HEADER PROTEIN BINDING 22-DEC-06 2ODB TITLE THE CRYSTAL STRUCTURE OF HUMAN CDC42 IN COMPLEX WITH THE CRIB DOMAIN TITLE 2 OF HUMAN P21-ACTIVATED KINASE 6 (PAK6) COMPND MOL_ID: 1; COMPND 2 MOLECULE: HUMAN CELL DIVISION CYCLE 42 (CDC42); COMPND 3 CHAIN: A; COMPND 4 ENGINEERED: YES; COMPND 5 MOL_ID: 2; COMPND 6 MOLECULE: SERINE/THREONINE-PROTEIN KINASE PAK 6; COMPND 7 CHAIN: B; COMPND 8 FRAGMENT: PAK6 CRIB DOMAIN; COMPND 9 SYNONYM: P21-ACTIVATED KINASE 6, PAK-6; COMPND 10 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: CDC42; SOURCE 6 EXPRESSION_SYSTEM: ESCHERICHIA COLI BL21(DE3); SOURCE 7 EXPRESSION_SYSTEM_TAXID: 469008; SOURCE 8 EXPRESSION_SYSTEM_STRAIN: BL21 (DE3); SOURCE 9 EXPRESSION_SYSTEM_VECTOR_TYPE: PLASMID; SOURCE 10 EXPRESSION_SYSTEM_PLASMID: PNIC-BSA4; SOURCE 11 MOL_ID: 2; SOURCE 12 SYNTHETIC: YES KEYWDS SMALL GTPASE, CRIB, KINASE, PROTEIN-PROTEIN COMPLEX, STRUCTURAL KEYWDS 2 GENOMICS, STRUCTURAL GENOMICS CONSORTIUM, SGC, PROTEIN BINDING EXPDTA X-RAY DIFFRACTION AUTHOR E.UGOCHUKWU,X.YANG,J.ELKINS,M.SOUNDARARAJAN,A.C.W.PIKE,J.ESWARAN, AUTHOR 2 N.BURGESS,J.E.DEBRECZENI,M.SUNDSTROM,C.ARROWSMITH,J.WEIGELT, AUTHOR 3 A.EDWARDS,O.GILEADI,F.VON DELFT,S.KNAPP,D.DOYLE,STRUCTURAL GENOMICS AUTHOR 4 CONSORTIUM (SGC) REVDAT 5 30-AUG-23 2ODB 1 REMARK LINK REVDAT 4 18-OCT-17 2ODB 1 REMARK REVDAT 3 13-JUL-11 2ODB 1 VERSN REVDAT 2 24-FEB-09 2ODB 1 VERSN REVDAT 1 30-JAN-07 2ODB 0 JRNL AUTH X.YANG,E.UGOCHUKWU,J.ELKINS,M.SOUNDARARAJAN,J.ESWARAN, JRNL AUTH 2 A.C.W.PIKE,N.BURGESS,J.E.DEBRECZENI,O.GILEADI,S.KNAPP, JRNL AUTH 3 D.DOYLE JRNL TITL THE CRYSTAL STRUCTURE OF HUMAN CDC42 IN COMPLEX WITH THE JRNL TITL 2 CRIB DOMAIN OF HUMAN P21-ACTIVATED KINASE 6 (PAK6) JRNL REF TO BE PUBLISHED JRNL REFN REMARK 2 REMARK 2 RESOLUTION. 2.40 ANGSTROMS. REMARK 3 REMARK 3 REFINEMENT. REMARK 3 PROGRAM : REFMAC 5.2.0019 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) : 40.59 REMARK 3 DATA CUTOFF (SIGMA(F)) : 0.000 REMARK 3 COMPLETENESS FOR RANGE (%) : 100.0 REMARK 3 NUMBER OF REFLECTIONS : 13737 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) : 0.205 REMARK 3 R VALUE (WORKING SET) : 0.203 REMARK 3 FREE R VALUE : 0.232 REMARK 3 FREE R VALUE TEST SET SIZE (%) : 5.100 REMARK 3 FREE R VALUE TEST SET COUNT : 732 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) : 984 REMARK 3 BIN COMPLETENESS (WORKING+TEST) (%) : 100.0 REMARK 3 BIN R VALUE (WORKING SET) : 0.2970 REMARK 3 BIN FREE R VALUE SET COUNT : 48 REMARK 3 BIN FREE R VALUE : 0.3640 REMARK 3 REMARK 3 NUMBER OF NON-HYDROGEN ATOMS USED IN REFINEMENT. REMARK 3 PROTEIN ATOMS : 1625 REMARK 3 NUCLEIC ACID ATOMS : 0 REMARK 3 HETEROGEN ATOMS : 49 