HEADER DE NOVO PROTEIN 30-MAR-06 2GJF TITLE NMR STRUCTURE OF THE COMPUTATIONALLY DESIGNED PROCARBOXYPEPTIDASE-A TITLE 2 (1AYE) DOMAIN COMPND MOL_ID: 1; COMPND 2 MOLECULE: DESIGNED PROTEIN; COMPND 3 CHAIN: A, B; COMPND 4 ENGINEERED: YES SOURCE MOL_ID: 1; SOURCE 2 EXPRESSION_SYSTEM: ESCHERICHIA COLI; SOURCE 3 EXPRESSION_SYSTEM_TAXID: 562; SOURCE 4 EXPRESSION_SYSTEM_STRAIN: ROSETTA BL21(DE3); SOURCE 5 EXPRESSION_SYSTEM_VECTOR_TYPE: PLASMID; SOURCE 6 EXPRESSION_SYSTEM_PLASMID: PET 29(B) KEYWDS DESIGNED PROTEIN, PROCARBOXYPEPTIDASE, DE NOVO PROTEIN EXPDTA SOLUTION NMR NUMMDL 20 AUTHOR S.REICHOW REVDAT 5 29-MAY-24 2GJF 1 REMARK REVDAT 4 09-MAR-22 2GJF 1 REMARK REVDAT 3 24-FEB-09 2GJF 1 VERSN REVDAT 2 20-FEB-07 2GJF 1 JRNL REVDAT 1 16-JAN-07 2GJF 0 JRNL AUTH G.DANTAS,C.CORRENT,S.L.REICHOW,J.J.HAVRANEK,Z.M.ELETR, JRNL AUTH 2 N.G.ISERN,B.KUHLMAN,G.VARANI,E.A.MERRITT,D.BAKER JRNL TITL HIGH-RESOLUTION STRUCTURAL AND THERMODYNAMIC ANALYSIS OF JRNL TITL 2 EXTREME STABILIZATION OF HUMAN PROCARBOXYPEPTIDASE BY JRNL TITL 3 COMPUTATIONAL PROTEIN DESIGN. JRNL REF J.MOL.BIOL. V. 366 1209 2007 JRNL REFN ISSN 0022-2836 JRNL PMID 17196978 JRNL DOI 10.1016/J.JMB.2006.11.080 REMARK 2 REMARK 2 RESOLUTION. NOT APPLICABLE. REMARK 3 REMARK 3 REFINEMENT. REMARK 3 PROGRAM : CYANA 2.1 REMARK 3 AUTHORS : P.GUNTERT ET AL. REMARK 3 REMARK 3 OTHER REFINEMENT REMARKS: NULL REMARK 4 REMARK 4 2GJF COMPLIES WITH FORMAT V. 3.15, 01-DEC-08 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY RCSB ON 06-APR-06. REMARK 100 THE DEPOSITION ID IS D_1000037192. REMARK 210 REMARK 210 EXPERIMENTAL DETAILS REMARK 210 EXPERIMENT TYPE : NMR REMARK 210 TEMPERATURE (KELVIN) : 298 REMARK 210 PH : 7.0 REMARK 210 IONIC STRENGTH : 150MM REMARK 210 PRESSURE : AMBIENT REMARK 210 SAMPLE CONTENTS : 1MM AYE, 50MM PHOSPHATE BUFFER, REMARK 210 PH 7.0, 100MM KCL, 90% H2O, 10% REMARK 210 D2O; 1MM AYE, 50MM PHOSPHATE REMARK 210 BUFFER, PH 7.0, 100MM KCL, 100% REMARK 210 D2O; 1MM AYE U-15N, 13C, 50MM REMARK 210 PHOSPHATE BUFFER, PH 7.0, 100MM REMARK 210 KCL, 90% H2O, 10% D2O; 1MM AYE U- REMARK 210 15N, 50MM PHOSPHATE BUFFER, PH REMARK 210 7.0, 100MM KCL, 90% H2O, 10% D2O; REMARK 210 1.4MM AYE U-15N, 13C, 1.4MM 14N, REMARK 210 12C AYE, 50MM PHOSPHATE BUFFER, REMARK 210 PH 7.0, 100MM KCL,100% D2O REMARK 210 REMARK 210 NMR EXPERIMENTS CONDUCTED : 2D NOESY; 3D_13C REMARK 210 -SEPARATED_NOESY; 3D_15N- REMARK 210 SEPARATED_NOESY; 3D_13C-FILTERED_ REMARK 210 NOESY REMARK 210 SPECTROMETER FIELD STRENGTH : 750 MHZ; 500 MHZ; 600 MHZ REMARK 210 SPECTROMETER MODEL : DMX; DRX; INOVA REMARK 210 SPECTROMETER MANUFACTURER : BRUKER; VARIAN REMARK 210 REMARK 210 STRUCTURE DETERMINATION. REMARK 210 SOFTWARE USED : CYANA 2.1, TALOS, NMRPIPE 2.3, REMARK 210 SPARKY 3.112 REMARK 210 METHOD USED : TORSION ANGLE DYNAMICS REMARK 210 REMARK 210 CONFORMERS, NUMBER CALCULATED : 100 REMARK 210 CONFORMERS, NUMBER SUBMITTED : 20 REMARK 210 CONFORMERS, SELECTION CRITERIA : STRUCTURES WITH THE LEAST REMARK 210 RESTRAINT VIOLATIONS REMARK 210 REMARK 210 BEST REPRESENTATIVE CONFORMER IN THIS ENSEMBLE : 1 REMARK 210 REMARK 210 REMARK: HYDROGEN BOND RESTRAINTS WERE DERIVED FROM D2O PROTECTION REMARK 210 ANALYSIS. TORSION ANGLE RESTRAINTS WERE DERIVED FROM TALOS REMARK 210 PREDICTIONS REMARK 215 REMARK 215 NMR STUDY REMARK 215 THE COORDINATES IN THIS ENTRY WERE GENERATED FROM SOLUTION REMARK 215 NMR DATA. PROTEIN DATA BANK CONVENTIONS REQUIRE THAT REMARK 215 CRYST1 AND SCALE RECORDS BE INCLUDED, BUT THE VALUES ON REMARK 215 THESE RECORDS ARE MEANINGLESS. REMARK 300 REMARK 300 BIOMOLECULE: 1 REMARK 300 SEE REMARK 350 FOR THE AUTHOR PROVIDED AND/OR PROGRAM REMARK 300 GENERATED ASSEMBLY INFORMATION FOR THE STRUCTURE IN REMARK 300 THIS ENTRY. THE REMARK MAY ALSO PROVIDE INFORMATION ON REMARK 300 BURIED SURFACE AREA. REMARK 350 REMARK 350 COORDINATES FOR A COMPLETE MULTIMER REPRESENTING THE KNOWN REMARK 350 BIOLOGICALLY SIGNIFICANT OLIGOMERIZATION STATE OF THE REMARK 350 MOLECULE CAN BE GENERATED BY APPLYING BIOMT TRANSFORMATIONS REMARK 350 GIVEN BELOW. BOTH NON-CRYSTALLOGRAPHIC AND REMARK 350 CRYSTALLOGRAPHIC OPERATIONS ARE GIVEN. REMARK 350 REMARK 350 BIOMOLECULE: 1 REMARK 350 AUTHOR DETERMINED BIOLOGICAL UNIT: DIMERIC REMARK 350 APPLY THE FOLLOWING TO CHAINS: A, B REMARK 350 BIOMT1 1 1.000000 0.000000 0.000000 0.00000 REMARK 350 BIOMT2 1 0.000000 1.000000 0.000000 0.00000 REMARK 350 BIOMT3 1 0.000000 0.000000 1.000000 0.00000 REMARK 465 REMARK 465 MISSING RESIDUES REMARK 465 THE FOLLOWING RESIDUES WERE NOT LOCATED IN THE REMARK 465 EXPERIMENT. (RES=RESIDUE NAME; C=CHAIN IDENTIFIER; REMARK 465 SSSEQ=SEQUENCE NUMBER; I=INSERTION CODE.) REMARK 465 MODELS 1-20 REMARK 465 RES C SSSEQI REMARK 465 HIS A -5 REMARK 465 HIS A -4 REMARK 465 HIS A -3 REMARK 465 HIS A -2 REMARK 465 HIS A -1 REMARK 465 HIS A 0 REMARK 465 HIS B -5 REMARK 465 HIS B -4 REMARK 465 HIS B -3 REMARK 465 HIS B -2 REMARK 465 HIS B -1 REMARK 465 HIS B 0 REMARK 500 REMARK 500 GEOMETRY AND STEREOCHEMISTRY REMARK 500 SUBTOPIC: TORSION ANGLES REMARK 500 REMARK 500 TORSION ANGLES OUTSIDE THE EXPECTED RAMACHANDRAN REGIONS: REMARK 500 (M=MODEL NUMBER; RES=RESIDUE NAME; C=CHAIN IDENTIFIER; REMARK 500 SSEQ=SEQUENCE NUMBER; I=INSERTION CODE). REMARK 500 REMARK 500 STANDARD TABLE: REMARK 500 FORMAT:(10X,I3,1X,A3,1X,A1,I4,A1,4X,F7.2,3X,F7.2) REMARK 500 REMARK 500 EXPECTED VALUES: GJ KLEYWEGT AND TA JONES (1996). PHI/PSI- REMARK 500 CHOLOGY: RAMACHANDRAN REVISITED. STRUCTURE 4, 1395 - 1400 REMARK 500 REMARK 500 M RES CSSEQI PSI PHI REMARK 500 1 GLN A 25 99.02 -58.01 REMARK 500 1 PRO A 36 78.56 -69.72 REMARK 500 1 GLU A 71 104.52 -52.65 REMARK 500 1 PRO B 36 76.82 -69.78 REMARK 500 1 PRO B 65 97.02 -69.82 REMARK 500 1 GLU B 71 108.41 -56.27 REMARK 500 2 GLN A 25 100.49 -57.55 REMARK 500 2 PRO A 36 78.40 -69.72 REMARK 500 2 GLN B 25 95.24 -61.96 REMARK 500 2 PRO B 36 75.24 -69.75 REMARK 500 3 SER A 2 95.26 -69.69 REMARK 500 3 GLN A 25 100.47 -55.69 REMARK 500 3 PRO A 36 78.48 -69.75 REMARK 500 3 GLN B 25 95.13 -61.99 REMARK 500 3 PRO B 36 77.86 -69.76 REMARK 500 4 GLN A 25 101.74 -55.66 REMARK 500 4 PRO A 36 76.36 -69.75 REMARK 500 4 GLU A 71 104.06 -51.63 REMARK 500 4 ASN B 12 176.25 179.72 REMARK 500 4 PRO B 36 76.22 -69.76 REMARK 500 4 GLU B 71 103.98 -50.90 REMARK 500 5 SER A 2 90.94 -65.78 REMARK 500 5 GLN A 25 98.12 -59.85 REMARK 500 5 PRO A 36 78.13 -69.80 REMARK 500 5 THR A 37 -41.19 -138.07 REMARK 500 5 GLN B 25 96.96 -60.71 REMARK 500 5 PRO B 36 75.41 -69.78 REMARK 500 6 PRO A 36 78.23 -69.79 REMARK 500 6 GLU A 71 105.79 -51.25 REMARK 500 6 GLN B 25 96.34 -60.50 REMARK 500 6 PRO B 36 72.21 -69.80 REMARK 500 6 GLU B 71 107.83 -52.55 REMARK 500 7 GLN A 25 104.28 -58.62 REMARK 500 7 PRO A 36 71.92 -69.79 REMARK 500 7 PRO A 65 99.10 -69.74 REMARK 500 7 SER B 2 38.59 -94.77 REMARK 500 7 GLN B 25 95.55 -61.59 REMARK 500 7 PRO B 36 79.25 -69.72 REMARK 500 7 PRO B 65 97.20 -69.76 REMARK 500 8 SER A 2 87.46 -68.60 REMARK 500 8 GLN A 25 102.66 -54.56 REMARK 500 8 PRO A 36 77.11 -69.71 REMARK 500 8 PRO A 42 93.96 -69.70 REMARK 500 8 GLN B 25 93.36 -63.54 REMARK 500 8 PRO B 36 78.46 -69.78 REMARK 500 8 PRO B 42 99.08 -69.81 REMARK 500 9 GLN A 25 99.80 -58.44 REMARK 500 9 PRO A 36 76.58 -69.85 REMARK 500 9 GLU A 71 106.63 -51.85 