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(-) Description

Title :  CRYSTAL STRUCTURE OF THE NAVAB VOLTAGE-GATED SODIUM CHANNEL (MET221CYS, 2.95 A)
 
Authors :  J. Payandeh, T. Scheuer, N. Zheng, W. A. Catterall
Date :  06 May 11  (Deposition) - 13 Jul 11  (Release) - 27 Jul 11  (Revision)
Method :  X-RAY DIFFRACTION
Resolution :  2.95
Chains :  Asym. Unit :  A,B
Biol. Unit 1:  A,B  (2x)
Keywords :  Tetrameric Ion Channel, Voltage-Gated Sodium-Selective Ion Channel, Membrane, Metal Transport (Keyword Search: [Gene Ontology, PubMed, Web (Google)] )
 
Reference :  J. Payandeh, T. Scheuer, N. Zheng, W. A. Catterall
The Crystal Structure Of A Voltage-Gated Sodium Channel.
Nature V. 475 353 2011
PubMed-ID: 21743477  |  Reference-DOI: 10.1038/NATURE10238

(-) Compounds

Molecule 1 - ION TRANSPORT PROTEIN
    Chains: A, B
    Engineered: YES
    Expression System: TRICHOPLUSIA NI
    Expression System Common: CABBAGE LOOPER
    Expression System Plasmid: PFASTBAC DUAL
    Expression System Strain: HI5
    Expression System Taxid: 7111
    Expression System Vector Type: PLASMID
    Gene: ABU_1752
    Mutation: YES
    Organism Scientific: ARCOBACTER BUTZLERI
    Organism Taxid: 367737
    Strain: RM4018

 Structural Features

(-) Chains, Units

  12
Asymmetric Unit : AB
Biological Unit 1 (2x): AB

Summary Information (see also Sequences/Alignments below)

(-) Ligands, Modified Residues, Ions  (2, 32)

Asymmetric Unit (2, 32)
No.NameCountTypeFull Name
1MSE22Mod. Amino AcidSELENOMETHIONINE
2PX410Ligand/Ion1,2-DIMYRISTOYL-SN-GLYCERO-3-PHOSPHOCHOLINE
Biological Unit 1 (2, 64)
No.NameCountTypeFull Name
1MSE44Mod. Amino AcidSELENOMETHIONINE
2PX420Ligand/Ion1,2-DIMYRISTOYL-SN-GLYCERO-3-PHOSPHOCHOLINE

(-) Sites  (7, 7)

Asymmetric Unit (7, 7)
No.NameEvidenceResiduesDescription
1AC1SOFTWAREILE A:1097 , VAL B:2190 , TYR B:2191BINDING SITE FOR RESIDUE PX4 A 4002
2AC2SOFTWARETYR A:1142 , PX4 A:4004 , GLY B:2030 , LEU B:2031 , SER B:2034BINDING SITE FOR RESIDUE PX4 A 4003
3AC3SOFTWAREPX4 A:4003BINDING SITE FOR RESIDUE PX4 A 4004
4AC4SOFTWAREGLY A:1030 , LEU A:1031 , SER A:1034 , THR A:1036 , TYR B:2142BINDING SITE FOR RESIDUE PX4 A 4013
5AC5SOFTWAREMSE A:1137 , THR A:1162 , GLY A:1164 , TYR A:1168 , TRP B:2195BINDING SITE FOR RESIDUE PX4 B 4001
6AC6SOFTWARETRP A:1195 , MSE B:2137 , THR B:2162 , GLY B:2164 , TYR B:2168BINDING SITE FOR RESIDUE PX4 B 4011
7AC7SOFTWARETYR A:1191 , ILE B:2097BINDING SITE FOR RESIDUE PX4 B 4012

(-) SS Bonds  (0, 0)

(no "SS Bond" information available for 3RW0)

(-) Cis Peptide Bonds  (0, 0)

(no "Cis Peptide Bond" information available for 3RW0)

 Sequence-Structure Mapping

(-) SAPs(SNPs)/Variants  (0, 0)

(no "SAP(SNP)/Variant" information available for 3RW0)

(-) PROSITE Motifs  (0, 0)

(no "PROSITE Motif" information available for 3RW0)

(-) Exons   (0, 0)

(no "Exon" information available for 3RW0)

(-) 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:223
 aligned with A8EVM5_ARCB4 | A8EVM5 from UniProtKB/TrEMBL  Length:267

