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(-) Description

Title :  CRYSTAL STRUCTURE OF THE LECTIN I FROM ULEX EUROPAEUS IN COMPLEX WITH THE METHYL GLYCOSIDE OF ALPHA-L-FUCOSE
 
Authors :  G. F. Audette, D. J. H. Olson, A. R. S. Ross, J. W. Quail, L. T. J. Delbaere
Date :  07 Sep 01  (Deposition) - 06 Dec 02  (Release) - 24 Feb 09  (Revision)
Method :  X-RAY DIFFRACTION
Resolution :  2.30
Chains :  Asym. Unit :  A,B,C,D
Biol. Unit 1:  A,B  (1x)
Biol. Unit 2:  C,D  (1x)
Keywords :  Legume Lectin, Fucose-Specific Lectin, Ue-I, Uea-I, Sugar Binding Protein (Keyword Search: [Gene Ontology, PubMed, Web (Google))
 
Reference :  G. F. Audette, D. J. H. Olson, A. R. S. Ross, J. W. Quail, L. T. J. Delbaere
Examination Of The Structural Basis For O(H) Blood Group Specificity By Ulex Europaeus Lectin I
Can. J. Chem. V. 80 1010 2002
PubMed: search  |  Reference-DOI: 10.1139/V02-134
(for further references see the PDB file header)

(-) Compounds

Molecule 1 - ANTI-H(O) LECTIN I
    ChainsA, B, C, D
    OrganSEEDS
    Organism CommonFURZE
    Organism ScientificULEX EUROPAEUS
    Organism Taxid3902
    SynonymUEA-I

 Structural Features

(-) Chains, Units

  1234
Asymmetric Unit ABCD
Biological Unit 1 (1x)AB  
Biological Unit 2 (1x)  CD

Summary Information (see also Sequences/Alignments below)

(-) Ligands, Modified Residues, Ions  (4, 13)

Asymmetric Unit (4, 13)
No.NameCountTypeFull Name
1CA4Ligand/IonCALCIUM ION
2MFU4Ligand/IonALPHA-L-METHYL-FUCOSE
3MN4Ligand/IonMANGANESE (II) ION
4MRD1Ligand/Ion(4R)-2-METHYLPENTANE-2,4-DIOL
Biological Unit 1 (1, 2)
No.NameCountTypeFull Name
1CA-1Ligand/IonCALCIUM ION
2MFU2Ligand/IonALPHA-L-METHYL-FUCOSE
3MN-1Ligand/IonMANGANESE (II) ION
4MRD-1Ligand/Ion(4R)-2-METHYLPENTANE-2,4-DIOL
Biological Unit 2 (2, 3)
No.NameCountTypeFull Name
1CA-1Ligand/IonCALCIUM ION
2MFU2Ligand/IonALPHA-L-METHYL-FUCOSE
3MN-1Ligand/IonMANGANESE (II) ION
4MRD1Ligand/Ion(4R)-2-METHYLPENTANE-2,4-DIOL

(-) Sites  (13, 13)

