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 is our most confident prediction for this domain.
Click here to view all matches.

Found no confident structure predictions for this domain.

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