HEADER TRANSFERASE/PEPTIDE 25-FEB-13 4JDK TITLE CRYSTAL STRUCTURE OF SERINE/THREONINE-PROTEIN KINASE PAK 4 F461V TITLE 2 MUTANT IN COMPLEX WITH PAKTIDE S PEPTIDE SUBSTRATE COMPND MOL_ID: 1; COMPND 2 MOLECULE: SERINE/THREONINE-PROTEIN KINASE PAK 4; COMPND 3 CHAIN: A; COMPND 4 SYNONYM: P21-ACTIVATED KINASE 4, PAK-4; COMPND 5 EC: 2.7.11.1; COMPND 6 ENGINEERED: YES; COMPND 7 MUTATION: YES; COMPND 8 MOL_ID: 2; COMPND 9 MOLECULE: PAKTIDE S; COMPND 10 CHAIN: B; COMPND 11 ENGINEERED: YES SOURCE MOL_ID: 1; SOURCE 2 ORGANISM_SCIENTIFIC: HOMO SAPIENS; SOURCE 3 ORGANISM_COMMON: HUMAN; SOURCE 4 ORGANISM_TAXID: 9606; SOURCE 5 GENE: KIAA1142, PAK4; SOURCE 6 EXPRESSION_SYSTEM: ESCHERICHIA COLI; SOURCE 7 EXPRESSION_SYSTEM_TAXID: 562; SOURCE 8 EXPRESSION_SYSTEM_STRAIN: BL21(DE3)RILP; SOURCE 9 EXPRESSION_SYSTEM_VECTOR_TYPE: PLASMID; SOURCE 10 EXPRESSION_SYSTEM_PLASMID: MODIFIED PET28A; SOURCE 11 MOL_ID: 2; SOURCE 12 SYNTHETIC: YES KEYWDS TRANSFERASE-PEPTIDE COMPLEX, TRANSFERASE/PEPTIDE, SERINE/THREONINE- KEYWDS 2 PROTEIN KINASE PAK4, ATP BINDING, PHOSPHORYLATION EXPDTA X-RAY DIFFRACTION AUTHOR B.H.HA,T.J.BOGGON REVDAT 2 20-SEP-23 4JDK 1 SEQADV LINK REVDAT 1 29-JAN-14 4JDK 0 JRNL AUTH C.CHEN,B.H.HA,A.F.THEVENIN,H.J.LOU,R.ZHANG,K.Y.YIP, JRNL AUTH 2 J.R.PETERSON,M.GERSTEIN,P.M.KIM,P.FILIPPAKOPOULOS,S.KNAPP, JRNL AUTH 3 T.J.BOGGON,B.E.TURK JRNL TITL IDENTIFICATION OF A MAJOR DETERMINANT FOR SERINE-THREONINE JRNL TITL 2 KINASE PHOSPHOACCEPTOR SPECIFICITY. JRNL REF MOL.CELL V. 53 140 2014 JRNL REFN ISSN 1097-2765 JRNL PMID 24374310 JRNL DOI 10.1016/J.MOLCEL.2013.11.013 REMARK 2 REMARK 2 RESOLUTION. 2.40 ANGSTROMS. REMARK 3 REMARK 3 REFINEMENT. REMARK 3 PROGRAM : REFMAC 5.6.0117 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) : 2.40 REMARK 3 RESOLUTION RANGE LOW (ANGSTROMS) : 50.00 REMARK 3 DATA CUTOFF (SIGMA(F)) : NULL REMARK 3 COMPLETENESS FOR RANGE (%) : 100.0 REMARK 3 NUMBER OF REFLECTIONS : 13687 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) : 0.188 REMARK 3 R VALUE (WORKING SET) : 0.185 REMARK 3 FREE R VALUE : 0.249 REMARK 3 FREE R VALUE TEST SET SIZE (%) : 5.000 REMARK 3 FREE R VALUE TEST SET COUNT : 725 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) : 2.40 REMARK 3 BIN RESOLUTION RANGE LOW (A) : 2.46 REMARK 3 REFLECTION IN BIN (WORKING SET) : 860 REMARK 3 BIN COMPLETENESS (WORKING+TEST) (%) : 100.0 REMARK 3 BIN R VALUE (WORKING SET) : 0.2620 REMARK 3 BIN FREE R VALUE SET COUNT : 49 REMARK 3 BIN FREE R VALUE : 0.3100 REMARK 3 REMARK 3 NUMBER OF NON-HYDROGEN ATOMS USED IN REFINEMENT. REMARK 3 PROTEIN ATOMS : 2360 REMARK 3 NUCLEIC ACID ATOMS : 0 REMARK 3 HETEROGEN ATOMS : 0 REMARK 3 SOLVENT ATOMS : 49 REMARK 3 REMARK 3 B VALUES. REMARK 3 FROM WILSON PLOT (A**2) : 46.40 REMARK 3 MEAN B VALUE (OVERALL, A**2) : 48.98 REMARK 3 OVERALL ANISOTROPIC B VALUE. REMARK 3 B11 (A**2) : -1.74000 REMARK 3 B22 (A**2) : -1.74000 REMARK 3 B33 (A**2) : 3.49000 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): 0.354 REMARK 3 ESU BASED ON FREE R VALUE (A): 0.257 REMARK 3 ESU BASED ON MAXIMUM LIKELIHOOD (A): 0.197 REMARK 3 ESU FOR B VALUES BASED ON MAXIMUM LIKELIHOOD (A**2): 17.592 REMARK 3 REMARK 3 CORRELATION COEFFICIENTS. REMARK 3 CORRELATION COEFFICIENT FO-FC : 0.961 REMARK 3 CORRELATION COEFFICIENT FO-FC FREE : 0.939 REMARK 3 REMARK 3 RMS DEVIATIONS FROM IDEAL VALUES COUNT RMS WEIGHT REMARK 3 BOND LENGTHS REFINED ATOMS (A): 2437 ; 0.014 ; 0.019 REMARK 3 BOND LENGTHS OTHERS (A): NULL ; NULL ; NULL REMARK 3 BOND ANGLES REFINED ATOMS (DEGREES): 3310 ; 1.803 ; 1.986 REMARK 3 BOND ANGLES OTHERS (DEGREES): NULL ; NULL ; NULL REMARK 3 TORSION ANGLES, PERIOD 1 (DEGREES): 303 ; 6.824 ; 5.000 REMARK 3 TORSION ANGLES, PERIOD 2 (DEGREES): 108 ;34.958 ;23.148 REMARK 3 TORSION ANGLES, PERIOD 3 (DEGREES): 439 ;15.891 ;15.000 REMARK 3 TORSION ANGLES, PERIOD 4 (DEGREES): 23 ;21.148 ;15.000 REMARK 3 CHIRAL-CENTER RESTRAINTS (A**3): 372 ; 0.113 ; 0.200 REMARK 3 GENERAL PLANES REFINED ATOMS (A): 1823 ; 0.008 ; 0.021 REMARK 3 GENERAL PLANES OTHERS (A): NULL ; NULL ; NULL 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): NULL ; NULL ; NULL REMARK 3 MAIN-CHAIN BOND OTHER ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 MAIN-CHAIN ANGLE REFINED ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 MAIN-CHAIN ANGLE OTHER ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 SIDE-CHAIN BOND REFINED ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 SIDE-CHAIN BOND OTHER ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 SIDE-CHAIN ANGLE REFINED ATOMS (A**2): NULL ; NULL ; NULL 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): 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 : 1 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 300 A 398 REMARK 3 RESIDUE RANGE : A 399 A 589 REMARK 3 ORIGIN FOR THE GROUP (A): -9.8111 19.2800 -7.1207 REMARK 3 T TENSOR REMARK 3 T11: 0.0216 T22: 0.0321 REMARK 3 T33: 0.1101 T12: -0.0224 REMARK 3 T13: -0.0417 T23: 0.0313 REMARK 3 L TENSOR REMARK 3 L11: 1.4262 L22: 0.3681 REMARK 3 L33: 1.8303 L12: 0.0824 REMARK 3 L13: -0.2634 L23: 0.7243 REMARK 3 S TENSOR REMARK 3 S11: 0.0782 S12: -0.0872 S13: -0.0357 REMARK 3 S21: 0.0321 S22: -0.0180 S23: -0.0501 REMARK 3 S31: 0.0583 S32: -0.0766 S33: -0.0602 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 USED IF PRESENT IN REMARK 3 THE INPUT REMARK 4 REMARK 4 4JDK COMPLIES WITH FORMAT V. 3.30, 13-JUL-11 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY RCSB ON 06-MAR-13. REMARK 100 THE DEPOSITION ID IS D_1000077911. REMARK 200 REMARK 200 EXPERIMENTAL DETAILS REMARK 200 EXPERIMENT TYPE : X-RAY DIFFRACTION REMARK 200 DATE OF DATA COLLECTION : 29-MAR-12 REMARK 200 TEMPERATURE (KELVIN) : 100 REMARK 200 PH : 7.5 REMARK 200 NUMBER OF CRYSTALS USED : 1 REMARK 200 REMARK 200 SYNCHROTRON (Y/N) : Y REMARK 200 RADIATION SOURCE : NSLS REMARK 200 BEAMLINE : X25 REMARK 200 X-RAY GENERATOR MODEL : NULL REMARK 200 MONOCHROMATIC OR LAUE (M/L) : M REMARK 200 WAVELENGTH OR RANGE (A) : 1.10000 REMARK 200 MONOCHROMATOR : SI (111) MONOCHROMATOR REMARK 200 OPTICS : MIRROR 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 : 14691 REMARK 200 RESOLUTION RANGE HIGH (A) : 2.400 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 (%) : 100.0 REMARK 200 DATA REDUNDANCY : 11.90 REMARK 200 R MERGE (I) : 0.13300 REMARK 200 R SYM (I) : 0.13300 REMARK 200 FOR THE DATA SET : 17.3640 REMARK 200 REMARK 200 IN THE HIGHEST RESOLUTION SHELL. REMARK 200 HIGHEST RESOLUTION SHELL, RANGE HIGH (A) : 2.40 REMARK 200 HIGHEST RESOLUTION SHELL, RANGE LOW (A) : 2.49 REMARK 200 COMPLETENESS FOR SHELL (%) : 100.0 REMARK 200 DATA REDUNDANCY IN SHELL : 12.00 REMARK 200 R MERGE FOR SHELL (I) : 0.96400 REMARK 200 R SYM FOR SHELL (I) : 0.96400 REMARK 200 FOR SHELL : 1.893 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: 4FIF REMARK 200 REMARK 200 REMARK: NULL REMARK 280 REMARK 280 CRYSTAL REMARK 280 SOLVENT CONTENT, VS (%): 42.31 REMARK 280 MATTHEWS COEFFICIENT, VM (ANGSTROMS**3/DA): 2.13 REMARK 280 REMARK 280 CRYSTALLIZATION CONDITIONS: 0.1 M TRIS-HCL, 1.5 - 2.0 M NA REMARK 280 ACETATE, PH 7.5, VAPOR DIFFUSION, HANGING DROP, TEMPERATURE 295K REMARK 290 REMARK 290 CRYSTALLOGRAPHIC SYMMETRY REMARK 290 SYMMETRY OPERATORS FOR SPACE GROUP: P 41 21 2 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 -Y+1/2,X+1/2,Z+1/4 REMARK 290 4555 Y+1/2,-X+1/2,Z+3/4 REMARK 290 5555 -X+1/2,Y+1/2,-Z+1/4 REMARK 