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

(-) Description

Title :  A UNIQUE GCN5-RELATED GLUCOSAMINE N-ACETYLTRANSFERASE REGION EXIST IN THE FUNGAL MULTI-DOMAIN GH3 BETA-N-ACETYLGLUCOSAMINIDASE
 
Authors :  Z. Qin, Y. Xiao, X. Yang, Z. Jiang, S. Yang, J. R. Mesters
Date :  02 May 15  (Deposition) - 09 Dec 15  (Release) - 13 Jan 16  (Revision)
Method :  X-RAY DIFFRACTION
Resolution :  2.80
Chains :  Asym./Biol. Unit :  A,B
Keywords :  Beta-N-Acetylglucosaminidase, Glucosamine N-Acetyltransferase, Glycoside Hydrolase Family 3, Hydrolase, Transferase (Keyword Search: [Gene Ontology, PubMed, Web (Google)] )
 
Reference :  Z. Qin, Y. Xiao, X. Yang, J. R. Mesters, S. Yang, Z. Jiang
A Unique Gcn5-Related Glucosamine N-Acetyltransferase Regio Exist In The Fungal Multi-Domain Glycoside Hydrolase Family 3 Beta-N-Acetylglucosaminidase
Sci Rep V. 5 18292 2015
PubMed-ID: 26669854  |  Reference-DOI: 10.1038/SREP18292

(-) Compounds

Molecule 1 - N-ACETYL-BETA-D GLUCOSAMINIDASE
    Chains: A, B
    EC Number: 3.2.1.52, 2.3.1.3
    Engineered: YES
    Expression System: ESCHERICHIA COLI BL21(DE3)
    Expression System Plasmid: PET28A-SUMO
    Expression System Strain: BL21(DE3)
    Expression System Taxid: 469008
    Expression System Vector Type: PLASMID
    Gene: NAG
    Organism Scientific: RHIZOMUCOR MIEHEI CAU432
    Organism Taxid: 1031333
    Strain: CAU432
    Synonym: BETA-N-ACETYLGLUCOSAMINIDASE, GLUCOSAMINE N- ACETYLTRANSFERASE

 Structural Features

(-) Chains, Units

  12
Asymmetric/Biological Unit : AB

Summary Information (see also Sequences/Alignments below)

(-) Ligands, Modified Residues, Ions  (2, 5)

Asymmetric/Biological Unit (2, 5)
No.NameCountTypeFull Name
1ACO2Ligand/IonACETYL COENZYME *A
2SO43Ligand/IonSULFATE ION

(-) Sites  (5, 5)

Asymmetric Unit (5, 5)
No.NameEvidenceResiduesDescription
1AC1SOFTWAREARG A:520 , ILE A:560 , LEU A:615 , LEU A:616 , MET A:617 , VAL A:618 , GLN A:623 , GLY A:624 , LYS A:625 , GLY A:626 , VAL A:627 , GLY A:628 , THR A:629 , GLY A:650 , SER A:667 , ALA A:670 , PHE A:673 , LYS A:676binding site for residue ACO A 901
2AC2SOFTWAREGLY A:808 , ARG A:809 , GLY A:810 , ILE A:811 , GLY A:812 , ILE A:813binding site for residue SO4 A 902
3AC3SOFTWAREARG B:520 , PHE B:561 , LEU B:613 , MET B:614 , LEU B:615 , LEU B:616 , VAL B:618 , GLN B:623 , GLY B:624 , LYS B:625 , GLY B:626 , GLY B:628 , THR B:629 , GLY B:650 , ALA B:670 , PHE B:673 , LYS B:676 , HOH B:1005binding site for residue ACO B 901
4AC4SOFTWAREARG B:807 , GLY B:808 , GLY B:812 , ILE B:813binding site for residue SO4 B 902
5AC5SOFTWAREARG B:705 , GLY B:808 , ILE B:813binding site for residue SO4 B 903

(-) SS Bonds  (0, 0)

(no "SS Bond" information available for 4ZM6)

(-) Cis Peptide Bonds  (10, 10)

Asymmetric/Biological Unit
No.Residues
1Ala A:132 -Pro A:133
2Lys A:179 -His A:180
3Phe A:181 -Pro A:182
4Leu A:382 -Pro A:383
5Tyr A:653 -Pro A:654
6Ala B:132 -Pro B:133
7Lys B:179 -His B:180
8Phe B:181 -Pro B:182
9Leu B:382 -Pro B:383
10Tyr B:653 -Pro B:654

 Sequence-Structure Mapping

(-) SAPs(SNPs)/Variants  (0, 0)

(no "SAP(SNP)/Variant" information available for 4ZM6)

(-) PROSITE Motifs  (0, 0)

(no "PROSITE Motif" information available for 4ZM6)

(-) Exons   (0, 0)

(no "Exon" information available for 4ZM6)

(-) 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 A from PDB  Type:PROTEIN  Length:844
                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                            
               SCOP domains ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SCOP domains
               CATH domains ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- CATH domains
               Pfam domains ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author ...hhhhh.eee.......hhhhhhhhhhhh..eeee......hhhhhhhhhhhhhhhhhhh......eeee..................hhhhhhhhhhhhhhhhhhhhhhhhhhhhh..ee.......................hhhhhhhhhhhhhhhhhhh.....eeee...................hhhhhhhh.hhhhhhhhh........eeee............hhhhh................eeee....hhhhhh..hhhhhhhhhhhhh...eee....hhhhhhhhhhhhhhhhh..hhhhhhhhhhhhhhhhhhhhhhhhhhhh.hhhhhhhhhhhhhhhhhhh...eeeee..............eeeeee.......hhhhhhhhhhhh..eeeeee......hhhhhhhh.eeeeee.hhhhhhhhhhhhhhhhhhh..eeeee..hhhhhhhh....eeee....hhhhhhhhhhhhh.........................eeee.hhhhhhhhhhhhhhhhhh.....hhhhhhhhhhh......eeee.....eeeeeeeeeeee..eeeeeeeeeee.hhhh..hhhhhhhhhhhhhhhhhh..eeee..........ee..hhhhhhhhhhhhhh..ee....eeeeeee......hhhhhhhhhhhheeeee.hhhhhhhhhhhhhhhh..hhhhhhhhhhhhhhh.eeeeee......eeeeeeeee......................eeeeeeeee.......hhhhhhhhhhhhhhhhh...eeeeeee.hhhhhhh..eeeeeeee.eee Sec.struct. author
                 SAPs(SNPs) ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 4zm6 A   8 NLDKEIGQLLMCGFDGLEPTPGIIDLIENHNLGSIILFSRNIATPKQVQKLTHSLQQIARNAGHKRPLFIAVDQENGVVRRLGDSGTYLPGNMALGALGSSTAARNVAMAISKELLTLGMNWNLAPVLDVNNNPLNPVIGVRSYGQDPELVARMGLAQVEGYQRGKVATSIKHFPGHGDTATDSHLDVPVINKTLEELDKTELVPFKKALEAGGIACPTSVMVGHMLLPHFNKDVVSSIAPEIVRDLLRRRFGYKGVIITDCLEMDAVKETVGTPKGALMALQAGNDMAMISHTLAFQKDAFKVLYSALQEGQLDKDEIRQSLQRVAQLKDQFLNWDDVLQQADLKTMGSEAHATLSKELYDRVPTVVTNRKNTLPIRPAQTDKILFLAAHVPEKEPFNSFHASLLKRHTNLEYIIYNEETPDLSQKIQEADWVIIGTANANLYPFQVRMVQQAQKLAKRLVVAAVMNPYDQMCFPQVDTYLVTYEYTPPAHEAAVRLIFGEIETRSRLPISIPNVDDAIAPATFIVDDYRNDDDLDHVTAMWDDIFGKDWPLRKDKINLGLQRAKLQKHKVARDSQGKIVGFVATQIVVVDNKKHGQLMLLMVSPSYQGKGVGTLLHDAALEHFREQGADCIKLGSTYPRFFPGVPDDDAQSRKAQAFFSKKGWRMDDNLVHDLIGDLQDYKVPDKIQARMLKEKIWFGRIKPSETWELYAFQQRNFPHWLSTYQHHVELGDYQDLIVARQDDENGRVIASLILNTTHVSHEYRSDLIWTDDKLFGERSGGMACVGVAQEERGRGIGIGIVAHANWLLKQRGVTKSYVDWVELLDFYSRVGYKTWRSYRLGHF 858
                                    17        27        37        47        57        67        77        87        97       107       117       127       137       147       157       167       177       187       197       207       217       227       237       247       257       267       277       287       297       307       317       327       337       347       357       367       377       387       397  ||   414       424       434       444       454       464       474       484       494       504       514       524       534       544       554       564       574       584       594       604       614       624       634       644       654       664       674       684       694       704       714       724       734       744       754       764       774       784       794       804       814       824       834       844       854    
                                                                                                                                                                                                                                                                                                                                                                                                                                  400|                                                                                                                                                                                                                                                                                                                                                                                                                                                                  
                                                                                                                                                                                                                                                                                                                                                                                                                                   408                                                                                                                                                                                                                                                                                                                                                                                                                                                                  


