Citrus Sinensis ID: 006987

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--

MAMILPMPAALQILMVPLLNQLLWHRGLRLILLWLLVILPFLLSTDGTSSAAGKSGSLSLDALAKAKKALQMQKELSEKLKKIATLSKGSSSDGSGKVQGPAATASDAAAAAAAASVQPPTSSVPAFPGLANITNIEAVKRAQELAAKMGFRQDPEFAPIINCFPGQPPVDAAVPQKPTKAPVLRVDALGREIDEHGNVVNRTKPSNLSTLKVNINKQKKDAFQILKPELEVDPNVNPHFDPRMGINKSKLLRPKRMTFQFVEEGKWSKEAEILRVKSQFGEAGAKERQAKQAQLAKAKGGTDINPNLIEVAERVITKEKPKDPIPEIEWWDAPLLLTGSYADISDDVTIEDKLKREKITIYVEHPRPIEPPAEPAPPPPQPLKLTKKEQKKLRTQRRLAREKDRQEMIRQGLIEPPKPKVKMSNLMKVLGSEATQDPTRLEKEIRSAAAEREQAHIDRNIARKLTPAERREKKERKLFDDPSSVETIVSVYKINDLSHPKTRFKVDVNAHENRLTGCAVICEGINVVVVEGGSKSIKRYGKLMLRRIDWAKAVKEEDEDEDETTDKPVNKCVLVWQGNVARPSFNRFFVHECMTEAAAKKVFADAGVAHYWDLAVNFNDEI

cccccccccccccccccccccccccccEEEEEEEEEEccccccccccccccccccccccHHHHHHHHHHHHHHHHHHHHHHHHHHHcccccccccccccccccccHHHHHHHHccccccccccccccccccccccHHHHHHHHHHHHHHccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccHHHHHHHHHHccccccccccccccccccccccccccccccccccccccccHHHHHHHHHHHHHHHcHHHHHHHHHHHHHHHHHcccccccccHHHHHHHHHccccccccccccccccccccccccccccccccHHHHHccccccEEEccccccccccccccccccccccccHHHHHHHHHHHHHHHHHHHHHHHHcccccccccccccHHHHHHHccccccccHHHHHHHHHHHHHHHHHHHHHHHHccccHHHHHHHHHHHHccccccccEEEEEEEEcccccccccccccccccccccEEEEEEEcccEEEEEEccHHHHHHHHHHHHHHccccccccccccccccccccccccEEEEEEEEccccccccEEEEEcccHHHHHHHHHHccccHHHHHHHcccccc

cccEcccHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHEEccccccccccccccccccccHHHHHHHHHHHHHHHHHHHHHHccHHcccccccccccccccccccccccccHHccccccccccccccccccccHHHHHHHHHHHHHHHHcccccccHHccHHccccccccccccccccccccccEEEcccccEEcccccEEEcccccccccccccHcHHHHHHHHHcccccccccccccccccccccccccccccccccEEEccccHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHccccccccccccccccccHcccccccccEEEccHHHcccccccccccccHccccccccccEEEEEcccccccccccccccccccEccHHHHHHHHHHHHHHHHHHHHHHHHHcccccccccEEHHHHHHHHcHHHcccHHHHHHHHHHHHHHHHHHHHHHHHHHcccHHHHHHHHHHHHHcccccccEEEEEEEEccccccccEEEEEEcHHHccccEEEEEccccEEEEEEccHHHHHHHHHHHHHHccccccccccccccccccccccccEEEEEEEccccccccccEEEEcccHHHHHHHHHHcccHHHHHHHHcccccc

MAMILPMPAALQILMVPLLNQLLWHRGLRLILLWLLVILPfllstdgtssaagksgsLSLDALAKAKKALQMQKELSEKLKKIATlskgsssdgsgkvqgpaatASDAAAAAAAasvqpptssvpafpglanitnIEAVKRAQELAAKmgfrqdpefapiincfpgqppvdaavpqkptkapvlRVDALGReidehgnvvnrtkpsnlstLKVNINKQKKDAFQilkpelevdpnvnphfdprmginkskllrpkrmtfqfveegkwsKEAEILRVKSQFGEAGAKERQAKQAQLAKakggtdinpnLIEVAERVItkekpkdpipeiewwdapllltgsyadisddvtiedKLKREKITiyvehprpieppaepappppqplkltKKEQKKLRTQRRLAREKDRQEMIRqglieppkpkvkmSNLMKVLgseatqdptRLEKEIRSAAAEREQAHIDRNIARKLTPAERREKKerklfddpssveTIVSVYKindlshpktrfkvdvnahenrltgCAVICEGINVVVVEGGSKSIKRYGKLMLRRIDWAKavkeedededettdkpvnkCVLVWqgnvarpsfnrfFVHECMTEAAAKKVFADAGVAHYWDLAVNFNDEI

MAMILPMPAALQILMVPLLNQLLWHRGLRLILLWLLVILPFLLSTDGTSSAAGKSGSLSLDALAKAKKALQMQKELSEKLKKIatlskgsssdgsgkVQGPAATASDAAAAAAAASVQPPTSSVPAFPGLANITNIEAVKRAQELAAKMGFRQDPEFAPIINCFPGQPPVDAAVPQKPTKAPVLRVDALGreidehgnvvnrtkpsnlstlkvNINKQKKDAFQILKPELEVDPNVNPHFDPrmginkskllrpkRMTFQFveegkwskeaEILRVKSQFGEAGAKERQAKQAQLakakggtdinpnLIEVAERVitkekpkdpipeiewWDAPLLLTGSYADISDDVTIEDKLKREKITIYvehprpieppaepappppqplkltkkeqkklrtqrrlarekdrqemirqglieppkpkvkMSNLMKVLgseatqdptrLEKEIRSAAAereqahidrniarkltpaerrekkerklfddpssvetIVSVykindlshpktrFKVDVNAHENRLTGCAVICEGINVVvveggsksikrygKLMLRRIDWakavkeedededettdkpvnkcVLVWQGNVARPSFNRFFVHECMTEAAAKKVFADAGVAHYWDLAVNFNDEI

MAMILPMPAALQILMVPLLNQllwhrglrlillwllvilpfllstdgtssaagksgslsldalakakkalQMQKELSEKLKKIATLskgsssdgsgkVQGpaatasdaaaaaaaasvqpptssvpaFPGLANITNIEAVKRAQELAAKMGFRQDPEFAPIINCFPGQPPVDAAVPQKPTKAPVLRVDALGREIDEHGNVVNRTKPSNLSTLKVNINKQKKDAFQILKPELEVDPNVNPHFDPRMGINKSKLLRPKRMTFQFVEEGKWSKEAEILRVKSQFGEAGakerqakqaqlakakGGTDINPNLIEVAERVITKEKPKDPIPEIEWWDAPLLLTGSYADISDDVTIEDKLKREKITIYVEHprpieppaepappppqplkltkkeqkklrtqrRLAREKDRQEMIRQGLIEPPKPKVKMSNLMKVLGSEATQDPTRLEKEIRSAAAEREQAHIDRNIARKLTPAERREKKERKLFDDPSSVETIVSVYKINDLSHPKTRFKVDVNAHENRLTGCAVICEGINVVVVEGGSKSIKRYGKLMLRRIDWAKAVKeedededettdKPVNKCVLVWQGNVARPSFNRFFVHECMTEAAAKKVFADAGVAHYWDLAVNFNDEI

****LPMPAALQILMVPLLNQLLWHRGLRLILLWLLVILPFLLST**********************************************************************************PGLANITNIEAVKRAQELAAKMGFRQDPEFAPIINCFPG*****************LRVDAL*********************************FQIL*****************************RMTFQFVEEGKWS***EIL********************************NLIEVAERVITK****DPIPEIEWWDAPLLLTGSYADISDDVTIEDKLKREKITIYV*************************************************************************************************************************VETIVSVYKINDLSHPKTRFKVDVNAHENRLTGCAVICEGINVVVVEGGSKSIKRYGKLMLRRIDWAKAV**************VNKCVLVWQGNVARPSFNRFFVHECMTEAAAKKVFADAGVAHYWDLAVNF****

*********************LLWHRGLRLILLW************************************************************************************************************************************************************************************************************H*********************FVEEGKWSKEA*************************************IEVAERVITKE**KDPIPEIEWWDAPLLLTGSYADISDDVTIEDKLKREKITIYVEHPRPI*P************KL************************************KMSNLMKVLGSEATQDPTRLEKEIRSAA***********************************VETIVSVYKINDLSHPKTRFKVDVNAHENRLTGCAVICEGINVVVVEGGSKSIKRYGKLMLRRIDW*******************NKCVLVWQGNVARPSFNRFFVHECMTEAAAKKVFADAGVAHYWDLAVNFN***

MAMILPMPAALQILMVPLLNQLLWHRGLRLILLWLLVILPFLLSTD*********GSLSLDALAKAKKALQMQKELSEKLKKIAT*************************************SVPAFPGLANITNIEAVKRAQELAAKMGFRQDPEFAPIINCFPGQPPVDAAVPQKPTKAPVLRVDALGREIDEHGNVVNRTKPSNLSTLKVNINKQKKDAFQILKPELEVDPNVNPHFDPRMGINKSKLLRPKRMTFQFVEEGKWSKEAEILRVKSQF******************KGGTDINPNLIEVAERVITKEKPKDPIPEIEWWDAPLLLTGSYADISDDVTIEDKLKREKITIYVEHPRPIEPPAEPAPPPPQPLKLT*******************QEMIRQGLIEPPKPKVKMSNLMKVLGSEATQDPTRLEKEIRSAAAEREQAHIDRNIARKLTPAERREKKERKLFDDPSSVETIVSVYKINDLSHPKTRFKVDVNAHENRLTGCAVICEGINVVVVEGGSKSIKRYGKLMLRRIDWAKAV************KPVNKCVLVWQGNVARPSFNRFFVHECMTEAAAKKVFADAGVAHYWDLAVNFNDEI

*AMILPMPAALQILMVPLLNQLLWHRGLRLILLWLLVILPFL***************LSLDALAKAKKALQMQKELSEKLKKIATL*******************************************LANITNIEAVKRAQELAAKMGFRQDPEFAPIINCFPGQPPVDAAVPQKPTKAPVLRVDALGREIDEHGNVVNRTKPSNLSTLKVNINKQKKDAFQILK**L******N***DPRMGINKSKLLRPKRMTFQFVEEGKWSKEAEILRVKSQFGEAGAKERQAKQAQLAKAKG***INPNLIEVAERVITKEKPKDPIPEIEWWDAPLLLTGSYADISDDVTIEDKLKREKITIYVEHPRPIEPPAEPAPPPPQPLKLTKKEQKKLRTQRRLAREKDRQEMIRQGLIEPPKPKVKMSNLMKVLGSEATQDPTRLEKEIRSAAAEREQAHIDRNIARKLTPAERREKKERKLFDDPSSVETIVSVYKINDLSHPKTRFKVDVNAHENRLTGCAVICEGINVVVVEGGSKSIKRYGKLMLRRIDWAKAVK********TTDKPVNKCVLVWQGNVARPSFNRFFVHECMTEAAAKKVFADAGVAHYWDLAVNFN***

oooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo

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SSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiihhhhhhhhhhhhhhhhooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo

SSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo

SSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSoooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo

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MAMILPMPAALQILMVPLLNQLLWHRGLRLILLWLLVILPFLLSTDGTSSAAGKSGSLSLDAxxxxxxxxxxxxxxxxxxxxxATLSKGSSSDGSGKVQGPAATASDAAAAAAAASVQPPTSSVPAFPGLANITNIEAVKRAQELAAKMGFRQDPEFAPIINCFPGQPPVDAAVPQKPTKAPVLRVDALGREIDEHGNVVNRTKPSNLSTLKVNINKQKKDAFQILKPELEVDPNVNPHFDPRMGINKSKLLRPKRMTFQFVEEGKWSKEAEILRVKSQFGEAGAKERQAKQAQLAKAKGGTDINPNLIEVAERVITKEKPKDPIPEIEWWDAPLLLTGSYADISDDVTIEDKLKREKITIYVEHPRPIEPPAEPAPPPPQPxxxxxxxxxxxxxxxxxxxxxxxQEMIRQGLIEPPKPKVKMSNLMKVLGSEATQDPTRLEKEIRSAAAEREQAHIDRNIARKLTPAERREKKERKLFDDPSSVETIVSVYKINDLSHPKTRFKVDVNAHENRLTGCAVICEGINVVVVEGGSKSIKRYGKLMLRRIDWAKAVKEEDEDEDETTDKPVNKCVLVWQGNVARPSFNRFFVHECMTEAAAKKVFADAGVAHYWDLAVNFNDEI

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		622	2.2.26 [Sep-21-2011]
O43395		683	U4/U6 small nuclear ribon	yes	no	0.659	0.600	0.403	2e-71
Q2KIA6		683	U4/U6 small nuclear ribon	yes	no	0.659	0.600	0.403	2e-71
Q5R5F1		683	U4/U6 small nuclear ribon	yes	no	0.659	0.600	0.403	2e-71
Q922U1		683	U4/U6 small nuclear ribon	yes	no	0.659	0.600	0.405	2e-71
Q5ZJ85		684	U4/U6 small nuclear ribon	yes	no	0.678	0.616	0.393	2e-69
Q09856		542	Uncharacterized protein C	yes	no	0.636	0.730	0.337	1e-47
Q03338		469	U4/U6 small nuclear ribon	yes	no	0.594	0.788	0.272	7e-17

>sp\|O43395\|PRPF3_HUMAN U4/U6 small nuclear ribonucleoprotein Prp3 OS=Homo sapiens GN=PRPF3 PE=1 SV=2	Back alignment and function desciption

 Score =  271 bits (692), Expect = 2e-71,   Method: Compositional matrix adjust.
 Identities = 183/454 (40%), Positives = 259/454 (57%), Gaps = 44/454 (9%)

Query: 179 TKAPVLRVDALGREIDEHGNVVNRTKPSNLSTLKVNINKQKKDAF-QILKPELEVDPNVN 237
           TK   L +D  GR +D  G  +  T    + TLK NI   K++ F Q LK +   D   N
Sbjct: 251 TKPTPLILDEQGRTVDATGKEIELT--HRMPTLKANIRAVKREQFKQQLKEKPSEDMESN 308

Query: 238 PHFDPRMGINKSKLLRPKRMTFQFVEEGKWSKEAEILRVKSQFGEAGAKERQAKQAQLAK 297
             FDPR+ I  S+    +R TF+F ++GK+ K A+ LR K+Q      ++ QA+ +Q A+
Sbjct: 309 TFFDPRVSIAPSQR---QRRTFKFHDKGKFEKIAQRLRTKAQL-----EKLQAEISQAAR 360

