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(-) Description

Title :  MODIFIED SINGLE HELIX FROM THE B-DOMAIN OF PROTEIN A BOUND TO IGG1 FC
 
Authors :  M. H. Ultsch, C. Eigenbrot
Date :  07 Dec 16  (Deposition) - 24 May 17  (Release) - 24 May 17  (Revision)
Method :  X-RAY DIFFRACTION
Resolution :  1.70
Chains :  Asym./Biol. Unit :  A,B
Keywords :  Igg1 Fc, Staple Peptide, Protein A, B-Domain, Immune System-Inhibitor Complex (Keyword Search: [Gene Ontology, PubMed, Web (Google)] )
 
Reference :  M. Ultsch, A. Braisted, H. R. Maun, C. Eigenbrot
3-2-1: Structural Insights From Stepwise Shrinkage Of A Three-Helix Fc-Binding Domain To A Single Helix.
Protein Eng. Des. Sel. 1 2017
PubMed-ID: 28475752  |  Reference-DOI: 10.1093/PROTEIN/GZX029

(-) Compounds

Molecule 1 - STAPLED PEPTIDE FROM DOMAIN B OF PROTEIN A
    Chains: B
    Engineered: YES
    Organism Scientific: STAPHYLOCOCCUS AUREUS
    Organism Taxid: 1280
    Synthetic: YES
 
Molecule 2 - IGG1 FC DERIVED FROM CD4-FC FUSION
    Chains: A
    Engineered: YES
    Expression System: CRICETULUS GRISEUS
    Expression System Taxid: 10029
    Gene: DKFZP686C11235
    Organism Common: HUMAN
    Organism Scientific: HOMO SAPIENS
    Organism Taxid: 9606

 Structural Features

(-) Chains, Units

  12
Asymmetric/Biological Unit : AB

Summary Information (see also Sequences/Alignments below)

(-) Ligands, Modified Residues, Ions  (7, 10)

Asymmetric/Biological Unit (7, 10)
No.NameCountTypeFull Name
185G1Mod. Amino AcidN-ETHYL-L-GLUTAMINE
285J1Mod. Amino AcidN-PROPYL-L-GLUTAMINE
3BMA1Ligand/IonBETA-D-MANNOSE
4GAL1Ligand/IonBETA-D-GALACTOSE
5MAN2Ligand/IonALPHA-D-MANNOSE
6NAG3Ligand/IonN-ACETYL-D-GLUCOSAMINE
7SIN1Mod. Amino AcidSUCCINIC ACID

(-) Sites  (2, 2)

Asymmetric Unit (2, 2)
No.NameEvidenceResiduesDescription
1AC1SOFTWAREPHE A:243 , PRO A:244 , LYS A:246 , GLU A:258 , THR A:260 , VAL A:262 , VAL A:264 , ASP A:265 , GLN A:295 , ASN A:297 , THR A:299 , ARG A:301 , GLN A:386 , HOH A:605 , HOH A:607 , HOH A:627 , HOH A:701 , HOH A:723binding site for Poly-Saccharide residues NAG A 501 through GAL A 507 bound to ASN A 297
2AC2SOFTWAREHOH A:604 , HOH A:639 , ASN B:5002 , MET B:5003 , GLN B:5005 , GLN B:5006 , ARG B:5007 , ARG B:5008 , PHE B:5009 , TYR B:5010 , ALA B:5012 , LEU B:5013 , HOH B:5102 , HOH B:5106 , HOH B:5113binding site for residues 85J B 5004 and 85G B 5011

(-) SS Bonds  (2, 2)

Asymmetric/Biological Unit
No.Residues
1A:261 -A:321
2A:367 -A:425

(-) Cis Peptide Bonds  (1, 1)

Asymmetric/Biological Unit
No.Residues
1Tyr A:373 -Pro A:374

 Sequence-Structure Mapping

(-) SAPs(SNPs)/Variants  (0, 0)

(no "SAP(SNP)/Variant" information available for 5U66)

(-) PROSITE Motifs  (0, 0)

(no "PROSITE Motif" information available for 5U66)

(-) Exons   (0, 0)

(no "Exon" information available for 5U66)

(-) 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:207
                                                                                                                                                                                                                                                
               SCOP domains --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SCOP domains
               CATH domains --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- CATH domains
               Pfam domains --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author ..eeeee..hhhhhhh.....eeeeeeeeee......eeeeee..eee...ee...ee....eeeeeeeee.hhhhhhh...eeeeee.......eeeee..........eeeee..hhhhhhh.eeeeeeeeeee.....eeeeee..eee..eee...ee.....eeeeeeeeeehhhhhh...eeeeee...hhh.eeeeee.. Sec.struct. author
                 SAPs(SNPs) --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                5u66 A  237 GPSVFLFPPKPKDTLMISRTPEVTCVVVDVSHEDPEVKFNWYVDGVEVHNAKTKPREEQYNSTYRVVSVLTVLHQDWLNGKEYKCKVSNKALPAPIEKTISKAKGQPREPQVYTLPPSREEMTKNQVSLTCLVKGFYPSDIAVEWESNGQPENNYKTTPPVLDSDGSFFLYSKLTVDKSRWQQGNVFSCSVMHEALHNHYTQKSLSL  443
                                   246       256       266       276       286       296       306       316       326       336       346       356       366       376       386       396       406       416       426       436       


Chain B from PDB  Type:PROTEIN  Length:15
                                                
               SCOP domains --------------- SCOP domains
               CATH domains --------------- CATH domains
               Pfam domains --------------- Pfam domains
         Sec.struct. author ..hhhhhhhhhhh.. Sec.struct. author
                 SAPs(SNPs) --------------- SAPs(SNPs)
                    PROSITE --------------- PROSITE
                 Transcript --------------- Transcript
                5u66 B 5000 xFNMxQQRRFYxALH 5014
                            |   | 5009 |   
                         5000-SIN      |   
                             5004-85J  |   
                                    5011-85G
   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  (0, 0)

(no "SCOP Domain" information available for 5U66)

(-) CATH Domains  (0, 0)

(no "CATH Domain" information available for 5U66)

(-) Pfam Domains  (0, 0)

(no "Pfam Domain" information available for 5U66)

(-) Gene Ontology  (0, 0)

Asymmetric/Biological Unit(hide GO term definitions)
    (no "Gene Ontology" information available for 5U66)

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UniProtKB/Swiss-Prot
        Q6MZV7_HUMAN | Q6MZV7: 5nsc 5nsg 5u4y 5u52

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