Psyllid ID: psy17497

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-------710-------720-------730-------740-------750-------760-------770-------780-------790-------800------

MDRATMKKQIAEQKLKAFSIGSMGAKRTLSKKEQEEQKKKEQEAAAAQAFEEFVATFQENPAAKTNKVWVKAGTYDAGRRREDTSEKGKLYKPQSRLQEDKDSSASKAEEYARLLGDKKTESQRLKKNNKIDIKKKSNLEMFKEELKMIQEEREERHKYKGVLKGVYSEEAEPPSAIAIYQEETKGSFDSGDPCTTNLYLGNLNPKITEQQLMEIFGRYGPLASIKIMWPRSDEEKARGRNCGFVAFMNRKDGERALKYLNGKDVQSYEMKLGWGKSVPIPSYPIYIPPKMLELTVPPPPSGLPFNAQPASKDKHRIPKLRPGEPLTREDLDRLDQILNQAYVKVVVPTDRTLLMLIHRMVEFVVREGPMFEAMIMNKEISNPLYRFLFENQSPAHIYYRWKMYSILQGDQPKEWRTNEFRMFDGGSVWRPPPMNLFTQGMPDELVEEEVESKTKGSLSNSQRHRLEDFLRNLTPERVKVAEAMVFCMEHSDAAEEICECIMESLSNESTALHKKIGRLYLVSDILHNCGIKISNASFYRRGFESRLFQIFTEMHITYVNLESRLKAEGLRTRVMQVFRAWEDWAVYPKDYLIKLQNVFLGLSDAVPLDANNGNEEDEDLDGAPLSDVDGEDLDGVPLDGAALMKSLQRLPHSSSAPDEDDIDGVPCTYNITSATMDGEDLDGVPMDKVKPARAATFIPSKWETVEENEDSAVTSSKWDDVEQSESKDDSNSKGTGLTSSRRGDLSSERIQGDSGEDDSAAREEKKEANKSERSDRKKSPSPAAREEKKEANKSERSDRKKSPSPV

ccHHHHcHHHHHHHHHHHcccccccccccHHHHHHHHHHHHHHHHHHHHHHHHHHHccccccccccccccccccccccccccccccccccccccccccccccccHHHHHHHHHHHcccHHHHHHHccccccccccccHHHHHHHHHHHHHHHHHHHHHHHcccccccccccccccHHHHccccccccccccccccccEEEccccccccHHHHHHHHcccccccEEEEEcccccccccccccEEEEEEccHHHHHHHHHHHcccEEccEEEEEEcccccccccccccccccccccccccccccccccccccccccccccccccccccccccHHHHHHHHHHcccccccccHHHHHHHHHHHHHHHHHHcHHHHHHHHHHHccccccccccccccccccEEEEEEcccccccccccccccccccccccccccccccccccccccccHHHHHHHccccccccHHHHHHHHHHHHHccHHHHHHHHHHHHHHHccccHHHHHHHHHHHHcccccHHHHHHHHHHHHHHHccccccccccHHHHHHHHHHHHHHHHHHHHHHHHHcccccHHHHHHHHHHHHHHHccccccccHHHHHHHHHHHcccccccccccccccccccccccccccccccccccccccccHHHHHHccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccHHHHHHcccccHHHHHHHcccccHHHHHHHHHHHHcHHcccccccccc

cccHHHHHHHHHHHHHHEEcccccccccccHHHHHHHHHHHHHHHHHHHHHHHHHHHccccccccccEEEEEEEEcccccccccccccEEccccccccccccccHcccccccccccccEEccccccccccccccccccHHHHHHHHHHHHHHHHHHHcccccccccccccccccccccccccccccccccccccccEEEEEcccccccHHHHHHHHcccccEEEEEEEccccccccccccccEEEEEccHHHHHHHHHHccccEEccEEEEEcccccccccccccccccHHHHccccccccccccccccccccccccccccccccccccccccccccccccEEEEEccccHHHHHHHHHHHHHHHHccHHHHHHHHHHHcccccHEEEEcccccccEEEEEEEEEEccccccHcccccccEEEccccEEcccccccccccccHHHccccccccccccccHHHHHHHHHHHHHccHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHccccccHHHHHHHHHHHHHHHHccccccHHHHHHHHHHHHHHHHHHHHHHHHHHHcccHHcHHHHHHHHHHHHHHHHHHccccHHHHHHHHHHHHccccccccccccccccHHccccccccccccccccccccccHHHcccHccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccHHccccccccccccccccccccccccccccHHHcccccccccHHHHHHHHHcHHHHHHHHccccHHHHHHHHHHccccHHccccccccc

MDRATMKKQIAEQKLKAfsigsmgakrtlskKEQEEQKKKEQEAAAAQAFEEFVATFqenpaaktnkVWVKAgtydagrrredtsekgklykpqsrlqedkdssaSKAEEYARLLGDKKTESQRLKKNNKIDIKKKSNLEMFKEELKMIQEEREERHKYKGVLkgvyseeaeppsaiaiyqeetkgsfdsgdpcttnlylgnlnpkitEQQLMEIFGRygplasikimwprsdeekargrncgfvafmNRKDGERALKYlngkdvqsyemklgwgksvpipsypiyippkmleltvppppsglpfnaqpaskdkhripklrpgepltredLDRLDQILNQAYVKVVVPTDRTLLMLIHRMVEFVVREGPMFEAMIMNKEISnplyrflfenqspahiyyRWKMYsilqgdqpkewrtnefrmfdggsvwrpppmnlftqgmpdELVEEEVESKtkgslsnsqrHRLEDFLRNLTPERVKVAEAMVFCMEHSDAAEEICECIMESLSNESTALHKKIGRLYLVSDILHncgikisnasfyrrGFESRLFQIFTEMHITYVNLESRLKAEGLRTRVMQVFRAWEDWAVYPKDYLIKLQNVFLglsdavpldanngneededldgaplsdvdgedldgvplDGAALMKSlqrlphsssapdeddidgvpctynitsatmdgedldgvpmdkvkparaatfipskwetveenedsavtsskwddveqseskddsnskgtgltssrrgdlsseriqgdsgeddsAAREEKKEanksersdrkkspspaareekkeanksersdrkkspspv

mdratmkkqiaeqklkafsigsmgakrtlskKEQEEQKKKEQEAAAAQAFEEFVATFqenpaaktnkvwvkagtydagrrredtsekgklykpqsrlqedkdssasKAEEYArllgdkktesqrlkknnkidikkksnlemFKEELKMIQEEREERHKYKGVLKGVYSEEAEPPSAIAIYQEETKGSFDSGDPCTTNLYLGNLNPKITEQQLMEIFGRYGPLASIKIMWPRSDEEKARGRNCGFVAFMNRKDGERALKYLNGKDVQSYEmklgwgksvpiPSYPIYIPPKMLELTVPPPPSGLPFnaqpaskdkhripklrpgepltredLDRLDQILNQAYVKVVVPTDRTLLMLIHRMVEFVVREGPMFEAMIMNKEISNPLYRFLFENQSPAHIYYRWKMYSILQGDQPKEWRTNEFRMFDGGSVWRPPPMNLFTQGMPDELVEEEVESktkgslsnsqrhrledfLRNLTPERVKVAEAMVFCMEHSDAAEEICECIMESLSNESTALHKKIGRLYLVSDILHNCGIKISNASFYRRGFESRLFQIFTEMHITYVNLESRLKAEGLRTRVMQVFRAWEDWAVYPKDYLIKLQNVFLGLSDAVPLDANNGNEEDEDLDGAPLSDVDGEDLDGVPLDGAALMKSLQRLPHsssapdeddidgVPCTYNITsatmdgedldgvPMDKVKPARAatfipskwetveenedsavtsskwddveqseskddsnskgtgltssrrgdlsseriqgdsgeddsaareekkeanksersdrkkspspaareekkeanksersdrkkspspv

MDRATMKKQIAEQKLKAFSIGSMGAKRTLSkkeqeeqkkkeqeaaaaqafeefvatfqeNPAAKTNKVWVKAGTYDAGRRREDTSEKGKLYKPQSRLQEDKDSSASKAEEYARLLGDKKTESQRLkknnkidikkkSNLEMFKEELKMIQEEREERHKYKGVLKGVYSEEAEPPSAIAIYQEETKGSFDSGDPCTTNLYLGNLNPKITEQQLMEIFGRYGPLASIKIMWPRSDEEKARGRNCGFVAFMNRKDGERALKYLNGKDVQSYEMKLGWGKSVpipsypiyippKMLELTVPPPPSGLPFNAQPASKDKHRIPKLRPGEPLTREDLDRLDQILNQAYVKVVVPTDRTLLMLIHRMVEFVVREGPMFEAMIMNKEISNPLYRFLFENQSPAHIYYRWKMYSILQGDQPKEWRTNEFRMFDGGSVWRPPPMNLFTQGMPDELVEEEVESKTKGSLSNSQRHRLEDFLRNLTPERVKVAEAMVFCMEHSDAAEEICECIMESLSNESTALHKKIGRLYLVSDILHNCGIKISNASFYRRGFESRLFQIFTEMHITYVNLESRLKAEGLRTRVMQVFRAWEDWAVYPKDYLIKLQNVFLGLSDAVPLDANNGNEEDEDLDGAPLSDVDGEDLDGVPLDGAALMKSLQRLPHSSSAPDEDDIDGVPCTYNITSATMDGEDLDGVPMDKVKPARAATFIPSKWETVEENEDSAVTSSKWDDVEQSESKDDSNSKGTGLTSSRRGDLSSERIQGDSGEDDSAAREEKKEANKSERSDRKKSPSPAAREEKKEANKSERSDRKKSPSPV

***************************************************EFVATFQ****AKTNKVWVKAGTY******************************************************************************************************AIY***********DPCTTNLYLGNLNPKITEQQLMEIFGRYGPLASIKIMWPRSD**KARGRNCGFVAFMNRKDGERALKYLNGKDVQSYEMKLGWGKSVPIPSYPIYIPPKMLEL*************************************DRLDQILNQAYVKVVVPTDRTLLMLIHRMVEFVVREGPMFEAMIMNKEISNPLYRFLFENQSPAHIYYRWKMYSILQGDQPKEWRTNEFRMFDGGSVWR**************************************FLRNLTPERVKVAEAMVFCMEHSDAAEEICECIMESLSNESTALHKKIGRLYLVSDILHNCGIKISNASFYRRGFESRLFQIFTEMHITYVNLESRLKAEGLRTRVMQVFRAWEDWAVYPKDYLIKLQNVFLGLSDAVP*********************************************************VPCTYNIT**************************************************************************************************************************************

**********************************************AQAFEEFVA*********************************************************************************************************************************************NLYLGNLNPKITEQQLMEIFGRYGPLASIKI**************CGFVAFMNRKDGERALKYLNGKDVQSYEMKLGWGKSVP*********************************************************ILNQAYVKVVVPTDRTLLMLIHRMVEFVVREGPMFEAMIMN*EISNPLYRFLFENQSPAHIYYRWKMYS***********************************************************RLEDFLRNLTPERVKVAEAMVFCMEHSDAAEEICECIMESLSNESTALHKKIGRLYLVSDILHNCGIKISNASFYRRGFESRLFQIFTEMHITYV************TRVMQVFRAWEDWAVYPKDYLIKLQNVFLG*******************************LDGV*L**********************DIDGVPCTYNI***************************************************************************************************************************************

*********IAEQKLKAFSIGSMG**********************AQAFEEFVATFQENPAAKTNKVWVKAGTYDAG*******************************EYARLLGDKKTESQRLKKNNKIDIKKKSNLEMFKEELKMIQEEREERHKYKGVLKGVYSEEAEPPSAIAIYQEETKGSFDSGDPCTTNLYLGNLNPKITEQQLMEIFGRYGPLASIKIMWPRSDEEKARGRNCGFVAFMNRKDGERALKYLNGKDVQSYEMKLGWGKSVPIPSYPIYIPPKMLELTVPPPPSGLPFNA********RIPKLRPGEPLTREDLDRLDQILNQAYVKVVVPTDRTLLMLIHRMVEFVVREGPMFEAMIMNKEISNPLYRFLFENQSPAHIYYRWKMYSILQGDQPKEWRTNEFRMFDGGSVWRPPPMNLFTQGMPDEL*****************RHRLEDFLRNLTPERVKVAEAMVFCMEHSDAAEEICECIMESLSNESTALHKKIGRLYLVSDILHNCGIKISNASFYRRGFESRLFQIFTEMHITYVNLESRLKAEGLRTRVMQVFRAWEDWAVYPKDYLIKLQNVFLGLSDAVPLDANNGNEEDEDLDGAPLSDVDGEDLDGVPLDGAALMKSLQ***********DDIDGVPCTYNITSATMDGEDLDGVPMDKVKPARAATFIPSKWET******************************************************************************************************

****TMKKQIAEQKLKAFSIGSMGA*R*LSKKEQE*QKKKEQEAAAAQAFEEFVATFQENPAAKTNKVWVKAGTYDAGR********G*****QSRLQEDKDSSASKAEEYARLLGDKKTES******NKIDIKKKSNLEMFKEELKMIQEEREERHKY********************************DPCTTNLYLGNLNPKITEQQLMEIFGRYGPLASIKIMWPRSDEEKARGRNCGFVAFMNRKDGERALKYLNGKDVQSYEMKLGWGKSVPIPSYPIYIPPKMLELTVPPPPSGLPF***************************RLDQILNQAYVKVVVPTDRTLLMLIHRMVEFVVREGPMFEAMIMNKEISNPLYRFLFENQSPAHIYYRWKMYSILQGDQPKEWRTNEFRMFDGGSVWRPPPMNLFT********************SNSQRHRLEDFLRNLTPERVKVAEAMVFCMEHSDAAEEICECIMESLSNESTALHKKIGRLYLVSDILHNCGIKISNASFYRRGFESRLFQIFTEMHITYVNLESRLKAEGLRTRVMQVFRAWEDWAVYPKDYLIKLQNVFLGLSD***************************DLDGVPLDGAALMKSLQRLPH******EDDIDGVPCTY***************PM************************************************************************************************************************

oooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo

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MDRATMKKQIAEQKLKAFSIGSMGxxxxxxxxxxxxxxxxxxxxxxxxxxxxFVATFQENPAAKTNKVWVKAGTYDAGRRREDTSEKGKLYKPQSRLQEDKDSSASKAEEYARLLGDKKTESQRLKKNNKIDIKKKSNLEMFKEELKMIQEEREERHKYKGVLKGVYSEEAEPPSAIAIYQEETKGSFDSGDPCTTNLYLGNLNPKITEQQLMEIFGRYGPLASIKIMWPRSDEEKARGRNCGFVAFMNRKDGERALKYLNGKDVQSYEMKLGWGKSVPIPSYPIYIPPKMLELTVPPPPSGLPFNAQPASKDKHRIPKLRPGEPLTREDLDRLDQILNQAYVKVVVPTDRTLLMLIHRMVEFVVREGPMFEAMIMNKEISNPLYRFLFENQSPAHIYYRWKMYSILQGDQPKEWRTNEFRMFDGGSVWRPPPMNLFTQGMPDELVEEEVESKTKGSLSNSQRHRLEDFLRNLTPERVKVAEAMVFCMEHSDAAEEICECIMESLSNESTALHKKIGRLYLVSDILHNCGIKISNASFYRRGFESRLFQIFTEMHITYVNLESRLKAEGLRTRVMQVFRAWEDWAVYPKDYLIKLQNVFLGLSDAVPLDANNGNEEDEDLDGAPLSDVDGEDLDGVPLDGAALMKSLQRLPHSSSAPDEDDIDGVPCTYNITSATMDGEDLDGVPMDKVKPARAATFIPSKWETVEENEDSAVTSSKWDDVEQSESKDDSNSKGTGLTSSRRGDLSSERIQGDSGEDDSAAREEKKEANKSERSDRKKSPSPAAREEKKEANKSERSDRKKSPSPV

