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(-) Description

Title :  THE XENOGRAFT ANTIGEN IN COMPLEX WITH THE B4 ISOLECTIN OF GRIFFONIA SIMPLICIFOLIA LECTIN-1
 
Authors :  W. Tempel, L. A. Lipscomb, J. P. Rose, R. J. Woods
Date :  18 Dec 00  (Deposition) - 16 Jan 02  (Release) - 13 Jul 11  (Revision)
Method :  X-RAY DIFFRACTION
Resolution :  2.20
Chains :  Asym. Unit :  A,B
Biol. Unit 1:  A,B  (2x)
Keywords :  Griffonia Simplicifolia, Lectin, Xenograft Antigen, Sugar Binding Protein (Keyword Search: [Gene Ontology, PubMed, Web (Google)] )
 
Reference :  W. Tempel, S. Tschampel, R. J. Woods
The Xenograft Antigen Bound To Griffonia Simplicifolia Lectin 1-B(4). X-Ray Crystal Structure Of The Complex And Molecular Dynamics Characterization Of The Binding Site.
J. Biol. Chem. V. 277 6615 2002
PubMed-ID: 11714721  |  Reference-DOI: 10.1074/JBC.M109919200

(-) Compounds

Molecule 1 - LECTIN
    Chains: A, B
    Organ: SEED
    Organism Scientific: GRIFFONIA SIMPLICIFOLIA
    Organism Taxid: 3850

 Structural Features

(-) Chains, Units

  12
Asymmetric Unit : AB
Biological Unit 1 (2x): AB

Summary Information (see also Sequences/Alignments below)

(-) Ligands, Modified Residues, Ions  (5, 12)

Asymmetric Unit (5, 12)
No.NameCountTypeFull Name
1CA2Ligand/IonCALCIUM ION
2GLA2Ligand/IonALPHA D-GALACTOSE
3MBG2Ligand/IonMETHYL-BETA-GALACTOSE
4MN2Ligand/IonMANGANESE (II) ION
5NAG4Ligand/IonN-ACETYL-D-GLUCOSAMINE
Biological Unit 1 (3, 16)
No.NameCountTypeFull Name
1CA-1Ligand/IonCALCIUM ION
2GLA4Ligand/IonALPHA D-GALACTOSE
3MBG4Ligand/IonMETHYL-BETA-GALACTOSE
4MN-1Ligand/IonMANGANESE (II) ION
5NAG8Ligand/IonN-ACETYL-D-GLUCOSAMINE

(-) Sites  (11, 11)

Asymmetric Unit (11, 11)
No.NameEvidenceResiduesDescription
01AC1SOFTWARETRP A:47 , ALA A:87 , ASP A:88 , GLU A:106 , ASN A:134 , GLY A:221 , ASN A:222 , ASN A:223BINDING SITE FOR RESIDUE GLA A 401
02AC2SOFTWARETRP B:47 , ALA B:87 , ASP B:88 , GLU B:106 , TRP B:132 , ASN B:134 , GLY B:221 , ASN B:222 , ASN B:223 , MBG B:402 , HOH B:534BINDING SITE FOR RESIDUE GLA B 401
03AC3SOFTWARETRP B:132 , ASN B:222 , GLA B:401BINDING SITE FOR RESIDUE MBG B 402
04AC4SOFTWAREGLN A:46 , NAG A:502BINDING SITE FOR RESIDUE NAG A 501
05AC5SOFTWAREASN A:27 , NAG A:501 , HOH A:527 , TYR B:41BINDING SITE FOR RESIDUE NAG A 502
06AC6SOFTWARENAG B:502BINDING SITE FOR RESIDUE NAG B 501
07AC7SOFTWARETYR A:41 , ASN B:27 , NAG B:501BINDING SITE FOR RESIDUE NAG B 502
08AC8SOFTWAREGLU A:128 , ASP A:130 , GLU A:139 , HIS A:144 , HOH A:508 , HOH A:509BINDING SITE FOR RESIDUE MN A 301
09AC9SOFTWAREASP A:130 , TRP A:132 , ASN A:134 , GLU A:139 , HOH A:504 , HOH A:506BINDING SITE FOR RESIDUE CA A 302
10BC1SOFTWAREGLU B:128 , ASP B:130 , GLU B:139 , HIS B:144 , HOH B:508 , HOH B:509BINDING SITE FOR RESIDUE MN B 301
11BC2SOFTWAREASP B:130 , TRP B:132 , ASN B:134 , GLU B:139 , HOH B:504 , HOH B:513BINDING SITE FOR RESIDUE CA B 302

(-) SS Bonds  (0, 0)

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

(-) Cis Peptide Bonds  (2, 2)

Asymmetric Unit
No.Residues
1Ala A:87 -Asp A:88
2Ala B:87 -Asp B:88

 Sequence-Structure Mapping

(-) SAPs(SNPs)/Variants  (0, 0)

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

(-) PROSITE Motifs  (0, 0)

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

(-) Exons   (0, 0)

(no "Exon" information available for 1HQL)

(-) 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 d1hqla_ A: Legume lectin                                                                                                                                                                                                                     SCOP domains
               CATH domains 1hqlA00 A:4-239  [code=2.60.120.200, no name defined]                                                                                                                                                                                        CATH domains
               Pfam domains -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author ..eeee.....hhhh.eeeee..eee..eee..............eeeeee...ee..........eeeeeeeeeeee.......eeeeeee........hhhhh.........hhhhh..eeeeee.............eeeeee......eeee.hhhhhh....eeeeeeee....eeeeeeee...eeeeeeee.hhhhh...eeeeeeeee......eeeeeeeeeeeee. Sec.struct. author
                 SAPs(SNPs) -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 1hql 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      


Chain B 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 d1hqlb_ B: Legume lectin                                                                                                                                                                                                                     SCOP domains
               CATH domains 1hqlB00 B:4-239  [code=2.60.120.200, no name defined]                                                                                                                                                                                        CATH domains
               Pfam domains -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author .eeeee.....hhhh.eeeee..eee..eee..............eeeeee...ee..........eeeeeeeeeeee.......eeeeeee........hhhhh.........hhhhh..eeeeee.............eeeeee......eeee.hhhhhh....eeeeeeee....eeeeeeee...eeeeeeee.hhhhh...eeeeeeeee......eeeeeeeeeeeee. Sec.struct. author
                 SAPs(SNPs) -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 1hql B   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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  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, 2)

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

(-) CATH Domains  (1, 2)

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

(-) Pfam Domains  (0, 0)

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

(-) Gene Ontology  (2, 2)

Asymmetric Unit(hide GO term definitions)
Chain A,B   (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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        Q8W1R6_GRISI | Q8W1R6: 1gnz

(-) Related Entries Specified in the PDB File

1gnz LECTIN I-B4 FROM GRIFFONIA SIMPLICIFOLIA (GS I-B4) METAL FREE FORM
1gsl GRIFFONIA SIMPLICIFOLIA LECTIN-4