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(-) Description

Title :  CRYSTAL STRUCTURE OF THE METALLOPEPTIDASE ZYMOGEN OF METHANOCALDOCOCCUS JANNASCHII JANNALYSIN
 
Authors :  M. Lopez-Pelegrin, N. Cerda-Costa, F. Martinez-Jimenez, A. Cintas-P A. Canals, J. R. Peinado, M. A. Marti-Renom, C. Lopez-Otin, J. L. Arola F. X. Gomis-Ruth
Date :  07 Mar 13  (Deposition) - 12 Jun 13  (Release) - 04 Sep 13  (Revision)
Method :  X-RAY DIFFRACTION
Resolution :  2.00
Chains :  Asym./Biol. Unit :  A,B
Keywords :  Hydrolase, Metallopeptidase Zymogen, Minigluzincin (Keyword Search: [Gene Ontology, PubMed, Web (Google)] )
 
Reference :  M. Lopez-Pelegrin, N. Cerda-Costa, F. Martinez-Jimenez, A. Cintas-Pedrola, A. Canals, J. R. Peinado, M. A. Marti-Renom, C. Lopez-Otin, J. L. Arolas, F. X. Gomis-Ruth
A Novel Family Of Soluble Minimal Scaffolds Provides Structural Insight Into The Catalytic Domains Of Integral Membrane Metallopeptidases
J. Biol. Chem. V. 288 21279 2013
PubMed-ID: 23733187  |  Reference-DOI: 10.1074/JBC.M113.476580

(-) Compounds

Molecule 1 - UNCHARACTERIZED PROTEIN MJ0123
    Chains: A, B
    Engineered: YES
    Expression System: ESCHERICHIA COLI
    Expression System Plasmid: PET28
    Expression System Strain: BL21(DE3)
    Expression System Taxid: 562
    Gene: MJ0123
    Mutation: YES
    Organism Scientific: METHANOCALDOCOCCUS JANNASCHII
    Organism Taxid: 243232
    Strain: ATCC 43067 / DSM 2661 / JAL-1 / JCM 10045 / NBRC 100440

 Structural Features

(-) Chains, Units

  12
Asymmetric/Biological Unit : AB

Summary Information (see also Sequences/Alignments below)

(-) Ligands, Modified Residues, Ions  (5, 17)

Asymmetric/Biological Unit (5, 17)
No.NameCountTypeFull Name
1CL3Ligand/IonCHLORIDE ION
2GOL7Ligand/IonGLYCEROL
3SO44Ligand/IonSULFATE ION
4TRS1Ligand/Ion2-AMINO-2-HYDROXYMETHYL-PROPANE-1,3-DIOL
5ZN2Ligand/IonZINC ION

(-) Sites  (17, 17)

Asymmetric Unit (17, 17)
No.NameEvidenceResiduesDescription
01AC1SOFTWAREHIS A:69 , HIS A:73 , HIS A:81 , TRS A:202 , HOH B:301BINDING SITE FOR RESIDUE ZN A 201
02AC2SOFTWAREHIS A:69 , GLU A:70 , HIS A:73 , ILE A:79 , HIS A:81 , ZN A:201 , HOH A:356 , ASN B:24 , SER B:26 , ILE B:110 , HOH B:301BINDING SITE FOR RESIDUE TRS A 202
03AC3SOFTWARESER A:42 , THR A:45 , ARG A:49 , GOL A:209BINDING SITE FOR RESIDUE SO4 A 203
04AC4SOFTWARELYS A:32 , MET A:34 , LYS A:35 , GLN A:36BINDING SITE FOR RESIDUE SO4 A 204
05AC5SOFTWARESER A:94 , ASN A:96BINDING SITE FOR RESIDUE CL A 205
06AC6SOFTWAREMET A:34 , LYS A:35 , ASN A:51 , HOH A:388 , LYS B:35BINDING SITE FOR RESIDUE GOL A 206
07AC7SOFTWAREHIS A:81 , HOH A:313 , ASN B:28 , LYS B:46 , GLN B:107 , HOH B:355 , HOH B:377BINDING SITE FOR RESIDUE GOL A 207
08AC8SOFTWAREASN A:15 , SER A:26 , ILE A:27 , ILE A:29 , GLU B:86BINDING SITE FOR RESIDUE GOL A 208
09AC9SOFTWARESER A:42 , PHE A:43 , LYS A:44 , SO4 A:203 , HOH A:366 , ASN B:22 , ILE B:23BINDING SITE FOR RESIDUE GOL A 209
10BC1SOFTWAREHIS A:69 , GLU A:102BINDING SITE FOR RESIDUE GOL A 210
11BC2SOFTWAREHOH A:301 , HIS B:69 , HIS B:73 , HIS B:81 , GOL B:202BINDING SITE FOR RESIDUE ZN B 201
12BC3SOFTWAREILE A:110 , HOH A:301 , HIS B:69 , GLU B:70 , HIS B:73 , ILE B:79 , HIS B:81 , ZN B:201 , HOH B:326 , HOH B:330BINDING SITE FOR RESIDUE GOL B 202
13BC4SOFTWARESER A:26 , ASN B:80 , HIS B:81 , HOH B:312 , HOH B:356BINDING SITE FOR RESIDUE SO4 B 203
14BC5SOFTWARESER B:42 , THR B:45 , ARG B:49BINDING SITE FOR RESIDUE SO4 B 204
15BC6SOFTWAREPHE B:43BINDING SITE FOR RESIDUE CL B 205
16BC7SOFTWARELYS B:35BINDING SITE FOR RESIDUE CL B 206
17BC8SOFTWARESER B:94 , ASN B:96 , GLU B:97 , HOH B:329 , HOH B:384BINDING SITE FOR RESIDUE GOL B 207

(-) SS Bonds  (0, 0)

(no "SS Bond" information available for 4JIX)

(-) Cis Peptide Bonds  (0, 0)

(no "Cis Peptide Bond" information available for 4JIX)

 Sequence-Structure Mapping

(-) SAPs(SNPs)/Variants  (0, 0)

(no "SAP(SNP)/Variant" information available for 4JIX)

(-) PROSITE Motifs  (0, 0)

(no "PROSITE Motif" information available for 4JIX)

(-) Exons   (0, 0)

(no "Exon" information available for 4JIX)

(-) 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:112
                                                                                                                                                
               SCOP domains ---------------------------------------------------------------------------------------------------------------- SCOP domains
               CATH domains ---------------------------------------------------------------------------------------------------------------- CATH domains
               Pfam domains ---------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author ..........hhhhhhhhhhhhh......eeeee......eeee....eeeeehhhhhhhhhhhhhhhhhhhhhhhhhh....hhhhhhhhh...hhhhhhhhhhhhhhhhh Sec.struct. author
                 SAPs(SNPs) ---------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE ---------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript ---------------------------------------------------------------------------------------------------------------- Transcript
                 4jix A  -2 GPMAINENKKDIKDIVNEILISLNINESINIEIKPMKQKIASFSFKTKTLRLNKYVVENFDEELLHYIILHELIHFKIKSINHGIKFENELRNYFSKNECDEIELKIIQKLI 110
                             ||      8        18        28        38        48        58        68        78        88        98       108  
                             ||                                                                                                             
                            -1|                                                                                                             
                              1                                                                                                             


Chain B from PDB  Type:PROTEIN  Length:104
                                                                                                                                        
               SCOP domains -------------------------------------------------------------------------------------------------------- SCOP domains
               CATH domains -------------------------------------------------------------------------------------------------------- CATH domains
               Pfam domains -------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author ..hhhhhhhhhhhhh......eeeee......eeee....eeeeehhhhhhhhhhhhhhhhhhhhhhhhhh....hhhhhhhhh...hhhhhhhhhhhhhhhhh Sec.struct. author
                 SAPs(SNPs) -------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE -------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript -------------------------------------------------------------------------------------------------------- Transcript
                 4jix B   7 KKDIKDIVNEILISLNINESINIEIKPMKQKIASFSFKTKTLRLNKYVVENFDEELLHYIILHELIHFKIKSINHGIKFENELRNYFSKNECDEIELKIIQKLI 110
                                    16        26        36        46        56        66        76        86        96       106
   Legend:   → Mismatch (orange background)
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  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 4JIX)

(-) CATH Domains  (0, 0)

(no "CATH Domain" information available for 4JIX)

(-) Pfam Domains  (0, 0)

(no "Pfam Domain" information available for 4JIX)

(-) Gene Ontology  (0, 0)

Asymmetric/Biological Unit(hide GO term definitions)
    (no "Gene Ontology" information available for 4JIX)

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  Cis Peptide Bonds
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4jiu PROTEIN ORTHOLOG PROABYLYSIN