YRC Public Data Repository - Protein Structure Prediction

Protein:	rnc1
Organism:	Schizosaccharomyces pombe
Length:	398 amino acids
Reference:	Drew K, et al. (2011) The proteome folding project: Proteome-scale prediction of structure and function. Genome Res. 2011 Sep 16

[What does the above image mean?]

[Show Ginzu Version Information]

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 rnc1.

Description	E-value	Query Range	Subject Range
gi\|73985375 - gi\|73985375\|ref\|XP_860317.1\| PREDICTED: similar to Poly(rC)-binding protein 4 (Alpha-CP4) isoform 7 ...	223.0	[0..84]	[396..8]
gi\|114684793 - gi\|114684793\|ref\|XP_001157578.1\| PREDICTED: hypothetical protein isoform 2 [Pan troglodytes]	221.0	[0..94]	[392..46]
gi\|21753335 - gi\|21753335\|dbj\|BAC04327.1\| unnamed protein product [Homo sapiens]	221.0	[0..94]	[392..46]
gi\|109065039 - gi\|109065039\|ref\|XP_001099334.1\| PREDICTED: similar to poly(rC) binding protein 3 (predicted) isofor...	218.0	[0..94]	[392..46]

Back

Predicted Domain #1

Region A:
Residues: [1-254]

      1          11         21         31         41         51         
      |          |          |          |          |          |          
    1 MAYNHFSIPK NIEEKENSFF DVTFQDEPDE TTSTATGIAK VSIPTPKPST PLSTLTNGST  60
   61 IQQSMTNQPE PTSQVPPISA KPPMDDATYA TQQLTLRALL STREAGIIIG KAGKNVAELR 120
  121 STTNVKAGVT KAVPNVHDRV LTISGPLENV VRAYRFIIDI FAKNSTNPDG TPSDANTPRK 180
  181 LRLLIAHSLM GSIIGRNGLR IKLIQDKCSC RMIASKDMLP QSTERTVEIH GTVDNLHAAI 240
  241 WEIGKCLIDD WERG

[Run NCBI BLAST on this sequence.]

Detection Method:	PSI-BLAST
Confidence:	29.522879
Match:	1e3hA
Description:	Polynucleotide phosphorylase/guanosine pentaphosphate synthase (PNPase/GPSI), domain 3; Polynucleotide phosphorylase/guanosine pentaphosphate synthase (PNPase/GPSI), domains 1 and 4; Polynucleotide phosphorylase/guanosine pentaphosphate synthase (PNPase/GPSI), domain 6; Polynucleotide phosphorylase/guanosine pentaphosphate synthase (PNPase/GPSI), domains 2 and 5
Matching Structure (courtesy of the PDB):

Predicted functions:

