, nucleus; 1.85A {Homo sapiens} SCOP: d.58.7.1 PDB: 2kyx_A 3lpy_A* Back     alignment and structure
>2dhg_A TRNA selenocysteine associated protein (SECP43); RRM domain, structural genomics, NPPSFA; NMR {Homo sapiens} Back     alignment and structure
>1x5t_A Splicing factor 3B subunit 4; structure genomics, RRM domain, structural genomics, NPPSFA; NMR {Homo sapiens} SCOP: d.58.7.1 Back     alignment and structure
>2hvz_A Splicing factor, arginine/serine-rich 7; RRM, RNA binding protein; NMR {Homo sapiens} Back     alignment and structure
>3ex7_B RNA-binding protein 8A; protein-RNA complex, mRNA processing, mRNA splicing, mRNA transport, nonsense-mediated mRNA decay, nucleus; HET: ADP; 2.30A {Homo sapiens} PDB: 2j0q_D* Back     alignment and structure
>1p1t_A Cleavage stimulation factor, 64 kDa subunit; RNA recognition motif, C-terminal helix, N-terminal helix, RNA binding protein; NMR {Homo sapiens} SCOP: d.58.7.1 Back     alignment and structure
>2div_A TRNA selenocysteine associated protein; structural genomics, RRM domain, NPPSFA, national project on protein structural and functional analyses; NMR {Homo sapiens} Back     alignment and structure
>1oo0_B CG8781-PA, drosophila Y14; RNA recognition motif, splicing, protein complex, EXON junct complex, signaling protein; 1.85A {Drosophila melanogaster} SCOP: d.58.7.1 PDB: 2hyi_B* 2j0s_D* 2xb2_D* Back     alignment and structure
>1x5o_A RNA binding motif, single-stranded interacting protein 1; structure genomics, RRM domain, structural genomics, NPPSFA; NMR {Homo sapiens} SCOP: d.58.7.1 Back     alignment and structure
>3pgw_S U1-70K; protein-RNA complex, U1 snRNA, SM fold, SM core, RRM, splici SNRNPS, splicing factors; HET: DNA; 4.40A {Homo sapiens} PDB: 3cw1_K 2l5i_A 2l5j_A* Back     alignment and structure
>3tyt_A Heterogeneous nuclear ribonucleoprotein L; ferredoxin-like, structural genomics, joint center for struc genomics, JCSG; 1.60A {Mus musculus} PDB: 3s01_A 3to8_A Back     alignment and structure
>2adc_A Polypyrimidine tract-binding protein 1; RBD, RRM, protein-RNA complex, RNA binding protein/RNA complex; NMR {Homo sapiens} SCOP: d.58.7.1 d.58.7.1 PDB: 2evz_A Back     alignment and structure
>1fxl_A Paraneoplastic encephalomyelitis antigen HUD; protein-RNA complex, AU-rich element, transcription/RNA complex; 1.80A {Homo sapiens} SCOP: d.58.7.1 d.58.7.1 PDB: 1g2e_A 1fnx_H 1d8z_A 1d9a_A 3hi9_A Back     alignment and structure
>2cqd_A RNA-binding region containing protein 1; RNA recognition motif, structural genomics, NPPSFA; NMR {Homo sapiens} SCOP: d.58.7.1 Back     alignment and structure
>1sjq_A Polypyrimidine tract-binding protein 1; babbab motif, RNA binding protein; NMR {Homo sapiens} SCOP: d.58.7.1 Back     alignment and structure
>3pgw_A U1-A; protein-RNA complex, U1 snRNA, SM fold, SM core, RRM, splici SNRNPS, splicing factors; HET: DNA; 4.40A {Homo sapiens} PDB: 1fht_A 2u1a_A 2aym_A 2b0g_A Back     alignment and structure
>2dgx_A KIAA0430 protein; RRM domain, structural genomics, NPPSFA, national project on protein structural and functional analyses; NMR {Homo sapiens} SCOP: d.58.7.1 Back     alignment and structure
>2e5g_A U6 snRNA-specific terminal uridylyltransferase 1; RRM domain, RBD, structural genomics, NPPSFA; NMR {Homo sapiens} Back     alignment and structure
>4f25_A Polyadenylate-binding protein 1; RRM fold, translation initiation, RNA-binding, EIF4G-binding translation; 1.90A {Homo sapiens} PDB: 4f26_A 2k8g_A Back     alignment and structure
>2dgp_A Bruno-like 4, RNA binding protein; RRM domain, structural genomics, NPPSFA, national project on protein structural and functional analyses; NMR {Homo sapiens} PDB: 2dgq_A Back     alignment and structure
>2nlw_A Eukaryotic translation initiation factor 3 subunit 9; eukaryotic initiation factor 3 complex, RNA recognition motif; NMR {Homo sapiens} Back     alignment and structure
>3s8s_A Histone-lysine N-methyltransferase SETD1A; chromatin modification, transcription regulation, structural genomics, structural genomics consortium; 1.30A {Homo sapiens} Back     alignment and structure
>2j76_E EIF-4B, EIF4B, eukaryotic translation initiation factor 4B; protein biosynthesis, RNA recognition motif, RNA binding domain, RRM, RBD, RNP; NMR {Homo sapiens} Back     alignment and structure
>2dng_A Eukaryotic translation initiation factor 4H; RRM domain, RBD, structural genomics, NPPSFA; NMR {Mus musculus} Back     alignment and structure
>2la6_A RNA-binding protein FUS; structural genomics, northeast structural genomics consortiu PSI-biology, protein structure initiative, RNA recognition; NMR {Homo sapiens} Back     alignment and structure
>4a8x_A RNA-binding protein with serine-rich domain 1; transcription, splicing, RNA processing, nonsense mediated D NMD, HDAC, histone deacetylation; 1.90A {Homo sapiens} Back     alignment and structure
>2err_A Ataxin-2-binding protein 1; protein-RNA complex, RNA binding protein; NMR {Homo sapiens} SCOP: d.58.7.1 Back     alignment and structure
>2dgs_A DAZ-associated protein 1; RRM domain, structural genomics, NPPSFA, national project on protein structural and functional analyses; NMR {Homo sapiens} Back     alignment and structure
>4fxv_A ELAV-like protein 1; RNA recognition motif, putative RNA-binding domain, transcri structural genomics, joint center for structural genomics; 1.90A {Homo sapiens} Back     alignment and structure
>2kt5_A RNA and export factor-binding protein 2; chaperone, mRNA processing, mRNA splicing, transport, nucleus, RNA-binding, spliceosome, transport; NMR {Mus musculus} Back     alignment and structure
>1u6f_A Tcubp1, RNA-binding protein UBP1; trypanosome, mRNA-binding protein, GU-rich RNA, structure; NMR {Trypanosoma cruzi} SCOP: d.58.7.1 Back     alignment and structure
>2ku7_A MLL1 PHD3-CYP33 RRM chimeric protein; transcriptional regulation, RRM domain, transcr; NMR {Homo sapiens} Back     alignment and structure
>2lea_A Serine/arginine-rich splicing factor 2; SR protein, RNA binding protein; NMR {Homo sapiens} PDB: 2leb_A 2lec_A Back     alignment and structure
>2dh8_A DAZ-associated protein 1; RRM domain, structural genomics, NPPSFA, national project on protein structural and functional analyses; NMR {Homo sapiens} Back     alignment and structure
>2jwn_A Embryonic polyadenylate-binding protein 2-B; epabp2, poly(A) binding, structural genomics, protein structure initiative, PSI-2; NMR {Xenopus laevis} Back     alignment and structure
>1wi8_A EIF-4B, eukaryotic translation initiation factor 4B; RNA recognition motif, RRM, RNA binding domain, RBD, RNP, structural genomics; NMR {Homo sapiens} SCOP: d.58.7.1 Back     alignment and structure
>1b7f_A Protein (SXL-lethal protein), RNA (5'-R(P*GP*UP*UP*GP*UP*UP*UP*UP*UP*UP*UP*U)-3; splicing regulation, RNP domain, RNA complex; 2.60A {Drosophila melanogaster} SCOP: d.58.7.1 d.58.7.1 PDB: 3sxl_A* 1sxl_A 2sxl_A Back     alignment and structure
>1b7f_A Protein (SXL-lethal protein), RNA (5'-R(P*GP*UP*UP*GP*UP*UP*UP*UP*UP*UP*UP*U)-3; splicing regulation, RNP domain, RNA complex; 2.60A {Drosophila melanogaster} SCOP: d.58.7.1 d.58.7.1 PDB: 3sxl_A* 1sxl_A 2sxl_A Back     alignment and structure
>1x5p_A Negative elongation factor E; structure genomics, RRM domain, PARP14, structural genomics, NPPSFA; NMR {Homo sapiens} SCOP: d.58.7.1 Back     alignment and structure
>3ucg_A Polyadenylate-binding protein 2; ferredoxin-like, structural genomics, joint center for struc genomics, JCSG, protein structure initiative; HET: PGE; 1.95A {Homo sapiens} PDB: 3b4d_A 3b4m_A Back     alignment and structure
>2cpx_A Hypothetical protein FLJ11016; RRM domain, structural genomics, NPPSFA, national project on protein structural and functional analyses; NMR {Homo sapiens} SCOP: d.58.7.1 Back     alignment and structure
>2jvr_A Nucleolar protein 3; RNA recognition motif, nucleus, phosphorylation, ribonucleoprotein, ribosome biogenesis, RNA-binding; NMR {Saccharomyces cerevisiae} PDB: 2osr_A Back     alignment and structure
>2cqh_A IGF-II mRNA-binding protein 2 isoform A; RNA recognition motif, RRM, RNA binding domain, RBD, RNP, structural genomics, NPPSFA; NMR {Homo sapiens} SCOP: d.58.7.1 Back     alignment and structure
>2cq4_A RNA binding motif protein 23; RRM domain, structural genomics, NPPSFA, national project on protein structural and functional analyses; NMR {Homo sapiens} SCOP: d.58.7.1 Back     alignment and structure
>2g4b_A Splicing factor U2AF 65 kDa subunit; protein-RNA complex, RNA splicing factor, RNA recognition motif, RNA binding protein/RNA complex; 2.50A {Homo sapiens} PDB: 2u2f_A Back     alignment and structure
>3md3_A Nuclear and cytoplasmic polyadenylated RNA-bindin PUB1; RRM, RNP, RBD, poly(U) binding, tandem, acetylation, cytopla nucleus; 2.70A {Saccharomyces cerevisiae} Back     alignment and structure
>1qm9_A Polypyrimidine tract-binding protein; ribonucleoprotein, RNP, RNA, spicing, translation; NMR {Homo sapiens} SCOP: d.58.7.1 d.58.7.1 Back     alignment and structure
>3nmr_A Cugbp ELAV-like family member 1; RRM, PRE-mRNA splicing, RNA binding protein-RNA complex; 1.85A {Homo sapiens} PDB: 3nna_A 3nnc_A 2dhs_A 3nnh_A Back     alignment and structure
>2dit_A HIV TAT specific factor 1 variant; structural genomics, RRM_1 domain, NPPSFA, national project on protein structural and functional analyses; NMR {Homo sapiens} SCOP: d.58.7.1 Back     alignment and structure
>2a3j_A U1 small nuclear ribonucleoprotein A; computationally designed protein, RRM, U1A, RNA binding protein; NMR {Homo sapiens} Back     alignment and structure
>2qfj_A FBP-interacting repressor; protein-DNA complex; HET: DNA; 2.10A {Homo sapiens} PDB: 3uwt_A 2kxf_A 2kxh_A Back     alignment and structure
>2dis_A Unnamed protein product; structural genomics, RRM domain, NPPSFA, national project on protein structural and functional analyses; NMR {Homo sapiens} SCOP: d.58.7.1 Back     alignment and structure
>1wg1_A KIAA1579 protein, homolog EXC-7; RBD, structural genomics, riken structural genomics/proteomics initiative, RSGI, RNA binding protein; NMR {Homo sapiens} SCOP: d.58.7.1 PDB: 1wi6_A Back     alignment and structure
>2yh0_A Splicing factor U2AF 65 kDa subunit; PRE-mRNA splicing, transcription, RNA binding protein, mRNA processing; NMR {Homo sapiens} PDB: 2yh1_A Back     alignment and structure
>2cpe_A RNA-binding protein EWS; RNA recognition motif, RRM, RNP, structural genomics, NPPSFA; NMR {Homo sapiens} SCOP: d.58.7.1 Back     alignment and structure
>2dgw_A Probable RNA-binding protein 19; RRM domain, structural genomics, NPPSFA, national project on protein structural and functional analyses; NMR {Homo sapiens} Back     alignment and structure
>2fc9_A NCL protein; structure genomics, RRM_1 domain, structural genomics, NPPSFA, national project on protein structural and functional analyses; NMR {Homo sapiens} Back     alignment and structure
>2g4b_A Splicing factor U2AF 65 kDa subunit; protein-RNA complex, RNA splicing factor, RNA recognition motif, RNA binding protein/RNA complex; 2.50A {Homo sapiens} PDB: 2u2f_A Back     alignment and structure
>2cqg_A TDP-43, TAR DNA-binding protein-43; RNA recognition motif, RRM, RNA binding domain, RBD, RNP, structural genomics, NPPSFA; NMR {Homo sapiens} SCOP: d.58.7.1 Back     alignment and structure
>1fxl_A Paraneoplastic encephalomyelitis antigen HUD; protein-RNA complex, AU-rich element, transcription/RNA complex; 1.80A {Homo sapiens} SCOP: d.58.7.1 d.58.7.1 PDB: 1g2e_A 1fnx_H 1d8z_A 1d9a_A 3hi9_A Back     alignment and structure
>1s79_A Lupus LA protein; RRM, alpha/beta, RNA binding protein, translation; NMR {Homo sapiens} SCOP: d.58.7.1 Back     alignment and structure
>2qfj_A FBP-interacting repressor; protein-DNA complex; HET: DNA; 2.10A {Homo sapiens} PDB: 3uwt_A 2kxf_A 2kxh_A Back     alignment and structure
>1wf0_A TDP-43, TAR DNA-binding protein-43; structural genomics, RRM domain, riken structural genomics/proteomics initiative RSGI, RNA binding protein; NMR {Homo sapiens} SCOP: d.58.7.1 Back     alignment and structure
>3nmr_A Cugbp ELAV-like family member 1; RRM, PRE-mRNA splicing, RNA binding protein-RNA complex; 1.85A {Homo sapiens} PDB: 3nna_A 3nnc_A 2dhs_A 3nnh_A Back     alignment and structure
>2yh0_A Splicing factor U2AF 65 kDa subunit; PRE-mRNA splicing, transcription, RNA binding protein, mRNA processing; NMR {Homo sapiens} PDB: 2yh1_A Back     alignment and structure
>3pgw_A U1-A; protein-RNA complex, U1 snRNA, SM fold, SM core, RRM, splici SNRNPS, splicing factors; HET: DNA; 4.40A {Homo sapiens} PDB: 1fht_A 2u1a_A 2aym_A 2b0g_A Back     alignment and structure
>2wbr_A GW182, gawky, LD47780P; DNA-binding protein, RRM, RBD, TNRC6A, mirnas, P-bodies, argonaute, mRNA decay; NMR {Drosophila melanogaster} Back     alignment and structure
>3tyt_A Heterogeneous nuclear ribonucleoprotein L; ferredoxin-like, structural genomics, joint center for struc genomics, JCSG; 1.60A {Mus musculus} PDB: 3s01_A 3to8_A Back     alignment and structure
>3smz_A Protein raver-1, ribonucleoprotein PTB-binding 1; RNA binding, RNA recognition motif, vincu alpha-actinin, nucleus, RNA binding protein; 1.99A {Homo sapiens} PDB: 3vf0_B* 3h2u_B 3h2v_E Back     alignment and structure
>2f3j_A RNA and export factor binding protein 2; RRM domain, RBD domain., transport protein; NMR {Mus musculus} Back     alignment and structure
>2ghp_A U4/U6 snRNA-associated splicing factor PRP24; RNA chaperone, RNA binding domain, RNA recognition motif, SP factor, snRNP, spliceosome; 2.70A {Saccharomyces cerevisiae} SCOP: d.58.7.1 d.58.7.1 d.58.7.1 PDB: 2go9_A 2kh9_A Back     alignment and structure
>2cpi_A CCR4-NOT transcription complex subunit 4; RNA recognition motif, RRM, RNP, structural genomics, NPPSFA; NMR {Mus musculus} SCOP: d.58.7.1 Back     alignment and structure
>4f02_A Polyadenylate-binding protein 1; mRNA, eukaryotic initiation factors PAIP1 and PAIP2, translation-RNA complex; 2.00A {Homo sapiens} PDB: 1cvj_A* Back     alignment and structure
>2xs2_A Deleted in azoospermia-like; RNA binding protein-RNA complex; 1.35A {Mus musculus} PDB: 2xs7_A 2xs5_A 2xsf_A Back     alignment and structure
>2krb_A Eukaryotic translation initiation factor 3 subunit B; EIF3, eukaryotic initiation factor, EIF3B, EIF3J; NMR {Homo sapiens} Back     alignment and structure
>3sde_A Paraspeckle component 1; RRM, anti parallel right handed coiled-coil, NOPS, DBHS, RNA protein, RNA binding; 1.90A {Homo sapiens} PDB: 3sde_B Back     alignment and structure
>3md3_A Nuclear and cytoplasmic polyadenylated RNA-bindin PUB1; RRM, RNP, RBD, poly(U) binding, tandem, acetylation, cytopla nucleus; 2.70A {Saccharomyces cerevisiae} Back     alignment and structure
>2e5j_A Methenyltetrahydrofolate synthetase domain containing; RRM domain, RBD, structural genomics, NPPSFA; NMR {Homo sapiens} Back     alignment and structure
>2cqp_A RNA-binding protein 12; RNA recognition motif, RRM, RNA binding domain, RBD, RNP, structural genomics, NPPSFA; NMR {Mus musculus} SCOP: d.58.7.1 Back     alignment and structure
>3n9u_C Cleavage and polyadenylation specificity factor S; protein-protein complex, coexpression, heterotetramer, mRNA maturation, mRNA cleavage; 1.92A {Homo sapiens} Back     alignment and structure
>3s7r_A Heterogeneous nuclear ribonucleoprotein A/B; ferredoxin-like, structural genomics, joint center for struc genomics, JCSG; 2.15A {Homo sapiens} PDB: 1hd0_A 1hd1_A Back     alignment and structure
>2cpy_A RNA-binding protein 12; RRM domain, structural genomics, NPPSFA, national project on protein structural and functional analyses; NMR {Homo sapiens} SCOP: d.58.7.1 Back     alignment and structure
>2e44_A Insulin-like growth factor 2 mRNA binding protein 3; RRM domain, RBD, structural genomics, NPPSFA; NMR {Homo sapiens} Back     alignment and structure
>3u1l_A PRE-mRNA-splicing factor CWC2; CSMP, zinc finger; 1.64A {Saccharomyces cerevisiae} PDB: 3u1m_A 3tp2_A Back     alignment and structure
>2ki2_A SS-DNA binding protein 12RNP2; HP0827, RRM, SS-DNA binding proteins, RNA binding protein/SS-DNA binding protein complex; NMR {Helicobacter pylori} Back     alignment and structure
>2lmi_A GRSF-1, G-rich sequence factor 1; G-rich RNA sequence binding factor, RNA binding domain, STRU genomics, joint center for structural genomics, JCSG; NMR {Homo sapiens} Back     alignment and structure
>1l3k_A Heterogeneous nuclear ribonucleoprotein A1; nuclear protein hnRNP A1, RNA-recognition motif, RNA- binding, UP1, RNA binding protein; 1.10A {Homo sapiens} SCOP: d.58.7.1 d.58.7.1 PDB: 1u1k_A* 1u1l_A* 1u1m_A* 1u1n_A* 1u1o_A 1u1p_A* 1u1q_A 1u1r_A* 1pgz_A* 1ha1_A 1po6_A* 2up1_A* 1up1_A Back     alignment and structure
>3egn_A RNA-binding protein 40; RNA recognition motif (RRM), RNP motif, U11/U12-65K protein, DI-snRNP, U1A protein, U2B protein; 2.50A {Homo sapiens} Back     alignment and structure
>2ghp_A U4/U6 snRNA-associated splicing factor PRP24; RNA chaperone, RNA binding domain, RNA recognition motif, SP factor, snRNP, spliceosome; 2.70A {Saccharomyces cerevisiae} SCOP: d.58.7.1 d.58.7.1 d.58.7.1 PDB: 2go9_A 2kh9_A Back     alignment and structure
>3q2s_C Cleavage and polyadenylation specificity factor S; CFIM, CFIM25, CFIM68, CPSF5, CPSF6, CPSF, 3' END processing, processing, cleavage factor; 2.90A {Homo sapiens} PDB: 3q2t_C Back     alignment and structure
>2mss_A Protein (musashi1); RNA-binding domain, RNA binding protein; NMR {Mus musculus} SCOP: d.58.7.1 PDB: 2mst_A Back     alignment and structure
>2db1_A Heterogeneous nuclear ribonucleoprotein F; RRM domain, structural genomics, NPPSFA, national project on protein structural and functional analyses; NMR {Mus musculus} Back     alignment and structure
>1x4b_A Heterogeneous nuclear ribonucleoproteins A2/B1; structure genomics, RRM domain, structural genomics, NPPSFA; NMR {Homo sapiens} SCOP: d.58.7.1 Back     alignment and structure
>2dnl_A Cytoplasmic polyadenylation element binding protein 3; RRM domain, RBD, structural genomics, NPPSFA; NMR {Homo sapiens} Back     alignment and structure
>1fjc_A Nucleolin RBD2, protein C23; RNP, RRM, RNA binding domain, nucleolus, structural protein; NMR {Mesocricetus auratus} SCOP: d.58.7.1 Back     alignment and structure
>2kn4_A Immunoglobulin G-binding protein G, splicing FACT arginine/serine-rich 2, S35, splicing factor SC35,; RRM domain, cell WALL; NMR {Streptococcus SP} Back     alignment and structure
>3smz_A Protein raver-1, ribonucleoprotein PTB-binding 1; RNA binding, RNA recognition motif, vincu alpha-actinin, nucleus, RNA binding protein; 1.99A {Homo sapiens} PDB: 3vf0_B* 3h2u_B 3h2v_E Back     alignment and structure
>2fc8_A NCL protein; structure genomics, RRM_1 domain, structural genomics, NPPSFA, national project on protein structural and functional analyses; NMR {Homo sapiens} Back     alignment and structure
>1l3k_A Heterogeneous nuclear ribonucleoprotein A1; nuclear protein hnRNP A1, RNA-recognition motif, RNA- binding, UP1, RNA binding protein; 1.10A {Homo sapiens} SCOP: d.58.7.1 d.58.7.1 PDB: 1u1k_A* 1u1l_A* 1u1m_A* 1u1n_A* 1u1o_A 1u1p_A* 1u1q_A 1u1r_A* 1pgz_A* 1ha1_A 1po6_A* 2up1_A* 1up1_A Back     alignment and structure
>1fje_B Nucleolin RBD12, protein C23; RNP, RRM, RNA binding domain, RNA-protein complex, nucleolus, structural protein/RNA complex; NMR {Mesocricetus auratus} SCOP: d.58.7.1 d.58.7.1 PDB: 1rkj_A 2krr_A Back     alignment and structure
>2cjk_A Nuclear polyadenylated RNA-binding protein 4; HRP1, RNA-binding, RNA processing, mRNA processing, nonsense-mediated mRNA decay, cleavage; NMR {Saccharomyces cerevisiae} PDB: 2km8_C Back     alignment and structure
>3ns6_A Eukaryotic translation initiation factor 3 subuni; 1.25A {Saccharomyces cerevisiae} PDB: 3ns5_A Back     alignment and structure
>3d2w_A TAR DNA-binding protein 43; DP-43 proteinopathy, TDP-43 inclusions, RNA recognition MOTI U, ALS, RRM; HET: DNA; 1.65A {Mus musculus} Back     alignment and structure
>2rs2_A Musashi-1, RNA-binding protein musashi homolog 1; protein-RNA complex, RRM, RBD, RNA binding protein- complex; NMR {Mus musculus} Back     alignment and structure
>4f02_A Polyadenylate-binding protein 1; mRNA, eukaryotic initiation factors PAIP1 and PAIP2, translation-RNA complex; 2.00A {Homo sapiens} PDB: 1cvj_A* Back     alignment and structure
>1wg5_A Heterogeneous nuclear ribonucleoprotein H; structural genomics, RRM domain, riken structural genomics/proteomics initiative, RSGI; NMR {Homo sapiens} SCOP: d.58.7.1 Back     alignment and structure
>2lcw_A RNA-binding protein FUS; RRM, nucleic acid binding protein; NMR {Homo sapiens} Back     alignment and structure
>2dha_A FLJ20171 protein; RRM domain, structural genomics, NPPSFA, national project on protein structural and functional analyses; NMR {Homo sapiens} 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 ?
Query704
d2adca1109 Polypyrimidine tract-binding protein {Human (Homo 96.59
d1whya_97 Putative RNA-binding protein 15B, Rbm15b {Mouse (M 96.47
d3begb187 Splicing factor, arginine/serine-rich 1, SFRS1 {Hu 96.38
d2cq2a1101 Alkylation repair AlkB homolog 8, ALKBH8 {Human (H 95.96
d1wf2a_98 Heterogeneous nuclear ribonucleoproteins C1/C2 {Hu 95.75
d1no8a_78 Nuclear factor Aly {Mouse (Mus musculus) [TaxId: 1 95.28
d2adba1108 Polypyrimidine tract-binding protein {Human (Homo 95.26
d1u6fa1139 RNA-binding protein UBP1 {Trypanosoma cruzi [TaxId 95.24
d2f9da1114 Pre-mRNA branch site protein p14 {Human (Homo sapi 95.23
d2cqca183 Arginine/serine-rich splicing factor 10 {Human (Ho 95.22
d1b7fa285 Sex-lethal protein {Drosophila melanogaster [TaxId 95.2
d1x5oa1101 RNA-binding motif, single-stranded-interacting pro 95.18
d1wg4a_98 Splicing factor, arginine/serine-rich 9 (SFRS9) {M 95.18
d1x4aa195 Splicing factor, arginine/serine-rich 1, SFRS1 {Hu 94.97
d2cq1a188 Polypyrimidine tract-binding protein 2, PTBP2 {Hum 94.86
d1x4fa199 Matrin 3 {Mouse (Mus musculus) [TaxId: 10090]} 94.82
d2cq3a193 RNA-binding protein 9 {Human (Homo sapiens) [TaxId 94.8
d1p1ta_104 Cleavage stimulation factor, 64 kda subunit {Human 94.74
d1whwa_99 Probable RNA-binding protein 19, Rbm19 {Mouse (Mus 94.56
d1fxla285 Hu antigen D (Hud) {Human (Homo sapiens) [TaxId: 9 94.4
d1fjca_96 Nucleolin {Golden hamster (Mesocricetus auratus) [ 94.26
d1wexa_104 Heterogeneous nuclear ribonucleoprotein L-like {Mo 94.26
d2cpja186 Non-POU domain-containing octamer-binding protein, 94.18
d2b0ga183 Splicesomal U1A protein {Drosophila melanogaster [ 94.18
d1whxa_111 Probable RNA-binding protein 19, Rbm19 {Mouse (Mus 94.14
d1h2vz_93 CBP20, 20KDa nuclear cap-binding protein {Human (H 93.81
d1cvja289 Poly(A)-binding protein {Human (Homo sapiens) [Tax 93.81
d1rk8a_88 RNA-binding protein 8 {Fruit fly (Drosophila melan 93.62
d2cpea1101 RNA-binding protein EWS {Human (Homo sapiens) [Tax 93.58
d2cqia190 Nucleolysin TIAR {Human (Homo sapiens) [TaxId: 960 93.29
d1wg1a_88 Probable RNA-binding protein KIAA1579 {Human (Homo 93.12
d2cpda186 APOBEC1 stimulating protein {Human (Homo sapiens) 93.09
d2cpha194 Probable RNA-binding protein 19, Rbm19 {Mouse (Mus 92.83
d1x5sa190 Cold-inducible RNA-binding protein {Human (Homo sa 92.83
d2ghpa386 U4/U6 snRNA-associated-splicing factor PRP24 {Bake 92.71
d2msta_75 Neural RNA-binding protein Musashi-1 {Mouse (Mus m 92.43
d2adca288 Polypyrimidine tract-binding protein {Human (Homo 92.28
d1x4ga196 Nucleolysin TIAR {Human (Homo sapiens) [TaxId: 960 92.1
d1nu4a_91 Splicesomal U1A protein {Human (Homo sapiens) [Tax 92.03
d2bz2a179 Negative elongation factor E, NELF-E {Human (Homo 91.97
d1cvja180 Poly(A)-binding protein {Human (Homo sapiens) [Tax 91.95
d2cpza1102 CUG triplet repeat RNA-binding protein 1 {Human (H 91.56
d2u2fa_85 Splicing factor U2AF 65 KDa subunit {Human (Homo s 91.1
d2cqba189 Peptidyl-prolyl cis-trans isomerase E, N-terminal 91.02
d1l3ka279 Nuclear ribonucleoprotein A1 (RNP A1, UP1) {Human 90.95
d2cq0a190 Eukaryotic translation initiation factor 3 subunit 90.88
d1fxla182 Hu antigen D (Hud) {Human (Homo sapiens) [TaxId: 9 90.68
d2cpfa185 Probable RNA-binding protein 19, Rbm19 {Mouse (Mus 90.4
d2cpxa1102 RNA-binding protein 41, RBM41 {Human (Homo sapiens 90.12
d2cqda1103 RNA-binding region containing protein 1 {Human (Ho 89.07
d1b7fa182 Sex-lethal protein {Drosophila melanogaster [TaxId 88.69
d1x4da189 Matrin 3 {Mouse (Mus musculus) [TaxId: 10090]} 88.67
d1o0pa_104 Splicing factor U2AF 65 KDa subunit {Human (Homo s 88.42
d1x5ua193 Splicing factor 3B subunit 4 {Human (Homo sapiens) 88.29
d1zh5a285 Lupus LA protein {Human (Homo sapiens) [TaxId: 960 87.8
d1wi8a_104 Eukaryotic translation initiation factor 4B {Human 86.19
d1weya_104 Calcipressin-1 {Mouse (Mus musculus) [TaxId: 10090 85.71
d2cqha180 IGF-II mRNA-binding protein 2 isoform A {Human (Ho 85.24
d2ghpa181 U4/U6 snRNA-associated-splicing factor PRP24 {Bake 84.21
d1hd0a_75 Heterogeneous nuclear ribonucleoprotein d0 {Human 84.17
d2ghpa275 U4/U6 snRNA-associated-splicing factor PRP24 {Bake 84.14
d2disa196 Hypothetical protein FLJ20273 {Human (Homo sapiens 83.53
d2cq4a1101 RNA binding protein 23 {Human (Homo sapiens) [TaxI 81.84
d2cqpa186 RNA-binding protein 12 {Mouse (Mus musculus) [TaxI 80.53
d2cpia189 E3 ubiquitin protein ligase CNOT4 {Mouse (Mus musc 80.46
>d2adca1 d.58.7.1 (A:335-443) Polypyrimidine tract-binding protein {Human (Homo sapiens) [TaxId: 9606]} Back     information, alignment and structure
class: Alpha and beta proteins (a+b)
fold: Ferredoxin-like
superfamily: RNA-binding domain, RBD
family: Canonical RBD
domain: Polypyrimidine tract-binding protein
species: Human (Homo sapiens) [TaxId: 9606]

Probab=96.59  E-value=0.0029  Score=53.17  Aligned_cols=74  Identities=14%  Similarity=0.296  Sum_probs=62.9

Q ss_pred             CceeEEeccCCCccchhhHHHHHhcccCCCCceEEEEEecChhhHHhHHHHHhhCCccccCCCCCCCCCCCChhhhHHHH
Q 005276          175 THRLAIVNMDWRHVKAVDLLVILSSFLPKDGQILSVAVYPSEFGIQRMKEEEVRGPVGLFDSQNENSDDEDNDEIDEEKL  254 (704)
Q Consensus       175 T~RLAvvNmDWD~IrA~DL~vlf~SF~P~gG~I~sV~IYPSeFGkeRM~~Ee~~GP~~l~~~~~~~~~~~~~~e~d~e~L  254 (704)
                      ++.|-|.||+|+.|...||+.+|+.|    |.|.+|.|-+.-                                      
T Consensus         2 ~~~l~V~nL~p~~~te~~L~~~F~~f----G~I~~v~i~~~~--------------------------------------   39 (109)
T d2adca1           2 NSVLLVSNLNPERVTPQSLFILFGVY----GDVQRVKILFNK--------------------------------------   39 (109)
T ss_dssp             CSEEEEESCCTTTCCHHHHHHHHHHH----TCEEEEEECCTT--------------------------------------
T ss_pred             CCEEEEeCCCcccCCHHHHHHHHhhc----cccceEEEEecc--------------------------------------
Confidence            57899999999999999999999998    899999995420                                      


Q ss_pred             HHHHhhccceeEEEEEeCCHHHHHHHHHhcCcccccccccccccccc
Q 005276          255 RAYEKSRLRYYYAVVECDSSATADYLYRACDGVEFERSSNKLDLRFI  301 (704)
Q Consensus       255 R~YQl~RLRYYYAVvecDSv~TA~~IY~ecDG~E~E~San~lDLRFV  301 (704)
                              | =||.|++.+++.|....+.++|+.+.  +..|-+.|-
T Consensus        40 --------k-g~afV~f~~~~~A~~ai~~lng~~l~--g~~l~v~~s   75 (109)
T d2adca1          40 --------K-ENALVQMADGNQAQLAMSHLNGHKLH--GKPIRITLS   75 (109)
T ss_dssp             --------S-CCEEEEESCHHHHHHHHHHHTTCBCS--SSBCEEECC
T ss_pred             --------c-ceEEEEECCHHHHHHHHHHhCCCEEC--CEEEEEEEC
Confidence                    0 17999999999999999999999987  456666664
>d1whya_ d.58.7.1 (A:) Putative RNA-binding protein 15B, Rbm15b {Mouse (Mus musculus) [TaxId: 10090]} Back     information, alignment and structure
