Citrus Sinensis ID: 045537

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-
MQSLAAAVRPRFVQFLNRPSLKPLSLRAFSSSSSDYANQSRGGIPRFFSQGGIVRVEGDEFWHMTKVLRLSTNDRVELFNGKGGLIEGCIQRIDRTGLDVVALEDLKLVLPQHTQWNVFAAFGTLKGGRADWLVEKCTELGAQSVTPLLTELHLQSRKIGDNGFLSCNFYYGFIANSAFVYGGQRLHEMVLNPPMKIDGLLPLVSQSKLAFVAIAEATPLVTALSSSRNESSGLIIVGPEGDFTEKEVNKIVEAGATAVGLGPHRLRVETATIALLATLMLCSDSQQMPIP
ccccccccccccEEEcccccccccccccccccccccccccccccccccccccEEEEcccccHHHHHccccccccEEEEEcccccEEEEEEEEEEccEEEEEEEEEcccccccccccEEEEEEEcccccHHHHHHHHHHHHcccEEEEEEccccccccccccccHHHHHHHHHHHHHHHHHHcccccccccccccccHHHHccccccccEEEEEcccccccHHHHccccccccEEEEEcccccccHHHHHHHHHcccEEEcccccHHcHHcHHHHHHHHHHHHccccccccc
ccccccccccHHHHHccccccccccEEccccccHHHHHHcccccccEEccccEEEEcHHHHcHHHEEEEcccccEEEEEcccccEEEEEEEEEcccEEEEEEEEccccccccccccEEEEEEccccccHHHHHHHHHHHccccEEEEEEccEEEEEEEccHHHHHHHHHHHHHHHHHHHHHcccccccccccccccHHHHHHHcccccEEEEEccccHHHHHHcccccccccEEEEEcccccccHHHHHHHHHccccEEcccccEEcHHHHHHHHHHHHHHHHHHcccccc
MQSLAAAVRPRFVqflnrpslkplslrafsssssdyanqsrggiprffsqggivrvegdefWHMTKVLRLSTNDRvelfngkgglieGCIQRIdrtgldvvaLEDLklvlpqhtqWNVFAAFgtlkggraDWLVEKCTElgaqsvtplltelhlqsrkigdngflSCNFYYgfiansafvyggqrlhemvlnppmkidgllplvsqSKLAFVAIAEATPLVTALsssrnessgliivgpegdfteKEVNKIVEAGAtavglgphrlRVETATIALLATLMLcsdsqqmpip
mqslaaavrprfvqflnrpslkplsLRAFSSSSSDYANQSRGGIPRFFSQGGIVRVEGDEFWHMTKVLRLSTNDRVELFNGKGGLIEGCIQRIDRTGLDVVALEDLKLVLPQHTQWNVFAAFGTLKGGRADWLVEKCTELGAQSVTPLLTELHLQSRKIGDNGFLSCNFYYGFIANSAFVYGGQRLHEMVLNPPMKIDGLLPLVSQSKLAFVAIAEATPLVTalsssrnessgliivgpegdfTEKEVNKIVEAGatavglgphrLRVETATIALLATLmlcsdsqqmpip
MQSLAAAVRPRFVQFLNRPSLKPLSLRAFsssssDYANQSRGGIPRFFSQGGIVRVEGDEFWHMTKVLRLSTNDRVELFNGKGGLIEGCIQRIDRTGLDVVALEDLKLVLPQHTQWNVFAAFGTLKGGRADWLVEKCTELGAQSVTPLLTELHLQSRKIGDNGFLSCNFYYGFIANSAFVYGGQRLHEMVLNPPMKIDGLLPLVSQSKLAFVAIAEATPLVTALSSSRNESSGLIIVGPEGDFTEKEVNKIVEAGATAVGLGPHRLRVEtatiallatlMLCSDSQQMPIP
***********FVQFL**************************GIPRFFSQGGIVRVEGDEFWHMTKVLRLSTNDRVELFNGKGGLIEGCIQRIDRTGLDVVALEDLKLVLPQHTQWNVFAAFGTLKGGRADWLVEKCTELGAQSVTPLLTELHLQSRKIGDNGFLSCNFYYGFIANSAFVYGGQRLHEMVLNPPMKIDGLLPLVSQSKLAFVAIAEATPLVTAL********GLIIVGPEGDFTEKEVNKIVEAGATAVGLGPHRLRVETATIALLATLMLC*********
********RPRFVQFLNRPSLKPLSLRAFSSS*SDYANQSRGGIPRFFSQGGIVRVEGDEFWHMTKVLRLSTNDRVELFNGKGGLIEGCIQRIDRTGLDVVALEDLKL*LPQHTQWNVFAAFGTLKGGRADWLVEKCTELGAQSVTPLLTELHLQSRKIGDNGFLSCNFYYGFIANSAFVYGGQRLHEMVLNPPMKIDGLLPLVSQSKLAFVAIAEAT**********NESSGLIIVGPEGDFTEKEVNKIVEAGATAVGLGPHRLRVETATIALLATLMLCS*S******
********RPRFVQFLNRPSLKPLSLRA***********SRGGIPRFFSQGGIVRVEGDEFWHMTKVLRLSTNDRVELFNGKGGLIEGCIQRIDRTGLDVVALEDLKLVLPQHTQWNVFAAFGTLKGGRADWLVEKCTELGAQSVTPLLTELHLQSRKIGDNGFLSCNFYYGFIANSAFVYGGQRLHEMVLNPPMKIDGLLPLVSQSKLAFVAIAEATPLVTALSSSRNESSGLIIVGPEGDFTEKEVNKIVEAGATAVGLGPHRLRVETATIALLATLMLCS********
*****AAVRPRFVQFLNRPSLKPLSLRAFSSSSSDYANQSRGGIPRFFSQGGIVRVEGDEFWHMTKVLRLSTNDRVELFNGKGGLIEGCIQRIDRTGLDVVALEDLKLVLPQHTQWNVFAAFGTLKGGRADWLVEKCTELGAQSVTPLLTELHLQSRKIGDNGFLSCNFYYGFIANSAFVYGGQRLHEMVLNPPMKIDGLLPLVSQSKLAFVAIAEATPLVTALSSSRNESSGLIIVGPEGDFTEKEVNKIVEAGATAVGLGPHRLRVETATIALLATLMLCSDSQQ****
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ooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooHHHHHHHHHHHHHHHHHHHHiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiii
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SSSSSSSSSSSSSSSSSSSSSSSSSSSSSiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiihhhhhhhhhhhhhhhhoooooooooo
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MQSLAAAVRPRFVQFLNRPSLKPLSLRAFSSSSSDYANQSRGGIPRFFSQGGIVRVEGDEFWHMTKVLRLSTNDRVELFNGKGGLIEGCIQRIDRTGLDVVALEDLKLVLPQHTQWNVFAAFGTLKGGRADWLVEKCTELGAQSVTPLLTELHLQSRKIGDNGFLSCNFYYGFIANSAFVYGGQRLHEMVLNPPMKIDGLLPLVSQSKLAFVAIAEATPLVTALSSSRNESSGLIIVGPEGDFTEKEVNKIVEAGATAVGLGPHRLRVETATIALLATLMLCSDSQQMPIP
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 ?
Query291 2.2.26 [Sep-21-2011]
Q8K9E4246 Ribosomal RNA small subun yes no 0.735 0.869 0.226 1e-09
P54461256 Ribosomal RNA small subun yes no 0.725 0.824 0.243 3e-09
O66552229 Ribosomal RNA small subun yes no 0.639 0.812 0.242 1e-06
P67202262 Ribosomal RNA small subun yes no 0.687 0.763 0.261 4e-06
P67203262 Ribosomal RNA small subun yes no 0.687 0.763 0.261 4e-06
P44627245 Ribosomal RNA small subun yes no 0.697 0.828 0.226 2e-05
P57488253 Ribosomal RNA small subun yes no 0.694 0.798 0.241 4e-05
Q92J59244 Ribosomal RNA small subun yes no 0.742 0.885 0.256 8e-05
P72667303 Ribosomal RNA small subun N/A no 0.872 0.838 0.256 0.0003
P37995244 Ribosomal RNA small subun yes no 0.780 0.930 0.230 0.0007
>sp|Q8K9E4|RSME_BUCAP Ribosomal RNA small subunit methyltransferase E OS=Buchnera aphidicola subsp. Schizaphis graminum (strain Sg) GN=rsmE PE=3 SV=1 Back     alignment and function desciption
 Score = 63.9 bits (154), Expect = 1e-09,   Method: Compositional matrix adjust.
 Identities = 59/261 (22%), Positives = 113/261 (43%), Gaps = 47/261 (18%)

Query: 41  RGGIPRFFSQGGIVRVEGDEFWHMTKVLRLSTNDRVELFNGKGGLIEGCIQRIDRTGLDV 100
           R  I  F     ++ +      ++ KVLR+   D++E+FN    +    I  I+   +++
Sbjct: 7   RIYIKYFLQINQVISLSKSYTHYIKKVLRMKKKDKLEIFNNTNYIFFSEILEINNHTIEI 66

Query: 101 VALEDLKLVLPQHTQWNVFAAFGTL--KGGRADWLVEKCTELGAQSVTPLLTELHLQSRK 158
           + L+       ++ +  +    G +  K  + ++ ++K  ELG  ++TPL +E       
Sbjct: 67  IILKKQ----IKNLESPLLIHLGQVISKNEKMNFSIQKSVELGVNTITPLFSEY------ 116

Query: 159 IGDNGFLSCNFYYGFIANSAFVYGGQRLH--EMVLN----------PPMKI-DGLLPLV- 204
                   CNF      N    +  +++H   +V++          P +K  + +LP   
Sbjct: 117 --------CNF-----QNKLICFPKKKIHWENIVISSCEQCHRNNIPEIKNPEYILPWCK 163

Query: 205 ----SQSKLAFVAIAEATPLVTALSSSRNESSGLIIVGPEGDFTEKEVNKIVEAGATAVG 260
               +++K+ F     AT  +  L    N     +++G EG F+  E+ KI++ G   + 
Sbjct: 164 RTYENETKIVFSP--SATFTINELPEKIN--CVRLLIGSEGGFSFLEIEKIIQYGFIPIK 219

Query: 261 LGPHRLRVETATIALLATLML 281
           LGP  LR ETA IA +  L +
Sbjct: 220 LGPRILRTETAVIAAITALQI 240
Specifically methylates the N3 position of the uracil ring of uridine 1498 (m3U1498) in 16S rRNA. Acts on the fully assembled 30S ribosomal subunit.
Buchnera aphidicola subsp. Schizaphis graminum (strain Sg) (taxid: 198804)
EC: 2EC: .EC: 1EC: .EC: 1EC: .EC: 1EC: 9EC: 3
>sp|P54461|RSME_BACSU Ribosomal RNA small subunit methyltransferase E OS=Bacillus subtilis (strain 168) GN=rsmE PE=1 SV=1 Back     alignment and function description
>sp|O66552|RSME_AQUAE Ribosomal RNA small subunit methyltransferase E OS=Aquifex aeolicus (strain VF5) GN=rsmE PE=1 SV=1 Back     alignment and function description
>sp|P67202|RSME_MYCTU Ribosomal RNA small subunit methyltransferase E OS=Mycobacterium tuberculosis GN=rsmE PE=3 SV=1 Back     alignment and function description
>sp|P67203|RSME_MYCBO Ribosomal RNA small subunit methyltransferase E OS=Mycobacterium bovis (strain ATCC BAA-935 / AF2122/97) GN=rsmE PE=3 SV=1 Back     alignment and function description
>sp|P44627|RSME_HAEIN Ribosomal RNA small subunit methyltransferase E OS=Haemophilus influenzae (strain ATCC 51907 / DSM 11121 / KW20 / Rd) GN=rsmE PE=1 SV=1 Back     alignment and function description
>sp|P57488|RSME_BUCAI Ribosomal RNA small subunit methyltransferase E OS=Buchnera aphidicola subsp. Acyrthosiphon pisum (strain APS) GN=rsmE PE=3 SV=1 Back     alignment and function description
>sp|Q92J59|RSME_RICCN Ribosomal RNA small subunit methyltransferase E OS=Rickettsia conorii (strain ATCC VR-613 / Malish 7) GN=rsmE PE=3 SV=2 Back     alignment and function description
>sp|P72667|RSME_SYNY3 Ribosomal RNA small subunit methyltransferase E OS=Synechocystis sp. (strain PCC 6803 / Kazusa) GN=rsmE PE=3 SV=1 Back     alignment and function description
>sp|P37995|RSME_DICD3 Ribosomal RNA small subunit methyltransferase E OS=Dickeya dadantii (strain 3937) GN=rsmE PE=3 SV=2 Back     alignment and function description

Close Homologs in the Non-Redundant Database Detected by BLAST ?

Original result of BLAST against Nonredundant Database

GI ?Alignment Graph ?Length ? Definition ? Q cover ? H cover ? Identity ? E-value ?
Query291
255562222290 conserved hypothetical protein [Ricinus 0.955 0.958 0.675 8e-99
225429203287 PREDICTED: ribosomal RNA small subunit m 0.965 0.979 0.659 1e-97
297736409 410 unnamed protein product [Vitis vinifera] 0.965 0.685 0.659 2e-97
356574331281 PREDICTED: ribosomal RNA small subunit m 0.876 0.907 0.665 1e-93
297852690295 predicted protein [Arabidopsis lyrata su 0.958 0.945 0.617 7e-92
79362513296 ribosomal RNA small subunit methyltransf 0.962 0.945 0.605 1e-90
388503214280 unknown [Medicago truncatula] 0.934 0.971 0.624 5e-90
449438311287 PREDICTED: ribosomal RNA small subunit m 0.934 0.947 0.622 1e-88
224060885212 predicted protein [Populus trichocarpa] 0.728 1.0 0.717 3e-79
242038259287 hypothetical protein SORBIDRAFT_01g00931 0.893 0.905 0.572 2e-78
>gi|255562222|ref|XP_002522119.1| conserved hypothetical protein [Ricinus communis] gi|223538718|gb|EEF40319.1| conserved hypothetical protein [Ricinus communis] Back     alignment and taxonomy information
 Score =  366 bits (939), Expect = 8e-99,   Method: Compositional matrix adjust.
 Identities = 198/293 (67%), Positives = 230/293 (78%), Gaps = 15/293 (5%)

Query: 1   MQSLAAAVRPRFVQFLNRPSLKPLSLRAFSSSSSDYANQSRGGIPRFF------SQGGIV 54
           MQ+L   +RPRF + L R  LKPLSLRA+SSSS  Y+NQSRGG+PRFF      S+GGIV
Sbjct: 3   MQALMIPIRPRFTELLTRQWLKPLSLRAYSSSSE-YSNQSRGGLPRFFCEILPSSKGGIV 61

Query: 55  RVEGDEFWHMTKVLRLSTNDRVELFNGKGGLIEGCIQRIDRTGLDVVALEDLKLVLPQHT 114
           RV+GDEFWH+ KVLRLS +DR+ELFNGKG L+EGCI+RIDRTGLD VA+ D K+VLPQ  
Sbjct: 62  RVQGDEFWHIVKVLRLSISDRIELFNGKGALVEGCIERIDRTGLDFVAVNDPKIVLPQTI 121

Query: 115 QWNVFAAFGTLKGGRADWLVEKCTELGAQSVTPLLTELHLQSRKIGDNGFLSCNFYYGFI 174
           +W+VFAAFG+LKGGRADWLVEKCTELGA SVTPLLTE   +S  I DN            
Sbjct: 122 KWHVFAAFGSLKGGRADWLVEKCTELGAHSVTPLLTE---RSPSISDNRVDRLERVI--- 175

Query: 175 ANSAFVYGGQRLHEMVLNPPMKIDGLLPLVSQSKLAFVAIAEATPLVTALSSSRNESSGL 234
              A     QRLHEMVLNPP K++GLLPL++ SKL+F+A AEATP+V  L+SSR ESSGL
Sbjct: 176 --LAATKQCQRLHEMVLNPPTKVEGLLPLIADSKLSFLAAAEATPVVNVLASSRKESSGL 233

Query: 235 IIVGPEGDFTEKEVNKIVEAGATAVGLGPHRLRVETATIALLATLMLCSDSQQ 287
           IIVGPEGDFTE+E   ++EAGATAVGLGP RLRVETAT+ALL TLML SD+QQ
Sbjct: 234 IIVGPEGDFTEREAALMMEAGATAVGLGPLRLRVETATMALLGTLMLWSDAQQ 286

Source: Ricinus communis

Species: Ricinus communis

Genus: Ricinus

Family: Euphorbiaceae

Order: Malpighiales

Class:

Phylum: Streptophyta

Superkingdom: Eukaryota
>gi|225429203|ref|XP_002271957.1| PREDICTED: ribosomal RNA small subunit methyltransferase E-like [Vitis vinifera] Back     alignment and taxonomy information
>gi|297736409|emb|CBI25132.3| unnamed protein product [Vitis vinifera] Back     alignment and taxonomy information
>gi|356574331|ref|XP_003555302.1| PREDICTED: ribosomal RNA small subunit methyltransferase E-like [Glycine max] Back     alignment and taxonomy information
>gi|297852690|ref|XP_002894226.1| predicted protein [Arabidopsis lyrata subsp. lyrata] gi|297340068|gb|EFH70485.1| predicted protein [Arabidopsis lyrata subsp. lyrata] Back     alignment and taxonomy information
>gi|79362513|ref|NP_175422.2| ribosomal RNA small subunit methyltransferase E [Arabidopsis thaliana] gi|49660069|gb|AAT68325.1| hypothetical protein At1g50000 [Arabidopsis thaliana] gi|55740521|gb|AAV63853.1| hypothetical protein At1g50000 [Arabidopsis thaliana] gi|332194384|gb|AEE32505.1| ribosomal RNA small subunit methyltransferase E [Arabidopsis thaliana] Back     alignment and taxonomy information
>gi|388503214|gb|AFK39673.1| unknown [Medicago truncatula] Back     alignment and taxonomy information
>gi|449438311|ref|XP_004136932.1| PREDICTED: ribosomal RNA small subunit methyltransferase E-like [Cucumis sativus] gi|449495704|ref|XP_004159920.1| PREDICTED: ribosomal RNA small subunit methyltransferase E-like [Cucumis sativus] Back     alignment and taxonomy information
>gi|224060885|ref|XP_002300283.1| predicted protein [Populus trichocarpa] gi|222847541|gb|EEE85088.1| predicted protein [Populus trichocarpa] Back     alignment and taxonomy information
>gi|242038259|ref|XP_002466524.1| hypothetical protein SORBIDRAFT_01g009310 [Sorghum bicolor] gi|241920378|gb|EER93522.1| hypothetical protein SORBIDRAFT_01g009310 [Sorghum bicolor] 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 ?
Query291
TAIR|locus:2031025296 AT1G50000 [Arabidopsis thalian 0.962 0.945 0.569 6.2e-78
UNIPROTKB|Q4K4H0239 PFL_5805 "Ribosomal RNA small 0.666 0.811 0.261 1.1e-11
UNIPROTKB|Q5LMD5251 SPO3629 "Ribosomal RNA small s 0.731 0.848 0.271 1.4e-10
TIGR_CMR|SPO_3629251 SPO_3629 "conserved hypothetic 0.731 0.848 0.271 1.4e-10
UNIPROTKB|Q3AF05248 CHY_0418 "Ribosomal RNA small 0.742 0.870 0.268 1.8e-10
TIGR_CMR|CHY_0418248 CHY_0418 "conserved hypothetic 0.742 0.870 0.268 1.8e-10
UNIPROTKB|Q486L8244 CPS_1254 "Ribosomal RNA small 0.745 0.889 0.251 2.7e-10
TIGR_CMR|CPS_1254244 CPS_1254 "conserved hypothetic 0.745 0.889 0.251 2.7e-10
UNIPROTKB|Q74G06260 rsmE "Ribosomal RNA small subu 0.343 0.384 0.336 2.5e-09
TIGR_CMR|GSU_0446260 GSU_0446 "conserved hypothetic 0.343 0.384 0.336 2.5e-09
TAIR|locus:2031025 AT1G50000 [Arabidopsis thaliana (taxid:3702)] Back     alignment and assigned GO terms
 Score = 784 (281.0 bits), Expect = 6.2e-78, P = 6.2e-78
 Identities = 172/302 (56%), Positives = 204/302 (67%)

Query:     1 MQSLAAAVRPRFVQF--LNRPSLKPLSLRAFXXXXX------DYANQSRGGIPRFFS--- 49
             M++LAAA RP F     L R  L   S ++F           +  NQSRGG+PRFFS   
Sbjct:     2 MRALAAASRPLFSDLPSLVRSWLPTSSFKSFATVSSSPPSDLNLRNQSRGGLPRFFSDDL 61

Query:    50 ---QGGIVRVEGDEFWHMTKVLRLSTNDRVELFNGKGGLIEGCIQRIDRTGLDVVALEDL 106
                +GG+VRV+G EFWHM KVLRL   DRVELFNGKGGL+EGCIQ ID+TG+D +A ED 
Sbjct:    62 PSRKGGVVRVQGSEFWHMAKVLRLKQEDRVELFNGKGGLVEGCIQSIDKTGVDFIAQEDQ 121

Query:   107 KLVLPQHTQWNVFAAFGTLKGGRADWLVEKCTELGAQSVTPLLTELHLQSRKIGDNGFLS 166
             K++LPQ  QW VFAAFGTLKGGRADWL+EKCTELGA SVTPLLTE   +S  I +N    
Sbjct:   122 KVILPQGMQWQVFAAFGTLKGGRADWLIEKCTELGASSVTPLLTE---RSPIISENRVDR 178

Query:   167 CNFYYGFIANSAFVYGGQRLHEMVLNPPMKIDGLLPLVSQSKLAFVAIAEATPLVTALSS 226
                   F A        QRLH+MVLNPP+K   LL  + +SKL  VA AEA PL+ A++S
Sbjct:   179 LE-RVSFAAAKQC----QRLHQMVLNPPIKFGTLLDHILKSKLCLVATAEAKPLLNAVNS 233

Query:   227 SRNESSGLIIVGPEGDFTEKEVNKIVEAGATAVGLGPHRLRVEXXXXXXXXXXMLCSDSQ 286
             S  ESSGL+IVGPEGDFT+KEV  ++EAG TAVGLGPHRLRVE          ++ SDSQ
Sbjct:   234 SAKESSGLLIVGPEGDFTKKEVEMMLEAGGTAVGLGPHRLRVETATIALLATLVMWSDSQ 293

Query:   287 QM 288
             +M
Sbjct:   294 EM 295
GO:0006364 "rRNA processing" evidence=IEA
GO:0008168 "methyltransferase activity" evidence=IEA
GO:0009507 "chloroplast" evidence=ISM
GO:0006744 "ubiquinone biosynthetic process" evidence=RCA
UNIPROTKB|Q4K4H0 PFL_5805 "Ribosomal RNA small subunit methyltransferase E" [Pseudomonas protegens Pf-5 (taxid:220664)] Back     alignment and assigned GO terms
UNIPROTKB|Q5LMD5 SPO3629 "Ribosomal RNA small subunit methyltransferase E" [Ruegeria pomeroyi DSS-3 (taxid:246200)] Back     alignment and assigned GO terms
TIGR_CMR|SPO_3629 SPO_3629 "conserved hypothetical protein" [Ruegeria pomeroyi DSS-3 (taxid:246200)] Back     alignment and assigned GO terms
UNIPROTKB|Q3AF05 CHY_0418 "Ribosomal RNA small subunit methyltransferase E" [Carboxydothermus hydrogenoformans Z-2901 (taxid:246194)] Back     alignment and assigned GO terms
TIGR_CMR|CHY_0418 CHY_0418 "conserved hypothetical protein TIGR00046" [Carboxydothermus hydrogenoformans Z-2901 (taxid:246194)] Back     alignment and assigned GO terms
UNIPROTKB|Q486L8 CPS_1254 "Ribosomal RNA small subunit methyltransferase E" [Colwellia psychrerythraea 34H (taxid:167879)] Back     alignment and assigned GO terms
TIGR_CMR|CPS_1254 CPS_1254 "conserved hypothetical protein TIGR00046" [Colwellia psychrerythraea 34H (taxid:167879)] Back     alignment and assigned GO terms
UNIPROTKB|Q74G06 rsmE "Ribosomal RNA small subunit methyltransferase E" [Geobacter sulfurreducens PCA (taxid:243231)] Back     alignment and assigned GO terms
TIGR_CMR|GSU_0446 GSU_0446 "conserved hypothetical protein TIGR00046" [Geobacter sulfurreducens PCA (taxid:243231)] 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 ?

Prediction LevelEC numberConfidence of Prediction
3rd Layer2.1.1LOW CONFIDENCE prediction!

Prediction of Functionally Associated Proteins

Functionally Associated Proteins Detected by STRING ?

Original result from the STRING server

Your Input:
GSVIVG00038624001
SubName- Full=Chromosome chr3 scaffold_95, whole genome shotgun sequence; (292 aa)
(Vitis vinifera)
Predicted Functional Partners:
GSVIVG00027727001
SubName- Full=Chromosome chr19 scaffold_4, whole genome shotgun sequence; (367 aa)
•     • 0.737
GSVIVG00019077001
SubName- Full=Chromosome chr15 scaffold_19, whole genome shotgun sequence; (267 aa)
•       0.532
GSVIVG00010463001
SubName- Full=Chromosome chr17 scaffold_263, whole genome shotgun sequence; (473 aa)
•       0.507
GSVIVG00019071001
SubName- Full=Chromosome chr15 scaffold_19, whole genome shotgun sequence; (636 aa)
•       0.496
GSVIVG00036866001
SubName- Full=Chromosome chr4 scaffold_83, whole genome shotgun sequence; (471 aa)
•     • 0.483
GSVIVG00037524001
SubName- Full=Chromosome undetermined scaffold_89, whole genome shotgun sequence; (396 aa)
•       0.468
GSVIVG00016162001
SubName- Full=Chromosome chr17 scaffold_12, whole genome shotgun sequence; (282 aa)
•     • 0.430
GSVIVG00024895001
SubName- Full=Chromosome chr4 scaffold_32, whole genome shotgun sequence; (414 aa)
•       0.411
GSVIVG00019784001
SubName- Full=Chromosome chr5 scaffold_2, whole genome shotgun sequence; (925 aa)
•       0.402
GSVIVG00010970001
RecName- Full=Aminomethyltransferase; EC=2.1.2.10;; The glycine cleavage system catalyzes the d [...] (408 aa)
•       0.400

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 ?
Query291
pfam04452224 pfam04452, Methyltrans_RNA, RNA methyltransferase 2e-45
PRK11713234 PRK11713, PRK11713, 16S ribosomal RNA methyltransf 4e-42
COG1385246 COG1385, COG1385, Uncharacterized protein conserve 6e-35
TIGR00046240 TIGR00046, TIGR00046, RNA methyltransferase, RsmE 2e-23
>gnl|CDD|218092 pfam04452, Methyltrans_RNA, RNA methyltransferase Back     alignment and domain information 
 Score =  152 bits (386), Expect = 2e-45
 Identities = 71/233 (30%), Positives = 109/233 (46%), Gaps = 16/233 (6%)

Query: 54  VRVEGDEFWHMTKVLRLSTNDRVELFNGKGGLIEGCIQRIDRTGLDVVALEDLKLVLPQH 113
           V +  +E  H+ +VLRL   D ++LF+G GG     I+ I +  + V  LE L++     
Sbjct: 1   VTLTDEEAHHLVRVLRLKEGDEIKLFDGDGGEYLAEIEEISKKSVLVKILEKLEVNKELP 60

Query: 114 TQWNVFAAFGTLKGGRADWLVEKCTELGAQSVTPLLTEL-HLQSRKIGDNGFLSCNFYYG 172
            +  +  A    KG R + +++K TELG  ++ PL++E   ++  K  D           
Sbjct: 61  LK--ITLAQALPKGDRLELILQKATELGVDAIVPLISERSVVKDGKRADKKLERWQ---- 114

Query: 173 FIANSAFVYGGQ--RLHEMVLNPPMKIDGLLPLVSQSKLAFVAIAEATPLVTALSSSRNE 230
            IA  A     Q  R     + PP+    LL  + ++    +   E    +  LS     
Sbjct: 115 KIAIEA---AEQSGRTRLPEVLPPISFKELLEELDEA-DKLILYEEEAKSLGPLSELLAS 170

Query: 231 SSG---LIIVGPEGDFTEKEVNKIVEAGATAVGLGPHRLRVETATIALLATLM 280
             G   L+I+GPEG F+ KE+  + EAG T V LGP  LR ETA +A L+ L 
Sbjct: 171 LKGGKVLLIIGPEGGFSPKEIELLKEAGFTPVSLGPRILRTETAALAALSALQ 223

RNA methyltransferases modify nucleotides during ribosomal RNA maturation in a site-specific manner. The Escherichia coli member is specific for U1498 methylation. Length = 224
>gnl|CDD|236959 PRK11713, PRK11713, 16S ribosomal RNA methyltransferase RsmE; Provisional Back     alignment and domain information
>gnl|CDD|224303 COG1385, COG1385, Uncharacterized protein conserved in bacteria [Function unknown] Back     alignment and domain information
>gnl|CDD|129157 TIGR00046, TIGR00046, RNA methyltransferase, RsmE family Back     alignment and domain information

Conserved Domains Detected by HHsearch ?

Original result of HHsearch against CDD database

ID ?Alignment Graph ?Length ? Definition ? Probability ?
Query 291
TIGR00046240 RNA methyltransferase, RsmE family. Members of thi 100.0
COG1385246 Uncharacterized protein conserved in bacteria [Fun 100.0
PF04452225 Methyltrans_RNA: RNA methyltransferase; InterPro: 100.0
PRK11713234 16S ribosomal RNA methyltransferase RsmE; Provisio 100.0
PRK02135201 hypothetical protein; Provisional 96.02
PF04013199 Methyltrn_RNA_2: Putative SAM-dependent RNA methyl 95.67
PF00588142 SpoU_methylase: SpoU rRNA Methylase family; InterP 92.84
COG1901197 Uncharacterized conserved protein [Function unknow 91.91
PRK11081229 tRNA guanosine-2'-O-methyltransferase; Provisional 87.65
TIGR01080114 rplX_A_E ribosomal protein L24p/L26e, archaeal/euk 87.36
TIGR00185153 rRNA_methyl_2 rRNA methylase, putative, group 2. t 86.85
PRK10864346 putative methyltransferase; Provisional 86.71
TIGR00186237 rRNA_methyl_3 rRNA methylase, putative, group 3. t 84.04
PRK01130221 N-acetylmannosamine-6-phosphate 2-epimerase; Provi 83.18
PRK15114245 tRNA (cytidine/uridine-2'-O-)-methyltransferase Tr 82.46
>TIGR00046 RNA methyltransferase, RsmE family Back     alignment and domain information 
Probab=100.00  E-value=2.5e-60  Score=432.72  Aligned_cols=228  Identities=25%  Similarity=0.350  Sum_probs=194.1

Q ss_pred             cccEEEe----CCcEEEEcchhhhHHHHcccCCCCCEEEEEeCCCCEEEEEEEEeeCCceEEEeeecccccCCCCccceE
Q 045537           43 GIPRFFS----QGGIVRVEGDEFWHMTKVLRLSTNDRVELFNGKGGLIEGCIQRIDRTGLDVVALEDLKLVLPQHTQWNV  118 (291)
Q Consensus        43 ~~~rff~----~~~~v~L~~~~~~Hl~kVLRlk~Gd~i~v~dG~g~~~~a~I~~i~k~~~~v~i~~~~~~~~~~~~~i~l  118 (291)
                      +|++||.    .++.+.|+++++||+++|||+++||.|.++||+|+.|.|+|++++++.+.+++.+......  +.+..+
T Consensus         1 ~m~~~~~~~~~~~~~i~l~~~~~~Hl~~VlR~~~Gd~v~v~~g~g~~~~a~i~~~~~~~~~~~i~~~~~~~~--~~~~~i   78 (240)
T TIGR00046         1 RMRIVYHPEQLEEATISLTEEEAHHLVRVLRLKKGDKLKLLDGDGFIYHCEIKKISKKFVKCELLEGESEKR--ELPLKI   78 (240)
T ss_pred             CCcEEEeCccccCCeEEEChHHHhHHHHcccCCCCCEEEEEeCCCCEEEEEEEEEcCCeEEEEEEecccCCC--CCCcEE
Confidence            4667886    3456899999999999999999999999999999999999999999999888776543222  334567


Q ss_pred             EEEeeccCCCcHHHHHHHHHhcCccEEEEeeccccccccccc----ccccccccchhhchhchhhhhcCCCCcceeEcCC
Q 045537          119 FAAFGTLKGGRADWLVEKCTELGAQSVTPLLTELHLQSRKIG----DNGFLSCNFYYGFIANSAFVYGGQRLHEMVLNPP  194 (291)
Q Consensus       119 ~la~~l~K~~r~d~iiekatELGV~~I~P~~se~~~RS~~~~----~~k~eRw~~~~kIi~~~eA~kQs~r~~lP~I~~p  194 (291)
                      ++++|+||+++|||+|||||||||++|+|+.|+   ||+++.    .+|.+||+   +|+  +||||||+|+++|+|.+|
T Consensus        79 ~l~~al~K~~~~d~il~katELGv~~i~p~~s~---rs~~~~~~~~~~k~~rw~---~i~--~eA~~Q~~r~~lP~i~~~  150 (240)
T TIGR00046        79 HLAIVLIKGKKMEFIIRKLTELGVSKIIPFNAE---RSVVKLDIEAIKKLERWQ---KIA--IEAAEQSGRNIVPEIKPP  150 (240)
T ss_pred             EEEEeecCCccHHHHHHHHHHcCCCEEEEEEec---cceeccCchHHHHHHHHH---HHH--HHHHHhcCCCCCCEECCc
Confidence            788999999999999999999999999999999   997632    35788999   999  999999999999999999


Q ss_pred             CCHhhhccccCCCceEEEEeCCCCChhhhhccCCCCCceEEEEcCCCCCCHHHHHHHHHcCCeEEecCCCccccchHHHH
Q 045537          195 MKIDGLLPLVSQSKLAFVAIAEATPLVTALSSSRNESSGLIIVGPEGDFTEKEVNKIVEAGATAVGLGPHRLRVETATIA  274 (291)
Q Consensus       195 ~~l~~~l~~~~~~~~~lv~~~~~~~~~~~l~~~~~~~~i~lvIGPEGGfs~~Ei~~l~~~Gf~~vsLG~rILRtETAai~  274 (291)
                      .+|+++++...+.+..+++++++.+....+..  ..++++++||||||||++|++.+.++||.+||||+||||||||+++
T Consensus       151 ~~l~~~l~~~~~~~~~~~~~~~~~~~~~~l~~--~~~~v~~~IGPEGGfs~~Ei~~~~~~gf~~vsLG~rILR~ETA~i~  228 (240)
T TIGR00046       151 KNLKEKCAEAYEEALKLNFHPEASPLSANLPI--PAGNIVIIIGPEGGFSEKEIQLLKEKGFTPVLLGPRILRTETAPLY  228 (240)
T ss_pred             CCHHHHHhhCcCCCeEEEECCcccchhhhhcc--CCCcEEEEECCCCCCCHHHHHHHHHCCCEEEccCCcchhhccHHHH
Confidence            99999987655445667777665443333422  2346999999999999999999999999999999999999999999


Q ss_pred             HHHHHHHc
Q 045537          275 LLATLMLC  282 (291)
Q Consensus       275 ala~l~~~  282 (291)
                      |+|++.++
T Consensus       229 als~~~~~  236 (240)
T TIGR00046       229 ALSILQAL  236 (240)
T ss_pred             HHHHHHHH
Confidence            99998763

Members of this protein family, previously called conserved hypothetical protein TIGR00046, include the YggJ protein of E. coli, which has now been shown to methylate U1498 in 16S rRNA.
>COG1385 Uncharacterized protein conserved in bacteria [Function unknown] Back     alignment and domain information
>PF04452 Methyltrans_RNA: RNA methyltransferase; InterPro: IPR006700 Methyltransferases (Mtases) are responsible for the transfer of methyl groups between two molecules Back     alignment and domain information
>PRK11713 16S ribosomal RNA methyltransferase RsmE; Provisional Back     alignment and domain information
>PRK02135 hypothetical protein; Provisional Back     alignment and domain information
>PF04013 Methyltrn_RNA_2: Putative SAM-dependent RNA methyltransferase; InterPro: IPR007158 The proteins in this family are around 200 amino acids long with the exception of O29206 from SWISSPROT that has an additional 100 amino acids at its N terminus Back     alignment and domain information
>PF00588 SpoU_methylase: SpoU rRNA Methylase family; InterPro: IPR001537 The spoU gene of Escherichia coli codes for a protein that shows strong similarities to previously characterised 2'-O-methyltransferases [, ] Back     alignment and domain information
>COG1901 Uncharacterized conserved protein [Function unknown] Back     alignment and domain information
>PRK11081 tRNA guanosine-2'-O-methyltransferase; Provisional Back     alignment and domain information
>TIGR01080 rplX_A_E ribosomal protein L24p/L26e, archaeal/eukaryotic Back     alignment and domain information
>TIGR00185 rRNA_methyl_2 rRNA methylase, putative, group 2 Back     alignment and domain information
>PRK10864 putative methyltransferase; Provisional Back     alignment and domain information
>TIGR00186 rRNA_methyl_3 rRNA methylase, putative, group 3 Back     alignment and domain information
>PRK01130 N-acetylmannosamine-6-phosphate 2-epimerase; Provisional Back     alignment and domain information
>PRK15114 tRNA (cytidine/uridine-2'-O-)-methyltransferase TrmJ; Provisional 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 ?
Query291
3kw2_A257 Crystal Structure Of Probable Rrna-Methyltransferas 3e-10
4j3c_A267 Crystal Structure Of 16s Ribosomal Rna Methyltransf 3e-09
1vhk_A268 Crystal Structure Of An Hypothetical Protein Length 5e-08
1v6z_A228 Crystal Structure Of Tt1573 From Thermus Thermophil 1e-06
2egv_A229 Crystal Structure Of Rrna Methyltransferase With Sa 1e-04
>pdb|3KW2|A Chain A, Crystal Structure Of Probable Rrna-Methyltransferase From Porphyromonas Gingivalis Length = 257 Back     alignment and structure 
Iteration: 1

 Score = 62.4 bits (150), Expect = 3e-10,   Method: Compositional matrix adjust.
 Identities = 55/218 (25%), Positives = 87/218 (39%), Gaps = 9/218 (4%)
Query: 55  RVEGDEFWHMTKVLRLSTNDRVELFNGKGGLIEGCIQRIDRTGLDVVALEDLKLVLPQHT 114
           R+  DE  H+ +VLR    DR+ L +G+G   +  I+  DR    V          P   
Sbjct: 18  RLPDDEAGHILRVLRXQAGDRLRLTDGRGSFFDAVIETADRKSCYVSVCGQESWQKPWRD 77
Query: 115 QWNVFAAFGTLKGGRADWLVEKCTELGAQSVTPLLTELHLQSRKIGDNGFLSCNF---YY 171
           +  + A   T +  R +W +EK  E+G   V  + +E H + R+I               
Sbjct: 78  RITI-AIAPTKQSERXEWXLEKLVEIGVDEVVFIESE-HSERRRIKAERLERIAISAXKQ 135
Query: 172 GFIANSAFVYGGQRLHEMVLNPPMKIDGLLPLVSQSKLAFVAIAEATPLVTALSSSRNES 231
              A+   +     +  ++ + P     L+  V ++  A +      P            
Sbjct: 136 SLKASFPVIRVNIPIQTVIADTPKAAVRLIAYVDEAVRAEITQGRGYP----SDFYHVGQ 191
Query: 232 SGLIIVGPEGDFTEKEVNKIVEAGATAVGLGPHRLRVE 269
             LI++GPEGDF+  EV   + AG   V LG  RLR E
Sbjct: 192 DVLILIGPEGDFSPSEVESALLAGFAPVSLGESRLRTE 229
>pdb|4J3C|A Chain A, Crystal Structure Of 16s Ribosomal Rna Methyltransferase Rsme Length = 267 Back     alignment and structure
>pdb|1VHK|A Chain A, Crystal Structure Of An Hypothetical Protein Length = 268 Back     alignment and structure
>pdb|1V6Z|A Chain A, Crystal Structure Of Tt1573 From Thermus Thermophilus Length = 228 Back     alignment and structure
>pdb|2EGV|A Chain A, Crystal Structure Of Rrna Methyltransferase With Sam Ligand Length = 229 Back     alignment and structure

Structure Templates Detected by RPS-BLAST ?

Original result of RPS-BLAST against PDB70 database

ID ?Alignment Graph ?Length ? Definition ? E-value ?
Query291
3kw2_A257 Probable R-RNA methyltransferase; structural genom 4e-53
1vhk_A268 Hypothetical protein YQEU; structural genomics, un 6e-50
1vhy_A257 Hypothetical protein HI0303; PSI, protein structur 2e-48
1v6z_A228 Hypothetical protein TTHA0657; structural genomics 8e-48
1z85_A234 Hypothetical protein TM1380; alpha/beta knot fold, 1e-44
2egv_A229 UPF0088 protein AQ_165; RSME, methyltransferase, r 2e-44
>3kw2_A Probable R-RNA methyltransferase; structural genomics, unknown function, PSI-2, protein structure initiative; HET: MSE ADN; 2.00A {Porphyromonas gingivalis atcc 33277} Length = 257 Back     alignment and structure
 Score =  172 bits (439), Expect = 4e-53
 Identities = 60/265 (22%), Positives = 98/265 (36%), Gaps = 44/265 (16%)

Query: 44  IPRFF--SQGGIVRVEGDEFWHMTKVLRLSTNDRVELFNGKGGLIEGCIQRIDRTGLDVV 101
           +P F+        R+  DE  H+ +VLR+   DR+ L +G+G   +  I+  DR    V 
Sbjct: 5   LPLFYAPDIEQSDRLPDDEAGHILRVLRMQAGDRLRLTDGRGSFFDAVIETADRKSCYVS 64

