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(-) Description

Title :  STRUCTURE OF THE MONOMERIC OUTER MEMBRANE PORIN OMPG IN THE OPEN AND CLOSED CONFORMATION
 
Authors :  O. Yildiz, K. R. Vinothkumar, P. Goswami, W. Kuehlbrandt
Date :  05 Jul 06  (Deposition) - 14 Aug 06  (Release) - 24 Feb 09  (Revision)
Method :  X-RAY DIFFRACTION
Resolution :  2.70
Chains :  Asym. Unit :  A,B
Biol. Unit 1:  A  (1x)
Biol. Unit 2:  B  (1x)
Keywords :  Transmembrane, Outer Membrane, Ion Channel, Porin, Membrane, Transport, Ion Transport (Keyword Search: [Gene Ontology, PubMed, Web (Google)] )
 
Reference :  O. Yildiz, K. R. Vinothkumar, P. Goswami, W. Kuhlbrandt
Structure Of The Monomeric Outer-Membrane Porin Ompg In The Open And Closed Conformation.
Embo J. V. 25 3702 2006
PubMed-ID: 16888630  |  Reference-DOI: 10.1038/SJ.EMBOJ.7601237

(-) Compounds

Molecule 1 - OUTER MEMBRANE PROTEIN G
    Atcc: 10798
    Chains: A, B
    Engineered: YES
    Expression System: ESCHERICHIA COLI
    Expression System Strain: BL21(DE3)
    Expression System Taxid: 469008
    Expression System Vector: PET26B
    Fragment: TRANSMEMBRANE BETA-BARREL, RESIDUES 22-301
    Organism Scientific: ESCHERICHIA COLI
    Organism Taxid: 83333
    Strain: K12
    Synonym: OMPG

 Structural Features

(-) Chains, Units

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

Summary Information (see also Sequences/Alignments below)

(-) Ligands, Modified Residues, Ions  (3, 17)

Asymmetric Unit (3, 17)
No.NameCountTypeFull Name
1BGC4Ligand/IonBETA-D-GLUCOSE
2BOG12Ligand/IonB-OCTYLGLUCOSIDE
3LDA1Ligand/IonLAURYL DIMETHYLAMINE-N-OXIDE
Biological Unit 1 (3, 10)
No.NameCountTypeFull Name
1BGC1Ligand/IonBETA-D-GLUCOSE
2BOG8Ligand/IonB-OCTYLGLUCOSIDE
3LDA1Ligand/IonLAURYL DIMETHYLAMINE-N-OXIDE
Biological Unit 2 (2, 7)
No.NameCountTypeFull Name
1BGC3Ligand/IonBETA-D-GLUCOSE
2BOG4Ligand/IonB-OCTYLGLUCOSIDE
3LDA-1Ligand/IonLAURYL DIMETHYLAMINE-N-OXIDE

(-) Sites  (17, 17)

