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(-) Description

Title :  MONOMERIC GRIFFITHSIN WITH TWO GLY-SER INSERTIONS
 
Authors :  T. Moulaei, A. Wlodawer
Date :  28 Jan 10  (Deposition) - 06 Oct 10  (Release) - 06 Oct 10  (Revision)
Method :  X-RAY DIFFRACTION
Resolution :  1.70
Chains :  Asym./Biol. Unit :  A
Keywords :  Lectin, Sugar-Binding, Anti-Hiv, High Mannose, Man9, Gp120, Gp41, Jacalin-Related, Mannose-Binding, Sugar Binding Protein (Keyword Search: [Gene Ontology, PubMed, Web (Google)] )
 
Reference :  T. Moulaei, S. R. Shenoy, B. Giomarelli, C. Thomas, J. B. Mcmahon, Z. Dauter, B. R. O'Keefe, A. Wlodawer
Monomerization Of Viral Entry Inhibitor Griffithsin Elucidates The Relationship Between Multivalent Binding To Carbohydrates And Anti-Hiv Activity.
Structure V. 18 1104 2010
PubMed-ID: 20826337  |  Reference-DOI: 10.1016/J.STR.2010.05.016

(-) Compounds

Molecule 1 - GRIFFITHSIN
    Chains: A
    Engineered: YES
    Expression System: ESCHERICHIA COLI
    Expression System Plasmid: PET-15B
    Expression System Strain: BL21(DE3)
    Expression System Taxid: 562
    Expression System Vector Type: PLASMID
    Mutation: YES
    Organism Common: RED ALGA
    Organism Scientific: GRIFFITHSIA
    Organism Taxid: 373036
    Strain: Q66D336
    Synonym: GRFT

 Structural Features

(-) Chains, Units

  1
Asymmetric/Biological Unit : A

Summary Information (see also Sequences/Alignments below)

(-) Ligands, Modified Residues, Ions  (2, 5)

Asymmetric/Biological Unit (2, 5)
No.NameCountTypeFull Name
1GOL4Ligand/IonGLYCEROL
2SO41Ligand/IonSULFATE ION

(-) Sites  (5, 5)

Asymmetric Unit (5, 5)
No.NameEvidenceResiduesDescription
1AC1SOFTWAREGLY A:26 , SER A:27 , TYR A:28 , ASP A:30 , GLY A:43 , GLY A:44 , HOH A:193 , HOH A:234BINDING SITE FOR RESIDUE GOL A 122
2AC2SOFTWAREGLY A:66 , ASP A:67 , TYR A:68 , ASP A:70 , GLY A:89 , GLY A:90 , HOH A:221 , HOH A:237BINDING SITE FOR RESIDUE GOL A 123
3AC3SOFTWAREGLY A:12 , PRO A:48 , GLY A:108 , ASP A:109 , TYR A:110 , ASP A:112 , HOH A:149BINDING SITE FOR RESIDUE GOL A 124
4AC4SOFTWARESER A:25 , GLY A:26 , ASN A:45 , TYR A:85 , GLY A:86 , HOH A:218BINDING SITE FOR RESIDUE GOL A 125
5AC5SOFTWAREARG A:64 , SER A:88 , SER A:91 , ALA A:92 , HOH A:238BINDING SITE FOR RESIDUE SO4 A 126

(-) SS Bonds  (0, 0)

(no "SS Bond" information available for 3LL0)

(-) Cis Peptide Bonds  (1, 1)

Asymmetric/Biological Unit
No.Residues
1Gly A:83 -Pro A:84

 Sequence-Structure Mapping

(-) SAPs(SNPs)/Variants  (0, 0)

(no "SAP(SNP)/Variant" information available for 3LL0)

(-) PROSITE Motifs  (1, 1)

Asymmetric/Biological Unit (1, 1)
 PROSITEUniProtKBPDB
No.IDACDescriptionIDLocationCountLocation
1JACALIN_LECTINPS51752 Jacalin-type lectin domain profile.GRFIN_GRISQ1-120  1A:1-120

(-) Exons   (0, 0)

(no "Exon" information available for 3LL0)

(-) 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:125
 aligned with GRFIN_GRISQ | P84801 from UniProtKB/Swiss-Prot  Length:121