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
Query		806	2.2.26 [Sep-21-2011]
Q5R7X2		1028	U2 snRNP-associated SURP	yes	N/A	0.843	0.661	0.517	0.0
Q6NV83		1029	U2 snRNP-associated SURP	yes	N/A	0.843	0.660	0.516	0.0
O15042		1029	U2 snRNP-associated SURP	yes	N/A	0.843	0.660	0.516	0.0
Q9FPJ8		387	Polyadenylate-binding pro	no	N/A	0.162	0.338	0.3	4e-11
Q93W34		415	Polyadenylate-binding pro	no	N/A	0.111	0.216	0.35	5e-11
Q9LEB4		409	Polyadenylate-binding pro	N/A	N/A	0.095	0.188	0.360	1e-10
P32831		672	Negative growth regulator	yes	N/A	0.094	0.113	0.364	1e-09
Q9SAB3		405	Polyadenylate-binding pro	no	N/A	0.110	0.219	0.316	2e-09
F4I3B3		445	Polyadenylate-binding pro	no	N/A	0.104	0.188	0.333	5e-09
Q9SX80		434	Polyadenylate-binding pro	no	N/A	0.096	0.179	0.333	7e-09

>sp\|Q5R7X2\|SR140_PONAB U2 snRNP-associated SURP motif-containing protein OS=Pongo abelii GN=U2SURP PE=2 SV=1	Back alignment and function desciption

 Score =  684 bits (1766), Expect = 0.0,   Method: Compositional matrix adjust.
 Identities = 389/752 (51%), Positives = 509/752 (67%), Gaps = 72/752 (9%)

Query: 5   TMKKQIAEQKLKAFSIGSMG-AKRTLSKKEQEEQKKKEQEAAAAQAFEEFVATFQENPAA 63
            + + + E KLKAFSIG M  AKRTLSKKEQEE KKKE E AAA+ +EEF+A F+ +   
Sbjct: 71  NLSRPLLENKLKAFSIGKMSTAKRTLSKKEQEELKKKEDEKAAAEIYEEFLAAFEGSDGN 130

Query: 64  KTNKVWVKAGTYDAGRRREDTSEK-GKLYKPQSRLQEDKDS-SASKAEEYARLLGDKKTE 121
           K  K +V+ G  +A +   +T EK GK+YKP SR  + K+  + S  E    LL     E
Sbjct: 131 KV-KTFVRGGVVNAAKEEHETDEKRGKIYKPSSRFADQKNPPNQSSNERPPSLLV---IE 186

Query: 122 SQRLKKNNKIDIKKKSNLEMFKEELKMIQEEREERHKYKGVLKGVYSEEAEPPSA----- 176
           +++         KKKSNLE+FKEELK IQEER+ERHK KG L        EPP +     
Sbjct: 187 TKKPPLKKGEKEKKKSNLELFKEELKQIQEERDERHKTKGRLSRF-----EPPQSDSDGQ 241

Query: 177 ------------IAIYQEETKGSFDSGDPCTTNLYLGNLNPKITEQQLMEIFGRYGPLAS 224
                        ++  +   GS D GDP TTNLYLGN+NP++ E+ L + FGR+GPLAS
Sbjct: 242 RRSMDAPSRRNRSSVLDDYAPGSHDVGDPSTTNLYLGNINPQMNEEMLCQEFGRFGPLAS 301

Query: 225 IKIMWPRSDEEKARGRNCGFVAFMNRKDGERALKYLNGKDVQSYEMKLGWGKSVPIPSYP 284
           +KIMWPR+DEE+AR RNCGFVAFMNR+D ERALK LNGK + S+EMKLGWGK+VPIP +P
Sbjct: 302 VKIMWPRTDEERARERNCGFVAFMNRRDAERALKNLNGKMIMSFEMKLGWGKAVPIPPHP 361

Query: 285 IYIPPKMLELTVPPPPSGLPFNAQPASKDKH-RIPKLRPGEPLTREDLDRLDQILNQAYV 343
           IYIPP M+E T+PPPPSGLPFNAQP  + K+   P L P  P  +ED ++    L+QA V
Sbjct: 362 IYIPPSMMEHTLPPPPSGLPFNAQPRERLKNPNAPMLPP--PKNKEDFEK---TLSQAIV 416

Query: 344 KVVVPTDRTLLMLIHRMVEFVVREGPMFEAMIMNKEISNPLYRFLFENQSPAHIYYRWKM 403
           KVV+PT+R LL LIHRM+EFVVREGPMFEAMIMN+EI+NP++RFLFENQ+PAH+YYRWK+
Sbjct: 417 KVVIPTERNLLALIHRMIEFVVREGPMFEAMIMNREINNPMFRFLFENQTPAHVYYRWKL 476

Query: 404 YSILQGDQPKEWRTNEFRMFDGGSVWRPPPMNLFTQGMPDELVEEEV--ESKTKGSLSNS 461
           YSILQGD P +WRT +FRMF  GS WRPPP+N +  GM +E   E    E   KG+L   
Sbjct: 477 YSILQGDSPTKWRTEDFRMFKNGSFWRPPPLNPYLHGMSEEQETEAFVEEPSKKGALKEE 536

Query: 462 QRHRLEDFLRNLTPERVKVAEAMVFCMEHSDAAEEICECIMESLSNESTALHKKIGRLYL 521
           QR +LE+ LR LTP +  + +AMVFC+ +++AAEEI +CI ESLS   T L KKI RLYL
Sbjct: 537 QRDKLEEILRGLTPRKNDIGDAMVFCLNNAEAAEEIVDCITESLSILKTPLPKKIARLYL 596

Query: 522 VSDILHNCGIKISNASFYRRGFESRLFQIFTEMHITYVNLESRLKAEGLRTRVMQVFRAW 581
           VSD+L+N   K++NAS+YR+ FE++L QIF++++ TY  ++  L++E  + RVM  FRAW
Sbjct: 597 VSDVLYNSSAKVANASYYRKFFETKLCQIFSDLNATYRTIQGHLQSENFKQRVMTCFRAW 656

Query: 582 EDWAVYPKDYLIKLQNVFLGLSDAVPLDANNGNEEDEDLDGAPL-SDVDG---EDLDGVP 637
           EDWA+YP+ +LIKLQN+FLGL + +  +     +  +DLDGAP+  ++DG   ED+DG+P
Sbjct: 657 EDWAIYPEPFLIKLQNIFLGLVNII--EEKETEDVPDDLDGAPIEEELDGAPLEDVDGIP 714

Query: 638 LDGAALMKSLQRLPHSSSAPDEDDIDGVPCTYNITSATMDGEDLDGVPMDKVKPARAATF 697
           +D   +                DD+DGVP        ++D +DLDGVP+D  + ++    
Sbjct: 715 IDATPI----------------DDLDGVPI------KSLD-DDLDGVPLDATEDSKKNEP 751

Query: 698 I----PSKWETVEEN--EDSAVTSSKWDDVEQ 723
           I    PSKWE V+E+  E  AVT+SKW+  +Q
Sbjct: 752 IFKVAPSKWEAVDESELEAQAVTTSKWELFDQ 783

Pongo abelii (taxid: 9601)

>sp\|Q6NV83\|SR140_MOUSE U2 snRNP-associated SURP motif-containing protein OS=Mus musculus GN=U2surp PE=1 SV=3	Back alignment and function description

>sp\|O15042\|SR140_HUMAN U2 snRNP-associated SURP motif-containing protein OS=Homo sapiens GN=U2SURP PE=1 SV=2	Back alignment and function description

>sp\|Q9FPJ8\|RB45A_ARATH Polyadenylate-binding protein RBP45A OS=Arabidopsis thaliana GN=RBP45A PE=2 SV=1	Back alignment and function description

>sp\|Q93W34\|RP45C_ARATH Polyadenylate-binding protein RBP45C OS=Arabidopsis thaliana GN=RBP45C PE=2 SV=1	Back alignment and function description

>sp\|Q9LEB4\|RBP45_NICPL Polyadenylate-binding protein RBP45 OS=Nicotiana plumbaginifolia GN=RBP45 PE=1 SV=1	Back alignment and function description

>sp\|P32831\|NGR1_YEAST Negative growth regulatory protein NGR1 OS=Saccharomyces cerevisiae (strain ATCC 204508 / S288c) GN=NGR1 PE=1 SV=2	Back alignment and function description

>sp\|Q9SAB3\|RB45B_ARATH Polyadenylate-binding protein RBP45B OS=Arabidopsis thaliana GN=RBP45B PE=1 SV=1	Back alignment and function description

>sp\|F4I3B3\|RB47A_ARATH Polyadenylate-binding protein RBP47A OS=Arabidopsis thaliana GN=RBP47A PE=2 SV=1	Back alignment and function description

>sp\|Q9SX80\|R47CP_ARATH Polyadenylate-binding protein RBP47C' OS=Arabidopsis thaliana GN=RBP47C' PE=2 SV=1	Back alignment and function description

Close Homologs in the Non-Redundant Database Detected by BLAST

Original result of BLAST against Nonredundant Database

GI	Alignment Graph	Length	Definition	Q cover	H cover	Identity	E-value
Query		806
328793609		966	PREDICTED: u2 snRNP-associated SURP moti	0.903	0.753	0.639	0.0
340720343		937	PREDICTED: u2 snRNP-associated SURP moti	0.884	0.760	0.661	0.0
350410108		937	PREDICTED: U2 snRNP-associated SURP moti	0.884	0.760	0.661	0.0
350410111		968	PREDICTED: U2 snRNP-associated SURP moti	0.897	0.746	0.637	0.0
340720345		968	PREDICTED: u2 snRNP-associated SURP moti	0.897	0.746	0.637	0.0
307166394		1023	U2-associated protein SR140 [Camponotus	0.892	0.702	0.628	0.0
383849268		936	PREDICTED: U2 snRNP-associated SURP moti	0.888	0.764	0.658	0.0
383849266		967	PREDICTED: U2 snRNP-associated SURP moti	0.900	0.750	0.634	0.0
380026763		944	PREDICTED: LOW QUALITY PROTEIN: U2 snRNP	0.877	0.748	0.633	0.0
332019907		1014	U2-associated protein [Acromyrmex echina	0.893	0.710	0.598	0.0

>gi\|328793609\|ref\|XP_397019.4\| PREDICTED: u2 snRNP-associated SURP motif-containing protein-like [Apis mellifera]	Back alignment and taxonomy information

 Score =  962 bits (2486), Expect = 0.0,   Method: Compositional matrix adjust.
 Identities = 509/796 (63%), Positives = 609/796 (76%), Gaps = 68/796 (8%)

Query: 2   DRATMKKQIAEQKLKAFSIGSMGAKRTLSKKEQEEQKKKEQEAAAAQAFEEFVATFQENP 61
           D+A MK QIAEQKLKAFSIG+MG KR LSKKE EEQ+KKEQE AAAQAFEEFVATFQE P
Sbjct: 3   DKAIMK-QIAEQKLKAFSIGTMG-KRPLSKKELEEQRKKEQEQAAAQAFEEFVATFQETP 60

Query: 62  AAKTNKVWVKAGTYDAGRRREDTSEKGKLYKPQSRLQE--DKDSSASKAEEYARLLGDKK 119
              T+KVWVKAGTYDAG+R+EDT EKGKLYKPQS++ E  D  SSA +A+EYARLLG  +
Sbjct: 61  NKTTSKVWVKAGTYDAGKRQEDTREKGKLYKPQSKISELVDSRSSAEQAQEYARLLGSNE 120

Query: 120 TESQRLKKNNKIDIKKKSNLEMFKEELKMIQEEREERHKYKGVLKGVYSEEAEPPSAIAI 179
            +  RL K  K   KKKSNLE+FKEELKMIQEEREERHKYKGV+K V S ++E P   A+
Sbjct: 121 RKLDRLGKKKKEGEKKKSNLELFKEELKMIQEEREERHKYKGVVKNVISTQSEDPMLAAL 180

Query: 180 ---------YQEETK-------------------GSFDSGDPCTTNLYLGNLNPKITEQQ 211
                    Y +  K                   GSFD+GDP TTNLYLGNLNPKITEQQ
Sbjct: 181 KCVEGCTSSYPDSRKNNLHNLIDDPRLLALIYEDGSFDNGDPNTTNLYLGNLNPKITEQQ 240

Query: 212 LMEIFGRYGPLASIKIMWPRSDEEKARGRNCGFVAFMNRKDGERALKYLNGKDVQSYEMK 271
           LMEIFG+YGPLASIKIMWPRSDEEKAR RNCGFVAFM+RKDGERALK LNG+D+  YEMK
Sbjct: 241 LMEIFGKYGPLASIKIMWPRSDEEKARQRNCGFVAFMSRKDGERALKNLNGRDIMQYEMK 300

Query: 272 LGWGKSVPIPSYPIYIPPKMLELTVPPPPSGLPFNAQPASKDKHRIPKLRPGEPLTREDL 331
           LGWGKSVPIP YPIYIPP ++E+T PPPPSGLPFNAQP  +D+H+IP++R  +    ++ 
Sbjct: 301 LGWGKSVPIPPYPIYIPPALMEITQPPPPSGLPFNAQPHRRDRHKIPRIRNLQTADPQEK 360

Query: 332 DRLDQILNQAYVKVVVPTDRTLLMLIHRMVEFVVREGPMFEAMIMNKEISNPLYRFLFEN 391
           +  +++L  A VKVV+PT+R L+MLIHRMVEFV+REGPMFEAMIMN+E++NP++RFLFEN
Sbjct: 361 ENFEKVLQNAVVKVVIPTERNLVMLIHRMVEFVIREGPMFEAMIMNRELNNPMFRFLFEN 420

Query: 392 QSPAHIYYRWKMYSILQGDQPKEWRTNEFRMFDGGSVWRPPPMNLFTQGMPDELVE-EEV 450
            SPAHIYYRWK+YSILQGD  KEWRT +FRMF GGSVWRPPP+N +TQGMPDEL+E EE 
Sbjct: 421 YSPAHIYYRWKLYSILQGDGQKEWRTEDFRMFKGGSVWRPPPINPWTQGMPDELIEMEER 480

Query: 451 ESKTKGSLSNSQRHRLEDFLRNLTPERVKVAEAMVFCMEHSDAAEEICECIMESLSNEST 510
           +   +GSLSNSQR RLED LRN++PER+KVAEAMVFC+EH++AAEEIC+CI ESLS   T
Sbjct: 481 QEPRRGSLSNSQRDRLEDLLRNISPERIKVAEAMVFCIEHAEAAEEICDCISESLSILQT 540

Query: 511 ALHKKIGRLYLVSDILHNCGIKISNASFYRRGFESRLFQIFTEMHITYVNLESRLKAEGL 570
            ++KKI RLYL+SDILHNCG+K++NA+ YR+ FE+RL  IF E+H  Y   +SRLKAEG 
Sbjct: 541 PVNKKIARLYLISDILHNCGVKVNNATIYRKAFETRLLDIFNEVHQAYKQFDSRLKAEGF 600

Query: 571 RTRVMQVFRAWEDWAVYPKDYLIKLQNVFLGLSDAVPLDANNGNEEDEDLDGAPLSDVDG 630
           + RVM++FRAWEDWAVYP+D+L+KLQN FLGL   V +D     E DED+DGAPLSDVDG
Sbjct: 601 KVRVMRMFRAWEDWAVYPRDFLVKLQNTFLGL---VLVDEPEP-ENDEDIDGAPLSDVDG 656

Query: 631 ---EDLDGVPLDGAALMKSLQRLPHSSSAPDEDDIDGVPCTYNITSATMDGEDLDGVPMD 687
              EDLDGVPLDGAAL+K   +   +    + DDIDGVP         MD ED+DGVPMD
Sbjct: 657 DGTEDLDGVPLDGAALLKGAMKHGLTPQTTNYDDIDGVP---------MD-EDIDGVPMD 706

Query: 688 K------------VKPARAATFIPSKWETVEEN--EDSAVTSSKWDDVEQSESKDDSNSK 733
           +             KP+  A F+PS+WETV+ +  E  A+T+SKW+++ Q+   DDSNS+
Sbjct: 707 EDDSSNVQSKEDDKKPSIPAGFVPSRWETVDPDQVEAQAMTTSKWEELGQN---DDSNSQ 763

Query: 734 GTGLTSSRRGDLSSER 749
            T + SS R D + ER
Sbjct: 764 DTSMDSSGR-DYNEER 778

Source: Apis mellifera

Species: Apis mellifera

Genus: Apis

Family: Apidae

Order: Hymenoptera

Class: Insecta

Phylum: Arthropoda

Superkingdom: Eukaryota

>gi\|340720343\|ref\|XP_003398600.1\| PREDICTED: u2 snRNP-associated SURP motif-containing protein-like isoform 1 [Bombus terrestris]	Back alignment and taxonomy information

>gi\|350410108\|ref\|XP_003488948.1\| PREDICTED: U2 snRNP-associated SURP motif-containing protein-like isoform 1 [Bombus impatiens]	Back alignment and taxonomy information

>gi\|350410111\|ref\|XP_003488949.1\| PREDICTED: U2 snRNP-associated SURP motif-containing protein-like isoform 2 [Bombus impatiens]	Back alignment and taxonomy information

>gi\|340720345\|ref\|XP_003398601.1\| PREDICTED: u2 snRNP-associated SURP motif-containing protein-like isoform 2 [Bombus terrestris]	Back alignment and taxonomy information

>gi\|307166394\|gb\|EFN60531.1\| U2-associated protein SR140 [Camponotus floridanus]	Back alignment and taxonomy information

>gi\|383849268\|ref\|XP_003700267.1\| PREDICTED: U2 snRNP-associated SURP motif-containing protein-like isoform 2 [Megachile rotundata]	Back alignment and taxonomy information

>gi\|383849266\|ref\|XP_003700266.1\| PREDICTED: U2 snRNP-associated SURP motif-containing protein-like isoform 1 [Megachile rotundata]	Back alignment and taxonomy information

>gi\|380026763\|ref\|XP_003697113.1\| PREDICTED: LOW QUALITY PROTEIN: U2 snRNP-associated SURP motif-containing protein-like [Apis florea]	Back alignment and taxonomy information

>gi\|332019907\|gb\|EGI60368.1\| U2-associated protein [Acromyrmex echinatior]	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
Query		806
FB\|FBgn0034572		958	CG9346 [Drosophila melanogaste	0.879	0.740	0.528	1e-204
UNIPROTKB\|E1C0P9		985	U2SURP "Uncharacterized protei	0.918	0.751	0.456	8.3e-177
UNIPROTKB\|F1SKE6		1029	U2SURP "Uncharacterized protei	0.916	0.718	0.455	1.7e-176
MGI\|MGI:1915208		1029	U2surp "U2 snRNP-associated SU	0.916	0.718	0.452	1.7e-176
UNIPROTKB\|O15042		1029	U2SURP "U2 snRNP-associated SU	0.916	0.718	0.453	3.6e-176
ZFIN\|ZDB-GENE-070912-400		923	u2surp "U2 snRNP-associated SU	0.914	0.798	0.468	7.4e-176
UNIPROTKB\|E2R1V3		1028	U2SURP "Uncharacterized protei	0.916	0.718	0.453	9.4e-176
RGD\|1307882		985	U2surp "U2 snRNP-associated SU	0.911	0.746	0.453	2e-175
UNIPROTKB\|E7ET15		1028	U2SURP "U2 snRNP-associated SU	0.916	0.718	0.451	4.1e-175
UNIPROTKB\|F1MHP1		1035	U2SURP "Uncharacterized protei	0.960	0.747	0.442	1.9e-170

FB\|FBgn0034572 CG9346 [Drosophila melanogaster (taxid:7227)]	Back alignment and assigned GO terms

 Score = 1922 (681.6 bits), Expect = 1.0e-204, Sum P(2) = 1.0e-204
 Identities = 397/751 (52%), Positives = 510/751 (67%)

Query:     4 ATMKKQIAEQKLKAFSIGSMGAKRTLSXXXXXXXXXXXXXXXXXXXXXXXXXXXXXNPAA 63
             AT+K+ I+E+KL+AF++G+  +KR LS                              P  
Sbjct:    17 ATLKR-ISEKKLEAFTVGTF-SKRQLSKKELEDQKKKEDAAAAAHAFKEFVETFQDAPTP 74

Query:    64 KTNKVWVKAGTYDAGRRREDTSEKGKLYKPQSRLQEDKDSSASKAEEYARLLG-DKKTES 122
              ++KVWVKAGTYDAG RRED SEKGKLYKP S+L E   SS+ K E+YA+ L  D K +S
Sbjct:    75 -SSKVWVKAGTYDAGSRREDKSEKGKLYKPVSKLMEK--SSSDKVEDYAKTLASDLKKDS 131

Query:   123 QRLXXXXXXXXXXXSNLEMFKEELKMIQEEREERHKYKGVLKGVYSEEAEPPSAIAI--- 179
               L           SNLE+FKEEL+ IQEEREERHKYK +    +S  A+ P+A A    
Sbjct:   132 GPLKKKNQEKKK--SNLELFKEELRQIQEEREERHKYKHMASS-HSAPAQQPAASAAPVP 188

Query:   180 -----------YQEETKGSFDSGDPCTTNLYLGNLNPKITEQQLMEIFGRYGPLASIKIM 228
                           +  GSFD+GDP TTNLYLGNLNPKI+EQQLMEIFGRYGPLASIKIM
Sbjct:   189 SSSVSTTSQNSSSSKESGSFDTGDPNTTNLYLGNLNPKISEQQLMEIFGRYGPLASIKIM 248

Query:   229 WPRSDEEKARGRNCGFVAFMNRKDGERALKYLNGKDVQSYEMKLGWGKSVXXXXXXXXXX 288
             WPRS+EEK RGRNCGFVA+M+RKD ERALK LNG+ +  YEM+LGWGK+V          
Sbjct:   249 WPRSEEEKQRGRNCGFVAYMSRKDAERALKTLNGRYIMGYEMRLGWGKTVPIMNTPIFTP 308

Query:   289 XKMLELTVPPPPSGLPFNAQPASKDKHRIPKLRPGEPLTREDLDRLDQILNQAYVKVVVP 348
               +LE+T+PPPPSGLPFNAQP   +   +PK    E   +ED + +++IL +  VKV +P
Sbjct:   309 QALLEMTLPPPPSGLPFNAQPPPSEADVLPKKNYKE-FNQEDKENMERILAKCVVKVHIP 367

Query:   349 TDRTLLMLIHRMVEFVVREGPMFEAMIMNKEISNPLYRFLFENQSPAHIYYRWKMYSILQ 408
             T++ +L +IHRM+EFV+REGPMFEA+IM +E+ NPL+ FLF+N+SPAHIYYRWK++S+LQ
Sbjct:   368 TEKAVLNVIHRMIEFVIREGPMFEALIMIREMENPLFAFLFDNESPAHIYYRWKLFSLLQ 427

Query:   409 GDQPKEWRTNEFRMFDGGSVWRPPPMNLFTQGMPDELV-EEEVESKTKGSLSNSQRHRLE 467
             GD P EWR  EFRMF  G VW+PP  N +TQGMPDELV + +     KG+LSN+QR+RLE
Sbjct:   428 GDTPNEWREEEFRMFKNGPVWKPPIANFYTQGMPDELVVDPDAPVVHKGALSNAQRNRLE 487

Query:   468 DFLRNLTPERVKVAEAMVFCMEHSDAAEEICECIMESLSNESTALHKKIGRLYLVSDILH 527
             D +R+LTPER ++ +AM+FC+EH+DAA+EICECI ESLSN +T   KKI RLYL+SDILH
Sbjct:   488 DLIRHLTPERARIGDAMIFCIEHADAADEICECIAESLSNINTLASKKIARLYLISDILH 547

Query:   528 NCGIKISNASFYRRGFESRLFQIFTEMHITYVNLESRLKAEGLRTRVMQVFRAWEDWAVY 587
             NC +K++NASF+R+  E +L  IF  +H  Y+N+ESRLKAEG ++RV  V R WE+W +Y
Sbjct:   548 NCTVKVANASFFRKSVEKQLLDIFDNLHNYYLNIESRLKAEGFKSRVCNVIRTWEEWTIY 607

Query:   588 PKDYLIKLQNVFLGLSDAVPLDANNGNEE-------DEDLDGAPLS--DVDGEDLDGVPL 638
             PKD++ +L   FLG     P++ +   EE       DED+DGAPLS  + D EDLDGVPL
Sbjct:   608 PKDFMAQLTAKFLGKPYVKPVNNSPQAEETRFDEALDEDIDGAPLSGEEKDDEDLDGVPL 667

Query:   639 DGAALMKS-LQR-LPHSSSA-PDEDDIDGVPCTYNITSATMDGEDLDGVPMDKV--KPAR 693
             DGAAL+KS L+R +P + +  P  D          I    +D +DLDGVP++K     A+
Sbjct:   668 DGAALLKSALKRAIPDADAGTPKRDTPKKDEYLDEIDGIPLD-DDLDGVPLEKETKSTAK 726

Query:   694 AATFIPSKWETVEEN--EDSAVTSSKWDDVE 722
                FIPSKWETV+    E  A+T+SKWD ++
Sbjct:   727 LPGFIPSKWETVDPQQVEAQAITTSKWDTLD 757

GO:0003729 "mRNA binding" evidence=ISS

GO:0006396 "RNA processing" evidence=IEA

GO:0000166 "nucleotide binding" evidence=IEA

GO:0003723 "RNA binding" evidence=IEA

UNIPROTKB\|E1C0P9 U2SURP "Uncharacterized protein" [Gallus gallus (taxid:9031)]	Back alignment and assigned GO terms

UNIPROTKB\|F1SKE6 U2SURP "Uncharacterized protein" [Sus scrofa (taxid:9823)]	Back alignment and assigned GO terms

MGI\|MGI:1915208 U2surp "U2 snRNP-associated SURP domain containing" [Mus musculus (taxid:10090)]	Back alignment and assigned GO terms

UNIPROTKB\|O15042 U2SURP "U2 snRNP-associated SURP motif-containing protein" [Homo sapiens (taxid:9606)]	Back alignment and assigned GO terms

ZFIN\|ZDB-GENE-070912-400 u2surp "U2 snRNP-associated SURP domain containing" [Danio rerio (taxid:7955)]	Back alignment and assigned GO terms

UNIPROTKB\|E2R1V3 U2SURP "Uncharacterized protein" [Canis lupus familiaris (taxid:9615)]	Back alignment and assigned GO terms

RGD\|1307882 U2surp "U2 snRNP-associated SURP domain containing" [Rattus norvegicus (taxid:10116)]	Back alignment and assigned GO terms

UNIPROTKB\|E7ET15 U2SURP "U2 snRNP-associated SURP motif-containing protein" [Homo sapiens (taxid:9606)]	Back alignment and assigned GO terms

UNIPROTKB\|F1MHP1 U2SURP "Uncharacterized protein" [Bos taurus (taxid:9913)]	Back alignment and assigned GO terms

Prediction of Enzyme Commission (EC) Number

EC Number Prediction by Annotation Transfer from SWISS-PROT Entries

Original result of BLAST against SWISS-PROT

ID	Name	Annotated EC number	Identity	Query coverage	Hit coverage	RBH(Q2H)	RBH(H2Q)
Q5R7X2	SR140_PONAB	No assigned EC number	0.5172	0.8436	0.6614	yes	N/A
Q6NV83	SR140_MOUSE	No assigned EC number	0.5166	0.8436	0.6608	yes	N/A
O15042	SR140_HUMAN	No assigned EC number	0.5166	0.8436	0.6608	yes	N/A

EC Number Prediction by EFICAz Software

No EC number assignment, probably not an enzyme!

