Psyllid ID: psy13718

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 (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-----
MIATEGMEQRCRLSIMCQNWCNVDHRFTIPGKAFIPKPQVDVGVVHFTPRVHPIIDLPFKLIERVVSCIFRYRQKQVYKPASLLFPKRKRQLVVSLLERACVKPILRPYQLSVQEFGQICLAYRDMCEEMPGLYEYTLEDTPGDIEPEAVAEQEGEGDEIDFNKL
cccccccccccHHHHHHHHHHccEEcEEEccccccccccccEEEEEEEEcccccccccHHHHHHHHHHHHHHHHHHHHHHHcccccccHHHHHHHHHHHcccccccccccccHHHHHHHHHHHHHHHHHccccccccccccccccccHHHHHHcccccccccccc
ccccccccccccEEEEEEEEEEEEEEEEcccccccccccccEEEEEEEccccccccccHHHHHHHHHHHHHHHHHHHHHHHHHcccHHHHHHHHHHHHHcccccccccccccHHHHHHHHHHHHHHHHcccccEEEcHHHHHHHHHHHccccccccccHHHHccc
MIATEGMEQRCRLSIMcqnwcnvdhrftipgkafipkpqvdvgvvhftprvhpiidlpFKLIERVVSCIFRYrqkqvykpasllfpkrKRQLVVSLLERacvkpilrpyqlSVQEFGQICLAYRDMCeempglyeytledtpgdiepeavaeqegegdeidfnkl
MIATEGMEQRCRLSIMCQNWCNVDHRFTIPGKAFIPKPQVDVGVVHFTPRVHPIIDLPFKLIERVVSCIFRYRQKqvykpasllfpkrKRQLVVSLLERACVkpilrpyqlsVQEFGQICLAYRDMCEEMPGLYEYTLEDTPGDIEPEAvaeqegegdeidfnkl
MIATEGMEQRCRLSIMCQNWCNVDHRFTIPGKAFIPKPQVDVGVVHFTPRVHPIIDLPFKLIERVVSCIFRYRQKQVYKPASLLFPKRKRQLVVSLLERACVKPILRPYQLSVQEFGQICLAYRDMCEEMPGLYEYTLEDTPGDIEPEAVAEQEGEGDEIDFNKL
*********RCRLSIMCQNWCNVDHRFTIPGKAFIPKPQVDVGVVHFTPRVHPIIDLPFKLIERVVSCIFRYRQKQVYKPASLLFPKRKRQLVVSLLERACVKPILRPYQLSVQEFGQICLAYRDMCEEMPGLYEYTL***************************
MIATEGMEQRCRLSIMCQNWCNVDHRFTIPGKAFIPKPQVDVGVVHFTPRVHPIIDLPFKLIERVVSCIFRYRQKQVYKPASLLFPKRKRQLVVSLLERACVKPILRPYQLSVQEFGQICLAYRDMCEEMPGLYEYTL***********************FNKL
********QRCRLSIMCQNWCNVDHRFTIPGKAFIPKPQVDVGVVHFTPRVHPIIDLPFKLIERVVSCIFRYRQKQVYKPASLLFPKRKRQLVVSLLERACVKPILRPYQLSVQEFGQICLAYRDMCEEMPGLYEYTLEDTPGDIEPEA****************
******MEQRCRLSIMCQNWCNVDHRFTIPGKAFIPKPQVDVGVVHFTPRVHPIIDLPFKLIERVVSCIFRYRQKQVYKPASLLFPKRKRQLVVSLLERACVKPILRPYQLSVQEFGQICLAYRDMCEEMPGLYEYTLEDTPGDIE*******************
ooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
ooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
iiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiihhhhhhhhhhhhhhhhhhhoooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
ooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
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MIATEGMEQRCRLSIMCQNWCNVDHRFTIPGKAFIPKPQVDVGVVHFTPRVHPIIDLPFKLIERVVSCIFRYRQKQVYKPASLLFPKRKRQLVVSLLERACVKPILRPYQLSVQEFGQICLAYRDMCEEMPGLYEYTLEDTPGDIEPEAVAEQEGEGDEIDFNKL
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 ?
Query165 2.2.26 [Sep-21-2011]
Q811P6345 Dimethyladenosine transfe yes N/A 0.945 0.452 0.462 8e-36
Q8WVM0346 Dimethyladenosine transfe yes N/A 0.981 0.468 0.445 1e-35
Q2PG46345 Dimethyladenosine transfe N/A N/A 0.963 0.460 0.441 2e-35
Q28HM1346 Dimethyladenosine transfe yes N/A 0.969 0.462 0.434 2e-35
Q8JZM0345 Dimethyladenosine transfe yes N/A 0.939 0.449 0.459 3e-35
Q5R4V9343 Dimethyladenosine transfe yes N/A 0.957 0.460 0.450 1e-34
Q7T0W5344 Dimethyladenosine transfe N/A N/A 0.830 0.398 0.514 1e-34
Q2TBQ0341 Mitochondrial dimethylade yes N/A 0.848 0.410 0.496 6e-34
Q2LZ79337 Dimethyladenosine transfe yes N/A 0.884 0.433 0.433 5e-24
Q9VTM5330 Dimethyladenosine transfe yes N/A 0.866 0.433 0.434 1e-23
>sp|Q811P6|TFB1M_RAT Dimethyladenosine transferase 1, mitochondrial OS=Rattus norvegicus GN=Tfb1m PE=2 SV=1 Back     alignment and function desciption
 Score =  149 bits (376), Expect = 8e-36,   Method: Compositional matrix adjust.
 Identities = 74/160 (46%), Positives = 104/160 (65%), Gaps = 4/160 (2%)

Query: 1   MIATEGMEQRCRLSIMCQNWCNVDHRFTIPGKAFIPKPQVDVGVVHFTPRVHPIIDLPFK 60
           ++AT G +QR RLSIM Q  CNV+H FTIPGKAF+PKP+VDVGVVH  P V P I  PFK
Sbjct: 184 LVATTGSKQRSRLSIMAQYLCNVEHLFTIPGKAFVPKPEVDVGVVHLMPLVQPKIKQPFK 243

Query: 61  LIERVVSCIFRYRQKQVYKPASLLFPKRKR-QLVVSLLERACVKPILRPYQLSVQEFGQI 119
           L+E+VV  +F++R+K  ++   +LFP+ +R +    LL+ A + P LRP  LS+  F  +
Sbjct: 244 LVEKVVQNVFQFRRKYCHRGLGMLFPEAQRLESTGRLLQLADIDPTLRPTHLSLMHFKSL 303

