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(-) Description

Title :  STRUCTURE OF A SINGLE-CHAIN FV FRAGMENT COMPLEXED WITH A CARBOHYDRATE ANTIGEN AT 1.7 ANGSTROMS RESOLUTION
 
Authors :  A. Zdanov, M. Cygler
Date :  25 Oct 93  (Deposition) - 31 Jan 94  (Release) - 24 Feb 09  (Revision)
Method :  X-RAY DIFFRACTION
Resolution :  1.70
Chains :  Asym./Biol. Unit :  H,L
Keywords :  Immunoglobulin (Keyword Search: [Gene Ontology, PubMed, Web (Google)] )
 
Reference :  A. Zdanov, Y. Li, D. R. Bundle, S. J. Deng, C. R. Mackenzie, S. A. Narang, N. M. Young, M. Cygler
Structure Of A Single-Chain Antibody Variable Domain (Fv) Fragment Complexed With A Carbohydrate Antigen At 1. 7-A Resolution.
Proc. Natl. Acad. Sci. Usa V. 91 6423 1994
PubMed-ID: 7517550  |  Reference-DOI: 10.1073/PNAS.91.14.6423
(for further references see the PDB file header)

(-) Compounds

Molecule 1 - IGG1-LAMBDA SE155-4 FAB (LIGHT CHAIN)
    Chains: L
    Engineered: YES
    Organism Common: HOUSE MOUSE
    Organism Scientific: MUS MUSCULUS
    Organism Taxid: 10090
 
Molecule 2 - IGG1-LAMBDA SE155-4 FAB (HEAVY CHAIN)
    Chains: H
    Engineered: YES
    Organism Common: HOUSE MOUSE
    Organism Scientific: MUS MUSCULUS
    Organism Taxid: 10090

 Structural Features

(-) Chains, Units

  12
Asymmetric/Biological Unit : HL

Summary Information (see also Sequences/Alignments below)

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

Asymmetric/Biological Unit (3, 3)
No.NameCountTypeFull Name
1ABE1Ligand/IonABEQUOSE
2GLA1Ligand/IonALPHA D-GALACTOSE
3MMA1Ligand/IonO1-METHYL-MANNOSE

(-) Sites  (3, 3)

Asymmetric Unit (3, 3)
No.NameEvidenceResiduesDescription
1AC1SOFTWAREPHE H:309 , MMA H:502 , HOH H:603 , HOH H:605 , TRP L:93 , ASN L:96BINDING SITE FOR RESIDUE GLA H 501
2AC2SOFTWARETRP H:283 , HIS H:351 , GLA H:501 , ABE H:503 , HOH H:602 , HOH H:604 , HOH H:713 , HOH H:732BINDING SITE FOR RESIDUE MMA H 502
3AC3SOFTWARETRP H:283 , HIS H:285 , PHE H:309 , GLY H:350 , GLY H:352 , MMA H:502 , HOH H:601 , HOH H:603 , TRP L:98BINDING SITE FOR RESIDUE ABE H 503

(-) SS Bonds  (2, 2)

Asymmetric/Biological Unit
No.Residues
1H:272 -H:346
2L:22 -L:90

(-) Cis Peptide Bonds  (0, 0)

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

 Sequence-Structure Mapping

(-) SAPs(SNPs)/Variants  (0, 0)

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

(-) PROSITE Motifs  (0, 0)

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

(-) Exons   (0, 0)

(no "Exon" information available for 1MFA)

(-) 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 H from PDB  Type:PROTEIN  Length:117
                                                                                                                                                     
               SCOP domains d1mfah1 H:251-367 Immunoglobulin heavy chain variable domain, VH                                                      SCOP domains
               CATH domains 1mfaH01 H:251-347 Immunoglobulins                                                                -------------------- CATH domains
               Pfam domains --------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author eeeeeeeeeeee..eeeeeeeeeeee.hhhhheeeeeeeeeeeeeeeeeeee....eeeee.....eeeeeee...eeeeeeeee.....eeeeeeeeeeeeeeeeeeeeeeeeeee Sec.struct. author
                 SAPs(SNPs) --------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE --------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript --------------------------------------------------------------------------------------------------------------------- Transcript
                 1mfa H 251 EVQVQQSGTVVARPGASVKMSCKASGYTFTNYWMHWIKQRPGQGLEWIGAIYPGNSATFYNHKFRAKTKLTAVTSTTTAYMELSSLTSEDSAVYYCTRGGHGYYGDYWGQGASLTVS 367
                                   260       270       280       290       300       310       320       330       340       350       360       


Chain L from PDB  Type:PROTEIN  Length:113
                                                                                                                                                 
               SCOP domains d1mfal1 L:1-111 Immunoglobulin light chain lambda variable domain, VL-lambda                                   -- SCOP domains
               CATH domains 1mfaL01 L:1-110 Immunoglobulins                                                                               --- CATH domains
               Pfam domains ----------------------------------------------------------------------------------------------------------------- Pfam domains
     Sec.struct. author (1) eeeeeeeeeeee...--------hhhh..hhhhh.eeeeeee.eeeeeeee...eeee......eeeeeeeeeeeeeeee....eeeeeeeee...eeeeeeeeeeeee.... Sec.struct. author (1)
     Sec.struct. author (2) ---------------eeeeeeeeeee--------------------------------------------------------------------------------------- Sec.struct. author (2)
                 SAPs(SNPs) ----------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE ----------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript ----------------------------------------------------------------------------------------------------------------- Transcript
                 1mfa L   1 QIVVTQESALTTSPGETVTLTCRSSTGTVTSGNHANWVQEKPDHLFTGLIGDTNNRAPGVPARFSGSLIGDKAALTITGAQPEDEAIYFCALWSNNHWIFGGGTKLTVLGQPG 127
                                    10        20        30        40        50        60        70        80        90       100       110 ||
                                                                                                                                         112|
                                                                                                                                          127
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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, 2)

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

(-) CATH Domains  (1, 2)

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

(-) Pfam Domains  (0, 0)

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

(-) Gene Ontology  (0, 0)

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

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