Query: 102 ALEDLKLVLPQHTQWNVFAAFGTLKGG-RADWLVEKCTELGAQSVTPLLTE--------- 151
                    P   +  +  A    K   R +W++EK  E+G   V  + +E         
Sbjct: 65  VCGQESWQKPWRDRITI--AIAPTKQSERMEWMLEKLVEIGVDEVVFIESEHSERRRIKA 122

Query: 152 LHLQSRKIGDNGFLSCNFYYGFIANSAFVYGGQ--RLHEMVLNPPMKIDGLLPLVSQSKL 209
             L+                  IA SA     Q  +    V+   + I  ++    ++ +
Sbjct: 123 ERLER-----------------IAISA---MKQSLKASFPVIRVNIPIQTVIADTPKAAV 162

Query: 210 AFVAIAEATP-------LVTALSSSRNESSGLIIVGPEGDFTEKEVNKIVEAGATAVGLG 262
             +A  +                        LI++GPEGDF+  EV   + AG   V LG
Sbjct: 163 RLIAYVDEAVRAEITQGRGYPSDFYHVGQDVLILIGPEGDFSPSEVESALLAGFAPVSLG 222

Query: 263 PHRLRVETATIALLATL-MLCSDSQ 286
             RLR ETA +     +  L +  +
Sbjct: 223 ESRLRTETAGLVACQWIHTLQACYR 247
>1vhk_A Hypothetical protein YQEU; structural genomics, unknown function; 2.60A {Bacillus subtilis} SCOP: b.122.1.2 c.116.1.5 Length = 268 Back     alignment and structure
>1vhy_A Hypothetical protein HI0303; PSI, protein structure initiative, NEW YORK SGX research CEN structural genomics, nysgxrc; HET: MSE; 1.90A {Haemophilus influenzae} SCOP: b.122.1.2 c.116.1.5 PDB: 1nxz_A Length = 257 Back     alignment and structure
>1v6z_A Hypothetical protein TTHA0657; structural genomics, riken structural genomics/proteomics initiative, RSGI, transferase; 2.00A {Thermus thermophilus HB8} SCOP: b.122.1.2 c.116.1.5 PDB: 2cx8_A* 2z0y_A* Length = 228 Back     alignment and structure
>1z85_A Hypothetical protein TM1380; alpha/beta knot fold, structural genomics, joint center for structural genomics, JCSG; 2.12A {Thermotoga maritima} Length = 234 Back     alignment and structure
>2egv_A UPF0088 protein AQ_165; RSME, methyltransferase, rRNA modification, PUA domain, M3U, SAM, structural genomics, NPPSFA; HET: SAM; 1.45A {Aquifex aeolicus} PDB: 2egw_A* Length = 229 Back     alignment and structure

Structure Templates Detected by HHsearch ?

Original result of HHsearch against PDB70 database

ID ?Alignment Graph ?Length ? Definition ? Probability ?
Query291
4e8b_A251 Ribosomal RNA small subunit methyltransferase E; 1 100.0
1vhk_A268 Hypothetical protein YQEU; structural genomics, un 100.0
1vhy_A257 Hypothetical protein HI0303; PSI, protein structur 100.0
1v6z_A228 Hypothetical protein TTHA0657; structural genomics 100.0
3kw2_A257 Probable R-RNA methyltransferase; structural genom 100.0
2egv_A229 UPF0088 protein AQ_165; RSME, methyltransferase, r 100.0
1z85_A234 Hypothetical protein TM1380; alpha/beta knot fold, 100.0
2qmm_A197 UPF0217 protein AF_1056; alpha/beta knot, SAM, str 96.75
3aia_A211 UPF0217 protein MJ1640; DUF358, rRNA methyltransfe 96.44
2qwv_A208 UPF0217 protein VC_A1059; unknown function, struct 94.76
1v2x_A194 TRNA (GM18) methyltransferase; DEEP trefoil knot, 90.29
2ha8_A184 TAR (HIV-1) RNA loop binding protein; methyltransf 89.0
1zjr_A211 TRNA (guanosine-2'-O-)-methyltransferase; methylas 88.54
1ipa_A274 RRMH, RNA 2'-O-ribose methyltransferase; DEEP tref 87.29
3nk6_A277 23S rRNA methyltransferase; nosiheptide, nosihepti 86.2
3kty_A173 Probable methyltransferase; alpha-beta-alpha sandw 83.79
1gz0_A253 Hypothetical tRNA/RRNA methyltransferase YJFH; 2'O 82.52
2eqj_A66 Metal-response element-binding transcription facto 81.85
4hcz_A58 PHD finger protein 1; protein-peptide complex, tud 81.6
1x7o_A287 Avirb, rRNA methyltransferase; SPOU, C-terminal kn 80.63
>4e8b_A Ribosomal RNA small subunit methyltransferase E; 16S rRNA methyltransferase; 2.25A {Escherichia coli} Back     alignment and structure
Probab=100.00  E-value=1.5e-65  Score=468.61  Aligned_cols=231  Identities=20%  Similarity=0.306  Sum_probs=202.6

Q ss_pred             ccccEEEe-----CCcEEEEcchhhhHHHHcccCCCCCEEEEEeCCCCEEEEEEEEeeCCceEEEeeecccccCCCCccc
Q 045537           42 GGIPRFFS-----QGGIVRVEGDEFWHMTKVLRLSTNDRVELFNGKGGLIEGCIQRIDRTGLDVVALEDLKLVLPQHTQW  116 (291)
Q Consensus        42 ~~~~rff~-----~~~~v~L~~~~~~Hl~kVLRlk~Gd~i~v~dG~g~~~~a~I~~i~k~~~~v~i~~~~~~~~~~~~~i  116 (291)
                      |+|||||+     .++.+.|+++++||+.||||+++||.|.++||+|+.|.|+|++++++.+.+++.+...  .+++.++
T Consensus         1 MrmpRff~~~~l~~~~~i~L~~~~~~Hl~~VLR~~~Gd~v~l~dg~g~~~~a~I~~i~~~~~~~~i~~~~~--~~~e~~~   78 (251)
T 4e8b_A            1 MRIPRIYHPEPLTSHSHIALCEDAANHIGRVLRMGPGQALQLFDGSNQVFDAEITSASKKSVEVKVLEGQI--DDRESPL   78 (251)
T ss_dssp             --CCEEECSSCCCTTCEEECCHHHHHHHHTTSCCCSCCEEEEECSSSEEEEEEEEEECSSCEEEEEEEEEE--CCCCCSS
T ss_pred             CCCCEEEECcccCCCCEEEeCHHHHHHHHHhCcCCCCCEEEEEeCCCcEEEEEEEEeecceEEEEEeeeec--CCCCCCc
Confidence            89999998     4678999999999999999999999999999999999999999999999998876543  2334556


Q ss_pred             eEEEEeeccCCCcHHHHHHHHHhcCccEEEEeeccccccccccc-----ccccccccchhhchhchhhhhcCCCCcceeE
Q 045537          117 NVFAAFGTLKGGRADWLVEKCTELGAQSVTPLLTELHLQSRKIG-----DNGFLSCNFYYGFIANSAFVYGGQRLHEMVL  191 (291)
Q Consensus       117 ~l~la~~l~K~~r~d~iiekatELGV~~I~P~~se~~~RS~~~~-----~~k~eRw~~~~kIi~~~eA~kQs~r~~lP~I  191 (291)
                      .+++++|+||++||||+|||||||||++|+|+.|+   ||+++.     .+|.+||+   +|+  +||||||+|+++|+|
T Consensus        79 ~v~L~~al~K~~r~e~ilqkatELGv~~I~p~~t~---rsv~~~~~~k~~~k~~Rw~---~I~--~eAaeQs~R~~iP~v  150 (251)
T 4e8b_A           79 HIHLGQVMSRGEKMEFTIQKSIELGVSLITPLFSE---RCGVKLDSERLNKKLQQWQ---KIA--IAACEQCGRNRVPEI  150 (251)
T ss_dssp             EEEEEEECCSSSHHHHHHHHHHHTTCCEEEEEECT---TCCCCCCHHHHHHHHHHHH---HHH--HHHHHHHTCSSCCCB
T ss_pred             eEEEEEEeechhHHHHHHHHHHhhCCCEEEEEEee---eEEeecchhhhhhHHHHHH---HHH--HHHHHhcCCCcCcEE
Confidence            78889999999999999999999999999999999   998642     35778888   999  999999999999999


Q ss_pred             cCCCCHhhhccccCCCceEEEEeCCCCChhhhhccCCCCCceEEEEcCCCCCCHHHHHHHHHcCCeEEecCCCccccchH
Q 045537          192 NPPMKIDGLLPLVSQSKLAFVAIAEATPLVTALSSSRNESSGLIIVGPEGDFTEKEVNKIVEAGATAVGLGPHRLRVETA  271 (291)
Q Consensus       192 ~~p~~l~~~l~~~~~~~~~lv~~~~~~~~~~~l~~~~~~~~i~lvIGPEGGfs~~Ei~~l~~~Gf~~vsLG~rILRtETA  271 (291)
                      .+|.+|++++.... .+..+++++++......+..  ..++++++||||||||++|++++.++||.+||||+||||||||
T Consensus       151 ~~~~~~~~~l~~~~-~~~~~~~~~~~~~~~~~~~~--~~~~i~l~IGPEGGfs~~Ei~~~~~~Gf~~vsLG~rILRtETA  227 (251)
T 4e8b_A          151 RPAMDLEAWCAEQD-EGLKLNLHPRASNSINTLPL--PVERVRLLIGPEGGLSADEIAMTARYQFTDILLGPRVLRTETT  227 (251)
T ss_dssp             CCCEEHHHHHHCCC-SSEEEEECTTCSCBGGGSCS--CCCEEEEEECCTTCCCHHHHHHHHHTTCEEEBCCSSCCCHHHH
T ss_pred             CCcCCHHHHHhhcC-cCceEeechhhhCchhhccc--cCCcEEEEECCCCCCCHHHHHHHHHCCCEEecCCCCceeHHHH
Confidence            99999999998764 45778888876554443332  3568999999999999999999999999999999999999999


Q ss_pred             HHHHHHHHH-HccCC
Q 045537          272 TIALLATLM-LCSDS  285 (291)
Q Consensus       272 ai~ala~l~-~~~~~  285 (291)
                      +++|+|+++ .|||+
T Consensus       228 ~i~als~l~~~~Gdl  242 (251)
T 4e8b_A          228 ALTAITALQVRFGDL  242 (251)
T ss_dssp             HHHHHHHHHHHTSST
T ss_pred             HHHHHHHHHHHHccC
Confidence            999999996 58887
>1vhk_A Hypothetical protein YQEU; structural genomics, unknown function; 2.60A {Bacillus subtilis} SCOP: b.122.1.2 c.116.1.5 Back     alignment and structure
>1vhy_A Hypothetical protein HI0303; PSI, protein structure initiative, NEW YORK SGX research CEN structural genomics, nysgxrc; HET: MSE; 1.90A {Haemophilus influenzae} SCOP: b.122.1.2 c.116.1.5 PDB: 1nxz_A Back     alignment and structure
>1v6z_A Hypothetical protein TTHA0657; structural genomics, riken structural genomics/proteomics initiative, RSGI, transferase; 2.00A {Thermus thermophilus HB8} SCOP: b.122.1.2 c.116.1.5 PDB: 2cx8_A* 2z0y_A* Back     alignment and structure
>3kw2_A Probable R-RNA methyltransferase; structural genomics, unknown function, PSI-2, protein structure initiative; HET: MSE ADN; 2.00A {Porphyromonas gingivalis atcc 33277} Back     alignment and structure
>2egv_A UPF0088 protein AQ_165; RSME, methyltransferase, rRNA modification, PUA domain, M3U, SAM, structural genomics, NPPSFA; HET: SAM; 1.45A {Aquifex aeolicus} PDB: 2egw_A* Back     alignment and structure
>1z85_A Hypothetical protein TM1380; alpha/beta knot fold, structural genomics, joint center for structural genomics, JCSG; 2.12A {Thermotoga maritima} Back     alignment and structure
>2qmm_A UPF0217 protein AF_1056; alpha/beta knot, SAM, structural genomics, PSI-2, protein structure initiative; HET: SAM; 1.85A {Archaeoglobus fulgidus dsm 4304} SCOP: c.116.1.7 Back     alignment and structure
>2qwv_A UPF0217 protein VC_A1059; unknown function, structural genomics, PSI- 2, protein structure initiative; 2.60A {Vibrio cholerae o1 biovar eltor str} SCOP: c.116.1.7 Back     alignment and structure
>1v2x_A TRNA (GM18) methyltransferase; DEEP trefoil knot, riken structural genomics/proteomics INIT RSGI, structural genomics; HET: SAM; 1.50A {Thermus thermophilus} SCOP: c.116.1.1 Back     alignment and structure
>2ha8_A TAR (HIV-1) RNA loop binding protein; methyltransferase, structural genomics, structural genomics consortium, SGC, RNA binding protein; HET: SAH; 1.60A {Homo sapiens} Back     alignment and structure
>1zjr_A TRNA (guanosine-2'-O-)-methyltransferase; methylase, RNA modifying enzyme, topological knot; 1.85A {Aquifex aeolicus} Back     alignment and structure
>1ipa_A RRMH, RNA 2'-O-ribose methyltransferase; DEEP trefoil knot, rossmann fold, EL30-like fold, riken structural genomics/proteomics initiative; 2.40A {Thermus thermophilus} SCOP: c.116.1.1 d.79.3.3 Back     alignment and structure
>3nk6_A 23S rRNA methyltransferase; nosiheptide, nosiheptide-resistance methyltransferase, 23S R methyltransferase; 2.00A {Streptomyces actuosus} PDB: 3nk7_A* 3gyq_A* Back     alignment and structure
>3kty_A Probable methyltransferase; alpha-beta-alpha sandwich, structural genomics, PSI-2, prote structure initiative; 2.30A {Bordetella pertussis} Back     alignment and structure
>1gz0_A Hypothetical tRNA/RRNA methyltransferase YJFH; 2'O-methyltransferase, knot, montreal- kingston bacterial structural genomics initiative, BSGI; 2.5A {Escherichia coli} SCOP: c.116.1.1 d.79.3.3 Back     alignment and structure
>2eqj_A Metal-response element-binding transcription factor 2; structure genomics,tudor domain, zinc-regulated factor 1, ZIRF1; NMR {Mus musculus} Back     alignment and structure
>4hcz_A PHD finger protein 1; protein-peptide complex, tudor, histone binding, H3K36ME3, N nucleus, transcription; HET: M3L; 1.85A {Homo sapiens} Back     alignment and structure
>1x7o_A Avirb, rRNA methyltransferase; SPOU, C-terminal knot, seMet; 2.37A {Streptomyces viridochromogenes} PDB: 1x7p_A* Back     alignment and structure

Homologous Structure Domains

Structure Domains Detected by RPS-BLAST ?

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

ID ?Alignment Graph ?Length ? Definition ? E-value ?
Query 291
d1vhka2180 c.116.1.5 (A:74-253) Hypothetical protein YqeU {Ba 2e-26
d1v6za2162 c.116.1.5 (A:67-228) Hypothetical protein TTHA0657 3e-22
d1nxza2174 c.116.1.5 (A:74-247) Hypothetical protein HI0303 { 8e-22
d1nxza172 b.122.1.2 (A:2-73) Hypothetical protein HI0303 {Ha 5e-13
d1vhka172 b.122.1.2 (A:2-73) Hypothetical protein YqeU {Baci 2e-11
>d1vhka2 c.116.1.5 (A:74-253) Hypothetical protein YqeU {Bacillus subtilis [TaxId: 1423]} Length = 180 Back     information, alignment and structure

class: Alpha and beta proteins (a/b)
fold: alpha/beta knot
superfamily: alpha/beta knot
family: YggJ C-terminal domain-like
domain: Hypothetical protein YqeU
species: Bacillus subtilis [TaxId: 1423]

 Score =  100 bits (249), Expect = 2e-26
 Identities = 46/170 (27%), Positives = 66/170 (38%), Gaps = 9/170 (5%)

Query: 117 NVFAAFGTLKGGRADWLVEKCTELGAQSVTPLLTELHLQSRKIGDNGFLSCNFYYGFIAN 176
            V+ A G  KG + +W+++K TELGA +  P       +S    D+              
Sbjct: 7   KVYIASGLPKGDKLEWIIQKGTELGAHAFIPFQAA---RSVVKLDDKKAKKKRERWTKIA 63

Query: 177 SAFVYGGQRLHEMVLNPPMKIDGLLPLVSQSKLAFVAIAEATP------LVTALSSSRNE 230
                   R     +        LL  +       VA  E++           +SS    
Sbjct: 64  KEAAEQSYRNEVPRVMDVHSFQQLLQRMQDFDKCVVAYEESSKQGEISAFSAIVSSLPKG 123

Query: 231 SSGLIIVGPEGDFTEKEVNKIVEAGATAVGLGPHRLRVETATIALLATLM 280
           SS LI+ GPEG  TE EV ++ E      GLGP  LR ETA +  L+ + 
Sbjct: 124 SSLLIVFGPEGGLTEAEVERLTEQDGVTCGLGPRILRTETAPLYALSAIS 173
>d1v6za2 c.116.1.5 (A:67-228) Hypothetical protein TTHA0657 (TT1575) {Thermus thermophilus [TaxId: 274]} Length = 162 Back     information, alignment and structure
>d1nxza2 c.116.1.5 (A:74-247) Hypothetical protein HI0303 {Haemophilus influenzae [TaxId: 727]} Length = 174 Back     information, alignment and structure
>d1nxza1 b.122.1.2 (A:2-73) Hypothetical protein HI0303 {Haemophilus influenzae [TaxId: 727]} Length = 72 Back     information, alignment and structure
>d1vhka1 b.122.1.2 (A:2-73) Hypothetical protein YqeU {Bacillus subtilis [TaxId: 1423]} Length = 72 Back     information, alignment and structure

Homologous Domains Detected by HHsearch ?

