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

(-) Description

Title :  CRYSTAL STRUCTURE OF PREDICTED ACETYLTRANSFERASE WITH ACETYL-COA FROM CLOSTRIDIUM ACETOBUTYLICUM AT THE RESOLUTION 1.9A, NORTHEAST STRUCTURAL GENOMICS CONSORTIUM TARGET CAR165
 
Authors :  A. Kuzin, Y. Chen, J. Seetharaman, S. Sahdev, R. Xiao, C. Ciccosanti, L. J. K. Everett, R. Nair, T. B. Acton, B. Rost, G. T. Montelione, J. F. Hunt Northeast Structural Genomics Consortium (Nesg)
Date :  05 Apr 10  (Deposition) - 28 Apr 10  (Release) - 28 Apr 10  (Revision)
Method :  X-RAY DIFFRACTION
Resolution :  1.90
Chains :  Asym. Unit :  A,B
Biol. Unit 1:  A  (2x)
Biol. Unit 2:  B  (2x)
Keywords :  Structural Genomics, Psi-2, Protein Structure Initiative, Northeast Structural Genomics Consortium, Nesg, N-Acetyltransferase, Transferase (Keyword Search: [Gene Ontology, PubMed, Web (Google)] )
 
Reference :  A. Kuzin, Y. Chen, J. Seetharaman, S. Sahdev, R. Xiao, C. Ciccosanti, L. Zhao, J. K. Everett, R. Nair, T. B. Acton, B. Rost, G. T. Montelione, J. F. Hunt, L. Tong
Northeast Structural Genomics Consortium Target Car165
To Be Published
PubMed: search

(-) Compounds

Molecule 1 - PREDICTED ACETYLTRANSFERASE
    Chains: A, B
    Engineered: YES
    Expression System: ESCHERICHIA COLI
    Expression System Strain: BL21(DE3)+ MAGIC
    Expression System Taxid: 469008
    Expression System Vector: PET 21-23C
    Gene: CA_C0160
    Organism Scientific: CLOSTRIDIUM ACETOBUTYLICUM
    Organism Taxid: 1488

 Structural Features

(-) Chains, Units

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

Summary Information (see also Sequences/Alignments below)

(-) Ligands, Modified Residues, Ions  (2, 12)

Asymmetric Unit (2, 12)
No.NameCountTypeFull Name
1ACO2Ligand/IonACETYL COENZYME *A
2MSE10Mod. Amino AcidSELENOMETHIONINE
Biological Unit 1 (2, 12)
No.NameCountTypeFull Name
1ACO2Ligand/IonACETYL COENZYME *A
2MSE10Mod. Amino AcidSELENOMETHIONINE
Biological Unit 2 (2, 12)
No.NameCountTypeFull Name
1ACO2Ligand/IonACETYL COENZYME *A
2MSE10Mod. Amino AcidSELENOMETHIONINE

(-) Sites  (2, 2)

Asymmetric Unit (2, 2)
No.NameEvidenceResiduesDescription
1AC1SOFTWAREGLN A:22 , GLU A:26 , ARG A:40 , ASN A:44 , ARG A:83 , ILE A:87 , MSE A:90 , TYR A:91 , THR A:92 , ARG A:97 , GLY A:98 , ASN A:99 , GLY A:100 , ILE A:101 , ALA A:102 , THR A:103 , ASN A:117 , VAL A:124 , SER A:126 , LEU A:128 , TYR A:133 , LYS A:135 , HOH A:185 , HOH A:216 , HOH A:222 , HOH A:297BINDING SITE FOR RESIDUE ACO A 200
2AC2SOFTWAREASP B:25 , GLU B:26 , ARG B:40 , ARG B:83 , ILE B:87 , MSE B:90 , TYR B:91 , THR B:92 , ARG B:97 , GLY B:98 , ASN B:99 , GLY B:100 , ILE B:101 , ALA B:102 , THR B:103 , ASN B:117 , VAL B:124 , SER B:126 , LEU B:128 , PRO B:131 , VAL B:132 , TYR B:133 , HOH B:212 , HOH B:235 , HOH B:266 , HOH B:275BINDING SITE FOR RESIDUE ACO B 201

(-) SS Bonds  (0, 0)

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

(-) Cis Peptide Bonds  (0, 0)

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

 Sequence-Structure Mapping

(-) SAPs(SNPs)/Variants  (0, 0)

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

(-) PROSITE Motifs  (0, 0)

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

(-) Exons   (0, 0)

(no "Exon" information available for 3MGD)

(-) 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:153
 aligned with Q97MN4_CLOAB | Q97MN4 from UniProtKB/TrEMBL  Length:149

    Alignment length:153
                                                                                                                                                                              149    
                                    10        20        30        40        50        60        70        80        90       100       110       120       130       140        |-   
         Q97MN4_CLOAB     1 MMNYRKADMKDISLLVSIRKRQLIDEGIEPNIDIDKELTRYFNNKLANNLLVEWIAEENNQIIATAAIAFIDFPPTYTNKTGRKGYITNMYTEPTSRGNGIATGMLDRLVNEAKERNIHKICLVASKLGRPVYKKYGFQDTDEWLELNL----   -
               SCOP domains --------------------------------------------------------------------------------------------------------------------------------------------------------- SCOP domains
               CATH domains --------------------------------------------------------------------------------------------------------------------------------------------------------- CATH domains
               Pfam domains --------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author ..eeee.hhhhhhhhhhhhhhhhhhh.......hhhhhhhhhhhhhhh..eeeeeeee..eeeeeeeeeeee..........eeeeeeeeee.hhhh..hhhhhhhhhhhhhhhhh....eee....hhhhhhhhhh................ Sec.struct. author
                 SAPs(SNPs) --------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE --------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript --------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 3mgd A   1 mmNYRKADmKDISLLVSIRKRQLIDEGIEPNIDIDKELTRYFNNKLANNLLVEWIAEENNQIIATAAIAFIDFPPTYTNKTGRKGYITNmYTEPTSRGNGIATGmLDRLVNEAKERNIHKICLVASKLGRPVYKKYGFQDTDEWLELNLLEHH 153
                            ||      10        20        30        40        50        60        70        80        90       100    |  110       120       130       140       150   
                            ||      9-MSE                                                                           90-MSE        105-MSE                                            
                            1-MSE                                                                                                                                                    
                             2-MSE                                                                                                                                                   


Chain B from PDB  Type:PROTEIN  Length:154
 aligned with Q97MN4_CLOAB | Q97MN4 from UniProtKB/TrEMBL  Length:149

    Alignment length:154
                                                                                                                                                                              149     
                                    10        20        30        40        50        60        70        80        90       100       110       120       130       140        |-    
         Q97MN4_CLOAB     1 MMNYRKADMKDISLLVSIRKRQLIDEGIEPNIDIDKELTRYFNNKLANNLLVEWIAEENNQIIATAAIAFIDFPPTYTNKTGRKGYITNMYTEPTSRGNGIATGMLDRLVNEAKERNIHKICLVASKLGRPVYKKYGFQDTDEWLELNL-----   -
               SCOP domains ---------------------------------------------------------------------------------------------------------------------------------------------------------- SCOP domains
               CATH domains ---------------------------------------------------------------------------------------------------------------------------------------------------------- CATH domains
               Pfam domains ---------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author ..eeee.hhhhhhhhhhhhhhhhhhh.......hhhhhhhhhhhhhhh..eeeeeeee..eeeeeeeeeeee..........eeeeeeeeee.hhhh..hhhhhhhhhhhhhhhhh....ee......hhhhhhhhh................. Sec.struct. author
                 SAPs(SNPs) ---------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE ---------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript ---------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 3mgd B   1 mmNYRKADmKDISLLVSIRKRQLIDEGIEPNIDIDKELTRYFNNKLANNLLVEWIAEENNQIIATAAIAFIDFPPTYTNKTGRKGYITNmYTEPTSRGNGIATGmLDRLVNEAKERNIHKICLVASKLGRPVYKKYGFQDTDEWLELNLLEHHH 154
                            ||      10        20        30        40        50        60        70        80        90       100    |  110       120       130       140       150    
                            1-MSE   9-MSE                                                                           90-MSE        105-MSE                                             
                             2-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 3MGD)

(-) CATH Domains  (0, 0)

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

(-) Pfam Domains  (0, 0)

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

(-) Gene Ontology  (2, 2)

Asymmetric Unit(hide GO term definitions)
Chain A,B   (Q97MN4_CLOAB | Q97MN4)
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
    ACO  [ RasMol | Jena3D ]  +environment [ RasMol | Jena3D ]
    MSE  [ RasMol | Jena3D ]  +environment [ RasMol | Jena3D ]
 
  Sites
    AC1  [ RasMol ]  +environment [ RasMol ]
    AC2  [ RasMol ]  +environment [ RasMol ]
 
  Cis Peptide Bonds
(no "Cis Peptide Bonds" information available for 3mgd)
 
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 | Asym. Unit - sites PNG format | Biol. Unit 1 PNG format | Biol. Unit 1 - sites 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
  3mgd
    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
  Q97MN4_CLOAB | Q97MN4
    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
  Q97MN4_CLOAB | Q97MN4
    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 3MGD)

(-) Related Entries Specified in the PDB File

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