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(-) Description

Title :  CRYSTAL STRUCTURE OF THE COENZYME PQQ SYNTHESIS PROTEIN (PQQB) FROM PSEUDOMONAS PUTIDA
 
Authors :  M. Metlitzky, R. Schwarzenbacher
Date :  21 Sep 09  (Deposition) - 22 Sep 10  (Release) - 16 Oct 13  (Revision)
Method :  X-RAY DIFFRACTION
Resolution :  2.20
Chains :  Asym. Unit :  A
Biol. Unit 1:  A  (1x)
Biol. Unit 2:  A  (2x)
Keywords :  Alpha-Beta Protein, Pqq Biosynthesis, Transport, Biosynthetic Protein (Keyword Search: [Gene Ontology, PubMed, Web (Google)] )
 
Reference :  M. Metlitzky, S. Puehringer, S. J. Fisher
Crystal Structure Of Pqqb From Pseudomonas Putida At 2. 2 A Resolution
J. Biophys. Chem. V. 3 206 2012
PubMed: search  |  Reference-DOI: 10.4236/JBPC.2012.32023

(-) Compounds

Molecule 1 - COENZYME PQQ SYNTHESIS PROTEIN B
    Chains: A
    Engineered: YES
    Expression System: ESCHERICHIA COLI BL21(DE3)
    Expression System Plasmid: PET21
    Expression System Strain: BL21(DE3)STAR
    Expression System Taxid: 469008
    Expression System Vector Type: PLASMID
    Gene: PP_0379, PQQB
    Mutation: YES
    Organism Scientific: PSEUDOMONAS PUTIDA
    Organism Taxid: 160488
    Strain: KT2440
    Synonym: PYRROLOQUINOLINE QUINONE BIOSYNTHESIS PROTEIN B

 Structural Features

(-) Chains, Units

  1
Asymmetric Unit : A
Biological Unit 1 (1x): A
Biological Unit 2 (2x): A

Summary Information (see also Sequences/Alignments below)

(-) Ligands, Modified Residues, Ions  (2, 3)

Asymmetric Unit (2, 3)
No.NameCountTypeFull Name
1CL2Ligand/IonCHLORIDE ION
2ZN1Ligand/IonZINC ION
Biological Unit 1 (0, 0)
No.NameCountTypeFull Name
1CL-1Ligand/IonCHLORIDE ION
2ZN-1Ligand/IonZINC ION
Biological Unit 2 (0, 0)
No.NameCountTypeFull Name
1CL-1Ligand/IonCHLORIDE ION
2ZN-1Ligand/IonZINC ION

(-) Sites  (3, 3)

Asymmetric Unit (3, 3)
No.NameEvidenceResiduesDescription
1AC1SOFTWARECYS A:19 , CYS A:21 , CYS A:24 , ASN A:272BINDING SITE FOR RESIDUE ZN A 320
2AC2SOFTWAREGLN A:90 , ILE A:91 , PRO A:166 , HOH A:357BINDING SITE FOR RESIDUE CL A 321
3AC3SOFTWAREASN A:18 , HOH A:479BINDING SITE FOR RESIDUE CL A 322

(-) SS Bonds  (0, 0)

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

(-) Cis Peptide Bonds  (2, 2)

Asymmetric Unit
No.Residues
1Phe A:14 -Pro A:15
2Cys A:104 -Pro A:105

 Sequence-Structure Mapping

(-) SAPs(SNPs)/Variants  (0, 0)

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

(-) PROSITE Motifs  (0, 0)

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

(-) Exons   (0, 0)

(no "Exon" information available for 3JXP)

(-) 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:304
 aligned with PQQB_PSEPK | Q88QV5 from UniProtKB/Swiss-Prot  Length:303