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

ID ?Alignment Graph ?Length ? Definition ? Probability ?
Query291
d1nxza2174 Hypothetical protein HI0303 {Haemophilus influenza 100.0
d1vhka2180 Hypothetical protein YqeU {Bacillus subtilis [TaxI 100.0
d1v6za2162 Hypothetical protein TTHA0657 (TT1575) {Thermus th 100.0
d1nxza172 Hypothetical protein HI0303 {Haemophilus influenza 99.66
d1vhka172 Hypothetical protein YqeU {Bacillus subtilis [TaxI 99.59
d1v6za163 Hypothetical protein TTHA0657 (TT1575) {Thermus th 97.48
d2qwva1201 Uncharacterized protein VCA1059 {Vibrio cholerae [ 95.06
d2qmma1194 Uncharacterized protein AF1056 {Archaeoglobus fulg 94.65
d1gz0a1166 RlmB, C-terminal domain {Escherichia coli [TaxId: 92.14
d1ipaa1158 RrmA (RrmH), C-terminal domain {Thermus thermophil 91.02
d1v2xa_191 tRNA (Gm18) methyltransferase TrmH {Thermus thermo 85.85
>d1nxza2 c.116.1.5 (A:74-247) Hypothetical protein HI0303 {Haemophilus influenzae [TaxId: 727]} Back     information, alignment and structure
class: Alpha and beta proteins (a/b)
fold: alpha/beta knot
superfamily: alpha/beta knot
family: YggJ C-terminal domain-like
domain: Hypothetical protein HI0303
species: Haemophilus influenzae [TaxId: 727]

Probab=100.00  E-value=5.6e-47  Score=326.34  Aligned_cols=163  Identities=21%  Similarity=0.274  Sum_probs=139.9

Q ss_pred             cceEEEEeeccCCCcHHHHHHHHHhcCccEEEEeecccccccccc-----cccccccccchhhchhchhhhhcCCCCcce
Q 045537          115 QWNVFAAFGTLKGGRADWLVEKCTELGAQSVTPLLTELHLQSRKI-----GDNGFLSCNFYYGFIANSAFVYGGQRLHEM  189 (291)
Q Consensus       115 ~i~l~la~~l~K~~r~d~iiekatELGV~~I~P~~se~~~RS~~~-----~~~k~eRw~~~~kIi~~~eA~kQs~r~~lP  189 (291)
                      ++.|+|++|+||+++|||+|||||||||++|+|+.++   ||+.+     ..+|.+||+   +|+  ++|||||+|+++|
T Consensus         4 ~~~i~l~~al~k~~~~~~ilqk~tELGV~~i~p~~s~---rs~~~~~~~~~~~k~~r~~---~i~--~~A~eQsgr~~lP   75 (174)
T d1nxza2           4 HLKIHLGQVISRGERMEFTIQKSVELGVNVITPLWSE---RCGVKLDAERMDKKIQQWQ---KIA--IAACEQCGRNIVP   75 (174)
T ss_dssp             SSCEEEEEECCSSSCHHHHHHHHHHTTCCEEEEEECT---TSCCCCCHHHHHHHHHHHH---HHH--HHHHHHHCCSSCC
T ss_pred             CceEEEEEeecCcchHHHHHHHHHhhCcceEEechHh---hcccccchhHHHhhHHHHH---HHH--HHHHHhcCccccc
Confidence            3456778899999999999999999999999999999   98753     235678888   999  9999999999999


Q ss_pred             eEcCCCCHhhhccccCCCceEEEEeCCCCChhhhhccCCCCCceEEEEcCCCCCCHHHHHHHHHcCCeEEecCCCccccc
Q 045537          190 VLNPPMKIDGLLPLVSQSKLAFVAIAEATPLVTALSSSRNESSGLIIVGPEGDFTEKEVNKIVEAGATAVGLGPHRLRVE  269 (291)
Q Consensus       190 ~I~~p~~l~~~l~~~~~~~~~lv~~~~~~~~~~~l~~~~~~~~i~lvIGPEGGfs~~Ei~~l~~~Gf~~vsLG~rILRtE  269 (291)
                      +|.++.+|+++++... .+..+++++++......+.. ...++++++||||||||++|++.+.++||.+|+||+||||+|
T Consensus        76 ~i~~~~~l~~~l~~~~-~~~~~~~~~~~~~~~~~~~~-~~~~~i~iiIGPEGGfs~~E~~~~~~~g~~~v~LG~~ILR~E  153 (174)
T d1nxza2          76 EIRPLMKLQDWCAEND-GALKLNLHPRAHYSIKTLPT-IPAGGVRLLIGSEGGLSAQEIAQTEQQGFTEILLGKRVLRTE  153 (174)
T ss_dssp             EECCCEEHHHHHHCCS-SCEEEEECTTCSCBGGGCCC-CCTTCEEEEECCTTCCCHHHHHHHHHTTCEEEBCCSSCCCHH
T ss_pred             cccchhhHHHHHhhhc-chhhhhhhhhhhhhhhhhcc-CCCCcEEEEEcCCcCcCHHHHHHHHHCCCeEeeCCCCcchHH
Confidence            9999999999997653 45667777766554444332 235689999999999999999999999999999999999999


Q ss_pred             hHHHHHHHHHH-HccCCCC
Q 045537          270 TATIALLATLM-LCSDSQQ  287 (291)
Q Consensus       270 TAai~ala~l~-~~~~~~~  287 (291)
                      ||+++|+|++. ++||+.+
T Consensus       154 TA~i~als~l~~~~gdl~~  172 (174)
T d1nxza2         154 TASLAAISALQICFGDLGE  172 (174)
T ss_dssp             HHHHHHHHHHHHHHSSTTC
T ss_pred             hHHHHHHHHHHHHhccccc
Confidence            99999999996 6888865
>d1vhka2 c.116.1.5 (A:74-253) Hypothetical protein YqeU {Bacillus subtilis [TaxId: 1423]} Back     information, alignment and structure
>d1v6za2 c.116.1.5 (A:67-228) Hypothetical protein TTHA0657 (TT1575) {Thermus thermophilus [TaxId: 274]} Back     information, alignment and structure
>d1nxza1 b.122.1.2 (A:2-73) Hypothetical protein HI0303 {Haemophilus influenzae [TaxId: 727]} Back     information, alignment and structure
>d1vhka1 b.122.1.2 (A:2-73) Hypothetical protein YqeU {Bacillus subtilis [TaxId: 1423]} Back     information, alignment and structure
>d1v6za1 b.122.1.2 (A:4-66) Hypothetical protein TTHA0657 (TT1575) {Thermus thermophilus [TaxId: 274]} Back     information, alignment and structure
>d2qwva1 c.116.1.7 (A:5-205) Uncharacterized protein VCA1059 {Vibrio cholerae [TaxId: 666]} Back     information, alignment and structure
>d2qmma1 c.116.1.7 (A:95-288) Uncharacterized protein AF1056 {Archaeoglobus fulgidus [TaxId: 2234]} Back     information, alignment and structure
>d1gz0a1 c.116.1.1 (A:78-243) RlmB, C-terminal domain {Escherichia coli [TaxId: 562]} Back     information, alignment and structure
>d1ipaa1 c.116.1.1 (A:106-263) RrmA (RrmH), C-terminal domain {Thermus thermophilus [TaxId: 274]} Back     information, alignment and structure
>d1v2xa_ c.116.1.1 (A:) tRNA (Gm18) methyltransferase TrmH {Thermus thermophilus [TaxId: 274]} Back     information, alignment and structure