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(-) Description

Title :  THREE-DIMENSIONAL STRUCTURE OF A LLAMA VHH DOMAIN COMPLEXED WITH THE DYE RR1
 
Authors :  S. Spinelli, M. Tegoni, L. Frenken, C. Van Vliet, C. Cambillau
Date :  16 Feb 01  (Deposition) - 08 Aug 01  (Release) - 24 Feb 09  (Revision)
Method :  X-RAY DIFFRACTION
Resolution :  1.95
Chains :  Asym./Biol. Unit :  A
Keywords :  Antibody, Vhh Fragment, Lama Glama, Immune System (Keyword Search: [Gene Ontology, PubMed, Web (Google))
 
Reference :  S. Spinelli, M. Tegoni, L. Frenken, C. Van Vliet, C. Cambillau
Lateral Recognition Of A Dye Hapten By A Llama Vhh Domain.
J. Mol. Biol. V. 311 123 2001
PubMed-ID: 11469862  |  Reference-DOI: 10.1006/JMBI.2001.4856
(for further references see the PDB file header)

(-) Compounds

Molecule 1 - ANTIBODY VHH LAMA DOMAIN
    ChainsA
    EngineeredYES
    Expression SystemESCHERICHIA COLI
    Expression System Taxid562
    Organism CommonLLAMA
    Organism ScientificLAMA GLAMA
    Organism Taxid9844

 Structural Features

(-) Chains, Units

  1
Asymmetric/Biological Unit A

Summary Information (see also Sequences/Alignments below)

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

Asymmetric/Biological Unit (3, 3)
No.NameCountTypeFull Name
1CGN1Mod. Amino Acid5-OXO-PYRROLIDINE-2-CARBALDEHYDE
2RR11Ligand/Ion5-(4,6-DIAMINO-[1,3,5]TRIAZIN-2-YLAMINO)-4-HYDROXY-3-(2-SULFO-PHENYLAZO)-NAPHTHALENE-2,7-DISULFONIC ACID
3SO41Ligand/IonSULFATE ION

(-) Sites  (2, 2)

Asymmetric Unit (2, 2)
No.NameEvidenceResiduesDescription
1AC1SOFTWAREGLN A:39 , ARG A:45BINDING SITE FOR RESIDUE SO4 A 402
2AC2SOFTWARETHR A:50 , GLY A:52 , ARG A:53 , ASN A:54 , LEU A:55 , GLY A:57 , PRO A:58 , TYR A:62 , ARG A:64 , LYS A:104 , THR A:107 , TRP A:108 , GLY A:109 , GLY A:110 , HOH A:243 , HOH A:267BINDING SITE FOR RESIDUE RR1 A 401

(-) SS Bonds  (1, 1)

Asymmetric/Biological Unit
No.Residues
1A:22 -A:101

(-) Cis Peptide Bonds  (0, 0)

(no "Cis Peptide Bond" information available for 1I3U)

 Sequence-Structure Mapping

(-) SAPs(SNPs)/Variants  (0, 0)

(no "SAP(SNP)/Variant" information available for 1I3U)

(-) PROSITE Motifs  (0, 0)

(no "PROSITE Motif" information available for 1I3U)

(-) Exons   (0, 0)

(no "Exon" information available for 1I3U)

(-) 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:127
                                                                                                                                                               
               SCOP domains d1i3ua_ A: Camelid IG heavy chain variable domain, VHh                                                                          SCOP domains
               CATH domains -1i3uA00 A:2-127 Immunoglobulins                                                                                                CATH domains
               Pfam domains ------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author ..eeeee..ee......eeeeeeee..hhhhheeeeeee......eeeeeeeeee.....eeeee.......eeeeeehhh.eeeeee...hhhhheeeeeeee.......hhhhh.ee...eeee. Sec.struct. author
                 SAPs(SNPs) ------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE ------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript ------------------------------------------------------------------------------------------------------------------------------- Transcript
                 1i3u A   1 xVQLQESGGGLVQAGDSLKLSCEASGDSIGTYVIGWFRQAPGKERIYLATIGRNLVGPSDFYTRYADSVKGRFAVSRDNAKNTVNLQMNSLKPEDTAVYYCAAKTTTWGGNDPNNWNYWGQGTQVTV 127
                            |       10        20        30        40        50        60        70        80        90       100       110       120       
                            |                                                                                                                              
                            1-CGN                                                                                                                          

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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/Biological Unit

(-) CATH Domains  (1, 1)

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

(-) Pfam Domains  (0, 0)

(no "Pfam Domain" information available for 1I3U)

(-) Gene Ontology  (0, 0)

Asymmetric/Biological Unit(hide GO term definitions)
    (no "Gene Ontology" information available for 1I3U)

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(-) Related Entries Specified in the PDB File

1i3v THREE-DIMENSIONAL STRUCTURE OF A LAMA VHH DOMAIN UNLIGANDED