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(-) Description

Title :  STRUCTURE OF THE CARBOHYDRATE RECOGNITION DOMAIN OF DECTIN-2 COMPLEXED WITH A MAMMALIAN-TYPE HIGH MANNOSE MAN9GLCNAC2 OLIGOSACCHARIDE
 
Authors :  H. Feinberg, S. A. F. Jegouzo, M. J. Rex, K. Drickamer, M. E. Taylor, W. I.
Date :  24 May 17  (Deposition) - 05 Jul 17  (Release) - 12 Jul 17  (Revision)
Method :  X-RAY DIFFRACTION
Resolution :  2.40
Chains :  Asym./Biol. Unit :  A
Keywords :  Carbohydrate-Binding Protein; Lectin; Glycoprotein, Sugar Binding Protein (Keyword Search: [Gene Ontology, PubMed, Web (Google)] )
 
Reference :  H. Feinberg, S. A. F. Jegouzo, M. J. Rex, K. Drickamer, W. I. Weis, M. E. Taylor
Mechanism Of Pathogen Recognition By Human Dectin-2.
J. Biol. Chem. 2017
PubMed-ID: 28652405  |  Reference-DOI: 10.1074/JBC.M117.799080

(-) Compounds

Molecule 1 - C-TYPE LECTIN DOMAIN FAMILY 6 MEMBER A
    Chains: A
    Engineered: YES
    Expression System: ESCHERICHIA COLI BL21(DE3)
    Expression System Taxid: 469008
    Gene: CLEC6A, CLECSF10, DECTIN2
    Organism Common: HUMAN
    Organism Scientific: HOMO SAPIENS
    Organism Taxid: 9606
    Other Details: THE N-TERMINAL ALA IS A RESULT OF CLONING
    Synonym: C-TYPE LECTIN SUPERFAMILY MEMBER 10,DENDRITIC CELL- ASSOCIATED C-TYPE LECTIN 2,DECTIN-2

 Structural Features

(-) Chains, Units

  1
Asymmetric/Biological Unit : A

Summary Information (see also Sequences/Alignments below)

(-) Ligands, Modified Residues, Ions  (5, 11)

Asymmetric/Biological Unit (5, 11)
No.NameCountTypeFull Name
1BMA1Ligand/IonBETA-D-MANNOSE
2CA2Ligand/IonCALCIUM ION
3MAN6Ligand/IonALPHA-D-MANNOSE
4NA1Ligand/IonSODIUM ION
5PEG1Ligand/IonDI(HYDROXYETHYL)ETHER

(-) Sites  (5, 5)

Asymmetric Unit (5, 5)
No.NameEvidenceResiduesDescription
1AC1SOFTWAREGLU A:168 , ASN A:170 , GLU A:174 , ASN A:190 , ASP A:191 , MAN A:302 , MAN A:306binding site for residue CA A 308
2AC2SOFTWAREVAL A:116 , ASN A:118 , GLU A:122 , GLU A:203 , HOH A:408 , HOH A:414binding site for residue CA A 309
3AC3SOFTWARETRP A:149 , HIS A:171 , GLU A:174 , ASP A:191 , HOH A:402 , HOH A:412binding site for residue NA A 310
4AC4SOFTWAREPHE A:163 , TRP A:164 , THR A:185binding site for residue PEG A 311
5AC5SOFTWAREGLU A:168 , ASN A:170 , GLU A:174 , TRP A:182 , ASN A:190 , ASP A:191 , ARG A:198 , CA A:308 , HOH A:403binding site for Poly-Saccharide residues MAN A 301 through MAN A 307

(-) SS Bonds  (4, 4)

Asymmetric/Biological Unit
No.Residues
1A:66 -A:78
2A:79 -A:90
3A:107 -A:202
4A:176 -A:194

(-) Cis Peptide Bonds  (2, 2)

Asymmetric/Biological Unit
No.Residues
1Glu A:168 -Pro A:169
2Lys A:183 -Pro A:184

 Sequence-Structure Mapping

(-) SAPs(SNPs)/Variants  (0, 0)

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

(-) PROSITE Motifs  (0, 0)

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

(-) Exons   (0, 0)

(no "Exon" information available for 5VYB)

(-) Sequences/Alignments

Asymmetric/Biological Unit
   Reformat: Number of residues per line =  ('0' or empty: single-line sequence representation)
  Number of residues per labelling interval =   
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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:143
                                                                                                                                                                               
               SCOP domains ----------------------------------------------------------------------------------------------------------------------------------------------- SCOP domains
               CATH domains ----------------------------------------------------------------------------------------------------------------------------------------------- CATH domains
               Pfam domains ----------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author .eeeee...eeeee...eee..eeeeeeeeeehhhhhhhhhhhh..ee....hhhhhhhhhh.......eeeeee........ee........................eeeeeee...eeeeeee.....eeeeeeee.eee Sec.struct. author
                 SAPs(SNPs) ----------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE ----------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript ----------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 5vyb A  63 ALTCFSEGAWGCCPASWKSFGSSCYFISSEEKVWSKSEQNCVEMGAHLVVFNTEAEQNFIVQQLNESFSYFLGLSDPQGNNNWQWIDKTPYEKNVRFWHLGEPNHSAEQCASIVFWKPTGWGWNDVICETRRNSICEMNKIYL 209
                                   |76        86        96       106       116       126       136       146       156       166       176       186       196       206   
                                  70|                                                                                                                                      
                                   75
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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 5VYB)

(-) CATH Domains  (0, 0)

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

(-) Pfam Domains  (0, 0)

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

(-) Gene Ontology  (11, 11)

Asymmetric/Biological Unit(hide GO term definitions)

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  Cis Peptide Bonds
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