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(-) Description

Title :  STRUCTURE OF A NITRATE/NITRITE ANTIPORTER NARK IN APO INWARD-OPEN STATE
 
Authors :  M. Fukuda, H. Takeda, H. E. Kato, S. Doki, K. Ito, A. D. Maturana, R. Ishit O. Nureki
Date :  24 Jul 14  (Deposition) - 15 Jul 15  (Release) - 15 Jul 15  (Revision)
Method :  X-RAY DIFFRACTION
Resolution :  2.35
Chains :  Asym./Biol. Unit :  A
Keywords :  Transporter, Nitrate Nitrite Porter Family, Major Facilitator Superfamily, Membrane Transporter, Transport Protein (Keyword Search: [Gene Ontology, PubMed, Web (Google)] )
 
Reference :  M. Fukuda, H. Takeda, H. E. Kato, S. Doki, K. Ito, A. D. Maturana, R. Ishitani, O. Nureki
Structural Basis For Dynamic Mechanism Of Nitrate/Nitrite Antiport By Nark
Nat Commun V. 6 7097 2015
PubMed-ID: 25959928  |  Reference-DOI: 10.1038/NCOMMS8097

(-) Compounds

Molecule 1 - NITRATE/NITRITE TRANSPORTER NARK
    Chains: A
    Engineered: YES
    Expression System: ESCHERICHIA COLI
    Expression System Plasmid: PET VARIANT
    Expression System Taxid: 562
    Expression System Vector Type: PLASMID
    Gene: NARK, B1223, JW1214
    Organism Scientific: ESCHERICHIA COLI STR. K-12 SUBSTR. MG1655
    Organism Taxid: 511145
    Strain: MG1655
    Synonym: NITRITE EXTRUSION PROTEIN 1,NITRITE FACILITATOR 1

 Structural Features

(-) Chains, Units

  1
Asymmetric/Biological Unit : A

Summary Information (see also Sequences/Alignments below)

(-) Ligands, Modified Residues, Ions  (2, 7)

Asymmetric/Biological Unit (2, 7)
No.NameCountTypeFull Name
1NI1Ligand/IonNICKEL (II) ION
2OLA6Ligand/IonOLEIC ACID

(-) Sites  (5, 5)

Asymmetric Unit (5, 5)
No.NameEvidenceResiduesDescription
1AC1SOFTWARESER A:131binding site for residue OLA A 501
2AC2SOFTWAREGLN A:292binding site for residue OLA A 502
3AC3SOFTWAREPHE A:121binding site for residue OLA A 504
4AC4SOFTWARETRP A:217binding site for residue OLA A 506
5AC5SOFTWAREHIS A:255 , HIS A:460 , HOH A:621binding site for residue NI A 507

(-) SS Bonds  (0, 0)

(no "SS Bond" information available for 4U4V)

(-) Cis Peptide Bonds  (2, 2)

Asymmetric/Biological Unit
No.Residues
1Gln A:344 -Gly A:345
2Gly A:346 -Ser A:347

 Sequence-Structure Mapping

(-) SAPs(SNPs)/Variants  (0, 0)

(no "SAP(SNP)/Variant" information available for 4U4V)

(-) PROSITE Motifs  (0, 0)

(no "PROSITE Motif" information available for 4U4V)

(-) Exons   (0, 0)

(no "Exon" information available for 4U4V)

(-) 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:442
                                                                                                                                                                                                                                                                                                                                                                                                                                                                                          
               SCOP domains ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SCOP domains
               CATH domains ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- CATH domains
               Pfam domains ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author .........hhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhh.......hhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhh.....hhhhhhhhhhhhhhhhhhhhhhhhhhhhh.hhhhhhhhhhhhhhhhhhhhhhhhhhhhhhh....hhhhh...ee.....ee..hhhhhhhhhhhhhhhhhhhhhh.....hhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhh...hhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhh......hhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhh..hhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhh.hhhhhhhhhhhhhhhhhhhhhhhhhh... Sec.struct. author
                 SAPs(SNPs) ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 4u4v A  13 AVITDWRPEDPAFWQQRGQRIASRNLWISVPCLLLAFCVWMLFSAVAVNLPKVGFNFTTDQLFMLTALPSVSGALLRVPYSFMVPIFGGRRWTAFSTGILIIPCVWLGFAVQDTSTPYSVFIIISLLCGFAGANFASSMANISFFFPKQKQGGALGLNGGLGNMGVSVMQLVAPLVVSLSIFAVFGSQGVKQPDGTELYLANASWIWVPFLAIFTIAAWFGMNDLATLPVLKRGHLWIMSLLYLATFGSFIGFSAGFAMLSKTQFPDVQILQYAFFGPFIGALARSAGGALSDRLGGTRVTLVNFILMAIFSGLLFLTLPTDQGGSFMAFFAVFLALFLTAGLGSGSTFQMISVIFRKLTMDRVKAEGGSDERAMREAATDTAAALGFISAIGAIGGFFIPKAFGSSLALTGSPVGAMKVFLIFYIACVVITWAVYGRHSKK 463
                                    22        32        42        52        62        72        82        92       102       112       122       132       142       152       162       172       182       192       202       212       222       232      |250       260       270       280       290       300       310       320       330       340 ||    351       361       371       381       391       401       411       421       431       441       451       461  
                                                                                                                                                                                                                                                            239|                                                                                           342|                                                                                                                       
                                                                                                                                                                                                                                                             248                                                                                            344
   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 4U4V)

(-) CATH Domains  (0, 0)

(no "CATH Domain" information available for 4U4V)

(-) Pfam Domains  (0, 0)

(no "Pfam Domain" information available for 4U4V)

(-) Gene Ontology  (12, 12)

Asymmetric/Biological Unit(hide GO term definitions)

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  Cis Peptide Bonds
    Gln A:344 - Gly A:345   [ RasMol ]  
    Gly A:346 - Ser A:347   [ RasMol ]  
 

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  4u4v
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 Related Entries

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

UniProtKB/Swiss-Prot
        NARK_ECOLI | P10903: 4jr9 4jre 4u4t 4u4w

(-) Related Entries Specified in the PDB File

4u4t 4u4w