HEADER SIGNALING PROTEIN/RHOA-BINDING PROTEIN 25-FEB-10 3LXR TITLE SHIGELLA IPGB2 IN COMPLEX WITH HUMAN RHOA AND GDP (COMPLEX C) COMPND MOL_ID: 1; COMPND 2 MOLECULE: TRANSFORMING PROTEIN RHOA; COMPND 3 CHAIN: A; COMPND 4 FRAGMENT: RESIDUES 2-181; COMPND 5 SYNONYM: H12; COMPND 6 ENGINEERED: YES; COMPND 7 MOL_ID: 2; COMPND 8 MOLECULE: IPGB2; COMPND 9 CHAIN: F; COMPND 10 SYNONYM: IPGB2, PROBABLY SECRETED BY THE MXI-SPA SECRETION MACHINERY; 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: RHOA; SOURCE 6 EXPRESSION_SYSTEM: ESCHERICHIA COLI; SOURCE 7 EXPRESSION_SYSTEM_TAXID: 562; SOURCE 8 EXPRESSION_SYSTEM_STRAIN: TUNER (DE3); SOURCE 9 EXPRESSION_SYSTEM_VECTOR_TYPE: PLASMID; SOURCE 10 EXPRESSION_SYSTEM_PLASMID: PET-28C; SOURCE 11 MOL_ID: 2; SOURCE 12 ORGANISM_SCIENTIFIC: SHIGELLA FLEXNERI; SOURCE 13 ORGANISM_TAXID: 623; SOURCE 14 GENE: IPGB2; SOURCE 15 EXPRESSION_SYSTEM: ESCHERICHIA COLI; SOURCE 16 EXPRESSION_SYSTEM_TAXID: 562; SOURCE 17 EXPRESSION_SYSTEM_STRAIN: TUNER (DE3); SOURCE 18 EXPRESSION_SYSTEM_VECTOR_TYPE: PLASMID; SOURCE 19 EXPRESSION_SYSTEM_PLASMID: PET-M 41 KEYWDS IPGB2, RHOA, GTPASE, GEF, GEF-GTPASE-COMPLEX, WXXXE, TTSS EFFECTOR KEYWDS 2 PROTEIN, BACTERIAL GEF, CYTOSKELETON DYNAMICS, SIGNALING PROTEIN- KEYWDS 3 RHOA-BINDING PROTEIN COMPLEX EXPDTA X-RAY DIFFRACTION AUTHOR B.U.KLINK,S.BARDEN,T.V.HEIDLER,C.BORCHERS,M.LADWEIN,T.E.B.STRADAL, AUTHOR 2 K.ROTTNER,D.W.HEINZ REVDAT 4 01-NOV-23 3LXR 1 REMARK SEQADV REVDAT 3 13-JUL-11 3LXR 1 VERSN REVDAT 2 02-JUN-10 3LXR 1 JRNL REVDAT 1 31-MAR-10 3LXR 0 JRNL AUTH B.U.KLINK,S.BARDEN,T.V.HEIDLER,C.BORCHERS,M.LADWEIN, JRNL AUTH 2 T.E.B.STRADAL,K.ROTTNER,D.W.HEINZ JRNL TITL STRUCTURE OF SHIGELLA IPGB2 IN COMPLEX WITH HUMAN RHOA: JRNL TITL 2 IMPLICATIONS FOR THE MECHANISM OF BACTERIAL GEF-MIMICRY JRNL REF J.BIOL.CHEM. V. 285 17197 2010 JRNL REFN ISSN 0021-9258 JRNL PMID 20363740 JRNL DOI 10.1074/JBC.M110.107953 REMARK 2 REMARK 2 RESOLUTION. 1.68 ANGSTROMS. REMARK 3 REMARK 3 REFINEMENT. REMARK 3 PROGRAM : REFMAC 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) : 1.68 REMARK 3 RESOLUTION RANGE LOW (ANGSTROMS) : 42.53 REMARK 3 DATA CUTOFF (SIGMA(F)) : NULL REMARK 3 COMPLETENESS FOR RANGE (%) : 98.6 REMARK 3 NUMBER OF REFLECTIONS : 45585 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) : 0.172 REMARK 3 R VALUE (WORKING SET) : 0.170 REMARK 3 FREE R VALUE : 0.219 REMARK 3 FREE R VALUE TEST SET SIZE (%) : 5.000 REMARK 3 FREE R VALUE TEST SET COUNT : 2280 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) : 1.68 REMARK 3 BIN RESOLUTION RANGE LOW (A) : 1.72 