HEADER LYASE 03-AUG-15 5D0E TITLE CRYSTAL STRUCTURE OF AN ADENYLYL CYCLASE MA1120-CAT IN COMPLEX WITH TITLE 2 GTP AND CALCIUM FROM MYCOBACTERIUM AVIUM COMPND MOL_ID: 1; COMPND 2 MOLECULE: CYCLASE; COMPND 3 CHAIN: A, B; COMPND 4 FRAGMENT: UNP RESIDUES 106-275; COMPND 5 ENGINEERED: 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,D.V.BARATHY,K.SUGUNA REVDAT 4 08-NOV-23 5D0E 1 REMARK LINK REVDAT 3 02-NOV-16 5D0E 1 JRNL REVDAT 2 07-SEP-16 5D0E 1 JRNL REVDAT 1 10-AUG-16 5D0E 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. 1.48 ANGSTROMS. REMARK 3 REMARK 3 REFINEMENT. REMARK 3 PROGRAM : PHENIX (PHENIX.REFINE: 1.9_1692) 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) : 1.48 REMARK 3 RESOLUTION RANGE LOW (ANGSTROMS) : 27.10 REMARK 3 MIN(FOBS/SIGMA_FOBS) : 1.340 REMARK 3 COMPLETENESS FOR RANGE (%) : 99.3 REMARK 3 NUMBER OF REFLECTIONS : 49966 REMARK 3 REMARK 3 FIT TO DATA USED IN REFINEMENT. REMARK 3 R VALUE (WORKING + TEST SET) : 0.191 REMARK 3 R VALUE (WORKING SET) : 0.189 REMARK 3 FREE R VALUE : 0.225 REMARK 3 FREE R VALUE TEST SET SIZE (%) : 5.070 REMARK 3 FREE R VALUE TEST SET COUNT : 2531 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 27.0992 - 3.8725 0.99 2711 137 0.1581 0.1885 REMARK 3 2 3.8725 - 3.0751 1.00 2660 144 0.1544 0.2044 REMARK 3 3 3.0751 - 2.6868 1.00 2684 138 0.1761 0.2320 REMARK 3 4 2.6868 - 2.4413 1.00 2649 162 0.1797 0.2031 REMARK 3 5 2.4413 - 2.2664 0.99 2656 130 0.1800 0.2215 REMARK 3 6 2.2664 - 2.1329 0.99 2598 138 0.2125 0.2410 REMARK 3 7 2.1329 - 2.0261 1.00 2649 157 0.1971 0.1912 REMARK 3 8 2.0261 - 1.9379 0.99 2623 155 0.2023 0.2657 REMARK 3 9 1.9379 - 1.8633 0.94 2489 127 0.2886 0.3175 REMARK 3 10 1.8633 - 1.7990 1.00 2650 139 0.2105 0.2677 REMARK 3 11 1.7990 - 1.7428 1.00 2617 149 0.2191 0.2412 REMARK 3 12 1.7428 - 1.6930 1.00 2666 153 0.2239 0.2547 REMARK 3 13 1.6930 - 1.6484 1.00 2644 126 0.2344 0.2374 REMARK 3 14 1.6484 - 1.6082 1.00 2649 139 0.2283 0.2886 REMARK 3 15 1.6082 - 1.5717 1.00 2653 121 0.2530 0.3138 REMARK 3 16 1.5717 - 1.5382 1.00 2610 149 0.2560 0.2653 REMARK 3 17 1.5382 - 1.5074 1.00 2641 132 0.2660 0.2847 REMARK 3 18 1.5074 - 1.4790 0.97 2586 135 0.2984 0.3292 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) : 0.190 REMARK 3 PHASE ERROR (DEGREES, MAXIMUM-LIKELIHOOD BASED) : 24.490 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 : 0.013 2612 REMARK 3 ANGLE : 0.803 3525 REMARK 3 CHIRALITY : 0.045 403 REMARK 3 PLANARITY : 0.003 452 REMARK 3 DIHEDRAL : 18.246 958 REMARK 3 REMARK 3 TLS DETAILS REMARK 3 NUMBER OF TLS GROUPS : 6 REMARK 3 TLS GROUP : 1 REMARK 3 SELECTION: CHAIN 'A' AND (RESID 102 THROUGH 147 ) REMARK 3 ORIGIN FOR THE GROUP (A): 17.0421 -38.0243 139.7698 REMARK 3 T TENSOR REMARK 3 T11: 0.1833 T22: 0.1369 REMARK 3 T33: 0.1342 T12: 0.0129 REMARK 3 T13: 0.0145 T23: 0.0104 REMARK 3 L TENSOR REMARK 3 L11: 5.6299 L22: 2.3424 REMARK 3 L33: 1.6585 L12: -1.5658 REMARK 3 L13: 0.3292 L23: 0.2423 REMARK 3 S TENSOR REMARK 3 S11: 0.0962 S12: -0.1526 S13: 0.1576 REMARK 3 S21: 0.0376 S22: -0.1164 S23: 0.1526 REMARK 3 S31: -0.2348 S32: -0.2455 S33: 0.0175 REMARK 3 TLS GROUP : 2 REMARK 3 SELECTION: CHAIN 'A' AND (RESID 148 THROUGH 251 ) REMARK 3 ORIGIN FOR THE GROUP (A): 26.7160 -47.4247 141.1543 REMARK 3 T TENSOR REMARK 3 T11: 0.1235 T22: 0.1046 REMARK 3 T33: 0.1253 T12: 0.0000 REMARK 3 T13: -0.0160 T23: 0.0010 REMARK 3 L TENSOR REMARK 3 L11: 2.3364 L22: 2.6699 REMARK 3 L33: 3.0227 L12: 0.1716 REMARK 3 L13: -0.4824 L23: 0.1840 REMARK 3 S TENSOR REMARK 3 S11: 0.0271 S12: -0.1797 S13: 0.0612 REMARK 3 S21: 0.1941 S22: 0.0100 S23: -0.0388 REMARK 3 S31: -0.0586 S32: -0.0750 S33: -0.0240 REMARK 3 TLS GROUP : 3 REMARK 3 SELECTION: CHAIN 'A' AND (RESID 252 THROUGH 270 ) REMARK 3 ORIGIN FOR THE GROUP (A): 23.9209 -60.5430 138.2560 REMARK 3 T TENSOR REMARK 3 T11: 0.1757 T22: 0.1058 REMARK 3 T33: 0.2141 T12: -0.0040 REMARK 3 T13: -0.0293 T23: 0.0362 REMARK 3 L TENSOR REMARK 3 L11: 4.3407 L22: 4.7081 REMARK 3 L33: 2.2311 L12: 0.3919 REMARK 3 L13: -0.4058 L23: 2.9369 REMARK 3 S TENSOR REMARK 3 S11: 0.1180 S12: -0.1020 S13: -0.2999 REMARK 3 S21: 0.2411 S22: -0.1220 S23: 0.0190 REMARK 3 S31: 0.3452 S32: -0.3006 S33: 0.0246 REMARK 3 TLS GROUP : 4 REMARK 3 SELECTION: CHAIN 'B' AND (RESID 103 THROUGH 147 ) REMARK 3 ORIGIN FOR THE GROUP (A): 22.4439 -42.9959 117.9709 REMARK 3 T TENSOR REMARK 3 T11: 0.1620 T22: 0.1321 REMARK 3 T33: 0.0818 T12: -0.0255 REMARK 3 T13: -0.0361 T23: -0.0298 REMARK 3 L TENSOR REMARK 3 L11: 6.1019 L22: 4.5426 REMARK 3 L33: 0.7397 L12: -3.3849 REMARK 3 L13: 0.1060 L23: -0.9167 REMARK 3 S TENSOR REMARK 3 S11: 0.0624 S12: -0.0121 S13: 0.1716 REMARK 3 S21: -0.2913 S22: -0.0047 S23: -0.0682 REMARK 3 S31: -0.0001 S32: 0.0307 S33: -0.0465 REMARK 3 TLS GROUP : 5 REMARK 3 SELECTION: CHAIN 'B' AND (RESID 148 THROUGH 184 ) REMARK 3 ORIGIN FOR THE GROUP (A): 15.9677 -37.9187 113.6733 REMARK 3 T TENSOR REMARK 3 T11: 0.1836 T22: 0.1875 REMARK 3 T33: 0.1693 T12: -0.0616 REMARK 3 T13: -0.0061 T23: 0.0436 REMARK 3 L TENSOR REMARK 3 L11: 6.7332 L22: 7.3605 REMARK 3 L33: 6.5056 L12: -1.6588 REMARK 3 L13: -1.6201 L23: 3.1388 REMARK 3 S TENSOR REMARK 3 S11: 0.0839 S12: 0.1458 S13: 0.1345 REMARK 3 S21: -0.4135 S22: 0.1643 S23: -0.1294 REMARK 3 S31: -0.2104 S32: 0.2875 S33: -0.1908 REMARK 3 TLS GROUP : 6 REMARK 3 SELECTION: CHAIN 'B' AND (RESID 185 THROUGH 271 ) REMARK 3 ORIGIN FOR THE GROUP (A): 5.1498 -41.7672 118.7378 REMARK 3 T TENSOR REMARK 3 T11: 0.1326 T22: 0.1629 REMARK 3 T33: 0.2174 T12: 0.0188 REMARK 3 T13: -0.0294 T23: 0.0187 REMARK 3 L TENSOR REMARK 3 L11: 3.6339 L22: 2.4044 REMARK 3 L33: 4.2553 L12: -0.4168 REMARK 3 L13: -0.7042 L23: 0.8266 REMARK 3 S TENSOR REMARK 3 S11: -0.0311 S12: 0.1339 S13: -0.0514 REMARK 3 S21: -0.1787 S22: -0.0082 S23: 0.1806 REMARK 3 S31: -0.0367 S32: -0.2456 S33: 0.0417 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 5D0E 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_1000204592. REMARK 200 REMARK 200 EXPERIMENTAL DETAILS REMARK 200 EXPERIMENT TYPE : X-RAY DIFFRACTION REMARK 200 DATE OF DATA COLLECTION : 12-FEB-14 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) : 0.978560 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 : 50213 REMARK 200 RESOLUTION RANGE HIGH (A) : 1.480 REMARK 200 RESOLUTION RANGE LOW (A) : 27.100 REMARK 200 REJECTION CRITERIA (SIGMA(I)) : NULL REMARK 200 REMARK 200 OVERALL. REMARK 200 COMPLETENESS FOR RANGE (%) : 99.8 REMARK 200 DATA REDUNDANCY : 7.400 REMARK 200 R MERGE (I) : 0.06800 REMARK 200 R SYM (I) : NULL REMARK 200 FOR THE DATA SET : 13.2000 REMARK 200 REMARK 200 IN THE HIGHEST RESOLUTION SHELL. REMARK 200 HIGHEST RESOLUTION SHELL, RANGE HIGH (A) : 1.48 REMARK 200 HIGHEST RESOLUTION SHELL, RANGE LOW (A) : 1.56 REMARK 200 COMPLETENESS FOR SHELL (%) : 99.1 REMARK 200 DATA REDUNDANCY IN SHELL : 7.00 REMARK 200 R MERGE FOR SHELL (I) : 0.93000 REMARK 200 R SYM FOR SHELL (I) : NULL REMARK 200 FOR SHELL : NULL 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 (%): 36.77 REMARK 280 MATTHEWS COEFFICIENT, VM (ANGSTROMS**3/DA): 2.12 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 27.85500 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: 4100 ANGSTROM**2 REMARK 350 SURFACE AREA OF THE COMPLEX: 14370 ANGSTROM**2 REMARK 350 CHANGE IN SOLVENT FREE ENERGY: -52.0 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 ALA A 184 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 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 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 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 MET A 103 SD CE REMARK 470 ARG A 106 NH2 REMARK 470 LEU A 132 CD1 REMARK 470 LYS A 138 CG CD CE NZ REMARK 470 ASP A 142 OD2 REMARK 470 ARG A 146 CG CD NE CZ NH1 NH2 REMARK 470 ARG A 165 CZ NH1 NH2 REMARK 470 ARG A 181 CD NE CZ NH1 NH2 REMARK 470 ARG A 182 NE CZ NH1 NH2 REMARK 470 GLU A 190 CG CD OE1 OE2 REMARK 470 GLU A 191 OE1 REMARK 470 ILE A 192 CD1 REMARK 470 ARG A 193 NH2 REMARK 470 ARG A 237 CZ NH1 NH2 REMARK 470 ARG A 242 CG CD NE CZ NH1 NH2 REMARK 470 SER A 243 CB OG REMARK 470 ARG A 247 CG CD NE CZ NH1 NH2 REMARK 470 LYS A 257 CD CE NZ REMARK 470 ARG B 106 CG CD NE CZ NH1 NH2 REMARK 470 ARG B 127 CZ NH1 NH2 REMARK 470 ARG B 145 CD NE CZ NH1 NH2 REMARK 470 ARG B 146 CZ NH1 NH2 REMARK 470 GLN B 155 CB CG CD OE1 NE2 REMARK 470 ARG B 165 CD NE CZ NH1 NH2 REMARK 470 GLU B 167 CG CD OE1 OE2 REMARK 470 GLN B 168 NE2 REMARK 470 ARG B 171 NE CZ NH1 NH2 REMARK 470 GLU B 175 CD OE1 OE2 REMARK 470 ARG B 182 CG CD NE CZ NH1 NH2 REMARK 470 GLU B 191 CG CD OE1 OE2 REMARK 470 ARG B 193 CZ NH1 NH2 REMARK 470 ARG B 205 CG CD NE CZ NH1 NH2 REMARK 470 ARG B 206 CG CD NE CZ NH1 NH2 REMARK 470 ARG B 242 CB CG CD NE CZ NH1 NH2 REMARK 470 ASP B 244 CG OD1 OD2 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 OD1 ASP B 113 OD1 ASP B 157 2.13 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 SER A 243 75.23 -67.45 REMARK 500 ASP B 157 34.69 -89.90 REMARK 500 ASP B 208 47.99 -99.76 REMARK 500 REMARK 500 REMARK: NULL 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 301 CA REMARK 620 N RES CSSEQI ATOM REMARK 620 1 ASP A 113 OD1 REMARK 620 2 ILE A 114 O 90.6 REMARK 620 3 ASP A 157 OD1 56.3 93.0 REMARK 620 4 ASP A 157 OD2 102.2 91.7 45.9 REMARK 620 5 GTP A 303 O2A 101.2 167.0 98.0 91.0 REMARK 620 6 GTP A 303 O2G 106.7 94.2 161.7 150.4 77.3 REMARK 620 7 GTP A 303 O2B 178.9 90.4 123.8 78.0 77.8 73.0 REMARK 620 N 1 2 3 4 5 6 REMARK 620 REMARK 620 COORDINATION ANGLES FOR: M RES CSSEQI METAL REMARK 620 CA B 301 CA REMARK 620 N RES CSSEQI ATOM REMARK 620 1 GTP A 302 O3G REMARK 620 2 GTP A 302 O1B 72.8 REMARK 620 3 GTP A 302 O1A 83.1 77.4 REMARK 620 4 ASP B 113 OD1 111.3 160.5 84.1 REMARK 620 5 ASP B 113 OD2 75.8 143.7 116.6 52.0 REMARK 620 6 ILE B 114 O 95.7 86.1 163.2 111.8 79.1 REMARK 620 7 ASP B 157 OD1 164.1 119.1 89.2 53.8 95.4 95.6 REMARK 620 8 ASP B 157 OD2 132.2 65.7 65.9 101.2 150.2 104.0 54.9 REMARK 620 N 1 2 3 4 5 6 7 REMARK 800 REMARK 800 SITE REMARK 800 SITE_IDENTIFIER: AC1 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue CA A 301 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC2 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue GTP A 302 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC3 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue GTP A 303 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC4 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue CA B 301 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC5 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue CL B 302 REMARK 900 REMARK 900 RELATED ENTRIES REMARK 900 RELATED ID: 5D0G RELATED DB: PDB REMARK 900 RELATED ID: 5D0H RELATED DB: PDB REMARK 900 RELATED ID: 5D15 RELATED DB: PDB DBREF 5D0E A 106 275 UNP V7LAR8 V7LAR8_MYCAV 106 275 DBREF 5D0E B 106 275 UNP V7LAR8 V7LAR8_MYCAV 106 275 SEQADV 5D0E PHE A 99 UNP V7LAR8 EXPRESSION TAG SEQADV 5D0E GLN A 100 UNP V7LAR8 EXPRESSION TAG SEQADV 5D0E GLY A 101 UNP V7LAR8 EXPRESSION TAG SEQADV 5D0E ALA A 102 UNP V7LAR8 EXPRESSION TAG SEQADV 5D0E MET A 103 UNP V7LAR8 EXPRESSION TAG SEQADV 5D0E GLY A 104 UNP V7LAR8 EXPRESSION TAG SEQADV 5D0E SER A 105 UNP V7LAR8 EXPRESSION TAG SEQADV 5D0E PHE B 99 UNP V7LAR8 EXPRESSION TAG SEQADV 5D0E GLN B 100 UNP V7LAR8 EXPRESSION TAG SEQADV 5D0E GLY B 101 UNP V7LAR8 EXPRESSION TAG SEQADV 5D0E ALA B 102 UNP V7LAR8 EXPRESSION TAG SEQADV 5D0E MET B 103 UNP V7LAR8 EXPRESSION TAG SEQADV 5D0E GLY B 104 UNP V7LAR8 EXPRESSION TAG SEQADV 5D0E SER B 105 UNP V7LAR8 EXPRESSION TAG 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 LYS 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 ASP LEU PHE GLY ARG ASN VAL SEQRES 10 A 177 ALA MET ALA ALA 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 LYS 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 ASP LEU PHE GLY ARG ASN VAL SEQRES 10 B 177 ALA MET ALA ALA 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 CA A 301 1 HET GTP A 302 42 HET GTP A 303 42 HET CA B 301 1 HET CL B 302 1 HETNAM CA CALCIUM ION HETNAM GTP GUANOSINE-5'-TRIPHOSPHATE HETNAM CL CHLORIDE ION FORMUL 3 CA 2(CA 2+) FORMUL 4 GTP 2(C10 H16 N5 O14 P3) FORMUL 7 CL CL 1- FORMUL 8 HOH *321(H2 O) HELIX 1 AA1 GLU A 116 GLN A 147 1 32 HELIX 2 AA2 ARG A 165 ASN A 183 1 19 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 GLN B 147 1 32 HELIX 6 AA6 ARG B 165 ASN B 185 1 21 HELIX 7 AA7 GLY B 212 ALA B 225 1 14 HELIX 8 AA8 SER B 233 LEU B 240 1 8 SHEET 1 AA1 5 HIS A 150 LYS A 153 0 SHEET 2 AA1 5 MET A 160 PHE A 163 -1 O MET A 160 N LYS A 153 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 ARG A 195 N ASP A 113 SHEET 5 AA1 5 ASP A 209 PHE A 211 -1 O PHE A 211 N VAL A 204 SHEET 1 AA2 7 HIS A 150 LYS A 153 0 SHEET 2 AA2 7 MET A 160 PHE A 163 -1 O MET A 160 N LYS A 153 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 ARG A 195 N ASP A 113 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 ARG A 252 O LEU A 265 SHEET 1 AA3 5 HIS B 150 LYS B 153 0 SHEET 2 AA3 5 MET B 160 PHE B 163 -1 O MET B 160 N LYS B 153 SHEET 3 AA3 5 SER B 105 ILE B 114 -1 N LEU B 110 O VAL B 161 SHEET 4 AA3 5 VAL B 194 ARG B 205 -1 O ARG B 195 N ASP B 113 SHEET 5 AA3 5 LEU B 210 PHE B 211 -1 O PHE B 211 N VAL B 204 SHEET 1 AA4 7 HIS B 150 LYS B 153 0 SHEET 2 AA4 7 MET B 160 PHE B 163 -1 O MET B 160 N LYS B 153 SHEET 3 AA4 7 SER B 105 ILE B 114 -1 N LEU B 110 O VAL B 161 SHEET 4 AA4 7 VAL B 194 ARG B 205 -1 O ARG B 195 N ASP B 113 SHEET 5 AA4 7 ILE B 230 VAL B 232 1 O LEU B 231 N ILE B 196 SHEET 6 AA4 7 TYR B 263 ALA B 267 -1 O PHE B 266 N VAL B 232 SHEET 7 AA4 7 ARG B 252 VAL B 254 -1 N VAL B 254 O TYR B 263 LINK CB GLN A 155 O6 GTP A 302 1555 1555 1.38 LINK OD1 ASP A 113 CA CA A 301 1555 1555 2.35 LINK O ILE A 114 CA CA A 301 1555 1555 2.38 LINK OD1 ASP A 157 CA CA A 301 1555 1555 2.91 LINK OD2 ASP A 157 CA CA A 301 1555 1555 2.23 LINK CA CA A 301 O2A GTP A 303 1555 1555 2.37 LINK CA CA A 301 O2G GTP A 303 1555 1555 2.38 LINK CA CA A 301 O2B GTP A 303 1555 1555 2.37 LINK O3G GTP A 302 CA CA B 301 1555 1555 2.38 LINK O1B GTP A 302 CA CA B 301 1555 1555 2.37 LINK O1A GTP A 302 CA CA B 301 1555 1555 2.38 LINK OD1 ASP B 113 CA CA B 301 1555 1555 2.33 LINK OD2 ASP B 113 CA CA B 301 1555 1555 2.64 LINK O ILE B 114 CA CA B 301 1555 1555 2.38 LINK OD1 ASP B 157 CA CA B 301 1555 1555 2.37 LINK OD2 ASP B 157 CA CA B 301 1555 1555 2.36 SITE 1 AC1 4 ASP A 113 ILE A 114 ASP A 157 GTP A 303 SITE 1 AC2 21 PHE A 111 LYS A 153 GLN A 155 VAL A 215 SITE 2 AC2 21 ALA A 216 ARG A 220 HOH A 402 HOH A 404 SITE 3 AC2 21 HOH A 417 HOH A 454 HOH A 478 ASP B 113 SITE 4 AC2 21 ILE B 114 GLU B 116 SER B 117 THR B 118 SITE 5 AC2 21 GLY B 156 ASP B 157 ARG B 195 CA B 301 SITE 6 AC2 21 HOH B 483 SITE 1 AC3 21 ASP A 113 ILE A 114 GLU A 116 SER A 117 SITE 2 AC3 21 THR A 118 GLY A 156 ASP A 157 ARG A 195 SITE 3 AC3 21 CA A 301 HOH A 401 HOH A 412 HOH A 451 SITE 4 AC3 21 HOH A 463 HOH A 487 HOH A 521 PHE B 111 SITE 5 AC3 21 GLN B 155 VAL B 215 ALA B 216 LYS B 257 SITE 6 AC3 21 HOH B 425 SITE 1 AC4 4 GTP A 302 ASP B 113 ILE B 114 ASP B 157 SITE 1 AC5 3 ARG B 220 GLN B 224 LYS B 257 CRYST1 52.590 55.710 55.270 90.00 109.74 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 0.019015 0.000000 0.006823 0.00000 SCALE2 0.000000 0.017950 0.000000 0.00000 SCALE3 0.000000 0.000000 0.019223 0.00000