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(-) Description

Title :  ION SELECTIVITY OF OMPF SOAKED IN 0.1M KBR
 
Authors :  D. Balasundaresan, L. Blachowicz, B. Roux
Date :  22 Jul 13  (Deposition) - 23 Oct 13  (Release) - 15 Jan 14  (Revision)
Method :  X-RAY DIFFRACTION
Resolution :  1.90
Chains :  Asym. Unit :  A,B
Biol. Unit 1:  A  (3x)
Biol. Unit 2:  B  (3x)
Keywords :  Porin, Outer Membrane Protein, Beta-Barrel, Ion Transport, Transport Protein (Keyword Search: [Gene Ontology, PubMed, Web (Google)] )
 
Reference :  B. Dhakshnamoorthy, B. K. Ziervogel, L. Blachowicz, B. Roux
A Structural Study Of Ion Permeation In Ompf Porin From Anomalous X-Ray Diffraction And Molecular Dynamics Simulations.
J. Am. Chem. Soc. V. 135 16561 2013
PubMed-ID: 24106986  |  Reference-DOI: 10.1021/JA407783A

(-) Compounds

Molecule 1 - OUTER MEMBRANE PROTEIN F
    Chains: A, B
    Engineered: YES
    Expression System: ESCHERICHIA COLI
    Expression System Plasmid: PPR272
    Expression System Strain: K12
    Expression System Taxid: 83333
    Expression System Vector Type: PLASMID
    Fragment: UNP RESIDUES 23-362
    Gene: B0929, CMLB, COA, CRY, JW0912, OMPF, TOLF
    Organism Scientific: ESCHERICHIA COLI
    Organism Taxid: 83333
    Strain: K12
    Synonym: OUTER MEMBRANE PROTEIN 1A, OUTER MEMBRANE PROTEIN B, OUTER MEMBRANE PROTEIN IA, PORIN OMPF

 Structural Features

(-) Chains, Units

  12
Asymmetric Unit : AB
Biological Unit 1 (3x): A 
Biological Unit 2 (3x):  B

Summary Information (see also Sequences/Alignments below)

(-) Ligands, Modified Residues, Ions  (2, 9)

Asymmetric Unit (2, 9)
No.NameCountTypeFull Name
1BR7Ligand/IonBROMIDE ION
2GOL2Ligand/IonGLYCEROL
Biological Unit 1 (1, 3)
No.NameCountTypeFull Name
1BR-1Ligand/IonBROMIDE ION
2GOL3Ligand/IonGLYCEROL
Biological Unit 2 (1, 3)
No.NameCountTypeFull Name
1BR-1Ligand/IonBROMIDE ION
2GOL3Ligand/IonGLYCEROL

(-) Sites  (9, 9)

Asymmetric Unit (9, 9)
No.NameEvidenceResiduesDescription
1AC1SOFTWARESER A:125 , ARG A:167 , HOH A:532BINDING SITE FOR RESIDUE BR A 401
2AC2SOFTWAREGLN A:66 , GLY A:67 , ASN A:68 , ASN A:69 , BR A:403 , HOH A:519BINDING SITE FOR RESIDUE BR A 402
3AC3SOFTWAREGLY A:67 , ASN A:68 , ASN A:69 , BR A:402BINDING SITE FOR RESIDUE BR A 403
4AC4SOFTWARETYR A:102 , TYR A:106 , ASP A:113 , ALA A:123 , ARG A:132 , HOH A:532BINDING SITE FOR RESIDUE GOL A 404
5AC5SOFTWARETYR B:102 , TYR B:106 , ASP B:113 , ALA B:123 , ARG B:132 , HOH B:563BINDING SITE FOR RESIDUE GOL B 401
6AC6SOFTWARESER B:125 , ARG B:167BINDING SITE FOR RESIDUE BR B 402
7AC7SOFTWAREASN B:69 , SER B:70 , GLU B:71 , THR B:81 , BR B:405 , HOH B:524BINDING SITE FOR RESIDUE BR B 403
8AC8SOFTWAREASN B:306 , MET B:307 , SER B:308 , VAL B:337 , GLN B:339 , HOH B:526BINDING SITE FOR RESIDUE BR B 404
9AC9SOFTWAREGLN B:66 , GLY B:67 , ASN B:68 , ASN B:69 , BR B:403BINDING SITE FOR RESIDUE BR B 405

(-) SS Bonds  (0, 0)

(no "SS Bond" information available for 4LSF)

(-) Cis Peptide Bonds  (0, 0)

(no "Cis Peptide Bond" information available for 4LSF)

 Sequence-Structure Mapping

(-) SAPs(SNPs)/Variants  (0, 0)

(no "SAP(SNP)/Variant" information available for 4LSF)

(-) PROSITE Motifs  (0, 0)

(no "PROSITE Motif" information available for 4LSF)

(-) Exons   (0, 0)

(no "Exon" information available for 4LSF)

(-) 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:339
                                                                                                                                                                                                                                                                                                                                                                                   
               SCOP domains d4lsfa_ A: Porin                                                                                                                                                                                                                                                                                                                                    SCOP domains
               CATH domains --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- CATH domains
               Pfam domains --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author .eeeee..eeeeeeeeeeeeeee...........ee..eeeeeeeeeeeee..eeeeeeeeeeee.............eeeeeeeeeee...eeeeeeeee..hhhhhh.....................eeeeeeeeee.hhhhh...eeeeeeee..............eeeeeeeeee..eeeeeeeeeee.hhhhhhh......eeeeeeeeeeeee..eeeeeeeeeee...eeee....eeee..eeeeeeeeeee.....eeeeeeeeeeeeeee...eeeeeeeeeeeeeeee....eeeeeeeeee..............eeeeeeeeee Sec.struct. author
                 SAPs(SNPs) --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 4lsf A   1 AEIYNKDGNKVDLYGKAVGLHYFSKGGENSYGGNGDMTYARLGFKGETQINSDLTGYGQWEYNFQGNNSEGADAQTGNKTRLAFAGLKYADVGSFDYGRNYGVVYDALGYTDMLPEFGGDTAYSDDFFVGRVGGVATYRNSNFFGLVDGLNFAVQYLGKNERDTARRSNGDGVGGSISYEYEGFGIVGAYGAADRTNLQEAQPLGNGKKAEQWATGLKYDANNIYLAANYGETRNATPITNKFTNTSGFANKTQDVLLVAQYQFDFGLRPSIAYTKSKAKDVEGIGDVDLVNYFEVGATYYFNKNMSTYVDYIINQIDSDNKLGVGSDDTVAVGIVYQF 340
                                    10        20     || 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         
                                                    26|                                                                                                                                                                                                                                                                                                                        
                                                     28                                                                                                                                                                                                                                                                                                                        


Chain B from PDB  Type:PROTEIN  Length:339
                                                                                                                                                                                                                                                                                                                                                                                   
               SCOP domains d4lsfb_ B: Porin                                                                                                                                                                                                                                                                                                                                    SCOP domains
               CATH domains --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- CATH domains
               Pfam domains --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author ...eee..eeeeeeeeeeeeeee...........ee..eeeeeeeeeeeee..eeeeeeeeeeee.............eeeeeeeeeee...eeeeeeeee..hhhhhh.....................eeeeeeeeee.hhhhh...eeeeeeee..............eeeeeeeeee..eeeeeeeeeee.hhhhhhh......eeeeeeeeeeeee..eeeeeeeeeee...eeee....eeee..eeeeeeeeeee.....eeeeeeeeeeeeeee...eeeeeeeeeeeeeeeeee..eeeeeeeeee..............eeeeeeeeee Sec.struct. author
                 SAPs(SNPs) --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 4lsf B   1 AEIYNKDGNKVDLYGKAVGLHYFSKGGENSYGGNGDMTYARLGFKGETQINSDLTGYGQWEYNFQGNNSEGADAQTGNKTRLAFAGLKYADVGSFDYGRNYGVVYDALGYTDMLPEFGGDTAYSDDFFVGRVGGVATYRNSNFFGLVDGLNFAVQYLGKNERDTARRSNGDGVGGSISYEYEGFGIVGAYGAADRTNLQEAQPLGNGKKAEQWATGLKYDANNIYLAANYGETRNATPITNKFTNTSGFANKTQDVLLVAQYQFDFGLRPSIAYTKSKAKDVEGIGDVDLVNYFEVGATYYFNKNMSTYVDYIINQIDSDNKLGVGSDDTVAVGIVYQF 340
                                    10        20     || 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         
                                                    26|                                                                                                                                                                                                                                                                                                                        
                                                     28
   Legend:   → Mismatch (orange background)
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    → 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, 2)

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

(-) CATH Domains  (0, 0)

(no "CATH Domain" information available for 4LSF)

(-) Pfam Domains  (0, 0)

(no "Pfam Domain" information available for 4LSF)

(-) Gene Ontology  (13, 13)

Asymmetric Unit(hide GO term definitions)

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 Related Entries

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

UniProtKB/Swiss-Prot
        OMPF_ECOLI | P02931: 1bt9 1gfm 1gfn 1gfo 1gfp 1gfq 1hxt 1hxu 1hxx 1mpf 1opf 2omf 2zfg 2zld 3fyx 3hw9 3hwb 3k19 3k1b 3o0e 3poq 3pou 3pox 4d5u 4gcp 4gcq 4gcs 4jfb 4lse 4lsh 4lsi

(-) Related Entries Specified in the PDB File

4lse 4lsh 4lsi