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(-) Description

Title :  CRYSTAL STRUCTURE OF GP41 HELIX COMPLEXED WITH ANTIBODY 8062
 
Authors :  M. Li, Gustchina, A, A. Wlodawer
Date :  01 May 13  (Deposition) - 12 Mar 14  (Release) - 12 Mar 14  (Revision)
Method :  X-RAY DIFFRACTION
Resolution :  2.92
Chains :  Asym. Unit :  A,H,L
Biol. Unit 1:  A,H,L  (1x)
Biol. Unit 2:  A,H,L  (3x)
Keywords :  Immune System, Gp41 (Keyword Search: [Gene Ontology, PubMed, Web (Google)] )
 
Reference :  E. Gustchina, M. Li, R. Ghirlando, P. Schuck, J. M. Louis, J. Pierson, P. Rao, S. Subramaniam, A. Gustchina, G. M. Clore, A. Wlodawer
Complexes Of Neutralizing And Non-Neutralizing Affinity Matured Fabs With A Mimetic Of The Internal Trimeric Coiled-Coil Of Hiv-1 Gp41.
Plos One V. 8 78187 2013
PubMed-ID: 24244293  |  Reference-DOI: 10.1371/JOURNAL.PONE.0078187

(-) Compounds

Molecule 1 - GP41 HELIX
    Chains: A
    Engineered: YES
    Expression System: ESCHERICHIA COLI
    Expression System Taxid: 562
    Organism Scientific: HUMAN IMMUNODEFICIENCY VIRUS 1
    Organism Taxid: 11676
 
Molecule 2 - 8062 HEAVY CHAIN
    Chains: H
    Organism Scientific: HOMO SAPIENS
    Organism Taxid: 9606
 
Molecule 3 - 8062 LIGHT CHAIN
    Chains: L
    Organism Scientific: HOMO SAPIENS
    Organism Taxid: 9606

 Structural Features

(-) Chains, Units

  123
Asymmetric Unit : AHL
Biological Unit 1 (1x): AHL
Biological Unit 2 (3x): AHL

Summary Information (see also Sequences/Alignments below)

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

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

(-) Sites  (0, 0)

(no "Site" information available for 4KHX)

(-) SS Bonds  (5, 5)

Asymmetric Unit
No.Residues
1A:2 -A:3
2H:22 -H:95
3H:147 -H:203
4L:22 -L:87
5L:136 -L:195

(-) Cis Peptide Bonds  (4, 4)

Asymmetric Unit
No.Residues
1Phe H:153 -Pro H:154
2Glu H:155 -Pro H:156
3Lys L:131 -Ala L:132
4Tyr L:142 -Pro L:143

 Sequence-Structure Mapping

(-) SAPs(SNPs)/Variants  (0, 0)

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

(-) PROSITE Motifs  (0, 0)

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

(-) Exons   (0, 0)

(no "Exon" information available for 4KHX)

(-) 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:66
                                                                                                  
               SCOP domains ------------------------------------------------------------------ SCOP domains
               CATH domains ------------------------------------------------------------------ CATH domains
               Pfam domains ------------------------------------------------------------------ Pfam domains
         Sec.struct. author ..hhhhhhhhhhhhh.hhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhh Sec.struct. author
                 SAPs(SNPs) ------------------------------------------------------------------ SAPs(SNPs)
                    PROSITE ------------------------------------------------------------------ PROSITE
                 Transcript ------------------------------------------------------------------ Transcript
                 4khx A   2 CCGGIKKEIEAIKKEQEAIKKKIEAIEKELSGIVQQQNNLLRAIEAQQHLLQLTVWGIKQLQARIL  67
                                    11        21        31        41        51        61      


Chain H from PDB  Type:PROTEIN  Length:208
                                                                                                                                                                                                                                                
               SCOP domains ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SCOP domains
               CATH domains ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- CATH domains
               Pfam domains ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author ..ee...eee.....eeeeee....hhhhheeeeeee.....eeeeeee......eee.......eeeeee....eeeeee...hhhhheeeeeeee..........ee....eeee........eeee......eeeeeee.....ee.hhhhh.....ee...ee.....eeeeee................eee....eee.... Sec.struct. author
                 SAPs(SNPs) ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 4khx H   3 QLVQSGAEVKKPGSSVKVSCKASGGTFNSYAFSWVRQAPGQGLEWMGSIIPLFGFVVYAQKFQGRVTITADESTSTAYMELSSLRSEDTAVYYCARYFDTYNNYGFANWGQGTLVTVSSASTKGPSVFPLGTAALGCLVKDYFPEPVTVSWNSGALTSGVHTFPAVLQSSGLYSLSSVVTVPSSSLGTQTYICNVNHKPSNTKVDKKV 218
                                    12        22        32        42        52|       61        71        81        91       101       111       121       131|      150       160       170       180       190       200       210        
                                                                            52A                                                                            131|                                                                             
                                                                                                                                                            141                                                                             


Chain L from PDB  Type:PROTEIN  Length:205
                                                                                                                                                                                                                                             
               SCOP domains d4khxl1 L:2-109 automated matches                                                                           d4khxl2 L:110-208 automated matches                                                               SCOP domains
               CATH domains ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- CATH domains
               Pfam domains ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author .......eeee.....eeeeee.........eeeee......eeeee............eeeee...eeeeee...hhhhh.eeeeeee......eee...eeeee........eee......hhhhhh..ee..eeeee.....eeeee..........ee...ee.....eeeeeeee..........eeeee.......... Sec.struct. author
                 SAPs(SNPs) ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 4khx L   2 IELTQPPSVSVVPGQTARISCSGDNIPYEYASWYQQKPGQAPVLVIYGDNNRPSGIPERFSGSNSGNTATLTISGTQAEDEADYYCASWDSMTVDGVFGGGTKLTVLGQPKAAPSVTLFPPSSEELQANKATLVCLISDFYPGAVTVAWKADSSPVKAGVETTTPSKQSNNKYAASSYLSLTPEQWKSHYSCQVTHEGSTVEKTV 208
                                    11        21        31        41        51        61        71        81        91       101       111       121       131       141       151       161       171       181       193       203     
                                                                                                                                                                                                                      190|               
                                                                                                                                                                                                                       193
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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  (1, 2)

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

(-) CATH Domains  (0, 0)

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

(-) Pfam Domains  (0, 0)

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

(-) Gene Ontology  (2, 2)

Asymmetric Unit(hide GO term definitions)

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  Cis Peptide Bonds
    Glu H:155 - Pro H:156   [ RasMol ]  
    Lys L:131 - Ala L:132   [ RasMol ]  
    Phe H:153 - Pro H:154   [ RasMol ]  
    Tyr L:142 - Pro L:143   [ RasMol ]  
 
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  4khx
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 Related Entries

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

UniProtKB/Swiss-Prot
        A1YNW7_9HIV1 | A1YNW7: 5hfl
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        A1YNW7_9HIV1 | A1YNW7: 4kht

(-) Related Entries Specified in the PDB File

3mac SAME ANTIBODY BUT DIFFERENT HELIX BUNDLE
4kht