Citrus Sinensis ID: 024933

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
MDTTSLKTFNAIVPLHAHFRSRAPNFTQFKNNFSFSSPLSSFSSFRFSPICSLPERENGGFMPRGVGEAVNGLSQNKFLQVVLVSPQIPGNTGCIARTCAASACGLHLVGPLGFQVDDTKLKRAGLDYWPYVVIKVHSTWAEFRDYFRQQEGEKRLLAFTKRGTSTHSEISYRKGDYLIFGSETSGLPPEALLDCTSETFGGGTIRIPMVETYVRCLNLSVSVGIAVYEAARQLNYEQLKTASDTCIDREFPFITEDIFA
ccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccEEEEcccccccHHHHHHHHHHHcccEEEEccccccccccccccccccccccccEEEcccHHHHHHHHHHcccccEEEEEEEcccccccccccccccEEEEccccccccHHHHHHcccccccccEEEEcccccccccHHHHHHHHHHHHHHHHcccccccccccccccccccccccccccc
cccccHHHccccccccccccccccccHHcccccccccccccccccccccccccccccccccccccccccccHHHHccccEEEEEccccHHHHHHHHHHHHHHccEEEEEcccccccccHHHHcccccHHHccccEEEccHHHHHHHHHHHHcccEEEEEccccccEcccccccccEEEEEccccccccHHHHccccHHHccccEEEEcccccccccccHHHHHHHHHHHHHHHcccccccccccccccccccccHHHHcc
mdttslktfnaivplhahfrsrapnftqfknnfsfssplssfssfrfspicslperenggfmprgvgeavnglsqnKFLQVVLvspqipgntgciartcaasacglhlvgplgfqvddtklkragldywPYVVIKVHSTWAEFRDYFRQQEGEKRLLAFTkrgtsthseisyrkgdylifgsetsglppealldctsetfgggtiripMVETYVRCLNLSVSVGIAVYEAARQLNYEQLKTasdtcidrefpfitedifa
mdttslktfnaivplhaHFRSRAPNFTQFKNNFSFSSPLSSFSSFRFSPICSLPERENGGFMPRGVGEAVNGLSQNKFLQVVLVSPQIPGNTGCIARTCAASACGLHLVGPLGFQVDDTKLKRAGLDYWPYVVIKVHSTWAEFRDYFRQQEGEKRllaftkrgtsthseisyrkgdYLIFGSETSGLPPEALLDCTSETFGGGTIRIPMVETYVRCLNLSVSVGIAVYEAARQLNYEQLktasdtcidrefpfitedifa
MDTTSLKTFNAIVPLHAHFRSRAPNFTQFKNNfsfssplssfssfrfsPICSLPERENGGFMPRGVGEAVNGLSQNKFLQVVLVSPQIPGNTGCIARTCAASACGLHLVGPLGFQVDDTKLKRAGLDYWPYVVIKVHSTWAEFRDYFRQQEGEKRLLAFTKRGTSTHSEISYRKGDYLIFGSETSGLPPEALLDCTSETFGGGTIRIPMVETYVRCLNLSVSVGIAVYEAARQLNYEQLKTASDTCIDREFPFITEDIFA
*******TFNAIVPLHAHFRSRAPNFTQFKNNFSFS****SFSSFRFSPICSLP****GGFMPRGVGEAVNGLSQNKFLQVVLVSPQIPGNTGCIARTCAASACGLHLVGPLGFQVDDTKLKRAGLDYWPYVVIKVHSTWAEFRDYFRQQEGEKRLLAFTKRGTSTHSEISYRKGDYLIFGSETSGLPPEALLDCTSETFGGGTIRIPMVETYVRCLNLSVSVGIAVYEAARQLNYEQLKTASDTCIDREFPFITEDI**
****S*K*FNAIVPLHAHFRSRAPNFTQFKNNFSFSS****************************************FLQVVLVSPQIPGNTGCIARTCAASACGLHLVGPLGFQVDDTKLKRAGLDYWPYVVIKVHSTWAEFRDYFRQQEGEKRLLAFTKRGTSTHSEISYRKGDYLIFGSETSGLPPEALLDCTSETFGGGTIRIPMVETYVRCLNLSVSVGIAVYEAARQLNYEQLKTA*********PFITEDIFA
MDTTSLKTFNAIVPLHAHFRSRAPNFTQFKNNFSFSSPLSSFSSFRFSPICSLPERENGGFMPRGVGEAVNGLSQNKFLQVVLVSPQIPGNTGCIARTCAASACGLHLVGPLGFQVDDTKLKRAGLDYWPYVVIKVHSTWAEFRDYFRQQEGEKRLLAFTKRGTSTHSEISYRKGDYLIFGSETSGLPPEALLDCTSETFGGGTIRIPMVETYVRCLNLSVSVGIAVYEAARQLNYEQLKTASDTCIDREFPFITEDIFA
****SLKTFNAIVPLHAHFRSRAPNFTQFKNNFSFSSPLSSFSSFR**************F*******AVNGLSQNKFLQVVLVSPQIPGNTGCIARTCAASACGLHLVGPLGFQVDDTKLKRAGLDYWPYVVIKVHSTWAEFRDYFRQQEGEKRLLAFTKRGTSTHSEISYRKGDYLIFGSETSGLPPEALLDCTSETFGGGTIRIPMVETYVRCLNLSVSVGIAVYEAARQLNYEQLKTASDTCIDREFPFITEDIFA
oooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
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SSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiHHHHHHHHHHHHHHHHoooooooooooooooooooooooooooooo
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MDTTSLKTFNAIVPLHAHFRSRAPNFTQFKNNFSFSSPLSSFSSFRFSPICSLPERENGGFMPRGVGEAVNGLSQNKFLQVVLVSPQIPGNTGCIARTCAASACGLHLVGPLGFQVDDTKLKRAGLDYWPYVVIKVHSTWAEFRDYFRQQEGEKRLLAFTKRGTSTHSEISYRKGDYLIFGSETSGLPPEALLDCTSETFGGGTIRIPMVETYVRCLNLSVSVGIAVYEAARQLNYEQLKTASDTCIDREFPFITEDIFA
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 ?
Query260 2.2.26 [Sep-21-2011]
P74516153 Putative tRNA (cytidine(3 N/A no 0.573 0.973 0.490 3e-34
Q21LN7154 tRNA (cytidine(34)-2'-O)- no no 0.576 0.974 0.446 2e-32
Q74Y93162 tRNA (cytidine(34)-2'-O)- yes no 0.592 0.950 0.462 1e-31
P44868160 tRNA (cytidine(34)-2'-O)- yes no 0.580 0.943 0.456 1e-31
P0AGJ7157 tRNA (cytidine(34)-2'-O)- N/A no 0.576 0.955 0.452 4e-31
P0AGJ8157 tRNA (cytidine(34)-2'-O)- yes no 0.576 0.955 0.452 4e-31
O31590160 Putative tRNA (cytidine(3 yes no 0.584 0.95 0.442 6e-31
C7BSD3162 tRNA (cytidine(34)-2'-O)- yes no 0.592 0.950 0.462 1e-30
A0KAS4156 tRNA (cytidine(34)-2'-O)- yes no 0.588 0.980 0.418 3e-29
Q0BBL1156 tRNA (cytidine(34)-2'-O)- yes no 0.588 0.980 0.412 7e-29
>sp|P74516|TRML_SYNY3 Putative tRNA (cytidine(34)-2'-O)-methyltransferase OS=Synechocystis sp. (strain PCC 6803 / Kazusa) GN=slr0992 PE=3 SV=1 Back     alignment and function desciption
 Score =  145 bits (366), Expect = 3e-34,   Method: Compositional matrix adjust.
 Identities = 77/157 (49%), Positives = 105/157 (66%), Gaps = 8/157 (5%)

Query: 78  FLQVVLVSPQIPGNTGCIARTCAASACGLHLVGPLGFQVDDTKLKRAGLDYWPYVVIKVH 137
            +++VLV+PQIP NTG IARTCAA+   LHLVGPLGF++ D  LKRAGLDYWPYV +  H
Sbjct: 1   MVKLVLVNPQIPPNTGNIARTCAATGTELHLVGPLGFELGDRYLKRAGLDYWPYVDLHYH 60