REMARK 3 SOLVENT ATOMS : 44 REMARK 3 REMARK 3 B VALUES. REMARK 3 B VALUE TYPE : LIKELY RESIDUAL REMARK 3 FROM WILSON PLOT (A**2) : NULL REMARK 3 MEAN B VALUE (OVERALL, A**2) : 47.16 REMARK 3 OVERALL ANISOTROPIC B VALUE. REMARK 3 B11 (A**2) : -4.96000 REMARK 3 B22 (A**2) : -4.96000 REMARK 3 B33 (A**2) : 7.44000 REMARK 3 B12 (A**2) : -2.48000 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): 0.249 REMARK 3 ESU BASED ON FREE R VALUE (A): 0.200 REMARK 3 ESU BASED ON MAXIMUM LIKELIHOOD (A): 0.182 REMARK 3 ESU FOR B VALUES BASED ON MAXIMUM LIKELIHOOD (A**2): 14.923 REMARK 3 REMARK 3 CORRELATION COEFFICIENTS. REMARK 3 CORRELATION COEFFICIENT FO-FC : 0.953 REMARK 3 CORRELATION COEFFICIENT FO-FC FREE : 0.946 REMARK 3 REMARK 3 RMS DEVIATIONS FROM IDEAL VALUES COUNT RMS WEIGHT REMARK 3 BOND LENGTHS REFINED ATOMS (A): 1711 ; 0.012 ; 0.022 REMARK 3 BOND LENGTHS OTHERS (A): 1099 ; 0.001 ; 0.020 REMARK 3 BOND ANGLES REFINED ATOMS (DEGREES): 2348 ; 1.466 ; 2.000 REMARK 3 BOND ANGLES OTHERS (DEGREES): 2713 ; 0.920 ; 3.000 REMARK 3 TORSION ANGLES, PERIOD 1 (DEGREES): 210 ; 6.655 ; 5.000 REMARK 3 TORSION ANGLES, PERIOD 2 (DEGREES): 67 ;37.341 ;25.224 REMARK 3 TORSION ANGLES, PERIOD 3 (DEGREES): 259 ;13.071 ;15.000 REMARK 3 TORSION ANGLES, PERIOD 4 (DEGREES): 4 ;13.291 ;15.000 REMARK 3 CHIRAL-CENTER RESTRAINTS (A**3): 270 ; 0.078 ; 0.200 REMARK 3 GENERAL PLANES REFINED ATOMS (A): 1857 ; 0.004 ; 0.020 REMARK 3 GENERAL PLANES OTHERS (A): 317 ; 0.001 ; 0.020 REMARK 3 NON-BONDED CONTACTS REFINED ATOMS (A): 283 ; 0.201 ; 0.200 REMARK 3 NON-BONDED CONTACTS OTHERS (A): 1064 ; 0.182 ; 0.200 REMARK 3 NON-BONDED TORSION REFINED ATOMS (A): 817 ; 0.176 ; 0.200 REMARK 3 NON-BONDED TORSION OTHERS (A): 813 ; 0.086 ; 0.200 REMARK 3 H-BOND (X...Y) REFINED ATOMS (A): 59 ; 0.144 ; 0.200 REMARK 3 H-BOND (X...Y) OTHERS (A): NULL ; NULL ; NULL REMARK 3 POTENTIAL METAL-ION REFINED ATOMS (A): 2 ; 0.125 ; 0.200 REMARK 3 POTENTIAL METAL-ION OTHERS (A): NULL ; NULL ; NULL REMARK 3 SYMMETRY VDW REFINED ATOMS (A): 6 ; 0.247 ; 0.200 REMARK 3 SYMMETRY VDW OTHERS (A): 28 ; 0.219 ; 0.200 REMARK 3 SYMMETRY H-BOND REFINED ATOMS (A): 4 ; 0.081 ; 0.200 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): 1109 ; 0.496 ; 1.500 REMARK 3 MAIN-CHAIN BOND OTHER ATOMS (A**2): 417 ; 0.083 ; 1.500 REMARK 3 MAIN-CHAIN ANGLE REFINED ATOMS (A**2): 1736 ; 0.792 ; 2.000 REMARK 3 MAIN-CHAIN ANGLE OTHER ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 SIDE-CHAIN BOND REFINED ATOMS (A**2): 716 ; 1.284 ; 3.000 REMARK 3 SIDE-CHAIN BOND OTHER ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 SIDE-CHAIN ANGLE REFINED ATOMS (A**2): 612 ; 1.965 ; 4.500 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 : 2 REMARK 3 REMARK 3 TLS GROUP : 1 REMARK 3 NUMBER OF COMPONENTS GROUP : 1 REMARK 3 COMPONENTS C SSSEQI TO C SSSEQI REMARK 3 RESIDUE RANGE : A 2 A 178 REMARK 3 ORIGIN FOR THE GROUP (A): 13.9842 -63.2942 -3.8227 REMARK 3 T TENSOR REMARK 3 T11: -0.0814 T22: -0.2307 REMARK 3 T33: 0.1389 T12: -0.0754 REMARK 3 T13: 0.1025 T23: -0.0833 REMARK 3 L TENSOR REMARK 3 L11: 3.9800 L22: 3.4947 REMARK 3 L33: 2.1067 L12: 1.0548 REMARK 3 L13: 0.2636 L23: -0.0477 REMARK 3 S TENSOR REMARK 3 S11: 0.1415 S12: -0.2729 S13: 1.0078 REMARK 3 S21: 0.5026 S22: -0.1487 S23: 0.4553 REMARK 3 S31: -0.1994 S32: 0.0092 S33: 0.0072 REMARK 3 REMARK 3 TLS GROUP : 2 REMARK 3 NUMBER OF COMPONENTS GROUP : 1 REMARK 3 COMPONENTS C SSSEQI TO C SSSEQI REMARK 3 RESIDUE RANGE : B 11 B 45 REMARK 3 ORIGIN FOR THE GROUP (A): 14.0796 -77.4512 -15.8260 REMARK 3 T TENSOR REMARK 3 T11: -0.0889 T22: -0.0786 REMARK 3 T33: -0.2088 T12: -0.0350 REMARK 3 T13: -0.0129 T23: -0.0153 REMARK 3 L TENSOR REMARK 3 L11: 7.8740 L22: 2.1767 REMARK 3 L33: 0.2272 L12: 1.7819 REMARK 3 L13: -0.8382 L23: -0.6844 REMARK 3 S TENSOR REMARK 3 S11: 0.0696 S12: 0.4965 S13: -0.5417 REMARK 3 S21: -0.0323 S22: -0.0084 S23: -0.4911 REMARK 3 S31: 0.1299 S32: 0.2255 S33: -0.0612 REMARK 3 REMARK 3 BULK SOLVENT MODELLING. REMARK 3 METHOD USED : MASK REMARK 3 PARAMETERS FOR MASK CALCULATION REMARK 3 VDW PROBE RADIUS : 1.40 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 2ODB COMPLIES WITH FORMAT V. 3.30, 13-JUL-11 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY RCSB ON 09-JAN-07. REMARK 100 THE DEPOSITION ID IS D_1000040991. REMARK 200 REMARK 200 EXPERIMENTAL DETAILS REMARK 200 EXPERIMENT TYPE : X-RAY DIFFRACTION REMARK 200 DATE OF DATA COLLECTION : 26-NOV-06 REMARK 200 TEMPERATURE (KELVIN) : 100 REMARK 200 PH : 4.5 REMARK 200 NUMBER OF CRYSTALS USED : 1 REMARK 200 REMARK 200 SYNCHROTRON (Y/N) : Y REMARK 200 RADIATION SOURCE : SLS REMARK 200 BEAMLINE : X10SA REMARK 200 X-RAY GENERATOR MODEL : NULL REMARK 200 MONOCHROMATIC OR LAUE (M/L) : M REMARK 200 WAVELENGTH OR RANGE (A) : 0.97956 REMARK 200 MONOCHROMATOR : NULL REMARK 200 OPTICS : NULL REMARK 200 REMARK 200 DETECTOR TYPE : CCD REMARK 200 DETECTOR MANUFACTURER : MARMOSAIC 225 MM CCD REMARK 200 INTENSITY-INTEGRATION SOFTWARE : MOSFLM REMARK 200 DATA SCALING SOFTWARE : CCP4 (SCALA) REMARK 200 REMARK 200 NUMBER OF UNIQUE REFLECTIONS : 14484 REMARK 200 RESOLUTION RANGE HIGH (A) : 2.400 REMARK 200 RESOLUTION RANGE LOW (A) : 40.590 REMARK 200 REJECTION CRITERIA (SIGMA(I)) : 0.000 REMARK 200 REMARK 200 OVERALL. REMARK 200 COMPLETENESS FOR RANGE (%) : 100.0 REMARK 200 DATA REDUNDANCY : NULL REMARK 200 R MERGE (I) : 0.07100 REMARK 200 R SYM (I) : 0.07100 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) : 2.40 REMARK 200 HIGHEST RESOLUTION SHELL, RANGE LOW (A) : 2.53 REMARK 200 COMPLETENESS FOR SHELL (%) : 100.0 REMARK 200 DATA REDUNDANCY IN SHELL : NULL REMARK 200 R MERGE FOR SHELL (I) : 0.50200 REMARK 200 R SYM FOR SHELL (I) : 0.50200 REMARK 200 <I/SIGMA(I)> 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: PDB ENTRY 1GRN REMARK 200 REMARK 200 REMARK: NULL REMARK 280 REMARK 280 CRYSTAL REMARK 280 SOLVENT CONTENT, VS (%): 64.20 REMARK 280 MATTHEWS COEFFICIENT, VM (ANGSTROMS**3/DA): 3.44 REMARK 280 REMARK 280 CRYSTALLIZATION CONDITIONS: 0.1M ACETATE, 2M (NH4)2SO4, PH 4.5, REMARK 280 VAPOR DIFFUSION, SITTING DROP, TEMPERATURE 293K REMARK 290 REMARK 290 CRYSTALLOGRAPHIC SYMMETRY REMARK 290 SYMMETRY OPERATORS FOR SPACE GROUP: P 65 2 2 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 -X,-Y,Z+1/2 REMARK 290 5555 Y,-X+Y,Z+1/6 REMARK 290 6555 X-Y,X,Z+5/6 REMARK 290 7555 Y,X,-Z+2/3 REMARK 290 8555 X-Y,-Y,-Z REMARK 290 9555 -X,-X+Y,-Z+1/3 REMARK 290 10555 -Y,-X,-Z+1/6 REMARK 290 11555 -X+Y,Y,-Z+1/2 REMARK 290 12555 X,X-Y,-Z+5/6 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 30.64533 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 15.32267 REMARK 290 SMTRY1 4 -1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY2 4 0.000000 -1.000000 0.000000 0.00000 REMARK 290 SMTRY3 4 0.000000 0.000000 1.000000 22.98400 REMARK 290 SMTRY1 5 0.500000 0.866025 0.000000 0.00000 REMARK 290 SMTRY2 5 -0.866025 0.500000 0.000000 0.00000 REMARK 290 SMTRY3 5 0.000000 0.000000 1.000000 7.66133 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 38.30667 REMARK 290 SMTRY1 7 -0.500000 0.866025 0.000000 0.00000 REMARK 290 SMTRY2 7 0.866025 0.500000 0.000000 0.00000 REMARK 290 SMTRY3 7 0.000000 0.000000 -1.000000 30.64533 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 0.00000 REMARK 290 SMTRY1 9 -0.500000 -0.866025 0.000000 0.00000 REMARK 290 SMTRY2 9 -0.866025 0.500000 0.000000 0.00000 REMARK 290 SMTRY3 9 0.000000 0.000000 -1.000000 15.32267 REMARK 290 SMTRY1 10 0.500000 -0.866025 0.000000 0.00000 REMARK 290 SMTRY2 10 -0.866025 -0.500000 0.000000 0.00000 REMARK 290 SMTRY3 10 0.000000 0.000000 -1.000000 7.66133 REMARK 290 SMTRY1 11 -1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY2 11 0.000000 1.000000 0.000000 0.00000 REMARK 290 SMTRY3 11 0.000000 0.000000 -1.000000 22.98400 REMARK 290 SMTRY1 12 0.500000 0.866025 0.000000 0.00000 REMARK 290 SMTRY2 12 0.866025 -0.500000 0.000000 0.00000 REMARK 290 SMTRY3 12 0.000000 