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(-) Description

Title :  TRIMERIC COMPLEX OF ARCHAERHODOPSIN-2
 
Authors :  T. Kouyama
Date :  11 Mar 07  (Deposition) - 01 Jan 08  (Release) - 13 Jul 11  (Revision)
Method :  X-RAY DIFFRACTION
Resolution :  2.10
Chains :  Asym. Unit :  A
Biol. Unit 1:  A  (3x)
Keywords :  Membrane Protein, Retinal, Bacterioruberin, Proton Pump, Transport Protein (Keyword Search: [Gene Ontology, PubMed, Web (Google)] )
 
Reference :  K. Yoshimura, T. Kouyama
Structural Role Of Bacterioruberin In The Trimeric Structur Of Archaerhodopsin-2
J. Mol. Biol. V. 375 1267 2008
PubMed-ID: 18082767  |  Reference-DOI: 10.1016/J.JMB.2007.11.039

(-) Compounds

Molecule 1 - ARCHAERHODOPSIN-2
    Chains: A
    Organism Scientific: HALOBACTERIUM SP. AUS-2
    Organism Taxid: 29285
    Strain: AUS-2
    Synonym: AR 2

 Structural Features

(-) Chains, Units

  1
Asymmetric Unit : A
Biological Unit 1 (3x): A

Summary Information (see also Sequences/Alignments below)

(-) Ligands, Modified Residues, Ions  (4, 4)

Asymmetric Unit (4, 4)
No.NameCountTypeFull Name
122B1Ligand/IonBACTERIORUBERIN
2GLC1Ligand/IonALPHA-D-GLUCOSE
3L2P1Ligand/Ion2,3-DI-PHYTANYL-GLYCEROL
4RET1Ligand/IonRETINAL
Biological Unit 1 (4, 12)
No.NameCountTypeFull Name
122B3Ligand/IonBACTERIORUBERIN
2GLC3Ligand/IonALPHA-D-GLUCOSE
3L2P3Ligand/Ion2,3-DI-PHYTANYL-GLYCEROL
4RET3Ligand/IonRETINAL

(-) Sites  (4, 4)

Asymmetric Unit (4, 4)
No.NameEvidenceResiduesDescription
1AC1SOFTWARETHR A:71 , L2P A:280BINDING SITE FOR RESIDUE GLC A 281
2AC2SOFTWARETRP A:91 , THR A:95 , SER A:146 , TRP A:187 , TYR A:190 , PRO A:191 , TRP A:194 , LYS A:221BINDING SITE FOR RESIDUE RET A 260
3AC3SOFTWARELEU A:6 , LEU A:25 , PHE A:29 , ILE A:32 , GLY A:35 , TRP A:36 , ARG A:44 , ALA A:48 , ILE A:51 , LEU A:52 , GLY A:55 , THR A:112 , THR A:115 , LEU A:137 , THR A:141 , PHE A:145 , TYR A:156BINDING SITE FOR RESIDUE 22B A 270
4AC4SOFTWARELEU A:52 , ILE A:56 , ALA A:60 , THR A:71 , TYR A:85 , LEU A:92 , PHE A:93 , LEU A:122 , VAL A:125 , ILE A:129 , LEU A:132 , GLC A:281BINDING SITE FOR RESIDUE L2P A 280

(-) SS Bonds  (0, 0)

(no "SS Bond" information available for 2EI4)

(-) Cis Peptide Bonds  (0, 0)

(no "Cis Peptide Bond" information available for 2EI4)

 Sequence-Structure Mapping

(-) SAPs(SNPs)/Variants  (0, 0)

(no "SAP(SNP)/Variant" information available for 2EI4)

(-) PROSITE Motifs  (2, 2)

Asymmetric Unit (2, 2)
 PROSITEUniProtKBPDB
No.IDACDescriptionIDLocationCountLocation
1BACTERIAL_OPSIN_1PS00950 Bacterial rhodopsins signature 1.BACR2_HALS293-105  1A:87-99
2BACTERIAL_OPSIN_RETPS00327 Bacterial rhodopsins retinal binding site.BACR2_HALS2219-230  1A:213-224
Biological Unit 1 (2, 6)
 PROSITEUniProtKBPDB
No.IDACDescriptionIDLocationCountLocation
1BACTERIAL_OPSIN_1PS00950 Bacterial rhodopsins signature 1.BACR2_HALS293-105  3A:87-99
2BACTERIAL_OPSIN_RETPS00327 Bacterial rhodopsins retinal binding site.BACR2_HALS2219-230  3A:213-224

(-) Exons   (0, 0)

(no "Exon" information available for 2EI4)

(-) 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:238
 aligned with BACR2_HALS2 | P29563 from UniProtKB/Swiss-Prot  Length:259

    Alignment length:238
                                    16        26        36        46        56        66        76        86        96       106       116       126       136       146       156       166       176       186       196       206       216       226       236        
          BACR2_HALS2     7 QAGFDLLNDGRPETLWLGIGTLLMLIGTFYFIARGWGVTDKEAREYYAITILVPGIASAAYLAMFFGIGVTEVELASGTVLDIYYARYADWLFTTPLLLLDLALLAKVDRVTIGTLIGVDALMIVTGLIGALSKTPLARYTWWLFSTIAFLFVLYYLLTSLRSAAAKRSEEVRSTFNTLTALVAVLWTAYPILWIVGTEGAGVVGLGIETLAFMVLDVTAKVGFGFVLLRSRAILGET 244
               SCOP domains d2ei4a_ A: automated matches                                                                                                                                                                                                                   SCOP domains
               CATH domains 2ei4A00 A:1-238 Rhopdopsin 7-helix transmembrane proteins                                                                                                                                                                                      CATH domains
               Pfam domains ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author ............hhhhhhhhhhhhhhhhhhhhhhhh...hhhhhhhhhhhhhhhhhhhhhhhhhhhh...eeee.....eeee.hhhhhhhhhhhhhhhhhhhhhhh.hhhhhhhhhhhhhhhhhhhhhhhh..hhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhh..hhhhhhhhhhhhhhhhhhhhhhhhhhhhh.......hhhhhhhhhhhhhhhhhhhhhhhhhhhhhhh... Sec.struct. author
                 SAPs(SNPs) ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE --------------------------------------------------------------------------------------BACTERIAL_OPS-----------------------------------------------------------------------------------------------------------------BACTERIAL_OP-------------- PROSITE
                 Transcript ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 2ei4 A   1 QAGFDLLNDGRPETLWLGIGTLLMLIGTFYFIARGWGVTDKEAREYYAITILVPGIASAAYLAMFFGIGVTEVELASGTVLDIYYARYADWLFTTPLLLLDLALLAKVDRVTIGTLIGVDALMIVTGLIGALSKTPLARYTWWLFSTIAFLFVLYYLLTSLRSAAAKRSEEVRSTFNTLTALVAVLWTAYPILWIVGTEGAGVVGLGIETLAFMVLDVTAKVGFGFVLLRSRAILGET 238
                                    10        20        30        40        50        60        70        80        90       100       110       120       130       140       150       160       170       180       190       200       210       220       230
   Legend:   → Mismatch (orange background)
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  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 Unit
(-)
Class: Membrane and cell surface proteins and peptides (2046)

(-) CATH Domains  (1, 1)

Asymmetric Unit
(-)
Class: Mainly Alpha (13335)

(-) Pfam Domains  (0, 0)

(no "Pfam Domain" information available for 2EI4)

(-) Gene Ontology  (12, 12)

Asymmetric Unit(hide GO term definitions)
Chain A   (BACR2_HALS2 | P29563)
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).
    GO:0009881    photoreceptor activity    The function of absorbing and responding to incidental electromagnetic radiation, particularly visible light. The response may involve a change in conformation.
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:0007602    phototransduction    The sequence of reactions within a cell required to convert absorbed photons into a molecular signal.
    GO:0018298    protein-chromophore linkage    The covalent or noncovalent attachment of a chromophore to a protein.
    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:0050896    response to stimulus    Any process that results in a change in state or activity of a cell or an organism (in terms of movement, secretion, enzyme production, gene expression, etc.) as a result of a stimulus. The process begins with detection of the stimulus and ends with a change in state or activity or the cell or organism.
    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.
    GO:0005886    plasma membrane    The membrane surrounding a cell that separates the cell from its external environment. It consists of a phospholipid bilayer and associated proteins.

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  BACR2_HALS2 | P29563
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 Related Entries

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

UniProtKB/Swiss-Prot
        BACR2_HALS2 | P29563: 1vgo 2z55 3wqj

(-) Related Entries Specified in the PDB File

1uaz DIMERIC FORM OF ARCHAERHODOPSIN-1
1vgo DIMERIC FORM OF ARCHAERHODOPSIN-2