    Alignment length:125
                                           17   18                                                                                                       
                                    10      |  - |      26        36        46        56        66        76        86        96       106       116     
          GRFIN_GRISQ     1 SLTHRKFGGSGGSPFSG----LSSIAVRSGSYLDXIIIDGVHHGGSGGNLSPTFTFGSGEYISNMTIRSGDYIDNISFETNMGRRFGPYGGSGGSANTLSNVKVIQINGSAGDYLDSLDIYYEQY 121
               SCOP domains ----------------------------------------------------------------------------------------------------------------------------- SCOP domains
               CATH domains ----------------------------------------------------------------------------------------------------------------------------- CATH domains
               Pfam domains ------------Jacalin-3ll0A01 A:13-120                                                                                        - Pfam domains
         Sec.struct. author .eeeeeee....eee........eeeeee...eeeeee..eeee....ee...ee......eeeeeeee...eeeeeeee....eeeeee....eeeeee.eeeeeeeeee...eeeeeeeeee. Sec.struct. author
                 SAPs(SNPs) ----------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE JACALIN_LECTIN  PDB: A:1-120 UniProt: 1-120                                                                                 - PROSITE
                 Transcript ----------------------------------------------------------------------------------------------------------------------------- Transcript
                 3ll0 A   1 SLTHRKFGGSGGSPFSGSGSGLSSIAVRSGSYLDAIIIDGVHHGGSGGNLSPTFTFGSGEYISNMTIRSGDYIDNISFETNMGRRFGPYGGSGGSANTLSNVKVIQINGSAGDYLDSLDIYYEQY 121
                                    10      |16D        26        36        46        56        66        76        86        96       106       116     
                                          16A|||                                                                                                         
                                           16B||                                                                                                         
                                            16C|                                                                                                         
                                             16D
   Legend:   → Mismatch (orange background)
  - → Gap (green background, '-', border residues have a numbering label)
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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  (0, 0)

(no "SCOP Domain" information available for 3LL0)

(-) CATH Domains  (0, 0)

(no "CATH Domain" information available for 3LL0)

(-) Pfam Domains  (1, 1)

Asymmetric/Biological Unit
(-)
Clan: no clan defined [family: Jacalin] (35)

(-) Gene Ontology  (7, 7)

Asymmetric/Biological Unit(hide GO term definitions)
Chain A   (GRFIN_GRISQ | P84801)
molecular function
    GO:0046871    N-acetylgalactosamine binding    Interacting selectively and non-covalently with N-acetylgalactosamine, 2-acetamido-2-deoxygalactopyranose, the n-acetyl derivative of galactosamine.
    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:0005536    glucose binding    Interacting selectively and non-covalently with the D- or L-enantiomer of glucose.
    GO:0005537    mannose binding    Interacting selectively and non-covalently with mannose, a monosaccharide hexose, stereoisomeric with glucose, that occurs naturally only in polymerized forms called mannans.
    GO:0005515    protein binding    Interacting selectively and non-covalently with any protein or protein complex (a complex of two or more proteins that may include other nonprotein molecules).
biological process
    GO:0008150    biological_process    Any process specifically pertinent to the functioning of integrated living units: cells, tissues, organs, and organisms. A process is a collection of molecular events with a defined beginning and end.
cellular component
    GO:0005623    cell    The basic structural and functional unit of all organisms. Includes the plasma membrane and any external encapsulating structures such as the cell wall and cell envelope.

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 Related Entries

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

UniProtKB/Swiss-Prot
        GRFIN_GRISQ | P84801: 2gty 2guc 2gud 2gue 2gux 2hyq 2hyr 2nu5 2nuo 3lky 3ll1 3ll2

(-) Related Entries Specified in the PDB File

2gty CRYSTAL STRUCTURE OF UNLIGANDED GRIFFITHSIN
2guc CRYSTAL STRUCTURE OF A COMPLEX OF GRIFFITHSIN WITH MANNOSE AT 1.78 A RESOLUTION.
2gud CRYSTAL STRUCTURE OF A COMPLEX OF GRIFFITHSIN WITH MANNOSE AT 0.94 A RESOLUTION
2gue CRYSTAL STRUCTURE OF A COMPLEX OF GRIFFITHSIN WITH N- ACETYLGLUCOSAMINE
2gux SELENOMETHIONINE DERIVATIVE OF GRIFFITHSIN
2hyq CRYSTAL STRUCTURE OF A COMPLEX OF GRIFFITHSIN WITH 6ALPHA- MANNOBIOSE
2hyr CRYSTAL STRUCTURE OF A COMPLEX OF GRIFFITHSIN WITH MALTOSE
2nu5 CRYSTAL STRUCTURE OF A COMPLEX OF GRIFFITHSIN COCRYSTALLIZED WITH N-ACETYLGLUCOSAMINE
2nuo CRYSTAL STRUCTURE OF A COMPLEX OF GRIFFITHSIN WITH GLUCOSE
3lky MONOMERIC GRIFFITHSIN WITH A SINGLE GLY-SER INSERTION
3ll1 MONOMERIC GRIFFITHSIN WITH A SINGLE GLY-SER INSERTION AND MUTATIONS TO REMOVE RESIDUAL SELF-ASSOCIATION
3ll2 MONOMERIC GRIFFITHSIN IN COMPLEX WITH A HIGH-MANNOSE BRANCHED CARBOHYDRATE