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(-) Description

Title :  STRUCTURE OF THE HEPATITIS C ENVELOPE GLYCOPROTEIN E1 ANTIGENIC REGION 314-324 BOUND TO THE CROSS-NEUTRALIZING ANTIBODY IGH526
 
Authors :  L. Kong, I. A. Wilson
Date :  02 Oct 13  (Deposition) - 01 Apr 15  (Release) - 26 Aug 15  (Revision)
Method :  X-RAY DIFFRACTION
Resolution :  1.75
Chains :  Asym./Biol. Unit :  A,H,L
Keywords :  Immunoglobulin Fold, Amidated C-Terminus, Immune System (Keyword Search: [Gene Ontology, PubMed, Web (Google)] )
 
Reference :  L. Kong, R. U. Kadam, E. Giang, T. B. Ruwona, T. Nieusma, J. C. Culhane, R. L. Stanfield, P. E. Dawson, I. A. Wilson, M. Law
Structure Of Hepatitis C Virus Envelope Glycoprotein E1 Antigenic Site 314-324 In Complex With Antibody Igh526.
J. Mol. Biol. V. 427 2617 2015
PubMed-ID: 26135247  |  Reference-DOI: 10.1016/J.JMB.2015.06.012

(-) Compounds

Molecule 1 - IGH526 HEAVY CHAIN
    Chains: H
    Engineered: YES
    Expression System: HOMO SAPIENS
    Expression System Cell Line: 293 FREESTYLE
    Expression System Taxid: 9606
    Organism Common: HUMAN
    Organism Scientific: HOMO SAPIENS
    Organism Taxid: 9606
 
Molecule 2 - IGH526 LIGHT CHAIN
    Chains: L
    Engineered: YES
    Expression System: HOMO SAPIENS
    Expression System Cell Line: 293 FREESTYLE
    Expression System Taxid: 9606
    Organism Common: HUMAN
    Organism Scientific: HOMO SAPIENS
    Organism Taxid: 9606
 
Molecule 3 - HCV E1 PEPTIDE
    Chains: A
    Engineered: YES
    Fragment: ANTIGENIC SITE (UNP RESIDUES 314-324)
    Organism Scientific: HEPATITIS C VIRUS
    Organism Taxid: 11103
    Synthetic: YES

 Structural Features

(-) Chains, Units

  123
Asymmetric/Biological Unit : AHL

Summary Information (see also Sequences/Alignments below)

(-) Ligands, Modified Residues, Ions  (3, 9)

Asymmetric/Biological Unit (3, 9)
No.NameCountTypeFull Name
1CL1Ligand/IonCHLORIDE ION
2GOL7Ligand/IonGLYCEROL
3NH21Mod. Amino AcidAMINO GROUP

(-) Sites  (8, 8)

Asymmetric Unit (8, 8)
No.NameEvidenceResiduesDescription
1AC1SOFTWAREARG H:71 , ASP H:72 , THR H:73 , SER H:74 , GLU L:183BINDING SITE FOR RESIDUE GOL H 301
2AC2SOFTWAREARG A:317 , HOH A:408 , GLY H:100C , GLY L:41BINDING SITE FOR RESIDUE GOL H 302
3AC3SOFTWAREGLN H:39 , ARG H:44 , LEU H:45 , HIS L:38 , ASP L:85 , GLY L:99 , GLY L:100BINDING SITE FOR RESIDUE GOL L 301
4AC4SOFTWAREALA L:143 , THR L:145 , THR L:196 , HIS L:197 , GLU L:198 , GLY L:199BINDING SITE FOR RESIDUE GOL L 302
5AC5SOFTWARELYS H:206 , LYS L:149 , ASP L:151 , SER L:192 , GLU L:203 , HOH L:407BINDING SITE FOR RESIDUE GOL L 303
6AC6SOFTWAREVAL H:181 , HOH H:554 , SER L:114 , THR L:116 , LEU L:135 , ILE L:136 , SER L:137 , HOH L:509BINDING SITE FOR RESIDUE GOL L 304
7AC7SOFTWAREVAL H:121 , LYS H:209 , ALA L:112 , PRO L:113BINDING SITE FOR RESIDUE GOL L 305
8AC8SOFTWAREHIS A:316 , HOH A:411 , THR L:32BINDING SITE FOR RESIDUE CL L 306

(-) SS Bonds  (4, 4)

Asymmetric/Biological Unit
No.Residues
1H:22 -H:92
2H:140 -H:196
3L:23 -L:88
4L:134 -L:193

(-) Cis Peptide Bonds  (4, 4)

Asymmetric/Biological Unit
No.Residues
1Asp H:101 -Pro H:102
2Phe H:146 -Pro H:147
3Glu H:148 -Pro H:149
4Tyr L:140 -Pro L:141

 Sequence-Structure Mapping

(-) SAPs(SNPs)/Variants  (0, 0)

(no "SAP(SNP)/Variant" information available for 4N0Y)

(-) PROSITE Motifs  (0, 0)

(no "PROSITE Motif" information available for 4N0Y)

(-) Exons   (0, 0)

(no "Exon" information available for 4N0Y)

(-) 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:12
                                             
               SCOP domains ------------ SCOP domains
               CATH domains ------------ CATH domains
               Pfam domains ------------ Pfam domains
         Sec.struct. author .hhhhhhhhhh. Sec.struct. author
                 SAPs(SNPs) ------------ SAPs(SNPs)
                    PROSITE ------------ PROSITE
                 Transcript ------------ Transcript
                4n0y A  314 TGHRMAWDMMMx  325
                                   323 |
                                     325-NH2


Chain H from PDB  Type:PROTEIN  Length:222
                                                                                                                                                                                                                                                               
               SCOP domains ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ SCOP domains
               CATH domains ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ CATH domains
               Pfam domains ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ Pfam domains
         Sec.struct. author ..eeee...eee.....eeeeeeee..hhhhh.eeeeee.....eeeeeee......eee.......eeeeee....eeeeee...hhhhheeeeeeee............eeee...eeeee........eeeeeeee...eeeeeeeeeee.....eeee.hhh....eee...ee.....eeeeeeeeee.hhh.....eeeeeehhhheeeeee.... Sec.struct. author
                 SAPs(SNPs) ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ SAPs(SNPs)
                    PROSITE ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ PROSITE
                 Transcript ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ Transcript
                4n0y H    2 VQLLEQSGAEVKRPGASVKVSCKASGYTFTSYAIHWVRQAPGQRLEWMGWINPGNGNAKYSQRFQGRVIISRDTSATTSYMELSSLTSEDTAVYSCARDRGFDLLTGHYLGLDPWGQGTLVTVSSASTKGPSVFPLAPSSGGTAALGCLVKDYFPEPVTVSWNSGALTSGVHTFPAVLQSSGLYSLSSVVTVPSSSLGTQTYICNVNHKPSNTKVDKKVEPK  214
                                 |  10        20        30        40        50  |     59        69        79   |||  86        96    ||100F||     108       118       128|      142       152       162       172       182       192       202       212  
                                6A                                            52A                            82A||               100A|||||||                         128|                                                                                 
                                                                                                              82B|                100B||||||                          133                                                                                 
                                                                                                               82C                 100C|||||                                                                                                              
                                                                                                                                    100D||||                                                                                                              
                                                                                                                                     100E|||                                                                                                              
                                                                                                                                      100F||                                                                                                              
                                                                                                                                       100G|                                                                                                              
                                                                                                                                        100H                                                                                                              


Chain L from PDB  Type:PROTEIN  Length:212
                                                                                                                                                                                                                                                     
               SCOP domains -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SCOP domains
               CATH domains -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- CATH domains
               Pfam domains -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author .......eeee.....eeeeee..........eeeeee......eeee.............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
                4n0y L    2 LTLTQPASASATPGQRVTISCSGSSSNIGGNTVNWYQHLPGAAPKLLIHNNDLRPSGVPDRFSGSKSGTSASLAVSGLQSEDEADYFCAAWDDGLNGWVFGGGTKLTVLGQPKAAPSVTLFPPSSEELQANKATLVCLISDFYPGAVTVAWKADSSPVKAGVETTTPSKQSNNKYAASSYLSLTPEQWKSHKSYSCQVTHEGSTVEKTVAPT  209
                                   |12        22     || 30        40        50        60        70        80        90     || 98       107       117       127       137       147       157       167       177       187       197       207  
                                   9|              27A|                                                                  95A|        106A                                                                                                       
                                   11               27B                                                                   95B
   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 4N0Y)

(-) CATH Domains  (0, 0)

(no "CATH Domain" information available for 4N0Y)

(-) Pfam Domains  (0, 0)

(no "Pfam Domain" information available for 4N0Y)

(-) Gene Ontology  (143, 173)

Asymmetric/Biological Unit(hide GO term definitions)

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    Asp H:101 - Pro H:102   [ RasMol ]  
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    Tyr L:140 - Pro L:141   [ RasMol ]  
 

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 Related Entries

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

UniProtKB/Swiss-Prot
        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 4q0x 4xvj 4z0x 5eoc 5erw 5fgb 5fgc

(-) Related Entries Specified in the PDB File

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