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(-) Description

Title :  COMPUTATIONAL DESIGN OF AN UNNATURAL AMINO ACID METALLOPROTEIN WITH ATOMIC LEVEL ACCURACY
 
Authors :  J. Mills, J. Bolduc, S. Khare, B. Stoddard, D. Baker
Date :  24 Jan 13  (Deposition) - 21 Aug 13  (Release) - 25 Sep 13  (Revision)
Method :  X-RAY DIFFRACTION
Resolution :  2.50
Chains :  Asym./Biol. Unit :  A
Keywords :  Computational Design, Tim Barrel, Metalloprotein, Bipyridylalanine, Metal Binding Protein (Keyword Search: [Gene Ontology, PubMed, Web (Google)] )
 
Reference :  J. H. Mills, S. D. Khare, J. M. Bolduc, F. Forouhar, V. K. Mulligan, S. Lew, J. Seetharaman, L. Tong, B. L. Stoddard, D. Baker
Computational Design Of An Unnatural Amino Acid Dependent Metalloprotein With Atomic Level Accuracy.
J. Am. Chem. Soc. V. 135 13393 2013
PubMed-ID: 23924187  |  Reference-DOI: 10.1021/JA403503M

(-) Compounds

Molecule 1 - UNNATURAL AMINO ACID MEDIATED METALLOPROTEIN
    Chains: A
    Engineered: YES
    Expression System: ESCHERICHIA COLI
    Expression System Plasmid: PET28B
    Expression System Strain: BL21(DE3)
    Expression System Taxid: 469008
    Expression System Vector Type: PLASMID
    Gene: TRPC, SSO0895
    Mutation: YES
    Organism Scientific: SULFOLOBUS SOLFATARICUS
    Organism Taxid: 2287
    Synonym: INDOLE-3-GLYCEROL PHOSPHATE SYNTHASE, IGPS

 Structural Features

(-) Chains, Units

  1
Asymmetric/Biological Unit : A

Summary Information (see also Sequences/Alignments below)

(-) Ligands, Modified Residues, Ions  (3, 4)

Asymmetric/Biological Unit (3, 4)
No.NameCountTypeFull Name
1BP51Mod. Amino Acid3-(2,2'-BIPYRIDIN-5-YL)-L-ALANINE
2NI1Ligand/IonNICKEL (II) ION
3SO42Ligand/IonSULFATE ION

(-) Sites  (3, 3)

Asymmetric Unit (3, 3)
No.NameEvidenceResiduesDescription
1AC1SOFTWAREBP5 A:133 , GLU A:159 , ASP A:184 , HOH A:418BINDING SITE FOR RESIDUE NI A 301
2AC2SOFTWARESER A:21 , ARG A:23 , ARG A:64 , ASP A:65 , GLU A:68BINDING SITE FOR RESIDUE SO4 A 302
3AC3SOFTWARELYS A:53 , GLY A:212 , GLY A:233 , SER A:234 , HOH A:415 , HOH A:439BINDING SITE FOR RESIDUE SO4 A 303

(-) SS Bonds  (0, 0)

(no "SS Bond" information available for 4IX0)

(-) Cis Peptide Bonds  (0, 0)

(no "Cis Peptide Bond" information available for 4IX0)

 Sequence-Structure Mapping

(-) SAPs(SNPs)/Variants  (0, 0)

(no "SAP(SNP)/Variant" information available for 4IX0)

(-) PROSITE Motifs  (0, 0)

(no "PROSITE Motif" information available for 4IX0)

(-) Exons   (0, 0)

(no "Exon" information available for 4IX0)

(-) 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:247
                                                                                                                                                                                                                                                                                       
               SCOP domains d4ix0a_ A: automated matches                                                                                                                                                                                                                            SCOP domains
               CATH domains ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- CATH domains
               Pfam domains ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author ....hhhhhhhhhhhhh.............hhhhhhhhhhhh....eeeee............hhhhhhhhhhh...eeeee........hhhhhhhhhhhh...eeee....hhhhhhhhhhhh..eeee.....hhhhhhhhhhhhhh.....eeee.hhhhhhhhhhhh..eeeee.........hhhhhhhhhh......eeeee....hhhhhhhhhhh...eeeehhhhhhh.hhhhhhhh Sec.struct. author
                 SAPs(SNPs) ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 4ix0 A   2 PRYLKGWLEDVVQLSLRRPSVRASRQRPIISLNERILEFNKRNITAIIAEYKRKSPSGLDVERDPIEYAKFMERYAVGLSILTEEKYFNGSYETLRKIASSVSIPILMMDFIVKESQIDDAYNLGADTVLLaVKILTERELESLLEYARSYGMEPLIEITDENDLDIALRIGARFIGISSQDDETLEINKENQRKLISMIPSNVVKVADSGISERNEIEELRKLGVNAFLIGSSLMRNPEKIKELIL 248
                                    11        21        31        41        51        61        71        81        91       101       111       121       131 |     141       151       161       171       181       191       201       211       221       231       241       
                                                                                                                                                             133-BP5
   Legend:   → Mismatch (orange background)
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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  (1, 1)

Asymmetric/Biological Unit
(-)
Class: Alpha and beta proteins (a/b) (23833)

(-) CATH Domains  (0, 0)

(no "CATH Domain" information available for 4IX0)

(-) Pfam Domains  (0, 0)

(no "Pfam Domain" information available for 4IX0)

(-) Gene Ontology  (10, 10)

Asymmetric/Biological Unit(hide GO term definitions)

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  4ix0
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  TRPC_SULSO | Q06121
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 Related Entries

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

UniProtKB/Swiss-Prot
        TRPC_SULSO | Q06121: 1a53 1igs 1juk 1jul 1lbf 1lbl 2c3z 3nyz 3nz1 3tc6 3tc7 4a29 4a2r 4a2s 4iww 4lny 4ou1 5an7 5aou 5k7j

(-) Related Entries Specified in the PDB File

1igs 4iww