YRC Public Data Repository - Protein Structure Prediction

Protein:	IBA57
Organism:	Saccharomyces cerevisiae
Length:	497 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 IBA57.

Description	E-value	Query Range	Subject Range
gi\|151945187 - gi\|151945187\|gb\|EDN63438.1\| ccr4 associated factor [Saccharomyces cerevisiae YJM789] CAF17_YEAST - Putative transferase CAF17, mitochondrial OS=Saccharomyces cerevisiae (strain ATCC 204508 / S288c) G... gi\|190409594 - gi\|190409594\|gb\|EDV12859.1\| hypothetical protein SCRG_03773 [Saccharomyces cerevisiae RM11-1a] IBA57 - Mitochondrial matrix protein involved in the incorporation of iron-sulfur clusters into mitochondria...	0.0	[1..497]	[1..497]
gi\|25502281 - pir\|\|B97787 hypothetical protein RC0698 [imported] - Rickettsia conorii (strain Malish 7) gi\|15892621, gi\|... - gi\|15892621\|ref\|NP_360335.1\| hypothetical protein RC0698 [Rickettsia conorii str. Malish 7], gi\|1561...	6.0E-89	[47..436]	[2..328]
gi\|12722304, gi\|... - gi\|15603739\|ref\|NP_246813.1\| hypothetical protein PM1874 [Pasteurella multocida subsp. multocida str...	3.0E-65	[136..395]	[3..237]
gi\|168778912, gi... - gi\|189003387\|gb\|EDU72373.1\| tRNA-modifying protein ygfZ [Escherichia coli O157:H7 str. EC4076], gi\|1... gi\|189373870, gi... - gi\|189373870\|gb\|EDU92286.1\| tRNA-modifying protein ygfZ [Escherichia coli O157:H7 str. EC869], gi\|16... gi\|189377696, gi... - gi\|189377696\|gb\|EDU96112.1\| tRNA-modifying protein ygfZ [Escherichia coli O157:H7 str. EC508], gi\|16... gi\|195936517 - gi\|195936517\|ref\|ZP_03081899.1\| putative global regulator [Escherichia coli O157:H7 str. EC4024] gi\|189358685, gi... - gi\|189358685\|gb\|EDU77104.1\| tRNA-modifying protein ygfZ [Escherichia coli O157:H7 str. EC4401], gi\|1... gi\|168760027, gi... - gi\|189369226\|gb\|EDU87642.1\| tRNA-modifying protein ygfZ [Escherichia coli O157:H7 str. EC4501], gi\|1... gi\|189363755, gi... - gi\|189363755\|gb\|EDU82174.1\| tRNA-modifying protein ygfZ [Escherichia coli O157:H7 str. EC4486], gi\|1... gi\|168775776, gi... - gi\|187768764\|gb\|EDU32608.1\| tRNA-modifying protein ygfZ [Escherichia coli O157:H7 str. EC4196], gi\|1... gi\|188017872, gi... - gi\|188017872\|gb\|EDU55994.1\| tRNA-modifying protein ygfZ [Escherichia coli O157:H7 str. EC4113], gi\|1... gi\|13363242, gi\|... - gi\|15833024\|ref\|NP_311797.1\| putative global regulator [Escherichia coli O157:H7 str. Sakai], gi\|133... gi\|25499498, gi\|... - pir\|\|F85945 hypothetical protein ygfZ [imported] - Escherichia coli (strain O157:H7, substrain EDL9... gi\|217326988, gi... - gi\|217326988\|ref\|ZP_03443071.1\| tRNA-modifying protein [Escherichia coli O157:H7 str. TW14588], gi\|2... gi\|254594248, gi... - gi\|254794848\|ref\|YP_003079685.1\| predicted folate-dependent regulatory protein [Escherichia coli O15... gi\|15803434, gi\|... - gi\|15803434\|ref\|NP_289467.1\| putative global regulator [Escherichia coli O157:H7 EDL933], gi\|1251742... YGFZ_ECO57 - tRNA-modifying protein YgfZ OS=Escherichia coli O157:H7 GN=ygfZ PE=3 SV=3 gi\|208727434, gi... - gi\|208807633\|ref\|ZP_03249970.1\| tRNA-modifying protein [Escherichia coli O157:H7 str. EC4206], gi\|20... gi\|208733763, gi... - gi\|208812486\|ref\|ZP_03253815.1\| tRNA-modifying protein [Escherichia coli O157:H7 str. EC4045], gi\|20... gi\|208818514, gi... - gi\|208818514\|ref\|ZP_03258834.1\| tRNA-modifying protein [Escherichia coli O157:H7 str. EC4042], gi\|20... YGFZ_ECO5E - tRNA-modifying protein YgfZ OS=Escherichia coli O157:H7 (strain EC4115 / EHEC) GN=ygfZ PE=3 SV=1	2.0E-58	[158..400]	[32..271]
gi\|3861020, gi\|7... - pir\|\|F71705 hypothetical protein RP464 - Rickettsia prowazekii, gi\|3861020\|emb\|CAA14920.1\| unknown [... gi\|15604328 - gi\|15604328\|ref\|NP_220844.1\| hypothetical protein RP464 [Rickettsia prowazekii str. Madrid E]	3.0E-58	[136..436]	[37..279]
EG12685 - iron-sulfur cluster repair protein, plumbagin resistance / Iron-sulfur cluster repair protein; plumb... gi\|75230871, gi\|... - gi\|75230871\|ref\|ZP_00717329.1\| COG0354: Predicted aminomethyltransferase related to GcvT [Escherichi... gi\|75234626, gi\|... - gi\|75234626\|ref\|ZP_00718957.1\| COG0354: Predicted aminomethyltransferase related to GcvT [Escherichi... gi\|24114152, gi\|... - gi\|24114152\|ref\|NP_708662.1\| putative global regulator [Shigella flexneri 2a str. 301], gi\|24053292\|... gi\|192930838, gi... - gi\|75258497\|ref\|ZP_00729919.1\| COG0354: Predicted aminomethyltransferase related to GcvT [Escherichi... gi\|30064210, gi\|... - gi\|30064210\|ref\|NP_838381.1\| putative global regulator [Shigella flexneri 2a str. 2457T], gi\|3004246... gi\|188494932, gi... - gi\|75515319\|ref\|ZP_00737503.1\| COG0354: Predicted aminomethyltransferase related to GcvT [Escherichi... YGFZ_ECODH - tRNA-modifying protein YgfZ OS=Escherichia coli (strain K12 / DH10B) GN=ygfZ PE=3 SV=1 gi\|85675710, gi\|... - gi\|89109677\|ref\|AP_003457.1\| predicted folate-dependent regulatory protein [Escherichia coli str. K-... YGFZ_ECO8A - tRNA-modifying protein YgfZ OS=Escherichia coli O8 (strain IAI1) GN=ygfZ PE=3 SV=1 YGFZ_ECO55 - tRNA-modifying protein YgfZ OS=Escherichia coli (strain 55989 / EAEC) GN=ygfZ PE=3 SV=1 gi\|83587706, gi\|... - gi\|83587706\|ref\|ZP_00926333.1\| COG0354: Predicted aminomethyltransferase related to GcvT [Escherichi... YGFZ_ECO24 - tRNA-modifying protein YgfZ OS=Escherichia coli O139:H28 (strain E24377A / ETEC) GN=ygfZ PE=3 SV=1 YGFZ_ECOHS - tRNA-modifying protein YgfZ OS=Escherichia coli O9:H4 (strain HS) GN=ygfZ PE=3 SV=1 gi\|194415700, gi... - gi\|75212488\|ref\|ZP_00712512.1\| COG0354: Predicted aminomethyltransferase related to GcvT [Escherichi... EG12685 - iron-sulfur cluster repair protein, plumbagin resistance / Iron-sulfur cluster repair protein; plumb... YGFZ_SHIF8 - tRNA-modifying protein YgfZ OS=Shigella flexneri serotype 5b (strain 8401) GN=ygfZ PE=3 SV=1 gi\|253974711, gi... - gi\|254162810\|ref\|YP_003045918.1\| putative global regulator [Escherichia coli B str. REL606], gi\|2539... YGFZ_SHIFL - tRNA-modifying protein YgfZ OS=Shigella flexneri GN=ygfZ PE=3 SV=2 gi\|254289570, gi... - gi\|254289570\|ref\|YP_003055318.1\| putative global regulator [Escherichia coli BL21(DE3)], gi\|25397887... YGFZ_ECOLI - tRNA-modifying protein ygfZ - Escherichia coli gi\|242378429, gi... - gi\|251786156\|ref\|YP_003000460.1\| hypothetical protein B21_02693 [Escherichia coli BL21], gi\|24237842... YGFZ_ECOBW - tRNA-modifying protein YgfZ OS=Escherichia coli (strain K12 / MC4100 / BW2952) GN=ygfZ PE=3 SV=1	1.0E-57	[158..400]	[32..271]
gi\|205328009, gi... - gi\|205328009\|gb\|EDZ14773.1\| tRNA-modifying protein YgfZ [Salmonella enterica subsp. enterica serovar... gi\|168261789, gi... - gi\|205349199\|gb\|EDZ35830.1\| tRNA-modifying protein YgfZ [Salmonella enterica subsp. enterica serovar... YGFZ_SALTY - tRNA-modifying protein ygfZ OS=Salmonella typhimurium GN=ygfZ PE=3 SV=1 YGFZ_SALTY - tRNA-modifying protein YgfZ OS=Salmonella typhimurium (strain LT2 / SGSC1412 / ATCC 700720) GN=ygfZ ... lcl\|NC_016856.1_... - [gene=ygfZ] [protein=putative global regulator] [protein_id=YP_005239184.1] [location=3226057..32270... gi\|197242104, gi... - gi\|197263849\|ref\|ZP_03163923.1\| tRNA-modifying protein YgfZ [Salmonella enterica subsp. enterica ser... YGFZ_SALTY - tRNA-modifying protein ygfZ OS=Salmonella typhimurium GN=ygfZ PE=3 SV=1	1.0E-57	[158..396]	[32..267]
YGFZ_SALSV - tRNA-modifying protein YgfZ OS=Salmonella schwarzengrund (strain CVM19633) GN=ygfZ PE=3 SV=1 YGFZ_SALTI - tRNA-modifying protein ygfZ OS=Salmonella typhi GN=ygfZ PE=3 SV=1 gi\|168236108, gi... - gi\|197290686\|gb\|EDY30040.1\| tRNA-modifying protein YgfZ [Salmonella enterica subsp. enterica serovar... gi\|213999411 - gi\|213999411\|ref\|ZP_03410146.1\| putative global regulator [Salmonella enterica subsp. enterica serov... gi\|213646969 - gi\|213646969\|ref\|ZP_03377022.1\| putative global regulator [Salmonella enterica subsp. enterica serov... gi\|213582635 - gi\|213582635\|ref\|ZP_03364461.1\| putative global regulator [Salmonella enterica subsp. enterica serov... gi\|213425828 - gi\|213425828\|ref\|ZP_03358578.1\| putative global regulator [Salmonella enterica subsp. enterica serov... YGFZ_SALTI - tRNA-modifying protein YgfZ OS=Salmonella typhi GN=ygfZ PE=3 SV=1 gi\|29143316, gi\|... - gi\|29143316\|ref\|NP_806658.1\| putative global regulator [Salmonella enterica subsp. enterica serovar ... gi\|16761829 - gi\|16761829\|ref\|NP_457446.1\| putative global regulator [Salmonella enterica subsp. enterica serovar ...	1.0E-57	[157..396]	[31..267]
