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(-) Description

Title :  NEUTRALIZING ANTIBODY MAB#8 IN COMPLEX WITH THE EPITOPE II OF HCV E2 ENVELOPE PROTEIN
 
Authors :  L. Deng, P. Zhang
Date :  15 Nov 12  (Deposition) - 01 May 13  (Release) - 15 May 13  (Revision)
Method :  X-RAY DIFFRACTION
Resolution :  2.85
Chains :  Asym. Unit :  A,B,E,F,H,L
Biol. Unit 1:  E,H,L  (1x)
Biol. Unit 2:  A,B,F  (1x)
Keywords :  Ig Domain, Neutralizing Antibody, Immune System (Keyword Search: [Gene Ontology, PubMed, Web (Google)] )
 
Reference :  L. Deng, L. Zhong, E. Struble, H. Duan, L. Ma, C. Harman, H. Yan, M. L. Virata-Theimer, Z. Zhao, S. Feinstone, H. Alter, P. Zhang
Structural Evidence For A Bifurcated Mode Of Action In The Antibody-Mediated Neutralization Of Hepatitis C Virus.
Proc. Natl. Acad. Sci. Usa V. 110 7418 2013
PubMed-ID: 23589879  |  Reference-DOI: 10.1073/PNAS.1305306110

(-) Compounds

Molecule 1 - FAB HEAVY CHAIN
    Chains: H, A
    Organism Common: MOUSE
    Organism Scientific: MUS MUSCULUS
    Organism Taxid: 10090
 
Molecule 2 - FAB LIGHT CHAIN
    Chains: L, B
    Organism Common: MOUSE
    Organism Scientific: MUS MUSCULUS
    Organism Taxid: 10090
 
Molecule 3 - E2 ENVELOP PROTEIN
    Chains: E, F
    Fragment: EPITOPE II RESIDUES 430-446
    Organism Scientific: RECOMBINANT HEPATITIS C VIRUS H77(5'UTR-NS2) /JFH1_V787A,Q1247L
    Organism Taxid: 1006431
    Strain: H77

 Structural Features

(-) Chains, Units

  123456
Asymmetric Unit : ABEFHL
Biological Unit 1 (1x):   E HL
Biological Unit 2 (1x): AB F  

Summary Information (see also Sequences/Alignments below)

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

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

(-) Sites  (0, 0)

(no "Site" information available for 4HZL)

(-) SS Bonds  (8, 8)

Asymmetric Unit
No.Residues
1A:22 -A:96
2A:204 -A:149
3B:23 -B:93
4B:199 -B:139
5H:22 -H:96
6H:149 -H:204
7L:23 -L:93
8L:199 -L:139

(-) Cis Peptide Bonds  (8, 8)

Asymmetric Unit
No.Residues
1Phe H:155 -Pro H:156
2Glu H:157 -Pro H:158
3Trp H:197 -Pro H:198
4Tyr L:145 -Pro L:146
5Phe A:155 -Pro A:156
6Glu A:157 -Pro A:158
7Trp A:197 -Pro A:198
8Tyr B:145 -Pro B:146

 Sequence-Structure Mapping

(-) SAPs(SNPs)/Variants  (0, 0)

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

(-) PROSITE Motifs  (0, 0)

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

(-) Exons   (0, 0)

(no "Exon" information available for 4HZL)

(-) 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:217
                                                                                                                                                                                                                                                         
               SCOP domains ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SCOP domains
               CATH domains ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- CATH domains
               Pfam domains ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author ..eeee....ee....eeeeeeeee..hhhhheeeeeee.....eeeeeee......ee........eeeee.....eeeeeee..hhhhheeeeeeee.hhhhhh....ee...eeeee........eeeee.....eeeeeeeeeee.....eeee.hhh....eee...eee..eeeeeeeeeee........eeeeeeehhhheeeeeee... Sec.struct. author
                 SAPs(SNPs) ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 4hzl A   1 EVMLVESGGDLVKPGGSLKLPCAASGFTVSTYAMSWIRQTPEKRLEWVATISSGGSYTYYPDNVKGRFTISRDIAKNTLYLQMSSLRSEDTAMYYCARHPPTVVAGDAMDYWGQGTSVTVSSAKTTPPSVYPLAPGSSMVTLGCLVKGYFPEPVTVTWNSGSLSSGVHTFPAVLQSDLYTLSSSVTVPSSTWPSETVTCNVAHPASSTKVDKKIVPR 222
                                    10        20        30        40        50        60        70        80        90       100       110       120       130      |145       155       165       175       185       195       205       215       
                                                                                                                                                                  137|                                                                               
                                                                                                                                                                   143                                                                               


Chain B from PDB  Type:PROTEIN  Length:217
                                                                                                                                                                                                                                                         
               SCOP domains d4hzlb1 B:1-113 automated matches                                                                                d4hzlb2 B:114-217 automated matches                                                                      SCOP domains
               CATH domains ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- CATH domains
               Pfam domains ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author .........eee......eeeeee.............eeeeee.....eeeee.................ee..eeeeee...hhhhh.eeeeee......ee...eeee........eeeee..hhhhhhhheeeeeeeeeee....eeeeeee..eee...eeeee.........eeeeeeeeeehhhhhh..eeeeeeee......eeeeee.. Sec.struct. author
                 SAPs(SNPs) ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 4hzl B   1 DVLMTQTPLSLPVSLGDQASISCRSSQSLVHSDGNTYLEWYLQKPGQSPNLLIYKLSNRFSGVPDRFSGSGSGTDFTLKISRVEAEDLGVYYCFQGSHVPPTFGGGTKLEIKRADAAPTVSIFPPSSEQLTSGGASVVCFLNNFYPKDINVKWKIDGSERQNGVLNSWTDQDSKDSTYSMSSTLTLTKDEYERHNSYTCEATHKTSTSPIVKSFNRN 217
                                    10        20        30        40        50        60        70        80        90       100       110       120       130       140       150       160       170       180       190       200       210       


Chain E from PDB  Type:PROTEIN  Length:13
                                             
               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
                 4hzl E 430 NESLNTGWLAGLF 442
                                   439   


Chain F from PDB  Type:PROTEIN  Length:13
                                             
               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
                 4hzl F 430 NESLNTGWLAGLF 442
                                   439   


Chain H from PDB  Type:PROTEIN  Length:217
                                                                                                                                                                                                                                                         
               SCOP domains ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SCOP domains
               CATH domains ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- CATH domains
               Pfam domains ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author ..eeee...eee....eeeeeeeee..hhhhheeeeeee.....eeeeeee......ee........eeeeee....eeeeeee..hhhhheeeeeeee.hhhhhh....ee...eeeee........eeeee.....eeeeeeeeeee.....eeee.hhh....eee...eee..eeeeeeeeeee.hhh.....eeeeeehhhheeeeee.... Sec.struct. author
                 SAPs(SNPs) ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 4hzl H   1 EVMLVESGGDLVKPGGSLKLPCAASGFTVSTYAMSWIRQTPEKRLEWVATISSGGSYTYYPDNVKGRFTISRDIAKNTLYLQMSSLRSEDTAMYYCARHPPTVVAGDAMDYWGQGTSVTVSSAKTTPPSVYPLAPGSSMVTLGCLVKGYFPEPVTVTWNSGSLSSGVHTFPAVLQSDLYTLSSSVTVPSSTWPSETVTCNVAHPASSTKVDKKIVPR 222
                                    10        20        30        40        50        60        70        80        90       100       110       120       130      |145       155       165       175       185       195       205       215       
                                                                                                                                                                  137|                                                                               
                                                                                                                                                                   143                                                                               


Chain L from PDB  Type:PROTEIN  Length:217
                                                                                                                                                                                                                                                         
               SCOP domains d4hzll1 L:1-113 automated matches                                                                                d4hzll2 L:114-217 automated matches                                                                      SCOP domains
               CATH domains ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- CATH domains
               Pfam domains ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author ...ee......ee.....eeeeeee............eeeeee.....eeeeee...ee.......eeeeee..eeeeee...hhhhheeeeeee......ee...eeeee.......eeeee..hhhhhhhheeeeeeeeeee....eeeeeee..eee...eeeee.........eeeeeeeeeehhhhhhh.eeeeeeee......eeeeee.. Sec.struct. author
                 SAPs(SNPs) ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 4hzl L   1 DVLMTQTPLSLPVSLGDQASISCRSSQSLVHSDGNTYLEWYLQKPGQSPNLLIYKLSNRFSGVPDRFSGSGSGTDFTLKISRVEAEDLGVYYCFQGSHVPPTFGGGTKLEIKRADAAPTVSIFPPSSEQLTSGGASVVCFLNNFYPKDINVKWKIDGSERQNGVLNSWTDQDSKDSTYSMSSTLTLTKDEYERHNSYTCEATHKTSTSPIVKSFNRN 217
                                    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  (2, 4)

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

(-) CATH Domains  (0, 0)

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

(-) Pfam Domains  (0, 0)

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

(-) Gene Ontology  (30, 30)

Asymmetric Unit(hide GO term definitions)

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(no "Sites" information available for 4hzl)
 
  Cis Peptide Bonds
    Glu A:157 - Pro A:158   [ RasMol ]  
    Glu H:157 - Pro H:158   [ RasMol ]  
    Phe A:155 - Pro A:156   [ RasMol ]  
    Phe H:155 - Pro H:156   [ RasMol ]  
    Trp A:197 - Pro A:198   [ RasMol ]  
    Trp H:197 - Pro H:198   [ RasMol ]  
    Tyr B:145 - Pro B:146   [ RasMol ]  
    Tyr L:145 - Pro L:146   [ RasMol ]  
 
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