Show PDB file:   
         Plain Text   HTML   (compressed file size)
QuickSearch:   
by PDB,NDB,UniProt,PROSITE Code or Search Term(s)  
(-)Asymmetric Unit
(-)Biological Unit 1
(-)Biological Unit 2
collapse expand < >
Image Asymmetric Unit
Asymmetric Unit  (Jmol Viewer)
Image Biological Unit 1
Biological Unit 1  (Jmol Viewer)
Image Biological Unit 2
Biological Unit 2  (Jmol Viewer)

(-) Description

Title :  THE N-TERMINAL DOMAIN OF RIBOSOMAL-PROTEIN-ALANINE ACETYLTRANSFERASE FROM CLOSTRIDIUM ACETOBUTYLICUM ATCC 824
 
Authors :  B. Nocek, R. Hendricks, G. Cobb, A. Joachimiak, Midwest Center For S Genomics (Mcsg)
Date :  02 Jul 08  (Deposition) - 02 Sep 08  (Release) - 13 Jul 11  (Revision)
Method :  X-RAY DIFFRACTION
Resolution :  2.10
Chains :  Asym. Unit :  A,B
Biol. Unit 1:  A (1x),B (1x)
Biol. Unit 2:  A,B  (1x)
Keywords :  N-Terminal Domain Of Ribosomal-Protein-Alanine Acetyltransferase, Mcsg, Psi, Structural Genomics, Protein Structure Initiative, Midwest Center For Structural Genomics, Ribosomal Protein, Transferase (Keyword Search: [Gene Ontology, PubMed, Web (Google)] )
 
Reference :  B. Nocek, R. Hendricks, G. Cobb, A. Joachimiak
The N-Terminal Domain Of Ribosomal-Protein-Alanine Acetyltransferase From Clostridium Acetobutylicum Atcc 824
To Be Published
PubMed: search

(-) Compounds

Molecule 1 - RIBOSOMAL-PROTEIN-ALANINE ACETYLTRANSFERASE
    Chains: A, B
    Engineered: YES
    Expression System: ESCHERICHIA COLI
    Expression System Plasmid: PMCSG7
    Expression System Strain: BL21(DE3)
    Expression System Taxid: 562
    Expression System Vector Type: PLASMID
    Fragment: RESIDUES 1-132
    Gene: CA_C0152
    Organism Scientific: CLOSTRIDIUM ACETOBUTYLICUM
    Organism Taxid: 1488
    Strain: ATCC 824
    Synonym: ACETYLATING ENZYME FOR N-TERMINAL OF RIBOSOMAL PROTEIN S5

 Structural Features

(-) Chains, Units

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

Summary Information (see also Sequences/Alignments below)

(-) Ligands, Modified Residues, Ions  (1, 9)

Asymmetric Unit (1, 9)
No.NameCountTypeFull Name
1MSE9Mod. Amino AcidSELENOMETHIONINE
Biological Unit 1 (1, 5)
No.NameCountTypeFull Name
1MSE5Mod. Amino AcidSELENOMETHIONINE
Biological Unit 2 (1, 9)
No.NameCountTypeFull Name
1MSE9Mod. Amino AcidSELENOMETHIONINE

(-) Sites  (0, 0)

(no "Site" information available for 3DNS)

(-) SS Bonds  (0, 0)

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

(-) Cis Peptide Bonds  (0, 0)

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

 Sequence-Structure Mapping

(-) SAPs(SNPs)/Variants  (0, 0)

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

(-) PROSITE Motifs  (0, 0)

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

(-) Exons   (0, 0)

(no "Exon" information available for 3DNS)

(-) 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:131
 aligned with Q97MP0_CLOAB | Q97MP0 from UniProtKB/TrEMBL  Length:312

