YRC Public Data Repository - Protein Structure Prediction

Protein:	LDB2
Organism:	Homo sapiens
Length:	373 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 LDB2.

Description	E-value	Query Range	Subject Range
gi\|114593280 - gi\|114593280\|ref\|XP_001161726.1\| PREDICTED: LIM domain binding 2 isoform 2 [Pan troglodytes]	565.0	[0..1]	[373..1]
LDB2_MOUSE - LIM domain-binding protein 2 OS=Mus musculus GN=Ldb2 PE=1 SV=2	564.0	[0..1]	[373..1]
gi\|157822259, gi... - gi\|157822259\|ref\|NP_001099479.1\| LIM domain binding 2 [Rattus norvegicus], gi\|149047267\|gb\|EDL99936....	564.0	[0..1]	[373..1]
LDB2_CHICK - LIM domain-binding protein 2 OS=Gallus gallus GN=LDB2 PE=2 SV=1	556.0	[0..1]	[373..1]
gi\|108743262 - gi\|108743262\|dbj\|BAE95407.1\| LIM-domain-binding protein 2a [Xenopus laevis]	541.0	[0..1]	[373..1]
gi\|18858953, gi\|... - gi\|3078001\|gb\|AAC15796.1\| LIM-domain binding factor 2; LDB2 [Danio rerio], gi\|18858953\|ref\|NP_571389...	527.0	[0..1]	[373..1]
gi\|3044066 - gi\|3044066\|gb\|AAC13274.1\| LIM domain binding protein [Homo sapiens] gi\|109073803 - gi\|109073803\|ref\|XP_001101147.1\| PREDICTED: similar to LIM domain binding 2 isoform 1 [Macaca mulatt...	526.0	[0..25]	[373..1]

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Predicted Domain #1

Region A:
Residues: [1-123]

      1          11         21         31         41         51         
      |          |          |          |          |          |          
    1 MSSTPHDPFY SSPFGPFYRR HTPYMVQPEY RIYEMNKRLQ SRTEDSDNLW WDAFATEFFE  60
   61 DDATLTLSFC LEDGPKRYTI GRTLIPRYFS TVFEGGVTDL YYILKHSKES YHNSSITVDC 120
  121 DQC

[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 #2

Region A:
Residues: [124-245]

      1          11         21         31         41         51         
      |          |          |          |          |          |          
    1 TMVTQHGKPM FTKVCTEGRL ILEFTFDDLM RIKTWHFTIR QYRELVPRSI LAMHAQDPQV  60
   61 LDQLSKNITR MGLTNFTLNY LRLCVILEPM QELMSRHKTY NLSPRDCLKT CLFQKWQRMV 120
  121 AP

[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.

		MCM Score	SCOP Match	SCOP Description
View	Download	0.820	f.36.1	Neurotransmitter-gated ion-channel pransmembrane pore

Predicted Domain #3

Region A:
Residues: [246-373]

      1          11         21         31         41         51         
      |          |          |          |          |          |          
    1 PAEPTRQPTT KRRKRKNSTS STSNSSAGNN ANSTGSKKKT TAANLSLSSQ VPDVMVVGEP  60
   61 TLMGGEFGDE DERLITRLEN TQYDAANGMD DEEDFNNSPA LGNNSPWNSK PPATQETKSE 120
  121 NPPPQASQ

[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.

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