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View Structure Prediction Details

Protein: LCD1
Organism: Saccharomyces cerevisiae
Length: 747 amino acids
Reference: Malmström L, et al. (2007) Superfamily assignments for the yeast proteome through integration of structure prediction with the gene ontology. PLoS Biol 5(4): e76. doi:10.1371/journal.pbio.0050076



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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 LCD1.

Description E-value Query
Range		 Subject
Range
LCD1_YEAST - DNA damage checkpoint protein LCD1 OS=Saccharomyces cerevisiae (strain ATCC 204508 / S288c) GN=LCD1 ...
LCD1 - Essential protein required for the DNA integrity checkpoint pathways; interacts physically with Mec1...
 0.0 [1..747] [1..747]

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Predicted Domain #1
Region A:
Residues: [1-194] 
      1          11         21         31         41         51         
      |          |          |          |          |          |          
    1 MRRETVGEFS SDDDDDILLE LGTRPPRFTQ IPPSSAALQT QIPTTLEVTT TTLNNKQSKN  60
   61 DNQLVNQLNK AQGEASMLRD KINFLNIERE KEKNIQAVKV NELQVKHLQE LAKLKQELQK 120
  121 LEDEKKFLQM EARGKSKREV ITNVKPPSTT LSTNTNTITP DSSSVAIEAK PQSPQSKKRK 180
  181 ISDNLLKKNM VPLN

[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 #2
Region A:
Residues: [195-284] 
      1          11         21         31         41         51         
      |          |          |          |          |          |          
    1 PNRIIPDETS LFLESILLHQ IIGADLSTIE ILNRLKLDYI TEFKFKNFVI AKGAPIGKSI  60
   61 VSLLLRCKKT LTLDRFIDTL LEDIAVLIKE

[Run NCBI BLAST on this sequence.]

Detection Method: ORFEUS
Confidence: 8.0
Match: 1h6kA
Description: CBP80, 80KDa nuclear cap-binding protein
Matching Structure (courtesy of the PDB):

Predicted functions:

Term Confidence Notes
binding 2.96084803796407 bayes_pls_golite062009
protein transporter activity 2.47190066960729 bayes_pls_golite062009
nucleic acid binding 1.67566088591721 bayes_pls_golite062009
protein binding 1.61131270705552 bayes_pls_golite062009
transcription regulator activity 0.845665181662967 bayes_pls_golite062009
DNA binding 0.806448013051712 bayes_pls_golite062009
protein transmembrane transporter activity 0.795583320946118 bayes_pls_golite062009
cytoskeletal protein binding 0.66737572008694 bayes_pls_golite062009
substrate-specific transporter activity 0.65168535727044 bayes_pls_golite062009
structure-specific DNA binding 0.384349606267362 bayes_pls_golite062009
structural molecule activity 0.279533827088985 bayes_pls_golite062009
transcription factor activity 0.131703572961748 bayes_pls_golite062009

Predicted Domain #3
Region A:
Residues: [285-566] 
      1          11         21         31         41         51         
      |          |          |          |          |          |          
    1 ISVHPNESKL AVPFLVALMY QIVQFRPSAT HNLALKDCFL FICDLIRIYH HVLKVPIHES  60
   61 NMNLHVEPQI FQYELIDYLI ISYSFDLLEG ILRVLQSHPK QTYMEFFDEN ILKSFEFVYK 120
  121 LALTISYKPM VNVIFSAVEV VNIITSIILN MDNSSDLKSL ISGSWWRDCI TRLYALLEKE 180
  181 IKSGDVYNEN VDTTTLHMSK YHDFFGLIRN IGDNELGGLI SKLIYTDRLQ SVPRVISKED 240
  241 IGMDSDKFTA PIIGYKMEKW LLKLKDEVLN IFENLLMIYG DD

[Run NCBI BLAST on this sequence.]

Detection Method: ORFEUS
Confidence: 8.0
Match: 1h6kA
Description: CBP80, 80KDa nuclear cap-binding protein
Matching Structure (courtesy of the PDB):

Predicted functions:

Term Confidence Notes
binding 2.96084803796407 bayes_pls_golite062009
protein transporter activity 2.47190066960729 bayes_pls_golite062009
nucleic acid binding 1.67566088591721 bayes_pls_golite062009
protein binding 1.61131270705552 bayes_pls_golite062009
transcription regulator activity 0.845665181662967 bayes_pls_golite062009
DNA binding 0.806448013051712 bayes_pls_golite062009
protein transmembrane transporter activity 0.795583320946118 bayes_pls_golite062009
cytoskeletal protein binding 0.66737572008694 bayes_pls_golite062009
substrate-specific transporter activity 0.65168535727044 bayes_pls_golite062009
structure-specific DNA binding 0.384349606267362 bayes_pls_golite062009
structural molecule activity 0.279533827088985 bayes_pls_golite062009
transcription factor activity 0.131703572961748 bayes_pls_golite062009

Predicted Domain #4
Region A:
Residues: [567-747] 
      1          11         21         31         41         51         
      |          |          |          |          |          |          
    1 ATIVNGEMLI HSSKFLSREQ ALMIERYVGQ DSPNLDLRCH LIEHTLTIIY RLWKDHFKQL  60
   61 REEQIKQVES QLIMSLWRFL VCQTETVTAN EREMRDHRHL VDSLHDLTIK DQASYYEDAF 120
  121 EDLPEYIEEE LKMQLNKRTG RIMQVKYDEK FQEMARTILE SKSFDLTTLE EADSLYISMG 180
  181 L

[Run NCBI BLAST on this sequence.]

Detection Method: ORFEUS
Confidence: 7.09
Match: 1qoyA
Description: Hemolysin E (HlyE, ClyA, SheA)
Matching Structure (courtesy of the PDB):
YRC Informatics Platform - Version 3.0
Created and Maintained by: Michael Riffle