YRC Public Data Repository - Protein Structure Prediction

Protein:	nab3
Organism:	Schizosaccharomyces pombe
Length:	738 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 nab3.

Description	E-value	Query Range	Subject Range
gi\|109087091 - gi\|109087091\|ref\|XP_001098133.1\| PREDICTED: poly(A) binding protein, cytoplasmic 1 isoform 1 [Macaca...	252.0	[0..308]	[736..128]
gi\|73974146 - gi\|73974146\|ref\|XP_857039.1\| PREDICTED: similar to Polyadenylate-binding protein 1 (Poly(A)-binding ...	249.0	[0..308]	[736..137]
gi\|197097606 - gi\|197097606\|ref\|NP_001126097.1\| poly(A) binding protein, cytoplasmic 1 [Pongo abelii] gi\|55730342 - gi\|55730342\|emb\|CAH91893.1\| hypothetical protein [Pongo abelii]	247.0	[0..308]	[736..137]
PABP1_BOVIN - Polyadenylate-binding protein 1 OS=Bos taurus GN=PABPC1 PE=2 SV=1 gi\|109087089 - gi\|109087089\|ref\|XP_001098239.1\| PREDICTED: poly(A) binding protein, cytoplasmic 1 isoform 2 [Macaca... gi\|123993665, gi... - gi\|168278070\|dbj\|BAG11013.1\| polyadenylate-binding protein 1 [synthetic construct], gi\|123999981\|gb\|... gi\|194036975 - gi\|194036975\|ref\|XP_001927782.1\| PREDICTED: similar to Polyadenylate-binding protein 1 (Poly(A)-bind... PABPC1 - poly(A) binding protein, cytoplasmic 1 gi\|73974130, gi\|... - gi\|73974178\|ref\|XP_857695.1\| PREDICTED: similar to Polyadenylate-binding protein 1 (Poly(A)-binding ...	246.0	[0..308]	[736..137]
gi\|74212334 - gi\|74212334\|dbj\|BAE30919.1\| unnamed protein product [Mus musculus]	245.0	[0..308]	[736..137]

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Predicted Domain #1

Region A:
Residues: [1-114]

      1          11         21         31         41         51         
      |          |          |          |          |          |          
    1 MSSSSKDSSF QVETPVQNIL ETSTNSELQD QVSSPYEPDY NSPVKQAAAS ISALQTQDDT  60
   61 LFNNVDERTL ENKDGNKSDD ANFDQVSGIP SGSLEIPILN SATSNIRLTP SDTY

[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.

Predicted Domain #2

Region A:
Residues: [115-237]

      1          11         21         31         41         51         
      |          |          |          |          |          |          
    1 NNIPVSDTNN EEISKNIYGA PILESTSSDF QSKDSLSTTQ PSVSGGNGST SQSPPSLDVE  60
   61 QNKPFSISNE PVEQETENSS TKDLQVYDFQ TASEHLPEQS LQNTTYYDPS KTYSSVNFEE 120
  121 IEY

[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 Domain #3

Region A:
Residues: [238-455]

      1          11         21         31         41         51         
      |          |          |          |          |          |          
    1 GKSHEKLDLP YRTTDFIPYS KDLSTSPEAH RTSIYSYSAN LPNYYNEHNE LHEHHNPQTP  60
   61 SSPESAYSPE NLQLNHEAQN VEYLGNNAAE KSLQMNLEDE QRFQQFLKDE ESIMSNWYPG 120
  121 QFPSASRLFL GHLNTKSLSK RNLWKVFKIY GPLAQIVLKA NYGFVQFFTN EDCARALNAE 180
  181 QGNFVRGQKL HLEISKIQKK YQNQIENMKK GSHVTKSN

[Run NCBI BLAST on this sequence.]

Detection Method:	PSI-BLAST
Confidence:	22.045757
Match:	1cvjA
Description:	Poly(A)-binding protein
Matching Structure (courtesy of the PDB):

Predicted Domain #4

Region A:
Residues: [456-574]

      1          11         21         31         41         51         
      |          |          |          |          |          |          
    1 QYSEMIGNLP YPTSSRKRTR SPLMSKGKSY DRKGSISMSK NFSPDCEILV TEDCPKEFVW  60
   61 GVEKVFQERR LNIHTTCLYR DSNLQVIIKS CIINSVKSII LINAGLAHLG KVSVQVFKD

[Run NCBI BLAST on this sequence.]

Detection Method:	PSI-BLAST
Confidence:	25.30103
Match:	1po6A
Description:	Crystal Structure of UP1 Complexed With d(TAGG(6MI)TTAGGG): A Human Telomeric Repeat Containing 6-methyl-8-(2-deoxy-beta-ribofuranosyl)isoxanthopteridine (6MI)
Matching Structure (courtesy of the PDB):

Predicted Domain #5

Region A:
Residues: [575-738]

      1          11         21         31         41         51         
      |          |          |          |          |          |          
    1 GSSDSEVRCD EYAAVDVMVA ASIVHHAKTS LMHSAASSTP SYNGERIVPD VPSPCISTNP  60
   61 NLPALVGSLD SVNLHHLLGF IQNTYSTTSY IPTRVSFNPN DTGGSFGTIT SQSQFVVNEM 120
  121 PKNYARDNYE ALHSQESRQR SSVAGNKQLQ KILEQLAELK QPDF

[Run NCBI BLAST on this sequence.]

Detection Method:	PSI-BLAST
Confidence:	5.0
Match:	1m2vB
Description:	Sec24
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