YRC Public Data Repository - Protein Structure Prediction

Protein:	RSMA_HAEDU, KSGA...
Organism:	Haemophilus ducreyi
Length:	289 amino acids
Reference:	Drew K, et al. (2011) The proteome folding project: Proteome-scale prediction of structure and function. Genome Res. 2011 Sep 16

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Top Sequence Alignment Hits

Listed below are up to the top 10 sequence alignment matches, by species, for the PSI-BLAST search against the protein sequence for RSMA_HAEDU, KSGA....

Description	E-value	Query Range	Subject Range
gi\|32034722 - gi\|32034722\|ref\|ZP_00134853.1\| COG0030: Dimethyladenosine transferase (rRNA methylation) [Actinobaci... RSMA_ACTP2 - Ribosomal RNA small subunit methyltransferase A OS=Actinobacillus pleuropneumoniae serotype 5b (stra...	316.0	[0..1]	[289..1]
gi\|145635368, gi... - gi\|145635368\|ref\|ZP_01791070.1\| dimethyladenosine transferase [Haemophilus influenzae PittAA], gi\|14... RSMA_HAEI8 - Ribosomal RNA small subunit methyltransferase A OS=Haemophilus influenzae (strain 86-028NP) GN=rsmA ...	301.0	[0..5]	[288..2]
gi\|229846634, gi... - gi\|229846634\|ref\|ZP_04466742.1\| dimethyladenosine transferase [Haemophilus influenzae 7P49H1], gi\|22... gi\|229845712, gi... - gi\|229845712\|ref\|ZP_04465834.1\| dimethyladenosine transferase [Haemophilus influenzae 6P18H1], gi\|22... gi\|42629998 - gi\|42629998\|ref\|ZP_00155543.1\| COG0030: Dimethyladenosine transferase (rRNA methylation) [Haemophilu... RSMA_HAEIG - Ribosomal RNA small subunit methyltransferase A OS=Haemophilus influenzae (strain PittGG) GN=rsmA PE... RSMA_HAEIE - Ribosomal RNA small subunit methyltransferase A OS=Haemophilus influenzae (strain PittEE) GN=rsmA PE...	299.0	[0..5]	[288..2]
RSMA_HAEIN, KSGA... - Ribosomal RNA small subunit methyltransferase A OS=Haemophilus influenzae GN=rsmA PE=3 SV=1, Dimethy... RSMA_HAEIN - Ribosomal RNA small subunit methyltransferase A OS=Haemophilus influenzae (strain ATCC 51907 / DSM 1... gi\|145628930, gi... - gi\|145628930\|ref\|ZP_01784730.1\| dimethyladenosine transferase [Haemophilus influenzae 22.1-21], gi\|1...	298.0	[0..5]	[288..2]
gi\|152978411, gi... - gi\|75429670\|ref\|ZP_00732350.1\| dimethyladenosine transferase (rRNA methylation) [Actinobacillus succ...	298.0	[0..5]	[287..3]
gi\|42630830 - gi\|42630830\|ref\|ZP_00156369.1\| COG0030: Dimethyladenosine transferase (rRNA methylation) [Haemophilu...	296.0	[0..5]	[288..2]
KSGA_PASMU, RSMA... - Ribosomal RNA small subunit methyltransferase A OS=Pasteurella multocida GN=rsmA PE=3 SV=1, Dimethyl... RSMA_PASMU - Ribosomal RNA small subunit methyltransferase A OS=Pasteurella multocida (strain Pm70) GN=rsmA PE=3 ...	295.0	[0..5]	[289..2]
gi\|91188760, gi\|... - gi\|91227108\|ref\|ZP_01261592.1\| dimethyladenosine transferase [Vibrio alginolyticus 12G01], gi\|911887... gi\|194539151, gi... - gi\|75854655\|ref\|ZP_00762334.1\| COG0030: Dimethyladenosine transferase (rRNA methylation) [Vibrio sp....	294.0	[0..9]	[277..6]
gi\|85834110, gi\|... - gi\|86148123\|ref\|ZP_01066423.1\| dimethyladenosine transferase [Vibrio sp. MED222], gi\|85834110\|gb\|EAQ... RSMA_VIBTL - Ribosomal RNA small subunit methyltransferase A OS=Vibrio tasmaniensis (strain LGP32) GN=rsmA PE=3 S...	294.0	[0..9]	[277..6]
RSMA_VIBPA - Ribosomal RNA small subunit methyltransferase A OS=Vibrio parahaemolyticus serotype O3:K6 (strain RI... gi\|149747565, gi... - gi\|153838977\|ref\|ZP_01991644.1\| dimethyladenosine transferase [Vibrio parahaemolyticus AQ3810], gi\|1... KSGA_VIBPA, RSMA... - Ribosomal RNA small subunit methyltransferase A OS=Vibrio parahaemolyticus GN=rsmA PE=3 SV=1, Dimeth...	293.0	[0..9]	[277..6]

