YRC Public Data Repository - Protein Structure Prediction

Protein:	RBM39
Organism:	Homo sapiens
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 RBM39.

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 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	0.566	d.54.1	Enolase N-terminal domain-like
View	Download	0.555	d.54.1	Enolase N-terminal domain-like
View	Download	0.437	d.224.1	SufE-like
View	Download	0.406	a.48.3	Conserved domain common to transcription factors TFIIS, elongin A, CRSP70
View	Download	0.332	a.74.1	Cyclin-like
View	Download	0.328	a.77.1	DEATH domain
View	Download	0.324	a.74.1	Cyclin-like
View	Download	0.309	a.142.1	PTS-regulatory domain, PRD
View	Download	0.304	a.36.1	Signal peptide-binding 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