HEADER SIGNALING PROTEIN 03-OCT-16 5M06 TITLE CRYSTAL STRUCTURE OF MYCOBACTERIUM TUBERCULOSIS PKNI KINASE DOMAIN COMPND MOL_ID: 1; COMPND 2 MOLECULE: SERINE/THREONINE-PROTEIN KINASE PKNI; COMPND 3 CHAIN: A, B; COMPND 4 EC: 2.7.11.1; COMPND 5 ENGINEERED: YES SOURCE MOL_ID: 1; SOURCE 2 ORGANISM_SCIENTIFIC: MYCOBACTERIUM TUBERCULOSIS (STRAIN ATCC 25618 / SOURCE 3 H37RV); SOURCE 4 ORGANISM_TAXID: 83332; SOURCE 5 GENE: PKNI, RV2914C, MTCY338.02C; SOURCE 6 EXPRESSION_SYSTEM: ESCHERICHIA COLI BL21(DE3); SOURCE 7 EXPRESSION_SYSTEM_TAXID: 469008 KEYWDS TUBERCULOSIS, KINASE, SIGNALLING, SIGNALING PROTEIN EXPDTA X-RAY DIFFRACTION AUTHOR T.WAGNER,M.N.LISA,M.ALEXANDRE,N.BARILONE,B.RAYNAL,P.M.ALZARI, AUTHOR 2 M.BELLINZONI REVDAT 3 01-MAR-17 5M06 1 JRNL REVDAT 2 18-JAN-17 5M06 1 JRNL REVDAT 1 11-JAN-17 5M06 0 JRNL AUTH M.N.LISA,T.WAGNER,M.ALEXANDRE,N.BARILONE,B.RAYNAL, JRNL AUTH 2 P.M.ALZARI,M.BELLINZONI JRNL TITL THE CRYSTAL STRUCTURE OF PKNI FROM MYCOBACTERIUM JRNL TITL 2 TUBERCULOSIS SHOWS AN INACTIVE, PSEUDOKINASE-LIKE JRNL TITL 3 CONFORMATION. JRNL REF FEBS J. V. 284 602 2017 JRNL REFN ISSN 1742-4658 JRNL PMID 28054744 JRNL DOI 10.1111/FEBS.14003 REMARK 2 REMARK 2 RESOLUTION. 2.00 ANGSTROMS. REMARK 3 REMARK 3 REFINEMENT. REMARK 3 PROGRAM : BUSTER 2.10.2 REMARK 3 AUTHORS : BRICOGNE,BLANC,BRANDL,FLENSBURG,KELLER, REMARK 3 : PACIOREK,ROVERSI,SHARFF,SMART,VONRHEIN, REMARK 3 : WOMACK,MATTHEWS,TEN EYCK,TRONRUD REMARK 3 REMARK 3 DATA USED IN REFINEMENT. REMARK 3 RESOLUTION RANGE HIGH (ANGSTROMS) : 2.00 REMARK 3 RESOLUTION RANGE LOW (ANGSTROMS) : 28.09 REMARK 3 DATA CUTOFF (SIGMA(F)) : 0.000 REMARK 3 COMPLETENESS FOR RANGE (%) : 99.7 REMARK 3 NUMBER OF REFLECTIONS : 36813 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) : 0.213 REMARK 3 R VALUE (WORKING SET) : 0.212 REMARK 3 FREE R VALUE : 0.239 REMARK 3 FREE R VALUE TEST SET SIZE (%) : 5.000 REMARK 3 FREE R VALUE TEST SET COUNT : 1839 REMARK 3 ESTIMATED ERROR OF FREE R VALUE : NULL REMARK 3 REMARK 3 FIT IN THE HIGHEST RESOLUTION BIN. REMARK 3 TOTAL NUMBER OF BINS USED : 18 REMARK 3 BIN RESOLUTION RANGE HIGH (ANGSTROMS) : 2.00 REMARK 3 BIN RESOLUTION RANGE LOW (ANGSTROMS) : 2.06 REMARK 3 BIN COMPLETENESS (WORKING+TEST) (%) : 98.17 REMARK 3 REFLECTIONS IN BIN (WORKING + TEST SET) : 2897 REMARK 3 BIN R VALUE (WORKING + TEST SET) : 0.2674 REMARK 3 REFLECTIONS IN BIN (WORKING SET) : 2763 REMARK 3 BIN R VALUE (WORKING SET) : 0.2662 REMARK 3 BIN FREE R VALUE : 0.2909 REMARK 3 BIN FREE R VALUE TEST SET SIZE (%) : 4.63 REMARK 3 BIN FREE R VALUE TEST SET COUNT : 134 REMARK 3 ESTIMATED ERROR OF BIN FREE R VALUE : NULL REMARK 3 REMARK 3 NUMBER OF NON-HYDROGEN ATOMS USED IN REFINEMENT. REMARK 3 PROTEIN ATOMS : 3697 REMARK 3 NUCLEIC ACID ATOMS : 0 REMARK 3 HETEROGEN ATOMS : 28 REMARK 3 SOLVENT ATOMS : 127 REMARK 3 REMARK 3 B VALUES. REMARK 3 FROM WILSON PLOT (A**2) : 48.09 REMARK 3 MEAN B VALUE (OVERALL, A**2) : 62.23 REMARK 3 OVERALL ANISOTROPIC B VALUE. REMARK 3 B11 (A**2) : -1.51850 REMARK 3 B22 (A**2) : -1.76230 REMARK 3 B33 (A**2) : 3.28080 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 COORDINATE ERROR. REMARK 3 ESD FROM LUZZATI PLOT (A) : 0.300 REMARK 3 DPI (BLOW EQ-10) BASED ON R VALUE (A) : 0.179 REMARK 3 DPI (BLOW EQ-9) BASED ON FREE R VALUE (A) : 0.153 REMARK 3 DPI (CRUICKSHANK) BASED ON R VALUE (A) : 0.179 REMARK 3 DPI (CRUICKSHANK) BASED ON FREE R VALUE (A) : 0.154 REMARK 3 REMARK 3 REFERENCES: BLOW, D. (2002) ACTA CRYST D58, 792-797 REMARK 3 CRUICKSHANK, D.W.J. (1999) ACTA CRYST D55, 583-601 REMARK 3 REMARK 3 CORRELATION COEFFICIENTS. REMARK 3 CORRELATION COEFFICIENT FO-FC : 0.951 REMARK 3 CORRELATION COEFFICIENT FO-FC FREE : 0.944 REMARK 3 REMARK 3 NUMBER OF GEOMETRIC FUNCTION TERMS DEFINED : 15 REMARK 3 TERM COUNT WEIGHT FUNCTION. REMARK 3 BOND LENGTHS : 3814 ; 2.000 ; HARMONIC REMARK 3 BOND ANGLES : 5202 ; 2.000 ; HARMONIC REMARK 3 TORSION ANGLES : 1692 ; 2.000 ; SINUSOIDAL REMARK 3 TRIGONAL CARBON PLANES : 78 ; 2.000 ; HARMONIC REMARK 3 GENERAL PLANES : 593 ; 5.000 ; HARMONIC REMARK 3 ISOTROPIC THERMAL FACTORS : 3814 ; 20.000 ; HARMONIC REMARK 3 BAD NON-BONDED CONTACTS : 0 ; 5.000 ; SEMIHARMONIC REMARK 3 IMPROPER TORSIONS : NULL ; NULL ; NULL REMARK 3 PSEUDOROTATION ANGLES : NULL ; NULL ; NULL REMARK 3 CHIRAL IMPROPER TORSION : 486 ; 5.000 ; SEMIHARMONIC REMARK 3 SUM OF OCCUPANCIES : NULL ; NULL ; NULL REMARK 3 UTILITY DISTANCES : NULL ; NULL ; NULL REMARK 3 UTILITY ANGLES : NULL ; NULL ; NULL REMARK 3 UTILITY TORSION : NULL ; NULL ; NULL REMARK 3 IDEAL-DIST CONTACT TERM : 4377 ; 4.000 ; SEMIHARMONIC REMARK 3 REMARK 3 RMS DEVIATIONS FROM IDEAL VALUES. REMARK 3 BOND LENGTHS (A) : 0.010 REMARK 3 BOND ANGLES (DEGREES) : 0.92 REMARK 3 PEPTIDE OMEGA TORSION ANGLES (DEGREES) : 2.86 REMARK 3 OTHER TORSION ANGLES (DEGREES) : 2.49 REMARK 3 REMARK 3 TLS DETAILS REMARK 3 NUMBER OF TLS GROUPS : 4 REMARK 3 REMARK 3 TLS GROUP : 1 REMARK 3 SELECTION: { A|1 - A|94 } REMARK 3 ORIGIN FOR THE GROUP (A): -22.9057 -5.1435 -23.3914 REMARK 3 T TENSOR REMARK 3 T11: -0.1716 T22: -0.0018 REMARK 3 T33: -0.2545 T12: 0.0564 REMARK 3 T13: -0.0092 T23: 0.1297 REMARK 3 L TENSOR REMARK 3 L11: 5.2387 L22: 5.7219 REMARK 3 L33: 0.7945 L12: 5.3491 REMARK 3 L13: -0.8250 L23: -0.4531 REMARK 3 S TENSOR REMARK 3 S11: -0.1529 S12: -0.2738 S13: -0.1395 REMARK 3 S21: -0.6765 S22: -0.2767 S23: -0.1373 REMARK 3 S31: 0.3010 S32: 0.3023 S33: 0.4297 REMARK 3 REMARK 3 TLS GROUP : 2 REMARK 3 SELECTION: { A|95 - A|255 } REMARK 3 ORIGIN FOR THE GROUP (A): -18.6981 13.6246 -8.5488 REMARK 3 T TENSOR REMARK 3 T11: -0.3192 T22: 0.3395 REMARK 3 T33: -0.3742 T12: -0.2236 REMARK 3 T13: 0.0183 T23: 0.0687 REMARK 3 L TENSOR REMARK 3 L11: 2.9182 L22: 5.6890 REMARK 3 L33: 2.5322 L12: 0.9061 REMARK 3 L13: 0.1987 L23: 0.1452 REMARK 3 S TENSOR REMARK 3 S11: 0.5734 S12: -0.9648 S13: 0.0585 REMARK 3 S21: 0.5950 S22: -0.9489 S23: 0.2847 REMARK 3 S31: -0.3049 S32: -0.1092 S33: 0.3755 REMARK 3 REMARK 3 TLS GROUP : 3 REMARK 3 SELECTION: { B|2 - B|94 } REMARK 3 ORIGIN FOR THE GROUP (A): -40.8771 11.9289 -39.3681 REMARK 3 T TENSOR REMARK 3 T11: -0.1272 T22: -0.1322 REMARK 3 T33: -0.1035 T12: 0.0767 REMARK 3 T13: -0.0883 T23: -0.0028 REMARK 3 L TENSOR REMARK 3 L11: 2.0189 L22: 3.0524 REMARK 3 L33: 1.9324 L12: 1.0784 REMARK 3 L13: -0.0389 L23: -0.7396 REMARK 3 S TENSOR REMARK 3 S11: 0.1699 S12: -0.3783 S13: -0.0563 REMARK 3 S21: 0.2731 S22: -0.0742 S23: 0.1406 REMARK 3 S31: -0.2728 S32: -0.3017 S33: -0.0958 REMARK 3 REMARK 3 TLS GROUP : 4 REMARK 3 SELECTION: { B|95 - B|255 } REMARK 3 ORIGIN FOR THE GROUP (A): -20.8491 16.5065 -51.8956 REMARK 3 T TENSOR REMARK 3 T11: -0.1610 T22: -0.2422 REMARK 3 T33: -0.1693 T12: 0.0714 REMARK 3 T13: -0.0915 T23: 0.0818 REMARK 3 L TENSOR REMARK 3 L11: 2.9559 L22: 2.5693 REMARK 3 L33: 2.2891 L12: 0.1491 REMARK 3 L13: -0.3403 L23: -0.3370 REMARK 3 S TENSOR REMARK 3 S11: -0.0439 S12: 0.0035 S13: -0.1228 REMARK 3 S21: -0.0424 S22: -0.2169 S23: -0.3779 REMARK 3 S31: 0.0588 S32: 0.3679 S33: 0.2607 REMARK 3 REMARK 3 OTHER REFINEMENT REMARKS: NULL REMARK 4 REMARK 4 5M06 COMPLIES WITH FORMAT V. 3.30, 13-JUL-11 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY PDBE ON 03-OCT-16. REMARK 100 THE DEPOSITION ID IS D_1200001600. REMARK 200 REMARK 200 EXPERIMENTAL DETAILS REMARK 200 EXPERIMENT TYPE : X-RAY DIFFRACTION REMARK 200 DATE OF DATA COLLECTION : 11-MAY-12 REMARK 200 TEMPERATURE (KELVIN) : 100 REMARK 200 PH : 8.5 REMARK 200 NUMBER OF CRYSTALS USED : 1 REMARK 200 REMARK 200 SYNCHROTRON (Y/N) : Y REMARK 200 RADIATION SOURCE : SOLEIL REMARK 200 BEAMLINE : PROXIMA 1 REMARK 200 X-RAY GENERATOR MODEL : NULL REMARK 200 MONOCHROMATIC OR LAUE (M/L) : M REMARK 200 WAVELENGTH OR RANGE (A) : 0.9801 REMARK 200 MONOCHROMATOR : NULL REMARK 200 OPTICS : NULL REMARK 200 REMARK 200 DETECTOR TYPE : PIXEL REMARK 200 DETECTOR MANUFACTURER : DECTRIS PILATUS 6M REMARK 200 INTENSITY-INTEGRATION SOFTWARE : XDS REMARK 200 DATA SCALING SOFTWARE : XDS REMARK 200 REMARK 200 NUMBER OF UNIQUE REFLECTIONS : 36891 REMARK 200 RESOLUTION RANGE HIGH (A) : 2.000 REMARK 200 RESOLUTION RANGE LOW (A) : 45.430 REMARK 200 REJECTION CRITERIA (SIGMA(I)) : NULL REMARK 200 REMARK 200 OVERALL. REMARK 200 COMPLETENESS FOR RANGE (%) : 99.8 REMARK 200 DATA REDUNDANCY : 5.900 REMARK 200 R MERGE (I) : 0.05200 REMARK 200 R SYM (I) : NULL REMARK 200 FOR THE DATA SET : 17.0000 REMARK 200 REMARK 200 IN THE HIGHEST RESOLUTION SHELL. REMARK 200 HIGHEST RESOLUTION SHELL, RANGE HIGH (A) : 2.00 REMARK 200 HIGHEST RESOLUTION SHELL, RANGE LOW (A) : 2.05 REMARK 200 COMPLETENESS FOR SHELL (%) : 97.6 REMARK 200 DATA REDUNDANCY IN SHELL : 4.90 REMARK 200 R MERGE FOR SHELL (I) : 0.84000 REMARK 200 R SYM FOR SHELL (I) : NULL REMARK 200 FOR SHELL : 2.000 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: PARTIALLY REFINED MODEL FROM SEMET MAD PHASING ON REMARK 200 A NONISOMORPHOUS CRYSTAL REMARK 200 REMARK 200 REMARK: NULL REMARK 280 REMARK 280 CRYSTAL REMARK 280 SOLVENT CONTENT, VS (%): 45.64 REMARK 280 MATTHEWS COEFFICIENT, VM (ANGSTROMS**3/DA): 2.26 REMARK 280 REMARK 280 CRYSTALLIZATION CONDITIONS: 18% PEG 4000, 240 MM CACL2, 100 MM REMARK 280 TRIS-HCL PH 8.5, 5 MM ADP, VAPOR DIFFUSION, HANGING DROP, REMARK 280 TEMPERATURE 291K REMARK 290 REMARK 290 CRYSTALLOGRAPHIC SYMMETRY REMARK 290 SYMMETRY OPERATORS FOR SPACE GROUP: C 2 2 21 REMARK 290 REMARK 290 SYMOP SYMMETRY REMARK 290 NNNMMM OPERATOR REMARK 290 1555 X,Y,Z REMARK 290 2555 -X,-Y,Z+1/2 REMARK 290 3555 -X,Y,-Z+1/2 REMARK 290 4555 X,-Y,-Z REMARK 290 5555 X+1/2,Y+1/2,Z REMARK 290 6555 -X+1/2,-Y+1/2,Z+1/2 REMARK 290 7555 -X+1/2,Y+1/2,-Z+1/2 REMARK 290 8555 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 0.00000 REMARK 290 SMTRY2 2 0.000000 -1.000000 0.000000 0.00000 REMARK 290 SMTRY3 2 0.000000 0.000000 1.000000 128.70850 REMARK 290 SMTRY1 3 -1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY2 3 0.000000 1.000000 0.000000 0.00000 REMARK 290 SMTRY3 3 0.000000 0.000000 -1.000000 128.70850 REMARK 290 SMTRY1 4 1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY2 4 0.000000 -1.000000 0.000000 0.00000 REMARK 290 SMTRY3 4 0.000000 0.000000 -1.000000 0.00000 REMARK 290 SMTRY1 5 1.000000 0.000000 0.000000 30.00200 REMARK 290 SMTRY2 5 0.000000 1.000000 0.000000 34.77050 REMARK 290 SMTRY3 5 0.000000 0.000000 1.000000 0.00000 REMARK 290 SMTRY1 6 -1.000000 0.000000 0.000000 30.00200 REMARK 290 SMTRY2 6 0.000000 -1.000000 0.000000 34.77050 REMARK 290 SMTRY3 6 0.000000 0.000000 1.000000 128.70850 REMARK 290 SMTRY1 7 -1.000000 0.000000 0.000000 30.00200 REMARK 290 SMTRY2 7 0.000000 1.000000 0.000000 34.77050 REMARK 290 SMTRY3 7 0.000000 0.000000 -1.000000 128.70850 REMARK 290 SMTRY1 8 1.000000 0.000000 0.000000 30.00200 REMARK 290 SMTRY2 8 0.000000 -1.000000 0.000000 34.77050 REMARK 290 SMTRY3 8 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: 1400 ANGSTROM**2 REMARK 350 SURFACE AREA OF THE COMPLEX: 22520 ANGSTROM**2 REMARK 350 CHANGE IN SOLVENT FREE ENERGY: -25.0 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 375 REMARK 375 SPECIAL POSITION REMARK 375 THE FOLLOWING ATOMS ARE FOUND TO BE WITHIN 0.15 ANGSTROMS REMARK 375 OF A SYMMETRY RELATED ATOM AND ARE ASSUMED TO BE ON SPECIAL REMARK 375 POSITIONS. REMARK 375 REMARK 375 ATOM RES CSSEQI REMARK 375 HOH A 350 LIES ON A SPECIAL POSITION. 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 -19 REMARK 465 GLY A -18 REMARK 465 SER A -17 REMARK 465 SER A -16 REMARK 465 HIS A -15 REMARK 465 HIS A -14 REMARK 465 HIS A -13 REMARK 465 HIS A -12 REMARK 465 HIS A -11 REMARK 465 HIS A -10 REMARK 465 SER A -9 REMARK 465 SER A -8 REMARK 465 GLY A -7 REMARK 465 LEU A -6 REMARK 465 VAL A -5 REMARK 465 PRO A -4 REMARK 465 ARG A -3 REMARK 465 GLY A -2 REMARK 465 SER A -1 REMARK 465 HIS A 0 REMARK 465 GLN A 148 REMARK 465 SER A 149 REMARK 465 ALA A 150 REMARK 465 GLY A 151 REMARK 465 ASP A 152 REMARK 465 GLN A 153 REMARK 465 HIS A 206 REMARK 465 THR A 207 REMARK 465 GLY A 208 REMARK 465 PRO A 209 REMARK 465 GLY A 256 REMARK 465 MET B -19 REMARK 465 GLY B -18 REMARK 465 SER B -17 REMARK 465 SER B -16 REMARK 465 HIS B -15 REMARK 465 HIS B -14 REMARK 465 HIS B -13 REMARK 465 HIS B -12 REMARK 465 HIS B -11 REMARK 465 HIS B -10 REMARK 465 SER B -9 REMARK 465 SER B -8 REMARK 465 GLY B -7 REMARK 465 LEU B -6 REMARK 465 VAL B -5 REMARK 465 PRO B -4 REMARK 465 ARG B -3 REMARK 465 GLY B -2 REMARK 465 SER B -1 REMARK 465 HIS B 0 REMARK 465 MET B 1 REMARK 465 GLN B 148 REMARK 465 SER B 149 REMARK 465 ALA B 150 REMARK 465 HIS B 206 REMARK 465 THR B 207 REMARK 465 GLY B 208 REMARK 465 GLY B 256 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 SER A 21 OG REMARK 470 GLU A 52 CG CD OE1 OE2 REMARK 470 GLU A 62 CG CD OE1 OE2 REMARK 470 ASP A 82 CG OD1 OD2 REMARK 470 GLU A 113 CG CD OE1 OE2 REMARK 470 ASP A 178 CG OD1 OD2 REMARK 470 LEU A 210 CG CD1 CD2 REMARK 470 GLN A 211 CG CD OE1 NE2 REMARK 470 LYS A 214 CG CD CE NZ REMARK 470 GLU A 253 CG CD OE1 OE2 REMARK 470 ARG B 204 CG CD NE CZ NH1 NH2 REMARK 470 LEU B 210 CG CD1 CD2 REMARK 470 GLN B 211 CG CD OE1 NE2 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 ARG A 136 -10.01 78.49 REMARK 500 ASP A 137 56.68 -147.67 REMARK 500 ASP A 180 -169.08 -129.94 REMARK 500 ARG B 136 -9.32 77.96 REMARK 500 ASP B 137 56.28 -146.87 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 B 302 CA REMARK 620 N RES CSSEQI ATOM REMARK 620 1 ASN B 142 OD1 REMARK 620 2 ASP B 159 OD2 83.4 REMARK 620 3 HOH B 417 O 171.6 91.0 REMARK 620 N 1 2 REMARK 800 REMARK 800 SITE REMARK 800 SITE_IDENTIFIER: AC1 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue ADP B 301 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC2 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue CA B 302 DBREF 5M06 A 1 256 UNP P9WI69 PKNI_MYCTU 1 256 DBREF 5M06 B 1 256 UNP P9WI69 PKNI_MYCTU 1 256 SEQADV 5M06 MET A -19 UNP P9WI69 INITIATING METHIONINE SEQADV 5M06 GLY A -18 UNP P9WI69 EXPRESSION TAG SEQADV 5M06 SER A -17 UNP P9WI69 EXPRESSION TAG SEQADV 5M06 SER A -16 UNP P9WI69 EXPRESSION TAG SEQADV 5M06 HIS A -15 UNP P9WI69 EXPRESSION TAG SEQADV 5M06 HIS A -14 UNP P9WI69 EXPRESSION TAG SEQADV 5M06 HIS A -13 UNP P9WI69 EXPRESSION TAG SEQADV 5M06 HIS A -12 UNP P9WI69 EXPRESSION TAG SEQADV 5M06 HIS A -11 UNP P9WI69 EXPRESSION TAG SEQADV 5M06 HIS A -10 UNP P9WI69 EXPRESSION TAG SEQADV 5M06 SER A -9 UNP P9WI69 EXPRESSION TAG SEQADV 5M06 SER A -8 UNP P9WI69 EXPRESSION TAG SEQADV 5M06 GLY A -7 UNP P9WI69 EXPRESSION TAG SEQADV 5M06 LEU A -6 UNP P9WI69 EXPRESSION TAG SEQADV 5M06 VAL A -5 UNP P9WI69 EXPRESSION TAG SEQADV 5M06 PRO A -4 UNP P9WI69 EXPRESSION TAG SEQADV 5M06 ARG A -3 UNP P9WI69 EXPRESSION TAG SEQADV 5M06 GLY A -2 UNP P9WI69 EXPRESSION TAG SEQADV 5M06 SER A -1 UNP P9WI69 EXPRESSION TAG SEQADV 5M06 HIS A 0 UNP P9WI69 EXPRESSION TAG SEQADV 5M06 MET B -19 UNP P9WI69 INITIATING METHIONINE SEQADV 5M06 GLY B -18 UNP P9WI69 EXPRESSION TAG SEQADV 5M06 SER B -17 UNP P9WI69 EXPRESSION TAG SEQADV 5M06 SER B -16 UNP P9WI69 EXPRESSION TAG SEQADV 5M06 HIS B -15 UNP P9WI69 EXPRESSION TAG SEQADV 5M06 HIS B -14 UNP P9WI69 EXPRESSION TAG SEQADV 5M06 HIS B -13 UNP P9WI69 EXPRESSION TAG SEQADV 5M06 HIS B -12 UNP P9WI69 EXPRESSION TAG SEQADV 5M06 HIS B -11 UNP P9WI69 EXPRESSION TAG SEQADV 5M06 HIS B -10 UNP P9WI69 EXPRESSION TAG SEQADV 5M06 SER B -9 UNP P9WI69 EXPRESSION TAG SEQADV 5M06 SER B -8 UNP P9WI69 EXPRESSION TAG SEQADV 5M06 GLY B -7 UNP P9WI69 EXPRESSION TAG SEQADV 5M06 LEU B -6 UNP P9WI69 EXPRESSION TAG SEQADV 5M06 VAL B -5 UNP P9WI69 EXPRESSION TAG SEQADV 5M06 PRO B -4 UNP P9WI69 EXPRESSION TAG SEQADV 5M06 ARG B -3 UNP P9WI69 EXPRESSION TAG SEQADV 5M06 GLY B -2 UNP P9WI69 EXPRESSION TAG SEQADV 5M06 SER B -1 UNP P9WI69 EXPRESSION TAG SEQADV 5M06 HIS B 0 UNP P9WI69 EXPRESSION TAG SEQRES 1 A 276 MET GLY SER SER HIS HIS HIS HIS HIS HIS SER SER GLY SEQRES 2 A 276 LEU VAL PRO ARG GLY SER HIS MET ALA LEU ALA SER GLY SEQRES 3 A 276 VAL THR PHE ALA GLY TYR THR VAL VAL ARG MET LEU GLY SEQRES 4 A 276 CYS SER ALA MET GLY GLU VAL TYR LEU VAL GLN HIS PRO SEQRES 5 A 276 GLY PHE PRO GLY TRP GLN ALA LEU LYS VAL LEU SER PRO SEQRES 6 A 276 ALA MET ALA ALA ASP ASP GLU PHE ARG ARG ARG PHE GLN SEQRES 7 A 276 ARG GLU THR GLU VAL ALA ALA ARG LEU PHE HIS PRO HIS SEQRES 8 A 276 ILE LEU GLU VAL HIS ASP ARG GLY GLU PHE ASP GLY GLN SEQRES 9 A 276 LEU TRP ILE ALA MET ASP TYR VAL ASP GLY ILE ASP ALA SEQRES 10 A 276 THR GLN HIS MET ALA ASP ARG PHE PRO ALA VAL LEU PRO SEQRES 11 A 276 VAL GLY GLU VAL LEU ALA ILE VAL THR ALA VAL ALA GLY SEQRES 12 A 276 ALA LEU ASP TYR ALA HIS GLN ARG GLY LEU LEU HIS ARG SEQRES 13 A 276 ASP VAL ASN PRO ALA ASN VAL VAL LEU THR SER GLN SER SEQRES 14 A 276 ALA GLY ASP GLN ARG ILE LEU LEU ALA ASP PHE GLY ILE SEQRES 15 A 276 ALA SER GLN PRO SER TYR PRO ALA PRO GLU LEU SER ALA SEQRES 16 A 276 GLY ALA ASP VAL ASP GLY ARG ALA ASP GLN TYR ALA LEU SEQRES 17 A 276 ALA LEU THR ALA ILE HIS LEU PHE ALA GLY ALA PRO PRO SEQRES 18 A 276 VAL ASP ARG SER HIS THR GLY PRO LEU GLN PRO PRO LYS SEQRES 19 A 276 LEU SER ALA PHE ARG PRO ASP LEU ALA ARG LEU ASP GLY SEQRES 20 A 276 VAL LEU SER ARG ALA LEU ALA THR ALA PRO ALA ASP ARG SEQRES 21 A 276 PHE GLY SER CYS ARG GLU PHE ALA ASP ALA MET ASN GLU SEQRES 22 A 276 GLN ALA GLY SEQRES 1 B 276 MET GLY SER SER HIS HIS HIS HIS HIS HIS SER SER GLY SEQRES 2 B 276 LEU VAL PRO ARG GLY SER HIS MET ALA LEU ALA SER GLY SEQRES 3 B 276 VAL THR PHE ALA GLY TYR THR VAL VAL ARG MET LEU GLY SEQRES 4 B 276 CYS SER ALA MET GLY GLU VAL TYR LEU VAL GLN HIS PRO SEQRES 5 B 276 GLY PHE PRO GLY TRP GLN ALA LEU LYS VAL LEU SER PRO SEQRES 6 B 276 ALA MET ALA ALA ASP ASP GLU PHE ARG ARG ARG PHE GLN SEQRES 7 B 276 ARG GLU THR GLU VAL ALA ALA ARG LEU PHE HIS PRO HIS SEQRES 8 B 276 ILE LEU GLU VAL HIS ASP ARG GLY GLU PHE ASP GLY GLN SEQRES 9 B 276 LEU TRP ILE ALA MET ASP TYR VAL ASP GLY ILE ASP ALA SEQRES 10 B 276 THR GLN HIS MET ALA ASP ARG PHE PRO ALA VAL LEU PRO SEQRES 11 B 276 VAL GLY GLU VAL LEU ALA ILE VAL THR ALA VAL ALA GLY SEQRES 12 B 276 ALA LEU ASP TYR ALA HIS GLN ARG GLY LEU LEU HIS ARG SEQRES 13 B 276 ASP VAL ASN PRO ALA ASN VAL VAL LEU THR SER GLN SER SEQRES 14 B 276 ALA GLY ASP GLN ARG ILE LEU LEU ALA ASP PHE GLY ILE SEQRES 15 B 276 ALA SER GLN PRO SER TYR PRO ALA PRO GLU LEU SER ALA SEQRES 16 B 276 GLY ALA ASP VAL ASP GLY ARG ALA ASP GLN TYR ALA LEU SEQRES 17 B 276 ALA LEU THR ALA ILE HIS LEU PHE ALA GLY ALA PRO PRO SEQRES 18 B 276 VAL ASP ARG SER HIS THR GLY PRO LEU GLN PRO PRO LYS SEQRES 19 B 276 LEU SER ALA PHE ARG PRO ASP LEU ALA ARG LEU ASP GLY SEQRES 20 B 276 VAL LEU SER ARG ALA LEU ALA THR ALA PRO ALA ASP ARG SEQRES 21 B 276 PHE GLY SER CYS ARG GLU PHE ALA ASP ALA MET ASN GLU SEQRES 22 B 276 GLN ALA GLY HET ADP B 301 27 HET CA B 302 1 HETNAM ADP ADENOSINE-5'-DIPHOSPHATE HETNAM CA CALCIUM ION FORMUL 3 ADP C10 H15 N5 O10 P2 FORMUL 4 CA CA 2+ FORMUL 5 HOH *127(H2 O) HELIX 1 AA1 SER A 44 ASP A 50 1 7 HELIX 2 AA2 ASP A 50 ALA A 65 1 16 HELIX 3 AA3 ALA A 97 PHE A 105 1 9 HELIX 4 AA4 PRO A 110 ARG A 131 1 22 HELIX 5 AA5 ASN A 139 ALA A 141 5 3 HELIX 6 AA6 ALA A 170 ALA A 175 1 6 HELIX 7 AA7 GLY A 181 GLY A 198 1 18 HELIX 8 AA8 LYS A 214 PHE A 218 5 5 HELIX 9 AA9 ARG A 219 ARG A 224 5 6 HELIX 10 AB1 LEU A 225 LEU A 233 1 9 HELIX 11 AB2 ALA A 236 ARG A 240 5 5 HELIX 12 AB3 SER A 243 ALA A 255 1 13 HELIX 13 AB4 SER B 44 ASP B 50 1 7 HELIX 14 AB5 ASP B 50 ALA B 65 1 16 HELIX 15 AB6 ALA B 97 PHE B 105 1 9 HELIX 16 AB7 PRO B 110 ARG B 131 1 22 HELIX 17 AB8 ASN B 139 ALA B 141 5 3 HELIX 18 AB9 ALA B 170 GLY B 176 1 7 HELIX 19 AC1 GLY B 181 GLY B 198 1 18 HELIX 20 AC2 LYS B 214 ARG B 219 1 6 HELIX 21 AC3 PRO B 220 ARG B 224 5 5 HELIX 22 AC4 LEU B 225 LEU B 233 1 9 HELIX 23 AC5 ALA B 236 ARG B 240 5 5 HELIX 24 AC6 SER B 243 ALA B 255 1 13 SHEET 1 AA1 6 THR A 8 PHE A 9 0 SHEET 2 AA1 6 TYR A 12 CYS A 20 -1 O TYR A 12 N PHE A 9 SHEET 3 AA1 6 GLY A 24 GLN A 30 -1 O LEU A 28 N VAL A 15 SHEET 4 AA1 6 GLN A 38 LEU A 43 -1 O VAL A 42 N GLU A 25 SHEET 5 AA1 6 GLN A 84 ASP A 90 -1 O ILE A 87 N LYS A 41 SHEET 6 AA1 6 VAL A 75 PHE A 81 -1 N ASP A 77 O ALA A 88 SHEET 1 AA2 3 GLY A 94 ASP A 96 0 SHEET 2 AA2 3 VAL A 143 THR A 146 -1 O LEU A 145 N ILE A 95 SHEET 3 AA2 3 ILE A 155 LEU A 157 -1 O LEU A 156 N VAL A 144 SHEET 1 AA3 6 THR B 8 PHE B 9 0 SHEET 2 AA3 6 TYR B 12 CYS B 20 -1 O TYR B 12 N PHE B 9 SHEET 3 AA3 6 GLY B 24 GLN B 30 -1 O LEU B 28 N VAL B 15 SHEET 4 AA3 6 GLN B 38 LEU B 43 -1 O VAL B 42 N GLU B 25 SHEET 5 AA3 6 GLN B 84 ASP B 90 -1 O ILE B 87 N LYS B 41 SHEET 6 AA3 6 VAL B 75 PHE B 81 -1 N ASP B 77 O ALA B 88 SHEET 1 AA4 3 GLY B 94 ASP B 96 0 SHEET 2 AA4 3 VAL B 143 THR B 146 -1 O LEU B 145 N ILE B 95 SHEET 3 AA4 3 ILE B 155 LEU B 157 -1 O LEU B 156 N VAL B 144 SSBOND 1 CYS A 20 CYS B 20 1555 1555 2.03 LINK OD1 ASN B 142 CA CA B 302 1555 1555 2.27 LINK OD2 ASP B 159 CA CA B 302 1555 1555 2.43 LINK CA CA B 302 O HOH B 417 1555 1555 2.42 CISPEP 1 PHE A 105 PRO A 106 0 5.16 CISPEP 2 PHE B 105 PRO B 106 0 4.80 SITE 1 AC1 13 LEU B 18 SER B 21 VAL B 26 ALA B 39 SITE 2 AC1 13 LYS B 41 LEU B 73 MET B 89 ASP B 90 SITE 3 AC1 13 TYR B 91 VAL B 92 ASP B 96 HOH B 417 SITE 4 AC1 13 HOH B 451 SITE 1 AC2 3 ASN B 142 ASP B 159 HOH B 417 CRYST1 60.004 69.541 257.417 90.00 90.00 90.00 C 2 2 21 16 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 0.016666 0.000000 0.000000 0.00000 SCALE2 0.000000 0.014380 0.000000 0.00000 SCALE3 0.000000 0.000000 0.003885 0.00000