YRC Public Data Repository - Protein Structure Prediction

Protein:	NCS2
Organism:	Saccharomyces cerevisiae
Length:	493 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 NCS2.

Description	E-value	Query Range	Subject Range
NCS2 - Protein required for thiolation of the uridine at the wobble position of Lys(UUU) and Glu(UUC) tRNAs... CTU2_YEAST - Cytoplasmic tRNA 2-thiolation protein 2 OS=Saccharomyces cerevisiae (strain ATCC 204508 / S288c) GN=...	0.0	[1..493]	[1..493]
gi\|15224850, gi\|... - pir\|\|T02383 hypothetical protein At2g44270 [imported] - Arabidopsis thaliana, gi\|3128173\|gb\|AAC1607...	3.0E-68	[6..408]	[15..346]
gi\|14520709, gi\|... - gi\|5457925\|emb\|CAB49415.1\| Predicted ATPase of the PP-loop superfamily [Pyrococcus abyssi GE5], gi\|1... gi\|7445410, gi\|5... - pir\|\|H75166 hypothetical protein PAB2029 - Pyrococcus abyssi (strain Orsay), gi\|5457925\|emb\|CAB49415...	7.0E-65	[1..382]	[1..301]
gi\|18978130, gi\|... - gi\|18978130\|ref\|NP_579487.1\| n-type ATP pyrophosphatase superfamily protein [Pyrococcus furiosus DSM...	1.0E-64	[1..382]	[1..301]
gi\|7430000 - pir\|\|H71048 hypothetical protein PH1680 - Pyrococcus horikoshii gi\|14591444, gi\|... - gi\|3258109\|dbj\|BAA30792.1\| 320aa long hypothetical protein [Pyrococcus horikoshii OT3], gi\|14591444\|...	7.0E-64	[1..382]	[1..301]
CTU1_MOUSE - Cytoplasmic tRNA 2-thiolation protein 1 OS=Mus musculus GN=Ctu1 PE=2 SV=1	4.0E-63	[3..429]	[9..366]
gi\|220950426 - gi\|220950426\|gb\|ACL87756.1\| CG8078-PA [synthetic construct] CG8078-PA - This gene is referred to in FlyBase by the symbol Dmel\CG8078 (CG8078, FBgn0033375). It is a protein...	2.0E-62	[6..405]	[5..328]
gi\|10640432 - gi\|10640432\|emb\|CAC12246.1\| conserved hypothetical protein [Thermoplasma acidophilum] gi\|16082141 - gi\|16082141\|ref\|NP_394578.1\| hypothetical protein Ta1119 [Thermoplasma acidophilum DSM 1728]	2.0E-58	[1..400]	[1..311]

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Predicted Domain #1

Region A:
Residues: [1-304]

      1          11         21         31         41         51         
      |          |          |          |          |          |          
    1 MECQRCPASA RNPATVESRK EKFCDECFIK FVSTKQRKQM MKDEYFRNLF KVIYPFEKEG  60
   61 SVSKILLPLS HSDSGSLVML DIVHDLLLEQ TKQHNNRTGF TVDVLTVFTE ENVSVIKERM 120
  121 ESLINEKMSQ LNKISNIFNV HFIDVNEFFN NASEVSTFII DNENFEIFSK SKSVDDSNIL 180
  181 TLKEILGKYC LNNSSRSDLI SIIKTQLIKH FAYENGYNAI MWGHSMTKLS EVIISLVVKG 240
  241 KGSQIATFLD SESFDTLNNK PCKYKNLYPM KDLLSVEIES FLQIRNLAQF LINVEETNVK 300
  301 PNCL

[Run NCBI BLAST on this sequence.]

Detection Method:	ORFEUS
Confidence:	9.88
Match:	1kh1A
Description:	Argininosuccinate synthetase, N-terminal domain; Argininosuccinate synthetase, C-terminal domain
Matching Structure (courtesy of the PDB):

Predicted functions:

Term	Confidence	Notes
ligase activity	3.71561290487771	bayes_pls_golite062009
binding	1.14645408412895	bayes_pls_golite062009
DNA binding	0.992954560970173	bayes_pls_golite062009
nucleic acid binding	0.953721017285257	bayes_pls_golite062009
catalytic activity	0.828867994386867	bayes_pls_golite062009
ligase activity, forming carbon-nitrogen bonds	0.724532065311415	bayes_pls_golite062009
transferase activity, transferring phosphorus-containing groups	0.225978168389206	bayes_pls_golite062009
transferase activity	0.0776944314618701	bayes_pls_golite062009

Predicted Domain #2

Region A:
Residues: [305-493]

      1          11         21         31         41         51         
      |          |          |          |          |          |          
    1 IARKSLPSLG QQKLVKNMTI NEITNKYFQD IQNDYSNIIS TVLRTADKLT QPKSSMAKPS  60
   61 QCQICQSKIY TNPSNWLNRI TVTSPYPVET TEEKYLFKQW QDSKLGQSHT HYVELLNEIK 120
  121 QGASNSLDVE DGDVKLCYGC LILLNTSIKD KNLVWPKVDT MDITANATNK NKELSQILDQ 180
  181 FEINSDGEE

[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: