YRC Public Data Repository - Protein Structure Prediction

Protein:	SAM4
Organism:	Saccharomyces cerevisiae
Length:	325 amino acids
Reference:	Malmström L, et al. (2007) Superfamily assignments for the yeast proteome through integration of structure prediction with the gene ontology. PLoS Biol 5(4): e76. doi:10.1371/journal.pbio.0050076

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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 SAM4.

Description	E-value	Query Range	Subject Range
METH_VIBPA - Methionine synthase OS=Vibrio parahaemolyticus serotype O3:K6 (strain RIMD 2210633) GN=metH PE=3 SV=... gi\|153840028, gi... - gi\|153840028\|ref\|ZP_01992695.1\| methionine synthase [Vibrio parahaemolyticus AQ3810], gi\|149746415\|g... METH_VIBPA - Methionine synthase OS=Vibrio parahaemolyticus GN=metH PE=3 SV=1	0.0	[1..325]	[1..330]
gi\|24983930, gi\|... - gi\|26989099\|ref\|NP_744524.1\| B12-dependent methionine synthase [Pseudomonas putida KT2440], gi\|24983...	0.0	[3..324]	[5..331]
SO1030 - 5-methyltetrahydrofolate--homocysteine methyltransferase gi\|24372616, gi\|... - gi\|24372616\|ref\|NP_716658.1\| B12-dependent methionine synthase [Shewanella oneidensis MR-1], gi\|2434...	0.0	[2..322]	[8..337]
gi\|121630369, gi... - gi\|75816808\|ref\|ZP_00747268.1\| COG1410: Methionine synthase I, cobalamin-binding domain [Vibrio chol... gi\|121548155, gi... - gi\|121587582\|ref\|ZP_01677347.1\| 5-methyltetrahydrofolate--homocysteine methyltransferase [Vibrio cho... gi\|124118339, gi... - gi\|153223242\|ref\|ZP_01953739.1\| 5-methyltetrahydrofolate--homocysteine methyltransferase [Vibrio cho... gi\|126520229, gi... - gi\|229508815\|ref\|ZP_04398307.1\| 5-methyltetrahydrofolate--homocysteine methyltransferase [Vibrio cho... METH_VIBCH - Methionine synthase OS=Vibrio cholerae GN=metH PE=3 SV=1 gi\|227080601, gi... - gi\|227080601\|ref\|YP_002809152.1\| 5-methyltetrahydrofolate--homocysteine methyltransferase [Vibrio ch... gi\|229344492, gi... - gi\|229519803\|ref\|ZP_04409246.1\| 5-methyltetrahydrofolate--homocysteine methyltransferase [Vibrio cho... gi\|229368983, gi... - gi\|229606328\|ref\|YP_002876976.1\| 5-methyltetrahydrofolate--homocysteine methyltransferase [Vibrio ch... gi\|254850622, gi... - gi\|75829069\|ref\|ZP_00758388.1\| COG1410: Methionine synthase I, cobalamin-binding domain [Vibrio chol... METH_VIBCH - Methionine synthase OS=Vibrio cholerae serotype O1 (strain ATCC 39315 / El Tor Inaba N16961) GN=metH... gi\|75828368, gi\|... - gi\|75828368\|ref\|ZP_00757803.1\| COG1410: Methionine synthase I, cobalamin-binding domain [Vibrio chol...	1.0E-99	[1..324]	[1..329]
gi\|30138951, gi\|... - gi\|30249588\|ref\|NP_841658.1\| B12-dependent methionine synthase [Nitrosomonas europaea ATCC 19718], g...	2.0E-99	[1..324]	[1..332]
METH_PSEAE - Methionine synthase OS=Pseudomonas aeruginosa GN=metH PE=3 SV=1 METH_PSEAE - Methionine synthase OS=Pseudomonas aeruginosa (strain ATCC 15692 / PAO1 / 1C / PRS 101 / LMG 12228) ... gi\|84321306, gi\|... - gi\|84321306\|ref\|ZP_00969664.1\| COG1410: Methionine synthase I, cobalamin-binding domain [Pseudomonas... gi\|254240237, gi... - gi\|84327880\|ref\|ZP_00975894.1\| COG1410: Methionine synthase I, cobalamin-binding domain [Pseudomonas...	5.0E-99	[3..324]	[9..335]
gi\|28279621, gi\|... - gi\|37620202\|ref\|NP_932338.1\| 5-methyltetrahydrofolate-homocysteine methyltransferase [Danio rerio], ...	7.0E-99	[2..322]	[13..337]
METH_ALIFS - Methionine synthase OS=Aliivibrio fischeri GN=metH PE=3 SV=1	1.0E-98	[1..324]	[1..330]
gi\|34101513, gi\|... - gi\|34495658\|ref\|NP_899873.1\| B12-dependent methionine synthase [Chromobacterium violaceum ATCC 12472...	4.0E-98	[1..324]	[1..331]
tr\|Q881Z7\|Q881Z7... - 5-methyltetrahydrofolate--homocysteine methyltransferase OS=Pseudomonas syringae pv. tomato (strain ... gi\|28869919, gi\|... - gi\|28869919\|ref\|NP_792538.1\| B12-dependent methionine synthase [Pseudomonas syringae pv. tomato str....	7.0E-98	[7..324]	[9..331]

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Predicted Domain #1

Region A:
Residues: [1-325]

      1          11         21         31         41         51         
      |          |          |          |          |          |          
    1 MARLPLKQFL ADNPKKVLVL DGGQGTELEN RGIKVANPVW STIPFISESF WSDESSANRK  60
   61 IVKEMFNDFL NAGAEILMTT TYQTSYKSVS ENTPIRTLSE YNNLLNRIVD FSRNCIGEDK 120
  121 YLIGCIGPWG AHICREFTGD YGAEPENIDF YQYFKPQLEN FNKNDKLDLI GFETIPNIHE 180
  181 LKAILSWDES ILSRPFYIGL SVHEHGVLRD GTTMEEIAQV IKDLGDKINP NFSFLGINCV 240
  241 SFNQSPDILE SLHQALPNMA LLAYPNSGEV YDTEKKIWLP NSDKLNSWDT VVKQYISSGA 300
  301 RIIGGCCRTS PKDIQEISAA VKKYT

[Run NCBI BLAST on this sequence.]

Detection Method:	PSI-BLAST
Confidence:	109.69897
Match:	1lt8A_
Description:	Betaine-homocysteine S-methyltransferase
Matching Structure (courtesy of the PDB):

Predicted functions:

Term	Confidence	Notes
S-methyltransferase activity	3.53817178180686	bayes_pls_golite062009
homocysteine S-methyltransferase activity	2.53321380120921	bayes_pls_golite062009
catalytic activity	1.41033217274476	bayes_pls_golite062009
transferase activity	0.499011632852061	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: