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(-) Description

Title :  CRYSTAL STRUCTURAL OF NATIVE ESCU C-TERMINAL DOMAIN
 
Authors :  R. Zarivach, W. Deng, M. Vuckovic, H. B. Felise, H. V. Nguyen, S. I. Mille B. B. Finlay, N. C. J. Strynadka
Date :  18 Jan 08  (Deposition) - 22 Apr 08  (Release) - 13 Jul 11  (Revision)
Method :  X-RAY DIFFRACTION
Resolution :  1.71
Chains :  Asym. Unit :  A,B,C,D
Biol. Unit 1:  B,D  (1x)
Biol. Unit 2:  A,C  (1x)
Biol. Unit 3:  A,B,C,D  (1x)
Keywords :  Auto Cleavage Protein, Intein, T3Ss, Type Iii Secretion System, Membrane Protein, Protein Transport (Keyword Search: [Gene Ontology, PubMed, Web (Google)] )
 
Reference :  R. Zarivach, W. Deng, M. Vuckovic, H. B. Felise, H. V. Nguyen, S. I. Miller, B. B. Finlay, N. C. Strynadka
Structural Analysis Of The Essential Self-Cleaving Type Iii Secretion Proteins Escu And Spas.
Nature V. 453 124 2008
PubMed-ID: 18451864  |  Reference-DOI: 10.1038/NATURE06832

(-) Compounds

Molecule 1 - ESCU
    Chains: A, B
    Engineered: YES
    Expression System: ESCHERICHIA COLI BL21(DE3)
    Expression System Plasmid: PET28A
    Expression System Strain: BL21(DE3)
    Expression System Taxid: 469008
    Expression System Vector Type: PLASMID
    Fragment: UNP RESIDUES 215-262
    Gene: ESCU
    Organism Scientific: ESCHERICHIA COLI
    Organism Taxid: 562
    Strain: EPEC E2348/69
 
Molecule 2 - ESCU
    Chains: C, D
    Engineered: YES
    Expression System: ESCHERICHIA COLI BL21(DE3)
    Expression System Plasmid: PET28A
    Expression System Strain: BL21(DE3)
    Expression System Taxid: 469008
    Expression System Vector Type: PLASMID
    Fragment: UNP RESIDUES 263-345
    Gene: ESCU
    Organism Scientific: ESCHERICHIA COLI
    Organism Taxid: 562
    Strain: EPEC E2348/69

 Structural Features

(-) Chains, Units

  1234
Asymmetric Unit : ABCD
Biological Unit 1 (1x):  B D
Biological Unit 2 (1x): A C 
Biological Unit 3 (1x): ABCD

Summary Information (see also Sequences/Alignments below)

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

Asymmetric Unit (2, 2)
No.NameCountTypeFull Name
1FMT1Ligand/IonFORMIC ACID
2NA1Ligand/IonSODIUM ION
Biological Unit 1 (1, 1)
No.NameCountTypeFull Name
1FMT1Ligand/IonFORMIC ACID
2NA-1Ligand/IonSODIUM ION
Biological Unit 2 (0, 0)
No.NameCountTypeFull Name
1FMT-1Ligand/IonFORMIC ACID
2NA-1Ligand/IonSODIUM ION
Biological Unit 3 (1, 1)
No.NameCountTypeFull Name
1FMT1Ligand/IonFORMIC ACID
2NA-1Ligand/IonSODIUM ION

(-) Sites  (2, 2)

Asymmetric Unit (2, 2)
No.NameEvidenceResiduesDescription
1AC1SOFTWAREASN C:318BINDING SITE FOR RESIDUE NA C 1
2AC2SOFTWAREGLY B:209 , MET B:212 , SER B:248 , LEU B:249 , ALA B:250 , TYR C:324BINDING SITE FOR RESIDUE FMT B 2

(-) SS Bonds  (0, 0)

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

(-) Cis Peptide Bonds  (1, 1)

Asymmetric Unit
No.Residues
1Ser B:246 -Gly B:247

 Sequence-Structure Mapping

(-) SAPs(SNPs)/Variants  (0, 0)

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

(-) PROSITE Motifs  (0, 0)

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

(-) Exons   (0, 0)

(no "Exon" information available for 3BZL)

(-) 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:18
 aligned with Q9AJ26_ECOLX | Q9AJ26 from UniProtKB/TrEMBL  Length:345

    Alignment length:18
                                   254        
         Q9AJ26_ECOLX   245 QSGSLANNIKKSTVIVKN 262
               SCOP domains d3bzl.1            SCOP domains
               CATH domains ------------------ CATH domains
               Pfam domains ------------------ Pfam domains
         Sec.struct. author hhhhhhhhhh...eeee. Sec.struct. author
                 SAPs(SNPs) ------------------ SAPs(SNPs)
                    PROSITE ------------------ PROSITE
                 Transcript ------------------ Transcript
                 3bzl A 245 QSGSLANNIKKSTVIVKN 262
                                   254        


Chain B from PDB  Type:PROTEIN  Length:38
 aligned with Q9AJ26_ECOLX | Q9AJ26 from UniProtKB/TrEMBL  Length:345

    Alignment length:54
                                   218       228       238       248       258    
         Q9AJ26_ECOLX   209 GLKKMKMSKDEVKREAKDTDGNPEIKGERRRLHSEIQSGSLANNIKKSTVIVKN 262
               SCOP domains ------------------------------------------------------ SCOP domains
               CATH domains ------------------------------------------------------ CATH domains
               Pfam domains ------------------------------------------------------ Pfam domains
         Sec.struct. author ...hhhhhhhhhh---------------........-..hhhhhhhhh.eeee. Sec.struct. author
                 SAPs(SNPs) ------------------------------------------------------ SAPs(SNPs)
                    PROSITE ------------------------------------------------------ PROSITE
                 Transcript ------------------------------------------------------ Transcript
                 3bzl B 209 GSHMASMSKDEVK---------------RRRLHSEI-SGSLANNIKKSTVIVKN 262
                                   218  |      -       238     | 248       258    
                                      221             237    244 |                
                                                               246                


Chain C from PDB  Type:PROTEIN  Length:81
 aligned with Q9AJ26_ECOLX | Q9AJ26 from UniProtKB/TrEMBL  Length:345

    Alignment length:81
                                   272       282       292       302       312       322       332       342 
         Q9AJ26_ECOLX   263 PTHIAICLYYKLGETPLPLVIETGKDAKALQIIKLAELYDIPVIEDIPLARSLYKNIHKGQYITEDFFEPVAQLIRIAIDL 343
               SCOP domains d3bzl.1 A:245-262,C:263-343 Type III secretion proteins EscU                      SCOP domains
               CATH domains 3bzlC00 C:263-343 secretion proteins EscU                                         CATH domains
               Pfam domains --------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author ...eeeeee.........eeeeeeehhhhhhhhhhhh.....eeehhhhhhhhhhhh......hhhhhhhhhhhhhhhhhh Sec.struct. author
                 SAPs(SNPs) --------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE --------------------------------------------------------------------------------- PROSITE
                 Transcript --------------------------------------------------------------------------------- Transcript
                 3bzl C 263 PTHIAICLYYKLGETPLPLVIETGKDAKALQIIKLAELYDIPVIEDIPLARSLYKNIHKGQYITEDFFEPVAQLIRIAIDL 343
                                   272       282       292       302       312       322       332       342 


Chain D from PDB  Type:PROTEIN  Length:82
 aligned with Q9AJ26_ECOLX | Q9AJ26 from UniProtKB/TrEMBL  Length:345

    Alignment length:82
                                   272       282       292       302       312       322       332       342  
         Q9AJ26_ECOLX   263 PTHIAICLYYKLGETPLPLVIETGKDAKALQIIKLAELYDIPVIEDIPLARSLYKNIHKGQYITEDFFEPVAQLIRIAIDLD 344
               SCOP domains ---------------------------------------------------------------------------------- SCOP domains
               CATH domains 3bzlD00 D:263-344 secretion proteins EscU                                          CATH domains
               Pfam domains ---------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author ...eeeeee.........eeeeeeehhhhhhhhhhhhhh...eeehhhhhhhhhhhh......hhhhhhhhhhhhhhhhhhh Sec.struct. author
                 SAPs(SNPs) ---------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE ---------------------------------------------------------------------------------- PROSITE
                 Transcript ---------------------------------------------------------------------------------- Transcript
                 3bzl D 263 PTHIAICLYYKLGETPLPLVIETGKDAKALQIIKLAELYDIPVIEDIPLARSLYKNIHKGQYITEDFFEPVAQLIRIAIDLD 344
                                   272       282       292       302       312       322       332       342
   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, 1)

Asymmetric Unit
(-)
Class: Alpha and beta proteins (a+b) (23004)

(-) CATH Domains  (1, 2)

Asymmetric Unit
(-)
Class: Alpha Beta (26913)

(-) Pfam Domains  (0, 0)

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

(-) Gene Ontology  (6, 6)

Asymmetric Unit(hide GO term definitions)
Chain A,B,C,D   (Q9AJ26_ECOLX | Q9AJ26)
molecular function
    GO:0051213    dioxygenase activity    Catalysis of an oxidation-reduction (redox) reaction in which both atoms of oxygen from one molecule of O2 are incorporated into the (reduced) product(s) of the reaction. The two atoms of oxygen may be distributed between two different products.
    GO:0016853    isomerase activity    Catalysis of the geometric or structural changes within one molecule. Isomerase is the systematic name for any enzyme of EC class 5.
biological process
    GO:0055114    oxidation-reduction process    A metabolic process that results in the removal or addition of one or more electrons to or from a substance, with or without the concomitant removal or addition of a proton or protons.
    GO:0009306    protein secretion    The controlled release of proteins from a cell.
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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  3bzl
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  Q9AJ26_ECOLX | Q9AJ26
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 Related Entries

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

UniProtKB/TrEMBL
        Q9AJ26_ECOLX | Q9AJ26: 3bzo 3bzp 3bzr 3bzs 3bzt 3bzv 3bzx 3bzy 3bzz 3c00 3c03

(-) Related Entries Specified in the PDB File

3bzo CRYSTAL STRUCTURAL OF NATIVE ESCU C-TERMINAL DOMAIN WITH SPACE GROUP I 2 2 2
3bzp CRYSTAL STRUCTURAL OF THE MUTATED N262A ESCU/SPAS C- TERMINAL DOMAIN
3bzr CRYSTAL STRUCTURAL OF THE MUTATED N262D ESCU/SPAS C- TERMINAL DOMAIN
3bzs CRYSTAL STRUCTURAL OF THE MUTATED N262D ESCU/SPAS C- TERMINAL DOMAIN
3bzt CRYSTAL STRUCTURAL OF THE MUTATED P263A ESCU/SPAS C- TERMINAL DOMAIN
3bzv CRYSTAL STRUCTURAL OF THE MUTATED T264A ESCU/SPAS C- TERMINAL DOMAIN
3bzx CRYSTAL STRUCTURAL OF THE MUTATED H265A ESCU/SPAS C- TERMINAL DOMAIN
3bzy CRYSTAL STRUCTURAL OF THE MUTATED Y316D ESCU/SPAS C- TERMINAL DOMAIN
3bzz CRYSTAL STRUCTURAL OF THE MUTATED R313T ESCU/SPAS C- TERMINAL DOMAIN
3c00 CRYSTAL STRUCTURAL OF THE MUTATED G247T ESCU/SPAS C- TERMINAL DOMAIN
3c01 CRYSTAL STRUCTURAL OF NATIVE SPAS C-TERMINAL DOMAIN
3c03 CRYSTAL STRUCTURAL OF THE MUTATED P263A ESCU/SPAS C- TERMINAL DOMAIN