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View Structure Prediction Details

Protein: LDL2_ARATH
Organism: Arabidopsis thaliana
Length: 746 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 LDL2_ARATH.

Description E-value Query
Range
Subject
Range
gi|61661322 - gi|61661322|gb|AAX51267.1| flowering locus D [Arabidopsis thaliana]
435.0 [0..46] [727..71]
LDL3_ORYSI - Lysine-specific histone demethylase 1 homolog 3 OS=Oryza sativa subsp. indica GN=B0103C08-B0602B01.1...
384.0 [0..51] [739..88]
LDL3_ORYSJ - Lysine-specific histone demethylase 1 homolog 3 OS=Oryza sativa subsp. japonica GN=Os04g0560300 PE=2...
383.0 [0..51] [739..88]
gi|55726626 - gi|55726626|emb|CAH90077.1| hypothetical protein [Pongo abelii]
gi|55726626|emb|... - hypothetical protein [Pongo pygmaeus]
291.0 [0..38] [622..87]

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Predicted Domain #1
Region A:
Residues: [1-157]
      1          11         21         31         41         51         
      |          |          |          |          |          |          
    1 MNSPASDETA PRRNRRKVSR KNYDENAMDE LIEKQLGGKA KKKYRTKQDL EKETETEALI  60
   61 ALSVGFPIDE LLEEEIRAGV VRELGGKEQN DYIVVRNHIV ARWRGNVGIW LLKDQIRETV 120
  121 SSDFEHLISA AYDFLLFNGY INFGVSPLFA PYIPEEG

[Run NCBI BLAST on this sequence.]

Detection Method: PSI-BLAST
Confidence: 27.30103
Match: 1h7xA
Description: Dihydropyrimidine dehydrogenase, N-terminal domain; Dihydropyrimidine dehydrogenase, domain 4; Dihydropyrimidine dehydrogenase, domain 3; Dihydropyrimidine dehydrogenase, domain 2; Dihydropyrimidine dehydrogenase, C-terminal domain
Matching Structure (courtesy of the PDB):

Predicted Domain #2
Region A:
Residues: [158-544]
      1          11         21         31         41         51         
      |          |          |          |          |          |          
    1 TEGSVIVVGA GLAGLAAARQ LLSFGFKVLV LEGRSRPGGR VYTQKMGGKD RFAAVELGGS  60
   61 VITGLHANPL GVLARQLSIP LHKVRDNCPL YNSEGVLVDK VADSNVEFGF NKLLDKVTEV 120
  121 REMMEGAAKK ISLGEVLETL RVLYGVAKDS EERKLFDWHL ANLEYANAGC LSNLSAAYWD 180
  181 QDDPYEMGGD HCFLAGGNWR LINALAEGLP IIYGKSVDTI KYGDGGVEVI SGSQIFQADM 240
  241 ILCTVPLGVL KKRSIKFEPE LPRRKQAAID RLGFGLLNKV AMLFPSVFWG DELDTFGCLN 300
  301 ESSINRGEFF LFYAYHTVSG GPALVALVAG EAAQRFECTE PSVLLHRVLK KLRGIYGPKG 360
  361 VVVPDPIQTV CTRWGSDPLS YGSYSHV

[Run NCBI BLAST on this sequence.]

Detection Method: PSI-BLAST
Confidence: 15.69897
Match: 2bi7A
Description: udp-galactopyranose mutase from Klebsiella pneumoniae oxidised FAD
Matching Structure (courtesy of the PDB):

Predicted Domain #3
Region A:
Residues: [545-614]
      1          11         21         31         41         51         
      |          |          |          |          |          |          
    1 RVGSSGVDYD ILAESVSNRL FFAGEATTRQ HPATMHGAYL SGLREASKIL HVANYLRSNL  60
   61 KKPVQRYSGV 

[Run NCBI BLAST on this sequence.]

Detection Method: PSI-BLAST
Confidence: 46.0
Match: 2v1dA
Description: No description for 2v1dA was found.

Predicted Domain #4
Region A:
Residues: [615-746]
      1          11         21         31         41         51         
      |          |          |          |          |          |          
    1 NINVLEDMFK RPDIAIGKLS FVFNPLTDDP KSFGLVRVCF DNFEEDPTNR LQLYTILSRE  60
   61 QANKIKELDE NSNESKLSCL MNTLGLKLMG ANSVLDTGGA LISVIANARR GRSRSHVVAG 120
  121 QCNLPLNPLH FN

[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 0.581 c.36.1 Thiamin diphosphate-binding fold (THDP-binding)
View Download 0.542 c.36.1 Thiamin diphosphate-binding fold (THDP-binding)
View Download 0.499 a.121.1 Tetracyclin repressor-like, C-terminal domain
View Download 0.491 c.55.5 MTH1175-like
View Download 0.474 c.36.1 Thiamin diphosphate-binding fold (THDP-binding)
View Download 0.474 c.36.1 Thiamin diphosphate-binding fold (THDP-binding)
View Download 0.472 c.59.1 MurD-like peptide ligases, peptide-binding domain
View Download 0.472 c.59.1 MurD-like peptide ligases, peptide-binding domain
View Download 0.411 a.1.1 Globin-like
View Download 0.375 a.41.1 Domain of poly(ADP-ribose) polymerase


YRC Informatics Platform - Version 3.0
Created and Maintained by: Michael Riffle