YRC Public Data Repository - Protein Structure Prediction

Protein:	MSF1
Organism:	Saccharomyces cerevisiae
Length:	469 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 MSF1.

Description	E-value	Query Range	Subject Range
gi\|171998 - gi\|171998\|gb\|AAA34800.1\| mitochondrial phenylalanyl-tRNA synthetase alpha subunit precursor	0.0	[1..469]	[6..474]
gi\|44982306 - gi\|44982306\|gb\|AAS51615.1\| ADL305Cp [Ashbya gossypii ATCC 10895] gi\|44982306, gi\|... - gi\|45187568\|ref\|NP_983791.1\| ADL305Cp [Ashbya gossypii ATCC 10895], gi\|44982306\|gb\|AAS51615.1\| ADL30...	3.0E-94	[10..469]	[9..459]
gi\|40739447, gi\|... - gi\|67540166\|ref\|XP_663857.1\| hypothetical protein AN6253.2 [Aspergillus nidulans FGSC A4], ref\|XP_41...	9.0E-87	[29..469]	[5..444]
gi\|238881898 - gi\|238881898\|gb\|EEQ45536.1\| phenylalanyl-tRNA synthetase, mitochondrial precursor [Candida albicans ... gi\|68472589, gi\|... - gi\|68472846\|ref\|XP_719488.1\| hypothetical protein CaO19.2039 [Candida albicans SC5314], gi\|68472589\|... orf19.2039, orf1... - orf19.2039 CGDID:CAL0004392 Assembly 19, Contig19-10139 (91856, 90516) CDS, reverse complemented, tr...	5.0E-86	[25..469]	[27..446]
gi\|42545042, gi\|... - gi\|46109134\|ref\|XP_381625.1\| hypothetical protein FG01449.1 [Gibberella zeae PH-1], gi\|42545042\|gb\|E...	7.0E-86	[23..469]	[47..484]
gi\|85082668 - gi\|85082668\|ref\|XP_956961.1\| phenylalanyl-tRNA synthetase, mitochondrial precursor [Neurospora crass... gi\|16416062, gi\|... - gi\|32414943\|ref\|XP_327951.1\| related to mitochondrial phenylalanyl-tRNA synthetase (MSF1) [MIPS] [Ne...	8.0E-86	[16..469]	[70..517]
gi\|8778091 - gi\|8778091\|gb\|AAF79201.1\| phenylalanyl-tRNA synthetase alpha subunit-like protein [Emericella nidula...	3.0E-81	[52..469]	[19..436]
gi\|227081392, gi... - gi\|227081392\|ref\|YP_002809943.1\| phenylalanyl-tRNA synthetase, beta chain [Vibrio cholerae M66-2], g... SYFB_VIBCH - Phenylalanine--tRNA ligase beta subunit OS=Vibrio cholerae serotype O1 (strain ATCC 39315 / El Tor I... gi\|126518604, gi... - gi\|229511143\|ref\|ZP_04400622.1\| phenylalanyl-tRNA synthetase beta chain [Vibrio cholerae B33], gi\|22... gi\|229505187, gi... - gi\|229505187\|ref\|ZP_04394697.1\| phenylalanyl-tRNA synthetase beta chain [Vibrio cholerae BX 330286],... gi\|229518261, gi... - gi\|229518261\|ref\|ZP_04407705.1\| phenylalanyl-tRNA synthetase beta chain [Vibrio cholerae RC9], gi\|22... gi\|229608207, gi... - gi\|229608207\|ref\|YP_002878855.1\| phenylalanyl-tRNA synthetase beta chain [Vibrio cholerae MJ-1236], ... SYFB_VIBCH - Phenylalanine--tRNA ligase beta chain OS=Vibrio cholerae GN=pheT PE=3 SV=1 gi\|254844050, gi... - gi\|75829638\|ref\|ZP_00758934.1\| COG0072: Phenylalanyl-tRNA synthetase beta subunit [Vibrio cholerae M... gi\|121730320, gi... - gi\|75814003\|ref\|ZP_00744667.1\| COG0072: Phenylalanyl-tRNA synthetase beta subunit [Vibrio cholerae V...	3.0E-81	[10..469]	[364..794]

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Predicted Domain #1

Region A:
Residues: [1-469]

      1          11         21         31         41         51         
      |          |          |          |          |          |          
    1 MFLNRMMKTR TGLYRLYSTL KVPHVEINGI KYKTDPQTTN VTDSIIKLTD RSLHLKESHP  60
   61 VGILRDLIEK KLNSVDNTFK IFNNFKPVVT TMENFDSLGF PKDHPGRSKS DTYYINETHL 120
  121 LRTHTSAHEL ECFQKIRNDS DNIKSGFLIS ADVYRRDEID KTHYPVFHQM EGATIWKRTK 180
  181 ADVGVKEPMY IEKIREDIRQ VENLLNKENV KITVDDDTIP LKENNPKQEY MSDLEVDLCS 240
  241 QHLKRSIELI VSEVFNKKIS SMIKNKANNT PKELKVRWIN AYFPWTAPSW EIEVWWQGEW 300
  301 LELCGCGLIR QDVLLRAGYK PSETIGWAFG LGLDRIAMLL FEIPDIRLLW SRDERFSRQF 360
  361 SKGLITSFKP YSKHPGSFRD VAFWLPEDKP DIHQVHENDL MEIIRNIAGD LVESVKLVDS 420
  421 FTHPKTGRKS MCYRINYQSM DRNLTNAEVN TLQDMVCSKL VKEYSVELR

[Run NCBI BLAST on this sequence.]

Detection Method:	PSI-BLAST
Confidence:	49.0
Match:	1b70B_
Description:	Domains B1 and B5 of PheRS-beta, PheT; Domain B2 of PheRS-beta, PheT; Phenylalanyl-tRNA synthetase; Phenyl-tRNA synthetase (PheRS) beta subunit, PheT, central domain; B3/B4 domain of PheRS, PheT
Matching Structure (courtesy of the PDB):

Predicted functions:

Term	Confidence	Notes
ligase activity, forming aminoacyl-tRNA and related compounds	7.89468709683036	bayes_pls_golite062009
ligase activity, forming carbon-oxygen bonds	7.89468709683036	bayes_pls_golite062009
aminoacyl-tRNA ligase activity	7.88410036819636	bayes_pls_golite062009
phenylalanine-tRNA ligase activity	7.1807508219467	bayes_pls_golite062009
ligase activity	6.92073480193262	bayes_pls_golite062009
serine-tRNA ligase activity	2.46505535069103	bayes_pls_golite062009
glycine-tRNA ligase activity	2.29229136935761	bayes_pls_golite062009
threonine-tRNA ligase activity	2.18642354927	bayes_pls_golite062009
catalytic activity	1.99372273395202	bayes_pls_golite062009
alanine-tRNA ligase activity	1.82594054955281	bayes_pls_golite062009
lysine-tRNA ligase activity	1.72324031407565	bayes_pls_golite062009
histidine-tRNA ligase activity	1.72215103383322	bayes_pls_golite062009
binding	0.966824335333342	bayes_pls_golite062009
asparagine-tRNA ligase activity	0.921492123574877	bayes_pls_golite062009
transcription regulator activity	0.375542987753806	bayes_pls_golite062009
transcription activator activity	0.36727492354438	bayes_pls_golite062009
nucleic acid binding	0.281662799812287	bayes_pls_golite062009
protein binding	0.0804954454681041	bayes_pls_golite062009
DNA binding	0.0309732052586011	bayes_pls_golite062009
RNA binding	0.0221706730298825	bayes_pls_golite062009
aspartate-tRNA ligase activity	0.00572514744734753	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: