HEADER TRANSFERASE/TRANSFERASE INHIBITOR 01-AUG-17 5WNI TITLE CRYSTAL STRUCTURE OF MURINE RECEPTOR-INTERACTING PROTEIN KINASE 4 TITLE 2 (RIPK4) D143N IN COMPLEX WITH ATP COMPND MOL_ID: 1; COMPND 2 MOLECULE: RECEPTOR-INTERACTING SERINE/THREONINE-PROTEIN KINASE 4; COMPND 3 CHAIN: A; COMPND 4 FRAGMENT: RESIDUES 1-342; COMPND 5 SYNONYM: ANKYRIN REPEAT DOMAIN-CONTAINING PROTEIN 3,PKC-ASSOCIATED COMPND 6 PROTEIN KINASE,PKC-REGULATED PROTEIN KINASE; COMPND 7 EC: 2.7.11.1; COMPND 8 ENGINEERED: YES; COMPND 9 MUTATION: YES SOURCE MOL_ID: 1; SOURCE 2 ORGANISM_SCIENTIFIC: MUS MUSCULUS; SOURCE 3 ORGANISM_COMMON: MOUSE; SOURCE 4 ORGANISM_TAXID: 10090; SOURCE 5 GENE: RIPK4, ANKRD3, PKK; SOURCE 6 EXPRESSION_SYSTEM: SPODOPTERA FRUGIPERDA; SOURCE 7 EXPRESSION_SYSTEM_COMMON: FALL ARMYWORM; SOURCE 8 EXPRESSION_SYSTEM_TAXID: 7108 KEYWDS KINASE, INHIBITOR, COMPLEX, TRANSFERASE, TRANSFERASE-TRANSFERASE KEYWDS 2 INHIBITOR COMPLEX EXPDTA X-RAY DIFFRACTION AUTHOR C.S.HUANG,S.G.HYMOWITZ REVDAT 3 13-MAR-24 5WNI 1 REMARK REVDAT 2 16-MAY-18 5WNI 1 JRNL REVDAT 1 09-MAY-18 5WNI 0 JRNL AUTH C.S.HUANG,N.OBERBECK,Y.C.HSIAO,P.LIU,A.R.JOHNSON,V.M.DIXIT, JRNL AUTH 2 S.G.HYMOWITZ JRNL TITL CRYSTAL STRUCTURE OF RIPK4 REVEALS DIMERIZATION-DEPENDENT JRNL TITL 2 KINASE ACTIVITY. JRNL REF STRUCTURE V. 26 767 2018 JRNL REFN ISSN 1878-4186 JRNL PMID 29706531 JRNL DOI 10.1016/J.STR.2018.04.002 REMARK 2 REMARK 2 RESOLUTION. 2.65 ANGSTROMS. REMARK 3 REMARK 3 REFINEMENT. REMARK 3 PROGRAM : REFMAC 5.8.0158 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) : 2.65 REMARK 3 RESOLUTION RANGE LOW (ANGSTROMS) : 50.01 REMARK 3 DATA CUTOFF (SIGMA(F)) : NULL REMARK 3 COMPLETENESS FOR RANGE (%) : 99.7 REMARK 3 NUMBER OF REFLECTIONS : 16166 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) : 0.204 REMARK 3 R VALUE (WORKING SET) : 0.202 REMARK 3 FREE R VALUE : 0.248 REMARK 3 FREE R VALUE TEST SET SIZE (%) : 5.100 REMARK 3 FREE R VALUE TEST SET COUNT : 861 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) : 2.65 REMARK 3 BIN RESOLUTION RANGE LOW (A) : 2.72 REMARK 3 REFLECTION IN BIN (WORKING SET) : 1133 REMARK 3 BIN COMPLETENESS (WORKING+TEST) (%) : 99.34 REMARK 3 BIN R VALUE (WORKING SET) : 0.3020 REMARK 3 BIN FREE R VALUE SET COUNT : 75 REMARK 3 BIN FREE R VALUE : 0.3390 REMARK 3 REMARK 3 NUMBER OF NON-HYDROGEN ATOMS USED IN REFINEMENT. REMARK 3 PROTEIN ATOMS : 2080 REMARK 3 NUCLEIC ACID ATOMS : 0 REMARK 3 HETEROGEN ATOMS : 33 REMARK 3 SOLVENT ATOMS : 58 REMARK 3 REMARK 3 B VALUES. REMARK 3 FROM WILSON PLOT (A**2) : NULL REMARK 3 MEAN B VALUE (OVERALL, A**2) : 68.33 REMARK 3 OVERALL ANISOTROPIC B VALUE. REMARK 3 B11 (A**2) : 2.23000 REMARK 3 B22 (A**2) : 3.21000 REMARK 3 B33 (A**2) : -5.44000 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): 0.294 REMARK 3 ESU BASED ON FREE R VALUE (A): 0.246 REMARK 3 ESU BASED ON MAXIMUM LIKELIHOOD (A): 0.190 REMARK 3 ESU FOR B VALUES BASED ON MAXIMUM LIKELIHOOD (A**2): 9.216 REMARK 3 REMARK 3 CORRELATION COEFFICIENTS. REMARK 3 CORRELATION COEFFICIENT FO-FC : 0.947 REMARK 3 CORRELATION COEFFICIENT FO-FC FREE : 0.924 REMARK 3 REMARK 3 RMS DEVIATIONS FROM IDEAL VALUES COUNT RMS WEIGHT REMARK 3 BOND LENGTHS REFINED ATOMS (A): 2176 ; 0.010 ; 0.019 REMARK 3 BOND LENGTHS OTHERS (A): 1976 ; 0.001 ; 0.020 REMARK 3 BOND ANGLES REFINED ATOMS (DEGREES): 2956 ; 1.392 ; 1.953 REMARK 3 BOND ANGLES OTHERS (DEGREES): 4574 ; 0.952 ; 2.994 REMARK 3 TORSION ANGLES, PERIOD 1 (DEGREES): 260 ; 6.193 ; 5.000 REMARK 3 TORSION ANGLES, PERIOD 2 (DEGREES): 91 ;34.762 ;22.857 REMARK 3 TORSION ANGLES, PERIOD 3 (DEGREES): 352 ;14.418 ;15.000 REMARK 3 TORSION ANGLES, PERIOD 4 (DEGREES): 14 ;11.786 ;15.000 REMARK 3 CHIRAL-CENTER RESTRAINTS (A**3): 323 ; 0.077 ; 0.200 REMARK 3 GENERAL PLANES REFINED ATOMS (A): 2356 ; 0.006 ; 0.021 REMARK 3 GENERAL PLANES OTHERS (A): 449 ; 0.001 ; 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): NULL ; NULL ; NULL 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): NULL ; NULL ; NULL REMARK 3 SYMMETRY VDW OTHERS (A): NULL ; NULL ; NULL REMARK 3 SYMMETRY H-BOND REFINED ATOMS (A): NULL ; NULL ; NULL 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): 1049 ; 4.327 ; 6.996 REMARK 3 MAIN-CHAIN BOND OTHER ATOMS (A**2): 1048 ; 4.329 ; 6.992 REMARK 3 MAIN-CHAIN ANGLE REFINED ATOMS (A**2): 1306 ; 6.746 ;10.468 REMARK 3 MAIN-CHAIN ANGLE OTHER ATOMS (A**2): 1307 ; 6.743 ;10.472 REMARK 3 SIDE-CHAIN BOND REFINED ATOMS (A**2): 1127 ; 4.877 ; 7.250 REMARK 3 SIDE-CHAIN BOND OTHER ATOMS (A**2): 1116 ; 4.607 ; 7.205 REMARK 3 SIDE-CHAIN ANGLE REFINED ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 SIDE-CHAIN ANGLE OTHER ATOMS (A**2): 1651 ; 7.046 ;10.738 REMARK 3 LONG RANGE B REFINED ATOMS (A**2): 2375 ; 9.467 ;78.936 REMARK 3 LONG RANGE B OTHER ATOMS (A**2): 2376 ; 9.466 ;78.920 REMARK 3 REMARK 3 ANISOTROPIC THERMAL FACTOR RESTRAINTS. COUNT RMS WEIGHT REMARK 3 RIGID-BOND RESTRAINTS (A**2): NULL ; NULL ; NULL 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 : NULL REMARK 3 REMARK 3 BULK SOLVENT MODELLING. REMARK 3 METHOD USED : MASK REMARK 3 PARAMETERS FOR MASK CALCULATION REMARK 3 VDW PROBE RADIUS : 1.20 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 5WNI COMPLIES WITH FORMAT V. 3.30, 13-JUL-11 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY RCSB ON 02-AUG-17. REMARK 100 THE DEPOSITION ID IS D_1000229259. REMARK 200 REMARK 200 EXPERIMENTAL DETAILS REMARK 200 EXPERIMENT TYPE : X-RAY DIFFRACTION REMARK 200 DATE OF DATA COLLECTION : 08-MAY-15 REMARK 200 TEMPERATURE (KELVIN) : 100 REMARK 200 PH : NULL REMARK 200 NUMBER OF CRYSTALS USED : 1 REMARK 200 REMARK 200 SYNCHROTRON (Y/N) : Y REMARK 200 RADIATION SOURCE : CLSI REMARK 200 BEAMLINE : 08ID-1 REMARK 200 X-RAY GENERATOR MODEL : NULL REMARK 200 MONOCHROMATIC OR LAUE (M/L) : M REMARK 200 WAVELENGTH OR RANGE (A) : 0.97949 REMARK 200 MONOCHROMATOR : NULL REMARK 200 OPTICS : NULL REMARK 200 REMARK 200 DETECTOR TYPE : CCD REMARK 200 DETECTOR MANUFACTURER : MARMOSAIC 300 MM CCD REMARK 200 INTENSITY-INTEGRATION SOFTWARE : HKL-2000 REMARK 200 DATA SCALING SOFTWARE : HKL-2000 REMARK 200 REMARK 200 NUMBER OF UNIQUE REFLECTIONS : 17069 REMARK 200 RESOLUTION RANGE HIGH (A) : 2.650 REMARK 200 RESOLUTION RANGE LOW (A) : 50.010 REMARK 200 REJECTION CRITERIA (SIGMA(I)) : NULL REMARK 200 REMARK 200 OVERALL. REMARK 200 COMPLETENESS FOR RANGE (%) : 99.8 REMARK 200 DATA REDUNDANCY : 5.600 REMARK 200 R MERGE (I) : 0.07500 REMARK 200 R SYM (I) : NULL REMARK 200 FOR THE DATA SET : 21.1000 REMARK 200 REMARK 200 IN THE HIGHEST RESOLUTION SHELL. REMARK 200 HIGHEST RESOLUTION SHELL, RANGE HIGH (A) : NULL REMARK 200 HIGHEST RESOLUTION SHELL, RANGE LOW (A) : NULL REMARK 200 COMPLETENESS FOR SHELL (%) : NULL 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 FOR SHELL : NULL REMARK 200 REMARK 200 DIFFRACTION PROTOCOL: SINGLE WAVELENGTH REMARK 200 METHOD USED TO DETERMINE THE STRUCTURE: MOLECULAR REPLACEMENT REMARK 200 SOFTWARE USED: PHASER REMARK 200 STARTING MODEL: NULL REMARK 200 REMARK 200 REMARK: NULL REMARK 280 REMARK 280 CRYSTAL REMARK 280 SOLVENT CONTENT, VS (%): 66.53 REMARK 280 MATTHEWS COEFFICIENT, VM (ANGSTROMS**3/DA): 3.67 REMARK 280 REMARK 280 CRYSTALLIZATION CONDITIONS: 0.1M HEPES PH 7.5, 0.2M MAGNESIUM REMARK 280 CHLORIDE, 10% 2-PROPANOL, 15% ETHYLENE GLYCOL, 10% PEG4000, REMARK 280 MICROBATCH, TEMPERATURE 292K REMARK 290 REMARK 290 CRYSTALLOGRAPHIC SYMMETRY REMARK 290 SYMMETRY OPERATORS FOR SPACE GROUP: I 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 5555 X+1/2,Y+1/2,Z+1/2 REMARK 290 6555 -X,-Y+1/2,Z REMARK 290 7555 -X+1/2,Y,-Z REMARK 290 8555 X,-Y,-Z+1/2 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 35.78450 REMARK 290 SMTRY2 2 0.000000 -1.000000 0.000000 0.00000 REMARK 290 SMTRY3 2 0.000000 0.000000 1.000000 72.66200 REMARK 290 SMTRY1 3 -1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY2 3 0.000000 1.000000 0.000000 55.09950 REMARK 290 SMTRY3 3 0.000000 0.000000 -1.000000 72.66200 REMARK 290 SMTRY1 4 1.000000 0.000000 0.000000 35.78450 REMARK 290 SMTRY2 4 0.000000 -1.000000 0.000000 55.09950 REMARK 290 SMTRY3 4 0.000000 0.000000 -1.000000 0.00000 REMARK 290 SMTRY1 5 1.000000 0.000000 0.000000 35.78450 REMARK 290 SMTRY2 5 0.000000 1.000000 0.000000 55.09950 REMARK 290 SMTRY3 5 0.000000 0.000000 1.000000 72.66200 REMARK 290 SMTRY1 6 -1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY2 6 0.000000 -1.000000 0.000000 55.09950 REMARK 290 SMTRY3 6 0.000000 0.000000 1.000000 0.00000 REMARK 290 SMTRY1 7 -1.000000 0.000000 0.000000 35.78450 REMARK 290 SMTRY2 7 0.000000 1.000000 0.000000 0.00000 REMARK 290 SMTRY3 7 0.000000 0.000000 -1.000000 0.00000 REMARK 290 SMTRY1 8 1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY2 8 0.000000 -1.000000 0.000000 0.00000 REMARK 290 SMTRY3 8 0.000000 0.000000 -1.000000 72.66200 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: MONOMERIC 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 REMARK 350 BIOMOLECULE: 2 REMARK 350 SOFTWARE DETERMINED QUATERNARY STRUCTURE: DIMERIC REMARK 350 SOFTWARE USED: PISA REMARK 350 TOTAL BURIED SURFACE AREA: 5140 ANGSTROM**2 REMARK 350 SURFACE AREA OF THE COMPLEX: 23940 ANGSTROM**2 REMARK 350 CHANGE IN SOLVENT FREE ENERGY: -55.0 KCAL/MOL 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 1.000000 0.000000 0.000000 0.00000 REMARK 350 BIOMT2 2 0.000000 -1.000000 0.000000 0.00000 REMARK 350 BIOMT3 2 0.000000 0.000000 -1.000000 -72.66200 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 1 REMARK 465 GLU A 2 REMARK 465 GLY A 3 REMARK 465 GLU A 4 REMARK 465 GLY A 5 REMARK 465 ARG A 6 REMARK 465 GLY A 7 REMARK 465 ARG A 8 REMARK 465 GLY A 31 REMARK 465 GLY A 32 REMARK 465 PHE A 33 REMARK 465 GLY A 34 REMARK 465 GLY A 169 REMARK 465 MET A 170 REMARK 465 SER A 171 REMARK 465 HIS A 172 REMARK 465 SER A 173 REMARK 465 HIS A 174 REMARK 465 ASP A 175 REMARK 465 LEU A 176 REMARK 465 SER A 177 REMARK 465 MET A 178 REMARK 465 ASP A 179 REMARK 465 GLY A 180 REMARK 465 LEU A 181 REMARK 465 LYS A 289 REMARK 465 PRO A 290 REMARK 465 ASP A 291 REMARK 465 GLU A 292 REMARK 465 GLU A 293 REMARK 465 VAL A 294 REMARK 465 LYS A 295 REMARK 465 ASP A 296 REMARK 465 LEU A 297 REMARK 465 ALA A 298 REMARK 465 HIS A 299 REMARK 465 GLU A 300 REMARK 465 PRO A 301 REMARK 465 GLY A 302 REMARK 465 GLU A 303 REMARK 465 LYS A 304 REMARK 465 SER A 305 REMARK 465 SER A 306 REMARK 465 LEU A 307 REMARK 465 GLU A 308 REMARK 465 SER A 309 REMARK 465 LYS A 310 REMARK 465 SER A 311 REMARK 465 GLU A 312 REMARK 465 ALA A 313 REMARK 465 ARG A 314 REMARK 465 PRO A 315 REMARK 465 GLU A 316 REMARK 465 SER A 317 REMARK 465 SER A 318 REMARK 465 ARG A 319 REMARK 465 LEU A 320 REMARK 465 LYS A 321 REMARK 465 ARG A 322 REMARK 465 ALA A 323 REMARK 465 SER A 324 REMARK 465 ALA A 325 REMARK 465 PRO A 326 REMARK 465 PRO A 327 REMARK 465 PHE A 328 REMARK 465 ASP A 329 REMARK 465 ASN A 330 REMARK 465 ASP A 331 REMARK 465 CYS A 332 REMARK 465 SER A 333 REMARK 465 LEU A 334 REMARK 465 SER A 335 REMARK 465 GLU A 336 REMARK 465 LEU A 337 REMARK 465 LEU A 338 REMARK 465 SER A 339 REMARK 465 GLN A 340 REMARK 465 LEU A 341 REMARK 465 ASP A 342 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 LEU A 11 CD1 CD2 REMARK 470 LYS A 27 CD CE NZ REMARK 470 SER A 55 OG REMARK 470 LEU A 56 CG CD1 CD2 REMARK 470 VAL A 58 CG1 CG2 REMARK 470 ARG A 61 CG CD NE CZ NH1 NH2 REMARK 470 ARG A 63 CG CD NE CZ NH1 NH2 REMARK 470 MET A 64 CE REMARK 470 LYS A 71 CD CE NZ REMARK 470 LYS A 77 CD CE NZ REMARK 470 GLU A 90 CG CD OE1 OE2 REMARK 470 GLU A 97 CD OE1 OE2 REMARK 470 LYS A 145 NZ REMARK 470 ILE A 185 CG1 CG2 CD1 REMARK 470 LYS A 196 CG CD CE NZ REMARK 470 GLU A 226 CD OE1 OE2 REMARK 470 LYS A 227 CG CD CE NZ REMARK 470 ILE A 229 CG1 CG2 CD1 REMARK 470 MET A 233 CG SD CE 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 ASN A 143 35.96 -141.24 REMARK 500 ASP A 161 81.36 63.31 REMARK 500 CYS A 167 62.80 -101.41 REMARK 500 SER A 197 71.11 47.12 REMARK 500 PHE A 223 16.71 58.21 REMARK 500 REMARK 500 REMARK: NULL REMARK 500 REMARK 500 GEOMETRY AND STEREOCHEMISTRY REMARK 500 SUBTOPIC: NON-CIS, NON-TRANS REMARK 500 REMARK 500 THE FOLLOWING PEPTIDE BONDS DEVIATE SIGNIFICANTLY FROM BOTH REMARK 500 CIS AND TRANS CONFORMATION. CIS BONDS, IF ANY, ARE LISTED REMARK 500 ON CISPEP RECORDS. TRANS IS DEFINED AS 180 +/- 30 AND REMARK 500 CIS IS DEFINED AS 0 +/- 30 DEGREES. REMARK 500 MODEL OMEGA REMARK 500 GLU A 90 PRO A 91 143.23 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 MG A 401 MG REMARK 620 N RES CSSEQI ATOM REMARK 620 1 ASN A 148 OD1 REMARK 620 2 ASP A 161 OD2 82.5 REMARK 620 3 ATP A 403 O2A 87.3 69.9 REMARK 620 4 ATP A 403 O1B 163.6 92.7 76.4 REMARK 620 N 1 2 3 REMARK 800 REMARK 800 SITE REMARK 800 SITE_IDENTIFIER: AC1 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue MG A 401 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC2 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue CL A 402 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC3 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue ATP A 403 REMARK 900 REMARK 900 RELATED ENTRIES REMARK 900 RELATED ID: 5WNJ RELATED DB: PDB REMARK 900 RELATED ID: 5WNK RELATED DB: PDB REMARK 900 RELATED ID: 5WNL RELATED DB: PDB REMARK 900 RELATED ID: 5WNM RELATED DB: PDB DBREF 5WNI A 1 342 UNP Q9ERK0 RIPK4_MOUSE 1 342 SEQADV 5WNI ASN A 143 UNP Q9ERK0 ASP 143 ENGINEERED MUTATION SEQRES 1 A 342 MET GLU GLY GLU GLY ARG GLY ARG TRP ALA LEU GLY LEU SEQRES 2 A 342 LEU ARG THR PHE ASP ALA GLY GLU PHE ALA GLY TRP GLU SEQRES 3 A 342 LYS VAL GLY SER GLY GLY PHE GLY GLN VAL TYR LYS VAL SEQRES 4 A 342 ARG HIS VAL HIS TRP LYS THR TRP LEU ALA ILE LYS CYS SEQRES 5 A 342 SER PRO SER LEU HIS VAL ASP ASP ARG GLU ARG MET GLU SEQRES 6 A 342 LEU LEU GLU GLU ALA LYS LYS MET GLU MET ALA LYS PHE SEQRES 7 A 342 ARG TYR ILE LEU PRO VAL TYR GLY ILE CYS GLN GLU PRO SEQRES 8 A 342 VAL GLY LEU VAL MET GLU TYR MET GLU THR GLY SER LEU SEQRES 9 A 342 GLU LYS LEU LEU ALA SER GLU PRO LEU PRO TRP ASP LEU SEQRES 10 A 342 ARG PHE ARG ILE VAL HIS GLU THR ALA VAL GLY MET ASN SEQRES 11 A 342 PHE LEU HIS CYS MET SER PRO PRO LEU LEU HIS LEU ASN SEQRES 12 A 342 LEU LYS PRO ALA ASN ILE LEU LEU ASP ALA HIS TYR HIS SEQRES 13 A 342 VAL LYS ILE SER ASP PHE GLY LEU ALA LYS CYS ASN GLY SEQRES 14 A 342 MET SER HIS SER HIS ASP LEU SER MET ASP GLY LEU PHE SEQRES 15 A 342 GLY THR ILE ALA TYR LEU PRO PRO GLU ARG ILE ARG GLU SEQRES 16 A 342 LYS SER ARG LEU PHE ASP THR LYS HIS ASP VAL TYR SER SEQRES 17 A 342 PHE ALA ILE VAL ILE TRP GLY VAL LEU THR GLN LYS LYS SEQRES 18 A 342 PRO PHE ALA ASP GLU LYS ASN ILE LEU HIS ILE MET MET SEQRES 19 A 342 LYS VAL VAL LYS GLY HIS ARG PRO GLU LEU PRO PRO ILE SEQRES 20 A 342 CYS ARG PRO ARG PRO ARG ALA CYS ALA SER LEU ILE GLY SEQRES 21 A 342 LEU MET GLN ARG CYS TRP HIS ALA ASP PRO GLN VAL ARG SEQRES 22 A 342 PRO THR PHE GLN GLU ILE THR SER GLU THR GLU ASP LEU SEQRES 23 A 342 CYS GLU LYS PRO ASP GLU GLU VAL LYS ASP LEU ALA HIS SEQRES 24 A 342 GLU PRO GLY GLU LYS SER SER LEU GLU SER LYS SER GLU SEQRES 25 A 342 ALA ARG PRO GLU SER SER ARG LEU LYS ARG ALA SER ALA SEQRES 26 A 342 PRO PRO PHE ASP ASN ASP CYS SER LEU SER GLU LEU LEU SEQRES 27 A 342 SER GLN LEU ASP HET MG A 401 1 HET CL A 402 1 HET ATP A 403 31 HETNAM MG MAGNESIUM ION HETNAM CL CHLORIDE ION HETNAM ATP ADENOSINE-5'-TRIPHOSPHATE FORMUL 2 MG MG 2+ FORMUL 3 CL CL 1- FORMUL 4 ATP C10 H16 N5 O13 P3 FORMUL 5 HOH *58(H2 O) HELIX 1 AA1 TRP A 9 LEU A 14 1 6 HELIX 2 AA2 ASP A 18 GLY A 20 5 3 HELIX 3 AA3 ASP A 59 ALA A 76 1 18 HELIX 4 AA4 LEU A 104 GLU A 111 1 8 HELIX 5 AA5 PRO A 114 CYS A 134 1 21 HELIX 6 AA6 LYS A 145 ALA A 147 5 3 HELIX 7 AA7 GLY A 183 LEU A 188 5 6 HELIX 8 AA8 PRO A 189 GLU A 195 1 7 HELIX 9 AA9 ASP A 201 GLN A 219 1 19 HELIX 10 AB1 ASN A 228 LYS A 238 1 11 HELIX 11 AB2 ARG A 251 TRP A 266 1 16 HELIX 12 AB3 ASP A 269 ARG A 273 5 5 HELIX 13 AB4 THR A 275 CYS A 287 1 13 SHEET 1 AA1 6 ARG A 15 PHE A 17 0 SHEET 2 AA1 6 VAL A 84 CYS A 88 1 O ILE A 87 N PHE A 17 SHEET 3 AA1 6 GLY A 93 GLU A 97 -1 O VAL A 95 N GLY A 86 SHEET 4 AA1 6 THR A 46 CYS A 52 -1 N ALA A 49 O MET A 96 SHEET 5 AA1 6 VAL A 36 HIS A 41 -1 N TYR A 37 O ILE A 50 SHEET 6 AA1 6 PHE A 22 LYS A 27 -1 N GLU A 26 O LYS A 38 SHEET 1 AA2 3 GLY A 102 SER A 103 0 SHEET 2 AA2 3 ILE A 149 LEU A 151 -1 O LEU A 151 N GLY A 102 SHEET 3 AA2 3 VAL A 157 ILE A 159 -1 O LYS A 158 N LEU A 150 LINK OD1 ASN A 148 MG MG A 401 1555 1555 2.20 LINK OD2 ASP A 161 MG MG A 401 1555 1555 2.20 LINK MG MG A 401 O2A ATP A 403 1555 1555 2.21 LINK MG MG A 401 O1B ATP A 403 1555 1555 2.20 CISPEP 1 SER A 136 PRO A 137 0 -13.99 SITE 1 AC1 3 ASN A 148 ASP A 161 ATP A 403 SITE 1 AC2 3 ARG A 251 ARG A 253 ALA A 254 SITE 1 AC3 17 GLY A 29 VAL A 36 ALA A 49 LYS A 51 SITE 2 AC3 17 GLU A 69 LEU A 82 MET A 96 GLU A 97 SITE 3 AC3 17 TYR A 98 MET A 99 SER A 103 ALA A 147 SITE 4 AC3 17 ASN A 148 LEU A 150 ASP A 161 MG A 401 SITE 5 AC3 17 HOH A 520 CRYST1 71.569 110.199 145.324 90.00 90.00 90.00 I 21 21 21 8 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 0.013973 0.000000 0.000000 0.00000 SCALE2 0.000000 0.009074 0.000000 0.00000 SCALE3 0.000000 0.000000 0.006881 0.00000 TER 2081 GLU A 288 HETATM 2082 MG MG A 401 -16.815 2.579 -16.233 1.00 72.38 MG HETATM 2083 CL CL A 402 5.883 21.594 -29.819 1.00 59.76 CL HETATM 2084 PG ATP A 403 -21.451 0.974 -15.152 1.00141.67 P HETATM 2085 O1G ATP A 403 -22.582 0.892 -16.167 1.00115.26 O HETATM 2086 O2G ATP A 403 -21.757 0.208 -13.871 1.00117.74 O1- HETATM 2087 O3G ATP A 403 -21.028 2.417 -14.883 1.00116.75 O1- HETATM 2088 PB ATP A 403 -18.683 -0.275 -15.423 1.00113.48 P HETATM 2089 