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(-) Description

Title :  THE STRUCTURE OF THE CAULOBACTER CRESCENTUS CLPS PROTEASE ADAPTOR PROTEIN IN COMPLEX WITH A N-END RULE PEPTIDE
 
Authors :  K. Wang, G. Roman-Hernandez, R. A. Grant, R. T. Sauer, T. A. Baker
Date :  02 Jul 08  (Deposition) - 18 Nov 08  (Release) - 24 Feb 09  (Revision)
Method :  X-RAY DIFFRACTION
Resolution :  1.15
Chains :  Asym. Unit :  A,B,C,D
Biol. Unit 1:  B,D  (1x)
Biol. Unit 2:  A,C  (1x)
Keywords :  Adaptor, Protein-Peptide Complex, Peptide Binding Protein (Keyword Search: [Gene Ontology, PubMed, Web (Google)] )
 
Reference :  K. H. Wang, G. Roman-Hernandez, R. A. Grant, R. T. Sauer, T. A. Baker
The Molecular Basis Of N-End Rule Recognition.
Mol. Cell V. 32 406 2008
PubMed-ID: 18995838  |  Reference-DOI: 10.1016/J.MOLCEL.2008.08.032
(for further references see the PDB file header)

(-) Compounds

Molecule 1 - ATP-DEPENDENT CLP PROTEASE ADAPTER PROTEIN CLPS
    Chains: A, B
    Engineered: YES
    Expression System: ESCHERICHIA COLI
    Expression System Plasmid: PET23B
    Expression System Vector Type: PLASMID
    Gene: CLPS, CC_2467
    Organism Common: CAULOBACTER VIBRIOIDES
    Organism Scientific: CAULOBACTER VIBRIOIDES
    Organism Taxid: 155892
    Strain: CB15
 
Molecule 2 - SYNTHETIC N-END RULE PEPTIDE
    Chains: C, D
    Engineered: YES
    Other Details: THE PEPTIDE IS CHEMICALLY SYNTHESIZED
    Synthetic: YES

 Structural Features

(-) Chains, Units

  1234
Asymmetric Unit : ABCD
Biological Unit 1 (1x):  B D
Biological Unit 2 (1x): A C 

Summary Information (see also Sequences/Alignments below)

(-) Ligands, Modified Residues, Ions  (1, 1)

Asymmetric Unit (1, 1)
No.NameCountTypeFull Name
1MG1Ligand/IonMAGNESIUM ION
Biological Unit 1 (0, 0)
No.NameCountTypeFull Name
1MG-1Ligand/IonMAGNESIUM ION
Biological Unit 2 (0, 0)
No.NameCountTypeFull Name
1MG-1Ligand/IonMAGNESIUM ION

(-) Sites  (1, 1)

Asymmetric Unit (1, 1)
No.NameEvidenceResiduesDescription
1AC1SOFTWAREASP A:119 , ASP B:119BINDING SITE FOR RESIDUE MG A 1

(-) SS Bonds  (0, 0)

(no "SS Bond" information available for 3DNJ)

(-) Cis Peptide Bonds  (0, 0)

(no "Cis Peptide Bond" information available for 3DNJ)

 Sequence-Structure Mapping

(-) SAPs(SNPs)/Variants  (0, 0)

(no "SAP(SNP)/Variant" information available for 3DNJ)

(-) PROSITE Motifs  (0, 0)

(no "PROSITE Motif" information available for 3DNJ)

(-) Exons   (0, 0)

(no "Exon" information available for 3DNJ)

(-) Sequences/Alignments

Asymmetric 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:80
 aligned with CLPS_CAUCR | Q9A5I0 from UniProtKB/Swiss-Prot  Length:119

    Alignment length:80
                                    49        59        69        79        89        99       109       119
           CLPS_CAUCR    40 LYRVLILNDDYTPMEFVVYVLERFFNKSREDATRIMLHVHQNGVGVCGVYTYEVAETKVAQVIDSARRHQHPLQCTMEKD 119
               SCOP domains d3dnja_ A: automated matches                                                     SCOP domains
               CATH domains 3dnjA00 A:40-119  [code=3.30.1390.10, no name defined]                           CATH domains
               Pfam domains -------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author .eeeeee.....hhhhhhhhhhhhhh.hhhhhhhhhhhhhhhheeeeeeehhhhhhhhhhhhhhhhhhh.....eeeee. Sec.struct. author
                 SAPs(SNPs) -------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE -------------------------------------------------------------------------------- PROSITE
                 Transcript -------------------------------------------------------------------------------- Transcript
                 3dnj A  40 LYRVLILNDDYTPMEFVVYVLERFFNKSREDATRIMLHVHQNGVGVCGVYTYEVAETKVAQVIDSARRHQHPLQCTMEKD 119
                                    49        59        69        79        89        99       109       119


Chain B from PDB  Type:PROTEIN  Length:81
 aligned with CLPS_CAUCR | Q9A5I0 from UniProtKB/Swiss-Prot  Length:119

    Alignment length:81
                                    48        58        68        78        88        98       108       118 
           CLPS_CAUCR    39 SLYRVLILNDDYTPMEFVVYVLERFFNKSREDATRIMLHVHQNGVGVCGVYTYEVAETKVAQVIDSARRHQHPLQCTMEKD 119
               SCOP domains d3dnjb_ B: automated matches                                                      SCOP domains
               CATH domains 3dnjB00 B:39-119  [code=3.30.1390.10, no name defined]                            CATH domains
               Pfam domains --------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author .eeeeeee.....hhhhhhhhhhhhh..hhhhhhhhhhhhhhhheeeeeeeehhhhhhhhhhhhhhhhhh.....eeeee. Sec.struct. author
                 SAPs(SNPs) --------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE --------------------------------------------------------------------------------- PROSITE
                 Transcript --------------------------------------------------------------------------------- Transcript
                 3dnj B  39 SLYRVLILNDDYTPMEFVVYVLERFFNKSREDATRIMLHVHQNGVGVCGVYTYEVAETKVAQVIDSARRHQHPLQCTMEKD 119
                                    48        58        68        78        88        98       108       118 


Chain C from PDB  Type:PROTEIN  Length:3
                                   
               SCOP domains --- SCOP domains
               CATH domains --- CATH domains
               Pfam domains --- Pfam domains
         Sec.struct. author ... Sec.struct. author
                 SAPs(SNPs) --- SAPs(SNPs)
                    PROSITE --- PROSITE
                 Transcript --- Transcript
                 3dnj C   1 YLF   3


Chain D from PDB  Type:PROTEIN  Length:3
                                   
               SCOP domains --- SCOP domains
               CATH domains --- CATH domains
               Pfam domains --- Pfam domains
         Sec.struct. author ... Sec.struct. author
                 SAPs(SNPs) --- SAPs(SNPs)
                    PROSITE --- PROSITE
                 Transcript --- Transcript
                 3dnj D   1 YLF   3
   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  (1, 2)

Asymmetric Unit
(-)
Class: Alpha and beta proteins (a+b) (23004)

(-) CATH Domains  (1, 2)

Asymmetric Unit
(-)
Class: Alpha Beta (26913)

(-) Pfam Domains  (0, 0)

(no "Pfam Domain" information available for 3DNJ)

(-) Gene Ontology  (2, 2)

Asymmetric Unit(hide GO term definitions)
Chain A,B   (CLPS_CAUCR | Q9A5I0)
biological process
    GO:0030163    protein catabolic process    The chemical reactions and pathways resulting in the breakdown of a protein by the destruction of the native, active configuration, with or without the hydrolysis of peptide bonds.
    GO:0006508    proteolysis    The hydrolysis of proteins into smaller polypeptides and/or amino acids by cleavage of their peptide bonds.

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 Related Entries

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        CLPS_CAUCR | Q9A5I0: 3g19 3g1b 3g3p 3gq0 3gq1 3gw1

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