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(-) Description

Title :  CRYSTAL STRUCTURE OF THE EVOLVED VARIANT OF THE COMPUTATIONALLY DESIGNED SERINE HYDROLASE, OSH55.4_H1 COVALENTLY BOUND WITH FP-ALKYNE, NORTHEAST STRUCTURAL GENOMICS CONSORTIUM (NESG) TARGET OR273
 
Authors :  A. Kuzin, S. Lew, S. Rajagopalan, J. Seetharaman, S. Tong, J. K. Everett T. B. Acton, D. Baker, G. T. Montelione, L. Tong, J. F. Hunt, Northeast Structural Genomics Consortium (Nesg)
Date :  12 Mar 13  (Deposition) - 10 Apr 13  (Release) - 14 May 14  (Revision)
Method :  X-RAY DIFFRACTION
Resolution :  1.36
Chains :  Asym. Unit :  A
Biol. Unit 1:  A  (1x)
Biol. Unit 2:  A  (2x)
Keywords :  Structural Genomics, Psi-Biology, Protein Structure Initiative, Northeast Structural Genomics Consortium (Nesg), Osh55. 4_h1, Ser Hydrolase, Unknown Function (Keyword Search: [Gene Ontology, PubMed, Web (Google)] )
 
Reference :  S. Rajagopalan, C. Wang, K. Yu, A. P. Kuzin, F. Richter, S. Lew, A. E. Miklos, M. L. Matthews, J. Seetharaman, M. Su, J. F. Hunt, B. F. Cravatt, D. Baker
Design Of Activated Serine-Containing Catalytic Triads With Atomic-Level Accuracy.
Nat. Chem. Biol. V. 10 386 2014
PubMed-ID: 24705591  |  Reference-DOI: 10.1038/NCHEMBIO.1498

(-) Compounds

Molecule 1 - EVOLVED VARIANT OF COMPUTATIONALLY DESIGNED SERINE HYDROLASE OSH55.4_H1
    Chains: A
    Engineered: YES
    Expression System: ESCHERICHIA COLI
    Expression System Plasmid: PET21_NESG
    Expression System Strain: BL21(DE3) + MAGIC
    Expression System Taxid: 469008
    Expression System Vector Type: PLASMID
    Organism Scientific: SYNTHETIC CONSTRUCT
    Organism Taxid: 32630

 Structural Features

(-) Chains, Units

  1
Asymmetric Unit : A
Biological Unit 1 (1x): A
Biological Unit 2 (2x): A

Summary Information (see also Sequences/Alignments below)

(-) Ligands, Modified Residues, Ions  (5, 10)

Asymmetric Unit (5, 10)
No.NameCountTypeFull Name
1CL1Ligand/IonCHLORIDE ION
2EDO5Ligand/Ion1,2-ETHANEDIOL
3GOL2Ligand/IonGLYCEROL
4PEG1Ligand/IonDI(HYDROXYETHYL)ETHER
5SEF1Ligand/IonETHYL (R)-{10-[(HEPT-6-YN-1-YLCARBAMOYL)OXY]DECYL}PHOSPHONOFLUORIDATE
Biological Unit 1 (4, 9)
No.NameCountTypeFull Name
1CL-1Ligand/IonCHLORIDE ION
2EDO5Ligand/Ion1,2-ETHANEDIOL
3GOL2Ligand/IonGLYCEROL
4PEG1Ligand/IonDI(HYDROXYETHYL)ETHER
5SEF1Ligand/IonETHYL (R)-{10-[(HEPT-6-YN-1-YLCARBAMOYL)OXY]DECYL}PHOSPHONOFLUORIDATE
Biological Unit 2 (4, 18)
No.NameCountTypeFull Name
1CL-1Ligand/IonCHLORIDE ION
2EDO10Ligand/Ion1,2-ETHANEDIOL
3GOL4Ligand/IonGLYCEROL
4PEG2Ligand/IonDI(HYDROXYETHYL)ETHER
5SEF2Ligand/IonETHYL (R)-{10-[(HEPT-6-YN-1-YLCARBAMOYL)OXY]DECYL}PHOSPHONOFLUORIDATE

(-) Sites  (10, 10)

Asymmetric Unit (10, 10)
No.NameEvidenceResiduesDescription
01AC1SOFTWAREILE A:4 , PHE A:110 , THR A:111 , SER A:112 , HIS A:126 , MET A:129 , GLY A:130 , ILE A:133 , GLY A:144 , VAL A:145 , HIS A:146 , SER A:151 , TYR A:155 , ALA A:158 , HOH A:384 , HOH A:393BINDING SITE FOR RESIDUE SEF A 201
02AC2SOFTWARETHR A:111 , TRP A:116 , EDO A:204 , HOH A:312BINDING SITE FOR RESIDUE CL A 202
03AC3SOFTWAREASP A:10 , GLY A:32 , VAL A:33 , EDO A:207BINDING SITE FOR RESIDUE EDO A 203
04AC4SOFTWAREVAL A:33 , THR A:111 , SER A:112 , TRP A:113 , GLY A:114 , ALA A:115 , CL A:202 , EDO A:207BINDING SITE FOR RESIDUE EDO A 204
05AC5SOFTWAREGLY A:41 , GLY A:42 , PRO A:43 , SER A:44 , GLY A:66 , HOH A:401BINDING SITE FOR RESIDUE EDO A 205
06AC6SOFTWARESER A:112 , GLY A:114 , VAL A:117 , HIS A:126 , TYR A:155 , HOH A:361 , HOH A:368 , HOH A:461 , HOH A:498BINDING SITE FOR RESIDUE EDO A 206
07AC7SOFTWAREGLY A:9 , ASP A:10 , ILE A:11 , VAL A:145 , HIS A:146 , GLY A:147 , EDO A:203 , EDO A:204BINDING SITE FOR RESIDUE EDO A 207
08AC8SOFTWAREVAL A:7 , GLY A:9 , ASP A:10 , ILE A:11 , GLU A:13 , PHE A:14 , VAL A:145 , HOH A:403BINDING SITE FOR RESIDUE PEG A 208
09AC9SOFTWAREALA A:36 , ARG A:39 , GLY A:114 , ALA A:115 , VAL A:117 , GLY A:118 , HOH A:326 , HOH A:347 , HOH A:469BINDING SITE FOR RESIDUE GOL A 209
10BC1SOFTWARELEU A:38 , PRO A:43 , GLN A:46 , GLU A:47 , GLY A:80 , ASP A:81 , GLU A:82 , PRO A:83 , HOH A:311 , HOH A:315 , HOH A:337 , HOH A:362 , HOH A:371BINDING SITE FOR RESIDUE GOL A 210

(-) SS Bonds  (0, 0)

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

(-) Cis Peptide Bonds  (1, 1)

Asymmetric Unit
No.Residues
1Glu A:161 -His A:162

 Sequence-Structure Mapping

(-) SAPs(SNPs)/Variants  (0, 0)

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

(-) PROSITE Motifs  (0, 0)

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

(-) Exons   (0, 0)

(no "Exon" information available for 4JLL)

(-) Sequences/Alignments

Asymmetric Unit
   Reformat: Number of residues per line =  ('0' or empty: single-line sequence representation)
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  UniProt sequence: complete  aligned part    
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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:161
                                                                                                                                                                                                 
               SCOP domains ----------------------------------------------------------------------------------------------------------------------------------------------------------------- SCOP domains
               CATH domains ----------------------------------------------------------------------------------------------------------------------------------------------------------------- CATH domains
               Pfam domains ----------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author .eeeeee.hhhhh.eeeeeeeee.......hhhhhhhhhhhhhhhhhhhhhh......eeeee.....eeeeeeeeee.....hhhhhhhhhhhhhhhhhhh...eeee..hhhhh...hhhhhhhhhhhhhhhh....eeeeee.hhhhhhhhhhhh... Sec.struct. author
                 SAPs(SNPs) ----------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE ----------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript ----------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 4jll A   2 ARIRHVQGDITEFQGDAIVNAANNYLKLGAGVAGAILRKGGPSIQEECDRIGKIRVGEAAVTGAGNLPVRYVIHAAVLGDEPASLETVRKATKSALEKAVELGLKTVAFTSWGAWVGGLPAEAVHRVMGEEIKKAPDTLEVTGVHGTEKSAEAYRRASLEH 162
                                    11        21        31        41        51        61        71        81        91       101       111       121       131       141       151       161
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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 4JLL)

(-) CATH Domains  (0, 0)

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

(-) Pfam Domains  (0, 0)

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

(-) Gene Ontology  (0, 0)

Asymmetric Unit(hide GO term definitions)
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(-) Related Entries Specified in the PDB File

4jca 99.4% HOMOLOGY RELATED ID: NESG-OR273 RELATED DB: TARGETTRACK