HEADER OXIDOREDUCTASE/OXIDOREDUCTASE INHIBITOR 19-SEP-20 7K6A TITLE CRYSTAL STRUCTURE OF DIHYDROFOLATE REDUCTASE (DHFR) FROM MYCOBACTERIUM TITLE 2 ULCERANS AGY99 IN COMPLEX WITH NADP AND INHIBITOR SDDC-0001575 COMPND MOL_ID: 1; COMPND 2 MOLECULE: DIHYDROFOLATE REDUCTASE; COMPND 3 CHAIN: A; COMPND 4 EC: 1.5.1.3; COMPND 5 ENGINEERED: YES; COMPND 6 MUTATION: YES SOURCE MOL_ID: 1; SOURCE 2 ORGANISM_SCIENTIFIC: MYCOBACTERIUM ULCERANS (STRAIN AGY99); SOURCE 3 ORGANISM_TAXID: 362242; SOURCE 4 STRAIN: AGY99; SOURCE 5 GENE: DFRA, MUL_2179; SOURCE 6 EXPRESSION_SYSTEM: ESCHERICHIA COLI BL21(DE3); SOURCE 7 EXPRESSION_SYSTEM_TAXID: 469008; SOURCE 8 EXPRESSION_SYSTEM_STRAIN: BL21(DE3); SOURCE 9 EXPRESSION_SYSTEM_VECTOR_TYPE: PLASMID; SOURCE 10 EXPRESSION_SYSTEM_PLASMID: MYULA.01062.A.B12 KEYWDS SSGCID, SDDC, INHIBITOR, STRUCTURAL GENOMICS, SEATTLE STRUCTURAL KEYWDS 2 GENOMICS CENTER FOR INFECTIOUS DISEASE, OXIDOREDUCTASE, KEYWDS 3 OXIDOREDUCTASE-OXIDOREDUCTASE INHIBITOR COMPLEX EXPDTA X-RAY DIFFRACTION AUTHOR SEATTLE STRUCTURAL GENOMICS CENTER FOR INFECTIOUS DISEASE (SSGCID) REVDAT 2 18-OCT-23 7K6A 1 KEYWDS REVDAT 1 17-MAR-21 7K6A 0 JRNL AUTH J.ABENDROTH,D.M.DRANOW,V.SANTHAKUMAR,C.WALPOLE,D.D.LORIMER, JRNL AUTH 2 P.S.HORANYI,T.E.EDWARDS JRNL TITL CRYSTAL STRUCTURE OF DIHYDROFOLATE REDUCTASE (DHFR) FROM JRNL TITL 2 MYCOBACTERIUM ULCERANS AGY99 IN COMPLEX WITH NADP AND JRNL TITL 3 INHIBITOR SDDC-0001575 JRNL REF TO BE PUBLISHED JRNL REFN REMARK 2 REMARK 2 RESOLUTION. 1.60 ANGSTROMS. REMARK 3 REMARK 3 REFINEMENT. REMARK 3 PROGRAM : PHENIX 1.18.2 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 : GEOSTD + MONOMER LIBRARY + CDL V1.2 REMARK 3 REMARK 3 DATA USED IN REFINEMENT. REMARK 3 RESOLUTION RANGE HIGH (ANGSTROMS) : 1.60 REMARK 3 RESOLUTION RANGE LOW (ANGSTROMS) : 44.27 REMARK 3 MIN(FOBS/SIGMA_FOBS) : 1.350 REMARK 3 COMPLETENESS FOR RANGE (%) : 98.6 REMARK 3 NUMBER OF REFLECTIONS : 21855 REMARK 3 REMARK 3 FIT TO DATA USED IN REFINEMENT. REMARK 3 R VALUE (WORKING + TEST SET) : 0.149 REMARK 3 R VALUE (WORKING SET) : 0.146 REMARK 3 FREE R VALUE : 0.178 REMARK 3 FREE R VALUE TEST SET SIZE (%) : 9.490 REMARK 3 FREE R VALUE TEST SET COUNT : 2074 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 44.2700 - 3.9500 1.00 1395 124 0.1449 0.1712 REMARK 3 2 3.9400 - 3.1300 1.00 1331 159 0.1321 0.1662 REMARK 3 3 3.1300 - 2.7400 1.00 1328 157 0.1470 0.1724 REMARK 3 4 2.7400 - 2.4900 1.00 1334 142 0.1459 0.1771 REMARK 3 5 2.4900 - 2.3100 1.00 1337 150 0.1429 0.1954 REMARK 3 6 2.3100 - 2.1700 1.00 1319 148 0.1443 0.1660 REMARK 3 7 2.1700 - 2.0600 1.00 1321 126 0.1389 0.1531 REMARK 3 8 2.0600 - 1.9700 1.00 1386 124 0.1373 0.1537 REMARK 3 9 1.9700 - 1.9000 1.00 1299 172 0.1420 0.1957 REMARK 3 10 1.9000 - 1.8300 0.99 1316 141 0.1490 0.1654 REMARK 3 11 1.8300 - 1.7700 0.98 1311 113 0.1506 0.1924 REMARK 3 12 1.7700 - 1.7200 0.98 1299 144 0.1593 0.1968 REMARK 3 13 1.7200 - 1.6800 0.95 1279 117 0.1676 0.2190 REMARK 3 14 1.6800 - 1.6400 0.95 1274 135 0.1798 0.2208 REMARK 3 15 1.6400 - 1.6000 0.95 1252 122 0.2053 0.2551 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) : 0.137 REMARK 3 PHASE ERROR (DEGREES, MAXIMUM-LIKELIHOOD BASED) : 17.467 REMARK 3 REMARK 3 B VALUES. REMARK 3 FROM WILSON PLOT (A**2) : 19.18 REMARK 3 MEAN B VALUE (OVERALL, A**2) : 15.55 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 : 0.007 1425 REMARK 3 ANGLE : 1.084 1969 REMARK 3 CHIRALITY : 0.058 217 REMARK 3 PLANARITY : 0.010 268 REMARK 3 DIHEDRAL : 13.590 546 REMARK 3 REMARK 3 TLS DETAILS REMARK 3 NUMBER OF TLS GROUPS : 10 REMARK 3 TLS GROUP : 1 REMARK 3 SELECTION: CHAIN 'A' AND (RESID 3 THROUGH 26 ) REMARK 3 ORIGIN FOR THE GROUP (A): 5.1880 1.8182 16.1283 REMARK 3 T TENSOR REMARK 3 T11: 0.0460 T22: 0.0438 REMARK 3 T33: 0.0658 T12: -0.0057 REMARK 3 T13: 0.0080 T23: -0.0059 REMARK 3 L TENSOR REMARK 3 L11: 2.7806 L22: 2.9260 REMARK 3 L33: 3.3438 L12: -0.0479 REMARK 3 L13: 0.1957 L23: -0.2032 REMARK 3 S TENSOR REMARK 3 S11: 0.0574 S12: -0.2063 S13: 0.0958 REMARK 3 S21: 0.1037 S22: -0.0267 S23: -0.1007 REMARK 3 S31: -0.0693 S32: -0.0098 S33: -0.0154 REMARK 3 TLS GROUP : 2 REMARK 3 SELECTION: CHAIN 'A' AND (RESID 27 THROUGH 37 ) REMARK 3 ORIGIN FOR THE GROUP (A): -7.9134 2.8732 13.5375 REMARK 3 T TENSOR REMARK 3 T11: 0.0596 T22: 0.0509 REMARK 3 T33: 0.0885 T12: 0.0030 REMARK 3 T13: 0.0010 T23: -0.0122 REMARK 3 L TENSOR REMARK 3 L11: 3.2949 L22: 4.4245 REMARK 3 L33: 4.6352 L12: -0.5240 REMARK 3 L13: -0.0123 L23: 3.2798 REMARK 3 S TENSOR REMARK 3 S11: 0.0729 S12: -0.1631 S13: 0.1878 REMARK 3 S21: -0.0928 S22: -0.1857 S23: 0.2327 REMARK 3 S31: -0.2453 S32: -0.0650 S33: 0.0894 REMARK 3 TLS GROUP : 3 REMARK 3 SELECTION: CHAIN 'A' AND (RESID 38 THROUGH 62 ) REMARK 3 ORIGIN FOR THE GROUP (A): -3.2864 -10.1336 12.8668 REMARK 3 T TENSOR REMARK 3 T11: 0.0542 T22: 0.0199 REMARK 3 T33: 0.0522 T12: -0.0117 REMARK 3 T13: 0.0054 T23: -0.0168 REMARK 3 L TENSOR REMARK 3 L11: 4.0684 L22: 2.6933 REMARK 3 L33: 3.0055 L12: -1.2571 REMARK 3 L13: 0.4864 L23: -0.6941 REMARK 3 S TENSOR REMARK 3 S11: -0.0151 S12: -0.0840 S13: -0.0658 REMARK 3 S21: 0.0434 S22: -0.0267 S23: 0.0986 REMARK 3 S31: 0.0428 S32: -0.0395 S33: 0.0399 REMARK 3 TLS GROUP : 4 REMARK 3 SELECTION: CHAIN 'A' AND (RESID 63 THROUGH 78 ) REMARK 3 ORIGIN FOR THE GROUP (A): 0.9888 -18.3743 8.8087 REMARK 3 T TENSOR REMARK 3 T11: 0.1206 T22: 0.0527 REMARK 3 T33: 0.1335 T12: 0.0098 REMARK 3 T13: 0.0275 T23: -0.0339 REMARK 3 L TENSOR REMARK 3 L11: 4.3345 L22: 3.7246 REMARK 3 L33: 1.5102 L12: -1.3858 REMARK 3 L13: -0.7214 L23: -0.2666 REMARK 3 S TENSOR REMARK 3 S11: -0.2071 S12: 0.2879 S13: -0.4113 REMARK 3 S21: 0.0156 S22: -0.0074 S23: -0.2455 REMARK 3 S31: 0.2542 S32: -0.0617 S33: 0.1119 REMARK 3 TLS GROUP : 5 REMARK 3 SELECTION: CHAIN 'A' AND (RESID 79 THROUGH 87 ) REMARK 3 ORIGIN FOR THE GROUP (A): 3.4094 -15.1917 1.5906 REMARK 3 T TENSOR REMARK 3 T11: 0.1363 T22: 0.1240 REMARK 3 T33: 0.1119 T12: 0.0063 REMARK 3 T13: 0.0191 T23: -0.0271 REMARK 3 L TENSOR REMARK 3 L11: 2.4339 L22: 7.1923 REMARK 3 L33: 3.9752 L12: 0.3147 REMARK 3 L13: -0.5940 L23: 1.1227 REMARK 3 S TENSOR REMARK 3 S11: 0.0027 S12: 0.1492 S13: 0.2809 REMARK 3 S21: -0.5372 S22: 0.1230 S23: -0.4439 REMARK 3 S31: -0.0126 S32: 0.3131 S33: 0.0006 REMARK 3 TLS GROUP : 6 REMARK 3 SELECTION: CHAIN 'A' AND (RESID 88 THROUGH 102 ) REMARK 3 ORIGIN FOR THE GROUP (A): -2.5710 -7.5442 0.3504 REMARK 3 T TENSOR REMARK 3 T11: 0.1976 T22: 0.1344 REMARK 3 T33: 0.1657 T12: -0.0225 REMARK 3 T13: -0.0503 T23: -0.0356 REMARK 3 L TENSOR REMARK 3 L11: 0.5763 L22: 6.1925 REMARK 3 L33: 3.0313 L12: 0.4025 REMARK 3 L13: -0.6366 L23: 2.5228 REMARK 3 S TENSOR REMARK 3 S11: -0.2348 S12: 0.2666 S13: -0.2921 REMARK 3 S21: -0.9220 S22: -0.0285 S23: 0.4940 REMARK 3 S31: -0.2616 S32: -0.3069 S33: 0.0687 REMARK 3 TLS GROUP : 7 REMARK 3 SELECTION: CHAIN 'A' AND (RESID 103 THROUGH 112 ) REMARK 3 ORIGIN FOR THE GROUP (A): 9.0481 -4.1773 4.1677 REMARK 3 T TENSOR REMARK 3 T11: 0.0742 T22: 0.0841 REMARK 3 T33: 0.0929 T12: 0.0227 REMARK 3 T13: 0.0135 T23: 0.0042 REMARK 3 L TENSOR REMARK 3 L11: 3.3901 L22: 3.6941 REMARK 3 L33: 5.9004 L12: -1.2835 REMARK 3 L13: 1.1718 L23: -2.7325 REMARK 3 S TENSOR REMARK 3 S11: 0.1445 S12: 0.3317 S13: -0.0128 REMARK 3 S21: -0.3030 S22: -0.3758 S23: -0.0486 REMARK 3 S31: 0.0573 S32: 0.2949 S33: 0.1951 REMARK 3 TLS GROUP : 8 REMARK 3 SELECTION: CHAIN 'A' AND (RESID 113 THROUGH 132 ) REMARK 3 ORIGIN FOR THE GROUP (A): 7.2106 4.7089 14.6912 REMARK 3 T TENSOR REMARK 3 T11: 0.0785 T22: 0.0441 REMARK 3 T33: 0.1128 T12: -0.0209 REMARK 3 T13: -0.0238 T23: -0.0069 REMARK 3 L TENSOR REMARK 3 L11: 1.9419 L22: 2.7080 REMARK 3 L33: 0.3891 L12: -1.5872 REMARK 3 L13: -0.8861 L23: 0.2376 REMARK 3 S TENSOR REMARK 3 S11: -0.1821 S12: -0.1837 S13: 0.2378 REMARK 3 S21: 0.1582 S22: 0.0955 S23: -0.3115 REMARK 3 S31: -0.1310 S32: -0.0092 S33: 0.0548 REMARK 3 TLS GROUP : 9 REMARK 3 SELECTION: CHAIN 'A' AND (RESID 133 THROUGH 145 ) REMARK 3 ORIGIN FOR THE GROUP (A): 8.5811 8.7270 3.4608 REMARK 3 T TENSOR REMARK 3 T11: 0.1391 T22: 0.1195 REMARK 3 T33: 0.1249 T12: 0.0000 REMARK 3 T13: 0.0358 T23: 0.0469 REMARK 3 L TENSOR REMARK 3 L11: 0.1384 L22: 1.0169 REMARK 3 L33: 3.1542 L12: -0.2349 REMARK 3 L13: 0.6832 L23: -0.3655 REMARK 3 S TENSOR REMARK 3 S11: 0.1014 S12: 0.2227 S13: 0.1270 REMARK 3 S21: -0.0482 S22: -0.1936 S23: -0.1431 REMARK 3 S31: -0.5090 S32: 0.4188 S33: 0.0686 REMARK 3 TLS GROUP : 10 REMARK 3 SELECTION: CHAIN 'A' AND (RESID 146 THROUGH 165 ) REMARK 3 ORIGIN FOR THE GROUP (A): -0.1016 11.8662 10.9205 REMARK 3 T TENSOR REMARK 3 T11: 0.1235 T22: 0.0504 REMARK 3 T33: 0.0916 T12: 0.0152 REMARK 3 T13: 0.0005 T23: 0.0046 REMARK 3 L TENSOR REMARK 3 L11: 2.0498 L22: 1.6297 REMARK 3 L33: 7.2185 L12: -0.5140 REMARK 3 L13: -3.0613 L23: 2.5174 REMARK 3 S TENSOR REMARK 3 S11: 0.1074 S12: 0.0889 S13: 0.0953 REMARK 3 S21: -0.0878 S22: -0.0925 S23: -0.0070 REMARK 3 S31: -0.1005 S32: -0.2038 S33: -0.0136 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 7K6A COMPLIES WITH FORMAT V. 3.30, 13-JUL-11 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY RCSB ON 21-SEP-20. REMARK 100 THE DEPOSITION ID IS D_1000251921. REMARK 200 REMARK 200 EXPERIMENTAL DETAILS REMARK 200 EXPERIMENT TYPE : X-RAY DIFFRACTION REMARK 200 DATE OF DATA COLLECTION : 02-SEP-20 REMARK 200 TEMPERATURE (KELVIN) : 100 REMARK 200 PH : 6.5 REMARK 200 NUMBER OF CRYSTALS USED : 1 REMARK 200 REMARK 200 SYNCHROTRON (Y/N) : N REMARK 200 RADIATION SOURCE : ROTATING ANODE REMARK 200 BEAMLINE : NULL REMARK 200 X-RAY GENERATOR MODEL : RIGAKU FR-E+ SUPERBRIGHT REMARK 200 MONOCHROMATIC OR LAUE (M/L) : M REMARK 200 WAVELENGTH OR RANGE (A) : 1.5418 REMARK 200 MONOCHROMATOR : NULL REMARK 200 OPTICS : NULL REMARK 200 REMARK 200 DETECTOR TYPE : CCD REMARK 200 DETECTOR MANUFACTURER : RIGAKU SATURN 944+ REMARK 200 INTENSITY-INTEGRATION SOFTWARE : XDS REMARK 200 DATA SCALING SOFTWARE : XSCALE REMARK 200 REMARK 200 NUMBER OF UNIQUE REFLECTIONS : 21861 REMARK 200 RESOLUTION RANGE HIGH (A) : 1.600 REMARK 200 RESOLUTION RANGE LOW (A) : 50.000 REMARK 200 REJECTION CRITERIA (SIGMA(I)) : NULL REMARK 200 REMARK 200 OVERALL. REMARK 200 COMPLETENESS FOR RANGE (%) : 98.6 REMARK 200 DATA REDUNDANCY : 6.162 REMARK 200 R MERGE (I) : 0.04700 REMARK 200 R SYM (I) : NULL REMARK 200 FOR THE DATA SET : 25.2100 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) : 1.64 REMARK 200 COMPLETENESS FOR SHELL (%) : 94.6 REMARK 200 DATA REDUNDANCY IN SHELL : 3.70 REMARK 200 R MERGE FOR SHELL (I) : 0.40000 REMARK 200 R SYM FOR SHELL (I) : NULL REMARK 200 FOR SHELL : 3.620 REMARK 200 REMARK 200 DIFFRACTION PROTOCOL: SINGLE WAVELENGTH REMARK 200 METHOD USED TO DETERMINE THE STRUCTURE: MOLECULAR REPLACEMENT REMARK 200 SOFTWARE USED: PHASER REMARK 200 STARTING MODEL: NAD AND P218-BOUND STRUCTURE, PDB ENTRY 6UWW REMARK 200 REMARK 200 REMARK: NULL REMARK 280 REMARK 280 CRYSTAL REMARK 280 SOLVENT CONTENT, VS (%): 44.90 REMARK 280 MATTHEWS COEFFICIENT, VM (ANGSTROMS**3/DA): 2.23 REMARK 280 REMARK 280 CRYSTALLIZATION CONDITIONS: MORPHEUS SCREEN, CONDITION F2: 12.5% REMARK 280 W/V PEG 1000, 12.5% W/V PEG 3350, 12.5% V/V MPD: 20MM OF EACH D- REMARK 280 GLUCOSE, D-MANNOSE, D-GALACTOSE, L-FUCOSE, D-XYLOSE, N-ACETYL-D- REMARK 280 GLUCOSAMINE: 100MM MES/IMIDAZOLE PH 6.5: REMARK 280 MYULA.01062.A.B12.PS38539 AND 15.75MG/ML + 2.5MM NADP AND 4MM REMARK 280 SDDC COMPOUND SDDC-0001575: TRAY: 317893F2: CRYO: DIRECT: PUCK: REMARK 280 XHF8-7, VAPOR DIFFUSION, SITTING DROP, TEMPERATURE 287K 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 33.32500 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: MONOMERIC REMARK 350 SOFTWARE DETERMINED QUATERNARY STRUCTURE: MONOMERIC REMARK 350 SOFTWARE USED: PISA 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 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 MET A -7 REMARK 465 ALA A -6 REMARK 465 HIS A -5 REMARK 465 HIS A -4 REMARK 465 HIS A -3 REMARK 465 HIS A -2 REMARK 465 HIS A -1 REMARK 465 HIS A 0 REMARK 465 MET A 1 REMARK 465 THR A 2 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 25 CG CD NE CZ NH1 NH2 REMARK 470 GLU A 85 CG CD OE1 OE2 REMARK 470 GLU A 92 CG CD OE1 OE2 REMARK 470 ARG A 152 CG CD NE CZ NH1 NH2 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 A 94 O HOH A 301 2.06 REMARK 500 O HOH A 369 O HOH A 483 2.09 REMARK 500 O GLN A 70 O HOH A 302 2.10 REMARK 500 OD2 ASP A 94 O HOH A 303 2.18 REMARK 500 O HOH A 392 O HOH A 447 2.19 REMARK 500 REMARK 500 REMARK: NULL REMARK 500 REMARK 500 GEOMETRY AND STEREOCHEMISTRY REMARK 500 SUBTOPIC: CLOSE CONTACTS REMARK 500 REMARK 500 THE FOLLOWING ATOMS THAT ARE RELATED BY CRYSTALLOGRAPHIC REMARK 500 SYMMETRY ARE IN CLOSE CONTACT. AN ATOM LOCATED WITHIN 0.15 REMARK 500 ANGSTROMS OF A SYMMETRY RELATED ATOM IS ASSUMED TO BE ON A REMARK 500 SPECIAL POSITION AND IS, THEREFORE, LISTED IN REMARK 375 REMARK 500 INSTEAD OF REMARK 500. ATOMS WITH NON-BLANK ALTERNATE REMARK 500 LOCATION INDICATORS ARE NOT INCLUDED IN THE CALCULATIONS. REMARK 500 REMARK 500 DISTANCE CUTOFF: REMARK 500 2.2 ANGSTROMS FOR CONTACTS NOT INVOLVING HYDROGEN ATOMS REMARK 500 1.6 ANGSTROMS FOR CONTACTS INVOLVING HYDROGEN ATOMS REMARK 500 REMARK 500 ATM1 RES C SSEQI ATM2 RES C SSEQI SSYMOP DISTANCE REMARK 500 O HOH A 488 O HOH A 492 1655 2.17 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 PRO A 23 41.94 -89.03 REMARK 500 REMARK 500 REMARK: NULL REMARK 800 REMARK 800 SITE REMARK 800 SITE_IDENTIFIER: AC1 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue NAP A 201 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC2 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue VYG A 202 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC3 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue CL A 203 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC4 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue EDO A 204 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC5 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue EDO A 205 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC6 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue EDO A 206 REMARK 900 REMARK 900 RELATED ENTRIES REMARK 900 RELATED ID: SSGCID-MYULA.01062.A.B12 RELATED DB: TARGETDB DBREF 7K6A A 1 165 UNP A0PQG8 A0PQG8_MYCUA 1 165 SEQADV 7K6A MET A -7 UNP A0PQG8 INITIATING METHIONINE SEQADV 7K6A ALA A -6 UNP A0PQG8 EXPRESSION TAG SEQADV 7K6A HIS A -5 UNP A0PQG8 EXPRESSION TAG SEQADV 7K6A HIS A -4 UNP A0PQG8 EXPRESSION TAG SEQADV 7K6A HIS A -3 UNP A0PQG8 EXPRESSION TAG SEQADV 7K6A HIS A -2 UNP A0PQG8 EXPRESSION TAG SEQADV 7K6A HIS A -1 UNP A0PQG8 EXPRESSION TAG SEQADV 7K6A HIS A 0 UNP A0PQG8 EXPRESSION TAG SEQADV 7K6A ALA A 96 UNP A0PQG8 GLU 96 ENGINEERED MUTATION SEQRES 1 A 173 MET ALA HIS HIS HIS HIS HIS HIS MET THR SER VAL GLY SEQRES 2 A 173 LEU ILE TRP ALA GLN SER THR SER GLY VAL ILE GLY ARG SEQRES 3 A 173 ASP GLY GLY ILE PRO TRP ARG LEU PRO GLU ASP LEU ALA SEQRES 4 A 173 HIS PHE LYS ARG LEU THR MET GLY HIS THR VAL VAL MET SEQRES 5 A 173 GLY ARG ARG THR TRP ASP SER LEU PRO ALA ALA HIS ARG SEQRES 6 A 173 PRO LEU PRO GLY ARG ARG ASN VAL VAL VAL THR ARG GLN SEQRES 7 A 173 THR GLY LEU VAL ALA HIS GLY ALA GLN VAL VAL GLY SER SEQRES 8 A 173 LEU GLU GLN ALA LEU CYS PRO ALA GLU PRO ASP ALA ALA SEQRES 9 A 173 THR TRP VAL ILE GLY GLY ALA GLN ILE TYR ALA LEU ALA SEQRES 10 A 173 LEU PRO LEU ALA ASN ARG CYS GLU VAL THR GLU VAL ASP SEQRES 11 A 173 VAL ASP LEU PRO PRO GLU ASP GLU ASP ALA LEU ALA PRO SEQRES 12 A 173 VAL LEU ASP GLN THR TRP ALA GLY THR SER GLY GLU TRP SEQRES 13 A 173 LEU VAL SER ARG SER GLY LEU ARG TYR ARG MET HIS SER SEQRES 14 A 173 TYR ARG ARG LEU HET NAP A 201 48 HET VYG A 202 31 HET CL A 203 1 HET EDO A 204 4 HET EDO A 205 4 HET EDO A 206 4 HETNAM NAP NADP NICOTINAMIDE-ADENINE-DINUCLEOTIDE PHOSPHATE HETNAM VYG 6-ETHYL-5-[3-({3-[4-(TRIFLUOROMETHYL)PIPERIDIN-1- HETNAM 2 VYG YL]PYRIDIN-2-YL}OXY)PROPOXY]PYRIMIDINE-2,4-DIAMINE HETNAM CL CHLORIDE ION HETNAM EDO 1,2-ETHANEDIOL HETSYN NAP 2'-MONOPHOSPHOADENOSINE 5'-DIPHOSPHORIBOSE HETSYN EDO ETHYLENE GLYCOL FORMUL 2 NAP C21 H28 N7 O17 P3 FORMUL 3 VYG C20 H27 F3 N6 O2 FORMUL 4 CL CL 1- FORMUL 5 EDO 3(C2 H6 O2) FORMUL 8 HOH *205(H2 O) HELIX 1 AA1 LEU A 26 MET A 38 1 13 HELIX 2 AA2 ARG A 46 LEU A 52 1 7 HELIX 3 AA3 PRO A 53 ARG A 57 5 5 HELIX 4 AA4 SER A 83 LEU A 88 1 6 HELIX 5 AA5 GLY A 102 LEU A 110 1 9 HELIX 6 AA6 PRO A 111 ALA A 113 5 3 SHEET 1 AA1 8 GLN A 79 VAL A 81 0 SHEET 2 AA1 8 ARG A 63 VAL A 67 1 N VAL A 66 O GLN A 79 SHEET 3 AA1 8 THR A 41 GLY A 45 1 N VAL A 42 O ARG A 63 SHEET 4 AA1 8 THR A 97 VAL A 99 1 O TRP A 98 N VAL A 43 SHEET 5 AA1 8 VAL A 4 SER A 11 1 N GLY A 5 O VAL A 99 SHEET 6 AA1 8 ARG A 115 ASP A 122 1 O THR A 119 N GLN A 10 SHEET 7 AA1 8 ARG A 156 ARG A 164 -1 O HIS A 160 N VAL A 118 SHEET 8 AA1 8 TRP A 141 SER A 145 -1 N ALA A 142 O ARG A 163 SHEET 1 AA2 8 GLN A 79 VAL A 81 0 SHEET 2 AA2 8 ARG A 63 VAL A 67 1 N VAL A 66 O GLN A 79 SHEET 3 AA2 8 THR A 41 GLY A 45 1 N VAL A 42 O ARG A 63 SHEET 4 AA2 8 THR A 97 VAL A 99 1 O TRP A 98 N VAL A 43 SHEET 5 AA2 8 VAL A 4 SER A 11 1 N GLY A 5 O VAL A 99 SHEET 6 AA2 8 ARG A 115 ASP A 122 1 O THR A 119 N GLN A 10 SHEET 7 AA2 8 ARG A 156 ARG A 164 -1 O HIS A 160 N VAL A 118 SHEET 8 AA2 8 LEU A 149 VAL A 150 -1 N LEU A 149 O TYR A 157 SHEET 1 AA3 2 VAL A 15 GLY A 17 0 SHEET 2 AA3 2 ALA A 132 LEU A 133 -1 O ALA A 132 N ILE A 16 CISPEP 1 ARG A 57 PRO A 58 0 3.95 CISPEP 2 GLY A 101 GLY A 102 0 3.27 SITE 1 AC1 34 TRP A 8 ALA A 9 ILE A 16 GLY A 17 SITE 2 AC1 34 ARG A 18 GLY A 20 GLY A 21 ILE A 22 SITE 3 AC1 34 GLY A 45 ARG A 46 ARG A 47 THR A 48 SITE 4 AC1 34 VAL A 67 THR A 68 ARG A 69 GLN A 70 SITE 5 AC1 34 GLY A 82 ILE A 100 GLY A 102 ALA A 103 SITE 6 AC1 34 GLN A 104 ILE A 105 TYR A 106 LEU A 108 SITE 7 AC1 34 VYG A 202 EDO A 205 EDO A 206 HOH A 320 SITE 8 AC1 34 HOH A 321 HOH A 331 HOH A 340 HOH A 363 SITE 9 AC1 34 HOH A 404 HOH A 415 SITE 1 AC2 15 ILE A 7 TRP A 8 ILE A 22 ASP A 29 SITE 2 AC2 15 LEU A 30 PHE A 33 LYS A 34 PRO A 53 SITE 3 AC2 15 HIS A 56 LEU A 59 ILE A 100 TYR A 106 SITE 4 AC2 15 NAP A 201 HOH A 320 HOH A 401 SITE 1 AC3 3 LYS A 34 MET A 38 ARG A 62 SITE 1 AC4 5 ALA A 75 ALA A 78 GLN A 79 VAL A 80 SITE 2 AC4 5 HOH A 372 SITE 1 AC5 8 ARG A 18 ASP A 19 GLY A 20 ARG A 47 SITE 2 AC5 8 GLU A 130 NAP A 201 EDO A 206 HOH A 439 SITE 1 AC6 7 ARG A 47 GLN A 104 GLU A 130 ASP A 131 SITE 2 AC6 7 ALA A 132 NAP A 201 EDO A 205 CRYST1 28.870 66.650 44.290 90.00 91.80 90.00 P 1 21 1 2 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 0.034638 0.000000 0.001089 0.00000 SCALE2 0.000000 0.015004 0.000000 0.00000 SCALE3 0.000000 0.000000 0.022590 0.00000