O1B ATP A 403 -17.849 0.955 -15.172 1.00 98.45 O HETATM 2090 O2B ATP A 403 -18.752 -1.362 -14.388 1.00115.15 O1- HETATM 2091 O3B ATP A 403 -20.173 0.188 -15.836 1.00129.35 O HETATM 2092 PA ATP A 403 -17.230 -0.235 -17.932 1.00 95.61 P HETATM 2093 O1A ATP A 403 -17.487 -0.939 -19.223 1.00111.12 O1- HETATM 2094 O2A ATP A 403 -17.478 1.239 -17.856 1.00105.23 O HETATM 2095 O3A ATP A 403 -18.116 -0.921 -16.779 1.00110.91 O HETATM 2096 O5' ATP A 403 -15.705 -0.464 -17.455 1.00 91.00 O HETATM 2097 C5' ATP A 403 -15.128 -1.730 -17.077 1.00 74.35 C HETATM 2098 C4' ATP A 403 -13.642 -1.761 -17.374 1.00 71.16 C HETATM 2099 O4' ATP A 403 -13.376 -2.958 -18.155 1.00 74.52 O HETATM 2100 C3' ATP A 403 -13.022 -0.614 -18.195 1.00 66.73 C HETATM 2101 O3' ATP A 403 -12.472 0.431 -17.400 1.00 53.91 O HETATM 2102 C2' ATP A 403 -11.914 -1.332 -18.975 1.00 66.73 C HETATM 2103 O2' ATP A 403 -10.727 -1.536 -18.235 1.00 63.83 O HETATM 2104 C1' ATP A 403 -12.584 -2.668 -19.284 1.00 67.87 C HETATM 2105 N9 ATP A 403 -13.447 -2.697 -20.488 1.00 64.98 N HETATM 2106 C8 ATP A 403 -14.731 -2.203 -20.618 1.00 63.27 C HETATM 2107 N7 ATP A 403 -15.219 -2.376 -21.825 1.00 65.10 N HETATM 2108 C5 ATP A 403 -14.204 -3.019 -22.528 1.00 63.39 C HETATM 2109 C6 ATP A 403 -14.102 -3.471 -23.861 1.00 62.15 C HETATM 2110 N6 ATP A 403 -15.070 -3.334 -24.762 1.00 55.57 N HETATM 2111 N1 ATP A 403 -12.936 -4.063 -24.236 1.00 63.45 N HETATM 2112 C2 ATP A 403 -11.960 -4.203 -23.324 1.00 59.92 C HETATM 2113 N3 ATP A 403 -11.942 -3.811 -22.050 1.00 63.00 N HETATM 2114 C4 ATP A 403 -13.107 -3.220 -21.711 1.00 63.04 C HETATM 2115 O HOH A 501 -5.452 25.727 -28.458 1.00 53.09 O HETATM 2116 O HOH A 502 -25.650 24.740 -20.226 1.00 72.66 O HETATM 2117 O HOH A 503 -6.770 24.049 -38.253 1.00 68.66 O HETATM 2118 O HOH A 504 -0.133 13.500 -32.664 1.00 60.70 O HETATM 2119 O HOH A 505 -4.463 26.618 -26.242 1.00 48.98 O HETATM 2120 O HOH A 506 -5.803 28.488 -24.629 1.00 47.22 O HETATM 2121 O HOH A 507 -19.729 2.774 -32.861 1.00 52.00 O HETATM 2122 O HOH A 508 -5.496 7.810 -30.608 1.00 45.67 O HETATM 2123 O HOH A 509 0.452 24.817 -30.194 1.00 53.85 O HETATM 2124 O HOH A 510 -14.410 18.446 -9.321 1.00 61.30 O HETATM 2125 O HOH A 511 -4.588 24.337 -10.973 1.00 57.69 O HETATM 2126 O HOH A 512 -2.322 -3.438 -26.965 1.00 58.92 O HETATM 2127 O HOH A 513 -7.607 11.993 -15.491 1.00 44.26 O HETATM 2128 O HOH A 514 -5.020 10.024 -0.270 1.00 71.57 O HETATM 2129 O HOH A 515 -1.193 28.298 -17.940 1.00 53.50 O HETATM 2130 O HOH A 516 -21.171 23.077 -25.216 1.00 48.25 O HETATM 2131 O HOH A 517 2.439 27.278 -27.400 1.00 47.58 O HETATM 2132 O HOH A 518 -1.609 8.868 -9.862 1.00 61.53 O HETATM 2133 O HOH A 519 -5.767 10.268 -14.892 1.00 51.50 O HETATM 2134 O HOH A 520 -8.237 -2.253 -19.345 1.00 56.14 O HETATM 2135 O HOH A 521 -19.995 20.851 -27.033 1.00 50.25 O HETATM 2136 O HOH A 522 -8.846 3.978 -41.793 1.00 41.23 O HETATM 2137 O HOH A 523 