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(-) Description

Title :  CRYSTAL STRUCTURE OF HOLO-TYPE BACTERIAL VANADIUM-DEPENDENT CHLOROPEROXIDASE
 
Authors :  D. K. Liscombe, A. Miyanaga, E. Fielding, P. Bernhardt, A. Li, J. M. Wint M. K. Gilson, J. P. Noel, B. S. Moore
Date :  11 Dec 12  (Deposition) - 11 Dec 13  (Release) - 11 Dec 13  (Revision)
Method :  X-RAY DIFFRACTION
Resolution :  1.97
Chains :  Asym./Biol. Unit :  A,B
Keywords :  Chloroperoxidase, Oxidoreductase (Keyword Search: [Gene Ontology, PubMed, Web (Google)] )
 
Reference :  D. K. Liscombe, A. Miyanaga, E. Fielding, P. Bernhardt, A. Li, J. M. Winter, M. K. Gilson, J. P. Noel, B. S. Moore
Structure-Function Analysis Of A Bacterial Vanadium-Dependent Chloroperoxidase
To Be Published
PubMed: search

(-) Compounds

Molecule 1 - NAPH1
    Chains: A, B
    EC Number: 1.11.1.10
    Engineered: YES
    Expression System: ESCHERICHIA COLI
    Expression System Taxid: 562
    Gene: NAPH1
    Organism Scientific: STREPTOMYCES
    Organism Taxid: 445602
    Strain: CNQ525
    Synonym: VANADIUM-DEPENDENT CHLOROPEROXIDASE

 Structural Features

(-) Chains, Units

  12
Asymmetric/Biological Unit : AB

Summary Information (see also Sequences/Alignments below)

(-) Ligands, Modified Residues, Ions  (1, 2)

Asymmetric/Biological Unit (1, 2)
No.NameCountTypeFull Name
1VO42Ligand/IonVANADATE ION

(-) Sites  (2, 2)

Asymmetric Unit (2, 2)
No.NameEvidenceResiduesDescription
1AC1SOFTWARELYS A:372 , ARG A:379 , HIS A:420 , SER A:425 , GLY A:426 , SER A:427 , ARG A:488 , HIS A:494 , HOH A:763 , HOH A:812BINDING SITE FOR RESIDUE VO4 A 600
2AC2SOFTWARELYS B:372 , ARG B:379 , HIS B:420 , SER B:425 , GLY B:426 , SER B:427 , ARG B:488 , HIS B:494 , HOH B:808BINDING SITE FOR RESIDUE VO4 B 600

(-) SS Bonds  (2, 2)

Asymmetric/Biological Unit
No.Residues
1A:431 -A:484
2B:431 -B:484

(-) Cis Peptide Bonds  (5, 5)

Asymmetric/Biological Unit
No.Residues
1Ile A:54 -Glu A:55
2Tyr A:423 -Pro A:424
3Thr A:465 -Pro A:466
4Tyr B:423 -Pro B:424
5Thr B:465 -Pro B:466

 Sequence-Structure Mapping

(-) SAPs(SNPs)/Variants  (0, 0)

(no "SAP(SNP)/Variant" information available for 3W36)

(-) PROSITE Motifs  (0, 0)

(no "PROSITE Motif" information available for 3W36)

(-) Exons   (0, 0)

(no "Exon" information available for 3W36)

(-) 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:470
 aligned with A7KH27_9ACTN | A7KH27 from UniProtKB/TrEMBL  Length:527

    Alignment length:470
                                    63        73        83        93       103       113       123       133       143       153       163       173       183       193       203       213       223       233       243       253       263       273       283       293       303       313       323       333       343       353       363       373       383       393       403       413       423       433       443       453       463       473       483       493       503       513       523
         A7KH27_9ACTN    54 IEFDLDKDNYIKWAQPTDENAGQSPTLAILGPMDVTVFLWINRVVWLAAFDALAPYHETAVGVYSQIPRRPSSESATNRNLNIAALHAQHGVWKRVLPQQVDQLRELMTALGLDPSDETENLSSPVGIGNVAAKNAFNALKNDGMNFLGYEGRKYNPRPWADYTGYEPVNTAFKVNNPSRWQPQLQAHNARRAGGGPGDLGIYVTQHFVTPQTARTKAHIFRDPSRFRIPRPEFSDHTNTRAYKRSVDEIIDASANLNDERKALAEIMENKLWGIGHSSIVIANKYDQNNEMGVHGWCHWMLAHVLATFEPLIAAWHHKTRFDAVRPVTAIRHVYGNRKIRAWGGVGMGTVDIRASEWSSYLPVGDHPEYPSGSTSLCSATSQAARRYFDSDELDWTINYPAGSTVVEPGITPGKDLSIHIPTWTDFTRTCATSRVWGGVHFQTTVDRTIDFGEQFGDLAHEFVQRHVKG 523
               SCOP domains -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SCOP domains
               CATH domains -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- CATH domains
               Pfam domains -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author ........hhhhhh..hhhhh............hhhhhhhhhhhhhhhhhhhhh................hhhhhh.hhhhhhhhhhhhhhhhhhhh..hhhhhhhhhhhh............hhhhhhhhhhhhhhhhhh...........................................eee.hhh...........eeee...hhhhhhh......hhhhh....hhhhh..hhhhhhhhhhhhhhhhhh.hhhhhhhhhhhhh..hhhhhhhhhhhhhh.....hhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhh..hhhhhhhhhhh..eeeee......eeeee.hhh.............hhhhhhhhhhhhhhhhhhh..eeeeeeee................eeeeeeehhhhhhhhhhhhhhh...hhhhhhhhhhhhhhhhhhhhhhhhhhhhh Sec.struct. author
                 SAPs(SNPs) -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 3w36 A  54 IEFDLDKDNYIKWAQPTDENAGQSPTLAILGPMDVTVFLWINRVVWLAAFDALAPYHETAVGVYSQIPRRPSSESATNRNLNIAALHAQHGVWKRVLPQQVDQLRELMTALGLDPSDETENLSSPVGIGNVAAKNAFNALKNDGMNFLGYEGRKYNPRPWADYTGYEPVNTAFKVNNPSRWQPQLQAHNARRAGGGPGDLGIYVTQHFVTPQTARTKAHIFRDPSRFRIPRPEFSDHTNTRAYKRSVDEIIDASANLNDERKALAEIMENKLWGIGHSSIVIANKYDQNNEMGVHGWCHWMLAHVLATFEPLIAAWHHKTRFDAVRPVTAIRHVYGNRKIRAWGGVGMGTVDIRASEWSSYLPVGDHPEYPSGSTSLCSATSQAARRYFDSDELDWTINYPAGSTVVEPGITPGKDLSIHIPTWTDFTRTCATSRVWGGVHFQTTVDRTIDFGEQFGDLAHEFVQRHVKG 523
                                    63        73        83        93       103       113       123       133       143       153       163       173       183       193       203       213       223       233       243       253       263       273       283       293       303       313       323       333       343       353       363       373       383       393       403       413       423       433       443       453       463       473       483       493       503       513       523


Chain B from PDB  Type:PROTEIN  Length:471
 aligned with A7KH27_9ACTN | A7KH27 from UniProtKB/TrEMBL  Length:527

    Alignment length:471
                                    64        74        84        94       104       114       124       134       144       154       164       174       184       194       204       214       224       234       244       254       264       274       284       294       304       314       324       334       344       354       364       374       384       394       404       414       424       434       444       454       464       474       484       494       504       514       524 
         A7KH27_9ACTN    55 EFDLDKDNYIKWAQPTDENAGQSPTLAILGPMDVTVFLWINRVVWLAAFDALAPYHETAVGVYSQIPRRPSSESATNRNLNIAALHAQHGVWKRVLPQQVDQLRELMTALGLDPSDETENLSSPVGIGNVAAKNAFNALKNDGMNFLGYEGRKYNPRPWADYTGYEPVNTAFKVNNPSRWQPQLQAHNARRAGGGPGDLGIYVTQHFVTPQTARTKAHIFRDPSRFRIPRPEFSDHTNTRAYKRSVDEIIDASANLNDERKALAEIMENKLWGIGHSSIVIANKYDQNNEMGVHGWCHWMLAHVLATFEPLIAAWHHKTRFDAVRPVTAIRHVYGNRKIRAWGGVGMGTVDIRASEWSSYLPVGDHPEYPSGSTSLCSATSQAARRYFDSDELDWTINYPAGSTVVEPGITPGKDLSIHIPTWTDFTRTCATSRVWGGVHFQTTVDRTIDFGEQFGDLAHEFVQRHVKGDV 525
               SCOP domains --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SCOP domains
               CATH domains --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- CATH domains
               Pfam domains --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author .......hhhhhhh.hhhhh............hhhhhhhhhhhhhhhhhhhhhhhh.............hhhhhh.hhhhhhhhhhhhhhhhhhhh..hhhhhhhhhhhh............hhhhhhhhhhhhhhhhhh...........................................eee.hhh...........eeee...hhhhhhh......hhhhh....hhhhh..hhhhhhhhhhhhhhhhhh.hhhhhhhhhhhhh..hhhhhhhhhhhhhh.....hhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhh..hhhhhhhhhhh..eeeee......eeeee.hhh.............hhhhhhhhhhhhhhhhhhh..eeeeeeee................eeeeeeehhhhhhhhhhhhhhh...hhhhhhhhhhhhhhhhhhhhhhhhhhhhh.. Sec.struct. author
                 SAPs(SNPs) --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 3w36 B  55 EFDLDKDNYIKWAQPTDENAGQSPTLAILGPMDVTVFLWINRVVWLAAFDALAPYHETAVGVYSQIPRRPSSESATNRNLNIAALHAQHGVWKRVLPQQVDQLRELMTALGLDPSDETENLSSPVGIGNVAAKNAFNALKNDGMNFLGYEGRKYNPRPWADYTGYEPVNTAFKVNNPSRWQPQLQAHNARRAGGGPGDLGIYVTQHFVTPQTARTKAHIFRDPSRFRIPRPEFSDHTNTRAYKRSVDEIIDASANLNDERKALAEIMENKLWGIGHSSIVIANKYDQNNEMGVHGWCHWMLAHVLATFEPLIAAWHHKTRFDAVRPVTAIRHVYGNRKIRAWGGVGMGTVDIRASEWSSYLPVGDHPEYPSGSTSLCSATSQAARRYFDSDELDWTINYPAGSTVVEPGITPGKDLSIHIPTWTDFTRTCATSRVWGGVHFQTTVDRTIDFGEQFGDLAHEFVQRHVKGDV 525
                                    64        74        84        94       104       114       124       134       144       154       164       174       184       194       204       214       224       234       244       254       264       274       284       294       304       314       324       334       344       354       364       374       384       394       404       414       424       434       444       454       464       474       484       494       504       514       524
   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 3W36)

(-) CATH Domains  (0, 0)

(no "CATH Domain" information available for 3W36)

(-) Pfam Domains  (0, 0)

(no "Pfam Domain" information available for 3W36)

(-) Gene Ontology  (3, 3)

Asymmetric/Biological Unit(hide GO term definitions)
Chain A,B   (A7KH27_9ACTN | A7KH27)
molecular function
    GO:0004601    peroxidase activity    Catalysis of the reaction: donor + hydrogen peroxide = oxidized donor + 2 H2O.
biological process
    GO:0098869    cellular oxidant detoxification    Any process carried out at the cellular level that reduces or removes the toxicity superoxide radicals or hydrogen peroxide.
    GO:0055114    oxidation-reduction process    A metabolic process that results in the removal or addition of one or more electrons to or from a substance, with or without the concomitant removal or addition of a proton or protons.

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  3w36
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 Related Entries

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

UniProtKB/TrEMBL
        A7KH27_9ACTN | A7KH27: 3w35

(-) Related Entries Specified in the PDB File

3w35