Query: 138 STWAEFRDYFRQQEGEKRLLAFTKRGTSTHSEISYRKGDYLIFGSETSGLPPEALLDCTS 197
           ++  EF  ++R Q G   LL F+  GT    + +Y+  D+L+ GSET GL P+ + D ++
Sbjct: 61  NSCEEFITHWRGQGGN--LLGFSVTGTVNFWDYTYQSTDWLMMGSETDGL-PQMMRDLST 117

Query: 198 ETFGGGTIRIPMVETYVRCLNLSVSVGIAVYEAARQL 234
           +      + IPM  + VR LNL+ S  IA++EA RQL
Sbjct: 118 Q-----LLCIPMPHSEVRSLNLASSAAIALFEAGRQL 149
Could methylate the ribose at the nucleotide 34 wobble position in tRNA.
Synechocystis sp. (strain PCC 6803 / Kazusa) (taxid: 1111708)
EC: 2EC: .EC: 1EC: .EC: 1EC: .EC: 2EC: 0EC: 7
>sp|Q21LN7|TRML_SACD2 tRNA (cytidine(34)-2'-O)-methyltransferase OS=Saccharophagus degradans (strain 2-40 / ATCC 43961 / DSM 17024) GN=trmL PE=3 SV=2 Back     alignment and function description
>sp|Q74Y93|TRML_YERPE tRNA (cytidine(34)-2'-O)-methyltransferase OS=Yersinia pestis GN=trmL PE=1 SV=1 Back     alignment and function description
>sp|P44868|TRML_HAEIN tRNA (cytidine(34)-2'-O)-methyltransferase OS=Haemophilus influenzae (strain ATCC 51907 / DSM 11121 / KW20 / Rd) GN=trmL PE=1 SV=1 Back     alignment and function description
>sp|P0AGJ7|TRML_ECOLI tRNA (cytidine(34)-2'-O)-methyltransferase OS=Escherichia coli (strain K12) GN=trmL PE=1 SV=1 Back     alignment and function description
>sp|P0AGJ8|TRML_ECOL6 tRNA (cytidine(34)-2'-O)-methyltransferase OS=Escherichia coli O6:H1 (strain CFT073 / ATCC 700928 / UPEC) GN=trmL PE=3 SV=1 Back     alignment and function description
>sp|O31590|TRML_BACSU Putative tRNA (cytidine(34)-2'-O)-methyltransferase OS=Bacillus subtilis (strain 168) GN=cspR PE=3 SV=2 Back     alignment and function description
>sp|C7BSD3|TRML_PHOAA tRNA (cytidine(34)-2'-O)-methyltransferase OS=Photorhabdus asymbiotica subsp. asymbiotica (strain ATCC 43949 / 3105-77) GN=trmL PE=3 SV=2 Back     alignment and function description
>sp|A0KAS4|TRML_BURCH tRNA (cytidine(34)-2'-O)-methyltransferase OS=Burkholderia cenocepacia (strain HI2424) GN=trmL PE=3 SV=2 Back     alignment and function description
>sp|Q0BBL1|TRML_BURCM tRNA (cytidine(34)-2'-O)-methyltransferase OS=Burkholderia ambifaria (strain ATCC BAA-244 / AMMD) GN=trmL 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 ?
Query260
224104027264 predicted protein [Populus trichocarpa] 0.984 0.969 0.716 1e-101
297736221250 unnamed protein product [Vitis vinifera] 0.961 1.0 0.707 1e-99
255544240234 23S rRNA methyltransferase, putative [Ri 0.830 0.923 0.792 3e-97
358248530260 uncharacterized protein LOC100813874 [Gl 0.965 0.965 0.684 5e-95
388494462259 unknown [Lotus japonicus] 0.984 0.988 0.665 5e-95
449436275268 PREDICTED: putative tRNA (cytidine(34)-2 0.815 0.791 0.746 1e-92
297821280260 tRNA/rRNA methyltransferase family prote 0.888 0.888 0.686 2e-92
357457641278 tRNA/rRNA methyltransferase, putative [M 0.934 0.874 0.688 6e-92
359487352292 PREDICTED: putative tRNA (cytidine(34)-2 0.823 0.732 0.752 4e-90
334187967263 protein agamous-like 26 [Arabidopsis tha 0.926 0.916 0.649 5e-88
>gi|224104027|ref|XP_002313287.1| predicted protein [Populus trichocarpa] gi|222849695|gb|EEE87242.1| predicted protein [Populus trichocarpa] Back     alignment and taxonomy information
 Score =  373 bits (958), Expect = e-101,   Method: Compositional matrix adjust.
 Identities = 192/268 (71%), Positives = 216/268 (80%), Gaps = 12/268 (4%)

Query: 1   MDTT-SLKTFNAIVPLHAHFRSRAP-----NFTQFKNNFSFSSPLSSFSSFRFSPICSLP 54
           MDT+ SLKT N   PL  +FRSRA        +Q K +F+ S PLS      +SP CS  
Sbjct: 1   MDTSRSLKTLNITTPLPFNFRSRASLLRPFCLSQLKKHFNPSLPLSQC----YSPFCSQS 56

Query: 55  ERENGGFMPRGVGEAVNGLSQNK-FLQVVLVSPQIPGNTGCIARTCAASACGLHLVGPLG 113
            R NG  +P GVG+ VN +S+NK  LQVVLVSPQIPGNTGCIARTCAA++ GLHLVGPLG
Sbjct: 57  GRGNGNSLPDGVGKGVNEVSRNKKLLQVVLVSPQIPGNTGCIARTCAATSVGLHLVGPLG 116

Query: 114 FQVDDTKLKRAGLDYWPYVVIKVHSTWAEFRDYFRQQEGEKRLLAFTKRGTSTHSEISYR 173
           FQVDD KLKRAGLDYWPYVV+KVH +WAEF+DYFRQQEG+KRLLAFTKRGT+THSE SYR
Sbjct: 117 FQVDDAKLKRAGLDYWPYVVVKVHDSWAEFQDYFRQQEGDKRLLAFTKRGTTTHSEFSYR 176

Query: 174 KGDYLIFGSETSGLPPEALLDCTSETFGGGTIRIPMVETYVRCLNLSVSVGIAVYEAARQ 233
           KGDYL+FGSETSGLPPEALLDC SE FGGG IRIPMVETYVRCLNLSVSVGIA+YEA+RQ
Sbjct: 177 KGDYLVFGSETSGLPPEALLDCKSEMFGGGMIRIPMVETYVRCLNLSVSVGIALYEASRQ 236

Query: 234 LNYEQLKTASDTCID-REFPFITEDIFA 260
           LNYEQL+  S+  ++  E  FITEDIFA
Sbjct: 237 LNYEQLQFPSEDFVNGGEQSFITEDIFA 264

Source: Populus trichocarpa

Species: Populus trichocarpa

Genus: Populus

Family: Salicaceae

Order: Malpighiales

Class:

