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(-) Description

Title :  MANGANESE PEROXIDASE
 
Authors :  M. Sundaramoorthy, T. L. Poulos
Date :  27 Jan 95  (Deposition) - 15 Sep 95  (Release) - 13 Jul 11  (Revision)
Method :  X-RAY DIFFRACTION
Resolution :  2.00
Chains :  Asym./Biol. Unit :  A
Keywords :  Heme Peroxidase, Peroxidase (Donor: H2O2 Oxidoreductase) (Keyword Search: [Gene Ontology, PubMed, Web (Google)] )
 
Reference :  M. Sundaramoorthy, K. Kishi, M. H. Gold, T. L. Poulos
Preliminary Crystallographic Analysis Of Manganese Peroxidase From Phanerochaete Chrysosporium.
J. Mol. Biol. V. 238 845 1994
PubMed-ID: 8182752  |  Reference-DOI: 10.1006/JMBI.1994.1338
(for further references see the PDB file header)

(-) Compounds

Molecule 1 - MANGANESE PEROXIDASE
    Chains: A
    EC Number: 1.11.1.7
    Organism Scientific: PHANEROCHAETE CHRYSOSPORIUM
    Organism Taxid: 5306
    Strain: OGC101
    Synonym: MNP

 Structural Features

(-) Chains, Units

  1
Asymmetric/Biological Unit : A

Summary Information (see also Sequences/Alignments below)

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

Asymmetric/Biological Unit (4, 6)
No.NameCountTypeFull Name
1CA2Ligand/IonCALCIUM ION
2HEM1Ligand/IonPROTOPORPHYRIN IX CONTAINING FE
3MN1Ligand/IonMANGANESE (II) ION
4NAG2Ligand/IonN-ACETYL-D-GLUCOSAMINE

(-) Sites  (10, 10)

Asymmetric Unit (10, 10)
No.NameEvidenceResiduesDescription
01AC1SOFTWAREASN A:98 , THR A:99 , ILE A:100 , ASN A:131 , NAG A:362 , HOH A:498BINDING SITE FOR RESIDUE NAG A 361
02AC2SOFTWAREMET A:94 , GLN A:95 , ASN A:98 , NAG A:361BINDING SITE FOR RESIDUE NAG A 362
03AC3SOFTWARESER A:174 , ASP A:191 , THR A:193 , THR A:196 , ASP A:198BINDING SITE FOR RESIDUE CA A 371
04AC4SOFTWAREASP A:47 , GLY A:62 , ASP A:64 , SER A:66 , HOH A:493 , HOH A:545BINDING SITE FOR RESIDUE CA A 372
05AC5SOFTWAREGLU A:35 , GLU A:39 , ASP A:179 , HEM A:396 , HOH A:441 , HOH A:520BINDING SITE FOR RESIDUE MN A 381
06AC6SOFTWAREHIS A:38 , GLU A:39 , ARG A:42 , PHE A:45 , GLU A:143 , PRO A:144 , LEU A:169 , SER A:172 , HIS A:173 , ALA A:176 , ARG A:177 , ALA A:178 , ASP A:179 , LYS A:180 , VAL A:181 , MN A:381 , HOH A:478 , HOH A:520 , HOH A:556 , HOH A:650BINDING SITE FOR RESIDUE HEM A 396
07CA1AUTHORCA A:371 , THR A:196 , ASP A:191 , SER A:174 , THR A:193 , ASP A:198PROXIMAL CALCIUM BINDING SITE
08CA2AUTHORCA A:372 , ASP A:47 , GLY A:62 , SER A:66 , ASP A:64 , HOH A:493 , HOH A:545DISTAL CALCIUM BINDING SITE
09GL1AUTHORNAG A:361 , NAG A:362 , ASN A:131CARBOHYDRATE BINDING SITE
10MNAUTHORMN A:381 , HEM A:396 , GLU A:35 , GLU A:39 , ASP A:179 , HOH A:441 , HOH A:520MANGANESE BINDING SITE

(-) SS Bonds  (5, 5)

Asymmetric/Biological Unit
No.Residues
1A:3 -A:15
2A:14 -A:289
3A:33 -A:117
4A:253 -A:319
5A:341 -A:348

(-) Cis Peptide Bonds  (0, 0)

(no "Cis Peptide Bond" information available for 1MNP)

 Sequence-Structure Mapping

(-) SAPs(SNPs)/Variants  (0, 0)

(no "SAP(SNP)/Variant" information available for 1MNP)

(-) PROSITE Motifs  (3, 3)

Asymmetric/Biological Unit (3, 3)
 PROSITEUniProtKBPDB
No.IDACDescriptionIDLocationCountLocation
1PEROXIDASE_2PS00436 Peroxidases active site signature.PEM1_PHACH58-69  1A:37-48
2PEROXIDASE_4PS50873 Plant heme peroxidase family profile.PEM1_PHACH58-314  1A:37-293
3PEROXIDASE_1PS00435 Peroxidases proximal heme-ligand signature.PEM1_PHACH186-196  1A:165-175

(-) Exons   (0, 0)

(no "Exon" information available for 1MNP)

(-) 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:357
 aligned with PEM1_PHACH | Q02567 from UniProtKB/Swiss-Prot  Length:378

    Alignment length:357
                                    31        41        51        61        71        81        91       101       111       121       131       141       151       161       171       181       191       201       211       221       231       241       251       261       271       281       291       301       311       321       331       341       351       361       371       
           PEM1_PHACH    22 AVCPDGTRVSHAACCAFIPLAQDLQETIFQNECGEDAHEVIRLTFHDAIAISRSQGPKAGGGADGSMLLFPTVEPNFSANNGIDDSVNNLIPFMQKHNTISAADLVQFAGAVALSNCPGAPRLEFLAGRPNKTIAAVDGLIPEPQDSVTKILQRFEDAGGFTPFEVVSLLASHSVARADKVDQTIDAAPFDSTPFTFDTQVFLEVLLKGVGFPGSANNTGEVASPLPLGSGSDTGEMRLQSDFALAHDPRTACIWQGFVNEQAFMAASFRAAMSKLAVLGHNRNSLIDCSDVVPVPKPATGQPAMFPASTGPQDLELSCPSERFPTLTTQPGASQSLIAHCPDGSMSCPGVQFNGPA 378
               SCOP domains d1mnpa_ A: Fungal peroxidase (ligninase)                                                                                                                                                                                                                                                                                                                              SCOP domains
               CATH domains ----------1mnpA01 A:11-141,A:273-300  [code=1.10.520.10, no name defined]                                                                    1mnpA02 A:142-272,A:302-342 Peroxidase, domain 2                                                                                   1mnpA01 A:11-141,A:273-300  -1mnpA02 A:142-272,A:302-342              --------------- CATH domains
               Pfam domains -------------------peroxidase-1mnpA02 A:20-261                                                                                                                                                                                                                       -DUF3415-1mnpA01 A:263-343                                                        -------------- Pfam domains
     Sec.struct. author (1) ...............hhhhhhhhhhhhh.....hhhhhhhhhhhhhhhh...............hhhhhh............hhhhhhhhhhhhhhh...hhhhhhhhhhhhhhh..........ee...................hhhhhhhhhhhhh..hhhhhhhhh......ee.........ee.........hhhhhhh...............ee...............-hhhhhhhhh...hhhhhhh...hhhhhhhhhhhhhhhhh.........ee..................................................................... Sec.struct. author (1)
     Sec.struct. author (2) ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ee---------------------------------------------------------------------------------------------------------------------- Sec.struct. author (2)
                 SAPs(SNPs) --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                PROSITE (1) ------------------------------------PEROXIDASE_2--------------------------------------------------------------------------------------------------------------------PEROXIDASE_-------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE (1)
                PROSITE (2) ------------------------------------PEROXIDASE_4  PDB: A:37-293 UniProt: 58-314                                                                                                                                                                                                                      ---------------------------------------------------------------- PROSITE (2)
                 Transcript --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 1mnp A   1 AVCPDGTRVSHAACCAFIPLAQDLQETIFQNECGEDAHEVIRLTFHDAIAISRSQGPKAGGGADGSMLLFPTVEPNFSANNGIDDSVNNLIPFMQKHNTISAADLVQFAGAVALSNCPGAPRLEFLAGRPNKTIAAVDGLIPEPQDSVTKILQRFEDAGGFTPFEVVSLLASHSVARADKVDQTIDAAPFDSTPFTFDTQVFLEVLLKGVGFPGSANNTGEVASPLPLGSGSDTGEMRLQSDFALAHDPRTACIWQGFVNEQAFMAASFRAAMSKLAVLGHNRNSLIDCSDVVPVPKPATGQPAMFPASTGPQDLELSCPSERFPTLTTQPGASQSLIAHCPDGSMSCPGVQFNGPA 357
                                    10        20        30        40        50        60        70        80        90       100       110       120       130       140       150       160       170       180       190       200       210       220       230       240       250       260       270       280       290       300       310       320       330       340       350
   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  (1, 1)

Asymmetric/Biological Unit
(-)
Class: All alpha proteins (14657)

(-) CATH Domains  (2, 2)

Asymmetric/Biological Unit
(-)
Class: Mainly Alpha (13335)

(-) Pfam Domains  (2, 2)

Asymmetric/Biological Unit
(-)
Clan: no clan defined [family: DUF3415] (12)
(-)
Clan: no clan defined [family: peroxidase] (92)

(-) Gene Ontology  (11, 11)

Asymmetric/Biological Unit(hide GO term definitions)
Chain A   (PEM1_PHACH | Q02567)
molecular function
    GO:0020037    heme binding    Interacting selectively and non-covalently with heme, any compound of iron complexed in a porphyrin (tetrapyrrole) ring.
    GO:0016689    manganese peroxidase activity    Catalysis of the reaction: 2 Mn2+ + 2 H+ + hydrogen peroxide = 2 Mn3+ + 2 H2O.
    GO:0046872    metal ion binding    Interacting selectively and non-covalently with any metal ion.
    GO:0016491    oxidoreductase activity    Catalysis of an oxidation-reduction (redox) reaction, a reversible chemical reaction in which the oxidation state of an atom or atoms within a molecule is altered. One substrate acts as a hydrogen or electron donor and becomes oxidized, while the other acts as hydrogen or electron acceptor and becomes reduced.
    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:0042744    hydrogen peroxide catabolic process    The chemical reactions and pathways resulting in the breakdown of hydrogen peroxide (H2O2).
    GO:0046274    lignin catabolic process    The chemical reactions and pathways resulting in the breakdown of lignins, a class of polymers of phenylpropanoid units.
    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.
    GO:0006979    response to oxidative stress    Any process that results in a change in state or activity of a cell or an organism (in terms of movement, secretion, enzyme production, gene expression, etc.) as a result of oxidative stress, a state often resulting from exposure to high levels of reactive oxygen species, e.g. superoxide anions, hydrogen peroxide (H2O2), and hydroxyl radicals.
cellular component
    GO:0005576    extracellular region    The space external to the outermost structure of a cell. For cells without external protective or external encapsulating structures this refers to space outside of the plasma membrane. This term covers the host cell environment outside an intracellular parasite.

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        PEM1_PHACH | Q02567: 1mn1 1mn2 1yyd 1yyg 1yzp 1yzr 3m5q 3m8m

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