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(-) Description

Title :  1.8 ANGSTROM CRYSTAL STRUCTURE OF LISTERIA MONOCYTOGENES LMO0184 ALPHA-1,6-GLUCOSIDASE
 
Authors :  S. H. Light, A. S. Halavaty, W. F. Anderson, Center For Structural Ge Infectious Diseases (Csgid)
Date :  10 Sep 15  (Deposition) - 30 Sep 15  (Release) - 23 Nov 16  (Revision)
Method :  X-RAY DIFFRACTION
Resolution :  1.80
Chains :  Asym./Biol. Unit :  A,B,C
Keywords :  Glycoside Hydrolase Family 13, Structural Genomics, Center For Structural Genomics Of Infectious Diseases, Csgid, Hydrolase (Keyword Search: [Gene Ontology, PubMed, Web (Google)] )
 
Reference :  S. H. Light, L. A. Cahoon, A. S. Halavaty, N. E. Freitag, W. F. Anderson
Structure To Function Of An Alpha-Glucan Metabolic Pathway That Promotes Listeria Monocytogenes Pathogenesis.
Nat Microbiol V. 2 16202 2016
PubMed-ID: 27819654  |  Reference-DOI: 10.1038/NMICROBIOL.2016.202

(-) Compounds

Molecule 1 - LMO0184 PROTEIN
    Chains: B, A, C
    Engineered: YES
    Expression System: ESCHERICHIA COLI
    Expression System Taxid: 562
    Gene: LMO0184
    Organism Scientific: LISTERIA MONOCYTOGENES SEROVAR 1/2A (STRAIN ATCC BAA-679 / EGD-E)
    Organism Taxid: 169963
    Strain: ATCC BAA-679 / EGD-E

 Structural Features

(-) Chains, Units

  123
Asymmetric/Biological Unit : ABC

Summary Information (see also Sequences/Alignments below)

(-) Ligands, Modified Residues, Ions  (3, 10)

Asymmetric/Biological Unit (3, 10)
No.NameCountTypeFull Name
1BGC3Ligand/IonBETA-D-GLUCOSE
2BTB3Ligand/Ion2-[BIS-(2-HYDROXY-ETHYL)-AMINO]-2-HYDROXYMETHYL-PROPANE-1,3-DIOL
3CL4Ligand/IonCHLORIDE ION

(-) Sites  (10, 10)

Asymmetric Unit (10, 10)
No.NameEvidenceResiduesDescription
01AC1SOFTWAREASP B:61 , TYR B:64 , HIS B:104 , PHE B:142 , PHE B:161 , GLN B:165 , ARG B:195 , ASP B:197 , GLU B:254 , HIS B:327 , ASP B:328 , ARG B:413 , BTB B:603 , HOH B:785 , HOH B:846binding site for residue BGC B 601
02AC2SOFTWARELYS B:163 , ASN B:389 , HOH B:910binding site for residue CL B 602
03AC3SOFTWAREPHE B:161 , GLU B:254 , PRO B:256 , PHE B:280 , LYS B:292 , ASP B:328 , GLU B:386 , ARG B:413 , BGC B:601 , HOH B:1024 , HOH B:1131binding site for residue BTB B 603
04AC4SOFTWAREASP A:61 , TYR A:64 , HIS A:104 , PHE A:142 , PHE A:161 , GLN A:165 , ARG A:195 , ASP A:197 , GLU A:254 , HIS A:327 , ASP A:328 , ARG A:413 , BTB A:603 , HOH A:828 , HOH A:923binding site for residue BGC A 601
05AC5SOFTWARELYS A:163 , ASN A:389binding site for residue CL A 602
06AC6SOFTWAREGLU A:254 , PHE A:280 , LYS A:292 , ASP A:328 , GLU A:386 , ARG A:413 , BGC A:601 , HOH A:716 , HOH A:717 , HOH A:892binding site for residue BTB A 603
07AC7SOFTWAREASP C:61 , TYR C:64 , HIS C:104 , PHE C:142 , PHE C:161 , GLN C:165 , ARG C:195 , ASP C:197 , GLU C:254 , HIS C:327 , ASP C:328 , ARG C:413 , BTB C:604 , HOH C:783 , HOH C:862binding site for residue BGC C 601
08AC8SOFTWAREARG B:345 , HOH B:1166 , ASN C:121binding site for residue CL C 602
09AC9SOFTWARELYS C:163 , ASN C:389binding site for residue CL C 603
10AD1SOFTWAREGLU C:254 , PHE C:280 , LYS C:292 , ASP C:328 , GLU C:386 , ARG C:413 , BGC C:601 , HOH C:722 , HOH C:729binding site for residue BTB C 604

(-) SS Bonds  (0, 0)

(no "SS Bond" information available for 5DO8)

(-) Cis Peptide Bonds  (0, 0)

(no "Cis Peptide Bond" information available for 5DO8)

 Sequence-Structure Mapping

(-) SAPs(SNPs)/Variants  (0, 0)

(no "SAP(SNP)/Variant" information available for 5DO8)

(-) PROSITE Motifs  (0, 0)

(no "PROSITE Motif" information available for 5DO8)

(-) Exons   (0, 0)

(no "Exon" information available for 5DO8)

(-) 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:552
                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                        
               SCOP domains ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ SCOP domains
               CATH domains ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ CATH domains
               Pfam domains ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ Pfam domains
         Sec.struct. author ..hhhhh..eeeehhhhh.........hhhhhhhhhhhhhhhh..eeee...ee...........eeeee.....hhhhhhhhhhhhhhh..eeeeee........hhhhhhhh......hhhhh.eehhhhh...........eee......eee.............hhhhhhhhhhhhhhhhhhh..eeee.hhhhh...................hhhhh....hhhhhhhhhhhhhhhhh..eeeee....hhhhhhhhhhhhhh...eee....................hhhhhhhhhhhhhhhhh.....ee........hhhhhh.....hhhhhhhhhhhhhhh...eeeee.hhhhh.......hhhhh.hhhhhhhhhhhhhhh.hhhhhhhhhhhhhhhhhh.......hhhhhh.........hhhhhh.hhhhhhhh..hhhhhhhhhhhhhhhhhhhhhheeeee......eeeeeee....eeeeeee.....ee..hhhhhhhhhhheeeee........ee....eeeeee.. Sec.struct. author
                 SAPs(SNPs) ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ SAPs(SNPs)
                    PROSITE ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ PROSITE
                 Transcript ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ Transcript
                 5do8 A   3 EKDWWKKSVVYQIYPKSFNDSNGDGVGDIQGIIEKLDYLKELGVDVIWLSPVYDSPQDDNGYDIRDYQKIYEEYGDMATFDQLLQGLHDRDMKLVMDLVVNHTSDEHKWFEESRKSKDNPYRDYYFWREENEINNWGSIFSGPAWELDEKTGEYYLHLFSKKQPDLNWENPKLRQDVYNMMKFWLDKGIDGFRMDVINFISKNTDFPDGPVPDGQIYGDAGNDFCNGPRIHEFLQEMNQEVTSKYDVMTVGEMPGASTTDAQIYTNPANNEVDMIFTFEHMNLDSDSDNKWDLKPIYLPDLKENMSEWQVALQENGWNSLYWNNHDQPRIVSRFGNDNRFRVRSAKMLATCLHMMKGTPYIYQGEEIGMTNVHFETLDDYRDIETLNMYKERKEQGHSHESIMQSIYTKGRDNARTPYQWDNSENAGFTTGTPWLKVNPRYTEINNEEALKNPDSIFYYYQNLIKLRKTTEIITTGNYRLLLPKDEAIFAYERYTENEKLVVLCNFTEEEQVISDETILNEIQKGSVLVNNVPNIIEGTLRPYEAIVYQIKG 554
                                    12        22        32        42        52        62        72        82        92       102       112       122       132       142       152       162       172       182       192       202       212       222       232       242       252       262       272       282       292       302       312       322       332       342       352       362       372       382       392       402       412       422       432       442       452       462       472       482       492       502       512       522       532       542       552  


Chain B from PDB  Type:PROTEIN  Length:553
                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                         
               SCOP domains ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SCOP domains
               CATH domains ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- CATH domains
               Pfam domains ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author ..hhhhh..eeeehhhhh.........hhhhhhhhhhhhhhhh..eeee...ee...........eeeee.....hhhhhhhhhhhhhh...eeeeee........hhhhhhhh......hhhhh.eehhhhh...........eee......eee.............hhhhhhhhhhhhhhhhhh...eeee.hhhhh............................hhhhhhhhhhhhhhhhh..eeeee....hhhhhhhhhhhhhh...eee.hhhhh..............hhhhhhhhhhhhhhhhh.....ee........hhhhhh.....hhhhhhhhhhhhhhh...eeeee.hhhhh.......hhhhh.hhhhhhhhhhhhhh..hhhhhhhhhhhhhhhhhh.......hhhhhh.........hhhhhh.hhhhhhhh..hhhhhhhhhhhhhhhhhhhhhheeeee......eeeeeeee..eeeeeeee.....ee..hhhhhhhhhh.eeeee........ee....eeeeeee.. Sec.struct. author
                 SAPs(SNPs) ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 5do8 B   3 EKDWWKKSVVYQIYPKSFNDSNGDGVGDIQGIIEKLDYLKELGVDVIWLSPVYDSPQDDNGYDIRDYQKIYEEYGDMATFDQLLQGLHDRDMKLVMDLVVNHTSDEHKWFEESRKSKDNPYRDYYFWREENEINNWGSIFSGPAWELDEKTGEYYLHLFSKKQPDLNWENPKLRQDVYNMMKFWLDKGIDGFRMDVINFISKNTDFPDGPVPDGQIYGDAGNDFCNGPRIHEFLQEMNQEVTSKYDVMTVGEMPGASTTDAQIYTNPANNEVDMIFTFEHMNLDSDSDNKWDLKPIYLPDLKENMSEWQVALQENGWNSLYWNNHDQPRIVSRFGNDNRFRVRSAKMLATCLHMMKGTPYIYQGEEIGMTNVHFETLDDYRDIETLNMYKERKEQGHSHESIMQSIYTKGRDNARTPYQWDNSENAGFTTGTPWLKVNPRYTEINNEEALKNPDSIFYYYQNLIKLRKTTEIITTGNYRLLLPKDEAIFAYERYTENEKLVVLCNFTEEEQVISDETILNEIQKGSVLVNNVPNIIEGTLRPYEAIVYQIKGA 555
                                    12        22        32        42        52        62        72        82        92       102       112       122       132       142       152       162       172       182       192       202       212       222       232       242       252       262       272       282       292       302       312       322       332       342       352       362       372       382       392       402       412       422       432       442       452       462       472       482       492       502       512       522       532       542       552   


Chain C from PDB  Type:PROTEIN  Length:551
                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                       
               SCOP domains ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SCOP domains
               CATH domains ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- CATH domains
               Pfam domains ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author .hhhhh..eeeehhhhhh........hhhhhhhhhhhhhhhh..eeee...ee...........eeeee.hhhhhhhhhhhhhhhhhhh..eeeeee........hhhhhhhh......hhhhh.eehhhhh...........eee......eee.............hhhhhhhhhhhhhhhhhh...eeee.hhhhh............................hhhhhhhhhhhhhhhhh..eeeee....hhhhhhhhhhhhhh...eee.hhhhh..............hhhhhhhhhhhhhhhhh.....ee........hhhhhh.....hhhhhhhhhhhhhhh...eeeee.hhhhh.......hhhhh.hhhhhhhhhhhhhh..hhhhhhhhhhhhhhhhhh.......hhhhhh.........hhhhhh.hhhhhhhh..hhhhhhhhhhhhhhhhhhhhhheeeee......eeeeeeee..eeeeeeee.....ee..hhhhhhhhhh.eeeee........ee....eeeeeee. Sec.struct. author
                 SAPs(SNPs) ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 5do8 C   4 KDWWKKSVVYQIYPKSFNDSNGDGVGDIQGIIEKLDYLKELGVDVIWLSPVYDSPQDDNGYDIRDYQKIYEEYGDMATFDQLLQGLHDRDMKLVMDLVVNHTSDEHKWFEESRKSKDNPYRDYYFWREENEINNWGSIFSGPAWELDEKTGEYYLHLFSKKQPDLNWENPKLRQDVYNMMKFWLDKGIDGFRMDVINFISKNTDFPDGPVPDGQIYGDAGNDFCNGPRIHEFLQEMNQEVTSKYDVMTVGEMPGASTTDAQIYTNPANNEVDMIFTFEHMNLDSDSDNKWDLKPIYLPDLKENMSEWQVALQENGWNSLYWNNHDQPRIVSRFGNDNRFRVRSAKMLATCLHMMKGTPYIYQGEEIGMTNVHFETLDDYRDIETLNMYKERKEQGHSHESIMQSIYTKGRDNARTPYQWDNSENAGFTTGTPWLKVNPRYTEINNEEALKNPDSIFYYYQNLIKLRKTTEIITTGNYRLLLPKDEAIFAYERYTENEKLVVLCNFTEEEQVISDETILNEIQKGSVLVNNVPNIIEGTLRPYEAIVYQIKG 554
                                    13        23        33        43        53        63        73        83        93       103       113       123       133       143       153       163       173       183       193       203       213       223       233       243       253       263       273       283       293       303       313       323       333       343       353       363       373       383       393       403       413       423       433       443       453       463       473       483       493       503       513       523       533       543       553
   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 5DO8)

(-) CATH Domains  (0, 0)

(no "CATH Domain" information available for 5DO8)

(-) Pfam Domains  (0, 0)

(no "Pfam Domain" information available for 5DO8)

(-) Gene Ontology  (2, 2)

Asymmetric/Biological Unit(hide GO term definitions)

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