YRC Public Data Repository - Protein Structure Prediction

Protein:	gi\|217038339
Organism:	Oryctolagus cuniculus
Length:	530 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 gi|217038339.

Description	E-value	Query Range	Subject Range
IPI:IPI00555302.... - Ensembl_locations(Chr-bp):3-139264164, Tax_Id=10116 RNA-binding region, Tax_Id=10116 RNA-binding reg... RBM39_MOUSE - RNA-binding protein 39 OS=Mus musculus GN=Rbm39 PE=1 SV=2	250.0	[0..1]	[530..1]
gi\|73991848 - gi\|73991848\|ref\|XP_865304.1\| PREDICTED: similar to RNA-binding region containing protein 2 isoform b...	248.0	[0..1]	[530..1]
gi\|76633420 - gi\|76633420\|ref\|XP_886666.1\| PREDICTED: similar to RNA-binding region containing protein 2 isoform b...	248.0	[0..1]	[530..1]
RBM39_PONAB - RNA-binding protein 39 OS=Pongo abelii GN=RBM39 PE=2 SV=1 gi\|194044529 - gi\|194044529\|ref\|XP_001925282.1\| PREDICTED: RNA binding motif protein 39 isoform 2 [Sus scrofa] gi\|149733223 - gi\|149733223\|ref\|XP_001501876.1\| PREDICTED: RNA binding motif protein 39 isoform 2 [Equus caballus] gi\|2136190, gi\|1... - gi\|4757926\|ref\|NP_004893.1\| RNA binding motif protein 39 isoform b [Homo sapiens], gi\|405192\|gb\|AAA1... gi\|76633428, gi\|... - gi\|76633428\|ref\|XP_886717.1\| PREDICTED: RNA binding motif protein 39 isoform 13 [Bos taurus], gi\|766... gi\|73991808, gi\|... - gi\|73991842\|ref\|XP_865255.1\| PREDICTED: similar to RNA-binding region containing protein 2 isoform b... RBM39_PONPY - RNA-binding protein 39 - Pongo pygmaeus (Orangutan) tr\|G3HAR7\|G3HAR7... - RNA-binding protein 39 OS=Cricetulus griseus GN=I79_007525 PE=4 SV=1	245.0	[0..1]	[530..1]
gi\|61557287, gi\|... - gi\|61557287\|ref\|NP_001013225.1\| RNA binding motif protein 39 [Rattus norvegicus], gi\|60552170\|gb\|AAH... gi\|74196119, gi\|... - gi\|74196119\|dbj\|BAE32977.1\| unnamed protein product [Mus musculus], gi\|220872598\|emb\|CAX15275.1\| RNA...	244.0	[0..1]	[530..1]
gi\|62857615, gi\|... - gi\|89273890\|emb\|CAJ83908.1\| RNA-binding region (RNP1, RRM) containing 2 [Xenopus (Silurana) tropical...	242.0	[0..1]	[530..1]

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Predicted Domain #1

Region A:
Residues: [1-146]

      1          11         21         31         41         51         
      |          |          |          |          |          |          
    1 MADDIDIEAM LEAPYKKDEN KLSSANGHEE RSKKRKKSKS RSRSHERKRS KSKERKRSRD  60
   61 RERKKSKSRE RKRSRSKERR RSRSRSRDRR FRGRYRSPYS GPKFNSAIRG KIGLPHSIKL 120
  121 SRRRSRSKSP FRKDKSPVRE PIDNLT

[Run NCBI BLAST on this sequence.]

Detection Method:	PSI-BLAST
Confidence:	19.30103
Match:	1ha1A
Description:	HNRNP A1 (RBD1,2) FROM HOMO SAPIENS
Matching Structure (courtesy of the PDB):

Predicted Domain #2

Region A:
Residues: [147-332]

      1          11         21         31         41         51         
      |          |          |          |          |          |          
    1 PEERDARTVF CMQLAARIRP RDLEEFFSTV GKVRDVRMIS DRNSRRSKGI AYVEFVDVSS  60
   61 VPLAIGLTGQ RVLGVPIIVQ ASQAEKNRAA AMANNLQKGS AGPMRLYVGS LHFNITEDML 120
  121 RGIFEPFGRI ESIQLMMDSE TGRSKGYGFI TFSDSECAKK ALEQLNGFEL AGRPMKVGHV 180
  181 TERTDA

[Run NCBI BLAST on this sequence.]

Detection Method:	PSI-BLAST
Confidence:	30.30103
Match:	1cvjA
Description:	Poly(A)-binding protein
Matching Structure (courtesy of the PDB):

Predicted Domain #3

Region A:
Residues: [333-438]

      1          11         21         31         41         51         
      |          |          |          |          |          |          
    1 SSASSFLDSD ELERTGIDLG TTGRLQLMAR LAEGTGLQIP PAAQQALQMS GSLAFGAVAE  60
   61 FSFVIDLQTR LSQQTEASAL AAAASVQPLA TQCFQLSNMF NPQTEE

[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 #4

Region A:
Residues: [439-530]

      1          11         21         31         41         51         
      |          |          |          |          |          |          
    1 EVGWDTEIKD DVIEECNKHG GVIHIYVDKN SAQGNVYVKC PSIAAAIAAV NALHGRWFAG  60
   61 KMITAAYVPL PTYHNLFPDS MTATQLLVPS RR

[Run NCBI BLAST on this sequence.]

Detection Method:	PSI-BLAST
Confidence:	4.0
Match:	2u1aA
Description:	RNA BINDING DOMAIN 2 OF HUMAN U1A PROTEIN, NMR, 20 STRUCTURES
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