YGFZ_YERPA - tRNA-modifying protein YgfZ OS=Yersinia pestis bv. Antiqua (strain Antiqua) GN=YPA_0370 PE=3 SV=1 YGFZ_YERPN - tRNA-modifying protein YgfZ OS=Yersinia pestis bv. Antiqua (strain Nepal516) GN=YPN_3098 PE=3 SV=1 YGFZ_YERPE - tRNA-modifying protein YgfZ OS=Yersinia pestis GN=YPO0898 PE=3 SV=1 gi\|150260090, gi... - gi\|150260090\|ref\|ZP_01916818.1\| hypothetical protein YPE_2368 [Yersinia pestis CA88-4125], gi\|149289... gi\|45438199, gi\|... - gi\|45443330\|ref\|NP_994869.1\| putative global regulator [Yersinia pestis biovar Microtus str. 91001],... gi\|22127159, gi\|... - gi\|22127159\|ref\|NP_670582.1\| putative global regulator [Yersinia pestis KIM], gi\|21960221\|gb\|AAM8683... gi\|115346683, gi... - gi\|218928072\|ref\|YP_002345947.1\| putative global regulator [Yersinia pestis CO92], gi\|16121204\|ref\|N... gi\|166212747, gi... - gi\|166212747\|ref\|ZP_02238782.1\| putative aminomethyltransferase [Yersinia pestis biovar Antiqua str.... gi\|167399919, gi... - gi\|167399919\|ref\|ZP_02305437.1\| putative aminomethyltransferase [Yersinia pestis biovar Antiqua str.... gi\|166962703, gi... - gi\|167418709\|ref\|ZP_02310462.1\| putative aminomethyltransferase [Yersinia pestis biovar Orientalis s... gi\|167425340, gi... - gi\|167425340\|ref\|ZP_02317093.1\| putative aminomethyltransferase [Yersinia pestis biovar Mediaevalis ... gi\|167467686 - gi\|167467686\|ref\|ZP_02332390.1\| putative aminomethyltransferase [Yersinia pestis FV-1] YGFZ_YERPY - tRNA-modifying protein YgfZ OS=Yersinia pseudotuberculosis serotype O:3 (strain YPIII) GN=YPK_0875 P... YGFZ_YERPP - tRNA-modifying protein YgfZ OS=Yersinia pestis (strain Pestoides F) GN=YPDSF_0617 PE=3 SV=1 gi\|229842633, gi... - gi\|229842633\|ref\|ZP_04462788.1\| predicted folate-dependent regulatory protein [Yersinia pestis biova... gi\|229840808, gi... - gi\|229840808\|ref\|ZP_04460967.1\| predicted folate-dependent regulatory protein [Yersinia pestis biova... gi\|165914844, gi... - gi\|89102650\|ref\|ZP_01175268.1\| COG0354: Predicted aminomethyltransferase related to GcvT [Yersinia p... gi\|229837585, gi... - gi\|229837585\|ref\|ZP_04457747.1\| predicted folate-dependent regulatory protein [Yersinia pestis Pesto... YGFZ_YERPG - tRNA-modifying protein YgfZ OS=Yersinia pestis bv. Antiqua (strain Angola) GN=YpAngola_A3840 PE=3 SV... gi\|165923145, gi... - gi\|165924945\|ref\|ZP_02220777.1\| putative aminomethyltransferase [Yersinia pestis biovar Orientalis s... gi\|166010263, gi... - gi\|166010263\|ref\|ZP_02231161.1\| putative aminomethyltransferase [Yersinia pestis biovar Antiqua str....	2.0E-52	[160..395]	[35..267]
gi\|124118868, gi... - gi\|153222431\|ref\|ZP_01953165.1\| conserved hypothetical protein [Vibrio cholerae MAK 757], gi\|1241188... gi\|75829332, gi\|... - gi\|75829332\|ref\|ZP_00758639.1\| COG0354: Predicted aminomethyltransferase related to GcvT [Vibrio cho... YGFZ_VIBCM - tRNA-modifying protein YgfZ OS=Vibrio cholerae serotype O1 (strain M66-2) GN=VCM66_2395 PE=3 SV=1 YGFZ_VIBCH - tRNA-modifying protein YgfZ OS=Vibrio cholerae serotype O1 (strain ATCC 39315 / El Tor Inaba N16961)... YGFZ_VIBCH - tRNA-modifying protein ygfZ OS=Vibrio cholerae GN=VC_2472 PE=3 SV=1 gi\|121590986, gi... - gi\|121590986\|ref\|ZP_01678305.1\| conserved hypothetical protein [Vibrio cholerae 2740-80], gi\|1215471...	1.0E-51	[159..411]	[35..273]