Phylum: Streptophyta

Superkingdom: Eukaryota
>gi|297736221|emb|CBI24859.3| unnamed protein product [Vitis vinifera] Back     alignment and taxonomy information
>gi|255544240|ref|XP_002513182.1| 23S rRNA methyltransferase, putative [Ricinus communis] gi|223547680|gb|EEF49173.1| 23S rRNA methyltransferase, putative [Ricinus communis] Back     alignment and taxonomy information
>gi|358248530|ref|NP_001239897.1| uncharacterized protein LOC100813874 [Glycine max] gi|255638690|gb|ACU19650.1| unknown [Glycine max] Back     alignment and taxonomy information
>gi|388494462|gb|AFK35297.1| unknown [Lotus japonicus] Back     alignment and taxonomy information
>gi|449436275|ref|XP_004135918.1| PREDICTED: putative tRNA (cytidine(34)-2'-O)-methyltransferase-like [Cucumis sativus] gi|449489068|ref|XP_004158205.1| PREDICTED: putative tRNA (cytidine(34)-2'-O)-methyltransferase-like [Cucumis sativus] Back     alignment and taxonomy information
>gi|297821280|ref|XP_002878523.1| tRNA/rRNA methyltransferase family protein [Arabidopsis lyrata subsp. lyrata] gi|297324361|gb|EFH54782.1| tRNA/rRNA methyltransferase family protein [Arabidopsis lyrata subsp. lyrata] Back     alignment and taxonomy information
>gi|357457641|ref|XP_003599101.1| tRNA/rRNA methyltransferase, putative [Medicago truncatula] gi|355488149|gb|AES69352.1| tRNA/rRNA methyltransferase, putative [Medicago truncatula] Back     alignment and taxonomy information
>gi|359487352|ref|XP_003633573.1| PREDICTED: putative tRNA (cytidine(34)-2'-O)-methyltransferase-like [Vitis vinifera] Back     alignment and taxonomy information
>gi|334187967|ref|NP_001190406.1| protein agamous-like 26 [Arabidopsis thaliana] gi|38603878|gb|AAR24684.1| At5g26880 [Arabidopsis thaliana] gi|110740973|dbj|BAE98581.1| hypothetical protein [Arabidopsis thaliana] gi|110743259|dbj|BAE99520.1| hypothetical protein [Arabidopsis thaliana] gi|332006236|gb|AED93619.1| protein agamous-like 26 [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 ?
Query260
UNIPROTKB|Q3AD16153 CHY_1122 "Putative tRNA (cytid 0.561 0.954 0.506 7.7e-32
TIGR_CMR|CHY_1122153 CHY_1122 "RNA methyltransferas 0.561 0.954 0.506 7.7e-32
UNIPROTKB|Q47VY7154 trmL "tRNA (cytidine(34)-2'-O) 0.573 0.967 0.468 2.7e-29
TIGR_CMR|BA_0547162 BA_0547 "RNA methyltransferase 0.580 0.932 0.463 2.7e-29
TIGR_CMR|CPS_4386154 CPS_4386 "RNA methyltransferas 0.573 0.967 0.468 2.7e-29
UNIPROTKB|P0AGJ7157 trmL "tRNA (cytidine/uridine-2 0.573 0.949 0.462 4.4e-29
TIGR_CMR|GSU_1197164 GSU_1197 "RNA methyltransferas 0.55 0.871 0.470 3.5e-27
UNIPROTKB|Q9KNN6158 trmL "tRNA (cytidine(34)-2'-O) 0.584 0.962 0.401 2.5e-26
TIGR_CMR|VC_2695158 VC_2695 "rRNA methylase, SpoU 0.584 0.962 0.401 2.5e-26
TIGR_CMR|SO_4529154 SO_4529 "RNA methyltransferase 0.569 0.961 0.426 7.6e-25
UNIPROTKB|Q3AD16 CHY_1122 "Putative tRNA (cytidine(34)-2'-O)-methyltransferase" [Carboxydothermus hydrogenoformans Z-2901 (taxid:246194)] Back     alignment and assigned GO terms
 Score = 349 (127.9 bits), Expect = 7.7e-32, P = 7.7e-32
 Identities = 79/156 (50%), Positives = 99/156 (63%)

Query:    81 VVLVSPQIPGNTGCIARTCAASACGLHLVGPLGFQVDDTKLKRAGLDYWPYVVIKVHSTW 140
             +VLV P+IP NTG IARTCAA+   LHLV PLGF  +D  LKRAGLDYW  V +  H  +
Sbjct:     4 IVLVEPEIPYNTGNIARTCAATGSTLHLVKPLGFSTEDKYLKRAGLDYWDKVRVIYHENF 63

Query:   141 AEFRDYFRQQEGEKRLLAFTKRGTSTHSEISYRKGDYLIFGSETSGLPPEALLDCTSETF 200
              E R+ +   EG  R    + +G   + E+SY+ GD+L+FG ET GLP E LL+   E F
Sbjct:    64 QELREKY--PEG--RFFYLSTKGKRYYHEVSYKPGDFLVFGKETQGLPQE-LLEANKE-F 117

Query:   201 GGGTIRIPMVETYVRCLNLSVSVGIAVYEAARQLNY 236
                T RIPM+   +R LNLS +V I VYEA RQL +
Sbjct:   118 ---TFRIPMLPQ-IRSLNLSNTVAIVVYEALRQLQF 149
GO:0008150 "biological_process" evidence=ND
TIGR_CMR|CHY_1122 CHY_1122 "RNA methyltransferase, TrmH family, group 2" [Carboxydothermus hydrogenoformans Z-2901 (taxid:246194)] Back     alignment and assigned GO terms
UNIPROTKB|Q47VY7 trmL "tRNA (cytidine(34)-2'-O)-methyltransferase" [Colwellia psychrerythraea 34H (taxid:167879)] Back     alignment and assigned GO terms
TIGR_CMR|BA_0547 BA_0547 "RNA methyltransferase, TrmH family, group 2" [Bacillus anthracis str. Ames (taxid:198094)] Back     alignment and assigned GO terms
TIGR_CMR|CPS_4386 CPS_4386 "RNA methyltransferase, TrmH family, group 2" [Colwellia psychrerythraea 34H (taxid:167879)] Back     alignment and assigned GO terms
UNIPROTKB|P0AGJ7 trmL "tRNA (cytidine/uridine-2'-O)-ribose methyltransferase" [Escherichia coli K-12 (taxid:83333)] Back     alignment and assigned GO terms
TIGR_CMR|GSU_1197 GSU_1197 "RNA methyltransferase, TrmH family, group 2, putative" [Geobacter sulfurreducens PCA (taxid:243231)] Back     alignment and assigned GO terms
UNIPROTKB|Q9KNN6 trmL "tRNA (cytidine(34)-2'-O)-methyltransferase" [Vibrio cholerae O1 biovar El Tor str. N16961 (taxid:243277)] Back     alignment and assigned GO terms
TIGR_CMR|VC_2695 VC_2695 "rRNA methylase, SpoU family" [Vibrio cholerae O1 biovar El Tor (taxid:686)] Back     alignment and assigned GO terms
TIGR_CMR|SO_4529 SO_4529 "RNA methyltransferase, TrmH family, group 2" [Shewanella oneidensis MR-1 (taxid:211586)] 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 Layer2.1.10.691

Prediction of Functionally Associated Proteins

Functionally Associated Proteins Detected by STRING ?

Original result from the STRING server

Your Input:
estExt_Genewise1_v1.C_LG_IX3215
hypothetical protein (264 aa)
(Populus trichocarpa)
Predicted Functional Partners:
 
Sorry, there are no predicted associations at the current settings.
 

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 ?
Query260
COG0219155 COG0219, CspR, Predicted rRNA methylase (SpoU clas 2e-64
TIGR00185153 TIGR00185, tRNA_yibK_trmL, tRNA (cytidine(34)-2'-O 5e-58
PRK10358157 PRK10358, PRK10358, putative rRNA methylase; Provi 2e-42
pfam00588142 pfam00588, SpoU_methylase, SpoU rRNA Methylase fam 1e-41
COG0566260 COG0566, SpoU, rRNA methylases [Translation, ribos 9e-14
COG0565242 COG0565, LasT, rRNA methylase [Translation, riboso 9e-07
PRK11081229 PRK11081, PRK11081, tRNA guanosine-2'-O-methyltran 2e-05
TIGR00050233 TIGR00050, rRNA_methyl_1, RNA methyltransferase, T 8e-05
TIGR00186237 TIGR00186, rRNA_methyl_3, rRNA methylase, putative 5e-04
>gnl|CDD|223297 COG0219, CspR, Predicted rRNA methylase (SpoU class) [Translation, ribosomal structure and biogenesis] Back     alignment and domain information 
 Score =  197 bits (504), Expect = 2e-64
 Identities = 75/162 (46%), Positives = 101/162 (62%), Gaps = 9/162 (5%)

Query: 79  LQVVLVSPQIPGNTGCIARTCAASACGLHLVGPLGFQVDDTKLKRAGLDYWPYVVIKVHS 138
           L +VL  P+IP NTG I RTCAA+   LHL+ PLGF +DD +LKRAGLDY     +  H 
Sbjct: 3   LNIVLYQPEIPPNTGNIIRTCAATGAELHLIEPLGFDLDDKRLKRAGLDYHEKASLTEHD 62

Query: 139 TWAEFRDYFRQQEGEKRLLAFTKRGTSTHSEISYRKGDYLIFGSETSGLPPEALLDCTSE 198
           +   F +    +    RL A T +GT+T++++S++KGDYL+FG E+ GL PE +LD   +
Sbjct: 63  SLEAFLE---AEPIGGRLFALTTKGTTTYTDVSFQKGDYLLFGPESRGL-PEEILDAAPD 118

Query: 199 TFGGGTIRIPMVETYVRCLNLSVSVGIAVYEAARQLNYEQLK 240
                 IRIPM    VR LNLS +V + +YEA RQL +  L 
Sbjct: 119 R----CIRIPMRPG-VRSLNLSNTVAVVLYEALRQLGFAGLD 155

Length = 155
>gnl|CDD|211559 TIGR00185, tRNA_yibK_trmL, tRNA (cytidine(34)-2'-O)-methyltransferase Back     alignment and domain information
>gnl|CDD|182406 PRK10358, PRK10358, putative rRNA methylase; Provisional Back     alignment and domain information
>gnl|CDD|216010 pfam00588, SpoU_methylase, SpoU rRNA Methylase family Back     alignment and domain information
>gnl|CDD|223640 COG0566, SpoU, rRNA methylases [Translation, ribosomal structure and biogenesis] Back     alignment and domain information
>gnl|CDD|223639 COG0565, LasT, rRNA methylase [Translation, ribosomal structure and biogenesis] Back     alignment and domain information
>gnl|CDD|236837 PRK11081, PRK11081, tRNA guanosine-2'-O-methyltransferase; Provisional Back     alignment and domain information
>gnl|CDD|232800 TIGR00050, rRNA_methyl_1, RNA methyltransferase, TrmH family, group 1 Back     alignment and domain information
>gnl|CDD|129290 TIGR00186, rRNA_methyl_3, rRNA methylase, putative, group 3 Back     alignment and domain information

Conserved Domains Detected by HHsearch ?

Original result of HHsearch against CDD database

ID ?Alignment Graph ?Length ? Definition ? Probability ?
Query 260
COG0566260 SpoU rRNA methylases [Translation, ribosomal struc 100.0
PRK11181244 23S rRNA (guanosine-2'-O-)-methyltransferase; Prov 100.0
PRK10864346 putative methyltransferase; Provisional 100.0
TIGR00186237 rRNA_methyl_3 rRNA methylase, putative, group 3. t 100.0
TIGR00185153 rRNA_methyl_2 rRNA methylase, putative, group 2. t 100.0
PRK10358157 putative rRNA methylase; Provisional 100.0
PRK11081229 tRNA guanosine-2'-O-methyltransferase; Provisional 100.0
PF00588142 SpoU_methylase: SpoU rRNA Methylase family; InterP 100.0
COG0219155 CspR Predicted rRNA methylase (SpoU class) [Transl 100.0
KOG2506371 consensus SpoU rRNA Methylase family protein [Tran 99.97
TIGR00050233 rRNA_methyl_1 RNA methyltransferase, TrmH family, 99.97
PRK15114245 tRNA (cytidine/uridine-2'-O-)-methyltransferase Tr 99.97
PRK10433228 putative RNA methyltransferase; Provisional 99.95
KOG0838271 consensus RNA Methylase, SpoU family [RNA processi 99.92
COG0565242 LasT rRNA methylase [Translation, ribosomal struct 99.91
KOG08391477 consensus RNA Methylase, SpoU family [RNA processi 99.79
PRK03958176 tRNA 2'-O-methylase; Reviewed 98.28
COG4080147 SpoU rRNA Methylase family enzyme [General functio 97.72
PF09936185 Methyltrn_RNA_4: SAM-dependent RNA methyltransfera 97.7
PF0803276 SpoU_sub_bind: RNA 2'-O ribose methyltransferase s 95.87
PF09895106 DUF2122: RecB-family nuclease (DUF2122); InterPro: 95.21
COG4752190 Uncharacterized protein conserved in bacteria [Fun 95.12
COG1303179 Uncharacterized protein conserved in archaea [Func 94.96
PRK12703 339 tRNA 2'-O-methylase; Reviewed 93.39
PRK02135201 hypothetical protein; Provisional 89.0
PF01994120 Trm56: tRNA ribose 2'-O-methyltransferase, aTrm56; 88.31
KOG0838271 consensus RNA Methylase, SpoU family [RNA processi 85.34
PF14419173 SPOUT_MTase_2: AF2226-like SPOUT RNA Methylase fus 80.48
>COG0566 SpoU rRNA methylases [Translation, ribosomal structure and biogenesis] Back     alignment and domain information 
Probab=100.00  E-value=2.3e-45  Score=331.54  Aligned_cols=215  Identities=21%  Similarity=0.184  Sum_probs=176.9

Q ss_pred             hhHHHHhhhcCCcceeeecCccc--cccCCCCcCCC--cccCCC--ccccccCCCCCceEEEEEecCCC----------C
Q 024933           13 VPLHAHFRSRAPNFTQFKNNFSF--SSPLSSFSSFR--FSPICS--LPERENGGFMPRGVGEAVNGLSQ----------N   76 (260)
Q Consensus        13 ~~~~~~~~~~~~~~~~l~~~~~~--~~~~~~~~~~~--~~~~~~--~~~~~~~~~~~qGv~a~~~~~~~----------~   76 (260)
                      |++.++|.++.+..+.++..+..  .+++.....++  .+..++  ..+.++++.+||||+|+++++..          .
T Consensus        28 ~~v~~al~~~~~i~~i~~~~~~~~~~~~~~~~~~~~~~~~~~v~~~~l~~~~~~~~hqGi~a~~~~~~~~~~~~~~~~~~  107 (260)
T COG0566          28 HAVLEALASGPKIVRILVTEGRLPRFEELLALAAAKGIPVYVVSEAILDKLSGTENHQGIVAVVKKRRYPLLDDLLDAEA  107 (260)
T ss_pred             HHHHHHHhcCCCceEEEEecccchhHHHHHHHHHhcCCeEEEECHHHHHHHhCCCCCCeEEEEEecccccchhhhhhccc
Confidence            89999999999554444443322  11122121122  222222  23447789999999999998752          2


Q ss_pred             ccEEEEEeCCCCCCcHHHHHHhhhhcccceEEECCCCCCCChhHHHHhcCCCcceEEEEEcC-CHHHHHHHHhhhcCCcE
Q 024933           77 KFLQVVLVSPQIPGNTGCIARTCAASACGLHLVGPLGFQVDDTKLKRAGLDYWPYVVIKVHS-TWAEFRDYFRQQEGEKR  155 (260)
Q Consensus        77 ~~l~vvLd~i~dp~NlGaIiRta~afGv~~viv~~~~~~~~~~k~~rag~~~~~~v~v~~~~-~~~~~l~~lk~~~~g~~  155 (260)
                      .+++|+||+|+||+|+|+|+|||+|||++++++..++.++.++++.|+++|+++++++.+.. +..++++.+++.  |+|
T Consensus       108 ~~l~lvLd~V~DP~NlGaIiRtA~a~Gv~~Vi~~~~~~~~~~~~v~r~s~Ga~~~vp~~~~~n~~~~~~~~~~~~--G~~  185 (260)
T COG0566         108 QPLLLVLDGVTDPHNLGAIIRTADAFGVDGVILPKRRADPLNPKVIRASAGAAFHVPVIRVTNLARTLLELLKEA--GFW  185 (260)
T ss_pred             CCEEEEEecCcCCcchhhHHhhHHHhCCCEEEECCCccCCccceeEEecCChheeceeEEEeccHHHHHHHHHHc--CeE
Confidence            37999999999999999999999999999999999999999999999999999888866666 577777777655  999


Q ss_pred             EEEEEcCCCcCcccccCCCCeEEEEcCCCCCCCHHHHhhCcCCCCCceeEEEcCCCCCCccccHHHHHHHHHHHHHHccc
Q 024933          156 LLAFTKRGTSTHSEISYRKGDYLIFGSETSGLPPEALLDCTSETFGGGTIRIPMVETYVRCLNLSVSVGIAVYEAARQLN  235 (260)
Q Consensus       156 iva~~~~~~~~l~~~~~~~~~aLV~GnE~~GLs~e~l~~cD~~~~~~~~v~IPm~g~~v~SLNVsvAaaI~Lyel~rq~~  235 (260)
                      ++|++..+..++++.++++|++||||||+.|||+++++.||.      .|+|||.| .++|||||||+||+|||+.||+.
T Consensus       186 v~~t~~~~~~~~~~~~~~~~~aLvlG~Eg~Gls~~~~~~~D~------~v~IPm~G-~v~SLNVsvAagI~Lye~~rq~~  258 (260)
T COG0566         186 VVATSLDGEVDLYETDLPKKTALVLGNEGEGLSRLLLEHADQ------LVRIPMAG-KVESLNVSVAAGILLYEARRQRR  258 (260)
T ss_pred             EEEECCCCCcchhhccccCCEEEEECCCCCCcCHHHHhhCCE------EEEecCCC-CcchhHHHHHHHHHHHHHHHhhc
Confidence            999999998889999999999999999999999999999999      99999999 69999999999999999999985


Q ss_pred             c
Q 024933          236 Y  236 (260)
Q Consensus       236 ~  236 (260)
                      .
T Consensus       259 ~  259 (260)
T COG0566         259 A  259 (260)
T ss_pred             C
Confidence            3

>PRK11181 23S rRNA (guanosine-2'-O-)-methyltransferase; Provisional 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
>TIGR00185 rRNA_methyl_2 rRNA methylase, putative, group 2 Back     alignment and domain information
>PRK10358 putative rRNA methylase; Provisional Back     alignment and domain information
>PRK11081 tRNA guanosine-2'-O-methyltransferase; Provisional 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
>COG0219 CspR Predicted rRNA methylase (SpoU class) [Translation, ribosomal structure and biogenesis] Back     alignment and domain information
>KOG2506 consensus SpoU rRNA Methylase family protein [Translation, ribosomal structure and biogenesis] Back     alignment and domain information
>TIGR00050 rRNA_methyl_1 RNA methyltransferase, TrmH family, group 1 Back     alignment and domain information
>PRK15114 tRNA (cytidine/uridine-2'-O-)-methyltransferase TrmJ; Provisional Back     alignment and domain information
>PRK10433 putative RNA methyltransferase; Provisional Back     alignment and domain information
>KOG0838 consensus RNA Methylase, SpoU family [RNA processing and modification] Back     alignment and domain information
>COG0565 LasT rRNA methylase [Translation, ribosomal structure and biogenesis] Back     alignment and domain information
>KOG0839 consensus RNA Methylase, SpoU family [RNA processing and modification] Back     alignment and domain information
>PRK03958 tRNA 2'-O-methylase; Reviewed Back     alignment and domain information
>COG4080 SpoU rRNA Methylase family enzyme [General function prediction only] Back     alignment and domain information
>PF09936 Methyltrn_RNA_4: SAM-dependent RNA methyltransferase; InterPro: IPR019230 This entry contains proteins that have no known function Back     alignment and domain information
>PF08032 SpoU_sub_bind: RNA 2'-O ribose methyltransferase substrate binding; InterPro: IPR013123 Most cellular RNAs undergo a number of post-transcriptional nucleoside modifications Back     alignment and domain information
>PF09895 DUF2122: RecB-family nuclease (DUF2122); InterPro: IPR018665 This family of archaeal proteins include RecB nuclease-like proteins as well as proteins of no known function Back     alignment and domain information
>COG4752 Uncharacterized protein conserved in bacteria [Function unknown] Back     alignment and domain information
>COG1303 Uncharacterized protein conserved in archaea [Function unknown] Back     alignment and domain information
>PRK12703 tRNA 2'-O-methylase; Reviewed Back     alignment and domain information
>PRK02135 hypothetical protein; Provisional Back     alignment and domain information
>PF01994 Trm56: tRNA ribose 2'-O-methyltransferase, aTrm56; InterPro: IPR002845 This entry represents tRNA ribose 2'-O-methyltransferase aTrm56, which specifically catalyzes the AdoMet-dependent 2'-O-ribose methylation of cytidine at position 56 in tRNAs Back     alignment and domain information
>KOG0838 consensus RNA Methylase, SpoU family [RNA processing and modification] Back     alignment and domain information
>PF14419 SPOUT_MTase_2: AF2226-like SPOUT RNA Methylase fused to THUMP 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 ?
Query260
3n4j_A165 Putative Rna Methyltransferase From Yersinia Pestis 2e-33
1j85_A160 Structure Of Yibk From Haemophilus Influenzae (Hi07 1e-32
3e5y_A160 Crystal Structure Of Trmh Family Rna Methyltransfer 3e-29
3l8u_A182 Crystal Structure Of Smu.1707c, A Putative Rrna Met 4e-29
1v2x_A194 Trmh Length = 194 5e-08
3nk6_A277 Structure Of The Nosiheptide-Resistance Methyltrans 6e-07
3gyq_A272 Structure Of The Thiostrepton-Resistance Methyltran 2e-06
1zjr_A211 Crystal Structure Of A. Aeolicus TrmhSPOU TRNA MODI 4e-04
>pdb|3N4J|A Chain A, Putative Rna Methyltransferase From Yersinia Pestis Length = 165 Back     alignment and structure 
Iteration: 1

 Score =  139 bits (349), Expect = 2e-33,   Method: Compositional matrix adjust.
 Identities = 75/162 (46%), Positives = 95/162 (58%), Gaps = 6/162 (3%)
Query: 76  NKFLQVVLVSPQIPGNTGCIARTCAASACGLHLVGPLGFQVDDTKLKRAGLDYWPYVVIK 135
           N  L +VL  P+IP NTG I R CA + C LHL+ PLGF  DD +L+RAGLDY  +  IK
Sbjct: 2   NAMLNIVLFEPEIPPNTGNIIRLCANTGCQLHLIKPLGFTWDDKRLRRAGLDYHEFADIK 61
Query: 136 VHSTWAEFRDYFRQQEGE-KRLLAFTKRGTSTHSEISYRKGDYLIFGSETSGLPPEALLD 194
            H  +  F D  +    +  RL A T +GT  HS +SY+  DYL+FG ET GLP   L  
Sbjct: 62  HHHDYQAFLDSEKLDSTQPARLFALTTKGTPAHSAVSYQANDYLLFGPETRGLPAYILDA 121
Query: 195 CTSETFGGGTIRIPMVETYVRCLNLSVSVGIAVYEAARQLNY 236
             ++      IRIPM +   R +NLS +V + VYEA RQL Y
Sbjct: 122 LPAQQ----KIRIPM-QADSRSMNLSNAVSVVVYEAWRQLGY 158
>pdb|1J85|A Chain A, Structure Of Yibk From Haemophilus Influenzae (Hi0766), A Truncated Sequence Homolog Of Trna (Guanosine-2'-O-) Methyltransferase (Spou) Length = 160 Back     alignment and structure
>pdb|3E5Y|A Chain A, Crystal Structure Of Trmh Family Rna Methyltransferase From Burkholderia Pseudomallei Length = 160 Back     alignment and structure
>pdb|3L8U|A Chain A, Crystal Structure Of Smu.1707c, A Putative Rrna Methyltransferase From Streptococcus Mutans Ua159 Length = 182 Back     alignment and structure
>pdb|1V2X|A Chain A, Trmh Length = 194 Back     alignment and structure
>pdb|3NK6|A Chain A, Structure Of The Nosiheptide-Resistance Methyltransferase Length = 277 Back     alignment and structure
>pdb|3GYQ|A Chain A, Structure Of The Thiostrepton-Resistance Methyltransferase S-Adenosyl-L-Methionine Complex Length = 272 Back     alignment and structure
>pdb|1ZJR|A Chain A, Crystal Structure Of A. Aeolicus TrmhSPOU TRNA MODIFYING ENZYME Length = 211 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 ?
Query260
3n4j_A165 RNA methyltransferase; center for structural genom 1e-82
3l8u_A182 SMU.1707C, putative rRNA methylase; methyltransfer 7e-82
3e5y_A160 TRMH family RNA methyltransferase; ssgcid, protein 9e-82
1x7o_A287 Avirb, rRNA methyltransferase; SPOU, C-terminal kn 4e-17
1ipa_A274 RRMH, RNA 2'-O-ribose methyltransferase; DEEP tref 3e-16
1v2x_A194 TRNA (GM18) methyltransferase; DEEP trefoil knot, 1e-14
1zjr_A211 TRNA (guanosine-2'-O-)-methyltransferase; methylas 4e-14
3nk6_A277 23S rRNA methyltransferase; nosiheptide, nosihepti 1e-13
2ha8_A184 TAR (HIV-1) RNA loop binding protein; methyltransf 3e-13
2i6d_A257 RNA methyltransferase, TRMH family; stuctural geno 3e-12
1vt4_I 1221 APAF-1 related killer DARK; drosophila apoptosome, 1e-07
1gz0_A253 Hypothetical tRNA/RRNA methyltransferase YJFH; 2'O 5e-07
3ic6_A223 Putative methylase family protein; putative methyl 1e-06
3ilk_A244 Uncharacterized tRNA/RRNA methyltransferase HI038; 1e-06
3onp_A249 TRNA/RRNA methyltransferase (SPOU); structural gen 2e-06
3kty_A173 Probable methyltransferase; alpha-beta-alpha sandw 7e-06
>3n4j_A RNA methyltransferase; center for structural genomics of INF diseases, csgid; 1.47A {Yersinia pestis} PDB: 3n4k_A* 1mxi_A* 1j85_A* Length = 165 Back     alignment and structure
 Score =  243 bits (624), Expect = 1e-82
 Identities = 75/163 (46%), Positives = 93/163 (57%), Gaps = 6/163 (3%)

Query: 76  NKFLQVVLVSPQIPGNTGCIARTCAASACGLHLVGPLGFQVDDTKLKRAGLDYWPYVVIK 135
           N  L +VL  P+IP NTG I R CA + C LHL+ PLGF  DD +L+RAGLDY  +  IK
Sbjct: 2   NAMLNIVLFEPEIPPNTGNIIRLCANTGCQLHLIKPLGFTWDDKRLRRAGLDYHEFADIK 61

Query: 136 VHSTWAEFRDYFR-QQEGEKRLLAFTKRGTSTHSEISYRKGDYLIFGSETSGLPPEALLD 194
            H  +  F D  +       RL A T +GT  HS +SY+  DYL+FG ET GLP   L  
Sbjct: 62  HHHDYQAFLDSEKLDSTQPARLFALTTKGTPAHSAVSYQANDYLLFGPETRGLPAYILDA 121

Query: 195 CTSETFGGGTIRIPMVETYVRCLNLSVSVGIAVYEAARQLNYE 237
             ++      IRIPM     R +NLS +V + VYEA RQL Y 
Sbjct: 122 LPAQQ----KIRIPMQAD-SRSMNLSNAVSVVVYEAWRQLGYP 159
>3l8u_A SMU.1707C, putative rRNA methylase; methyltransferase, knotted protein; 2.00A {Streptococcus mutans} Length = 182 Back     alignment and structure
>3e5y_A TRMH family RNA methyltransferase; ssgcid, protein knot, decode, structural genomics; 2.40A {Burkholderia pseudomallei 305} Length = 160 Back     alignment and structure
>1x7o_A Avirb, rRNA methyltransferase; SPOU, C-terminal knot, seMet; 2.37A {Streptomyces viridochromogenes} PDB: 1x7p_A* Length = 287 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 Length = 274 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 Length = 194 Back     alignment and structure
>1zjr_A TRNA (guanosine-2'-O-)-methyltransferase; methylase, RNA modifying enzyme, topological knot; 1.85A {Aquifex aeolicus} Length = 211 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* Length = 277 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} Length = 184 Back     alignment and structure
>2i6d_A RNA methyltransferase, TRMH family; stuctural genomics, PORP gingivalis, knot, structural genomics, PSI-2, protein struc initiative; HET: MSE; 1.85A {Porphyromonas gingivalis} Length = 257 Back     alignment and structure
>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
>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 Length = 253 Back     alignment and structure
>3ic6_A Putative methylase family protein; putative methylase family Pro structural genomics, PSI-2, protein structure initiative; 2.59A {Neisseria gonorrhoeae fa 1090} Length = 223 Back     alignment and structure
>3ilk_A Uncharacterized tRNA/RRNA methyltransferase HI038; APC63004, methylase family protein, haemophilus influenzae R structural genomics; 2.01A {Haemophilus influenzae} Length = 244 Back     alignment and structure
>3onp_A TRNA/RRNA methyltransferase (SPOU); structural genomics, PSI-2, protein structure initiative, MI center for structural genomics, MCSG; 1.90A {Rhodobacter sphaeroides} Length = 249 Back     alignment and structure
>3kty_A Probable methyltransferase; alpha-beta-alpha sandwich, structural genomics, PSI-2, prote structure initiative; 2.30A {Bordetella pertussis} Length = 173 Back     alignment and structure

Structure Templates Detected by HHsearch ?

Original result of HHsearch against PDB70 database

ID ?Alignment Graph ?Length ? Definition ? Probability ?
Query260
1gz0_A253 Hypothetical tRNA/RRNA methyltransferase YJFH; 2'O 100.0
2i6d_A257 RNA methyltransferase, TRMH family; stuctural geno 100.0
1ipa_A274 RRMH, RNA 2'-O-ribose methyltransferase; DEEP tref 100.0
3nk6_A277 23S rRNA methyltransferase; nosiheptide, nosihepti 100.0
1x7o_A287 Avirb, rRNA methyltransferase; SPOU, C-terminal kn 100.0
3n4j_A165 RNA methyltransferase; center for structural genom 100.0
3e5y_A160 TRMH family RNA methyltransferase; ssgcid, protein 100.0
3l8u_A182 SMU.1707C, putative rRNA methylase; methyltransfer 100.0
2ha8_A184 TAR (HIV-1) RNA loop binding protein; methyltransf 100.0
1v2x_A194 TRNA (GM18) methyltransferase; DEEP trefoil knot, 100.0
1zjr_A211 TRNA (guanosine-2'-O-)-methyltransferase; methylas 100.0
3kty_A173 Probable methyltransferase; alpha-beta-alpha sandw 100.0
3onp_A249 TRNA/RRNA methyltransferase (SPOU); structural gen 99.97
3ilk_A244 Uncharacterized tRNA/RRNA methyltransferase HI038; 99.97
3ic6_A223 Putative methylase family protein; putative methyl 99.97
3dcm_X192 AdoMet, uncharacterized protein TM_1570; trefoil k 99.7
2yy8_A201 ATRM56, UPF0106 protein PH0461; DEEP trefoil knot, 94.86
2o3a_A178 UPF0106 protein AF_0751; structural genomics, unkn 94.45
2qmm_A197 UPF0217 protein AF_1056; alpha/beta knot, SAM, str 91.41
2qwv_A208 UPF0217 protein VC_A1059; unknown function, struct 88.92
4e8b_A251 Ribosomal RNA small subunit methyltransferase E; 1 88.38
3aia_A211 UPF0217 protein MJ1640; DUF358, rRNA methyltransfe 84.5
>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
Probab=100.00  E-value=2e-45  Score=329.30  Aligned_cols=213  Identities=18%  Similarity=0.184  Sum_probs=178.5

Q ss_pred             hhHHHHhhhcCCcceeeecCccccc-cCCCCc---CCC--cccCCC--ccccccCCCCCceEEEEEecCCC---------
Q 024933           13 VPLHAHFRSRAPNFTQFKNNFSFSS-PLSSFS---SFR--FSPICS--LPERENGGFMPRGVGEAVNGLSQ---------   75 (260)
Q Consensus        13 ~~~~~~~~~~~~~~~~l~~~~~~~~-~~~~~~---~~~--~~~~~~--~~~~~~~~~~~qGv~a~~~~~~~---------   75 (260)
                      +++.++++++.+.+..+++..+... .+..+.   ..+  .+..++  .++.++++.+||||+|+++.+..         
T Consensus        19 ~~V~eal~~~~~~i~~l~~~~~~~~~~~~~l~~~~~~~~i~v~~v~~~~l~~ls~~~~~qGv~a~~~~~~~~~~~~l~~~   98 (253)
T 1gz0_A           19 HAVQALLERAPERFQEVFILKGREDKRLLPLIHALESQGVVIQLANRQYLDEKSDGAVHQGIIARVKPGRQYQENDLPDL   98 (253)
T ss_dssp             HHHHHHHHSCGGGEEEEEEESSCCCTTTHHHHHHHHHHTCEEEEECSHHHHHTTTSCCCTTEEEEECCCCCCCGGGHHHH
T ss_pred             HHHHHHHhcCCCCeEEEEEECCccchhHHHHHHHHHHCCCcEEEeCHHHHHHHhCCCCCcEEEEEEeccccCcHHHHHHH
Confidence            8999999988655677777543211 111110   011  111122  23558889999999999987531         


Q ss_pred             ----CccEEEEEeCCCCCCcHHHHHHhhhhcccceEEECCCCCCCChhHHHHhcCCCcceEEEEEcCCHHHHHHHHhhhc
Q 024933           76 ----NKFLQVVLVSPQIPGNTGCIARTCAASACGLHLVGPLGFQVDDTKLKRAGLDYWPYVVIKVHSTWAEFRDYFRQQE  151 (260)
Q Consensus        76 ----~~~l~vvLd~i~dp~NlGaIiRta~afGv~~viv~~~~~~~~~~k~~rag~~~~~~v~v~~~~~~~~~l~~lk~~~  151 (260)
                          +.+++||||+|+||+|+|+|+|||++||++.+++.+.+++++++++.|+++|+++++++..+.++.++++++++. 
T Consensus        99 ~~~~~~~~~lvLd~v~dp~NlGaI~Rta~a~G~~~vil~~~~~~~~~~~~~ras~Ga~~~l~~~~~~~~~~~l~~l~~~-  177 (253)
T 1gz0_A           99 IASLDQPFLLILDGVTDPHNLGACLRSADAAGVHAVIVPKDRSAQLNATAKKVACGAAESVPLIRVTNLARTMRMLQEE-  177 (253)
T ss_dssp             HHTCSSCEEEEEESCCCHHHHHHHHHHHHHHTCSEEEEESSSSCCCCHHHHHHHTTHHHHSCEEEESCHHHHHHHHHHT-
T ss_pred             HhccCCCEEEEEeCCCCcCcHHHHHHHHHHhCCCEEEEeCCCCCCCCHHHHhhhcchheEEEEEEeCCHHHHHHHHHHC-
Confidence                246899999999999999999999999999999988888899999999999999888888889999999999976 


Q ss_pred             CCcEEEEEEcCCCcCcccccCCCCeEEEEcCCCCCCCHHHHhhCcCCCCCceeEEEcCCCCCCccccHHHHHHHHHHHHH
Q 024933          152 GEKRLLAFTKRGTSTHSEISYRKGDYLIFGSETSGLPPEALLDCTSETFGGGTIRIPMVETYVRCLNLSVSVGIAVYEAA  231 (260)
Q Consensus       152 ~g~~iva~~~~~~~~l~~~~~~~~~aLV~GnE~~GLs~e~l~~cD~~~~~~~~v~IPm~g~~v~SLNVsvAaaI~Lyel~  231 (260)
                       |++++|++.++..++++++++++++||||||++|||+++++.||.      .|+|||.| .++|||||+|+||+|||++
T Consensus       178 -g~~i~~~~~~~~~~~~~~~~~~~~alv~G~E~~Gls~~~~~~~d~------~v~IPm~g-~~~SLNvsvAaaI~lye~~  249 (253)
T 1gz0_A          178 -NIWIVGTAGEADHTLYQSKMTGRLALVMGAEGEGMRRLTREHCDE------LISIPMAG-SVSSLNVSVATGICLFEAV  249 (253)
T ss_dssp             -TCEEEEECTTCSEEGGGSCCCSSEEEEEEBTTTBSCHHHHHTCSE------EEECCCSS-SSCCCCHHHHHHHHHHHHH
T ss_pred             -CCEEEEEECCCCcchhhccCCCCEEEEECCCCcCcCHHHHHhCCE------EEEECCCC-CCCceeHHHHHHHHHHHHH
Confidence             899999998888889999999999999999999999999999999      99999999 5999999999999999999


Q ss_pred             Hcc
Q 024933          232 RQL  234 (260)
Q Consensus       232 rq~  234 (260)
                      ||+
T Consensus       250 rq~  252 (253)
T 1gz0_A          250 RQR  252 (253)
T ss_dssp             HHT
T ss_pred             Hhh
Confidence            986
>2i6d_A RNA methyltransferase, TRMH family; stuctural genomics, PORP gingivalis, knot, structural genomics, PSI-2, protein struc initiative; HET: MSE; 1.85A {Porphyromonas gingivalis} 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
>1x7o_A Avirb, rRNA methyltransferase; SPOU, C-terminal knot, seMet; 2.37A {Streptomyces viridochromogenes} PDB: 1x7p_A* Back     alignment and structure
>3n4j_A RNA methyltransferase; center for structural genomics of INF diseases, csgid; 1.47A {Yersinia pestis} SCOP: c.116.1.1 PDB: 3n4k_A* 1mxi_A* 1j85_A* Back     alignment and structure
>3e5y_A TRMH family RNA methyltransferase; ssgcid, protein knot, decode, structural genomics; 2.40A {Burkholderia pseudomallei 305} SCOP: c.116.1.0 Back     alignment and structure
>3l8u_A SMU.1707C, putative rRNA methylase; methyltransferase, knotted protein; 2.00A {Streptococcus mutans} SCOP: c.116.1.0 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
>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
>1zjr_A TRNA (guanosine-2'-O-)-methyltransferase; methylase, RNA modifying enzyme, topological knot; 1.85A {Aquifex aeolicus} 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
>3onp_A TRNA/RRNA methyltransferase (SPOU); structural genomics, PSI-2, protein structure initiative, MI center for structural genomics, MCSG; 1.90A {Rhodobacter sphaeroides} Back     alignment and structure
>3ilk_A Uncharacterized tRNA/RRNA methyltransferase HI038; APC63004, methylase family protein, haemophilus influenzae R structural genomics; 2.01A {Haemophilus influenzae} Back     alignment and structure
>3ic6_A Putative methylase family protein; putative methylase family Pro structural genomics, PSI-2, protein structure initiative; 2.59A {Neisseria gonorrhoeae fa 1090} Back     alignment and structure
>3dcm_X AdoMet, uncharacterized protein TM_1570; trefoil knot, spout mtase, adoMet binding, transferase; HET: SAM; 2.00A {Thermotoga maritima} Back     alignment and structure
>2yy8_A ATRM56, UPF0106 protein PH0461; DEEP trefoil knot, structural genomics, NPPSFA; HET: SAM MTA; 2.48A {Pyrococcus horikoshii} Back     alignment and structure
>2o3a_A UPF0106 protein AF_0751; structural genomics, unknown function, PSI-2, protein structure initiative; 2.20A {Archaeoglobus fulgidus} SCOP: c.116.1.8 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
>4e8b_A Ribosomal RNA small subunit methyltransferase E; 16S rRNA methyltransferase; 2.25A {Escherichia coli} 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 260
d1mxia_156 c.116.1.1 (A:) Hypothetical tRNA/rRNA methyltransf 4e-33
d1gz0a1166 c.116.1.1 (A:78-243) RlmB, C-terminal domain {Esch 1e-24
d1v2xa_191 c.116.1.1 (A:) tRNA (Gm18) methyltransferase TrmH 3e-19
d1ipaa1158 c.116.1.1 (A:106-263) RrmA (RrmH), C-terminal doma 5e-18
>d1mxia_ c.116.1.1 (A:) Hypothetical tRNA/rRNA methyltransfease HI0766 (YibK homologue) {Haemophilus influenzae [TaxId: 727]} Length = 156 Back     information, alignment and structure

class: Alpha and beta proteins (a/b)
fold: alpha/beta knot
superfamily: alpha/beta knot
family: SpoU-like RNA 2'-O ribose methyltransferase
domain: Hypothetical tRNA/rRNA methyltransfease HI0766 (YibK homologue)
species: Haemophilus influenzae [TaxId: 727]

