HEADER TRANSCRIPTION 02-MAY-00 1EXE TITLE SOLUTION STRUCTURE OF A MUTANT OF TRANSCRIPTION FACTOR 1. COMPND MOL_ID: 1; COMPND 2 MOLECULE: TRANSCRIPTION FACTOR 1; COMPND 3 CHAIN: A, B; COMPND 4 ENGINEERED: YES; COMPND 5 MUTATION: YES SOURCE MOL_ID: 1; SOURCE 2 ORGANISM_SCIENTIFIC: BACILLUS PHAGE SPO1; SOURCE 3 ORGANISM_TAXID: 10685; SOURCE 4 EXPRESSION_SYSTEM: ESCHERICHIA COLI; SOURCE 5 EXPRESSION_SYSTEM_TAXID: 562; SOURCE 6 EXPRESSION_SYSTEM_VECTOR_TYPE: PLASMID; SOURCE 7 EXPRESSION_SYSTEM_PLASMID: PBTF1X KEYWDS BETA RIBBON ARMS, DNA-BINDING, DNA-BENDING PROTEIN, TRANSCRIPTION EXPDTA SOLUTION NMR NUMMDL 23 AUTHOR W.LIU,H.M.VU,E.P.GEIDUSCHEK,D.R.KEARNS REVDAT 3 03-NOV-21 1EXE 1 REMARK SEQADV REVDAT 2 24-FEB-09 1EXE 1 VERSN REVDAT 1 18-OCT-00 1EXE 0 JRNL AUTH W.LIU,H.M.VU,E.P.GEIDUSCHEK,D.R.KEARNS JRNL TITL SOLUTION STRUCTURE OF A MUTANT OF TRANSCRIPTION FACTOR 1: JRNL TITL 2 IMPLICATIONS FOR ENHANCED DNA BINDING. JRNL REF J.MOL.BIOL. V. 302 821 2000 JRNL REFN ISSN 0022-2836 JRNL PMID 10993726 JRNL DOI 10.1006/JMBI.2000.4084 REMARK 1 REMARK 1 REFERENCE 1 REMARK 1 AUTH H.M.VU,W.LIU,A.GROVE,E.P.GEIDUSCHEK,D.R.KEARNS REMARK 1 TITL MECHANISMS FOR THE ENHANCED THERMAL STABILITY OF A MUTANT OF REMARK 1 TITL 2 TRANSCRIPTION FACTOR 1 AS EXPLAINED BY 1H, 15N AND 13C NMR REMARK 1 TITL 3 CHEMICAL SHIFTS AND SECONDARY STRUCTURE ANALYSIS. REMARK 1 REF BIOCHIM.BIOPHYS.ACTA V.1478 113 2000 REMARK 1 REFN ISSN 0006-3002 REMARK 1 DOI 10.1016/S0167-4838(99)00252-6 REMARK 1 REFERENCE 2 REMARK 1 AUTH X.JIA,A.GROVE,M.IVANCIC,V.L.HSU,E.P.GEIDUSCHEK,D.R.KEARNS REMARK 1 TITL STRUCTURE OF THE BACILLUS SUBTILIS PHAGE SPO1-ENCODED TYPE REMARK 1 TITL 2 II DNA-BINDING PROTEIN TF1 IN SOLUTION. REMARK 1 REF J.MOL.BIOL. V. 263 259 1996 REMARK 1 REFN ISSN 0022-2836 REMARK 1 DOI 10.1006/JMBI.1996.0573 REMARK 2 REMARK 2 RESOLUTION. NOT APPLICABLE. REMARK 3 REMARK 3 REFINEMENT. REMARK 3 PROGRAM : XWINNMR 1.3, X-PLOR 3 REMARK 3 AUTHORS : BRUKER (XWINNMR), BRUNGER (X-PLOR) REMARK 3 REMARK 3 OTHER REFINEMENT REMARKS: THE STRUCTURES WERE BASED ON A TOTAL OF REMARK 3 2008 NOE-DERIVED DISTANCE CONSTRAINTS, 288 DIHEDRAL ANGLE REMARK 3 RESTRAINTS AND 116 H-BOND CONSTRAINTS. REMARK 4 REMARK 4 1EXE COMPLIES WITH FORMAT V. 3.15, 01-DEC-08 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY RCSB ON 04-MAY-00. REMARK 100 THE DEPOSITION ID IS D_1000010994. REMARK 210 REMARK 210 EXPERIMENTAL DETAILS REMARK 210 EXPERIMENT TYPE : NMR REMARK 210 TEMPERATURE (KELVIN) : 308; 308; 308 REMARK 210 PH : 6.7; 6.7; 6.7 REMARK 210 IONIC STRENGTH : 400 MM NACL; 400 MM NACL; 400 MM REMARK 210 NACL REMARK 210 PRESSURE : AMBIENT; AMBIENT; AMBIENT REMARK 210 SAMPLE CONTENTS : 2 MM TF1-G15/I32, 100 MM REMARK 210 PHOSPHATE BUFFER; 2 MM TF1-G15/ REMARK 210 I32, U-15N, 100 MM PHOSPHATE REMARK 210 BUFFER; 2 MM TF1-G15/I32, U-15N, REMARK 210 13C, 100 MM PHOSPHATE BUFFER REMARK 210 REMARK 210 NMR EXPERIMENTS CONDUCTED : 2D NOESY; DQF-COSY; 3D_15N REMARK 210 -SEPARATED_NOESY; 3D_13C- REMARK 210 SEPARATED_NOESY; HNCA-J REMARK 210 SPECTROMETER FIELD STRENGTH : 500 MHZ; 600 MHZ REMARK 210 SPECTROMETER MODEL : AMX; DRX REMARK 210 SPECTROMETER MANUFACTURER : BRUKER REMARK 210 REMARK 210 STRUCTURE DETERMINATION. REMARK 210 SOFTWARE USED : FELIX 97, X-PLOR 3 REMARK 210 METHOD USED : DISTANCE GEOMETRY, SIMULATED REMARK 210 ANNEALING, MOLECULAR DYNAMICS REMARK 210 REMARK 210 CONFORMERS, NUMBER CALCULATED : 50 REMARK 210 CONFORMERS, NUMBER SUBMITTED : 23 REMARK 210 CONFORMERS, SELECTION CRITERIA : STRUCTURES WITH ACCEPTABLE REMARK 210 COVALENT GEOMETRY,STRUCTURES REMARK 210 WITH THE LEAST RESTRAINT REMARK 210 VIOLATIONS,STRUCTURES WITH THE REMARK 210 LOWEST ENERGY REMARK 210 REMARK 210 BEST REPRESENTATIVE CONFORMER IN THIS ENSEMBLE : 1 REMARK 210 REMARK 210 REMARK: NULL 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 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 H PHE A 61 H ALA A 68 1.02 REMARK 500 O LYS B 30 HB2 GLU B 34 1.35 REMARK 500 O SER A 20 H LYS A 23 1.35 REMARK 500 N PHE A 61 H ALA A 68 1.46 REMARK 500 O GLU A 83 H LYS A 87 1.46 REMARK 500 O SER B 20 H LYS B 23 1.48 REMARK 500 O ILE A 31 H THR A 35 1.49 REMARK 500 O ILE A 7 H ALA A 11 1.53 REMARK 500 O PHE B 28 H ILE B 32 1.53 REMARK 500 O LYS A 30 HB2 GLU A 34 1.57 REMARK 500 O SER B 20 H MET B 24 1.59 REMARK 500 OD1 ASN B 2 H GLU B 5 1.60 REMARK 500 O GLY A 60 O PHE A 61 1.71 REMARK 500 O SER A 20 N SER A 22 1.85 REMARK 500 O ILE A 10 OG1 THR A 14 1.98 REMARK 500 O SER B 20 N LYS B 23 1.99 REMARK 500 O ILE B 10 OG1 THR B 14 2.06 REMARK 500 O SER A 20 N LYS A 23 2.08 REMARK 500 O LYS B 30 CB GLU B 34 2.09 REMARK 500 REMARK 500 REMARK: NULL REMARK 500 REMARK 500 GEOMETRY AND STEREOCHEMISTRY REMARK 500 SUBTOPIC: COVALENT BOND ANGLES REMARK 500 REMARK 500 THE STEREOCHEMICAL PARAMETERS OF THE FOLLOWING RESIDUES REMARK 500 HAVE VALUES WHICH DEVIATE FROM EXPECTED VALUES BY MORE REMARK 500 THAN 6*RMSD (M=MODEL NUMBER; RES=RESIDUE NAME; C=CHAIN REMARK 500 IDENTIFIER; SSEQ=SEQUENCE NUMBER; I=INSERTION CODE). REMARK 500 REMARK 500 STANDARD TABLE: REMARK 500 FORMAT: (10X,I3,1X,A3,1X,A1,I4,A1,3(1X,A4,2X),12X,F5.1) REMARK 500 REMARK 500 EXPECTED VALUES PROTEIN: ENGH AND HUBER, 1999 REMARK 500 EXPECTED VALUES NUCLEIC ACID: CLOWNEY ET AL 1996 REMARK 500 REMARK 500 M RES CSSEQI ATM1 ATM2 ATM3 REMARK 500 5 ALA B 98 N - CA - CB ANGL. DEV. = -8.6 DEGREES REMARK 500 6 ALA A 98 N - CA - CB ANGL. DEV. = -8.7 DEGREES REMARK 500 12 ALA B 72 N - CA - CB ANGL. DEV. = -9.4 DEGREES REMARK 500 19 ALA A 98 N - CA - CB ANGL. DEV. = -8.4 DEGREES 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 ASN A 2 -167.55 -174.12 REMARK 500 1 THR A 14 -76.12 -93.00 REMARK 500 1 THR A 17 0.74 -150.70 REMARK 500 1 VAL A 19 -95.80 -4.98 REMARK 500 1 VAL A 21 -40.86 -4.29 REMARK 500 1 THR A 45 -95.54 33.20 REMARK 500 1 ARG A 55 -151.18 -141.21 REMARK 500 1 GLN A 56 -175.33 -177.43 REMARK 500 1 ALA A 57 148.98 -172.90 REMARK 500 1 ARG A 58 147.30 -176.17 REMARK 500 1 LYS A 59 39.16 135.26 REMARK 500 1 PHE A 61 -155.70 -11.71 REMARK 500 1 ASN A 62 -56.94 170.57 REMARK 500 1 GLN A 64 -111.55 -116.22 REMARK 500 1 GLN A 66 118.80 58.23 REMARK 500 1 GLU A 67 41.81 137.17 REMARK 500 1 ALA A 68 96.67 163.06 REMARK 500 1 LEU A 69 -148.76 -152.18 REMARK 500 1 GLU A 70 67.75 -177.19 REMARK 500 1 ILE A 71 -152.38 -115.41 REMARK 500 1 ALA A 72 56.33 -179.94 REMARK 500 1 SER A 74 95.87 -161.89 REMARK 500 1 SER A 78 -166.41 -58.87 REMARK 500 1 PRO A 81 74.30 -106.32 REMARK 500 1 LYS A 93 44.02 157.06 REMARK 500 1 ASN B 2 -174.02 -176.47 REMARK 500 1 LYS B 3 -16.37 -49.53 REMARK 500 1 THR B 14 -85.76 -113.54 REMARK 500 1 LEU B 16 -66.00 -13.93 REMARK 500 1 VAL B 19 -96.24 -4.94 REMARK 500 1 VAL B 21 -40.52 -24.42 REMARK 500 1 THR B 45 -89.83 33.07 REMARK 500 1 ARG B 55 17.62 -158.57 REMARK 500 1 GLN B 56 147.02 -173.50 REMARK 500 1 ALA B 57 21.80 -165.81 REMARK 500 1 LYS B 59 36.62 -174.57 REMARK 500 1 ASN B 62 -171.19 -56.22 REMARK 500 1 GLN B 64 -94.05 -135.47 REMARK 500 1 THR B 65 -30.88 -174.92 REMARK 500 1 GLU B 67 47.39 -89.37 REMARK 500 1 ALA B 68 152.77 -47.92 REMARK 500 1 LEU B 69 -162.83 -127.48 REMARK 500 1 GLU B 70 79.87 173.96 REMARK 500 1 ALA B 72 124.09 135.78 REMARK 500 1 VAL B 75 145.23 -19.41 REMARK 500 1 VAL B 79 172.99 -46.90 REMARK 500 1 LYS B 80 175.74 178.15 REMARK 500 1 LEU B 92 -71.67 -113.03 REMARK 500 2 ASN A 2 -158.30 -166.93 REMARK 500 2 LYS A 3 -8.04 -56.02 REMARK 500 REMARK 500 THIS ENTRY HAS 1093 RAMACHANDRAN OUTLIERS. REMARK 500 REMARK 500 REMARK: NULL REMARK 500 REMARK 500 GEOMETRY AND STEREOCHEMISTRY REMARK 500 SUBTOPIC: PLANAR GROUPS REMARK 500 REMARK 500 PLANAR GROUPS IN THE FOLLOWING RESIDUES HAVE A TOTAL REMARK 500 RMS DISTANCE OF ALL ATOMS FROM THE BEST-FIT PLANE REMARK 500 BY MORE THAN AN EXPECTED VALUE OF 6*RMSD, WITH AN REMARK 500 RMSD 0.02 ANGSTROMS, OR AT LEAST ONE ATOM HAS REMARK 500 AN RMSD GREATER THAN THIS VALUE REMARK 500 (M=MODEL NUMBER; RES=RESIDUE NAME; C=CHAIN IDENTIFIER; REMARK 500 SSEQ=SEQUENCE NUMBER; I=INSERTION CODE). REMARK 500 REMARK 500 M RES CSSEQI RMS TYPE REMARK 500 1 ARG A 55 0.24 SIDE CHAIN REMARK 500 1 ARG A 58 0.25 SIDE CHAIN REMARK 500 1 ARG B 55 0.24 SIDE CHAIN REMARK 500 1 ARG B 58 0.24 SIDE CHAIN REMARK 500 2 ARG A 55 0.26 SIDE CHAIN REMARK 500 2 ARG A 58 0.31 SIDE CHAIN REMARK 500 2 ARG B 55 0.32 SIDE CHAIN REMARK 500 2 ARG B 58 0.31 SIDE CHAIN REMARK 500 3 ARG A 55 0.29 SIDE CHAIN REMARK 500 3 ARG A 58 0.21 SIDE CHAIN REMARK 500 3 ARG B 55 0.25 SIDE CHAIN REMARK 500 3 ARG B 58 0.30 SIDE CHAIN REMARK 500 4 ARG A 55 0.31 SIDE CHAIN REMARK 500 4 ARG A 58 0.32 SIDE CHAIN REMARK 500 4 ARG B 55 0.32 SIDE CHAIN REMARK 500 4 ARG B 58 0.22 SIDE CHAIN REMARK 500 5 ARG A 55 0.31 SIDE CHAIN REMARK 500 5 ARG A 58 0.23 SIDE CHAIN REMARK 500 5 ARG B 55 0.26 SIDE CHAIN REMARK 500 5 ARG B 58 0.24 SIDE CHAIN REMARK 500 6 ARG A 55 0.32 SIDE CHAIN REMARK 500 6 ARG A 58 0.18 SIDE CHAIN REMARK 500 6 ARG B 55 0.30 SIDE CHAIN REMARK 500 6 ARG B 58 0.24 SIDE CHAIN REMARK 500 7 ARG A 55 0.24 SIDE CHAIN REMARK 500 7 ARG A 58 0.23 SIDE CHAIN REMARK 500 7 ARG B 55 0.32 SIDE CHAIN REMARK 500 7 ARG B 58 0.31 SIDE CHAIN REMARK 500 8 ARG A 55 0.29 SIDE CHAIN REMARK 500 8 ARG B 55 0.27 SIDE CHAIN REMARK 500 8 ARG B 58 0.22 SIDE CHAIN REMARK 500 9 ARG A 55 0.27 SIDE CHAIN REMARK 500 9 ARG A 58 0.29 SIDE CHAIN REMARK 500 9 ARG B 55 0.31 SIDE CHAIN REMARK 500 9 ARG B 58 0.28 SIDE CHAIN REMARK 500 10 ARG A 55 0.24 SIDE CHAIN REMARK 500 10 ARG A 58 0.21 SIDE CHAIN REMARK 500 10 ARG B 55 0.27 SIDE CHAIN REMARK 500 10 ARG B 58 0.29 SIDE CHAIN REMARK 500 11 ARG A 55 0.25 SIDE CHAIN REMARK 500 11 ARG A 58 0.31 SIDE CHAIN REMARK 500 11 ARG B 55 0.25 SIDE CHAIN REMARK 500 11 ARG B 58 0.32 SIDE CHAIN REMARK 500 12 ARG A 55 0.23 SIDE CHAIN REMARK 500 12 ARG A 58 0.30 SIDE CHAIN REMARK 500 12 ARG B 55 0.24 SIDE CHAIN REMARK 500 12 ARG B 58 0.32 SIDE CHAIN REMARK 500 13 ARG A 55 0.32 SIDE CHAIN REMARK 500 13 ARG A 58 0.30 SIDE CHAIN REMARK 500 13 ARG B 55 0.21 SIDE CHAIN REMARK 500 REMARK 500 THIS ENTRY HAS 90 PLANE DEVIATIONS. REMARK 500 REMARK 500 REMARK: NULL REMARK 900 REMARK 900 RELATED ENTRIES REMARK 900 RELATED ID: 1WTU RELATED DB: PDB REMARK 900 SOLUTION STRUCTURE OF WILD TYPE TRANSCRIPTION FACTOR 1. DBREF 1EXE A 1 99 UNP P04445 TF1_BPSP1 1 99 DBREF 1EXE B 1 99 UNP P04445 TF1_BPSP1 1 99 SEQADV 1EXE GLY A 15 UNP P04445 GLU 15 ENGINEERED MUTATION SEQADV 1EXE ILE A 32 UNP P04445 THR 32 ENGINEERED MUTATION SEQADV 1EXE GLY B 15 UNP P04445 GLU 15 ENGINEERED MUTATION SEQADV 1EXE ILE B 32 UNP P04445 THR 32 ENGINEERED MUTATION SEQRES 1 A 99 MET ASN LYS THR GLU LEU ILE LYS ALA ILE ALA GLN ASP SEQRES 2 A 99 THR GLY LEU THR GLN VAL SER VAL SER LYS MET LEU ALA SEQRES 3 A 99 SER PHE GLU LYS ILE ILE THR GLU THR VAL ALA LYS GLY SEQRES 4 A 99 ASP LYS VAL GLN LEU THR GLY PHE LEU ASN ILE LYS PRO SEQRES 5 A 99 VAL ALA ARG GLN ALA ARG LYS GLY PHE ASN PRO GLN THR SEQRES 6 A 99 GLN GLU ALA LEU GLU ILE ALA PRO SER VAL GLY VAL SER SEQRES 7 A 99 VAL LYS PRO GLY GLU SER LEU LYS LYS ALA ALA GLU GLY SEQRES 8 A 99 LEU LYS TYR GLU ASP PHE ALA LYS SEQRES 1 B 99 MET ASN LYS THR GLU LEU ILE LYS ALA ILE ALA GLN ASP SEQRES 2 B 99 THR GLY LEU THR GLN VAL SER VAL SER LYS MET LEU ALA SEQRES 3 B 99 SER PHE GLU LYS ILE ILE THR GLU THR VAL ALA LYS GLY SEQRES 4 B 99 ASP LYS VAL GLN LEU THR GLY PHE LEU ASN ILE LYS PRO SEQRES 5 B 99 VAL ALA ARG GLN ALA ARG LYS GLY PHE ASN PRO GLN THR SEQRES 6 B 99 GLN GLU ALA LEU GLU ILE ALA PRO SER VAL GLY VAL SER SEQRES 7 B 99 VAL LYS PRO GLY GLU SER LEU LYS LYS ALA ALA GLU GLY SEQRES 8 B 99 LEU LYS TYR GLU ASP PHE ALA LYS HELIX 1 1 THR A 4 GLY A 15 1 12 HELIX 2 2 SER A 20 GLY A 39 1 20 HELIX 3 3 GLY A 82 LYS A 93 1 12 HELIX 4 4 LYS A 93 LYS A 99 1 7 HELIX 5 5 THR B 4 THR B 14 1 11 HELIX 6 6 SER B 20 GLY B 39 1 20 HELIX 7 7 GLY B 82 LEU B 92 1 11 HELIX 8 8 LYS B 93 LYS B 99 1 7 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