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(-) Description

Title :  TRANSLOCATOR DOMAIN OF AUTOTRANSPORTER NALP FROM NEISSERIA MENINGITIDIS
 
Authors :  C. J. Oomen, P. Van Ulsen, P. Van Gelder, M. Feijen, J. Tommassen, P. Gros
Date :  02 Mar 04  (Deposition) - 19 Mar 04  (Release) - 24 Feb 09  (Revision)
Method :  X-RAY DIFFRACTION
Resolution :  3.20
Chains :  Asym./Biol. Unit :  X
Keywords :  Autotransporter, Translocator Domain, Membrane Protein, Outer Membrane, Beta-Domain, Beta-Barrel (Keyword Search: [Gene Ontology, PubMed, Web (Google)] )
 
Reference :  C. J. Oomen, P. Van Ulsen, P. Van Gelder, M. Feijen, J. Tommassen, P. Gros
Structure Of The Translocator Domain Of A Bacterial Autotransporter
Embo J. V. 23 1257 2004
PubMed-ID: 15014442  |  Reference-DOI: 10.1038/SJ.EMBOJ.7600148

(-) Compounds

Molecule 1 - NALP
    Chains: X
    Engineered: YES
    Expression System: ESCHERICHIA COLI
    Expression System Plasmid: PET11A
    Expression System Strain: B834(DE3)
    Expression System Taxid: 562
    Fragment: OUTER MEMBRANE TRANSLOCATOR DOMAIN, RESIDUES 776-1083
    Organism Scientific: NEISSERIA MENINGITIDIS
    Organism Taxid: 487
    Other Details: OUTER MEMBRANE. REFOLDED PROTEIN
    Strain: H44/76
    Synonym: OUTER MEMBRANE PROTEIN

 Structural Features

(-) Chains, Units

  1
Asymmetric/Biological Unit : X

Summary Information (see also Sequences/Alignments below)

(-) Ligands, Modified Residues, Ions  (2, 6)

Asymmetric/Biological Unit (2, 6)
No.NameCountTypeFull Name
1CXE1Ligand/IonPENTAETHYLENE GLYCOL MONODECYL ETHER
2MSE5Mod. Amino AcidSELENOMETHIONINE

(-) Sites  (1, 1)

Asymmetric Unit (1, 1)
No.NameEvidenceResiduesDescription
1AC1SOFTWAREGLY X:901 , LEU X:902 , PHE X:903BINDING SITE FOR RESIDUE CXE X2085

(-) SS Bonds  (0, 0)

(no "SS Bond" information available for 1UYO)

(-) Cis Peptide Bonds  (0, 0)

(no "Cis Peptide Bond" information available for 1UYO)

 Sequence-Structure Mapping

(-) SAPs(SNPs)/Variants  (0, 0)

(no "SAP(SNP)/Variant" information available for 1UYO)

(-) PROSITE Motifs  (0, 0)

(no "PROSITE Motif" information available for 1UYO)

(-) Exons   (0, 0)

(no "Exon" information available for 1UYO)

(-) 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 X from PDB  Type:PROTEIN  Length:277
 aligned with Q8GKS5_NEIME | Q8GKS5 from UniProtKB/TrEMBL  Length:1083

    Alignment length:300
                                   793       803       813       823       833       843       853       863       873       883       893       903       913       923       933       943       953       963       973       983       993      1003      1013      1023      1033      1043      1053      1063      1073      1083
        Q8GKS5_NEIME    784 LAATVYADSTAAHADMQGRRLKAVSDGLDHNGTGLRVIAQTQQDGGTWEQGGVEGKMRGSTQTVGIAAKTGENTTAAATLGMGRSTWSENSANAKTDSISLFAGIRHDAGDIGYLKGLFSYGRYKNSISRSTGADEHAEGSVNGTLMQLGALGGVNVPFAATGDLTVEGGLRYDLLKQDAFAEKGSALGWSGNSLTEGTLVGLAGLKLSQPLSDKAVLFATAGVERDLNGRDYTVTGGFTGATAATGKTGARNMPHTRLVAGLGADVEFGNGWNGLARYSYAGSKQYGNHSGRVGVGYRF 1083
               SCOP domains d1uyox_ X: Translocator domain   of NalP                                                                                                                                                                                                                                                                     SCOP domains
               CATH domains 1uyoX00 X:785-1084 autotranspo  rter esta                                                                                                                                                                                                                                                                    CATH domains
               Pfam domains --------------------------Auto  transporter-1uyoX   01 X:811-1075                                                                                                                                                                                                                                  --------- Pfam domains
         Sec.struct. author ..hhhhhhhhhhhhhhhhhhhhhhhhhhhh--...eeeeeeeeeeee..---...eeeeeeeeeeeeeeee..eeeeeeeeeeeeeee...eeeeeeeeeeeeeeeeee...eeeeeeeeeeeeeeeeeeeee..eeeeeeeeeeeeeeeeeeeeee.---..eeeeeeeeeeeeeee................eeeeeeeeeeeeeeeeeee..eeeeeeeeee............---------------.....eeeeeeeeeee.....eeeeeeeeee....eeeeeeeeeeee. Sec.struct. author
                 SAPs(SNPs) ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ SAPs(SNPs)
                    PROSITE ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ PROSITE
                 Transcript ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ Transcript
                1uyo X  785 LAATVYADSTAAHADmQGRRLKAVSDGLDH--TGLRVIAQTQQDGGTWE---VEGKmRGSTQTVGIAAKTGENTTAAATLGmGRSTWSENSANAKTDSISLFAGIRHDAGDIGYLKGLFSYGRYKNSISRSTGADEHAEGSVNGTLmQLGALGGVNVP---TGDLTVEGGLRYDLLKQDAFAEKGSALGWSGNSLTEGTLVGLAGLKLSQPLSDKAVLFATAGVERDLNGRDYTVTG---------------NmPHTRLVAGLGADVEFGNGWNGLARYSYAGSKQYGNHSGRVGVGYRF 1084
                                   794     | 804       814  |    824        |-  |   |844       854       864 |     874       884       894       904       914       924      |934       | - |     954       964       974       984       994      1004      1014      |  -         -  ||  1044      1054      1064      1074      1084
                                         800-MSE       814  |             833 837   |                      866-MSE                                                          931-MSE    942 946                                                                       1021            1037|                                              
                                                          817                     841-MSE                                                                                                                                                                                             1038-MSE
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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/Biological Unit
(-)
Class: Membrane and cell surface proteins and peptides (2046)

(-) CATH Domains  (1, 1)

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

(-) Pfam Domains  (1, 1)

Asymmetric/Biological Unit
(-)
Clan: MBB (97)

(-) Gene Ontology  (2, 2)

Asymmetric/Biological Unit(hide GO term definitions)
Chain X   (Q8GKS5_NEIME | Q8GKS5)
molecular function
    GO:0004252    serine-type endopeptidase activity    Catalysis of the hydrolysis of internal, alpha-peptide bonds in a polypeptide chain by a catalytic mechanism that involves a catalytic triad consisting of a serine nucleophile that is activated by a proton relay involving an acidic residue (e.g. aspartate or glutamate) and a basic residue (usually histidine).
biological process
    GO:0006508    proteolysis    The hydrolysis of proteins into smaller polypeptides and/or amino acids by cleavage of their peptide bonds.

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        Q8GKS5_NEIME | Q8GKS5: 1uyn

(-) Related Entries Specified in the PDB File

1uyn STRUCTURE OF TRANSLOCATOR DOMAIN OF AUTOTRANSPORTER NALP FROM NEISSERIA MENINGITIDIS