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(-) Description

Title :  CRYSTAL STRUCTURE OF NITROPHORIN 4 FROM RHODNIUS PROLIXUS COMPLEXED WITH HOMOCYSTEINE AT PH 7.4
 
Authors :  K. Nishikawa, H. Ogata, M. Knipp
Date :  23 Oct 12  (Deposition) - 20 Mar 13  (Release) - 19 Mar 14  (Revision)
Method :  X-RAY DIFFRACTION
Resolution :  1.30
Chains :  Asym./Biol. Unit :  A
Keywords :  Heme, Lipocalin, Nitrophorin, Metal Binding Protein, Transport Protein (Keyword Search: [Gene Ontology, PubMed, Web (Google)] )
 
Reference :  C. He, K. Nishikawa, O. F. Erdem, E. Reijerse, H. Ogata, W. Lubitz, M. Knipp
Complexes Of Ferriheme Nitrophorin 4 With Low-Molecular Weight Thiol(Ate)S Occurring In Blood Plasma
J. Inorg. Biochem. V. 122 38 2013
PubMed-ID: 23474537  |  Reference-DOI: 10.1016/J.JINORGBIO.2013.01.012

(-) Compounds

Molecule 1 - NITROPHORIN-4
    Chains: A
    Engineered: YES
    Expression System: ESCHERICHIA COLI
    Expression System Plasmid: PET17
    Expression System Strain: BL21 (DE3)
    Expression System Taxid: 562
    Expression System Vector Type: PLASMID
    Organism Common: TRIATOMID BUG
    Organism Scientific: RHODNIUS PROLIXUS
    Organism Taxid: 13249
    Synonym: NP4

 Structural Features

(-) Chains, Units

  1
Asymmetric/Biological Unit : A

Summary Information (see also Sequences/Alignments below)

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

Asymmetric/Biological Unit (2, 2)
No.NameCountTypeFull Name
1HCS1Ligand/Ion2-AMINO-4-MERCAPTO-BUTYRIC ACID
2HEM1Ligand/IonPROTOPORPHYRIN IX CONTAINING FE

(-) Sites  (2, 2)

Asymmetric Unit (2, 2)
No.NameEvidenceResiduesDescription
1AC1SOFTWARETYR A:28 , TYR A:40 , LEU A:57 , HIS A:59 , PHE A:68 , ASP A:70 , PHE A:86 , LYS A:88 , TYR A:105 , PHE A:107 , LEU A:123 , LYS A:125 , LYS A:128 , LEU A:133 , HCS A:202 , HOH A:351BINDING SITE FOR RESIDUE HEM A 201
2AC2SOFTWARELEU A:130 , GLY A:131 , HEM A:201 , HOH A:414 , HOH A:513BINDING SITE FOR RESIDUE HCS A 202

(-) SS Bonds  (2, 2)

Asymmetric/Biological Unit
No.Residues
1A:2 -A:122
2A:41 -A:171

(-) Cis Peptide Bonds  (0, 0)

(no "Cis Peptide Bond" information available for 4HPD)

 Sequence-Structure Mapping

(-) SAPs(SNPs)/Variants  (0, 0)

(no "SAP(SNP)/Variant" information available for 4HPD)

(-) PROSITE Motifs  (0, 0)

(no "PROSITE Motif" information available for 4HPD)

(-) Exons   (0, 0)

(no "Exon" information available for 4HPD)

(-) 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    
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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:184
                                                                                                                                                                                                                        
               SCOP domains d4hpda_ A: Nitrophorin 4                                                                                                                                                                 SCOP domains
               CATH domains ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- CATH domains
               Pfam domains ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author ............hhhhhh...eeeeeeeee..........eeeeeeeee..eeeeeeeee......eeeeeeeeeeee..eeeeeeeee.....eee.....eeeeeeeeee...eeeeeeeeee......eeeeeee.......hhhhhhhhhhh..hhhhhee........hhhhhhhhh.. Sec.struct. author
                 SAPs(SNPs) ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 4hpd A   1 ACTKNAIAQTGFNKDKYFNGDVWYVTDYLDLEPDDVPKRYCAALAAGTASGKLKEALYHYDPKTQDTFYDVSELQVESLGKYTANFKKVDKNGNVKVAVTAGNYYTFTVMYADDSSALIHTCLHKGNKDLGDLYAVLNRNKDAAAGDKVKSAVSAATLEFSKFISTKENNCAYDNDSLKSLLTK 184
                                    10        20        30        40        50        60        70        80        90       100       110       120       130       140       150       160       170       180
   Legend:   → Mismatch (orange background)
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  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 beta proteins (24004)

(-) CATH Domains  (0, 0)

(no "CATH Domain" information available for 4HPD)

(-) Pfam Domains  (0, 0)

(no "Pfam Domain" information available for 4HPD)

(-) Gene Ontology  (8, 8)

Asymmetric/Biological Unit(hide GO term definitions)

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  4hpd
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  NP4_RHOPR | Q94734
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 Related Entries

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

UniProtKB/Swiss-Prot
        NP4_RHOPR | Q94734: 1d2u 1d3s 1eqd 1erx 1ike 1ikj 1koi 1ml7 1np4 1sxu 1sxw 1sxx 1sxy 1sy0 1sy1 1sy2 1sy3 1u0x 1x8n 1x8o 1x8p 1x8q 1ywa 1ywb 1ywc 1ywd 2at0 2at3 2at5 2at6 2at8 2ofm 2ofr 3c76 3c77 3c78 3fll 3mvf 3tga 3tgb 3tgc 4gnw 4grj 4hpa 4hpb 4hpc 5hwz

(-) Related Entries Specified in the PDB File

4hpa 4hpb 4hpc