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(-) Description

Title :  CRYSTAL STRUCTURE ANALYSIS OF POLYPORUS SQUAMOSUS LECTIN BOUND TO HUMAN-TYPE INFLUENZA-BINDING EPITOPE NEU5ACA2-6GALB1-4GLCNAC
 
Authors :  R. Kadirvelraj, R. J. Woods
Date :  04 Nov 10  (Deposition) - 06 Jul 11  (Release) - 06 Jul 11  (Revision)
Method :  X-RAY DIFFRACTION
Resolution :  1.70
Chains :  Asym./Biol. Unit :  A,B
Keywords :  Beta Trefoil, Saccharide Binding Lectin, 2, 6-Sialyl-Lactosamine, Sugar Binding Protein (Keyword Search: [Gene Ontology, PubMed, Web (Google)] )
 
Reference :  R. Kadirvelraj, O. C. Grant, I. J. Goldstein, H. C. Winter, H. Tateno, E. Fadda, R. J. Woods
Structure And Binding Analysis Of Polyporus Squamosus Lecti In Complex With The Neu5Ac{Alpha}2-6Gal{Beta}1-4Glcnac Human-Type Influenza Receptor.
Glycobiology V. 21 973 2011
PubMed-ID: 21436237  |  Reference-DOI: 10.1093/GLYCOB/CWR030

(-) Compounds

Molecule 1 - RICIN B-RELATED LECTIN
    Chains: A, B
    Engineered: YES
    Expression System: ESCHERICHIA COLI
    Expression System Plasmid: PET43A
    Expression System Strain: NOVA BLUE (DE3)
    Expression System Taxid: 562
    Expression System Vector Type: PLASMID
    Gene: PSL1A
    Organism Scientific: POLYPORUS SQUAMOSUS
    Organism Taxid: 5640

 Structural Features

(-) Chains, Units

  12
Asymmetric/Biological Unit : AB

Summary Information (see also Sequences/Alignments below)

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

Asymmetric/Biological Unit (3, 6)
No.NameCountTypeFull Name
1GAL2Ligand/IonBETA-D-GALACTOSE
2NAG2Ligand/IonN-ACETYL-D-GLUCOSAMINE
3SIA2Ligand/IonO-SIALIC ACID

(-) Sites  (6, 6)

Asymmetric Unit (6, 6)
No.NameEvidenceResiduesDescription
1AC1SOFTWAREGLY A:75 , HIS A:76 , GAL A:302 , SIA A:303 , HOH A:552BINDING SITE FOR RESIDUE NAG A 301
2AC2SOFTWAREASP A:72 , LEU A:73 , ALA A:74 , GLY A:75 , HIS A:76 , TYR A:87 , ASN A:94 , NAG A:301 , SIA A:303 , HOH A:339BINDING SITE FOR RESIDUE GAL A 302
3AC3SOFTWAREASN A:30 , SER A:32 , NAG A:301 , GAL A:302 , HOH A:328 , HOH A:491BINDING SITE FOR RESIDUE SIA A 303
4AC4SOFTWAREASP B:185 , GAL B:302 , SIA B:303 , HOH B:496BINDING SITE FOR RESIDUE NAG B 301
5AC5SOFTWAREASP B:72 , ALA B:74 , GLY B:75 , HIS B:76 , TYR B:87 , ASN B:94 , ASP B:185 , NAG B:301 , SIA B:303 , HOH B:409BINDING SITE FOR RESIDUE GAL B 302
6AC6SOFTWAREASN B:30 , LYS B:31 , SER B:32 , NAG B:301 , GAL B:302 , HOH B:453BINDING SITE FOR RESIDUE SIA B 303

(-) SS Bonds  (0, 0)

(no "SS Bond" information available for 3PHZ)

(-) Cis Peptide Bonds  (0, 0)

(no "Cis Peptide Bond" information available for 3PHZ)

 Sequence-Structure Mapping

(-) SAPs(SNPs)/Variants  (0, 0)

(no "SAP(SNP)/Variant" information available for 3PHZ)

(-) PROSITE Motifs  (0, 0)

(no "PROSITE Motif" information available for 3PHZ)

(-) Exons   (0, 0)

(no "Exon" information available for 3PHZ)

(-) 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:278
 aligned with Q75WT9_9APHY | Q75WT9 from UniProtKB/TrEMBL  Length:286