    Alignment length:223
                              1                                                                                                                                                                                                                            
                              |      8        18        28        38        48        58        68        78        88        98       108       118       128       138       148       158       168       178       188       198       208       218   
        A8EVM5_ARCB4      - --MYLRITNIVESSFFTKFIIYLIVLNGITMGLETSKTFMQSFGVYTTLFNQIVITIFTIEIILRIYVHRISFFKDPWSLFDFFVVAISLVPTSSGFEILRVLRVLRLFRLVTAVPQMRKIVSALISVIPGMLSVIALMTLFFYIFAIMATQLFGERFPEWFGTLGESFYTLFQVMTLESWSMGIVRPLMEVYPYAWVFFIPFIFVVTFVMINLVVAIIVDAM  221
               SCOP domains ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SCOP domains
               CATH domains ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- CATH domains
               Pfam domains ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author hhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhh.hhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhh........hhhhhhhhhhhhhhhhh..hhhhhhhhhhhhh..hhhhhhhhhhhhhhhhhhhhhhhh..hhhhhhhhhhhhhhhhhhhh.......hhhhhhh....hhhhhhhhhhhhhhhhhhhhhhhhhhhh Sec.struct. author
                 SAPs(SNPs) ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                3rw0 A  999 SHmYLRITNIVESSFFTKFIIYLIVLNGITmGLETSKTFmQSFGVYTTLFNQIVITIFTIEIILRIYVHRISFFKDPWSLFDFFVVAISLVPTSSGFEILRVLRVLRLFRLVTAVPQmRKIVSALISVIPGmLSVIALmTLFFYIFAImATQLFGERFPEWFGTLGESFYTLFQVmTLESWSmGIVRPLmEVYPYAWVFFIPFIFVVTFVmINLVVAIIVDAC 1221
                              |   1008      1018      1028|     1038      1048      1058      1068      1078      1088      1098      1108      1118      1128 |    1138      1148      1158      1168     |1178  |   1188      1198      1208|     1218   
                              |                        1029-MSE 1038-MSE                                                                      1116-MSE      1130-MSE  |      1147-MSE                   1174-MSE  |      |                 1209-MSE        
                           1001-MSE                                                                                                                                1137-MSE                                    1181-MSE  |                                 
                                                                                                                                                                                                                      1188-MSE                             


Chain B from PDB  Type:PROTEIN  Length:223
 aligned with A8EVM5_ARCB4 | A8EVM5 from UniProtKB/TrEMBL  Length:267

    Alignment length:223
                              1                                                                                                                                                                                                                            
                              |      8        18        28        38        48        58        68        78        88        98       108       118       128       138       148       158       168       178       188       198       208       218   
        A8EVM5_ARCB4      - --MYLRITNIVESSFFTKFIIYLIVLNGITMGLETSKTFMQSFGVYTTLFNQIVITIFTIEIILRIYVHRISFFKDPWSLFDFFVVAISLVPTSSGFEILRVLRVLRLFRLVTAVPQMRKIVSALISVIPGMLSVIALMTLFFYIFAIMATQLFGERFPEWFGTLGESFYTLFQVMTLESWSMGIVRPLMEVYPYAWVFFIPFIFVVTFVMINLVVAIIVDAM  221
               SCOP domains ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SCOP domains
               CATH domains ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- CATH domains
               Pfam domains ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author hhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhh.hhhhhh.hhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhh......hhhhhhhhhhhhhhhhh..hhhhhhhhhhhhh..hhhhhhhhhhhhhhhhhhhhhhhh..hhhhhhhhhhhhhhhhhhhh.......hhhhhhh...hhhhhhhhhhhhhhhhhhhhhhhhhhhhh Sec.struct. author
                 SAPs(SNPs) ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                3rw0 B 1999 SHmYLRITNIVESSFFTKFIIYLIVLNGITmGLETSKTFmQSFGVYTTLFNQIVITIFTIEIILRIYVHRISFFKDPWSLFDFFVVAISLVPTSSGFEILRVLRVLRLFRLVTAVPQmRKIVSALISVIPGmLSVIALmTLFFYIFAImATQLFGERFPEWFGTLGESFYTLFQVmTLESWSmGIVRPLmEVYPYAWVFFIPFIFVVTFVmINLVVAIIVDAC 2221
                              |   2008      2018      2028|     2038      2048      2058      2068      2078      2088      2098      2108      2118      2128 |    2138      2148      2158      2168     |2178  |   2188      2198      2208|     2218   
                           2001-MSE                    2029-MSE 2038-MSE                                                                      2116-MSE      2130-MSE  |      2147-MSE                   2174-MSE  |      |                 2209-MSE        
                                                                                                                                                                   2137-MSE                                    2181-MSE  |                                 
                                                                                                                                                                                                                      2188-MSE
   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 3RW0)

(-) CATH Domains  (0, 0)

(no "CATH Domain" information available for 3RW0)

(-) Pfam Domains  (0, 0)

(no "Pfam Domain" information available for 3RW0)

(-) Gene Ontology  (7, 7)

Asymmetric Unit(hide GO term definitions)
Chain A,B   (A8EVM5_ARCB4 | A8EVM5)
molecular function
    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: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:0055085    transmembrane transport    The process in which a solute is transported across a lipid bilayer, from one side of a membrane to the other
    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.
cellular component
    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:0016020    membrane    A lipid bilayer along with all the proteins and protein complexes embedded in it an attached to it.

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 Related Entries

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

UniProtKB/TrEMBL
        A8EVM5_ARCB4 | A8EVM5: 3rvy 3rvz 4ekw 4ms2 4mtf 4mtg 4mto 4mvm 4mvo 4mvq 4mvr 4mvs 4mvu 4mvz 4mw3 4mw8 5ek0 5klb 5klg 5kls 5kmd 5kmf 5kmh 5vb2 5vb8

(-) Related Entries Specified in the PDB File

3rvy 3rvz