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(-) Description

Title :  CRYSTAL STRUCTURE OF BROADLY NEUTRALIZING ANTIBODY F045-092
 
Authors :  P. S. Lee, I. A. Wilson
Date :  19 Dec 13  (Deposition) - 16 Apr 14  (Release) - 21 Jun 17  (Revision)
Method :  X-RAY DIFFRACTION
Resolution :  1.50
Chains :  Asym./Biol. Unit :  H,L
Keywords :  Fab, Fragment Antigen Binding, Immunoglobulin Fold, Immune System (Keyword Search: [Gene Ontology, PubMed, Web (Google)] )
 
Reference :  P. S. Lee, N. Ohshima, R. L. Stanfield, W. Yu, Y. Iba, Y. Okuno, Y. Kurosawa, I. A. Wilson
Receptor Mimicry By Antibody F045-092 Facilitates Universal Binding To The H3 Subtype Of Influenza Virus.
Nat Commun V. 5 3614 2014
PubMed-ID: 24717798  |  Reference-DOI: 10.1038/NCOMMS4614

(-) Compounds

Molecule 1 - FAB F045-092 LIGHT CHAIN
    Chains: L
    Engineered: YES
    Expression System: ESCHERICHIA COLI
    Expression System Taxid: 562
    Gene: IGLC3
    Organism Common: HUMAN, HUMAN
    Organism Scientific: HOMO SAPIENS
    Organism Taxid: 9606
    Synonym: IG LAMBDA CHAIN C REGION DOT,IG LAMBDA CHAIN C REGION NEWM, IG LAMBDA-3 CHAIN C REGIONS
 
Molecule 2 - FAB F045-092 HEAVY CHAIN
    Chains: H
    Engineered: YES
    Expression System: ESCHERICHIA COLI
    Expression System Taxid: 562
    Organism Common: HUMAN, HUMAN
    Organism Scientific: HOMO SAPIENS
    Organism Taxid: 9606

 Structural Features

(-) Chains, Units

  12
Asymmetric/Biological Unit : HL

Summary Information (see also Sequences/Alignments below)

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

Asymmetric/Biological Unit (1, 1)
No.NameCountTypeFull Name
1PO41Ligand/IonPHOSPHATE ION

(-) Sites  (1, 1)

Asymmetric Unit (1, 1)
No.NameEvidenceResiduesDescription
1AC1SOFTWAREPRO H:123 , ALA H:125 , LYS H:214 , HOH H:329 , SER L:121 , SER L:122 , GLU L:123BINDING SITE FOR RESIDUE PO4 L 301

(-) SS Bonds  (6, 6)

Asymmetric/Biological Unit
No.Residues
1H:22 -H:92
2H:100C-H:100F
3H:140 -H:196
4L:23 -L:88
5L:134 -L:193
6L:211 -H:216

(-) Cis Peptide Bonds  (3, 3)

Asymmetric/Biological Unit
No.Residues
1Tyr L:140 -Pro L:141
2Phe H:146 -Pro H:147
3Glu H:148 -Pro H:149

 Sequence-Structure Mapping

(-) SAPs(SNPs)/Variants  (0, 0)

(no "SAP(SNP)/Variant" information available for 4O5L)

(-) PROSITE Motifs  (0, 0)

(no "PROSITE Motif" information available for 4O5L)

(-) Exons   (0, 0)

(no "Exon" information available for 4O5L)

(-) 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:234
                                                                                                                                                                                                                                                                           
               SCOP domains ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ SCOP domains
               CATH domains ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ CATH domains
               Pfam domains ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ Pfam domains
         Sec.struct. author ...eee...eee.....eeeeeee........eeeeee......eeeeee......eee.hhhh..eeeeeehhh.eeeeee...hhhhheeeeeee............hhhhhh....ee...eeeee........eeeee....eeeeeeeeeee.....eeee.hhh....eee...ee.....eeeeeeeeee.hhh.....eeeeeehhhheeeeee............ Sec.struct. author
                 SAPs(SNPs) ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ SAPs(SNPs)
                    PROSITE ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ PROSITE
                 Transcript ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ Transcript
                4o5l H    1 EVQLVESGAEVKKPGSSVKVSCRASGTFYKYAINWVRQAPGQGLEWMGGIIPFFGTTNYAQKFQGRLTITADGSTNTAYMQLDSLRSEDTAVYYCAGPSITESHYCLDCAAKDYYYGLDVWGQGTTVTVSSASTKGPSVFPLAPSGTAALGCLVKDYFPEPVTVSWNSGALTSGVHTFPAVLQSSGLYSLSSVVTVPSSSLGTQTYICNVNHKPSNTKVDKKVEPKSCHHHHHH  222
                                    10        20        30   ||   41        51 |      60        70        80  |||   87        97   |||100G|||||||102       112       122    || 138       148       158       168       178       188       198       208       218    
                                                            34|              52A                            82A||               100A|||||100J|||||                        127|                                                                                        
                                                             36                                              82B|                100B|||||100K||||                         134                                                                                        
                                                                                                              82C                 100C|||||100L|||                                                                                                                    
                                                                                                                                   100D|||||100M||                                                                                                                    
                                                                                                                                    100E|||| 100N|                                                                                                                    
                                                                                                                                     100F|||  100O                                                                                                                    
                                                                                                                                      100G||                                                                                                                          
                                                                                                                                       100H|                                                                                                                          
                                                                                                                                        100I                                                                                                                          


Chain L from PDB  Type:PROTEIN  Length:215
                                                                                                                                                                                                                                                        
               SCOP domains ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SCOP domains
               CATH domains ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- CATH domains
               Pfam domains ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author ........eeee.....eeeeee....hhhhh..eeeee......eeeee...ee.......eeeeee..eeeeee...hhhhheeeeeeeee....eeee...eeeee........eeeee..hhhhhhh..eeeeeeeeee.....eeeeee..eee...eee...ee.....eeeeeeeeehhhhhhhh..eeeeeee..eeeeeee..... Sec.struct. author
                 SAPs(SNPs) ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                4o5l L    1 QSVLTQPPSASGTPGQSVTISCSGSRSNIGGNTVNWYQHLPGMAPKLLIYSSNQRSSGVPDRFSGSKSGTSASLAISGLQSEDDADYYCASWDDSLNGVVFGGGTKLTVLGQPKAAPSVTLFPPSSEELQANKATLVCLISDFYPGAVTVAWKADSSPVKAGVETTTPSKQSNNKYAASSYLSLTPEQWKSHKSYSCQVTHEGSTVEKTVAPTEC  211
                                    11        21      ||29        39        49        59        69        79        89      ||97      106A       116       126       136       146       156       166       176       186       196       206     
                                    9|              27A|                                                                  95A|        106A                                                                                                         
                                    11               27B                                                                   95B
   Legend:   → Mismatch (orange background)
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  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  (0, 0)

(no "SCOP Domain" information available for 4O5L)

(-) CATH Domains  (0, 0)

(no "CATH Domain" information available for 4O5L)

(-) Pfam Domains  (0, 0)

(no "Pfam Domain" information available for 4O5L)

(-) Gene Ontology  (0, 0)

Asymmetric/Biological Unit(hide GO term definitions)
    (no "Gene Ontology" information available for 4O5L)

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  Cis Peptide Bonds
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 Related Entries

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

UniProtKB/Swiss-Prot
        A8K008_HUMAN | A8K008: 3cfj 3cfk
        IGLC3_HUMAN | P0DOY3: 1aqk 3tv3 3twc 3tyg 4lld 4llm 4o58 4o5i 4r26 4r2g 5d9q 5iq7 5iq9 7fab

(-) Related Entries Specified in the PDB File

4o58 4o5i