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(-) Description

Title :  CRYSTAL STRUCTURE OF DE NOVO DESIGNED HELICAL REPEAT PROTEIN DHR8
 
Authors :  G. Bhabha, D. C. Ekiert
Date :  28 Jul 15  (Deposition) - 16 Dec 15  (Release) - 06 Jan 16  (Revision)
Method :  X-RAY DIFFRACTION
Resolution :  1.80
Chains :  Asym. Unit :  A,B,C,D
Biol. Unit 1:  A  (1x)
Biol. Unit 2:  B  (1x)
Biol. Unit 3:  C  (1x)
Biol. Unit 4:  D  (1x)
Keywords :  Helical Repeat Protein, De Novo Protein (Keyword Search: [Gene Ontology, PubMed, Web (Google)] )
 
Reference :  T. J. Brunette, F. Parmeggiani, P. S. Huang, G. Bhabha, D. C. Ekiert, S. E. Tsutakawa, G. L. Hura, J. A. Tainer, D. Baker
Exploring The Repeat Protein Universe Through Computational Protein Design.
Nature V. 528 580 2015
PubMed-ID: 26675729  |  Reference-DOI: 10.1038/NATURE16162

(-) Compounds

Molecule 1 - DESIGNED HELICAL REPEAT PROTEIN
    Chains: A, B, C, D
    Engineered: YES
    Expression System: ESCHERICHIA COLI
    Expression System Plasmid: PET21_NESG
    Expression System Strain: BL21(DE3)
    Expression System Taxid: 469008
    Expression System Vector Type: PLASMID
    Organism Scientific: SYNTHETIC CONSTRUCT
    Organism Taxid: 32630

 Structural Features

(-) Chains, Units

  1234
Asymmetric Unit : ABCD
Biological Unit 1 (1x): A   
Biological Unit 2 (1x):  B  
Biological Unit 3 (1x):   C 
Biological Unit 4 (1x):    D

Summary Information (see also Sequences/Alignments below)

(-) Ligands, Modified Residues, Ions  (1, 32)

Asymmetric Unit (1, 32)
No.NameCountTypeFull Name
1CA32Ligand/IonCALCIUM ION
Biological Unit 1 (0, 0)
No.NameCountTypeFull Name
1CA-1Ligand/IonCALCIUM ION
Biological Unit 2 (0, 0)
No.NameCountTypeFull Name
1CA-1Ligand/IonCALCIUM ION
Biological Unit 3 (0, 0)
No.NameCountTypeFull Name
1CA-1Ligand/IonCALCIUM ION
Biological Unit 4 (0, 0)
No.NameCountTypeFull Name
1CA-1Ligand/IonCALCIUM ION

(-) Sites  (32, 32)

Asymmetric Unit (32, 32)
No.NameEvidenceResiduesDescription
01AC1SOFTWAREASP A:25 , GLU A:26 , GLU B:161 , GLU B:165 , HOH B:348 , HOH B:355binding site for residue CA A 201
02AC2SOFTWAREHOH A:302 , HOH A:357 , ASP D:24 , ASP D:70 , HOH D:370binding site for residue CA A 202
03AC3SOFTWAREARG A:88 , HOH A:337 , HOH A:340 , HOH A:360 , ARG B:88 , HOH B:321 , HOH B:326binding site for residue CA A 203
04AC4SOFTWAREASP A:24 , ASP A:70 , HOH A:377 , HOH A:386 , ASN D:22 , HOH D:303 , HOH D:325binding site for residue CA A 204
05AC5SOFTWAREGLU A:172 , GLU A:175 , GLU B:82 , GLU B:85binding site for residue CA A 205
06AC6SOFTWAREASP A:160 , GLU A:161 , HOH A:391 , ASN C:113 , HOH C:321binding site for residue CA A 206
07AC7SOFTWAREGLU A:49 , HOH A:365 , ASP B:138binding site for residue CA A 207
08AC8SOFTWAREASN A:67 , ASN A:113 , HOH A:381binding site for residue CA A 208
09AC9SOFTWAREGLU A:82 , GLU A:85 , HOH A:318 , GLU B:172 , GLU B:175binding site for residue CA B 201
10AD1SOFTWAREASN A:23 , ASP A:25 , HOH A:328 , HOH A:345 , HOH A:361 , HOH A:373 , GLU B:161binding site for residue CA B 202
11AD2SOFTWAREGLU A:127 , GLU A:130 , HOH A:317 , GLU B:127 , GLU B:130binding site for residue CA B 203
12AD3SOFTWAREGLU B:71 , CA B:207 , CA B:208 , CA B:209 , ASP C:115 , HOH C:311binding site for residue CA B 204
13AD4SOFTWAREASP B:115 , CA B:211 , HOH B:314 , GLU C:71 , CA C:206 , CA C:208 , HOH D:313binding site for residue CA B 205
14AD5SOFTWAREGLU B:175 , GLU B:179binding site for residue CA B 206
15AD6SOFTWAREASP B:69 , GLU B:71 , CA B:204 , CA B:208 , CA B:210 , HOH B:330 , ASP C:69 , ASP C:115 , CA C:205binding site for residue CA B 207
16AD7SOFTWAREGLU A:116 , GLU B:71 , CA B:204 , CA B:207 , HOH B:330 , ASP C:115 , CA C:205binding site for residue CA B 208
17AD8SOFTWAREGLU A:161 , HOH A:355 , GLU B:71 , CA B:204 , ASN C:68 , HOH C:311binding site for residue CA B 209
18AD9SOFTWAREASP B:69 , ASP B:115 , CA B:207 , CA B:211 , ASP C:69 , CA C:205 , CA C:206 , HOH C:353binding site for residue CA B 210
19AE1SOFTWAREASP B:115 , CA B:205 , CA B:210 , GLU C:71 , CA C:206 , HOH C:353 , GLU D:116 , HOH D:352binding site for residue CA B 211
20AE2SOFTWAREGLU C:161 , ASN D:23 , ASP D:25 , HOH D:306 , HOH D:326 , HOH D:338 , HOH D:368binding site for residue CA C 201
21AE3SOFTWAREGLU C:172 , GLU C:175 , GLU D:82 , GLU D:85 , ARG D:133 , HOH D:321binding site for residue CA C 202
22AE4SOFTWAREGLU C:82 , GLU C:85 , GLU D:172 , GLU D:175binding site for residue CA C 203
23AE5SOFTWAREARG C:88 , HOH C:317 , ARG D:88 , HOH D:323binding site for residue CA C 204
24AE6SOFTWAREASP B:69 , CA B:207 , CA B:208 , CA B:210 , HOH B:330 , ASP C:69 , ASP C:115binding site for residue CA C 205
25AE7SOFTWAREASP B:69 , ASP B:115 , CA B:205 , CA B:210 , CA B:211 , ASP C:69 , GLU C:71 , HOH C:353binding site for residue CA C 206
26AE8SOFTWAREGLU C:175 , GLU C:179 , HOH C:335 , HOH C:356 , ARG D:133binding site for residue CA C 207
27AE9SOFTWAREASN B:68 , CA B:205 , HOH B:314 , HOH B:319 , GLU C:71 , GLU D:161 , HOH D:313 , HOH D:382binding site for residue CA C 208
28AF1SOFTWAREGLU C:161 , GLU C:165 , HOH C:340 , HOH C:348 , ASP D:25 , GLU D:26binding site for residue CA D 201
29AF2SOFTWAREGLU C:127 , GLU C:130 , GLU D:127 , GLU D:130 , HOH D:324binding site for residue CA D 202
30AF3SOFTWAREGLU C:130 , GLU D:130 , HOH D:312binding site for residue CA D 203
31AF4SOFTWAREASN B:113 , HOH B:334 , ASP D:160 , GLU D:161 , HOH D:373 , HOH D:382binding site for residue CA D 204
32AF5SOFTWAREASN D:67 , ASN D:113binding site for residue CA D 205

(-) SS Bonds  (0, 0)

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

(-) Cis Peptide Bonds  (0, 0)

(no "Cis Peptide Bond" information available for 5CWF)

 Sequence-Structure Mapping

(-) SAPs(SNPs)/Variants  (0, 0)

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

(-) PROSITE Motifs  (0, 0)

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

(-) Exons   (0, 0)

(no "Exon" information available for 5CWF)

(-) 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:177
                                                                                                                                                                                                                 
               SCOP domains --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SCOP domains
               CATH domains --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- CATH domains
               Pfam domains --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author .hhhhhhhhhhhhhhhhhhhhh.hhhhhhhhhhhhhhhhhhhhhh.hhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhh.hhhhhhhhhhhhhhhhhhhhh.hhhhhhhhhhhhhhhhhhhhhh.hhhhhhhhhhhhhhhhhhhhh.hhhhhhhhhhhhhhhhhhh Sec.struct. author
                 SAPs(SNPs) --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 5cwf A   1 MSDEMKKVMEALKKAVELAKKNNDDEVAREIERAAKEIVEALRENNSDEMAKVMLALAKAVLLAAKNNDDEVAREIARAAAEIVEALRENNSDEMAKVMLALAKAVLLAAKNNDDEVAREIARAAAEIVEALRENNSDEMAKKMLELAKRVLDAAKNNDDETAREIARQAAEEVEAD 177
                                    10        20        30        40        50        60        70        80        90       100       110       120       130       140       150       160       170       