0.000000 -1.000000 38.30667 REMARK 290 REMARK 290 REMARK: NULL REMARK 300 REMARK 300 BIOMOLECULE: 1, 2, 3, 4 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: ONE MONOMER OF EACH PROTEIN IN THE ASYMMETRIC UNIT 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: 3640 ANGSTROM**2 REMARK 350 SURFACE AREA OF THE COMPLEX: 10740 ANGSTROM**2 REMARK 350 CHANGE IN SOLVENT FREE ENERGY: -69.0 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 350 REMARK 350 BIOMOLECULE: 2 REMARK 350 SOFTWARE DETERMINED QUATERNARY STRUCTURE: TETRAMERIC REMARK 350 SOFTWARE USED: PISA REMARK 350 TOTAL BURIED SURFACE AREA: 8820 ANGSTROM**2 REMARK 350 SURFACE AREA OF THE COMPLEX: 19930 ANGSTROM**2 REMARK 350 CHANGE IN SOLVENT FREE ENERGY: -183.0 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 350 BIOMT1 2 -0.500000 -0.866025 0.000000 0.00000 REMARK 350 BIOMT2 2 -0.866025 0.500000 0.000000 0.00000 REMARK 350 BIOMT3 2 0.000000 0.000000 -1.000000 -30.64533 REMARK 350 REMARK 350 BIOMOLECULE: 3 REMARK 350 SOFTWARE DETERMINED QUATERNARY STRUCTURE: TETRAMERIC REMARK 350 SOFTWARE USED: PISA REMARK 350 TOTAL BURIED SURFACE AREA: 9490 ANGSTROM**2 REMARK 350 SURFACE AREA OF THE COMPLEX: 19270 ANGSTROM**2 REMARK 350 CHANGE IN SOLVENT FREE ENERGY: -168.0 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 350 BIOMT1 2 0.500000 0.866025 0.000000 81.18300 REMARK 350 BIOMT2 2 0.866025 -0.500000 0.000000 -140.61308 REMARK 350 BIOMT3 2 0.000000 0.000000 -1.000000 -7.66133 REMARK 350 REMARK 350 BIOMOLECULE: 4 REMARK 350 SOFTWARE DETERMINED QUATERNARY STRUCTURE: TETRAMERIC REMARK 350 SOFTWARE USED: PISA REMARK 350 TOTAL BURIED SURFACE AREA: 9840 ANGSTROM**2 REMARK 350 SURFACE AREA OF THE COMPLEX: 18910 ANGSTROM**2 REMARK 350 CHANGE IN SOLVENT FREE ENERGY: -152.0 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 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 -22.98400 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 S SO4 B 201 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 SER A 0 REMARK 465 MET A 1 REMARK 465 PRO A 179 REMARK 465 PRO A 180 REMARK 465 GLU A 181 REMARK 465 PRO A 182 REMARK 465 LYS A 183 REMARK 465 LYS A 184 REMARK 465 SER A 185 REMARK 465 ARG A 186 REMARK 465 ARG A 187 REMARK 465 CYS A 188 REMARK 465 VAL A 189 REMARK 465 LEU A 190 REMARK 465 LEU A 191 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 LYS A 27 CE NZ REMARK 470 GLU A 31 OE1 OE2 REMARK 470 GLU A 91 CD OE1 OE2 REMARK 470 LYS A 107 CD CE NZ REMARK 470 ILE A 126 CG1 CG2 CD1 REMARK 470 LYS A 131 CD CE NZ REMARK 470 LYS A 133 CG CD CE NZ REMARK 470 LYS A 135 NZ REMARK 470 GLU A 140 CG CD OE1 OE2 REMARK 470 LYS A 144 NZ REMARK 470 ARG A 147 CG CD NE CZ NH1 NH2 REMARK 470 LYS A 150 CE NZ REMARK 470 GLU B 11 CG CD OE1 OE2 REMARK 470 GLN B 19 CD OE1 NE2 REMARK 470 LYS B 29 CE NZ REMARK 470 LYS B 32 NZ 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 ASP A 11 154.23 -45.56 REMARK 500 ALA A 13 4.67 56.34 REMARK 500 VAL A 36 -62.83 -97.05 REMARK 500 LYS A 150 74.06 -154.78 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 205 MG REMARK 620 N RES CSSEQI ATOM REMARK 620 1 THR A 17 OG1 REMARK 620 2 THR A 35 OG1 92.7 REMARK 620 3 GCP A 200 O1G 173.7 87.5 REMARK 620 4 GCP A 200 O2B 95.7 169.3 83.5 REMARK 620 5 HOH A 207 O 92.2 99.7 94.0 86.7 REMARK 620 6 HOH A 209 O 98.2 84.3 75.6 87.9 168.7 REMARK 620 N 1 2 3 4 5 REMARK 800 REMARK 800 SITE REMARK 800 SITE_IDENTIFIER: AC1 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE CL A 204 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC2 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE MG A 205 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC3 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE SO4 B 201 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC4 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE SO4 A 202 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC5 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE SO4 A 203 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC6 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE GCP A 200 REMARK 900 REMARK 900 RELATED ENTRIES REMARK 900 RELATED ID: 1GRN RELATED DB: PDB REMARK 900 CRYSTAL STRUCTURE OF THE CDC42/CDC42GAP/ALF3 COMPLEX. REMARK 999 REMARK 999 SEQUENCE REMARK 999 THE SEQUENCE OF HUMAN CDC42 ISOFORM 1 IS NOT AVAILABLE IN REMARK 999 UNIPROT DATABASE AT THE TIME OF PROCESSING. DBREF 2ODB B 11 45 UNP Q9NQU5 PAK6_HUMAN 11 45 DBREF 2ODB A 1 181 UNP P60953 CDC42_HUMAN 1 181 SEQRES 1 A 192 SER MET GLN THR ILE LYS CYS VAL VAL VAL GLY ASP GLY SEQRES 2 A 192 ALA VAL GLY LYS THR CYS LEU LEU ILE SER TYR THR THR SEQRES 3 A 192 ASN LYS PHE PRO SER GLU TYR VAL PRO THR VAL PHE ASP SEQRES 4 A 192 ASN TYR ALA VAL THR VAL MET ILE GLY GLY GLU PRO TYR SEQRES 5 A 192 THR LEU GLY LEU PHE ASP THR ALA GLY GLN GLU ASP TYR SEQRES 6 A 192 ASP ARG LEU ARG PRO LEU SER TYR PRO GLN THR ASP VAL SEQRES 7 A 192 PHE LEU VAL CYS PHE SER VAL VAL SER PRO SER SER PHE SEQRES 8 A 192 GLU ASN VAL LYS GLU LYS TRP VAL PRO GLU ILE THR HIS SEQRES 9 A 192 HIS CYS PRO LYS THR PRO PHE LEU LEU VAL GLY THR GLN SEQRES 10 A 192 ILE ASP LEU ARG ASP ASP PRO SER THR ILE GLU LYS LEU SEQRES 11 A 192 ALA LYS ASN LYS GLN LYS PRO ILE THR PRO GLU THR ALA SEQRES 12 A 192 GLU LYS LEU ALA ARG ASP LEU LYS ALA VAL LYS TYR VAL SEQRES 13 A 192 GLU CYS SER ALA LEU THR GLN LYS GLY LEU LYS ASN VAL SEQRES 14 A 192 PHE ASP GLU ALA ILE LEU ALA ALA LEU GLU PRO PRO GLU SEQRES 15 A 192 PRO LYS LYS SER ARG ARG CYS VAL LEU LEU SEQRES 1 B 35 GLU ILE SER ALA PRO GLN ASN PHE GLN HIS ARG VAL HIS SEQRES 2 B 35 THR SER PHE ASP PRO LYS GLU GLY LYS PHE VAL GLY LEU SEQRES 3 B 35 PRO PRO GLN TRP GLN ASN ILE LEU ASP HET CL A 204 1 HET MG A 205 1 HET SO4 A 202 5 HET SO4 A 203 5 HET GCP A 200 32 HET SO4 B 201 5 HETNAM CL CHLORIDE ION HETNAM MG MAGNESIUM ION HETNAM SO4 SULFATE ION HETNAM GCP PHOSPHOMETHYLPHOSPHONIC ACID GUANYLATE ESTER FORMUL 3 CL CL 1- FORMUL 4 MG MG 2+ FORMUL 5 SO4 3(O4 S 2-) FORMUL 7 GCP C11 H18 N5 O13 P3 FORMUL 9 HOH *44(H2 O) HELIX 1 1 GLY A 15 ASN A 26 1 12 HELIX 2 2 GLN A 61 ASP A 65 5 5 HELIX 3 3 LEU A 67 TYR A 72 5 6 HELIX 4 4 SER A 86 LYS A 96 1 11 HELIX 5 5 LYS A 96 CYS A 105 1 10 HELIX 6 6 GLN A 116 ARG A 120 5 5 HELIX 7 7 ASP A 122 LYS A 131 1 10 HELIX 8 8 THR A 138 LYS A 150 1 13 HELIX 9 9 GLY A 164 GLU A 178 1 15 HELIX 10 10 PRO B 37 ASP B 45 1 9 SHEET 1 A 8 TYR A 154 GLU A 156 0 SHEET 2 A 8 PHE A 110 THR A 115 1 N LEU A 112 O VAL A 155 SHEET 3 A 8 VAL A 77 SER A 83 1 N PHE A 82 O THR A 115 SHEET 4 A 8 THR A 3 VAL A 9 1 N VAL A 9 O CYS A 81 SHEET 5 A 8 GLU A 49 THR A 58 1 O GLY A 54 N ILE A 4 SHEET 6 A 8 PHE A 37 ILE A 46 -1 N VAL A 42 O LEU A 53 SHEET 7 A 8 GLN B 16 ASP B 27 -1 O GLN B 16 N THR A 43 SHEET 8 A 8 LYS B 32 VAL B 34 -1 O VAL B 34 N SER B 25 LINK OG1 THR A 17 MG MG A 205 1555 1555 1.95 LINK OG1 THR A 35 MG MG A 205 1555 1555 2.01 LINK O1G GCP A 200 MG MG A 205 1555 1555 2.14 LINK O2B GCP A 200 MG MG A 205 1555 1555 2.05 LINK MG MG A 205 O HOH A 207 1555 1555 1.82 LINK MG MG A 205 O HOH A 209 1555 1555 2.05 CISPEP 1 LEU A 149 LYS A 150 0 25.70 SITE 1 AC1 1 GLN A 2 SITE 1 AC2 5 THR A 17 THR A 35 GCP A 200 HOH A 207 SITE 2 AC2 5 HOH A 209 SITE 1 AC3 2 ALA B 14 HOH B 212 SITE 1 AC4 5 GLY A 47 GLU B 11 GLN B 16 ASN B 17 SITE 2 AC4 5 HOH B 210 SITE 1 AC5 8 LYS A 5 PHE A 56 PRO A 73 GLN A 74 SITE 2 AC5 8 HOH A 220 HOH A 228 HOH A 234 GLN B 39 SITE 1 AC6 24 GLY A 12 ALA A 13 VAL A 14 GLY A 15 SITE 2 AC6 24 LYS A 16 THR A 17 CYS A 18 PHE A 28 SITE 3 AC6 24 TYR A 32 PRO A 34 THR A 35 GLY A 60 SITE 4 AC6 24 GLN A 116 ASP A 118 LEU A 119 SER A 158 SITE 5 AC6 24 ALA A 159 LEU A 160 MG A 205 HOH A 207 SITE 6 AC6 24 HOH A 209 HOH A 214 HOH A 222 HOH A 224 CRYST1 162.366 162.366 45.968 90.00 90.00 120.00 P 65 2 2 12 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 0.006159 0.003556 0.000000 0.00000 SCALE2 0.000000 0.007112 0.000000 0.00000 SCALE3 0.000000 0.000000 0.021754 0.00000