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(-) Description

Title :  26-10 FAB:DIGOXIN COMPLEX-AFFINITY AND SPECIFICITY DUE TO SURFACE COMPLEMENTARITY
 
Authors :  P. D. Jeffrey, S. Sheriff
Date :  19 Feb 93  (Deposition) - 15 Apr 93  (Release) - 25 Aug 09  (Revision)
Method :  X-RAY DIFFRACTION
Resolution :  2.50
Chains :  Asym. Unit :  A,B,C,D
Biol. Unit 1:  A,B  (1x)
Biol. Unit 2:  C,D  (1x)
Keywords :  Immunoglobulin (Keyword Search: [Gene Ontology, PubMed, Web (Google)] )
 
Reference :  P. D. Jeffrey, R. K. Strong, L. C. Sieker, C. Y. Chang, R. L. Campbell, G. A. Petsko, E. Haber, M. N. Margolies, S. Sheriff
26-10 Fab-Digoxin Complex: Affinity And Specificity Due To Surface Complementarity.
Proc. Natl. Acad. Sci. Usa V. 90 10310 1993
PubMed-ID: 8234291  |  Reference-DOI: 10.1073/PNAS.90.21.10310
(for further references see the PDB file header)

(-) Compounds

Molecule 1 - IGG2A-KAPPA 26-10 FAB (LIGHT CHAIN)
    Chains: A, C
    Engineered: YES
    Organism Common: HOUSE MOUSE
    Organism Scientific: MUS MUSCULUS
    Organism Taxid: 10090
    Strain: A/J
 
Molecule 2 - IGG2A-KAPPA 26-10 FAB (HEAVY CHAIN)
    Chains: B, D
    Engineered: YES
    Organism Common: HOUSE MOUSE
    Organism Scientific: MUS MUSCULUS
    Organism Taxid: 10090
    Strain: A/J

 Structural Features

(-) Chains, Units

  1234
Asymmetric Unit : ABCD
Biological Unit 1 (1x): AB  
Biological Unit 2 (1x):   CD

Summary Information (see also Sequences/Alignments below)

(-) Ligands, Modified Residues, Ions  (1, 2)

Asymmetric Unit (1, 2)
No.NameCountTypeFull Name
1DGX2Ligand/IonDIGOXIN
Biological Unit 1 (1, 1)
No.NameCountTypeFull Name
1DGX1Ligand/IonDIGOXIN
Biological Unit 2 (1, 1)
No.NameCountTypeFull Name
1DGX1Ligand/IonDIGOXIN

(-) Sites  (2, 2)

Asymmetric Unit (2, 2)
No.NameEvidenceResiduesDescription
1AC1SOFTWARETHR A:91 , PRO A:96 , TYR B:33 , ASN B:35 , TYR B:47 , TYR B:50 , SER B:95 , TRP B:100 , ALA B:100A , MET B:100BBINDING SITE FOR RESIDUE DGX B 228
2AC2SOFTWARETHR C:91 , ASN D:35 , TYR D:47 , TYR D:50 , SER D:95 , TRP D:100 , ALA D:100A , MET D:100BBINDING SITE FOR RESIDUE DGX D 228

(-) SS Bonds  (8, 8)

Asymmetric Unit
No.Residues
1A:23 -A:88
2A:134 -A:194
3B:22 -B:92
4B:142 -B:208
5C:23 -C:88
6C:134 -C:194
7D:22 -D:92
8D:142 -D:208

(-) Cis Peptide Bonds  (12, 12)

Asymmetric Unit
No.Residues
1Thr A:7 -Pro A:8
2Val A:94 -Pro A:95
3Tyr A:140 -Pro A:141
4Phe B:148 -Pro B:149
5Glu B:150 -Pro B:151
6Trp B:199 -Pro B:200
7Thr C:7 -Pro C:8
8Val C:94 -Pro C:95
9Tyr C:140 -Pro C:141
10Phe D:148 -Pro D:149
11Glu D:150 -Pro D:151
12Trp D:199 -Pro D:200

 Sequence-Structure Mapping

(-) SAPs(SNPs)/Variants  (0, 0)

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

(-) PROSITE Motifs  (0, 0)

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

(-) Exons   (0, 0)

(no "Exon" information available for 1IGJ)

(-) 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:216
                                                                                                                                                                                                                                                         
               SCOP domains d1igja1 A:1-107 Immunoglobulin light chain kappa variable domain, VL-kappa                                      d1igja2 A:108-211 Immunoglobulin light chain kappa constant domain, CL-kappa                             SCOP domains
               CATH domains 1igjA01 A:1-108 Immunoglobulins                                                                                  1igjA02 A:109-211 Immunoglobulins                                                                       CATH domains
               Pfam domains ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ Pfam domains
         Sec.struct. author ...eeee..eeee.....eeeeeee............eeeeee.....eeeeee...ee.......eeeeee..eeeeee...hhhhh.eeeeee......ee...eeeee.......eeeee..hhhhhhh.eeeeeeeeeee.....eeeeee...ee...eeeee.........eeeeeeeeeehhhhhhh.eeeeeee.......eeeeee. Sec.struct. author
                 SAPs(SNPs) ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ SAPs(SNPs)
                    PROSITE ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ PROSITE
                 Transcript ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ Transcript
                1igj A    1 DVVMTQTPLSLPVSLGDQASISCRSSQSLVHSNGNTYLNWYLQKAGQSPKLLIYKVSNRFSGVPDRFSGSGSGTDFTLKISRVEAEDLGIYFCSQTTHVPPTFGGGTKLEIKRADAAPTVSIFPPSSEQLTSGGASVVCFLNNFYPKDINVKWKIDGSERQNGVLNSWTDQDSKDSTYSMSSTLTLTKDEYERHNSYTCEATHKTSTSPIVKSFNR  211
                                    10        20       27C||      35        45        55        65        75        85        95       105       115       125       135       145       155       165       175       185       195       205      
                                                     27A||||                                                                                                                                                                                        
                                                      27B|||                                                                                                                                                                                        
                                                       27C||                                                                                                                                                                                        
                                                        27D|                                                                                                                                                                                        
                                                         27E                                                                                                                                                                                        


Chain B from PDB  Type:PROTEIN  Length:217
                                                                                                                                                                                                                                                          
               SCOP domains d1igjb1 B:2-114 Immunoglobulin heavy chain variable domain, VH                                                         d1igjb2 B:115-227 Immunoglobulin heavy chain gamma constant domain 1, CH1-gamma                    SCOP domains
               CATH domains 1igjB01 B:2-113 Immunoglobulins                                                                                       1igjB02 B:114-227 Immunoglobulins                                                                   CATH domains
               Pfam domains ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author .eeee...........eeeeeeee.......eeeeeee.....eeeeeee......eee.........eeee....eeeeee...hhhhh.eeeeeeehhhhhh..ee...ee...........eeeee...........eeeeeeeeee.....eeee.hhh.....ee...eee..eeeeeeeeee.........eeeeeeehhhheeeeeee.. Sec.struct. author
                 SAPs(SNPs) ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                1igj B    2 VQLQQSGPELVKPGASVRMSCKSSGYIFTDFYMNWVRQSHGKSLDYIGYISPYSGVTGYNQKFKGKATLTVDKSSSTAYMELRSLTSEDSAVYYCAGSSGNKWAMDYWGHGASVTVSSAKTTAPSVYPLAPVCGDTTGSSVTLGCLVKGYFPEPVTLTWNSGSLSSGVHTFPAVLQSDLYTLSSSVTVTSSTWPSQSITCNVAHPASSTKVDKKIEP  227
                                    11        21        31        41        51 |      60        70        80  |||   87        97   ||  105       115       125    || 137       147      |162      |173      |185       195|| ||  208       218    || 
                                                                             52A                            82A||               100A|                           130|                  154|||    169|      180|          196| || 206|            223| 
                                                                                                             82B|                100B                            133                   156||     171       183           198 ||  208             226 
                                                                                                              82C                                                                       157|                               200|                      
                                                                                                                                                                                         162                                202                      


Chain C from PDB  Type:PROTEIN  Length:216
                                                                                                                                                                                                                                                         
               SCOP domains d1igjc1 C:1-107 Immunoglobulin light chain kappa variable domain, VL-kappa                                      d1igjc2 C:108-211 Immunoglobulin light chain kappa constant domain, CL-kappa                             SCOP domains
               CATH domains 1igjC01 C:1-108 Immunoglobulins                                                                                  1igjC02 C:109-210 Immunoglobulins                                                                     - CATH domains
               Pfam domains ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ Pfam domains
         Sec.struct. author ...eeee..eeee.....eeeeeee............eeeeee.....eeeeee...ee.......eeeeee..eeeeee.........eeeeee......ee...eeeee.......eeeee..hhhhhh..eeeeeeeeeee....eeeeeee..ee....ee............eeeeeeeeeehhhhhh..eeeeeeee......eeeeee. Sec.struct. author
                 SAPs(SNPs) ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ SAPs(SNPs)
                    PROSITE ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ PROSITE
                 Transcript ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ Transcript
                1igj C    1 DVVMTQTPLSLPVSLGDQASISCRSSQSLVHSNGNTYLNWYLQKAGQSPKLLIYKVSNRFSGVPDRFSGSGSGTDFTLKISRVEAEDLGIYFCSQTTHVPPTFGGGTKLEIKRADAAPTVSIFPPSSEQLTSGGASVVCFLNNFYPKDINVKWKIDGSERQNGVLNSWTDQDSKDSTYSMSSTLTLTKDEYERHNSYTCEATHKTSTSPIVKSFNR  211
                                    10        20       27C||      35        45        55        65        75        85        95       105       115       125       135       145       155       165       175       185       195       205      
                                                     27A||||                                                                                                                                                                                        
                                                      27B|||                                                                                                                                                                                        
                                                       27C||                                                                                                                                                                                        
                                                        27D|                                                                                                                                                                                        
                                                         27E                                                                                                                                                                                        


Chain D from PDB  Type:PROTEIN  Length:217
                                                                                                                                                                                                                                                          
               SCOP domains d1igjd1 D:2-114 Immunoglobulin heavy chain variable domain, VH                                                         d1igjd2 D:115-227 Immunoglobulin heavy chain gamma constant domain 1, CH1-gamma                    SCOP domains
               CATH domains 1igjD01 D:2-113 Immunoglobulins                                                                                       1igjD02 D:114-227 Immunoglobulins                                                                   CATH domains
               Pfam domains ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author .eeee...eee....eeeeeeeee......eeeeeeee.....eeeeeee......eee.hhh...eeeeee.............hhhhheeeeeeeee.hhh...ee...eeeee........eeeee..........eeeeeeeeeee.....eeee.hhh.....ee...ee....eeeeeeeeee.hhh.....eeeeee....eeeeee... Sec.struct. author
                 SAPs(SNPs) ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                1igj D    2 VQLQQSGPELVKPGASVRMSCKSSGYIFTDFYMNWVRQSHGKSLDYIGYISPYSGVTGYNQKFKGKATLTVDKSSSTAYMELRSLTSEDSAVYYCAGSSGNKWAMDYWGHGASVTVSSAKTTAPSVYPLAPVCGDTTGSSVTLGCLVKGYFPEPVTLTWNSGSLSSGVHTFPAVLQSDLYTLSSSVTVTSSTWPSQSITCNVAHPASSTKVDKKIEP  227
                                    11        21        31        41        51 |      60        70        80  |||   87        97   ||  105       115       125    || 137       147      |162      |173      |185       195|| ||  208       218    || 
                                                                             52A                            82A||               100A|                           130|                  154|||    169|      180|          196| || 206|            223| 
                                                                                                             82B|                100B                            133                   156||     171       183           198 ||  208             226 
                                                                                                              82C                                                                       157|                               200|                      
                                                                                                                                                                                         162                                202
   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, 8)

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

(-) CATH Domains  (1, 8)

Asymmetric Unit
(-)
Class: Mainly Beta (13760)
(-)
Architecture: Sandwich (5577)
(-)
Topology: Immunoglobulin-like (3897)
(-)
Homologous Superfamily: Immunoglobulins (2282)
(-)
House mouse (Mus musculus) (616)
1a1igjA02A:109-211
1b1igjB02B:114-227
1c1igjD02D:114-227
1d1igjA01A:1-108
1e1igjC01C:1-108
1f1igjB01B:2-113
1g1igjD01D:2-113
1h1igjC02C:109-210

(-) Pfam Domains  (0, 0)

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

(-) Gene Ontology  (0, 0)

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

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