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(-) Description

Title :  CAMELID HEAVY CHAIN VARIABLE DOMAINS PROVIDE EFFICIENT COMBINING SITES TO HAPTENS
 
Authors :  S. Spinelli, L. G. J. Frenken, P. Hermans, T. Verrips, K. Brown, M. Tegon C. Cambillau
Date :  08 Jul 99  (Deposition) - 19 Jul 00  (Release) - 13 Jul 11  (Revision)
Method :  X-RAY DIFFRACTION
Resolution :  2.50
Chains :  Asym. Unit :  A
Biol. Unit 1:  A  (1x)
Biol. Unit 2:  A  (2x)
Keywords :  Camelid Vh, Immunoglobulin Fragment, Azo-Dye, Immune System (Keyword Search: [Gene Ontology, PubMed, Web (Google)] )
 
Reference :  S. Spinelli, L. G. Frenken, P. Hermans, T. Verrips, K. Brown, M. Tegoni C. Cambillau
Camelid Heavy-Chain Variable Domains Provide Efficient Combining Sites To Haptens.
Biochemistry V. 39 1217 2000
PubMed-ID: 10684599  |  Reference-DOI: 10.1021/BI991830W
(for further references see the PDB file header)

(-) Compounds

Molecule 1 - VHH-R2 ANTI-RR6 ANTIBODY
    Cell: PERIPHERAL BLOOD LYMPHOCYTE
    Chains: A
    Fragment: VARIABLE DOMAIN OF A HEAVY CHAIN ANTIBODY
    Organism Common: LLAMA
    Organism Scientific: LAMA GLAMA
    Organism Taxid: 9844
    Tissue: BLOOD

 Structural Features

(-) Chains, Units

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

Summary Information (see also Sequences/Alignments below)

(-) Ligands, Modified Residues, Ions  (2, 3)

Asymmetric Unit (2, 3)
No.NameCountTypeFull Name
1CU2Ligand/IonCOPPER (II) ION
2RR61Ligand/Ion3-HYDROXY-7-(4-{1-[2-HYDROXY-3-(2-HYDROXY-5-SULFO-PHENYLAZO)-BENZYL]-2-SULFO-ETHYLAMINO}-[1,2,5]TRIAZIN-2-YLAMINO)-2-(2-HYDROXY-5-SULFO-PHENYLAZO)-NAPTHALENE-1,8-DISULFONIC ACID
Biological Unit 1 (1, 1)
No.NameCountTypeFull Name
1CU-1Ligand/IonCOPPER (II) ION
2RR61Ligand/Ion3-HYDROXY-7-(4-{1-[2-HYDROXY-3-(2-HYDROXY-5-SULFO-PHENYLAZO)-BENZYL]-2-SULFO-ETHYLAMINO}-[1,2,5]TRIAZIN-2-YLAMINO)-2-(2-HYDROXY-5-SULFO-PHENYLAZO)-NAPTHALENE-1,8-DISULFONIC ACID
Biological Unit 2 (1, 2)
No.NameCountTypeFull Name
1CU-1Ligand/IonCOPPER (II) ION
2RR62Ligand/Ion3-HYDROXY-7-(4-{1-[2-HYDROXY-3-(2-HYDROXY-5-SULFO-PHENYLAZO)-BENZYL]-2-SULFO-ETHYLAMINO}-[1,2,5]TRIAZIN-2-YLAMINO)-2-(2-HYDROXY-5-SULFO-PHENYLAZO)-NAPTHALENE-1,8-DISULFONIC ACID

(-) Sites  (3, 3)

Asymmetric Unit (3, 3)
No.NameEvidenceResiduesDescription
1AC1SOFTWAREHIS A:34 , RR6 A:1003BINDING SITE FOR RESIDUE CU A 1001
2AC2SOFTWAREHIS A:32 , HIS A:34 , RR6 A:1003BINDING SITE FOR RESIDUE CU A 1002
3AC3SOFTWAREHIS A:32 , HIS A:34 , GLY A:36 , GLY A:45 , ARG A:55 , TRP A:56 , SER A:57 , LYS A:59 , ARG A:102 , PRO A:103 , VAL A:104 , ARG A:105 , VAL A:106 , CU A:1001 , CU A:1002 , HOH A:1035 , HOH A:1037BINDING SITE FOR RESIDUE RR6 A 1003

(-) SS Bonds  (1, 1)

Asymmetric Unit
No.Residues
1A:22 -A:99

(-) Cis Peptide Bonds  (0, 0)

(no "Cis Peptide Bond" information available for 1QD0)

 Sequence-Structure Mapping

(-) SAPs(SNPs)/Variants  (0, 0)

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(-) 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:128
 aligned with A2KD59_LAMGL | A2KD59 from UniProtKB/TrEMBL  Length:128

    Alignment length:128
                                    10        20        30        40        50        60        70        80        90       100       110       120        
         A2KD59_LAMGL     1 QVQLQESGGGLVQAGGSLRLSCAASGRATSGHGHYGMGWFRQVPGKEREFVAAIRWSGKETWYKDSVKGRFTISRDNAKTTVYLQMNSLKPEDTAVYYCAARPVRVDDISLPVGFDYWGQGTQVTVSS 128
               SCOP domains d1qd0a_ A: Camelid IG heavy chain variable domain, VHh                                                                           SCOP domains
               CATH domains 1qd0A00 A:1-128 Immunoglobulins                                                                                                  CATH domains
               Pfam domains V-set-1qd0A01 A:1-126                                                                                                         -- Pfam domains
         Sec.struct. author ..eeeee...eee...eeeeeeeee..........eeeeeee......eeeeee......eee.......eeee.......eeeeee.......eeeeeeee..............ee...eeeeee. Sec.struct. author
                 SAPs(SNPs) -------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE -------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript -------------------------------------------------------------------------------------------------------------------------------- Transcript
                 1qd0 A   1 QVQLQESGGGLVQAGGSLRLSCAASGRAASGHGHYGMGWFRQVPGKEREFVAAIRWSGKETWYKDSVKGRFTISRDNAKTTVYLQMNSLKGEDTAVYYCAARPVRVADISLPVGFDYWGQGTQVTVSS 128
                                    10        20        30        40        50        60        70        80        90       100       110       120
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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  (1, 1)

Asymmetric Unit
(-)
Clan: Ig (577)

(-) Gene Ontology  (0, 0)

Asymmetric Unit(hide GO term definitions)
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 Related Entries

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UniProtKB/TrEMBL
        A2KD59_LAMGL | A2KD59: 2x89

(-) Related Entries Specified in the PDB File

1hcv 1HCV PERTAINS TO THE SAME CLASS OF CAMELID ANTIBODY FRAGMENTS