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(-) Description

Title :  OSMOPORIN OMPC
 
Authors :  A. Basle, P. Storici, G. Rummel, J. P. Rosenbusch, T. Schirmer
Date :  15 Aug 06  (Deposition) - 06 Sep 06  (Release) - 13 Jul 11  (Revision)
Method :  X-RAY DIFFRACTION
Resolution :  2.00
Chains :  Asym./Biol. Unit :  A,B,C
Keywords :  Transport Protein, Beta-Barrel, Ion Transport, Osmoporin (Keyword Search: [Gene Ontology, PubMed, Web (Google)] )
 
Reference :  A. Basle, G. Rummel, P. Storici, J. P. Rosenbusch, T. Schirmer
Crystal Structure Of Osmoporin Ompc From E. Coli At 2. 0 A.
J. Mol. Biol. V. 362 933 2006
PubMed-ID: 16949612  |  Reference-DOI: 10.1016/J.JMB.2006.08.002

(-) Compounds

Molecule 1 - OUTER MEMBRANE PROTEIN C
    Chains: A, B, C
    Engineered: YES
    Expression System: ESCHERICHIA COLI
    Expression System Plasmid: PMY150
    Expression System Strain: BZB1107
    Expression System Taxid: 562
    Expression System Vector Type: PLASMID
    Organism Scientific: ESCHERICHIA COLI
    Organism Taxid: 562
    Strain: BZB1107
    Synonym: OSMOPORIN OMPC, PORIN OMPC, OUTER MEMBRANE PROTEIN 1B

 Structural Features

(-) Chains, Units

  123
Asymmetric/Biological Unit : ABC

Summary Information (see also Sequences/Alignments below)

(-) Ligands, Modified Residues, Ions  (3, 16)

Asymmetric/Biological Unit (3, 16)
No.NameCountTypeFull Name
1CL2Ligand/IonCHLORIDE ION
2D1211Ligand/IonDODECANE
3MG3Ligand/IonMAGNESIUM ION

(-) Sites  (13, 13)

Asymmetric Unit (13, 13)
No.NameEvidenceResiduesDescription
01AC1SOFTWAREASN A:319 , LEU A:321 , THR A:334 , HOH A:2140 , HOH A:2148BINDING SITE FOR RESIDUE MG A1347
02AC2SOFTWAREASN B:319 , LEU B:321 , THR B:334 , HOH B:2191 , HOH B:2194BINDING SITE FOR RESIDUE MG B1347
03AC3SOFTWARETHR B:47 , ASP B:48 , THR C:47 , ASP C:48BINDING SITE FOR RESIDUE CL B1348
04AC4SOFTWAREASN A:69 , ASN B:69 , ASN C:69BINDING SITE FOR RESIDUE CL B1349
05AC5SOFTWAREASN C:319 , LEU C:321 , THR C:334 , HOH C:2189 , HOH C:2191 , HOH C:2202BINDING SITE FOR RESIDUE MG C1347
06AC6SOFTWAREVAL B:338 , TYR C:277 , GLN C:279 , D12 C:1350BINDING SITE FOR RESIDUE D12 C1348
07AC7SOFTWARETYR A:131 , GLY C:194 , GLY C:223 , GLY C:224BINDING SITE FOR RESIDUE D12 C1349
08AC8SOFTWARELEU B:340 , PHE C:259 , D12 C:1348BINDING SITE FOR RESIDUE D12 C1350
09AC9SOFTWARETYR A:149 , ILE C:197 , THR C:222BINDING SITE FOR RESIDUE D12 C1351
10BC1SOFTWARELYS C:226 , TYR C:227 , VAL C:262 , ALA C:276 , TYR C:277BINDING SITE FOR RESIDUE D12 C1352
11BC2SOFTWARETYR C:94 , HOH C:2027BINDING SITE FOR RESIDUE D12 C1353
12BC3SOFTWAREPHE C:23 , ASN C:336 , ILE C:337 , VAL C:338BINDING SITE FOR RESIDUE D12 C1354
13BC4SOFTWAREARG A:132BINDING SITE FOR RESIDUE D12 C1357

(-) SS Bonds  (0, 0)

(no "SS Bond" information available for 2J1N)

(-) Cis Peptide Bonds  (0, 0)

(no "Cis Peptide Bond" information available for 2J1N)

 Sequence-Structure Mapping

(-) SAPs(SNPs)/Variants  (0, 0)

(no "SAP(SNP)/Variant" information available for 2J1N)

(-) PROSITE Motifs  (1, 3)

Asymmetric/Biological Unit (1, 3)
 PROSITEUniProtKBPDB
No.IDACDescriptionIDLocationCountLocation
1GRAM_NEG_PORINPS00576 General diffusion Gram-negative porins signature.OMPC_ECOLI319-335
 
 		  3A:298-314
B:298-314
C:298-314

(-) Exons   (0, 0)

(no "Exon" information available for 2J1N)

(-) 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    
   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:346
 aligned with OMPC_ECOLI | P06996 from UniProtKB/Swiss-Prot  Length:367

    Alignment length:346
                                    31        41        51        61        71        81        91       101       111       121       131       141       151       161       171       181       191       201       211       221       231       241       251       261       271       281       291       301       311       321       331       341       351       361      
           OMPC_ECOLI    22 AEVYNKDGNKLDLYGKVDGLHYFSDNKDVDGDQTYMRLGFKGETQVTDQLTGYGQWEYQIQGNSAENENNSWTRVAFAGLKFQDVGSFDYGRNYGVVYDVTSWTDVLPEFGGDTYGSDNFMQQRGNGFATYRNTDFFGLVDGLNFAVQYQGKNGNPSGEGFTSGVTNNGRDALRQNGDGVGGSITYDYEGFGIGGAISSSKRTDAQNTAAYIGNGDRAETYTGGLKYDANNIYLAAQYTQTYNATRVGSLGWANKAQNFEAVAQYQFDFGLRPSLAYLQSKGKNLGRGYDDEDILKYVDVGATYYFNKNMSTYVDYKINLLDDNQFTRDAGINTDNIVALGLVYQF 367
               SCOP domains d2j1na_ A: automated matches                                                                                                                                                                                                                                                                                                                               SCOP domains
               CATH domains 2j1nA00 A:1-346 Porin                                                                                                                                                                                                                                                                                                                                      CATH domains
               Pfam domains ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author .eeeee..eeeeeeeeeeeeeee...........eeeeeeeeeee....eeeeeeeeeeee.........eeeeeeeeeeee...eeeeeeeee..hhhhhhhhh..................eeeeeeeeeeehhhhh...eeeeeeee....................hhhhh...eeeeeeeeee..eeeeeeeeeee...............eeeeeeeeeeeee..eeeeeeeeeee............eeeeeeeeeee.....eeeeeeeeeeeee........eeeeeeeeeeeeee....eeeeeeeeee....hhhhhhhh.....eeeeeeeeee Sec.struct. author
                 SAPs(SNPs) ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------GRAM_NEG_PORIN   -------------------------------- PROSITE
                 Transcript ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 2j1n A   1 AEVYNKDGNKLDLYGKVDGLHYFSDNKDVDGDQTYMRLGFKGETQVTDQLTGYGQWEYQIQGNSAENENNSWTRVAFAGLKFQDVGSFDYGRNYGVVYDVTSWTDVLPEFGGDTYGSDNFMQQRGNGFATYRNTDFFGLVDGLNFAVQYQGKNGNPSGEGFTSGVTNNGRDALRQNGDGVGGSITYDYEGFGIGGAISSSKRTDAQNTAAYIGNGDRAETYTGGLKYDANNIYLAAQYTQTYNATRVGSLGWANKAQNFEAVAQYQFDFGLRPSLAYLQSKGKNLGRGYDDEDILKYVDVGATYYFNKNMSTYVDYKINLLDDNQFTRDAGINTDNIVALGLVYQF 346
                                    10        20        30        40        50        60        70        80        90       100       110       120       130       140       150       160       170       180       190       200       210       220       230       240       250       260       270       280       290       300       310       320       330       340      


Chain B from PDB  Type:PROTEIN  Length:346
 aligned with OMPC_ECOLI | P06996 from UniProtKB/Swiss-Prot  Length:367

    Alignment length:346
                                    31        41        51        61        71        81        91       101       111       121       131       141       151       161       171       181       191       201       211       221       231       241       251       261       271       281       291       301       311       321       331       341       351       361      
           OMPC_ECOLI    22 AEVYNKDGNKLDLYGKVDGLHYFSDNKDVDGDQTYMRLGFKGETQVTDQLTGYGQWEYQIQGNSAENENNSWTRVAFAGLKFQDVGSFDYGRNYGVVYDVTSWTDVLPEFGGDTYGSDNFMQQRGNGFATYRNTDFFGLVDGLNFAVQYQGKNGNPSGEGFTSGVTNNGRDALRQNGDGVGGSITYDYEGFGIGGAISSSKRTDAQNTAAYIGNGDRAETYTGGLKYDANNIYLAAQYTQTYNATRVGSLGWANKAQNFEAVAQYQFDFGLRPSLAYLQSKGKNLGRGYDDEDILKYVDVGATYYFNKNMSTYVDYKINLLDDNQFTRDAGINTDNIVALGLVYQF 367
               SCOP domains d2j1nb_ B: automated matches                                                                                                                                                                                                                                                                                                                               SCOP domains
               CATH domains 2j1nB00 B:1-346 Porin                                                                                                                                                                                                                                                                                                                                      CATH domains
               Pfam domains ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author .eeeee..eeeeeeeeeeeeeee...........eeeeeeeeeee....eeeeeeeeeeee.........eeeeeeeeeeee...eeeeeeeee..hhhhhhhhh..................eeeeeeeeee.........eeeeeeee....................hhhhh...eeeeeeeeee..eeeeeeeeeee...............eeeeeeeeeeeee..eeeeeeeeeee............eeeeeeeeeee.....eeeeeeeeeeeee........eeeeeeeeeeeeeeee..eeeeeeeeee....hhhhhhhh.....eeeeeeeeee Sec.struct. author
                 SAPs(SNPs) ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------GRAM_NEG_PORIN   -------------------------------- PROSITE
                 Transcript ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 2j1n B   1 AEVYNKDGNKLDLYGKVDGLHYFSDNKDVDGDQTYMRLGFKGETQVTDQLTGYGQWEYQIQGNSAENENNSWTRVAFAGLKFQDVGSFDYGRNYGVVYDVTSWTDVLPEFGGDTYGSDNFMQQRGNGFATYRNTDFFGLVDGLNFAVQYQGKNGNPSGEGFTSGVTNNGRDALRQNGDGVGGSITYDYEGFGIGGAISSSKRTDAQNTAAYIGNGDRAETYTGGLKYDANNIYLAAQYTQTYNATRVGSLGWANKAQNFEAVAQYQFDFGLRPSLAYLQSKGKNLGRGYDDEDILKYVDVGATYYFNKNMSTYVDYKINLLDDNQFTRDAGINTDNIVALGLVYQF 346
                                    10        20        30        40        50        60        70        80        90       100       110       120       130       140       150       160       170       180       190       200       210       220       230       240       250       260       270       280       290       300       310       320       330       340      


Chain C from PDB  Type:PROTEIN  Length:346
 aligned with OMPC_ECOLI | P06996 from UniProtKB/Swiss-Prot  Length:367

    Alignment length:346
                                    31        41        51        61        71        81        91       101       111       121       131       141       151       161       171       181       191       201       211       221       231       241       251       261       271       281       291       301       311       321       331       341       351       361      
           OMPC_ECOLI    22 AEVYNKDGNKLDLYGKVDGLHYFSDNKDVDGDQTYMRLGFKGETQVTDQLTGYGQWEYQIQGNSAENENNSWTRVAFAGLKFQDVGSFDYGRNYGVVYDVTSWTDVLPEFGGDTYGSDNFMQQRGNGFATYRNTDFFGLVDGLNFAVQYQGKNGNPSGEGFTSGVTNNGRDALRQNGDGVGGSITYDYEGFGIGGAISSSKRTDAQNTAAYIGNGDRAETYTGGLKYDANNIYLAAQYTQTYNATRVGSLGWANKAQNFEAVAQYQFDFGLRPSLAYLQSKGKNLGRGYDDEDILKYVDVGATYYFNKNMSTYVDYKINLLDDNQFTRDAGINTDNIVALGLVYQF 367
               SCOP domains d2j1nc_ C: automated matches                                                                                                                                                                                                                                                                                                                               SCOP domains
               CATH domains 2j1nC00 C:1-346 Porin                                                                                                                                                                                                                                                                                                                                      CATH domains
               Pfam domains ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author .eeeee..eeeeeeeeeeeeeee...........eeeeeeeeeee....eeeeeeeeeeee.........eeeeeeeeeeee...eeeeeeeee..hhhhhhhhh..................eeeeeeeeeehhhhhh...eeeeeeee....................hhhhh...eeeeeeeeee..eeeeeeeeeee.hhhhh.........eeeeeeeeeeeee..eeeeeeeeeee...ee...ee..eeeeeeeeeee.....eeeeeeeeeeeee........eeeeeeeeeeeeeeee..eeeeeeeeee....hhhhhhhh.....eeeeeeeeee Sec.struct. author
                 SAPs(SNPs) ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------GRAM_NEG_PORIN   -------------------------------- PROSITE
                 Transcript ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 2j1n C   1 AEVYNKDGNKLDLYGKVDGLHYFSDNKDVDGDQTYMRLGFKGETQVTDQLTGYGQWEYQIQGNSAENENNSWTRVAFAGLKFQDVGSFDYGRNYGVVYDVTSWTDVLPEFGGDTYGSDNFMQQRGNGFATYRNTDFFGLVDGLNFAVQYQGKNGNPSGEGFTSGVTNNGRDALRQNGDGVGGSITYDYEGFGIGGAISSSKRTDAQNTAAYIGNGDRAETYTGGLKYDANNIYLAAQYTQTYNATRVGSLGWANKAQNFEAVAQYQFDFGLRPSLAYLQSKGKNLGRGYDDEDILKYVDVGATYYFNKNMSTYVDYKINLLDDNQFTRDAGINTDNIVALGLVYQF 346
                                    10        20        30        40        50        60        70        80        90       100       110       120       130       140       150       160       170       180       190       200       210       220       230       240       250       260       270       280       290       300       310       320       330       340
   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, 3)

Asymmetric/Biological Unit
(-)
Class: Membrane and cell surface proteins and peptides (2046)

(-) CATH Domains  (1, 3)

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

(-) Pfam Domains  (0, 0)

(no "Pfam Domain" information available for 2J1N)

(-) Gene Ontology  (12, 12)

Asymmetric/Biological Unit(hide GO term definitions)
Chain A,B,C   (OMPC_ECOLI | P06996)
molecular function
    GO:0046872    metal ion binding    Interacting selectively and non-covalently with any metal ion.
    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.
    GO:0005515    protein binding    Interacting selectively and non-covalently with any protein or protein complex (a complex of two or more proteins that may include other nonprotein molecules).
biological process
    GO:0006974    cellular response to DNA damage stimulus    Any process that results in a change in state or activity of a cell (in terms of movement, secretion, enzyme production, gene expression, etc.) as a result of a stimulus indicating damage to its DNA from environmental insults or errors during metabolism.
    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: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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  2j1n
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 Related Entries

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

UniProtKB/Swiss-Prot
        OMPC_ECOLI | P06996: 2j4u 2zle 3nb3 4a8d

(-) Related Entries Specified in the PDB File

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