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(-) Description

Title :  STREPTOMYCES PLICATUS N-ACETYL-BETA-HEXOSAMINIDASE IN COMPLEX WITH NAGLUCAL
 
Authors :  G. Vadlamani, B. L. Mark
Date :  15 Dec 15  (Deposition) - 26 Oct 16  (Release) - 26 Oct 16  (Revision)
Method :  X-RAY DIFFRACTION
Resolution :  2.00
Chains :  Asym. Unit :  A
Biol. Unit 1:  A  (1x)
Biol. Unit 2:  A  (2x)
Keywords :  Family 20 Glycoside Hydrolase, Sphex, Gh20, Nag-Glucal, Hexosaminidase, Glycosidase Inhibitor, Hydrolase (Keyword Search: [Gene Ontology, PubMed, Web (Google)] )
 
Reference :  A. G. Santana, G. Vadlamani, B. L. Mark, S. G. Withers
N-Acetyl Glycals Are Tight-Binding And Environmentally Insensitive Inhibitors Of Hexosaminidases.
Chem. Commun. (Camb. ) V. 52 7943 2016
PubMed-ID: 27253678  |  Reference-DOI: 10.1039/C6CC02520J

(-) Compounds

Molecule 1 - B-N-ACETYLHEXOSAMINIDASE
    Chains: A
    Engineered: YES
    Expression System: ESCHERICHIA COLI
    Expression System Plasmid: PET-3A
    Expression System Strain: BL21-GOLD(DE3)
    Expression System Taxid: 562
    Expression System Vector Type: PLASMID
    Gene: HEX
    Organism Scientific: STREPTOMYCES PLICATUS
    Organism Taxid: 1922

 Structural Features

(-) Chains, Units

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

Summary Information (see also Sequences/Alignments below)

(-) Ligands, Modified Residues, Ions  (3, 7)

Asymmetric Unit (3, 7)
No.NameCountTypeFull Name
1GOL2Ligand/IonGLYCEROL
2NAG1Ligand/IonN-ACETYL-D-GLUCOSAMINE
3SO44Ligand/IonSULFATE ION
Biological Unit 1 (3, 7)
No.NameCountTypeFull Name
1GOL2Ligand/IonGLYCEROL
2NAG1Ligand/IonN-ACETYL-D-GLUCOSAMINE
3SO44Ligand/IonSULFATE ION
Biological Unit 2 (3, 14)
No.NameCountTypeFull Name
1GOL4Ligand/IonGLYCEROL
2NAG2Ligand/IonN-ACETYL-D-GLUCOSAMINE
3SO48Ligand/IonSULFATE ION

(-) Sites  (7, 7)

Asymmetric Unit (7, 7)
No.NameEvidenceResiduesDescription
1AC1SOFTWAREARG A:162 , HIS A:250 , ASP A:313 , GLU A:314 , TRP A:361 , TYR A:393 , ASP A:395 , LEU A:406 , TRP A:408 , TRP A:442 , GLU A:444 , HOH A:818 , HOH A:886binding site for residue NAG A 601
2AC2SOFTWAREARG A:39 , LYS A:320 , ALA A:321 , HOH A:742 , HOH A:807 , HOH A:968binding site for residue SO4 A 602
3AC3SOFTWAREARG A:52 , THR A:73 , ALA A:74 , HIS A:75binding site for residue SO4 A 603
4AC4SOFTWAREARG A:150 , ALA A:423 , HOH A:715 , HOH A:782 , HOH A:812 , HOH A:876 , HOH A:1010binding site for residue SO4 A 604
5AC5SOFTWAREGLY A:220 , THR A:223 , LYS A:224 , ALA A:225 , HOH A:708 , HOH A:712 , HOH A:727 , HOH A:733 , HOH A:849 , HOH A:864 , HOH A:1013binding site for residue SO4 A 605
6AC6SOFTWAREASP A:19 , THR A:478 , ARG A:482 , HOH A:817 , HOH A:834 , HOH A:982 , HOH A:1075binding site for residue GOL A 606
7AC7SOFTWAREARG A:416 , HOH A:725 , HOH A:758 , HOH A:1021 , HOH A:1168 , HOH A:1177 , HOH A:1280binding site for residue GOL A 607

(-) SS Bonds  (0, 0)

(no "SS Bond" information available for 5FD0)

(-) Cis Peptide Bonds  (4, 4)

Asymmetric Unit
No.Residues
1Ile A:22 -Pro A:23
2Gly A:136 -Pro A:137
3Met A:247 -Pro A:248
4Phe A:457 -Pro A:458

 Sequence-Structure Mapping

(-) SAPs(SNPs)/Variants  (0, 0)

(no "SAP(SNP)/Variant" information available for 5FD0)

(-) PROSITE Motifs  (0, 0)

(no "PROSITE Motif" information available for 5FD0)

(-) Exons   (0, 0)

(no "Exon" information available for 5FD0)

(-) 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:499
                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                   
               SCOP domains ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SCOP domains
               CATH domains ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- CATH domains
               Pfam domains ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author ...................eeee....eee.....eee..hhhhhhhhhhhhhhhhhhhh....ee......eeeee.........eeeeee..eeeeee.hhhhhhhhhhhhhhhhhhhhhh.......eee..eeeee.....eeeeeee......hhhhhhhhhhhhhh....eeeee..............hhhhhh..............hhhhhhhhhhhhhhh..eeeee......hhhhhhhhhhhh......................hhhhhhhhhhhhhhhhhh....eee.........hhhhhhhhhhhhhhhhhhh..eeeee.hhhhh......eeee......hhhhhhhhhhhhhh..eeee..........................hhhhhhh.hhhhh....hhh.eeeeeeee......hhhhhhhhhh.hhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhh............ Sec.struct. author
                 SAPs(SNPs) ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 5fd0 A   8 DRKAPVRPTPLDRVIPAPASVDPGGAPYRITRGTHIRVDDSREARRVGDYLADLLRPATGYRLPVTAHGHGGIRLRLAGGPYGDEGYRLDSGPAGVTITARKAAGLFHGVQTLRQLLPPAVEKDSAQPGPWLVAGGTIEDTPRYAWRSAMLDVSRHFFGVDEVKRYIDRVARYKYNKLHLHLSDDQGWRIAIDSWPRLATYGGSTEVGGGPGGYYTKAEYKEIVRYAASRHLEVVPEIDMPGHTNAALASYAELNCDGVAPPLYTGTKVGFSSLCVDKDVTYDFVDDVIGELAALTPGRYLHIGGDEAHSTPKADFVAFMKRVQPIVAKYGKTVVGWHQLAGAEPVEGALVQYWGLDRTGDAEKAEVAEAARNGTGLILSPADRTYLDMKYTKDTPLGLSWAGYVEVQRSYDWDPAGYLPGAPADAVRGVEAPLWTETLSDPDQLDYMAFPRLPGVAELGWSPASTHDWDTYKVRLAAQAPYWEAAGIDFYRSPQVPWT 506
                                    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       407       417       427       437       447       457       467       477       487       497
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  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 5FD0)

(-) CATH Domains  (0, 0)

(no "CATH Domain" information available for 5FD0)

(-) Pfam Domains  (0, 0)

(no "Pfam Domain" information available for 5FD0)

(-) Gene Ontology  (3, 3)

Asymmetric Unit(hide GO term definitions)

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  5fd0
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 Related Entries

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

UniProtKB/TrEMBL
        O85361_STRPL | O85361: 1hp4 1hp5 1jak 1m01 1m03 1m04 5fcz

(-) Related Entries Specified in the PDB File

1hp4 1HP4 IS THE UNLIGANDED ENZYME (SPHEX)
1hp5 1HP5 IS SPHEX BOUND TO NAG-THIAZOLINE
1jak 1JAK IS SPHEX BOUND TO GALNAC-ISOFAGOMINE
1m01 1M01 IS SPHEX BOUND TO GLCNAC
5fcz