 Score =  116 bits (290), Expect = 4e-33
 Identities = 73/159 (45%), Positives = 95/159 (59%), Gaps = 9/159 (5%)

Query: 79  LQVVLVSPQIPGNTGCIARTCAASACGLHLVGPLGFQVDDTKLKRAGLDYWPYVVIKVHS 138
           L +VL  P+IP NTG I R CA +   LHL+ PLGF  DD +L+R+GLDY  +  IK H 
Sbjct: 2   LDIVLYEPEIPQNTGNIIRLCANTGFRLHLIEPLGFTWDDKRLRRSGLDYHEFAEIKRHK 61

Query: 139 TWAEFRDYFRQQEGEKRLLAFTKRGTSTHSEISYRKGDYLIFGSETSGLPPEALLDCTSE 198
           T+    + F + E  KRL A T +G   HS++ ++ GDYL+FG ET G+P   L +   E
Sbjct: 62  TF----EAFLESEKPKRLFALTTKGCPAHSQVKFKLGDYLMFGPETRGIPMSILNEMPME 117

Query: 199 TFGGGTIRIPMVETYVRCLNLSVSVGIAVYEAARQLNYE 237
                 IRIPM     R +NLS SV + VYEA RQL Y+
Sbjct: 118 Q----KIRIPMTAN-SRSMNLSNSVAVTVYEAWRQLGYK 151
>d1gz0a1 c.116.1.1 (A:78-243) RlmB, C-terminal domain {Escherichia coli [TaxId: 562]} Length = 166 Back     information, alignment and structure
>d1v2xa_ c.116.1.1 (A:) tRNA (Gm18) methyltransferase TrmH {Thermus thermophilus [TaxId: 274]} Length = 191 Back     information, alignment and structure
>d1ipaa1 c.116.1.1 (A:106-263) RrmA (RrmH), C-terminal domain {Thermus thermophilus [TaxId: 274]} Length = 158 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 ?
Query260
d1gz0a1166 RlmB, C-terminal domain {Escherichia coli [TaxId: 100.0
d1ipaa1158 RrmA (RrmH), C-terminal domain {Thermus thermophil 100.0
d1v2xa_191 tRNA (Gm18) methyltransferase TrmH {Thermus thermo 100.0
d1mxia_156 Hypothetical tRNA/rRNA methyltransfease HI0766 (Yi 100.0
d1gz0a276 RlmB, N-terminal domain {Escherichia coli [TaxId: 96.22
d2o3aa1167 Uncharacterized protein AF0751 {Archaeoglobus fulg 93.52
d2qwva1201 Uncharacterized protein VCA1059 {Vibrio cholerae [ 92.33
d1vhka2180 Hypothetical protein YqeU {Bacillus subtilis [TaxI 87.65
d1ipaa2105 RrmA (RrmH), N-terminal domain {Thermus thermophil 84.91
d2qmma1194 Uncharacterized protein AF1056 {Archaeoglobus fulg 82.62
>d1gz0a1 c.116.1.1 (A:78-243) RlmB, C-terminal domain {Escherichia coli [TaxId: 562]} Back     information, alignment and structure
class: Alpha and beta proteins (a/b)
fold: alpha/beta knot
superfamily: alpha/beta knot
family: SpoU-like RNA 2'-O ribose methyltransferase
domain: RlmB, C-terminal domain
species: Escherichia coli [TaxId: 562]

Probab=100.00  E-value=5.6e-41  Score=279.92  Aligned_cols=152  Identities=20%  Similarity=0.222  Sum_probs=142.3

Q ss_pred             CCccEEEEEeCCCCCCcHHHHHHhhhhcccceEEECCCCCCCChhHHHHhcCCCcceEEEEEcCCHHHHHHHHhhhcCCc
Q 024933           75 QNKFLQVVLVSPQIPGNTGCIARTCAASACGLHLVGPLGFQVDDTKLKRAGLDYWPYVVIKVHSTWAEFRDYFRQQEGEK  154 (260)
Q Consensus        75 ~~~~l~vvLd~i~dp~NlGaIiRta~afGv~~viv~~~~~~~~~~k~~rag~~~~~~v~v~~~~~~~~~l~~lk~~~~g~  154 (260)
                      .+++++||||+++||+|+|+|+|||++||++.+++.+.+++++++++.|+++|++..+++..+.++.++++.+++.  ++
T Consensus        15 ~~~~~~vvLd~i~~p~N~GaiiRta~afG~~~v~~~~~~~~~~~~~~~r~s~g~~~~v~~~~~~~~~~~l~~~~~~--~~   92 (166)
T d1gz0a1          15 LDQPFLLILDGVTDPHNLGACLRSADAAGVHAVIVPKDRSAQLNATAKKVACGAAESVPLIRVTNLARTMRMLQEE--NI   92 (166)
T ss_dssp             CSSCEEEEEESCCCHHHHHHHHHHHHHHTCSEEEEESSSSCCCCHHHHHHHTTHHHHSCEEEESCHHHHHHHHHHT--TC
T ss_pred             cCCCEEEEEeCCCCcchHHHHHHHHHhcCCceeeeecccccccchhhheeccCcceEeceeecCCHHHHHHHhccc--cc
Confidence            3568999999999999999999999999999888877778899999999999988888888889999999999986  89


Q ss_pred             EEEEEEcCCCcCcccccCCCCeEEEEcCCCCCCCHHHHhhCcCCCCCceeEEEcCCCCCCccccHHHHHHHHHHHHHHcc
Q 024933          155 RLLAFTKRGTSTHSEISYRKGDYLIFGSETSGLPPEALLDCTSETFGGGTIRIPMVETYVRCLNLSVSVGIAVYEAARQL  234 (260)
Q Consensus       155 ~iva~~~~~~~~l~~~~~~~~~aLV~GnE~~GLs~e~l~~cD~~~~~~~~v~IPm~g~~v~SLNVsvAaaI~Lyel~rq~  234 (260)
                      ++++++..+..++.++++++|++||||+|++|||+++++.||.      .|+|||.| .++|||||+|+||+|||++|||
T Consensus        93 ~~~~~~~~~~~~~~~~~~~~~~~lv~G~E~~Gls~~~l~~~d~------~v~IPm~~-~~~SLNvs~A~~I~lye~~rqr  165 (166)
T d1gz0a1          93 WIVGTAGEADHTLYQSKMTGRLALVMGAEGEGMRRLTREHCDE------LISIPMAG-SVSSLNVSVATGICLFEAVRQR  165 (166)
T ss_dssp             EEEEECTTCSEEGGGSCCCSSEEEEEEBTTTBSCHHHHHTCSE------EEECCCSS-SSCCCCHHHHHHHHHHHHHHHT
T ss_pred             ccccccccccccHHHhhccCCeEEEeccCcCCCCHHHHHhCCE------EEEEcCcC-CCCceeHHHHHHHHHHHHHHcc
Confidence            9999998888889999999999999999999999999999999      99999999 5999999999999999999997


Q ss_pred             c
Q 024933          235 N  235 (260)
Q Consensus       235 ~  235 (260)
                      .
T Consensus       166 ~  166 (166)
T d1gz0a1         166 S  166 (166)
T ss_dssp             C
T ss_pred             C
Confidence            4
>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
>d1mxia_ c.116.1.1 (A:) Hypothetical tRNA/rRNA methyltransfease HI0766 (YibK homologue) {Haemophilus influenzae [TaxId: 727]} Back     information, alignment and structure
>d1gz0a2 d.79.3.3 (A:2-77) RlmB, N-terminal domain {Escherichia coli [TaxId: 562]} Back     information, alignment and structure
>d2o3aa1 c.116.1.8 (A:1-167) Uncharacterized protein AF0751 {Archaeoglobus fulgidus [TaxId: 2234]} 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
>d1vhka2 c.116.1.5 (A:74-253) Hypothetical protein YqeU {Bacillus subtilis [TaxId: 1423]} Back     information, alignment and structure
>d1ipaa2 d.79.3.3 (A:1-105) RrmA (RrmH), N-terminal domain {Thermus thermophilus [TaxId: 274]} 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