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(-) Description

Title :  THE MONOSACCHARIDE BINDING SITE OF LENTIL LECTIN: AN X-RAY AND MOLECULAR MODELLING STUDY
 
Authors :  R. Loris, L. Wyns
Date :  17 Nov 93  (Deposition) - 31 Jan 94  (Release) - 24 Feb 09  (Revision)
Method :  X-RAY DIFFRACTION
Resolution :  3.00
Chains :  Asym. Unit :  A,B
Biol. Unit 1:  A,B  (2x)
Keywords :  Lectin (Keyword Search: [Gene Ontology, PubMed, Web (Google)] )
 
Reference :  R. Loris, F. Casset, J. Bouckaert, J. Pletinckx, M. H. Dao-Thi, F. Poortmans, A. Imberty, S. Perez, L. Wyns
The Monosaccharide Binding Site Of Lentil Lectin: An X-Ray And Molecular Modelling Study.
Glycoconj. J. V. 11 507 1994
PubMed-ID: 7696853  |  Reference-DOI: 10.1007/BF00731301
(for further references see the PDB file header)

(-) Compounds

Molecule 1 - LECTIN
    Chains: A
    Engineered: YES
    Organism Common: LENTIL
    Organism Scientific: LENS CULINARIS
    Organism Taxid: 3864
 
Molecule 2 - LECTIN
    Chains: B
    Engineered: YES
    Organism Common: LENTIL
    Organism Scientific: LENS CULINARIS
    Organism Taxid: 3864

 Structural Features

(-) Chains, Units

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

Summary Information (see also Sequences/Alignments below)

(-) Ligands, Modified Residues, Ions  (3, 3)

Asymmetric Unit (3, 3)
No.NameCountTypeFull Name
1CA1Ligand/IonCALCIUM ION
2GLC1Ligand/IonALPHA-D-GLUCOSE
3MN1Ligand/IonMANGANESE (II) ION
Biological Unit 1 (1, 2)
No.NameCountTypeFull Name
1CA-1Ligand/IonCALCIUM ION
2GLC2Ligand/IonALPHA-D-GLUCOSE
3MN-1Ligand/IonMANGANESE (II) ION

(-) Sites  (5, 5)

Asymmetric Unit (5, 5)
No.NameEvidenceResiduesDescription
1AC1SOFTWAREALA A:80 , ASP A:81 , GLY A:98 , GLY A:99 , PHE A:123 , ASN A:125 , GLY B:29 , ALA B:30 , GLU B:31BINDING SITE FOR RESIDUE GLC A 248
2AC2SOFTWAREGLY A:99 , ASP A:121 , PHE A:123 , ASN A:125 , ASP A:129BINDING SITE FOR RESIDUE CA A 249
3AC3SOFTWAREGLU A:119 , ASP A:121 , ASP A:129 , HIS A:136 , HOH A:270BINDING SITE FOR RESIDUE MN A 250
4CA1UNKNOWNASP A:121 , PHE A:123 , ASN A:125 , ASP A:129NULL
5MN1UNKNOWNGLU A:119 , ASP A:121 , ASP A:129 , HIS A:136NULL

(-) SS Bonds  (0, 0)

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

(-) Cis Peptide Bonds  (1, 1)

Asymmetric Unit
No.Residues
1Ala A:80 -Asp A:81

 Sequence-Structure Mapping

(-) SAPs(SNPs)/Variants  (0, 0)

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

(-) PROSITE Motifs  (2, 2)

Asymmetric Unit (2, 2)
 PROSITEUniProtKBPDB
No.IDACDescriptionIDLocationCountLocation
1LECTIN_LEGUME_BETAPS00307 Legume lectins beta-chain signature.LEC_LENCU146-152  1A:116-122
2LECTIN_LEGUME_ALPHAPS00308 Legume lectins alpha-chain signature.LEC_LENCU233-242  1B:16-25
Biological Unit 1 (2, 4)
 PROSITEUniProtKBPDB
No.IDACDescriptionIDLocationCountLocation
1LECTIN_LEGUME_BETAPS00307 Legume lectins beta-chain signature.LEC_LENCU146-152  2A:116-122
2LECTIN_LEGUME_ALPHAPS00308 Legume lectins alpha-chain signature.LEC_LENCU233-242  2B:16-25

(-) Exons   (0, 0)

(no "Exon" information available for 1LEM)

(-) 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:181
 aligned with LEC_LENCU | P02870 from UniProtKB/Swiss-Prot  Length:275

    Alignment length:181
                                    40        50        60        70        80        90       100       110       120       130       140       150       160       170       180       190       200       210 
            LEC_LENCU    31 TETTSFSITKFSPDQKNLIFQGDGYTTKGKLTLTKAVKSTVGRALYSTPIHIWDRDTGNVANFVTSFTFVIDAPSSYNVADEFTFFIAPVDTKPQTGGGYLGVFNSKEYDKTSQTVAVEFDTFYNAAWDPSNKERHIGIDVNSIKSVNTKSWNLQNGERANVVIAFNAATNVLTVTLTYPN 211
               SCOP domains d1lem.1 A:,B: Legume lectin                                                                                                                                                           SCOP domains
               CATH domains 1lemA00 A:1-181  [code=2.60.120.200, no name defined]                                                                                                                                 CATH domains
               Pfam domains ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author .eeeeeee.........eeeeee.................eeeeee...............eeeeeeee............eeeeee...........hhh..............eeeeee..............eeeeee....eeeeee......eeeeeeeee......eeeeeee.. Sec.struct. author
                 SAPs(SNPs) ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE -------------------------------------------------------------------------------------------------------------------LECTIN_----------------------------------------------------------- PROSITE
                 Transcript ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 1lem A   1 TETTSFSITKFSPDQQNLIFQGDGYTTKGKLTLTKAVKSTVGRALYSTPIHIWDRDTGNVANFVTSFTFVIDAPSSYNVADGFTFFIAPVDTKPQTGGGYLGVFNSKEYDKTSQTVAVEFDTFYNAAWDPSNKERHIGIDVNSIKSVNTKSWNLQNGERANVVIAFNAATNVLTVTLTYPN 181
                                    10        20        30        40        50        60        70        80        90       100       110       120       130       140       150       160       170       180 


Chain B from PDB  Type:PROTEIN  Length:47
 aligned with LEC_LENCU | P02870 from UniProtKB/Swiss-Prot  Length:275

    Alignment length:47
                                   227       237       247       257       
            LEC_LENCU   218 VTSYTLNEVVPLKDVVPEWVRIGFSATTGAEFAAHEVHSWSFHSELG 264
               SCOP domains d1lem.1 A:,B: Legume lectin                     SCOP domains
               CATH domains ----------------------------------------------- CATH domains
               Pfam domains ----------------------------------------------- Pfam domains
         Sec.struct. author .eeeeeee..hhhh.......eeeeee...........eeeeeeee. Sec.struct. author
                 SAPs(SNPs) ----------------------------------------------- SAPs(SNPs)
                    PROSITE ---------------LECTIN_LEG---------------------- PROSITE
                 Transcript ----------------------------------------------- Transcript
                 1lem B   1 VTSYTLNEVVPLKDVVPEWVRIGFSATTGAEFAAQEVHSWSFNSQLG  47
                                    10        20        30        40
   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 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 1LEM)

(-) Gene Ontology  (6, 6)

Asymmetric Unit(hide GO term definitions)
Chain A,B   (LEC_LENCU | P02870)
molecular function
    GO:0005509    calcium ion binding    Interacting selectively and non-covalently with calcium ions (Ca2+).
    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:0030145    manganese ion binding    Interacting selectively and non-covalently with manganese (Mn) ions.
    GO:0005537    mannose binding    Interacting selectively and non-covalently with mannose, a monosaccharide hexose, stereoisomeric with glucose, that occurs naturally only in polymerized forms called mannans.
    GO:0046872    metal ion binding    Interacting selectively and non-covalently with any metal ion.
biological process
    GO:0009756    carbohydrate mediated signaling    A series of molecular signals mediated by the detection of carbohydrate.

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  1lem
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  LEC_LENCU | P02870
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 Related Entries

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

UniProtKB/Swiss-Prot
        LEC_LENCU | P02870: 1len 1les 2lal

(-) Related Entries Specified in the PDB File

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