YRC Public Data Repository - Protein Structure Prediction

Protein:	LSM11
Organism:	Homo sapiens
Length:	360 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 LSM11.

Description	E-value	Query Range	Subject Range
gi\|109490584, gi... - gi\|109490584\|ref\|XP_001068848.1\| PREDICTED: similar to U7 snRNA-associated Sm-like protein Lsm11 [Ra...	0.0	[1..360]	[70..429]
gi\|114603137 - gi\|114603137\|ref\|XP_001138531.1\| PREDICTED: hypothetical protein [Pan troglodytes]	0.0	[1..360]	[1..360]
gi\|30802096 - gi\|30802096\|gb\|AAH51353.1\| LSM11 protein [Homo sapiens]	0.0	[8..360]	[1..353]
LSM11_MOUSE - U7 snRNA-associated Sm-like protein LSm11 OS=Mus musculus GN=Lsm11 PE=1 SV=1	0.0	[1..360]	[1..361]
LSM11_XENLA - U7 snRNA-associated Sm-like protein LSm11 OS=Xenopus laevis GN=lsm11 PE=2 SV=1	0.0	[13..360]	[2..291]
gi\|73954119 - gi\|73954119\|ref\|XP_536452.2\| PREDICTED: similar to U7 snRNA-associated Sm-like protein Lsm11 [Canis ...	1.0E-91	[75..360]	[117..402]
gi\|109079550 - gi\|109079550\|ref\|XP_001105388.1\| PREDICTED: similar to cytochrome P450, family 20, subfamily A, poly...	3.0E-81	[1..219]	[1..219]
gi\|68374669 - gi\|68374669\|ref\|XP_693546.1\| PREDICTED: similar to LSM11, U7 small nuclear RNA associated [Danio rer...	4.0E-78	[1..360]	[63..388]

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Predicted Domain #1

Region A:
Residues: [1-138]

      1          11         21         31         41         51         
      |          |          |          |          |          |          
    1 MEERERGARS AGAGSPARPP SPRLDVSSDS FDPLLALYAP RLPPIPYPNA PCFNNVAEYE  60
   61 SFLRTGVRGG GRGRGRARGA AAGSGVPAAP GPSGRTRRRP DAPAPDPERI QRLRRLMVAK 120
  121 EEGDGAAGAG RRGPGRSR

[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.

Found no structure predictions for this domain.

Predicted Domain #2

Region A:
Residues: [139-238]

      1          11         21         31         41         51         
      |          |          |          |          |          |          
    1 KAPRNVLTRM PLHEGSPLGE LHRCIREGVK VNVHIRTFKG LRGVCTGFLV AFDKFWNMAL  60
   61 TDVDETYRKP VLGKAYERDS SLTLTRLFDR LKLQDSSKKE

[Run NCBI BLAST on this sequence.]

Detection Method:	FFAS03
Confidence:	3.5
Match:	1b34B
Description:	D2 core SNRNP protein
Matching Structure (courtesy of the PDB):

Predicted Domain #3

Region A:
Residues: [239-360]

      1          11         21         31         41         51         
      |          |          |          |          |          |          
    1 ADSKSAVEDS TLSRYSQTST WKLASVWGRA DTGRGSHKRS RSVPSSLQAS AREESRSELS  60
   61 GRTTRTDGSS VGGTFSRATT LSRGQSRKKK RKPKVDYQQV FTRHINQIFI RGENVLLVHL 120
  121 AQ

[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.

Found no 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