HEADER UBIQUITIN 07-APR-99 1UD7 TITLE SOLUTION STRUCTURE OF THE DESIGNED HYDROPHOBIC CORE MUTANT OF TITLE 2 UBIQUITIN, 1D7 COMPND MOL_ID: 1; COMPND 2 MOLECULE: PROTEIN (UBIQUITIN CORE MUTANT 1D7); COMPND 3 CHAIN: A; COMPND 4 ENGINEERED: YES; COMPND 5 MUTATION: YES SOURCE MOL_ID: 1; SOURCE 2 EXPRESSION_SYSTEM: ESCHERICHIA COLI; SOURCE 3 EXPRESSION_SYSTEM_TAXID: 562; SOURCE 4 EXPRESSION_SYSTEM_STRAIN: BL21; SOURCE 5 EXPRESSION_SYSTEM_VARIANT: PLYSS; SOURCE 6 EXPRESSION_SYSTEM_CELLULAR_LOCATION: CYTOPLASM KEYWDS UBIQUITIN, DESIGNED CORE MUTANT EXPDTA SOLUTION NMR NUMMDL 20 AUTHOR E.C.JOHNSON,G.A.LAZAR,J.R.DESJARLAIS,T.M.HANDEL REVDAT 5 27-DEC-23 1UD7 1 REMARK REVDAT 4 03-NOV-21 1UD7 1 REMARK SEQADV REVDAT 3 24-FEB-09 1UD7 1 VERSN REVDAT 2 20-AUG-99 1UD7 1 JRNL REVDAT 1 06-MAY-99 1UD7 0 JRNL AUTH E.C.JOHNSON,G.A.LAZAR,J.R.DESJARLAIS,T.M.HANDEL JRNL TITL SOLUTION STRUCTURE AND DYNAMICS OF A DESIGNED HYDROPHOBIC JRNL TITL 2 CORE VARIANT OF UBIQUITIN. JRNL REF STRUCTURE FOLD.DES. V. 7 967 1999 JRNL REFN ISSN 0969-2126 JRNL PMID 10467150 JRNL DOI 10.1016/S0969-2126(99)80123-3 REMARK 2 REMARK 2 RESOLUTION. NOT APPLICABLE. REMARK 3 REMARK 3 REFINEMENT. REMARK 3 PROGRAM : X-PLOR 3.851 REMARK 3 AUTHORS : BRUNGER REMARK 3 REMARK 3 OTHER REFINEMENT REMARKS: REFINEMENT DETAILS CAN BE FOUND IN THE REMARK 3 JOURNAL CITATION ABOVE REMARK 4 REMARK 4 1UD7 COMPLIES WITH FORMAT V. 3.15, 01-DEC-08 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY RCSB ON 08-APR-99. REMARK 100 THE DEPOSITION ID IS D_1000000811. REMARK 210 REMARK 210 EXPERIMENTAL DETAILS REMARK 210 EXPERIMENT TYPE : NMR REMARK 210 TEMPERATURE (KELVIN) : 303.0 REMARK 210 PH : 5.8 REMARK 210 IONIC STRENGTH : NULL REMARK 210 PRESSURE : 1 ATM REMARK 210 SAMPLE CONTENTS : NULL REMARK 210 REMARK 210 NMR EXPERIMENTS CONDUCTED : 15N EDITED 3D NOESY; 13C EDITED REMARK 210 3D NOESY; 13C/13C EDITED 4D REMARK 210 NOESY; 3D 3JHNHA; 3D HACAHB; 2D REMARK 210 3JNCG; 2D 3JCOCG; LONG RANGE REMARK 210 3JCC; 3D 15N ROESY; 3D 15N TOCSY; REMARK 210 1DNH RESIDUAL DIPOLAR COUPLINGS REMARK 210 SPECTROMETER FIELD STRENGTH : 600 MHZ REMARK 210 SPECTROMETER MODEL : DMX600 REMARK 210 SPECTROMETER MANUFACTURER : BRUKER REMARK 210 REMARK 210 STRUCTURE DETERMINATION. REMARK 210 SOFTWARE USED : X-PLOR REMARK 210 METHOD USED : RESTRAINED MOLECULAR REMARK 210 DYNAMICS/SIULATED ANNEALING REMARK 210 USING THE ARIA PROCEDURE OF REMARK 210 NILGES (NILGES ET AL. (1997) J REMARK 210 MOL BIOL 269, 408-422) AND REMARK 210 EXPLICIT SWAPPING OF NON- REMARK 210 STEREOSPECIFICALLY ASSIGNED REMARK 210 METHYLS AND METHYLENES (FOLMER REMARK 210 ET AL. & NILGES (1997) J BIOMOL REMARK 210 NMR 9, 245-258). REMARK 210 REMARK 210 CONFORMERS, NUMBER CALCULATED : 40 REMARK 210 CONFORMERS, NUMBER SUBMITTED : 20 REMARK 210 CONFORMERS, SELECTION CRITERIA : LOWEST ENERGY REMARK 210 REMARK 210 BEST REPRESENTATIVE CONFORMER IN THIS ENSEMBLE : 1 REMARK 210 REMARK 210 REMARK: THIS STRUCTURE WAS DETERMINED USING TRIPLE- RESONANCE NMR REMARK 210 SPECTROSCOPY ON 13C, 15N LABELED UBIQUITIN 1D7. 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: MONOMERIC REMARK 350 APPLY THE FOLLOWING TO CHAINS: A 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 500 REMARK 500 GEOMETRY AND STEREOCHEMISTRY REMARK 500 SUBTOPIC: CLOSE CONTACTS REMARK 500 REMARK 500 THE FOLLOWING ATOMS ARE IN CLOSE CONTACT. REMARK 500 REMARK 500 ATM1 RES C SSEQI ATM2 RES C SSEQI DISTANCE REMARK 500 O ILE A 30 H GLU A 34 1.54 REMARK 500 REMARK 500 REMARK: NULL 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 ARG A 72 91.16 76.08 REMARK 500 1 LEU A 73 45.37 -143.60 REMARK 500 2 THR A 9 -96.97 -128.59 REMARK 500 2 LEU A 73 132.83 68.98 REMARK 500 2 ARG A 74 159.30 -44.80 REMARK 500 3 THR A 7 -166.83 -101.37 REMARK 500 3 PRO A 19 91.51 -50.55 REMARK 500 3 SER A 20 -3.03 150.09 REMARK 500 3 ASP A 52 56.14 -65.90 REMARK 500 3 ARG A 72 119.23 65.05 REMARK 500 3 LEU A 73 135.87 61.43 REMARK 500 4 ARG A 72 64.05 173.38 REMARK 500 4 LEU A 73 162.61 68.20 REMARK 500 4 ARG A 74 -90.82 -76.60 REMARK 500 5 THR A 7 -167.78 -103.64 REMARK 500 5 LYS A 11 152.93 -28.69 REMARK 500 5 ARG A 72 -0.23 86.57 REMARK 500 5 LEU A 73 165.02 68.69 REMARK 500 5 ARG A 74 93.40 41.94 REMARK 500 6 ASP A 52 58.04 -65.29 REMARK 500 6 ARG A 72 158.76 82.92 REMARK 500 6 LEU A 73 -165.44 61.62 REMARK 500 6 ARG A 74 75.69 -168.17 REMARK 500 7 LYS A 11 156.37 -31.07 REMARK 500 7 ARG A 72 150.01 67.57 REMARK 500 8 LYS A 11 158.25 -31.61 REMARK 500 8 ARG A 74 58.25 85.15 REMARK 500 9 PRO A 19 87.56 -49.94 REMARK 500 9 SER A 20 -6.95 153.42 REMARK 500 10 PRO A 19 86.65 -58.09 REMARK 500 10 SER A 20 -8.17 154.91 REMARK 500 10 GLN A 49 93.57 -69.92 REMARK 500 10 ASP A 52 57.78 -65.77 REMARK 500 10 ARG A 72 68.75 -114.05 REMARK 500 10 ARG A 74 102.21 63.07 REMARK 500 11 LYS A 11 129.49 -12.24 REMARK 500 11 PRO A 19 86.33 -48.88 REMARK 500 11 SER A 20 -5.26 152.28 REMARK 500 11 ASP A 52 57.18 -65.60 REMARK 500 11 ARG A 72 94.47 97.73 REMARK 500 11 ARG A 74 -170.93 52.23 REMARK 500 12 ASP A 52 59.01 -64.91 REMARK 500 12 ARG A 72 109.93 83.84 REMARK 500 12 LEU A 73 53.73 -148.05 REMARK 500 13 ARG A 72 87.23 59.69 REMARK 500 13 ARG A 74 -48.74 -130.60 REMARK 500 14 GLN A 49 96.88 -65.83 REMARK 500 14 ARG A 72 154.30 55.83 REMARK 500 14 LEU A 73 115.04 54.71 REMARK 500 14 ARG A 74 -38.82 -158.86 REMARK 500 REMARK 500 THIS ENTRY HAS 85 RAMACHANDRAN OUTLIERS. REMARK 500 REMARK 500 REMARK: NULL DBREF 1UD7 A 1 76 UNP P02248 UBIQ_HUMANX 41 116 SEQADV 1UD7 VAL A 3 UNP P02248 ILE 43 ENGINEERED MUTATION SEQADV 1UD7 LEU A 5 UNP P02248 VAL 45 ENGINEERED MUTATION SEQADV 1UD7 VAL A 13 UNP P02248 ILE 53 ENGINEERED MUTATION SEQADV 1UD7 ILE A 15 UNP P02248 LEU 55 ENGINEERED MUTATION SEQADV 1UD7 VAL A 23 UNP P02248 ILE 63 ENGINEERED MUTATION SEQADV 1UD7 PHE A 26 UNP P02248 VAL 66 ENGINEERED MUTATION SEQADV 1UD7 ILE A 67 UNP P02248 LEU 107 ENGINEERED MUTATION SEQRES 1 A 76 MET GLN VAL PHE LEU LYS THR LEU THR GLY LYS THR VAL SEQRES 2 A 76 THR ILE GLU VAL GLU PRO SER ASP THR VAL GLU ASN PHE SEQRES 3 A 76 LYS ALA LYS ILE GLN ASP LYS GLU GLY ILE PRO PRO ASP SEQRES 4 A 76 GLN GLN ARG LEU ILE PHE ALA GLY LYS GLN LEU GLU ASP SEQRES 5 A 76 GLY ARG THR LEU SER ASP TYR ASN ILE GLN LYS GLU SER SEQRES 6 A 76 THR ILE HIS LEU VAL LEU ARG LEU ARG GLY GLY HELIX 1 H1 VAL A 23 GLU A 34 1 12 HELIX 2 H2 LEU A 56 TYR A 59 5 4 SHEET 1 S1 1 THR A 12 GLU A 16 0 SHEET 1 S2 1 GLN A 2 LYS A 6 0 SHEET 1 S3 1 THR A 66 LEU A 71 0 SHEET 1 S4 1 GLN A 41 PHE A 45 0 SHEET 1 S5 1 LYS A 48 GLN A 49 0 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