YRC Public Data Repository - Protein Structure Prediction

Protein:	ARG3
Organism:	Saccharomyces cerevisiae
Length:	440 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 ARG3.

Description	E-value	Query Range	Subject Range
gi\|7507776 - gi\|7507776\|pir\|\|T16867 probable cytochrome P450 T13C5.1 [similarity] - Caenorhabditis elegans	0.0	[1..440]	[1..440]
OTC_PYRAB - Ornithine carbamoyltransferase OS=Pyrococcus abyssi (strain GE5 / Orsay) GN=argF PE=3 SV=4 OTC_PYRAB - Ornithine carbamoyltransferase OS=Pyrococcus abyssi GN=argF PE=3 SV=4	0.0	[107..432]	[1..312]
OTC_PYRHO - Ornithine carbamoyltransferase OS=Pyrococcus horikoshii GN=argF PE=3 SV=3 OTC_PYRHO - Ornithine carbamoyltransferase OS=Pyrococcus horikoshii (strain ATCC 700860 / DSM 12428 / JCM 9974 /...	0.0	[107..432]	[1..312]
OTC_PYRFU - Ornithine carbamoyltransferase OS=Pyrococcus furiosus GN=argF PE=1 SV=6 OTC_PYRFU - Ornithine carbamoyltransferase OS=Pyrococcus furiosus (strain ATCC 43587 / DSM 3638 / JCM 8422 / Vc1...	0.0	[107..432]	[1..312]
OTC_PYRFU - (Q51742) Ornithine carbamoyltransferase (EC 2.1.3.3) (OTCase)	0.0	[110..432]	[3..311]
OTC_BACSU - Ornithine carbamoyltransferase OS=Bacillus subtilis (strain 168) GN=argF PE=1 SV=1 gi\|221322488 - gi\|221322488\|ref\|ZP_03603782.1\| ornithine carbamoyltransferase [Bacillus subtilis subsp. subtilis st... gi\|221318214 - gi\|221318214\|ref\|ZP_03599508.1\| ornithine carbamoyltransferase [Bacillus subtilis subsp. subtilis st... gi\|221313290 - gi\|221313290\|ref\|ZP_03595095.1\| ornithine carbamoyltransferase [Bacillus subtilis subsp. subtilis st... OTC_BACSU - Ornithine carbamoyltransferase OS=Bacillus subtilis GN=argF PE=1 SV=1	0.0	[103..430]	[1..310]
OTC_ASPNG - Ornithine carbamoyltransferase, mitochondrial OS=Aspergillus niger GN=argB PE=2 SV=1	0.0	[92..437]	[21..370]

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Predicted Domain #1

Region A:
Residues: [1-103]

      1          11         21         31         41         51         
      |          |          |          |          |          |          
    1 MLSCSVSFRD DKKLVIFSVK CNSQQYRPLR NARTNFFEPD WSPFLSSARL PIPVHPKKST  60
   61 YINRLFTSKG SLFLVCPLST VNNEQFFFFF LAIYPSTCTL VTM

