PDB Short entry for 4IM2 HEADER TRANSFERASE/TRANSFERASE INHIBITOR 01-JAN-13 4IM2 TITLE STRUCTURE OF TANK-BINDING KINASE 1 COMPND MOL_ID: 1; COMPND 2 MOLECULE: SERINE/THREONINE-PROTEIN KINASE TBK1; COMPND 3 CHAIN: A; COMPND 4 FRAGMENT: RESIDUES 1 TO 657; COMPND 5 SYNONYM: NF-KAPPA-B-ACTIVATING KINASE, T2K, TANK-BINDING KINASE 1; COMPND 6 EC: 2.7.11.1; COMPND 7 ENGINEERED: YES; COMPND 8 MUTATION: YES SOURCE MOL_ID: 1; SOURCE 2 ORGANISM_SCIENTIFIC: HOMO SAPIENS; SOURCE 3 ORGANISM_COMMON: HUMAN; SOURCE 4 ORGANISM_TAXID: 9606; SOURCE 5 GENE: TBK1, NAK; SOURCE 6 EXPRESSION_SYSTEM: SPODOPTERA FRUGIPERDA; SOURCE 7 EXPRESSION_SYSTEM_TAXID: 7108 KEYWDS KINASE, SERINE/THREONINE KINASE, BX795, TRANSFERASE-TRANSFERASE KEYWDS 2 INHIBITOR COMPLEX EXPDTA X-RAY DIFFRACTION AUTHOR D.TU,M.J.ECK REVDAT 4 28-FEB-24 4IM2 1 REMARK SEQADV REVDAT 3 17-JUL-19 4IM2 1 JRNL REVDAT 2 20-MAR-13 4IM2 1 REMARK REVDAT 1 06-MAR-13 4IM2 0 JRNL AUTH D.TU,Z.ZHU,A.Y.ZHOU,C.H.YUN,K.E.LEE,A.V.TOMS,Y.LI,G.P.DUNN, JRNL AUTH 2 E.CHAN,T.THAI,S.YANG,S.B.FICARRO,J.A.MARTO,H.JEON,W.C.HAHN, JRNL AUTH 3 D.A.BARBIE,M.J.ECK JRNL TITL STRUCTURE AND UBIQUITINATION-DEPENDENT ACTIVATION OF JRNL TITL 2 TANK-BINDING KINASE 1. JRNL REF CELL REP V. 3 747 2013 JRNL REFN ESSN 2211-1247 JRNL PMID 23453972 JRNL DOI 10.1016/J.CELREP.2013.01.033 REMARK 2 REMARK 2 RESOLUTION. 2.50 ANGSTROMS. REMARK 3 REMARK 3 REFINEMENT. REMARK 3 PROGRAM : PHENIX (PHENIX.REFINE: 1.7.3_928) 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) : 2.50 REMARK 3 RESOLUTION RANGE LOW (ANGSTROMS) : 36.05 REMARK 3 MIN(FOBS/SIGMA_FOBS) : 0.000 REMARK 3 COMPLETENESS FOR RANGE (%) : 99.2 REMARK 3 NUMBER OF REFLECTIONS : 30674 REMARK 3 REMARK 3 FIT TO DATA USED IN REFINEMENT. REMARK 3 R VALUE (WORKING + TEST SET) : 0.200 REMARK 3 R VALUE (WORKING SET) : 0.197 REMARK 3 FREE R VALUE : 0.255 REMARK 3 FREE R VALUE TEST SET SIZE (%) : 5.020 REMARK 3 FREE R VALUE TEST SET COUNT : 1541 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 36.0543 - 5.5539 0.99 2780 128 0.1851 0.2315 REMARK 3 2 5.5539 - 4.4108 1.00 2681 151 0.1642 0.2124 REMARK 3 3 4.4108 - 3.8540 0.99 2666 141 0.1777 0.2342 REMARK 3 4 3.8540 - 3.5020 1.00 2665 128 0.2010 0.2705 REMARK 3 5 3.5020 - 3.2511 1.00 2629 152 0.2252 0.2675 REMARK 3 6 3.2511 - 3.0596 0.99 2629 134 0.2377 0.3050 REMARK 3 7 3.0596 - 2.9064 0.99 2649 149 0.2512 0.3502 REMARK 3 8 2.9064 - 2.7799 0.99 2592 149 0.2424 0.3685 REMARK 3 9 2.7799 - 2.6729 0.99 2653 133 0.2548 0.3061 REMARK 3 10 2.6729 - 2.5807 0.99 2604 137 0.2734 0.3297 REMARK 3 11 2.5807 - 2.5001 0.98 2585 139 0.3044 0.4049 REMARK 3 REMARK 3 BULK SOLVENT MODELLING. REMARK 3 METHOD USED : FLAT BULK SOLVENT MODEL REMARK 3 SOLVENT RADIUS : 1.20 REMARK 3 SHRINKAGE RADIUS : 0.98 REMARK 3 K_SOL : 0.32 REMARK 3 B_SOL : 99.73 REMARK 3 REMARK 3 ERROR ESTIMATES. REMARK 3 COORDINATE ERROR (MAXIMUM-LIKELIHOOD BASED) : 0.450 REMARK 3 PHASE ERROR (DEGREES, MAXIMUM-LIKELIHOOD BASED) : 28.800 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) : -5.70720 REMARK 3 B22 (A**2) : -5.70720 REMARK 3 B33 (A**2) : 11.41450 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 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 5122 REMARK 3 ANGLE : 1.286 6927 REMARK 3 CHIRALITY : 0.071 766 REMARK 3 PLANARITY : 0.004 885 REMARK 3 DIHEDRAL : 17.004 1911 REMARK 3 REMARK 3 TLS DETAILS REMARK 3 NUMBER OF TLS GROUPS : 6 REMARK 3 TLS GROUP : 1 REMARK 3 SELECTION: CHAIN 'A' AND (RESSEQ -1:216) REMARK 3 ORIGIN FOR THE GROUP (A): 103.5871 16.1109 -31.8211 REMARK 3 T TENSOR REMARK 3 T11: 0.9615 T22: 0.6027 REMARK 3 T33: 0.9563 T12: 0.0409 REMARK 3 T13: 0.0204 T23: -0.0101 REMARK 3 L TENSOR REMARK 3 L11: 4.4577 L22: 2.6610 REMARK 3 L33: 2.6248 L12: -1.1935 REMARK 3 L13: -1.6523 L23: 1.5765 REMARK 3 S TENSOR REMARK 3 S11: -0.0536 S12: 0.3597 S13: -1.3271 REMARK 3 S21: -0.4666 S22: -0.1591 S23: 0.2408 REMARK 3 S31: 0.6396 S32: -0.0622 S33: 0.1866 REMARK 3 TLS GROUP : 2 REMARK 3 SELECTION: CHAIN 'A' AND (RESSEQ 217:270) REMARK 3 ORIGIN FOR THE GROUP (A): 84.0286 15.8616 -12.2474 REMARK 3 T TENSOR REMARK 3 T11: 0.7190 T22: 0.7596 REMARK 3 T33: 1.0093 T12: -0.0361 REMARK 3 T13: 0.1195 T23: 0.0874 REMARK 3 L TENSOR REMARK 3 L11: 7.9661 L22: 8.9517 REMARK 3 L33: 8.9427 L12: 3.1909 REMARK 3 L13: -0.7691 L23: -2.4592 REMARK 3 S TENSOR REMARK 3 S11: -0.1552 S12: -0.6981 S13: -1.4321 REMARK 3 S21: 0.0473 S22: 0.1905 S23: 1.1327 REMARK 3 S31: 1.4258 S32: -0.4606 S33: -0.0126 REMARK 3 TLS GROUP : 3 REMARK 3 SELECTION: CHAIN 'A' AND (RESSEQ 271:470) REMARK 3 ORIGIN FOR THE GROUP (A): 88.8212 44.9732 -14.6026 REMARK 3 T TENSOR REMARK 3 T11: 0.5462 T22: 0.6025 REMARK 3 T33: 0.5769 T12: 0.0964 REMARK 3 T13: -0.0109 T23: 0.0521 REMARK 3 L TENSOR REMARK 3 L11: 2.2989 L22: 3.1220 REMARK 3 L33: 1.1295 L12: 0.1958 REMARK 3 L13: -0.2627 L23: 1.0505 REMARK 3 S TENSOR REMARK 3 S11: 0.0788 S12: -0.0078 S13: -0.0036 REMARK 3 S21: -0.3237 S22: -0.0703 S23: 0.6053 REMARK 3 S31: -0.2218 S32: -0.4045 S33: -0.0207 REMARK 3 TLS GROUP : 4 REMARK 3 SELECTION: CHAIN 'A' AND (RESSEQ 471:526) REMARK 3 ORIGIN FOR THE GROUP (A): 73.3852 88.0458 -1.7925 REMARK 3 T TENSOR REMARK 3 T11: 1.2212 T22: 1.2097 REMARK 3 T33: 1.0050 T12: 0.3744 REMARK 3 T13: -0.2559 T23: -0.3235 REMARK 3 L TENSOR