YRC Public Data Repository - Protein Structure Prediction

Protein:	LEMD3
Organism:	Homo sapiens
Length:	911 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 LEMD3.

Description	E-value	Query Range	Subject Range
gi\|109097647 - gi\|109097647\|ref\|XP_001116983.1\| PREDICTED: LEM domain containing 3 [Macaca mulatta]	0.0	[9..911]	[9..909]
gi\|114643964 - gi\|114643964\|ref\|XP_509197.2\| PREDICTED: LEM domain containing 3 [Pan troglodytes]	0.0	[9..911]	[9..911]
gi\|8132534 - gi\|8132534\|gb\|AAF73293.1\| inner nuclear membrane protein [Homo sapiens]	0.0	[9..911]	[9..910]
gi\|76618511 - gi\|76618511\|ref\|XP_609134.2\| PREDICTED: similar to Inner nuclear membrane protein Man1 (LEM domain-c...	0.0	[9..911]	[9..913]
gi\|109480619, gi... - gi\|109482019\|ref\|XP_001081049.1\| PREDICTED: similar to Inner nuclear membrane protein Man1 (LEM doma...	0.0	[9..911]	[12..915]
gi\|124487119, gi... - gi\|83028344\|ref\|XP_354566.4\| PREDICTED: LEM domain containing 3 isoform 1 [Mus musculus], gi\|1244871...	0.0	[9..911]	[10..919]
gi\|73968711 - gi\|73968711\|ref\|XP_850494.1\| PREDICTED: similar to Inner nuclear membrane protein Man1 (LEM domain c...	0.0	[234..911]	[50..721]
gi\|29335751, gi\|... - gi\|29335751\|dbj\|BAC66442.1\| nuclear membrane protein XMAN1 [Xenopus laevis], gi\|148225084\|ref\|NP_001...	0.0	[8..910]	[2..780]

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Predicted Domain #1

Region A:
Residues: [1-430]

      1          11         21         31         41         51         
      |          |          |          |          |          |          
    1 MAAAAASAPQ QLSDEELFSQ LRRYGLSPGP VTESTRPVYL KKLKKLREEE QQQHRSGGRG  60
   61 NKTRNSNNNN TAAATVAAAG PAAAAAAGMG VRPVSGDLSY LRTPGGLCRI SASGPESLLG 120
  121 GPGGASAAPA AGSKVLLGFS SDESDVEASP RDQAGGGGRK DRASLQYRGL KAPPAPLAAS 180
  181 EVTNSNSAER RKPHSWWGAR RPAGPELQTP PGKDGAVEDE EGEGEDGEER DPETEEPLWA 240
  241 SRTVNGSRLV PYSCRENYSD SEEEDDDDVA SSRQVLKDDS LSRHRPRRTH SKPLPPLTAK 300
  301 SAGGRLETSV QGGGGLAMND RAAAAGSLDR SRNLEEAAAA EQGGGCDQVD SSPVPRYRVN 360
  361 AKKLTPLLPP PLTDMDSTLD SSTGSLLKTN NHIGGGAFSV DSPRIYSNSL PPSAAVAASS 420
  421 SLRINHANHT

[Run NCBI BLAST on this sequence.]

Detection Method:	PSI-BLAST
Confidence:	17.0
Match:	1y0fB
Description:	No description for 1y0fB was found.

Predicted Domain #2

Region A:
Residues: [431-642]

      1          11         21         31         41         51         
      |          |          |          |          |          |          
    1 GSNHTYLKNT YNKPKLSEPE EELLQQFKRE EVSPTGSFSA HYLSMFLLTA ACLFFLILGL  60
   61 TYLGMRGTGV SEDGELSIEN PFGETFGKIQ ESEKTLMMNT LYKLHDRLAQ LAGDHECGSS 120
  121 SQRTLSVQEA AAYLKDLGPE YEGIFNTSLQ WILENGKDVG IRCVGFGPEE ELTNITDVQF 180
  181 LQSTRPLMSF WCRFRRAFVT VTHRLLLLCL GV

[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 #3

Region A:
Residues: [643-771]

      1          11         21         31         41         51         
      |          |          |          |          |          |          
    1 VMVCVVLRYM KYRWTKEEEE TRQMYDMVVK IIDVLRSHNE ACQENKDLQP YMPIPHVRDS  60
   61 LIQPHDRKKM KKVWDRAVDF LAANESRVRT ETRRIGGADF LVWRWIQPSA SCDKILVIPS 120
  121 KVWQGQAFH

[Run NCBI BLAST on this sequence.]

Detection Method:	PSI-BLAST
Confidence:	30.0
Match:	2ch0A
Description:	No description for 2ch0A was found.

Predicted Domain #4

Region A:
Residues: [772-911]

      1          11         21         31         41         51         
      |          |          |          |          |          |          
    1 LDRRNSPPNS LTPCLKIRNM FDPVMEIGDQ WHLAIQEAIL EKCSDNDGIV HIAVDKNSRE  60
   61 GCVYVKCLSP EYAGKAFKAL HGSWFDGKLV TVKYLRLDRY HHRFPQALTS NTPLKPSNKH 120
  121 MNSMSHLRLR TGLTNSQGSS

[Run NCBI BLAST on this sequence.]

Detection Method:	PSI-BLAST
Confidence:	16.0
Match:	1fnxH
Description:	Hu antigen C (Huc)
Matching Structure (courtesy of the PDB):

Predicted functions:

Term	Confidence	Notes
binding	2.29041217255208	bayes_pls_golite062009
nucleic acid binding	1.91189490017911	bayes_pls_golite062009
RNA binding	1.38087228196877	bayes_pls_golite062009
mRNA binding	0.27767437285052	bayes_pls_golite062009
protein binding	0.0101134374085809	bayes_pls_golite062009

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

Predicted functions: