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(-) Description

Title :  STRUCTURAL INSIGHTS INTO THE LOSS OF CATALYTIC COMPETENCE IN PECTATE LYASE AT LOW PH
 
Authors :  S. C. M. Teixeira, S. Ali, C. Sondergaard, R. Pickersgill
Date :  02 Sep 15  (Deposition) - 30 Sep 15  (Release) - 09 Dec 15  (Revision)
Method :  X-RAY DIFFRACTION
Resolution :  1.57
Chains :  Asym./Biol. Unit :  A
Keywords :  Lyase, Pectate Lyase, Bacillus Subtillis, Catalytic Activity (Keyword Search: [Gene Ontology, PubMed, Web (Google)] )
 
Reference :  S. Ali, C. R. Sondergaard, S. Teixeira, R. W. Pickersgill
Structural Insights Into The Loss Of Catalytic Competence In Pectate Lyase Activity At Low Ph.
Febs Lett. V. 589 3242 2015
PubMed-ID: 26420545  |  Reference-DOI: 10.1016/J.FEBSLET.2015.09.014

(-) Compounds

Molecule 1 - PECTATE LYASE
    Chains: A
    Engineered: YES
    Expression System: ESCHERICHIA COLI
    Expression System Strain: BL21(DE3)
    Expression System Taxid: 469008
    Expression System Variant: PLYSS
    Organism Scientific: BACILLUS SUBTILIS
    Organism Taxid: 1423
    Synonym: PL

 Structural Features

(-) Chains, Units

  1
Asymmetric/Biological Unit : A

Summary Information (see also Sequences/Alignments below)

(-) Ligands, Modified Residues, Ions  (4, 6)

Asymmetric/Biological Unit (4, 6)
No.NameCountTypeFull Name
1ACT1Ligand/IonACETATE ION
2ADA3Ligand/IonALPHA-D-GALACTOPYRANURONIC ACID
3CA1Ligand/IonCALCIUM ION
4GOL1Ligand/IonGLYCEROL

(-) Sites  (4, 4)

Asymmetric Unit (4, 4)
No.NameEvidenceResiduesDescription
1AC1SOFTWAREASP A:184 , ASP A:223 , ASP A:227 , HOH A:2352 , HOH A:2354 , HOH A:2390BINDING SITE FOR RESIDUE CA A 401
2AC2SOFTWARELEU A:75 , TYR A:163 , TYR A:165 , HIS A:221 , HOH A:2338 , HOH A:2339BINDING SITE FOR RESIDUE ACT A 402
3AC3SOFTWAREVAL A:141 , ASP A:161 , GLY A:204 , SER A:205 , ARG A:206BINDING SITE FOR RESIDUE GOL A 403
4AC4SOFTWAREASP A:173 , GLY A:174 , ASN A:178 , ARG A:217 , GLN A:278 , ARG A:279 , ARG A:282 , SER A:307 , PHE A:339 , HOH A:2347 , HOH A:2348 , HOH A:2385 , HOH A:2415 , HOH A:2451 , HOH A:2454 , HOH A:2478 , HOH A:2480 , HOH A:2513 , HOH A:2587 , HOH A:2588 , HOH A:2589BINDING SITE FOR POLY-SACCHARIDE RESIDUES ADA A 404 THROUGH ADA A 406

(-) SS Bonds  (0, 0)

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

(-) Cis Peptide Bonds  (1, 1)

Asymmetric/Biological Unit
No.Residues
1Ala A:280 -Pro A:281

 Sequence-Structure Mapping

(-) SAPs(SNPs)/Variants  (0, 0)

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

(-) PROSITE Motifs  (0, 0)

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

(-) Exons   (0, 0)

(no "Exon" information available for 5AMV)

(-) 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:399
                                                                                                                                                                                                                                                                                                                                                                                                                                               
               SCOP domains --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SCOP domains
               CATH domains --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- CATH domains
               Pfam domains --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author .hhhhh......hhhhh..........hhh.eeee.hhhhhhhhhh.......eeeee..eee..........hhhhhh....hhhhhhhhhhhhhhh.....hhhhhhhhhhhhhhhhhheee....eeeee.....eee..eeee..eeeeee..eee.......eee.......eee.....eeee..eeeeee..eee....hhhhh.ee..ee.......eeee...eeeeee..eeeeeee..ee.....hhhhh....eeee..eeeeeee...ee...eeeee..eee.............eee....eeeee..eee....hhhh.eee.......eee..ee..ee.hhhhhh.................hhhhhhhhhhhhh...... Sec.struct. author
                 SAPs(SNPs) --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 5amv A   1 ADLGHQTLGSNDGWGAYSTGTTGGSKASSSNVYTVSNRNQLVSALGKETNTTPKIIYIKGTIDMNVDDNLKPLGLNDYKDPEYDLDKYLKAYDPSTWGKKEPSGTQEEARARSQKNQKARVMVDIPANTTIVGSGTNAKVVGGNFQIKSDNVIIRNIEFQDAYDYFPQWDPTDGSSGNWNSQYDNITINGGTHIWIDHCTFNDGSRPDSTSPKYYGRKYQHHDGQTDASNGANYITMSYNYYHDHDKSSIFGSSDSKTSDDGKLKITLHHNRYKNIVQRAPRVRFGQVHVYNNYYEGSTSSSSYPFSYAWGIGKSSKIYAQNNVIDVPGLSAAKTISVFSGGTALYDSGTLLNGTQINASAANGLSSSVGWTPSLHGSIDASANVKSNVINQAGAGKLN 399
                                    10        20        30        40        50        60        70        80        90       100       110       120       130       140       150       160       170       180       190       200       210       220       230       240       250       260       270       280       290       300       310       320       330       340       350       360       370       380       390
   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 5AMV)

(-) CATH Domains  (0, 0)

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

(-) Pfam Domains  (0, 0)

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

(-) Gene Ontology  (5, 5)

Asymmetric/Biological Unit(hide GO term definitions)

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  Cis Peptide Bonds
    Ala A:280 - Pro A:281   [ RasMol ]  
 

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 Related Entries

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

UniProtKB/Swiss-Prot
        PLY_BACSU | P39116: 1bn8 2bsp 2nzm 2o04 2o0v 2o0w 2o17 2o1d 3krg

(-) Related Entries Specified in the PDB File

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