Query: 298 AKGGTDINPNLIEVAERVITKEKPKDPIPEIEWWDAPLLLTGSYADISDDVTIEDKLKRE 357
            K G   +  L  +A +   KE  +  IPEIEWWD+ ++  G       D+T E+  KRE
Sbjct: 361 -KTGIHTSTRLALIAPK---KELKEGDIPEIEWWDSYIIPNGF------DLT-EENPKRE 409

Query: 358 K---ITIYVEHPRPIEPPAEPAPPPPQPLKLTKKEQKKLRTQRRLAREKDRQEMIRQGLI 414
               IT  VEHP  + PP +   P    + LTKKEQKKLR Q R   +K+ QE +R GL+
Sbjct: 410 DYFGITNLVEHPAQLNPPVDNDTPVTLGVYLTKKEQKKLRRQTRREAQKELQEKVRLGLM 469

Query: 415 EPPKPKVKMSNLMKVLGSEATQDPTRLEKEIRSAAAEREQAHIDRNIARKLTPAERREKK 474
            PP+PKV++SNLM+VLG+EA QDPT++E  +R+  A+R++AH + N ARKLT AE+R+ K
Sbjct: 470 PPPEPKVRISNLMRVLGTEAVQDPTKVEAHVRAQMAKRQKAHEEANAARKLT-AEQRKVK 528

Query: 475 ERKLFDDPSSVETIVSVYKINDLSHPKTRFKVDVNAHENRLTGCAVICEGINVVVVEGGS 534
           + K   +  S    +SVY++ +LS+P  +FK++ NA +  LTG  V+ + +NVVVVEGG 
Sbjct: 529 KIKKLKEDISQGVHISVYRVRNLSNPAKKFKIEANAGQLYLTGVVVLHKDVNVVVVEGGP 588

Query: 535 KSIKRYGKLMLRRIDWAKAVKEEDEDEDETTD-----------KPVNKCVLVWQGNVARP 583
           K+ K++ +LML RI W       DE    T             K  NKCVLVW+G     
Sbjct: 589 KAQKKFKRLMLHRIKW-------DEQTSNTKGDDDEESDEEAVKKTNKCVLVWEGTAKDR 641

Query: 584 SFNRFFVHECMTEAAAKKVFADAGVAHYWDLAVN 617
           SF      +C TE  A++ F   G  HYWDLA++
Sbjct: 642 SFGEMKFKQCPTENMAREHFKKHGAEHYWDLALS 675

Participates in pre-mRNA splicing. May play a role in the assembly of the U4/U5/U6 tri-snRNP complex.
Homo sapiens (taxid: 9606)

>sp\|Q2KIA6\|PRPF3_BOVIN U4/U6 small nuclear ribonucleoprotein Prp3 OS=Bos taurus GN=PRPF3 PE=2 SV=1	Back alignment and function description

>sp\|Q5R5F1\|PRPF3_PONAB U4/U6 small nuclear ribonucleoprotein Prp3 OS=Pongo abelii GN=PRPF3 PE=2 SV=1	Back alignment and function description

>sp\|Q922U1\|PRPF3_MOUSE U4/U6 small nuclear ribonucleoprotein Prp3 OS=Mus musculus GN=Prpf3 PE=1 SV=1	Back alignment and function description

>sp\|Q5ZJ85\|PRPF3_CHICK U4/U6 small nuclear ribonucleoprotein Prp3 OS=Gallus gallus GN=PRPF3 PE=2 SV=1	Back alignment and function description

>sp\|Q09856\|YAF2_SCHPO Uncharacterized protein C29E6.02 OS=Schizosaccharomyces pombe (strain 972 / ATCC 24843) GN=SPAC29E6.02 PE=4 SV=1	Back alignment and function description

>sp\|Q03338\|PRP3_YEAST U4/U6 small nuclear ribonucleoprotein PRP3 OS=Saccharomyces cerevisiae (strain ATCC 204508 / S288c) GN=PRP3 PE=1 SV=1	Back alignment and function description

Close Homologs in the Non-Redundant Database Detected by BLAST

Original result of BLAST against Nonredundant Database

GI	Alignment Graph	Length	Definition	Q cover	H cover	Identity	E-value
Query		622
297736440		882	unnamed protein product [Vitis vinifera]	0.935	0.659	0.751	0.0
449507556		923	PREDICTED: LOW QUALITY PROTEIN: U4/U6 sm	0.921	0.620	0.752	0.0
449451683		923	PREDICTED: U4/U6 small nuclear ribonucle	0.921	0.620	0.756	0.0
356574993		801	PREDICTED: U4/U6 small nuclear ribonucle	0.924	0.717	0.734	0.0
359486305		581	PREDICTED: U4/U6 small nuclear ribonucle	0.882	0.944	0.747	0.0
356495750		832	PREDICTED: U4/U6 small nuclear ribonucle	0.927	0.693	0.717	0.0
356540367		851	PREDICTED: U4/U6 small nuclear ribonucle	0.929	0.679	0.712	0.0
357444987		794	U4/U6 small nuclear ribonucleoprotein Pr	0.903	0.707	0.699	0.0
224100899		473	predicted protein [Populus trichocarpa]	0.757	0.995	0.801	0.0
224109628		473	predicted protein [Populus trichocarpa]	0.755	0.993	0.805	0.0

>gi\|297736440\|emb\|CBI25311.3\| unnamed protein product [Vitis vinifera]	Back alignment and taxonomy information

 Score =  870 bits (2247), Expect = 0.0,   Method: Compositional matrix adjust.
 Identities = 463/616 (75%), Positives = 521/616 (84%), Gaps = 34/616 (5%)

Query: 39  LPFLLSTDGTSSAAGKSGSLSLDALAKAKKALQMQKELSEKLKKIATLSKGS--SSDGS- 95
           +P   STDGT+SAAGKSG+LSLDALAKAKKALQMQKELSEKLKKI  L+KG+  SSDGS 
Sbjct: 269 VPGKSSTDGTTSAAGKSGNLSLDALAKAKKALQMQKELSEKLKKIPLLNKGASPSSDGSP 328

Query: 96  ---------------GKVQG--PAATASDAAA-----------AAAAASVQPPTSSVPAF 127
                          GK+ G  P  TA++A +           AAAAASV P  S V A 
Sbjct: 329 QLKPKEEVTLPSSTTGKLLGSVPLTTATEAVSLVAMPSTSTLPAAAAASVMPSASGVGAL 388

Query: 128 PGLANITNIEAVKRAQELAAKMGFRQDPEFAPIINCFPGQPPVDAAVPQKPTKAPVLRVD 187
            GL ++ N EAVKRAQELAAKMGFRQDPEFAP+IN FPGQ P D AV QKP KAPVLR+D
Sbjct: 389 AGLTSMPNFEAVKRAQELAAKMGFRQDPEFAPLINMFPGQMPTDVAVQQKPAKAPVLRLD 448

Query: 188 ALGREIDEHGNVVNRTKPSNLSTLKVNINKQKKDAFQILKPELEVDPNVNPHFDPRMGIN 247
           ALGREIDEHGNVVN  K +NLSTLKVNINKQKKDAFQILKPEL+VDP  NPHFD RMGI+
Sbjct: 449 ALGREIDEHGNVVNMPKLNNLSTLKVNINKQKKDAFQILKPELDVDPESNPHFDSRMGID 508

Query: 248 KSKLLRPKRMTFQFVEEGKWSKEAEILRVKSQFGEAGAKERQAKQAQLAKAKGGTDINPN 307
           K+KLLRPKRM FQFVEEGKWS++AEI+++KSQFGEA AKE +AKQAQLA+AK   DINPN
Sbjct: 509 KNKLLRPKRMNFQFVEEGKWSRDAEIIKLKSQFGEAQAKELKAKQAQLARAKAEPDINPN 568