>d3begb1 d.58.7.1 (B:121-207) Splicing factor, arginine/serine-rich 1, SFRS1 {Human (Homo sapiens) [TaxId: 9606]} Back     information, alignment and structure
>d2cq2a1 d.58.7.1 (A:25-125) Alkylation repair AlkB homolog 8, ALKBH8 {Human (Homo sapiens) [TaxId: 9606]} Back     information, alignment and structure
>d1wf2a_ d.58.7.1 (A:) Heterogeneous nuclear ribonucleoproteins C1/C2 {Human (Homo sapiens) [TaxId: 9606]} Back     information, alignment and structure
>d1no8a_ d.58.7.1 (A:) Nuclear factor Aly {Mouse (Mus musculus) [TaxId: 10090]} Back     information, alignment and structure
>d2adba1 d.58.7.1 (A:177-284) Polypyrimidine tract-binding protein {Human (Homo sapiens) [TaxId: 9606]} Back     information, alignment and structure
>d1u6fa1 d.58.7.1 (A:1-139) RNA-binding protein UBP1 {Trypanosoma cruzi [TaxId: 5693]} Back     information, alignment and structure
>d2f9da1 d.58.7.1 (A:12-125) Pre-mRNA branch site protein p14 {Human (Homo sapiens) [TaxId: 9606]} Back     information, alignment and structure
>d2cqca1 d.58.7.1 (A:109-191) Arginine/serine-rich splicing factor 10 {Human (Homo sapiens) [TaxId: 9606]} Back     information, alignment and structure
>d1b7fa2 d.58.7.1 (A:205-289) Sex-lethal protein {Drosophila melanogaster [TaxId: 7227]} Back     information, alignment and structure
>d1x5oa1 d.58.7.1 (A:8-108) RNA-binding motif, single-stranded-interacting protein 1, RBMS1 {Human (Homo sapiens) [TaxId: 9606]} Back     information, alignment and structure
>d1wg4a_ d.58.7.1 (A:) Splicing factor, arginine/serine-rich 9 (SFRS9) {Mouse (Mus musculus) [TaxId: 10090]} Back     information, alignment and structure
>d1x4aa1 d.58.7.1 (A:9-103) Splicing factor, arginine/serine-rich 1, SFRS1 {Human (Homo sapiens) [TaxId: 9606]} Back     information, alignment and structure
>d2cq1a1 d.58.7.1 (A:51-138) Polypyrimidine tract-binding protein 2, PTBP2 {Human (Homo sapiens) [TaxId: 9606]} Back     information, alignment and structure
>d1x4fa1 d.58.7.1 (A:8-106) Matrin 3 {Mouse (Mus musculus) [TaxId: 10090]} Back     information, alignment and structure
>d2cq3a1 d.58.7.1 (A:110-202) RNA-binding protein 9 {Human (Homo sapiens) [TaxId: 9606]} Back     information, alignment and structure
>d1p1ta_ d.58.7.1 (A:) Cleavage stimulation factor, 64 kda subunit {Human (Homo sapiens) [TaxId: 9606]} Back     information, alignment and structure
>d1whwa_ d.58.7.1 (A:) Probable RNA-binding protein 19, Rbm19 {Mouse (Mus musculus) [TaxId: 10090]} Back     information, alignment and structure
>d1fxla2 d.58.7.1 (A:119-203) Hu antigen D (Hud) {Human (Homo sapiens) [TaxId: 9606]} Back     information, alignment and structure
>d1fjca_ d.58.7.1 (A:) Nucleolin {Golden hamster (Mesocricetus auratus) [TaxId: 10036]} Back     information, alignment and structure
>d1wexa_ d.58.7.1 (A:) Heterogeneous nuclear ribonucleoprotein L-like {Mouse (Mus musculus) [TaxId: 10090]} Back     information, alignment and structure
>d2cpja1 d.58.7.1 (A:65-150) Non-POU domain-containing octamer-binding protein, NonO {Mouse (Mus musculus) [TaxId: 10090]} Back     information, alignment and structure
>d2b0ga1 d.58.7.1 (A:1-83) Splicesomal U1A protein {Drosophila melanogaster [TaxId: 7227]} Back     information, alignment and structure
>d1whxa_ d.58.7.1 (A:) Probable RNA-binding protein 19, Rbm19 {Mouse (Mus musculus) [TaxId: 10090]} Back     information, alignment and structure
>d1h2vz_ d.58.7.1 (Z:) CBP20, 20KDa nuclear cap-binding protein {Human (Homo sapiens) [TaxId: 9606]} Back     information, alignment and structure
>d1cvja2 d.58.7.1 (A:91-179) Poly(A)-binding protein {Human (Homo sapiens) [TaxId: 9606]} Back     information, alignment and structure
>d1rk8a_ d.58.7.1 (A:) RNA-binding protein 8 {Fruit fly (Drosophila melanogaster) [TaxId: 7227]} Back     information, alignment and structure
>d2cpea1 d.58.7.1 (A:353-453) RNA-binding protein EWS {Human (Homo sapiens) [TaxId: 9606]} Back     information, alignment and structure
>d2cqia1 d.58.7.1 (A:1-90) Nucleolysin TIAR {Human (Homo sapiens) [TaxId: 9606]} Back     information, alignment and structure
>d1wg1a_ d.58.7.1 (A:) Probable RNA-binding protein KIAA1579 {Human (Homo sapiens) [TaxId: 9606]} Back     information, alignment and structure
>d2cpda1 d.58.7.1 (A:223-308) APOBEC1 stimulating protein {Human (Homo sapiens) [TaxId: 9606]} Back     information, alignment and structure
>d2cpha1 d.58.7.1 (A:454-547) Probable RNA-binding protein 19, Rbm19 {Mouse (Mus musculus) [TaxId: 10090]} Back     information, alignment and structure
>d1x5sa1 d.58.7.1 (A:8-97) Cold-inducible RNA-binding protein {Human (Homo sapiens) [TaxId: 9606]} Back     information, alignment and structure
>d2ghpa3 d.58.7.1 (A:206-291) U4/U6 snRNA-associated-splicing factor PRP24 {Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]} Back     information, alignment and structure
>d2msta_ d.58.7.1 (A:) Neural RNA-binding protein Musashi-1 {Mouse (Mus musculus) [TaxId: 10090]} Back     information, alignment and structure
>d2adca2 d.58.7.1 (A:444-531) Polypyrimidine tract-binding protein {Human (Homo sapiens) [TaxId: 9606]} Back     information, alignment and structure
>d1x4ga1 d.58.7.1 (A:8-103) Nucleolysin TIAR {Human (Homo sapiens) [TaxId: 9606]} Back     information, alignment and structure
>d1nu4a_ d.58.7.1 (A:) Splicesomal U1A protein {Human (Homo sapiens) [TaxId: 9606]} Back     information, alignment and structure
>d2bz2a1 d.58.7.1 (A:35-113) Negative elongation factor E, NELF-E {Human (Homo sapiens) [TaxId: 9606]} Back     information, alignment and structure
>d1cvja1 d.58.7.1 (A:11-90) Poly(A)-binding protein {Human (Homo sapiens) [TaxId: 9606]} Back     information, alignment and structure
>d2cpza1 d.58.7.1 (A:383-484) CUG triplet repeat RNA-binding protein 1 {Human (Homo sapiens) [TaxId: 9606]} Back     information, alignment and structure
>d2u2fa_ d.58.7.1 (A:) Splicing factor U2AF 65 KDa subunit {Human (Homo sapiens) [TaxId: 9606]} Back     information, alignment and structure
>d2cqba1 d.58.7.1 (A:1-89) Peptidyl-prolyl cis-trans isomerase E, N-terminal domain {Human (Homo sapiens) [TaxId: 9606]} Back     information, alignment and structure
>d1l3ka2 d.58.7.1 (A:103-181) Nuclear ribonucleoprotein A1 (RNP A1, UP1) {Human (Homo sapiens) [TaxId: 9606]} Back     information, alignment and structure
>d2cq0a1 d.58.7.1 (A:231-320) Eukaryotic translation initiation factor 3 subunit 4 {Human (Homo sapiens) [TaxId: 9606]} Back     information, alignment and structure
>d1fxla1 d.58.7.1 (A:37-118) Hu antigen D (Hud) {Human (Homo sapiens) [TaxId: 9606]} Back     information, alignment and structure
>d2cpfa1 d.58.7.1 (A:362-446) Probable RNA-binding protein 19, Rbm19 {Mouse (Mus musculus) [TaxId: 10090]} Back     information, alignment and structure
>d2cpxa1 d.58.7.1 (A:291-392) RNA-binding protein 41, RBM41 {Human (Homo sapiens) [TaxId: 9606]} Back     information, alignment and structure
>d2cqda1 d.58.7.1 (A:1-103) RNA-binding region containing protein 1 {Human (Homo sapiens) [TaxId: 9606]} Back     information, alignment and structure
>d1b7fa1 d.58.7.1 (A:123-204) Sex-lethal protein {Drosophila melanogaster [TaxId: 7227]} Back     information, alignment and structure
>d1x4da1 d.58.7.1 (A:8-96) Matrin 3 {Mouse (Mus musculus) [TaxId: 10090]} Back     information, alignment and structure
>d1o0pa_ d.58.7.1 (A:) Splicing factor U2AF 65 KDa subunit {Human (Homo sapiens) [TaxId: 9606]} Back     information, alignment and structure
>d1x5ua1 d.58.7.1 (A:7-99) Splicing factor 3B subunit 4 {Human (Homo sapiens) [TaxId: 9606]} Back     information, alignment and structure
>d1zh5a2 d.58.7.1 (A:105-189) Lupus LA protein {Human (Homo sapiens) [TaxId: 9606]} Back     information, alignment and structure
>d1wi8a_ d.58.7.1 (A:) Eukaryotic translation initiation factor 4B {Human (Homo sapiens) [TaxId: 9606]} Back     information, alignment and structure
>d1weya_ d.58.7.1 (A:) Calcipressin-1 {Mouse (Mus musculus) [TaxId: 10090]} Back     information, alignment and structure
>d2cqha1 d.58.7.1 (A:2-81) IGF-II mRNA-binding protein 2 isoform A {Human (Homo sapiens) [TaxId: 9606]} Back     information, alignment and structure
>d2ghpa1 d.58.7.1 (A:116-196) U4/U6 snRNA-associated-splicing factor PRP24 {Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]} Back     information, alignment and structure
>d1hd0a_ d.58.7.1 (A:) Heterogeneous nuclear ribonucleoprotein d0 {Human (Homo sapiens) [TaxId: 9606]} Back     information, alignment and structure
>d2ghpa2 d.58.7.1 (A:41-115) U4/U6 snRNA-associated-splicing factor PRP24 {Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]} Back     information, alignment and structure
>d2disa1 d.58.7.1 (A:8-103) Hypothetical protein FLJ20273 {Human (Homo sapiens) [TaxId: 9606]} Back     information, alignment and structure
>d2cq4a1 d.58.7.1 (A:132-232) RNA binding protein 23 {Human (Homo sapiens) [TaxId: 9606]} Back     information, alignment and structure
>d2cqpa1 d.58.7.1 (A:917-1002) RNA-binding protein 12 {Mouse (Mus musculus) [TaxId: 10090]} Back     information, alignment and structure
>d2cpia1 d.58.7.1 (A:101-189) E3 ubiquitin protein ligase CNOT4 {Mouse (Mus musculus) [TaxId: 10090]} Back     information, alignment and structure