YRC Public Data Repository - Protein Structure Prediction

Protein:	SPBC11C11.01
Organism:	Schizosaccharomyces pombe
Length:	493 amino acids
Reference:	Drew K, et al. (2011) The proteome folding project: Proteome-scale prediction of structure and function. Genome Res. 2011 Sep 16

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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 SPBC11C11.01.

Description	E-value	Query Range	Subject Range
gi\|3560192 - gi\|3560192\|emb\|CAA20683.1\| SPBC11C11.01 [Schizosaccharomyces pombe]	287.0	[0..42]	[493..1]
gi\|50751964 - gi\|50751964\|ref\|XP_422593.1\| PREDICTED: similar to RIKEN cDNA 2610101N10 [Gallus gallus]	181.0	[0..44]	[479..439]
gi\|73976775 - gi\|73976775\|ref\|XP_539581.2\| PREDICTED: similar to poly(A) binding protein, cytoplasmic 4 isoform 1 ...	180.0	[0..35]	[345..83]
gi\|48734702 - gi\|48734702\|gb\|AAH71591.1\| PABPC4 protein [Homo sapiens]	179.0	[0..35]	[345..83]
gi\|55959639, gi\|... - gi\|66267552\|gb\|AAH94755.1\| PABPC4 protein [Homo sapiens], gi\|55962217\|emb\|CAI12298.1\| poly(A) bindin... gi\|114555673 - gi\|114555673\|ref\|XP_001170937.1\| PREDICTED: poly A binding protein, cytoplasmic 4 isoform 1 [Pan tro...	179.0	[0..35]	[345..83]
gi\|76689273 - gi\|76689273\|ref\|XP_881129.1\| PREDICTED: similar to poly(A) binding protein, cytoplasmic 4 isoform 1 ...	179.0	[0..35]	[345..92]
gi\|109002439 - gi\|109002439\|ref\|XP_001113342.1\| PREDICTED: poly A binding protein, cytoplasmic 4 [Macaca mulatta] CCDS438.1_1 - null	178.0	[0..35]	[345..83]

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Predicted Domain #1

Region A:
Residues: [1-250]

      1          11         21         31         41         51         
      |          |          |          |          |          |          
    1 MKKNNERVNT NPSLISKSYN MKKRPVIGTR RHFARKEIES DSDDEDDIFL AGERKKYLQN  60
   61 QSYERRKQKY VWSFNNITKS VIRNEHGNNL TLQEELLRHE AYEKNEEIAN ENDVDQGMFI 120
  121 QQNNILNMLV NLMKYFVHMD NISPVTTNGS LKESLRKYSS IIAVNIFSET GDLKKGIAIF 180
  181 QDLSDAEQAV QYLSNCKIDG RLISATITNH PKRLPNAEHL ESSTKTKDES QDKDKLTKLD 240
  241 RAKLEWLIQG

[Run NCBI BLAST on this sequence.]

Detection Method:	PSI-BLAST
Confidence:	33.39794
Match:	1l3kA
Description:	Nuclear ribonucleoprotein A1 (RNP A1, UP1)
Matching Structure (courtesy of the PDB):

Predicted functions:

Term	Confidence	Notes
binding	2.26550630643712	bayes_pls_golite062009
nucleic acid binding	2.02897811404491	bayes_pls_golite062009
RNA binding	1.45577328897026	bayes_pls_golite062009
mRNA binding	0.274978159646657	bayes_pls_golite062009

Predicted Domain #2

Region A:
Residues: [251-401]

      1          11         21         31         41         51         
      |          |          |          |          |          |          
    1 LNCEKGSIGN LLCFAVEHVN NHVEITDAFL KEFFNDQPTD DTKVYDDDYI NERGEKKLSL  60
   61 IYLMNDILFN GISGTSLVWR YRFSFEPHVE RLLDDLYLFS KRLGGRIKED IFCKKVVKVI 120
  121 EVWKTWIAFQ EETLERAWRN FSGNTPQSPQ I

[Run NCBI BLAST on this sequence.]

Detection Method:	PSI-BLAST
Confidence:	7.30103
Match:	2diwA
Description:	No description for 2diwA was found.

Predicted Domain #3

Region A:
Residues: [402-493]

      1          11         21         31         41         51         
      |          |          |          |          |          |          
    1 NSAALKVETK NSWTAISEET EGLQDDEEYN GIPVDVNELL NVEFISQIPM STETSSSSSP  60
   61 QPTEERKAKF KPSFTQGTFV SKRMRMHAED LF

[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	0.270	c.15.1	BRCT domain
View	Download	0.495	a.52.1	Bifunctional inhibitor/lipid-transfer protein/seed storage 2S albumin

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: