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(-) Description

Title :  CRYSTAL STRUCTURAL ANALYSIS OF ACTIVE SITE MUTANT Q189E OF LGTC
 
Authors :  L. L. Lairson, C. P. Chiu, H. D. Ly, S. He, W. W. Wakarchuk, N. C. Strynadka, S. G. Withers
Date :  23 Mar 04  (Deposition) - 21 Sep 04  (Release) - 24 Feb 09  (Revision)
Method :  X-RAY DIFFRACTION
Resolution :  2.60
Chains :  Asym./Biol. Unit :  A
Keywords :  Alpha-Beta Protein, Transferase (Keyword Search: [Gene Ontology, PubMed, Web (Google)] )
 
Reference :  L. L. Lairson, C. P. Chiu, H. D. Ly, S. He, W. W. Wakarchuk, N. C. Strynadka, S. G. Withers
Intermediate Trapping On A Mutant Retaining Alpha-Galactosyltransferase Identifies An Unexpected Aspartate Residue.
J. Biol. Chem. V. 279 28339 2004
PubMed-ID: 15075344  |  Reference-DOI: 10.1074/JBC.M400451200
(for further references see the PDB file header)

(-) Compounds

Molecule 1 - ALPHA-1,4-GALACTOSYL TRANSFERASE
    Chains: A
    EC Number: 2.4.1.44
    Engineered: YES
    Expression System: ESCHERICHIA COLI BL21
    Expression System Plasmid: PCW
    Expression System Strain: BL21
    Expression System Taxid: 511693
    Expression System Vector Type: PLASMID
    Gene: LGTC
    Mutation: YES
    Organism Scientific: NEISSERIA MENINGITIDIS
    Organism Taxid: 487
    Synonym: LGTC

 Structural Features

(-) Chains, Units

  1
Asymmetric/Biological Unit : A

Summary Information (see also Sequences/Alignments below)

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

Asymmetric/Biological Unit (2, 2)
No.NameCountTypeFull Name
1MN1Ligand/IonMANGANESE (II) ION
2UPF1Ligand/IonURIDINE-5'-DIPHOSPHATE-2-DEOXY-2-FLUOROGALACTOSE

(-) Sites  (2, 2)

Asymmetric Unit (2, 2)
No.NameEvidenceResiduesDescription
1AC1SOFTWAREASP A:103 , ASP A:105 , HIS A:244 , UPF A:401BINDING SITE FOR RESIDUE MN A 400
2AC2SOFTWAREALA A:6 , ALA A:7 , ASP A:8 , ASN A:10 , TYR A:11 , HIS A:78 , ILE A:79 , SER A:80 , THR A:83 , ASP A:103 , ILE A:104 , ASP A:105 , ASN A:153 , ALA A:154 , GLY A:155 , TYR A:186 , GLN A:187 , ASP A:188 , GLU A:189 , HIS A:244 , CYS A:246 , GLY A:247 , LYS A:250 , MN A:400BINDING SITE FOR RESIDUE UPF A 401

(-) SS Bonds  (0, 0)

(no "SS Bond" information available for 1SS9)

(-) Cis Peptide Bonds  (1, 1)

Asymmetric/Biological Unit
No.Residues
1Met A:238 -Pro A:239

 Sequence-Structure Mapping

(-) SAPs(SNPs)/Variants  (0, 0)

(no "SAP(SNP)/Variant" information available for 1SS9)

(-) PROSITE Motifs  (0, 0)

(no "PROSITE Motif" information available for 1SS9)

(-) Exons   (0, 0)

(no "Exon" information available for 1SS9)

(-) 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:280
 aligned with Q93EK7_NEIME | Q93EK7 from UniProtKB/TrEMBL  Length:311

    Alignment length:282
                                    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  
         Q93EK7_NEIME     1 MDIVFAADDNYAAYLCVAAKSVEAAHPDTEIRFHVLDAGISEANRAAVAANLRGGGGNIRFIDVNPEDFAGFPLNIRHISITTYARLKLGEYIADCDKVLYLDIDVLVRDSLTPLWDTDLGDNWLGACIDLFVERQEGYKQKIGMADGEYYFNAGVLLINLKKWRRHDIFKMSCEWVEQYKDVMQYQDQDILNGLFKGGVCYANSRFNFMPTNYAFMANRFASRHTDPLYRDRTNTVMPVAVSHYCGPAKPWHRDCTAWGAERFTELAGSLTTVPEEWRGKL 282
               SCOP domains d1ss9a_ A: Galactosyltransferase LgtC                                                                                                                                                                                                                                                      SCOP domains
               CATH domains 1ss9A00 A:1-282 Spore Coat Polysaccharide Biosynthesis Protein SpsA; Chain A                                                                                                                                                                                                               CATH domains
               Pfam domains -Glyco_transf_8-1ss9A01 A:2-256                                                                                                                                                                                                                                 -------------------------- Pfam domains
         Sec.struct. author .eeeeeehhhhhhhhhhhhhhhhhh......eeeeee...hhhhhhhhhhhhhhhh..eeeee.hhhhhh.........hhhhhhhhhhhhhh.....eeee...eee...hhhhhh.......eeeeehhhhhh...hhhhhh.......eeeeeeeehhhhhh..hhhhhhhhhhhhh......hhhhhhhhhhh..eee.hhhhh.hhhhhhhhh.--.....hhhhhhhh.......eee................hhhhhhhhh.....hhhhh... Sec.struct. author
                 SAPs(SNPs) ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ SAPs(SNPs)
                    PROSITE ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ PROSITE
                 Transcript ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ Transcript
                 1ss9 A   1 MDIVFAADDNYAAYLCVAAKSVEAAHPDTEIRFHVLDAGISEANRAAVAANLRGGGGNIRFIDVNPEDFAGFPLNIRHISITTYARLKLGEYIADCDKVLYLDIDVLVRDSLTPLWDTDLGDNWLGACIDLFVERQEGYKQKIGMADGEYYFNAGVLLINLKKWRRHDIFKMSCEWVEQYKDVMQYQDEDILNGLFKGGVCYANSRFNFMPTNYAFMAN--ASRHTDPLYRDRTNTVMPVAVSHYCGPAKPWHRDCTAWGAERFTELAGSLTTVPEEWRGKL 282
                                    10        20        30        40        50        60        70        80        90       100       110       120       130       140       150       160       170       180       190       200       210        |- |     230       240       250       260       270       280  
                                                                                                                                                                                                                                                    219  |                                                            
                                                                                                                                                                                                                                                       222
   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  (1, 1)

Asymmetric/Biological Unit
(-)
Class: Alpha and beta proteins (a/b) (23833)

(-) CATH Domains  (1, 1)

Asymmetric/Biological Unit
(-)
Class: Alpha Beta (26913)

(-) Pfam Domains  (1, 1)

Asymmetric/Biological Unit
(-)
Clan: GT-A (172)

(-) Gene Ontology  (2, 2)

Asymmetric/Biological Unit(hide GO term definitions)
Chain A   (Q93EK7_NEIME | Q93EK7)
molecular function
    GO:0046872    metal ion binding    Interacting selectively and non-covalently with any metal ion.
    GO:0016757    transferase activity, transferring glycosyl groups    Catalysis of the transfer of a glycosyl group from one compound (donor) to another (acceptor).

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 Related Entries

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

UniProtKB/TrEMBL
        Q93EK7_NEIME | Q93EK7: 1g9r 1ga8

(-) Related Entries Specified in the PDB File

1g9r 1ga8