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(-) Description

Title :  RIPD (RV1566C) FROM MYCOBACTERIUM TUBERCULOSIS: A NON-CATALYTIC NLPC/P60 DOMAIN PROTEIN, ADAPTATION TO PEPTIDOGLYCAN-BINDING FUNCTION
 
Authors :  D. Both, E. M. Steiner, R. Schnell, G. Schneider
Date :  28 Mar 13  (Deposition) - 30 Oct 13  (Release) - 25 Dec 13  (Revision)
Method :  X-RAY DIFFRACTION
Resolution :  1.56
Chains :  Asym. Unit :  A,B
Biol. Unit 1:  A  (1x)
Biol. Unit 2:  B  (1x)
Keywords :  Cell Wall, Envelope Biogenesis, Nlpc/P60, Cell Invasion (Keyword Search: [Gene Ontology, PubMed, Web (Google)] )
 
Reference :  D. Both, E. M. Steiner, A. Izumi, G. Schneider, R. Schnell
Ripd (Rv1566C) From Mycobacterium Tuberculosis: Adaptation Of An Nlpc/P60 Domain To A Non-Catalytic Peptidoglycan-Binding Function.
Biochem. J. V. 457 33 2014
PubMed-ID: 24107184  |  Reference-DOI: 10.1042/BJ20131227

(-) Compounds

Molecule 1 - INVASION-ASSOCIATED PROTEIN
    Chains: A, B
    Engineered: YES
    Expression System: ESCHERICHIA COLI
    Expression System Plasmid: PNIC28B
    Expression System Strain: BL31(DE3)
    Expression System Taxid: 469008
    Expression System Vector Type: PLASMID
    Fragment: UNP RESIDUES 38-169
    Gene: RV1566C, RVBD_1566C
    Organism Scientific: MYCOBACTERIUM TUBERCULOSIS
    Organism Taxid: 83332
    Strain: H37RV

 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  (1, 7)

Asymmetric Unit (1, 7)
No.NameCountTypeFull Name
1ACT7Ligand/IonACETATE ION
Biological Unit 1 (1, 4)
No.NameCountTypeFull Name
1ACT4Ligand/IonACETATE ION
Biological Unit 2 (1, 3)
No.NameCountTypeFull Name
1ACT3Ligand/IonACETATE ION

(-) Sites  (7, 7)

Asymmetric Unit (7, 7)
No.NameEvidenceResiduesDescription
1AC1SOFTWAREPHE A:58 , ASP A:82 , ALA A:83 , HOH A:307 , HOH A:329 , HOH A:361 , HOH A:375 , ACT B:201BINDING SITE FOR RESIDUE ACT A 201
2AC2SOFTWAREGLN A:88 , LYS A:97 , ARG A:100 , HOH A:310 , GLY B:93 , GLY B:95BINDING SITE FOR RESIDUE ACT A 202
3AC3SOFTWARETYR A:136 , LYS A:139 , HOH A:308 , HOH A:354BINDING SITE FOR RESIDUE ACT A 203
4AC4SOFTWAREARG A:54 , GLN A:150 , VAL A:151BINDING SITE FOR RESIDUE ACT A 204
5AC5SOFTWAREACT A:201 , TYR B:136 , LYS B:139 , HOH B:304BINDING SITE FOR RESIDUE ACT B 201
6AC6SOFTWAREPHE B:58 , ASP B:82 , ALA B:83 , HOH B:301 , HOH B:314 , HOH B:375 , HOH B:389BINDING SITE FOR RESIDUE ACT B 202
7AC7SOFTWARETYR B:106 , GLU B:128 , PRO B:161BINDING SITE FOR RESIDUE ACT B 203

(-) SS Bonds  (0, 0)

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

(-) Cis Peptide Bonds  (0, 0)

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

 Sequence-Structure Mapping

(-) SAPs(SNPs)/Variants  (0, 0)

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(-) PROSITE Motifs  (0, 0)

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(-) Exons   (0, 0)

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(-) Sequences/Alignments

Asymmetric Unit
   Reformat: Number of residues per line =  ('0' or empty: single-line sequence representation)
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   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:130
                                                                                                                                                                  
               SCOP domains ---------------------------------------------------------------------------------------------------------------------------------- SCOP domains
               CATH domains ---------------------------------------------------------------------------------------------------------------------------------- CATH domains
               Pfam domains ---------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author hhhhhhhhhhhhhhh................ee.hhhhh..ee.hhhhhhhhhhhhhh.....hhhhhhhhheeehhhhh....eeeehhhhh.eeeeeee..eeeee...eeeee.........eee.. Sec.struct. author
                 SAPs(SNPs) ---------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE ---------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript ---------------------------------------------------------------------------------------------------------------------------------- Transcript
                 4jxb A  38 DYQQITDVVIARGLSQRGVPFSWAGGGISGPTRGTGTGINTVGFDASGLIQYAYAGAGLKLPRSSGQMYKVGQKVLPQQARKGDLIFYGPEGTQSVALYLGKGQMLEVGDVVQVSPVRTNGMTPYLVRVL 167
                                    47        57        67        77        87        97       107       117       127       137       147       157       167


Chain B from PDB  Type:PROTEIN  Length:129
                                                                                                                                                                 
               SCOP domains --------------------------------------------------------------------------------------------------------------------------------- SCOP domains
               CATH domains --------------------------------------------------------------------------------------------------------------------------------- CATH domains
               Pfam domains --------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author ..hhhhhhhhhhhh................ee.hhhhh..ee.hhhhhhhhhhhh.......hhhhhhhhheeehhhhh....eeeehhhhh.eeeeeee..eeeee...eeeee.........eee.. Sec.struct. author
                 SAPs(SNPs) --------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE --------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript --------------------------------------------------------------------------------------------------------------------------------- Transcript
                 4jxb B  39 YQQITDVVIARGLSQRGVPFSWAGGGISGPTRGTGTGINTVGFDASGLIQYAYAGAGLKLPRSSGQMYKVGQKVLPQQARKGDLIFYGPEGTQSVALYLGKGQMLEVGDVVQVSPVRTNGMTPYLVRVL 167
                                    48        58        68        78        88        98       108       118       128       138       148       158
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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  (0, 0)

(no "SCOP Domain" information available for 4JXB)

(-) CATH Domains  (0, 0)

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

(-) Pfam Domains  (0, 0)

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

(-) Gene Ontology  (1, 1)

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        O06624_MYCTU | O06624: 4lj1

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