HEADER INHIBITOR 23-FEB-07 2JHZ TITLE CRYSTAL STRUCTURE OF RHOGDI E155S, E157S MUTANT COMPND MOL_ID: 1; COMPND 2 MOLECULE: RHO GDP-DISSOCIATION INHIBITOR 1; COMPND 3 CHAIN: A, B; COMPND 4 FRAGMENT: ISOPRENYL-BINDING DOMAIN, RESIDUES 66-201; COMPND 5 SYNONYM: RHO GDI 1, RHO-GDI ALPHA; COMPND 6 ENGINEERED: YES; COMPND 7 MUTATION: YES SOURCE MOL_ID: 1; SOURCE 2 ORGANISM_SCIENTIFIC: HOMO SAPIENS; SOURCE 3 ORGANISM_COMMON: HUMAN; SOURCE 4 ORGANISM_TAXID: 9606; SOURCE 5 EXPRESSION_SYSTEM: ESCHERICHIA COLI; SOURCE 6 EXPRESSION_SYSTEM_TAXID: 469008; SOURCE 7 EXPRESSION_SYSTEM_STRAIN: BL21(DE3); SOURCE 8 EXPRESSION_SYSTEM_VECTOR: PGST-PARALLEL1 KEYWDS SURFACE ENTROPY REDUCTION, INHIBITOR, ACETYLATION, GTPASE ACTIVATION, KEYWDS 2 CRYSTAL ENGINEERING EXPDTA X-RAY DIFFRACTION AUTHOR D.R.COOPER,M.PINKOWSKA,Z.S.DEREWENDA REVDAT 3 13-DEC-23 2JHZ 1 REMARK REVDAT 2 24-FEB-09 2JHZ 1 VERSN REVDAT 1 08-MAY-07 2JHZ 0 JRNL AUTH D.R.COOPER,T.BOCZEK,K.GRELEWSKA,M.PINKOWSKA,M.SIKORSKA, JRNL AUTH 2 M.ZAWADZKI,Z.S.DEREWENDA JRNL TITL PROTEIN CRYSTALLIZATION BY SURFACE ENTROPY REDUCTION: JRNL TITL 2 OPTIMIZATION OF THE SER STRATEGY JRNL REF ACTA CRYSTALLOGR.,SECT.D V. 63 636 2007 JRNL REFN ISSN 0907-4449 JRNL PMID 17452789 JRNL DOI 10.1107/S0907444907010931 REMARK 2 REMARK 2 RESOLUTION. 2.20 ANGSTROMS. REMARK 3 REMARK 3 REFINEMENT. REMARK 3 PROGRAM : REFMAC 5.2.0005 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) : 2.20 REMARK 3 RESOLUTION RANGE LOW (ANGSTROMS) : 92.85 REMARK 3 DATA CUTOFF (SIGMA(F)) : NULL REMARK 3 COMPLETENESS FOR RANGE (%) : 99.5 REMARK 3 NUMBER OF REFLECTIONS : 26349 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) : 0.186 REMARK 3 FREE R VALUE : 0.228 REMARK 3 FREE R VALUE TEST SET SIZE (%) : 3.800 REMARK 3 FREE R VALUE TEST SET COUNT : 1040 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) : 2.20 REMARK 3 BIN RESOLUTION RANGE LOW (A) : 2.25 REMARK 3 REFLECTION IN BIN (WORKING SET) : 1861 REMARK 3 BIN COMPLETENESS (WORKING+TEST) (%) : NULL REMARK 3 BIN R VALUE (WORKING SET) : 0.2040 REMARK 3 BIN FREE R VALUE SET COUNT : 74 REMARK 3 BIN FREE R VALUE : 0.2820 REMARK 3 REMARK 3 NUMBER OF NON-HYDROGEN ATOMS USED IN REFINEMENT. REMARK 3 PROTEIN ATOMS : 2208 REMARK 3 NUCLEIC ACID ATOMS : 0 REMARK 3 HETEROGEN ATOMS : 0 REMARK 3 SOLVENT ATOMS : 294 REMARK 3 REMARK 3 B VALUES. REMARK 3 FROM WILSON PLOT (A**2) : NULL REMARK 3 MEAN B VALUE (OVERALL, A**2) : 24.45 REMARK 3 OVERALL ANISOTROPIC B VALUE. REMARK 3 B11 (A**2) : 0.09000 REMARK 3 B22 (A**2) : 0.09000 REMARK 3 B33 (A**2) : -0.13000 REMARK 3 B12 (A**2) : 0.04000 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): 0.162 REMARK 3 ESU BASED ON FREE R VALUE (A): 0.156 REMARK 3 ESU BASED ON MAXIMUM LIKELIHOOD (A): 0.111 REMARK 3 ESU FOR B VALUES BASED ON MAXIMUM LIKELIHOOD (A**2): 7.876 REMARK 3 REMARK 3 CORRELATION COEFFICIENTS. REMARK 3 CORRELATION COEFFICIENT FO-FC : 0.950 REMARK 3 CORRELATION COEFFICIENT FO-FC FREE : 0.922 REMARK 3 REMARK 3 RMS DEVIATIONS FROM IDEAL VALUES COUNT RMS WEIGHT REMARK 3 BOND LENGTHS REFINED ATOMS (A): 2258 ; 0.013 ; 0.022 REMARK 3 BOND LENGTHS OTHERS (A): 2058 ; 0.001 ; 0.020 REMARK 3 BOND ANGLES REFINED ATOMS (DEGREES): 3048 ; 3.175 ; 1.967 REMARK 3 BOND ANGLES OTHERS (DEGREES): 4806 ; 1.659 ; 3.000 REMARK 3 TORSION ANGLES, PERIOD 1 (DEGREES): 274 ; 6.913 ; 5.000 REMARK 3 TORSION ANGLES, PERIOD 2 (DEGREES): 94 ;28.152 ;23.404 REMARK 3 TORSION ANGLES, PERIOD 3 (DEGREES): 414 ;15.899 ;15.000 REMARK 3 TORSION ANGLES, PERIOD 4 (DEGREES): 14 ;23.135 ;15.000 REMARK 3 CHIRAL-CENTER RESTRAINTS (A**3): 334 ; 0.130 ; 0.200 REMARK 3 GENERAL PLANES REFINED ATOMS (A): 2450 ; 0.005 ; 0.020 REMARK 3 GENERAL PLANES OTHERS (A): 462 ; 0.001 ; 0.020 REMARK 3 NON-BONDED CONTACTS REFINED ATOMS (A): 302 ; 0.185 ; 0.200 REMARK 3 NON-BONDED CONTACTS OTHERS (A): 1971 ; 0.168 ; 0.200 REMARK 3 NON-BONDED TORSION REFINED ATOMS (A): 998 ; 0.172 ; 0.200 REMARK 3 NON-BONDED TORSION OTHERS (A): 1474 ; 0.089 ; 0.200 REMARK 3 H-BOND (X...Y) REFINED ATOMS (A): 203 ; 0.146 ; 0.200 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): 6 ; 0.078 ; 0.200 REMARK 3 SYMMETRY VDW OTHERS (A): 48 ; 0.205 ; 0.200 REMARK 3 SYMMETRY H-BOND REFINED ATOMS (A): 6 ; 0.104 ; 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): 1749 ; 0.941 ; 1.500 REMARK 3 MAIN-CHAIN BOND OTHER ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 MAIN-CHAIN ANGLE REFINED ATOMS (A**2): 2224 ; 1.202 ; 2.000 REMARK 3 MAIN-CHAIN ANGLE OTHER ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 SIDE-CHAIN BOND REFINED ATOMS (A**2): 1073 ; 2.206 ; 3.000 REMARK 3 SIDE-CHAIN BOND OTHER ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 SIDE-CHAIN ANGLE REFINED ATOMS (A**2): 824 ; 3.211 ; 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 : 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 2JHZ COMPLIES WITH FORMAT V. 3.30, 13-JUL-11 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY PDBE ON 23-FEB-07. REMARK 100 THE DEPOSITION ID IS D_1290031607. REMARK 200 REMARK 200 EXPERIMENTAL DETAILS REMARK 200 EXPERIMENT TYPE : X-RAY DIFFRACTION REMARK 200 DATE OF DATA COLLECTION : 07-DEC-05 REMARK 200 TEMPERATURE (KELVIN) : 100.0 REMARK 200 PH : 7.50 REMARK 200 NUMBER OF CRYSTALS USED : 1 REMARK 200 REMARK 200 SYNCHROTRON (Y/N) : N REMARK 200 RADIATION SOURCE : ROTATING ANODE REMARK 200 BEAMLINE : NULL REMARK 200 X-RAY GENERATOR MODEL : RIGAKU MICROMAX-007 REMARK 200 MONOCHROMATIC OR LAUE (M/L) : M REMARK 200 WAVELENGTH OR RANGE (A) : 1.5418 REMARK 200 MONOCHROMATOR : NULL REMARK 200 OPTICS : MIRRORS REMARK 200 REMARK 200 DETECTOR TYPE : CCD REMARK 200 DETECTOR MANUFACTURER : MARRESEARCH REMARK 200 INTENSITY-INTEGRATION SOFTWARE : HKL-2000 REMARK 200 DATA SCALING SOFTWARE : HKL-2000 REMARK 200 REMARK 200 NUMBER OF UNIQUE REFLECTIONS : 27390 REMARK 200 RESOLUTION RANGE HIGH (A) : 2.200 REMARK 200 RESOLUTION RANGE LOW (A) : 40.000 REMARK 200 REJECTION CRITERIA (SIGMA(I)) : NULL REMARK 200 REMARK 200 OVERALL. REMARK 200 COMPLETENESS FOR RANGE (%) : 99.6 REMARK 200 DATA REDUNDANCY : 7.800 REMARK 200 R MERGE (I) : 0.09000 REMARK 200 R SYM (I) : NULL REMARK 200 FOR THE DATA SET : 31.4000 REMARK 200 REMARK 200 IN THE HIGHEST RESOLUTION SHELL. REMARK 200 HIGHEST RESOLUTION SHELL, RANGE HIGH (A) : 2.20 REMARK 200 HIGHEST RESOLUTION SHELL, RANGE LOW (A) : 2.28 REMARK 200 COMPLETENESS FOR SHELL (%) : 97.3 REMARK 200 DATA REDUNDANCY IN SHELL : 4.50 REMARK 200 R MERGE FOR SHELL (I) : 0.20000 REMARK 200 R SYM FOR SHELL (I) : NULL REMARK 200 FOR SHELL : 6.300 REMARK 200 REMARK 200 DIFFRACTION PROTOCOL: SINGLE WAVELENGTH REMARK 200 METHOD USED TO DETERMINE THE STRUCTURE: MOLECULAR REPLACEMENT REMARK 200 SOFTWARE USED: AMORE REMARK 200 STARTING MODEL: PDB ENTRY 2BXW REMARK 200 REMARK 200 REMARK: NULL REMARK 280 REMARK 280 CRYSTAL REMARK 280 SOLVENT CONTENT, VS (%): 72.50 REMARK 280 MATTHEWS COEFFICIENT, VM (ANGSTROMS**3/DA): 4.47 REMARK 280 REMARK 280 CRYSTALLIZATION CONDITIONS: 1.4 M SODIUM CITRATE 0.1 M HEPES PH REMARK 280 7.5, PH 7.50 REMARK 290 REMARK 290 CRYSTALLOGRAPHIC SYMMETRY REMARK 290 SYMMETRY OPERATORS FOR SPACE GROUP: H 3 2 REMARK 290 REMARK 290 SYMOP SYMMETRY REMARK 290 NNNMMM OPERATOR REMARK 290 1555 X,Y,Z REMARK 290 2555 -Y,X-Y,Z REMARK 290 3555 -X+Y,-X,Z REMARK 290 4555 Y,X,-Z REMARK 290 5555 X-Y,-Y,-Z REMARK 290 6555 -X,-X+Y,-Z REMARK 290 7555 X+2/3,Y+1/3,Z+1/3 REMARK 290 8555 -Y+2/3,X-Y+1/3,Z+1/3 REMARK 290 9555 -X+Y+2/3,-X+1/3,Z+1/3 REMARK 290 10555 Y+2/3,X+1/3,-Z+1/3 REMARK 290 11555 X-Y+2/3,-Y+1/3,-Z+1/3 REMARK 290 12555 -X+2/3,-X+Y+1/3,-Z+1/3 REMARK 290 13555 X+1/3,Y+2/3,Z+2/3 REMARK 290 14555 -Y+1/3,X-Y+2/3,Z+2/3 REMARK 290 15555 -X+Y+1/3,-X+2/3,Z+2/3 REMARK 290 16555 Y+1/3,X+2/3,-Z+2/3 REMARK 290 17555 X-Y+1/3,-Y+2/3,-Z+2/3 REMARK 290 18555 -X+1/3,-X+Y+2/3,-Z+2/3 REMARK 290 REMARK 290 WHERE NNN -> OPERATOR NUMBER REMARK 290 MMM -> TRANSLATION VECTOR REMARK 290 REMARK 290 CRYSTALLOGRAPHIC SYMMETRY TRANSFORMATIONS REMARK 290 THE FOLLOWING TRANSFORMATIONS OPERATE ON THE ATOM/HETATM REMARK 290 RECORDS IN THIS ENTRY TO PRODUCE CRYSTALLOGRAPHICALLY REMARK 290 RELATED MOLECULES. REMARK 290 SMTRY1 1 1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY2 1 0.000000 1.000000 0.000000 0.00000 REMARK 290 SMTRY3 1 0.000000 0.000000 1.000000 0.00000 REMARK 290 SMTRY1 2 -0.500000 -0.866025 0.000000 0.00000 REMARK 290 SMTRY2 2 0.866025 -0.500000 0.000000 0.00000 REMARK 290 SMTRY3 2 0.000000 0.000000 1.000000 0.00000 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 0.00000 REMARK 290 SMTRY1 4 -0.500000 0.866025 0.000000 0.00000 REMARK 290 SMTRY2 4 0.866025 0.500000 0.000000 0.00000 REMARK 290 SMTRY3 4 0.000000 0.000000 -1.000000 0.00000 REMARK 290 SMTRY1 5 1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY2 5 0.000000 -1.000000 0.000000 0.00000 REMARK 290 SMTRY3 5 0.000000 0.000000 -1.000000 0.00000 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 0.00000 REMARK 290 SMTRY1 7 1.000000 0.000000 0.000000 65.31450 REMARK 290 SMTRY2 7 0.000000 1.000000 0.000000 37.70934 REMARK 290 SMTRY3 7 0.000000 0.000000 1.000000 54.46967 REMARK 290 SMTRY1 8 -0.500000 -0.866025 0.000000 65.31450 REMARK 290 SMTRY2 8 0.866025 -0.500000 0.000000 37.70934 REMARK 290 SMTRY3 8 0.000000 0.000000 1.000000 54.46967 REMARK 290 SMTRY1 9 -0.500000 0.866025 0.000000 65.31450 REMARK 290 SMTRY2 9 -0.866025 -0.500000 0.000000 37.70934 REMARK 290 SMTRY3 9 0.000000 0.000000 1.000000 54.46967 REMARK 290 SMTRY1 10 -0.500000 0.866025 0.000000 65.31450 REMARK 290 SMTRY2 10 0.866025 0.500000 0.000000 37.70934 REMARK 290 SMTRY3 10 0.000000 0.000000 -1.000000 54.46967 REMARK 290 SMTRY1 11 1.000000 0.000000 0.000000 65.31450 REMARK 290 SMTRY2 11 0.000000 -1.000000 0.000000 37.70934 REMARK 290 SMTRY3 11 0.000000 0.000000 -1.000000 54.46967 REMARK 290 SMTRY1 12 -0.500000 -0.866025 0.000000 65.31450 REMARK 290 SMTRY2 12 -0.866025 0.500000 0.000000 37.70934 REMARK 290 SMTRY3 12 0.000000 0.000000 -1.000000 54.46967 REMARK 290 SMTRY1 13 1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY2 13 0.000000 1.000000 0.000000 75.41869 REMARK 290 SMTRY3 13 0.000000 0.000000 1.000000 108.93933 REMARK 290 SMTRY1 14 -0.500000 -0.866025 0.000000 0.00000 REMARK 290 SMTRY2 14 0.866025 -0.500000 0.000000 75.41869 REMARK 290 SMTRY3 14 0.000000 0.000000 1.000000 108.93933 REMARK 290 SMTRY1 15 -0.500000 0.866025 0.000000 0.00000 REMARK 290 SMTRY2 15 -0.866025 -0.500000 0.000000 75.41869 REMARK 290 SMTRY3 15 0.000000 0.000000 1.000000 108.93933 REMARK 290 SMTRY1 16 -0.500000 0.866025 0.000000 0.00000 REMARK 290 SMTRY2 16 0.866025 0.500000 0.000000 75.41869 REMARK 290 SMTRY3 16 0.000000 0.000000 -1.000000 108.93933 REMARK 290 SMTRY1 17 1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY2 17 0.000000 -1.000000 0.000000 75.41869 REMARK 290 SMTRY3 17 0.000000 0.000000 -1.000000 108.93933 REMARK 290 SMTRY1 18 -0.500000 -0.866025 0.000000 0.00000 REMARK 290 SMTRY2 18 -0.866025 0.500000 0.000000 75.41869 REMARK 290 SMTRY3 18 0.000000 0.000000 -1.000000 108.93933 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 SOFTWARE DETERMINED QUATERNARY STRUCTURE: MONOMERIC REMARK 350 SOFTWARE USED: PQS 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 AUTHOR DETERMINED BIOLOGICAL UNIT: MONOMERIC REMARK 350 SOFTWARE DETERMINED QUATERNARY STRUCTURE: MONOMERIC REMARK 350 SOFTWARE USED: PQS REMARK 350 APPLY THE FOLLOWING TO CHAINS: 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 400 REMARK 400 COMPOUND REMARK 400 ENGINEERED RESIDUE IN CHAIN A, GLU 154 TO SER REMARK 400 ENGINEERED RESIDUE IN CHAIN A, GLU 156 TO SER REMARK 400 ENGINEERED RESIDUE IN CHAIN B, GLU 154 TO SER REMARK 400 ENGINEERED RESIDUE IN CHAIN B, GLU 156 TO SER 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 111 CB - CG - CD ANGL. DEV. = 15.7 DEGREES REMARK 500 ARG A 111 CD - NE - CZ ANGL. DEV. = 14.3 DEGREES REMARK 500 ARG A 111 NE - CZ - NH1 ANGL. DEV. = 13.2 DEGREES REMARK 500 ARG A 111 NE - CZ - NH2 ANGL. DEV. = -15.9 DEGREES REMARK 500 ASP A 140 CB - CG - OD2 ANGL. DEV. = 6.7 DEGREES REMARK 500 ASP A 143 CB - CG - OD2 ANGL. DEV. = 6.0 DEGREES REMARK 500 LEU A 170 CA - CB - CG ANGL. DEV. = 15.4 DEGREES REMARK 500 ARG A 172 NE - CZ - NH1 ANGL. DEV. = 4.1 DEGREES REMARK 500 ARG A 180 NE - CZ - NH1 ANGL. DEV. = 6.3 DEGREES REMARK 500 ARG A 180 NE - CZ - NH2 ANGL. DEV. = -8.6 DEGREES REMARK 500 ASP A 184 CB - CA - C ANGL. DEV. = 12.8 DEGREES REMARK 500 VAL B 67 CA - C - N ANGL. DEV. = 23.2 DEGREES REMARK 500 VAL B 67 O - C - N ANGL. DEV. = -16.6 DEGREES REMARK 500 PRO B 68 C - N - CA ANGL. DEV. = 52.9 DEGREES REMARK 500 PRO B 68 C - N - CD ANGL. DEV. = -37.4 DEGREES REMARK 500 PRO B 68 CA - N - CD ANGL. DEV. = -14.8 DEGREES REMARK 500 PRO B 68 N - CA - CB ANGL. DEV. = 10.8 DEGREES REMARK 500 PRO B 68 N - CA - C ANGL. DEV. = -24.5 DEGREES REMARK 500 ARG B 111 CD - NE - CZ ANGL. DEV. = 12.6 DEGREES REMARK 500 ARG B 111 NE - CZ - NH1 ANGL. DEV. = 11.4 DEGREES REMARK 500 ARG B 111 NE - CZ - NH2 ANGL. DEV. = -14.1 DEGREES REMARK 500 ARG B 117 NE - CZ - NH1 ANGL. DEV. = 3.6 DEGREES REMARK 500 ARG B 117 NE - CZ - NH2 ANGL. DEV. = -3.6 DEGREES REMARK 500 ARG B 134 NE - CZ - NH1 ANGL. DEV. = 5.8 DEGREES REMARK 500 ARG B 134 NE - CZ - NH2 ANGL. DEV. = -5.7 DEGREES REMARK 500 GLU B 164 OE1 - CD - OE2 ANGL. DEV. = 8.2 DEGREES REMARK 500 LYS B 167 CD - CE - NZ ANGL. DEV. = 15.9 DEGREES REMARK 500 ARG B 172 NE - CZ - NH1 ANGL. DEV. = 5.0 DEGREES REMARK 500 ARG B 172 NE - CZ - NH2 ANGL. DEV. = -5.1 DEGREES REMARK 500 ARG B 180 NE - CZ - NH2 ANGL. DEV. = 3.4 DEGREES REMARK 500 ASP B 184 CB - CG - OD1 ANGL. DEV. = 6.7 DEGREES REMARK 500 ASP B 184 CB - CG - OD2 ANGL. DEV. = -9.2 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 ARG A 120 -41.46 -138.19 REMARK 500 PRO B 68 121.87 125.78 REMARK 500 ARG B 120 -37.09 -133.64 REMARK 500 REMARK 500 REMARK: NULL REMARK 700 REMARK 700 SHEET REMARK 700 THE SHEET STRUCTURE OF THIS MOLECULE IS BIFURCATED. IN REMARK 700 ORDER TO REPRESENT THIS FEATURE IN THE SHEET RECORDS BELOW, REMARK 700 TWO SHEETS ARE DEFINED. REMARK 900 REMARK 900 RELATED ENTRIES REMARK 900 RELATED ID: 1CC0 RELATED DB: PDB REMARK 900 CRYSTAL STRUCTURE OF THE RHOA.GDP-RHOGDI COMPLEX REMARK 900 RELATED ID: 1FSO RELATED DB: PDB REMARK 900 CRYSTAL STRUCTURE OF TRUNCATED HUMAN RHOGDI QUADRUPLE MUTANT REMARK 900 RELATED ID: 1FST RELATED DB: PDB REMARK 900 CRYSTAL STRUCTURE OF TRUNCATED HUMAN RHOGDI TRIPLE MUTANT REMARK 900 RELATED ID: 1FT0 RELATED DB: PDB REMARK 900 CRYSTAL STRUCTURE OF TRUNCATED HUMAN RHOGDI K113A MUTANT REMARK 900 RELATED ID: 1FT3 RELATED DB: PDB REMARK 900 CRYSTAL STRUCTURE OF TRUNCATED RHOGDI K141A MUTANT REMARK 900 RELATED ID: 1HH4 RELATED DB: PDB REMARK 900 RAC1-RHOGDI COMPLEX INVOLVED IN NADPH OXIDASE ACTIVATION REMARK 900 RELATED ID: 1KMT RELATED DB: PDB REMARK 900 CRYSTAL STRUCTURE OF RHOGDI GLU(154,155) ALA MUTANT REMARK 900 RELATED ID: 1QVY RELATED DB: PDB REMARK 900 CRYSTAL STRUCTURE OF RHOGDI K(199,200)R DOUBLE MUTANT REMARK 900 RELATED ID: 1RHO RELATED DB: PDB REMARK 900 STRUCTURE OF RHO GUANINE NUCLEOTIDE DISSOCIATION INHIBITOR REMARK 900 RELATED ID: 2BXW RELATED DB: PDB REMARK 900 CRYSTAL STRUCTURE OF RHOGDI LYS(135,138, 141)TYR MUTANT REMARK 900 RELATED ID: 2JHS RELATED DB: PDB REMARK 900 CRYSTAL STRUCTURE OF RHOGDI K135H,K138H, K141H MUTANT REMARK 900 RELATED ID: 2JHT RELATED DB: PDB REMARK 900 CRYSTAL STRUCTURE OF RHOGDI K135T,K138T, K141T MUTANT REMARK 900 RELATED ID: 2JHU RELATED DB: PDB REMARK 900 CRYSTAL STRUCTURE OF RHOGDI E154A,E155A MUTANT REMARK 900 RELATED ID: 2JHV RELATED DB: PDB REMARK 900 CRYSTAL STRUCTURE OF RHOGDI E154A,E155A MUTANT REMARK 900 RELATED ID: 2JHW RELATED DB: PDB REMARK 900 CRYSTAL STRUCTURE OF RHOGDI E155A, E157A MUTANT REMARK 900 RELATED ID: 2JHX RELATED DB: PDB REMARK 900 CRYSTAL STRUCTURE OF RHOGDI E155H, E157H MUTANT REMARK 900 RELATED ID: 2JHY RELATED DB: PDB REMARK 900 CRYSTAL STRUCTURE OF RHOGDI E155H, E157H MUTANT REMARK 900 RELATED ID: 2JI0 RELATED DB: PDB REMARK 900 CRYSTAL STRUCTURE OF RHOGDI K138Y, K141Y MUTANT REMARK 999 REMARK 999 SEQUENCE REMARK 999 MUTATIONS ENGINEERED TO FACILITATE CRYSTALLIZATION DBREF 2JHZ A 65 66 PDB 2JHZ 2JHZ 65 66 DBREF 2JHZ A 67 202 UNP P52565 GDIR_HUMAN 66 201 DBREF 2JHZ B 65 66 PDB 2JHZ 2JHZ 65 66 DBREF 2JHZ B 67 202 UNP P52565 GDIR_HUMAN 66 201 SEQADV 2JHZ SER A 155 UNP P52565 GLU 154 ENGINEERED MUTATION SEQADV 2JHZ SER A 157 UNP P52565 GLU 156 ENGINEERED MUTATION SEQADV 2JHZ SER B 155 UNP P52565 GLU 154 ENGINEERED MUTATION SEQADV 2JHZ SER B 157 UNP P52565 GLU 156 ENGINEERED MUTATION SEQRES 1 A 138 ALA MET VAL PRO ASN VAL VAL VAL THR GLY LEU THR LEU SEQRES 2 A 138 VAL CYS SER SER ALA PRO GLY PRO LEU GLU LEU ASP LEU SEQRES 3 A 138 THR GLY ASP LEU GLU SER PHE LYS LYS GLN SER PHE VAL SEQRES 4 A 138 LEU LYS GLU GLY VAL GLU TYR ARG ILE LYS ILE SER PHE SEQRES 5 A 138 ARG VAL ASN ARG GLU ILE VAL SER GLY MET LYS TYR ILE SEQRES 6 A 138 GLN HIS THR TYR ARG LYS GLY VAL LYS ILE ASP LYS THR SEQRES 7 A 138 ASP TYR MET VAL GLY SER TYR GLY PRO ARG ALA GLU SER SEQRES 8 A 138 TYR SER PHE LEU THR PRO VAL GLU GLU ALA PRO LYS GLY SEQRES 9 A 138 MET LEU ALA ARG GLY SER TYR SER ILE LYS SER ARG PHE SEQRES 10 A 138 THR ASP ASP ASP LYS THR ASP HIS LEU SER TRP GLU TRP SEQRES 11 A 138 ASN LEU THR ILE LYS LYS ASP TRP SEQRES 1 B 138 ALA MET VAL PRO ASN VAL VAL VAL THR GLY LEU THR LEU SEQRES 2 B 138 VAL CYS SER SER ALA PRO GLY PRO LEU GLU LEU ASP LEU SEQRES 3 B 138 THR GLY ASP LEU GLU SER PHE LYS LYS GLN SER PHE VAL SEQRES 4 B 138 LEU LYS GLU GLY VAL GLU TYR ARG ILE LYS ILE SER PHE SEQRES 5 B 138 ARG VAL ASN ARG GLU ILE VAL SER GLY MET LYS TYR ILE SEQRES 6 B 138 GLN HIS THR TYR ARG LYS GLY VAL LYS ILE ASP LYS THR SEQRES 7 B 138 ASP TYR MET VAL GLY SER TYR GLY PRO ARG ALA GLU SER SEQRES 8 B 138 TYR SER PHE LEU THR PRO VAL GLU GLU ALA PRO LYS GLY SEQRES 9 B 138 MET LEU ALA ARG GLY SER TYR SER ILE LYS SER ARG PHE SEQRES 10 B 138 THR ASP ASP ASP LYS THR ASP HIS LEU SER TRP GLU TRP SEQRES 11 B 138 ASN LEU THR ILE LYS LYS ASP TRP FORMUL 3 HOH *294(H2 O) HELIX 1 1 ASP A 93 GLN A 100 5 8 HELIX 2 2 GLY A 168 ARG A 172 5 5 HELIX 3 3 ASP B 93 GLN B 100 5 8 SHEET 1 AA 4 GLU A 87 ASP A 89 0 SHEET 2 AA 4 VAL A 70 VAL A 78 -1 O LEU A 75 N LEU A 88 SHEET 3 AA 4 GLU A 109 VAL A 118 -1 O ARG A 111 N VAL A 78 SHEET 4 AA 4 GLU A 163 GLU A 164 -1 O GLU A 163 N TYR A 110 SHEET 1 AB 4 GLU A 87 ASP A 89 0 SHEET 2 AB 4 VAL A 70 VAL A 78 -1 O LEU A 75 N LEU A 88 SHEET 3 AB 4 GLU A 109 VAL A 118 -1 O ARG A 111 N VAL A 78 SHEET 4 AB 4 TYR A 156 LEU A 159 -1 O TYR A 156 N PHE A 116 SHEET 1 AC 5 PHE A 102 LYS A 105 0 SHEET 2 AC 5 LEU A 190 LYS A 199 1 O ASN A 195 N PHE A 102 SHEET 3 AC 5 GLY A 173 THR A 182 -1 O GLY A 173 N ILE A 198 SHEET 4 AC 5 VAL A 123 ARG A 134 -1 O LYS A 127 N THR A 182 SHEET 5 AC 5 VAL A 137 TYR A 149 -1 O VAL A 137 N ARG A 134 SHEET 1 BA 4 GLU B 87 ASP B 89 0 SHEET 2 BA 4 VAL B 70 VAL B 78 -1 O LEU B 75 N LEU B 88 SHEET 3 BA 4 GLU B 109 VAL B 118 -1 O ARG B 111 N VAL B 78 SHEET 4 BA 4 GLU B 163 GLU B 164 -1 O GLU B 163 N TYR B 110 SHEET 1 BB 4 GLU B 87 ASP B 89 0 SHEET 2 BB 4 VAL B 70 VAL B 78 -1 O LEU B 75 N LEU B 88 SHEET 3 BB 4 GLU B 109 VAL B 118 -1 O ARG B 111 N VAL B 78 SHEET 4 BB 4 TYR B 156 LEU B 159 -1 O TYR B 156 N PHE B 116 SHEET 1 BC 5 PHE B 102 LYS B 105 0 SHEET 2 BC 5 LEU B 190 LYS B 199 1 O ASN B 195 N PHE B 102 SHEET 3 BC 5 GLY B 173 THR B 182 -1 O GLY B 173 N ILE B 198 SHEET 4 BC 5 VAL B 123 ARG B 134 -1 O LYS B 127 N THR B 182 SHEET 5 BC 5 VAL B 137 TYR B 149 -1 O VAL B 137 N ARG B 134 CISPEP 1 ALA A 65 MET A 66 0 -29.21 CISPEP 2 VAL B 67 PRO B 68 0 -13.56 CRYST1 130.629 130.629 163.409 90.00 90.00 120.00 H 3 2 36 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 0.007655 0.004420 0.000000 0.00000 SCALE2 0.000000 0.008840 0.000000 0.00000 SCALE3 0.000000 0.000000 0.006120 0.00000