HEADER LYASE 03-AUG-15 5D0G TITLE CRYSTAL STRUCTURE OF TRIPLE MUTANT (KDA TO EGY) OF ADENYLYL CYCLASE TITLE 2 MA1120 FROM MYCOBACTERIUM AVIUM IN COMPLEX WITH GTP AND CALCIUM ION COMPND MOL_ID: 1; COMPND 2 MOLECULE: CYCLASE; COMPND 3 CHAIN: A, B; COMPND 4 FRAGMENT: UNP RESIDUES 106-275; COMPND 5 ENGINEERED: YES; COMPND 6 MUTATION: YES SOURCE MOL_ID: 1; SOURCE 2 ORGANISM_SCIENTIFIC: MYCOBACTERIUM AVIUM SUBSP. AVIUM 10-9275; SOURCE 3 ORGANISM_TAXID: 1391991; SOURCE 4 GENE: O972_06080; SOURCE 5 EXPRESSION_SYSTEM: ESCHERICHIA COLI BL21(DE3); SOURCE 6 EXPRESSION_SYSTEM_TAXID: 469008; SOURCE 7 EXPRESSION_SYSTEM_STRAIN: BL21(DE3); SOURCE 8 EXPRESSION_SYSTEM_VECTOR_TYPE: PLASMID; SOURCE 9 EXPRESSION_SYSTEM_PLASMID: PPROEXHT KEYWDS ADENYLYL CYCLASE, GTP, LYASE EXPDTA X-RAY DIFFRACTION AUTHOR N.G.BHARAMBE,K.SUGUNA REVDAT 4 08-NOV-23 5D0G 1 REMARK LINK REVDAT 3 02-NOV-16 5D0G 1 JRNL REVDAT 2 07-SEP-16 5D0G 1 JRNL REVDAT 1 10-AUG-16 5D0G 0 JRNL AUTH N.G.BHARAMBE,D.V.BARATHY,W.SYED,S.S.VISWESWARIAH, JRNL AUTH 2 M.COLA SIGMAF O,S.MISQUITH,K.SUGUNA JRNL TITL SUBSTRATE SPECIFICITY DETERMINANTS OF CLASS III NUCLEOTIDYL JRNL TITL 2 CYCLASES JRNL REF FEBS J. V. 283 3723 2016 JRNL REFN ISSN 1742-464X JRNL PMID 27542992 JRNL DOI 10.1111/FEBS.13837 REMARK 2 REMARK 2 RESOLUTION. 1.60 ANGSTROMS. REMARK 3 REMARK 3 REFINEMENT. REMARK 3 PROGRAM : PHENIX 1.10PRE_2084 REMARK 3 AUTHORS : PAUL ADAMS,PAVEL AFONINE,VINCENT CHEN,IAN REMARK 3 : DAVIS,KRESHNA GOPAL,RALF GROSSE-KUNSTLEVE, REMARK 3 : LI-WEI HUNG,ROBERT IMMORMINO,TOM IOERGER, REMARK 3 : AIRLIE MCCOY,ERIK MCKEE,NIGEL MORIARTY, REMARK 3 : REETAL PAI,RANDY READ,JANE RICHARDSON, REMARK 3 : DAVID RICHARDSON,TOD ROMO,JIM SACCHETTINI, REMARK 3 : NICHOLAS SAUTER,JACOB SMITH,LAURENT REMARK 3 : STORONI,TOM TERWILLIGER,PETER ZWART REMARK 3 REMARK 3 REFINEMENT TARGET : ML REMARK 3 REMARK 3 DATA USED IN REFINEMENT. REMARK 3 RESOLUTION RANGE HIGH (ANGSTROMS) : 1.60 REMARK 3 RESOLUTION RANGE LOW (ANGSTROMS) : 38.08 REMARK 3 MIN(FOBS/SIGMA_FOBS) : 1.330 REMARK 3 COMPLETENESS FOR RANGE (%) : 99.1 REMARK 3 NUMBER OF REFLECTIONS : 39165 REMARK 3 REMARK 3 FIT TO DATA USED IN REFINEMENT. REMARK 3 R VALUE (WORKING + TEST SET) : 0.190 REMARK 3 R VALUE (WORKING SET) : 0.189 REMARK 3 FREE R VALUE : 0.214 REMARK 3 FREE R VALUE TEST SET SIZE (%) : 4.890 REMARK 3 FREE R VALUE TEST SET COUNT : 1917 REMARK 3 REMARK 3 FIT TO DATA USED IN REFINEMENT (IN BINS). REMARK 3 BIN RESOLUTION RANGE COMPL. NWORK NFREE RWORK RFREE REMARK 3 1 38.0914 - 3.8550 1.00 2763 148 0.1628 0.1784 REMARK 3 2 3.8550 - 3.0602 1.00 2679 156 0.1769 0.1837 REMARK 3 3 3.0602 - 2.6735 1.00 2708 141 0.1864 0.2113 REMARK 3 4 2.6735 - 2.4291 1.00 2705 108 0.1779 0.2232 REMARK 3 5 2.4291 - 2.2550 0.99 2654 141 0.1719 0.1932 REMARK 3 6 2.2550 - 2.1221 0.99 2674 115 0.1907 0.2160 REMARK 3 7 2.1221 - 2.0158 0.99 2663 142 0.1891 0.2776 REMARK 3 8 2.0158 - 1.9281 0.99 2656 128 0.1866 0.2162 REMARK 3 9 1.9281 - 1.8539 0.99 2623 143 0.2238 0.2464 REMARK 3 10 1.8539 - 1.7899 0.99 2635 140 0.2184 0.2563 REMARK 3 11 1.7899 - 1.7339 0.99 2652 126 0.2288 0.2464 REMARK 3 12 1.7339 - 1.6844 0.98 2619 136 0.2639 0.2821 REMARK 3 13 1.6844 - 1.6400 0.98 2638 131 0.2884 0.3666 REMARK 3 14 1.6400 - 1.6000 0.98 2579 162 0.3167 0.3410 REMARK 3 REMARK 3 BULK SOLVENT MODELLING. REMARK 3 METHOD USED : FLAT BULK SOLVENT MODEL REMARK 3 SOLVENT RADIUS : 1.11 REMARK 3 SHRINKAGE RADIUS : 0.90 REMARK 3 K_SOL : NULL REMARK 3 B_SOL : NULL REMARK 3 REMARK 3 ERROR ESTIMATES. REMARK 3 COORDINATE ERROR (MAXIMUM-LIKELIHOOD BASED) : 0.210 REMARK 3 PHASE ERROR (DEGREES, MAXIMUM-LIKELIHOOD BASED) : 25.050 REMARK 3 REMARK 3 B VALUES. REMARK 3 FROM WILSON PLOT (A**2) : NULL REMARK 3 MEAN B VALUE (OVERALL, A**2) : NULL REMARK 3 OVERALL ANISOTROPIC B VALUE. REMARK 3 B11 (A**2) : NULL REMARK 3 B22 (A**2) : NULL REMARK 3 B33 (A**2) : NULL REMARK 3 B12 (A**2) : NULL REMARK 3 B13 (A**2) : NULL REMARK 3 B23 (A**2) : NULL REMARK 3 REMARK 3 TWINNING INFORMATION. REMARK 3 FRACTION: NULL REMARK 3 OPERATOR: NULL REMARK 3 REMARK 3 DEVIATIONS FROM IDEAL VALUES. REMARK 3 RMSD COUNT REMARK 3 BOND : 0.011 2415 REMARK 3 ANGLE : 1.268 3263 REMARK 3 CHIRALITY : 0.275 376 REMARK 3 PLANARITY : 0.005 410 REMARK 3 DIHEDRAL : 20.615 1413 REMARK 3 REMARK 3 TLS DETAILS REMARK 3 NUMBER OF TLS GROUPS : 7 REMARK 3 TLS GROUP : 1 REMARK 3 SELECTION: CHAIN 'A' AND (RESID 102 THROUGH 165 ) REMARK 3 ORIGIN FOR THE GROUP (A): 98.4041 -0.0843 63.3933 REMARK 3 T TENSOR REMARK 3 T11: 0.2010 T22: 0.1629 REMARK 3 T33: 0.1292 T12: -0.0055 REMARK 3 T13: -0.0128 T23: -0.0035 REMARK 3 L TENSOR REMARK 3 L11: 3.7312 L22: 2.4704 REMARK 3 L33: 1.6377 L12: 1.3294 REMARK 3 L13: -0.0574 L23: 0.3839 REMARK 3 S TENSOR REMARK 3 S11: 0.0926 S12: -0.1753 S13: 0.2304 REMARK 3 S21: 0.2405 S22: -0.0657 S23: -0.1171 REMARK 3 S31: -0.1324 S32: -0.0413 S33: -0.0286 REMARK 3 TLS GROUP : 2 REMARK 3 SELECTION: CHAIN 'A' AND (RESID 166 THROUGH 203 ) REMARK 3 ORIGIN FOR THE GROUP (A): 105.9133 -0.2236 69.1413 REMARK 3 T TENSOR REMARK 3 T11: 0.2624 T22: 0.2721 REMARK 3 T33: 0.2190 T12: -0.0136 REMARK 3 T13: -0.0869 T23: 0.0223 REMARK 3 L TENSOR REMARK 3 L11: 3.2575 L22: 3.1308 REMARK 3 L33: 4.5040 L12: 0.4311 REMARK 3 L13: -0.8735 L23: -0.6751 REMARK 3 S TENSOR REMARK 3 S11: 0.0385 S12: -0.5415 S13: -0.0964 REMARK 3 S21: 0.6324 S22: -0.0837 S23: -0.2959 REMARK 3 S31: -0.2633 S32: -0.1343 S33: 0.0250 REMARK 3 TLS GROUP : 3 REMARK 3 SELECTION: CHAIN 'A' AND (RESID 204 THROUGH 240 ) REMARK 3 ORIGIN FOR THE GROUP (A): 112.1115 0.9704 60.1144 REMARK 3 T TENSOR REMARK 3 T11: 0.1788 T22: 0.1819 REMARK 3 T33: 0.3134 T12: -0.0350 REMARK 3 T13: -0.0460 T23: 0.0342 REMARK 3 L TENSOR REMARK 3 L11: 2.7004 L22: 1.2953 REMARK 3 L33: 3.6363 L12: 0.2169 REMARK 3 L13: 0.5978 L23: -0.9849 REMARK 3 S TENSOR REMARK 3 S11: 0.0142 S12: -0.1900 S13: -0.2827 REMARK 3 S21: 0.1672 S22: -0.0556 S23: -0.3026 REMARK 3 S31: -0.0976 S32: 0.1408 S33: 0.0057 REMARK 3 TLS GROUP : 4 REMARK 3 SELECTION: CHAIN 'A' AND (RESID 241 THROUGH 269 ) REMARK 3 ORIGIN FOR THE GROUP (A): 118.8336 -4.0153 65.0790 REMARK 3 T TENSOR REMARK 3 T11: 0.2427 T22: 0.3241 REMARK 3 T33: 0.5622 T12: -0.0504 REMARK 3 T13: -0.1073 T23: 0.0850 REMARK 3 L TENSOR REMARK 3 L11: 3.7913 L22: 2.0612 REMARK 3 L33: 4.4570 L12: -0.0011 REMARK 3 L13: 0.4342 L23: 0.1506 REMARK 3 S TENSOR REMARK 3 S11: 0.2223 S12: -0.4280 S13: -0.7459 REMARK 3 S21: 0.3066 S22: 0.0834 S23: -0.4309 REMARK 3 S31: 0.1287 S32: 0.3633 S33: -0.2992 REMARK 3 TLS GROUP : 5 REMARK 3 SELECTION: CHAIN 'B' AND (RESID 103 THROUGH 165 ) REMARK 3 ORIGIN FOR THE GROUP (A): 98.3476 1.7323 43.1062 REMARK 3 T TENSOR REMARK 3 T11: 0.1613 T22: 0.1441 REMARK 3 T33: 0.0951 T12: -0.0034 REMARK 3 T13: 0.0283 T23: 0.0053 REMARK 3 L TENSOR REMARK 3 L11: 5.8497 L22: 2.5730 REMARK 3 L33: 1.1148 L12: 1.7393 REMARK 3 L13: 0.9183 L23: 0.1383 REMARK 3 S TENSOR REMARK 3 S11: 0.0040 S12: 0.1053 S13: 0.2171 REMARK 3 S21: -0.0348 S22: -0.0004 S23: 0.0262 REMARK 3 S31: -0.1328 S32: 0.0774 S33: -0.0065 REMARK 3 TLS GROUP : 6 REMARK 3 SELECTION: CHAIN 'B' AND (RESID 166 THROUGH 240 ) REMARK 3 ORIGIN FOR THE GROUP (A): 91.9871 -8.0246 41.8858 REMARK 3 T TENSOR REMARK 3 T11: 0.1383 T22: 0.1229 REMARK 3 T33: 0.1022 T12: -0.0079 REMARK 3 T13: 0.0100 T23: -0.0047 REMARK 3 L TENSOR REMARK 3 L11: 2.3440 L22: 2.1489 REMARK 3 L33: 2.8236 L12: -0.1697 REMARK 3 L13: -0.3883 L23: -0.2866 REMARK 3 S TENSOR REMARK 3 S11: 0.0041 S12: 0.1563 S13: -0.0047 REMARK 3 S21: -0.0595 S22: 0.0118 S23: 0.0914 REMARK 3 S31: -0.0970 S32: 0.0072 S33: -0.0179 REMARK 3 TLS GROUP : 7 REMARK 3 SELECTION: CHAIN 'B' AND (RESID 241 THROUGH 269 ) REMARK 3 ORIGIN FOR THE GROUP (A): 93.2178 -18.9774 40.1705 REMARK 3 T TENSOR REMARK 3 T11: 0.1857 T22: 0.1446 REMARK 3 T33: 0.1371 T12: 0.0182 REMARK 3 T13: 0.0105 T23: -0.0242 REMARK 3 L TENSOR REMARK 3 L11: 3.3635 L22: 3.6856 REMARK 3 L33: 1.9499 L12: 0.2086 REMARK 3 L13: 0.8785 L23: -0.2425 REMARK 3 S TENSOR REMARK 3 S11: 0.1722 S12: 0.2847 S13: -0.2318 REMARK 3 S21: -0.3365 S22: -0.0616 S23: -0.0116 REMARK 3 S31: 0.4981 S32: 0.0941 S33: -0.1374 REMARK 3 REMARK 3 NCS DETAILS REMARK 3 NUMBER OF NCS GROUPS : NULL REMARK 3 REMARK 3 OTHER REFINEMENT REMARKS: NULL REMARK 4 REMARK 4 5D0G COMPLIES WITH FORMAT V. 3.30, 13-JUL-11 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY PDBJ ON 05-AUG-15. REMARK 100 THE DEPOSITION ID IS D_1000204587. REMARK 200 REMARK 200 EXPERIMENTAL DETAILS REMARK 200 EXPERIMENT TYPE : X-RAY DIFFRACTION REMARK 200 DATE OF DATA COLLECTION : 28-NOV-13 REMARK 200 TEMPERATURE (KELVIN) : 100 REMARK 200 PH : 7.5 REMARK 200 NUMBER OF CRYSTALS USED : NULL REMARK 200 REMARK 200 SYNCHROTRON (Y/N) : Y REMARK 200 RADIATION SOURCE : ESRF REMARK 200 BEAMLINE : BM14 REMARK 200 X-RAY GENERATOR MODEL : NULL REMARK 200 MONOCHROMATIC OR LAUE (M/L) : M REMARK 200 WAVELENGTH OR RANGE (A) : 0.97856 REMARK 200 MONOCHROMATOR : SI(111) REMARK 200 OPTICS : NULL REMARK 200 REMARK 200 DETECTOR TYPE : CCD REMARK 200 DETECTOR MANUFACTURER : MARMOSAIC 225 MM CCD REMARK 200 INTENSITY-INTEGRATION SOFTWARE : NULL REMARK 200 DATA SCALING SOFTWARE : NULL REMARK 200 REMARK 200 NUMBER OF UNIQUE REFLECTIONS : 39208 REMARK 200 RESOLUTION RANGE HIGH (A) : 1.600 REMARK 200 RESOLUTION RANGE LOW (A) : 38.081 REMARK 200 REJECTION CRITERIA (SIGMA(I)) : NULL REMARK 200 REMARK 200 OVERALL. REMARK 200 COMPLETENESS FOR RANGE (%) : 99.4 REMARK 200 DATA REDUNDANCY : 3.800 REMARK 200 R MERGE (I) : 0.06700 REMARK 200 R SYM (I) : NULL REMARK 200 FOR THE DATA SET : 10.2000 REMARK 200 REMARK 200 IN THE HIGHEST RESOLUTION SHELL. REMARK 200 HIGHEST RESOLUTION SHELL, RANGE HIGH (A) : 1.60 REMARK 200 HIGHEST RESOLUTION SHELL, RANGE LOW (A) : 1.69 REMARK 200 COMPLETENESS FOR SHELL (%) : 98.6 REMARK 200 DATA REDUNDANCY IN SHELL : 3.80 REMARK 200 R MERGE FOR SHELL (I) : 0.76000 REMARK 200 R SYM FOR SHELL (I) : NULL REMARK 200 FOR SHELL : 1.700 REMARK 200 REMARK 200 DIFFRACTION PROTOCOL: SINGLE WAVELENGTH REMARK 200 METHOD USED TO DETERMINE THE STRUCTURE: MOLECULAR REPLACEMENT REMARK 200 SOFTWARE USED: NULL REMARK 200 STARTING MODEL: 4WP9 REMARK 200 REMARK 200 REMARK: NULL REMARK 280 REMARK 280 CRYSTAL REMARK 280 SOLVENT CONTENT, VS (%): 36.20 REMARK 280 MATTHEWS COEFFICIENT, VM (ANGSTROMS**3/DA): 1.93 REMARK 280 REMARK 280 CRYSTALLIZATION CONDITIONS: 0.1M HEPES, 30% (W/V) PEG 1000, PH REMARK 280 7.5, MICROBATCH, TEMPERATURE 291K REMARK 290 REMARK 290 CRYSTALLOGRAPHIC SYMMETRY REMARK 290 SYMMETRY OPERATORS FOR SPACE GROUP: P 1 21 1 REMARK 290 REMARK 290 SYMOP SYMMETRY REMARK 290 NNNMMM OPERATOR REMARK 290 1555 X,Y,Z REMARK 290 2555 -X,Y+1/2,-Z REMARK 290 REMARK 290 WHERE NNN -> OPERATOR NUMBER REMARK 290 MMM -> TRANSLATION VECTOR REMARK 290 REMARK 290 CRYSTALLOGRAPHIC SYMMETRY TRANSFORMATIONS REMARK 290 THE FOLLOWING TRANSFORMATIONS OPERATE ON THE ATOM/HETATM REMARK 290 RECORDS IN THIS ENTRY TO PRODUCE CRYSTALLOGRAPHICALLY REMARK 290 RELATED MOLECULES. REMARK 290 SMTRY1 1 1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY2 1 0.000000 1.000000 0.000000 0.00000 REMARK 290 SMTRY3 1 0.000000 0.000000 1.000000 0.00000 REMARK 290 SMTRY1 2 -1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY2 2 0.000000 1.000000 0.000000 27.81500 REMARK 290 SMTRY3 2 0.000000 0.000000 -1.000000 0.00000 REMARK 290 REMARK 290 REMARK: NULL 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 SOFTWARE DETERMINED QUATERNARY STRUCTURE: DIMERIC REMARK 350 SOFTWARE USED: PISA REMARK 350 TOTAL BURIED SURFACE AREA: 4250 ANGSTROM**2 REMARK 350 SURFACE AREA OF THE COMPLEX: 13160 ANGSTROM**2 REMARK 350 CHANGE IN SOLVENT FREE ENERGY: -41.0 KCAL/MOL 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. (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 PHE A 99 REMARK 465 GLN A 100 REMARK 465 GLY A 101 REMARK 465 ASN A 185 REMARK 465 ARG A 186 REMARK 465 LYS A 187 REMARK 465 ARG A 188 REMARK 465 HIS A 189 REMARK 465 GLU A 190 REMARK 465 ALA A 270 REMARK 465 SER A 271 REMARK 465 PRO A 272 REMARK 465 ASP A 273 REMARK 465 PRO A 274 REMARK 465 GLY A 275 REMARK 465 PHE B 99 REMARK 465 GLN B 100 REMARK 465 GLY B 101 REMARK 465 ALA B 102 REMARK 465 ASN B 183 REMARK 465 ALA B 184 REMARK 465 ASN B 185 REMARK 465 ARG B 186 REMARK 465 LYS B 187 REMARK 465 ARG B 188 REMARK 465 HIS B 189 REMARK 465 GLU B 190 REMARK 465 GLU B 191 REMARK 465 ARG B 242 REMARK 465 SER B 243 REMARK 465 ALA B 270 REMARK 465 SER B 271 REMARK 465 PRO B 272 REMARK 465 ASP B 273 REMARK 465 PRO B 274 REMARK 465 GLY B 275 REMARK 470 REMARK 470 MISSING ATOM REMARK 470 THE FOLLOWING RESIDUES HAVE MISSING ATOMS (M=MODEL NUMBER; REMARK 470 RES=RESIDUE NAME; C=CHAIN IDENTIFIER; SSEQ=SEQUENCE NUMBER; REMARK 470 I=INSERTION CODE): REMARK 470 M RES CSSEQI ATOMS REMARK 470 ARG A 106 CD NE CZ NH1 NH2 REMARK 470 ARG A 127 CG CD NE CZ NH1 NH2 REMARK 470 LYS A 131 CG CD CE NZ REMARK 470 LYS A 138 CE NZ REMARK 470 ARG A 145 CD NE CZ NH1 NH2 REMARK 470 ARG A 146 CZ NH1 NH2 REMARK 470 ARG A 165 NE CZ NH1 NH2 REMARK 470 GLU A 167 CG CD OE1 OE2 REMARK 470 GLN A 168 OE1 REMARK 470 ARG A 171 CG CD NE CZ NH1 NH2 REMARK 470 GLU A 175 CD OE1 OE2 REMARK 470 ARG A 178 CG CD NE CZ NH1 NH2 REMARK 470 ARG A 182 CG CD NE CZ NH1 NH2 REMARK 470 GLU A 191 CG CD OE1 OE2 REMARK 470 ARG A 193 NE CZ NH1 NH2 REMARK 470 ARG A 205 CG CD NE CZ NH1 NH2 REMARK 470 ARG A 206 NH1 NH2 REMARK 470 ASP A 208 CG OD1 OD2 REMARK 470 GLN A 234 NE2 REMARK 470 ARG A 242 CB CG CD NE CZ NH1 NH2 REMARK 470 ASP A 244 CB CG OD1 OD2 REMARK 470 ARG A 247 CD NE CZ NH1 NH2 REMARK 470 ASP A 250 CB CG OD1 OD2 REMARK 470 GLU A 253 CG CD OE1 OE2 REMARK 470 ARG A 264 CG CD NE CZ NH1 NH2 REMARK 470 MET B 103 CG SD CE REMARK 470 ARG B 106 CD NE CZ NH1 NH2 REMARK 470 GLU B 116 OE2 REMARK 470 ARG B 123 CG CD NE CZ NH1 NH2 REMARK 470 ARG B 127 NE CZ NH1 NH2 REMARK 470 LYS B 131 CG CD CE NZ REMARK 470 LYS B 138 CD CE NZ REMARK 470 ASP B 142 OD1 REMARK 470 ARG B 146 CG CD NE CZ NH1 NH2 REMARK 470 ARG B 165 CZ NH1 NH2 REMARK 470 GLU B 167 OE1 REMARK 470 GLU B 175 CD OE1 OE2 REMARK 470 ARG B 178 CG CD NE CZ NH1 NH2 REMARK 470 ARG B 181 CG CD NE CZ NH1 NH2 REMARK 470 ARG B 193 CG CD NE CZ NH1 NH2 REMARK 470 ARG B 206 CG CD NE CZ NH1 NH2 REMARK 470 ARG B 237 CZ NH1 NH2 REMARK 470 SER B 241 CB OG REMARK 470 ASP B 244 CB CG OD1 OD2 REMARK 470 ARG B 247 NE CZ NH1 NH2 REMARK 470 GLU B 255 OE1 REMARK 500 REMARK 500 GEOMETRY AND STEREOCHEMISTRY REMARK 500 SUBTOPIC: CLOSE CONTACTS IN SAME ASYMMETRIC UNIT 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 OE2 GLU A 153 HN1 GTP B 301 1.52 REMARK 500 O HOH B 512 O HOH B 515 2.04 REMARK 500 O HOH A 500 O HOH A 502 2.11 REMARK 500 O HOH A 463 O HOH A 491 2.14 REMARK 500 O HOH A 479 O HOH A 484 2.16 REMARK 500 O HOH A 498 O HOH A 501 2.17 REMARK 500 O GLY A 207 O HOH A 401 2.18 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 ASP B 208 45.81 -105.84 REMARK 500 REMARK 500 REMARK: NULL REMARK 525 REMARK 525 SOLVENT REMARK 525 REMARK 525 THE SOLVENT MOLECULES HAVE CHAIN IDENTIFIERS THAT REMARK 525 INDICATE THE POLYMER CHAIN WITH WHICH THEY ARE MOST REMARK 525 CLOSELY ASSOCIATED. THE REMARK LISTS ALL THE SOLVENT REMARK 525 MOLECULES WHICH ARE MORE THAN 5A AWAY FROM THE REMARK 525 NEAREST POLYMER CHAIN (M = MODEL NUMBER; REMARK 525 RES=RESIDUE NAME; C=CHAIN IDENTIFIER; SSEQ=SEQUENCE REMARK 525 NUMBER; I=INSERTION CODE): REMARK 525 REMARK 525 M RES CSSEQI REMARK 525 HOH A 501 DISTANCE = 5.84 ANGSTROMS REMARK 525 HOH A 502 DISTANCE = 6.26 ANGSTROMS REMARK 525 HOH A 503 DISTANCE = 6.45 ANGSTROMS REMARK 620 REMARK 620 METAL COORDINATION REMARK 620 (M=MODEL NUMBER; RES=RESIDUE NAME; C=CHAIN IDENTIFIER; REMARK 620 SSEQ=SEQUENCE NUMBER; I=INSERTION CODE): REMARK 620 REMARK 620 COORDINATION ANGLES FOR: M RES CSSEQI METAL REMARK 620 CA A 302 CA REMARK 620 N RES CSSEQI ATOM REMARK 620 1 ASP A 113 OD1 REMARK 620 2 ASP A 113 OD2 53.8 REMARK 620 3 ILE A 114 O 94.5 86.5 REMARK 620 4 ASP A 157 OD2 76.8 129.6 88.7 REMARK 620 5 GTP A 301 O1G 124.1 72.8 97.6 157.2 REMARK 620 6 GTP A 301 O1B 158.5 147.7 87.5 81.9 76.6 REMARK 620 7 GTP A 301 O2A 92.7 97.5 172.9 93.2 78.1 86.0 REMARK 620 N 1 2 3 4 5 6 REMARK 620 REMARK 620 COORDINATION ANGLES FOR: M RES CSSEQI METAL REMARK 620 CA B 302 CA REMARK 620 N RES CSSEQI ATOM REMARK 620 1 ASP B 113 OD1 REMARK 620 2 ASP B 113 OD2 52.5 REMARK 620 3 ILE B 114 O 99.1 83.3 REMARK 620 4 ASP B 157 OD2 80.8 130.0 88.3 REMARK 620 5 GTP B 301 O2G 124.2 77.7 98.3 152.2 REMARK 620 6 GTP B 301 O1B 159.2 148.0 89.9 80.7 72.3 REMARK 620 7 GTP B 301 O1A 91.4 106.4 168.8 89.5 78.8 78.9 REMARK 620 N 1 2 3 4 5 6 REMARK 800 REMARK 800 SITE REMARK 800 SITE_IDENTIFIER: AC1 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue GTP A 301 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC2 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue CA A 302 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC3 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue GTP B 301 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC4 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue CA B 302 REMARK 900 REMARK 900 RELATED ENTRIES REMARK 900 RELATED ID: 5D0E RELATED DB: PDB REMARK 900 RELATED ID: 5D0H RELATED DB: PDB REMARK 900 RELATED ID: 5D15 RELATED DB: PDB DBREF 5D0G A 106 275 UNP V7LAR8 V7LAR8_MYCAV 106 275 DBREF 5D0G B 106 275 UNP V7LAR8 V7LAR8_MYCAV 106 275 SEQADV 5D0G PHE A 99 UNP V7LAR8 EXPRESSION TAG SEQADV 5D0G GLN A 100 UNP V7LAR8 EXPRESSION TAG SEQADV 5D0G GLY A 101 UNP V7LAR8 EXPRESSION TAG SEQADV 5D0G ALA A 102 UNP V7LAR8 EXPRESSION TAG SEQADV 5D0G MET A 103 UNP V7LAR8 EXPRESSION TAG SEQADV 5D0G GLY A 104 UNP V7LAR8 EXPRESSION TAG SEQADV 5D0G SER A 105 UNP V7LAR8 EXPRESSION TAG SEQADV 5D0G GLU A 153 UNP V7LAR8 LYS 153 ENGINEERED MUTATION SEQADV 5D0G GLY A 209 UNP V7LAR8 ASP 209 ENGINEERED MUTATION SEQADV 5D0G TYR A 219 UNP V7LAR8 ALA 219 ENGINEERED MUTATION SEQADV 5D0G PHE B 99 UNP V7LAR8 EXPRESSION TAG SEQADV 5D0G GLN B 100 UNP V7LAR8 EXPRESSION TAG SEQADV 5D0G GLY B 101 UNP V7LAR8 EXPRESSION TAG SEQADV 5D0G ALA B 102 UNP V7LAR8 EXPRESSION TAG SEQADV 5D0G MET B 103 UNP V7LAR8 EXPRESSION TAG SEQADV 5D0G GLY B 104 UNP V7LAR8 EXPRESSION TAG SEQADV 5D0G SER B 105 UNP V7LAR8 EXPRESSION TAG SEQADV 5D0G GLU B 153 UNP V7LAR8 LYS 153 ENGINEERED MUTATION SEQADV 5D0G GLY B 209 UNP V7LAR8 ASP 209 ENGINEERED MUTATION SEQADV 5D0G TYR B 219 UNP V7LAR8 ALA 219 ENGINEERED MUTATION SEQRES 1 A 177 PHE GLN GLY ALA MET GLY SER ARG VAL VAL ILE LEU PHE SEQRES 2 A 177 THR ASP ILE GLU GLU SER THR ALA LEU ASN GLU ARG ILE SEQRES 3 A 177 GLY ASP ARG ALA TRP VAL LYS LEU ILE SER SER HIS ASP SEQRES 4 A 177 LYS LEU VAL SER ASP LEU VAL ARG ARG GLN SER GLY HIS SEQRES 5 A 177 VAL VAL GLU SER GLN GLY ASP GLY PHE MET VAL ALA PHE SEQRES 6 A 177 ALA ARG PRO GLU GLN ALA VAL ARG CYS GLY ILE GLU LEU SEQRES 7 A 177 GLN ARG ALA LEU ARG ARG ASN ALA ASN ARG LYS ARG HIS SEQRES 8 A 177 GLU GLU ILE ARG VAL ARG ILE GLY ILE HIS MET GLY ARG SEQRES 9 A 177 SER VAL ARG ARG GLY ASP GLY LEU PHE GLY ARG ASN VAL SEQRES 10 A 177 ALA MET ALA TYR ARG VAL ALA ALA GLN ALA ALA GLY GLY SEQRES 11 A 177 GLU ILE LEU VAL SER GLN PRO VAL ARG ASP ALA LEU SER SEQRES 12 A 177 ARG SER ASP GLY ILE ARG PHE ASP ASP GLY ARG GLU VAL SEQRES 13 A 177 GLU LEU LYS GLY PHE SER GLY THR TYR ARG LEU PHE ALA SEQRES 14 A 177 VAL LEU ALA SER PRO ASP PRO GLY SEQRES 1 B 177 PHE GLN GLY ALA MET GLY SER ARG VAL VAL ILE LEU PHE SEQRES 2 B 177 THR ASP ILE GLU GLU SER THR ALA LEU ASN GLU ARG ILE SEQRES 3 B 177 GLY ASP ARG ALA TRP VAL LYS LEU ILE SER SER HIS ASP SEQRES 4 B 177 LYS LEU VAL SER ASP LEU VAL ARG ARG GLN SER GLY HIS SEQRES 5 B 177 VAL VAL GLU SER GLN GLY ASP GLY PHE MET VAL ALA PHE SEQRES 6 B 177 ALA ARG PRO GLU GLN ALA VAL ARG CYS GLY ILE GLU LEU SEQRES 7 B 177 GLN ARG ALA LEU ARG ARG ASN ALA ASN ARG LYS ARG HIS SEQRES 8 B 177 GLU GLU ILE ARG VAL ARG ILE GLY ILE HIS MET GLY ARG SEQRES 9 B 177 SER VAL ARG ARG GLY ASP GLY LEU PHE GLY ARG ASN VAL SEQRES 10 B 177 ALA MET ALA TYR ARG VAL ALA ALA GLN ALA ALA GLY GLY SEQRES 11 B 177 GLU ILE LEU VAL SER GLN PRO VAL ARG ASP ALA LEU SER SEQRES 12 B 177 ARG SER ASP GLY ILE ARG PHE ASP ASP GLY ARG GLU VAL SEQRES 13 B 177 GLU LEU LYS GLY PHE SER GLY THR TYR ARG LEU PHE ALA SEQRES 14 B 177 VAL LEU ALA SER PRO ASP PRO GLY HET GTP A 301 41 HET CA A 302 1 HET GTP B 301 42 HET CA B 302 1 HETNAM GTP GUANOSINE-5'-TRIPHOSPHATE HETNAM CA CALCIUM ION FORMUL 3 GTP 2(C10 H16 N5 O14 P3) FORMUL 4 CA 2(CA 2+) FORMUL 7 HOH *224(H2 O) HELIX 1 AA1 GLU A 116 GLN A 147 1 32 HELIX 2 AA2 ARG A 165 ALA A 184 1 20 HELIX 3 AA3 GLY A 212 ALA A 225 1 14 HELIX 4 AA4 GLN A 234 LEU A 240 1 7 HELIX 5 AA5 GLU B 116 GLY B 125 1 10 HELIX 6 AA6 GLY B 125 GLN B 147 1 23 HELIX 7 AA7 ARG B 165 ARG B 182 1 18 HELIX 8 AA8 GLY B 212 ALA B 225 1 14 HELIX 9 AA9 GLN B 234 LEU B 240 1 7 SHEET 1 AA1 5 HIS A 150 SER A 154 0 SHEET 2 AA1 5 GLY A 158 PHE A 163 -1 O ALA A 162 N HIS A 150 SHEET 3 AA1 5 SER A 105 ILE A 114 -1 N LEU A 110 O VAL A 161 SHEET 4 AA1 5 VAL A 194 ARG A 206 -1 O HIS A 199 N ILE A 109 SHEET 5 AA1 5 GLY A 209 PHE A 211 -1 O PHE A 211 N VAL A 204 SHEET 1 AA2 7 HIS A 150 SER A 154 0 SHEET 2 AA2 7 GLY A 158 PHE A 163 -1 O ALA A 162 N HIS A 150 SHEET 3 AA2 7 SER A 105 ILE A 114 -1 N LEU A 110 O VAL A 161 SHEET 4 AA2 7 VAL A 194 ARG A 206 -1 O HIS A 199 N ILE A 109 SHEET 5 AA2 7 ILE A 230 SER A 233 1 O LEU A 231 N ILE A 196 SHEET 6 AA2 7 TYR A 263 ALA A 267 -1 O PHE A 266 N VAL A 232 SHEET 7 AA2 7 ARG A 252 VAL A 254 -1 N VAL A 254 O TYR A 263 SHEET 1 AA3 7 HIS B 150 SER B 154 0 SHEET 2 AA3 7 PHE B 159 PHE B 163 -1 O ALA B 162 N HIS B 150 SHEET 3 AA3 7 SER B 105 ILE B 114 -1 N LEU B 110 O VAL B 161 SHEET 4 AA3 7 VAL B 194 ARG B 206 -1 O ARG B 195 N ASP B 113 SHEET 5 AA3 7 ILE B 230 SER B 233 1 O LEU B 231 N ILE B 196 SHEET 6 AA3 7 TYR B 263 LEU B 269 -1 O PHE B 266 N VAL B 232 SHEET 7 AA3 7 ARG B 247 PHE B 248 -1 N ARG B 247 O LEU B 269 SHEET 1 AA4 5 GLY B 209 PHE B 211 0 SHEET 2 AA4 5 VAL B 194 ARG B 206 -1 N VAL B 204 O PHE B 211 SHEET 3 AA4 5 ILE B 230 SER B 233 1 O LEU B 231 N ILE B 196 SHEET 4 AA4 5 TYR B 263 LEU B 269 -1 O PHE B 266 N VAL B 232 SHEET 5 AA4 5 ARG B 252 VAL B 254 -1 N VAL B 254 O TYR B 263 LINK OD1 ASP A 113 CA CA A 302 1555 1555 2.35 LINK OD2 ASP A 113 CA CA A 302 1555 1555 2.45 LINK O ILE A 114 CA CA A 302 1555 1555 2.23 LINK OD2 ASP A 157 CA CA A 302 1555 1555 2.42 LINK O1G GTP A 301 CA CA A 302 1555 1555 2.38 LINK O1B GTP A 301 CA CA A 302 1555 1555 2.35 LINK O2A GTP A 301 CA CA A 302 1555 1555 2.34 LINK OD1 ASP B 113 CA CA B 302 1555 1555 2.43 LINK OD2 ASP B 113 CA CA B 302 1555 1555 2.49 LINK O ILE B 114 CA CA B 302 1555 1555 2.29 LINK OD2 ASP B 157 CA CA B 302 1555 1555 2.42 LINK O2G GTP B 301 CA CA B 302 1555 1555 2.36 LINK O1B GTP B 301 CA CA B 302 1555 1555 2.35 LINK O1A GTP B 301 CA CA B 302 1555 1555 2.29 SITE 1 AC1 30 ASP A 113 ILE A 114 GLU A 116 SER A 117 SITE 2 AC1 30 THR A 118 SER A 154 GLN A 155 GLY A 156 SITE 3 AC1 30 ASP A 157 ARG A 195 CA A 302 HOH A 403 SITE 4 AC1 30 HOH A 404 HOH A 418 HOH A 443 HOH A 450 SITE 5 AC1 30 HOH A 455 HOH A 473 HOH A 482 GLU B 153 SITE 6 AC1 30 SER B 154 GLN B 155 MET B 160 LEU B 210 SITE 7 AC1 30 VAL B 215 ALA B 216 ARG B 220 LYS B 257 SITE 8 AC1 30 HOH B 403 HOH B 407 SITE 1 AC2 4 ASP A 113 ILE A 114 ASP A 157 GTP A 301 SITE 1 AC3 28 GLU A 153 SER A 154 GLN A 155 MET A 160 SITE 2 AC3 28 LEU A 210 VAL A 215 ALA A 216 LYS A 257 SITE 3 AC3 28 HOH A 411 HOH A 415 HOH A 432 HOH A 473 SITE 4 AC3 28 ASP B 113 ILE B 114 GLU B 116 SER B 117 SITE 5 AC3 28 THR B 118 SER B 154 GLN B 155 GLY B 156 SITE 6 AC3 28 ASP B 157 ARG B 195 CA B 302 HOH B 402 SITE 7 AC3 28 HOH B 403 HOH B 408 HOH B 441 HOH B 472 SITE 1 AC4 4 ASP B 113 ILE B 114 ASP B 157 GTP B 301 CRYST1 52.070 55.630 55.140 90.00 108.67 90.00 P 1 21 1 4 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 0.019205 0.000000 0.006489 0.00000 SCALE2 0.000000 0.017976 0.000000 0.00000 SCALE3 0.000000 0.000000 0.019143 0.00000