REMARK 3 L11: 2.8901 L22: 7.8868 REMARK 3 L33: 0.1517 L12: -5.4501 REMARK 3 L13: 0.6033 L23: -0.8178 REMARK 3 S TENSOR REMARK 3 S11: -1.1832 S12: -0.9524 S13: 0.2599 REMARK 3 S21: 1.7670 S22: 1.0888 S23: -0.0638 REMARK 3 S31: -0.0097 S32: -0.4449 S33: 0.2431 REMARK 3 TLS GROUP : 5 REMARK 3 SELECTION: CHAIN 'A' AND (RESSEQ 527:604) REMARK 3 ORIGIN FOR THE GROUP (A): 108.0116 29.4796 0.6365 REMARK 3 T TENSOR REMARK 3 T11: 0.5442 T22: 0.6395 REMARK 3 T33: 0.5457 T12: 0.0790 REMARK 3 T13: 0.1269 T23: 0.2191 REMARK 3 L TENSOR REMARK 3 L11: 4.2016 L22: 4.8095 REMARK 3 L33: 1.9624 L12: -1.3302 REMARK 3 L13: 1.1042 L23: -0.1738 REMARK 3 S TENSOR REMARK 3 S11: -0.1650 S12: -0.4720 S13: -0.5233 REMARK 3 S21: 0.2682 S22: 0.2236 S23: -0.8677 REMARK 3 S31: 0.4195 S32: 0.1896 S33: 0.0107 REMARK 3 TLS GROUP : 6 REMARK 3 SELECTION: CHAIN 'A' AND (RESSEQ 605:657) REMARK 3 ORIGIN FOR THE GROUP (A): 78.6845 70.2414 -5.1630 REMARK 3 T TENSOR REMARK 3 T11: 0.8885 T22: 1.0180 REMARK 3 T33: 1.0845 T12: 0.3156 REMARK 3 T13: 0.1726 T23: 0.0442 REMARK 3 L TENSOR REMARK 3 L11: 2.1005 L22: 7.3751 REMARK 3 L33: 0.5113 L12: -3.7125 REMARK 3 L13: 3.3733 L23: -3.4983 REMARK 3 S TENSOR REMARK 3 S11: -0.4900 S12: -0.8823 S13: 0.2743 REMARK 3 S21: -0.0528 S22: 0.5950 S23: 0.8374 REMARK 3 S31: -0.1031 S32: -0.4865 S33: -0.0736 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 4IM2 COMPLIES WITH FORMAT V. 3.30, 13-JUL-11 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY RCSB ON 18-JAN-13. REMARK 100 THE DEPOSITION ID IS D_1000076922. REMARK 200 REMARK 200 EXPERIMENTAL DETAILS REMARK 200 EXPERIMENT TYPE : X-RAY DIFFRACTION REMARK 200 DATE OF DATA COLLECTION : 30-JUN-11 REMARK 200 TEMPERATURE (KELVIN) : 100 REMARK 200 PH : 8.7 REMARK 200 NUMBER OF CRYSTALS USED : 2 REMARK 200 REMARK 200 SYNCHROTRON (Y/N) : Y REMARK 200 RADIATION SOURCE : APS REMARK 200 BEAMLINE : 24-ID-E REMARK 200 X-RAY GENERATOR MODEL : NULL REMARK 200 MONOCHROMATIC OR LAUE (M/L) : M REMARK 200 WAVELENGTH OR RANGE (A) : 0.97918 REMARK 200 MONOCHROMATOR : MD2 MICRO-DIFFRACTOMETER REMARK 200 OPTICS : NULL REMARK 200 REMARK 200 DETECTOR TYPE : CCD REMARK 200 DETECTOR MANUFACTURER : ADSC QUANTUM 315 REMARK 200 INTENSITY-INTEGRATION SOFTWARE : HKL-2000 REMARK 200 DATA SCALING SOFTWARE : HKL-2000 REMARK 200 REMARK 200 NUMBER OF UNIQUE REFLECTIONS : 30831 REMARK 200 RESOLUTION RANGE HIGH (A) : 2.500 REMARK 200 RESOLUTION RANGE LOW (A) : 50.000 REMARK 200 REJECTION CRITERIA (SIGMA(I)) : -3.000 REMARK 200 REMARK 200 OVERALL. REMARK 200 COMPLETENESS FOR RANGE (%) : 99.3 REMARK 200 DATA REDUNDANCY : NULL REMARK 200 R MERGE (I) : NULL REMARK 200 R SYM (I) : NULL REMARK 200 <I/SIGMA(I)> FOR THE DATA SET : NULL REMARK 200 REMARK 200 IN THE HIGHEST RESOLUTION SHELL. REMARK 200 HIGHEST RESOLUTION SHELL, RANGE HIGH (A) : 2.50 REMARK 200 HIGHEST RESOLUTION SHELL, RANGE LOW (A) : 2.69 REMARK 200 COMPLETENESS FOR SHELL (%) : 99.0 REMARK 200 DATA REDUNDANCY IN SHELL : NULL REMARK 200 R MERGE FOR SHELL (I) : NULL REMARK 200 R SYM FOR SHELL (I) : NULL REMARK 200 <I/SIGMA(I)> FOR SHELL : NULL REMARK 200 REMARK 200 DIFFRACTION PROTOCOL: SINGLE WAVELENGTH REMARK 200 METHOD USED TO DETERMINE THE STRUCTURE: SAD REMARK 200 SOFTWARE USED: SHARP REMARK 200 STARTING MODEL: NULL REMARK 200 REMARK 200 REMARK: NULL REMARK 280 REMARK 280 CRYSTAL REMARK 280 SOLVENT CONTENT, VS (%): 57.69 REMARK 280 MATTHEWS COEFFICIENT, VM (ANGSTROMS**3/DA): 2.91 REMARK 280 REMARK 280 CRYSTALLIZATION CONDITIONS: 4% (W/V) PEG8000, 100 MM TRIS PH 8.7, REMARK 280 VAPOR DIFFUSION, HANGING DROP, TEMPERATURE 293K REMARK 290 REMARK 290 CRYSTALLOGRAPHIC SYMMETRY REMARK 290 SYMMETRY OPERATORS FOR SPACE GROUP: P 32 2 1 REMARK 290 REMARK 290 SYMOP SYMMETRY REMARK 290 NNNMMM OPERATOR REMARK 290 1555 X,Y,Z REMARK 290 2555 -Y,X-Y,Z+2/3 REMARK 290 3555 -X+Y,-X,Z+1/3 REMARK 290 4555 Y,X,-Z REMARK 290 5555 X-Y,-Y,-Z+1/3 REMARK 290 6555 -X,-X+Y,-Z+2/3 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 -0.500000 -0.866025 0.000000 0.00000 REMARK 290 SMTRY2 2 0.866025 -0.500000 0.000000 0.00000 REMARK 290 SMTRY3 2 0.000000 0.000000 1.000000 57.03933 REMARK 290 SMTRY1 3 -0.500000 0.866025 0.000000 0.00000 REMARK 290 SMTRY2 3 -0.866025 -0.500000 0.000000 0.00000 REMARK 290 SMTRY3 3 0.000000 0.000000 1.000000 28.51967 REMARK 290 SMTRY1 4 -0.500000 0.866025 0.000000 0.00000 REMARK 290 SMTRY2 4 0.866025 0.500000 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 0.00000 REMARK 290 SMTRY2 5 0.000000 -1.000000 0.000000 0.00000 REMARK 290 SMTRY3 5 0.000000 0.000000 -1.000000 28.51967 REMARK 290 SMTRY1 6 -0.500000 -0.866025 0.000000 0.00000 REMARK 290 SMTRY2 6 -0.866025 0.500000 0.000000 0.00000 REMARK 290 SMTRY3 6 0.000000 0.000000 -1.000000 57.03933 REMARK 290 REMARK 290 REMARK: NULL REMARK 300 REMARK 300 BIOMOLECULE: 1, 2 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 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 350 BIOMT1 2 -0.500000 -0.866025 0.000000 200.88600 REMARK 350 BIOMT2 2 -0.866025 0.500000 0.000000 115.98159 REMARK 350 BIOMT3 2 0.000000 0.000000 -1.000000 -28.51967 REMARK 350 REMARK 350 BIOMOLECULE: 2 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 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 930 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 GLY A -5 REMARK 465 SER A -4 REMARK 465 GLY A -3 REMARK 465 SER A -2 REMARK 465 ILE A 43 REMARK 465 SER A 44 REMARK 465 PHE A 45 REMARK 465 LEU A 46 REMARK 465 ALA A 160 REMARK 465 ALA A 161 REMARK 465 ARG A 162 REMARK 465 GLU A 163 REMARK 465 LEU A 164 REMARK 465 GLU A 165 REMARK 465 ASP A 166 REMARK 465 ASP A 167 REMARK 465 GLU A 168 REMARK 465 GLN A 169 REMARK 465 PHE A 170 REMARK 465 VAL A 171 REMARK 465 SER A 172 REMARK 465 LEU A 173 REMARK 465 TYR A 174 REMARK 465 GLY A 175 REMARK 465 ALA A 188 REMARK 465 GLN A 195 REMARK 465 LYS A 196 REMARK 465 LYS A 197 REMARK 465 TYR A 198 REMARK 465 GLY A 199 REMARK 465 LYS A 480 REMARK 465 VAL A 481 REMARK 465 TYR A 482 REMARK 465 GLU A 483 REMARK 465 LYS A 484 REMARK 465 LEU A 485 REMARK 465 LYS A 487 REMARK 465 ILE A 488 REMARK 465 ASN A 489 REMARK 465 LEU A 490 REMARK 465 GLU A 491 REMARK 465 ALA A 492 REMARK 465 ALA A 493 REMARK 465 GLU A 494 REMARK 465 LEU A 495 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 47 CG CD NE CZ NH1 NH2 REMARK 470 MET A 53 CG SD CE REMARK 470 LYS A 69 CD CE NZ REMARK 470 THR A 176 OG1 CG2 REMARK 470 MET A 184 CG SD CE REMARK 470 ARG A 187 CG CD NE CZ NH1 NH2 REMARK 470 VAL A 189 CG1 CG2 REMARK 470 LEU A 190 CG CD1 CD2 REMARK 470 ARG A 191 CG CD NE CZ NH1 NH2 REMARK 470 LYS A 192 CG CD CE NZ REMARK 470 ASP A 193 CG OD1 OD2 REMARK 470 HIS A 194 CG ND1 CD2 CE1 NE2 REMARK 470 ARG A 228 CG CD NE CZ NH1 NH2 REMARK 470 LYS A 231 CG CD CE NZ REMARK 470 LYS A 504 CD CE NZ REMARK 470 LEU A 506 CG CD1 CD2 REMARK 470 GLN A 520 CG CD OE1 NE2 REMARK 470 LYS A 584 CD CE NZ REMARK 470 TYR A 650 CG CD1 CD2 CE1 CE2 CZ OH REMARK 470 THR A 651 OG1 CG2 REMARK 470 THR A 657 OG1 CG2 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 OE1 GLU A 618 O HOH A 975 2.06 REMARK 500 NH1 ARG A 525 OE1 GLN A 629 2.06 REMARK 500 NZ LYS A 241 O LEU A 285 2.08 REMARK 500 NH1 ARG A 117 O HOH A 951 2.09 REMARK 500 NZ LYS A 461 OE1 GLU A 516 2.10 REMARK 500 OH TYR A 454 O HOH A 999 2.10 REMARK 500 OE1 GLU A 456 O HOH A 1035 2.11 REMARK 500 O HIS A 125 ND2 ASN A 129 2.11 REMARK 500 ND2 ASN A 135 O HOH A 810 2.14 REMARK 500 O HOH A 841 O HOH A 998 2.16 REMARK 500 OE2 GLU A 225 NH1 ARG A 229 2.16 REMARK 500 OG SER A 268 O HOH A 960 2.16 REMARK 500 O ASP A 409 O HOH A 971 2.19 REMARK 500 O TYR A 564 O HOH A 1006 2.19 REMARK 500 ND2 ASN A 377 O HOH A 929 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 OG SER A 3 OE2 GLU A 656 5664 2.16 REMARK 500 REMARK 500 REMARK: NULL REMARK 500 REMARK 500 GEOMETRY AND STEREOCHEMISTRY REMARK 500 SUBTOPIC: COVALENT BOND ANGLES REMARK 500 REMARK 500 THE STEREOCHEMICAL PARAMETERS OF THE FOLLOWING RESIDUES REMARK 500 HAVE VALUES WHICH DEVIATE FROM EXPECTED VALUES BY MORE REMARK 500 THAN 6*RMSD (M=MODEL NUMBER; RES=RESIDUE NAME; C=CHAIN REMARK 500 IDENTIFIER; SSEQ=SEQUENCE NUMBER; I=INSERTION CODE). REMARK 500 REMARK 500 STANDARD TABLE: REMARK 500 FORMAT: (10X,I3,1X,A3,1X,A1,I4,A1,3(1X,A4,2X),12X,F5.1) REMARK 500 REMARK 500 EXPECTED VALUES PROTEIN: ENGH AND HUBER, 1999 REMARK 500 EXPECTED VALUES NUCLEIC ACID: CLOWNEY ET AL 1996 REMARK 500 REMARK 500 M RES CSSEQI ATM1 ATM2 ATM3 REMARK 500 LEU A 505 CA - CB - CG ANGL. DEV. = -14.0 DEGREES 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 LYS A 192 -129.77 56.13 REMARK 500 GLU A 225 -126.41 68.13 REMARK 500 ASN A 230 62.51 -113.07 REMARK 500 ASP A 407 119.26 -161.28 REMARK 500 CYS A 471 -73.09 -90.07 REMARK 500 ARG A 473 -75.09 -73.08 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 BX7 A 701 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC2 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE CL A 702 REMARK 900 REMARK 900 RELATED ENTRIES REMARK 900 RELATED ID: 4IM0 RELATED DB: PDB REMARK 900 THE SAME PROTEIN COMPLEXED WITH MRT67307 REMARK 900 RELATED ID: 4IM3 RELATED DB: PDB REMARK 900 THE SAME PROTEIN COMPLEX WITH BX795 COMPLEXED TO HEAVY ATOM PCMNP REMARK 900 DERIVATIVE DBREF 4IM2 A 1 657 UNP Q9UHD2 TBK1_HUMAN 1 657 SEQADV 4IM2 GLY A -5 UNP Q9UHD2 EXPRESSION TAG SEQADV 4IM2 SER A -4 UNP Q9UHD2 EXPRESSION TAG SEQADV 4IM2 GLY A -3 UNP Q9UHD2 EXPRESSION TAG SEQADV 4IM2 SER A -2 UNP Q9UHD2 EXPRESSION TAG SEQADV 4IM2 GLY A -1 UNP Q9UHD2 EXPRESSION TAG SEQADV 4IM2 SER A 0 UNP Q9UHD2 EXPRESSION TAG SEQADV 4IM2 ASN A 135 UNP Q9UHD2 ASP 135 ENGINEERED MUTATION SEQRES 1 A 663 GLY SER GLY SER GLY SER MET GLN SER THR SER ASN HIS SEQRES 2 A 663 LEU TRP LEU LEU SER ASP ILE LEU GLY GLN GLY ALA THR SEQRES 3 A 663 ALA ASN VAL PHE ARG GLY ARG HIS LYS LYS THR GLY ASP SEQRES 4 A 663 LEU PHE ALA ILE LYS VAL PHE ASN ASN ILE SER PHE LEU SEQRES 5 A 663 ARG PRO VAL ASP VAL GLN MET ARG GLU PHE GLU VAL LEU SEQRES 6 A 663 LYS LYS LEU ASN HIS LYS ASN ILE VAL LYS LEU PHE ALA SEQRES 7 A 663 ILE GLU GLU GLU THR THR THR ARG HIS LYS VAL LEU ILE SEQRES 8 A 663 MET GLU PHE CYS PRO CYS GLY SER LEU TYR THR VAL LEU SEQRES 9 A 663 GLU GLU PRO SER ASN ALA TYR GLY LEU PRO GLU SER GLU SEQRES 10 A 663 PHE LEU ILE VAL LEU ARG ASP VAL VAL GLY GLY MET ASN SEQRES 11 A 663 HIS LEU ARG GLU ASN GLY ILE VAL HIS ARG ASN ILE LYS SEQRES 12 A 663 PRO GLY ASN ILE MET ARG VAL ILE GLY GLU ASP GLY GLN SEQRES 13 A 663 SER VAL TYR LYS LEU THR ASP PHE GLY ALA ALA ARG GLU SEQRES 14 A 663 LEU GLU ASP ASP GLU GLN PHE VAL SER LEU TYR GLY THR SEQRES 15 A 663 GLU GLU TYR LEU HIS PRO ASP MET TYR GLU ARG ALA VAL SEQRES 16 A 663 LEU ARG LYS ASP HIS GLN LYS LYS TYR GLY ALA THR VAL SEQRES 17 A 663 ASP LEU TRP SER ILE GLY VAL THR PHE TYR HIS ALA ALA SEQRES 18 A 663 THR GLY SER LEU PRO PHE ARG PRO PHE GLU GLY PRO ARG SEQRES 19 A 663 ARG ASN LYS GLU VAL MET TYR LYS ILE ILE THR GLY LYS SEQRES 20 A 663 PRO SER GLY ALA ILE SER GLY VAL GLN LYS ALA GLU ASN SEQRES 21 A 663 GLY PRO ILE ASP TRP SER GLY ASP MET PRO VAL SER CYS SEQRES 22 A 663 SER LEU SER ARG GLY LEU GLN VAL LEU LEU THR PRO VAL SEQRES 23 A 663 LEU ALA ASN ILE LEU GLU ALA ASP GLN GLU LYS CYS TRP SEQRES 24 A 663 GLY PHE ASP GLN PHE PHE ALA GLU THR SER ASP ILE LEU SEQRES 25 A 663 HIS ARG MET VAL ILE HIS VAL PHE SER LEU GLN GLN MET SEQRES 26 A 663 THR ALA HIS LYS ILE TYR ILE HIS SER TYR ASN THR ALA SEQRES 27 A 663 THR ILE PHE HIS GLU LEU VAL TYR LYS GLN THR LYS ILE SEQRES 28 A 663 ILE SER SER ASN GLN GLU LEU ILE TYR GLU GLY ARG ARG SEQRES 29 A 663 LEU VAL LEU GLU PRO GLY ARG LEU ALA GLN HIS PHE PRO SEQRES 30 A 663 LYS THR THR GLU GLU ASN PRO ILE PHE VAL VAL SER ARG SEQRES 31 A 663 GLU PRO LEU ASN THR ILE GLY LEU ILE TYR GLU LYS ILE SEQRES 32 A 663 SER LEU PRO LYS VAL HIS PRO ARG TYR ASP LEU ASP GLY SEQRES 33 A 663 ASP ALA SER MET ALA LYS ALA ILE THR GLY VAL VAL CYS SEQRES 34 A 663 TYR ALA CYS ARG ILE ALA SER THR LEU LEU LEU TYR GLN SEQRES 35 A 663 GLU LEU MET ARG LYS GLY ILE ARG TRP LEU ILE GLU LEU SEQRES 36 A 663 ILE LYS ASP ASP TYR ASN GLU THR VAL HIS LYS LYS THR SEQRES 37 A 663 GLU VAL VAL ILE THR LEU ASP PHE CYS ILE ARG ASN ILE SEQRES 38 A 663 GLU LYS THR VAL LYS VAL TYR GLU LYS LEU MET LYS ILE SEQRES 39 A 663 ASN LEU GLU ALA ALA GLU LEU GLY GLU ILE SER ASP ILE SEQRES 40 A 663 HIS THR LYS LEU LEU ARG LEU SER SER SER GLN GLY THR SEQRES 41 A 663 ILE GLU THR SER LEU GLN ASP ILE ASP SER ARG LEU SER SEQRES 42 A 663 PRO GLY GLY SER LEU ALA ASP ALA TRP ALA HIS GLN GLU SEQRES 43 A 663 GLY THR HIS PRO LYS ASP ARG ASN VAL GLU LYS LEU GLN SEQRES 44 A 663 VAL LEU LEU ASN CYS MET THR GLU ILE TYR TYR GLN PHE SEQRES 45 A 663 LYS LYS ASP LYS ALA GLU ARG ARG LEU ALA TYR ASN GLU SEQRES 46 A 663 GLU GLN ILE HIS LYS PHE ASP LYS GLN LYS LEU TYR TYR SEQRES 47 A 663 HIS ALA THR LYS ALA MET THR HIS PHE THR ASP GLU CYS SEQRES 48 A 663 VAL LYS LYS TYR GLU ALA PHE LEU ASN LYS SER GLU GLU SEQRES 49 A 663 TRP ILE ARG LYS MET LEU HIS LEU ARG LYS GLN LEU LEU SEQRES 50 A 663 SER LEU THR ASN GLN CYS PHE ASP ILE GLU GLU GLU VAL SEQRES 51 A 663 SER LYS TYR GLN GLU TYR THR ASN GLU LEU GLN GLU THR HET BX7 A 701 68 HET CL A 702 1 HETNAM BX7 N-(3-{[5-IODO-4-({3-[(THIOPHEN-2-YLCARBONYL) HETNAM 2 BX7 AMINO]PROPYL}AMINO)PYRIMIDIN-2-YL]AMINO}PHENYL) HETNAM 3 BX7 PYRROLIDINE-1-CARBOXAMIDE HETNAM CL CHLORIDE ION FORMUL 2 BX7 C23 H26 I N7 O2 S FORMUL 3 CL CL 1- FORMUL 4 HOH *240(H2 O) HELIX 1 1 PRO A 48 LEU A 62 1 15 HELIX 2 2 LEU A 94 GLU A 100 1 7 HELIX 3 3 PRO A 101 ALA A 104 5 4 HELIX 4 4 PRO A 108 ASN A 129 1 22 HELIX 5 5 THR A 176 LEU A 180 5 5 HELIX 6 6 HIS A 181 ARG A 187 1 7 HELIX 7 7 THR A 201 GLY A 217 1 17 HELIX 8 8 ASN A 230 GLY A 240 1 11 HELIX 9 9 SER A 270 LEU A 285 1 16 HELIX 10 10 GLY A 294 HIS A 307 1 14 HELIX 11 11 THR A 331 LYS A 344 1 14 HELIX 12 12 ILE A 346 GLN A 350 5 5 HELIX 13 13 LEU A 366 PHE A 370 5 5 HELIX 14 14 ASP A 407 CYS A 471 1 65 HELIX 15 15 CYS A 471 LYS A 477 1 7 HELIX 16 16 GLU A 497 SER A 527 1 31 HELIX 17 17 ASP A 534 GLU A 540 1 7 HELIX 18 18 HIS A 543 ASP A 546 5 4 HELIX 19 19 ARG A 547 GLU A 572 1 26 HELIX 20 20 ALA A 576 GLU A 604 1 29 HELIX 21 21 GLU A 604 SER A 645 1 42 HELIX 22 22 LYS A 646 THR A 651 1 6 SHEET 1 A 4 MET A 1 SER A 3 0 SHEET 2 A 4 HIS A 7 LEU A 10 -1 O TRP A 9 N GLN A 2 SHEET 3 A 4 ALA A 21 HIS A 28 -1 O ARG A 27 N LEU A 8 SHEET 4 A 4 ILE A 14 GLN A 17 -1 N LEU A 15 O VAL A 23 SHEET 1 B 6 MET A 1 SER A 3 0 SHEET 2 B 6 HIS A 7 LEU A 10 -1 O TRP A 9 N GLN A 2 SHEET 3 B 6 ALA A 21 HIS A 28 -1 O ARG A 27 N LEU A 8 SHEET 4 B 6 LEU A 34 PHE A 40 -1 O ILE A 37 N PHE A 24 SHEET 5 B 6 LYS A 82 GLU A 87 -1 O MET A 86 N ALA A 36 SHEET 6 B 6 LEU A 70 GLU A 75 -1 N GLU A 74 O VAL A 83 SHEET 1 C 3 GLY A 92 SER A 93 0 SHEET 2 C 3 ILE A 141 ILE A 145 -1 O ARG A 143 N GLY A 92 SHEET 3 C 3 SER A 151 LEU A 155 -1 O LYS A 154 N MET A 142 SHEET 1 D 3 PHE A 221 ARG A 222 0 SHEET 2 D 3 SER A 247 GLN A 250 1 O GLN A 250 N ARG A 222 SHEET 3 D 3 ILE A 257 SER A 260 -1 O ASP A 258 N VAL A 249 SHEET 1 E 5 THR A 320 ILE A 326 0 SHEET 2 E 5 MET A 309 SER A 315 -1 N SER A 315 O THR A 320 SHEET 3 E 5 ILE A 379 VAL A 382 1 O ILE A 379 N HIS A 312 SHEET 4 E 5 GLU A 351 TYR A 354 -1 N ILE A 353 O PHE A 380 SHEET 5 E 5 ARG A 357 LEU A 359 -1 O ARG A 357 N TYR A 354 CISPEP 1 ARG A 47 PRO A 48 0 0.95 SITE 1 AC1 16 LEU A 15 GLY A 18 VAL A 23 ALA A 36 SITE 2 AC1 16 LYS A 38 MET A 86 GLU A 87 PHE A 88 SITE 3 AC1 16 CYS A 89 PRO A 90 CYS A 91 GLY A 92 SITE 4 AC1 16 THR A 96 MET A 142 THR A 156 CL A 702 SITE 1 AC2 4 LYS A 38 MET A 86 THR A 156 BX7 A 701 CRYST1 133.924 133.924 85.559 90.00 90.00 120.00 P 32 2 1 6 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 0.007467 0.004311 0.000000 0.00000 SCALE2 0.000000 0.008622 0.000000 0.00000 SCALE3 0.000000 0.000000 0.011688 0.00000