REMARK 3 REFLECTION IN BIN (WORKING SET) : 3084 REMARK 3 BIN COMPLETENESS (WORKING+TEST) (%) : 96.87 REMARK 3 BIN R VALUE (WORKING SET) : 0.2460 REMARK 3 BIN FREE R VALUE SET COUNT : 163 REMARK 3 BIN FREE R VALUE : 0.2990 REMARK 3 REMARK 3 NUMBER OF NON-HYDROGEN ATOMS USED IN REFINEMENT. REMARK 3 PROTEIN ATOMS : 2880 REMARK 3 NUCLEIC ACID ATOMS : 0 REMARK 3 HETEROGEN ATOMS : 43 REMARK 3 SOLVENT ATOMS : 484 REMARK 3 REMARK 3 B VALUES. REMARK 3 B VALUE TYPE : LIKELY RESIDUAL REMARK 3 FROM WILSON PLOT (A**2) : 22.50 REMARK 3 MEAN B VALUE (OVERALL, A**2) : 17.28 REMARK 3 OVERALL ANISOTROPIC B VALUE. REMARK 3 B11 (A**2) : -0.38000 REMARK 3 B22 (A**2) : 0.34000 REMARK 3 B33 (A**2) : 0.04000 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): 0.101 REMARK 3 ESU BASED ON FREE R VALUE (A): 0.107 REMARK 3 ESU BASED ON MAXIMUM LIKELIHOOD (A): 0.070 REMARK 3 ESU FOR B VALUES BASED ON MAXIMUM LIKELIHOOD (A**2): 4.495 REMARK 3 REMARK 3 CORRELATION COEFFICIENTS. REMARK 3 CORRELATION COEFFICIENT FO-FC : 0.967 REMARK 3 CORRELATION COEFFICIENT FO-FC FREE : 0.943 REMARK 3 REMARK 3 RMS DEVIATIONS FROM IDEAL VALUES COUNT RMS WEIGHT REMARK 3 BOND LENGTHS REFINED ATOMS (A): 3072 ; 0.023 ; 0.022 REMARK 3 BOND LENGTHS OTHERS (A): NULL ; NULL ; NULL REMARK 3 BOND ANGLES REFINED ATOMS (DEGREES): 4162 ; 1.975 ; 1.978 REMARK 3 BOND ANGLES OTHERS (DEGREES): NULL ; NULL ; NULL REMARK 3 TORSION ANGLES, PERIOD 1 (DEGREES): 385 ; 5.169 ; 5.000 REMARK 3 TORSION ANGLES, PERIOD 2 (DEGREES): 148 ;34.901 ;24.662 REMARK 3 TORSION ANGLES, PERIOD 3 (DEGREES): 585 ;14.138 ;15.000 REMARK 3 TORSION ANGLES, PERIOD 4 (DEGREES): 22 ;19.823 ;15.000 REMARK 3 CHIRAL-CENTER RESTRAINTS (A**3): 455 ; 0.143 ; 0.200 REMARK 3 GENERAL PLANES REFINED ATOMS (A): 2303 ; 0.010 ; 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): 1849 ; 1.310 ; 1.500 REMARK 3 MAIN-CHAIN BOND OTHER ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 MAIN-CHAIN ANGLE REFINED ATOMS (A**2): 3018 ; 2.262 ; 2.000 REMARK 3 MAIN-CHAIN ANGLE OTHER ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 SIDE-CHAIN BOND REFINED ATOMS (A**2): 1223 ; 3.564 ; 3.000 REMARK 3 SIDE-CHAIN BOND OTHER ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 SIDE-CHAIN ANGLE REFINED ATOMS (A**2): 1135 ; 5.683 ; 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 181 REMARK 3 ORIGIN FOR THE GROUP (A): 20.5810 11.3220 7.8650 REMARK 3 T TENSOR REMARK 3 T11: 0.0712 T22: 0.0808 REMARK 3 T33: 0.0796 T12: 0.0073 REMARK 3 T13: -0.0179 T23: 0.0146 REMARK 3 L TENSOR REMARK 3 L11: 0.2666 L22: 0.5795 REMARK 3 L33: 0.3731 L12: -0.1407 REMARK 3 L13: 0.1645 L23: 0.1290 REMARK 3 S TENSOR REMARK 3 S11: -0.0109 S12: -0.0082 S13: -0.0176 REMARK 3 S21: -0.0669 S22: -0.0003 S23: 0.0742 REMARK 3 S31: -0.0147 S32: -0.0110 S33: 0.0112 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 : F 8 F 188 REMARK 3 ORIGIN FOR THE GROUP (A): 34.5280 23.7080 25.3040 REMARK 3 T TENSOR REMARK 3 T11: 0.0712 T22: 0.0981 REMARK 3 T33: 0.0785 T12: 0.0172 REMARK 3 T13: -0.0036 T23: -0.0101 REMARK 3 L TENSOR REMARK 3 L11: 0.2485 L22: 0.5840 REMARK 3 L33: 0.3163 L12: -0.0394 REMARK 3 L13: 0.0530 L23: 0.3981 REMARK 3 S TENSOR REMARK 3 S11: -0.0401 S12: -0.0830 S13: 0.0630 REMARK 3 S21: 0.0214 S22: 0.0606 S23: -0.0263 REMARK 3 S31: 0.0286 S32: 0.0272 S33: -0.0205 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 U VALUES : RESIDUAL ONLY REMARK 4 REMARK 4 3LXR COMPLIES WITH FORMAT V. 3.30, 13-JUL-11 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY PDBJ ON 08-MAR-10. REMARK 100 THE DEPOSITION ID IS D_1000057862. REMARK 200 REMARK 200 EXPERIMENTAL DETAILS REMARK 200 EXPERIMENT TYPE : X-RAY DIFFRACTION REMARK 200 DATE OF DATA COLLECTION : 25-NOV-09 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 : ESRF REMARK 200 BEAMLINE : ID23-1 REMARK 200 X-RAY GENERATOR MODEL : NULL REMARK 200 MONOCHROMATIC OR LAUE (M/L) : M REMARK 200 WAVELENGTH OR RANGE (A) : 0.972 REMARK 200 MONOCHROMATOR : NULL REMARK 200 OPTICS : NULL REMARK 200 REMARK 200 DETECTOR TYPE : CCD REMARK 200 DETECTOR MANUFACTURER : MARRESEARCH REMARK 200 INTENSITY-INTEGRATION SOFTWARE : XDS REMARK 200 DATA SCALING SOFTWARE : XSCALE REMARK 200 REMARK 200 NUMBER OF UNIQUE REFLECTIONS : 45588 REMARK 200 RESOLUTION RANGE HIGH (A) : 1.680 REMARK 200 RESOLUTION RANGE LOW (A) : 42.530 REMARK 200 REJECTION CRITERIA (SIGMA(I)) : -3.000 REMARK 200 REMARK 200 OVERALL. REMARK 200 COMPLETENESS FOR RANGE (%) : 98.6 REMARK 200 DATA REDUNDANCY : 4.700 REMARK 200 R MERGE (I) : 0.04100 REMARK 200 R SYM (I) : NULL REMARK 200 FOR THE DATA SET : 23.7600 REMARK 200 REMARK 200 IN THE HIGHEST RESOLUTION SHELL. REMARK 200 HIGHEST RESOLUTION SHELL, RANGE HIGH (A) : 1.68 REMARK 200 HIGHEST RESOLUTION SHELL, RANGE LOW (A) : 1.72 REMARK 200 COMPLETENESS FOR SHELL (%) : 96.9 REMARK 200 DATA REDUNDANCY IN SHELL : 4.00 REMARK 200 R MERGE FOR SHELL (I) : 0.58800 REMARK 200 R SYM FOR SHELL (I) : NULL REMARK 200 FOR SHELL : 2.600 REMARK 200 REMARK 200 DIFFRACTION PROTOCOL: SINGLE WAVELENGTH REMARK 200 METHOD USED TO DETERMINE THE STRUCTURE: MOLECULAR REPLACEMENT REMARK 200 SOFTWARE USED: MOLREP REMARK 200 STARTING MODEL: PDB ENTRY 3LWN REMARK 200 REMARK 200 REMARK: NULL REMARK 280 REMARK 280 CRYSTAL REMARK 280 SOLVENT CONTENT, VS (%): 47.18 REMARK 280 MATTHEWS COEFFICIENT, VM (ANGSTROMS**3/DA): 2.33 REMARK 280 REMARK 280 CRYSTALLIZATION CONDITIONS: 20% (W/V) PEG 3350; POST REMARK 280 -CRYSTALLIZATION TREATMENT: EDTA, LISO4, PH 7.5, VAPOR DIFFUSION, REMARK 280 HANGING DROP, TEMPERATURE 277K REMARK 290 REMARK 290 CRYSTALLOGRAPHIC SYMMETRY REMARK 290 SYMMETRY OPERATORS FOR SPACE GROUP: P 21 21 2 REMARK 290 REMARK 290 SYMOP SYMMETRY REMARK 290 NNNMMM OPERATOR REMARK 290 1555 X,Y,Z REMARK 290 2555 -X,-Y,Z REMARK 290 3555 -X+1/2,Y+1/2,-Z REMARK 290 4555 X+1/2,-Y+1/2,-Z 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 0.00000 REMARK 290 SMTRY1 3 -1.000000 0.000000 0.000000 38.79000 REMARK 290 SMTRY2 3 0.000000 1.000000 0.000000 50.39500 REMARK 290 SMTRY3 3 0.000000 0.000000 -1.000000 0.00000 REMARK 290 SMTRY1 4 1.000000 0.000000 0.000000 38.79000 REMARK 290 SMTRY2 4 0.000000 -1.000000 0.000000 50.39500 REMARK 290 SMTRY3 4 0.000000 0.000000 -1.000000 0.00000 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: 2700 ANGSTROM**2 REMARK 350 SURFACE AREA OF THE COMPLEX: 17840 ANGSTROM**2 REMARK 350 CHANGE IN SOLVENT FREE ENERGY: -9.0 KCAL/MOL REMARK 350 APPLY THE FOLLOWING TO CHAINS: A, F 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 GLY A -3 REMARK 465 PRO A -2 REMARK 465 LEU A -1 REMARK 465 GLY A 0 REMARK 465 SER A 1 REMARK 465 GLY F -3 REMARK 465 ALA F -2 REMARK 465 MET F -1 REMARK 465 ASP F 0 REMARK 465 MET F 1 REMARK 465 LEU F 2 REMARK 465 GLY F 3 REMARK 465 THR F 4 REMARK 465 SER F 5 REMARK 465 PHE F 6 REMARK 465 ASN F 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 HOH A 199 O HOH F 420 1.89 REMARK 500 NH2 ARG F 95 O HOH F 266 1.93 REMARK 500 O HOH F 215 O HOH F 467 1.95 REMARK 500 CD1 TYR A 34 O HOH F 407 1.97 REMARK 500 OD1 ASP A 67 O HOH A 443 1.98 REMARK 500 O HOH A 421 O HOH F 420 1.99 REMARK 500 ND2 ASN F 64 O HOH F 410 2.10 REMARK 500 O HOH A 469 O HOH F 296 2.17 REMARK 500 OE2 GLU A 143 O HOH A 335 2.18 REMARK 500 O HOH F 199 O HOH F 438 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 OD1 ASP A 165 O GLU F 57 1554 2.17 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 122 NE - CZ - NH2 ANGL. DEV. = 3.7 DEGREES REMARK 500 ARG F 95 NE - CZ - NH2 ANGL. DEV. = -3.1 DEGREES REMARK 500 ASP F 158 CB - CG - OD2 ANGL. DEV. = -5.5 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 LYS A 98 -51.91 -127.24 REMARK 500 LYS A 164 -5.00 73.37 REMARK 500 LYS A 164 -8.01 73.37 REMARK 500 ALA F 115 -57.46 -145.83 REMARK 500 VAL F 165 -55.95 -122.59 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 RESIDUE GDP A 201 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC2 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE SO4 A 182 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC3 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE SO4 F 189 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC4 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE SO4 F 190 REMARK 900 REMARK 900 RELATED ENTRIES REMARK 900 RELATED ID: 3LW8 RELATED DB: PDB REMARK 900 IPGB2 IN COMPLEX WITH HUMAN RHOA (COMPLEX A) REMARK 900 RELATED ID: 3LWN RELATED DB: PDB REMARK 900 IPGB2 IN COMPLEX WITH HUMAN RHOA (COMPLEX B) REMARK 900 RELATED ID: 3LYQ RELATED DB: PDB REMARK 900 IPGB2, APO FORM DBREF 3LXR A 2 181 UNP P61586 RHOA_HUMAN 2 181 DBREF 3LXR F 1 188 UNP Q9AJW7 Q9AJW7_SHIFL 1 188 SEQADV 3LXR GLY A -3 UNP P61586 EXPRESSION TAG SEQADV 3LXR PRO A -2 UNP P61586 EXPRESSION TAG SEQADV 3LXR LEU A -1 UNP P61586 EXPRESSION TAG SEQADV 3LXR GLY A 0 UNP P61586 EXPRESSION TAG SEQADV 3LXR SER A 1 UNP P61586 EXPRESSION TAG SEQADV 3LXR GLY F -3 UNP Q9AJW7 EXPRESSION TAG SEQADV 3LXR ALA F -2 UNP Q9AJW7 EXPRESSION TAG SEQADV 3LXR MET F -1 UNP Q9AJW7 EXPRESSION TAG SEQADV 3LXR ASP F 0 UNP Q9AJW7 EXPRESSION TAG SEQRES 1 A 185 GLY PRO LEU GLY SER ALA ALA ILE ARG LYS LYS LEU VAL SEQRES 2 A 185 ILE VAL GLY ASP GLY ALA CYS GLY LYS THR CYS LEU LEU SEQRES 3 A 185 ILE VAL PHE SER LYS ASP GLN PHE PRO GLU VAL TYR VAL SEQRES 4 A 185 PRO THR VAL PHE GLU ASN TYR VAL ALA ASP ILE GLU VAL SEQRES 5 A 185 ASP GLY LYS GLN VAL GLU LEU ALA LEU TRP ASP THR ALA SEQRES 6 A 185 GLY GLN GLU ASP TYR ASP ARG LEU ARG PRO LEU SER TYR SEQRES 7 A 185 PRO ASP THR ASP VAL ILE LEU MET CYS PHE SER ILE ASP SEQRES 8 A 185 SER PRO ASP SER LEU GLU ASN ILE PRO GLU LYS TRP THR SEQRES 9 A 185 PRO GLU VAL LYS HIS PHE CYS PRO ASN VAL PRO ILE ILE SEQRES 10 A 185 LEU VAL GLY ASN LYS LYS ASP LEU ARG ASN ASP GLU HIS SEQRES 11 A 185 THR ARG ARG GLU LEU ALA LYS MET LYS GLN GLU PRO VAL SEQRES 12 A 185 LYS PRO GLU GLU GLY ARG ASP MET ALA ASN ARG ILE GLY SEQRES 13 A 185 ALA PHE GLY TYR MET GLU CYS SER ALA LYS THR LYS ASP SEQRES 14 A 185 GLY VAL ARG GLU VAL PHE GLU MET ALA THR ARG ALA ALA SEQRES 15 A 185 LEU GLN ALA SEQRES 1 F 192 GLY ALA MET ASP MET LEU GLY THR SER PHE ASN ASN PHE SEQRES 2 F 192 GLY ILE SER LEU SER HIS LYS ARG TYR PHE SER GLY LYS SEQRES 3 F 192 VAL ASP GLU ILE ILE ARG CYS THR MET GLY LYS ARG ILE SEQRES 4 F 192 VAL LYS ILE SER SER THR LYS ILE ASN THR SER ILE LEU SEQRES 5 F 192 SER SER VAL SER GLU GLN ILE GLY GLU ASN ILE THR ASP SEQRES 6 F 192 TRP LYS ASN ASP GLU LYS LYS VAL TYR VAL SER ARG VAL SEQRES 7 F 192 VAL ASN GLN CYS ILE ASP LYS PHE CYS ALA GLU HIS SER SEQRES 8 F 192 ARG LYS ILE GLY ASP ASN LEU ARG LYS GLN ILE PHE LYS SEQRES 9 F 192 GLN VAL GLU LYS ASP TYR ARG ILE SER LEU ASP ILE ASN SEQRES 10 F 192 ALA ALA GLN SER SER ILE ASN HIS LEU VAL SER GLY SER SEQRES 11 F 192 SER TYR PHE LYS LYS LYS MET ASP GLU LEU CYS GLU GLY SEQRES 12 F 192 MET ASN ARG SER VAL LYS ASN ASP THR THR SER ASN VAL SEQRES 13 F 192 ALA ASN LEU ILE SER ASP GLN PHE PHE GLU LYS ASN VAL SEQRES 14 F 192 GLN TYR ILE ASP LEU LYS LYS LEU ARG GLY ASN MET SER SEQRES 15 F 192 ASP TYR ILE THR ASN LEU GLU SER PRO PHE HET GDP A 201 28 HET SO4 A 182 5 HET SO4 F 189 5 HET SO4 F 190 5 HETNAM GDP GUANOSINE-5'-DIPHOSPHATE HETNAM SO4 SULFATE ION FORMUL 3 GDP C10 H15 N5 O11 P2 FORMUL 4 SO4 3(O4 S 2-) FORMUL 7 HOH *484(H2 O) HELIX 1 1 GLY A 17 ASP A 28 1 12 HELIX 2 2 LEU A 69 TYR A 74 5 6 HELIX 3 3 SER A 88 LYS A 98 1 11 HELIX 4 4 LYS A 98 CYS A 107 1 10 HELIX 5 5 LYS A 118 ARG A 122 5 5 HELIX 6 6 ASP A 124 MET A 134 1 11 HELIX 7 7 LYS A 140 GLY A 152 1 13 HELIX 8 8 GLY A 166 GLN A 180 1 15 HELIX 9 9 SER F 40 GLY F 56 1 17 HELIX 10 10 ASN F 58 SER F 87 1 30 HELIX 11 11 GLY F 91 ARG F 107 1 17 HELIX 12 12 SER F 117 GLY F 125 1 9 HELIX 13 13 SER F 126 GLU F 138 1 13 HELIX 14 14 ASN F 141 VAL F 165 1 25 HELIX 15 15 ASP F 169 LEU F 184 1 16 SHEET 1 A 6 TYR A 42 VAL A 48 0 SHEET 2 A 6 LYS A 51 TRP A 58 -1 O LEU A 57 N TYR A 42 SHEET 3 A 6 ILE A 4 GLY A 12 1 N ILE A 4 O GLU A 54 SHEET 4 A 6 VAL A 79 SER A 85 1 O CYS A 83 N VAL A 11 SHEET 5 A 6 ILE A 112 ASN A 117 1 O VAL A 115 N MET A 82 SHEET 6 A 6 GLY A 155 GLU A 158 1 O MET A 157 N LEU A 114 SHEET 1 B 3 PHE F 9 ARG F 17 0 SHEET 2 B 3 VAL F 23 MET F 31 -1 O ASP F 24 N LYS F 16 SHEET 3 B 3 ARG F 34 SER F 39 -1 O VAL F 36 N CYS F 29 SITE 1 AC1 19 ALA A 15 CYS A 16 GLY A 17 LYS A 18 SITE 2 AC1 19 THR A 19 CYS A 20 LYS A 118 ASP A 120 SITE 3 AC1 19 LEU A 121 SER A 160 ALA A 161 LYS A 162 SITE 4 AC1 19 HOH A 188 HOH A 204 HOH A 230 HOH A 233 SITE 5 AC1 19 HOH A 272 HOH A 273 HOH A 323 SITE 1 AC2 5 LYS A 135 HIS F 86 ARG F 88 HOH F 387 SITE 2 AC2 5 HOH F 452 SITE 1 AC3 2 ARG F 28 LYS F 37 SITE 1 AC4 5 LYS F 37 LYS F 42 TYR F 128 LYS F 132 SITE 2 AC4 5 HOH F 433 CRYST1 77.580 100.790 50.850 90.00 90.00 90.00 P 21 21 2 4 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 0.012890 0.000000 0.000000 0.00000 SCALE2 0.000000 0.009922 0.000000 0.00000 SCALE3 0.000000 0.000000 0.019666 0.00000