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(-) Description

Title :  STRUCTURE OF POMBC5, A PERIPLASMIC FRAGMENT OF POMB FROM VIBRIO
 
Authors :  M. Takao, M. Sakuma, S. Zhu, M. Homma, S. Kojima, K. Imada
Date :  17 Jan 14  (Deposition) - 10 Sep 14  (Release) - 23 Dec 15  (Revision)
Method :  X-RAY DIFFRACTION
Resolution :  2.00
Chains :  Asym./Biol. Unit :  A,B
Keywords :  Ompa-Like, Stator, Peptidoglycan, Membrane Protein (Keyword Search: [Gene Ontology, PubMed, Web (Google)] )
 
Reference :  S. Zhu, M. Takao, N. Li, M. Sakuma, Y. Nishino, M. Homma, S. Kojima, K. Imada
Conformational Change In The Periplamic Region Of The Flagellar Stator Coupled With The Assembly Around The Rotor
Proc. Natl. Acad. Sci. Usa V. 111 13523 2014
PubMed-ID: 25197056  |  Reference-DOI: 10.1073/PNAS.1324201111

(-) Compounds

Molecule 1 - POMB
    Chains: A, B
    Engineered: YES
    Expression System: ESCHERICHIA COLI
    Expression System Plasmid: PET19B
    Expression System Strain: BL21(DE3)
    Expression System Taxid: 562
    Expression System Vector Type: PLASMID
    Fragment: UNP RESIDUES 135-315
    Gene: POMB
    Organism Scientific: VIBRIO ALGINOLYTICUS
    Organism Taxid: 663

 Structural Features

(-) Chains, Units

  12
Asymmetric/Biological Unit : AB

Summary Information (see also Sequences/Alignments below)

(-) Ligands, Modified Residues, Ions  (1, 1)

Asymmetric/Biological Unit (1, 1)
No.NameCountTypeFull Name
1ACT1Ligand/IonACETATE ION

(-) Sites  (1, 1)

Asymmetric Unit (1, 1)
No.NameEvidenceResiduesDescription
1AC1SOFTWAREGLU A:178 , ARG A:189 , LEU A:292 , HOH A:559BINDING SITE FOR RESIDUE ACT A 401

(-) SS Bonds  (0, 0)

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

(-) Cis Peptide Bonds  (0, 0)

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

 Sequence-Structure Mapping

(-) SAPs(SNPs)/Variants  (0, 0)

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

(-) PROSITE Motifs  (0, 0)

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

(-) Exons   (0, 0)

(no "Exon" information available for 3WPW)

(-) 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:149
 aligned with O06874_VIBAL | O06874 from UniProtKB/TrEMBL  Length:315

    Alignment length:149
                                   163       173       183       193       203       213       223       233       243       253       263       273       283       293         
         O06874_VIBAL   154 SQEMETLMESIKKALEREIEQGAIEVENLGQQIVIRMREKGAFPEGSAFLQPKFRPLVRQIAELVKDVPGIVRVSGHTDNRPLDSELYRSNWDLSSQRAVSVAQEMEKVRGFSHQRLRVRGMADTEPLLPNDSDDNRALNRRVEISIMQ 302
               SCOP domains ----------------------------------------------------------------------------------------------------------------------------------------------------- SCOP domains
               CATH domains ----------------------------------------------------------------------------------------------------------------------------------------------------- CATH domains
               Pfam domains ----------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author hhhhhhhhhhhhhhhhhhhhh..eeeee...eeeeee................hhhhhhhhhhhhh....eeeeee.............hhhhhhhhhhhhhhhhhh.....hhh.eeeee...........hhhhhhhhh.eeeeee. Sec.struct. author
                 SAPs(SNPs) ----------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE ----------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript ----------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 3wpw A 154 SQEMETLMESIKKALEREIEQGAIEVENLGQQIVIRMREKGAFPEGSAFLQPKFRPLVRQIAELVKDVPGIVRVSGHTDNRPLDSELYRSNWDLSSQRAVSVAQEMEKVRGFSHQRLRVRGMADTEPLLPNDSDDNRALNRRVEISIMQ 302
                                   163       173       183       193       203       213       223       233       243       253       263       273       283       293         


Chain B from PDB  Type:PROTEIN  Length:149
 aligned with O06874_VIBAL | O06874 from UniProtKB/TrEMBL  Length:315

    Alignment length:149
                                   163       173       183       193       203       213       223       233       243       253       263       273       283       293         
         O06874_VIBAL   154 SQEMETLMESIKKALEREIEQGAIEVENLGQQIVIRMREKGAFPEGSAFLQPKFRPLVRQIAELVKDVPGIVRVSGHTDNRPLDSELYRSNWDLSSQRAVSVAQEMEKVRGFSHQRLRVRGMADTEPLLPNDSDDNRALNRRVEISIMQ 302
               SCOP domains ----------------------------------------------------------------------------------------------------------------------------------------------------- SCOP domains
               CATH domains ----------------------------------------------------------------------------------------------------------------------------------------------------- CATH domains
               Pfam domains ----------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author .hhhhhhhhhhhhhhhhhhhhh.eeeee...eeeeee.............hhhhhhhhhhhhhhhh....eeeeee.............hhhhhhhhhhhhhhhhhh.....hhh.eeeee...........hhhhhhhhh.eeeeee. Sec.struct. author
                 SAPs(SNPs) ----------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE ----------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript ----------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 3wpw B 154 SQEMETLMESIKKALEREIEQGAIEVENLGQQIVIRMREKGAFPEGSAFLQPKFRPLVRQIAELVKDVPGIVRVSGHTDNRPLDSELYRSNWDLSSQRAVSVAQEMEKVRGFSHQRLRVRGMADTEPLLPNDSDDNRALNRRVEISIMQ 302
                                   163       173       183       193       203       213       223       233       243       253       263       273       283       293
   Legend:   → Mismatch (orange background)
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  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 3WPW)

(-) CATH Domains  (0, 0)

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

(-) Pfam Domains  (0, 0)

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

(-) Gene Ontology  (3, 3)

Asymmetric/Biological Unit(hide GO term definitions)
Chain A,B   (O06874_VIBAL | O06874)
molecular function
    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).
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
        O06874_VIBAL | O06874: 3wpx

(-) Related Entries Specified in the PDB File

3wpx