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(-) Description

Title :  REFINED THREE-DIMENSIONAL STRUCTURE OF THE FAB FRAGMENT OF A MURINE IGG1, LAMBDA ANTIBODY
 
Authors :  T. Bizebard, M. Knossow
Date :  20 Jan 93  (Deposition) - 30 Apr 94  (Release) - 25 Aug 09  (Revision)
Method :  X-RAY DIFFRACTION
Resolution :  2.30
Chains :  Asym./Biol. Unit :  H,L
Keywords :  Immunoglobulin (Keyword Search: [Gene Ontology, PubMed, Web (Google)] )
 
Reference :  T. Bizebard, R. Daniels, R. Kahn, B. Golinelli-Pimpaneau, J. J. Skehel, M. Knossow
Refined Three-Dimensional Structure Of The Fab Fragment Of A Murine Iggl, Lambda Antibody.
Acta Crystallogr. , Sect. D V. 50 768 1994
PubMed-ID: 15299376  |  Reference-DOI: 10.1107/S0907444994001903
(for further references see the PDB file header)

(-) Compounds

Molecule 1 - IGG1-KAPPA HC19 FAB (LIGHT CHAIN)
    Chains: L
    Engineered: YES
    Organism Common: HOUSE MOUSE
    Organism Scientific: MUS MUSCULUS
    Organism Taxid: 10090
 
Molecule 2 - IGG1-KAPPA HC19 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  (0, 0)

(no "Ligand,Modified Residues,Ions" information available for 1GIG)

(-) Sites  (0, 0)

(no "Site" information available for 1GIG)

(-) SS Bonds  (4, 4)

Asymmetric/Biological Unit
No.Residues
1H:22 -H:95
2H:149 -H:204
3L:22 -L:90
4L:137 -L:196

(-) Cis Peptide Bonds  (4, 4)

Asymmetric/Biological Unit
No.Residues
1Tyr L:143 -Pro L:144
2Phe H:155 -Pro H:156
3Glu H:157 -Pro H:158
4Trp H:197 -Pro H:198

 Sequence-Structure Mapping

(-) SAPs(SNPs)/Variants  (0, 0)

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

(-) PROSITE Motifs  (0, 0)

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

(-) Exons   (0, 0)

(no "Exon" information available for 1GIG)

(-) 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:221
 aligned with Q99LC4_MOUSE | Q99LC4 from UniProtKB/TrEMBL  Length:463

    Alignment length:223
                                                                                                                                    126  127                                                                                                               
                                    29        39        49        59        69        79        89        99       109       119      |  - |     135       145       155       165       175       185       195       205       215       225       235   
         Q99LC4_MOUSE    20 QVQLQQSGAELARPGASVRLSCKASGYTFTGYGVSWVKQRTGQGLEWVGEIYPGSGNTYYSEKFKGKATLTTDKSSSTAYMHLSSLTSEDSAVYFCARSSYYSYDLF----AYWGQGTLVTVSAAKTTPPSVYPLAPGSAAQTNSMVTLGCLVKGYFPEPVTVTWNSGSLSSGVHTFPAVLQSDLYTLSSSVTVPSSTWPSETVTCNVAHPASSTKVDKKIVP 238
               SCOP domains d1gigh1 H:1-120 Immunoglobulin heavy chain variable do main, VH                                                           d1gigh2 H:121-221 Immunoglobulin heavy chain gamma constant domain 1, CH1-gamma                       SCOP domains
               CATH domains 1gigH01 H:1-123 Immunoglobulins                                                                                              1gigH02 H:124-221 Immunoglobulins                                                                  CATH domains
               Pfam domains ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author ..eeeee...ee.....eeeeeeee.......eeeeeee......eeeeee...-..eee.......eeeeee....eeeeee...hhhhheeeeeee-ee........eeeee...eeeee........eeeee..........eeeeeeeeeee.....eeee........eee...ee....eeeeeeeeee........eeeeeeehhhheeeeeee.. Sec.struct. author
                 SAPs(SNPs) ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 1gig H   1 QVQLKESGPGLVAPSQSLSITCTVSGFLLISNGVHWVRQPPGKGLEWLGVIWAG-GNTNYNSALMSRVSISKDNSKSQVFLKMKSLQTDDTAMYYCAR-DFYDYDVFYYAMDYWGQGTSVTVSSAKTTPPSVYPLAPGSAAQTNSMVTLGCLVKGYFPEPVTVTWNSGSLSSGVHTFPAVLQSDLYTLSSSVTVPSSTWPSETVTCNVAHPASSTKVDKKIVP 221
                                    10        20        30        40        50   | |  59        69        79        89       |98       108       118       128       138       148       158       168       178       188       198       208       218   
                                                                                54 |                                        97 |                                                                                                                           
                                                                                  55                                          98                                                                                                                           


Chain L from PDB  Type:PROTEIN  Length:210
                                                                                                                                                                                                                                                  
               SCOP domains d1gigl1 L:1-110 Immunoglobulin light chain lambda variable domain, VL-lambda                                  d1gigl2 L:111-210 Immunoglobulin light chain lambda constant domain, CL-lambda                       SCOP domains
               CATH domains 1gigL01 L:1-110 Immunoglobulins                                                                               1gigL02 L:111-210 Immunoglobulins                                                                    CATH domains
               Pfam domains ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ Pfam domains
         Sec.struct. author ...eee..eeee....eeeeeeee.....hhhhh.eeeeee...eeeeeee...ee.......eeeeee..eeeeeee..hhhhheeeeeeee....eee...eeeee........eeeee..hhhhhhh.eeeeeeeeeee.....eeeeee..ee....eee...ee.....eeeeeeeeeehhhhhhh..eeeeeee..eeeeeee. Sec.struct. author
                 SAPs(SNPs) ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ SAPs(SNPs)
                    PROSITE ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ PROSITE
                 Transcript ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ Transcript
                 1gig L   1 QAVVTQESALTTSPGETVTLTCRSSTGAVTTSNYANWVQEKPDHLFTGLIGGTNNRAPGVPARFSGSLIGDKAALTITGAQTEDEAIYFCALWYSNHWVFGGGTKLTVLGQPKSSPSVTLFPPSSEELETNKATLVCTITDFYPGVVTVDWKVDGTPVTQGMETTQPSKQSNNKYMASSYLTLTARAWERHSSYSCQVTHEGHTVEKSLS 210
                                    10        20        30        40        50        60        70        80        90       100       110       120       130       140       150       160       170       180       190       200       210
   Legend:   → Mismatch (orange background)
  - → Gap (green background, '-', border residues have a numbering label)
    → Modified Residue (blue background, lower-case, 'x' indicates undefined single-letter code, labelled with number + name)
  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  (4, 4)

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

(-) CATH Domains  (1, 4)

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

(-) Pfam Domains  (0, 0)

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

(-) Gene Ontology  (0, 0)

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

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  Sites
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  Cis Peptide Bonds
    Glu H:157 - Pro H:158   [ RasMol ]  
    Phe H:155 - Pro H:156   [ RasMol ]  
    Trp H:197 - Pro H:198   [ RasMol ]  
    Tyr L:143 - Pro L:144   [ RasMol ]  
 

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 Related Entries

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

UniProtKB/Swiss-Prot
        Q99LC4_MOUSE | Q99LC4: 1afv 3hkf
UniProtKB/TrEMBL
        Q99LC4_MOUSE | Q99LC4: 1ae6 1e6j 1f58 1jhk 1jnl 1jnn 2a1w 2ntf 2vir 2vis 2vit 4q0x

(-) Related Entries Specified in the PDB File

(no "Related Entries Specified in the PDB File" available for 1GIG)