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(-) Description

Title :  THE CLOSED STATE STRUCTURE OF M2 PROTEIN H+ CHANNEL BY SOLID STATE NMR SPECTROSCOPY
 
Authors :  K. Nishimura, S. Kim, L. Zhang, T. A. Cross
Date :  12 Feb 03  (Deposition) - 25 Mar 03  (Release) - 24 Feb 09  (Revision)
Method :  SOLID-STATE NMR
Resolution :  NOT APPLICABLE
Chains :  Asym. Unit :  A,B,C,D
Keywords :  Influenza A Virus, Membrane Protein Structure, M2 Proton Channel, Solid State Nmr, Viral Protein (Keyword Search: [Gene Ontology, PubMed, Web (Google)] )
 
Reference :  K. Nishimura, S. Kim, L. Zhang, T. A. Cross
The Closed State Of A H+ Channel Helical Bundle Combining Precise Orientational And Distance Restraints From Solid State Nmr
Biochemistry V. 41 13170 2002
PubMed-ID: 12403618  |  Reference-DOI: 10.1021/BI0262799
(for further references see the PDB file header)

(-) Compounds

Molecule 1 - MATRIX PROTEIN M2
    Chains: A, B, C, D
    Engineered: YES
    Fragment: TRANSMEMBRANE PEPTIDE (RESIDUE 22-46)
    Other Details: THE PEPTIDE WAS SYNTHESIZED USING SOLID PHASE PEPTIDE SYNTHESIS. THIS SEQUENCE OCCURS NATURALLY IN THE INFLUENZA A VIRUS (UDORN/72).
    Synthetic: YES

 Structural Features

(-) Chains, Units

  
Asymmetric Unit : 

Summary Information (see also Sequences/Alignments below)

(-) Ligands, Modified Residues, Ions  (0, 0)

(no "Ligand,Modified Residues,Ions" information available for 1NYJ)

(-) Sites  (0, 0)

(no "Site" information available for 1NYJ)

(-) SS Bonds  (0, 0)

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

(-) Cis Peptide Bonds  (0, 0)

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

 Sequence-Structure Mapping

(-) SAPs(SNPs)/Variants  (0, 0)

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

(-) PROSITE Motifs  (0, 0)

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

(-) Exons   (0, 0)

(no "Exon" information available for 1NYJ)

(-) Sequences/Alignments

Asymmetric 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:25
 aligned with M2_I77AB | P35938 from UniProtKB/Swiss-Prot  Length:97

    Alignment length:25
                                    31        41     
              M2_I77AB   22 SSDPLVVAASIIGILHLILWILDRL 46
               SCOP domains d1nyja_ A:                SCOP domains
               CATH domains ------------------------- CATH domains
               Pfam domains ------------------------- Pfam domains
         Sec.struct. author hhhhhhhhhhhhhhhhhhhhhhhhh Sec.struct. author
                 SAPs(SNPs) ------------------------- SAPs(SNPs)
                    PROSITE ------------------------- PROSITE
                 Transcript ------------------------- Transcript
                  1nyj A  1 SSDPLVVAASIIGILHLILWILDRL 25
                                    10        20     


Chain B from PDB  Type:PROTEIN  Length:25
 aligned with M2_I77AB | P35938 from UniProtKB/Swiss-Prot  Length:97

    Alignment length:25
                                    31        41     
              M2_I77AB   22 SSDPLVVAASIIGILHLILWILDRL 46
               SCOP domains d1nyjb_ B:                SCOP domains
               CATH domains ------------------------- CATH domains
               Pfam domains ------------------------- Pfam domains
         Sec.struct. author hhhhhhhhhhhhhhhhhhhhhhhhh Sec.struct. author
                 SAPs(SNPs) ------------------------- SAPs(SNPs)
                    PROSITE ------------------------- PROSITE
                 Transcript ------------------------- Transcript
                  1nyj B  1 SSDPLVVAASIIGILHLILWILDRL 25
                                    10        20     


Chain C from PDB  Type:PROTEIN  Length:25
 aligned with M2_I77AB | P35938 from UniProtKB/Swiss-Prot  Length:97

    Alignment length:25
                                    31        41     
              M2_I77AB   22 SSDPLVVAASIIGILHLILWILDRL 46
               SCOP domains d1nyjc_ C:                SCOP domains
               CATH domains ------------------------- CATH domains
               Pfam domains ------------------------- Pfam domains
         Sec.struct. author hhhhhhhhhhhhhhhhhhhhhhhhh Sec.struct. author
                 SAPs(SNPs) ------------------------- SAPs(SNPs)
                    PROSITE ------------------------- PROSITE
                 Transcript ------------------------- Transcript
                  1nyj C  1 SSDPLVVAASIIGILHLILWILDRL 25
                                    10        20     


Chain D from PDB  Type:PROTEIN  Length:25
 aligned with M2_I77AB | P35938 from UniProtKB/Swiss-Prot  Length:97

    Alignment length:25
                                    31        41     
              M2_I77AB   22 SSDPLVVAASIIGILHLILWILDRL 46
               SCOP domains d1nyjd_ D:                SCOP domains
               CATH domains ------------------------- CATH domains
           Pfam domains (1) Flu_M2-1nyjD01 D:1-25     Pfam domains (1)
           Pfam domains (2) Flu_M2-1nyjD02 D:1-25     Pfam domains (2)
           Pfam domains (3) Flu_M2-1nyjD03 D:1-25     Pfam domains (3)
           Pfam domains (4) Flu_M2-1nyjD04 D:1-25     Pfam domains (4)
         Sec.struct. author hhhhhhhhhhhhhhhhhhhhhhhhh Sec.struct. author
                 SAPs(SNPs) ------------------------- SAPs(SNPs)
                    PROSITE ------------------------- PROSITE
                 Transcript ------------------------- Transcript
                  1nyj D  1 SSDPLVVAASIIGILHLILWILDRL 25
                                    10        20
   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, 4)

Asymmetric Unit
(-)
Class: Peptides (792)

(-) CATH Domains  (0, 0)

(no "CATH Domain" information available for 1NYJ)

(-) Pfam Domains  (1, 4)

Asymmetric Unit
(-)
Clan: no clan defined [family: Flu_M2] (9)

(-) Gene Ontology  (18, 18)

Asymmetric Unit(hide GO term definitions)
Chain A,B,C,D   (M2_I77AB | P35938)
molecular function
    GO:0015078    hydrogen ion transmembrane transporter activity    Enables the transfer of hydrogen ions from one side of a membrane to the other.
    GO:0005216    ion channel activity    Enables the facilitated diffusion of an ion (by an energy-independent process) by passage through a transmembrane aqueous pore or channel without evidence for a carrier-mediated mechanism. May be either selective (it enables passage of a specific ion only) or non-selective (it enables passage of two or more ions of same charge but different size).
biological process
    GO:1902600    hydrogen ion transmembrane transport    The directed movement of hydrogen ion (proton) across a membrane.
    GO:0034220    ion transmembrane transport    A process in which an ion is transported from one side of a membrane to the other by means of some agent such as a transporter or pore.
    GO:0006811    ion transport    The directed movement of charged atoms or small charged molecules into, out of or within a cell, or between cells, by means of some agent such as a transporter or pore.
    GO:0039707    pore formation by virus in membrane of host cell    The aggregation, arrangement and bonding together of a set of components by a virus to form a pore complex in a membrane of a host organism.
    GO:0051259    protein oligomerization    The process of creating protein oligomers, compounds composed of a small number, usually between three and ten, of component monomers; protein oligomers may be composed of different or identical monomers. Oligomers may be formed by the polymerization of a number of monomers or the depolymerization of a large protein polymer.
    GO:0015992    proton transport    The directed movement of protons (hydrogen ions) into, out of or within a cell, or between cells, by means of some agent such as a transporter or pore.
    GO:0039521    suppression by virus of host autophagy    Any process in which a virus stops, prevents, or reduces the frequency, rate or extent of autophagy in the host.
    GO:0006810    transport    The directed movement of substances (such as macromolecules, small molecules, ions) or cellular components (such as complexes and organelles) into, out of or within a cell, or between cells, or within a multicellular organism by means of some agent such as a transporter, pore or motor protein.
    GO:0016032    viral process    A multi-organism process in which a virus is a participant. The other participant is the host. Includes infection of a host cell, replication of the viral genome, and assembly of progeny virus particles. In some cases the viral genetic material may integrate into the host genome and only subsequently, under particular circumstances, 'complete' its life cycle.
cellular component
    GO:0033644    host cell membrane    Double layer of lipid molecules as it encloses host cells, and, in eukaryotes, many organelles; may be a single or double lipid bilayer; also includes associated proteins. The host is defined as the larger of the organisms involved in a symbiotic interaction.
    GO:0020002    host cell plasma membrane    The plasma membrane surrounding a host cell.
    GO:0016021    integral component of membrane    The component of a membrane consisting of the gene products and protein complexes having at least some part of their peptide sequence embedded in the hydrophobic region of the membrane.
    GO:0044385    integral to membrane of host cell    Penetrating at least one phospholipid bilayer of a membrane. May also refer to the state of being buried in the bilayer with no exposure outside the bilayer. When used to describe a protein, indicates that all or part of the peptide sequence is embedded in the membrane. Occurring in a host cell.
    GO:0016020    membrane    A lipid bilayer along with all the proteins and protein complexes embedded in it an attached to it.
    GO:0019012    virion    The complete fully infectious extracellular virus particle.
    GO:0055036    virion membrane    The lipid bilayer surrounding a virion.

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 Related Entries

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

UniProtKB/Swiss-Prot
        M2_I77AB | P35938: 2h95

(-) Related Entries Specified in the PDB File

1mp6