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(-) Description

Title :  CRYSTAL STRUCTURE OF ANTI-23F STREP FAB C05
 
Authors :  S. Bryson, L. Risnes, S. Damgupta, C. A. Thomson, K. Smith, J. W. Schrade
Date :  11 Mar 14  (Deposition) - 11 Mar 15  (Release) - 11 Mar 15  (Revision)
Method :  X-RAY DIFFRACTION
Resolution :  1.80
Chains :  Asym./Biol. Unit :  A,B
Keywords :  Antibody, Fab Fragment, 23F, Rhamnose, Immune System (Keyword Search: [Gene Ontology, PubMed, Web (Google)] )
 
Reference :  S. Bryson, L. Risnes, S. Damgupta, C. A. Thompson, K. Smith, J. W. Schrader, E. F. Pai
Immunoglobulin V-Genes Evolved To Encode Amino Acids That Can Contact Chemically Distinct Antigens To Facilitate The Generation Of Protective Antibodies.
To Be Published
PubMed: search

(-) Compounds

Molecule 1 - ANTIBODY PN132P2C05, LIGHT CHAIN
    Chains: A
    Engineered: YES
    Expression System: ESCHERICHIA COLI
    Expression System Plasmid: PET-DUET
    Expression System Strain: SHUFFLE
    Expression System Taxid: 562
    Expression System Vector Type: PLASMID
    Organism Common: HUMAN
    Organism Scientific: HOMO SAPIENS
    Organism Taxid: 9606
 
Molecule 2 - ANTIBODY PN132P2C05, HEAVY CHAIN
    Chains: B
    Engineered: YES
    Expression System: ESCHERICHIA COLI
    Expression System Plasmid: PET-DUET
    Expression System Strain: SHUFFLE
    Expression System Taxid: 562
    Expression System Vector Type: PLASMID
    Organism Common: HUMAN
    Organism Scientific: HOMO SAPIENS
    Organism Taxid: 9606

 Structural Features

(-) Chains, Units

  12
Asymmetric/Biological Unit : AB

Summary Information (see also Sequences/Alignments below)

(-) Ligands, Modified Residues, Ions  (2, 4)

Asymmetric/Biological Unit (2, 4)
No.NameCountTypeFull Name
1ACT3Ligand/IonACETATE ION
2GOL1Ligand/IonGLYCEROL

(-) Sites  (4, 4)

Asymmetric Unit (4, 4)
No.NameEvidenceResiduesDescription
1AC1SOFTWARETYR A:32 , LEU A:33 , ALA A:34 , ASP A:50 , GLN A:89 , SER B:100D , PHE B:100F , ALA B:100GBINDING SITE FOR RESIDUE ACT A 301
2AC2SOFTWAREHIS A:38 , VAL A:85 , TYR A:87 , GLN B:39BINDING SITE FOR RESIDUE ACT A 302
3AC3SOFTWARETHR A:164 , ASP A:167 , SER A:168 , HOH A:404 , SER B:74 , VAL B:163 , HIS B:164 , HOH B:639BINDING SITE FOR RESIDUE GOL A 303
4AC4SOFTWAREHIS B:53 , ALA B:158 , LEU B:159 , THR B:160 , SER B:161 , HOH B:624BINDING SITE FOR RESIDUE ACT B 501

(-) SS Bonds  (5, 5)

Asymmetric/Biological Unit
No.Residues
1A:23 -A:88
2A:134 -A:194
3B:22 -B:92
4B:99 -B:100C
5B:140 -B:196

(-) Cis Peptide Bonds  (5, 5)

Asymmetric/Biological Unit
No.Residues
1Ser A:7 -Pro A:8
2Trp A:94 -Pro A:95
3Tyr A:140 -Pro A:141
4Phe B:146 -Pro B:147
5Glu B:148 -Pro B:149

 Sequence-Structure Mapping

(-) SAPs(SNPs)/Variants  (0, 0)

(no "SAP(SNP)/Variant" information available for 4PTT)

(-) PROSITE Motifs  (0, 0)

(no "PROSITE Motif" information available for 4PTT)

(-) Exons   (0, 0)

(no "Exon" information available for 4PTT)

(-) 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:213
                                                                                                                                                                                                                                                      
               SCOP domains --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SCOP domains
               CATH domains --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- CATH domains
               Pfam domains --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author ...eeee..eeee.....eeeeeee........eeeee......eeeee...ee.......eeeeee..eeeeee...hhhhheeeeeee........ee...eeeee.......eeeee..hhhhhhh.eeeeeeeeeee.....eeeeee..ee....eeeee.........eeeeeeeeeehhhhhh..eeeeeee.......eeeeee. Sec.struct. author
                 SAPs(SNPs) --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                4ptt A    1 EIVLTQSPATLSLSPGERGTLSCRASQSVGTYLAWYQHKPGQAPRPLIYDASRRATGIPARFSGSGSGTDFTLTISGLEPEDVAVYYCQHRDSWPPGATFGGGTKVEIKRTVAAPSVFIFPPSDEQLKSGTASVVCLLNNFYPREAKVQWKVDNALQSGNSQESVTEQDSKDSTYSLSSTLTLSKADYEKHKVYACEVTHQGLSSPVTKSFNR  211
                                    10        20        30        40        50        60        70        80        90     || 98       108       118       128       138       148       158       168       178       188       198       208   
                                                                                                                         95A|                                                                                                                    
                                                                                                                          95B                                                                                                                    


Chain B from PDB  Type:PROTEIN  Length:225
                                                                                                                                                                                                                                                                  
               SCOP domains --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SCOP domains
               CATH domains --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- CATH domains
               Pfam domains --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author .eeeeee.eee.....eeeeeeee..hhhhh.eeeeee.....eeeeeee......eee.......eeeeee....eeeeee...hhhhheeeeeeee............eeee...eeeee........eeeee..........eeeeeeeeeee.....eeee.hhh....eee...ee.....eeeeeeeeee.hhhhh...eeeeeehhhheeeeee.... Sec.struct. author
                 SAPs(SNPs) --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                4ptt B    2 AQLVESGGGVVQPGRSLTLSCAASGFTFSSHGMHWVRQAPGKGLEWVAVIASHGNVNYYADSVKGRFTISRDNSKNTLSLQMDSLRAEDTAVYYCAKESDSCGGDCSRFAFDVWGHGTMVTVSSASTKGPSVFPLAPSSKSTSGGTAALGCLVKDYFPEPVTVSWNSGALTSGVHTFPAVLQSSGLYSLSSVVTVPSSSLGTQTYICNVNHKPSNTKVDKRVEPK  214
                                    11        21        31        41        51 |      60        70        80  |||   87        97   |||100G|      109       119       129       139       149       159       169       179       189       199       209     
                                                                             52A                            82A||               100A|||||||                                                                                                                  
                                                                                                             82B|                100B||||||                                                                                                                  
                                                                                                              82C                 100C|||||                                                                                                                  
                                                                                                                                   100D||||                                                                                                                  
                                                                                                                                    100E|||                                                                                                                  
                                                                                                                                     100F||                                                                                                                  
                                                                                                                                      100G|                                                                                                                  
                                                                                                                                       100H
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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  (0, 0)

(no "SCOP Domain" information available for 4PTT)

(-) CATH Domains  (0, 0)

(no "CATH Domain" information available for 4PTT)

(-) Pfam Domains  (0, 0)

(no "Pfam Domain" information available for 4PTT)

(-) Gene Ontology  (0, 0)

Asymmetric/Biological Unit(hide GO term definitions)
    (no "Gene Ontology" information available for 4PTT)

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  Cis Peptide Bonds
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 Related Entries

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

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(-) Related Entries Specified in the PDB File

4hh9 SAME V-GENES USED
4hha SAME V-GENES USED
4hie ALTERNATE ANTI-23F ANTIBODY USING SAME V-GENES
4hih ALTERNATE ANTI-23F ANTIBODY USING SAME V-GENES
4hii ALTERNATE ANTI-23F ANTIBODY USING SAME V-GENES
4hij ALTERNATE ANTI-23F ANTIBODY USING SAME V-GENES
4ptu