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(-) Description

Title :  CRYSTAL STRUCTURE OF NON-NEUTRALIZING ANTIBODY IN COMPLEX WITH EPITOPE II OF HCV E2
 
Authors :  L. Deng, P. Zhang
Date :  02 Apr 14  (Deposition) - 09 Jul 14  (Release) - 06 Aug 14  (Revision)
Method :  X-RAY DIFFRACTION
Resolution :  2.90
Chains :  Asym./Biol. Unit :  E,H,L
Keywords :  Antibody, Anti-Hcv E2, Hcv E2, Immune System-Viral Protein Complex (Keyword Search: [Gene Ontology, PubMed, Web (Google)] )
 
Reference :  L. Deng, L. Ma, M. L. Virata-Theimer, L. Zhong, H. Yan, Z. Zhao, E. Struble, S. Feinstone, H. Alter, P. Zhang
Discrete Conformations Of Epitope Ii On The Hepatitis C Virus E2 Protein For Antibody-Mediated Neutralization And Nonneutralization.
Proc. Natl. Acad. Sci. Usa V. 111 10690 2014
PubMed-ID: 25002515  |  Reference-DOI: 10.1073/PNAS.1411317111

(-) Compounds

Molecule 1 - MAB 12 HEAVY CHAIN
    Chains: H
    Fragment: FAB
    Organism Common: MOUSE
    Organism Scientific: MUS MUSCULUS
    Organism Taxid: 10090
 
Molecule 2 - MAB 12 LIGHT CHAIN
    Chains: L
    Fragment: FAB
    Organism Common: MOUSE
    Organism Scientific: MUS MUSCULUS
    Organism Taxid: 10090
 
Molecule 3 - ENVELOPE GLYCOPROTEIN E2
    Chains: E
    Fragment: EPITOPE II (UNP RESIDUES 421-446)
    Organism Common: HCV
    Organism Scientific: HEPATITIS C VIRUS
    Organism Taxid: 11103
    Synonym: NS1, GP68, GP70

 Structural Features

(-) Chains, Units

  123
Asymmetric/Biological Unit : EHL

Summary Information (see also Sequences/Alignments below)

(-) Ligands, Modified Residues, Ions  (0, 0)

(no "Ligand,Modified Residues,Ions" information available for 4Q0X)

(-) Sites  (0, 0)

(no "Site" information available for 4Q0X)

(-) SS Bonds  (4, 4)

Asymmetric/Biological Unit
No.Residues
1H:22 -H:96
2H:146 -H:201
3L:23 -L:93
4L:139 -L:199

(-) Cis Peptide Bonds  (1, 1)

Asymmetric/Biological Unit
No.Residues
1Tyr L:145 -Pro L:146

 Sequence-Structure Mapping

(-) SAPs(SNPs)/Variants  (0, 0)

(no "SAP(SNP)/Variant" information available for 4Q0X)

(-) PROSITE Motifs  (0, 0)

(no "PROSITE Motif" information available for 4Q0X)

(-) Exons   (0, 0)

(no "Exon" information available for 4Q0X)

(-) 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 E from PDB  Type:PROTEIN  Length:9
                                         
               SCOP domains --------- SCOP domains
               CATH domains --------- CATH domains
               Pfam domains --------- Pfam domains
         Sec.struct. author ..hhhhhhh Sec.struct. author
                 SAPs(SNPs) --------- SAPs(SNPs)
                    PROSITE --------- PROSITE
                 Transcript --------- Transcript
                 4q0x E 434 NTGWLAGLF 442


Chain H from PDB  Type:PROTEIN  Length:216
                                                                                                                                                                                                                                                        
               SCOP domains ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ SCOP domains
               CATH domains ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ CATH domains
               Pfam domains ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ Pfam domains
         Sec.struct. author ..eeee...eee.....eeeeeeee..hhhhh.eeeeeee...eeeeeeeee....eeee.hhhh..eeeeee....eeeeee...hhhhheeeeeeeee...eeeeee...eeeee........eeeee.......eeeeeeeeeee.....eeee.hhh....eee...ee....eeeeeeeeee.........eeeeee....eeeeee.... Sec.struct. author
                 SAPs(SNPs) ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ SAPs(SNPs)
                    PROSITE ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ PROSITE
                 Transcript ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ Transcript
                 4q0x H   1 QVQLRQSGPELVKPGASVRISCKASGYTFTSYYIHWVKQRPGQGLEWIGWIYPGNVNTKYNEKFKGKATLTADKSSSTAYMQLSSLTSEDSAVYFCARDDYDGAWFAYWGQGTLVTVSAAKTTPPSVYPLAPGSAASMVTLGCLVKGYFPEPVTVTWNSGSLSSGVHTFPAVLQSDLYTLSSSVTVPSSTWPSQTVTCNVAHPASSTKVDKKIVPR 219
                                    10        20        30        40        50        60        70        80        90       100       110       120       130     ||143       153       163       173       183       193       203       213      
                                                                                                                                                                 136|                                                                               
                                                                                                                                                                  140                                                                               


Chain L from PDB  Type:PROTEIN  Length:218
                                                                                                                                                                                                                                                          
               SCOP domains -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SCOP domains
               CATH domains -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- CATH domains
               Pfam domains -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author ...ee....eeee.....eeeeeee............eeeeee.....eeeeee...ee.......eeeeee..eeeeee........eeeeeee......ee...eeeee.......eeeee..hhhhhh..eeeeeeeeeee.....eeeeee..eee...eeeee.........eeeeeeeeeehhhhh...eeeeeee.......eeeeee... Sec.struct. author
                 SAPs(SNPs) -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 4q0x L   1 DVLMTQTPLSLPVSLGDQASISCRSSQSIVHNNGNTYLDWSLQKPGQSPKLLIYKVSNRFSGVPDRFSGSGSGTDFTLKISRVEAEDLGVYYCFQGSHVPPTFGGGTKLEIKRADAAPTVSIFPPSSEQLTSGGASVVCFLNNFYPKDINVKWKIDGSERQNGVLNSWTDQDSKDSTYSMSSTLTLTKDEYERHNSYTCEATHKTSTSPIVKSFNRNE 218
                                    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)
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    → 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  (0, 0)

(no "SCOP Domain" information available for 4Q0X)

(-) CATH Domains  (0, 0)

(no "CATH Domain" information available for 4Q0X)

(-) Pfam Domains  (0, 0)

(no "Pfam Domain" information available for 4Q0X)

(-) Gene Ontology  (143, 143)

Asymmetric/Biological Unit(hide GO term definitions)

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(no "Sites" information available for 4q0x)
 
  Cis Peptide Bonds
    Tyr L:145 - Pro L:146   [ RasMol ]  
 

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  4q0x
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 Related Entries

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

UniProtKB/Swiss-Prot
        A2NHM3_MOUSE | A2NHM3: 4p3d
        POLG_HCVH | P27958: 1a1r 1a1v 1cwx 1hei 1jr6 1n1l 1onb 1r7c 1r7d 1r7e 1r7f 1r7g 1rgq 2a4r 2f9v 2hd0 2jxf 2kdr 2n1p 2o8m 2obo 2obq 2oc0 2oc1 2oc7 2oc8 2oin 2p59 2qv1 2xi2 2xi3 2xni 4cl1 4jzn 4jzo 4mwf 4n0y 4xvj 4z0x 5eoc 5erw 5fgb 5fgc
        Q99LC4_MOUSE | Q99LC4: 1afv 3hkf
UniProtKB/TrEMBL
        A2NHM3_MOUSE | A2NHM3: 1cbv 1f3d 1lo0 1m71 1m7d 1m7i 1mnu 1mpa 1nbv 1plg 1pz5 1qfu 1t2q 1zea 2a1w 2dqt 2dqu 2dtm 2ipt 2ipu 2iq9 2iqa 2mpa 2ojz 2ok0 2r0w 2r0z 3bae 3bkc 3bkj 3bkm 3bqu 3eys 3eyu 3uo1 3uyr 3v4u 3v52 3we6 4f37 4hdi 4ocx 4ocy 4tpr 4tqe
        Q99LC4_MOUSE | Q99LC4: 1ae6 1e6j 1f58 1gig 1jhk 1jnl 1jnn 2a1w 2ntf 2vir 2vis 2vit

(-) Related Entries Specified in the PDB File

4hzl STRUCTURAL EVIDENCE FOR A BIFURCATED MODE OF ACTION IN THE ANTIBODY-MEDIATED NEUTRALIZATION OF HEPATITIS C VIRUS