    Alignment length:131
                             1                                                                                                                                 
                             |       9        19        29        39        49        59        69        79        89        99       109       119       129 
         Q97MP0_CLOAB     - -MLKGKYTKIEKVNGVEREYLITDKYGITIGRIFIVDLNKDNRFCMFRMKIYKQGKSINTYIKEILSVFMEFLFKSNDINKVNIIVDEEVSTQPFVELGFAFEGIINKSIIEKNVLKDEFLFGMDYKNYNS 130
               SCOP domains ----------------------------------------------------------------------------------------------------------------------------------- SCOP domains
               CATH domains 3dnsA00 A:0-130  [code=3.40.630.30, no name defined]                                                                                CATH domains
               Pfam domains ----------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author .eee...eeeee......eeeeee....eeeeeeeeeee....eeeeeeee......hhhhhhhhhhhhhhhhhhhh...eeeeeee....hhhhhhh..eeeeeeeeeeee..eeeeeeeeeeehhhhhh Sec.struct. author
                 SAPs(SNPs) ----------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE ----------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript ----------------------------------------------------------------------------------------------------------------------------------- Transcript
                 3dns A   0 AmLKGKYTKIEKVNGVEREYLITDKYGITIGRIFIVDLNKDNRFCmFRmKIYKQGKSINTYIKEILSVFmEFLFKSNDINKVNIIVDEEVSTQPFVELGFAFEGIINKSIIEKNVLKDEFLFGmDYKNYNS 130
                             |       9        19        29        39     |  49        59        69        79        89        99       109       119   |   129 
                             |                                          45-MSE                  69-MSE                                               123-MSE   
                             1-MSE                                         48-MSE                                                                              


Chain B from PDB  Type:PROTEIN  Length:129
 aligned with Q97MP0_CLOAB | Q97MP0 from UniProtKB/TrEMBL  Length:312

    Alignment length:129
                                    11        21        31        41        51        61        71        81        91       101       111       121         
         Q97MP0_CLOAB     2 LKGKYTKIEKVNGVEREYLITDKYGITIGRIFIVDLNKDNRFCMFRMKIYKQGKSINTYIKEILSVFMEFLFKSNDINKVNIIVDEEVSTQPFVELGFAFEGIINKSIIEKNVLKDEFLFGMDYKNYNS 130
               SCOP domains --------------------------------------------------------------------------------------------------------------------------------- SCOP domains
               CATH domains 3dnsB00 B:2-130  [code=3.40.630.30, no name defined]                                                                              CATH domains
               Pfam domains --------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author .....eeeee......eeeeee....eeeeeeeeeee....eeeeeeee......hhhhhhhhhhhhhhhhhhhh...eeeeeee....hhhhhhhh.eeeeeeeeeeee..eeeeeeeeeeehhhhhh Sec.struct. author
                 SAPs(SNPs) --------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE --------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript --------------------------------------------------------------------------------------------------------------------------------- Transcript
                 3dns B   2 LKGKYTKIEKVNGVEREYLITDKYGITIGRIFIVDLNKDNRFCmFRmKIYKQGKSINTYIKEILSVFmEFLFKSNDINKVNIIVDEEVSTQPFVELGFAFEGIINKSIIEKNVLKDEFLFGmDYKNYNS 130
                                    11        21        31        41   |  | 51        61       |71        81        91       101       111       121 |       
                                                                      45-MSE                  69-MSE                                               123-MSE   
                                                                         48-MSE
   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  (0, 0)

(no "SCOP Domain" information available for 3DNS)

(-) CATH Domains  (1, 2)

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

(-) Pfam Domains  (0, 0)

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

(-) Gene Ontology  (2, 2)

Asymmetric Unit(hide GO term definitions)
Chain A,B   (Q97MP0_CLOAB | Q97MP0)
molecular function
    GO:0008080    N-acetyltransferase activity    Catalysis of the transfer of an acetyl group to a nitrogen atom on the acceptor molecule.
    GO:0016740    transferase activity    Catalysis of the transfer of a group, e.g. a methyl group, glycosyl group, acyl group, phosphorus-containing, or other groups, from one compound (generally regarded as the donor) to another compound (generally regarded as the acceptor). Transferase is the systematic name for any enzyme of EC class 2.

 Visualization

(-) Interactive Views

Asymmetric Unit
  Complete Structure
    Jena3D(integrated viewing of ligand, site, SAP, PROSITE, SCOP information)
    WebMol | AstexViewer[tm]@PDBe
(Java Applets, require no local installation except for Java; loading may be slow)
    STRAP
(Java WebStart application, automatic local installation, requires Java; full application with system access!)
    RasMol
(require local installation)
    Molscript (VRML)
(requires installation of a VRML viewer; select preferred view via VRML and generate a mono or stereo PDF format file)
 
  Ligands, Modified Residues, Ions
    MSE  [ RasMol | Jena3D ]  +environment [ RasMol | Jena3D ]
 
  Sites
(no "Sites" information available for 3dns)
 
  Cis Peptide Bonds
(no "Cis Peptide Bonds" information available for 3dns)
 
Biological Units
  Complete Structure
    Biological Unit 1  [ Jena3D ]
    Biological Unit 2  [ Jena3D ]

(-) Still Images

Jmol
  protein: cartoon or spacefill or dots and stick; nucleic acid: cartoon and stick; ligands: spacefill; active site: stick
[ Asym. Unit PNG format | Biol. Unit 1 PNG format | Biol. Unit 2 PNG format ](automatic orientation, automatically generated)
Molscript
  protein, nucleic acid: cartoon; ligands: spacefill; active site: ball and stick
[ mono PDF format | stereo PDF format ](default orientation, automatically generated)

 Databases and Analysis Tools

(-) Databases

Access by PDB/NDB ID
  3dns
    Family and Domain Information: ProDom | SYSTERS
    General Structural Information: GlycoscienceDB | MMDB | NDB | OCA | PDB | PDBe | PDBj | PDBsum | PDBWiki | PQS | PROTEOPEDIA
    Orientation in Membranes: OPM
    Protein Surface: SURFACE
    Secondary Structure: DSSP (structure derived) | HSSP (homology derived)
    Structural Genomics: GeneCensus
    Structural Neighbours: CE | VAST
    Structure Classification: CATH | Dali | SCOP
    Validation and Original Data: BMRB Data View | BMRB Restraints Grid | EDS | PROCHECK | RECOORD | WHAT_CHECK
 
Access by UniProt ID/Accession number
  Q97MP0_CLOAB | Q97MP0
    Comparative Protein Structure Models: ModBase
    Genomic Information: Ensembl
    Protein-protein Interaction: DIP
    Sequence, Family and Domain Information: InterPro | Pfam | SMART | UniProtKB/TrEMBL
 
Access by Enzyme Classificator   (EC Number)
  (no 'Enzyme Classificator' available)
    General Enzyme Information: BRENDA | EC-PDB | Enzyme | IntEnz
    Pathway: KEGG | MetaCyc
 
Access by Disease Identifier   (MIM ID)
  (no 'MIM ID' available)
    Disease Information: OMIM
 
Access by GenAge ID
  (no 'GenAge ID' available)
    Age Related Information: GenAge

(-) Analysis Tools

Access by PDB/NDB ID
    Domain Information: XDom
    Interatomic Contacts of Structural Units: CSU
    Ligand-protein Contacts: LPC
    Protein Cavities: castP
    Sequence and Secondary Structure: PDBCartoon
    Structure Alignment: STRAP(Java WebStart application, automatic local installation, requires Java; full application with system access!)
    Structure and Sequence Browser: STING
 
Access by UniProt ID/Accession number
  Q97MP0_CLOAB | Q97MP0
    Protein Disorder Prediction: DisEMBL | FoldIndex | GLOBPLOT (for more information see DisProt)

 Related Entries

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

(no "Entries Sharing at Least One Protein Chain" available for 3DNS)

(-) Related Entries Specified in the PDB File

(no "Related Entries Specified in the PDB File" available for 3DNS)