HEADER CELL INVASION 29-JUL-05 2AIC OBSLTE 27-MAR-07 2AIC 2JOL TITLE NMR STRUCTURE OF THE CATALYTIC DOMAIN OF GUANINE NUCLEOTIDE TITLE 2 EXCHANGE FACTOR BOPE FROM BURKHOLDERIA PSEUDOMALLEI COMPND MOL_ID: 1; COMPND 2 MOLECULE: GUANINE NUCLEOTIDE EXCHANGE FACTOR BOPE; COMPND 3 CHAIN: A; COMPND 4 FRAGMENT: GEF DOMAIN, RESIDUES 78-261; COMPND 5 SYNONYM: G-NUCLEOTIDE EXCHANGE FACTOR; COMPND 6 ENGINEERED: YES SOURCE MOL_ID: 1; SOURCE 2 ORGANISM_SCIENTIFIC: BURKHOLDERIA PSEUDOMALLEI; SOURCE 3 ORGANISM_COMMON: BACTERIA; SOURCE 4 STRAIN: K96243; SOURCE 5 GENE: BOPE; SOURCE 6 EXPRESSION_SYSTEM: ESCHERICHIA COLI; SOURCE 7 EXPRESSION_SYSTEM_COMMON: BACTERIA; SOURCE 8 EXPRESSION_SYSTEM_STRAIN: BL21(DE3); SOURCE 9 EXPRESSION_SYSTEM_VECTOR_TYPE: PLASMID; SOURCE 10 EXPRESSION_SYSTEM_PLASMID: PGEX-2T KEYWDS THREE-HELIX BUNDLES EXPDTA NMR, 20 STRUCTURES AUTHOR H.L.WU,A.UPADHYAY,C.WILLIAMS,E.E.GALYOV,J.M.H.ELSEN,S.BAGBY REVDAT 2 27-MAR-07 2AIC 1 OBSLTE REVDAT 1 21-NOV-06 2AIC 0 JRNL AUTH H.L.WU,A.UPADHYAY,C.WILLIAMS,E.E.GALYOV, JRNL AUTH 2 J.M.H.ELSEN,S.BAGBY JRNL TITL GUANINE NUCLEOTIDE EXCHANGE FACTOR BOPE FROM JRNL TITL 2 BURKHOLDERIA PSEUDOMALLEI ADOPTS A COMPACT VERSION JRNL TITL 3 OF THE SALMONELLA SOPE/SOPE2 FOLD JRNL REF TO BE PUBLISHED JRNL REFN REMARK 1 REMARK 2 REMARK 2 RESOLUTION. NOT APPLICABLE. REMARK 3 REMARK 3 REFINEMENT. REMARK 3 PROGRAM : PROCHECK-NMR V.3.5.4 REMARK 3 AUTHORS : LASKOWSKI, R.A. ET AL REMARK 3 REMARK 3 OTHER REFINEMENT REMARKS: NULL REMARK 4 REMARK 4 2AIC COMPLIES WITH FORMAT V. 3.0, 1-DEC-2006 REMARK 4 REMARK 4 THIS FILE IS A TEST VERSION. REMARK 4 REMARK 4 THIS IS THE REMEDIATED VERSION OF THIS PDB ENTRY. REMARK 4 REMEDIATED DATA FILE REVISION 3.100 (2007-03-17) REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY RCSB ON 12-SEP-2005. REMARK 100 THE RCSB ID CODE IS RCSB033930. REMARK 210 REMARK 210 EXPERIMENTAL DETAILS REMARK 210 EXPERIMENT TYPE : NMR REMARK 210 TEMPERATURE (KELVIN) : 298 REMARK 210 PH : 5.5 REMARK 210 IONIC STRENGTH : 50 MM NACL REMARK 210 PRESSURE : AMBIENT REMARK 210 SAMPLE CONTENTS : 10 MG OF BOPE IN 0.5 ML OF 20 REMARK 210 MM POTASSIUM PHOSPHATE, PH REMARK 210 5.5, 50MM NACL, 10 MM DTT, 1 REMARK 210 MM EDTA, 1MM BENZAMIDINE 50 UM REMARK 210 NAN3, 95% H2O AND 5% D2O; 10 REMARK 210 MG OF BOPE IN 0.5 ML OF 20 MM REMARK 210 POTASSIUM PHOSPHATE, PH 5.5, REMARK 210 50MM NACL, 10 MM DTT, 1 MM REMARK 210 EDTA, 1MM BENZAMIDINE 50 UM REMARK 210 NAN3 AND 100% D2O REMARK 210 REMARK 210 NMR EXPERIMENTS CONDUCTED : 2D TOCSY, 3D_13C-SEPARATED_ REMARK 210 NOESY, 3D_15N-SEPARATED_NOESY, REMARK 210 2D NOESY REMARK 210 SPECTROMETER FIELD STRENGTH : 600 MHZ REMARK 210 SPECTROMETER MODEL : INOVA REMARK 210 SPECTROMETER MANUFACTURER : VARIAN REMARK 210 REMARK 210 STRUCTURE DETERMINATION. REMARK 210 SOFTWARE USED : NMRPIPE, TALOS 98.040.21.02, REMARK 210 XPLOR-NIH 2.9.6, SPARKY 3.110, REMARK 210 VNMR 6.1C REMARK 210 METHOD USED : SIMULATED ANNEALING REMARK 210 REMARK 210 CONFORMERS, NUMBER CALCULATED : 100 REMARK 210 CONFORMERS, NUMBER SUBMITTED : 20 REMARK 210 CONFORMERS, SELECTION CRITERIA : STRUCTURES WITH THE LOWEST REMARK 210 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 465 REMARK 465 MISSING RESIDUES REMARK 465 THE FOLLOWING RESIDUES WERE NOT LOCATED IN THE REMARK 465 EXPERIMENT. (M=MODEL NUMBER; RES=RESIDUE NAME; C=CHAIN REMARK 465 IDENTIFIER; SSSEQ=SEQUENCE NUMBER; I=INSERTION CODE.) REMARK 465 REMARK 465 M RES C SSSEQI REMARK 465 1 GLY A 76 REMARK 465 1 SER A 77 REMARK 465 2 GLY A 76 REMARK 465 2 SER A 77 REMARK 465 3 GLY A 76 REMARK 465 3 SER A 77 REMARK 465 4 GLY A 76 REMARK 465 4 SER A 77 REMARK 465 5 GLY A 76 REMARK 465 5 SER A 77 REMARK 465 6 GLY A 76 REMARK 465 6 SER A 77 REMARK 465 7 GLY A 76 REMARK 465 7 SER A 77 REMARK 465 8 GLY A 76 REMARK 465 8 SER A 77 REMARK 465 9 GLY A 76 REMARK 465 9 SER A 77 REMARK 465 10 GLY A 76 REMARK 465 10 SER A 77 REMARK 465 11 GLY A 76 REMARK 465 11 SER A 77 REMARK 465 12 GLY A 76 REMARK 465 12 SER A 77 REMARK 465 13 GLY A 76 REMARK 465 13 SER A 77 REMARK 465 14 GLY A 76 REMARK 465 14 SER A 77 REMARK 465 15 GLY A 76 REMARK 465 15 SER A 77 REMARK 465 16 GLY A 76 REMARK 465 16 SER A 77 REMARK 465 17 GLY A 76 REMARK 465 17 SER A 77 REMARK 465 18 GLY A 76 REMARK 465 18 SER A 77 REMARK 465 19 GLY A 76 REMARK 465 19 SER A 77 REMARK 465 20 GLY A 76 REMARK 465 20 SER A 77 REMARK 500 REMARK 500 GEOMETRY AND STEREOCHEMISTRY REMARK 500 SUBTOPIC: COVALENT BOND LENGTHS 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,2(A3,1X,A1,I4,A1,1X,A4,3X),F6.3) REMARK 500 REMARK 500 EXPECTED VALUES: ENGH AND HUBER, 1991 REMARK 500 REMARK 500 M RES CSSEQI ATM1 RES CSSEQI ATM2 DEVIATION REMARK 500 7 GLN A 83 CG GLN A 83 CD -0.155 REMARK 500 7 GLN A 83 CD GLN A 83 OE1 -0.208 REMARK 500 7 GLN A 83 CD GLN A 83 NE2 -0.237 REMARK 500 7 HIS A 98 CG HIS A 98 ND1 -0.312 REMARK 500 7 HIS A 98 CE1 HIS A 98 NE2 -0.363 REMARK 500 7 ASP A 107 CB ASP A 107 CG -1.275 REMARK 500 7 ASP A 107 CG ASP A 107 OD1 -1.081 REMARK 500 7 ASP A 107 CG ASP A 107 OD2 -0.958 REMARK 500 7 ARG A 112 CG ARG A 112 CD -0.243 REMARK 500 7 ARG A 112 NE ARG A 112 CZ -0.250 REMARK 500 7 ARG A 112 CZ ARG A 112 NH1 -0.345 REMARK 500 7 GLU A 116 CD GLU A 116 OE1 -0.282 REMARK 500 7 GLU A 116 CD GLU A 116 OE2 -0.247 REMARK 500 7 CYS A 131 CB CYS A 131 SG -0.414 REMARK 500 7 MET A 132 SD MET A 132 CE -0.157 REMARK 500 7 ASN A 140 CG ASN A 140 OD1 -0.216 REMARK 500 7 ASN A 140 CG ASN A 140 ND2 -0.184 REMARK 500 7 MET A 189 SD MET A 189 CE -0.311 REMARK 500 7 GLN A 209 CD GLN A 209 OE1 -0.458 REMARK 500 7 GLN A 209 CD GLN A 209 NE2 -0.371 REMARK 500 7 ASN A 224 CG ASN A 224 OD1 -0.551 REMARK 500 7 ASN A 224 CG ASN A 224 ND2 -0.409 REMARK 500 7 GLU A 228 CD GLU A 228 OE1 -0.218 REMARK 500 7 GLU A 228 CD GLU A 228 OE2 -0.194 REMARK 500 7 SER A 248 CB SER A 248 OG -0.215 REMARK 500 7 ASN A 256 CB ASN A 256 CG -0.158 REMARK 500 7 ASN A 256 CG ASN A 256 OD1 -0.186 REMARK 500 7 ASN A 256 CG ASN A 256 ND2 -0.166 REMARK 500 7 ASP A 259 CG ASP A 259 OD2 -0.158 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: ENGH AND HUBER, 1991 REMARK 500 REMARK 500 M RES CSSEQI ATM1 ATM2 ATM3 REMARK 500 7 HIS A 98 CB - CG - CD2 ANGL. DEV. = 12.0 DEGREES REMARK 500 7 HIS A 98 ND1 - CG - CD2 ANGL. DEV. =-18.5 DEGREES REMARK 500 7 HIS A 98 CE1 - NE2 - CD2 ANGL. DEV. =-15.6 DEGREES REMARK 500 7 HIS A 98 CG - CD2 - NE2 ANGL. DEV. = 19.2 DEGREES REMARK 500 7 ASP A 107 CA - CB - CG ANGL. DEV. = 39.3 DEGREES REMARK 500 7 ASP A 107 OD1 - CG - OD2 ANGL. DEV. = 24.3 DEGREES REMARK 500 7 ASP A 107 CB - CG - OD1 ANGL. DEV. =-54.8 DEGREES REMARK 500 7 ASP A 107 CB - CG - OD2 ANGL. DEV. = 30.8 DEGREES REMARK 500 7 ARG A 112 NE - CZ - NH1 ANGL. DEV. =-14.9 DEGREES REMARK 500 7 GLU A 116 OE1 - CD - OE2 ANGL. DEV. =-11.4 DEGREES REMARK 500 7 GLN A 209 OE1 - CD - NE2 ANGL. DEV. =-34.7 DEGREES REMARK 500 7 GLN A 209 CG - CD - OE1 ANGL. DEV. = 11.4 DEGREES REMARK 500 7 GLN A 209 CG - CD - NE2 ANGL. DEV. = 23.6 DEGREES REMARK 500 7 ASN A 224 OD1 - CG - ND2 ANGL. DEV. =-42.5 DEGREES REMARK 500 7 ASN A 224 CB - CG - OD1 ANGL. DEV. = 13.9 DEGREES REMARK 500 7 ASN A 224 CB - CG - ND2 ANGL. DEV. = 28.8 DEGREES 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 M RES CSSEQI PSI PHI REMARK 500 1 ARG A 137 -47.88 61.37 REMARK 500 1 ALA A 191 -43.65 66.02 REMARK 500 1 GLN A 203 169.74 70.90 REMARK 500 2 SER A 170 -104.09 58.78 REMARK 500 2 ASN A 175 153.45 71.07 REMARK 500 2 ALA A 191 -30.35 67.19 REMARK 500 3 GLU A 109 -67.79 85.14 REMARK 500 3 ALA A 191 -46.83 64.39 REMARK 500 4 LEU A 158 168.96 42.65 REMARK 500 4 ALA A 172 -50.87 61.49 REMARK 500 4 ALA A 257 -55.70 67.11 REMARK 500 5 ALA A 108 127.60 72.64 REMARK 500 5 ALA A 172 -51.05 61.70 REMARK 500 5 ALA A 191 -32.48 65.86 REMARK 500 6 GLN A 164 -34.73 60.77 REMARK 500 6 ALA A 191 -43.46 63.26 REMARK 500 6 ASP A 259 -91.21 33.94 REMARK 500 7 SER A 170 -101.68 56.72 REMARK 500 7 LEU A 177 -106.70 -174.60 REMARK 500 7 ALA A 191 -38.50 66.52 REMARK 500 8 GLU A 109 -98.32 178.21 REMARK 500 8 ALA A 191 -38.53 62.74 REMARK 500 8 ASP A 259 -49.79 62.61 REMARK 500 9 GLN A 164 -38.48 64.84 REMARK 500 9 SER A 170 -49.41 67.19 REMARK 500 9 ALA A 191 -37.15 68.05 REMARK 500 10 ALA A 172 -45.77 62.54 REMARK 500 11 ALA A 108 142.40 78.31 REMARK 500 11 GLU A 109 -95.50 173.70 REMARK 500 11 THR A 174 -133.76 167.69 REMARK 500 12 SER A 170 -111.49 71.27 REMARK 500 12 ALA A 191 -40.47 63.95 REMARK 500 13 SER A 170 -70.05 60.59 REMARK 500 13 ALA A 172 -58.61 61.86 REMARK 500 13 ALA A 258 -44.79 67.64 REMARK 500 14 LEU A 158 157.85 74.92 REMARK 500 14 ALA A 191 -43.06 63.85 REMARK 500 14 ASP A 259 -48.62 63.49 REMARK 500 15 SER A 170 -106.96 66.68 REMARK 500 15 ALA A 191 -45.57 63.87 REMARK 500 15 ASP A 259 -54.18 58.00 REMARK 500 16 GLN A 164 -38.97 66.95 REMARK 500 16 ALA A 191 -37.78 62.97 REMARK 500 16 ALA A 258 -42.68 66.78 REMARK 500 17 ALA A 108 133.80 78.50 REMARK 500 17 LEU A 177 -67.05 66.25 REMARK 500 17 ALA A 191 -44.61 63.51 REMARK 500 18 GLN A 164 -34.68 63.56 REMARK 500 18 ALA A 191 -42.85 64.62 REMARK 500 19 ALA A 191 -40.71 64.14 REMARK 500 19 THR A 255 -44.33 55.03 REMARK 500 19 ALA A 258 -44.88 61.28 REMARK 500 20 ALA A 191 -43.38 61.79 REMARK 500 20 ASP A 259 -56.11 63.97 REMARK 900 REMARK 900 RELATED ENTRIES REMARK 900 RELATED ID: BMRB-5974 RELATED DB: BMRB REMARK 900 ASSIGNMENTS OF THE CATALYTIC DOMAIN OF GUANINE NUCLEOTIDE REMARK 900 EXCHANGE FACTOR BOPE FROM BURKHOLDERIA PSEUDOMALLEI REMARK 900 RELATED ID: 1R6E RELATED DB: PDB REMARK 900 NMR SOLUTION STRUCTURE OF THE CATALYTIC DOMAIN OF SOPE2 DBREF 2AIC A 78 261 GB 52212960 CAH38998 78 261 SEQRES 1 A 186 GLY SER THR GLY ASP ALA LYS GLN ALA ILE ARG HIS PHE SEQRES 2 A 186 VAL ASP GLU ALA VAL LYS GLN VAL ALA HIS ALA ARG THR SEQRES 3 A 186 PRO GLU ILE ARG GLN ASP ALA GLU PHE GLY ARG GLN VAL SEQRES 4 A 186 TYR GLU ALA THR LEU CYS ALA ILE PHE SER GLU ALA LYS SEQRES 5 A 186 ASP ARG PHE CYS MET ASP PRO ALA THR ARG ALA GLY ASN SEQRES 6 A 186 VAL ARG PRO ALA PHE ILE GLU ALA LEU GLY ASP ALA ALA SEQRES 7 A 186 ARG ALA THR GLY LEU PRO GLY ALA ASP LYS GLN GLY VAL SEQRES 8 A 186 PHE THR PRO SER GLY ALA GLY THR ASN PRO LEU TYR THR SEQRES 9 A 186 GLU ILE ARG LEU ARG ALA ASP THR LEU MET GLY ALA GLU SEQRES 10 A 186 LEU ALA ALA ARG PRO GLU TYR ARG GLU LEU GLN PRO TYR SEQRES 11 A 186 ALA ARG GLN GLN ALA ILE ASP LEU VAL ALA ASN ALA LEU SEQRES 12 A 186 PRO ALA GLU ARG SER ASN THR LEU VAL GLU PHE ARG GLN SEQRES 13 A 186 THR VAL GLN THR LEU GLU ALA THR TYR ARG ARG ALA ALA SEQRES 14 A 186 GLN ASP ALA SER ARG ASP GLU LYS GLY ALA THR ASN ALA SEQRES 15 A 186 ALA ASP GLY ALA HELIX 1 1 ASP A 80 ARG A 100 1 21 HELIX 2 2 GLU A 103 ALA A 108 1 6 HELIX 3 3 GLU A 109 ASP A 133 1 25 HELIX 4 4 VAL A 141 GLY A 157 1 17 HELIX 5 5 LEU A 177 MET A 189 1 13 HELIX 6 6 ALA A 191 ARG A 196 1 6 HELIX 7 7 TYR A 199 GLN A 203 5 5 HELIX 8 8 TYR A 205 LEU A 218 1 14 HELIX 9 9 ALA A 220 LYS A 252 1 33 SHEET 1 A 2 ALA A 161 LYS A 163 0 SHEET 2 A 2 VAL A 166 THR A 168 -1 O VAL A 166 N LYS A 163 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