    Alignment length:285
                                    11        21        31        41        51        61        71        81        91       101       111       121       131       141       151       161       171       181       191       201       211       221       231       241       251       261       271       281     
         Q75WT9_9APHY     2 SFQGHGIYYIASAYVANTRLALSEDSSANKSPDVIISSDAVDPLNNLWLIEPVGEADTYTVRNAFAGSYMDLAGHAATDGTAIIGYRPTGGDNQKWIISQINDVWKIKSKETGTFVTLLNGDGGGTGTVVGWQNITNNTSQNWTFQKLSQTGANVHATLLACPALRQDFKSYLSDGLYLVLTRDQISSIWQASGLGSTPWRSEIFDCDDFATVFKGAVAKWGNENFKANGFALLCGLMFGSKSSGAHAYNWFVERGNFSTVTFFEPQNGTYSANAWDYKAYFGLF 286
               SCOP domains d3phza1 A:2-148 automate    d matches                                                                                                              d3phza2 A:149-286 automated matches                                                                                                        SCOP domains
               CATH domains --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- CATH domains
               Pfam domains --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author .....eeeeeee.....eeeee..----.....eeeee....hhhh.eeeee.....eeeeee.....eeee.hhh....eeeeee....hhhh.eeeee....eeeee.....eeeee..---...eeeee..........eeeee.eeehhhhhhhhhhh.......ee.....eee..hhhhhhhhhhhhhhhhh.......hhhhhhhhhhhhhhhhhhhhh.....ee..eeeeeee..eeeeeeeeee..eeeeeeee......ee.hhhhheeeeeee Sec.struct. author
                 SAPs(SNPs) --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 3phz A   2 SFQGHGIYYIASAYVANTRLALSE----NKSPDVIISSDAVDPLNNLWLIEPVGEADTYTVRNAFAGSYMDLAGHAATDGTAIIGYRPTGGDNQKWIISQINDVWKIKSKETGTFVTLLNG---GTGTVVGWQNITNNTSQNWTFQKLSQTGANVHATLLACPALRQDFKSYLSDGLYLVLTRDQISSIWQASGLGSTPWRSEIFDCDDFATVFKGAVAKWGNENFKANGFALLCGLMFGSKSSGAHAYNWFVERGNFSTVTFFEPQNGTYSANAWDYKAYFGLF 286
                                    11        21   |    31        41        51        61        71        81        91       101       111       121|   |  131       141       151       161       171       181       191       201       211       221       231       241       251       261       271       281     
                                                  25   30                                                                                         122 126                                                                                                                                                                


Chain B from PDB  Type:PROTEIN  Length:278
 aligned with Q75WT9_9APHY | Q75WT9 from UniProtKB/TrEMBL  Length:286

    Alignment length:285
                                    11        21        31        41        51        61        71        81        91       101       111       121       131       141       151       161       171       181       191       201       211       221       231       241       251       261       271       281     
         Q75WT9_9APHY     2 SFQGHGIYYIASAYVANTRLALSEDSSANKSPDVIISSDAVDPLNNLWLIEPVGEADTYTVRNAFAGSYMDLAGHAATDGTAIIGYRPTGGDNQKWIISQINDVWKIKSKETGTFVTLLNGDGGGTGTVVGWQNITNNTSQNWTFQKLSQTGANVHATLLACPALRQDFKSYLSDGLYLVLTRDQISSIWQASGLGSTPWRSEIFDCDDFATVFKGAVAKWGNENFKANGFALLCGLMFGSKSSGAHAYNWFVERGNFSTVTFFEPQNGTYSANAWDYKAYFGLF 286
               SCOP domains d3phzb1 B:2-148 automate    d matches                                                                                                              d3phzb2 B:149-286 automated matches                                                                                                        SCOP domains
               CATH domains --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- CATH domains
           Pfam domains (1) ------------------------    ---------------RicinB_lectin_2-3phzB01 B:45-147                                                                       ------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains (1)
           Pfam domains (2) ------------------------    ---------------RicinB_lectin_2-3phzB02 B:45-147                                                                       ------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains (2)
         Sec.struct. author .....eeeeeee.....eeeee..----.....eeeee....hhhh.eeeee.....eeeeee.....eeee........eeeeee....hhhh.eeeee....eeeee.....eeeee..---...eeeee..........eeeee.eeehhhhhhhhhhh.......ee.....eee..hhhhhhhhhhhhhhhhh.......hhhhhhhhhhhhhhhhhhhhh.....ee..eeeeeee..eeeeeeeeee..eeeeeeee......ee.hhhhheeeeeee Sec.struct. author
                 SAPs(SNPs) --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 3phz B   2 SFQGHGIYYIASAYVANTRLALSE----NKSPDVIISSDAVDPLNNLWLIEPVGEADTYTVRNAFAGSYMDLAGHAATDGTAIIGYRPTGGDNQKWIISQINDVWKIKSKETGTFVTLLNG---GTGTVVGWQNITNNTSQNWTFQKLSQTGANVHATLLACPALRQDFKSYLSDGLYLVLTRDQISSIWQASGLGSTPWRSEIFDCDDFATVFKGAVAKWGNENFKANGFALLCGLMFGSKSSGAHAYNWFVERGNFSTVTFFEPQNGTYSANAWDYKAYFGLF 286
                                    11        21   |    31        41        51        61        71        81        91       101       111       121|   |  131       141       151       161       171       181       191       201       211       221       231       241       251       261       271       281     
                                                  25   30                                                                                         122 126
   Legend:   → Mismatch (orange background)
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  extra numbering lines below/above indicate numbering irregularities and modified residue names etc., number ends below/above '|'

 Classification and Annotation

(-) SCOP Domains  (2, 4)

Asymmetric/Biological Unit
(-)
Class: All beta proteins (24004)
(-)
Class: Alpha and beta proteins (a+b) (23004)

(-) CATH Domains  (0, 0)

(no "CATH Domain" information available for 3PHZ)

(-) Pfam Domains  (1, 2)

Asymmetric/Biological Unit
(-)
Clan: Trefoil (131)

(-) Gene Ontology  (1, 1)

Asymmetric/Biological Unit(hide GO term definitions)
Chain A,B   (Q75WT9_9APHY | Q75WT9)
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.

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        Q75WT9_9APHY | Q75WT9: 5mua

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