    Alignment length:305
                             1                                                                                                                                                                                                                                                                                                           303 
                             |       9        19        29        39        49        59        69        79        89        99       109       119       129       139       149       159       169       179       189       199       209       219       229       239       249       259       269       279       289       299   | 
           PQQB_PSEPK     - -MYIQVLGSAAGGGFPQWNCNCVNCKGYRDGTLKATARTQSSIALSDDGVHWILCNASPDIRAQLQAFAPMQPARALRDTGINAIVLLDSQIDHTTGLLSLREGCPHQVWCTDMVHQDLTTGFPLFNMLSHWNGGLQWNRIELEGSFVIDACPNLKFTPFPLRSAAPPYSPHRFDPHPGDNLGLMVEDTRTGGKLFYAPGLGQVDEKLLAMMHGADCLLVDGTLWEDDEMQRRGVGTRTGREMGHLAQNGPGGMLEVLDGFPRQRKVLIHINNTNPILDENSPERAEVLRRGVEVAFDGMSIEL-   -
               SCOP domains d3jxpa_ A: automated matches                                                                                                                                                                                                                                                                                      SCOP domains
               CATH domains ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- CATH domains
               Pfam domains --------------------------------------------------Lactamase_B_2-3jxpA01 A:50-270                                                                                                                                                                                               ---------------------------------- Pfam domains
         Sec.struct. author .eeeeeee.............hhhhhhhhh...........eeeee.....eeee....hhhhhhhhhhhhh.........eeeee....hhhhhhhhhhhhhhh.eeeeehhhhhhhh....hhhhhhh.....eeeee......ee......eeeeeeee..................eeeeeeee.....eeeee......hhhhhhhhhhh.eeeee......hhhhhhh.......-..........hhhhhhh.....eeeee.....hhhhh..hhhhhhhhhh.eee.....eeee. Sec.struct. author
                 SAPs(SNPs) ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 3jxp A   0 MMYIQVLGSAAGGGFPQWNCNCVNCKGYRDGTLKATARTQSSIALSDDGVHWILCNASPDIRAQLQAFAPMQPARALRDTGINAIVLLDSQIDHTTGLLSLREGCPHQVWCTDMVHQDLTTGFPLFNMLSHWNGGLQWNRIELEGSFVIDACPNLKFTPFPLRSAAPPYSPHRFDPHPGDNLGLMVEDTRTGGKLFYAPGLGQVDEKLLAMMHGADCLLVDGTLWEDDEMQRRGVGTRTGR-MGHLAQNGPGGTLEVLDGFPRQRKVLIHINNTNPILDENSPERAEVLRRGVEVAFDGMSIELL 304
                                     9        19        29        39        49        59        69        79        89        99       109       119       129       139       149       159       169       179       189       199       209       219       229       239| |    249       259       269       279       289       299     
                                                                                                                                                                                                                                                                          240 |                                                              
                                                                                                                                                                                                                                                                            242
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  extra numbering lines below/above indicate numbering irregularities and modified residue names etc., number ends below/above '|'

 Classification and Annotation

(-) SCOP Domains  (1, 1)

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

(-) CATH Domains  (0, 0)

(no "CATH Domain" information available for 3JXP)

(-) Pfam Domains  (1, 1)

Asymmetric Unit
(-)
Clan: Metallo-HOrase (67)

(-) Gene Ontology  (2, 2)

Asymmetric Unit(hide GO term definitions)
Chain A   (PQQB_PSEPK | Q88QV5)
biological process
    GO:0018189    pyrroloquinoline quinone biosynthetic process    The chemical reactions and pathways resulting in the formation of the cofactor pyrroloquinoline quinone (PQQ); it is synthesized from a small peptide containing tyrosine and glutamic acid; these amino acids in the peptide are multiply cross-linked and the rest of the peptide is removed.
    GO:0006810    transport    The directed movement of substances (such as macromolecules, small molecules, ions) or cellular components (such as complexes and organelles) into, out of or within a cell, or between cells, or within a multicellular organism by means of some agent such as a transporter, pore or motor protein.

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  3jxp
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  PQQB_PSEPK | Q88QV5
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 Related Entries

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

UniProtKB/Swiss-Prot
        PQQB_PSEPK | Q88QV5: 1xto 4z5y 4z5z 4z60 4z67 4z6x

(-) Related Entries Specified in the PDB File

1xto THE SAME PROTEIN, BUT OTHER ISOFORM