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(-) Description

Title :  SOYBEAN AGGLUTININ
 
Authors :  L. R. Olsen, A. Dessen, D. Gupta, S. Sabesan, C. F. Brewer, J. C. Sacchett
Date :  21 Oct 97  (Deposition) - 22 Apr 98  (Release) - 13 Jul 11  (Revision)
Method :  X-RAY DIFFRACTION
Resolution :  2.43
Chains :  Asym. Unit :  A
Biol. Unit 1:  A  (4x)
Keywords :  Lectin, Agglutinin (Keyword Search: [Gene Ontology, PubMed, Web (Google)] )
 
Reference :  L. R. Olsen, A. Dessen, D. Gupta, S. Sabesan, J. C. Sacchettini, C. F. Brewer
X-Ray Crystallographic Studies Of Unique Cross-Linked Lattices Between Four Isomeric Biantennary Oligosaccharides And Soybean Agglutinin.
Biochemistry V. 36 15073 1997
PubMed-ID: 9398234  |  Reference-DOI: 10.1021/BI971828+
(for further references see the PDB file header)

(-) Compounds

Molecule 1 - SOYBEAN AGGLUTININ
    Chains: A
    Organism Common: SOYBEAN
    Organism Scientific: GLYCINE MAX
    Organism Taxid: 3847

 Structural Features

(-) Chains, Units

  1
Asymmetric Unit : A
Biological Unit 1 (4x): A

Summary Information (see also Sequences/Alignments below)

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

Asymmetric Unit (4, 4)
No.NameCountTypeFull Name
1CA1Ligand/IonCALCIUM ION
2GAL1Ligand/IonBETA-D-GALACTOSE
3MN1Ligand/IonMANGANESE (II) ION
4NAG1Ligand/IonN-ACETYL-D-GLUCOSAMINE
Biological Unit 1 (2, 8)
No.NameCountTypeFull Name
1CA-1Ligand/IonCALCIUM ION
2GAL4Ligand/IonBETA-D-GALACTOSE
3MN-1Ligand/IonMANGANESE (II) ION
4NAG4Ligand/IonN-ACETYL-D-GLUCOSAMINE

(-) Sites  (4, 4)

Asymmetric Unit (4, 4)
No.NameEvidenceResiduesDescription
1AC1SOFTWARELEU A:214 , ASP A:215 , GAL A:745BINDING SITE FOR RESIDUE NAG A 744
2AC2SOFTWAREASP A:88 , GLY A:106 , PHE A:128 , ASN A:130 , GLY A:213 , LEU A:214 , ASP A:215 , NAG A:744BINDING SITE FOR RESIDUE GAL A 745
3AC3SOFTWAREGLU A:124 , ASP A:126 , ASP A:133 , HIS A:138 , HOH A:901 , HOH A:902BINDING SITE FOR RESIDUE MN A 600
4AC4SOFTWAREASP A:126 , PHE A:128 , ASN A:130 , ASP A:133 , HOH A:903 , HOH A:927BINDING SITE FOR RESIDUE CA A 601

(-) SS Bonds  (0, 0)

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

(-) Cis Peptide Bonds  (1, 1)

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

 Sequence-Structure Mapping

(-) SAPs(SNPs)/Variants  (0, 0)

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

(-) PROSITE Motifs  (2, 2)

Asymmetric Unit (2, 2)
 PROSITEUniProtKBPDB
No.IDACDescriptionIDLocationCountLocation
1LECTIN_LEGUME_BETAPS00307 Legume lectins beta-chain signature.LEC_SOYBN153-159  1A:121-127
2LECTIN_LEGUME_ALPHAPS00308 Legume lectins alpha-chain signature.LEC_SOYBN232-241  1A:200-209
Biological Unit 1 (2, 8)
 PROSITEUniProtKBPDB
No.IDACDescriptionIDLocationCountLocation
1LECTIN_LEGUME_BETAPS00307 Legume lectins beta-chain signature.LEC_SOYBN153-159  4A:121-127
2LECTIN_LEGUME_ALPHAPS00308 Legume lectins alpha-chain signature.LEC_SOYBN232-241  4A:200-209

(-) Exons   (0, 0)

(no "Exon" information available for 1SBF)

(-) 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:234
 aligned with LEC_SOYBN | P05046 from UniProtKB/Swiss-Prot  Length:285

    Alignment length:234
                                    42        52        62        72        82        92       102       112       122       132       142       152       162       172       182       192       202       212       222       232       242       252       262    
            LEC_SOYBN    33 AETVSFSWNKFVPKQPNMILQGDAIVTSSGKLQLNKVDENGTPKPSSLGRALYSTPIHIWDKETGSVASFAASFNFTFYAPDTKRLADGLAFFLAPIDTKPQTHAGYLGLFNENESGDQVVAVEFDTFRNSWDPPNPHIGINVNSIRSIKTTSWDLANNKVAKVLITYDASTSLLVASLVYPSQRTSNILSDVVDLKTSLPEWVRIGFSAATGLDIPGESHDVLSWSFASNLPH 266
               SCOP domains d1sbfa_ A: Legume lectin                                                                                                                                                                                                                   SCOP domains
               CATH domains 1sbfA00 A:1-234  [code=2.60.120.200, no name defined]                                                                                                                                                                                      CATH domains
               Pfam domains -Lectin_legB-1sbfA01 A:2-229                                                                                                                                                                                                         ----- Pfam domains
         Sec.struct. author .eeeeeee.........eeeee.........................eeeeee...............eeeeeeeeeee........eeeeeeeee........hhh.............eeeeee...........eeeeee......eeee........eeeeeeee....eeeeeeee....eeeeeeee..hhhh....eeeeeeeee.......eeeeeeeeeeeee.. Sec.struct. author
                 SAPs(SNPs) ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ SAPs(SNPs)
                    PROSITE ------------------------------------------------------------------------------------------------------------------------LECTIN_------------------------------------------------------------------------LECTIN_LEG------------------------- PROSITE
                 Transcript ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ Transcript
                 1sbf A   1 AETVSFSWNKFVPKQPNMILQGDAIVTSSGKLQLNKVDENGTPKPSSLGRALYSTPIHIWDKETGSVASFAASFNFTFYAPDTKRLADGLAFFLAPIDTKPQTHAGYLGLFNENESGDQVVAVEFDTFRNSWDPPNPHIGINVNSIRSIKTTSWDLANNKVAKVLITYDASTSLLVASLVYPSQRTSNILSDVVDLKTSLPEWVRIGFSAATGLDIPGESHDVLSWSFASNLPH 234
                                    10        20        30        40        50        60        70        80        90       100       110       120       130       140       150       160       170       180       190       200       210       220       230
   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  (1, 1)

Asymmetric Unit
(-)
Clan: Concanavalin (293)

(-) Gene Ontology  (1, 1)

Asymmetric Unit(hide GO term definitions)
Chain A   (LEC_SOYBN | P05046)
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.

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    Ala A:87 - Asp A:88   [ RasMol ]  
 
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 Related Entries

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UniProtKB/Swiss-Prot
        LEC_SOYBN | P05046: 1g9f 1sbd 1sbe 2sba 4d69

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