Prediction of Functionally Associated Proteins

Conserved Domains and Related Protein Families

Conserved Domains Detected by RPS-BLAST

Original result of RPS-BLAST against CDD database

ID	Alignment Graph	Length	Definition	E-value
Query		806
cd12223		84	cd12223, RRM_SR140, RNA recognition motif (RRM) in	5e-50
smart00582		124	smart00582, RPR, domain present in proteins, which	2e-21
pfam01805		54	pfam01805, Surp, Surp module	2e-17
smart00360		73	smart00360, RRM, RNA recognition motif	5e-17
smart00648		54	smart00648, SWAP, Suppressor-of-White-APricot spli	7e-15
cd00590		72	cd00590, RRM_SF, RNA recognition motif (RRM) super	2e-14
cd12614		74	cd12614, RRM1_PUB1, RNA recognition motif 1 in yea	4e-14
cd12346		72	cd12346, RRM3_NGR1_NAM8_like, RNA recognition moti	1e-13
cd12355		80	cd12355, RRM_RBM18, RNA recognition motif in eukar	1e-13
cd12380		80	cd12380, RRM3_I_PABPs, RNA recognition motif 3 fou	2e-13
cd12352		72	cd12352, RRM1_TIA1_like, RNA recognition motif 1 i	3e-13
cd12382		80	cd12382, RRM_RBMX_like, RNA recognition motif in h	4e-13
pfam00076		70	pfam00076, RRM_1, RNA recognition motif	6e-13
cd12619		75	cd12619, RRM2_PUB1, RNA recognition motif 2 in yea	7e-13
cd12378		80	cd12378, RRM1_I_PABPs, RNA recognition motif 1 in	1e-11
cd12284		73	cd12284, RRM2_RBM23_RBM39, RNA recognition motif 2	2e-11
cd12399		78	cd12399, RRM_HP0827_like, RNA recognition motif in	4e-11
cd12309		79	cd12309, RRM2_Spen, RNA recognition motif 2 in the	5e-11
cd12227		77	cd12227, RRM_SCAF4_SCAF8, RNA recognition motif in	5e-11
cd12354		73	cd12354, RRM3_TIA1_like, RNA recognition motif 2 i	9e-11
cd12224		74	cd12224, RRM_RBM22, RNA recognition motif (RRM) fo	2e-10
pfam14259		69	pfam14259, RRM_6, RNA recognition motif (a	3e-10
cd12381		79	cd12381, RRM4_I_PABPs, RNA recognition motif 4 in	4e-10
cd12353		75	cd12353, RRM2_TIA1_like, RNA recognition motif 2 i	8e-10
cd12240		78	cd12240, RRM_NCBP2, RNA recognition motif found in	1e-09
cd12334		74	cd12334, RRM1_SF3B4, RNA recognition motif 1 in sp	3e-09
cd12414		76	cd12414, RRM2_RBM28_like, RNA recognition motif 2	4e-09
cd12555		87	cd12555, RRM2_RBM15, RNA recognition motif 2 in ve	1e-08
cd12418		75	cd12418, RRM_Aly_REF_like, RNA recognition motif i	2e-08
cd12365		73	cd12365, RRM_RNPS1, RNA recognition motif in RNA-b	2e-08
TIGR01628		562	TIGR01628, PABP-1234, polyadenylate binding protei	3e-08
TIGR01628		562	TIGR01628, PABP-1234, polyadenylate binding protei	4e-08
cd12375		77	cd12375, RRM1_Hu_like, RNA recognition motif 1 in	4e-08
cd12408		77	cd12408, RRM_eIF3G_like, RNA recognition motif in	5e-08
cd12652		79	cd12652, RRM2_Hu, RNA recognition motif 2 in the H	5e-08
TIGR01622		457	TIGR01622, SF-CC1, splicing factor, CC1-like famil	5e-08
cd12241		77	cd12241, RRM_SF3B14, RNA recognition motif found i	7e-08
cd12376		79	cd12376, RRM2_Hu_like, RNA recognition motif 2 in	9e-08
cd12449		80	cd12449, RRM_CIRBP_RBM3, RNA recognition motif in	9e-08
cd12651		79	cd12651, RRM2_SXL, RNA recognition motif 2 in Dros	9e-08
cd12461		81	cd12461, RRM_SCAF4, RNA recognition motif found in	1e-07
COG0724		306	COG0724, COG0724, RNA-binding proteins (RRM domain	3e-07
cd12462		79	cd12462, RRM_SCAF8, RNA recognition motif in SR-re	3e-07
cd12363		78	cd12363, RRM_TRA2, RNA recognition motif in transf	3e-07
cd12616		81	cd12616, RRM1_TIAR, RNA recognition motif 1 in nuc	3e-07
cd12345		80	cd12345, RRM2_SECp43_like, RNA recognition motif 2	4e-07
cd12637		80	cd12637, RRM2_FCA, RNA recognition motif 2 in plan	5e-07
cd12622		74	cd12622, RRM3_PUB1, RNA recognition motif 3 in yea	6e-07
cd12298		78	cd12298, RRM3_Prp24, RNA recognition motif 3 in fu	6e-07
cd12615		74	cd12615, RRM1_TIA1, RNA recognition motif 1 in nuc	7e-07
cd12383		83	cd12383, RRM_RBM42, RNA recognition motif in RNA-b	7e-07
cd12523		78	cd12523, RRM2_MRN1, RNA recognition motif 2 of RNA	8e-07
TIGR01628		562	TIGR01628, PABP-1234, polyadenylate binding protei	1e-06
cd12556		85	cd12556, RRM2_RBM15B, RNA recognition motif 2 in p	1e-06
cd12336		75	cd12336, RRM_RBM7_like, RNA recognition motif in R	1e-06
cd12316		74	cd12316, RRM3_RBM19_RRM2_MRD1, RNA recognition mot	2e-06
cd12398		75	cd12398, RRM_CSTF2_RNA15_like, RNA recognition mot	2e-06
cd12251		72	cd12251, RRM3_hnRNPR_like, RNA recognition motif 3	2e-06
cd12393		78	cd12393, RRM_ZCRB1, RNA recognition motif in Zinc	2e-06
cd12373		73	cd12373, RRM_SRSF3_like, RNA recognition motif in	2e-06
cd12448		73	cd12448, RRM2_gar2, RNA recognition motif 2 in yea	3e-06
cd12641		89	cd12641, RRM_TRA2B, RNA recognition motif in Trans	3e-06
cd12407		76	cd12407, RRM_FOX1_like, RNA recognition motif in v	3e-06
cd12447		76	cd12447, RRM1_gar2, RNA recognition motif 1 in yea	3e-06
cd12236		91	cd12236, RRM_snRNP70, RNA recognition motif in U1	5e-06
cd12592		75	cd12592, RRM_RBM7, RNA recognition motif in verteb	6e-06
cd12642		79	cd12642, RRM_TRA2A, RNA recognition motif in trans	6e-06
cd12361		77	cd12361, RRM1_2_CELF1-6_like, RNA recognition moti	6e-06
cd12335		83	cd12335, RRM2_SF3B4, RNA recognition motif 2 in sp	6e-06
cd12617		80	cd12617, RRM2_TIAR, RNA recognition motif 2 in nuc	7e-06
TIGR01659		346	TIGR01659, sex-lethal, sex-lethal family splicing	7e-06
cd12239		82	cd12239, RRM2_RBM40_like, RNA recognition motif 2	8e-06
cd12369		68	cd12369, RRM4_RBM45, RNA recognition motif 4 in RN	8e-06
cd12262		82	cd12262, RRM2_4_MRN1, RNA recognition motif 2 and	1e-05
cd12413		79	cd12413, RRM1_RBM28_like, RNA recognition motif 1	1e-05
cd12674		79	cd12674, RRM1_Nop4p, RNA recognition motif 1 in ye	1e-05
cd12341		68	cd12341, RRM_hnRNPC_like, RNA recognition motif in	2e-05
cd12618		80	cd12618, RRM2_TIA1, RNA recognition motif 2 in nuc	2e-05
cd12297		78	cd12297, RRM2_Prp24, RNA recognition motif 2 in fu	2e-05
cd12771		83	cd12771, RRM1_HuB, RNA recognition motif 1 in vert	2e-05
cd12244		79	cd12244, RRM2_MSSP, RNA recognition motif 2 in the	2e-05
cd12350		74	cd12350, RRM3_SHARP, RNA recognition motif 3 in SM	2e-05
cd12565		76	cd12565, RRM1_MRD1, RNA recognition motif 1 in yea	2e-05
cd12769		81	cd12769, RRM1_HuR, RNA recognition motif 1 in vert	2e-05
cd12770		83	cd12770, RRM1_HuD, RNA recognition motif 1 in vert	3e-05
cd12276		71	cd12276, RRM2_MEI2_EAR1_like, RNA recognition moti	4e-05
cd12650		78	cd12650, RRM1_Hu, RNA recognition motif 1 in the H	4e-05
cd12343		66	cd12343, RRM1_2_CoAA_like, RNA recognition motif 1	4e-05
cd12774		81	cd12774, RRM2_HuD, RNA recognition motif 2 in vert	4e-05
cd12332		71	cd12332, RRM1_p54nrb_like, RNA recognition motif 1	5e-05
cd12597		73	cd12597, RRM1_SRSF1, RNA recognition motif 1 in se	6e-05
cd12344		81	cd12344, RRM1_SECp43_like, RNA recognition motif 1	6e-05
cd12311		73	cd12311, RRM_SRSF2_SRSF8, RNA recognition motif in	7e-05
cd12318		82	cd12318, RRM5_RBM19_like, RNA recognition motif 5	7e-05
cd12613		80	cd12613, RRM2_NGR1_NAM8_like, RNA recognition moti	8e-05
cd12340		67	cd12340, RBD_RRM1_NPL3, RNA recognition motif 1 in	8e-05
cd12520		74	cd12520, RRM1_MRN1, RNA recognition motif 1 of RNA	9e-05
cd12347		73	cd12347, RRM_PPIE, RNA recognition motif in cyclop	1e-04
cd12454		80	cd12454, RRM2_RIM4_like, RNA recognition motif 2 i	1e-04
cd12243		71	cd12243, RRM1_MSSP, RNA recognition motif 1 in the	1e-04
cd12522		79	cd12522, RRM4_MRN1, RNA recognition motif 4 of RNA	1e-04
cd12775		90	cd12775, RRM2_HuB, RNA recognition motif 2 in vert	1e-04
cd12229		81	cd12229, RRM_G3BP, RNA recognition motif (RRM) in	1e-04
cd12348		75	cd12348, RRM1_SHARP, RNA recognition motif 1 in SM	1e-04
cd12529		71	cd12529, RRM2_MEI2_like, RNA recognition motif 2 i	1e-04
cd12671		75	cd12671, RRM_CSTF2_CSTF2T, RNA recognition motif i	2e-04
cd12527		71	cd12527, RRM2_EAR1_like, RNA recognition motif 2 i	2e-04
cd12649		81	cd12649, RRM1_SXL, RNA recognition motif 1 in Dros	2e-04
cd12389		77	cd12389, RRM2_RAVER, RNA recognition motif 2 in ri	2e-04
cd12342		71	cd12342, RRM_Nab3p, RNA recognition motif in yeast	3e-04
cd12338		72	cd12338, RRM1_SRSF1_like, RNA recognition motif 1	3e-04
cd12362		73	cd12362, RRM3_CELF1-6, RNA recognition motif 3 in	3e-04
cd12564		76	cd12564, RRM1_RBM19, RNA recognition motif 1 in RN	3e-04
TIGR01661		352	TIGR01661, ELAV_HUD_SF, ELAV/HuD family splicing f	3e-04
cd12377		78	cd12377, RRM3_Hu, RNA recognition motif 3 in the H	3e-04
cd12226		78	cd12226, RRM_NOL8, RNA recognition motif in nucleo	4e-04
cd12681		69	cd12681, RRM_SKAR, RNA recognition motif in S6K1 A	4e-04
cd12245		79	cd12245, RRM_scw1_like, RNA recognition motif in y	4e-04
cd12237		93	cd12237, RRM_snRNP35, RNA recognition motif found	4e-04
cd12577		76	cd12577, RRM1_Hrp1p, RNA recognition motif 1 in ye	4e-04
cd12776		81	cd12776, RRM2_HuC, RNA recognition motif 2 in vert	5e-04
cd12325		72	cd12325, RRM1_hnRNPA_hnRNPD_like, RNA recognition	5e-04
cd12312		84	cd12312, RRM_SRSF10_SRSF12, RNA recognition motif	7e-04
cd12633		80	cd12633, RRM1_FCA, RNA recognition motif 1 in plan	8e-04
cd12327		80	cd12327, RRM2_DAZAP1, RNA recognition motif 2 in D	9e-04
TIGR01659		346	TIGR01659, sex-lethal, sex-lethal family splicing	0.001
cd12328		73	cd12328, RRM2_hnRNPA_like, RNA recognition motif 2	0.001
PLN03134		144	PLN03134, PLN03134, glycine-rich RNA-binding prote	0.001
cd12773		84	cd12773, RRM2_HuR, RNA recognition motif 2 in vert	0.001
cd12431		80	cd12431, RRM_ALKBH8, RNA recognition motif in alky	0.001
cd12680		75	cd12680, RRM_THOC4, RNA recognition motif in THO c	0.001
cd12578		78	cd12578, RRM1_hnRNPA_like, RNA recognition motif 1	0.001
cd12620		73	cd12620, RRM3_TIAR, RNA recognition motif 3 in nuc	0.002
cd12772		84	cd12772, RRM1_HuC, RNA recognition motif 1 in vert	0.002
cd12675		83	cd12675, RRM2_Nop4p, RNA recognition motif 2 in ye	0.002
cd12593		75	cd12593, RRM_RBM11, RNA recognition motif in verte	0.002
cd12412		80	cd12412, RRM_DAZL_BOULE, RNA recognition motif in	0.002
cd12315		77	cd12315, RRM1_RBM19_MRD1, RNA recognition motif 1	0.002
cd12400		74	cd12400, RRM_Nop6, RNA recognition motif in Saccha	0.002
cd12379		77	cd12379, RRM2_I_PABPs, RNA recognition motif 2 fou	0.003
cd12599		72	cd12599, RRM1_SF2_plant_like, RNA recognition moti	0.003
cd12610		84	cd12610, RRM1_SECp43, RNA recognition motif 1 in t	0.003
cd12415		82	cd12415, RRM3_RBM28_like, RNA recognition motif 3	0.003
cd12330		75	cd12330, RRM2_Hrp1p, RNA recognition motif 2 in ye	0.004
cd12655		85	cd12655, RRM3_HuC, RNA recognition motif 3 in vert	0.004
cd12259		76	cd12259, RRM_SRSF11_SREK1, RNA recognition motif i	0.004
cd12326		79	cd12326, RRM1_hnRNPA0, RNA recognition motif 1 fou	0.004

>gnl\|CDD\|240669 cd12223, RRM_SR140, RNA recognition motif (RRM) in U2-associated protein SR140 and similar proteins	Back alignment and domain information

 Score =  169 bits (431), Expect = 5e-50
 Identities = 61/84 (72%), Positives = 73/84 (86%)

Query: 195 TTNLYLGNLNPKITEQQLMEIFGRYGPLASIKIMWPRSDEEKARGRNCGFVAFMNRKDGE 254
           TTNLY+GNLNPK+TE+ L + FGR+GPLAS+KIMWPR++EE+ R RNCGFVAFMNR D E
Sbjct: 1   TTNLYVGNLNPKVTEEVLCQEFGRFGPLASVKIMWPRTEEERRRNRNCGFVAFMNRADAE 60

Query: 255 RALKYLNGKDVQSYEMKLGWGKSV 278
           RAL  L+GKDV  YE+KLGWGK+V
Sbjct: 61  RALDELDGKDVMGYELKLGWGKAV 84

This subgroup corresponds to the RRM of SR140 (also termed U2 snRNP-associated SURP motif-containing protein orU2SURP, or 140 kDa Ser/Arg-rich domain protein) which is a putative splicing factor mainly found in higher eukaryotes. Although it is initially identified as one of the 17S U2 snRNP-associated proteins, the molecular and physiological function of SR140 remains unclear. SR140 contains an N-terminal RNA recognition motif (RRM), also termed RBD (RNA binding domain) or RNP (ribonucleoprotein domain), a SWAP/SURP domain that is found in a number of pre-mRNA splicing factors in the middle region, and a C-terminal arginine/serine-rich domain (RS domain). Length = 84

>gnl\|CDD\|214731 smart00582, RPR, domain present in proteins, which are involved in regulation of nuclear pre-mRNA	Back alignment and domain information

>gnl\|CDD\|216714 pfam01805, Surp, Surp module	Back alignment and domain information

>gnl\|CDD\|214636 smart00360, RRM, RNA recognition motif	Back alignment and domain information

>gnl\|CDD\|197818 smart00648, SWAP, Suppressor-of-White-APricot splicing regulator	Back alignment and domain information

>gnl\|CDD\|240668 cd00590, RRM_SF, RNA recognition motif (RRM) superfamily	Back alignment and domain information

>gnl\|CDD\|241058 cd12614, RRM1_PUB1, RNA recognition motif 1 in yeast nuclear and cytoplasmic polyadenylated RNA-binding protein PUB1 and similar proteins	Back alignment and domain information

>gnl\|CDD\|240792 cd12346, RRM3_NGR1_NAM8_like, RNA recognition motif 3 in yeast negative growth regulatory protein NGR1 (RBP1), yeast protein NAM8 and similar proteins	Back alignment and domain information

>gnl\|CDD\|240801 cd12355, RRM_RBM18, RNA recognition motif in eukaryotic RNA-binding protein 18 and similar proteins	Back alignment and domain information

>gnl\|CDD\|240826 cd12380, RRM3_I_PABPs, RNA recognition motif 3 found in type I polyadenylate-binding proteins	Back alignment and domain information

>gnl\|CDD\|240798 cd12352, RRM1_TIA1_like, RNA recognition motif 1 in granule-associated RNA binding proteins p40-TIA-1 and TIAR	Back alignment and domain information

>gnl\|CDD\|240828 cd12382, RRM_RBMX_like, RNA recognition motif in heterogeneous nuclear ribonucleoprotein G (hnRNP G), Y chromosome RNA recognition motif 1 (hRBMY), testis-specific heterogeneous nuclear ribonucleoprotein G-T (hnRNP G-T) and similar proteins	Back alignment and domain information

>gnl\|CDD\|215696 pfam00076, RRM_1, RNA recognition motif	Back alignment and domain information

>gnl\|CDD\|241063 cd12619, RRM2_PUB1, RNA recognition motif 2 in yeast nuclear and cytoplasmic polyadenylated RNA-binding protein PUB1 and similar proteins	Back alignment and domain information

>gnl\|CDD\|240824 cd12378, RRM1_I_PABPs, RNA recognition motif 1 in type I polyadenylate-binding proteins	Back alignment and domain information

>gnl\|CDD\|240730 cd12284, RRM2_RBM23_RBM39, RNA recognition motif 2 in vertebrate RNA-binding protein RBM23, RBM39 and similar proteins	Back alignment and domain information

>gnl\|CDD\|240845 cd12399, RRM_HP0827_like, RNA recognition motif in Helicobacter pylori HP0827 protein and similar proteins	Back alignment and domain information

>gnl\|CDD\|240755 cd12309, RRM2_Spen, RNA recognition motif 2 in the Spen (split end) protein family	Back alignment and domain information

>gnl\|CDD\|240673 cd12227, RRM_SCAF4_SCAF8, RNA recognition motif in SR-related and CTD-associated factor 4 (SCAF4), SR-related and CTD-associated factor 8 (SCAF8) and similar proteins	Back alignment and domain information

>gnl\|CDD\|240800 cd12354, RRM3_TIA1_like, RNA recognition motif 2 in granule-associated RNA binding proteins (p40-TIA-1 and TIAR), and yeast nuclear and cytoplasmic polyadenylated RNA-binding protein PUB1	Back alignment and domain information

>gnl\|CDD\|240670 cd12224, RRM_RBM22, RNA recognition motif (RRM) found in Pre-mRNA-splicing factor RBM22 and similar proteins	Back alignment and domain information

>gnl\|CDD\|222631 pfam14259, RRM_6, RNA recognition motif (a	Back alignment and domain information

>gnl\|CDD\|240827 cd12381, RRM4_I_PABPs, RNA recognition motif 4 in type I polyadenylate-binding proteins	Back alignment and domain information

>gnl\|CDD\|240799 cd12353, RRM2_TIA1_like, RNA recognition motif 2 in granule-associated RNA binding proteins p40-TIA-1 and TIAR	Back alignment and domain information

>gnl\|CDD\|240686 cd12240, RRM_NCBP2, RNA recognition motif found in nuclear cap-binding protein subunit 2 (CBP20) and similar proteins	Back alignment and domain information

>gnl\|CDD\|240780 cd12334, RRM1_SF3B4, RNA recognition motif 1 in splicing factor 3B subunit 4 (SF3B4) and similar proteins	Back alignment and domain information

>gnl\|CDD\|240860 cd12414, RRM2_RBM28_like, RNA recognition motif 2 in RNA-binding protein 28 (RBM28) and similar proteins	Back alignment and domain information

>gnl\|CDD\|240999 cd12555, RRM2_RBM15, RNA recognition motif 2 in vertebrate RNA binding motif protein 15 (RBM15)	Back alignment and domain information

>gnl\|CDD\|240864 cd12418, RRM_Aly_REF_like, RNA recognition motif in the Aly/REF family	Back alignment and domain information

>gnl\|CDD\|240811 cd12365, RRM_RNPS1, RNA recognition motif in RNA-binding protein with serine-rich domain 1 (RNPS1) and similar proteins	Back alignment and domain information

>gnl\|CDD\|130689 TIGR01628, PABP-1234, polyadenylate binding protein, human types 1, 2, 3, 4 family	Back alignment and domain information

>gnl\|CDD\|130689 TIGR01628, PABP-1234, polyadenylate binding protein, human types 1, 2, 3, 4 family	Back alignment and domain information

>gnl\|CDD\|240821 cd12375, RRM1_Hu_like, RNA recognition motif 1 in the Hu proteins family, Drosophila sex-lethal (SXL), and similar proteins	Back alignment and domain information

>gnl\|CDD\|240854 cd12408, RRM_eIF3G_like, RNA recognition motif in eukaryotic translation initiation factor 3 subunit G (eIF-3G) and similar proteins	Back alignment and domain information

>gnl\|CDD\|241096 cd12652, RRM2_Hu, RNA recognition motif 2 in the Hu proteins family	Back alignment and domain information

>gnl\|CDD\|233496 TIGR01622, SF-CC1, splicing factor, CC1-like family	Back alignment and domain information

>gnl\|CDD\|240687 cd12241, RRM_SF3B14, RNA recognition motif found in pre-mRNA branch site protein p14 (SF3B14) and similar proteins	Back alignment and domain information

>gnl\|CDD\|240822 cd12376, RRM2_Hu_like, RNA recognition motif 2 in the Hu proteins family, Drosophila sex-lethal (SXL), and similar proteins	Back alignment and domain information

>gnl\|CDD\|240895 cd12449, RRM_CIRBP_RBM3, RNA recognition motif in cold inducible RNA binding protein (CIRBP), RNA binding motif protein 3 (RBM3) and similar proteins	Back alignment and domain information

>gnl\|CDD\|241095 cd12651, RRM2_SXL, RNA recognition motif 2 in Drosophila sex-lethal (SXL) and similar proteins	Back alignment and domain information

>gnl\|CDD\|240907 cd12461, RRM_SCAF4, RNA recognition motif found in SR-related and CTD-associated factor 4 (SCAF4) and similar proteins	Back alignment and domain information

>gnl\|CDD\|223796 COG0724, COG0724, RNA-binding proteins (RRM domain) [General function prediction only]	Back alignment and domain information

>gnl\|CDD\|240908 cd12462, RRM_SCAF8, RNA recognition motif in SR-related and CTD-associated factor 8 (SCAF8) and similar proteins	Back alignment and domain information

>gnl\|CDD\|240809 cd12363, RRM_TRA2, RNA recognition motif in transformer-2 protein homolog TRA2-alpha, TRA2-beta and similar proteins	Back alignment and domain information

>gnl\|CDD\|241060 cd12616, RRM1_TIAR, RNA recognition motif 1 in nucleolysin TIAR and similar proteins	Back alignment and domain information

>gnl\|CDD\|240791 cd12345, RRM2_SECp43_like, RNA recognition motif 2 in tRNA selenocysteine-associated protein 1 (SECp43) and similar proteins	Back alignment and domain information

>gnl\|CDD\|241081 cd12637, RRM2_FCA, RNA recognition motif 2 in plant flowering time control protein FCA and similar proteins	Back alignment and domain information

>gnl\|CDD\|241066 cd12622, RRM3_PUB1, RNA recognition motif 3 in yeast nuclear and cytoplasmic polyadenylated RNA-binding protein PUB1 and similar proteins	Back alignment and domain information

>gnl\|CDD\|240744 cd12298, RRM3_Prp24, RNA recognition motif 3 in fungal pre-messenger RNA splicing protein 24 (Prp24) and similar proteins	Back alignment and domain information

>gnl\|CDD\|241059 cd12615, RRM1_TIA1, RNA recognition motif 1 in nucleolysin TIA-1 isoform p40 (p40-TIA-1) and similar proteins	Back alignment and domain information

>gnl\|CDD\|240829 cd12383, RRM_RBM42, RNA recognition motif in RNA-binding protein 42 (RBM42) and similar proteins	Back alignment and domain information

>gnl\|CDD\|240967 cd12523, RRM2_MRN1, RNA recognition motif 2 of RNA-binding protein MRN1 and similar proteins	Back alignment and domain information

>gnl\|CDD\|130689 TIGR01628, PABP-1234, polyadenylate binding protein, human types 1, 2, 3, 4 family	Back alignment and domain information

>gnl\|CDD\|241000 cd12556, RRM2_RBM15B, RNA recognition motif 2 in putative RNA binding motif protein 15B (RBM15B) from vertebrate	Back alignment and domain information

>gnl\|CDD\|240782 cd12336, RRM_RBM7_like, RNA recognition motif in RNA-binding protein 7 (RBM7) and similar proteins	Back alignment and domain information

>gnl\|CDD\|240762 cd12316, RRM3_RBM19_RRM2_MRD1, RNA recognition motif 3 in RNA-binding protein 19 (RBM19) and RNA recognition motif 2 found in multiple RNA-binding domain-containing protein 1 (MRD1)	Back alignment and domain information

>gnl\|CDD\|240844 cd12398, RRM_CSTF2_RNA15_like, RNA recognition motif in cleavage stimulation factor subunit 2 (CSTF2), yeast ortholog mRNA 3'-end-processing protein RNA15 and similar proteins	Back alignment and domain information

>gnl\|CDD\|240697 cd12251, RRM3_hnRNPR_like, RNA recognition motif 3 in heterogeneous nuclear ribonucleoprotein R (hnRNP R) and similar proteins	Back alignment and domain information

>gnl\|CDD\|240839 cd12393, RRM_ZCRB1, RNA recognition motif in Zinc finger CCHC-type and RNA-binding motif-containing protein 1 (ZCRB1) and similar proteins	Back alignment and domain information

>gnl\|CDD\|240819 cd12373, RRM_SRSF3_like, RNA recognition motif in serine/arginine-rich splicing factor 3 (SRSF3) and similar proteins	Back alignment and domain information

>gnl\|CDD\|240894 cd12448, RRM2_gar2, RNA recognition motif 2 in yeast protein gar2 and similar proteins	Back alignment and domain information

>gnl\|CDD\|241085 cd12641, RRM_TRA2B, RNA recognition motif in Transformer-2 protein homolog beta (TRA-2 beta) and similar proteins	Back alignment and domain information

>gnl\|CDD\|240853 cd12407, RRM_FOX1_like, RNA recognition motif in vertebrate RNA binding protein fox-1 homologs and similar proteins	Back alignment and domain information

>gnl\|CDD\|240893 cd12447, RRM1_gar2, RNA recognition motif 1 in yeast protein gar2 and similar proteins	Back alignment and domain information

>gnl\|CDD\|240682 cd12236, RRM_snRNP70, RNA recognition motif in U1 small nuclear ribonucleoprotein 70 kDa (U1-70K) and similar proteins	Back alignment and domain information

>gnl\|CDD\|241036 cd12592, RRM_RBM7, RNA recognition motif in vertebrate RNA-binding protein 7 (RBM7)	Back alignment and domain information

>gnl\|CDD\|241086 cd12642, RRM_TRA2A, RNA recognition motif in transformer-2 protein homolog alpha (TRA-2 alpha) and similar proteins	Back alignment and domain information

>gnl\|CDD\|240807 cd12361, RRM1_2_CELF1-6_like, RNA recognition motif 1 and 2 in CELF/Bruno-like family of RNA binding proteins and plant flowering time control protein FCA	Back alignment and domain information

>gnl\|CDD\|240781 cd12335, RRM2_SF3B4, RNA recognition motif 2 in splicing factor 3B subunit 4 (SF3B4) and similar proteins	Back alignment and domain information

>gnl\|CDD\|241061 cd12617, RRM2_TIAR, RNA recognition motif 2 in nucleolysin TIAR and similar proteins	Back alignment and domain information

>gnl\|CDD\|233515 TIGR01659, sex-lethal, sex-lethal family splicing factor	Back alignment and domain information

>gnl\|CDD\|240685 cd12239, RRM2_RBM40_like, RNA recognition motif 2 in RNA-binding protein 40 (RBM40) and similar proteins	Back alignment and domain information

>gnl\|CDD\|240815 cd12369, RRM4_RBM45, RNA recognition motif 4 in RNA-binding protein 45 (RBM45) and similar proteins	Back alignment and domain information

>gnl\|CDD\|240708 cd12262, RRM2_4_MRN1, RNA recognition motif 2 and 4 in RNA-binding protein MRN1 and similar proteins	Back alignment and domain information

>gnl\|CDD\|240859 cd12413, RRM1_RBM28_like, RNA recognition motif 1 in RNA-binding protein 28 (RBM28) and similar proteins	Back alignment and domain information

>gnl\|CDD\|241118 cd12674, RRM1_Nop4p, RNA recognition motif 1 in yeast nucleolar protein 4 (Nop4p) and similar proteins	Back alignment and domain information

>gnl\|CDD\|240787 cd12341, RRM_hnRNPC_like, RNA recognition motif in heterogeneous nuclear ribonucleoprotein C (hnRNP C)-related proteins	Back alignment and domain information

>gnl\|CDD\|241062 cd12618, RRM2_TIA1, RNA recognition motif 2 in nucleolysin TIA-1 isoform p40 (p40-TIA-1) and similar proteins	Back alignment and domain information

>gnl\|CDD\|240743 cd12297, RRM2_Prp24, RNA recognition motif 2 in fungal pre-messenger RNA splicing protein 24 (Prp24) and similar proteins	Back alignment and domain information

>gnl\|CDD\|241215 cd12771, RRM1_HuB, RNA recognition motif 1 in vertebrate Hu-antigen B (HuB)	Back alignment and domain information

>gnl\|CDD\|240690 cd12244, RRM2_MSSP, RNA recognition motif 2 in the c-myc gene single-strand binding proteins (MSSP) family	Back alignment and domain information

>gnl\|CDD\|240796 cd12350, RRM3_SHARP, RNA recognition motif 3 in SMART/HDAC1-associated repressor protein (SHARP) and similar proteins	Back alignment and domain information

>gnl\|CDD\|241009 cd12565, RRM1_MRD1, RNA recognition motif 1 in yeast multiple RNA-binding domain-containing protein 1 (MRD1) and similar proteins	Back alignment and domain information

>gnl\|CDD\|241213 cd12769, RRM1_HuR, RNA recognition motif 1 in vertebrate Hu-antigen R (HuR)	Back alignment and domain information

>gnl\|CDD\|241214 cd12770, RRM1_HuD, RNA recognition motif 1 in vertebrate Hu-antigen D (HuD)	Back alignment and domain information

>gnl\|CDD\|240722 cd12276, RRM2_MEI2_EAR1_like, RNA recognition motif 2 in Mei2-like proteins and terminal EAR1-like proteins	Back alignment and domain information

>gnl\|CDD\|241094 cd12650, RRM1_Hu, RNA recognition motif 1 in the Hu proteins family	Back alignment and domain information

>gnl\|CDD\|240789 cd12343, RRM1_2_CoAA_like, RNA recognition motif 1 and 2 in RRM-containing coactivator activator/modulator (CoAA) and similar proteins	Back alignment and domain information

>gnl\|CDD\|241218 cd12774, RRM2_HuD, RNA recognition motif 2 in vertebrate Hu-antigen D (HuD)	Back alignment and domain information

>gnl\|CDD\|240778 cd12332, RRM1_p54nrb_like, RNA recognition motif 1 in the p54nrb/PSF/PSP1 family	Back alignment and domain information

>gnl\|CDD\|241041 cd12597, RRM1_SRSF1, RNA recognition motif 1 in serine/arginine-rich splicing factor 1 (SRSF1) and similar proteins	Back alignment and domain information

>gnl\|CDD\|240790 cd12344, RRM1_SECp43_like, RNA recognition motif 1 in tRNA selenocysteine-associated protein 1 (SECp43) and similar proteins	Back alignment and domain information

>gnl\|CDD\|240757 cd12311, RRM_SRSF2_SRSF8, RNA recognition motif in serine/arginine-rich splicing factor SRSF2, SRSF8 and similar proteins	Back alignment and domain information

>gnl\|CDD\|240764 cd12318, RRM5_RBM19_like, RNA recognition motif 5 in RNA-binding protein 19 (RBM19 or RBD-1) and similar proteins	Back alignment and domain information

>gnl\|CDD\|241057 cd12613, RRM2_NGR1_NAM8_like, RNA recognition motif 2 in yeast negative growth regulatory protein NGR1, yeast protein NAM8 and similar proteins	Back alignment and domain information

>gnl\|CDD\|240786 cd12340, RBD_RRM1_NPL3, RNA recognition motif 1 in yeast nucleolar protein 3 (Npl3p) and similar proteins	Back alignment and domain information

>gnl\|CDD\|240964 cd12520, RRM1_MRN1, RNA recognition motif 1 of RNA-binding protein MRN1 and similar proteins	Back alignment and domain information

>gnl\|CDD\|240793 cd12347, RRM_PPIE, RNA recognition motif in cyclophilin-33 (Cyp33) and similar proteins	Back alignment and domain information

>gnl\|CDD\|240900 cd12454, RRM2_RIM4_like, RNA recognition motif 2 in yeast meiotic activator RIM4 and similar proteins	Back alignment and domain information

>gnl\|CDD\|240689 cd12243, RRM1_MSSP, RNA recognition motif 1 in the c-myc gene single-strand binding proteins (MSSP) family	Back alignment and domain information

>gnl\|CDD\|240966 cd12522, RRM4_MRN1, RNA recognition motif 4 of RNA-binding protein MRN1 and similar proteins	Back alignment and domain information

>gnl\|CDD\|241219 cd12775, RRM2_HuB, RNA recognition motif 2 in vertebrate Hu-antigen B (HuB)	Back alignment and domain information

>gnl\|CDD\|240675 cd12229, RRM_G3BP, RNA recognition motif (RRM) in ras GTPase-activating protein-binding protein G3BP1, G3BP2 and similar proteins	Back alignment and domain information

>gnl\|CDD\|240794 cd12348, RRM1_SHARP, RNA recognition motif 1 in SMART/HDAC1-associated repressor protein (SHARP) and similar proteins	Back alignment and domain information

>gnl\|CDD\|240973 cd12529, RRM2_MEI2_like, RNA recognition motif 2 in plant Mei2-like proteins	Back alignment and domain information

>gnl\|CDD\|241115 cd12671, RRM_CSTF2_CSTF2T, RNA recognition motif in cleavage stimulation factor subunit 2 (CSTF2), cleavage stimulation factor subunit 2 tau variant (CSTF2T) and similar proteins	Back alignment and domain information

>gnl\|CDD\|240971 cd12527, RRM2_EAR1_like, RNA recognition motif 2 in terminal EAR1-like proteins	Back alignment and domain information

>gnl\|CDD\|241093 cd12649, RRM1_SXL, RNA recognition motif 1 in Drosophila sex-lethal (SXL) and similar proteins	Back alignment and domain information

>gnl\|CDD\|240835 cd12389, RRM2_RAVER, RNA recognition motif 2 in ribonucleoprotein PTB-binding raver-1, raver-2 and similar proteins	Back alignment and domain information

>gnl\|CDD\|240788 cd12342, RRM_Nab3p, RNA recognition motif in yeast nuclear polyadenylated RNA-binding protein 3 (Nab3p) and similar proteins	Back alignment and domain information

>gnl\|CDD\|240784 cd12338, RRM1_SRSF1_like, RNA recognition motif 1 in serine/arginine-rich splicing factor 1 (SRSF1) and similar proteins	Back alignment and domain information

>gnl\|CDD\|240808 cd12362, RRM3_CELF1-6, RNA recognition motif 3 in CELF/Bruno-like family of RNA binding proteins CELF1, CELF2, CELF3, CELF4, CELF5, CELF6 and similar proteins	Back alignment and domain information

>gnl\|CDD\|241008 cd12564, RRM1_RBM19, RNA recognition motif 1 in RNA-binding protein 19 (RBM19) and similar proteins	Back alignment and domain information

>gnl\|CDD\|233516 TIGR01661, ELAV_HUD_SF, ELAV/HuD family splicing factor	Back alignment and domain information

>gnl\|CDD\|240823 cd12377, RRM3_Hu, RNA recognition motif 3 in the Hu proteins family	Back alignment and domain information

>gnl\|CDD\|240672 cd12226, RRM_NOL8, RNA recognition motif in nucleolar protein 8 (NOL8) and similar proteins	Back alignment and domain information

>gnl\|CDD\|241125 cd12681, RRM_SKAR, RNA recognition motif in S6K1 Aly/REF-like target (SKAR) and similar proteins	Back alignment and domain information

>gnl\|CDD\|240691 cd12245, RRM_scw1_like, RNA recognition motif in yeast cell wall integrity protein scw1 and similar proteins	Back alignment and domain information

>gnl\|CDD\|240683 cd12237, RRM_snRNP35, RNA recognition motif found in U11/U12 small nuclear ribonucleoprotein 35 kDa protein (U11/U12-35K) and similar proteins	Back alignment and domain information

>gnl\|CDD\|241021 cd12577, RRM1_Hrp1p, RNA recognition motif 1 in yeast nuclear polyadenylated RNA-binding protein 4 (Hrp1p or Nab4p) and similar proteins	Back alignment and domain information

>gnl\|CDD\|241220 cd12776, RRM2_HuC, RNA recognition motif 2 in vertebrate Hu-antigen C (HuC)	Back alignment and domain information

>gnl\|CDD\|240771 cd12325, RRM1_hnRNPA_hnRNPD_like, RNA recognition motif 1 in heterogeneous nuclear ribonucleoprotein hnRNP A and hnRNP D subfamilies and similar proteins	Back alignment and domain information

>gnl\|CDD\|240758 cd12312, RRM_SRSF10_SRSF12, RNA recognition motif in serine/arginine-rich splicing factor SRSF10, SRSF12 and similar proteins	Back alignment and domain information

>gnl\|CDD\|241077 cd12633, RRM1_FCA, RNA recognition motif 1 in plant flowering time control protein FCA and similar proteins	Back alignment and domain information

>gnl\|CDD\|240773 cd12327, RRM2_DAZAP1, RNA recognition motif 2 in Deleted in azoospermia-associated protein 1 (DAZAP1) and similar proteins	Back alignment and domain information

>gnl\|CDD\|233515 TIGR01659, sex-lethal, sex-lethal family splicing factor	Back alignment and domain information

>gnl\|CDD\|240774 cd12328, RRM2_hnRNPA_like, RNA recognition motif 2 in heterogeneous nuclear ribonucleoprotein A subfamily	Back alignment and domain information

>gnl\|CDD\|178680 PLN03134, PLN03134, glycine-rich RNA-binding protein 4; Provisional	Back alignment and domain information

>gnl\|CDD\|241217 cd12773, RRM2_HuR, RNA recognition motif 2 in vertebrate Hu-antigen R (HuR)	Back alignment and domain information

>gnl\|CDD\|240877 cd12431, RRM_ALKBH8, RNA recognition motif in alkylated DNA repair protein alkB homolog 8 (ALKBH8) and similar proteins	Back alignment and domain information

>gnl\|CDD\|241124 cd12680, RRM_THOC4, RNA recognition motif in THO complex subunit 4 (THOC4) and similar proteins	Back alignment and domain information

>gnl\|CDD\|241022 cd12578, RRM1_hnRNPA_like, RNA recognition motif 1 in heterogeneous nuclear ribonucleoprotein A subfamily	Back alignment and domain information

>gnl\|CDD\|241064 cd12620, RRM3_TIAR, RNA recognition motif 3 in nucleolysin TIAR and similar proteins	Back alignment and domain information

>gnl\|CDD\|241216 cd12772, RRM1_HuC, RNA recognition motif 1 in vertebrate Hu-antigen C (HuC)	Back alignment and domain information

>gnl\|CDD\|241119 cd12675, RRM2_Nop4p, RNA recognition motif 2 in yeast nucleolar protein 4 (Nop4p) and similar proteins	Back alignment and domain information

>gnl\|CDD\|241037 cd12593, RRM_RBM11, RNA recognition motif in vertebrate RNA-binding protein 11 (RBM11)	Back alignment and domain information

>gnl\|CDD\|240858 cd12412, RRM_DAZL_BOULE, RNA recognition motif in AZoospermia (DAZ) autosomal homologs, DAZL (DAZ-like) and BOULE	Back alignment and domain information

>gnl\|CDD\|240761 cd12315, RRM1_RBM19_MRD1, RNA recognition motif 1 in RNA-binding protein 19 (RBM19), yeast multiple RNA-binding domain-containing protein 1 (MRD1) and similar proteins	Back alignment and domain information

>gnl\|CDD\|240846 cd12400, RRM_Nop6, RNA recognition motif in Saccharomyces cerevisiae nucleolar protein 6 (Nop6) and similar proteins	Back alignment and domain information

>gnl\|CDD\|240825 cd12379, RRM2_I_PABPs, RNA recognition motif 2 found in type I polyadenylate-binding proteins	Back alignment and domain information

>gnl\|CDD\|241043 cd12599, RRM1_SF2_plant_like, RNA recognition motif 1 in plant pre-mRNA-splicing factor SF2 and similar proteins	Back alignment and domain information

>gnl\|CDD\|241054 cd12610, RRM1_SECp43, RNA recognition motif 1 in tRNA selenocysteine-associated protein 1 (SECp43)	Back alignment and domain information

>gnl\|CDD\|240861 cd12415, RRM3_RBM28_like, RNA recognition motif 3 in RNA-binding protein 28 (RBM28) and similar proteins	Back alignment and domain information

>gnl\|CDD\|240776 cd12330, RRM2_Hrp1p, RNA recognition motif 2 in yeast nuclear polyadenylated RNA-binding protein 4 (Hrp1p or Nab4p) and similar proteins	Back alignment and domain information

>gnl\|CDD\|241099 cd12655, RRM3_HuC, RNA recognition motif 3 in vertebrate Hu-antigen C (HuC)	Back alignment and domain information

>gnl\|CDD\|240705 cd12259, RRM_SRSF11_SREK1, RNA recognition motif in serine/arginine-rich splicing factor 11 (SRSF11), splicing regulatory glutamine/lysine-rich protein 1 (SREK1) and similar proteins	Back alignment and domain information

>gnl\|CDD\|240772 cd12326, RRM1_hnRNPA0, RNA recognition motif 1 found in heterogeneous nuclear ribonucleoprotein A0 (hnRNP A0) and similar proteins	Back alignment and domain information

Conserved Domains Detected by HHsearch

Original result of HHsearch against CDD database

ID	Alignment Graph	Length	Definition	Probability
Query		806
KOG0151\|consensus		877		100.0
smart00582		121	RPR domain present in proteins, which are involved	99.89
KOG2669\|consensus		325		99.77
cd03562		114	CID CID (CTD-Interacting Domain) domain family; CI	99.66
PF01805		55	Surp: Surp module; InterPro: IPR000061 SWAP is der	99.64
smart00648		54	SWAP Suppressor-of-White-APricot splicing regulato	99.58
PLN03134		144	glycine-rich RNA-binding protein 4; Provisional	99.58
KOG4368\|consensus		757		99.5
TIGR01661		352	ELAV_HUD_SF ELAV/HuD family splicing factor. These	99.46
TIGR01661		352	ELAV_HUD_SF ELAV/HuD family splicing factor. These	99.43
PF00076		70	RRM_1: RNA recognition motif. (a.k.a. RRM, RBD, or	99.42
TIGR01645		612	half-pint poly-U binding splicing factor, half-pin	99.39
TIGR01659		346	sex-lethal sex-lethal family splicing factor. This	99.39
KOG0122\|consensus		270		99.38
TIGR01645		612	half-pint poly-U binding splicing factor, half-pin	99.33
PF04818		64	CTD_bind: RNA polymerase II-binding domain.; Inter	99.32
KOG0121\|consensus		153		99.31
KOG0148\|consensus		321		99.28
TIGR01659		346	sex-lethal sex-lethal family splicing factor. This	99.28
TIGR01628		562	PABP-1234 polyadenylate binding protein, human typ	99.24
PLN03120		260	nucleic acid binding protein; Provisional	99.23
KOG0107\|consensus		195		99.23
KOG4207\|consensus		256		99.23
PLN03213		759	repressor of silencing 3; Provisional	99.23
KOG0111\|consensus		298		99.22
PF14259		70	RRM_6: RNA recognition motif (a.k.a. RRM, RBD, or	99.22
KOG0113\|consensus		335		99.21
KOG0149\|consensus		247		99.21
TIGR01622		457	SF-CC1 splicing factor, CC1-like family. A homolog	99.2
TIGR01628		562	PABP-1234 polyadenylate binding protein, human typ	99.2
KOG0125\|consensus		376		99.17
TIGR01642		509	U2AF_lg U2 snRNP auxilliary factor, large subunit,	99.15
KOG0148\|consensus		321		99.15
KOG0124\|consensus		544		99.14
smart00362		72	RRM_2 RNA recognition motif.	99.13
KOG0126\|consensus		219		99.13
COG0724		306	RNA-binding proteins (RRM domain) [General functio	99.13
KOG0145\|consensus		360		99.12
TIGR01648		578	hnRNP-R-Q heterogeneous nuclear ribonucleoprotein	99.1
TIGR01648		578	hnRNP-R-Q heterogeneous nuclear ribonucleoprotein	99.09
PLN03121		243	nucleic acid binding protein; Provisional	99.08
TIGR01622		457	SF-CC1 splicing factor, CC1-like family. A homolog	99.06
TIGR01649		481	hnRNP-L_PTB hnRNP-L/PTB/hephaestus splicing factor	99.06
smart00360		71	RRM RNA recognition motif.	99.06
KOG0108\|consensus		435		99.03
KOG0114\|consensus		124		99.02
cd00590		74	RRM RRM (RNA recognition motif), also known as RBD	99.0
TIGR01649		481	hnRNP-L_PTB hnRNP-L/PTB/hephaestus splicing factor	98.99
KOG0131\|consensus		203		98.98
KOG0105\|consensus		241		98.98
KOG0117\|consensus		506		98.98
PF12243		139	CTK3: CTD kinase subunit gamma CTK3	98.98
KOG0145\|consensus		360		98.94
PF13893		56	RRM_5: RNA recognition motif. (a.k.a. RRM, RBD, or	98.92
KOG0130\|consensus		170		98.91
KOG0144\|consensus		510		98.89
KOG0117\|consensus		506		98.89
KOG0144\|consensus		510		98.87
KOG0131\|consensus		203		98.87
KOG0153\|consensus		377		98.86
KOG0415\|consensus		479		98.84
KOG0132\|consensus		894		98.83
KOG0127\|consensus		678		98.81
KOG0146\|consensus		371		98.8
KOG0109\|consensus		346		98.8
smart00361		70	RRM_1 RNA recognition motif.	98.8
KOG0127\|consensus		678		98.74
KOG0147\|consensus		549		98.72
KOG4206\|consensus		221		98.7
KOG0109\|consensus		346		98.63
TIGR01642		509	U2AF_lg U2 snRNP auxilliary factor, large subunit,	98.62
KOG0123\|consensus		369		98.54
KOG4208\|consensus		214		98.53
KOG1457\|consensus		284		98.49
KOG4661\|consensus		940		98.49
KOG0124\|consensus		544		98.48
KOG0110\|consensus		725		98.48
KOG0123\|consensus		369		98.4
KOG0110\|consensus		725		98.32
KOG0533\|consensus		243		98.29
KOG4212\|consensus		608		98.29
KOG4212\|consensus		608		98.27
KOG1548\|consensus		382		98.2
KOG0226\|consensus		290		98.15
KOG0146\|consensus		371		98.11
KOG0106\|consensus		216		98.06
KOG4209\|consensus		231		98.06
KOG4205\|consensus		311		98.04
KOG1847\|consensus		878		97.99
KOG4660\|consensus		549		97.99
KOG0151\|consensus		877		97.92
KOG4205\|consensus		311		97.86
KOG0116\|consensus		419		97.86
KOG4454\|consensus		267		97.82
KOG1190\|consensus		492		97.74
KOG0132\|consensus		894		97.72
COG5175		480	MOT2 Transcriptional repressor [Transcription]	97.69
KOG1457\|consensus		284		97.58
KOG4206\|consensus		221		97.56
PF04059		97	RRM_2: RNA recognition motif 2; InterPro: IPR00720	97.52
KOG1995\|consensus		351		97.28
PF11608		90	Limkain-b1: Limkain b1; InterPro: IPR024582 This e	97.27
KOG0120\|consensus		500		97.0
KOG4210\|consensus		285		96.91
KOG4211\|consensus		510		96.87
KOG0106\|consensus		216		96.86
KOG0147\|consensus		549		96.78
KOG1855\|consensus		484		96.67
PF08777		105	RRM_3: RNA binding motif; InterPro: IPR014886 This	96.38
KOG0120\|consensus		500		96.28
KOG0112\|consensus		975		96.2
KOG3152\|consensus		278		96.18
KOG1456\|consensus		494		96.09
KOG1190\|consensus		492		96.08
KOG1456\|consensus		494		95.91
KOG4849\|consensus		498		95.8
PF14605		53	Nup35_RRM_2: Nup53/35/40-type RNA recognition moti	95.7
KOG1548\|consensus		382		95.54
KOG2314\|consensus		698		95.13
KOG0129\|consensus		520		95.06
KOG2193\|consensus		584		95.04
KOG0112\|consensus		975		94.97
cd00197		115	VHS_ENTH_ANTH VHS, ENTH and ANTH domain superfamil	94.92
PF05172		100	Nup35_RRM: Nup53/35/40-type RNA recognition motif;	94.87
KOG4211\|consensus		510		94.55
KOG4307\|consensus		944		94.44
KOG2416\|consensus		718		94.31
KOG0129\|consensus		520		94.28
KOG4676\|consensus		479		94.1
PF08952		146	DUF1866: Domain of unknown function (DUF1866) ; In	94.06
PF15023		166	DUF4523: Protein of unknown function (DUF4523)	93.8
KOG1365\|consensus		508		93.77
KOG2071\|consensus		579		93.71
KOG1996\|consensus		378		93.21
PF04847		184	Calcipressin: Calcipressin; InterPro: IPR006931 Ca	92.53
KOG1847\|consensus		878		91.67
KOG2068\|consensus		327		91.51
KOG0128\|consensus		881		91.27
KOG0115\|consensus		275		91.01
KOG2202\|consensus		260		90.72
KOG0128\|consensus		881		89.75
KOG4574\|consensus		1007		88.58
KOG0105\|consensus		241		86.76
PF08675		87	RNA_bind: RNA binding domain; InterPro: IPR014789	84.9
KOG4285\|consensus		350		84.63
KOG2135\|consensus		526		84.24
PF00790		140	VHS: VHS domain; InterPro: IPR002014 The VHS domai	81.33
PF03467		176	Smg4_UPF3: Smg-4/UPF3 family; InterPro: IPR005120	81.06
PF03880		74	DbpA: DbpA RNA binding domain ; InterPro: IPR00558	80.97

>KOG0151\|consensus	Back alignment and domain information

Probab=100.00  E-value=5.1e-142  Score=1185.66  Aligned_cols=666  Identities=53%  Similarity=0.895  Sum_probs=569.3

Q ss_pred             HHhhhhccccccCCCCchhHHHHHHhhHHHHHHHHHHHHHHHHhcCCCCccccceeEEeccccCCCCccccccc-CcccC
Q psy17497         14 KLKAFSIGSMGAKRTLSKKEQEEQKKKEQEAAAAQAFEEFVATFQENPAAKTNKVWVKAGTYDAGRRREDTSEK-GKLYK   92 (806)
Q Consensus        14 kl~~f~~g~~~~k~~~~~kE~ee~kkkeee~~aa~~y~eFv~sF~~~~~~~~~k~FVr~g~~~~~~~~~~~~~~-g~~y~   92 (806)
                      ||.+|+||++. |+++++||.+++|||+.+.+||++|.|||++|.+.+..+ .|+||+|||++|+......+++ |+.  
T Consensus         2 ~~~~f~i~~~s-~p~~~~re~e~~kkK~~~~~~a~~~~ef~~~f~~~~~~~-~k~fv~~gtina~~~r~~~d~~~~k~--   77 (877)
T KOG0151|consen    2 KLDAFSIGSVS-KPKLSKRENEEEKKKEDAGAAARYYQEFVENFPKGDNVG-SKTFVEAGTINAAKARRKLDEKGGKK--   77 (877)
T ss_pred             ccccccccccc-ccchhhhhhHhhhcccchhhHHHHHHHHHHhccCCCCcc-ceeeeeccccccccccccchhhcccc--
Confidence            78999999998 899999999999999999999999999999997655444 8999999999999866555555 444  


Q ss_pred             CCcccccCcCCchhhHHHHHHHhcCCccchhHhhhchhhhhhhhhhHHHHHHHHHHHHHHHHHHHHhhcccc-----ccc
Q psy17497         93 PQSRLQEDKDSSASKAEEYARLLGDKKTESQRLKKNNKIDIKKKSNLEMFKEELKMIQEEREERHKYKGVLK-----GVY  167 (806)
Q Consensus        93 p~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~k~k~~~~~~Kk~~id~f~EELK~~QeereeR~~~k~~~~-----~~~  167 (806)
                       ++...++..+      .+...+..+.++ .+.|++.+  ++|++|||+|+||||++|++||+||+.+++..     ...
T Consensus        78 -k~~~~p~~~~------~~~~~~~~~~kk-~~~kk~~~--k~K~snle~FkeELkr~QE~Re~R~~~r~~~~~~~~d~~~  147 (877)
T KOG0151|consen   78 -KSTEVPSFVE------PPTRLLVKDPKK-GPLKKKQE--KKKKSNLELFKEELKRIQEEREERHKDRHHLEDPQSDSAV  147 (877)
T ss_pred             -cCCCCCCcCC------CcchhcccCCCC-Ccchhhhc--ccchhhHHHHHHHHHHHHHHHHHHhhhhhcccccccCcch
Confidence             2222221110      111223333333 34455544  78999999999999999999999999987642     233


Q ss_pred             CcCCCCCchhhhhccccCCCCCCCCCCCCEEEEcCCCCCCcHHHHHHHhccCCCeeEEEEeCCCCccccCCcccEEEEEe
Q psy17497        168 SEEAEPPSAIAIYQEETKGSFDSGDPCTTNLYLGNLNPKITEQQLMEIFGRYGPLASIKIMWPRSDEEKARGRNCGFVAF  247 (806)
Q Consensus       168 ~sr~~~p~~~~~~~~~~~gs~d~~dp~~ttLfVgNLp~~vte~~L~~~F~~fG~I~sVkI~~Pr~d~~tg~~rg~aFV~F  247 (806)
                      .+|+++.. +.....+.+|+++.+||.+||||||||++.++++.|...|++||+|.+|+|||||++.+..+.+.||||.|
T Consensus       148 s~r~~~~p-~~~~~s~~~gsfDdgDP~TTNlyv~Nlnpsv~E~~ll~tfGrfgPlasvKimwpRtEeEk~r~r~cgfvaf  226 (877)
T KOG0151|consen  148 SSRFDPLP-SRFDPSGRPGSFDDGDPQTTNLYVGNLNPSVDENFLLRTFGRFGPLASVKIMWPRTEEEKRRERNCGFVAF  226 (877)
T ss_pred             hhccCCCc-cccCCCCCCCcCCCCCCcccceeeecCCccccHHHHHHHhcccCcccceeeecccchhhhccccccceeee
Confidence            44544322 22222236799999999999999999999999999999999999999999999999999999999999999


Q ss_pred             cChHHHHHHHHHhCCceeCCeeEEEEeccCCCCCCCCCCCCcccccCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCC
Q psy17497        248 MNRKDGERALKYLNGKDVQSYEMKLGWGKSVPIPSYPIYIPPKMLELTVPPPPSGLPFNAQPASKDKHRIPKLRPGEPLT  327 (806)
Q Consensus       248 ~~~~dAe~Ai~~LnG~~l~Gr~LrV~~ak~~~~p~~~~~~P~~~~~~~~Pp~psg~Pf~a~P~~~~~~~~~~~~~~~~~~  327 (806)
                      +++.||++|+..|||..+.++.|+++||+++++|++++|+|+.+.+.+.|++++++||||||.+  ...+|....    .
T Consensus       227 mnR~D~era~k~lqg~iv~~~e~K~gWgk~V~ip~~p~~ipp~~h~~~lp~p~s~Lpfnaqp~p--~~~~pn~N~----e  300 (877)
T KOG0151|consen  227 MNRADAERALKELQGIIVMEYEMKLGWGKAVPIPNIPIYIPPPLHEATLPPPPSNLPFNAQPGP--PKSLPNQNA----E  300 (877)
T ss_pred             hhhhhHHHHHHHhcceeeeeeeeeeccccccccCCccccCCChhhhccCCCCccCCcccCCCCc--cccCCCccc----c
Confidence            9999999999999999999999999999999999999999999999999999999999999986  222222111    1


Q ss_pred             CcchhhHhhhcccceeeeecCCCHHHHHHHHHHHHHHHhcChHHHHHHHhhcCCCCCcccccCCCCCCCchhHHHHHHHh
Q psy17497        328 REDLDRLDQILNQAYVKVVVPTDRTLLMLIHRMVEFVVREGPMFEAMIMNKEISNPLYRFLFENQSPAHIYYRWKMYSIL  407 (806)
Q Consensus       328 ~~~~~~~~~~l~~~~V~v~~P~d~~~~~~Idk~a~~V~~~G~~FE~~l~~re~~np~F~FL~d~~sp~h~YYrwrl~s~~  407 (806)
                      ....+++..      +.|+||++..|+++||+||.||+++||+||++||+++.+||+|+|||+++++.|+||+||||||+
T Consensus       301 ~~~~edv~~------i~Vvip~d~~L~~vidrM~~fV~~egp~fea~im~re~~nplF~flfen~s~~htyyrwklySil  374 (877)
T KOG0151|consen  301 LVNTEDVED------ILVVIPTDRHLLMVIDRMAEFVVREGPMFEAMIMERERGNPLFSFLFENGSPAHTYYRWKLYSIL  374 (877)
T ss_pred             ccCcCCccc------eeEecCchHHHHHHHHHHHHHHhccCccHHHHHHHhhccChhHHHHHhcCchHHHHHHHHHHHHH
Confidence            122233332      44999999999999999999999999999999999999999999999999999999999999999


Q ss_pred             cCCCCCCccCccccccCCCCccCCCCCCCCCCCCCcchhhh---HHhhhhcCCCChHHHHHHHHHHhhcCcchHhHHHHH
Q psy17497        408 QGDQPKEWRTNEFRMFDGGSVWRPPPMNLFTQGMPDELVEE---EVESKTKGSLSNSQRHRLEDFLRNLTPERVKVAEAM  484 (806)
Q Consensus       408 ~gd~~~~w~~~~f~m~~~g~~w~PP~~~~~~~~~~~~~~~~---~~e~~~~~~L~~~~r~~Le~lL~~Lt~tr~sI~~~m  484 (806)
                      |||+++.|+++||+||+||++|+||++|+|.++||++++.+   ..+...++.|+.++|++|++||+.|||.|.+|++||
T Consensus       375 QgdT~~ewr~e~frmfknggrwipppin~~~~~mp~ee~~~t~a~~e~~~k~~Ltd~qRdklE~liR~LTpEk~sIg~aM  454 (877)
T KOG0151|consen  375 QGDTPQEWRTEPFRMFKNGGRWIPPPINNYRKGMPEEEERSTDAEGESEDKGALTDLQRDKLEDLIRGLTPEKSSIGDAM  454 (877)
T ss_pred             cCCCHHHhhhhhhhhcccCceecCCCCCcccccCchhhhcccccccchhhhcccchHHHHHHHHHHHhcCcccchHHHHH
Confidence            99999999999999999999999999999999999876544   233567899999999999999999999999999999


Q ss_pred             HHHhhcccchHHHHHHHHHHhhcccccchhhhhhhhhhhhhhhhcccCCCChhhHHHHHHHHHHHHHHHHHHhhhhhhhh
Q psy17497        485 VFCMEHSDAAEEICECIMESLSNESTALHKKIGRLYLVSDILHNCGIKISNASFYRRGFESRLFQIFTEMHITYVNLESR  564 (806)
Q Consensus       485 ~w~l~ha~~A~eIvd~i~~sl~~~~t~~~kKLa~LYLinDILhNs~~kv~na~~yr~~fe~~Lp~IF~~l~~~y~~~~gr  564 (806)
                      .|||+|+++|.|||+||+++|++..+++++||+||||||||||||.++|.|||.||..||..|+.||+.|+.+|++|.||
T Consensus       455 ~FalenA~aa~EI~eci~eSlt~~~t~~~kKiarLyLvsDIL~N~sarv~nas~YR~~FEa~L~~Ifd~l~~~yr~I~gR  534 (877)
T KOG0151|consen  455 VFALENADAAGEIVECITESLTNKETPLPKKIARLYLVSDILHNSSARVANASAYRKSFEATLEDIFDDLNDLYRSIGGR  534 (877)
T ss_pred             HHHHhhhhhHHHHHHHHHHHHhccCCcchhHHHHHHHHHHHHhhhhhhhhHHHHHHHHHHHHHHHHHHHHHHHHHhccch
Confidence            99999999999999999999999999999999999999999999999999999999999999999999999999999999


Q ss_pred             hhhHHHHHHHHHHHhhccccccCCHHHHHHHHHHHcCCCCCCccCCCCCCCCCCCCCCCCCCCCCCCCCCCccCC-chhh
Q psy17497        565 LKAEGLRTRVMQVFRAWEDWAVYPKDYLIKLQNVFLGLSDAVPLDANNGNEEDEDLDGAPLSDVDGEDLDGVPLD-GAAL  643 (806)
Q Consensus       565 ~~ae~~k~kV~~VL~iWe~~~vfp~~~l~~L~~~f~g~~~~~~~~e~~~~~~~~didG~pi~~~~~~d~dgvPld-~~~~  643 (806)
                      |+++.|+++|++||++|++|.|||.+||++|+++|+|...  .+.+.+.+....||+|+|+.+ +.+|+||+|+| +.++
T Consensus       535 IkaE~fkqRV~kVirvWedW~ifpe~~l~~l~~~Flg~~~--~~~~~~se~~~~die~~~~a~-~eedldgvple~~~ag  611 (877)
T KOG0151|consen  535 IKAEAFKQRVMKVIRVWEDWAIFPEDFLIGLQNTFLGLNN--IVTEKESEADAPDIENAPLAG-NEEDLDGVPLEDEDAG  611 (877)
T ss_pred             hhHHHHHHHHHHHHHHHHHHHhCcHHHHHHHHHHHhcCCC--CcccccccccchhhccCcccC-chhhccCCCchhhhcC
Confidence            9999999999999999999999999999999999999776  455555555668899999854 56899999998 4434


Q ss_pred             hhhhccCCCCCCC-CCCCCCCCccccCcCCCcCCCCCCCCCCCCCCCCcc-ccCccCCCCccccCCC--cccccccCCcc
Q psy17497        644 MKSLQRLPHSSSA-PDEDDIDGVPCTYNITSATMDGEDLDGVPMDKVKPA-RAATFIPSKWETVEEN--EDSAVTSSKWD  719 (806)
Q Consensus       644 ~~~~~~~~~~~~~-~~~ddiDG~P~~~~~~~~~~~~~d~dg~p~~~~~~~-~~~~~~~SkWe~vd~~--e~~~~~~skw~  719 (806)
                      +         |+. .-.|+|||+|+        ..+++|||+||.....+ ....-++|||++||+.  +.|+++||||+
T Consensus       612 i---------p~~n~pi~eld~~~l--------~~dd~ldgipm~~e~~ss~s~~~~~sk~e~vd~~~~~~q~vstskwe  674 (877)
T KOG0151|consen  612 I---------PLMNTPIDELDGRPL--------NLDDDLDGIPMMVETKSSLSDPETPSKWEAVDESFKEGQAVSTSKWE  674 (877)
T ss_pred             C---------ccccCchhhhccccc--------cccccccCceeeeeeccccCCCcccccccccCcccccccccchhhhh
Confidence            3         222 11489999996        35799999999976432 2223448999999999  99999999999


Q ss_pred             ccccCCC
Q psy17497        720 DVEQSES  726 (806)
Q Consensus       720 ~~~~~~~  726 (806)
                      +.++..+
T Consensus       675 ~~~~~~~  681 (877)
T KOG0151|consen  675 HVDDEFE  681 (877)
T ss_pred             hcccccc
Confidence            9887765

>smart00582 RPR domain present in proteins, which are involved in regulation of nuclear pre-mRNA	Back alignment and domain information

>KOG2669\|consensus	Back alignment and domain information

>cd03562 CID CID (CTD-Interacting Domain) domain family; CID is present in several RNA-processing factors such as Pcf11 and Nrd1	Back alignment and domain information

>PF01805 Surp: Surp module; InterPro: IPR000061 SWAP is derived from the Suppressor-of-White-APricot splicing regulator from Drosophila melanogaster	Back alignment and domain information

>smart00648 SWAP Suppressor-of-White-APricot splicing regulator	Back alignment and domain information

>PLN03134 glycine-rich RNA-binding protein 4; Provisional	Back alignment and domain information

>KOG4368\|consensus	Back alignment and domain information

>TIGR01661 ELAV_HUD_SF ELAV/HuD family splicing factor	Back alignment and domain information

>TIGR01661 ELAV_HUD_SF ELAV/HuD family splicing factor	Back alignment and domain information

>PF00076 RRM_1: RNA recognition motif	Back alignment and domain information

>TIGR01645 half-pint poly-U binding splicing factor, half-pint family	Back alignment and domain information

>TIGR01659 sex-lethal sex-lethal family splicing factor	Back alignment and domain information

>KOG0122\|consensus	Back alignment and domain information

>TIGR01645 half-pint poly-U binding splicing factor, half-pint family	Back alignment and domain information

>PF04818 CTD_bind: RNA polymerase II-binding domain	Back alignment and domain information

>KOG0121\|consensus	Back alignment and domain information

>KOG0148\|consensus	Back alignment and domain information

>TIGR01659 sex-lethal sex-lethal family splicing factor	Back alignment and domain information

>TIGR01628 PABP-1234 polyadenylate binding protein, human types 1, 2, 3, 4 family	Back alignment and domain information

>PLN03120 nucleic acid binding protein; Provisional	Back alignment and domain information

>KOG0107\|consensus	Back alignment and domain information

>KOG4207\|consensus	Back alignment and domain information

>PLN03213 repressor of silencing 3; Provisional	Back alignment and domain information

>KOG0111\|consensus	Back alignment and domain information

>PF14259 RRM_6: RNA recognition motif (a	Back alignment and domain information

>KOG0113\|consensus	Back alignment and domain information

>KOG0149\|consensus	Back alignment and domain information

>TIGR01622 SF-CC1 splicing factor, CC1-like family	Back alignment and domain information

>TIGR01628 PABP-1234 polyadenylate binding protein, human types 1, 2, 3, 4 family	Back alignment and domain information

>KOG0125\|consensus	Back alignment and domain information

>TIGR01642 U2AF_lg U2 snRNP auxilliary factor, large subunit, splicing factor	Back alignment and domain information

>KOG0148\|consensus	Back alignment and domain information

>KOG0124\|consensus	Back alignment and domain information

>smart00362 RRM_2 RNA recognition motif	Back alignment and domain information

>KOG0126\|consensus	Back alignment and domain information

>COG0724 RNA-binding proteins (RRM domain) [General function prediction only]	Back alignment and domain information

>KOG0145\|consensus	Back alignment and domain information

>TIGR01648 hnRNP-R-Q heterogeneous nuclear ribonucleoprotein R, Q family	Back alignment and domain information

>TIGR01648 hnRNP-R-Q heterogeneous nuclear ribonucleoprotein R, Q family	Back alignment and domain information

>PLN03121 nucleic acid binding protein; Provisional	Back alignment and domain information

>TIGR01622 SF-CC1 splicing factor, CC1-like family	Back alignment and domain information

>TIGR01649 hnRNP-L_PTB hnRNP-L/PTB/hephaestus splicing factor family	Back alignment and domain information

>smart00360 RRM RNA recognition motif	Back alignment and domain information

>KOG0108\|consensus	Back alignment and domain information

>KOG0114\|consensus	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

>TIGR01649 hnRNP-L_PTB hnRNP-L/PTB/hephaestus splicing factor family	Back alignment and domain information

>KOG0131\|consensus	Back alignment and domain information

>KOG0105\|consensus	Back alignment and domain information

>KOG0117\|consensus	Back alignment and domain information

>PF12243 CTK3: CTD kinase subunit gamma CTK3	Back alignment and domain information

>KOG0145\|consensus	Back alignment and domain information

>PF13893 RRM_5: RNA recognition motif	Back alignment and domain information

>KOG0130\|consensus	Back alignment and domain information

>KOG0144\|consensus	Back alignment and domain information

>KOG0117\|consensus	Back alignment and domain information

>KOG0144\|consensus	Back alignment and domain information

>KOG0131\|consensus	Back alignment and domain information

>KOG0153\|consensus	Back alignment and domain information

>KOG0415\|consensus	Back alignment and domain information

>KOG0132\|consensus	Back alignment and domain information

>KOG0127\|consensus	Back alignment and domain information

>KOG0146\|consensus	Back alignment and domain information

>KOG0109\|consensus	Back alignment and domain information

>smart00361 RRM_1 RNA recognition motif	Back alignment and domain information

>KOG0127\|consensus	Back alignment and domain information

>KOG0147\|consensus	Back alignment and domain information

>KOG4206\|consensus	Back alignment and domain information

>KOG0109\|consensus	Back alignment and domain information

>TIGR01642 U2AF_lg U2 snRNP auxilliary factor, large subunit, splicing factor	Back alignment and domain information

>KOG0123\|consensus	Back alignment and domain information

>KOG4208\|consensus	Back alignment and domain information

>KOG1457\|consensus	Back alignment and domain information

>KOG4661\|consensus	Back alignment and domain information

>KOG0124\|consensus	Back alignment and domain information

>KOG0110\|consensus	Back alignment and domain information

>KOG0123\|consensus	Back alignment and domain information

>KOG0110\|consensus	Back alignment and domain information

>KOG0533\|consensus	Back alignment and domain information

>KOG4212\|consensus	Back alignment and domain information

>KOG4212\|consensus	Back alignment and domain information

>KOG1548\|consensus	Back alignment and domain information

>KOG0226\|consensus	Back alignment and domain information

>KOG0146\|consensus	Back alignment and domain information

>KOG0106\|consensus	Back alignment and domain information

>KOG4209\|consensus	Back alignment and domain information

>KOG4205\|consensus	Back alignment and domain information

>KOG1847\|consensus	Back alignment and domain information

>KOG4660\|consensus	Back alignment and domain information

>KOG0151\|consensus	Back alignment and domain information

>KOG4205\|consensus	Back alignment and domain information

>KOG0116\|consensus	Back alignment and domain information

>KOG4454\|consensus	Back alignment and domain information

>KOG1190\|consensus	Back alignment and domain information

>KOG0132\|consensus	Back alignment and domain information

>COG5175 MOT2 Transcriptional repressor [Transcription]	Back alignment and domain information

>KOG1457\|consensus	Back alignment and domain information

>KOG4206\|consensus	Back alignment and domain information

>PF04059 RRM_2: RNA recognition motif 2; InterPro: IPR007201 This RNA recognition motif 2 is found in Meiosis protein mei2	Back alignment and domain information

>KOG1995\|consensus	Back alignment and domain information

>PF11608 Limkain-b1: Limkain b1; InterPro: IPR024582 This entry represents a conserved domain found in limkain b1, which is a novel human autoantigen, localised to a subset of ABCD3 and PXF marked peroxisomes	Back alignment and domain information

>KOG0120\|consensus	Back alignment and domain information

>KOG4210\|consensus	Back alignment and domain information

>KOG4211\|consensus	Back alignment and domain information

>KOG0106\|consensus	Back alignment and domain information

>KOG0147\|consensus	Back alignment and domain information

>KOG1855\|consensus	Back alignment and domain information

>PF08777 RRM_3: RNA binding motif; InterPro: IPR014886 This domain is found in protein La which functions as an RNA chaperone during RNA polymerase III transcription, and can also stimulate translation initiation	Back alignment and domain information

>KOG0120\|consensus	Back alignment and domain information

>KOG0112\|consensus	Back alignment and domain information

>KOG3152\|consensus	Back alignment and domain information

>KOG1456\|consensus	Back alignment and domain information

>KOG1190\|consensus	Back alignment and domain information

>KOG1456\|consensus	Back alignment and domain information

>KOG4849\|consensus	Back alignment and domain information

>PF14605 Nup35_RRM_2: Nup53/35/40-type RNA recognition motif	Back alignment and domain information

>KOG1548\|consensus	Back alignment and domain information

>KOG2314\|consensus	Back alignment and domain information

>KOG0129\|consensus	Back alignment and domain information

>KOG2193\|consensus	Back alignment and domain information

>KOG0112\|consensus	Back alignment and domain information

>cd00197 VHS_ENTH_ANTH VHS, ENTH and ANTH domain superfamily; composed of proteins containing a VHS, ENTH or ANTH domain	Back alignment and domain information

>PF05172 Nup35_RRM: Nup53/35/40-type RNA recognition motif; InterPro: IPR007846 The MPPN (Mitotic PhosphoProtein N end) family is uncharacterised however it probably plays a role in the cell cycle because the family includes mitotic phosphoproteins O13026 from SWISSPROT []	Back alignment and domain information

>KOG4211\|consensus	Back alignment and domain information

>KOG4307\|consensus	Back alignment and domain information

>KOG2416\|consensus	Back alignment and domain information

>KOG0129\|consensus	Back alignment and domain information

>KOG4676\|consensus	Back alignment and domain information

>PF08952 DUF1866: Domain of unknown function (DUF1866) ; InterPro: IPR015047 This domain, found in synaptojanin, has no known function	Back alignment and domain information

>PF15023 DUF4523: Protein of unknown function (DUF4523)	Back alignment and domain information

>KOG1365\|consensus	Back alignment and domain information

>KOG2071\|consensus	Back alignment and domain information

>KOG1996\|consensus	Back alignment and domain information

>PF04847 Calcipressin: Calcipressin; InterPro: IPR006931 Calcipressin 1 negatively regulates calcineurin (IPR015757 from INTERPRO) by direct binding and is essential for the survival of T helper type 1 cells	Back alignment and domain information

>KOG1847\|consensus	Back alignment and domain information

>KOG2068\|consensus	Back alignment and domain information

>KOG0128\|consensus	Back alignment and domain information

>KOG0115\|consensus	Back alignment and domain information

>KOG2202\|consensus	Back alignment and domain information

>KOG0128\|consensus	Back alignment and domain information

>KOG4574\|consensus	Back alignment and domain information

>KOG0105\|consensus	Back alignment and domain information

>PF08675 RNA_bind: RNA binding domain; InterPro: IPR014789 This domain corresponds to the RNA binding domain of Poly(A)-specific ribonuclease (PARN)	Back alignment and domain information

>KOG4285\|consensus	Back alignment and domain information

>KOG2135\|consensus	Back alignment and domain information

>PF00790 VHS: VHS domain; InterPro: IPR002014 The VHS domain is a ~140 residues long domain, whose name is derived from its occurrence in VPS-27, Hrs and STAM	Back alignment and domain information

>PF03467 Smg4_UPF3: Smg-4/UPF3 family; InterPro: IPR005120 Nonsense-mediated mRNA decay (NMD) is a surveillance mechanism by which eukaryotic cells detect and degrade transcripts containing premature termination codons	Back alignment and domain information

>PF03880 DbpA: DbpA RNA binding domain ; InterPro: IPR005580 This RNA binding domain is found at the C terminus of a number of DEAD helicase proteins []	Back alignment and domain information

Homologous Structure Templates

Structure Templates Detected by BLAST

Original result of BLAST against Protein Data Bank

ID	Alignment Graph	Length	Definition	E-value
Query		806
3md3_A		166	Crystal Structure Of The First Two Rrm Domains Of Y		7e-07
1x5s_A		102	Solution Structure Of Rrm Domain In A18 Hnrnp Lengt		2e-06
2jrs_A		108	Solution Nmr Structure Of Caper Rrm2 Domain. Northe		4e-06
2fy1_A		116	A Dual Mode Of Rna Recognition By The Rbmy Protein		7e-06
2dnz_A		95	Solution Structure Of The Second Rna Binding Domain		9e-06
3md1_A		83	Crystal Structure Of The Second Rrm Domain Of Yeast		2e-05
1u6f_A		139	Nmr Solution Structure Of Tcubp1, A Single Rbd-Unit		2e-05
1h2t_Z		156	Structure Of The Human Nuclear Cap-Binding-Complex		5e-05
2cqi_A		103	Solution Structure Of The Rna Binding Domain Of Nuc		5e-05
2dgo_A		115	Solution Structure Of The Rna Binding Domain In Cyt		6e-05
1sxl_A		97	Resonance Assignments And Solution Structure Of The		8e-05
4f02_A		213	Crystal Structure Of The Pabp-Binding Site Of Eif4g		9e-05
1cvj_A		190	X-Ray Crystal Structure Of The Poly(A)-Binding Prot		1e-04
2rrb_A		96	Refinement Of Rna Binding Domain In Human Tra2 Beta		1e-04
1b7f_A		168	Sxl-Lethal ProteinRNA COMPLEX Length = 168		1e-04
2cpx_A		115	Solution Structure Of Rna Binding Domain In Hypothe		1e-04
2rra_A		99	Solution Structure Of Rna Binding Domain In Human T		1e-04
4egl_A		177	Crystal Structure Of Two Tandem Rna Recognition Mot		1e-04
4ed5_A		177	Crystal Structure Of The Two N-Terminal Rrm Domains		2e-04
1p1t_A		104	Nmr Structure Of The N-Terminal Rrm Domain Of Cleav		2e-04
2cqc_A		95	Solution Structure Of The Rna Recognition Motif In		2e-04
3sxl_A		184	Sex-Lethal Rna Recognition Domains 1 And 2 From Dro		2e-04
3hi9_A		84	The X-Ray Crystal Structure Of The First Rna Recogn		2e-04
4a8x_A		88	Structure Of The Core Asap Complex Length = 88		3e-04
2d9p_A		103	Solution Structure Of Rna Binding Domain 4 In Polya		3e-04
2kxn_B		129	Nmr Structure Of Human Tra2beta1 Rrm In Complex Wit		3e-04
2dt6_A		64	Solution Structure Of The First Surp Domain Of Huma		4e-04
2dh7_A		105	Solution Structure Of The Second Rna Binding Domain		5e-04
2sxl_A		88	Sex-Lethal Rbd1, Nmr, Minimized Average Structure L		6e-04
1fxl_A		167	Crystal Structure Of Hud And Au-Rich Element Of The		6e-04
1h6k_Z		98	Nuclear Cap Binding Complex Length = 98		6e-04
2km8_B		84	Interdomain Rrm Packing Contributes To Rna Recognit		6e-04
2cjk_A		167	Structure Of The Rna Binding Domain Of Hrp1 In Comp		6e-04
1fnx_H		174	Solution Structure Of The Huc Rbd1-Rbd2 Complexed W		9e-04
1d9a_A		85	Solution Structure Of The Second Rna-Binding Domain		9e-04

>pdb|3MD3|A Chain A, Crystal Structure Of The First Two Rrm Domains Of Yeast Poly Binding Protein (Pub1) Length = 166