Citrus Sinensis ID: 038314

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-----
MGYKKRTEQETTHSNNSSSLSEALLFATMCIIGLPVDVYIKDGSVYSGIFYTASVEKDYGIVLKKAKMSKKGKSNANVANGTVIETLVILSADLVQVVAKGVQLPADGIAGNFAGDDVVAVAGTVPPIDGQISEAKRPIRSGLNKRRNQKRISVRNENGYFHGDGPIKAEKEHEEQMLSLKNMRNAMEVEHGKRDRMDVTKIEEASVDSVNGRQVGDKSSQGQQDSCTRTTELHKGDNVDGVQGSSTNLGACQGPVMPAEEHPNMAFKHSNGVSHDPAHELDKPENQCRERPTSADTSSQGAARSTVSTSSTPVTDVTSGLCFSSLAASTEVVPLQSAPSNKSTKEFKLNPGAKIFSPSSVNPVSATSPAIPTATSMAYVPSNSPVLPIAAAQSEVGVGPYLSHSSVPSKFVPYGTLTAANGGSAAQFSQPIVGHAGRSQPVRYAGQYPVQAGPTYVHPSSQAVMFGRVGGQLVYMQPVSNDLGVAAMSPVSARPALTPHQVQFPKHQGNAAGQALQLCIPSPMVAGGLQPFPVPSHIPVLQPPIPANRPIPVPGSNGLYSTKFP
cccccccccccccccccccHHHHHHHHHHHHcccEEEEEEccccEEEEEEEEccccccEEEEEEcccccccccccccccccccccEEEEEcccEEEEEEccccccccccccccccccHHHcccccccccccccccccccccccccccccccccccccccccccccccccccHHHHHHHHHHHHcccHHHcccccccccHHHHHHccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccc
cccccccccccccccccccHHHHHHHHHHHHccccEEEEEEcccEEEEEEEEEccccccEEEEHHHEEcccccccccccccccccEEEEccHHEEEEEEcccEccccccccccccccEEEEEEEcccccccccccccccccccccccccccccccccccccccccccccEEcccccEccccccccEEEEEccccccEEccccccccccccccccccccccccccccccccccccccccccEEEccccccccccccccccHHccccccccccccccccccccccccccccccccccccccccccccEEccccccccccccccccccccccccccccccccccccccEccccccccEEcccccccccccccccccccccEEcccccccccccccccccccccccccccccccEccccccccccccccccccccEEEEcccccccEccccccccccccccccccccEEEEcccccEEEEEEcccccccccccccccccccccccccccccccccccccccEEccccEEEccccccccccccccccccccccccccccccccccccccc
mgykkrteqetthsnnsssLSEALLFATMCIIGlpvdvyikdgsvySGIFYTASVEKDYGIVLKKAkmskkgksnanvanGTVIETLVILSADLVQVVAKGvqlpadgiagnfagddvvavagtvppidgqiseakrpirsglnkrrnqkrisvrnengyfhgdgpikaeKEHEEQMLSLKNMRNAMEvehgkrdrmdvTKIEEAsvdsvngrqvgdkssqgqqdsctrttelhkgdnvdgvqgsstnlgacqgpvmpaeehpnmafkhsngvshdpaheldkpenqcrerptsadtssqgaarstvstsstpvtdvtsglcfsslaastevvplqsapsnkstkefklnpgakifspssvnpvsatspaiptatsmayvpsnspvlpiaaaqsevgvgpylshssvpskfvpygtltaanggsaaqfsqpivghagrsqpvryagqypvqagptyvhpssqavmfgRVGGQLvymqpvsndlgvaamspvsarpaltphqvqfpkhqgnaaGQALqlcipspmvagglqpfpvpshipvlqppipanrpipvpgsnglystkfp
mgykkrteqetthsnnsssLSEALLFATMCIIGLPVDVYIKDGSVYSGIFYTASVEKDYGIVLKKAkmskkgksnanvaNGTVIETLVILSADLVQVVAKGVQLPADGIAGNFAGDDVVAVAGtvppidgqiseakrpirsglnkrrnqkrisvrnengyfhgdgpikaEKEHEEQMLSLKNMRNAMEVehgkrdrmdvtKIEEasvdsvngrqvgdkssqgqqdsctrttelhkgdnvdgvqgsSTNLGACQGPVMPAEEHPNMAFKHSNGVSHDPAHELDKPENQCRErptsadtssqgaarstvstsstpvtdVTSGLCFSSLAASTEVVplqsapsnkstkefKLNPgakifspssvnpvSATSPAIPTATSMAYVPSNSPVLPIAAAQSEVGVGPYLSHSSVPSKFVPYGTLTAANGGSAAQFSQPIVGHAGRSQPVRYAGQYPVQAGPTYVHPSSQAVMFGRVGGQLVYMQPVSNDLGVAAMSPVSARPALTPHQVQFPKHQGNAAGQALQLCIPSPMVAGGLQPFPVPSHIPVLQPPIPanrpipvpgsnglystkfp
MGYKKRTEQETTHsnnssslsEALLFATMCIIGLPVDVYIKDGSVYSGIFYTASVEKDYGIVLkkakmskkgksnanVANGTVIETLVILSADLVQVVAKGVQLPADGIAGNFagddvvavagTVPPIDGQISEAKRPIRSGLNKRRNQKRISVRNENGYFHGDGPIKAEKEHEEQMLSLKNMRNAMEVEHGKRDRMDVTKIEEASVDSVNGRQVGDKSSQGQQDSCTRTTELHKGDNVDGVQGSSTNLGACQGPVMPAEEHPNMAFKHSNGVSHDPAHELDKPENQCRERPTSADTSSQGAARstvstsstpvtdvtsGLCFSSLAASTEVVPLQSAPSNKSTKEFKLNPGAKIFSPSSVNPVSATSPAIPTATSMAYVPSNSPVLPIAAAQSEVGVGPYLSHSSVPSKFVPYGTLTAANGGSAAQFSQPIVGHAGRSQPVRYAGQYPVQAGPTYVHPSSQAVMFGRVGGQLVYMQPVSNDLGVAAMSPVSARPALTPHQVQFPKHQGNAAGQALQLCIPSPMVAGGLQPFPVPSHIPVLQppipanrpipvpGSNGLYSTKFP
**********************ALLFATMCIIGLPVDVYIKDGSVYSGIFYTASVEKDYGIVL***************ANGTVIETLVILSADLVQVVAKGVQLPADGIAGNFAGDDVVAVAGTVPPI***********************************************************************************************************************************************************************************************GLCFS***************************************************************PIAAA**EVGVGPYLSHSSVPSKFVPYGTLTAANGG**AQFSQPIVGHAG**QPVRYAGQYPVQAGPTYVHPSSQAVMFGRVGGQLVYMQPVSNDLGVAA*************************GQALQLCIPSPMVAGGLQPFPVP*HI***************************
**********************ALLFATMCIIGLPVDVYIKDGSVYSGIFYTASVEKDYGIVLK**********************LVILSADLVQVVAKGVQLPA****************************************************GYFHGDGPIKA************************************************************************************************************************************************************************************************************************************************************************************************************************************************************************************************************
*******************LSEALLFATMCIIGLPVDVYIKDGSVYSGIFYTASVEKDYGIVLKKA*********ANVANGTVIETLVILSADLVQVVAKGVQLPADGIAGNFAGDDVVAVAGTVPPIDGQISEAKRPIRSGLNKRRNQKRISVRNENGYFHGDGPIKAEKEHEEQMLSLKNMRNAMEVEHGKRDRMDVTKIEEASV*********************RTTELHKGDNVDGVQGSSTNLGACQGPVMPAEEHPNMAFKHSNGV******************************************DVTSGLCFSSLAASTEVVPLQSAPSNKSTKEFKLNPGAKIFSP*********SPAIPTATSMAYVPSNSPVLPIAAAQSEVGVGPYLSHSSVPSKFVPYGTLTAANGGSAAQFSQPIVGHAGRSQPVRYAGQYPVQAGPTYVHPSSQAVMFGRVGGQLVYMQPVSNDLGVAAMSPVSARPALTPHQVQFPKHQGNAAGQALQLCIPSPMVAGGLQPFPVPSHIPVLQPPIPANRPIPVPGSNGLYSTKFP
*****************SSLSEALLFATMCIIGLPVDVYIKDGSVYSGIFYTASVEKDYGIVLKKAKMSKKGKSNANVANGTVIETLVILSADLVQVVAKGVQLPADGIAGNFAGDDVVAVAGTVPPID**********************************DGPIKAEKEHEEQMLSLKNMRNAMEVEHGKRDRMDVT**********************************************************************************************************************************************STKEFKLNPGAKIFSPSSVNPVSATSPAIPTATSMAYVPSNSPVLPIAAAQSEVGVGPYLSHSSVPSKFVPYGTLTAANGGSAAQFSQPIVGHAGRSQPVRYAGQYPVQAGPTYVHPSSQAVMFGRVGGQLVYMQPVSNDLGVAAMSPVSARPALTPHQVQFPKHQGNAAGQALQLCIPSPMVAGGLQPFPVPSHIPVLQPPIPANRPIPVPGSNGLYSTKFP
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MGYKKRTEQETTHSNNSSSLSEALLFATMCIIGLPVDVYIKDGSVYSGIFYTASVEKDYGIVLKKAKMSKKGKSNANVANGTVIETLVILSADLVQVVAKGVQLPADGIAGNFAGDDVVAVAGTVPPIDGQISEAKRPIRSGLNKRRNQKRISVRNENGYFHGDGPIKAxxxxxxxxxxxxxxxxxxxxxHGKRDRMDVTKIEEASVDSVNGRQVGDKSSQGQQDSCTRTTELHKGDNVDGVQGSSTNLGACQGPVMPAEEHPNMAFKHSNGVSHDPAHELDKPENQCRERPTSADTSSQGAARSTVSTSSTPVTDVTSGLCFSSLAASTEVVPLQSAPSNKSTKEFKLNPGAKIFSPSSVNPVSATSPAIPTATSMAYVPSNSPVLPIAAAQSEVGVGPYLSHSSVPSKFVPYGTLTAANGGSAAQFSQPIVGHAGRSQPVRYAGQYPVQAGPTYVHPSSQAVMFGRVGGQLVYMQPVSNDLGVAAMSPVSARPALTPHQVQFPKHQGNAAGQALQLCIPSPMVAGGLQPFPVPSHIPVLQPPIPANRPIPVPGSNGLYSTKFP
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 ?
Query565 2.2.26 [Sep-21-2011]
Q55DE7 1103 Ataxin-2 homolog OS=Dicty yes no 0.168 0.086 0.295 3e-05
>sp|Q55DE7|ATX2_DICDI Ataxin-2 homolog OS=Dictyostelium discoideum GN=atxn2 PE=3 SV=1 Back     alignment and function desciption
 Score = 50.8 bits (120), Expect = 3e-05,   Method: Compositional matrix adjust.
 Identities = 31/105 (29%), Positives = 53/105 (50%), Gaps = 10/105 (9%)

