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(-) Description

Title :  FAB 2G12 + MAN4
 
Authors :  D. A. Calarese, H. -K. Lee, M. D. Best, R. D. Astronomo, R. L. Stanfield, D. R. Burton, C. H. Wong, I. A. Wilson
Date :  09 May 05  (Deposition) - 09 Aug 05  (Release) - 13 Jul 11  (Revision)
Method :  X-RAY DIFFRACTION
Resolution :  2.00
Chains :  Asym. Unit :  H,L
Biol. Unit 1:  H,L  (1x)
Biol. Unit 2:  H,L  (2x)
Keywords :  Hiv Neutralizing Antibody; Anti-Carbohydrate; Domain-Swapping, Immune System (Keyword Search: [Gene Ontology, PubMed, Web (Google)] )
 
Reference :  D. A. Calarese, H. -K. Lee, C. Y. Huang, M. D. Best, R. D. Astronomo, R. L. Stanfield, H. Katinger, D. R. Burton, C. H. Wong, I. A. Wilson
Dissection Of The Carbohydrate Specificity Of The Broadly Neutralizing Anti-Hiv-1 Antibody 2G12
Proc. Natl. Acad. Sci. Usa V. 102 13372 2005
PubMed-ID: 16174734  |  Reference-DOI: 10.1073/PNAS.0505763102

(-) Compounds

Molecule 1 - FAB 2G12, LIGHT CHAIN
    Chains: L
    Engineered: YES
    Expression System: CRICETULUS GRISEUS
    Expression System Cell: DHFR
    Expression System Common: CHINESE HAMSTER
    Expression System Organ: OVARY
    Expression System Taxid: 10029
    Fragment: FAB, LIGHT CHAIN
    Organism Common: HUMAN
    Organism Scientific: HOMO SAPIENS
    Organism Taxid: 9606
 
Molecule 2 - FAB 2G12, HEAVY CHAIN
    Chains: H
    Engineered: YES
    Expression System: CRICETULUS GRISEUS
    Expression System Cell: DHFR
    Expression System Common: CHINESE HAMSTER
    Expression System Organ: OVARY
    Expression System Taxid: 10029
    Fragment: FAB, HEAVY CHAIN
    Organism Common: HUMAN
    Organism Scientific: HOMO SAPIENS
    Organism Taxid: 9606

 Structural Features

(-) Chains, Units

  12
Asymmetric Unit : HL
Biological Unit 1 (1x): HL
Biological Unit 2 (2x): HL

Summary Information (see also Sequences/Alignments below)

(-) Ligands, Modified Residues, Ions  (1, 4)

Asymmetric Unit (1, 4)
No.NameCountTypeFull Name
1MAN4Ligand/IonALPHA-D-MANNOSE
Biological Unit 1 (1, 4)
No.NameCountTypeFull Name
1MAN4Ligand/IonALPHA-D-MANNOSE
Biological Unit 2 (1, 8)
No.NameCountTypeFull Name
1MAN8Ligand/IonALPHA-D-MANNOSE

(-) Sites  (4, 4)

Asymmetric Unit (4, 4)
No.NameEvidenceResiduesDescription
1AC1SOFTWAREALA H:31 , HIS H:32 , THR H:33 , LYS H:95 , GLY H:96 , LEU H:100 , SER H:100A , ASP H:100B , ASN H:100C , ASP H:100D , MAN H:230 , HOH H:275 , GLY L:93 , TYR L:94BINDING SITE FOR RESIDUE MAN H 229
2AC2SOFTWAREALA H:31 , SER H:100A , ASP H:100B , MAN H:229 , MAN H:231 , MAN H:232BINDING SITE FOR RESIDUE MAN H 230
3AC3SOFTWAREMAN H:230 , MAN H:232 , HOH H:240 , HOH H:275 , TYR L:94BINDING SITE FOR RESIDUE MAN H 231
4AC4SOFTWAREMAN H:230 , MAN H:231BINDING SITE FOR RESIDUE MAN H 232

(-) SS Bonds  (4, 4)

Asymmetric Unit
No.Residues
1H:22 -H:92
2H:142 -H:208
3L:23 -L:88
4L:134 -L:194

(-) Cis Peptide Bonds  (4, 4)

Asymmetric Unit
No.Residues
1Ser L:7 -Pro L:8
2Tyr L:140 -Pro L:141
3Phe H:148 -Pro H:149
4Glu H:150 -Pro H:151

 Sequence-Structure Mapping

(-) SAPs(SNPs)/Variants  (0, 0)

(no "SAP(SNP)/Variant" information available for 1ZLS)

(-) PROSITE Motifs  (0, 0)

(no "PROSITE Motif" information available for 1ZLS)

(-) Exons   (0, 0)

(no "Exon" information available for 1ZLS)

(-) 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 H from PDB  Type:PROTEIN  Length:213
                                                                                                                                                                                                                                                      
               SCOP domains d1zlsh1 H:1-112 Immunoglobulin heavy chain variable domain, VH                                                            -d1zlsh2 H:114-227 Immunoglobulin heavy chain gamma constant domain 1, CH1-gamma            SCOP domains
               CATH domains 1zlsH01 H:1-113 Immunoglobulins                                                                                            1zlsH02 H:114-227 Immunoglobulins                                                          CATH domains
               Pfam domains --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author ..eeeee..eeee....eeeeeeee..hhhhh.eeeeee.....eeeeeee.hhhh.eee.......eeeeee....eeeeee...hhhhheeeeeeee..........eeee...eeeeee.......eeee.....eeeeeeeeeee....eeeee.hhh.....ee...ee.....eeeeeeeeee....eeeeeee.hhheeeeeee.. Sec.struct. author
                 SAPs(SNPs) --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                1zls H    1 EVQLVESGGGLVKAGGSLILSCGVSNFRISAHTMNWVRRVPGGGLEWVASISTSSTYRDYADAVKGRFTVSRDDLEDFVYLQMHKMRVEDTAIYYCARKGSDRLSDNDPFDAWGPGTVVTVSPASTKGPSVFPLAPGGTAALGCLVKDYFPEPVTVSWNSGALTSGVHTFPAVLQSSGLYSLSSVVTVPSSQTYICNVNHKPSNTKVDKKVEP  227
                                    10        20        30        40        50  |     59        69        79   |||  86        96    ||100F       110       120     ||138       148     ||163     ||174     ||185       195|||    212       222|  
                                                                              52A                            82A||               100A|||||                       126|                154|||    169|      180|           196||              222|  
                                                                                                              82B|                100B||||                        135                 156||     171       182            203|               225  
                                                                                                               82C                 100C|||                                             157|                               205                    
                                                                                                                                    100D||                                              162                                                      
                                                                                                                                     100E|                                                                                                       
                                                                                                                                      100F                                                                                                       


Chain L from PDB  Type:PROTEIN  Length:209
                                                                                                                                                                                                                                                  
               SCOP domains d1zlsl1 L:2-107 automated matches                                                                         d1zlsl2 L:108-210 automated matches                                                                     SCOP domains
               CATH domains 1zlsL01 L:2-107 Immunoglobulins                                                                           1zlsL02 L:108-210 Immunoglobulins                                                                       CATH domains
               Pfam domains ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author ..eeee..eeee....eeeeeeee.......eeeeee......eeeee...ee.......eeeeee..eeeeeee..hhhhh.eeeeeee....eee...eeeee.......eeeee..hhhhhhh.eeeeeeeeeee.....eeeeee..ee....eeeee.........eeeeeeeeeehhhhhhh..eeeeee.......eeeee. Sec.struct. author
                 SAPs(SNPs) ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                1zls L    2 VVMTQSPSTLSASVGDTITITCRASQSIETWLAWYQQKPGKAPKLLIYKASTLKTGVPSRFSGSGSGTEFTLTISGLQFDDFATYHCQHYAGYSATFGQGTRVEIKRTVAAPSVFIFPPSDEQLKSGTASVVCLLNNFYPREAKVQWKVDNALQSGNSQESVTEQDSKDSTYSLSSTLTLSKADYEKHKVYACEVTHQGLSSPVTKSFN  210
                                    11        21        31        41        51        61        71        81        91       101       111       121       131       141       151       161       171       181       191       201
   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  (4, 4)

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

(-) CATH Domains  (1, 4)

Asymmetric Unit
(-)
Class: Mainly Beta (13760)

(-) Pfam Domains  (0, 0)

(no "Pfam Domain" information available for 1ZLS)

(-) Gene Ontology  (0, 0)

Asymmetric Unit(hide GO term definitions)
    (no "Gene Ontology" information available for 1ZLS)

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  1zls
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 Related Entries

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

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(-) Related Entries Specified in the PDB File

1om3 1op3 1op5 1zlu 1zlv 1zlw