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(-) Description

Title :  CRYSTAL STRUCTURE OF MOR04302, A NEUTRALIZING ANTI-HUMAN GM-CSF ANTIBODY FAB FRAGMENT IN COMPLEX WITH HUMAN GM-CSF
 
Authors :  R. Eylenstein, D. Weinfurtner, S. Steidl, J. Boettcher, M. Augustin
Date :  13 Aug 15  (Deposition) - 14 Oct 15  (Release) - 13 Jan 16  (Revision)
Method :  X-RAY DIFFRACTION
Resolution :  2.25
Chains :  Asym./Biol. Unit :  A,H,L
Keywords :  Gm-Csf, Affinity Maturation, Phage Display, Cytokine, Antibody, Proteros Biostructures Gmbh, Immune System (Keyword Search: [Gene Ontology, PubMed, Web (Google)] )
 
Reference :  R. Eylenstein, D. Weinfurtner, S. Hartle, R. Strohner, J. Bottcher, M. Augustin, R. Ostendorp, S. Steidl
Molecular Basis Of In Vitro Affinity Maturation And Functional Evolution Of A Neutralizing Anti-Human Gm-Csf Antibody.
Mabs V. 8 176 2016
PubMed-ID: 26406987  |  Reference-DOI: 10.1080/19420862.2015.1099774

(-) Compounds

Molecule 1 - GRANULOCYTE-MACROPHAGE COLONY-STIMULATING FACTOR
    Chains: A
    Engineered: YES
    Expression System: ESCHERICHIA COLI
    Expression System Taxid: 562
    Gene: CSF2, GMCSF
    Organism Common: HUMAN
    Organism Scientific: HOMO SAPIENS
    Organism Taxid: 9606
    Synonym: GM-CSF,COLONY-STIMULATING FACTOR,CSF,MOLGRAMOSTIN, SARGRAMOSTIM
 
Molecule 2 - IMMUNGLOBULIN G1 FAB FRAGMENT, HEAVY CHAIN
    Chains: H
    Engineered: YES
    Expression System: ESCHERICHIA COLI
    Expression System Taxid: 562
    Organism Common: HUMAN
    Organism Scientific: HOMO SAPIENS
    Organism Taxid: 9606
 
Molecule 3 - IMMUNGLOBULIN G1 FAB FRAGMENT, LIGHT CHAIN
    Chains: L
    Engineered: YES
    Expression System: ESCHERICHIA COLI
    Expression System Taxid: 562
    Organism Common: HUMAN
    Organism Scientific: HOMO SAPIENS
    Organism Taxid: 9606

 Structural Features

(-) Chains, Units

  123
Asymmetric/Biological Unit : AHL

Summary Information (see also Sequences/Alignments below)

(-) Ligands, Modified Residues, Ions  (2, 3)

Asymmetric/Biological Unit (2, 3)
No.NameCountTypeFull Name
1PEG1Ligand/IonDI(HYDROXYETHYL)ETHER
2SO42Ligand/IonSULFATE ION

(-) Sites  (3, 3)

Asymmetric Unit (3, 3)
No.NameEvidenceResiduesDescription
1AC1SOFTWAREPRO H:126 , SER H:127 , SER H:128 , THR H:135 , ALA H:137binding site for residue PEG H 301
2AC2SOFTWAREASP L:1 , ILE L:2 , LYS L:31 , GLY L:92 , ASP L:93binding site for residue SO4 L 301
3AC3SOFTWAREGLU L:83 , VAL L:106 , GLY L:107 , GLN L:108 , TYR L:140 , LYS L:166 , HOH L:428binding site for residue SO4 L 302

(-) SS Bonds  (6, 6)

Asymmetric/Biological Unit
No.Residues
1A:54 -A:96
2A:88 -A:121
3H:22 -H:92
4H:140 -H:196
5L:23 -L:88
6L:134 -L:193

(-) Cis Peptide Bonds  (3, 3)

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

 Sequence-Structure Mapping

(-) SAPs(SNPs)/Variants  (0, 0)

(no "SAP(SNP)/Variant" information available for 5D71)

(-) PROSITE Motifs  (0, 0)

(no "PROSITE Motif" information available for 5D71)

(-) Exons   (0, 0)

(no "Exon" information available for 5D71)

(-) 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:114
                                                                                                                                                   
               SCOP domains ------------------------------------------------------------------------------------------------------------------ SCOP domains
               CATH domains ------------------------------------------------------------------------------------------------------------------ CATH domains
               Pfam domains ------------------------------------------------------------------------------------------------------------------ Pfam domains
         Sec.struct. author .....hhhhhhhhhhhhhhhh.........eeeee..........hhhhhhhhhhhh....hhhhhhhhhhhhhhhhhhh.........eeeeehhhhhhhhhhhhhhh..... Sec.struct. author
                 SAPs(SNPs) ------------------------------------------------------------------------------------------------------------------ SAPs(SNPs)
                    PROSITE ------------------------------------------------------------------------------------------------------------------ PROSITE
                 Transcript ------------------------------------------------------------------------------------------------------------------ Transcript
                5d71 A    9 STQPWEHVNAIQEARRLLNLSRDTAAEMNETVEVISEMFDLQEPTCLQTRLELYKQGLRGSLTKLKGPLTMMASHYKQHCPPTPETSCATQIITFESFKENLKDFLLVIPFDCW  122
                                    18        28        38        48        58        68        78        88        98       108       118    


Chain H from PDB  Type:PROTEIN  Length:211
                                                                                                                                                                                                                                                    
               SCOP domains ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SCOP domains
               CATH domains ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- CATH domains
               Pfam domains ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author ..eeeee...ee.....eeeeeeee..hhhhh.eeeeee.....eeeeeee......eee.......eeeeee....eeeeee...hhhhheeeeeee..........eeeee........eeeee......eeeeeeeeeee.....eeee.hhh....eee...ee.....eeeeeeeeee.........eeeeeehhhheeeeee... Sec.struct. author
                 SAPs(SNPs) ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                5d71 H    1 QVQLVESGGGLVQPGGSLRLSCAASGFTFSSYWMNWVRQAPGKGLEWVSGISYSGSETYYADSVKGRFTISRDNSKNTLYLQMNSLRAEDTAVYYCARGFGTDFWGQGTLVTVSSASTKGPSVFPLAPSSGGTAALGCLVKDYFPEPVTVSWNSGALTSGVHTFPAVLQSSGLYSLSSVVTVPSSSLGTQTYICNVNHKPSNTKVDKKVEP  213
                                    10        20        30        40        50  |     59        69        79   |||  86        96 ||    108       118       128|      142       152       162       172       182       192       202       212 
                                                                              52A                            82A||              98|                        128|                                                                                
                                                                                                              82B|              101                         133                                                                                
                                                                                                               82C                                                                                                                             


Chain L from PDB  Type:PROTEIN  Length:198
                                                                                                                                                                                                                                       
               SCOP domains ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ SCOP domains
               CATH domains ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ CATH domains
               Pfam domains ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ Pfam domains
         Sec.struct. author ........eeee.....eeeeee..hhhhh..eeeee......ee....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
                5d71 L    1 DIELTQPPSVSVAPGQTARISCSGDSIGKKYAYWYQQKPGQAPVLVIERFSGSNSGNTATLTISGTQAEDEADYYCSAWGDKGMVFGGGTKLTVLGQPKAAPSVTLFPPSSEELQANKATLVCLISDFYPGAVTVAWKADSSPVKAGVETTTPSKQSNNKYAASSYLSLTPEQWKSHRSYSCQVTHEGSTVEKTVAPT  209
                                    11        21        31        41      ||62        72        82        92       102    |  111       121       131       141       151       161       171       181       191       201        
                                    9|                                   48|                                           106A                                                                                                       
                                    11                                    60
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  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 5D71)

(-) CATH Domains  (0, 0)

(no "CATH Domain" information available for 5D71)

(-) Pfam Domains  (0, 0)

(no "Pfam Domain" information available for 5D71)

(-) Gene Ontology  (29, 29)

Asymmetric/Biological Unit(hide GO term definitions)

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  Cis Peptide Bonds
    Glu H:148 - Pro H:149   [ RasMol ]  
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  5d71
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 Related Entries

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

UniProtKB/Swiss-Prot
        CSF2_HUMAN | P04141: 1csg 2gmf 4nkq 4rs1 5c7x 5d70 5d72

(-) Related Entries Specified in the PDB File

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