Query: 18  SSLSEALLFATMCIIGLPVDVYIKDGSVYSGIFY-----TASVEKDYGIVLKKAKMSKKG 72
           +++ E  +F +M ++G  V V +K+G VY GI +     T S    +G+ L   KM++K 
Sbjct: 79  TAMKERTVFMSMSLVGQNVSVTLKNGDVYEGILHTTSTSTGSSGGGWGVAL---KMARKK 135

Query: 73  KSNANVANGTVIETLVILSADLVQVVAKGVQLPADGIAGNFAGDD 117
            +N  V     +  ++I + D +Q+ A GV L  D    +F   D
Sbjct: 136 DTNNRVITTLPLPLVIIEAKDFLQITATGVVL--DHYRDSFMNRD 178

Dictyostelium discoideum (taxid: 44689)

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 ?
Query565
297737427575 unnamed protein product [Vitis vinifera] 0.984 0.966 0.551 1e-158
147843434558 hypothetical protein VITISV_016662 [Viti 0.953 0.965 0.527 1e-147
255563899565 hypothetical protein RCOM_0584970 [Ricin 0.948 0.948 0.501 1e-132
224115308524 predicted protein [Populus trichocarpa] 0.918 0.990 0.528 1e-125
224124348526 predicted protein [Populus trichocarpa] 0.909 0.977 0.509 1e-124
356569824495 PREDICTED: uncharacterized protein LOC10 0.847 0.967 0.401 3e-86
297792961535 hypothetical protein ARALYDRAFT_495575 [ 0.925 0.977 0.408 1e-85
186532158522 uncharacterized protein [Arabidopsis tha 0.902 0.977 0.396 1e-82
18423687517 uncharacterized protein [Arabidopsis tha 0.893 0.976 0.4 4e-82
9758272540 unnamed protein product [Arabidopsis tha 0.904 0.946 0.383 2e-78
>gi|297737427|emb|CBI26628.3| unnamed protein product [Vitis vinifera] Back     alignment and taxonomy information
 Score =  563 bits (1451), Expect = e-158,   Method: Compositional matrix adjust.
 Identities = 322/584 (55%), Positives = 403/584 (69%), Gaps = 28/584 (4%)

Query: 1   MGYKKRTEQETTHSNNSSSLSEALLFATMCIIGLPVDVYIKDGSVYSGIFYTASVEKDYG 60
           MG + R   E +    S SLS+AL+FATMCIIGLPV+V++KDGSVYSGI +TA + KDYG
Sbjct: 1   MGARAR---EFSDDGVSPSLSQALVFATMCIIGLPVEVHVKDGSVYSGILHTACLGKDYG 57

Query: 61  IVLKKAKMSKKGKSNANVANGTVIETLVILSADLVQVVAKGVQLPADGIAGNFAGDDVVA 120
           I+LKKA+M KKGK  ANVA+G ++ETLVIL+ DLVQVVAKGVQL  D I  N  G+D  A
Sbjct: 58  IILKKARMIKKGKLEANVAHGGMVETLVILTGDLVQVVAKGVQLSDDDIVRNITGEDTEA 117

Query: 121 VAGTVPPIDGQISEAK--RPIRSGLNKRR-NQKRISVRNENGYFHG-------DGPIKAE 170
           VAGT+P  +   +EAK  +P  + ++K++ N  R SV+NENG+ HG       D  +   
Sbjct: 118 VAGTIPSFECLGTEAKMLKPGNAAVHKKQINNTRNSVQNENGFAHGFMATPSEDNLMSKI 177

Query: 171 KEHEEQMLSLKNMRNAMEVEHGKRDRMDVTKIEEASVDSVNGRQVGDKSSQGQQDSCTRT 230
            EHE +      + +A+E+E+GKRD   + K EEA     NGRQVGD   QG+QD   + 
Sbjct: 178 VEHEVRRKEPSYLGSALEIENGKRDSKILAKSEEAPSFPDNGRQVGDDRIQGKQDHSKQK 237

Query: 231 TELHKGDNVDGVQGSSTNLGACQGPVMPAEE-HPNMAFK-HSNGVSHD-PAHELDKPENQ 287
            E H+ +    +QGSS++  AC   + P E     MA +   NGVSHD PA    KP   
Sbjct: 238 YEFHRKETAHEIQGSSSSSDACITHMKPVEAIDGKMASELLPNGVSHDGPAPSCVKPNKS 297

Query: 288 CRERPTSA--DTSSQGAARSTVSTSSTPVTDVTSGLCFSSLAASTEVVPLQSAPSNKSTK 345
           C ER ++A  D  S G     VSTSS  V  VTS  C +SLA  TE+V  +S+ SNKS K
Sbjct: 298 CSERASAAVMDDISTG-----VSTSSNSVVGVTSVSCPTSLATPTEMVLPRSSISNKSAK 352

Query: 346 EFKLNPGAKIFSPSSVNPVSATSPAIPTATSMAYVPSNSPVLPIAAAQSEVGVGPYLSHS 405
           E KLNPGAK+FSPS  +P S T PA+P   S+AYVP+NS V+P+A++Q E+G+ P+   S
Sbjct: 353 ESKLNPGAKVFSPSFTHPRSVTPPAVPAVASVAYVPNNSTVVPVASSQPEIGISPFAPRS 412

Query: 406 SVPSKFVPYGTLTAANGGSAAQFSQPIVGH-AGRSQPVRYAGQY-PVQAGPTYVHPSSQA 463
           S+P KFVPY  L A NGGS +Q+SQPI+GH A R QPVRYAGQY PVQAGP YVHP+SQA
Sbjct: 413 SLPVKFVPYSNLIAGNGGSGSQYSQPIIGHMASRLQPVRYAGQYQPVQAGPAYVHPNSQA 472

Query: 464 VMFGRVGGQLVYMQPVSNDL--GVAAMSPVSARPALTPHQVQFPKHQGNAAGQALQLCIP 521
           VM GR+ GQLVY+ PVS D+  G AA+S +SARP LTP+QVQFPKHQG+   QALQLC+P
Sbjct: 473 VMVGRL-GQLVYVHPVSYDVVPGAAAISQLSARPLLTPNQVQFPKHQGSVPSQALQLCVP 531

Query: 522 SPMVAGGLQPFPVPSHIPVLQPPIPANRPIPVPGSNGLYSTKFP 565
            P++A G QPF VPSHIP++QPP PANRPIPVPGSN L++TKFP
Sbjct: 532 PPVLANGQQPFAVPSHIPLVQPPFPANRPIPVPGSNALFNTKFP 575

Source: Vitis vinifera

Species: Vitis vinifera

Genus: Vitis

Family: Vitaceae

Order: Vitales

Class:

Phylum: Streptophyta

Superkingdom: Eukaryota
>gi|147843434|emb|CAN82076.1| hypothetical protein VITISV_016662 [Vitis vinifera] Back     alignment and taxonomy information
>gi|255563899|ref|XP_002522949.1| hypothetical protein RCOM_0584970 [Ricinus communis] gi|223537761|gb|EEF39379.1| hypothetical protein RCOM_0584970 [Ricinus communis] Back     alignment and taxonomy information
>gi|224115308|ref|XP_002316999.1| predicted protein [Populus trichocarpa] gi|222860064|gb|EEE97611.1| predicted protein [Populus trichocarpa] Back     alignment and taxonomy information
>gi|224124348|ref|XP_002319309.1| predicted protein [Populus trichocarpa] gi|222857685|gb|EEE95232.1| predicted protein [Populus trichocarpa] Back     alignment and taxonomy information
>gi|356569824|ref|XP_003553095.1| PREDICTED: uncharacterized protein LOC100809285 [Glycine max] Back     alignment and taxonomy information
>gi|297792961|ref|XP_002864365.1| hypothetical protein ARALYDRAFT_495575 [Arabidopsis lyrata subsp. lyrata] gi|297310200|gb|EFH40624.1| hypothetical protein ARALYDRAFT_495575 [Arabidopsis lyrata subsp. lyrata] Back     alignment and taxonomy information
>gi|186532158|ref|NP_001119437.1| uncharacterized protein [Arabidopsis thaliana] gi|332009174|gb|AED96557.1| uncharacterized protein [Arabidopsis thaliana] Back     alignment and taxonomy information
>gi|18423687|ref|NP_568816.1| uncharacterized protein [Arabidopsis thaliana] gi|15450868|gb|AAK96705.1| Unknown protein [Arabidopsis thaliana] gi|15810251|gb|AAL07013.1| unknown protein [Arabidopsis thaliana] gi|21387081|gb|AAM47944.1| unknown protein [Arabidopsis thaliana] gi|332009173|gb|AED96556.1| uncharacterized protein [Arabidopsis thaliana] Back     alignment and taxonomy information
>gi|9758272|dbj|BAB08771.1| unnamed protein product [Arabidopsis thaliana] 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 ?
Query565
TAIR|locus:2116317474 AT4G26990 "AT4G26990" [Arabido 0.423 0.504 0.450 1.3e-74
TAIR|locus:2160235522 AT5G54920 "AT5G54920" [Arabido 0.419 0.454 0.463 1.1e-70
TAIR|locus:2014330587 CID3 "CTC-interacting domain 3 0.153 0.148 0.397 1.3e-12
TAIR|locus:2088222595 CID4 "CTC-interacting domain 4 0.157 0.149 0.319 3.1e-10
UNIPROTKB|J9JHE8 2842 BPTF "Uncharacterized protein" 0.376 0.074 0.280 0.00011
TAIR|locus:2116317 AT4G26990 "AT4G26990" [Arabidopsis thaliana (taxid:3702)] Back     alignment and assigned GO terms
 Score = 463 (168.0 bits), Expect = 1.3e-74, Sum P(3) = 1.3e-74
 Identities = 114/253 (45%), Positives = 144/253 (56%)

Query:   321 LCFSSLAAS-TEVVPLQSAPSNKSTKEFKLNPGAKIFSPSSVNPVSATSPAIPTATSMAY 379
             LC   +AAS T  VP+Q+    K  KEFKLNP AKIFSPS    +S +   +P   ++AY
Sbjct:   228 LCRGRVAASSTASVPIQAV---KKPKEFKLNPEAKIFSPSYTKRLSPSPVGMPHVGNIAY 284

Query:   380 VPSNSPVLPIAAA-QSEVGVGPYLSHSSVPSKFVPYGTLTAANGGSAAQFSQPIVGHA-G 437
             +PSN+P+LP+  A   EV   PY+  +  PSKFVPYG +TA +     QF Q ++G    
Sbjct:   285 IPSNTPMLPVPEAIYPEVVNNPYVPQAPPPSKFVPYGNVTAGHAVGGFQFPQHMIGPTVN 344

Query:   438 RSQPVRYAGQY-PVQAGPTYVHPSSQAVMFGRVGGQLVYMQPVSNDL--GVAAMSPVSAR 494
             R+QP RY  QY  VQA P  V+PS Q VM  R  GQLVY+Q VS DL  G   +SP+ + 
Sbjct:   345 RAQPQRYTAQYHSVQAAPMLVNPSPQ-VMVAR-SGQLVYVQSVSQDLVQGTPPLSPMLSC 402

Query:   495 PALTPHQVQFPKHQGN-AAGQALQLCIPSPMVAGGLQPFPVPSHIPVLQXXXXXXXXXXX 553
             P  T   VQ+ KHQG  AAGQ L LC+  P   GG QP+ +P+  P +Q           
Sbjct:   403 PLPTAQHVQYLKHQGVVAAGQPLPLCVSLPFTTGGPQPYGIPTQFPAMQQPPFPTNQPMT 462

Query:   554 XG-SNGLYSTKFP 565
                 NG Y TKFP
Sbjct:   463 VAVPNGFY-TKFP 474
GO:0003674 "molecular_function" evidence=ND
GO:0005634 "nucleus" evidence=ISM
GO:0008150 "biological_process" evidence=ND
TAIR|locus:2160235 AT5G54920 "AT5G54920" [Arabidopsis thaliana (taxid:3702)] Back     alignment and assigned GO terms
TAIR|locus:2014330 CID3 "CTC-interacting domain 3" [Arabidopsis thaliana (taxid:3702)] Back     alignment and assigned GO terms
TAIR|locus:2088222 CID4 "CTC-interacting domain 4" [Arabidopsis thaliana (taxid:3702)] Back     alignment and assigned GO terms
UNIPROTKB|J9JHE8 BPTF "Uncharacterized protein" [Canis lupus familiaris (taxid:9615)] Back     alignment and assigned GO terms

Prediction of Enzyme Commission (EC) Number

EC Number Prediction by Annotation Transfer from SWISS-PROT Entries ?

Original result of BLAST against SWISS-PROT

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

EC Number Prediction by Ezypred Server ?

Original result from Ezypred Server

Fail to connect to Ezypred Server

EC Number Prediction by EFICAz Software ?

No EC number assignment, probably not an enzyme!

Prediction of Functionally Associated Proteins

Functionally Associated Proteins Detected by STRING ?

Original result from the STRING server

Fail to connect to STRING server

Conserved Domains and Related Protein Families

Conserved Domains Detected by RPS-BLAST ?

Original result of RPS-BLAST against CDD database part I

ID ?Alignment Graph ?Length ? Definition ? E-value ?
Query565
pfam14438113 pfam14438, SM-ATX, SM domain found in Ataxin-2 4e-24
>gnl|CDD|222754 pfam14438, SM-ATX, SM domain found in Ataxin-2 Back     alignment and domain information 
 Score = 97.0 bits (242), Expect = 4e-24
 Identities = 37/94 (39%), Positives = 56/94 (59%), Gaps = 1/94 (1%)

Query: 22  EALLFATMCIIGLPVDVYIKDGSVYSGIFYTASVEKDYGIVLKKAKMSKKGKSNANVANG 81
           + L++    +IG  V+V +K+GSVY GIF+TAS E D+G+VLK A++       +    G
Sbjct: 1   DRLVYLLTNLIGQRVEVTLKNGSVYEGIFHTASPEDDFGVVLKMARV-LPKSDASGPLRG 59

Query: 82  TVIETLVILSADLVQVVAKGVQLPADGIAGNFAG 115
            +++TL+I S D+VQ+ AK V L      G   G
Sbjct: 60  KIVDTLIIPSKDIVQIEAKDVDLSYAASGGAKDG 93

SM domain found in Ataxin-2. Length = 113

Conserved Domains Detected by HHsearch ?

Original result of HHsearch against CDD database

ID ?Alignment Graph ?Length ? Definition ? Probability ?
Query 565
COG5180654 PBP1 Protein interacting with poly(A)-binding prot 99.93
KOG2375 756 consensus Protein interacting with poly(A)-binding 99.84
PF1443877 SM-ATX: Ataxin 2 SM domain; PDB: 1M5Q_1. 99.83
PF0674172 LsmAD: LsmAD domain; InterPro: IPR009604 This entr 99.74
KOG2375756 consensus Protein interacting with poly(A)-binding 98.14
cd0173378 LSm10 The eukaryotic Sm and Sm-like (LSm) proteins 97.43
cd0172667 LSm6 The eukaryotic Sm and Sm-like (LSm) proteins 97.25
cd0172490 Sm_D1 The eukaryotic Sm and Sm-like (LSm) proteins 97.21
cd0060063 Sm_like The eukaryotic Sm and Sm-like (LSm) protei 97.12
PF0142367 LSM: LSM domain ; InterPro: IPR001163 This family 97.11
PF1270196 LSM14: Scd6-like Sm domain; PDB: 2RM4_A 2FB7_A 2VC 97.04
cd0172581 LSm2 The eukaryotic Sm and Sm-like (LSm) proteins 97.02
cd0616875 LSm9 The eukaryotic Sm and Sm-like (LSm) proteins 96.97
cd0172268 Sm_F The eukaryotic Sm and Sm-like (LSm) proteins 96.96
cd0172170 Sm_D3 The eukaryotic Sm and Sm-like (LSm) proteins 96.94
PRK0073772 small nuclear ribonucleoprotein; Provisional 96.92
smart0065167 Sm snRNP Sm proteins. small nuclear ribonucleoprot 96.84
cd0173168 archaeal_Sm1 The archaeal sm1 proteins: The Sm pro 96.83
cd0173674 LSm14_N LSm14 (also known as RAP55) belongs to a f 96.73
PF0714518 PAM2: Ataxin-2 C-terminal region; InterPro: IPR009 96.65
cd0172376 LSm4 The eukaryotic Sm and Sm-like (LSm) proteins 96.6
COG195879 LSM1 Small nuclear ribonucleoprotein (snRNP) homol 96.55
cd0171779 Sm_B The eukaryotic Sm and Sm-like (LSm) proteins 96.42
cd0171972 Sm_G The eukaryotic Sm and Sm-like (LSm) proteins 96.02
KOG1073361 consensus Uncharacterized mRNA-associated protein 95.83
PF1109580 Gemin7: Gem-associated protein 7 (Gemin7); InterPr 95.46
cd0172981 LSm7 The eukaryotic Sm and Sm-like (LSm) proteins 95.1
cd0172874 LSm1 The eukaryotic Sm and Sm-like (LSm) proteins 94.98
cd0173276 LSm5 The eukaryotic Sm and Sm-like (LSm) proteins 94.78
cd0172774 LSm8 The eukaryotic Sm and Sm-like (LSm) proteins 94.54
cd0173082 LSm3 The eukaryotic Sm and Sm-like (LSm) proteins 94.04
cd0172087 Sm_D2 The eukaryotic Sm and Sm-like (LSm) proteins 93.43
KOG178377 consensus Small nuclear ribonucleoprotein F [RNA p 85.66
KOG3293134 consensus Small nuclear ribonucleoprotein (snRNP) 83.58
>COG5180 PBP1 Protein interacting with poly(A)-binding protein [RNA processing and modification] Back     alignment and domain information 
Probab=99.93  E-value=1.8e-26  Score=243.27  Aligned_cols=169  Identities=14%  Similarity=0.028  Sum_probs=119.5

Q ss_pred             CceEEEEEccCCEEEEEEEeeccCCCeeEEEeccccccCCCCCCCcCCCCceeeeee-------------ecCceEEEE-
Q 038314           33 GLPVDVYIKDGSVYSGIFYTASVEKDYGIVLKKAKMSKKGKSNANVANGTVIETLVI-------------LSADLVQVV-   98 (565)
Q Consensus        33 G~~VeVtvKdGsvYeGIF~TaS~e~d~gVVLK~AR~i~~G~s~anv~sg~i~eTLVI-------------~~kDIVqV~-   98 (565)
                      |..|.+.+.||      +..+++|+ +.||+..+|....|.+....+......-+-+             ..+++-++. 
T Consensus        34 GS~I~~~~Tn~------~~~~nlEs-i~vv~~nprV~~~gVs~s~sD~~t~~~~~sl~~~~en~~s~~gsa~~n~s~~rv  106 (654)
T COG5180          34 GSIIGAFLTNE------DGKVNLES-IDVVETNPRVVFPGVSISESDIITVTKMNSLQAEKENDASERGSAAKNDSGWRV  106 (654)
T ss_pred             cceeeeeeecC------Cccceeee-eeeeecCCccccCccccccchhhhhhccchhhhhhcccccccccccccccccee
Confidence            88999999997      44456654 6788998888754443211100000000000             011111111 


Q ss_pred             -EcCccCCCCCCCCCCCCccccccccCCCCCCCCCc-----ccCCCCCCCchhhhhccccccccccCCCCCCCcccccCC
Q 038314           99 -AKGVQLPADGIAGNFAGDDVVAVAGTVPPIDGQIS-----EAKRPIRSGLNKRRNQKRISVRNENGYFHGDGPIKAEKE  172 (565)
Q Consensus        99 -AkdV~Ls~D~isg~~~gd~erELq~WvPDedd~~~-----eLE~sn~~WDQFevNEkrFGVq~kSTYDEnLYTTkLDKd  172 (565)
                       -.||     +|+++...-++|+|.+|.|+..+...     +||+.+..||||++||++|||  |++|||+|||++|||+
T Consensus       107 frTDv-----~ISg~~rE~keR~l~~w~p~p~aa~~~~~G~~le~d~~~WdQFa~NeKlFgV--kS~FDE~lYt~~idks  179 (654)
T COG5180         107 FRTDV-----EISGGPREIKERKLMPWAPLPKAADLEKSGKALEEDCKDWDQFAANEKLFGV--KSRFDEELYTEVIDKS  179 (654)
T ss_pred             eeecc-----eecCCcchhhhhhhcccCCCccccCCccccchhhcccchHHHhhhhhhhcCc--cccccHHHHhhhhccC
Confidence             1111     34444444467899999998766433     477888899999999999999  9999999999999996


Q ss_pred             -chHHHHHHHHHHHHhhhhcCCCCCCcccc-----------cccccccccccccc
Q 038314          173 -HEEQMLSLKNMRNAMEVEHGKRDRMDVTK-----------IEEASVDSVNGRQV  215 (565)
Q Consensus       173 -~~ykereaeAeRIArEIEss~t~NiHLaE-----------~eea~~~~~~grq~  215 (565)
                       +.|++|+.+|+|||+|||.+.|.|+||+|           +||-+.+.|+.|.+
T Consensus       180 ~p~Yk~k~qeA~RIaKEIe~s~TtniHiaEeRGl~~DDSGldeEDlYSgV~R~~d  234 (654)
T COG5180         180 SPSYKSKVQEARRIAKEIELSATTNIHIAEERGLGNDDSGLDEEDLYSGVVRRGD  234 (654)
T ss_pred             ChhhHHHHHHHHHHHHHHhhccccchhhhhhcCccccccCcchhhhhhhhhhhHH
Confidence             58999999999999999999999999999           68888888887654

>KOG2375 consensus Protein interacting with poly(A)-binding protein [RNA processing and modification] Back     alignment and domain information
>PF14438 SM-ATX: Ataxin 2 SM domain; PDB: 1M5Q_1 Back     alignment and domain information
>PF06741 LsmAD: LsmAD domain; InterPro: IPR009604 This entry represents a conserved region approximately 250 residues long located on eukaryotic ataxin-2 [] Back     alignment and domain information
>KOG2375 consensus Protein interacting with poly(A)-binding protein [RNA processing and modification] Back     alignment and domain information
>cd01733 LSm10 The eukaryotic Sm and Sm-like (LSm) proteins associate with RNA to form the core domain of the ribonucleoprotein particles involved in a variety of RNA processing events including pre-mRNA splicing, telomere replication, and mRNA degradation Back     alignment and domain information
>cd01726 LSm6 The eukaryotic Sm and Sm-like (LSm) proteins associate with RNA to form the core domain of the ribonucleoprotein particles involved in a variety of RNA processing events including pre-mRNA splicing, telomere replication, and mRNA degradation Back     alignment and domain information
>cd01724 Sm_D1 The eukaryotic Sm and Sm-like (LSm) proteins associate with RNA to form core domain of the ribonucleoprotein particles involved in a variety of RNA processing events including pre-mRNA splicing, telomere replication, and mRNA degradation Back     alignment and domain information
>cd00600 Sm_like The eukaryotic Sm and Sm-like (LSm) proteins associate with RNA to form the core domain of the ribonucleoprotein particles involved in a variety of RNA processing events including pre-mRNA splicing, telomere replication, and mRNA degradation Back     alignment and domain information
>PF01423 LSM: LSM domain ; InterPro: IPR001163 This family is found in Lsm (like-Sm) proteins and in bacterial Lsm-related Hfq proteins Back     alignment and domain information
>PF12701 LSM14: Scd6-like Sm domain; PDB: 2RM4_A 2FB7_A 2VC8_A 2VXF_A 2VXE_A Back     alignment and domain information
>cd01725 LSm2 The eukaryotic Sm and Sm-like (LSm) proteins associate with RNA to form the core domain of the ribonucleoprotein particles involved in a variety of RNA processing events including pre-mRNA splicing, telomere replication, and mRNA degradation Back     alignment and domain information
>cd06168 LSm9 The eukaryotic Sm and Sm-like (LSm) proteins associate with RNA to form the core domain of the ribonucleoprotein particles involved in a variety of RNA processing events including pre-mRNA splicing, telomere replication, and mRNA degradation Back     alignment and domain information
>cd01722 Sm_F The eukaryotic Sm and Sm-like (LSm) proteins associate with RNA to form core domain of the ribonucleoprotein particles involved in a variety of RNA processing events including pre-mRNA splicing, telomere replication, and mRNA degradation Back     alignment and domain information
>cd01721 Sm_D3 The eukaryotic Sm and Sm-like (LSm) proteins associate with RNA to form core domain of the ribonucleoprotein particles involved in a variety of RNA processing events including pre-mRNA splicing, telomere replication, and mRNA degradation Back     alignment and domain information
>PRK00737 small nuclear ribonucleoprotein; Provisional Back     alignment and domain information
>smart00651 Sm snRNP Sm proteins Back     alignment and domain information
>cd01731 archaeal_Sm1 The archaeal sm1 proteins: The Sm proteins are conserved in all three domains of life and are always associated with U-rich RNA sequences Back     alignment and domain information
>cd01736 LSm14_N LSm14 (also known as RAP55) belongs to a family of Sm-like proteins that associate with RNA to form the core domain of the ribonucleoprotein particles involved in a variety of RNA processing events including pre-mRNA splicing, telomere replication, and mRNA degradation Back     alignment and domain information
>PF07145 PAM2: Ataxin-2 C-terminal region; InterPro: IPR009818 This entry represents a conserved region approximately 250 residues long located towards the C terminus of eukaryotic ataxin-2 Back     alignment and domain information
>cd01723 LSm4 The eukaryotic Sm and Sm-like (LSm) proteins associate with RNA to form the core domain of the ribonucleoprotein particles involved in a variety of RNA processing events including pre-mRNA splicing, telomere replication, and mRNA degradation Back     alignment and domain information
>COG1958 LSM1 Small nuclear ribonucleoprotein (snRNP) homolog [Transcription] Back     alignment and domain information
>cd01717 Sm_B The eukaryotic Sm and Sm-like (LSm) proteins associate with RNA to form core domain of the ribonucleoprotein particles involved in a variety of RNA processing events including pre-mRNA splicing, telomere replication, and mRNA degradation Back     alignment and domain information
>cd01719 Sm_G The eukaryotic Sm and Sm-like (LSm) proteins associate with RNA to form the core domain of the ribonucleoprotein particles involved in a variety of RNA processing events including pre-mRNA splicing, telomere replication, and mRNA degradation Back     alignment and domain information
>KOG1073 consensus Uncharacterized mRNA-associated protein RAP55 [Intracellular trafficking, secretion, and vesicular transport] Back     alignment and domain information
>PF11095 Gemin7: Gem-associated protein 7 (Gemin7); InterPro: IPR020338 Gem-associated protein 7 (Gemin7) is a component of the survival of motor neuron complex, which functions in the assembly of spliceosomal small nuclear ribonucleoproteins Back     alignment and domain information
>cd01729 LSm7 The eukaryotic Sm and Sm-like (LSm) proteins associate with RNA to form the core domain of the ribonucleoprotein particles involved in a variety of RNA processing events including pre-mRNA splicing, telomere replication, and mRNA degradation Back     alignment and domain information
>cd01728 LSm1 The eukaryotic Sm and Sm-like (LSm) proteins associate with RNA to form the core domain of the ribonucleoprotein particles involved in a variety of RNA processing events including pre-mRNA splicing, telomere replication, and mRNA degradation Back     alignment and domain information
>cd01732 LSm5 The eukaryotic Sm and Sm-like (LSm) proteins associate with RNA to form the core domain of the ribonucleoprotein particles involved in a variety of RNA processing events including pre-mRNA splicing, telomere replication, and mRNA degradation Back     alignment and domain information
>cd01727 LSm8 The eukaryotic Sm and Sm-like (LSm) proteins associate with RNA to form the core domain of the ribonucleoprotein particles involved in a variety of RNA processing events including pre-mRNA splicing, telomere replication, and mRNA degradation Back     alignment and domain information
>cd01730 LSm3 The eukaryotic Sm and Sm-like (LSm) proteins associate with RNA to form the core domain of the ribonucleoprotein particles involved in a variety of RNA processing events including pre-mRNA splicing, telomere replication, and mRNA degradation Back     alignment and domain information
>cd01720 Sm_D2 The eukaryotic Sm and Sm-like (LSm) proteins associate with RNA to form core domain of the ribonucleoprotein particles involved in a variety of RNA processing events including pre-mRNA splicing, telomere replication, and mRNA degradation Back     alignment and domain information
>KOG1783 consensus Small nuclear ribonucleoprotein F [RNA processing and modification] Back     alignment and domain information
>KOG3293 consensus Small nuclear ribonucleoprotein (snRNP) [RNA processing and modification] 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 ?
Query565
1vt4_I 1221 APAF-1 related killer DARK; drosophila apoptosome, 8e-05
>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 = 44.8 bits (105), Expect = 8e-05
 Identities = 67/406 (16%), Positives = 115/406 (28%), Gaps = 118/406 (29%)

Query: 7   TEQETTHSNNSSSLSEA--LLFATMCIIGLPVDVYIKDGSVYSGIFYTASVEKDYGIVLK 64
           +++E  H   S         LF T+           K   +    F    +  +Y  ++ 
Sbjct: 47  SKEEIDHIIMSKDAVSGTLRLFWTLLS---------KQEEMVQ-KFVEEVLRINYKFLMS 96

Query: 65  KAKMSKKGKS--------------NAN--VANGTV--IETLVILSADLVQV-VAKGVQLP 105
             K  ++  S              N N   A   V  ++  + L   L+++  AK V + 
Sbjct: 97  PIKTEQRQPSMMTRMYIEQRDRLYNDNQVFAKYNVSRLQPYLKLRQALLELRPAKNVLI- 155

Query: 106 ADGIAGNFAGDDVVAVA-----GTVPPIDGQI-----SEAKRP-------------IRSG 142
            DG+ G  +G   VA+           +D +I          P             I   
Sbjct: 156 -DGVLG--SGKTWVALDVCLSYKVQCKMDFKIFWLNLKNCNSPETVLEMLQKLLYQIDPN 212

Query: 143 LNKRRNQ-KRISVRNENGYFHGDGPIKAEKEHEEQMLSLKNMRNAMEVEHGKRDRMDVT- 200
              R +    I +R  +        +   K +E  +L L N++NA           +++ 
Sbjct: 213 WTSRSDHSSNIKLRIHSIQ-AELRRLLKSKPYENCLLVLLNVQNAKAWNA-----FNLSC 266

Query: 201 KI----EEASV-DSVNGRQVGDKSSQGQQDSCTRTTELHKGDNVDGVQGSSTNLG----- 250
           KI        V D ++       S      + T        D V  +     +       
Sbjct: 267 KILLTTRFKQVTDFLSAATTTHISLDHHSMTLTP-------DEVKSLLLKYLDCRPQDLP 319

Query: 251 --ACQG-PV---MPAE---EHPNMA--FKHSNGVSHDPAHE-----LDKPENQCRER--- 291
                  P    + AE   +       +KH N        E     L+  E   R+    
Sbjct: 320 REVLTTNPRRLSIIAESIRDGLATWDNWKHVNCDKLTTIIESSLNVLEPAEY--RKMFDR 377

Query: 292 ----PTSADTSSQGAARSTVST-----SSTPVTDVTSGLCFSSLAA 328
               P SA   +       +S        + V  V + L   SL  
Sbjct: 378 LSVFPPSAHIPTI-----LLSLIWFDVIKSDVMVVVNKLHKYSLVE 418

Structure Templates Detected by HHsearch ?

Original result of HHsearch against PDB70 database

ID ?Alignment Graph ?Length ? Definition ? Probability ?
Query565
1y96_A86 Gemin6, SIP2, GEM-associated protein 6; SM fold, p 97.07
2fb7_A95 SM-like protein, LSM-14_N (RAP55); DR.13312, BC055 97.06
2vxe_A88 CG10686-PA; EDC3, CAR-1, P-bodies, decapping, mRNA 97.05
1d3b_A75 Protein (small nuclear ribonucleoprotein SM D3); s 96.95
1th7_A81 SnRNP-2, small nuclear riboprotein protein; archae 96.93
1h64_175 SnRNP SM-like protein; SM fold, spliceosome, snRNP 96.92
1i4k_A77 Putative snRNP SM-like protein; core snRNP domain, 96.84
3s6n_F86 Small nuclear ribonucleoprotein F; SMN complex, SM 96.74
3s6n_G76 Small nuclear ribonucleoprotein G; SMN complex, SM 96.66
1b34_A119 Protein (small nuclear ribonucleoprotein SM D1); s 96.65
2y9a_D126 Small nuclear ribonucleoprotein SM D3; splicing-RN 96.6
1ljo_A77 Archaeal SM-like protein AF-SM2; snRNP, core snRNP 96.55
4emk_B75 U6 snRNA-associated SM-like protein LSM6; SM fold, 96.53
1i8f_A81 Putative snRNP SM-like protein; beta barrel-like S 96.44
1mgq_A83 SM-like protein; LSM, RNA-binding, archea, RNA bin 96.36
3pgw_B231 SM B; protein-RNA complex, U1 snRNA, SM fold, SM c 96.32
4emh_A105 Probable U6 snRNA-associated SM-like protein LSM4; 96.26
1d3b_B91 Protein (small nuclear ribonucleoprotein associat 96.18
4emk_A94 U6 snRNA-associated SM-like protein LSM5; SM fold, 96.14
1n9r_A93 SMF, small nuclear ribonucleoprotein F, snRNP-F, S 96.09
1y96_B85 Gemin7, SIP3, GEM-associated protein 7; SM fold, p 95.8
3bw1_A96 SMX4 protein, U6 snRNA-associated SM-like protein 95.72
1m5q_A130 SMAP3, small nuclear ribonucleoprotein homolog, SM 95.45
4emk_C113 U6 snRNA-associated SM-like protein LSM7; SM fold, 95.28
4emg_A93 Probable U6 snRNA-associated SM-like protein LSM3; 95.14
2fwk_A121 U6 snRNA-associated SM-like protein LSM5; structur 94.74
4a53_A125 EDC3; RNA binding protein; NMR {Schizosaccharomyce 94.2
1b34_B118 Protein (small nuclear ribonucleoprotein SM D2); s 93.17
3s6n_E92 Small nuclear ribonucleoprotein E; SMN complex, SM 92.6
2vc8_A84 Enhancer of mRNA-decapping protein 3; P-BODY compo 91.66
>1y96_A Gemin6, SIP2, GEM-associated protein 6; SM fold, protein complex, RNA binding protein; 2.00A {Homo sapiens} Back     alignment and structure
Probab=97.07  E-value=0.0017  Score=55.57  Aligned_cols=62  Identities=19%  Similarity=0.149  Sum_probs=48.0

Q ss_pred             HHHhccCceEEEEEccCCEEEEEEEeeccCCCeeEEEeccccccCCCCCCCcCCCCceeeeeeecCceEEEEEcC
Q 038314           27 ATMCIIGLPVDVYIKDGSVYSGIFYTASVEKDYGIVLKKAKMSKKGKSNANVANGTVIETLVILSADLVQVVAKG  101 (565)
Q Consensus        27 llt~LIG~~VeVtvKdGsvYeGIF~TaS~e~d~gVVLK~AR~i~~G~s~anv~sg~i~eTLVI~~kDIVqV~Akd  101 (565)
                      -+.++||++|.|++.||..|+|+++++++.+ +.|||-.| .. ++          -....+|.+.-|..|.+.+
T Consensus        11 el~~li~KeV~V~l~dg~~y~G~l~tvDp~s-~sIvL~n~-~~-~~----------~~~~~iI~G~aI~eI~v~~   72 (86)
T 1y96_A           11 EWQDYIYKEVRVTASEKNEYKGWVLTTDPVS-ANIVLVNF-LE-DG----------SMSVTGIMGHAVQTVETMN   72 (86)
T ss_dssp             HHHHTTTCEEEEEETTTEEEEEEEEEECTTT-CCEEEEEE-CT-TS----------CEEEEEECGGGEEEEEEEE
T ss_pred             HHHhhcCCEEEEEEcCCCEEEEEEEEECCCc-eEEEEeec-cc-CC----------eEEEEEEecceEEEEEEec
Confidence            3689999999999999999999999999864 78999877 11 11          1245677888888877643
>2fb7_A SM-like protein, LSM-14_N (RAP55); DR.13312, BC055387, AAH55387, stronGly BENT five-stranded antiparallel beta- sheet, structural genomics, PSI; NMR {Danio rerio} SCOP: b.38.1.5 PDB: 2vxf_A Back     alignment and structure
>2vxe_A CG10686-PA; EDC3, CAR-1, P-bodies, decapping, mRNA decay, LSM proteins, translational repression, transcription; NMR {Drosophila melanogaster} Back     alignment and structure
>1d3b_A Protein (small nuclear ribonucleoprotein SM D3); snRNP, splicing, core snRNP domain, systemic lupus eryth SLE, RNA binding protein; HET: CIT; 2.00A {Homo sapiens} SCOP: b.38.1.1 Back     alignment and structure
>1th7_A SnRNP-2, small nuclear riboprotein protein; archaea, SM protein, SM fold, SS-SM1, RNA binding protein; 1.68A {Sulfolobus solfataricus} SCOP: b.38.1.1 Back     alignment and structure
>1h64_1 SnRNP SM-like protein; SM fold, spliceosome, snRNP core; 1.9A {Pyrococcus abyssi} SCOP: b.38.1.1 PDB: 1m8v_A* Back     alignment and structure
>1i4k_A Putative snRNP SM-like protein; core snRNP domain, RNA binding protein; HET: CIT; 2.50A {Archaeoglobus fulgidus} SCOP: b.38.1.1 PDB: 1i5l_A* Back     alignment and structure
>3s6n_F Small nuclear ribonucleoprotein F; SMN complex, SMN-gemin2 complex, U-rich snRNA, SM fold, SM C SNRNPS, snRNP biogenesis, PRE-mRNA splicing; 2.50A {Homo sapiens} PDB: 2y9b_F 2y9c_F 2y9d_F 3cw1_F 3pgw_F* 2y9a_F Back     alignment and structure
>3s6n_G Small nuclear ribonucleoprotein G; SMN complex, SMN-gemin2 complex, U-rich snRNA, SM fold, SM C SNRNPS, snRNP biogenesis, PRE-mRNA splicing; 2.50A {Homo sapiens} PDB: 2y9b_G 2y9c_G 2y9d_G 3cw1_G 3pgw_G* 2y9a_G Back     alignment and structure
>1b34_A Protein (small nuclear ribonucleoprotein SM D1); snRNP, splicing, spliceosome, core snRNP domain, systemi erythematosus, SLE, RNA binding protein; 2.50A {Homo sapiens} SCOP: b.38.1.1 PDB: 2y9a_B 2y9b_B 2y9c_B 2y9d_B 3cw1_B 3pgw_X* 3s6n_A Back     alignment and structure
>2y9a_D Small nuclear ribonucleoprotein SM D3; splicing-RNA complex, PRE-mRNA splicing, spliceosome, snRNP biogenesis, SM site, SM fold, heteromeric heptameric ring; 3.60A {Homo sapiens} PDB: 2y9b_D 2y9c_D 2y9d_D 3pgw_Z* 3cw1_D Back     alignment and structure
>1ljo_A Archaeal SM-like protein AF-SM2; snRNP, core snRNP domain, RNA binding protein, unknown F; 1.95A {Archaeoglobus fulgidus} SCOP: b.38.1.1 Back     alignment and structure
>4emk_B U6 snRNA-associated SM-like protein LSM6; SM fold, mRNA decay and PRE-mRNA splicing, LSM proteins, RNA protein; 2.30A {Schizosaccharomyces pombe} PDB: 3swn_B Back     alignment and structure
>1i8f_A Putative snRNP SM-like protein; beta barrel-like SMAP monomers form 35-stranded beta-sheet I heptamer, structural genomics; 1.75A {Pyrobaculum aerophilum} SCOP: b.38.1.1 PDB: 1lnx_A* Back     alignment and structure
>1mgq_A SM-like protein; LSM, RNA-binding, archea, RNA binding protein; 1.70A {Methanothermobacterthermautotrophicus} SCOP: b.38.1.1 PDB: 1i81_A 1loj_A* 1jbm_A 1jri_A Back     alignment and structure
>3pgw_B SM B; protein-RNA complex, U1 snRNA, SM fold, SM core, RRM, splici SNRNPS, splicing factors; HET: DNA; 4.40A {Homo sapiens} PDB: 3cw1_A Back     alignment and structure
>4emh_A Probable U6 snRNA-associated SM-like protein LSM4; SM fold, mRNA decay, PRE-mRNA splicing, LSM proteins, RNA BI protein; 2.20A {Schizosaccharomyces pombe} Back     alignment and structure
>1d3b_B Protein (small nuclear ribonucleoprotein associat B); snRNP, splicing, core snRNP domain, systemic lupus eryth SLE, RNA binding protein; HET: CIT; 2.00A {Homo sapiens} SCOP: b.38.1.1 PDB: 2y9a_A 2y9b_A 2y9c_A 2y9d_A Back     alignment and structure
>4emk_A U6 snRNA-associated SM-like protein LSM5; SM fold, mRNA decay and PRE-mRNA splicing, LSM proteins, RNA protein; 2.30A {Schizosaccharomyces pombe} PDB: 3swn_A Back     alignment and structure
>1n9r_A SMF, small nuclear ribonucleoprotein F, snRNP-F, SM protein F; heptamer, translation; 2.80A {Saccharomyces cerevisiae} SCOP: b.38.1.1 PDB: 1n9s_A Back     alignment and structure
>1y96_B Gemin7, SIP3, GEM-associated protein 7; SM fold, protein complex, RNA binding protein; 2.00A {Homo sapiens} Back     alignment and structure
>3bw1_A SMX4 protein, U6 snRNA-associated SM-like protein LSM3; RNA-binding protein, SM protein, ring, HOMO octamer, mRNA processing; 2.50A {Saccharomyces cerevisiae} Back     alignment and structure
>1m5q_A SMAP3, small nuclear ribonucleoprotein homolog, SM-like P; OB-like fold, B-sheet toroid, 14-MER, cadmium-binding site, translation; 2.00A {Pyrobaculum aerophilum} SCOP: b.38.1.1 Back     alignment and structure
>4emk_C U6 snRNA-associated SM-like protein LSM7; SM fold, mRNA decay and PRE-mRNA splicing, LSM proteins, RNA protein; 2.30A {Schizosaccharomyces pombe} PDB: 3swn_C Back     alignment and structure
>4emg_A Probable U6 snRNA-associated SM-like protein LSM3; SM fold, mRNA decay, LSM proteins, RNA binding protein; 2.70A {Schizosaccharomyces pombe} Back     alignment and structure
>2fwk_A U6 snRNA-associated SM-like protein LSM5; structural genomics, structural genomics consortium, SGC, DNA binding protein; 2.14A {Cryptosporidium parvum} SCOP: b.38.1.1 PDB: 3pgg_A Back     alignment and structure
>4a53_A EDC3; RNA binding protein; NMR {Schizosaccharomyces pombe} PDB: 4a54_A Back     alignment and structure
>1b34_B Protein (small nuclear ribonucleoprotein SM D2); snRNP, splicing, spliceosome, core snRNP domain, systemi erythematosus, SLE, RNA binding protein; 2.50A {Homo sapiens} SCOP: b.38.1.1 PDB: 2y9a_C 2y9b_C 2y9c_C 2y9d_C 3cw1_C 3pgw_Y* 3s6n_B Back     alignment and structure
>3s6n_E Small nuclear ribonucleoprotein E; SMN complex, SMN-gemin2 complex, U-rich snRNA, SM fold, SM C SNRNPS, snRNP biogenesis, PRE-mRNA splicing; 2.50A {Homo sapiens} PDB: 2y9b_E 2y9c_E 2y9d_E 3cw1_E 3pgw_E* 2y9a_E Back     alignment and structure
>2vc8_A Enhancer of mRNA-decapping protein 3; P-BODY component, cytoplasm, SM-like protein, protein-binding; 1.31A {Homo sapiens} Back     alignment and structure

Homologous Structure Domains

Structure Domains Detected by RPS-BLAST ?

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

No hit with e-value below 0.005

Homologous Domains Detected by HHsearch ?

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

ID ?Alignment Graph ?Length ? Definition ? Probability ?
Query565
d1d3ba_72 D3 core SNRNP protein {Human (Homo sapiens) [TaxId 97.42
d1th7a176 Archaeal homoheptameric Sm protein {Sulfolobus sol 97.33
d1i4k1_72 Archaeal homoheptameric Sm protein {Archaeon Archa 97.31
d2vxfa180 LSM14 homolog A (Lsm14a) {Zebrafish (Danio rerio) 97.18
d1mgqa_74 Archaeal homoheptameric Sm protein {Archaeon Metha 97.17
d1h641_71 Archaeal homoheptameric Sm protein {Archaeon Pyroc 97.13
d1b34a_80 D1 core SNRNP protein {Human (Homo sapiens) [TaxId 96.95
d1i8fa_71 Archaeal homoheptameric Sm protein {Archaeon Pyrob 96.75
d1d3bb_81 B core SNRNP protein {Human (Homo sapiens) [TaxId: 96.7
d1ljoa_75 Archaeal homoheptameric Sm protein {Archaeon Archa 96.53
d1m5q1_127 Sm-Like archaeal protein Smap3 {Archaeon Pyrobacul 96.33
d1n9ra_68 Small nuclear ribonucleoprotein F, Smf {Baker's ye 96.2
d2fwka192 U6 snRNA-associated sm-like protein LSM5 {Cryptosp 96.0
d1b34b_93 D2 core SNRNP protein {Human (Homo sapiens) [TaxId 92.83
>d1d3ba_ b.38.1.1 (A:) D3 core SNRNP protein {Human (Homo sapiens) [TaxId: 9606]} Back     information, alignment and structure
class: All beta proteins
fold: Sm-like fold
superfamily: Sm-like ribonucleoproteins
family: Sm motif of small nuclear ribonucleoproteins, SNRNP
domain: D3 core SNRNP protein
species: Human (Homo sapiens) [TaxId: 9606]

Probab=97.42  E-value=0.00028  Score=55.63  Aligned_cols=69  Identities=13%  Similarity=0.138  Sum_probs=54.7

Q ss_pred             HHHHHhccCceEEEEEccCCEEEEEEEeeccCCCeeEEEeccccccCCCCCCCcCCCCceeeeeeecCceEEEEEcC
Q 038314           25 LFATMCIIGLPVDVYIKDGSVYSGIFYTASVEKDYGIVLKKAKMSKKGKSNANVANGTVIETLVILSADLVQVVAKG  101 (565)
Q Consensus        25 lfllt~LIG~~VeVtvKdGsvYeGIF~TaS~e~d~gVVLK~AR~i~~G~s~anv~sg~i~eTLVI~~kDIVqV~Akd  101 (565)
                      +.++..++|+.|.|.+|||..|+|++.+++.-  +.++|+.|..+.....      ....+.++|.++.|..|.+.|
T Consensus         4 l~~L~~~~g~~V~VeLkng~~~~G~L~~~D~~--mNi~L~~~~~~~~~~~------~~~~~~v~IRG~~I~~i~lpd   72 (72)
T d1d3ba_           4 IKVLHEAEGHIVTCETNTGEVYRGKLIEAEDN--MNCQMSNITVTYRDGR------VAQLEQVYIRGCKIRFLILPD   72 (72)
T ss_dssp             HHHHHHTTTSEEEEEETTSCEEEEEEEEECTT--CCEEEEEEEEECTTSC------EEEEEEEEECGGGEEEEEECC
T ss_pred             hHHHHhcCCCEEEEEECCCeEEEEEEEEEcCC--eeEEEEEEEEEcCCCc------EeEcCeEEEECCEEEEEEcCC
Confidence            35678999999999999999999999998864  6799999987643211      112467899999999887654
>d1th7a1 b.38.1.1 (A:3-78) Archaeal homoheptameric Sm protein {Sulfolobus solfataricus [TaxId: 2287]} Back     information, alignment and structure
>d1i4k1_ b.38.1.1 (1:) Archaeal homoheptameric Sm protein {Archaeon Archaeoglobus fulgidus, AF-Sm1 [TaxId: 2234]} Back     information, alignment and structure
>d2vxfa1 b.38.1.5 (A:6-85) LSM14 homolog A (Lsm14a) {Zebrafish (Danio rerio) [TaxId: 7955]} Back     information, alignment and structure
>d1mgqa_ b.38.1.1 (A:) Archaeal homoheptameric Sm protein {Archaeon Methanobacterium thermoautotrophicum [TaxId: 145262]} Back     information, alignment and structure
>d1h641_ b.38.1.1 (1:) Archaeal homoheptameric Sm protein {Archaeon Pyrococcus abyssi [TaxId: 29292]} Back     information, alignment and structure
>d1b34a_ b.38.1.1 (A:) D1 core SNRNP protein {Human (Homo sapiens) [TaxId: 9606]} Back     information, alignment and structure
>d1i8fa_ b.38.1.1 (A:) Archaeal homoheptameric Sm protein {Archaeon Pyrobaculum aerophilum [TaxId: 13773]} Back     information, alignment and structure
>d1d3bb_ b.38.1.1 (B:) B core SNRNP protein {Human (Homo sapiens) [TaxId: 9606]} Back     information, alignment and structure
>d1ljoa_ b.38.1.1 (A:) Archaeal homoheptameric Sm protein {Archaeon Archaeoglobus fulgidus, AF-Sm2 [TaxId: 2234]} Back     information, alignment and structure
>d1m5q1_ b.38.1.1 (1:) Sm-Like archaeal protein Smap3 {Archaeon Pyrobaculum aerophilum [TaxId: 13773]} Back     information, alignment and structure
>d1n9ra_ b.38.1.1 (A:) Small nuclear ribonucleoprotein F, Smf {Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]} Back     information, alignment and structure
>d2fwka1 b.38.1.1 (A:24-115) U6 snRNA-associated sm-like protein LSM5 {Cryptosporidium parvum [TaxId: 5807]} Back     information, alignment and structure
>d1b34b_ b.38.1.1 (B:) D2 core SNRNP protein {Human (Homo sapiens) [TaxId: 9606]} Back     information, alignment and structure