Chain B from PDB  Type:PROTEIN  Length:844
                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                            
               SCOP domains ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SCOP domains
               CATH domains ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- CATH domains
               Pfam domains ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author ...hhhhh.eee.......hhhhhhhhhh....eee.hhhhh.hhhhhhhhhhhhhhhhhhh......eeee..................hhhhhhhhhhhhhhhhhhhhhhhhhhhh...ee.......................hhhhhhhhhhhhhhhhhhh..eeeeeee...................hhhhhhhh.hhhhhhhhh........eeee............hhhhh................eeee....hhhhhh..hhhhhhhhhhhhh...eee..hhhhhhhhhhhhhhhhhhh..hhhhhhhhhhhhhhhhhhhhhhhhhhh..hhhhhhhhhhhhhhhhhhh...eeeee..............eeeeee.......hhhhhhhhhh....eeeeee......hhhhhhhh.eeeeee.hhhhhhhhhhhhhhhhhhh..eeeee..hhhhhhhh....eeee....hhhhhhhhhhhhh.........................eeee.hhhhhhhhhhhhhhhhhh.....hhhhhhhhhhh......eeee.....eeeeeeeeeeee..eeeeeeeeeee.hhhh..hhhhhhhhhhhhhhhhhh..eeee..........ee..hhhhhhhhhhhhhh..ee....eeeeeee......hhhhhhhhhhhh.eeee.hhhhhhhhhhhhhhhh..hhhhhhhhhhhhhhh.eeeee.......eeeeeeeee......................eeeeeeeee.hhhh..hhhhhhhhhhhhhhhhh...eeeeeee.hhhhhhh..eeeeeeee.eee Sec.struct. author
                 SAPs(SNPs) ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 4zm6 B   8 NLDKEIGQLLMCGFDGLEPTPGIIDLIENHNLGSIILFSRNIATPKQVQKLTHSLQQIARNAGHKRPLFIAVDQENGVVRRLGDSGTYLPGNMALGALGSSTAARNVAMAISKELLTLGMNWNLAPVLDVNNNPLNPVIGVRSYGQDPELVARMGLAQVEGYQRGKVATSIKHFPGHGDTATDSHLDVPVINKTLEELDKTELVPFKKALEAGGIACPTSVMVGHMLLPHFNKDVVSSIAPEIVRDLLRRRFGYKGVIITDCLEMDAVKETVGTPKGALMALQAGNDMAMISHTLAFQKDAFKVLYSALQEGQLDKDEIRQSLQRVAQLKDQFLNWDDVLQQADLKTMGSEAHATLSKELYDRVPTVVTNRKNTLPIRPAQTDKILFLAAHVPEKEPFNSFHASLLKRHTNLEYIIYNEETPDLSQKIQEADWVIIGTANANLYPFQVRMVQQAQKLAKRLVVAAVMNPYDQMCFPQVDTYLVTYEYTPPAHEAAVRLIFGEIETRSRLPISIPNVDDAIAPATFIVDDYRNDDDLDHVTAMWDDIFGKDWPLRKDKINLGLQRAKLQKHKVARDSQGKIVGFVATQIVVVDNKKHGQLMLLMVSPSYQGKGVGTLLHDAALEHFREQGADCIKLGSTYPRFFPGVPDDDAQSRKAQAFFSKKGWRMDDNLVHDLIGDLQDYKVPDKIQARMLKEKIWFGRIKPSETWELYAFQQRNFPHWLSTYQHHVELGDYQDLIVARQDDENGRVIASLILNTTHVSHEYRSDLIWTDDKLFGERSGGMACVGVAQEERGRGIGIGIVAHANWLLKQRGVTKSYVDWVELLDFYSRVGYKTWRSYRLGHF 858
                                    17        27        37        47        57        67        77        87        97       107       117       127       137       147       157       167       177       187       197       207       217       227       237       247       257       267       277       287       297       307       317       327       337       347       357       367       377       387       397  ||   414       424       434       444       454       464       474       484       494       504       514       524       534       544       554       564       574       584       594       604       614       624       634       644       654       664       674       684       694       704       714       724       734       744       754       764       774       784       794       804       814       824       834       844       854    
                                                                                                                                                                                                                                                                                                                                                                                                                                  400|                                                                                                                                                                                                                                                                                                                                                                                                                                                                  
                                                                                                                                                                                                                                                                                                                                                                                                                                   408
   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 4ZM6)

(-) CATH Domains  (0, 0)

(no "CATH Domain" information available for 4ZM6)

(-) Pfam Domains  (0, 0)

(no "Pfam Domain" information available for 4ZM6)

(-) Gene Ontology  (7, 7)

Asymmetric/Biological Unit(hide GO term definitions)

 Visualization

(-) Interactive Views

Asymmetric/Biological 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 ]
    SO4  [ RasMol | Jena3D ]  +environment [ RasMol | Jena3D ]
 
  Sites
    AC1  [ RasMol ]  +environment [ RasMol ]
    AC2  [ RasMol ]  +environment [ RasMol ]
    AC3  [ RasMol ]  +environment [ RasMol ]
    AC4  [ RasMol ]  +environment [ RasMol ]
    AC5  [ RasMol ]  +environment [ RasMol ]
 
  Cis Peptide Bonds
    Ala A:132 - Pro A:133   [ RasMol ]  
    Ala B:132 - Pro B:133   [ RasMol ]  
    Leu A:382 - Pro A:383   [ RasMol ]  
    Leu B:382 - Pro B:383   [ RasMol ]  
    Lys A:179 - His A:180   [ RasMol ]  
    Lys B:179 - His B:180   [ RasMol ]  
    Phe A:181 - Pro A:182   [ RasMol ]  
    Phe B:181 - Pro B:182   [ RasMol ]  
    Tyr A:653 - Pro A:654   [ RasMol ]  
    Tyr B:653 - Pro B:654   [ RasMol ]  
 

(-) Still Images

Jmol
  protein: cartoon or spacefill or dots and stick; nucleic acid: cartoon and stick; ligands: spacefill; active site: stick
[ Asym./Biol. Unit PNG format | Asym./Biol. Unit - sites 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
  4zm6
    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
  V9M3A9_RHIMI | V9M3A9
    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)
  2.3.1.3
    General Enzyme Information: BRENDA | EC-PDB | Enzyme | IntEnz
    Pathway: KEGG | MetaCyc
  3.2.1.52
    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
  V9M3A9_RHIMI | V9M3A9
    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 4ZM6)

(-) Related Entries Specified in the PDB File

(no "Related Entries Specified in the PDB File" available for 4ZM6)