10 20 30 40 50 60 70 80 2GJF - Header ----|----|----|----|----|----|----|----|----|----|----|----|----|----|----|----| Asymmetric UnitHEADER DE NOVO PROTEIN 30-MAR-06 2GJF
TITLE NMR STRUCTURE OF THE COMPUTATIONALLY DESIGNED TITLE 2 PROCARBOXYPEPTIDASE-A (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 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, JRNL AUTH 2 Z.M.ELETR,N.G.ISERN,B.KUHLMAN,G.VARANI,E.A.MERRITT, JRNL AUTH 3 D.BAKER JRNL TITL HIGH-RESOLUTION STRUCTURAL AND THERMODYNAMIC JRNL TITL 2 ANALYSIS OF EXTREME STABILIZATION OF HUMAN JRNL TITL 3 PROCARBOXYPEPTIDASE BY COMPUTATIONAL PROTEIN JRNL TITL 4 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 1
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 RCSB ID CODE IS RCSB037192.
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 REMARK 210 BUFFER, PH 7.0, 100MM KCL, 90% REMARK 210 H2O, 10% D2O; 1MM AYE, 50MM REMARK 210 PHOSPHATE BUFFER, PH 7.0, REMARK 210 100MM KCL, 100% D2O; 1MM AYE U REMARK 210 -15N, 13C, 50MM PHOSPHATE REMARK 210 BUFFER, PH 7.0, 100MM KCL, 90% REMARK 210 H2O, 10% D2O; 1MM AYE U-15N, REMARK 210 50MM PHOSPHATE BUFFER, PH 7.0, REMARK 210 100MM KCL, 90% H2O, 10% D2O; REMARK 210 1.4MM AYE U-15N, 13C, 1.4MM REMARK 210 14N,12C AYE, 50MM PHOSPHATE REMARK 210 BUFFER, PH 7.0, 100MM KCL,100% REMARK 210 D2O REMARK 210 REMARK 210 NMR EXPERIMENTS CONDUCTED : 2D NOESY, 3D_13C-SEPARATED_ REMARK 210 NOESY, 3D_15N-SEPARATED_NOESY, REMARK 210 3D_13C-FILTERED_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 REMARK 210 2.3, 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 REMARK 210 PROTECTION ANALYSIS. TORSION ANGLE RESTRAINTS WERE DERIVED REMARK 210 FROM TALOS 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 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 9 PRO B 36 78.02 -69.80 REMARK 500 10 GLN A 25 96.45 -60.56 REMARK 500 10 PRO A 36 75.21 -69.76 REMARK 500 10 GLN B 25 95.94 -61.33 REMARK 500 10 PRO B 36 76.13 -69.76 REMARK 500 10 PRO B 65 97.33 -69.74 REMARK 500 10 GLU B 71 106.74 -51.86 REMARK 500 11 GLN A 25 95.47 -61.53 REMARK 500 11 PRO A 36 78.54 -69.76 REMARK 500 11 PRO A 65 99.91 -69.76 REMARK 500 11 GLU A 71 107.52 -51.79 REMARK 500 11 PRO B 36 76.89 -69.70 REMARK 500 11 PRO B 42 99.50 -69.79 REMARK 500 11 GLU B 71 105.01 -51.91 REMARK 500 12 GLN A 25 101.39 -58.46 REMARK 500 12 PRO A 36 76.05 -69.73 REMARK 500 12 GLU A 71 105.05 -51.36 REMARK 500 12 GLN B 25 94.68 -62.42 REMARK 500 12 PRO B 36 84.64 -69.78 REMARK 500 12 GLU B 71 107.36 -51.61 REMARK 500 13 GLN A 25 101.24 -55.57 REMARK 500 13 PRO A 36 78.04 -69.68 REMARK 500 13 PRO A 42 99.46 -69.72 REMARK 500 13 SER B 2 99.07 -58.89 REMARK 500 13 ASN B 12 167.01 179.61 REMARK 500 13 GLN B 25 95.47 -61.67 REMARK 500 13 PRO B 36 72.23 -69.82 REMARK 500 14 GLN A 25 100.65 -55.90 REMARK 500 14 PRO A 36 78.68 -69.73 REMARK 500 14 SER B 2 85.93 -159.38 REMARK 500 14 GLN B 25 100.92 -57.22 REMARK 500 14 PRO B 36 70.93 -69.78 REMARK 500 15 GLN A 25 98.47 -58.48 REMARK 500 15 PRO A 36 79.29 -69.75 REMARK 500 15 PRO A 42 97.25 -69.77 REMARK 500 15 GLU A 71 104.91 -49.59 REMARK 500 15 GLN B 25 103.35 -56.95 REMARK 500 15 PRO B 36 77.55 -69.77 REMARK 500 15 PRO B 42 97.77 -69.75 REMARK 500 15 GLU B 71 108.76 -52.40 REMARK 500 16 GLN A 25 100.14 -57.46 REMARK 500 16 PRO A 36 77.15 -69.77 REMARK 500 16 GLU A 71 105.19 -51.55 REMARK 500 16 GLN B 25 94.98 -62.34 REMARK 500 16 THR B 37 -49.68 -130.01 REMARK 500 17 GLN A 25 100.57 -58.73 REMARK 500 17 THR A 37 -45.85 -155.88 REMARK 500 17 GLU A 71 106.67 -55.43 REMARK 500 17 GLN B 25 101.09 -59.64 REMARK 500 17 PRO B 36 99.65 -69.72 REMARK 500 17 THR B 37 -40.94 -135.66 REMARK 500 18 GLN A 25 99.66 -57.04 REMARK 500 18 PRO A 36 78.69 -69.72 REMARK 500 18 PRO A 65 99.80 -69.76 REMARK 500 18 GLN B 25 94.76 -62.67 REMARK 500 18 PRO B 36 76.40 -69.82 REMARK 500 19 GLN A 25 99.43 -58.14 REMARK 500 19 PRO A 36 78.23 -69.83 REMARK 500 19 PRO A 42 98.47 -69.70 REMARK 500 19 PRO A 65 98.34 -69.74 REMARK 500 19 GLU A 71 108.28 -51.41 REMARK 500 19 GLN B 25 104.79 -52.99 REMARK 500 19 PRO B 36 76.67 -69.79 REMARK 500 19 GLU B 71 104.54 -51.42 REMARK 500 20 GLN A 25 101.34 -58.17 REMARK 500 20 PRO A 36 77.68 -69.77 REMARK 500 20 GLN B 25 96.41 -60.85 REMARK 500 20 PRO B 36 74.01 -69.74 REMARK 500 20 GLU B 71 103.90 -51.16 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 REMARK 900 SIDECHAINS CHOSEN 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