Asymmetric Unit (13, 13)
No.NameEvidenceResiduesDescription
01AC1SOFTWAREGLU A:44 , THR A:86 , ASP A:87 , ARG A:102 , ALA A:103 , GLY A:104 , GLY A:105 , ASN A:134BINDING SITE FOR RESIDUE MFU A 501
02AC2SOFTWAREGLU B:44 , THR B:86 , ASP B:87 , GLY B:104 , GLY B:105 , VAL B:133 , ASN B:134 , TYR B:219BINDING SITE FOR RESIDUE MFU B 602
03AC3SOFTWAREGLU C:44 , THR C:86 , ASP C:87 , ARG C:102 , GLY C:104 , GLY C:105 , TYR C:106 , VAL C:133 , ASN C:134 , TYR C:219BINDING SITE FOR RESIDUE MFU C 703
04AC4SOFTWAREGLU D:44 , THR D:86 , ASP D:87 , GLY D:105 , VAL D:133 , ASN D:134 , TYR D:219BINDING SITE FOR RESIDUE MFU D 804
05AC5SOFTWAREGLU A:125 , ASP A:127 , ASP A:137 , HIS A:142 , HOH A:515 , HOH A:516BINDING SITE FOR RESIDUE MN A 245
06AC6SOFTWAREGLU B:125 , ASP B:127 , ASP B:137 , HIS B:142 , HOH B:620 , HOH B:642BINDING SITE FOR RESIDUE MN B 245
07AC7SOFTWAREGLU C:125 , ASP C:127 , ASP C:137 , HIS C:142 , HOH C:918 , HOH C:919BINDING SITE FOR RESIDUE MN C 245
08AC8SOFTWAREGLU D:125 , ASP D:127 , ASP D:137 , HIS D:142 , HOH D:822 , HOH D:823BINDING SITE FOR RESIDUE MN D 245
09AC9SOFTWAREASP A:127 , ILE A:129 , ASN A:134 , ASP A:137 , HOH A:517 , HOH A:518BINDING SITE FOR RESIDUE CA A 246
10BC1SOFTWAREASP B:127 , ILE B:129 , ASN B:134 , ASP B:137 , HOH B:618 , HOH B:641BINDING SITE FOR RESIDUE CA B 246
11BC2SOFTWAREASP C:127 , ILE C:129 , ASN C:134 , ASP C:137 , HOH C:916 , HOH C:917BINDING SITE FOR RESIDUE CA C 246
12BC3SOFTWAREASP D:127 , ILE D:129 , ASN D:134 , ASP D:137 , HOH D:820 , HOH D:821BINDING SITE FOR RESIDUE CA D 246
13BC4SOFTWARECYS C:60 , ASN C:61BINDING SITE FOR RESIDUE MRD C 901

(-) SS Bonds  (4, 4)

Asymmetric Unit
No.Residues
1A:115 -A:149
2B:115 -B:149
3C:115 -C:149
4D:115 -D:149

(-) Cis Peptide Bonds  (8, 8)

Asymmetric Unit
No.Residues
1Thr A:86 -Asp A:87
2Ser A:131 -Pro A:132
3Thr B:86 -Asp B:87
4Ser B:131 -Pro B:132
5Thr C:86 -Asp C:87
6Ser C:131 -Pro C:132
7Thr D:86 -Asp D:87
8Ser D:131 -Pro D:132

 Sequence-Structure Mapping

(-) SAPs(SNPs)/Variants  (0, 0)

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

(-) PROSITE Motifs  (2, 8)

Asymmetric Unit (2, 8)
 PROSITEUniProtKBPDB
No.IDACDescriptionIDLocationCountLocation
1LECTIN_LEGUME_BETAPS00307 Legume lectins beta-chain signature.LEC1_ULEEU123-129
 
 
 
  4A:122-128
B:122-128
C:122-128
D:122-128
2LECTIN_LEGUME_ALPHAPS00308 Legume lectins alpha-chain signature.LEC1_ULEEU207-216
 
 
 
  4A:206-215
B:206-215
C:206-215
D:206-215
Biological Unit 1 (2, 4)
 PROSITEUniProtKBPDB
No.IDACDescriptionIDLocationCountLocation
1LECTIN_LEGUME_BETAPS00307 Legume lectins beta-chain signature.LEC1_ULEEU123-129
 
 
 
  2A:122-128
B:122-128
-
-
2LECTIN_LEGUME_ALPHAPS00308 Legume lectins alpha-chain signature.LEC1_ULEEU207-216
 
 
 
  2A:206-215
B:206-215
-
-
Biological Unit 2 (2, 4)
 PROSITEUniProtKBPDB
No.IDACDescriptionIDLocationCountLocation
1LECTIN_LEGUME_BETAPS00307 Legume lectins beta-chain signature.LEC1_ULEEU123-129
 
 
 
  2-
-
C:122-128
D:122-128
2LECTIN_LEGUME_ALPHAPS00308 Legume lectins alpha-chain signature.LEC1_ULEEU207-216
 
 
 
  2-
-
C:206-215
D:206-215

(-) Exons   (0, 0)

(no "Exon" information available for 1JXN)

(-) 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:240
 aligned with LEC1_ULEEU | P22972 from UniProtKB/Swiss-Prot  Length:243

    Alignment length:241
                                    10        20        30        40        50        60        70        80        90       100       110       120       130       140       150       160       170       180       190       200       210       220       230       240 
           LEC1_ULEEU     1 SDDLSFKFKNFSQNGKDLSFQGDASVIETGVLQLNKVGNNLPDETGGIARYIAPIHIWNCNTGEVASFITSFSFFMETSANPKAATDGLTFFLAPPDSPLRRAGGYFGLFEDTKDNDSSYQTVAVEFDTIGSPVNFDDPGFPHIGIDVNRVKSINAERWNKRYGLNNVANVEIIYEASSKTLTASLTYPSDQTSISVTSIVDLKEILPEWVSVGFSGGTYIGRQATHEVLNWYFTSNLINT 241
               SCOP domains d1jxna_ A: Legume lectin                                                                                                                                                                                                                          SCOP domains
               CATH domains 1jxnA00 A:1-240  [code=2.60.120.200, no name defined]                                                                                                                                                                                             CATH domains
               Pfam domains ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author ..eeeeee........eeeeeeeeeee...eeeeeee.......eeeeeee..............eeeeeeeeeeee.........eeeeeeee........hhhhh.......-.hhhhheeeeeeee.............eeeeeee....eeeee.....hhhhheeeeeee.....eeeeeee.....eeeeeee..hhhhhh.....eeeeeee....eeeeeeeeeeeeee.... Sec.struct. author
                 SAPs(SNPs) ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE --------------------------------------------------------------------------------------------------------------------------LECTIN_-----------------------------------------------------------------------------LECTIN_LEG------------------------- PROSITE
                 Transcript ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 1jxn A   1 SDDLSFKFKNFSQNGKDLSFQGNASVIETGVLQLNKVGNNLPDETGGIARYIAPIHIWNCNTGELASFITSFSFFMETSANPKAATDGLTFFLAPPDSPLRRAGGYFGLFNDTK-CDSSYQTVAVEFDTIGSPVNFWDPGFPHIGIDVNCVKSINAERWNKRYGLNNVANVEIIYEASSKTLTASLTYPSDQTSISVTSIVDLKEILPEWVSVGFSGSTYIGRQATHEVLNWYFTSTFINT 240
                                    10        20        30        40        50        60        70        80        90       100       110   | | 119       129       139       149       159       169       179       189       199       209       219       229       239 
                                                                                                                                           114 |                                                                                                                             
                                                                                                                                             115                                                                                                                             

Chain B from PDB  Type:PROTEIN  Length:240
 aligned with LEC1_ULEEU | P22972 from UniProtKB/Swiss-Prot  Length:243

    Alignment length:241
                                    10        20        30        40        50        60        70        80        90       100       110       120       130       140       150       160       170       180       190       200       210       220       230       240 
           LEC1_ULEEU     1 SDDLSFKFKNFSQNGKDLSFQGDASVIETGVLQLNKVGNNLPDETGGIARYIAPIHIWNCNTGEVASFITSFSFFMETSANPKAATDGLTFFLAPPDSPLRRAGGYFGLFEDTKDNDSSYQTVAVEFDTIGSPVNFDDPGFPHIGIDVNRVKSINAERWNKRYGLNNVANVEIIYEASSKTLTASLTYPSDQTSISVTSIVDLKEILPEWVSVGFSGGTYIGRQATHEVLNWYFTSNLINT 241
               SCOP domains d1jxnb_ B: Legume lectin                                                                                                                                                                                                                          SCOP domains
               CATH domains 1jxnB00 B:1-240  [code=2.60.120.200, no name defined]                                                                                                                                                                                             CATH domains
               Pfam domains ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author ..eeeeee........eeeeeeeeeee...eeeeeee.......eeeeeee..............eeeeeeeeeeee...hhhhh.eeeeeeee........hhhhh.......-.hhhhheeeeeeee.............eeeeeee....eeeee.....hhhhheeeeeee.....eeeeeee.....eeeeeee..hhhhh......eeeeeee....eeeeeeeeeeeeee.... Sec.struct. author
                 SAPs(SNPs) ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE --------------------------------------------------------------------------------------------------------------------------LECTIN_-----------------------------------------------------------------------------LECTIN_LEG------------------------- PROSITE
                 Transcript ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 1jxn B   1 SDDLSFKFKNFSQNGKDLSFQGNASVIETGVLQLNKVGNNLPDETGGIARYIAPIHIWNCNTGELASFITSFSFFMETSANPKAATDGLTFFLAPPDSPLRRAGGYFGLFNDTK-CDSSYQTVAVEFDTIGSPVNFWDPGFPHIGIDVNCVKSINAERWNKRYGLNNVANVEIIYEASSKTLTASLTYPSDQTSISVTSIVDLKEILPEWVSVGFSGSTYIGRQATHEVLNWYFTSTFINT 240
                                    10        20        30        40        50        60        70        80        90       100       110   | | 119       129       139       149       159       169       179       189       199       209       219       229       239 
                                                                                                                                           114 |                                                                                                                             
                                                                                                                                             115                                                                                                                             

Chain C from PDB  Type:PROTEIN  Length:240
 aligned with LEC1_ULEEU | P22972 from UniProtKB/Swiss-Prot  Length:243

    Alignment length:241
                                    10        20        30        40        50        60        70        80        90       100       110       120       130       140       150       160       170       180       190       200       210       220       230       240 
           LEC1_ULEEU     1 SDDLSFKFKNFSQNGKDLSFQGDASVIETGVLQLNKVGNNLPDETGGIARYIAPIHIWNCNTGEVASFITSFSFFMETSANPKAATDGLTFFLAPPDSPLRRAGGYFGLFEDTKDNDSSYQTVAVEFDTIGSPVNFDDPGFPHIGIDVNRVKSINAERWNKRYGLNNVANVEIIYEASSKTLTASLTYPSDQTSISVTSIVDLKEILPEWVSVGFSGGTYIGRQATHEVLNWYFTSNLINT 241
               SCOP domains d1jxnc_ C: Legume lectin                                                                                                                                                                                                                          SCOP domains
               CATH domains 1jxnC00 C:1-240  [code=2.60.120.200, no name defined]                                                                                                                                                                                             CATH domains
               Pfam domains ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author ..eeeeee........eeeeeeeeeee...eeeeeee.......eeeeeee..............eeeeeeeeeeee...hhhhh.eeeeeeee........hhhhh.......-.hhhhheeeeeeee.............eeeeeee....eeeee.....hhhhheeeeeee.....eeeeeee.....eeeeeee..hhhhh......eeeeeee....eeeeeeeeeeeeee.... Sec.struct. author
                 SAPs(SNPs) ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE --------------------------------------------------------------------------------------------------------------------------LECTIN_-----------------------------------------------------------------------------LECTIN_LEG------------------------- PROSITE
                 Transcript ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 1jxn C   1 SDDLSFKFKNFSQNGKDLSFQGNASVIETGVLQLNKVGNNLPDETGGIARYIAPIHIWNCNTGELASFITSFSFFMETSANPKAATDGLTFFLAPPDSPLRRAGGYFGLFNDTK-CDSSYQTVAVEFDTIGSPVNFWDPGFPHIGIDVNCVKSINAERWNKRYGLNNVANVEIIYEASSKTLTASLTYPSDQTSISVTSIVDLKEILPEWVSVGFSGSTYIGRQATHEVLNWYFTSTFINT 240
                                    10        20        30        40        50        60        70        80        90       100       110   | | 119       129       139       149       159       169       179       189       199       209       219       229       239 
                                                                                                                                           114 |                                                                                                                             
                                                                                                                                             115                                                                                                                             

Chain D from PDB  Type:PROTEIN  Length:239
 aligned with LEC1_ULEEU | P22972 from UniProtKB/Swiss-Prot  Length:243

    Alignment length:240
                                    10        20        30        40        50        60        70        80        90       100       110       120       130       140       150       160       170       180       190       200       210       220       230       240
           LEC1_ULEEU     1 SDDLSFKFKNFSQNGKDLSFQGDASVIETGVLQLNKVGNNLPDETGGIARYIAPIHIWNCNTGEVASFITSFSFFMETSANPKAATDGLTFFLAPPDSPLRRAGGYFGLFEDTKDNDSSYQTVAVEFDTIGSPVNFDDPGFPHIGIDVNRVKSINAERWNKRYGLNNVANVEIIYEASSKTLTASLTYPSDQTSISVTSIVDLKEILPEWVSVGFSGGTYIGRQATHEVLNWYFTSNLIN 240
               SCOP domains d1jxnd_ D: Legume lectin                                                                                                                                                                                                                         SCOP domains
               CATH domains 1jxnD00 D:1-239  [code=2.60.120.200, no name defined]                                                                                                                                                                                            CATH domains
           Pfam domains (1) -Lectin_legB-1jxnD01 D:2-234                                                                                      -                                                                                                                        ----- Pfam domains (1)
           Pfam domains (2) -Lectin_legB-1jxnD02 D:2-234                                                                                      -                                                                                                                        ----- Pfam domains (2)
           Pfam domains (3) -Lectin_legB-1jxnD03 D:2-234                                                                                      -                                                                                                                        ----- Pfam domains (3)
           Pfam domains (4) -Lectin_legB-1jxnD04 D:2-234                                                                                      -                                                                                                                        ----- Pfam domains (4)
         Sec.struct. author ..eeeeee........eeeeeeeeeee...eeeeeee.......eeeeeee..............eeeeeeeeeeee...hhhhh.eeeeeeee........hhhhh.......-.hhhhheeeeeeee.............eeeeeee....eeeee.....hhhhheeeeeee.....eeeeeee.....eeeeeee..hhhhh......eeeeeee....eeeeeeeeeeeeee... Sec.struct. author
                 SAPs(SNPs) ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ SAPs(SNPs)
                    PROSITE --------------------------------------------------------------------------------------------------------------------------LECTIN_-----------------------------------------------------------------------------LECTIN_LEG------------------------ PROSITE
                 Transcript ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ Transcript
                 1jxn D   1 SDDLSFKFKNFSQNGKDLSFQGNASVIETGVLQLNKVGNNLPDETGGIARYIAPIHIWNCNTGELASFITSFSFFMETSANPKAATDGLTFFLAPPDSPLRRAGGYFGLFNDTK-CDSSYQTVAVEFDTIGSPVNFWDPGFPHIGIDVNCVKSINAERWNKRYGLNNVANVEIIYEASSKTLTASLTYPSDQTSISVTSIVDLKEILPEWVSVGFSGSTYIGRQATHEVLNWYFTSTFIN 239
                                    10        20        30        40        50        60        70        80        90       100       110   | | 119       129       139       149       159       169       179       189       199       209       219       229       239
                                                                                                                                           114 |                                                                                                                            
                                                                                                                                             115                                                                                                                            

   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, 4)

Asymmetric Unit

(-) CATH Domains  (1, 4)

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

(-) Pfam Domains  (1, 4)

Asymmetric Unit

(-) Gene Ontology  (2, 2)

Asymmetric Unit(hide GO term definitions)
Chain A,B,C,D   (LEC1_ULEEU | P22972)
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

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

UniProtKB/Swiss-Prot
        LEC1_ULEEU | P229721fx5

(-) Related Entries Specified in the PDB File

1fx5 CRYSTAL STRUCTURE ANALYSIS OF THE NATIVE LECTIN I FROM ULEX EUROPEAUS