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Predicted Domain #1

Region A:
Residues: [1-132]

      1          11         21         31         41         51         
      |          |          |          |          |          |          
    1 MFISRRCRIK GFTLKNLLWF RSSSTRFVST ESPDASAITK PDGIFNYSLL ENRTYIRIRG  60
   61 PDTVKFLNGL VTSKLLPHFI KKNLTTVEEN EVPTEEGTTK VDPIIPVPEF DARLGNWGLY 120
  121 NEKGIQGPYI SR

[Run NCBI BLAST on this sequence.]

Detection Method:

deduced

Shown below are all of our de novo (Rosetta) predictions for this domain.
Click here to view only most confident match.

		MCM Score	SCOP Match	SCOP Description
View	Download	0.493	f.1.4	Bcl-2 inhibitors of programmed cell death
View	Download	0.437	a.25.1	Ferritin-like
View	Download	0.661	d.21.1	Diaminopimelate epimerase-like
View	Download	0.613	d.58.22	TRADD, N-terminal domain
View	Download	0.432	b.24.1	Hyaluronate lyase-like, C-terminal domain
View	Download	0.429	d.109.1	Actin depolymerizing proteins
View	Download	0.423	d.21.1	Diaminopimelate epimerase-like
View	Download	0.388	b.61.3	D-aminopeptidase, middle and C-terminal domains
View	Download	0.374	b.45.1	FMN-binding split barrel
View	Download	0.374	a.26.1	4-helical cytokines
View	Download	0.372	d.153.2	Hypothetical protein MTH1020
View	Download	0.370	d.21.1	Diaminopimelate epimerase-like
View	Download	0.350	d.109.1	Actin depolymerizing proteins
View	Download	0.336	d.58.34	Formiminotransferase domain of formiminotransferase-cyclodeaminase.
View	Download	0.333	a.24.9	alpha-catenin/vinculin
View	Download	0.326	a.22.1	Histone-fold
View	Download	0.301	a.4.6	C-terminal effector domain of the bipartite response regulators
View	Download	0.300	a.78.1	Fatty acid responsive transcription factor FadR, C-terminal domain
View	Download	0.294	d.216.1	Rotavirus NSP2 fragment, N-terminal domain
View	Download	0.281	d.109.1	Actin depolymerizing proteins
View	Download	0.269	a.24.1	Apolipoprotein
View	Download	0.260	d.109.1	Actin depolymerizing proteins
View	Download	0.260	d.34.1	DNA-binding domain of Mlu1-box binding protein MBP1
View	Download	0.257	f.21.2	Fumarate reductase respiratory complex transmembrane subunits
View	Download	0.255	b.40.4	Nucleic acid-binding proteins
View	Download	0.255	d.58.10	Acylphosphatase-like
View	Download	0.253	a.25.1	Ferritin-like
View	Download	0.251	f.14.1	Voltage-gated potassium channels
View	Download	0.249	b.60.1	Lipocalins
View	Download	0.247	b.61.3	D-aminopeptidase, middle and C-terminal domains
View	Download	0.246	b.60.1	Lipocalins
View	Download	0.243	d.82.2	Frataxin-like
View	Download	0.226	a.2.3	Chaperone J-domain
View	Download	0.222	d.109.1	Actin depolymerizing proteins
View	Download	0.212	d.129.2	Phosphoglucomutase, C-terminal domain
View	Download	0.210	b.1.2	Fibronectin type III
View	Download	0.207	b.61.3	D-aminopeptidase, middle and C-terminal domains
View	Download	0.206	d.173.1	Methionine synthase activation domain-like
View	Download	0.206	d.16.1	FAD-linked reductases, C-terminal domain
View	Download	0.203	d.82.2	Frataxin-like
View	Download	0.201	d.81.1	Glyceraldehyde-3-phosphate dehydrogenase-like, C-terminal domain
View	Download	0.200	d.153.2	Hypothetical protein MTH1020

Predicted Domain #2

Region A:
Residues: [133-497]

      1          11         21         31         41         51         
      |          |          |          |          |          |          
    1 FGLYSAFLNG KGKLITDTII YPTPVTVSEQ ISNYPEYLLE LHGNVVDKIL HVLQTHKLAN  60
   61 KIKFEKIDHS SLKTWDVEVQ FPNLPKDIEN PWFDNLLDPM ALPKNSIDAN NFAVNVLNSL 120
  121 FNSDPRILGI YVERRTESMS RHYSTFPQSF RVVTSEQVDD LSKLFNFNVF DFPFQVNKKA 180
  181 SVQVREIRFQ KGLIDSTEDY ISETLLPLEL NFDFFPNTIS TNKGCYVGQE LTARTYATGI 240
  241 LRKRLVPVKL DNYQLLDTDP ERKYAEFHID NVVEKSLAEN EPTLNPFTNK PPERTKRKQR 300
  301 PAGLLISNEG LYGVALLRTE HFSAAFSSDE PVEFYITTTK GENIKITPQK PFWFSDWKNN 360
  361 NGPHK

[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.

Found no structure predictions for this domain.

Predicted functions:

Term	Confidence	Notes
catalytic activity	1.65079399897053	bayes_pls_golite062009
aminomethyltransferase activity	0.573831999310668	bayes_pls_golite062009
oxidoreductase activity, acting on the CH-NH group of donors	0.464847295845307	bayes_pls_golite062009
transferase activity	0.217873555384951	bayes_pls_golite062009
oxidoreductase activity	0.0509405447248159	bayes_pls_golite062009

Predicted Domain #3

Region A:
Residues: [432-497]

      1          11         21         31         41         51         
      |          |          |          |          |          |          
    1 RPAGLLISNE GLYGVALLRT EHFSAAFSSD EPVEFYITTT KGENIKITPQ KPFWFSDWKN  60
   61 NNGPHK

[Run NCBI BLAST on this sequence.]

Detection Method:

deduced

Shown below are all of our de novo (Rosetta) predictions for this domain.
Click here to view only most confident match.

Found no structure predictions for this domain.

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: