PDB Short entry for 4JDJ HEADER TRANSFERASE/PEPTIDE 25-FEB-13 4JDJ TITLE CRYSTAL STRUCTURE OF SERINE/THREONINE-PROTEIN KINASE PAK 4 F461V TITLE 2 MUTANT IN COMPLEX WITH PAKTIDE T 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 T; 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 4JDJ 1 SEQADV LINK REVDAT 1 29-JAN-14 4JDJ 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. 2.30 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) : 2.30 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 : 15615 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) : 0.197 REMARK 3 R VALUE (WORKING SET) : 0.195 REMARK 3 FREE R VALUE : 0.244 REMARK 3 FREE R VALUE TEST SET SIZE (%) : 5.100 REMARK 3 FREE R VALUE TEST SET COUNT : 835 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) : 2.30 REMARK 3 BIN RESOLUTION RANGE LOW (A) : 2.36 REMARK 3 REFLECTION IN BIN (WORKING SET) : 955 REMARK 3 BIN COMPLETENESS (WORKING+TEST) (%) : 100.0 REMARK 3 BIN R VALUE (WORKING SET) : 0.2730 REMARK 3 BIN FREE R VALUE SET COUNT : 67 REMARK 3 BIN FREE R VALUE : 0.2940 REMARK 3 REMARK 3 NUMBER OF NON-HYDROGEN ATOMS USED IN REFINEMENT. REMARK 3 PROTEIN ATOMS : 2361 REMARK 3 NUCLEIC ACID ATOMS : 0 REMARK 3 HETEROGEN ATOMS : 0 REMARK 3 SOLVENT ATOMS : 102 REMARK 3 REMARK 3 B VALUES. REMARK 3 FROM WILSON PLOT (A**2) : 36.10 REMARK 3 MEAN B VALUE (OVERALL, A**2) : 40.23 REMARK 3 OVERALL ANISOTROPIC B VALUE. REMARK 3 B11 (A**2) : -0.19000 REMARK 3 B22 (A**2) : -0.19000 REMARK 3 B33 (A**2) : 0.38000 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): 0.301 REMARK 3 ESU BASED ON FREE R VALUE (A): 0.228 REMARK 3 ESU BASED ON MAXIMUM LIKELIHOOD (A): 0.159 REMARK 3 ESU FOR B VALUES BASED ON MAXIMUM LIKELIHOOD (A**2): 13.240 REMARK 3 REMARK 3 CORRELATION COEFFICIENTS. REMARK 3 CORRELATION COEFFICIENT FO-FC : 0.954 REMARK 3 CORRELATION COEFFICIENT FO-FC FREE : 0.923 REMARK 3 REMARK 3 RMS DEVIATIONS FROM IDEAL VALUES COUNT RMS WEIGHT REMARK 3 BOND LENGTHS REFINED ATOMS (A): 2434 ; 0.007 ; 0.019 REMARK 3 BOND LENGTHS OTHERS (A): NULL ; NULL ; NULL REMARK 3 BOND ANGLES REFINED ATOMS (DEGREES): 3306 ; 1.179 ; 1.986 REMARK 3 BOND ANGLES OTHERS (DEGREES): NULL ; NULL ; NULL REMARK 3 TORSION ANGLES, PERIOD 1 (DEGREES): 302 ; 5.467 ; 5.000 REMARK 3 TORSION ANGLES, PERIOD 2 (DEGREES): 107 ;33.983 ;23.084 REMARK 3 TORSION ANGLES, PERIOD 3 (DEGREES): 439 ;14.312 ;15.000 REMARK 3 TORSION ANGLES, PERIOD 4 (DEGREES): 23 ;16.280 ;15.000 REMARK 3 CHIRAL-CENTER RESTRAINTS (A**3): 373 ; 0.076 ; 0.200 REMARK 3 GENERAL PLANES REFINED ATOMS (A): 1815 ; 0.004 ; 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): 9.6917 -19.3220 -7.2574 REMARK 3 T TENSOR REMARK 3 T11: 0.0273 T22: 0.0241 REMARK 3 T33: 0.0645 T12: -0.0250 REMARK 3 T13: 0.0377 T23: -0.0336 REMARK 3 L TENSOR REMARK 3 L11: 1.8123 L22: 0.5142 REMARK 3 L33: 2.4076 L12: 0.3038 REMARK 3 L13: 0.4618 L23: -0.9436 REMARK 3 S TENSOR REMARK 3 S11: 0.1376 S12: -0.1116 S13: 0.0912 REMARK 3 S21: 0.0566 S22: -0.0697 S23: 0.0355 REMARK 3 S31: -0.0644 S32: 0.1096 S33: -0.0679 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 4JDJ 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_1000077910. REMARK 200 REMARK 200 EXPERIMENTAL DETAILS REMARK 200 EXPERIMENT TYPE : X-RAY DIFFRACTION REMARK 200 DATE OF DATA COLLECTION : 21-OCT-11 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 : NULL REMARK 200 RESOLUTION RANGE HIGH (A) : 2.300 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 : 6.000 REMARK 200 R MERGE (I) : 0.08900 REMARK 200 R SYM (I) : 0.08900 REMARK 200 <I/SIGMA(I)> FOR THE DATA SET : 17.5360 REMARK 200 REMARK 200 IN THE HIGHEST RESOLUTION SHELL. REMARK 200 HIGHEST RESOLUTION SHELL, RANGE HIGH (A) : 2.30 REMARK 200 HIGHEST RESOLUTION SHELL, RANGE LOW (A) : 2.38 REMARK 200 COMPLETENESS FOR SHELL (%) : 99.8 REMARK 200 DATA REDUNDANCY IN SHELL : 5.00 REMARK 200 R MERGE FOR SHELL (I) : 0.69000 REMARK 200 R SYM FOR SHELL (I) : 0.69000 REMARK 200 <I/SIGMA(I)> FOR SHELL : 2.208 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 (%): 41.89 REMARK 280 MATTHEWS COEFFICIENT, VM (ANGSTROMS**3/DA): 2.12 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 90.86350 REMARK 290 SMTRY1 3 0.000000 -1.000000 0.000000 30.89500 REMARK 290 SMTRY2 3 1.000000 0.000000 0.000000 30.89500 REMARK 290 SMTRY3 3 0.000000 0.000000 1.000000 45.43175 REMARK 290 SMTRY1 4 0.000000 1.000000 0.000000 30.89500 REMARK 290 SMTRY2 4 -1.000000 0.000000 0.000000 30.89500 REMARK 290 SMTRY3 4 0.000000 0.000000 1.000000 136.29525 REMARK 290 SMTRY1 5 -1.000000 0.000000 0.000000 30.89500 REMARK 290 SMTRY2 5 0.000000 1.000000 0.000000 30.89500 REMARK 290 SMTRY3 5 0.000000 0.000000 -1.000000 45.43175 REMARK 290 SMTRY1 6 1.000000 0.000000 0.000000 30.89500 REMARK 290 SMTRY2 6 0.000000 -1.000000 0.000000 30.89500 REMARK 290 SMTRY3 6 0.000000 0.000000 -1.000000 136.29525 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 90.86350 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: 13510 ANGSTROM**2 REMARK 350 CHANGE IN SOLVENT FREE ENERGY: -4.0 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 GLY B -7 REMARK 465 GLY B -6 REMARK 465 ARG B -5 REMARK 465 ARG B -4 REMARK 465 PHE B 3 REMARK 465 GLY B 4 REMARK 465 GLY B 5 REMARK 465 GLY B 6 REMARK 465 LYS B 7 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 319 NH2 ARG A 341 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 OE2 GLU A 415 NH1 ARG A 489 7545 2.10 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 ARG A 439 -2.59 77.52 REMARK 500 ASP A 458 73.82 54.02 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 T 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: 4JDK RELATED DB: PDB DBREF 4JDJ A 286 591 UNP O96013 PAK4_HUMAN 286 591 DBREF 4JDJ B -7 7 PDB 4JDJ 4JDJ -7 7 SEQADV 4JDJ MET A 246 UNP O96013 EXPRESSION TAG SEQADV 4JDJ GLY A 247 UNP O96013 EXPRESSION TAG SEQADV 4JDJ SER A 248 UNP O96013 EXPRESSION TAG SEQADV 4JDJ SER A 249 UNP O96013 EXPRESSION TAG SEQADV 4JDJ HIS A 250 UNP O96013 EXPRESSION TAG SEQADV 4JDJ HIS A 251 UNP O96013 EXPRESSION TAG SEQADV 4JDJ HIS A 252 UNP O96013 EXPRESSION TAG SEQADV 4JDJ HIS A 253 UNP O96013 EXPRESSION TAG SEQADV 4JDJ HIS A 254 UNP O96013 EXPRESSION TAG SEQADV 4JDJ HIS A 255 UNP O96013 EXPRESSION TAG SEQADV 4JDJ SER A 256 UNP O96013 EXPRESSION TAG SEQADV 4JDJ SER A 257 UNP O96013 EXPRESSION TAG SEQADV 4JDJ GLY A 258 UNP O96013 EXPRESSION TAG SEQADV 4JDJ LEU A 259 UNP O96013 EXPRESSION TAG SEQADV 4JDJ VAL A 260 UNP O96013 EXPRESSION TAG SEQADV 4JDJ PRO A 261 UNP O96013 EXPRESSION TAG SEQADV 4JDJ ARG A 262 UNP O96013 EXPRESSION TAG SEQADV 4JDJ GLY A 263 UNP O96013 EXPRESSION TAG SEQADV 4JDJ SER A 264 UNP O96013 EXPRESSION TAG SEQADV 4JDJ HIS A 265 UNP O96013 EXPRESSION TAG SEQADV 4JDJ MET A 266 UNP O96013 EXPRESSION TAG SEQADV 4JDJ GLU A 267 UNP O96013 EXPRESSION TAG SEQADV 4JDJ ASN A 268 UNP O96013 EXPRESSION TAG SEQADV 4JDJ LEU A 269 UNP O96013 EXPRESSION TAG SEQADV 4JDJ TYR A 270 UNP O96013 EXPRESSION TAG SEQADV 4JDJ PHE A 271 UNP O96013 EXPRESSION TAG SEQADV 4JDJ GLN A 272 UNP O96013 EXPRESSION TAG SEQADV 4JDJ GLY A 273 UNP O96013 EXPRESSION TAG SEQADV 4JDJ ALA A 274 UNP O96013 EXPRESSION TAG SEQADV 4JDJ ARG A 275 UNP O96013 EXPRESSION TAG SEQADV 4JDJ ALA A 276 UNP O96013 EXPRESSION TAG SEQADV 4JDJ ARG A 277 UNP O96013 EXPRESSION TAG SEQADV 4JDJ GLN A 278 UNP O96013 EXPRESSION TAG SEQADV 4JDJ GLU A 279 UNP O96013 EXPRESSION TAG SEQADV 4JDJ ASN A 280 UNP O96013 EXPRESSION TAG SEQADV 4JDJ GLY A 281 UNP O96013 EXPRESSION TAG SEQADV 4JDJ MET A 282 UNP O96013 EXPRESSION TAG SEQADV 4JDJ PRO A 283 UNP O96013 EXPRESSION TAG SEQADV 4JDJ GLU A 284 UNP O96013 EXPRESSION TAG SEQADV 4JDJ LYS A 285 UNP O96013 EXPRESSION TAG SEQADV 4JDJ 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 15 GLY GLY ARG ARG ARG ARG ARG THR TRP TYR PHE GLY GLY SEQRES 2 B 15 GLY LYS MODRES 4JDJ SEP A 474 SER PHOSPHOSERINE MODRES 4JDJ 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 *102(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 GLU A 361 5 3 HELIX 5 5 LEU A 362 TYR A 373 1 12 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 GLY A 328 0 SHEET 2 A 5 ILE A 334 VAL A 340 -1 O THR A 339 N ASP A 322 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 1.33 LINK C SEP A 474 N LEU A 475 1555 1555 1.33 LINK C ALA A 561 N TPO A 562 1555 1555 1.33 LINK C TPO A 562 N ALA A 563 1555 1555 1.33 SITE 1 AC1 22 SER A 331 THR A 332 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 LEU A 475 VAL A 476 SITE 4 AC1 22 GLY A 477 THR A 478 TYR A 480 TRP A 481 SITE 5 AC1 22 GLU A 507 PHE A 516 LEU A 521 MET A 524 SITE 6 AC1 22 HOH A 656 HOH A 689 CRYST1 61.790 61.790 181.727 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 0.016184 0.000000 0.000000 0.00000 SCALE2 0.000000 0.016184 0.000000 0.00000 SCALE3 0.000000 0.000000 0.005503 0.00000