YRC Public Data Repository - Protein Structure Prediction

Protein:	RMA1
Organism:	Saccharomyces cerevisiae
Length:	430 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 RMA1.

Description	E-value	Query Range	Subject Range
FOL3 - Dihydrofolate synthetase, involved in folic acid biosynthesis; catalyzes the conversion of dihydropt... gi\|151946269 - gi\|151946269\|gb\|EDN64500.1\| dihydrofolate synthetase [Saccharomyces cerevisiae YJM789] FOLD_YEAST - Dihydrofolate synthetase OS=Saccharomyces cerevisiae (strain ATCC 204508 / S288c) GN=FOL3 PE=1 SV=1	4.0E-77	[6..428]	[3..425]
FOLC_BACSU - Folylpolyglutamate synthase OS=Bacillus subtilis GN=folC PE=3 SV=2 gi\|221324274 - gi\|221324274\|ref\|ZP_03605568.1\| folyl-polyglutamate synthetase [Bacillus subtilis subsp. subtilis st... gi\|221319992 - gi\|221319992\|ref\|ZP_03601286.1\| folyl-polyglutamate synthetase [Bacillus subtilis subsp. subtilis st... gi\|221315073 - gi\|221315073\|ref\|ZP_03596878.1\| folyl-polyglutamate synthetase [Bacillus subtilis subsp. subtilis st... FOLC_BACSU - Folylpolyglutamate synthase OS=Bacillus subtilis (strain 168) GN=folC PE=3 SV=2	2.0E-76	[4..425]	[18..430]
gi\|18310900, gi\|... - gi\|18310900\|ref\|NP_562834.1\| FolC bifunctional protein [Clostridium perfringens str. 13], gi\|1814558...	1.0E-75	[4..422]	[16..425]
gi\|25293636 - pir\|\|E84029 folyl-polyglutamate synthetase folC [imported] - Bacillus halodurans (strain C-125) gi\|15615599, gi\|... - gi\|15615599\|ref\|NP_243903.1\| folyl-polyglutamate synthetase [Bacillus halodurans C-125], gi\|10175659...	2.0E-72	[4..424]	[17..427]
gi\|15025411, gi\|... - gi\|15895664\|ref\|NP_349013.1\| folylpolyglutamate synthase [Clostridium acetobutylicum ATCC 824], gi\|1... gi\|25293639 - pir\|\|F97195 folylpolyglutamate synthase [imported] - Clostridium acetobutylicum	3.0E-70	[4..425]	[16..430]
gi\|16803591 - gi\|16803591\|ref\|NP_465076.1\| hypothetical protein lmo1551 [Listeria monocytogenes EGD-e] gi\|224501509 - gi\|224501509\|ref\|ZP_03669816.1\| hypothetical protein LmonFR_03162 [Listeria monocytogenes FSL R2-561... gi\|224499789 - gi\|224499789\|ref\|ZP_03668138.1\| hypothetical protein LmonF1_08929 [Listeria monocytogenes Finland 19... gi\|25293647, gi\|... - pir\|\|AG1268 Folyl-polyglutamate synthetase homolog folC [imported] - Listeria monocytogenes (strain ... gi\|254912225, gi... - gi\|254912225\|ref\|ZP_05262237.1\| hypothetical protein LmonJ2_05465 [Listeria monocytogenes J2818], gi... gi\|47014900, gi\|... - gi\|47096716\|ref\|ZP_00234301.1\| folylpolyglutamate synthase [Listeria monocytogenes str. 1/2a F6854],... gi\|133733072, gi... - gi\|254936553\|ref\|ZP_05268250.1\| hypothetical protein LmonF6_05450 [Listeria monocytogenes F6900], gi... gi\|254898282 - gi\|254898282\|ref\|ZP_05258206.1\| hypothetical protein LmonJ_00665 [Listeria monocytogenes J0161] gi\|255028739 - gi\|255028739\|ref\|ZP_05300690.1\| hypothetical protein LmonL_05311 [Listeria monocytogenes LO28]	3.0E-70	[4..424]	[19..424]
gi\|15642940, gi\|... - gi\|4980660\|gb\|AAD35259.1\|AE001701_12 folylpolyglutamate synthase/dihydrofolate synthase [Thermotoga ... gi\|7437972 - pir\|\|D72411 folylpolyglutamate synthase/dihydrofolate synthase - Thermotoga maritima (strain MSB8)	5.0E-70	[5..425]	[18..420]
gi\|7437975 - pir\|\|S75037 folyl-polyglutamate synthetase - Synechocystis sp. (strain PCC 6803) gi\|16330491, gi\|... - gi\|1652982\|dbj\|BAA17899.1\| folyl-polyglutamate synthetase [Synechocystis sp. PCC 6803], gi\|16330491\|...	9.0E-70	[5..426]	[14..426]
gi\|16800654 - gi\|16800654\|ref\|NP_470922.1\| hypothetical protein lin1586 [Listeria innocua Clip11262] gi\|25293648, gi\|... - pir\|\|AI1630 Folyl-polyglutamate synthetase homolog folC [imported] - Listeria innocua (strain Clip11...	1.0E-69	[4..424]	[19..424]