Chain B from PDB  Type:PROTEIN  Length:176
                                                                                                                                                                                                                
               SCOP domains -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SCOP domains
               CATH domains -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- CATH domains
               Pfam domains -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author .hhhhhhhhhhhhhhhhhh.hhhhhhhhhhhhhhhhhhhhh.hhhhhhhhhhhhhhhhhhhh..hhhhhhhhhhhhhhhhhhhhhh.hhhhhhhhhhhhhhhhhhhhh.hhhhhhhhhhhhhhhhhhhhhh.hhhhhhhhhhhhhhhhhhhhh.hhhhhhhhhhhhhhhhhhhhh. Sec.struct. author
                 SAPs(SNPs) -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 5cwf B   3 DEMKKVMEALKKAVELAKKDDEVAREIERAAKEIVEALRENNSDEMAKVMLALAKAVLLAAKNNDDEVAREIARAAAEIVEALRENNSDEMAKVMLALAKAVLLAAKNNDDEVAREIARAAAEIVEALRENNSDEMAKKMLELAKRVLDAAKNNDDETAREIARQAAEEVEADREN 180
                                    12        24        34        44        54        64        74        84        94       104       114       124       134       144       154       164       174      
                                             21|                                                                                                                                                            
                                              24                                                                                                                                                            


Chain C from PDB  Type:PROTEIN  Length:175
                                                                                                                                                                                                               
               SCOP domains ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SCOP domains
               CATH domains ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- CATH domains
               Pfam domains ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author .hhhhhhhhhhhhhhhhhh.hhhhhhhhhhhhhhhhhhhhh.hhhhhhhhhhhhhhhhhhhh..hhhhhhhhhhhhhhhhhhhhhh.hhhhhhhhhhhhhhhhhhhhh.hhhhhhhhhhhhhhhhhhhhhh.hhhhhhhhhhhhhhhhhhhhh.hhhhhhhhhhhhhhhhhhhhh Sec.struct. author
                 SAPs(SNPs) ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 5cwf C   3 DEMKKVMEALKKAVELAKKDDEVAREIERAAKEIVEALRENNSDEMAKVMLALAKAVLLAAKNNDDEVAREIARAAAEIVEALRENNSDEMAKVMLALAKAVLLAAKNNDDEVAREIARAAAEIVEALRENNSDEMAKKMLELAKRVLDAAKNNDDETAREIARQAAEEVEADRE 179
                                    12        24        34        44        54        64        74        84        94       104       114       124       134       144       154       164       174     
                                             21|                                                                                                                                                           
                                              24                                                                                                                                                           


Chain D from PDB  Type:PROTEIN  Length:176
                                                                                                                                                                                                                
               SCOP domains -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SCOP domains
               CATH domains -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- CATH domains
               Pfam domains -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author .hhhhhhhhhhhhhhhhhhhhh.hhhhhhhhhhhhhhhhhhhhhh.hhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhh.hhhhhhhhhhhhhhhhhhhhh.hhhhhhhhhhhhhhhhhhhhhh.hhhhhhhhhhhhhhhhhhhhh.hhhhhhhhhhhhhhhhhh Sec.struct. author
                 SAPs(SNPs) -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 5cwf D   1 MSDEMKKVMEALKKAVELAKKNNDDEVAREIERAAKEIVEALRENNSDEMAKVMLALAKAVLLAAKNNDDEVAREIARAAAEIVEALRENNSDEMAKVMLALAKAVLLAAKNNDDEVAREIARAAAEIVEALRENNSDEMAKKMLELAKRVLDAAKNNDDETAREIARQAAEEVEA 176
                                    10        20        30        40        50        60        70        80        90       100       110       120       130       140       150       160       170
   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

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

(-) CATH Domains  (0, 0)

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

(-) Pfam Domains  (0, 0)

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

(-) Gene Ontology  (0, 0)

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 Related Entries

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(-) Related Entries Specified in the PDB File

5cwb 5cwc 5cwd 5cwg 5cwh 5cwi 5cwj 5cwk 5cwl 5cwm 5cwn 5cwo 5cwp 5cwq