YRC Public Data Repository - Protein Structure Prediction

Protein:	IFM1
Organism:	Saccharomyces cerevisiae
Length:	676 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 IFM1.

Description	E-value	Query Range	Subject Range
gi\|3850753 - gi\|3850753\|emb\|CAA05699.1\| Initiation factor IF2-beta [Klebsiella oxytoca]	0.0	[5..676]	[97..737]
gi\|17988248, gi\|... - gi\|17988248\|ref\|NP_540882.1\| translation initiation factor IF-2 [Brucella melitensis 16M], gi\|179840... gi\|25299475 - pir\|\|AG3497 bacterial protein translation initiation factor 2 (IF-2) [imported] - Brucella melitensi...	0.0	[9..676]	[101..733]
gi\|121587865, gi... - gi\|121587865\|ref\|ZP_01677622.1\| initiation factor IF-2 [Vibrio cholerae 2740-80], gi\|121547901\|gb\|EA... gi\|121728406, gi... - gi\|121728406\|ref\|ZP_01681434.1\| initiation factor IF-2 [Vibrio cholerae V52], gi\|121629340\|gb\|EAX617... gi\|254846582, gi... - gi\|75831563\|ref\|ZP_00760825.1\| COG0532: Translation initiation factor 2 (IF-2; GTPase) [Vibrio chole... gi\|153818677, gi... - gi\|153818677\|ref\|ZP_01971344.1\| initiation factor IF-2 [Vibrio cholerae NCTC 8457], gi\|126510757\|gb\|... IF2_VIBC3 - Translation initiation factor IF-2 OS=Vibrio cholerae serotype O1 (strain ATCC 39541 / Classical Oga... gi\|229353804, gi... - gi\|229509232\|ref\|ZP_04398717.1\| translation initiation factor 2 [Vibrio cholerae B33], gi\|229353804\|... IF2_VIBCH - Translation initiation factor IF-2 OS=Vibrio cholerae GN=infB PE=3 SV=1 IF2_VIBCM - Translation initiation factor IF-2 OS=Vibrio cholerae serotype O1 (strain M66-2) GN=infB PE=3 SV=1 gi\|229357958, gi... - gi\|229505735\|ref\|ZP_04395245.1\| translation initiation factor 2 [Vibrio cholerae BX 330286], gi\|2293... gi\|229512905, gi... - gi\|229512905\|ref\|ZP_04402372.1\| translation initiation factor 2 [Vibrio cholerae TMA 21], gi\|2293501... gi\|229344248, gi... - gi\|229519559\|ref\|ZP_04409002.1\| translation initiation factor 2 [Vibrio cholerae RC9], gi\|229344248\|... gi\|229608846, gi... - gi\|229608846\|ref\|YP_002879494.1\| translation initiation factor 2 [Vibrio cholerae MJ-1236], gi\|22937... gi\|148875362, gi... - gi\|153829173\|ref\|ZP_01981840.1\| initiation factor IF-2 [Vibrio cholerae 623-39], gi\|148875362\|gb\|EDL... IF2_VIBCH - Translation initiation factor IF-2 OS=Vibrio cholerae serotype O1 (strain ATCC 39315 / El Tor Inaba ...	0.0	[16..676]	[267..897]
gi\|2597882, gi\|2... - gi\|42146\|emb\|CAA25202.1\| unnamed protein product [Escherichia coli], gi\|2597882\|emb\|CAA05545.1\| Init...	0.0	[3..676]	[94..732]
IF2M_YEAST - Translation initiation factor IF-2, mitochondrial OS=Saccharomyces cerevisiae (strain ATCC 204508 / ... IFM1 - Mitochondrial translation initiation factor 2 gi\|190407319 - gi\|190407319\|gb\|EDV10586.1\| mitochondrial initiation factor 2 [Saccharomyces cerevisiae RM11-1a]	0.0	[1..676]	[1..676]
gi\|3859103\|emb\|C... - initiation factor IF2-beta [Salmonella typhimurium] gi\|3859103 - gi\|3859103\|emb\|CAA05550.1\| initiation factor IF2-beta [Salmonella typhimurium]	0.0	[3..676]	[95..733]
IF2_BACHD - Translation initiation factor IF-2 OS=Bacillus halodurans (strain ATCC BAA-125 / DSM 18197 / FERM 73... IF2_BACHD - Translation initiation factor IF-2 OS=Bacillus halodurans GN=infB PE=3 SV=1	0.0	[8..675]	[99..730]

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Predicted Domain #1

Region A:
Residues: [1-119]

      1          11         21         31         41         51         
      |          |          |          |          |          |          
    1 MLRRHGLFWL KTCPRLNVLL NQSIPIPHLL HSRDICQQRW YAKGKRRNQI SKKELKPLNF  60
   61 SIPNYISVNK LANLLNCRVE RLIKDLTALG FENITTTYIL SKEYVELILQ EYNFALPNL

[Run NCBI BLAST on this sequence.]

Detection Method:

MSA

Shown below are all of our structure predictions for this domain.
Click here to view only most confident match.

		MCM Score	GO Score	GO Term	SCOP Match	SCOP Description
View	Download	0.249	0.427	GTPase activity	a.91.1	Regulator of G-protein signalling, RGS
View	Download	0.293	0.023	mitochondrion	a.2.11	Fe,Mn superoxide dismutase (SOD), N-terminal domain
View	Download	0.255	0.012	translation initiation factor activity	a.77.1	DEATH domain
View	Download	0.266	N/A	N/A	a.2.11	Fe,Mn superoxide dismutase (SOD), N-terminal domain
View	Download	0.259	N/A	N/A	f.34.1	Mechanosensitive channel protein MscS (YggB), transmembrane region
View	Download	0.228	N/A	N/A	a.130.1	Chorismate mutase II
View	Download	0.210	N/A	N/A	a.24.9	alpha-catenin/vinculin

Predicted Domain #2

Region A:
Residues: [120-322]

      1          11         21         31         41         51         
      |          |          |          |          |          |          
    1 STSTNLDNVY DELKSPVNPK LLTKRAPVVT IMGHVDHGKT TIIDYLRKSS VVAQEHGGIT  60
   61 QHIGAFQITA PKSGKKITFL DTPGHAAFLK MRERGANITD IIVLVVSVED SLMPQTLEAI 120
  121 KHAKNSGNEM IIAITKIDRI PQPKEREKKI EKVINDLIVQ GIPVEKIGGD VQVIPISAKT 180
  181 GENMDLLEES IVLLSEVMDI RAE

[Run NCBI BLAST on this sequence.]

Detection Method:	PSI-BLAST
Confidence:	387.68867
Match:	1g7sA_
Description:	Initiation factor IF2/eIF5b, domains 2 and 4; Initiation factor IF2/eIF5b, domain 3; Initiation factor IF2/eIF5b, N-terminal (G) domain
Matching Structure (courtesy of the PDB):

Predicted Domain #3

Region A:
Residues: [323-450]

      1          11         21         31         41         51         
      |          |          |          |          |          |          
    1 NSPKTIAEGW IIESQVKKQV GNVATVLVKK GTLQKGKILI CGNTFCKIKN LIDDKGIPIL  60
   61 KATPSYATEV LGWKDVPHVG DEVIQVKSEA IAKKFISKRQ DLIEVQKNSS IVEKLNEERA 120
  121 LAKEQHLN

[Run NCBI BLAST on this sequence.]

Detection Method:	PSI-BLAST
Confidence:	387.68867
Match:	1g7sA_
Description:	Initiation factor IF2/eIF5b, domains 2 and 4; Initiation factor IF2/eIF5b, domain 3; Initiation factor IF2/eIF5b, N-terminal (G) domain
Matching Structure (courtesy of the PDB):

Predicted Domain #4

Region A:
Residues: [451-567]

      1          11         21         31         41         51         
      |          |          |          |          |          |          
    1 KELEHENTVQ EHEQNTGPKL INYIIKCDVS GSAEAVSESI SSLGNDEVRC NVISSSVGIP  60
   61 TESDLKMAQI TESTILCFNL GNLPSEVINN RAGIKIKQYN VIYKLIEDVT ETLTENL

[Run NCBI BLAST on this sequence.]

Detection Method:	PSI-BLAST
Confidence:	387.68867
Match:	1g7sA_
Description:	Initiation factor IF2/eIF5b, domains 2 and 4; Initiation factor IF2/eIF5b, domain 3; Initiation factor IF2/eIF5b, N-terminal (G) domain
Matching Structure (courtesy of the PDB):

Predicted Domain #5

Region A:
Residues: [568-676]

      1          11         21         31         41         51         
      |          |          |          |          |          |          
    1 KPIFEKKIVS TVDVRETFDF RLKKKIIRIA GCKVNNGVIK KNSLVQVVRG PNEDVIFDGK  60
   61 ISTLKHNKDD VAEVSKGHEC GITFESGFEG FKPGDKILVY ENVRVPRYL

[Run NCBI BLAST on this sequence.]

Detection Method:	PSI-BLAST
Confidence:	387.68867
Match:	1g7sA_
Description:	Initiation factor IF2/eIF5b, domains 2 and 4; Initiation factor IF2/eIF5b, domain 3; Initiation factor IF2/eIF5b, N-terminal (G) domain
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