Asymmetric Unit (17, 17)
No.NameEvidenceResiduesDescription
01AC1SOFTWARELYS A:113 , SER A:133 , TYR A:135BINDING SITE FOR RESIDUE BGC A1281
02AC2SOFTWAREGLU A:15 , TRP A:131 , ARG A:168 , GLU A:253 , TYR A:271 , HOH A:2013BINDING SITE FOR RESIDUE BOG A1283
03AC3SOFTWARETRP A:6 , GLU A:20BINDING SITE FOR RESIDUE BOG A1284
04AC4SOFTWARETYR A:14 , SER A:33 , VAL A:34 , ASP A:56 , ASP A:125 , TYR A:159 , PHE A:161 , LEU A:167 , BOG A:1289BINDING SITE FOR RESIDUE BOG A1285
05AC5SOFTWAREASN A:40 , TRP A:43 , TYR A:75BINDING SITE FOR RESIDUE BOG A1286
06AC6SOFTWARETRP A:112BINDING SITE FOR RESIDUE BOG A1287
07AC7SOFTWAREHOH A:2015BINDING SITE FOR RESIDUE BOG A1288
08AC8SOFTWARELEU A:126 , LEU A:157 , BOG A:1285 , BOG A:1290 , HOH A:2017BINDING SITE FOR RESIDUE BOG A1289
09AC9SOFTWAREBOG A:1289BINDING SITE FOR RESIDUE BOG A1290
10BC1SOFTWAREPHE B:256 , TRP B:258 , SER B:266 , LYS B:268 , PHE B:280 , BOG B:1284BINDING SITE FOR RESIDUE BGC B1281
11BC2SOFTWAREGLU B:15 , ARG B:211 , ARG B:235 , GLU B:253 , TYR B:271 , BGC B:1283 , HOH B:2002BINDING SITE FOR RESIDUE BGC B1282
12BC3SOFTWARETRP B:131 , ARG B:168 , ARG B:211 , BGC B:1282 , HOH B:2015BINDING SITE FOR RESIDUE BGC B1283
13BC4SOFTWARETRP B:6 , GLU B:20 , PHE B:256 , BGC B:1281BINDING SITE FOR RESIDUE BOG B1284
14BC5SOFTWARELEU B:157 , HOH B:2018BINDING SITE FOR RESIDUE BOG B1285
15BC6SOFTWAREILE B:10 , VAL B:34 , PHE B:36 , LEU B:167 , TYR B:196 , LEU B:197 , PRO B:208 , HOH B:2019BINDING SITE FOR RESIDUE BOG B1286
16BC7SOFTWAREVAL B:169 , ILE B:193 , LEU B:214 , HOH B:2020BINDING SITE FOR RESIDUE BOG B1287
17BC8SOFTWAREILE A:10 , PHE A:36 , LEU A:167 , PRO A:208BINDING SITE FOR RESIDUE LDA A1282

(-) SS Bonds  (0, 0)

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

(-) Cis Peptide Bonds  (21, 21)

Asymmetric Unit
No.Residues
1Glu A:20 -Gly A:21
2Tyr A:22 -Gly A:23
3Gly A:23 -Glu A:24
4Met A:26 -Asp A:27
5Ala A:38 -Ala A:39
6Ala A:59 -Gly A:60
7Asp A:181 -Ser A:182
8Gln A:223 -Asp A:224
9Glu A:229 -Gly A:230
10Gly A:230 -His A:231
11Glu B:20 -Gly B:21
12Tyr B:22 -Gly B:23
13Gly B:23 -Glu B:24
14Met B:26 -Asp B:27
15Ala B:38 -Ala B:39
16Ala B:59 -Gly B:60
17Gly B:60 -Lys B:61
18Asp B:181 -Ser B:182
19Trp B:222 -Gln B:223
20Arg B:228 -Glu B:229
21Gly B:230 -His B:231

 Sequence-Structure Mapping

(-) SAPs(SNPs)/Variants  (0, 0)

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

(-) PROSITE Motifs  (0, 0)

(no "PROSITE Motif" information available for 2IWW)

(-) Exons   (0, 0)

(no "Exon" information available for 2IWW)

(-) 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:277
 aligned with OMPG_ECOLI | P76045 from UniProtKB/Swiss-Prot  Length:301

    Alignment length:277
                                    34        44        54        64        74        84        94       104       114       124       134       144       154       164       174       184       194       204       214       224       234       244       254       264       274       284       294       
           OMPG_ECOLI    25 NDWHFNIGAMYEIENVEGYGEDMDGLAEPSVYFNAANGPWRIALAYYQEGPVDYSAGKRGTWFDRPELEVHYQFLENDDFSFGLTGGFRNYGYHYVDEPGKDTANMQRWKIAPDWDVKLTDDLRFNGWLSMYKFANDLNTTGYADTRVETETGLQYTFNETVALRVNYYLERGFNMDDSRNNGEFSTQEIRAYLPLTLGNHSVTPYTRIGLDRWSNWDWQDDIEREGHDFNRVGLFYGYDFQNGLSVSLEYAFEWQDHDEGDSDKFHYAGVGVNYSF 301
               SCOP domains ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SCOP domains
               CATH domains 2iwwA00 A:4-280 monomeric porin ompg                                                                                                                                                                                                                                                  CATH domains
               Pfam domains ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author ...eeeeeeeeeeeee.........eeeeeeeeeeee..eeeeeeeeeeee..........eeeeeeeeeeeeee....eeeeeeeeeeeeeee........eeeeeeeeeeeeeeee....eeeeeeeeeeee..hhhhhh...eeeeeeeeeeeeee..eeeeeeeeeeeee..........eeeeeeeee.......eeeeeeeeeeeeee................eeeeeeeeee....eeeeeeeeeeee.......eeeeeeeeeeeee. Sec.struct. author
                 SAPs(SNPs) ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 2iww A   4 NDWHFNIGAMYEIENVEGYGEDMDGLAEPSVYFNAANGPWRIALAYYQEGPVDYSAGKRGTWFDRPELEVHYQFLENDDFSFGLTGGFRNYGYHYVDEPGKDTANMQRWKIAPDWDVKLTDDLRFNGWLSMYKFANDLNTTGYADTRVETETGLQYTFNETVALRVNYYLERGFNMDDSRNNGEFSTQEIRAYLPLTLGNHSVTPYTRIGLDRWSNWDWQDDIEREGHDFNRVGLFYGYDFQNGLSVSLEYAFEWQDHDEGDSDKFHYAGVGVNYSF 280
                                    13        23        33        43        53        63        73        83        93       103       113       123       133       143       153       163       173       183       193       203       213       223       233       243       253       263       273       


Chain B from PDB  Type:PROTEIN  Length:277
 aligned with OMPG_ECOLI | P76045 from UniProtKB/Swiss-Prot  Length:301

    Alignment length:277
                                    34        44        54        64        74        84        94       104       114       124       134       144       154       164       174       184       194       204       214       224       234       244       254       264       274       284       294       
           OMPG_ECOLI    25 NDWHFNIGAMYEIENVEGYGEDMDGLAEPSVYFNAANGPWRIALAYYQEGPVDYSAGKRGTWFDRPELEVHYQFLENDDFSFGLTGGFRNYGYHYVDEPGKDTANMQRWKIAPDWDVKLTDDLRFNGWLSMYKFANDLNTTGYADTRVETETGLQYTFNETVALRVNYYLERGFNMDDSRNNGEFSTQEIRAYLPLTLGNHSVTPYTRIGLDRWSNWDWQDDIEREGHDFNRVGLFYGYDFQNGLSVSLEYAFEWQDHDEGDSDKFHYAGVGVNYSF 301
               SCOP domains ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SCOP domains
               CATH domains 2iwwB00 B:4-280 monomeric porin ompg                                                                                                                                                                                                                                                  CATH domains
               Pfam domains ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author ...eeeeeeeeeeeee.........eeeeeeeeeeee..eeeeeeeeeeee..........eeeeeeeeeeeeee....eeeeeeeeeeeeeee........eeeeeeeeeeeeeeee....eeeeeeeeeeee..hhhhhh...eeeeeeeeeeeeee..eeeeeeeeeeeee..........eeeeeeeee..eee..eeeeeeeeeeeeeee...............eeeeeeeeee....eeeeeeeeeeee.......eeeeeeeeeeeee. Sec.struct. author
                 SAPs(SNPs) ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 2iww B   4 NDWHFNIGAMYEIENVEGYGEDMDGLAEPSVYFNAANGPWRIALAYYQEGPVDYSAGKRGTWFDRPELEVHYQFLENDDFSFGLTGGFRNYGYHYVDEPGKDTANMQRWKIAPDWDVKLTDDLRFNGWLSMYKFANDLNTTGYADTRVETETGLQYTFNETVALRVNYYLERGFNMDDSRNNGEFSTQEIRAYLPLTLGNHSVTPYTRIGLDRWSNWDWQDDIEREGHDFNRVGLFYGYDFQNGLSVSLEYAFEWQDHDEGDSDKFHYAGVGVNYSF 280
                                    13        23        33        43        53        63        73        83        93       103       113       123       133       143       153       163       173       183       193       203       213       223       233       243       253       263       273
   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 2IWW)

(-) CATH Domains  (1, 2)

Asymmetric Unit
(-)
Class: Mainly Beta (13760)

(-) Pfam Domains  (0, 0)

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

(-) Gene Ontology  (13, 13)

Asymmetric Unit(hide GO term definitions)
Chain A,B   (OMPG_ECOLI | P76045)
molecular function
    GO:0015481    maltose transporting porin activity    Catalysis of the transfer of maltose from one side of the membrane to the other. Maltose is the disaccharide 4-O-alpha-D-glucopyranosyl-D-glucopyranose, an intermediate in the enzymatic breakdown of glycogen and starch. This transporter is a porin so enables the energy independent passage of substances, sized less than 1000 Da, across a membrane. The transmembrane portions of porins consist exclusively of beta-strands which form a beta-barrel. They are found in the outer membranes of Gram-negative bacteria, mitochondria, plastids and possibly acid-fast Gram-positive bacteria.
    GO:0015478    oligosaccharide transporting porin activity    Catalysis of the transfer of oligosaccharide, sized less than 1000 Da, from one side of the membrane to the other. The transmembrane portions of porins consist exclusively of beta-strands which form a beta-barrel. They are found in the outer membranes of Gram-negative bacteria, mitochondria, plastids and possibly acid-fast Gram-positive bacteria.
    GO:0015288    porin activity    Catalysis of the transfer of substances, sized less than 1000 Da, from one side of the membrane to the other. The transmembrane portions of porins consist exclusively of beta-strands which form a beta-barrel. They are found in the outer membranes of Gram-negative bacteria, mitochondria, plastids and possibly acid-fast Gram-positive bacteria.
biological process
    GO:0034219    carbohydrate transmembrane transport    The process in which a carbohydrate 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:0015768    maltose transport    The directed movement of maltose into, out of or within a cell, or between cells, by means of some agent such as a transporter or pore. Maltose is the disaccharide 4-O-alpha-D-glucopyranosyl-D-glucopyranose, an intermediate in the catabolism of glycogen and starch.
    GO:0015772    oligosaccharide transport    The directed movement of oligosaccharides into, out of or within a cell, or between cells, by means of some agent such as a transporter or pore. Oligosaccharides are molecules with between two and (about) 20 monosaccharide residues connected by glycosidic linkages.
    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:0009279    cell outer membrane    A lipid bilayer that forms the outermost membrane of the cell envelope; enriched in polysaccharide and protein; the outer leaflet of the membrane contains specific lipopolysaccharide structures.
    GO:0045203    integral component of cell outer membrane    The component of the cell outer membrane consisting of the gene products having at least some part of their peptide sequence embedded in the hydrophobic region of the membrane.
    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:0046930    pore complex    Any small opening in a membrane that allows the passage of gases and/or liquids.

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 Related Entries

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

UniProtKB/Swiss-Prot
        OMPG_ECOLI | P76045: 2f1c 2iwv 2jqy 2wvp 2x9k 4ctd

(-) Related Entries Specified in the PDB File

2f1c CRYSTAL STRUCTURE OF THE MONOMERIC PORIN OMPG
2iwv STRUCTURE OF THE MONOMERIC OUTER MEMBRANE PORIN OMPG IN THE OPEN AND CLOSED CONFORMATION