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(-) Description

Title :  MECHANISTIC AND STRUCTURAL ANALYSIS OF SUBSTRATE RECOGNITION AND COFACTOR BINDING BY AN UNUSUAL BACTERIAL PROLYL HYDROXYLASE - CO-BAP4H-PPG
 
Authors :  N. J. Schnicker, M. Dey
Date :  22 Feb 16  (Deposition) - 27 Apr 16  (Release) - 29 Jun 16  (Revision)
Method :  X-RAY DIFFRACTION
Resolution :  2.10
Chains :  Asym./Biol. Unit :  A,B
Keywords :  P4H, Dioxygenase, Cupin, Fe(Ii)/Alpha-Ketoglutarate, Oxidoreductase (Keyword Search: [Gene Ontology, PubMed, Web (Google)] )
 
Reference :  N. J. Schnicker, M. Dey
Bacillus Anthracis Prolyl 4-Hydroxylase Modifies Collagen-Like Substrates In Asymmetric Patterns.
J. Biol. Chem. V. 291 13360 2016
PubMed-ID: 27129244  |  Reference-DOI: 10.1074/JBC.M116.725432

(-) Compounds

Molecule 1 - PROCOLLAGEN-PROLINE DIOXYGENASE
    Chains: A, B
    Engineered: YES
    Expression System: ESCHERICHIA COLI
    Expression System Taxid: 562
    Fragment: UNP RESIDUES 18-232
    Gene: BASH2_01493
    Organism Scientific: BACILLUS ANTHRACIS
    Organism Taxid: 1392
    Other Details: HAS A FUSED (PPG)3 PEPTIDE TO C-TERMINUS

 Structural Features

(-) Chains, Units

  12
Asymmetric/Biological Unit : AB

Summary Information (see also Sequences/Alignments below)

(-) Ligands, Modified Residues, Ions  (4, 6)

Asymmetric/Biological Unit (4, 6)
No.NameCountTypeFull Name
1AKG2Ligand/Ion2-OXOGLUTARIC ACID
2BME1Ligand/IonBETA-MERCAPTOETHANOL
3CO2Ligand/IonCOBALT (II) ION
4PEG1Ligand/IonDI(HYDROXYETHYL)ETHER

(-) Sites  (6, 6)

Asymmetric Unit (6, 6)
No.NameEvidenceResiduesDescription
1AC1SOFTWAREHIS A:127 , ASP A:129 , HIS A:193 , AKG A:302binding site for residue CO A 301
2AC2SOFTWARETYR A:118 , HIS A:127 , ASP A:129 , THR A:159 , HIS A:193 , LYS A:203 , ILE A:205 , THR A:207 , TRP A:209 , CO A:301binding site for residue AKG A 302
3AC3SOFTWAREGLN A:31 , GLY A:45 , ASN A:46 , MET A:174 , MET B:174binding site for residue BME A 303
4AC4SOFTWAREHIS B:127 , ASP B:129 , HIS B:193 , AKG B:302binding site for residue CO B 301
5AC5SOFTWARETYR B:118 , HIS B:127 , ASP B:129 , THR B:159 , HIS B:193 , GLY B:195 , LYS B:203 , ILE B:205 , THR B:207 , TRP B:209 , CO B:301binding site for residue AKG B 302
6AC6SOFTWARESER B:60 , LEU B:64 , LEU B:116 , ASN B:117 , TRP B:204 , THR B:214 , TYR B:215 , HOH B:420binding site for residue PEG B 303

(-) SS Bonds  (0, 0)

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

(-) Cis Peptide Bonds  (2, 2)

Asymmetric/Biological Unit
No.Residues
1Glu A:38 -Pro A:39
2Glu B:38 -Pro B:39

 Sequence-Structure Mapping

(-) SAPs(SNPs)/Variants  (0, 0)

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

(-) PROSITE Motifs  (0, 0)

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

(-) Exons   (0, 0)

(no "Exon" information available for 5IAX)

(-) 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:199
                                                                                                                                                                                                                                       
               SCOP domains ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SCOP domains
               CATH domains ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- CATH domains
               Pfam domains ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author ..........eee....eeeeeeee....eeeee...hhhhhhhhhhhhhhhhhh.............hhhhhhhhhhhhhhhh.hhhhh...eeeee.....eeee.......hhhhhh.eeeeeeee.....ee..eee....eee......eeeee....hhhhhhh..eee..eee..eeeeeeeee........ Sec.struct. author
                 SAPs(SNPs) ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 5iax A  12 EQTIFDHKGNVIKTEDREIQIISKFEEPLIVVLGNVLSDEECDELIELSKSKLARSKVDVNDIAFLDDNELTAKIEKRISSIMNVPASHGEGLHILNYEVDQQYKAHYDYFAEHSRSAANNRISTLVMYLNDVEEGGETFFPKLNLSVHPRKGMAVYFEYFYQDQSLNELTLHGGAPVTKGEKWIATQWVRRGTYKPPG 219
                                    21        31        41        51        61       |75  ||    90       100       110       120       130       140       150       160       170       180       190       200       210         
                                                                                    69|  78|                                                                                                                                       
                                                                                     74   84                                                                                                                                       


Chain B from PDB  Type:PROTEIN  Length:194
                                                                                                                                                                                                                                  
               SCOP domains -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SCOP domains
               CATH domains -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- CATH domains
               Pfam domains -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author ..........eee....eeeeeeee....eeeee...hhhhhhhhhhhhhhhhhh........hhhhhhhhhhhhhhhh.hhhhh...eeeee.....eeee.......hhhhhh.eeeeeeee.....ee..ee.....eee......eeeee....hhhhhhh..eee..eee..eeeeeeeee........ Sec.struct. author
                 SAPs(SNPs) -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 5iax B  12 EQTIFDHKGNVIKTEDREIQIISKFEEPLIVVLGNVLSDEECDELIELSKSKLARSKVAFLDDNELTAKIEKRISSIMNVPASHGEGLHILNYEVDQQYKAHYDYFAEHSRSAANNRISTLVMYLNDVEEGGETFFPKLNLSVHPRKGMAVYFEYFYQDQSLNELTLHGGAPVTKGEKWIATQWVRRGTYKPPG 219
                                    21        31        41        51        61       |85        95       105       115       125       135       145       155       165       175       185       195       205       215    
                                                                                    69|                                                                                                                                       
                                                                                     84
   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 5IAX)

(-) CATH Domains  (0, 0)

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

(-) Pfam Domains  (0, 0)

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

(-) Gene Ontology  (7, 7)

Asymmetric/Biological Unit(hide GO term definitions)

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 Related Entries

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

UniProtKB/TrEMBL
        Q81LZ8_BACAN | Q81LZ8: 3itq 5hv0 5hv4 5iat 5iav

(-) Related Entries Specified in the PDB File

5iat 5iav