290 6555 X+1/2,-Y+1/2,-Z+3/4 REMARK 290 7555 Y,X,-Z REMARK 290 8555 -Y,-X,-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 0.00000 REMARK 290 SMTRY2 2 0.000000 -1.000000 0.000000 0.00000 REMARK 290 SMTRY3 2 0.000000 0.000000 1.000000 90.37850 REMARK 290 SMTRY1 3 0.000000 -1.000000 0.000000 30.81050 REMARK 290 SMTRY2 3 1.000000 0.000000 0.000000 30.81050 REMARK 290 SMTRY3 3 0.000000 0.000000 1.000000 45.18925 REMARK 290 SMTRY1 4 0.000000 1.000000 0.000000 30.81050 REMARK 290 SMTRY2 4 -1.000000 0.000000 0.000000 30.81050 REMARK 290 SMTRY3 4 0.000000 0.000000 1.000000 135.56775 REMARK 290 SMTRY1 5 -1.000000 0.000000 0.000000 30.81050 REMARK 290 SMTRY2 5 0.000000 1.000000 0.000000 30.81050 REMARK 290 SMTRY3 5 0.000000 0.000000 -1.000000 45.18925 REMARK 290 SMTRY1 6 1.000000 0.000000 0.000000 30.81050 REMARK 290 SMTRY2 6 0.000000 -1.000000 0.000000 30.81050 REMARK 290 SMTRY3 6 0.000000 0.000000 -1.000000 135.56775 REMARK 290 SMTRY1 7 0.000000 1.000000 0.000000 0.00000 REMARK 290 SMTRY2 7 1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY3 7 0.000000 0.000000 -1.000000 0.00000 REMARK 290 SMTRY1 8 0.000000 -1.000000 0.000000 0.00000 REMARK 290 SMTRY2 8 -1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY3 8 0.000000 0.000000 -1.000000 90.37850 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 300 REMARK: A+B 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: 1390 ANGSTROM**2 REMARK 350 SURFACE AREA OF THE COMPLEX: 13510 ANGSTROM**2 REMARK 350 CHANGE IN SOLVENT FREE ENERGY: -5.0 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 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 246 REMARK 465 GLY A 247 REMARK 465 SER A 248 REMARK 465 SER A 249 REMARK 465 HIS A 250 REMARK 465 HIS A 251 REMARK 465 HIS A 252 REMARK 465 HIS A 253 REMARK 465 HIS A 254 REMARK 465 HIS A 255 REMARK 465 SER A 256 REMARK 465 SER A 257 REMARK 465 GLY A 258 REMARK 465 LEU A 259 REMARK 465 VAL A 260 REMARK 465 PRO A 261 REMARK 465 ARG A 262 REMARK 465 GLY A 263 REMARK 465 SER A 264 REMARK 465 HIS A 265 REMARK 465 MET A 266 REMARK 465 GLU A 267 REMARK 465 ASN A 268 REMARK 465 LEU A 269 REMARK 465 TYR A 270 REMARK 465 PHE A 271 REMARK 465 GLN A 272 REMARK 465 GLY A 273 REMARK 465 ALA A 274 REMARK 465 ARG A 275 REMARK 465 ALA A 276 REMARK 465 ARG A 277 REMARK 465 GLN A 278 REMARK 465 GLU A 279 REMARK 465 ASN A 280 REMARK 465 GLY A 281 REMARK 465 MET A 282 REMARK 465 PRO A 283 REMARK 465 GLU A 284 REMARK 465 LYS A 285 REMARK 465 PRO A 286 REMARK 465 PRO A 287 REMARK 465 GLY A 288 REMARK 465 PRO A 289 REMARK 465 ARG A 290 REMARK 465 SER A 291 REMARK 465 PRO A 292 REMARK 465 GLN A 293 REMARK 465 ARG A 294 REMARK 465 GLU A 295 REMARK 465 PRO A 296 REMARK 465 GLN A 297 REMARK 465 ARG A 298 REMARK 465 VAL A 299 REMARK 465 THR A 590 REMARK 465 ARG A 591 REMARK 465 ARG B -4 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 SER A 342 O HOH A 618 2.13 REMARK 500 REMARK 500 REMARK: NULL REMARK 500 REMARK 500 GEOMETRY AND STEREOCHEMISTRY REMARK 500 SUBTOPIC: COVALENT BOND LENGTHS 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,2(A3,1X,A1,I4,A1,1X,A4,3X),1X,F6.3) 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 RES CSSEQI ATM2 DEVIATION REMARK 500 HIS A 539 CG HIS A 539 CD2 0.056 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 ARG A 489 NE - CZ - NH2 ANGL. DEV. = -3.2 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 HIS A 375 146.70 -171.33 REMARK 500 ASP A 440 38.46 -147.11 REMARK 500 ASP A 458 74.79 54.41 REMARK 500 ASP A 458 79.60 48.48 REMARK 500 ASN A 537 76.35 -117.66 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 CHAIN B OF PAKTIDE S REMARK 900 REMARK 900 RELATED ENTRIES REMARK 900 RELATED ID: 4FIJ RELATED DB: PDB REMARK 900 RELATED ID: 4JDH RELATED DB: PDB REMARK 900 RELATED ID: 4JDI RELATED DB: PDB REMARK 900 RELATED ID: 4JDJ RELATED DB: PDB DBREF 4JDK A 286 591 UNP O96013 PAK4_HUMAN 286 591 DBREF 4JDK B -4 2 PDB 4JDK 4JDK -4 2 SEQADV 4JDK MET A 246 UNP O96013 EXPRESSION TAG SEQADV 4JDK GLY A 247 UNP O96013 EXPRESSION TAG SEQADV 4JDK SER A 248 UNP O96013 EXPRESSION TAG SEQADV 4JDK SER A 249 UNP O96013 EXPRESSION TAG SEQADV 4JDK HIS A 250 UNP O96013 EXPRESSION TAG SEQADV 4JDK HIS A 251 UNP O96013 EXPRESSION TAG SEQADV 4JDK HIS A 252 UNP O96013 EXPRESSION TAG SEQADV 4JDK HIS A 253 UNP O96013 EXPRESSION TAG SEQADV 4JDK HIS A 254 UNP O96013 EXPRESSION TAG SEQADV 4JDK HIS A 255 UNP O96013 EXPRESSION TAG SEQADV 4JDK SER A 256 UNP O96013 EXPRESSION TAG SEQADV 4JDK SER A 257 UNP O96013 EXPRESSION TAG SEQADV 4JDK GLY A 258 UNP O96013 EXPRESSION TAG SEQADV 4JDK LEU A 259 UNP O96013 EXPRESSION TAG SEQADV 4JDK VAL A 260 UNP O96013 EXPRESSION TAG SEQADV 4JDK PRO A 261 UNP O96013 EXPRESSION TAG SEQADV 4JDK ARG A 262 UNP O96013 EXPRESSION TAG SEQADV 4JDK GLY A 263 UNP O96013 EXPRESSION TAG SEQADV 4JDK SER A 264 UNP O96013 EXPRESSION TAG SEQADV 4JDK HIS A 265 UNP O96013 EXPRESSION TAG SEQADV 4JDK MET A 266 UNP O96013 EXPRESSION TAG SEQADV 4JDK GLU A 267 UNP O96013 EXPRESSION TAG SEQADV 4JDK ASN A 268 UNP O96013 EXPRESSION TAG SEQADV 4JDK LEU A 269 UNP O96013 EXPRESSION TAG SEQADV 4JDK TYR A 270 UNP O96013 EXPRESSION TAG SEQADV 4JDK PHE A 271 UNP O96013 EXPRESSION TAG SEQADV 4JDK GLN A 272 UNP O96013 EXPRESSION TAG SEQADV 4JDK GLY A 273 UNP O96013 EXPRESSION TAG SEQADV 4JDK ALA A 274 UNP O96013 EXPRESSION TAG SEQADV 4JDK ARG A 275 UNP O96013 EXPRESSION TAG SEQADV 4JDK ALA A 276 UNP O96013 EXPRESSION TAG SEQADV 4JDK ARG A 277 UNP O96013 EXPRESSION TAG SEQADV 4JDK GLN A 278 UNP O96013 EXPRESSION TAG SEQADV 4JDK GLU A 279 UNP O96013 EXPRESSION TAG SEQADV 4JDK ASN A 280 UNP O96013 EXPRESSION TAG SEQADV 4JDK GLY A 281 UNP O96013 EXPRESSION TAG SEQADV 4JDK MET A 282 UNP O96013 EXPRESSION TAG SEQADV 4JDK PRO A 283 UNP O96013 EXPRESSION TAG SEQADV 4JDK GLU A 284 UNP O96013 EXPRESSION TAG SEQADV 4JDK LYS A 285 UNP O96013 EXPRESSION TAG SEQADV 4JDK VAL A 461 UNP O96013 PHE 461 ENGINEERED MUTATION SEQRES 1 A 346 MET GLY SER SER HIS HIS HIS HIS HIS HIS SER SER GLY SEQRES 2 A 346 LEU VAL PRO ARG GLY SER HIS MET GLU ASN LEU TYR PHE SEQRES 3 A 346 GLN GLY ALA ARG ALA ARG GLN GLU ASN GLY MET PRO GLU SEQRES 4 A 346 LYS PRO PRO GLY PRO ARG SER PRO GLN ARG GLU PRO GLN SEQRES 5 A 346 ARG VAL SER HIS GLU GLN PHE ARG ALA ALA LEU GLN LEU SEQRES 6 A 346 VAL VAL ASP PRO GLY ASP PRO ARG SER TYR LEU ASP ASN SEQRES 7 A 346 PHE ILE LYS ILE GLY GLU GLY SER THR GLY ILE VAL CYS SEQRES 8 A 346 ILE ALA THR VAL ARG SER SER GLY LYS LEU VAL ALA VAL SEQRES 9 A 346 LYS LYS MET ASP LEU ARG LYS GLN GLN ARG ARG GLU LEU SEQRES 10 A 346 LEU PHE ASN GLU VAL VAL ILE MET ARG ASP TYR GLN HIS SEQRES 11 A 346 GLU ASN VAL VAL GLU MET TYR ASN SER TYR LEU VAL GLY SEQRES 12 A 346 ASP GLU LEU TRP VAL VAL MET GLU PHE LEU GLU GLY GLY SEQRES 13 A 346 ALA LEU THR ASP ILE VAL THR HIS THR ARG MET ASN GLU SEQRES 14 A 346 GLU GLN ILE ALA ALA VAL CYS LEU ALA VAL LEU GLN ALA SEQRES 15 A 346 LEU SER VAL LEU HIS ALA GLN GLY VAL ILE HIS ARG ASP SEQRES 16 A 346 ILE LYS SER ASP SER ILE LEU LEU THR HIS ASP GLY ARG SEQRES 17 A 346 VAL LYS LEU SER ASP PHE GLY VAL CYS ALA GLN VAL SER SEQRES 18 A 346 LYS GLU VAL PRO ARG ARG LYS SEP LEU VAL GLY THR PRO SEQRES 19 A 346 TYR TRP MET ALA PRO GLU LEU ILE SER ARG LEU PRO TYR SEQRES 20 A 346 GLY PRO GLU VAL ASP ILE TRP SER LEU GLY ILE MET VAL SEQRES 21 A 346 ILE GLU MET VAL ASP GLY GLU PRO PRO TYR PHE ASN GLU SEQRES 22 A 346 PRO PRO LEU LYS ALA MET LYS