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(-) Description

Title :  CRYSTAL STRUCTURE OF HUMAN N12-I2 FAB, AN ADCC AND NEUTRALIZING ANTI-HIV-1 ENV ANTIBODY
 
Authors :  Y. Guan, A. L. Devico, G. K. Lewis, M. Pazgier
Date :  20 Jan 11  (Deposition) - 25 Jan 12  (Release) - 25 Jan 12  (Revision)
Method :  X-RAY DIFFRACTION
Resolution :  1.95
Chains :  Asym./Biol. Unit :  H,L
Keywords :  Adcc And Neutralizing Anti-Hiv-1 Env Antibody N12-I2, Cd4I Antibody, Fab Fragment, Binds To Viral Glycoprotein Gp120, Immune System (Keyword Search: [Gene Ontology, PubMed, Web (Google)] )
 
Reference :  Y. Guan, A. L. Devico, G. K. Lewis, M. Pazgier
Crystal Structure Of Human N12-I2 Fab, An Adcc And Neutralizing Anti-Hiv-1 Env Antibody
To Be Published
PubMed: search

(-) Compounds

Molecule 1 - FAB FRAGMENT OF HUMAN ANTI-HIV ANTIBODY N12-I2, HEAVY CHAIN
    Chains: H
    Fragment: FAB HEAVY CHAIN
    Organism Common: HUMAN
    Organism Scientific: HOMO SAPIENS
    Organism Taxid: 9606
 
Molecule 2 - FAB FRAGMENT OF HUMAN ANTI-HIV ANTIBODY N12-I2, LIGHT CHAIN
    Chains: L
    Fragment: FAB LIGHT CHAIN
    Organism Common: 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  (0, 0)

(no "Ligand,Modified Residues,Ions" information available for 3QEG)

(-) Sites  (0, 0)

(no "Site" information available for 3QEG)

(-) SS Bonds  (4, 4)

Asymmetric/Biological Unit
No.Residues
1H:22 -H:92
2H:140 -H:196
3L:23 -L:88
4L:134 -L:194

(-) Cis Peptide Bonds  (7, 7)

Asymmetric/Biological Unit
No.Residues
1Ser H:100I-His H:100J
2Phe H:146 -Pro H:147
3Glu H:148 -Pro H:149
4Asn H:155 -Ser H:156
5Ser L:7 -Pro L:8
6Ser L:94 -Pro L:95
7Tyr L:140 -Pro L:141

 Sequence-Structure Mapping

(-) SAPs(SNPs)/Variants  (0, 0)

(no "SAP(SNP)/Variant" information available for 3QEG)

(-) PROSITE Motifs  (0, 0)

(no "PROSITE Motif" information available for 3QEG)

(-) Exons   (0, 0)

(no "Exon" information available for 3QEG)

(-) 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:216
                                                                                                                                                                                                                                                         
               SCOP domains ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ SCOP domains
               CATH domains ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ CATH domains
               Pfam domains ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ Pfam domains
         Sec.struct. author ..eee...eee.....eeeeeee.........eeeeee......eeeeeeehhhheeee.hhhh..eeeee.....eeeeee...hhhhheeeeeeehhhhh........ee...eeeee........eeeee...eeeeeeeeee.....eeee.......eee...ee.....eeeeeeeeehhhhh.....eeeeee....eeeeee...... Sec.struct. author
                 SAPs(SNPs) ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ SAPs(SNPs)
                    PROSITE ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ PROSITE
                 Transcript ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ Transcript
                3qeg H    2 VQLVQSGAEVKKPGSSVKVSCRASRGTFSSYGITWVRQAPGQGLEWMGGIIPIFDVTNYAQNFQGRVAITTDAEMSTAYMELRSLKSEDSAVYYCASDSRDFSHYYNIMDVWGQGTTVTVSSASTKGPSVFPLAPTAALGCLVKDYFPEPVTVSWNSALTSGVHTFPAVLQSSGLYSLSSVVTVPSSSLGTQTYICNVNHKPSNTKVDKRVEPKSC  216
                                    11        21        31        41        51 |      60        70        80  |||   87        97  |||||101       111       121    || 139       149      |160       170       180       190       200       210      
                                                                             52A                            82A||              100I||||||                       126|                  156|                                                          
                                                                                                             82B|               100J|||||                        135                   158                                                          
                                                                                                              82C                100K||||                                                                                                           
                                                                                                                                  100L|||                                                                                                           
                                                                                                                                   100M||                                                                                                           
                                                                                                                                    100N|                                                                                                           
                                                                                                                                     100O                                                                                                           


Chain L from PDB  Type:PROTEIN  Length:213
                                                                                                                                                                                                                                                      
               SCOP domains d3qegl1 L:1-107 automated matches                                                                           d3qegl2 L:108-212 automated matches                                                                       SCOP domains
               CATH domains --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- CATH domains
               Pfam domains --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author ...eeee..eeee.....eeeeeeeeeeehhh.eeeeee......eeeee...ee.......eeeeeeeeeeeeee...hhhhh.eeeeee......ee...eeeee.......eeeee....hhhhh.eeeeeeeeeee.....eeeeee..ee....eeeee.........eeeeeeeeeehhhhhhh.eeeeeee.......eeeeee.. Sec.struct. author
                 SAPs(SNPs) --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                3qeg L    1 EIVMMQSPGTLSLSPGERATLSCRASQSVSSSYLAWYQQKPGQAPRLLIYGASSRATGIPDRFSGSGSGTDFTLTISRLEPEDFAVYYCQQYGSSPETFGQGTKVEIKRTVAAPSVFIFPPSDEQLKSGTASVVCLLNNFYPREAKVQWKVDNALQSGNSQESVTEQDSKDSTYSLSSTLTLSKADYEKHKVYACEVTHQGLSSPVTKSFNRG  212
                                    10        20       |29        39        49        59        69        79        89        99       109       119       129       139       149       159       169       179       189       199       209   
                                                     27A
   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  (2, 2)

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

(-) CATH Domains  (0, 0)

(no "CATH Domain" information available for 3QEG)

(-) Pfam Domains  (0, 0)

(no "Pfam Domain" information available for 3QEG)

(-) Gene Ontology  (0, 0)

Asymmetric/Biological Unit(hide GO term definitions)
    (no "Gene Ontology" information available for 3QEG)

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Asymmetric/Biological Unit
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  Ligands, Modified Residues, Ions
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  Sites
(no "Sites" information available for 3qeg)
 
  Cis Peptide Bonds
    Asn H:155 - Ser H:156   [ RasMol ]  
    Glu H:148 - Pro H:149   [ RasMol ]  
    Phe H:146 - Pro H:147   [ RasMol ]  
    Ser H:100I - His H:100J  [ RasMol ]  
    Ser L:7 - Pro L:8   [ RasMol ]  
    Ser L:94 - Pro L:95   [ RasMol ]  
    Tyr L:140 - Pro L:141   [ RasMol ]  
 

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  3qeg
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 Related Entries

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(-) Related Entries Specified in the PDB File

3qeh