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(-) Description

Title :  CRYSTAL STRUCTURE OF STREPTOCOCCUS AGALACTIAE BETA-GLUCURONIDASE IN SPACE GROUP P21212
 
Authors :  B. D. Wallace, M. R. Redinbo
Date :  09 Mar 13  (Deposition) - 17 Sep 14  (Release) - 21 Oct 15  (Revision)
Method :  X-RAY DIFFRACTION
Resolution :  2.29
Chains :  Asym. Unit :  A,B
Biol. Unit 1:  A,B  (2x)
Keywords :  Alpha/Beta Barrel, Beta-Sandwich, Sugar-Binding Domain, Glycosyl Hydrolase, Hydrolase (Keyword Search: [Gene Ontology, PubMed, Web (Google)] )
 
Reference :  B. D. Wallace, A. B. Roberts, R. M. Pollet, J. D. Ingle, K. A. Biernat, S. J. Pellock, M. K. Venkatesh, L. Guthrie, S. K. O'Neal, S. J. Robinson M. Dollinger, E. Figueroa, S. R. Mcshane, R. D. Cohen, J. Jin, S. V. Frye W. C. Zamboni, C. Pepe-Ranney, S. Mani, L. Kelly, M. R. Redinbo
Structure And Inhibition Of Microbiome Beta-Glucuronidases Essential To The Alleviation Of Cancer Drug Toxicity.
Chem. Biol. V. 22 1238 2015
PubMed-ID: 26364932  |  Reference-DOI: 10.1016/J.CHEMBIOL.2015.08.005

(-) Compounds

Molecule 1 - BETA-GLUCURONIDASE
    Chains: A, B
    EC Number: 3.2.1.31
    Engineered: YES
    Expression System: ESCHERICHIA COLI
    Expression System Plasmid: PMCSG7
    Expression System Strain: BL21-AI (DE3)
    Expression System Taxid: 562
    Expression System Vector Type: PLASMID
    Gene: SAG0698
    Organism Scientific: STREPTOCOCCUS AGALACTIAE
    Organism Taxid: 208435
    Strain: ATCC BAA-611 / 2603 V/R

 Structural Features

(-) Chains, Units

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

Summary Information (see also Sequences/Alignments below)

(-) Ligands, Modified Residues, Ions  (1, 4)

Asymmetric Unit (1, 4)
No.NameCountTypeFull Name
1MG4Ligand/IonMAGNESIUM ION
Biological Unit 1 (0, 0)
No.NameCountTypeFull Name
1MG-1Ligand/IonMAGNESIUM ION

(-) Sites  (3, 3)

Asymmetric Unit (3, 3)
No.NameEvidenceResiduesDescription
1AC1SOFTWAREASP A:535 , HIS A:592BINDING SITE FOR RESIDUE MG A 601
2AC2SOFTWAREARG A:463 , TYR A:464 , TYR A:465 , HOH A:1051 , HOH A:1106BINDING SITE FOR RESIDUE MG A 603
3AC3SOFTWAREARG B:463 , TYR B:465BINDING SITE FOR RESIDUE MG B 601

(-) SS Bonds  (0, 0)

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

(-) Cis Peptide Bonds  (10, 10)

Asymmetric Unit
No.Residues
1Ile A:40 -Pro A:41
2Thr A:85 -His A:86
3Leu A:136 -Pro A:137
4Ser A:328 -His A:329
5Trp A:546 -Asn A:547
6Ile B:40 -Pro B:41
7Thr B:85 -His B:86
8Leu B:136 -Pro B:137
9Ser B:328 -His B:329
10Trp B:546 -Asn B:547

 Sequence-Structure Mapping

(-) SAPs(SNPs)/Variants  (0, 0)

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

(-) PROSITE Motifs  (0, 0)

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

(-) Exons   (0, 0)

(no "Exon" information available for 4JKL)

(-) 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:587
                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                           
               SCOP domains ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SCOP domains
               CATH domains ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- CATH domains
               Pfam domains ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author ............eeee..eeeeeee.............eeee...hhhhh.hhhhhh...eeeeeeeee.......eeeeeee.....eeeeee..eeeeeee.....eeee.hhhhh...eeeeeeeee..........eeeeeee.....eeeeeee.............eeeeeee...eeeeeeeeee......eeeeeeeee.....eeeeeee.....eeeee...eeee.............eeeeeeeee..eeeeeeeeee....eeee..eeee..ee..eeeee............hhhhhhhhhhhhhhhh..eee......hhhhhhhhhhhh.eeeee..........hhhhh..hhhhhhhhhhhhhhhhh....eeeeeeee.......hhhhhhhhhhhhhhhhh.....eeeee................eeeee..........hhhhhhhhhhhhhhhhhhhh....eeeee.................hhhhhhhhhhhhhhhhh....eeeeee..............................hhhhhhhhhhh.......... Sec.struct. author
                 SAPs(SNPs) ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 4jkl A  -1 NAMLYPLLTKTRNTYDLGGIWNFKLGEHNPNELLPSDEVMVIPTSFNDLMVSKEKRDYIGDFWYEKVIEVPKVSEDEEMVLRFGSVTHQAKIYVDGVLVGEHKGGFTPFEVLVPECKYNNEKIKVSICANNVLDYTTLPVGNYSEIIQEDGSIKKKVRENFDFFNYAGVHRPLKLMIRPKNHIFDITITSRLSDDLQSADLHFLVETNQKVDEVRISVFDEDNKLVGETKDSRLFLSDVHLWEVLNAYLYTARVEIFVDNQLQDVYEENFGLREIEVTNGQFLLNRKPIYFKGFGKHEDTFINGRGLNEAANLMDLNLLKDMGANSFRTSHYPYSEEMMRLADRMGVLVIDEVPAVGLFQNNGTWNLMQTKAAHEQAIQELVKRDKNHPSVVMWVVANEPASHEAGAHDYFEPLVKLYKDLDPQKRPVTLVNILMATPDRDQVMDLVDVVCLNRYYGWYVDHGDLTNAEVGIRKELLEWQDKFPDKPIIITEYGADTLPGLHSTWNIPYTEEFQCDFYEMSHRVFDGIPNLVGEQVWNFADFETNLMILRVQGNHKGLFSRNRQPKQVVKEFKKRWMTIPHYHNKKN 596
                                     8        18        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||     379       389       399       409       419       429       439       449       459       469       479       489       499       509       519       529       539       549       559       569       579       589       
                                                                                                                                                                                                                                                                                                                                                                                                  359|                                                                                                                                                                                                                                 
                                                                                                                                                                                                                                                                                                                                                                                                   371                                                                                                                                                                                                                                 


Chain B from PDB  Type:PROTEIN  Length:587
                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                           
               SCOP domains ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SCOP domains
               CATH domains ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- CATH domains
               Pfam domains ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author ............eeee..eeeeeee.............eeee...hhhhh.hhhhhh...eeeeeeeee.......eeeeeee.....eeeeee..eeeeeee.....eeee.hhhhh...eeeeeeeee..........eeeeeee.....eeeeeee.............eeeeeee...eeeeeeeeee......eeeeeeeee.....eeeeeee.....eeeee...eeee.............eeeeeeeee..eeeeeeeeee....eeee..eeee..ee..eeeee............hhhhhhhhhhhhhhh...eee......hhhhhhhhhhhh.eeeee..........hhhhhh.hhhhhhhhhhhhhhhhh....eeeeeeee.......hhhhhhhhhhhhhhhhh.....eeeee................eeeee..........hhhhhhhhhhhhhhhhhhhh....eeeee.................hhhhhhhhhhhhhhhhh....eeeeee..............................hhhhhhhhhhh.......... Sec.struct. author
                 SAPs(SNPs) ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 4jkl B  -1 NAMLYPLLTKTRNTYDLGGIWNFKLGEHNPNELLPSDEVMVIPTSFNDLMVSKEKRDYIGDFWYEKVIEVPKVSEDEEMVLRFGSVTHQAKIYVDGVLVGEHKGGFTPFEVLVPECKYNNEKIKVSICANNVLDYTTLPVGNYSEIIQEDGSIKKKVRENFDFFNYAGVHRPLKLMIRPKNHIFDITITSRLSDDLQSADLHFLVETNQKVDEVRISVFDEDNKLVGETKDSRLFLSDVHLWEVLNAYLYTARVEIFVDNQLQDVYEENFGLREIEVTNGQFLLNRKPIYFKGFGKHEDTFINGRGLNEAANLMDLNLLKDMGANSFRTSHYPYSEEMMRLADRMGVLVIDEVPAVGLFQNNGTWNLMQTKAAHEQAIQELVKRDKNHPSVVMWVVANEPASHEAGAHDYFEPLVKLYKDLDPQKRPVTLVNILMATPDRDQVMDLVDVVCLNRYYGWYVDHGDLTNAEVGIRKELLEWQDKFPDKPIIITEYGADTLPGLHSTWNIPYTEEFQCDFYEMSHRVFDGIPNLVGEQVWNFADFETNLMILRVQGNHKGLFSRNRQPKQVVKEFKKRWMTIPHYHNKKN 596
                                     8        18        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||     379       389       399       409       419       429       439       449       459       469       479       489       499       509       519       529       539       549       559       569       579       589       
                                                                                                                                                                                                                                                                                                                                                                                                  359|                                                                                                                                                                                                                                 
                                                                                                                                                                                                                                                                                                                                                                                                   371
   Legend:   → Mismatch (orange background)
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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 4JKL)

(-) CATH Domains  (0, 0)

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

(-) Pfam Domains  (0, 0)

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

(-) Gene Ontology  (5, 5)

Asymmetric Unit(hide GO term definitions)

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(-) Related Entries Specified in the PDB File

4jkk 4jkm