REMARK 500 9 GLN B 25 93.83 -63.30 REMARK 500 REMARK 500 THIS ENTRY HAS 119 RAMACHANDRAN OUTLIERS. REMARK 500 REMARK 500 REMARK: NULL REMARK 900 REMARK 900 RELATED ENTRIES REMARK 900 RELATED ID: 1VJQ RELATED DB: PDB REMARK 900 CRYSTAL STRUCTURE OF DESIGNED PROTEIN BASED ON BACKBONE REMARK 900 CONFORMATION OF PROCARBOXYPEPTIDASE-A (1AYE) WITH SIDECHAINS CHOSEN REMARK 900 FOR MAXIMAL PREDICTED STABILITY REMARK 999 REMARK 999 SEQUENCE REMARK 999 THE PROTEIN HAS BEEN COMPUTATIONALLY DESIGNED BASED ON REMARK 999 HUMAN PROCARBOXYPEPTIDASE-A (1AYE) WITH SIDECHAINS CHOSEN REMARK 999 FOR MAXIMAL PREDICTED STABILITY. A SIX RESIDUE HIS TAG IS REMARK 999 PRESENT AT THE N-TERMINUS. DBREF 2GJF A -5 72 PDB 2GJF 2GJF -5 72 DBREF 2GJF B -5 72 PDB 2GJF 2GJF -5 72 SEQRES 1 A 78 HIS HIS HIS HIS HIS HIS GLY SER LYS THR ILE PHE VAL SEQRES 2 A 78 ILE VAL PRO THR ASN GLU GLU GLN VAL ALA PHE LEU GLU SEQRES 3 A 78 ALA LEU ALA LYS GLN ASP GLU LEU ASN PHE ASP TRP GLN SEQRES 4 A 78 ASN PRO PRO THR GLU PRO GLY GLN PRO VAL VAL ILE LEU SEQRES 5 A 78 ILE PRO SER ASP MET VAL GLU TRP PHE LEU GLU MET LEU SEQRES 6 A 78 LYS ALA LYS GLY ILE PRO PHE THR VAL TYR VAL GLU GLU SEQRES 1 B 78 HIS HIS HIS HIS HIS HIS GLY SER LYS THR ILE PHE VAL SEQRES 2 B 78 ILE VAL PRO THR ASN GLU GLU GLN VAL ALA PHE LEU GLU SEQRES 3 B 78 ALA LEU ALA LYS GLN ASP GLU LEU ASN PHE ASP TRP GLN SEQRES 4 B 78 ASN PRO PRO THR GLU PRO GLY GLN PRO VAL VAL ILE LEU SEQRES 5 B 78 ILE PRO SER ASP MET VAL GLU TRP PHE LEU GLU MET LEU SEQRES 6 B 78 LYS ALA LYS GLY ILE PRO PHE THR VAL TYR VAL GLU GLU HELIX 1 1 ASN A 12 LYS A 24 1 13 HELIX 2 2 MET A 51 GLY A 63 1 13 HELIX 3 3 ASN B 12 ALA B 23 1 12 HELIX 4 4 MET B 51 GLY B 63 1 13 SHEET 1 A 8 ASP A 31 TRP A 32 0 SHEET 2 A 8 VAL A 43 ILE A 47 -1 O LEU A 46 N ASP A 31 SHEET 3 A 8 THR A 4 ILE A 8 -1 N PHE A 6 O ILE A 45 SHEET 4 A 8 PHE A 66 GLU A 71 -1 O TYR A 69 N ILE A 5 SHEET 5 A 8 PHE B 66 GLU B 71 -1 O VAL B 70 N VAL A 70 SHEET 6 A 8 THR B 4 ILE B 8 -1 N ILE B 5 O TYR B 69 SHEET 7 A 8 VAL B 43 ILE B 47 -1 O VAL B 43 N ILE B 8 SHEET 8 A 8 ASP B 31 TRP B 32 -1 N ASP B 31 O LEU B 46 CRYST1 1.000 1.000 1.000 90.00 90.00 90.00 P 1 1 ORIGX1 1.000000 0.000000 0.000000 0.00000 ORIGX2 0.000000 1.000000 0.000000 0.00000 ORIGX3 0.000000 0.000000 1.000000 0.00000 SCALE1 1.000000 0.000000 0.000000 0.00000 SCALE2 0.000000 1.000000 0.000000 0.00000 SCALE3 0.000000 0.000000 1.000000 0.00000 MODEL 1