YRC Public Data Repository - Protein Structure Prediction

Protein:	YHC1
Organism:	Saccharomyces cerevisiae
Length:	231 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 YHC1.

Description	E-value	Query Range	Subject Range
RU1C_YEAST - U1 small nuclear ribonucleoprotein C OS=Saccharomyces cerevisiae (strain ATCC 204508 / S288c) GN=YHC... gi\|190405354 - gi\|190405354\|gb\|EDV08621.1\| conserved hypothetical protein [Saccharomyces cerevisiae RM11-1a] YHC1 - Component of the U1 snRNP complex required for pre-mRNA splicing; putative ortholog of human U1C pro... gi\|151941002 - gi\|151941002\|gb\|EDN59383.1\| U1-C [Saccharomyces cerevisiae YJM789]	0.0	[1..231]	[1..231]
gi\|19577373 - gi\|19577373\|emb\|CAD27755.1\| putative sRNP [Anopheles gambiae]	5.0E-27	[1..61]	[1..61]
RU1C_XENLA - U1 small nuclear ribonucleoprotein C OS=Xenopus laevis GN=snrpc PE=2 SV=1	1.0E-26	[1..61]	[1..61]
gi\|194040342 - gi\|194040342\|ref\|XP_001928855.1\| PREDICTED: similar to U1 snRNP-specific protein C [Sus scrofa] RU1C_BOVIN - U1 small nuclear ribonucleoprotein C OS=Bos taurus GN=SNRPC PE=2 SV=2 RU1C_MACMU - U1 small nuclear ribonucleoprotein C OS=Macaca mulatta GN=SNRPC PE=3 SV=1 RU1C_CANLF - U1 small nuclear ribonucleoprotein C OS=Canis lupus familiaris GN=SNRPC PE=3 SV=1 gi\|149732134 - gi\|149732134\|ref\|XP_001498478.1\| PREDICTED: similar to U1 snRNP-specific protein C [Equus caballus] SNRPC - small nuclear ribonucleoprotein polypeptide C ENSCJAT00000029828 - null tr\|G1U072\|G1U072... - pep:novel chromosome:oryCun2:12:24871878:24887729:1 gene:ENSOCUG00000026668 transcript:ENSOCUT000000... gi\|114607004, gi... - gi\|114700426\|ref\|XP_515370.2\| PREDICTED: similar to U1 snRNP-specific protein C [Pan troglodytes], g...	4.0E-26	[1..61]	[1..61]
CE09232 - U1 small nuclear ribonucleoprotein C status:Confirmed UniProt:P90815 protein_id:AAB37732.1	1.0E-25	[1..61]	[1..61]
RU1C_RAT - U1 small nuclear ribonucleoprotein C OS=Rattus norvegicus GN=Snrpc PE=3 SV=1 RU1C_MOUSE - U1 small nuclear ribonucleoprotein C OS=Mus musculus GN=Snrpc PE=1 SV=1	1.0E-25	[1..61]	[1..61]
RU1C_ARATH - U1 small nuclear ribonucleoprotein C OS=Arabidopsis thaliana GN=At4g03120 PE=2 SV=1	5.0E-23	[1..60]	[1..62]
RU1C_NEUCR - U1 small nuclear ribonucleoprotein C OS=Neurospora crassa (strain ATCC 24698 / 74-OR23-1A / CBS 708.... gi\|32412708, gi\|... - gi\|32412708\|ref\|XP_326834.1\| hypothetical protein [Neurospora crassa], gi\|28922972\|gb\|EAA32191.1\| pr...	9.0E-21	[1..59]	[1..63]
usp103 - U1 snRNP-associated protein Usp103 RU1C_SCHPO - U1 small nuclear ribonucleoprotein C OS=Schizosaccharomyces pombe (strain 972 / ATCC 24843) GN=usp10...	2.0E-20	[1..57]	[1..57]

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Predicted Domain #1

Region A:
Residues: [1-69]

      1          11         21         31         41         51         
      |          |          |          |          |          |          
    1 MTRYYCEYCH SYLTHDTLSV RKSHLVGKNH LRITADYYRN KARDIINKHN HKRRHIGKRG  60
   61 RKERENSSQ

[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 functions:

Term	Confidence	Notes
U1 snRNA binding	4.35911393951689	bayes_pls_golite062009
transcription regulator activity	3.60566283434269	bayes_pls_golite062009
DNA binding	3.55661236227495	bayes_pls_golite062009
nucleic acid binding	3.48507500696529	bayes_pls_golite062009
snRNA binding	3.38579636849163	bayes_pls_golite062009
RNA binding	3.1651307444578	bayes_pls_golite062009
transcription factor activity	2.66585743129629	bayes_pls_golite062009
binding	2.51459778938853	bayes_pls_golite062009
RNA polymerase II transcription factor activity	1.8286807075508	bayes_pls_golite062009
transcription activator activity	1.42518458564872	bayes_pls_golite062009
mRNA binding	1.30742677372942	bayes_pls_golite062009
chromatin binding	0.89589330553881	bayes_pls_golite062009
sequence-specific DNA binding	0.8936929860974	bayes_pls_golite062009
transcription repressor activity	0.882178479686399	bayes_pls_golite062009
transcription factor binding	0.67452735768188	bayes_pls_golite062009
specific RNA polymerase II transcription factor activity	0.47352407708364	bayes_pls_golite062009
protein binding	0.308413944574415	bayes_pls_golite062009
transcription cofactor activity	0.26487559807277	bayes_pls_golite062009
catalytic activity	0.245893663605433	bayes_pls_golite062009
structure-specific DNA binding	0.240825841910931	bayes_pls_golite062009
double-stranded DNA binding	0.0129353639725593	bayes_pls_golite062009

Predicted Domain #2

Region A:
Residues: [70-231]

      1          11         21         31         41         51         
      |          |          |          |          |          |          
    1 NETLKVTCLS NKEKRHIMHV KKMNQKELAQ TSIDTLKLLY DGSPGYSKVF VDANRFDIGD  60
   61 LVKASKLPQR ANEKSAHHSF KQTSRSRDET CESNPFPRLN NPKKLEPPKI LSQWSNTIPK 120
  121 TSIFYSVDIL QTTIKESKKR MHSDGIRKPS SANGYKRRRY GN

[Run NCBI BLAST on this sequence.]

Detection Method:

deduced

Shown below is our most confident de novo (Rosetta) prediction for this domain.
Click here to view all matches.

Found no confident 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: