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(-) Description

Title :  X-RAY STRUCTURE OF THE RSL LECTIN IN COMPLEX WITH LEWIS X TETRASACCAHRIDE
 
Authors :  J. Topin, J. Arnaud, A. Varrot, A. Imberty
Date :  20 Feb 15  (Deposition) - 02 Mar 16  (Release) - 27 Jul 16  (Revision)
Method :  X-RAY DIFFRACTION
Resolution :  1.80
Chains :  Asym./Biol. Unit :  A,B,C
Keywords :  Sugar Binding Protein, Lewis X, Beta-Propeller (Keyword Search: [Gene Ontology, PubMed, Web (Google)] )
 
Reference :  J. Topin, M. Lelimousin, J. Arnaud, A. Audfray, S. Perez, A. Varrot, A. Imberty
The Hidden Conformation Of Lewis X, A Human Histo-Blood Group Antigen, Is A Determinant For Recognition By Pathogen Lectins
Acs Chem. Biol. V. 11 2011 2016
PubMed-ID: 27198630  |  Reference-DOI: 10.1021/ACSCHEMBIO.6B00333

(-) Compounds

Molecule 1 - LECTIN
    Atcc: 11696
    Chains: A, B, C
    Engineered: YES
    Expression System: ESCHERICHIA COLI
    Expression System Strain: BL21(DE3)
    Expression System Taxid: 469008
    Expression System Variant: TUNER
    Expression System Vector: PET25B
    Expression System Vector Type: PLASMID
    Organism Scientific: RALSTONIA SOLANACEARUM
    Organism Taxid: 305

 Structural Features

(-) Chains, Units

  123
Asymmetric/Biological Unit : ABC

Summary Information (see also Sequences/Alignments below)

(-) Ligands, Modified Residues, Ions  (4, 18)

Asymmetric/Biological Unit (4, 18)
No.NameCountTypeFull Name
1FUC6Ligand/IonALPHA-L-FUCOSE
2GAL5Ligand/IonBETA-D-GALACTOSE
3GLA1Ligand/IonALPHA D-GALACTOSE
4NAG6Ligand/IonN-ACETYL-D-GLUCOSAMINE

(-) Sites  (6, 6)

Asymmetric Unit (6, 6)
No.NameEvidenceResiduesDescription
1AC1SOFTWAREARG A:17 , GLU A:28 , TYR A:37 , GLY A:39 , ALA A:40 , TRP A:76 , TRP A:81 , HOH A:2139 , HOH A:2140 , HOH A:2142 , THR B:12BINDING SITE FOR POLY-SACCHARIDE RESIDUES FUC A 100 THROUGH GAL A 102
2AC2SOFTWARETHR A:12 , VAL A:13 , ARG A:17 , TYR A:37 , ALA A:40 , HIS A:60 , ARG A:62 , GLU A:73 , ASP A:77 , GLY A:84 , ALA A:85 , TYR A:86 , FUC A:100 , HOH A:2091 , HOH A:2139 , HOH A:2140 , HOH A:2142 , HOH A:2143 , HOH A:2144 , HOH A:2145 , HOH A:2146 , HOH A:2147 , HOH A:2148 , HOH A:2149 , HOH A:2150 , HOH A:2151 , HOH A:2152 , HOH A:2153 , HOH A:2154 , THR B:12 , VAL B:13 , TRP B:31 , TRP B:36 , NAG C:111BINDING SITE FOR POLY-SACCHARIDE RESIDUES FUC A 110 THROUGH GLA A 113
3AC3SOFTWARETHR A:12 , VAL A:13 , ARG A:17 , GLU A:28 , TYR A:37 , GLY A:39 , ALA A:40 , HIS A:60 , TRP A:76 , ASP A:77 , TRP A:81 , ALA A:85 , FUC A:110 , HOH A:2091 , HOH A:2139 , HOH A:2140 , HOH A:2142 , HOH A:2143 , HOH A:2144 , HOH A:2145 , HOH A:2146 , HOH A:2147 , HOH A:2148 , HOH A:2149 , HOH A:2150 , HOH A:2151 , HOH A:2152 , HOH A:2153 , HOH A:2154 , TRP B:10 , THR B:12 , VAL B:13 , SER B:15 , ARG B:17 , GLU B:28 , ASP B:32 , TYR B:37 , GLY B:39 , ALA B:40 , PHE B:41 , SER B:57 , ALA B:58 , ILE B:59 , HIS B:60 , GLY B:68 , TRP B:76 , ASP B:77 , GLY B:78 , TRP B:81 , ALA B:85 , FUC B:110 , HOH B:2068 , HOH B:2074 , HOH B:2092 , HOH B:2111 , HOH B:2113 , HOH B:2115 , SER C:1 , VAL C:13 , NAG C:111BINDING SITE FOR POLY-SACCHARIDE RESIDUES FUC B 100 THROUGH GAL B 102
4AC4SOFTWARETRP B:10 , SER B:15 , ARG B:17 , ASP B:32 , SER B:57 , ALA B:58 , ILE B:59 , HIS B:60 , ARG B:62 , GLY B:68 , GLU B:73 , TRP B:76 , ASP B:77 , GLY B:78 , GLY B:84 , ALA B:85 , TYR B:86 , FUC B:100 , HOH B:2068 , HOH B:2074 , HOH B:2092 , HOH B:2111 , HOH B:2113 , HOH B:2115 , SER C:1 , VAL C:13 , TRP C:31 , TRP C:36BINDING SITE FOR POLY-SACCHARIDE RESIDUES FUC B 110 THROUGH GAL B 112
5AC5SOFTWAREVAL A:13 , ASN A:23 , GLA A:113 , HOH A:2022 , HOH A:2059 , ARG B:17 , GLU B:28 , TYR B:37 , GLY B:39 , ALA B:40 , PHE B:41 , HIS B:60 , GLY B:68 , TRP B:76 , ASP B:77 , GLY B:78 , TRP B:81 , ALA B:85 , GAL B:102 , FUC B:110 , HOH B:2068 , HOH B:2074 , HOH B:2092 , HOH B:2111 , HOH B:2113 , HOH B:2115 , SER C:1 , VAL C:13 , ARG C:17 , GLU C:28 , ASP C:32 , TYR C:37 , GLY C:39 , ALA C:40 , PHE C:41 , HIS C:60 , TRP C:76 , TRP C:81 , ALA C:85 , FUC C:110 , HOH C:2038 , HOH C:2059 , HOH C:2067 , HOH C:2075 , HOH C:2076BINDING SITE FOR POLY-SACCHARIDE RESIDUES FUC C 100 THROUGH NAG C 101
6AC6SOFTWAREVAL A:13 , PRO A:14 , TRP A:31 , TRP A:36 , GLA A:113 , HOH A:2022 , HOH A:2059 , HIS C:60 , ARG C:62 , GLU C:73 , GLY C:84 , ALA C:85 , TYR C:86 , HOH C:2059 , HOH C:2076BINDING SITE FOR POLY-SACCHARIDE RESIDUES FUC C 110 THROUGH GAL C 112

(-) SS Bonds  (0, 0)

(no "SS Bond" information available for 5AJB)

(-) Cis Peptide Bonds  (3, 3)

Asymmetric/Biological Unit
No.Residues
1Val A:13 -Pro A:14
2Val B:13 -Pro B:14
3Val C:13 -Pro C:14

 Sequence-Structure Mapping

(-) SAPs(SNPs)/Variants  (0, 0)

(no "SAP(SNP)/Variant" information available for 5AJB)

(-) PROSITE Motifs  (0, 0)

(no "PROSITE Motif" information available for 5AJB)

(-) Exons   (0, 0)

(no "Exon" information available for 5AJB)

(-) 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:89
                                                                                                                        
               SCOP domains ----------------------------------------------------------------------------------------- SCOP domains
               CATH domains ----------------------------------------------------------------------------------------- CATH domains
               Pfam domains ----------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author ..eeeeeee....eeeeeeee..eeeeeee....eeeeeeeee..eeeeeeeee..eeeeeeeeee..eeeeeee....eee....... Sec.struct. author
                 SAPs(SNPs) ----------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE ----------------------------------------------------------------------------------------- PROSITE
                 Transcript ----------------------------------------------------------------------------------------- Transcript
                  5ajb A  2 SVQTAATSWGTVPSIRVYTANNGKITERCWDGKGWYTGAFNEPGDNVSVTSWLVGSAIHIRVYASTGTTTTEWCWDGNGWTKGAYTATN 90
                                    11        21        31        41        51        61        71        81         


Chain B from PDB  Type:PROTEIN  Length:89
                                                                                                                        
               SCOP domains ----------------------------------------------------------------------------------------- SCOP domains
               CATH domains ----------------------------------------------------------------------------------------- CATH domains
               Pfam domains ----------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author ..eeeeeee....eeeeeeee..eeeeeee....eeeeeeeee..eeeeeeeee..eeeeeeeeee..eeeeeee....eee....... Sec.struct. author
                 SAPs(SNPs) ----------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE ----------------------------------------------------------------------------------------- PROSITE
                 Transcript ----------------------------------------------------------------------------------------- Transcript
                  5ajb B  2 SVQTAATSWGTVPSIRVYTANNGKITERCWDGKGWYTGAFNEPGDNVSVTSWLVGSAIHIRVYASTGTTTTEWCWDGNGWTKGAYTATN 90
                                    11        21        31        41        51        61        71        81         


Chain C from PDB  Type:PROTEIN  Length:89
                                                                                                                        
               SCOP domains ----------------------------------------------------------------------------------------- SCOP domains
               CATH domains ----------------------------------------------------------------------------------------- CATH domains
               Pfam domains ----------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author ...eeeeeee....eeeeeeee..eeeeeee....eeeeeeeee..eeeeeeeee..eeeeeeeeee..eeeeeee....eee...... Sec.struct. author
                 SAPs(SNPs) ----------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE ----------------------------------------------------------------------------------------- PROSITE
                 Transcript ----------------------------------------------------------------------------------------- Transcript
                  5ajb C  1 SSVQTAATSWGTVPSIRVYTANNGKITERCWDGKGWYTGAFNEPGDNVSVTSWLVGSAIHIRVYASTGTTTTEWCWDGNGWTKGAYTAT 89
                                    10        20        30        40        50        60        70        80
   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 5AJB)

(-) CATH Domains  (0, 0)

(no "CATH Domain" information available for 5AJB)

(-) Pfam Domains  (0, 0)

(no "Pfam Domain" information available for 5AJB)

(-) Gene Ontology  (1, 1)

Asymmetric/Biological Unit(hide GO term definitions)

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 Related Entries

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

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        D8NA05_RALSL | D8NA05: 2bs5 5ajc
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        A0A0S4TLR1_R | A0A0S4TLR1: 5ajc
        D8NA05_RALSL | D8NA05: 3zi8 4i6s

(-) Related Entries Specified in the PDB File

5ajc X-RAY STRUCTURE OF RSL LECTIN IN COMPLEX WITH SIALYL LEWIS X TETRASACCHARIDE