[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	GO Score	GO Term	SCOP Match	SCOP Description
View	Download	0.429	0.834	ornithine metabolic process	b.1.1	Immunoglobulin
View	Download	0.404	0.834	ornithine metabolic process	b.1.2	Fibronectin type III
View	Download	0.451	0.834	ornithine metabolic process	b.61.4	Quinohemoprotein amine dehydrogenase A chain, domain 3
View	Download	0.405	0.834	ornithine metabolic process	d.81.1	Glyceraldehyde-3-phosphate dehydrogenase-like, C-terminal domain
View	Download	0.401	0.834	ornithine metabolic process	c.44.2	Enzyme IIB-cellobiose
View	Download	0.398	0.834	ornithine metabolic process	d.109.1	Actin depolymerizing proteins
View	Download	0.397	0.834	ornithine metabolic process	b.1.3	PKD domain
View	Download	0.390	0.834	ornithine metabolic process	d.95.2	Homing endonucleases
View	Download	0.383	0.834	ornithine metabolic process	d.110.3	PYP-like sensor domain (PAS domain)
View	Download	0.380	0.834	ornithine metabolic process	c.51.1	Anticodon-binding domain of Class II aaRS
View	Download	0.375	0.834	ornithine metabolic process	b.1.2	Fibronectin type III
View	Download	0.361	0.834	ornithine metabolic process	d.110.3	PYP-like sensor domain (PAS domain)
View	Download	0.336	0.834	ornithine metabolic process	d.58.16	Poly(A) polymerase, C-terminal domain
View	Download	0.329	0.834	ornithine metabolic process	b.1.2	Fibronectin type III
View	Download	0.319	0.834	ornithine metabolic process	b.1.1	Immunoglobulin
View	Download	0.317	0.834	ornithine metabolic process	b.61.5	Dipeptidyl peptidase I (cathepsin C), exclusion domain
View	Download	0.311	0.834	ornithine metabolic process	b.1.6	Cadherin
View	Download	0.309	0.834	ornithine metabolic process	c.102.1	Cell-division inhibitor MinC, N-terminal domain
View	Download	0.308	0.834	ornithine metabolic process	b.1.1	Immunoglobulin
View	Download	0.306	0.834	ornithine metabolic process	b.3.5	B repeat unit of collagen binding surface protein (cna)
View	Download	0.301	0.834	ornithine metabolic process	b.2.2	Carbohydrate-binding domain
View	Download	0.288	0.834	ornithine metabolic process	d.75.2	DNA repair protein MutS, domain I
View	Download	0.266	0.834	ornithine metabolic process	b.1.1	Immunoglobulin
View	Download	0.264	0.834	ornithine metabolic process	b.1.2	Fibronectin type III
View	Download	0.261	0.834	ornithine metabolic process	d.131.1	DNA clamp
View	Download	0.258	0.834	ornithine metabolic process	d.58.3	Protease propeptides/inhibitors
View	Download	0.257	0.834	ornithine metabolic process	d.26.2	Colicin E3 immunity protein
View	Download	0.247	0.834	ornithine metabolic process	d.26.3	Chitinase insertion domain
View	Download	0.223	0.834	ornithine metabolic process	d.131.1	DNA clamp
View	Download	0.213	0.834	ornithine metabolic process	c.58.1	Aminoacid dehydrogenase-like, N-terminal domain
View	Download	0.210	0.834	ornithine metabolic process	d.58.26	GHMP Kinase, C-terminal domain

Predicted Domain #2

Region A:
Residues: [104-252]

      1          11         21         31         41         51         
      |          |          |          |          |          |          
    1 STTASTPSSL RHLISIKDLS DEEFRILVQR AQHFKNVFKA NKTNDFQSNH LKLLGRTIAL  60
   61 IFTKRSTRTR ISTEGAATFF GAQPMFLGKE DIQLGVNESF YDTTKVVSSM VSCIFARVNK 120
  121 HEDILAFCKD SSVPIINSLC DKFHPLQAI

[Run NCBI BLAST on this sequence.]

Region B:
Residues: [416-440]

      1          11         21         31         41         51         
      |          |          |          |          |          |          
    1 ENRLYAAMSA IDIFVNNKGN FKDLK

[Run NCBI BLAST on this sequence.]

Detection Method:	PSI-BLAST
Confidence:	779.228787
Match:	1c9yA_
Description:	Ornithine transcarbamoylase
Matching Structure (courtesy of the PDB):

Predicted Domain #3

Region A:
Residues: [253-415]

      1          11         21         31         41         51         
      |          |          |          |          |          |          
    1 CDLLTIIENF NISLDEVNKG INSKLKMAWI GDANNVINDM CIACLKFGIS VSISTPPGIE  60
   61 MDSDIVDEAK KVAERNGATF ELTHDSLKAS TNANILVTDT FVSMGEEFAK QAKLKQFKGF 120
  121 QINQELVSVA DPNYKFMHCL PRHQEEVSDD VFYGEHSIVF EEA

[Run NCBI BLAST on this sequence.]

Detection Method:	PSI-BLAST
Confidence:	779.228787
Match:	1c9yA_
Description:	Ornithine transcarbamoylase
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