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Predicted Domain #1

Region A:
Residues: [1-276]

      1          11         21         31         41         51         
      |          |          |          |          |          |          
    1 MDDISGRQTL PRINRLLEHV GNPQDSLSIL HIAGTNGKET VSKFLTSILQ HPGQQRQRVL  60
   61 IGRYTTSSLL NAKEEDISIN NEAISLIEYS RIEKELIEAD SSLKLQCNNL ELLTSVALVY 120
  121 FAKKNCQWCI IETGLAGKQD PGSIIAGQSR VCCAITNVGI SDEAFLCKFL SQITESSTNK 180
  181 AIFLLDGSND EFVRNTITKR CHDVGCPLEI TDPSLRDYNV HTDTWGTLEV RLPYSEEEYQ 240
  241 IFNLRVAIAV LDFLSKEKKV CISKDQLSQG LISVDW

[Run NCBI BLAST on this sequence.]

Detection Method:	PSI-BLAST
Confidence:	184.9897
Match:	1fgs__
Description:	Folylpolyglutamate synthetase, C-terminal domain; Folylpolyglutamate synthetase
Matching Structure (courtesy of the PDB):

Predicted functions:

Term	Confidence	Notes
acid-amino acid ligase activity	4.03401034724886	bayes_pls_golite062009
tetrahydrofolylpolyglutamate synthase activity	3.94486215528378	bayes_pls_golite062009
ligase activity	3.80574681739772	bayes_pls_golite062009
catalytic activity	2.66037860982128	bayes_pls_golite062009
dihydrofolate synthase activity	2.50201834836027	bayes_pls_golite062009
ligase activity, forming carbon-nitrogen bonds	1.96801058335544	bayes_pls_golite062009

Predicted Domain #2

Region A:
Residues: [277-430]

      1          11         21         31         41         51         
      |          |          |          |          |          |          
    1 PRSLHRLDYC YESTSGKKIA LLLDNANNAK AARNLACHLR TTYGDTPLTF VIAITTGKKV  60
   61 SPLLDPLIRP QDYVIVTRFG SVVGMPWIQS LEPVNLLAFI KNRYTRNVNM QPDLQSVWTF 120
  121 LETSGLKTIV PVIVCGSLYI CKELLRLHNC HLPV

[Run NCBI BLAST on this sequence.]

Detection Method:	PSI-BLAST
Confidence:	184.9897
Match:	1fgs__
Description:	Folylpolyglutamate synthetase, C-terminal domain; Folylpolyglutamate synthetase
Matching Structure (courtesy of the PDB):

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: