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(-) Description

Title :  BETA-GLUCURONIDASE WITH AN ACTIVITY-BASED PROBE (N-ACYL CYCLOPHELLITOL AZIRIDINE) BOUND
 
Authors :  Y. Jin, L. Wu, J. B. Jiang, H. S. Overkleeft, G. J. Davies
Date :  21 Mar 16  (Deposition) - 12 Apr 17  (Release) - 12 Apr 17  (Revision)
Method :  X-RAY DIFFRACTION
Resolution :  1.80
Chains :  Asym. Unit :  A
Biol. Unit 1:  A  (2x)
Keywords :  Hydrolase, Gh79, Beta-Glucuronidase, Activity-Based Probe, Retaining Enzyme (Keyword Search: [Gene Ontology, PubMed, Web (Google)] )
 
Reference :  Y. Jin, L. Wu, J. B. Jiang, H. S. Overkleeft, G. J. Davies
The Structure Of A Bacteria Beta-Glucuronidase In Gh79 Family
To Be Published
PubMed: search

(-) Compounds

Molecule 1 - BETA-GLUCURONIDASE
    Atcc: 51196
    Chains: A
    EC Number: 3.2.1.31
    Engineered: YES
    Expression System: ESCHERICHIA COLI
    Expression System Strain: BL21(DE3)
    Expression System Taxid: 469008
    Expression System Variant: GOLD
    Expression System Vector: PET-28A
    Expression System Vector Type: PLASMID
    Organism Scientific: ACIDOBACTERIUM CAPSULATUM
    Organism Taxid: 33075

 Structural Features

(-) Chains, Units

  1
Asymmetric Unit : A
Biological Unit 1 (2x): A

Summary Information (see also Sequences/Alignments below)

(-) Ligands, Modified Residues, Ions  (2, 3)

Asymmetric Unit (2, 3)
No.NameCountTypeFull Name
1J131Ligand/Ion(1S,2R,3R,4S,6S)-6-[(8-AZIDOOCTANOYL)AMINO]-2,3,4-TRIHYDROXYCYCLOHEXANE-1-CARBOXYLATE
2PO42Ligand/IonPHOSPHATE ION
Biological Unit 1 (2, 6)
No.NameCountTypeFull Name
1J132Ligand/Ion(1S,2R,3R,4S,6S)-6-[(8-AZIDOOCTANOYL)AMINO]-2,3,4-TRIHYDROXYCYCLOHEXANE-1-CARBOXYLATE
2PO44Ligand/IonPHOSPHATE ION

(-) Sites  (3, 3)

Asymmetric Unit (3, 3)
No.NameEvidenceResiduesDescription
1AC1SOFTWAREGLY A:103 , PRO A:104 , GLY A:330 , TYR A:331 , GLY A:332 , HOH A:2067 , HOH A:2069BINDING SITE FOR RESIDUE PO4 A 1476
2AC2SOFTWARETRP A:333 , HOH A:2168 , HOH A:2171BINDING SITE FOR RESIDUE PO4 A 1477
3AC3SOFTWAREGLU A:45 , GLY A:79 , ASN A:80 , ASP A:105 , ASN A:172 , GLU A:173 , TYR A:243 , PRO A:248 , GLU A:287 , TYR A:292 , GLN A:293 , GLY A:294 , HIS A:327 , TYR A:334 , HOH A:2053BINDING SITE FOR RESIDUE J13 A 1478

(-) SS Bonds  (0, 0)

(no "SS Bond" information available for 5G0M)

(-) Cis Peptide Bonds  (1, 1)

Asymmetric Unit
No.Residues
1Gly A:214 -Pro A:215

 Sequence-Structure Mapping

(-) SAPs(SNPs)/Variants  (0, 0)

(no "SAP(SNP)/Variant" information available for 5G0M)

(-) PROSITE Motifs  (0, 0)

(no "PROSITE Motif" information available for 5G0M)

(-) Exons   (0, 0)

(no "Exon" information available for 5G0M)

(-) Sequences/Alignments

Asymmetric Unit
   Reformat: Number of residues per line =  ('0' or empty: single-line sequence representation)
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(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:457
                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                         
               SCOP domains ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SCOP domains
               CATH domains ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- CATH domains
               Pfam domains ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author .eeeeeeeeeeeeeeee.....eeeee.hhhhh.......hhhhhhhhhhhh...eeeeehhhhh.eee........hhhhh.............eeehhhhhhhhhhhhhhhh.eeeeee.....hhhhhhhhhhhhhhhhh...eeeeee..hhhhh..........hhhhhhhhhhhhhhhhhhhh.....eeeee.....hhhhhhhhhhhhh.eeeeeee..........hhhhhh..hhhhhhhhhhhhhhhhhhh..eeeeeee............hhhhhhhhhhhhhhhhhhh...eeeee........eeee...eeeehhhhhhhhhhhhhh.eeeeeeeee.......eeeeeeee....eeeeeee......eeeeee......eeeeeee..........ee.....hhhhh......ee..ee..eeeeee...eeeeeee. Sec.struct. author
                 SAPs(SNPs) ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 5g0m A  19 PVRVGLSVDASALGHTIPPDYTGLSYEQAQMANPNYFSGANTQLAGFLRTLGRQGVLRIGGNTSEYTFWNRHAKPTAADEHLAAGPDKGHHAAAREVITPEAVNNLSEFLDKTGWKLIYGLNLGKGTPENAADEAAYVMETIGADRLLAFQLGNEPDLFYRNGIRPASYDFAAYAGDWQRFFTAIRKRVPNAPFAGPDTAYNTKWLVPFADKFKHDVKFISSHYYAEGPPTDPSMTIERLMKPNPRLLGETAGLKQVEADTGLPFRLTETNSCYQGGKQGVSDTFAAALWAGDLMYQQAAAGSTGINFHGGGYGWYTPVAGTPEDGFIARPEYYGMLLFAQAGAGQLLGAKLTDNSAAPLLTAYALRGTDGRTRIALFNKNLDADVEVAISGVASPSGTVLRLEAPRADDTTDVTFGGAPVGASGSWSPLVQEYVPGHSGQFVLHMRKASGALLEFA 475
                                    28        38        48        58        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       348       358       368       378       388       398       408       418       428       438       448       458       468
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 Classification and Annotation

(-) SCOP Domains  (0, 0)

(no "SCOP Domain" information available for 5G0M)

(-) CATH Domains  (0, 0)

(no "CATH Domain" information available for 5G0M)

(-) Pfam Domains  (0, 0)

(no "Pfam Domain" information available for 5G0M)

(-) Gene Ontology  (3, 3)

Asymmetric Unit(hide GO term definitions)

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 Related Entries

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

UniProtKB/Swiss-Prot
        C1F2K5_ACIC5 | C1F2K5: 5g0q 5l77
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        C1F2K5_ACIC5 | C1F2K5: 3vny 3vnz 3vo0

(-) Related Entries Specified in the PDB File

5g0q BETA-GLUCURONIDASE WITH AN ACTIVITY-BASED PROBE (N- ALKYL CYCLOPHELLITOL AZIRIDINE) BOUND