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(-) Description

Title :  CRYSTAL STRUCTURE OF CIMEX NITROPHORIN FERROUS NO COMPLEX
 
Authors :  A. Weichsel, H. Badgandi, W. R. Montfort
Date :  14 Jan 05  (Deposition) - 27 Dec 05  (Release) - 24 Feb 09  (Revision)
Method :  X-RAY DIFFRACTION
Resolution :  1.65
Chains :  Asym./Biol. Unit :  A
Keywords :  Ferrous Heme; Nitric Oxide; Beta Sandwich; Five-Coordinate Iron, Oxygen Storage/Transport Complex (Keyword Search: [Gene Ontology, PubMed, Web (Google))
 
Reference :  A. Weichsel, H. Badgandi, W. R. Montfort
Crystal Structure Of Cimex Nitrophorin No Complex
To Be Published
PubMed: search
(for further references see the PDB file header)

(-) Compounds

Molecule 1 - SALIVARY NITROPHORIN
    ChainsA
    EngineeredYES
    Expression SystemESCHERICHIA COLI BL21(DE3)
    Expression System PlasmidPET17B
    Expression System StrainBL21DE3
    Expression System Taxid469008
    Expression System Vector TypePLASMID
    OrganSALIVARY GLANDS
    Organism CommonBED BUG
    Organism ScientificCIMEX LECTULARIUS
    Organism Taxid79782

 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
1HEM1Ligand/IonPROTOPORPHYRIN IX CONTAINING FE
2NO1Ligand/IonNITRIC OXIDE

(-) Sites  (2, 2)

Asymmetric Unit (2, 2)
No.NameEvidenceResiduesDescription
1AC1SOFTWAREVAL A:44 , HEM A:300BINDING SITE FOR RESIDUE NO A 298
2AC2SOFTWARETRP A:14 , GLU A:19 , ALA A:21 , PRO A:22 , VAL A:44 , GLY A:48 , PHE A:49 , ASP A:52 , GLY A:57 , CYS A:60 , VAL A:61 , PHE A:64 , GLN A:65 , LYS A:75 , ASN A:78 , ILE A:80 , THR A:87 , TYR A:89 , NO A:298 , HOH A:403 , HOH A:481BINDING SITE FOR RESIDUE HEM A 300

(-) SS Bonds  (0, 0)

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

(-) Cis Peptide Bonds  (1, 1)

Asymmetric/Biological Unit
No.Residues
1Tyr A:224 -Lys A:225

 Sequence-Structure Mapping

(-) SAPs(SNPs)/Variants  (0, 0)

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

(-) PROSITE Motifs  (0, 0)

(no "PROSITE Motif" information available for 1YJH)

(-) Exons   (0, 0)

(no "Exon" information available for 1YJH)

(-) 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:280
 aligned with O76745_CIMLE | O76745 from UniProtKB/TrEMBL  Length:302

    Alignment length:280
                                    32        42        52        62        72        82        92       102       112       122       132       142       152       162       172       182       192       202       212       222       232       242       252       262       272       282       292       302
         O76745_CIMLE    23 PPAQLSVHTVSWNSGHERAPTNLEELLGLNSGETPDVIAVAVQGFGFQTDKPQQGPACVKNFQSLLTSKGYTKLKNTITETMGLTVYCLEKHLDQNTLKNETIIVTVDDQKKSGGIVTSFTIYNKRFSFTTSRMSDEDVTSTNTKYAYDTRLDYSKKDDPSDFLFWIGDLNVRVETNATHAKSLVDQNNIDGLMAFDQLKKAKEQKLFDGWTEPQVTFKPTYKFKPNTDEYDLSATPSWTDRALYKSGTGKTIQPLSYNSLTNYKQTEHRPVLAKFRVTL 302
               SCOP domains d1yjha_ A: automated matches                                                                                                                                                                                                                                                             SCOP domains
               CATH domains 1yjhA00 A:3-282  [code=3.60.10.10, no name defined]                                                                                                                                                                                                                                      CATH domains
               Pfam domains ---------Exo_endo_phos-1yjhA01 A:12-273                                                                                                                                                                                                                                        --------- Pfam domains
         Sec.struct. author ...eeeeeeeeeeee......hhhhhh.........eeeeeeee.........hhhhhhhhhhhhhhh..eeeeeeee...eeeeeeee.hhh.......eeeeee.......eeeeeeeee..eeeeeeeee...............hhhhh.........eeeeeee.......hhhhhhhhhhh.hhhhhhh..hhhhhhhh...................................eeeeee......eeeeeeee...........eeeeeeee. Sec.struct. author
                 SAPs(SNPs) ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 1yjh A   3 PPAQLSVHTVSWNSGHERAPTNLEELLGLNSGETPDVIAVAVQGFGFQTDKPQQGPACVKNFQSLLTSKGYTKLKNTITETMGLTVYCLEKHLDQNTLKNETIIVTVDDQKKSGGIVTSFTIYNKRFSFTTSRMSDEDVTSTNTKYAYDTRLDYSKKDDPSDFLFWIGDLNVRVETNATHAKSLVDQNNIDGLMAFDQLKKAKEQKLFDGWTEPQVTFKPTYKFKPNTDEYDLSATPSWTDRALYKSGTGKTIQPLSYNSLTNYKQTEHRPVLAKFRVTL 282
                                    12        22        32        42        52        62        72        82        92       102       112       122       132       142       152       162       172       182       192       202       212       222       232       242       252       262       272       282

   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

(-) CATH Domains  (1, 1)

Asymmetric/Biological Unit
(-)
Class: Alpha Beta (26913)

(-) Pfam Domains  (1, 1)

Asymmetric/Biological Unit

(-) Gene Ontology  (3, 3)

Asymmetric/Biological Unit(hide GO term definitions)
Chain A   (O76745_CIMLE | O76745)
molecular function
    GO:0016787    hydrolase activity    Catalysis of the hydrolysis of various bonds, e.g. C-O, C-N, C-C, phosphoric anhydride bonds, etc. Hydrolase is the systematic name for any enzyme of EC class 3.
    GO:0046872    metal ion binding    Interacting selectively and non-covalently with any metal ion.
biological process
    GO:0046856    phosphatidylinositol dephosphorylation    The process of removing one or more phosphate groups from a phosphatidylinositol.

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 Related Entries

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

UniProtKB/TrEMBL
        O76745_CIMLE | O767451ntf 1si6 1y21 2imq 4l1y 4l1z 4l20 4l21

(-) Related Entries Specified in the PDB File

1ntf CIMEX NITROPHORIN, FERRIC, UNLIGANDED
1si6 CIMEX NITROPHORIN FERROUS CO COMPLEX (DITHIONITE REDUCED)
1y21 CIMEX NITROPHORIN NO COMPLEX