MET ILE ARG ASP ASN LEU SEQRES 23 A 346 PRO PRO ARG LEU LYS ASN LEU HIS LYS VAL SER PRO SER SEQRES 24 A 346 LEU LYS GLY PHE LEU ASP ARG LEU LEU VAL ARG ASP PRO SEQRES 25 A 346 ALA GLN ARG ALA TPO ALA ALA GLU LEU LEU LYS HIS PRO SEQRES 26 A 346 PHE LEU ALA LYS ALA GLY PRO PRO ALA SER ILE VAL PRO SEQRES 27 A 346 LEU MET ARG GLN ASN ARG THR ARG SEQRES 1 B 7 ARG ARG ARG ARG SER TRP TYR MODRES 4JDK SEP A 474 SER PHOSPHOSERINE MODRES 4JDK TPO A 562 THR PHOSPHOTHREONINE HET SEP A 474 10 HET TPO A 562 11 HETNAM SEP PHOSPHOSERINE HETNAM TPO PHOSPHOTHREONINE HETSYN SEP PHOSPHONOSERINE HETSYN TPO PHOSPHONOTHREONINE FORMUL 1 SEP C3 H8 N O6 P FORMUL 1 TPO C4 H10 N O6 P FORMUL 3 HOH *49(H2 O) HELIX 1 1 SER A 300 LEU A 310 1 11 HELIX 2 2 ASP A 316 SER A 319 5 4 HELIX 3 3 ARG A 355 GLN A 357 5 3 HELIX 4 4 ARG A 359 LEU A 362 5 4 HELIX 5 5 LEU A 363 TYR A 373 1 11 HELIX 6 6 ALA A 402 THR A 408 1 7 HELIX 7 7 ASN A 413 GLN A 434 1 22 HELIX 8 8 LYS A 442 ASP A 444 5 3 HELIX 9 9 THR A 478 MET A 482 5 5 HELIX 10 10 ALA A 483 SER A 488 1 6 HELIX 11 11 PRO A 494 GLY A 511 1 18 HELIX 12 12 PRO A 519 ASN A 530 1 12 HELIX 13 13 ASN A 537 VAL A 541 5 5 HELIX 14 14 SER A 542 LEU A 553 1 12 HELIX 15 15 TPO A 562 LEU A 567 1 6 HELIX 16 16 LYS A 568 ALA A 575 5 8 HELIX 17 17 PRO A 577 MET A 585 5 9 SHEET 1 A 5 LEU A 321 GLU A 329 0 SHEET 2 A 5 ILE A 334 VAL A 340 -1 O VAL A 335 N ILE A 327 SHEET 3 A 5 LEU A 346 ASP A 353 -1 O LYS A 351 N ILE A 334 SHEET 4 A 5 GLU A 390 MET A 395 -1 O MET A 395 N ALA A 348 SHEET 5 A 5 MET A 381 VAL A 387 -1 N TYR A 385 O TRP A 392 SHEET 1 B 2 VAL A 436 ILE A 437 0 SHEET 2 B 2 ALA A 463 GLN A 464 -1 O ALA A 463 N ILE A 437 SHEET 1 C 2 ILE A 446 LEU A 448 0 SHEET 2 C 2 VAL A 454 LEU A 456 -1 O LYS A 455 N LEU A 447 LINK C LYS A 473 N SEP A 474 1555 1555 1.34 LINK C SEP A 474 N LEU A 475 1555 1555 1.33 LINK C ALA A 561 N TPO A 562 1555 1555 1.32 LINK C TPO A 562 N ALA A 563 1555 1555 1.34 SITE 1 AC1 22 SER A 331 GLN A 357 GLN A 358 ARG A 359 SITE 2 AC1 22 LEU A 362 THR A 404 ASP A 440 LYS A 442 SITE 3 AC1 22 SER A 443 ASP A 444 VAL A 461 LEU A 475 SITE 4 AC1 22 GLY A 477 THR A 478 PRO A 479 TYR A 480 SITE 5 AC1 22 TRP A 481 GLU A 507 PHE A 516 LEU A 521 SITE 6 AC1 22 MET A 524 HOH B 101 CRYST1 61.621 61.621 180.757 90.00 90.00 90.00 P 41 21 2 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 0.016228 0.000000 0.000000 0.00000 SCALE2 0.000000 0.016228 0.000000 0.00000 SCALE3 0.000000 0.000000 0.005532 0.00000