Query: 120 CLAYRDMCEEMPGLYEYTLEDTPGDIEPEAVAEQEGEGDE 159
           C  YR MC+E P L+ Y   +   +++ +    QE +GD 
Sbjct: 304 CDVYRKMCDEDPQLFAYNFRE---ELKQKKRKGQEKDGDS 340
S-adenosyl-L-methionine-dependent methyltransferase which specifically dimethylates mitochondrial 12S rRNA at the conserved stem loop. Also required for basal transcription of mitochondrial DNA, probably via its interaction with POLRMT and TFAM. Stimulates transcription independently of the methyltransferase activity.
Rattus norvegicus (taxid: 10116)
EC: 2EC: .EC: 1EC: .EC: 1EC: .EC: -
>sp|Q8WVM0|TFB1M_HUMAN Dimethyladenosine transferase 1, mitochondrial OS=Homo sapiens GN=TFB1M PE=1 SV=1 Back     alignment and function description
>sp|Q2PG46|TFB1M_MACFA Dimethyladenosine transferase 1, mitochondrial OS=Macaca fascicularis GN=TFB1M PE=2 SV=1 Back     alignment and function description
>sp|Q28HM1|TFB1M_XENTR Dimethyladenosine transferase 1, mitochondrial OS=Xenopus tropicalis GN=tfb1m PE=2 SV=1 Back     alignment and function description
>sp|Q8JZM0|TFB1M_MOUSE Dimethyladenosine transferase 1, mitochondrial OS=Mus musculus GN=Tfb1m PE=2 SV=1 Back     alignment and function description
>sp|Q5R4V9|TFB1M_PONAB Dimethyladenosine transferase 1, mitochondrial OS=Pongo abelii GN=TFB1M PE=2 SV=1 Back     alignment and function description
>sp|Q7T0W5|TFB1M_XENLA Dimethyladenosine transferase 1, mitochondrial OS=Xenopus laevis GN=tfb1m PE=2 SV=1 Back     alignment and function description
>sp|Q2TBQ0|TFB1M_BOVIN Mitochondrial dimethyladenosine transferase 1 OS=Bos taurus GN=TFB1M PE=2 SV=2 Back     alignment and function description
>sp|Q2LZ79|TFB1M_DROPS Dimethyladenosine transferase 1, mitochondrial OS=Drosophila pseudoobscura pseudoobscura GN=mtTFB1 PE=3 SV=2 Back     alignment and function description
>sp|Q9VTM5|TFB1M_DROME Dimethyladenosine transferase 1, mitochondrial OS=Drosophila melanogaster GN=mtTFB1 PE=2 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 ?
Query165
296199503 343 PREDICTED: dimethyladenosine transferase 0.848 0.408 0.517 4e-35
355723907 347 transcription factor B1, mitochondrial [ 0.945 0.449 0.493 4e-35
410960296 345 PREDICTED: mitochondrial dimethyladenosi 0.945 0.452 0.481 8e-35
403284933 345 PREDICTED: dimethyladenosine transferase 0.957 0.457 0.481 1e-34
354466970 329 PREDICTED: dimethyladenosine transferase 0.848 0.425 0.510 1e-34
73946166 345 PREDICTED: dimethyladenosine transferase 0.945 0.452 0.487 1e-34
190360597 340 dimethyladenosine transferase 1, mitocho 0.848 0.411 0.517 2e-34
441602135 347 PREDICTED: LOW QUALITY PROTEIN: dimethyl 0.848 0.403 0.510 3e-34
81871169 345 RecName: Full=Dimethyladenosine transfer 0.945 0.452 0.462 4e-34
48976087 345 dimethyladenosine transferase 1, mitocho 0.945 0.452 0.462 4e-34
>gi|296199503|ref|XP_002747175.1| PREDICTED: dimethyladenosine transferase 1, mitochondrial [Callithrix jacchus] Back     alignment and taxonomy information
 Score =  152 bits (385), Expect = 4e-35,   Method: Compositional matrix adjust.
 Identities = 73/141 (51%), Positives = 98/141 (69%), Gaps = 1/141 (0%)

Query: 1   MIATEGMEQRCRLSIMCQNWCNVDHRFTIPGKAFIPKPQVDVGVVHFTPRVHPIIDLPFK 60
           + AT G +QR RLS+M Q  CNV H FTIPG+AF+PKP+VDVGVVHFTP +HP I  PFK
Sbjct: 184 LAATTGSKQRSRLSVMAQYLCNVRHIFTIPGRAFVPKPEVDVGVVHFTPLIHPKIQQPFK 243

Query: 61  LIERVVSCIFRYRQKQVYKPASLLFPKRKR-QLVVSLLERACVKPILRPYQLSVQEFGQI 119
           L+E+VV  +F++R+K  ++   +LFP+ +R +    LLE A V P LRP QLS+ +F  +
Sbjct: 244 LVEKVVQNVFQFRRKYCHRGLGMLFPEAQRLESTGRLLELADVDPTLRPRQLSIPQFKSL 303

Query: 120 CLAYRDMCEEMPGLYEYTLED 140
           C  YR MC+E P L+ Y   +
Sbjct: 304 CDVYRRMCDEDPHLFAYNFRE 324

Source: Callithrix jacchus

Species: Callithrix jacchus

Genus: Callithrix

Family: Cebidae

Order: Primates

Class: Mammalia

Phylum: Chordata

Superkingdom: Eukaryota
>gi|355723907|gb|AES08046.1| transcription factor B1, mitochondrial [Mustela putorius furo] Back     alignment and taxonomy information
>gi|410960296|ref|XP_003986729.1| PREDICTED: mitochondrial dimethyladenosine transferase 1-like [Felis catus] Back     alignment and taxonomy information
>gi|403284933|ref|XP_003933802.1| PREDICTED: dimethyladenosine transferase 1, mitochondrial isoform 1 [Saimiri boliviensis boliviensis] gi|403284935|ref|XP_003933803.1| PREDICTED: dimethyladenosine transferase 1, mitochondrial isoform 2 [Saimiri boliviensis boliviensis] Back     alignment and taxonomy information
>gi|354466970|ref|XP_003495944.1| PREDICTED: dimethyladenosine transferase 1, mitochondrial-like, partial [Cricetulus griseus] Back     alignment and taxonomy information
>gi|73946166|ref|XP_533459.2| PREDICTED: dimethyladenosine transferase 1, mitochondrial [Canis lupus familiaris] Back     alignment and taxonomy information
>gi|190360597|ref|NP_001121947.1| dimethyladenosine transferase 1, mitochondrial [Sus scrofa] gi|186886356|gb|ACC93577.1| CGI-75 protein [Sus scrofa] Back     alignment and taxonomy information
>gi|441602135|ref|XP_004087716.1| PREDICTED: LOW QUALITY PROTEIN: dimethyladenosine transferase 1, mitochondrial [Nomascus leucogenys] Back     alignment and taxonomy information
>gi|81871169|sp|Q811P6.1|TFB1M_RAT RecName: Full=Dimethyladenosine transferase 1, mitochondrial; AltName: Full=Mitochondrial 12S rRNA dimethylase 1; AltName: Full=Mitochondrial transcription factor B1; Short=mtTFB1; AltName: Full=S-adenosylmethionine-6-N', N'-adenosyl(rRNA) dimethyltransferase 1; Flags: Precursor gi|28569596|gb|AAO42744.1| mitochondrial transcription factor b1 [Rattus norvegicus] Back     alignment and taxonomy information
>gi|48976087|ref|NP_852139.2| dimethyladenosine transferase 1, mitochondrial [Rattus norvegicus] gi|47718050|gb|AAH70907.1| Transcription factor B1, mitochondrial [Rattus norvegicus] gi|149038492|gb|EDL92822.1| transcription factor B1, mitochondrial [Rattus norvegicus] 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 ?
Query165
UNIPROTKB|E2RQC3345 TFB1M "Uncharacterized protein 0.945 0.452 0.487 1.3e-34
UNIPROTKB|Q8WVM0346 TFB1M "Dimethyladenosine trans 0.981 0.468 0.445 1.7e-34
UNIPROTKB|I3LVN4245 TFB1M "Uncharacterized protein 0.848 0.571 0.517 1.7e-34
RGD|727795345 Tfb1m "transcription factor B1 0.939 0.449 0.465 2.2e-34
MGI|MGI:2146851345 Tfb1m "transcription factor B1 0.939 0.449 0.459 5.8e-34
UNIPROTKB|E1BWX0350 TFB1M "Uncharacterized protein 0.969 0.457 0.449 9.5e-34
UNIPROTKB|Q2TBQ0341 TFB1M "Mitochondrial dimethyla 0.848 0.410 0.496 2.9e-32
UNIPROTKB|Q2LZ79337 mtTFB1 "Dimethyladenosine tran 0.896 0.439 0.434 2.6e-24
FB|FBgn0261381330 mtTFB1 "Mitochondrial Transcri 0.866 0.433 0.434 6.8e-24
WB|WBGene00020189367 T03F1.7 [Caenorhabditis elegan 0.787 0.354 0.368 5.9e-20
UNIPROTKB|E2RQC3 TFB1M "Uncharacterized protein" [Canis lupus familiaris (taxid:9615)] Back     alignment and assigned GO terms
 Score = 375 (137.1 bits), Expect = 1.3e-34, P = 1.3e-34
 Identities = 78/160 (48%), Positives = 101/160 (63%)