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Predicted Domain #1

Region A:
Residues: [1-289]

      1          11         21         31         41         51         
      |          |          |          |          |          |          
    1 MRTSNSKKHL GHTARKRFGQ NFLSDMNVIH NIVAAINPRN EDFLLEIGPG LGALTEPVAE  60
   61 QVEKLTVIEL DRDLAERLRH HPFLHHKLTV IEQDALRFNF RDYFDSLNLN HHQAIRIFGN 120
  121 LPYNISTPLM FHLFKFHDLI QDMHFMLQKE VVKRLCAAPN SKAYGRLTIM AQYYCQVIPV 180
  181 LEVPPTAFKP APKVDSAVVR LMPYKTLPYP VKDVYWLNRV TTHAFNQRRK TLRNALSTLF 240
  241 TAQQLEMLGI NLTDRAENLT ISDYARLANW LCDNPPAIDT NQEILYDEL

[Run NCBI BLAST on this sequence.]

Detection Method:	PSI-BLAST
Confidence:	69.69897
Match:	1qyrA
Description:	2.1 Angstrom Crystal structure of KsgA: A Universally Conserved Adenosine Dimethyltransferase
Matching Structure (courtesy of the PDB):

Predicted functions:

Term	Confidence	Notes
methyltransferase activity	4.15445027778357	bayes_pls_golite062009
rRNA methyltransferase activity	4.09362182773099	bayes_pls_golite062009
transferase activity, transferring one-carbon groups	4.07153733729662	bayes_pls_golite062009
N-methyltransferase activity	3.67177992319602	bayes_pls_golite062009
protein methyltransferase activity	3.5512266163483	bayes_pls_golite062009
S-adenosylmethionine-dependent methyltransferase activity	3.39429041855776	bayes_pls_golite062009
RNA methyltransferase activity	3.07428840534971	bayes_pls_golite062009
histone methyltransferase activity	2.49492581548369	bayes_pls_golite062009
transferase activity	2.22303238506686	bayes_pls_golite062009
DNA-methyltransferase activity	2.14498896320526	bayes_pls_golite062009
protein-arginine N-methyltransferase activity	2.06652984530965	bayes_pls_golite062009
arginine N-methyltransferase activity	2.06652984530965	bayes_pls_golite062009
rRNA (adenine) methyltransferase activity	1.83964463328968	bayes_pls_golite062009
rRNA (adenine-N6,N6-)-dimethyltransferase activity	1.75675289134467	bayes_pls_golite062009
histone-arginine N-methyltransferase activity	1.63076727020333	bayes_pls_golite062009
transcription regulator activity	1.42049721553167	bayes_pls_golite062009
protein-arginine omega-N monomethyltransferase activity	1.26493190370687	bayes_pls_golite062009
catalytic activity	1.25333584501255	bayes_pls_golite062009
tRNA methyltransferase activity	1.12859857407629	bayes_pls_golite062009
rRNA (guanine) methyltransferase activity	1.10713374933008	bayes_pls_golite062009
DNA binding	1.03011331296251	bayes_pls_golite062009
nucleic acid binding	0.731396842794323	bayes_pls_golite062009
histone methyltransferase activity (H4-R3 specific)	0.720411427168235	bayes_pls_golite062009
site-specific DNA-methyltransferase (adenine-specific) activity	0.703178429468566	bayes_pls_golite062009
protein-arginine omega-N asymmetric methyltransferase activity	0.606920378432989	bayes_pls_golite062009
binding	0.546744797014504	bayes_pls_golite062009
mitochondrial transcription initiation factor activity	0.481383105532041	bayes_pls_golite062009
tRNA (cytosine-5-)-methyltransferase activity	0.299393192819978	bayes_pls_golite062009
tRNA (cytosine)-methyltransferase activity	0.299393192819978	bayes_pls_golite062009
rRNA (guanine-N1-)-methyltransferase activity	0.234572322347698	bayes_pls_golite062009
rRNA (uridine-2'-O-)-methyltransferase activity	0.188049877065151	bayes_pls_golite062009
transcription factor binding	0.149382105526243	bayes_pls_golite062009
rRNA (uridine) methyltransferase activity	0.130647573658872	bayes_pls_golite062009

TMHMM	2.0c	PSIPRED	v2.61
SignalP	3.0	COILS	1999
DISOPRED	v0.1	NCBI nr	06/2007
PSI-BLAST	2.2.18	FFAS	ffas03
PDB	06/2007	Pfam	22
HMMER	2.3.2

View Structure Prediction Details

Top Sequence Alignment Hits

Predicted functions: