PDB Short entry for 3ORK HEADER TRANSFERASE 07-SEP-10 3ORK TITLE MYCOBACTERIUM TUBERCULOSIS PKNB KINASE DOMAIN L33D MUTANT (CRYSTAL TITLE 2 FORM 2) COMPND MOL_ID: 1; COMPND 2 MOLECULE: SERINE/THREONINE PROTEIN KINASE; COMPND 3 CHAIN: A; COMPND 4 FRAGMENT: KINASE DOMAIN (UNP RESIDUES 1 TO 308); COMPND 5 ENGINEERED: YES; COMPND 6 MUTATION: YES SOURCE MOL_ID: 1; SOURCE 2 ORGANISM_SCIENTIFIC: MYCOBACTERIUM TUBERCULOSIS; SOURCE 3 ORGANISM_TAXID: 419947; SOURCE 4 STRAIN: H37RV; SOURCE 5 GENE: MRA_0016, PKNB, PKNB (RV0014C); SOURCE 6 EXPRESSION_SYSTEM: ESCHERICHIA COLI; SOURCE 7 EXPRESSION_SYSTEM_TAXID: 562 KEYWDS STRUCTURAL GENOMICS, TB STRUCTURAL GENOMICS CONSORTIUM, TBSGC, KINASE KEYWDS 2 DOMAIN, SIGNAL TRANSDUCTION, TRANSFERASE EXPDTA X-RAY DIFFRACTION AUTHOR N.ECHOLS,T.N.LOMBANA,N.D.THOMSEN,H.-L.NG,T.ALBER,TB STRUCTURAL AUTHOR 2 GENOMICS CONSORTIUM (TBSGC) REVDAT 2 06-SEP-23 3ORK 1 REMARK SEQADV LINK REVDAT 1 15-DEC-10 3ORK 0 JRNL AUTH T.N.LOMBANA,N.ECHOLS,M.C.GOOD,N.D.THOMSEN,H.-L.NG, JRNL AUTH 2 A.E.GREENSTEIN,A.M.FALICK,D.S.KING,T.ALBER JRNL TITL ALLOSTERIC ACTIVATION MECHANISM OF THE MYCOBACTERIUM JRNL TITL 2 TUBERCULOSIS RECEPTOR SER/THR KINASE, PKNB JRNL REF STRUCTURE V. 18 1667 2010 JRNL REFN ISSN 0969-2126 REMARK 2 REMARK 2 RESOLUTION. 1.60 ANGSTROMS. REMARK 3 REMARK 3 REFINEMENT. REMARK 3 PROGRAM : REFMAC 5.2.0005 REMARK 3 AUTHORS : MURSHUDOV,SKUBAK,LEBEDEV,PANNU,STEINER, REMARK 3 : NICHOLLS,WINN,LONG,VAGIN REMARK 3 REMARK 3 REFINEMENT TARGET : MAXIMUM LIKELIHOOD REMARK 3 REMARK 3 DATA USED IN REFINEMENT. REMARK 3 RESOLUTION RANGE HIGH (ANGSTROMS) : 1.60 REMARK 3 RESOLUTION RANGE LOW (ANGSTROMS) : 20.00 REMARK 3 DATA CUTOFF (SIGMA(F)) : NULL REMARK 3 COMPLETENESS FOR RANGE (%) : 100.0 REMARK 3 NUMBER OF REFLECTIONS : 39545 REMARK 3 REMARK 3 FIT TO DATA USED IN REFINEMENT. REMARK 3 CROSS-VALIDATION METHOD : THROUGHOUT REMARK 3 FREE R VALUE TEST SET SELECTION : RANDOM REMARK 3 R VALUE (WORKING + TEST SET) : 0.143 REMARK 3 R VALUE (WORKING SET) : 0.141 REMARK 3 FREE R VALUE : 0.180 REMARK 3 FREE R VALUE TEST SET SIZE (%) : 5.200 REMARK 3 FREE R VALUE TEST SET COUNT : 2154 REMARK 3 REMARK 3 FIT IN THE HIGHEST RESOLUTION BIN. REMARK 3 TOTAL NUMBER OF BINS USED : 20 REMARK 3 BIN RESOLUTION RANGE HIGH (A) : 1.60 REMARK 3 BIN RESOLUTION RANGE LOW (A) : 1.64 REMARK 3 REFLECTION IN BIN (WORKING SET) : 2421 REMARK 3 BIN COMPLETENESS (WORKING+TEST) (%) : 100.0 REMARK 3 BIN R VALUE (WORKING SET) : 0.1750 REMARK 3 BIN FREE R VALUE SET COUNT : 129 REMARK 3 BIN FREE R VALUE : 0.2460 REMARK 3 REMARK 3 NUMBER OF NON-HYDROGEN ATOMS USED IN REFINEMENT. REMARK 3 PROTEIN ATOMS : 2094 REMARK 3 NUCLEIC ACID ATOMS : 0 REMARK 3 HETEROGEN ATOMS : 45 REMARK 3 SOLVENT ATOMS : 352 REMARK 3 REMARK 3 B VALUES. REMARK 3 FROM WILSON PLOT (A**2) : NULL REMARK 3 MEAN B VALUE (OVERALL, A**2) : 14.18 REMARK 3 OVERALL ANISOTROPIC B VALUE. REMARK 3 B11 (A**2) : 0.61000 REMARK 3 B22 (A**2) : -0.16000 REMARK 3 B33 (A**2) : -0.44000 REMARK 3 B12 (A**2) : 0.00000 REMARK 3 B13 (A**2) : 0.00000 REMARK 3 B23 (A**2) : 0.00000 REMARK 3 REMARK 3 ESTIMATED OVERALL COORDINATE ERROR. REMARK 3 ESU BASED ON R VALUE (A): 0.092 REMARK 3 ESU BASED ON FREE R VALUE (A): 0.075 REMARK 3 ESU BASED ON MAXIMUM LIKELIHOOD (A): 0.045 REMARK 3 ESU FOR B VALUES BASED ON MAXIMUM LIKELIHOOD (A**2): 2.799 REMARK 3 REMARK 3 CORRELATION COEFFICIENTS. REMARK 3 CORRELATION COEFFICIENT FO-FC : 0.974 REMARK 3 CORRELATION COEFFICIENT FO-FC FREE : 0.961 REMARK 3 REMARK 3 RMS DEVIATIONS FROM IDEAL VALUES COUNT RMS WEIGHT REMARK 3 BOND LENGTHS REFINED ATOMS (A): 2296 ; 0.012 ; 0.021 REMARK 3 BOND LENGTHS OTHERS (A): 1495 ; 0.001 ; 0.020 REMARK 3 BOND ANGLES REFINED ATOMS (DEGREES): 3158 ; 1.488 ; 2.002 REMARK 3 BOND ANGLES OTHERS (DEGREES): 3640 ; 0.893 ; 3.001 REMARK 3 TORSION ANGLES, PERIOD 1 (DEGREES): 290 ; 5.716 ; 5.000 REMARK 3 TORSION ANGLES, PERIOD 2 (DEGREES): 103 ;31.570 ;23.495 REMARK 3 TORSION ANGLES, PERIOD 3 (DEGREES): 345 ;11.473 ;15.000 REMARK 3 TORSION ANGLES, PERIOD 4 (DEGREES): 20 ;17.058 ;15.000 REMARK 3 CHIRAL-CENTER RESTRAINTS (A**3): 351 ; 0.080 ; 0.200 REMARK 3 GENERAL PLANES REFINED ATOMS (A): 2583 ; 0.006 ; 0.021 REMARK 3 GENERAL PLANES OTHERS (A): 441 ; 0.002 ; 0.020 REMARK 3 NON-BONDED CONTACTS REFINED ATOMS (A): NULL ; NULL ; NULL REMARK 3 NON-BONDED CONTACTS OTHERS (A): NULL ; NULL ; NULL REMARK 3 NON-BONDED TORSION REFINED ATOMS (A): NULL ; NULL ; NULL REMARK 3 NON-BONDED TORSION OTHERS (A): NULL ; NULL ; NULL REMARK 3 H-BOND (X...Y) REFINED ATOMS (A): 251 ; 0.235 ; 0.200 REMARK 3 H-BOND (X...Y) OTHERS (A): NULL ; NULL ; NULL REMARK 3 POTENTIAL METAL-ION REFINED ATOMS (A): NULL ; NULL ; NULL REMARK 3 POTENTIAL METAL-ION OTHERS (A): NULL ; NULL ; NULL REMARK 3 SYMMETRY VDW REFINED ATOMS (A): 12 ; 0.300 ; 0.200 REMARK 3 SYMMETRY VDW OTHERS (A): 59 ; 0.292 ; 0.200 REMARK 3 SYMMETRY H-BOND REFINED ATOMS (A): 24 ; 0.229 ; 0.200 REMARK 3 SYMMETRY H-BOND OTHERS (A): NULL ; NULL ; NULL REMARK 3 SYMMETRY METAL-ION REFINED ATOMS (A): NULL ; NULL ; NULL REMARK 3 SYMMETRY METAL-ION OTHERS (A): NULL ; NULL ; NULL REMARK 3 REMARK 3 ISOTROPIC THERMAL FACTOR RESTRAINTS. COUNT RMS WEIGHT REMARK 3 MAIN-CHAIN BOND REFINED ATOMS (A**2): 1430 ; 1.172 ; 1.500 REMARK 3 MAIN-CHAIN BOND OTHER ATOMS (A**2): 561 ; 0.351 ; 1.500 REMARK 3 MAIN-CHAIN ANGLE REFINED ATOMS (A**2): 2321 ; 1.894 ; 2.000 REMARK 3 MAIN-CHAIN ANGLE OTHER ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 SIDE-CHAIN BOND REFINED ATOMS (A**2): 866 ; 2.866 ; 3.000 REMARK 3 SIDE-CHAIN BOND OTHER ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 SIDE-CHAIN ANGLE REFINED ATOMS (A**2): 837 ; 4.312 ; 4.500 REMARK 3 SIDE-CHAIN ANGLE OTHER ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 LONG RANGE B REFINED ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 LONG RANGE B OTHER ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 REMARK 3 ANISOTROPIC THERMAL FACTOR RESTRAINTS. COUNT RMS WEIGHT REMARK 3 RIGID-BOND RESTRAINTS (A**2): 3791 ; 1.205 ; 3.000 REMARK 3 SPHERICITY; FREE ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 SPHERICITY; BONDED ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 REMARK 3 NCS RESTRAINTS STATISTICS REMARK 3 NUMBER OF DIFFERENT NCS GROUPS : NULL REMARK 3 REMARK 3 TLS DETAILS REMARK 3 NUMBER OF TLS GROUPS : 4 REMARK 3 REMARK 3 TLS GROUP : 1 REMARK 3 NUMBER OF COMPONENTS GROUP : 2 REMARK 3 COMPONENTS C SSSEQI TO C SSSEQI REMARK 3 RESIDUE RANGE : A 11 A 47 REMARK 3 RESIDUE RANGE : A 67 A 96 REMARK 3 ORIGIN FOR THE GROUP (A): 8.2049 23.0623 9.0917 REMARK 3 T TENSOR REMARK 3 T11: 0.0525 T22: 0.0293 REMARK 3 T33: 0.0424 T12: 0.0081 REMARK 3 T13: -0.0065 T23: -0.0019 REMARK 3 L TENSOR REMARK 3 L11: 1.1620 L22: 1.0041 REMARK 3 L33: 2.0308 L12: -0.0880 REMARK 3 L13: 0.3792 L23: -0.0289 REMARK 3 S TENSOR REMARK 3 S11: -0.0463 S12: 0.0158 S13: 0.0781 REMARK 3 S21: 0.0223 S22: 0.0561 S23: -0.0143 REMARK 3 S31: -0.3148 S32: -0.0689 S33: -0.0098 REMARK 3 REMARK 3 TLS GROUP : 2 REMARK 3 NUMBER OF COMPONENTS GROUP : 1 REMARK 3 COMPONENTS C SSSEQI TO C SSSEQI REMARK 3 RESIDUE RANGE : A 48 A 48 REMARK 3 ORIGIN FOR THE GROUP (A): 5.3359 13.9546 -9.4583 REMARK 3 T TENSOR REMARK 3 T11: 0.0701 T22: 0.2802 REMARK 3 T33: 0.2289 T12: -0.1042 REMARK 3 T13: -0.0106 T23: 0.1376 REMARK 3 L TENSOR REMARK 3 L11: 1.1370 L22: 9.3879 REMARK 3 L33: 18.1266 L12: -2.3008 REMARK 3 L13: -0.1911 L23: 9.6395 REMARK 3 S TENSOR REMARK 3 S11: -0.0387 S12: 0.3327 S13: 0.4887 REMARK 3 S21: -0.3946 S22: -0.2423 S23: -0.7847 REMARK 3 S31: -0.7646 S32: 0.8467 S33: 0.2809 REMARK 3 REMARK 3 TLS GROUP : 3 REMARK 3 NUMBER OF COMPONENTS GROUP : 1 REMARK 3 COMPONENTS C SSSEQI TO C SSSEQI REMARK 3 RESIDUE RANGE : A 97 A 155 REMARK 3 ORIGIN FOR THE GROUP (A): 14.6900 11.2641 23.9799 REMARK 3 T TENSOR REMARK 3 T11: 0.0083 T22: 0.0305 REMARK 3 T33: 0.0285 T12: -0.0003 REMARK 3 T13: -0.0054 T23: -0.0005 REMARK 3 L TENSOR REMARK 3 L11: 1.0527 L22: 1.6373 REMARK 3 L33: 2.4785 L12: -0.0740 REMARK 3 L13: 0.2846 L23: -1.2063 REMARK 3 S TENSOR REMARK 3 S11: -0.0313 S12: 0.0191 S13: 0.0654 REMARK 3 S21: 0.0490 S22: 0.0482 S23: 0.0000 REMARK 3 S31: -0.1281 S32: -0.0279 S33: -0.0169 REMARK 3 REMARK 3 TLS GROUP : 4 REMARK 3 NUMBER OF COMPONENTS GROUP : 1 REMARK 3 COMPONENTS C SSSEQI TO C SSSEQI REMARK 3 RESIDUE RANGE : A 195 A 285 REMARK 3 ORIGIN FOR THE GROUP (A): 15.2136 -2.7501 28.8777 REMARK 3 T TENSOR REMARK 3 T11: 0.0532 T22: 0.0054 REMARK 3 T33: 0.0390 T12: -0.0064 REMARK 3 T13: 0.0091 T23: 0.0009 REMARK 3 L TENSOR REMARK 3 L11: 1.3982 L22: 2.3782 REMARK 3 L33: 2.2742 L12: 0.2958 REMARK 3 L13: 0.0911 L23: -0.8106 REMARK 3 S TENSOR REMARK 3 S11: -0.0523 S12: 0.0434 S13: -0.1869 REMARK 3 S21: -0.0720 S22: 0.0156 S23: -0.0816 REMARK 3 S31: 0.3264 S32: -0.0134 S33: 0.0367 REMARK 3 REMARK 3 BULK SOLVENT MODELLING. REMARK 3 METHOD USED : BABINET MODEL WITH MASK REMARK 3 PARAMETERS FOR MASK CALCULATION REMARK 3 VDW PROBE RADIUS : 1.40 REMARK 3 ION PROBE RADIUS : 0.80 REMARK 3 SHRINKAGE RADIUS : 0.80 REMARK 3 REMARK 3 OTHER REFINEMENT REMARKS: HYDROGENS HAVE BEEN ADDED IN THE RIDING REMARK 3 POSITIONS REMARK 4 REMARK 4 3ORK COMPLIES WITH FORMAT V. 3.30, 13-JUL-11 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY RCSB ON 14-SEP-10. REMARK 100 THE DEPOSITION ID IS D_1000061483. REMARK 200 REMARK 200 EXPERIMENTAL DETAILS REMARK 200 EXPERIMENT TYPE : X-RAY DIFFRACTION REMARK 200 DATE OF DATA COLLECTION : 01-OCT-04 REMARK 200 TEMPERATURE (KELVIN) : 100 REMARK 200 PH : 8.0 REMARK 200 NUMBER OF CRYSTALS USED : 1 REMARK 200 REMARK 200 SYNCHROTRON (Y/N) : Y REMARK 200 RADIATION SOURCE : ALS REMARK 200 BEAMLINE : 8.3.1 REMARK 200 X-RAY GENERATOR MODEL : NULL REMARK 200 MONOCHROMATIC OR LAUE (M/L) : M REMARK 200 WAVELENGTH OR RANGE (A) : 1.1159 REMARK 200 MONOCHROMATOR : Y REMARK 200 OPTICS : NULL REMARK 200 REMARK 200 DETECTOR TYPE : CCD REMARK 200 DETECTOR MANUFACTURER : ADSC QUANTUM 210R REMARK 200 INTENSITY-INTEGRATION SOFTWARE : MOSFLM REMARK 200 DATA SCALING SOFTWARE : SCALA REMARK 200 REMARK 200 NUMBER OF UNIQUE REFLECTIONS : 41724 REMARK 200 RESOLUTION RANGE HIGH (A) : 1.600 REMARK 200 RESOLUTION RANGE LOW (A) : 50.000 REMARK 200 REJECTION CRITERIA (SIGMA(I)) : 0.000 REMARK 200 REMARK 200 OVERALL. REMARK 200 COMPLETENESS FOR RANGE (%) : 97.9 REMARK 200 DATA REDUNDANCY : 3.800 REMARK 200 R MERGE (I) : 0.03400 REMARK 200 R SYM (I) : NULL REMARK 200 <I/SIGMA(I)> FOR THE DATA SET : 18.2000 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 (%) : 88.2 REMARK 200 DATA REDUNDANCY IN SHELL : 3.10 REMARK 200 R MERGE FOR SHELL (I) : 0.31500 REMARK 200 R SYM FOR SHELL (I) : NULL REMARK 200 <I/SIGMA(I)> FOR SHELL : 3.400 REMARK 200 REMARK 200 DIFFRACTION PROTOCOL: SINGLE WAVELENGTH REMARK 200 METHOD USED TO DETERMINE THE STRUCTURE: MOLECULAR REPLACEMENT REMARK 200 SOFTWARE USED: MOLREP REMARK 200 STARTING MODEL: PDB ENTRY 1MRU REMARK 200 REMARK 200 REMARK: NULL REMARK 280 REMARK 280 CRYSTAL REMARK 280 SOLVENT CONTENT, VS (%): 47.63 REMARK 280 MATTHEWS COEFFICIENT, VM (ANGSTROMS**3/DA): 2.35 REMARK 280 REMARK 280 CRYSTALLIZATION CONDITIONS: 27% PEG 3350, 100MM TRIS PH 8.5, 200MM REMARK 280 (NH4)2SO4, VAPOR DIFFUSION, SITTING DROP, TEMPERATURE 277K, PH REMARK 280 8.0 REMARK 290 REMARK 290 CRYSTALLOGRAPHIC SYMMETRY REMARK 290 SYMMETRY OPERATORS FOR SPACE GROUP: P 21 21 21 REMARK 290 REMARK 290 SYMOP SYMMETRY REMARK 290 NNNMMM OPERATOR REMARK 290 1555 X,Y,Z REMARK 290 2555 -X+1/2,-Y,Z+1/2 REMARK 290 3555 -X,Y+1/2,-Z+1/2 REMARK 290 4555 X+1/2,-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 19.67050 REMARK 290 SMTRY2 2 0.000000 -1.000000 0.000000 0.00000 REMARK 290 SMTRY3 2 0.000000 0.000000 1.000000 77.56300 REMARK 290 SMTRY1 3 -1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY2 3 0.000000 1.000000 0.000000 25.80150 REMARK 290 SMTRY3 3 0.000000 0.000000 -1.000000 77.56300 REMARK 290 SMTRY1 4 1.000000 0.000000 0.000000 19.67050 REMARK 290 SMTRY2 4 0.000000 -1.000000 0.000000 25.80150 REMARK 290 SMTRY3 4 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 GLY A -2 REMARK 465 ARG A 161 REMARK 465 ALA A 162 REMARK 465 ILE A 163 REMARK 465 ALA A 164 REMARK 465 ASP A 165 REMARK 465 SER A 166 REMARK 465 GLY A 167 REMARK 465 ASN A 168 REMARK 465 SER A 169 REMARK 465 VAL A 170 REMARK 465 THR A 171 REMARK 465 GLN A 172 REMARK 465 THR A 173 REMARK 465 ALA A 174 REMARK 465 ALA A 175 REMARK 465 VAL A 176 REMARK 465 ILE A 177 REMARK 465 GLY A 178 REMARK 465 ALA A 291 REMARK 465 GLU A 292 REMARK 465 ARG A 293 REMARK 465 THR A 294 REMARK 465 SER A 295 REMARK 465 LEU A 296 REMARK 465 LEU A 297 REMARK 465 SER A 298 REMARK 465 SER A 299 REMARK 465 ALA A 300 REMARK 465 ALA A 301 REMARK 465 GLY A 302 REMARK 465 ASN A 303 REMARK 465 LEU A 304 REMARK 465 SER A 305 REMARK 465 GLY A 306 REMARK 465 PRO A 307 REMARK 465 ARG A 308 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 GLU A 81 CG CD OE1 OE2 REMARK 470 LYS A 113 CG CD CE NZ REMARK 470 ASP A 290 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 O HOH A 374 O HOH A 381 1.46 REMARK 500 O2B AGS A 340 O HOH A 663 1.61 REMARK 500 O HOH A 381 O HOH A 620 1.94 REMARK 500 NH1 ARG A 35 O HOH A 345 1.99 REMARK 500 O HOH A 316 O HOH A 612 2.05 REMARK 500 O HOH A 541 O HOH A 609 2.10 REMARK 500 O HOH A 355 O HOH A 456 2.11 REMARK 500 O HOH A 342 O HOH A 492 2.13 REMARK 500 O GLY A 14 O HOH A 434 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 CB ASP A 290 O HOH A 567 3645 1.90 REMARK 500 O HOH A 459 O HOH A 560 3645 2.04 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 HIS A 0 37.43 -143.95 REMARK 500 ARG A 137 -12.89 82.90 REMARK 500 ASP A 138 41.34 -142.03 REMARK 500 ASP A 156 54.74 70.23 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 MN A 341 MN REMARK 620 N RES CSSEQI ATOM REMARK 620 1 ASN A 143 OD1 REMARK 620 2 ASP A 156 OD2 91.3 REMARK 620 3 AGS A 340 O2A 175.2 86.5 REMARK 620 4 AGS A 340 O1B 96.7 170.7 85.9 REMARK 620 5 AGS A 340 O2A 138.0 127.3 42.7 47.0 REMARK 620 6 AGS A 340 O1A 158.2 72.0 17.5 101.3 55.4 REMARK 620 7 HOH A 359 O 83.0 97.1 92.9 88.7 77.0 85.1 REMARK 620 8 HOH A 363 O 91.9 92.2 92.5 82.7 101.1 102.5 169.5 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 AGS A 340 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC2 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE MN A 341 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC3 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE SO4 A 343 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC4 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE TRS A 344 REMARK 900 REMARK 900 RELATED ENTRIES REMARK 900 RELATED ID: 3ORI RELATED DB: PDB REMARK 900 RELATED ID: 3ORL RELATED DB: PDB REMARK 900 RELATED ID: 3ORM RELATED DB: PDB REMARK 900 RELATED ID: 3ORO RELATED DB: PDB REMARK 900 RELATED ID: 3ORP RELATED DB: PDB REMARK 900 RELATED ID: 3ORT RELATED DB: PDB REMARK 900 RELATED ID: 1MRU RELATED DB: PDB REMARK 900 WILD-TYPE KINASE DOMAIN REMARK 900 RELATED ID: 1O6Y RELATED DB: PDB REMARK 900 WILD-TYPE KINASE DOMAIN DBREF 3ORK A 1 308 UNP A5TY84 A5TY84_MYCTA 1 308 SEQADV 3ORK GLY A -2 UNP A5TY84 EXPRESSION TAG SEQADV 3ORK SER A -1 UNP A5TY84 EXPRESSION TAG SEQADV 3ORK HIS A 0 UNP A5TY84 EXPRESSION TAG SEQADV 3ORK ASP A 33 UNP A5TY84 LEU 33 ENGINEERED MUTATION SEQRES 1 A 311 GLY SER HIS MET THR THR PRO SER HIS LEU SER ASP ARG SEQRES 2 A 311 TYR GLU LEU GLY GLU ILE LEU GLY PHE GLY GLY MET SER SEQRES 3 A 311 GLU VAL HIS LEU ALA ARG ASP LEU ARG ASP HIS ARG ASP SEQRES 4 A 311 VAL ALA VAL LYS VAL LEU ARG ALA ASP LEU ALA ARG ASP SEQRES 5 A 311 PRO SER PHE TYR LEU ARG PHE ARG ARG GLU ALA GLN ASN SEQRES 6 A 311 ALA ALA ALA LEU ASN HIS PRO ALA ILE VAL ALA VAL TYR SEQRES 7 A 311 ASP THR GLY GLU ALA GLU THR PRO ALA GLY PRO LEU PRO SEQRES 8 A 311 TYR ILE VAL MET GLU TYR VAL ASP GLY VAL THR LEU ARG SEQRES 9 A 311 ASP ILE VAL HIS THR GLU GLY PRO MET THR PRO LYS ARG SEQRES 10 A 311 ALA ILE GLU VAL ILE ALA ASP ALA CYS GLN ALA LEU ASN SEQRES 11 A 311 PHE SER HIS GLN ASN GLY ILE ILE HIS ARG ASP VAL LYS SEQRES 12 A 311 PRO ALA ASN ILE MET ILE SER ALA THR ASN ALA VAL LYS SEQRES 13 A 311 VAL MET ASP PHE GLY ILE ALA ARG ALA ILE ALA ASP SER SEQRES 14 A 311 GLY ASN SER VAL THR GLN THR ALA ALA VAL ILE GLY THR SEQRES 15 A 311 ALA GLN TYR LEU SER PRO GLU GLN ALA ARG GLY ASP SER SEQRES 16 A 311 VAL ASP ALA ARG SER ASP VAL TYR SER LEU GLY CYS VAL SEQRES 17 A 311 LEU TYR GLU VAL LEU THR GLY GLU PRO PRO PHE THR GLY SEQRES 18 A 311 ASP SER PRO VAL SER VAL ALA TYR GLN HIS VAL ARG GLU SEQRES 19 A 311 ASP PRO ILE PRO PRO SER ALA ARG HIS GLU GLY LEU SER SEQRES 20 A 311 ALA ASP LEU ASP ALA VAL VAL LEU LYS ALA LEU ALA LYS SEQRES 21 A 311 ASN PRO GLU ASN ARG TYR GLN THR ALA ALA GLU MET ARG SEQRES 22 A 311 ALA ASP LEU VAL ARG VAL HIS ASN GLY GLU PRO PRO GLU SEQRES 23 A 311 ALA PRO LYS VAL LEU THR ASP ALA GLU ARG THR SER LEU SEQRES 24 A 311 LEU SER SER ALA ALA GLY ASN LEU SER GLY PRO ARG HET AGS A 340 62 HET MN A 341 1 HET SO4 A 343 5 HET TRS A 344 8 HETNAM AGS PHOSPHOTHIOPHOSPHORIC ACID-ADENYLATE ESTER HETNAM MN MANGANESE (II) ION HETNAM SO4 SULFATE ION HETNAM TRS 2-AMINO-2-HYDROXYMETHYL-PROPANE-1,3-DIOL HETSYN AGS ATP-GAMMA-S; ADENOSINE 5'-(3-THIOTRIPHOSPHATE); HETSYN 2 AGS ADENOSINE 5'-(GAMMA-THIOTRIPHOSPHATE); ADENOSINE-5'- HETSYN 3 AGS DIPHOSPHATE MONOTHIOPHOSPHATE HETSYN TRS TRIS BUFFER FORMUL 2 AGS C10 H16 N5 O12 P3 S FORMUL 3 MN MN 2+ FORMUL 4 SO4 O4 S 2- FORMUL 5 TRS C4 H12 N O3 1+ FORMUL 6 HOH *352(H2 O) HELIX 1 1 ASP A 49 GLN A 61 1 13 HELIX 2 2 LEU A 100 GLY A 108 1 9 HELIX 3 3 THR A 111 ASN A 132 1 22 HELIX 4 4 LYS A 140 ALA A 142 5 3 HELIX 5 5 SER A 184 GLY A 190 1 7 HELIX 6 6 ASP A 194 GLY A 212 1 19 HELIX 7 7 SER A 220 GLU A 231 1 12 HELIX 8 8 PRO A 235 HIS A 240 1 6 HELIX 9 9 SER A 244 LEU A 255 1 12 HELIX 10 10 ASN A 258 ARG A 262 5 5 HELIX 11 11 THR A 265 ASN A 278 1 14 SHEET 1 A 6 HIS A 6 LEU A 7 0 SHEET 2 A 6 TYR A 11 PHE A 19 -1 O TYR A 11 N LEU A 7 SHEET 3 A 6 SER A 23 ASP A 30 -1 O LEU A 27 N GLY A 14 SHEET 4 A 6 ARG A 35 LEU A 42 -1 O ARG A 35 N ASP A 30 SHEET 5 A 6 GLY A 85 GLU A 93 -1 O MET A 92 N ALA A 38 SHEET 6 A 6 VAL A 74 THR A 82 -1 N ASP A 76 O VAL A 91 SHEET 1 B 3 GLY A 97 THR A 99 0 SHEET 2 B 3 ILE A 144 SER A 147 -1 O ILE A 146 N VAL A 98 SHEET 3 B 3 VAL A 152 VAL A 154 -1 O LYS A 153 N MET A 145 LINK OD1 ASN A 143 MN MN A 341 1555 1555 2.16 LINK OD2 ASP A 156 MN MN A 341 1555 1555 2.11 LINK O2AAAGS A 340 MN MN A 341 1555 1555 2.13 LINK O1BAAGS A 340 MN MN A 341 1555 1555 2.17 LINK O2ABAGS A 340 MN MN A 341 1555 1555 2.63 LINK O1ABAGS A 340 MN MN A 341 1555 1555 2.73 LINK MN MN A 341 O HOH A 359 1555 1555 2.27 LINK MN MN A 341 O HOH A 363 1555 1555 2.20 SITE 1 AC1 32 LEU A 17 GLY A 18 PHE A 19 GLY A 20 SITE 2 AC1 32 GLY A 21 MET A 22 SER A 23 VAL A 25 SITE 3 AC1 32 ALA A 38 LYS A 40 MET A 92 GLU A 93 SITE 4 AC1 32 VAL A 95 THR A 99 LYS A 140 ALA A 142 SITE 5 AC1 32 ASN A 143 MET A 145 MET A 155 ASP A 156 SITE 6 AC1 32 MN A 341 HOH A 342 TRS A 344 HOH A 359 SITE 7 AC1 32 HOH A 363 HOH A 387 HOH A 397 HOH A 401 SITE 8 AC1 32 HOH A 470 HOH A 471 HOH A 602 HOH A 663 SITE 1 AC2 5 ASN A 143 ASP A 156 AGS A 340 HOH A 359 SITE 2 AC2 5 HOH A 363 SITE 1 AC3 3 ARG A 35 ARG A 189 ARG A 230 SITE 1 AC4 10 GLY A 18 PHE A 19 ARG A 48 ARG A 101 SITE 2 AC4 10 ASP A 102 AGS A 340 HOH A 400 HOH A 401 SITE 3 AC4 10 HOH A 427 HOH A 501 CRYST1 39.341 51.603 155.126 90.00 90.00 90.00 P 21 21 21 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 0.025419 0.000000 0.000000 0.00000 SCALE2 0.000000 0.019379 0.000000 0.00000 SCALE3 0.000000 0.000000 0.006446 0.00000