4.227 -1.666 -24.640 1.00 73.16 O HETATM 2138 O HOH A 524 9.766 16.912 -20.218 1.00 47.87 O HETATM 2139 O HOH A 525 1.649 15.676 -32.966 1.00 54.99 O HETATM 2140 O HOH A 526 7.845 24.551 -17.224 1.00 52.70 O HETATM 2141 O HOH A 527 -24.703 28.125 -15.941 1.00 71.56 O HETATM 2142 O HOH A 528 -0.900 3.884 -34.327 1.00 60.56 O HETATM 2143 O HOH A 529 -6.875 27.411 -13.892 1.00 61.27 O HETATM 2144 O HOH A 530 -12.388 1.354 -36.540 1.00 63.97 O HETATM 2145 O HOH A 531 2.764 6.359 -14.762 1.00 60.16 O HETATM 2146 O HOH A 532 -6.600 -11.572 -28.861 1.00 81.33 O HETATM 2147 O HOH A 533 -29.037 27.574 -12.189 1.00 78.50 O HETATM 2148 O HOH A 534 -17.393 29.365 -25.497 1.00 62.40 O HETATM 2149 O HOH A 535 -9.144 29.919 -6.690 1.00 71.16 O HETATM 2150 O HOH A 536 -13.955 29.270 -25.400 1.00 65.61 O HETATM 2151 O HOH A 537 -26.963 21.101 -23.184 1.00 55.59 O HETATM 2152 O HOH A 538 -29.180 24.810 -5.808 1.00 74.18 O HETATM 2153 O HOH A 539 -20.313 20.985 -30.001 1.00 64.71 O HETATM 2154 O HOH A 540 -5.324 20.871 -38.640 1.00 65.40 O HETATM 2155 O HOH A 541 7.852 12.138 -27.225 1.00 39.46 O HETATM 2156 O HOH A 542 -4.018 16.917 -8.287 1.00 63.26 O HETATM 2157 O HOH A 543 4.589 12.824 -17.854 1.00 54.14 O HETATM 2158 O HOH A 544 -14.676 -2.177 -35.123 1.00 70.45 O HETATM 2159 O HOH A 545 -9.904 5.165 -35.655 1.00 56.88 O HETATM 2160 O HOH A 546 3.734 21.766 -37.807 1.00 95.81 O HETATM 2161 O HOH A 547 -18.647 30.311 -10.299 1.00 67.56 O HETATM 2162 O HOH A 548 -10.086 12.831 -2.538 1.00 70.56 O HETATM 2163 O HOH A 549 0.843 -0.429 -32.865 1.00 76.81 O HETATM 2164 O HOH A 550 1.663 17.924 -11.993 1.00 71.69 O HETATM 2165 O HOH A 551 1.334 -3.243 -34.669 1.00 69.05 O HETATM 2166 O HOH A 552 -19.118 -16.134 -15.906 1.00 71.69 O HETATM 2167 O HOH A 553 3.227 3.079 -26.855 1.00 63.59 O HETATM 2168 O HOH A 554 -3.409 4.930 -7.807 1.00 70.09 O HETATM 2169 O HOH A 555 -34.880 7.182 -33.186 1.00 82.86 O HETATM 2170 O HOH A 556 -33.336 -8.570 -38.007 1.00 70.15 O HETATM 2171 O HOH A 557 0.233 -5.718 -34.022 1.00 74.81 O HETATM 2172 O HOH A 558 7.693 20.765 -36.843 1.00 81.37 O CONECT 1068 2082 CONECT 1176 2082 CONECT 2082 1068 1176 2089 2094 CONECT 2084 2085 2086 2087 2091 CONECT 2085 2084 CONECT 2086 2084 CONECT 2087 2084 CONECT 2088 2089 2090 2091 2095 CONECT 2089 2082 2088 CONECT 2090 2088 CONECT 2091 2084 2088 CONECT 2092 2093 2094 2095 2096 CONECT 2093 2092 CONECT 2094 2082 2092 CONECT 2095 2088 2092 CONECT 2096 2092 2097 CONECT 2097 2096 2098 CONECT 2098 2097 2099 2100 CONECT 2099 2098 2104 CONECT 2100 2098 2101 2102 CONECT 2101 2100 CONECT 2102 2100 2103 2104 CONECT 2103 2102 CONECT 2104 2099 2102 2105 CONECT 2105 2104 2106 2114 CONECT 2106 2105 2107 CONECT 2107 2106 2108 CONECT 2108 2107 2109 2114 CONECT 2109 2108 2110 2111 CONECT 2110 2109 CONECT 2111 2109 2112 CONECT 2112 2111 2113 CONECT 2113 2112 2114 CONECT 2114 2105 2108 2113 MASTER 442 0 3 13 9 0 7 6 2171 1 34 27 END