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(-) Description

Title :  NEUTRON STRUCTURE OF COMPOUND II OF ASCORBATE PEROXIDASE
 
Authors :  H. Kwon, M. P. Blakeley, E. L. Raven, P. C. E. Moody
Date :  04 May 16  (Deposition) - 21 Dec 16  (Release) - 21 Dec 16  (Revision)
Method :  X-RAY DIFFRACTION; NEUTRON DIFFRACTION
Resolution :  1.81
Chains :  Asym. Unit :  A
Biol. Unit 1:  A  (1x)
Keywords :  Heme Peroxidase, Intermediate, Ferryle Heme, Compound Ii, Cryo- Trapping, Oxidoreductase (Keyword Search: [Gene Ontology, PubMed, Web (Google)] )
 
Reference :  H. Kwon, J. Basran, C. M. Casadei, A. J. Fielding, T. E. Schrader, A. Ostermann, J. M. Devos, P. Aller, M. P. Blakeley, P. C. Moody, E. L. Raven
Direct Visualization Of A Fe(Iv)-Oh Intermediate In A Heme Enzyme.
Nat Commun V. 7 13445 2016
PubMed-ID: 27897163  |  Reference-DOI: 10.1038/NCOMMS13445

(-) Compounds

Molecule 1 - ASCORBATE PEROXIDASE
    Chains: A
    EC Number: 1.11.1.11
    Engineered: YES
    Expression System: ESCHERICHIA COLI
    Expression System Strain: BL21 (DE3)
    Expression System Taxid: 469008
    Gene: APX1, GLYMA_U021900
    Organism Common: SOYBEAN
    Organism Scientific: GLYCINE MAX
    Organism Taxid: 3847
    Synonym: CYTOSOLIC ASCORBATE PEROXIDASE 1,UNCHARACTERIZED PROTEIN

 Structural Features

(-) Chains, Units

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

Summary Information (see also Sequences/Alignments below)

(-) Ligands, Modified Residues, Ions  (4, 394)

Asymmetric Unit (4, 394)
No.NameCountTypeFull Name
1DOD390Ligand/Ion
2HEM1Ligand/IonPROTOPORPHYRIN IX CONTAINING FE
3K1Ligand/IonPOTASSIUM ION
4SO42Ligand/IonSULFATE ION
Biological Unit 1 (2, 3)
No.NameCountTypeFull Name
1DOD-1Ligand/Ion
2HEM1Ligand/IonPROTOPORPHYRIN IX CONTAINING FE
3K-1Ligand/IonPOTASSIUM ION
4SO42Ligand/IonSULFATE ION

(-) Sites  (4, 4)

Asymmetric Unit (4, 4)
No.NameEvidenceResiduesDescription
1AC1SOFTWAREPRO A:34 , TRP A:41 , PRO A:132 , ALA A:134 , LEU A:141 , PHE A:145 , LEU A:159 , SER A:160 , GLY A:162 , HIS A:163 , ILE A:165 , GLY A:166 , ALA A:167 , ALA A:168 , HIS A:169 , ARG A:172 , SER A:173 , TRP A:179 , LEU A:205 , SER A:207 , TYR A:235 , DOD A:425 , DOD A:434 , DOD A:451 , DOD A:477binding site for residue HEM A 301
2AC2SOFTWARETHR A:164 , THR A:180 , ASN A:182 , ILE A:185 , ASP A:187binding site for residue K A 302
3AC3SOFTWAREPRO A:127 , ARG A:130 , DOD A:402 , DOD A:404 , DOD A:471 , DOD A:570binding site for residue SO4 A 303
4AC4SOFTWARELYS A:136 , GLY A:137 , SER A:138 , ASP A:139 , HIS A:140 , DOD A:403 , DOD A:590binding site for residue SO4 A 304

(-) SS Bonds  (0, 0)

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

(-) Cis Peptide Bonds  (0, 0)

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

 Sequence-Structure Mapping

(-) SAPs(SNPs)/Variants  (0, 0)

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

(-) PROSITE Motifs  (0, 0)

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

(-) Exons   (0, 0)

(no "Exon" information available for 5JPR)

(-) 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:248
                                                                                                                                                                                                                                                                                        
               SCOP domains -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SCOP domains
               CATH domains -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- CATH domains
               Pfam domains -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author .......hhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhh............hhhhhhhhhhhhhhhhhhhhhhhhhhhhh.....hhhhhhhhhhhhhhhhh............................hhhhhhhhhh.....hhhhhhhhhhhhhh.ee........ee.........hhhhhhhhhh.......hhhhhhhhhh.hhhhhhhhhhhhhhhhhhhhhhhhhhhhh..... Sec.struct. author
                 SAPs(SNPs) -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 5jpr A   2 GKSYPTVSADYQKAVEKAKKKLRGFIAEKRCAPLMLRLAWHSAGTFDKGTKTGGPFGTIKHPAELAHSANNGLDIAVRLLEPLKAEFPILSYADFYQLAGVVAVEVTGGPEVPFHPGREDKPEPPPEGRLPDATKGSDHLRDVFGKAMGLTDQDIVALSGGHTIGAAHKERSGFEGPWTSNPLIFDNSYFTELLSGEKEGLLQLPSDKALLSDPVFRPLVDKYAADEDAFFADYAEAHQKLSELGFAD 249
                                    11        21        31        41        51        61        71        81        91       101       111       121       131       141       151       161       171       181       191       201       211       221       231       241
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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  (0, 0)

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

(-) CATH Domains  (0, 0)

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

(-) Pfam Domains  (0, 0)

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

(-) Gene Ontology  (8, 8)

Asymmetric Unit(hide GO term definitions)

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  1.11.1.11
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 Related Entries

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UniProtKB/TrEMBL
        Q43758_SOYBN | Q43758: 1oaf 1oag 1v0h 2cl4 2ggn 2ghc 2ghd 2ghe 2ghh 2ghk 2vcf 2vcn 2vcs 2vnx 2vnz 2vo2 2wd4 2xi6 2xif 2xih 2xj6 2y6a 2y6b 3zcg 3zch 3zcy 5jqr 5l86

(-) Related Entries Specified in the PDB File

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