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(-) Description

Title :  CRYSTAL STRUCTURE OF THE HUMAN GALECTIN-4 C-TERMINAL CARBOHYDRATE RECOGNITION DOMAIN IN COMPLEX WITH 2'-FUCOSYLLACTOSE
 
Authors :  K. Bum-Erdene, H. Blanchard
Date :  06 Mar 15  (Deposition) - 01 Jul 15  (Release) - 09 Sep 15  (Revision)
Method :  X-RAY DIFFRACTION
Resolution :  2.00
Chains :  Asym. Unit :  A,B,C,D
Biol. Unit 1:  A  (1x)
Biol. Unit 2:  B  (1x)
Biol. Unit 3:  C  (1x)
Biol. Unit 4:  D  (1x)
Keywords :  Galectin, Lectin, Carbohydrate Binding Protein, H-Antigen, Carbohydrate Recognition, Beta Sandwich, Sugar Binding Protein (Keyword Search: [Gene Ontology, PubMed, Web (Google)] )
 
Reference :  K. Bum-Erdene, H. Leffler, U. J. Nilsson, H. Blanchard
Structural Characterization Of Human Galectin-4 C-Terminal Domain: Elucidating The Molecular Basis For Recognition Of Glycosphingolipids, Sulfated Saccharides And Blood Group Antigens.
Febs J. V. 282 3348 2015
PubMed-ID: 26077389  |  Reference-DOI: 10.1111/FEBS.13348

(-) Compounds

Molecule 1 - GALECTIN-4
    Chains: A, B, C, D
    Engineered: YES
    Expression System: ESCHERICHIA COLI
    Expression System Taxid: 562
    Fragment: UNP RESIDUES 171-323
    Gene: LGALS4
    Organism Common: HUMAN
    Organism Scientific: HOMO SAPIENS
    Organism Taxid: 9606
    Synonym: GAL-4,ANTIGEN NY-CO-27,L-36 LACTOSE-BINDING PROTEIN,L36LBP, LACTOSE-BINDING LECTIN 4

 Structural Features

(-) Chains, Units

  1234
Asymmetric Unit : ABCD
Biological Unit 1 (1x): A   
Biological Unit 2 (1x):  B  
Biological Unit 3 (1x):   C 
Biological Unit 4 (1x):    D

Summary Information (see also Sequences/Alignments below)

(-) Ligands, Modified Residues, Ions  (3, 7)

Asymmetric Unit (3, 7)
No.NameCountTypeFull Name
1FUC2Ligand/IonALPHA-L-FUCOSE
2LAT2Ligand/IonBETA-LACTOSE
3SO43Ligand/IonSULFATE ION
Biological Unit 1 (3, 4)
No.NameCountTypeFull Name
1FUC1Ligand/IonALPHA-L-FUCOSE
2LAT1Ligand/IonBETA-LACTOSE
3SO42Ligand/IonSULFATE ION
Biological Unit 2 (2, 2)
No.NameCountTypeFull Name
1FUC1Ligand/IonALPHA-L-FUCOSE
2LAT1Ligand/IonBETA-LACTOSE
3SO4-1Ligand/IonSULFATE ION
Biological Unit 3 (1, 1)
No.NameCountTypeFull Name
1FUC-1Ligand/IonALPHA-L-FUCOSE
2LAT-1Ligand/IonBETA-LACTOSE
3SO41Ligand/IonSULFATE ION
Biological Unit 4 (0, 0)
No.NameCountTypeFull Name
1FUC-1Ligand/IonALPHA-L-FUCOSE
2LAT-1Ligand/IonBETA-LACTOSE
3SO4-1Ligand/IonSULFATE ION

(-) Sites  (5, 5)

Asymmetric Unit (5, 5)
No.NameEvidenceResiduesDescription
1AC1SOFTWAREGLU A:260 , LYS A:261 , LYS A:262binding site for residue SO4 A 403
2AC2SOFTWAREARG A:279 , GLY A:281 , LEU A:282 , ASP A:283 , ARG A:284 , LYS A:286 , HOH A:532binding site for residue SO4 A 404
3AC3SOFTWAREARG C:205 , ARG C:279 , LEU C:282 , HOH C:525binding site for residue SO4 C 401
4AC4SOFTWAREHIS A:236 , ASN A:238 , ARG A:240 , ASN A:249 , GLU A:259binding site for Poly-Saccharide residues LAT A 401 through FUC A 402
5AC5SOFTWAREHIS B:236 , ASN B:238 , ARG B:240 , ASN B:249 , GLU B:259binding site for Poly-Saccharide residues LAT B 401 through FUC B 402

(-) SS Bonds  (0, 0)

(no "SS Bond" information available for 4YM1)

(-) Cis Peptide Bonds  (4, 4)

Asymmetric Unit
No.Residues
1Val A:192 -Pro A:193
2Val B:192 -Pro B:193
3Val C:192 -Pro C:193
4Val D:192 -Pro D:193

 Sequence-Structure Mapping

(-) SAPs(SNPs)/Variants  (0, 0)

(no "SAP(SNP)/Variant" information available for 4YM1)

(-) PROSITE Motifs  (0, 0)

(no "PROSITE Motif" information available for 4YM1)

(-) Exons   (0, 0)

(no "Exon" information available for 4YM1)

(-) 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:138
                                                                                                                                                                          
               SCOP domains ------------------------------------------------------------------------------------------------------------------------------------------ SCOP domains
               CATH domains ------------------------------------------------------------------------------------------------------------------------------------------ CATH domains
               Pfam domains ------------------------------------------------------------------------------------------------------------------------------------------ Pfam domains
         Sec.struct. author ........eeee.........eeeeeee.......eeeeee......eeeeeeee....eeeeeeee..ee................eeeeeeee...eeeeee..eeeeeee....hhhhh.eeeeee..eeeeee. Sec.struct. author
                 SAPs(SNPs) ------------------------------------------------------------------------------------------------------------------------------------------ SAPs(SNPs)
                    PROSITE ------------------------------------------------------------------------------------------------------------------------------------------ PROSITE
                 Transcript ------------------------------------------------------------------------------------------------------------------------------------------ Transcript
                 4ym1 A 186 PTFNPPVPYFGRLQGGLTARRTIIIKGYVPPTGKSFAINFKVGSSGDIALHINPRMGNGTVVRNSLLNGSWGSEEKKITHNPFGPGQFFDLSIRCGLDRFKVYANGQHLFDFAHRLSAFQRVDTLEIQGDVTLSYVQI 323
                                   195       205       215       225       235       245       255       265       275       285       295       305       315        


Chain B from PDB  Type:PROTEIN  Length:138
                                                                                                                                                                          
               SCOP domains ------------------------------------------------------------------------------------------------------------------------------------------ SCOP domains
               CATH domains ------------------------------------------------------------------------------------------------------------------------------------------ CATH domains
               Pfam domains ------------------------------------------------------------------------------------------------------------------------------------------ Pfam domains
         Sec.struct. author ........eeee.........eeeeeee.......eeeeee......eeeeeeeehhhheeeeeeee..ee................eeeeeeee...eeeeee..eeeeeee....hhhhh.eeeeee..eeeeee. Sec.struct. author
                 SAPs(SNPs) ------------------------------------------------------------------------------------------------------------------------------------------ SAPs(SNPs)
                    PROSITE ------------------------------------------------------------------------------------------------------------------------------------------ PROSITE
                 Transcript ------------------------------------------------------------------------------------------------------------------------------------------ Transcript
                 4ym1 B 186 PTFNPPVPYFGRLQGGLTARRTIIIKGYVPPTGKSFAINFKVGSSGDIALHINPRMGNGTVVRNSLLNGSWGSEEKKITHNPFGPGQFFDLSIRCGLDRFKVYANGQHLFDFAHRLSAFQRVDTLEIQGDVTLSYVQI 323
                                   195       205       215       225       235       245       255       265       275       285       295       305       315        


Chain C from PDB  Type:PROTEIN  Length:140
                                                                                                                                                                            
               SCOP domains -------------------------------------------------------------------------------------------------------------------------------------------- SCOP domains
               CATH domains -------------------------------------------------------------------------------------------------------------------------------------------- CATH domains
               Pfam domains -------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author ...ee.....eeee.........eeeeeee.......eeeeee......eeeeeeee....eeeeeeee..ee................eeeeeeee...eeeeee..eeeeeee....hhhhh.eeeeee..eeeeee. Sec.struct. author
                 SAPs(SNPs) -------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE -------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript -------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 4ym1 C 184 GPPTFNPPVPYFGRLQGGLTARRTIIIKGYVPPTGKSFAINFKVGSSGDIALHINPRMGNGTVVRNSLLNGSWGSEEKKITHNPFGPGQFFDLSIRCGLDRFKVYANGQHLFDFAHRLSAFQRVDTLEIQGDVTLSYVQI 323
                                   193       203       213       223       233       243       253       263       273       283       293       303       313       323


Chain D from PDB  Type:PROTEIN  Length:140
                                                                                                                                                                            
               SCOP domains -------------------------------------------------------------------------------------------------------------------------------------------- SCOP domains
               CATH domains -------------------------------------------------------------------------------------------------------------------------------------------- CATH domains
               Pfam domains -------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author ...ee.....eeee........eeeeeeee.......eeeeee......eeeeeeee....eeeeeeee..ee................eeeeeeee...eeeeee..eeeeeee....hhhhh.eeeeee..eeeeee. Sec.struct. author
                 SAPs(SNPs) -------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE -------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript -------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 4ym1 D 184 GPPTFNPPVPYFGRLQGGLTARRTIIIKGYVPPTGKSFAINFKVGSSGDIALHINPRMGNGTVVRNSLLNGSWGSEEKKITHNPFGPGQFFDLSIRCGLDRFKVYANGQHLFDFAHRLSAFQRVDTLEIQGDVTLSYVQI 323
                                   193       203       213       223       233       243       253       263       273       283       293       303       313       323
   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  (0, 0)

(no "SCOP Domain" information available for 4YM1)

(-) CATH Domains  (0, 0)

(no "CATH Domain" information available for 4YM1)

(-) Pfam Domains  (0, 0)

(no "Pfam Domain" information available for 4YM1)

(-) Gene Ontology  (6, 6)

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 Related Entries

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

UniProtKB/Swiss-Prot
        LEG4_HUMAN | P56470: 1x50 4xzp 4ylz 4ym0 4ym2 4ym3 5cbl 5duu 5duv 5duw 5dux

(-) Related Entries Specified in the PDB File

4ylz 4ym0 4ym2 4ym3