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(-) Description

Title :  STRUCTURE OF THE NAPB SUBUNIT OF THE PERIPLASMIC NITRATE REDUCTASE FROM HAEMOPHILUS INFLUENZAE.
 
Authors :  A. Brige, D. Leys, T. E. Meyer, M. A. Cusanovich, J. J. Van Beeumen
Date :  24 Jul 01  (Deposition) - 17 May 02  (Release) - 24 Feb 09  (Revision)
Method :  X-RAY DIFFRACTION
Resolution :  1.25
Chains :  Asym./Biol. Unit :  A
Keywords :  Dihaem Cytochrome C, Proteolytic Fragment, Nitrate Reductase Subunit, Oxidoreductase (Keyword Search: [Gene Ontology, PubMed, Web (Google)] )
 
Reference :  A. Brige, D. Leys, T. E. Meyer, M. A. Cusanovich, J. J. Van Beeumen
The 1. 25 A Resolution Structure Of The Diheme Napb Subunit Of Soluble Nitrate Reductase Reveals A Novel Cytochrome C Fold With A Stacked Heme Arrangement.
Biochemistry V. 41 4827 2002
PubMed-ID: 11939777  |  Reference-DOI: 10.1021/BI012144B
(for further references see the PDB file header)

(-) Compounds

Molecule 1 - DIHEME CYTOCHROME C NAPB
    Chains: A
    Engineered: YES
    Expression System: ESCHERICHIA COLI
    Expression System Taxid: 562
    Fragment: SMALL SUBUNIT OF THE PERIPLASMIC NITRATE REDUCTASE
    Organism Scientific: HAEMOPHILUS INFLUENZAE
    Organism Taxid: 727
    Synonym: PERIPLASMIC NITRATE REDUCTASE;
NAPB

 Structural Features

(-) Chains, Units

  1
Asymmetric/Biological Unit : A

Summary Information (see also Sequences/Alignments below)

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

Asymmetric/Biological Unit (1, 2)
No.NameCountTypeFull Name
1HEM2Ligand/IonPROTOPORPHYRIN IX CONTAINING FE

(-) Sites  (2, 2)

Asymmetric Unit (2, 2)
No.NameEvidenceResiduesDescription
1AC1SOFTWAREPRO A:39 , HIS A:62 , THR A:73 , ILE A:75 , SER A:76 , THR A:78 , HIS A:79 , ARG A:95 , TYR A:96 , PHE A:97 , CYS A:98 , CYS A:101 , HIS A:102 , HOH A:186BINDING SITE FOR RESIDUE HEM A 125
2AC2SOFTWAREPRO A:40 , VAL A:42 , PRO A:43 , HIS A:44 , TYR A:49 , GLN A:57 , CYS A:58 , CYS A:61 , HIS A:62 , GLY A:71 , ALA A:72 , THR A:73 , THR A:78 , GLY A:85 , CYS A:98 , HIS A:102 , HOH A:182 , HOH A:203BINDING SITE FOR RESIDUE HEM A 126

(-) SS Bonds  (0, 0)

(no "SS Bond" information available for 1JNI)

(-) Cis Peptide Bonds  (0, 0)

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

 Sequence-Structure Mapping

(-) SAPs(SNPs)/Variants  (0, 0)

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

(-) PROSITE Motifs  (1, 1)

Asymmetric/Biological Unit (1, 1)
 PROSITEUniProtKBPDB
No.IDACDescriptionIDLocationCountLocation
1MULTIHEME_CYTCPS51008 Multiheme cytochrome c family profile.NAPB_HAEIN79-133  1A:53-104

(-) Exons   (0, 0)

(no "Exon" information available for 1JNI)

(-) 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:64
 aligned with NAPB_HAEIN | P44654 from UniProtKB/Swiss-Prot  Length:150

    Alignment length:68
                                    72        82        92       102       112       122        
           NAPB_HAEIN    63 NQPPMVPHSVANYQVTKNVNQCLNCHSPENSRLSGATRISPTHFMDRDGKVGSSSSPRRYFCLQCHVS 130
               SCOP domains d1jnia_ A: Periplasmic nitrate reductase subunit Na    pB            SCOP domains
               CATH domains 1jniA00 A:37-104                                                     CATH domains
               Pfam domains NapB-1jniA01 A:37-104                                                Pfam domains
         Sec.struct. author ..............ee..ee.hhhhhh..hhhhhh....hhhhh.......----.....hhhhh... Sec.struct. author
                 SAPs(SNPs) -------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE ----------------MULTIHEME_CYTC  PDB: A:53-104 UniProt: 79-133        PROSITE
                 Transcript -------------------------------------------------------------------- Transcript
                 1jni A  37 NQPPMVPHSVANYQVTKNVNQCLNCHSPENSRLSGATRISPTHFMDRDGKV----SPRRYFCLQCHVS 104
                                    46        56        66        76        86|    |  96        
                                                                             87   92
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 Classification and Annotation

(-) SCOP Domains  (1, 1)

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

(-) CATH Domains  (1, 1)

Asymmetric/Biological Unit
(-)
Class: Few Secondary Structures (1120)

(-) Pfam Domains  (1, 1)

Asymmetric/Biological Unit
(-)
Clan: Multiheme_cytos (34)

(-) Gene Ontology  (3, 3)

Asymmetric/Biological Unit(hide GO term definitions)
Chain A   (NAPB_HAEIN | P44654)
molecular function
    GO:0046872    metal ion binding    Interacting selectively and non-covalently with any metal ion.
biological process
    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.
cellular component
    GO:0042597    periplasmic space    The region between the inner (cytoplasmic) and outer membrane (Gram-negative Bacteria) or cytoplasmic membrane and cell wall (Fungi and Gram-positive Bacteria).

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