Query: 308 LIEVAERVITKEKPKDPIPEIEWWDAPLLLTGSYADISDDVTIEDKLKREKITIYVEHPR 367
           LIEV+ERVI KEKPKD IPE+EWWD P L +G+Y D    +T EDKLK +KITIY+EHPR
Sbjct: 569 LIEVSERVIIKEKPKDQIPEVEWWDVPFLHSGTYGDTDGGIT-EDKLKMDKITIYLEHPR 627

Query: 368 PIEPPAEPAPPPPQPLKLTKKEQKKLRTQRRLAREKDRQEMIRQGLIEPPKPKVKMSNLM 427
           PIEPPAEPAPPPPQPLKLTK+EQKKLRTQRRLAREKDRQEMIRQGLIEPPKPKVKMSNLM
Sbjct: 628 PIEPPAEPAPPPPQPLKLTKREQKKLRTQRRLAREKDRQEMIRQGLIEPPKPKVKMSNLM 687

Query: 428 KVLGSEATQDPTRLEKEIRSAAAEREQAHIDRNIARKLTPAERREKKERKLFDDPSSVET 487
           KVLGSEATQDPTRLE EIRSAAAEREQAH+DRNIARKLTPAERREKKERKLFDDP+++ET
Sbjct: 688 KVLGSEATQDPTRLEMEIRSAAAEREQAHVDRNIARKLTPAERREKKERKLFDDPNTLET 747

Query: 488 IVSVYKINDLSHPKTRFKVDVNAHENRLTGCAVICEGINVVVVEGGSKSIKRYGKLMLRR 547
           IVSVYKINDLSHP+TRFKVD+NA ENRLTGCAVI +GI+VVVVEGGSK IKRYGKLML+R
Sbjct: 748 IVSVYKINDLSHPQTRFKVDINAQENRLTGCAVISDGISVVVVEGGSKPIKRYGKLMLKR 807

Query: 548 IDWAKAVKEEDEDEDETTDKPVNKCVLVWQGNVARPSFNRFFVHECMTEAAAKKVFADAG 607
           I+WA AV+ E +D+++  +KP+N CVLVWQG+VA+PSFN+F  H+C TEAAA+K+F+DAG
Sbjct: 808 INWAAAVENE-DDDEDENEKPLNSCVLVWQGSVAKPSFNKFNFHQCRTEAAARKIFSDAG 866

Query: 608 VAHYWDLAVNFN-DEI 622
           V HYWDLAVNF+ D+I
Sbjct: 867 VGHYWDLAVNFSGDQI 882

Source: Vitis vinifera

Species: Vitis vinifera

Genus: Vitis

Family: Vitaceae

Order: Vitales

Class:

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi\|449507556\|ref\|XP_004163065.1\| PREDICTED: LOW QUALITY PROTEIN: U4/U6 small nuclear ribonucleoprotein Prp3-like [Cucumis sativus]	Back alignment and taxonomy information

>gi\|449451683\|ref\|XP_004143591.1\| PREDICTED: U4/U6 small nuclear ribonucleoprotein Prp3-like [Cucumis sativus]	Back alignment and taxonomy information

>gi\|356574993\|ref\|XP_003555627.1\| PREDICTED: U4/U6 small nuclear ribonucleoprotein Prp3-like [Glycine max]	Back alignment and taxonomy information

>gi\|359486305\|ref\|XP_002275798.2\| PREDICTED: U4/U6 small nuclear ribonucleoprotein Prp3-like [Vitis vinifera]	Back alignment and taxonomy information

>gi\|356495750\|ref\|XP_003516736.1\| PREDICTED: U4/U6 small nuclear ribonucleoprotein Prp3-like [Glycine max]	Back alignment and taxonomy information

>gi\|356540367\|ref\|XP_003538661.1\| PREDICTED: U4/U6 small nuclear ribonucleoprotein Prp3-like [Glycine max]	Back alignment and taxonomy information

>gi\|357444987\|ref\|XP_003592771.1\| U4/U6 small nuclear ribonucleoprotein Prp3 [Medicago truncatula] gi\|355481819\|gb\|AES63022.1\| U4/U6 small nuclear ribonucleoprotein Prp3 [Medicago truncatula]	Back alignment and taxonomy information

>gi\|224100899\|ref\|XP_002312058.1\| predicted protein [Populus trichocarpa] gi\|222851878\|gb\|EEE89425.1\| predicted protein [Populus trichocarpa]	Back alignment and taxonomy information

>gi\|224109628\|ref\|XP_002315261.1\| predicted protein [Populus trichocarpa] gi\|222864301\|gb\|EEF01432.1\| predicted protein [Populus trichocarpa]	Back alignment and taxonomy information

Prediction of Gene Ontology (GO) Terms

Close Homologs with Gene Ontology terms Detected by BLAST

Original result of BLAST against Gene Ontology (AMIGO)

ID	Alignment graph	Length	Definition	Q cover	H cover	Identity	E-value
Query		622
TAIR\|locus:2010519		786	AT1G28060 "AT1G28060" [Arabido	0.360	0.284	0.723	3.8e-168
TAIR\|locus:2082003		437	AT3G55930 "AT3G55930" [Arabido	0.458	0.652	0.531	3.5e-86
UNIPROTKB\|H9L3J2		684	RPRD2 "Uncharacterized protein	0.676	0.615	0.353	5.5e-61
UNIPROTKB\|F2Z4C4		683	PRPF3 "U4/U6 small nuclear rib	0.651	0.592	0.365	3.9e-60
UNIPROTKB\|Q2KIA6		683	PRPF3 "U4/U6 small nuclear rib	0.651	0.592	0.365	3.9e-60
UNIPROTKB\|E2R4I0		683	PRPF3 "Uncharacterized protein	0.651	0.592	0.365	3.9e-60
UNIPROTKB\|E7EVD1		634	PRPF3 "U4/U6 small nuclear rib	0.651	0.638	0.365	3.9e-60
UNIPROTKB\|O43395		683	PRPF3 "U4/U6 small nuclear rib	0.651	0.592	0.365	3.9e-60
UNIPROTKB\|I3LJQ7		683	PRPF3 "Uncharacterized protein	0.651	0.592	0.365	3.9e-60
RGD\|1310555		683	Prpf3 "PRP3 pre-mRNA processin	0.651	0.592	0.365	5e-60

TAIR\|locus:2010519 AT1G28060 "AT1G28060" [Arabidopsis thaliana (taxid:3702)]	Back alignment and assigned GO terms

 Score = 859 (307.4 bits), Expect = 3.8e-168, Sum P(2) = 3.8e-168
 Identities = 162/224 (72%), Positives = 193/224 (86%)

Query:   398 RLAREKDRQEMIRQGLIEPPKPKVKMSNLMKVLGSEATQDPTRLEKEIRSAAAEREQAHI 457
             RLA+EK++QEMIRQGL+EPPK KVKMSNLMKVLGSEATQDPT+LEKEIR+AAAEREQAH 
Sbjct:   563 RLAKEKEKQEMIRQGLLEPPKAKVKMSNLMKVLGSEATQDPTKLEKEIRTAAAEREQAHT 622

Query:   458 DRNIARKLTPAERREKKERKLFDDPSSVETIVSVYKINDLSHPKTRFKVDVNAHENRLTG 517
             DRN ARKLTPAE+REKKERKLFDDP++VETIVSVYKI  LSHPKTRFKV++NA ENRLTG
Sbjct:   623 DRNAARKLTPAEKREKKERKLFDDPTTVETIVSVYKIKKLSHPKTRFKVEMNARENRLTG 682

Query:   518 CAVICEGINVVVVEGGSKSIKRYGKLMLRRIDWAKAVKXXXXXXXXXXXKPVNKCVLVWQ 577
             C+V+ + ++VVVVEG SK+IKRYGKLM++RI+W +A +              NKC LVWQ
Sbjct:   683 CSVMTDEMSVVVVEGKSKAIKRYGKLMMKRINWEEAERKEGNEDEEEEVNGGNKCWLVWQ 742

Query:   578 GNVARPSFNRFFVHECMTEAAAKKVFADAGVAHYWDLAVNFNDE 621
             G++ +PSF+RF VHEC+TE+ AKKVF DAGV HYWDLAVN++D+
Sbjct:   743 GSIGKPSFHRFHVHECVTESTAKKVFMDAGVVHYWDLAVNYSDD 786

GO:0003674 "molecular_function" evidence=ND

GO:0005634 "nucleus" evidence=ISM

GO:0008150 "biological_process" evidence=ND

TAIR\|locus:2082003 AT3G55930 "AT3G55930" [Arabidopsis thaliana (taxid:3702)]	Back alignment and assigned GO terms

UNIPROTKB\|H9L3J2 RPRD2 "Uncharacterized protein" [Gallus gallus (taxid:9031)]	Back alignment and assigned GO terms

UNIPROTKB\|F2Z4C4 PRPF3 "U4/U6 small nuclear ribonucleoprotein Prp3" [Bos taurus (taxid:9913)]	Back alignment and assigned GO terms

UNIPROTKB\|Q2KIA6 PRPF3 "U4/U6 small nuclear ribonucleoprotein Prp3" [Bos taurus (taxid:9913)]	Back alignment and assigned GO terms

UNIPROTKB\|E2R4I0 PRPF3 "Uncharacterized protein" [Canis lupus familiaris (taxid:9615)]	Back alignment and assigned GO terms

UNIPROTKB\|E7EVD1 PRPF3 "U4/U6 small nuclear ribonucleoprotein Prp3" [Homo sapiens (taxid:9606)]	Back alignment and assigned GO terms

UNIPROTKB\|O43395 PRPF3 "U4/U6 small nuclear ribonucleoprotein Prp3" [Homo sapiens (taxid:9606)]	Back alignment and assigned GO terms

UNIPROTKB\|I3LJQ7 PRPF3 "Uncharacterized protein" [Sus scrofa (taxid:9823)]	Back alignment and assigned GO terms

RGD\|1310555 Prpf3 "PRP3 pre-mRNA processing factor 3 homolog (S. cerevisiae)" [Rattus norvegicus (taxid:10116)]	Back alignment and assigned GO terms

Prediction of Enzyme Commission (EC) Number

EC Number Prediction by Annotation Transfer from SWISS-PROT Entries

Original result of BLAST against SWISS-PROT

No confident hit for EC number transfering in SWISSPROT detected by BLAST

EC Number Prediction by Ezypred Server

Original result from Ezypred Server

Fail to connect to Ezypred Server

EC Number Prediction by EFICAz Software

No EC number assignment, probably not an enzyme!

Prediction of Functionally Associated Proteins

Functionally Associated Proteins Detected by STRING

Original result from the STRING server

Fail to connect to STRING server

Conserved Domains and Related Protein Families

Conserved Domains Detected by RPS-BLAST

Original result of RPS-BLAST against CDD database part I

ID	Alignment Graph	Length	Definition	E-value
Query		622
pfam08572		222	pfam08572, PRP3, pre-mRNA processing factor 3 (PRP	2e-83
pfam06544		127	pfam06544, DUF1115, Protein of unknown function (D	2e-45
PRK15241		188	PRK15241, PRK15241, putative fimbrial protein StaD	0.002

>gnl\|CDD\|219911 pfam08572, PRP3, pre-mRNA processing factor 3 (PRP3)	Back alignment and domain information

 Score =  260 bits (666), Expect = 2e-83
 Identities = 117/233 (50%), Positives = 151/233 (64%), Gaps = 14/233 (6%)

Query: 237 NPHFDPRMGINKSKLLRPKRMTFQFVEEGKWSKEAEILRVKSQFGEAGAKERQAKQAQLA 296
           NP+ DPRM   K K  + +R   QF+E+GK+S++AE LR +++  E   + R +++AQ A
Sbjct: 2   NPYLDPRMAEAKRK--KRRRRGLQFIEKGKFSQQAEELRREAKLEEE--EARISEEAQNA 57

Query: 297 KAKGGTDINPNLIEVAERVITKEKPKDPIPEIEWWDAPLLLTGSYADISDDVTIEDKLKR 356
             K  TD+       AE++  KE P D +P+IEWWD P+L    Y D+ D+   +   + 
Sbjct: 58  GLKSATDL-------AEKIPKKELPDD-VPDIEWWDMPILDDPDYNDLEDESDEDIDEEM 109

Query: 357 EKITIYVEHPRPIEPPAEPAPPPP--QPLKLTKKEQKKLRTQRRLAREKDRQEMIRQGLI 414
             IT Y+EHP PIEPP E   PPP   PL LTKKEQKKLR QRR  + K++QE IR GL 
Sbjct: 110 SSITNYIEHPVPIEPPWEAHYPPPIRPPLYLTKKEQKKLRRQRRKEKRKEKQERIRLGLE 169

Query: 415 EPPKPKVKMSNLMKVLGSEATQDPTRLEKEIRSAAAEREQAHIDRNIARKLTP 467
            PP PKVK+SNLM+VLGSEA QDPT++E E+R   AER QAH DRN  RKLT 
Sbjct: 170 PPPPPKVKLSNLMRVLGSEAVQDPTKVEAEVRRQVAERRQAHEDRNEERKLTA 222

Pre-mRNA processing factor 3 (PRP3) is a U4/U6-associated splicing factor. The human PRP3 has been implicated in autosomal retinitis pigmentosa. Length = 222

>gnl\|CDD\|219080 pfam06544, DUF1115, Protein of unknown function (DUF1115)	Back alignment and domain information

>gnl\|CDD\|185154 PRK15241, PRK15241, putative fimbrial protein StaD; Provisional	Back alignment and domain information

Conserved Domains Detected by HHsearch

Original result of HHsearch against CDD database

ID	Alignment Graph	Length	Definition	Probability
Query		622
KOG2769		522	consensus Putative u4/u6 small nuclear ribonucleop	100.0
PF08572		223	PRP3: pre-mRNA processing factor 3 (PRP3); InterPr	100.0
PF06544		128	DUF1115: Protein of unknown function (DUF1115); In	100.0
PF04940		93	BLUF: Sensors of blue-light using FAD; InterPro: I	94.37

>KOG2769 consensus Putative u4/u6 small nuclear ribonucleoprotein [RNA processing and modification]	Back alignment and domain information

Probab=100.00  E-value=1.5e-128  Score=1026.22  Aligned_cols=425  Identities=50%  Similarity=0.749  Sum_probs=375.4

Q ss_pred             ccccHHHHHHHHHHHHHhcCCCCCCCccccccCCCCCCCCCcC--CCCCCCCCceEecCCC--CccccCCCeeeccCCCc
Q 006987          132 NITNIEAVKRAQELAAKMGFRQDPEFAPIINCFPGQPPVDAAV--PQKPTKAPVLRVDALG--REIDEHGNVVNRTKPSN  207 (622)
Q Consensus       132 ~~~~~~~~~r~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~~--~~~~~kp~~L~lD~~G--R~ID~~G~vI~~~kp~~  207 (622)
                      +....++++|++.|+..              ++++..+.+..+  +..|+++..|+-|+.|  |.||+.|++|. ++|..
T Consensus        94 s~~~~~~~~r~~~L~~~--------------~~~~~~t~~~~~~~a~~~tkg~~l~~~~le~~r~i~e~~~~i~-t~~~~  158 (522)
T KOG2769|consen   94 SKQILEAVKRPQELAQN--------------IQNSIRTPDMPISKAIKQTKGAVLRQDALEKKRKIDELGNVID-TKPSN  158 (522)
T ss_pred             hHHHHHHHhhhhhhccc--------------cccccCCcccchhhhhcccccceeehhhhhhhhhHhhhcchhh-ccccc
Confidence            45667899999998665              223333444455  6789999999999999  99999999999 78888


Q ss_pred             ccchhhhhhhhhhhHHHhcCCCcCCCCCCCCCCCCCCCCCcccccCCCccceeeccCchhHHHHHHHHHHhhhchHhHHH
Q 006987          208 LSTLKVNINKQKKDAFQILKPELEVDPNVNPHFDPRMGINKSKLLRPKRMTFQFVEEGKWSKEAEILRVKSQFGEAGAKE  287 (622)
Q Consensus       208 ~sTLKaNir~~k~e~f~~~k~~~~~~~~~npyfD~r~~~~~~k~~R~kR~~f~F~ekGKy~kqAe~lR~k~qlee~~~ee  287 (622)
                      .|+|..|++                         ++ ...  ...| +|++|+||++|+|++.|++.|.++++     ++
T Consensus       159 ~~~li~n~d-------------------------~~-~~~--~~~r-~rr~f~f~e~gkf~~~an~~r~~a~l-----e~  204 (522)
T KOG2769|consen  159 LSGLIPNLD-------------------------PR-TKK--PRKR-GRRTFLFHESGKFIKLANRHRYKAQL-----ER  204 (522)
T ss_pred             ccccccccC-------------------------hh-hcc--chhc-cccceeecccchHHHHHHHHHHHHHH-----HH
Confidence            888877654                         33 111  2234 45699999999999999999987766     68


Q ss_pred             HHHHHHHHHHhcCCCCCCcchhHHHhhhhccCCCCCCCCccccccccccCCCCCCCCCcccchhhhhccccccceeeCCC
Q 006987          288 RQAKQAQLAKAKGGTDINPNLIEVAERVITKEKPKDPIPEIEWWDAPLLLTGSYADISDDVTIEDKLKREKITIYVEHPR  367 (622)
Q Consensus       288 lk~~~a~~akak~~~~i~~~l~ei~e~~~~k~~~~~~iP~VEWWD~~iL~~~~y~~i~~~~~~~~~i~~~~It~yVEHPv  367 (622)
                      |+.++++++++.   ||++ ++.++...+     .++||+|||||..||+.+.|.+.+     ...+....||+|||||+
T Consensus       205 Lq~eis~~a~k~---gI~~-~~~la~~~p-----~~~iP~iEwwD~~il~~~d~~dEn-----~~~i~~~~it~~IeHP~  270 (522)
T KOG2769|consen  205 LQNEISQAARKT---GIST-ATKLALIAP-----KDDIPAIEWWDSNILTNDDTIDEN-----HLKIDQSIITNLIEHPI  270 (522)
T ss_pred             HHHHHHHHHHhc---CCch-hhhhhhccC-----CCCCchhhhhcccccccCCccccc-----chhhhHHHHHHHhcCCc
Confidence            999999998853   5766 667777654     389999999999999987443321     23333578999999999


Q ss_pred             CCCCCCCCCCCCCCCCCCCHHHHHHHHHHHHHHHHHHHHHHHHcCCCCCCCccchhhhhhhhhccccCCCChHHHHHHHH
Q 006987          368 PIEPPAEPAPPPPQPLKLTKKEQKKLRTQRRLAREKDRQEMIRQGLIEPPKPKVKMSNLMKVLGSEATQDPTRLEKEIRS  447 (622)
Q Consensus       368 pi~pp~e~~~p~~~plyLTKKEqKKLRRqrR~e~~KEkQdKIRLGL~PPPpPKVKLSNLMrVLg~eAV~DPTkvEa~VR~  447 (622)
                      ||.||.++..|+++|+|||||||||||||||+|++||+|+||||||+|||+|||||||||+|||+|||||||+||++||.
T Consensus       271 ~~~PP~e~~~p~~l~vyLTKKErKKLRRQ~R~ea~KEkqekIrLGL~~ppePKVKiSNLMrVLgsEAiqDPTK~E~~VR~  350 (522)
T KOG2769|consen  271 PMLPPAENLTPVSLPVYLTKKERKKLRRQRRKEARKEKQEKIRLGLEPPPEPKVKLSNLMRVLGSEAIQDPTKLEAEVRD  350 (522)
T ss_pred             ccCCCcccCCCCccceeecHHHHHHHHHHHHHHHHHHHHHHHHhcCCCCCCCcchHHHHHHHhhhccccCcHHHHHHHHH
Confidence            99999999999999999999999999999999999999999999999999999999999999999999999999999999


Q ss_pred             HHHHHHHHHHHHHHhccCCHHHHHHHHHhhhcCCCCCCceEEEEEEEcCCCCCccccccccccccccceeEEEEcCCceE
Q 006987          448 AAAEREQAHIDRNIARKLTPAERREKKERKLFDDPSSVETIVSVYKINDLSHPKTRFKVDVNAHENRLTGCAVICEGINV  527 (622)
Q Consensus       448 QmeeR~~~He~~NeeRKLT~EqRreKk~~Kl~eD~~~~gv~vaVyrI~~LsnP~hrFKV~~NAqQl~LTG~cli~~~~nl  527 (622)
                      ||++|+++||++|++||||+||||+|+.+|+.+|++ .||||+||+|++|+||++||||++||+||+||||||++.++|+
T Consensus       351 Q~aeR~kaHe~~N~aRKLT~~qkreKk~rKl~ED~s-t~v~~~V~r~K~l~~p~~rFKve~NAkql~ltG~~vl~~d~~v  429 (522)
T KOG2769|consen  351 QMAERQKAHEDENAARKLTPEQKREKKERKLFEDPS-TGVHCSVYRIKNLQNPKKRFKVEMNAKQLQLTGVCVLHRDMNV  429 (522)
T ss_pred             HHHHHHHHhhhhhhhhcCCHHHHHHHHHhhhccCCC-ceEEEEEEEEecccCCccceeeeechhhhceeeeEEEecCCcE
Confidence            999999999999999999999999999999999985 7999999999999999999999999999999999999999999


Q ss_pred             EEEecchhHHHHHHHHHhhhcCCCccCcccCcCccccCCCCCCeeEEEEeeecCCCCCCCeeeEecCCHHHHHHHHHhcC
Q 006987          528 VVVEGGSKSIKRYGKLMLRRIDWAKAVKEEDEDEDETTDKPVNKCVLVWQGNVARPSFNRFFVHECMTEAAAKKVFADAG  607 (622)
Q Consensus       528 VVVEGG~KsiKkYkkLMl~RIkW~e~~~~~d~~~~e~~d~~~N~C~LVWEG~vk~r~F~~w~~k~c~te~~Are~L~~~~  607 (622)
                      ||||||+||||||+||||+||||+|++... .++|++.+..+|+|+|||||++.+|+|++|+|+.|+||.+||+||++||
T Consensus       430 vVvEGg~Ka~KkykrLMl~RIkW~e~~~~k-~d~~~e~~~~~N~C~lvWEG~~~rr~F~~~~~k~c~~e~~Ar~~f~k~g  508 (522)
T KOG2769|consen  430 VVVEGGPKAQKKYKRLMLKRIKWEEDFELK-KDEDEEAVNGGNKCVLVWEGTVQRRSFREFKFKECPTEKMAREFFEKHG  508 (522)
T ss_pred             EEEecCHHHHHHHHHHHHhhcCchhhhhhc-ccchhhccCCCceEEEEeeccccCCcccceeEEecCcHHHHHHHHHHcc
Confidence            999999999999999999999999996322 2556677889999999999999999999999999999999999999999


Q ss_pred             chhHHHHHhcccCC
Q 006987          608 VAHYWDLAVNFNDE  621 (622)
Q Consensus       608 vehYWDlA~~~~~~  621 (622)
                      |+||||||+||+..
T Consensus       509 veHyWdLa~s~s~~  522 (522)
T KOG2769|consen  509 VEHYWDLAYSYSVL  522 (522)
T ss_pred             hHHHHHHHhhccCC
Confidence            99999999999863

>PF08572 PRP3: pre-mRNA processing factor 3 (PRP3); InterPro: IPR013881 Pre-mRNA processing factor 3 (PRP3) is a U4/U6-associated splicing factor	Back alignment and domain information

>PF06544 DUF1115: Protein of unknown function (DUF1115); InterPro: IPR010541 This entry represents the C terminus of several eukaryotic RWD domain-containing proteins of unknown function	Back alignment and domain information

>PF04940 BLUF: Sensors of blue-light using FAD; InterPro: IPR007024 An FAD-binding domain, BLUF, exemplified by the N terminus of the AppA protein, (Q53119 from SWISSPROT), from Rhodobacter sphaeroides, is present in various proteins, primarily from Bacteria	Back alignment and domain information

Homologous Structure Templates

Structure Templates Detected by BLAST

Original result of BLAST against Protein Data Bank

No homologous structure with e-value below 0.005

Structure Templates Detected by RPS-BLAST

Original result of RPS-BLAST against PDB70 database

ID	Alignment Graph	Length	Definition	E-value
Query		622
1vt4_I		1221	APAF-1 related killer DARK; drosophila apoptosome,	5e-12

>1vt4_I APAF-1 related killer DARK; drosophila apoptosome, apoptosis, programmed cell death; HET: DTP; 6.90A {Drosophila melanogaster} PDB: 3iz8_A* Length = 1221	Back alignment and structure

 Score = 68.3 bits (166), Expect = 5e-12
 Identities = 65/484 (13%), Positives = 128/484 (26%), Gaps = 151/484 (31%)

Query: 176 QKPTKAPVLRVDALGREIDEHGNVVNRTKPSNLSTLKVNINKQKKDAFQILKPELEVDPN 235
           +   + P +       + D   N        N+S L+     + + A   L+P      N
Sbjct: 99  KTEQRQPSMMTRMYIEQRDRLYNDNQVFAKYNVSRLQ--PYLKLRQALLELRPA----KN 152

Query: 236 VNPHFDPRM-GINKSKL----LRPKRMTFQFVEEGKWSKEAEILRVKSQFGEAGAKERQA 290
           V       + G  K+ +        ++  +   +  W                 + E   
Sbjct: 153 VLID---GVLGSGKTWVALDVCLSYKVQCKMDFKIFWLN----------LKNCNSPETVL 199

Query: 291 KQAQ-LAKAKGGTDINPNLIEVAERVITKEKPKDPIPEIEWWDAPLLLTGSYAD---ISD 346
           +  Q L        I+PN    ++        K  I  I+     LL +  Y +   +  
Sbjct: 200 EMLQKLL-----YQIDPNWTSRSDH---SSNIKLRIHSIQAELRRLLKSKPYENCLLVLL 251

Query: 347 DVTIEDKLK------------REK-ITIYVEHPRPIEPPAEPAPPPPQPLKLTKKEQKKL 393
           +V                   R K +T ++          +          LT  E K L
Sbjct: 252 NVQNAKAWNAFNLSCKILLTTRFKQVTDFLSAATTTHISLDHHSMT-----LTPDEVKSL 306

Query: 394 RTQRRLAREKDRQEMIRQGLIEPPKPKVKMSNL-MKVLGSEATQDPTRLEKEIRSAAAER 452
                L +  D      Q L   P+  +  +   + ++           +   +    ++
Sbjct: 307 -----LLKYLD---CRPQDL---PREVLTTNPRRLSIIAESIRDGLATWD-NWKHVNCDK 354

Query: 453 EQAHIDRNIARKLTPAERREKKERKLFDDPSSVETIVSVYKINDLSHPKTRFKVDVNAHE 512
               I+ ++   L PAE      RK+FD        +SV            F    +   
Sbjct: 355 LTTIIESSLN-VLEPAE-----YRKMFDR-------LSV------------FPPSAH--- 386

Query: 513 NRLTGCAVICEGINVVVVEGGSKSIKRYGKLMLRRIDWAKAVKEEDEDEDETTDKPVNKC 572
                       I  +++             ++    W   +K +        +K     
Sbjct: 387 ------------IPTILLS------------LI----WFDVIKSDVMVV---VNKLHKYS 415

Query: 573 VLVWQGNVARPSFNRFFVH--------ECMTEAAAKKVFADAGVAHY--------WDLAV 616
           ++       +P  +   +         +   E A  +      V HY         DL  
Sbjct: 416 LV-----EKQPKESTISIPSIYLELKVKLENEYALHRSI----VDHYNIPKTFDSDDLIP 466

Query: 617 NFND 620
            + D
Sbjct: 467 PYLD 470

PyMOL of 1vt4

Structure Templates Detected by HHsearch

Original result of HHsearch against PDB70 database

ID	Alignment Graph	Length	Definition	Probability
Query		622
1yrx_A		121	Hypothetical protein RSPH03001874; ferredoxin-like	96.19
2iyg_A		124	APPA, antirepressor of PPSR, sensor of blue light;	95.02
2hfn_A		153	Synechocystis photoreceptor (SLR1694); beta sheet	94.3
1x0p_A		143	Hypothetical protein TLL0078; BLUF, FAD, structura	94.24
2byc_A		137	Blue-light receptor of the BLUF-family; signaling	92.41
3gfz_A		413	Klebsiella pneumoniae BLRP1; TIM-barrel, EAL domai	86.69

>1yrx_A Hypothetical protein RSPH03001874; ferredoxin-like fold, flavin binding, photoreceptor, transcr; HET: FMN D9G; 2.30A {Rhodobacter sphaeroides 2} SCOP: d.58.10.2 PDB: 2bun_A*	Back alignment and structure

Probab=96.19  E-value=0.013  Score=53.36  Aligned_cols=85  Identities=16%  Similarity=0.295  Sum_probs=66.8

Q ss_pred             ccccccccceeEEEEcCCceEEEEecchhHHHHHHHHHhhhcCCCccCcccCcCccccCCCCCCeeEEEEeeecCCCCCC
Q 006987          507 DVNAHENRLTGCAVICEGINVVVVEGGSKSIKRYGKLMLRRIDWAKAVKEEDEDEDETTDKPVNKCVLVWQGNVARPSFN  586 (622)
Q Consensus       507 ~~NAqQl~LTG~cli~~~~nlVVVEGG~KsiKkYkkLMl~RIkW~e~~~~~d~~~~e~~d~~~N~C~LVWEG~vk~r~F~  586 (622)
                      ..|=.+.++||+-+++.+.=+=|.||.+.++..   |+ .||.=+.               .-..|..+-.|.+.+|.|.
T Consensus        30 r~~N~~~gITG~Ll~~~g~F~Q~LEG~~~~V~~---Ly-~rI~~D~---------------RH~~v~~l~~~~i~~R~F~   90 (121)
T 1yrx_A           30 QAHNARAQLTGALFYSQGVFFQWLEGRPAAVAE---VM-THIQRDR---------------RHSNVEILAEEPIAKRRFA   90 (121)
T ss_dssp             HHHHHHHTCEEEEEEETTEEEEEEEECHHHHHH---HH-HHHHTCT---------------TEEEEEEEEEEEESSCSCS
T ss_pred             HHhhhhcCCEEEEEEeCCEEEEEecCCHHHHHH---HH-HHHhcCC---------------CcCCeEEEEeeeccccccC
Confidence            456678999999999999889999999999975   33 5665332               2346889999999999999


Q ss_pred             CeeeEecCCHHHHHHHHHhcCchhHHHHHhcccCCC
Q 006987          587 RFFVHECMTEAAAKKVFADAGVAHYWDLAVNFNDEI  622 (622)
Q Consensus       587 ~w~~k~c~te~~Are~L~~~~vehYWDlA~~~~~~~  622 (622)
                      +|.|..+..+.            ..|.++..++.+|
T Consensus        91 ~WsM~~~~~~~------------~~~~l~~~~~~~~  114 (121)
T 1yrx_A           91 GWHMQLSCSEA------------DMRSLGLAESRQI  114 (121)
T ss_dssp             SEEEEECCCHH------------HHHHTTCCCCCCC
T ss_pred             CCcccccchHH------------HHHhhcccchhhh
Confidence            99999998774            5566666666655

PyMOL of 1yrx

>2iyg_A APPA, antirepressor of PPSR, sensor of blue light; signal transduction; HET: FMN; 2.3A {Rhodobacter sphaeroides} PDB: 2iyi_A*	Back alignment and structure

>2hfn_A Synechocystis photoreceptor (SLR1694); beta sheet ferredoxin-like fold, flavin binding protein, electron transport; HET: FMN; 1.80A {Synechocystis SP} PDB: 2hfo_A* 3mzi_A*	Back alignment and structure

>1x0p_A Hypothetical protein TLL0078; BLUF, FAD, structural genomics, electron transport; HET: FAD; 2.00A {Thermosynechococcus elongatus} SCOP: d.58.10.2	Back alignment and structure

>2byc_A Blue-light receptor of the BLUF-family; signaling protein, photoreceptor, flavin; HET: FMN; 1.9A {Rhodobacter sphaeroides} SCOP: d.58.10.2	Back alignment and structure

>3gfz_A Klebsiella pneumoniae BLRP1; TIM-barrel, EAL domain, BLUF domain, hydrolase, signaling PR; HET: C2E FMN; 2.05A {Klebsiella pneumoniae subsp} PDB: 3gfy_A* 3gfx_A* 3gg0_A* 3gg1_A* 2kb2_A*	Back alignment and structure

Homologous Structure Domains

Structure Domains Detected by RPS-BLAST

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

No hit with e-value below 0.005

Homologous Domains Detected by HHsearch

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

ID	Alignment Graph	Length	Definition	Probability
Query		622
d1yrxa1		114	Sensor of blue light AppA {Rhodobacter sphaeroides	94.74
d1x0pa1		142	Hypothetical protein Tll0078 {Thermosynechococcus	92.55
d2byca1		136	Blue light receptor BlrB {Rhodobacter sphaeroides	92.51
d2acya_		98	Acylphosphatase {Cow (Bos taurus) [TaxId: 9913]}	87.23
d1apsa_		98	Acylphosphatase {Horse (Equus caballus) [TaxId: 97	85.95

>d1yrxa1 d.58.10.2 (A:17-130) Sensor of blue light AppA {Rhodobacter sphaeroides [TaxId: 1063]}	Back information, alignment and structure

class: Alpha and beta proteins (a+b)
fold: Ferredoxin-like
superfamily: Acylphosphatase/BLUF domain-like
family: BLUF domain
domain: Sensor of blue light AppA
species: Rhodobacter sphaeroides [TaxId: 1063]

Probab=94.74  E-value=0.031  Score=48.24  Aligned_cols=78  Identities=14%  Similarity=0.275  Sum_probs=62.7

Q ss_pred             ccccccccceeEEEEcCCceEEEEecchhHHHHHHHHHhhhcCCCccCcccCcCccccCCCCCCeeEEEEeeecCCCCCC
Q 006987          507 DVNAHENRLTGCAVICEGINVVVVEGGSKSIKRYGKLMLRRIDWAKAVKEEDEDEDETTDKPVNKCVLVWQGNVARPSFN  586 (622)
Q Consensus       507 ~~NAqQl~LTG~cli~~~~nlVVVEGG~KsiKkYkkLMl~RIkW~e~~~~~d~~~~e~~d~~~N~C~LVWEG~vk~r~F~  586 (622)
                      ..|-...++||+-+++.+.=+=+.||.+-++..    ++.||.=+.               .-..|.++-++.+.+|.|.
T Consensus        26 ~~~N~~~gITG~Ll~~~~~F~Q~LEG~~~~V~~----l~~rI~~D~---------------RH~~v~~l~~~~i~~R~F~   86 (114)
T d1yrxa1          26 QAHNARAQLTGALFYSQGVFFQWLEGRPAAVAE----VMTHIQRDR---------------RHSNVEILAEEPIAKRRFA   86 (114)
T ss_dssp             HHHHHHHTCEEEEEEETTEEEEEEEECHHHHHH----HHHHHHTCT---------------TEEEEEEEEEEEESSCSCS
T ss_pred             HHhccccCCEEEEEEeCCEEEEEeeCCHHHHHH----HHHhccCCC---------------CcCceEEEeecccCccccC
Confidence            346678899999999998889999999999987    456664332               2235999999999999999


Q ss_pred             CeeeEecCCHHHHHHHH
Q 006987          587 RFFVHECMTEAAAKKVF  603 (622)
Q Consensus       587 ~w~~k~c~te~~Are~L  603 (622)
                      +|.|.....+.+.+...
T Consensus        87 ~W~M~~~~~~~d~~~l~  103 (114)
T d1yrxa1          87 GWHMQLSCSEADMRSLG  103 (114)
T ss_dssp             SEEEEECCCHHHHHHTT
T ss_pred             CCcCcCcccchHHHHhh
Confidence            99999988877776654

PyMOL of d1yrxa1

>d1x0pa1 d.58.10.2 (A:102-243) Hypothetical protein Tll0078 {Thermosynechococcus elongatus [TaxId: 146786]}	Back information, alignment and structure

>d2byca1 d.58.10.2 (A:1-136) Blue light receptor BlrB {Rhodobacter sphaeroides [TaxId: 1063]}	Back information, alignment and structure

>d2acya_ d.58.10.1 (A:) Acylphosphatase {Cow (Bos taurus) [TaxId: 9913]}	Back information, alignment and structure

>d1apsa_ d.58.10.1 (A:) Acylphosphatase {Horse (Equus caballus) [TaxId: 9796]}	Back information, alignment and structure