Query:     1 MIATEGMEQRCRLSIMCQNWCNVDHRFTIPGKAFIPKPQVDVGVVHFTPRVHPIIDLPFK 60
             + A  G +QR RLSIM Q  CNV H  TIPG+AF+PKP+VDVGVVHFTP V P I+ PFK
Sbjct:   184 LTANTGSKQRSRLSIMAQYLCNVQHILTIPGQAFVPKPEVDVGVVHFTPLVRPRIEQPFK 243

Query:    61 LIERVVSCIFRYRQKQVYKPASLLFPKRKR-QLVVSLLERACVKPILRPYQLSVQEFGQI 119
             L+E+VV   F++R+K  Y+   +LFP+  R +    LLE A V P LRP QLSV  F  +
Sbjct:   244 LVEKVVQNTFQFRRKYCYRGLGMLFPQIHRVESTGKLLELADVDPTLRPSQLSVSHFKSL 303

Query:   120 CLAYRDMCEEMPGLYEYTLEDTPGDIEPEAVAEQEGEGDE 159
             C  YR MC+E P L+ Y   +   +++      QE E D+
Sbjct:   304 CDVYRKMCDEDPHLFAYNFRE---ELKQNKSKNQEKEDDK 340
GO:0042645 "mitochondrial nucleoid" evidence=IEA
GO:0000179 "rRNA (adenine-N6,N6-)-dimethyltransferase activity" evidence=IEA
UNIPROTKB|Q8WVM0 TFB1M "Dimethyladenosine transferase 1, mitochondrial" [Homo sapiens (taxid:9606)] Back     alignment and assigned GO terms
UNIPROTKB|I3LVN4 TFB1M "Uncharacterized protein" [Sus scrofa (taxid:9823)] Back     alignment and assigned GO terms
RGD|727795 Tfb1m "transcription factor B1, mitochondrial" [Rattus norvegicus (taxid:10116)] Back     alignment and assigned GO terms
MGI|MGI:2146851 Tfb1m "transcription factor B1, mitochondrial" [Mus musculus (taxid:10090)] Back     alignment and assigned GO terms
UNIPROTKB|E1BWX0 TFB1M "Uncharacterized protein" [Gallus gallus (taxid:9031)] Back     alignment and assigned GO terms
UNIPROTKB|Q2TBQ0 TFB1M "Mitochondrial dimethyladenosine transferase 1" [Bos taurus (taxid:9913)] Back     alignment and assigned GO terms
UNIPROTKB|Q2LZ79 mtTFB1 "Dimethyladenosine transferase 1, mitochondrial" [Drosophila pseudoobscura pseudoobscura (taxid:46245)] Back     alignment and assigned GO terms
FB|FBgn0261381 mtTFB1 "Mitochondrial Transcription Factor B1" [Drosophila melanogaster (taxid:7227)] Back     alignment and assigned GO terms
WB|WBGene00020189 T03F1.7 [Caenorhabditis elegans (taxid:6239)] 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 EFICAz Software ?

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

Prediction of Functionally Associated Proteins

Conserved Domains and Related Protein Families

Conserved Domains Detected by RPS-BLAST ?

Original result of RPS-BLAST against CDD database

ID ?Alignment Graph ?Length ? Definition ? E-value ?
Query165
COG0030259 COG0030, KsgA, Dimethyladenosine transferase (rRNA 1e-19
PRK00274272 PRK00274, ksgA, 16S ribosomal RNA methyltransferas 2e-18
TIGR00755253 TIGR00755, ksgA, dimethyladenosine transferase 9e-16
PRK14896258 PRK14896, ksgA, 16S ribosomal RNA methyltransferas 6e-14
smart00650169 smart00650, rADc, Ribosomal RNA adenine dimethylas 2e-10
pfam00398254 pfam00398, RrnaAD, Ribosomal RNA adenine dimethyla 4e-07
PTZ00338294 PTZ00338, PTZ00338, dimethyladenosine transferase- 2e-06
>gnl|CDD|223109 COG0030, KsgA, Dimethyladenosine transferase (rRNA methylation) [Translation, ribosomal structure and biogenesis] Back     alignment and domain information 
 Score = 81.9 bits (203), Expect = 1e-19
 Identities = 34/126 (26%), Positives = 57/126 (45%), Gaps = 7/126 (5%)

Query: 1   MIATEGMEQRCRLSIMCQNWCNVDHRFTIPGKAFIPKPQVDVGVVHFTPRVH-PIIDLPF 59
           ++A  G +   RLS++ Q + +V+  F +P  AF P P+VD  VV   P+   P      
Sbjct: 137 LVAKPGSKDYGRLSVLVQYYADVEIVFDVPPSAFYPPPKVDSAVVRLVPKKEKPSPVKDE 196

Query: 60  KLIERVVSCIFRYRQKQVYKPASLLFPKRKRQLVVSLLERACVKPILRPYQLSVQEFGQI 119
           +   + V   F  R+K +      LF       +  +LE A + P  R   LS ++F ++
Sbjct: 197 EKFFKFVKAAFSQRRKTLRNNLKNLFG------LEEVLEAAGIDPNARAENLSPEDFLKL 250

Query: 120 CLAYRD 125
             A + 
Sbjct: 251 ANALKG 256

Length = 259
>gnl|CDD|234708 PRK00274, ksgA, 16S ribosomal RNA methyltransferase KsgA/Dim1 family protein; Reviewed Back     alignment and domain information
>gnl|CDD|233115 TIGR00755, ksgA, dimethyladenosine transferase Back     alignment and domain information
>gnl|CDD|237852 PRK14896, ksgA, 16S ribosomal RNA methyltransferase KsgA/Dim1 family protein; Provisional Back     alignment and domain information
>gnl|CDD|128898 smart00650, rADc, Ribosomal RNA adenine dimethylases Back     alignment and domain information
>gnl|CDD|215900 pfam00398, RrnaAD, Ribosomal RNA adenine dimethylase Back     alignment and domain information
>gnl|CDD|240367 PTZ00338, PTZ00338, dimethyladenosine transferase-like protein; Provisional Back     alignment and domain information

Conserved Domains Detected by HHsearch ?

Original result of HHsearch against CDD database

ID ?Alignment Graph ?Length ? Definition ? Probability ?
Query 165
COG0030259 KsgA Dimethyladenosine transferase (rRNA methylati 100.0
PTZ00338294 dimethyladenosine transferase-like protein; Provis 99.97
PRK00274272 ksgA 16S ribosomal RNA methyltransferase KsgA/Dim1 99.97
TIGR00755253 ksgA dimethyladenosine transferase. Alternate name 99.97
PF00398262 RrnaAD: Ribosomal RNA adenine dimethylase; InterPr 99.96
PRK14896258 ksgA 16S ribosomal RNA methyltransferase KsgA/Dim1 99.95
KOG0821|consensus326 99.92
KOG0820|consensus315 99.74
PF0683192 H2TH: Formamidopyrimidine-DNA glycosylase H2TH dom 95.68
PRK01103274 formamidopyrimidine/5-formyluracil/ 5-hydroxymethy 93.69
PF00416107 Ribosomal_S13: Ribosomal protein S13/S18; InterPro 93.14
PRK13945282 formamidopyrimidine-DNA glycosylase; Provisional 92.98
PRK14810272 formamidopyrimidine-DNA glycosylase; Provisional 92.71
TIGR00577272 fpg formamidopyrimidine-DNA glycosylase (fpg). All 92.58
TIGR00275400 flavoprotein, HI0933 family. The model when search 92.23
PRK10445263 endonuclease VIII; Provisional 92.17
PRK04053149 rps13p 30S ribosomal protein S13P; Reviewed 92.08
CHL00137122 rps13 ribosomal protein S13; Validated 91.84
PRK04184 535 DNA topoisomerase VI subunit B; Validated 91.62
TIGR03631113 bact_S13 30S ribosomal protein S13. This model des 91.55
PRK05179122 rpsM 30S ribosomal protein S13; Validated 91.42
PRK14811269 formamidopyrimidine-DNA glycosylase; Provisional 91.37
PF05833 455 FbpA: Fibronectin-binding protein A N-terminus (Fb 90.53
PF03486409 HI0933_like: HI0933-like protein; InterPro: IPR004 90.14
PTZ00134154 40S ribosomal protein S18; Provisional 89.9
COG0099121 RpsM Ribosomal protein S13 [Translation, ribosomal 89.37
TIGR03629144 arch_S13P archaeal ribosomal protein S13P. This mo 89.34
COG2081408 Predicted flavoproteins [General function predicti 88.32
TIGR01052 488 top6b DNA topoisomerase VI, B subunit. This model 85.26
COG1389 538 DNA topoisomerase VI, subunit B [DNA replication, 81.87
>COG0030 KsgA Dimethyladenosine transferase (rRNA methylation) [Translation, ribosomal structure and biogenesis] Back     alignment and domain information 
Probab=100.00  E-value=1.8e-34  Score=239.46  Aligned_cols=120  Identities=28%  Similarity=0.423  Sum_probs=110.6

Q ss_pred             CcccCCCCCCcHHHHHHHhhhcceEeceecCCCCcCCCCccEEEEEEEecCCCCC-CCCHHHHHHHHHHHhhCcCcchHH
Q psy13718          1 MIATEGMEQRCRLSIMCQNWCNVDHRFTIPGKAFIPKPQVDVGVVHFTPRVHPII-DLPFKLIERVVSCIFRYRQKQVYK   79 (165)
Q Consensus         1 l~A~pgtk~Yg~LSV~~q~~~dv~~l~~V~~~~F~P~PkVdSavv~l~pr~~~~~-~~~~~~f~~~vr~~F~~RRKtL~n   79 (165)
                      |+|+|||++||+|||++|+||+++++++|||++|+|+||||||||+|+|++.... ..+.+.|..|++++|+||||||+|
T Consensus       137 l~A~pgsk~Yg~LsV~~q~~~~v~~~~~Vpp~~F~P~PkVdSavv~L~~~~~~~~~~~d~~~~~~~~~~~F~~RRKtl~n  216 (259)
T COG0030         137 LVAKPGSKDYGRLSVLVQYYADVEIVFDVPPSAFYPPPKVDSAVVRLVPKKEKPSPVKDEEKFFKFVKAAFSQRRKTLRN  216 (259)
T ss_pred             HhCCCCCcccchhhhhhhheEEEEEEEEEChhhCCCCCCccEEEEEEEeCCCCCCcccCHHHHHHHHHHHHhhhhHHHHH
Confidence            6899999999999999999999999999999999999999999999999765433 347899999999999999999999


Q ss_pred             HHhhhCChhHHHHHHHHHHHcCCCCCCCccccCHHHHHHHHHHHHHH
Q psy13718         80 PASLLFPKRKRQLVVSLLERACVKPILRPYQLSVQEFGQICLAYRDM  126 (165)
Q Consensus        80 ~L~~~~~~~~~~~~~~~L~~~gi~~~~R~e~Ls~eqf~~L~~~l~~~  126 (165)
                      +|+.+++      +.++|+++|++++.|+|+|+++||++|++.+...
T Consensus       217 ~l~~~~~------~~~~l~~~~i~~~~R~e~ls~~~f~~L~~~l~~~  257 (259)
T COG0030         217 NLKNLFG------LEEVLEAAGIDPNARAENLSPEDFLKLANALKGF  257 (259)
T ss_pred             HHHhhhh------HHHHHHhcCCCcccChhhCCHHHHHHHHHHHhhh
Confidence            9999875      5678999999999999999999999999988653

>PTZ00338 dimethyladenosine transferase-like protein; Provisional Back     alignment and domain information
>PRK00274 ksgA 16S ribosomal RNA methyltransferase KsgA/Dim1 family protein; Reviewed Back     alignment and domain information
>TIGR00755 ksgA dimethyladenosine transferase Back     alignment and domain information
>PF00398 RrnaAD: Ribosomal RNA adenine dimethylase; InterPro: IPR001737 This family of proteins include rRNA adenine dimethylases (e Back     alignment and domain information
>PRK14896 ksgA 16S ribosomal RNA methyltransferase KsgA/Dim1 family protein; Provisional Back     alignment and domain information
>KOG0821|consensus Back     alignment and domain information
>KOG0820|consensus Back     alignment and domain information
>PF06831 H2TH: Formamidopyrimidine-DNA glycosylase H2TH domain; InterPro: IPR015886 This entry represents a helix-2turn-helix DNA-binding domain found in DNA glycosylase/AP lyase enzymes, which are involved in base excision repair of DNA damaged by oxidation or by mutagenic agents Back     alignment and domain information
>PRK01103 formamidopyrimidine/5-formyluracil/ 5-hydroxymethyluracil DNA glycosylase; Validated Back     alignment and domain information
>PF00416 Ribosomal_S13: Ribosomal protein S13/S18; InterPro: IPR001892 Ribosomes are the particles that catalyse mRNA-directed protein synthesis in all organisms Back     alignment and domain information
>PRK13945 formamidopyrimidine-DNA glycosylase; Provisional Back     alignment and domain information
>PRK14810 formamidopyrimidine-DNA glycosylase; Provisional Back     alignment and domain information
>TIGR00577 fpg formamidopyrimidine-DNA glycosylase (fpg) Back     alignment and domain information
>TIGR00275 flavoprotein, HI0933 family Back     alignment and domain information
>PRK10445 endonuclease VIII; Provisional Back     alignment and domain information
>PRK04053 rps13p 30S ribosomal protein S13P; Reviewed Back     alignment and domain information
>CHL00137 rps13 ribosomal protein S13; Validated Back     alignment and domain information
>PRK04184 DNA topoisomerase VI subunit B; Validated Back     alignment and domain information
>TIGR03631 bact_S13 30S ribosomal protein S13 Back     alignment and domain information
>PRK05179 rpsM 30S ribosomal protein S13; Validated Back     alignment and domain information
>PRK14811 formamidopyrimidine-DNA glycosylase; Provisional Back     alignment and domain information
>PF05833 FbpA: Fibronectin-binding protein A N-terminus (FbpA); InterPro: IPR008616 This family consists of the N-terminal region of the prokaryotic fibronectin-binding protein, the C-terminal region is IPR008532 from INTERPRO Back     alignment and domain information
>PF03486 HI0933_like: HI0933-like protein; InterPro: IPR004792 This is a family of conserved hypothetical proteins that may include proteins with a dinucleotide-binding motif (Rossman fold), including oxidoreductases and dehydrogenases Back     alignment and domain information
>PTZ00134 40S ribosomal protein S18; Provisional Back     alignment and domain information
>COG0099 RpsM Ribosomal protein S13 [Translation, ribosomal structure and biogenesis] Back     alignment and domain information
>TIGR03629 arch_S13P archaeal ribosomal protein S13P Back     alignment and domain information
>COG2081 Predicted flavoproteins [General function prediction only] Back     alignment and domain information
>TIGR01052 top6b DNA topoisomerase VI, B subunit Back     alignment and domain information
>COG1389 DNA topoisomerase VI, subunit B [DNA replication, recombination, and repair] 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 ?
Query165
3tpz_A273 2.1 Angstrom Crystal Structure Of The L114p Mutant 3e-09
1qyr_A252 2.1 Angstrom Crystal Structure Of Ksga: A Universal 4e-09
3tqs_A255 Structure Of The Dimethyladenosine Transferase (Ksg 2e-06
3fyc_A265 Crystal Structure Of Dim1 From The Thermophilic Arc 2e-04
3grr_A295 Crystal Structure Of The Complex Between S-Adenosyl 7e-04
3uzu_A279 The Structure Of The Ribosomal Rna Small Subunit Me 8e-04
3fyd_A263 Crystal Structure Of Dim1 From The Thermophilic Arc 8e-04
>pdb|3TPZ|A Chain A, 2.1 Angstrom Crystal Structure Of The L114p Mutant Of E. Coli Ksga Length = 273 Back     alignment and structure 
Iteration: 1

 Score = 57.4 bits (137), Expect = 3e-09,   Method: Compositional matrix adjust.
 Identities = 35/123 (28%), Positives = 58/123 (47%), Gaps = 12/123 (9%)
Query: 1   MIATEGMEQRCRLSIMCQNWCNVDHRFTIPGKAFIPKPQVDVGVVHFTPRV---HPIIDL 57
           ++A    +   RLS+M Q +CNV     +P  AF P P+VD  VV   P     HP+ D+
Sbjct: 148 LVAGPNSKAYGRLSVMAQYYCNVIPVLEVPPSAFTPPPKVDSAVVRLVPHATMPHPVKDV 207
Query: 58  PFKLIERVVSCIFRYRQKQVYKPASLLFPKRKRQLVVSLLERACVKPILRPYQLSVQEFG 117
             +++ R+ +  F  R+K +      LF        V +L    + P +R   +SV ++ 
Sbjct: 208 --RVLSRITTEAFNQRRKTIRNSLGNLFS-------VEVLTGMGIDPAMRAENISVAQYC 258
Query: 118 QIC 120
           Q+ 
Sbjct: 259 QMA 261
>pdb|1QYR|A Chain A, 2.1 Angstrom Crystal Structure Of Ksga: A Universally Conserved Adenosine Dimethyltransferase Length = 252 Back     alignment and structure
>pdb|3TQS|A Chain A, Structure Of The Dimethyladenosine Transferase (Ksga) From Coxiella Burnetii Length = 255 Back     alignment and structure
>pdb|3FYC|A Chain A, Crystal Structure Of Dim1 From The Thermophilic Archeon, Methanocaldococcus Jannaschi Length = 265 Back     alignment and structure
>pdb|3GRR|A Chain A, Crystal Structure Of The Complex Between S-Adenosyl Homocysteine And Methanocaldococcus Jannaschi Dim1. Length = 295 Back     alignment and structure
>pdb|3UZU|A Chain A, The Structure Of The Ribosomal Rna Small Subunit Methyltransferase A From Burkholderia Pseudomallei Length = 279 Back     alignment and structure
>pdb|3FYD|A Chain A, Crystal Structure Of Dim1 From The Thermophilic Archeon, Methanocaldococcus Jannaschi Length = 263 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 ?
Query165
3gru_A295 Dimethyladenosine transferase; rossman fold, ribos 3e-21
3ftd_A249 Dimethyladenosine transferase; KSGA, rossmann-like 9e-19
3tqs_A255 Ribosomal RNA small subunit methyltransferase A; p 2e-18
1qam_A244 ERMC' methyltransferase; rRNA methyltransferase ER 3e-18
1qyr_A252 KSGA, high level kasugamycin resistance protein, S 5e-18
1i4w_A353 Mitochondrial replication protein MTF1; mitochondr 1e-17
2h1r_A299 Dimethyladenosine transferase, putative; SGC toron 4e-17
3uzu_A279 Ribosomal RNA small subunit methyltransferase A; s 4e-17
3fut_A271 Dimethyladenosine transferase; methyltransferase, 5e-16
1zq9_A285 Probable dimethyladenosine transferase; SGC, struc 3e-15
1yub_A245 Ermam, rRNA methyltransferase; MLS antibiotics; NM 3e-15
>3gru_A Dimethyladenosine transferase; rossman fold, ribosomal assem adenosyl-L-methionine, rRNA, methyltransferase, RNA-binding processing; HET: AMP; 1.60A {Methanocaldococcus jannaschii} PDB: 3grr_A* 3grv_A* 3gry_A* 3fyd_A 3fyc_A* Length = 295 Back     alignment and structure
 Score = 86.5 bits (215), Expect = 3e-21
 Identities = 27/138 (19%), Positives = 52/138 (37%), Gaps = 9/138 (6%)

Query: 1   MIATEGMEQRCRLSIMCQNWCNVDHRFTIPGKAFIPKPQVDVGVVHFTPRVHPIIDLPFK 60
           M+A  G +   RLS+  Q+  +V+    +P  AF PKP+V   +V   P           
Sbjct: 154 MVAAAGTKDYGRLSVAVQSRADVEIVAKVPPSAFYPKPKVYSAIVKIKPNKGKYHIENEN 213

Query: 61  LIERVVSCIFRYRQKQVYKPASLLFP---------KRKRQLVVSLLERACVKPILRPYQL 111
             +  +  IF++R K V K                K+  +  ++           + ++L
Sbjct: 214 FFDDFLRAIFQHRNKSVRKALIDSSKELNYNKDEMKKILEDFLNTNSEIKNLINEKVFKL 273

Query: 112 SVQEFGQICLAYRDMCEE 129
           SV++   +   +    + 
Sbjct: 274 SVKDIVNLSNEFYRFLQN 291
>3ftd_A Dimethyladenosine transferase; KSGA, rossmann-like fold, RNA methyltransferase, mtase, anti resistance, methyltransferase, RNA-binding; 1.44A {Aquifex aeolicus} PDB: 3ftc_A 3fte_A 3ftf_A* 3r9x_B* Length = 249 Back     alignment and structure
>3tqs_A Ribosomal RNA small subunit methyltransferase A; protein synthesis; 1.98A {Coxiella burnetii} Length = 255 Back     alignment and structure
>1qam_A ERMC' methyltransferase; rRNA methyltransferase ERMC', cofactor analogs; 2.20A {Bacillus subtilis} SCOP: c.66.1.24 PDB: 1qan_A* 1qao_A* 1qaq_A* 2erc_A Length = 244 Back     alignment and structure
>1qyr_A KSGA, high level kasugamycin resistance protein, S-adenosylMet; adenosine dimethyltransferase, rRNA modification, transferase, translation; 2.10A {Escherichia coli} SCOP: c.66.1.24 PDB: 4adv_V 3tpz_A Length = 252 Back     alignment and structure
>1i4w_A Mitochondrial replication protein MTF1; mitochondrial transcription factor, transcription initiation; 2.60A {Saccharomyces cerevisiae} SCOP: c.66.1.24 Length = 353 Back     alignment and structure
>2h1r_A Dimethyladenosine transferase, putative; SGC toronto dimethyladenosine transferase, structural genomics, structural genomics consortium; 1.89A {Plasmodium falciparum} Length = 299 Back     alignment and structure
>3uzu_A Ribosomal RNA small subunit methyltransferase A; ssgcid, seattle structural genomics center for infectio disease; 1.75A {Burkholderia pseudomallei} Length = 279 Back     alignment and structure
>3fut_A Dimethyladenosine transferase; methyltransferase, dimethyltransferase, dual-specific methyltransferase, 16S rRNA methyltransferase; 1.52A {Thermus thermophilus} PDB: 3fuu_A* 3fuv_A 3fuw_A* 3fux_A* Length = 271 Back     alignment and structure
>1zq9_A Probable dimethyladenosine transferase; SGC, structural genomics, structural genomics consortium; HET: SAM; 1.90A {Homo sapiens} SCOP: c.66.1.24 Length = 285 Back     alignment and structure
>1yub_A Ermam, rRNA methyltransferase; MLS antibiotics; NMR {Streptococcus pneumoniae} SCOP: c.66.1.24 Length = 245 Back     alignment and structure

Structure Templates Detected by HHsearch ?

Original result of HHsearch against PDB70 database

ID ?Alignment Graph ?Length ? Definition ? Probability ?
Query165
3tqs_A255 Ribosomal RNA small subunit methyltransferase A; p 100.0
3fut_A271 Dimethyladenosine transferase; methyltransferase, 100.0
3uzu_A279 Ribosomal RNA small subunit methyltransferase A; s 100.0
1qyr_A252 KSGA, high level kasugamycin resistance protein, S 99.98
3gru_A295 Dimethyladenosine transferase; rossman fold, ribos 99.97
3ftd_A249 Dimethyladenosine transferase; KSGA, rossmann-like 99.96
1i4w_A353 Mitochondrial replication protein MTF1; mitochondr 99.94
1zq9_A285 Probable dimethyladenosine transferase; SGC, struc 99.92
2h1r_A299 Dimethyladenosine transferase, putative; SGC toron 99.9
1qam_A244 ERMC' methyltransferase; rRNA methyltransferase ER 99.9
1yub_A245 Ermam, rRNA methyltransferase; MLS antibiotics; NM 99.76
3r8n_M114 30S ribosomal protein S13; protein biosynthesis, R 93.87
3u6p_A273 Formamidopyrimidine-DNA glycosylase; DNA glycosyla 92.84
1ee8_A266 MUTM (FPG) protein; beta sandwich, zinc finger, he 92.55
3j20_O148 30S ribosomal protein S13P; archaea, archaeal, KIN 92.55
2xzf_A271 Formamidopyrimidine-DNA glycosylase; hydrolase-DNA 92.48
3twl_A310 Formamidopyrimidine-DNA glycosylase 1; helix two t 92.37
3iz6_M152 40S ribosomal protein S18 (S13P); eukaryotic ribos 92.32
2xzm_M155 RPS18E; ribosome, translation; 3.93A {Tetrahymena 92.06
1k82_A268 Formamidopyrimidine-DNA glycosylase; protein-DNA c 91.97
2vqe_M126 30S ribosomal protein S13, 30S ribosomal protein S 91.95
3u5c_S146 40S ribosomal protein S18-A, 40S ribosomal protein 91.57
1k3x_A262 Endonuclease VIII; hydrolase/DNA, hydrolase-DNA co 91.29
3vk8_A295 Probable formamidopyrimidine-DNA glycosylase; DNA 84.82
3w0f_A287 Endonuclease 8-like 3; helix two turns helix, zinc 83.82
2gqf_A401 Hypothetical protein HI0933; structural genomics, 80.05
>3tqs_A Ribosomal RNA small subunit methyltransferase A; protein synthesis; 1.98A {Coxiella burnetii} SCOP: c.66.1.0 Back     alignment and structure
Probab=100.00  E-value=7.2e-34  Score=233.79  Aligned_cols=116  Identities=29%  Similarity=0.474  Sum_probs=106.3

Q ss_pred             CcccCCCCCCcHHHHHHHhhhcceEeceecCCCCcCCCCccEEEEEEEec-CCCCCCCCHHHHHHHHHHHhhCcCcchHH
Q psy13718          1 MIATEGMEQRCRLSIMCQNWCNVDHRFTIPGKAFIPKPQVDVGVVHFTPR-VHPIIDLPFKLIERVVSCIFRYRQKQVYK   79 (165)
Q Consensus         1 l~A~pgtk~Yg~LSV~~q~~~dv~~l~~V~~~~F~P~PkVdSavv~l~pr-~~~~~~~~~~~f~~~vr~~F~~RRKtL~n   79 (165)
                      |+|+|||++||+|||++|+||+++++++||+++|+|+|||||+||+|+|+ +.+....+.+.|+.+++++|+||||||+|
T Consensus       138 l~a~pg~k~yg~lsv~~q~~~~~~~~~~v~~~~F~P~PkVdSavv~l~~~~~~~~~~~~~~~~~~~v~~~F~~rrK~l~~  217 (255)
T 3tqs_A          138 ITAEVGSHDYGRLSVMAQYFCDNTYLFTVSPQAFTPPPRVESAIIRLIPRHNFTPVAKNLDQLSHVVKEAFSYRRKTVGN  217 (255)
T ss_dssp             HTCCTTSTTCSHHHHHHHHHEEEEEEEEECGGGEESCCSSCEEEEEEEECCSCSSCCSCHHHHHHHHHHHHHSTTSCHHH
T ss_pred             hhCCCCCCccchhhheeeeeEEEEEEEEEChHHccCCCCCeEEEEEEEECCCCCCccccHHHHHHHHHHHHHccChHHHH
Confidence            57999999999999999999999999999999999999999999999999 65433457889999999999999999999


Q ss_pred             HHhhhCChhHHHHHHHHHHHcCCCCCCCccccCHHHHHHHHHHH
Q psy13718         80 PASLLFPKRKRQLVVSLLERACVKPILRPYQLSVQEFGQICLAY  123 (165)
Q Consensus        80 ~L~~~~~~~~~~~~~~~L~~~gi~~~~R~e~Ls~eqf~~L~~~l  123 (165)
                      +|+.+++.       +.++++||+++.|||+||++||++|++.+
T Consensus       218 ~L~~~~~~-------~~l~~~~i~~~~R~e~Ls~~~f~~L~~~~  254 (255)
T 3tqs_A          218 ALKKLINP-------SQWPLLEINPQLRPQELTVEDFVKISNIL  254 (255)
T ss_dssp             HTTTTCCG-------GGTGGGTCCTTSCGGGSCHHHHHHHHHHH
T ss_pred             HHhhhCCH-------HHHHHCCcCCCCCceeCCHHHHHHHHHHh
Confidence            99998763       24688999999999999999999999876
>3fut_A Dimethyladenosine transferase; methyltransferase, dimethyltransferase, dual-specific methyltransferase, 16S rRNA methyltransferase; 1.52A {Thermus thermophilus} PDB: 3fuu_A* 3fuv_A 3fuw_A* 3fux_A* Back     alignment and structure
>3uzu_A Ribosomal RNA small subunit methyltransferase A; ssgcid, seattle structural genomics center for infectio disease; 1.75A {Burkholderia pseudomallei} Back     alignment and structure
>1qyr_A KSGA, high level kasugamycin resistance protein, S-adenosylMet; adenosine dimethyltransferase, rRNA modification, transferase, translation; 2.10A {Escherichia coli} SCOP: c.66.1.24 PDB: 4adv_V 3tpz_A Back     alignment and structure
>3gru_A Dimethyladenosine transferase; rossman fold, ribosomal assem adenosyl-L-methionine, rRNA, methyltransferase, RNA-binding processing; HET: AMP; 1.60A {Methanocaldococcus jannaschii} PDB: 3grr_A* 3grv_A* 3gry_A* 3fyd_A 3fyc_A* Back     alignment and structure
>3ftd_A Dimethyladenosine transferase; KSGA, rossmann-like fold, RNA methyltransferase, mtase, anti resistance, methyltransferase, RNA-binding; 1.44A {Aquifex aeolicus} PDB: 3ftc_A 3fte_A 3ftf_A* 3r9x_B* Back     alignment and structure
>1i4w_A Mitochondrial replication protein MTF1; mitochondrial transcription factor, transcription initiation; 2.60A {Saccharomyces cerevisiae} SCOP: c.66.1.24 Back     alignment and structure
>1zq9_A Probable dimethyladenosine transferase; SGC, structural genomics, structural genomics consortium; HET: SAM; 1.90A {Homo sapiens} SCOP: c.66.1.24 Back     alignment and structure
>2h1r_A Dimethyladenosine transferase, putative; SGC toronto dimethyladenosine transferase, structural genomics, structural genomics consortium; 1.89A {Plasmodium falciparum} Back     alignment and structure
>1qam_A ERMC' methyltransferase; rRNA methyltransferase ERMC', cofactor analogs; 2.20A {Bacillus subtilis} SCOP: c.66.1.24 PDB: 1qan_A* 1qao_A* 1qaq_A* 2erc_A Back     alignment and structure
>1yub_A Ermam, rRNA methyltransferase; MLS antibiotics; NMR {Streptococcus pneumoniae} SCOP: c.66.1.24 Back     alignment and structure
>3u6p_A Formamidopyrimidine-DNA glycosylase; DNA glycosylase, DNA repair, sequence context; HET: DNA 08Q; 1.60A {Geobacillus stearothermophilus} PDB: 3u6d_A* 3u6c_A* 3u6l_A* 3u6m_A* 3u6o_A* 3u6e_A* 3u6q_A* 3u6s_A* 3gp1_A* 3sbj_A* 2f5q_A* 2f5s_A* 3gq4_A* 3gpy_A* 2f5n_A 2f5o_A 2f5p_A 3sau_A* 3sar_A* 3sav_A* ... Back     alignment and structure
>1ee8_A MUTM (FPG) protein; beta sandwich, zinc finger, helix two-turns helix, riken STR genomics/proteomics initiative, RSGI, structural genomics; 1.90A {Thermus thermophilus} SCOP: a.156.1.2 b.113.1.1 g.39.1.8 Back     alignment and structure
>3j20_O 30S ribosomal protein S13P; archaea, archaeal, KINK-turn, protein synthe ribosome; 6.60A {Pyrococcus furiosus} Back     alignment and structure
>2xzf_A Formamidopyrimidine-DNA glycosylase; hydrolase-DNA complex; HET: VET; 1.80A {Lactococcus lactis subsp} PDB: 1pm5_A* 1xc8_A* 1pji_A* 2xzu_A* 3c58_A* 1tdz_A* 1nnj_A 1kfv_A 1pjj_A* Back     alignment and structure
>3twl_A Formamidopyrimidine-DNA glycosylase 1; helix two turns helix, zinc-LESS finger, hydrolase, DNA DAMA repair, DNA-binding, glycosidase, lyase; 1.70A {Arabidopsis thaliana} PDB: 3twm_A* 3twk_A Back     alignment and structure
>3iz6_M 40S ribosomal protein S18 (S13P); eukaryotic ribosome,homology modeling,de novo modeling,ribos proteins,novel ribosomal proteins, ribosome; 5.50A {Triticum aestivum} Back     alignment and structure
>2xzm_M RPS18E; ribosome, translation; 3.93A {Tetrahymena thermophila} PDB: 2xzn_M Back     alignment and structure
>1k82_A Formamidopyrimidine-DNA glycosylase; protein-DNA complex, DNA repair, beta sandwich, zinc finger, helix two-turns helix, hydrolase/DNA complex; HET: PED; 2.10A {Escherichia coli} SCOP: a.156.1.2 b.113.1.1 g.39.1.8 Back     alignment and structure
>2vqe_M 30S ribosomal protein S13, 30S ribosomal protein S6; tRNA-binding, rRNA-binding, metal-binding, zinc-finger, translation; HET: TM2 PAR; 2.5A {Thermus thermophilus} SCOP: a.156.1.1 PDB: 1gix_P* 1hnw_M* 1hnx_M* 1hnz_M* 1hr0_M 1ibk_M* 1ibl_M* 1ibm_M 1j5e_M 1jgo_P* 1jgp_P* 1jgq_P* 1mj1_P* 1ml5_P* 1n32_M* 1n33_M* 1n34_M 1n36_M 1xmo_M* 1xmq_M* ... Back     alignment and structure
>3u5c_S 40S ribosomal protein S18-A, 40S ribosomal protein S17-A; translation, ribosome, ribosomal, ribosomal R ribosomal protein, eukaryotic ribosome, RNA-protein C; 3.00A {Saccharomyces cerevisiae} PDB: 3izb_M 3o30_L 3o2z_L 3u5g_S 1s1h_M 3jyv_M* 2zkq_m Back     alignment and structure
>1k3x_A Endonuclease VIII; hydrolase/DNA, hydrolase-DNA complex; HET: BRU PED; 1.25A {Escherichia coli} SCOP: a.156.1.2 b.113.1.1 g.39.1.8 PDB: 1k3w_A* 1q39_A 2ea0_A* 2oq4_A* 1q3c_A 2opf_A* 1q3b_A* Back     alignment and structure
>3vk8_A Probable formamidopyrimidine-DNA glycosylase; DNA glycosylase, hneil1 ortholog, DNA lesion, thymine glycol zincless finger; HET: DNA CTG; 2.00A {Acanthamoeba polyphaga mimivirus} PDB: 3vk7_A* 3a42_A 3a46_A* 3a45_A* Back     alignment and structure
>3w0f_A Endonuclease 8-like 3; helix two turns helix, zinc finger, DNA binding, hydrolase; 2.00A {Mus musculus} Back     alignment and structure
>2gqf_A Hypothetical protein HI0933; structural genomics, FAD-utilizing protein, flavoprotein, PS protein structure initiative; HET: FAD; 2.70A {Haemophilus influenzae} SCOP: c.3.1.8 e.74.1.1 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 165
d1i4wa_322 c.66.1.24 (A:) Transcription factor sc-mtTFB {Bake 3e-17
d1yuba_245 c.66.1.24 (A:) rRNA adenine dimethylase {Streptoco 2e-11
d1qyra_252 c.66.1.24 (A:) High level kasugamycin resistance p 1e-10
d1qama_235 c.66.1.24 (A:) rRNA adenine dimethylase {Bacillus 9e-10
d1zq9a1278 c.66.1.24 (A:36-313) Probable dimethyladenosine tr 5e-04
>d1i4wa_ c.66.1.24 (A:) Transcription factor sc-mtTFB {Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]} Length = 322 Back     information, alignment and structure

class: Alpha and beta proteins (a/b)
fold: S-adenosyl-L-methionine-dependent methyltransferases
superfamily: S-adenosyl-L-methionine-dependent methyltransferases
family: rRNA adenine dimethylase-like
domain: Transcription factor sc-mtTFB
species: Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]

 Score = 74.7 bits (183), Expect = 3e-17
 Identities = 15/144 (10%), Positives = 39/144 (27%), Gaps = 26/144 (18%)

Query: 1   MIATEGMEQRCRLSIMCQNWCNV---------------------DHRFTIPGKAFIPKPQ 39
           ++A  GM  R + S++ + + +                                  P   
Sbjct: 177 LLARPGMHSRSKCSVVREAFTDTKLIAISDANELKGFDSQCIEEWDPILFSAAEIWPTKG 236

Query: 40  VDVGVVHFTPRVHPIIDLPFKLIERVVSCIFRYRQKQVYKPASLLFPKRKRQLVVSLLER 99
             + +V   P             + V   +   ++  +      L    ++     + ++
Sbjct: 237 KPIALVEMDPIDFDF---DVDNWDYVTRHLMILKRTPLNTVMDSLGHGGQQYFNSRITDK 293

Query: 100 ACVKPILRPYQLSVQEFGQICLAY 123
             +K    P  L+  EF  +   +
Sbjct: 294 DLLK--KCPIDLTNDEFIYLTKLF 315
>d1yuba_ c.66.1.24 (A:) rRNA adenine dimethylase {Streptococcus pneumoniae, Ermam [TaxId: 1313]} Length = 245 Back     information, alignment and structure
>d1qyra_ c.66.1.24 (A:) High level kasugamycin resistance protein KsgA {Escherichia coli [TaxId: 562]} Length = 252 Back     information, alignment and structure
>d1qama_ c.66.1.24 (A:) rRNA adenine dimethylase {Bacillus subtilis, Ermc' [TaxId: 1423]} Length = 235 Back     information, alignment and structure
>d1zq9a1 c.66.1.24 (A:36-313) Probable dimethyladenosine transferase {Human (Homo sapiens) [TaxId: 9606]} Length = 278 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 ?
Query165
d1qyra_252 High level kasugamycin resistance protein KsgA {Es 100.0
d1zq9a1278 Probable dimethyladenosine transferase {Human (Hom 99.98
d1i4wa_322 Transcription factor sc-mtTFB {Baker's yeast (Sacc 99.95
d1qama_235 rRNA adenine dimethylase {Bacillus subtilis, Ermc' 99.9
d1yuba_245 rRNA adenine dimethylase {Streptococcus pneumoniae 99.87
d2hkja178 Topoisomerase VI-B subunit middle domain {Archaeon 96.3
d1tdza188 DNA repair protein MutM (Fpg) {Lactococcus lactis 95.84
d1r2za194 DNA repair protein MutM (Fpg) {Bacillus stearother 95.79
d1ee8a189 DNA repair protein MutM (Fpg) {Thermus thermophilu 95.71
d1k82a188 DNA repair protein MutM (Fpg) {Escherichia coli [T 95.3
d2i0za2169 Flavoprotein BC4706 {Bacillus cereus [TaxId: 1396] 95.03
d1k3xa189 Endonuclease VIII {Escherichia coli [TaxId: 562]} 94.61
d2gy9m1114 Ribosomal protein S13 {Escherichia coli [TaxId: 56 94.12
d2uubm1125 Ribosomal protein S13 {Thermus thermophilus [TaxId 92.71
d2gqfa2148 Hypothetical protein HI0933 {Haemophilus influenza 89.23
>d1qyra_ c.66.1.24 (A:) High level kasugamycin resistance protein KsgA {Escherichia coli [TaxId: 562]} Back     information, alignment and structure
class: Alpha and beta proteins (a/b)
fold: S-adenosyl-L-methionine-dependent methyltransferases
superfamily: S-adenosyl-L-methionine-dependent methyltransferases
family: rRNA adenine dimethylase-like
domain: High level kasugamycin resistance protein KsgA
species: Escherichia coli [TaxId: 562]

Probab=100.00  E-value=3.2e-33  Score=228.35  Aligned_cols=118  Identities=26%  Similarity=0.446  Sum_probs=109.1

Q ss_pred             CcccCCCCCCcHHHHHHHhhhcceEeceecCCCCcCCCCccEEEEEEEecCCCCC-CCCHHHHHHHHHHHhhCcCcchHH
Q psy13718          1 MIATEGMEQRCRLSIMCQNWCNVDHRFTIPGKAFIPKPQVDVGVVHFTPRVHPII-DLPFKLIERVVSCIFRYRQKQVYK   79 (165)
Q Consensus         1 l~A~pgtk~Yg~LSV~~q~~~dv~~l~~V~~~~F~P~PkVdSavv~l~pr~~~~~-~~~~~~f~~~vr~~F~~RRKtL~n   79 (165)
                      |+|+|||++||+|||++|++|+++++++|||++|+|+|+|||+||+|+|++.+.. ..+.+.|..|++.+|+||||+|+|
T Consensus       132 i~A~~gsk~yg~Lsv~~q~~~~~~~~~~V~~~~F~P~PkVdS~vv~l~~~~~~~~~~~~~~~~~~~~~~~F~~rRK~l~~  211 (252)
T d1qyra_         132 LVAGPNSKAYGRLSVMAQYYCNVIPVLEVPPSAFTPPPKVDSAVVRLVPHATMPHPVKDVRVLSRITTEAFNQRRKTIRN  211 (252)
T ss_dssp             HHCCTTSTTCSHHHHHHHHHEEEEEEEEECGGGEESCCSSCEEEEEEEECSSCSSCCSCHHHHHHHHHHHHHTTTSBHHH
T ss_pred             hccCCCChhhhHHHhhhhhccccccccccChhhhccccccceeEEEEecccccchhhhHHHHHHHHHHHHHccchHHHHH
Confidence            5799999999999999999999999999999999999999999999999987643 346889999999999999999999


Q ss_pred             HHhhhCChhHHHHHHHHHHHcCCCCCCCccccCHHHHHHHHHHHHH
Q psy13718         80 PASLLFPKRKRQLVVSLLERACVKPILRPYQLSVQEFGQICLAYRD  125 (165)
Q Consensus        80 ~L~~~~~~~~~~~~~~~L~~~gi~~~~R~e~Ls~eqf~~L~~~l~~  125 (165)
                      +|+.+++.       ++++.+||+++.||++||++||++|++.+.+
T Consensus       212 ~L~~~~~~-------~~l~~~~i~~~~R~e~Ls~~~~~~L~~~l~~  250 (252)
T d1qyra_         212 SLGNLFSV-------EVLTGMGIDPAMRAENISVAQYCQMANYLAE  250 (252)
T ss_dssp             HTTTTCCH-------HHHHHTTCCTTSBGGGSCHHHHHHHHHHHHH
T ss_pred             HHhhhccH-------HHHHHCCCCcccChhhCCHHHHHHHHHHHHh
Confidence            99998863       4688999999999999999999999999864
>d1zq9a1 c.66.1.24 (A:36-313) Probable dimethyladenosine transferase {Human (Homo sapiens) [TaxId: 9606]} Back     information, alignment and structure
>d1i4wa_ c.66.1.24 (A:) Transcription factor sc-mtTFB {Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]} Back     information, alignment and structure
>d1qama_ c.66.1.24 (A:) rRNA adenine dimethylase {Bacillus subtilis, Ermc' [TaxId: 1423]} Back     information, alignment and structure
>d1yuba_ c.66.1.24 (A:) rRNA adenine dimethylase {Streptococcus pneumoniae, Ermam [TaxId: 1313]} Back     information, alignment and structure
>d2hkja1 a.156.1.3 (A:229-306) Topoisomerase VI-B subunit middle domain {Archaeon Sulfolobus shibatae [TaxId: 2286]} Back     information, alignment and structure
>d1tdza1 a.156.1.2 (A:132-219) DNA repair protein MutM (Fpg) {Lactococcus lactis [TaxId: 1358]} Back     information, alignment and structure
>d1r2za1 a.156.1.2 (A:135-228) DNA repair protein MutM (Fpg) {Bacillus stearothermophilus [TaxId: 1422]} Back     information, alignment and structure
>d1ee8a1 a.156.1.2 (A:122-210) DNA repair protein MutM (Fpg) {Thermus thermophilus [TaxId: 274]} Back     information, alignment and structure
>d1k82a1 a.156.1.2 (A:129-216) DNA repair protein MutM (Fpg) {Escherichia coli [TaxId: 562]} Back     information, alignment and structure
>d2i0za2 e.74.1.1 (A:193-361) Flavoprotein BC4706 {Bacillus cereus [TaxId: 1396]} Back     information, alignment and structure
>d1k3xa1 a.156.1.2 (A:125-213) Endonuclease VIII {Escherichia coli [TaxId: 562]} Back     information, alignment and structure
>d2gy9m1 a.156.1.1 (M:1-114) Ribosomal protein S13 {Escherichia coli [TaxId: 562]} Back     information, alignment and structure
>d2uubm1 a.156.1.1 (M:2-126) Ribosomal protein S13 {Thermus thermophilus [TaxId: 274]} Back     information, alignment and structure
>d2gqfa2 e.74.1.1 (A:195-342) Hypothetical protein HI0933 {Haemophilus influenzae [TaxId: 727]} Back     information, alignment and structure