Term	Confidence	Notes
telomeric DNA binding	7.07761964836826	bayes_pls_golite062009
single-stranded telomeric DNA binding	6.40125558525939	bayes_pls_golite062009
telomerase inhibitor activity	5.75006730667111	bayes_pls_golite062009
transcription regulator activity	4.09002897694881	bayes_pls_golite062009
structural constituent of ribosome	3.63349555627235	bayes_pls_golite062009
structural molecule activity	3.43604616110432	bayes_pls_golite062009
structure-specific DNA binding	3.06066809614422	bayes_pls_golite062009
single-stranded DNA binding	3.0183551365402	bayes_pls_golite062009
nucleic acid binding	2.55336640491561	bayes_pls_golite062009
RNA binding	2.47373172667773	bayes_pls_golite062009
binding	1.9759530321894	bayes_pls_golite062009
DNA binding	1.83809666640016	bayes_pls_golite062009
translation regulator activity	1.46320772716954	bayes_pls_golite062009
translation factor activity, nucleic acid binding	1.40718318783582	bayes_pls_golite062009
transcription factor activity	1.21526211005888	bayes_pls_golite062009
	1.2099360907571	bayes_pls_golite062009
ribonuclease activity	1.19236946227657	bayes_pls_golite062009
DNA helicase activity	1.12203697857261	bayes_pls_golite062009
3'-5'-exoribonuclease activity	1.11755548907336	bayes_pls_golite062009
transcription termination factor activity	1.01993495617192	bayes_pls_golite062009
translation initiation factor activity	0.96756670903925	bayes_pls_golite062009
sequence-specific DNA binding	0.85691075793641	bayes_pls_golite062009
DEAD/H-box RNA helicase binding	0.772325293846201	bayes_pls_golite062009
DNA-dependent ATPase activity	0.638831894247026	bayes_pls_golite062009
transferase activity, transferring phosphorus-containing groups	0.635129001787169	bayes_pls_golite062009
protein binding	0.523813050066193	bayes_pls_golite062009
nucleotidyltransferase activity	0.491028860958185	bayes_pls_golite062009
aminoacyl-tRNA ligase activity	0.474251377131502	bayes_pls_golite062009
ligase activity, forming aminoacyl-tRNA and related compounds	0.47336621289748	bayes_pls_golite062009
ligase activity, forming carbon-oxygen bonds	0.47336621289748	bayes_pls_golite062009
mRNA binding	0.403794675006504	bayes_pls_golite062009
DNA-(apurinic or apyrimidinic site) lyase activity	0.288026663667102	bayes_pls_golite062009
exonuclease activity	0.28313884527829	bayes_pls_golite062009
transferase activity	0.249054945579328	bayes_pls_golite062009
exonuclease activity, active with either ribo- or deoxyribonucleic acids and producing 5'-phosphomonoesters	0.19873212905058	bayes_pls_golite062009
damaged DNA binding	0.16864489654021	bayes_pls_golite062009
exoribonuclease activity, producing 5'-phosphomonoesters	0.125256208482441	bayes_pls_golite062009
exoribonuclease activity	0.109774918833391	bayes_pls_golite062009
RNA polymerase activity	0.10868826895563	bayes_pls_golite062009
DNA-directed RNA polymerase activity	0.10868826895563	bayes_pls_golite062009
catalytic activity	0.10089766806364	bayes_pls_golite062009
transcription factor binding	0.0560158842173433	bayes_pls_golite062009
ATP-dependent DNA helicase activity	0.0179535526984695	bayes_pls_golite062009
helicase activity	0.0121541775159524	bayes_pls_golite062009

Predicted Domain #2

Region A:
Residues: [255-398]

      1          11         21         31         41         51         
      |          |          |          |          |          |          
    1 AGTVFYNPVS RLTQPLPSLA STASPQQVSP PAAPSTTSGE AIPENFVSYG AQVFPATQMP  60
   61 FLQQPKVTQN ISIPADMVGC IIGRGGSKIS EIRRTSGSKI SIAKEPHDET GERMFTITGT 120
  121 HEENEKALFL LYQQLEMEKD RRSH

[Run NCBI BLAST on this sequence.]

Detection Method:	PSI-BLAST
Confidence:	15.0
Match:	1wvnA
Description:	Crsytal Structure of domain 3 of human alpha polyC binding protein
Matching Structure (courtesy of the PDB):

Predicted functions:

Term	Confidence	Notes
RNA binding	5.18414740305744	bayes_pls_golite062009
nucleic acid binding	4.78650555542715	bayes_pls_golite062009
mRNA binding	3.82977088614136	bayes_pls_golite062009
binding	3.45962790790935	bayes_pls_golite062009
transcription regulator activity	2.28364833275102	bayes_pls_golite062009
DNA binding	2.03207983673692	bayes_pls_golite062009
structure-specific DNA binding	1.56764875690146	bayes_pls_golite062009
single-stranded DNA binding	1.49537687514752	bayes_pls_golite062009
transcription factor activity	1.30278154718684	bayes_pls_golite062009
	1.27314120901993	bayes_pls_golite062009
protein binding	1.16541072642796	bayes_pls_golite062009
mRNA 3'-UTR binding	0.722090816226222	bayes_pls_golite062009
transcription repressor activity	0.392035003865213	bayes_pls_golite062009
transcription activator activity	0.324382863054631	bayes_pls_golite062009
transcription factor binding	0.254024117548226	bayes_pls_golite062009
catalytic activity	0.113112541746059	bayes_pls_golite062009
sequence-specific DNA binding	0.0321875054165348	bayes_pls_golite062009

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:

Predicted functions: