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(-) Description

Title :  DARPIN-BASED CRYSTALLIZATION CHAPERONES EXPLOIT MOLECULAR GEOMETRY AS A SCREENING DIMENSION IN PROTEIN CRYSTALLOGRAPHY
 
Authors :  A. Batyuk, Y. Wu, A. Honegger, M. Heberling, A. Plueckthun
Date :  21 Sep 15  (Deposition) - 23 Mar 16  (Release) - 18 May 16  (Revision)
Method :  X-RAY DIFFRACTION
Resolution :  2.60
Chains :  Asym. Unit :  A,B
Biol. Unit 1:  A  (1x)
Biol. Unit 2:  B  (1x)
Keywords :  Chaperone, Crystallization Chaperone, Designed Ankyrin Repeat Protein (Darpin), Rigid Domain Fusion (Keyword Search: [Gene Ontology, PubMed, Web (Google)] )
 
Reference :  A. Batyuk, Y. Wu, A. Honegger, M. Heberling, A. Plueckthun
Darpin-Based Crystallization Chaperones Exploit Molecular Geometry As A Screening Dimension In Protein Crystallography
J. Mol. Biol. V. 428 1574 2016
PubMed-ID: 26975886  |  Reference-DOI: 10.1016/J.JMB.2016.03.002

(-) Compounds

Molecule 1 - OFF7_DB04V3
    Chains: A, B
    Engineered: YES
    Expression System: ESCHERICHIA COLI
    Expression System Plasmid: PQE30
    Expression System Strain: K-12
    Expression System Taxid: 83333
    Expression System Variant: XL1-BLUE
    Expression System Vector Type: PLASMID
    Organism Scientific: SYNTHETIC CONSTRUCT
    Organism Taxid: 32630

 Structural Features

(-) Chains, Units

  12
Asymmetric Unit : AB
Biological Unit 1 (1x): A 
Biological Unit 2 (1x):  B

Summary Information (see also Sequences/Alignments below)

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

Asymmetric Unit (1, 4)
No.NameCountTypeFull Name
1SCN4Ligand/IonTHIOCYANATE ION
Biological Unit 1 (1, 4)
No.NameCountTypeFull Name
1SCN4Ligand/IonTHIOCYANATE ION
Biological Unit 2 (0, 0)
No.NameCountTypeFull Name
1SCN-1Ligand/IonTHIOCYANATE ION

(-) Sites  (4, 4)

Asymmetric Unit (4, 4)
No.NameEvidenceResiduesDescription
1AC1SOFTWAREARG A:169 , GLU A:405 , ALA A:406 , MET A:409BINDING SITE FOR RESIDUE SCN A1419
2AC2SOFTWAREGLU A:160 , ASN B:305BINDING SITE FOR RESIDUE SCN A1420
3AC3SOFTWAREALA A:42 , ALA A:43 , TYR B:89 , TRP B:90BINDING SITE FOR RESIDUE SCN A1421
4AC4SOFTWAREGLU A:342 , ILE A:361BINDING SITE FOR RESIDUE SCN A1422

(-) SS Bonds  (0, 0)

(no "SS Bond" information available for 5AQA)

(-) Cis Peptide Bonds  (2, 2)

Asymmetric Unit
No.Residues
1Glu A:296 -Pro A:297
2Glu B:296 -Pro B:297

 Sequence-Structure Mapping

(-) SAPs(SNPs)/Variants  (0, 0)

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

(-) PROSITE Motifs  (0, 0)

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

(-) Exons   (0, 0)

(no "Exon" information available for 5AQA)

(-) 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:412
                                                                                                                                                                                                                                                                                                                                                                                                                                                            
               SCOP domains ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SCOP domains
               CATH domains ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- CATH domains
               Pfam domains ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author .....hhhhhhhhhhhhh.hhhhhhhhhhh............hhhhhhhhhhhhhhhhhhhhh............hhhhhhhhhhhhhhhhhhhhh............hhhhhhhhh.hhhhhhhhhhh............hhhhhhhhh.hhhhhhhhhhhhhh.eeeeeeee.....eeeee.....ee.hhhhhhhhhhhhhhhhhh.......ee............hhhhh....eehhhhhhhhhhh.hhhhhhhhhhh.hhhhhhhhhhhhh...........hhhhhh.......eehhhhhhhhhhhhhhh...hhhhhhhhhhhhhh......hhhhhh....eeeeeeeee...eeeeeeeee......eeeeeeee....hhhhhhhhhhhhhhhhhh.. Sec.struct. author
                 SAPs(SNPs) ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 5aqa A   7 HHHHGSDLGRKLLEAARAGQDDEVRILMANGADVNAADNTGTTPLHLAAYSGHLEIVEVLLKHGADVDASDVFGYTPLHLAAYWGHLEIVEVLLKNGADVNAMDSDGMTPLHLAAKWGYKEIVEVLLKAGADVDAQDKFGKRPLWLAADQGHAEIAAKLVAARLKARVGYIELDLNSGKILESVRSEERFPMMSTFKVLLAGAILSRIDAGQEQLGRRIHYSQNDLVEYSPVTEKHLTDGMTVRELASAAITMSDNTAANLLLTTIGGPKGLTAFLHNMGDHVTRLDRWEPELNEAIPNDERDTTTPVAMATTLRKLLTGELLTPASRQQLMDWMEADKVAGPLLRSVLPAGWFIADKSGAGERGSRGIVAALGPDGKPSRIVVIYTTGSQATMDILNEAIAMLGRAMIEKW 418
                                    16        26        36        46        56        66        76        86        96       106       116       126       136       146       156       166       176       186       196       206       216       226       236       246       256       266       276       286       296       306       316       326       336       346       356       366       376       386       396       406       416  


Chain B from PDB  Type:PROTEIN  Length:407
                                                                                                                                                                                                                                                                                                                                                                                                                                                       
               SCOP domains ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SCOP domains
               CATH domains ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- CATH domains
               Pfam domains ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author ....hhhhhhhhh.hhhhhhhhhh.............hhhhhhhhhhhhhhhhhhhhh............hhhhhhhhhhhhhhhhhhhhh............hhhhhhhhh.hhhhhhhhhhh............hhhhhhhhh.hhhhhhhhhhhhhh.eeeeeeee.....eeeee.....ee.hhhhhhhhhhhhhhhhhh.......ee.....................eehhhhhhhhhhh.hhhhhhhhhhh.hhhhhhhhhhhhh...........hhhhhh.......eehhhhhhhhhhhhhhh...hhhhhhhhhhhhhh......hhhhhh....eeeeeeeee...eeeeeeeee......eeeeeeee....hhhhhhhhhhhhhhhhhh.. Sec.struct. author
                 SAPs(SNPs) ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 5aqa B  12 SDLGRKLLEAARAGQDDEVRILMANGADVNAADNTGTTPLHLAAYSGHLEIVEVLLKHGADVDASDVFGYTPLHLAAYWGHLEIVEVLLKNGADVNAMDSDGMTPLHLAAKWGYKEIVEVLLKAGADVDAQDKFGKRPLWLAADQGHAEIAAKLVAARLKARVGYIELDLNSGKILESVRSEERFPMMSTFKVLLAGAILSRIDAGQEQLGRRIHYSQNDLVEYSPVTEKHLTDGMTVRELASAAITMSDNTAANLLLTTIGGPKGLTAFLHNMGDHVTRLDRWEPELNEAIPNDERDTTTPVAMATTLRKLLTGELLTPASRQQLMDWMEADKVAGPLLRSVLPAGWFIADKSGAGERGSRGIVAALGPDGKPSRIVVIYTTGSQATMDILNEAIAMLGRAMIEKW 418
                                    21        31        41        51        61        71        81        91       101       111       121       131       141       151       161       171       181       191       201       211       221       231       241       251       261       271       281       291       301       311       321       331       341       351       361       371       381       391       401       411
   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 5AQA)

(-) CATH Domains  (0, 0)

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

(-) Pfam Domains  (0, 0)

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

(-) Gene Ontology  (0, 0)

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

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  5aqa
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 Related Entries

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

(no "Entries Sharing at Least One Protein Chain" available for 5AQA)

(-) Related Entries Specified in the PDB File

5aq7 DARPIN-BASED CRYSTALLIZATION CHAPERONES EXPLOIT MOLECULAR GEOMETRY AS A SCREENING DIMENSION IN PROTEIN CRYSTALLOGRAPHY
5aq8 DARPIN-BASED CRYSTALLIZATION CHAPERONES EXPLOIT MOLECULAR GEOMETRY AS A SCREENING DIMENSION IN PROTEIN CRYSTALLOGRAPHY
5aq9 DARPIN-BASED CRYSTALLIZATION CHAPERONES EXPLOIT MOLECULAR GEOMETRY AS A SCREENING DIMENSION IN PROTEIN CRYSTALLOGRAPHY
5aqb DARPIN-BASED CRYSTALLIZATION CHAPERONES EXPLOIT MOLECULAR GEOMETRY AS A SCREENING DIMENSION IN PROTEIN CRYSTALLOGRAPHY