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(-) Description

Title :  LECTIN I-B4 FROM GRIFFONIA SIMPLICIFOLIA (GS I-B4)METAL FREE FORM
 
Authors :  J. Lescar, R. Loris, E. Mitchell, C. Gautier, A. Imberty
Date :  11 Oct 01  (Deposition) - 29 Nov 01  (Release) - 07 Sep 11  (Revision)
Method :  X-RAY DIFFRACTION
Resolution :  2.50
Chains :  Asym. Unit :  A
Biol. Unit 1:  A  (2x)
Keywords :  Glycoprotein, Sugar Binding Protein (Keyword Search: [Gene Ontology, PubMed, Web (Google)] )
 
Reference :  J. Lescar, R. Loris, E. Mitchell, C. Gautier, V. Chazalet, V. Cox, L. Wyns, S. Perez, C. Breton, A. Imberty
Isolectins I-A And I-B Of Griffonia (Bandeiraea) Simplicifolia. Crystal Structure Of Metal-Free Gs I-B(4) And Molecular Basis For Metal Binding And Monosaccharide Specificity.
J. Biol. Chem. V. 277 6608 2002
PubMed-ID: 11714720  |  Reference-DOI: 10.1074/JBC.M109867200

(-) Compounds

Molecule 1 - GSI-B4 ISOLECTIN
    Chains: A
    Organ: SEED
    Organism Scientific: GRIFFONIA SIMPLICIFOLIA
    Organism Taxid: 3850
    Other Details: LECTIN I-B4, METAL FREE FORM

 Structural Features

(-) Chains, Units

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

Summary Information (see also Sequences/Alignments below)

(-) Ligands, Modified Residues, Ions  (2, 4)

Asymmetric Unit (2, 4)
No.NameCountTypeFull Name
1NAG2Ligand/IonN-ACETYL-D-GLUCOSAMINE
2PO42Ligand/IonPHOSPHATE ION
Biological Unit 1 (2, 8)
No.NameCountTypeFull Name
1NAG4Ligand/IonN-ACETYL-D-GLUCOSAMINE
2PO44Ligand/IonPHOSPHATE ION

(-) Sites  (4, 4)

Asymmetric Unit (4, 4)
No.NameEvidenceResiduesDescription
1AC1SOFTWARESER A:99 , LYS A:102 , GLN A:123 , HOH A:2033BINDING SITE FOR RESIDUE PO4 A1240
2AC2SOFTWAREGLU A:74 , ARG A:174BINDING SITE FOR RESIDUE PO4 A1241
3AC3SOFTWAREASN A:27 , TYR A:41 , HOH A:2066BINDING SITE FOR CHAIN A OF SUGAR BOUND TO ASN A 27 RESIDUES 1242 TO 1242
4AC4SOFTWAREASN A:112BINDING SITE FOR CHAIN A OF MONO-SACCHARIDE NAG A1243 BOUND TO ASN A 112

(-) SS Bonds  (0, 0)

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

(-) Cis Peptide Bonds  (2, 2)

Asymmetric Unit
No.Residues
1Ala A:87 -Asp A:88
2Glu A:139 -Pro A:140

 Sequence-Structure Mapping

(-) SAPs(SNPs)/Variants  (0, 0)

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

(-) PROSITE Motifs  (0, 0)

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

(-) Exons   (0, 0)

(no "Exon" information available for 1GNZ)

(-) 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:236
 aligned with Q8W1R6_GRISI | Q8W1R6 from UniProtKB/TrEMBL  Length:247

    Alignment length:236
                                   1                                                                                                                                                                                                                                    
                                   | 3        13        23        33        43        53        63        73        83        93       103       113       123       133       143       153       163       173       183       193       203       213       223      
         Q8W1R6_GRISI     - -------NFWSDVEDSIIFQGDANTTAGTLQLCKTNQYGTPLQWSAGRALYSDPVQLWDNKTESVASFYTEFTFFLKITGNGPADGLAFFLAPPDSDVKDAGEYLGLFNKSTATQPSKNQVVAVEFDTWTNPNFPEPSYRHIGINVNSIVSVATKRWEDSDIFSGKIATARISYDGSAEILTVVLSYPDGSDYILSHSVDMRQNLPESVRVGISASTGNNQFLTVYILSWRFSSNL 229
               SCOP domains d1gnza_ A: Legume lectin                                                                                                                                                                                                                     SCOP domains
               CATH domains 1gnzA00 A:4-239  [code=2.60.120.200, no name defined]                                                                                                                                                                                        CATH domains
               Pfam domains -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author ..eeee..........eeeee..eee..eee..............eeeeee...ee..........eeeeeeeeeeee.......eeeeeee........hhhhh.........hhhhh..eeeeee.............eeeeee......eeee.hhhhhh....eeeeeeee....eeeeeee.....eeeeeee.hhhhhh..eeeeeeeee......eeeeeeeeeeeee. Sec.struct. author
                 SAPs(SNPs) -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 1gnz A   4 SVSFTFPNFWSDVEDSIIFQGDANTTAGTLQLCKTNQYGTPLQWSAGRALYSDPVQLWDNKTESVASFYTEFTFFLKITGNGPADGLAFFLAPPDSDVKDAGEYLGLFNKSTATQPSKNQVVAVEFDTWTNPNFPEPSYRHIGINVNSIVSVATKRWEDSDIFSGKIATARISYDGSAEILTVVLSYPDGSDYILSHSVDMRQNLPESVRVGISASTGNNQFLTVYILSWRFSSNL 239
                                    13        23        33        43        53        63        73        83        93       103       113       123       133       143       153       163       173       183       193       203       213       223       233
   Legend:   → Mismatch (orange background)
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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  (1, 1)

Asymmetric Unit
(-)
Class: All beta proteins (24004)

(-) CATH Domains  (1, 1)

Asymmetric Unit
(-)
Class: Mainly Beta (13760)

(-) Pfam Domains  (0, 0)

(no "Pfam Domain" information available for 1GNZ)

(-) Gene Ontology  (2, 2)

Asymmetric Unit(hide GO term definitions)
Chain A   (Q8W1R6_GRISI | Q8W1R6)
molecular function
    GO:0030246    carbohydrate binding    Interacting selectively and non-covalently with any carbohydrate, which includes monosaccharides, oligosaccharides and polysaccharides as well as substances derived from monosaccharides by reduction of the carbonyl group (alditols), by oxidation of one or more hydroxy groups to afford the corresponding aldehydes, ketones, or carboxylic acids, or by replacement of one or more hydroxy group(s) by a hydrogen atom. Cyclitols are generally not regarded as carbohydrates.
    GO:0046872    metal ion binding    Interacting selectively and non-covalently with any metal ion.

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 Related Entries

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        Q8W1R6_GRISI | Q8W1R6: 1hql

(-) Related Entries Specified in the PDB File

1gsl LECTIN (FOURTH ISOLATED FROM (GRIFFONIA SIMPLICIFOLIA)) COMPLEX WITH Y HUMAN BLOOD GROUP DETERMINANT
1lec LECTIN (FOURTH ISOLATED FROM (GRIFFONIA SIMPLICIFOLIA)) (GS4)
1led LECTIN (FOURTH ISOLATED FROM (GRIFFONIA SIMPLICIFOLIA)) COMPLEX WITH LEWIS B HUMAN BLOOD GROUP DETERMINANT (GS4LEB)