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(-) Description

Title :  CRYSTAL STRUCTURE OF POLYGONATUM CYRTONEMA LECTIN (PCL) COMPLEXED WITH DIMANNOSIDE
 
Authors :  J. Ding, D. C. Wang
Date :  16 Mar 09  (Deposition) - 16 Mar 10  (Release) - 21 Mar 12  (Revision)
Method :  X-RAY DIFFRACTION
Resolution :  2.00
Chains :  Asym. Unit :  A
Biol. Unit 1:  A  (2x)
Keywords :  Beta-Prism Ii, Lectin, Sugar Binding Protein (Keyword Search: [Gene Ontology, PubMed, Web (Google)] )
 
Reference :  J. Ding, J. Bao, D. Zhu, Y. Zhang, D. C. Wang
Crystal Structures Of A Novel Anti-Hiv Mannose-Binding Lectin From Polygonatum Cyrtonema Hua With Unique Ligand-Binding Property And Super-Structure
J. Struct. Biol. V. 171 309 2010
PubMed-ID: 20546901  |  Reference-DOI: 10.1016/J.JSB.2010.05.009

(-) Compounds

Molecule 1 - MANNOSE/SIALIC ACID-BINDING LECTIN
    Chains: A
    Fragment: UNP RESIDUES 29-138
    Organism Scientific: POLYGONATUM CYRTONEMA
    Organism Taxid: 195526
    Strain: HUA

 Structural Features

(-) Chains, Units

  1
Asymmetric Unit : A
Biological Unit 1 (2x): A

Summary Information (see also Sequences/Alignments below)

(-) Ligands, Modified Residues, Ions  (2, 6)

Asymmetric Unit (2, 6)
No.NameCountTypeFull Name
1M3M1Ligand/Ion3-O-ALPHA-D-MANNOPYRANOSYL-ALPHA-D-MANNOPYRANOSE
2SO45Ligand/IonSULFATE ION
Biological Unit 1 (2, 12)
No.NameCountTypeFull Name
1M3M2Ligand/Ion3-O-ALPHA-D-MANNOPYRANOSYL-ALPHA-D-MANNOPYRANOSE
2SO410Ligand/IonSULFATE ION

(-) Sites  (6, 6)

Asymmetric Unit (6, 6)
No.NameEvidenceResiduesDescription
1AC1SOFTWAREHIS A:84 , GLN A:90 , ASP A:92 , ASN A:94 , TYR A:98 , VAL A:101 , SO4 A:113 , HOH A:154 , HOH A:161 , HOH A:165 , HOH A:182 , HOH A:192BINDING SITE FOR RESIDUE M3M A 111
2AC2SOFTWAREPRO A:7 , GLN A:27 , ASP A:29 , ASN A:31 , HIS A:58 , ASN A:59 , HOH A:128 , HOH A:148 , HOH A:156 , HOH A:170BINDING SITE FOR RESIDUE SO4 A 112
3AC3SOFTWAREPRO A:7 , ASP A:29 , ASN A:59 , HIS A:84 , M3M A:111 , HOH A:206 , HOH A:224 , HOH A:238BINDING SITE FOR RESIDUE SO4 A 113
4AC4SOFTWAREVAL A:1 , GLU A:17 , VAL A:18 , GLY A:19 , HOH A:120 , HOH A:121 , HOH A:204 , HOH A:234BINDING SITE FOR RESIDUE SO4 A 114
5AC5SOFTWAREHIS A:14 , SER A:15 , HOH A:173BINDING SITE FOR RESIDUE SO4 A 115
6AC6SOFTWARELYS A:39 , VAL A:41 , ARG A:93BINDING SITE FOR RESIDUE SO4 A 116

(-) SS Bonds  (1, 1)

Asymmetric Unit
No.Residues
1A:30 -A:53

(-) Cis Peptide Bonds  (4, 4)

Asymmetric Unit
No.Residues
1Ser A:6 -Pro A:7
2Gly A:19 -Pro A:20
3Gly A:99 -Pro A:100
4Gly A:108 -Pro A:109

 Sequence-Structure Mapping

(-) SAPs(SNPs)/Variants  (0, 0)

(no "SAP(SNP)/Variant" information available for 3A0E)

(-) PROSITE Motifs  (0, 0)

(no "PROSITE Motif" information available for 3A0E)

(-) Exons   (0, 0)

(no "Exon" information available for 3A0E)

(-) 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:110
 aligned with Q8L568_9ASPA | Q8L568 from UniProtKB/TrEMBL  Length:160

    Alignment length:110
                                    38        48        58        68        78        88        98       108       118       128       138
         Q8L568_9ASPA    29 VNSLSSPNSLFTGHSLEVGPSYRLIMPGDCNFVLYDSGKPVWASNTGGLGSGCRLTLHNNGNLVIYDQSNRVIWQTKTNGKEDHYVLVLQQDRNVVIYGPVVWATGSGPA 138
               SCOP domains d3a0ea_ A: automated matches                                                                                   SCOP domains
               CATH domains 3a0eA00 A:1-110 Agglutinin, subunit A                                                                          CATH domains
               Pfam domains -------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author ..eee...ee....eeee...eeeee.....eeeee..eeeee..........eeee.....eeee.....eeee..........eeee.....eeee............ Sec.struct. author
                 SAPs(SNPs) -------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE -------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript -------------------------------------------------------------------------------------------------------------- Transcript
                 3a0e A   1 VNSLSSPNSLFTGHSLEVGPSYRLIMQGDCNFVLYDSGKPVWASNTGGLGSGCRLTLHNNGNLVIYDQSNRVIWQTKTNGKEDHYVLVLQQDRNVVIYGPVVWATGSGPA 110
                                    10        20        30        40        50        60        70        80        90       100       110
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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  (1, 1)

Asymmetric Unit
(-)
Class: All beta proteins (24004)

(-) CATH Domains  (1, 1)

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

(-) Pfam Domains  (0, 0)

(no "Pfam Domain" information available for 3A0E)

(-) Gene Ontology  (1, 1)

Asymmetric Unit(hide GO term definitions)
Chain A   (Q8L568_9ASPA | Q8L568)
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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 Related Entries

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

UniProtKB/TrEMBL
        Q8L568_9ASPA | Q8L568: 3a0c 3a0d

(-) Related Entries Specified in the PDB File

3a0c CRYSTAL STRUCTURE OF AN ANTI-HIV MANNOSE-BINDING LECTIN FROM POLYGONATUM CYRTONEMA HUA
3a0d CRYSTAL STRUCTURE OF POLYGONATUM CYRTONEMA LECTIN (PCL) COMPLEXED WITH MONOMANNOSIDE