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(-) Description

Title :  STRUCTURE OF E.COLI GLPG Y205F MUTANT COMPLEXED WITH PEPTIDIC INHIBITOR AC-RMA-CHO IN THE DMPC/CHAPSO BICELLE
 
Authors :  S. Urban, S. Cho, S. W. Dickey
Date :  04 Dec 15  (Deposition) - 06 Apr 16  (Release) - 06 Apr 16  (Revision)
Method :  X-RAY DIFFRACTION
Resolution :  2.30
Chains :  Asym./Biol. Unit :  A,B
Keywords :  Glpg, Rhomboid, Intramembrane Protease, Bicelle, Hydrolase-Hydrolase Inhibitor Complex (Keyword Search: [Gene Ontology, PubMed, Web (Google)] )
 
Reference :  S. Cho, S. W. Dickey, S. Urban
Crystal Structures And Inhibition Kinetics Reveal A Two-Stage Catalytic Mechanism With Drug Design Implications For Rhomboid Proteolysis.
Mol. Cell V. 61 329 2016
PubMed-ID: 26805573  |  Reference-DOI: 10.1016/J.MOLCEL.2015.12.022

(-) Compounds

Molecule 1 - RHOMBOID PROTEASE GLPG
    Chains: A
    EC Number: 3.4.21.105
    Engineered: YES
    Expression System: ESCHERICHIA COLI
    Expression System Strain: BL21(C43)
    Expression System Taxid: 562
    Fragment: UNP RESIDUES 87-276
    Gene: GLPG, APT88_21985, SK83_00858
    Mutation: YES
    Organism Scientific: ESCHERICHIA COLI
    Organism Taxid: 562
    Synonym: INTRAMEMBRANE SERINE PROTEASE
 
Molecule 2 - ACE-ARG-MET-ALA-ALDEHYDE
    Chains: B
    Engineered: YES
    Mutation: YES
    Organism Scientific: DROSOPHILA MELANOGASTER
    Organism Taxid: 7227
    Synthetic: YES

 Structural Features

(-) Chains, Units

  12
Asymmetric/Biological Unit : AB

Summary Information (see also Sequences/Alignments below)

(-) Ligands, Modified Residues, Ions  (2, 2)

Asymmetric/Biological Unit (2, 2)
No.NameCountTypeFull Name
15XU1Mod. Amino Acid(2~{S})-2-AZANYLPROPANAL
2ACE1Mod. Amino AcidACETYL GROUP

(-) Sites  (0, 0)

(no "Site" information available for 5F5G)

(-) SS Bonds  (0, 0)

(no "SS Bond" information available for 5F5G)

(-) Cis Peptide Bonds  (0, 0)

(no "Cis Peptide Bond" information available for 5F5G)

 Sequence-Structure Mapping

(-) SAPs(SNPs)/Variants  (0, 0)

(no "SAP(SNP)/Variant" information available for 5F5G)

(-) PROSITE Motifs  (0, 0)

(no "PROSITE Motif" information available for 5F5G)

(-) Exons   (0, 0)

(no "Exon" information available for 5F5G)

(-) Sequences/Alignments

Asymmetric/Biological Unit
   Reformat: Number of residues per line =  ('0' or empty: single-line sequence representation)
  Number of residues per labelling interval =   
  UniProt sequence: complete  aligned part    
   Show mapping: SCOP domains CATH domains Pfam domains Secondary structure (by author)
SAPs(SNPs) PROSITE motifs Exons
(details for a mapped element are shown in a popup box when the mouse pointer rests over it) 
Chain A from PDB  Type:PROTEIN  Length:181
                                                                                                                                                                                                                     
               SCOP domains ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SCOP domains
               CATH domains ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- CATH domains
               Pfam domains ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author ..hhhhhhhhhhhhhhhhhhhhhhhhhhhhhhh...hhhhh...hhhhhhhhh..hhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhh..ee.hhhhhhhhhhhhhhhhhhhhhhh...hhhhhhhhhhhhhhhhhhhhhh..hhhhhhhhhhhhhhhhhhhhhhh Sec.struct. author
                 SAPs(SNPs) ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 5f5g A  92 RAGPVTWVMMIACVVVFIAMQILGDQEVMLWLAWPFDPTLKFEFWRYFTHALMHFSLMHILFNLLWWWYLGGAVEKRLGSGKLIVITLISALLSGYVQQKFSGPWFGGLSGVVFALMGYVWLRGERDPQSGIYLQRGLIIFALIWIVAGWFDLFGMSMANGAHIAGLAVGLAMAFVDSLNA 272
                                   101       111       121       131       141       151       161       171       181       191       201       211       221       231       241       251       261       271 


Chain B from PDB  Type:PROTEIN  Length:4
                                    
               SCOP domains ---- SCOP domains
               CATH domains ---- CATH domains
               Pfam domains ---- Pfam domains
         Sec.struct. author .ee. Sec.struct. author
                 SAPs(SNPs) ---- SAPs(SNPs)
                    PROSITE ---- PROSITE
                 Transcript ---- Transcript
                 5f5g B 500 xRMx 503
                            |  |
                          500-ACE
                             503-5XU
   Legend:   → Mismatch (orange background)
  - → Gap (green background, '-', border residues have a numbering label)
    → Modified Residue (blue background, lower-case, 'x' indicates undefined single-letter code, labelled with number + name)
  x → Chemical Group (purple background, 'x', labelled with number + name, e.g. ACE or NH2)
  extra numbering lines below/above indicate numbering irregularities and modified residue names etc., number ends below/above '|'

 Classification and Annotation

(-) SCOP Domains  (0, 0)

(no "SCOP Domain" information available for 5F5G)

(-) CATH Domains  (0, 0)

(no "CATH Domain" information available for 5F5G)

(-) Pfam Domains  (0, 0)

(no "Pfam Domain" information available for 5F5G)

(-) Gene Ontology  (11, 11)

Asymmetric/Biological Unit(hide GO term definitions)

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  GLPG_ECOLI | P09391
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 Related Entries

(-) Entries Sharing at Least One Protein Chain (UniProt ID)

UniProtKB/Swiss-Prot
        GLPG_ECOLI | P09391: 2ic8 2irv 2lep 2nrf 2o7l 2xov 2xow 2xtu 2xtv 3b44 3b45 3txt 3ubb 3zeb 3zmh 3zmi 3zmj 3zot 4h1d 4hdd 4njn 4njp 5f5b 5f5d 5f5j 5f5k

(-) Related Entries Specified in the PDB File

5f5b 5f5d 5f5j 5f5k