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(-) Description

Title :  STRUCTURE OF HUMAN O-GLCNAC HYDROLASE WITH BOUND TRANSITION STATE ANALOG THIAMETG
 
Authors :  C. Roth, S. Chan, W. A. Offen, G. R. Hemsworth, L. I. Willems, D. King, V. V R. Britton, D. J. Vocadlo, G. J. Davies
Date :  28 Oct 16  (Deposition) - 29 Mar 17  (Release) - 24 May 17  (Revision)
Method :  X-RAY DIFFRACTION
Resolution :  2.40
Chains :  Asym./Biol. Unit :  A,B
Keywords :  Hoga O-Glcnac, Hydrolase (Keyword Search: [Gene Ontology, PubMed, Web (Google)] )
 
Reference :  C. Roth, S. Chan, W. A. Offen, G. R. Hemsworth, L. I. Willems, D. T. King, V. Varghese, R. Britton, D. J. Vocadlo, G. J. Davies
Structural And Functional Insight Into Human O-Glcnacase.
Nat. Chem. Biol. V. 13 610 2017
PubMed-ID: 28346405  |  Reference-DOI: 10.1038/NCHEMBIO.2358

(-) Compounds

Molecule 1 - PROTEIN O-GLCNACASE
    Chains: A, B
    EC Number: 3.2.1.169, 3.2.1.-
    Engineered: YES
    Expression System: ESCHERICHIA COLI BL21(DE3)
    Expression System Strain: GOLD
    Expression System Taxid: 469008
    Gene: MGEA5, HEXC, KIAA0679, MEA5
    Organism Common: HUMAN
    Organism Scientific: HOMO SAPIENS
    Organism Taxid: 9606
    Synonym: OGA,BETA-N-ACETYLGLUCOSAMINIDASE,BETA-N- ACETYLHEXOSAMINIDASE,BETA-HEXOSAMINIDASE,MENINGIOMA-EXPRESSED ANTIGEN 5,N-ACETYL-BETA-D-GLUCOSAMINIDASE,N-ACETYL-BETA-GLUCOSAMINIDASE, NUCLEAR CYTOPLASMIC O-GLCNACASE AND ACETYLTRANSFERASE,NCOAT

 Structural Features

(-) Chains, Units

  12
Asymmetric/Biological Unit : AB

Summary Information (see also Sequences/Alignments below)

(-) Ligands, Modified Residues, Ions  (1, 2)

Asymmetric/Biological Unit (1, 2)
No.NameCountTypeFull Name
1NHT2Ligand/Ion(3AR,5R,6S,7R,7AR)-2-(ETHYLAMINO)-5-(HYDROXYMETHYL)-5,6,7,7A-TETRAHYDRO-3AH-PYRANO[3,2-D][1,3]THIAZOLE-6,7-DIOL

(-) Sites  (2, 2)

Asymmetric Unit (2, 2)
No.NameEvidenceResiduesDescription
1AC1SOFTWAREGLY A:67 , PHE A:68 , TYR A:69 , LYS A:98 , ASP A:174 , ASP A:175 , TYR A:219 , THR A:250 , VAL A:254 , TRP A:278 , ASN A:280 , ASP A:285 , ASN A:313binding site for residue NHT A 1001
2AC2SOFTWAREGLY B:67 , PHE B:68 , TYR B:69 , LYS B:98 , ASP B:174 , ASP B:175 , CYS B:215 , TYR B:219 , THR B:250 , VAL B:254 , TRP B:278 , ASN B:280 , ASP B:285 , TYR B:286 , ASN B:313binding site for residue NHT B 1001

(-) SS Bonds  (1, 1)

Asymmetric/Biological Unit
No.Residues
1A:663 -B:663

(-) Cis Peptide Bonds  (2, 2)

Asymmetric/Biological Unit
No.Residues
1Tyr A:225 -Pro A:226
2Tyr B:225 -Pro B:226

 Sequence-Structure Mapping

(-) SAPs(SNPs)/Variants  (0, 0)

(no "SAP(SNP)/Variant" information available for 5M7S)

(-) PROSITE Motifs  (0, 0)

(no "PROSITE Motif" information available for 5M7S)

(-) Exons   (0, 0)

(no "Exon" information available for 5M7S)

(-) 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:443
                                                                                                                                                                                                                                                                                                                                                                                                                                                                                           
               SCOP domains ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SCOP domains
               CATH domains ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- CATH domains
               Pfam domains ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author ...eeeeee.......hhhhhhhhhhhhhhh...eeee....hhhhh.......hhhhhhhhhhhhhhhhhh..eeeeee.........hhhhhhhhhhhhhhhhh....eeeee........hhhhhhhh.hhhhhhhhhhhhhhhhh.....eeee....hhhhh......hhhhhhhhhhh....eeee..........hhhhhhhhhhhhh...eeee....................hhhhhhhh.eeee....hhhhhhhhhhhhhhhhhhh.....hhhhhhhhhhhhhhhhhh....................hhhhhhhhhhhh......hhhhhhhhhhhhhhhhhhhhh...hhhhhhhhhhhhhhhhhhhhhhhhhhhh..hhhhhhhhhhhhhhhhhhhhhhhhhhhhhhh......hhhhhhhhh.... Sec.struct. author
                 SAPs(SNPs) ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 5m7s A  58 RRFLCGVVEGFYGRPWVMEQRKELFRRLQKWELNTYLYAPKDDYKHRMFWREMYSVEEAEQLMTLISAAREYEIEFIYAISPGLDITFSNPKEVSTLKRKLDQVSQFGCRSFALLFDDIDHNMCAADKEVFSSFAHAQVSITNEIYQYLGEPETFLFCPTEYCGTFCYPNVSQSPYLRTVGEKLLPGIEVLWTGPKVVSKEIPVESIEEVSKIIKRAPVIWDNIHANDYDQKRLFLGPYKGRSTELIPRLKGVLTNPNCEFEANYVAIHTLATWYKSNMNVLYSPQMALKLALTEWLQEFGVPHQFVPGPNEKPLYTAEPVTLEDLQLLADLFYLPYEHGPKGAQMLREFQWLRANSSVVSSEKIEEWRSRAAKFEEMCGLVMGMFTRLSNCANRTILYDMYSYVWDIKSIMSMVKSFVQWLGCEPWAFRGGLAGEFQRLLPI 695
                                    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|      381       391   ||  542       552       562       572       582       592||     609       619       629       639       649       659   ||  682       692   
                                                                                                                                                                                                                                                                                                                 337|                    395|                                                     593|                                                           663|                  
                                                                                                                                                                                                                                                                                                                  372                     537                                                      601                                                            677                  


Chain B from PDB  Type:PROTEIN  Length:444
                                                                                                                                                                                                                                                                                                                                                                                                                                                                                            
               SCOP domains ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ SCOP domains
               CATH domains ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ CATH domains
               Pfam domains ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ Pfam domains
         Sec.struct. author ..eeeeee.......hhhhhhhhhhhhhhh...eeee....hhhhh.......hhhhhhhhhhhhhhhhhh..eeeeee.........hhhhhhhhhhhhhhhhhh...eeeee........hhhhhhhh.hhhhhhhhhhhhhhhhh.....eeee....hhhhh......hhhhhhhhhhh....eeee..........hhhhhhhhhhhhh...eeee....................hhhhhhhh.eeee....hhhhhhhhhhhhhhhhhh.........hhhhhhhhhhhhhhhhhh...................hhhhhhhhhhhh......hhhhhhhhhhhhhhhhhhhhh...hhhhhhhhhhhhhhhhhhhhhhhhhhhh..hhhhhhhhhhhhhhhhhhhhhhhhhhhhhh.......hhhhhhhhh.... Sec.struct. author
                 SAPs(SNPs) ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ SAPs(SNPs)
                    PROSITE ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ PROSITE
                 Transcript ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ Transcript
                 5m7s B  59 RFLCGVVEGFYGRPWVMEQRKELFRRLQKWELNTYLYAPKDDYKHRMFWREMYSVEEAEQLMTLISAAREYEIEFIYAISPGLDITFSNPKEVSTLKRKLDQVSQFGCRSFALLFDDIDHNMCAADKEVFSSFAHAQVSITNEIYQYLGEPETFLFCPTEYCGTFCYPNVSQSPYLRTVGEKLLPGIEVLWTGPKVVSKEIPVESIEEVSKIIKRAPVIWDNIHANDYDQKRLFLGPYKGRSTELIPRLKGVLTNPNCEFEANYVAIHTLATWYKSNMNGVRVLYSPQMALKLALTEWLQEFGVPHFVPGPNEKPLYTAEPVTLEDLQLLADLFYLPYEHGPKGAQMLREFQWLRANSSVVSSEKIEEWRSRAAKFEEMCGLVMGMFTRLSNCANRTILYDMYSYVWDIKSIMSMVKSFVQWLGCRPWAFRGGLAGEFQRLLPI 695
                                    68        78        88        98       108       118       128       138       148       158       168       178       188       198       208       218       228       238       248       258       268       278       288       298       308       318       328       338 ||    379       389     ||541       551       561       571       581       591 ||    608       618       628       638       648       658     ||681       691    
                                                                                                                                                                                                                                                                                                                   340|                    395|                                                    593|                                                            664|                 
                                                                                                                                                                                                                                                                                                                    372                     538                                                     601                                                             678
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  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 5M7S)

(-) CATH Domains  (0, 0)

(no "CATH Domain" information available for 5M7S)

(-) Pfam Domains  (0, 0)

(no "Pfam Domain" information available for 5M7S)

(-) Gene Ontology  (12, 12)

Asymmetric/Biological Unit(hide GO term definitions)

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 Related Entries

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

UniProtKB/Swiss-Prot
        OGA_HUMAN | O60502: 2ydq 5m7r 5m7t 5m7u 5tke 5uhk 5uhl 5uho 5uhp 5un8 5un9

(-) Related Entries Specified in the PDB File

(no "Related Entries Specified in the PDB File" available for 5M7S)