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(-) Description

Title :  CRYSTAL STRUCTURE DETERMINATION AND REFINEMENT AT 2.3 ANGSTROMS RESOLUTION OF THE LENTIL LECTIN
 
Authors :  R. Loris, J. Steyaert, D. Maes, J. Lisgarten, R. Pickersgill, L. Wyns
Date :  10 Jun 93  (Deposition) - 31 Oct 93  (Release) - 24 Feb 09  (Revision)
Method :  X-RAY DIFFRACTION
Resolution :  1.80
Chains :  Asym./Biol. Unit :  A,B,C,D
Keywords :  Lectin (Keyword Search: [Gene Ontology, PubMed, Web (Google)] )
 
Reference :  R. Loris, D. Van Overberge, M. H. Dao-Thi, F. Poortmans, N. Maene, L. Wyns
Structural Analysis Of Two Crystal Forms Of Lentil Lectin At 1. 8 A Resolution.
Proteins V. 20 330 1994
PubMed-ID: 7731952  |  Reference-DOI: 10.1002/PROT.340200406
(for further references see the PDB file header)

(-) Compounds

Molecule 1 - LENTIL LECTIN (ALPHA CHAIN)
    Chains: A, C
    Engineered: YES
    Organ: SEED
    Organism Common: LENTIL
    Organism Scientific: LENS CULINARIS
    Organism Taxid: 3864
 
Molecule 2 - LENTIL LECTIN (BETA CHAIN)
    Chains: B, D
    Engineered: YES
    Organ: SEED
    Organism Common: LENTIL
    Organism Scientific: LENS CULINARIS
    Organism Taxid: 3864

 Structural Features

(-) Chains, Units

  1234
Asymmetric/Biological Unit : ABCD

Summary Information (see also Sequences/Alignments below)

(-) Ligands, Modified Residues, Ions  (3, 6)

Asymmetric/Biological Unit (3, 6)
No.NameCountTypeFull Name
1CA2Ligand/IonCALCIUM ION
2MN2Ligand/IonMANGANESE (II) ION
3PO42Ligand/IonPHOSPHATE ION

(-) Sites  (12, 12)

Asymmetric Unit (12, 12)
No.NameEvidenceResiduesDescription
01AC1SOFTWAREASP A:81 , GLY A:98 , GLY A:99 , PHE A:123 , ASN A:125 , HOH A:280 , GLY B:29BINDING SITE FOR RESIDUE PO4 A 182
02AC2SOFTWARELYS A:111 , ASP C:81 , GLY C:98 , GLY C:99 , PHE C:123 , ASN C:125 , HOH C:198 , HOH C:268 , HOH C:270 , HOH C:271 , GLY D:29BINDING SITE FOR RESIDUE PO4 C 182
03AC3SOFTWAREGLU A:119 , ASP A:121 , ASP A:129 , HIS A:136 , HOH A:231 , HOH A:232BINDING SITE FOR RESIDUE MN A 183
04AC4SOFTWAREASP A:121 , PHE A:123 , ASN A:125 , ASP A:129 , HOH A:185 , HOH A:191BINDING SITE FOR RESIDUE CA A 184
05AC5SOFTWAREGLU C:119 , ASP C:121 , ASP C:129 , HIS C:136 , HOH C:224 , HOH C:225BINDING SITE FOR RESIDUE MN C 183
06AC6SOFTWAREASP C:121 , PHE C:123 , ASN C:125 , ASP C:129 , HOH C:220 , HOH C:221BINDING SITE FOR RESIDUE CA C 184
07CA1UNKNOWNASP A:121 , PHE A:123 , ASN A:125 , ASP A:129NULL
08CA2UNKNOWNASP C:121 , PHE C:123 , ASN C:125 , ASP C:129NULL
09MN1UNKNOWNGLU A:119 , ASP A:121 , ASP A:129 , HIS A:136NULL
10MN2UNKNOWNGLU C:119 , ASP C:121 , ASP C:129 , HIS C:136NULL
11PO1UNKNOWNASP A:81 , GLY A:99 , ASN A:125NULL
12PO2UNKNOWNASP C:81 , GLY C:99 , ASN C:125NULL

(-) SS Bonds  (0, 0)

(no "SS Bond" information available for 2LAL)

(-) Cis Peptide Bonds  (2, 2)

Asymmetric/Biological Unit
No.Residues
1Ala A:80 -Asp A:81
2Ala C:80 -Asp C:81

 Sequence-Structure Mapping

(-) SAPs(SNPs)/Variants  (0, 0)

(no "SAP(SNP)/Variant" information available for 2LAL)

(-) PROSITE Motifs  (2, 4)

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

(-) Exons   (0, 0)

(no "Exon" information available for 2LAL)

(-) Sequences/Alignments

Asymmetric/Biological 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 d2lal.1 A:,B: Legume lectin                                                                                                                                                           SCOP domains
               CATH domains 2lalA00 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
                 2lal 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 d2lal.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
                 2lal B   1 VTSYTLNEVVPLKDVVPEWVRIGFSATTGAEFAAQEVHSWSFNSQLG  47
                                    10        20        30        40       


Chain C 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 d2lal.2 C:,D: Legume lectin                                                                                                                                                           SCOP domains
               CATH domains 2lalC00 C: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
                 2lal C   1 TETTSFSITKFSPDQQNLIFQGDGYTTKGKLTLTKAVKSTVGRALYSTPIHIWDRDTGNVANFVTSFTFVIDAPSSYNVADGFTFFIAPVDTKPQTGGGYLGVFNSKEYDKTSQTVAVEFDTFYNAAWDPSNKERHIGIDVNSIKSVNTKSWNLQNGERANVVIAFNAATNVLTVTLTYPN 181
                                    10        20        30        40        50        60        70        80        90       100       110       120       130       140       150       160       170       180 


Chain D 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 d2lal.2 C:,D: Legume lectin                     SCOP domains
               CATH domains ----------------------------------------------- CATH domains
           Pfam domains (1) Lectin_legB-2lalD01 D:1-43                 ---- Pfam domains (1)
           Pfam domains (2) Lectin_legB-2lalD02 D:1-43                 ---- Pfam domains (2)
           Pfam domains (3) Lectin_legB-2lalD03 D:1-43                 ---- Pfam domains (3)
           Pfam domains (4) Lectin_legB-2lalD04 D:1-43                 ---- Pfam domains (4)
         Sec.struct. author .eeeeeee..hhhh.......eeeeee...........eeeeeeee. Sec.struct. author
                 SAPs(SNPs) ----------------------------------------------- SAPs(SNPs)
                    PROSITE ---------------LECTIN_LEG---------------------- PROSITE
                 Transcript ----------------------------------------------- Transcript
                 2lal D   1 VTSYTLNEVVPLKDVVPEWVRIGFSATTGAEFAAQEVHSWSFNSQLG  47
                                    10        20        30        40
   Legend:   → Mismatch (orange background)
  - → Gap (green background, '-', border residues have a numbering label)
    → Modified Residue (blue background, lower-case, 'x' indicates undefined single-letter code, labelled with number + name)
  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/Biological Unit
(-)
Class: All beta proteins (24004)

(-) CATH Domains  (1, 2)

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

(-) Pfam Domains  (1, 4)

Asymmetric/Biological Unit
(-)
Clan: Concanavalin (293)

(-) Gene Ontology  (6, 6)

Asymmetric/Biological Unit(hide GO term definitions)
Chain A,B,C,D   (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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  2lal
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 Related Entries

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

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

(-) Related Entries Specified in the PDB File

(no "Related Entries Specified in the PDB File" available for 2LAL)