HEADER SIGNALING PROTEIN 11-AUG-10 3ODO TITLE CRYSTAL STRUCTURE OF THE DH/PH DOMAINS OF P115-RHOGEF COMPND MOL_ID: 1; COMPND 2 MOLECULE: RHO GUANINE NUCLEOTIDE EXCHANGE FACTOR 1; COMPND 3 CHAIN: A, B; COMPND 4 FRAGMENT: DH-PH DOMAIN RESIDUES 395-766; COMPND 5 SYNONYM: 115 KDA GUANINE NUCLEOTIDE EXCHANGE FACTOR, P115-RHOGEF, COMPND 6 P115RHOGEF, SUB1.5; COMPND 7 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: ARHGEF1; SOURCE 6 EXPRESSION_SYSTEM: ESCHERICHIA COLI; 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: PGEX-KG KEYWDS REGULATION OF RHOA GTPASE, RHOGEF, DH, PH, RHO, SIGNALING PROTEIN EXPDTA X-RAY DIFFRACTION AUTHOR Z.CHEN,L.GUO,S.R.SPRANG,P.C.STERNWEIS REVDAT 2 06-SEP-23 3ODO 1 SEQADV REVDAT 1 05-JAN-11 3ODO 0 JRNL AUTH Z.CHEN,L.GUO,S.R.SPRANG,P.C.STERNWEIS JRNL TITL MODULATION OF A GEF SWITCH: AUTOINHIBITION OF THE INTRINSIC JRNL TITL 2 GUANINE NUCLEOTIDE EXCHANGE ACTIVITY OF P115-RHOREF JRNL REF PROTEIN SCI. V. 20 107 2011 JRNL REFN ISSN 0961-8368 REMARK 2 REMARK 2 RESOLUTION. 2.90 ANGSTROMS. REMARK 3 REMARK 3 REFINEMENT. REMARK 3 PROGRAM : REFMAC 5.5.0102 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) : 2.90 REMARK 3 RESOLUTION RANGE LOW (ANGSTROMS) : 36.00 REMARK 3 DATA CUTOFF (SIGMA(F)) : 0.000 REMARK 3 COMPLETENESS FOR RANGE (%) : 99.2 REMARK 3 NUMBER OF REFLECTIONS : 29151 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) : 0.223 REMARK 3 R VALUE (WORKING SET) : 0.221 REMARK 3 FREE R VALUE : 0.272 REMARK 3 FREE R VALUE TEST SET SIZE (%) : 5.000 REMARK 3 FREE R VALUE TEST SET COUNT : 1550 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) : 2.90 REMARK 3 BIN RESOLUTION RANGE LOW (A) : 2.97 REMARK 3 REFLECTION IN BIN (WORKING SET) : 2130 REMARK 3 BIN COMPLETENESS (WORKING+TEST) (%) : 98.12 REMARK 3 BIN R VALUE (WORKING SET) : 0.3720 REMARK 3 BIN FREE R VALUE SET COUNT : 110 REMARK 3 BIN FREE R VALUE : 0.4110 REMARK 3 REMARK 3 NUMBER OF NON-HYDROGEN ATOMS USED IN REFINEMENT. REMARK 3 PROTEIN ATOMS : 6068 REMARK 3 NUCLEIC ACID ATOMS : 0 REMARK 3 HETEROGEN ATOMS : 0 REMARK 3 SOLVENT ATOMS : 0 REMARK 3 REMARK 3 B VALUES. REMARK 3 FROM WILSON PLOT (A**2) : NULL REMARK 3 MEAN B VALUE (OVERALL, A**2) : 109.6 REMARK 3 OVERALL ANISOTROPIC B VALUE. REMARK 3 B11 (A**2) : 5.98000 REMARK 3 B22 (A**2) : 5.98000 REMARK 3 B33 (A**2) : -11.97000 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): NULL REMARK 3 ESU BASED ON FREE R VALUE (A): 0.367 REMARK 3 ESU BASED ON MAXIMUM LIKELIHOOD (A): 0.371 REMARK 3 ESU FOR B VALUES BASED ON MAXIMUM LIKELIHOOD (A**2): 47.330 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): 6183 ; 0.018 ; 0.022 REMARK 3 BOND LENGTHS OTHERS (A): NULL ; NULL ; NULL REMARK 3 BOND ANGLES REFINED ATOMS (DEGREES): 8351 ; 1.833 ; 1.980 REMARK 3 BOND ANGLES OTHERS (DEGREES): NULL ; NULL ; NULL REMARK 3 TORSION ANGLES, PERIOD 1 (DEGREES): 738 ; 6.866 ; 5.000 REMARK 3 TORSION ANGLES, PERIOD 2 (DEGREES): 302 ;36.728 ;23.377 REMARK 3 TORSION ANGLES, PERIOD 3 (DEGREES): 1187 ;19.356 ;15.000 REMARK 3 TORSION ANGLES, PERIOD 4 (DEGREES): 64 ;18.522 ;15.000 REMARK 3 CHIRAL-CENTER RESTRAINTS (A**3): 946 ; 0.120 ; 0.200 REMARK 3 GENERAL PLANES REFINED ATOMS (A): 4602 ; 0.008 ; 0.021 REMARK 3 GENERAL PLANES OTHERS (A): NULL ; NULL ; NULL REMARK 3 NON-BONDED CONTACTS REFINED ATOMS (A): NULL ; NULL ; NULL REMARK 3 NON-BONDED CONTACTS OTHERS (A): NULL ; NULL ; NULL REMARK 3 NON-BONDED TORSION REFINED ATOMS (A): NULL ; NULL ; NULL REMARK 3 NON-BONDED TORSION OTHERS (A): NULL ; NULL ; NULL REMARK 3 H-BOND (X...Y) REFINED ATOMS (A): NULL ; NULL ; NULL REMARK 3 H-BOND (X...Y) OTHERS (A): NULL ; NULL ; NULL REMARK 3 POTENTIAL METAL-ION REFINED ATOMS (A): NULL ; NULL ; NULL REMARK 3 POTENTIAL METAL-ION OTHERS (A): NULL ; NULL ; NULL REMARK 3 SYMMETRY VDW REFINED ATOMS (A): NULL ; NULL ; NULL REMARK 3 SYMMETRY VDW OTHERS (A): NULL ; NULL ; NULL REMARK 3 SYMMETRY H-BOND REFINED ATOMS (A): NULL ; NULL ; NULL REMARK 3 SYMMETRY H-BOND OTHERS (A): NULL ; NULL ; NULL REMARK 3 SYMMETRY METAL-ION REFINED ATOMS (A): NULL ; NULL ; NULL REMARK 3 SYMMETRY METAL-ION OTHERS (A): NULL ; NULL ; NULL REMARK 3 REMARK 3 ISOTROPIC THERMAL FACTOR RESTRAINTS. COUNT RMS WEIGHT REMARK 3 MAIN-CHAIN BOND REFINED ATOMS (A**2): 3716 ; 0.493 ; 1.500 REMARK 3 MAIN-CHAIN BOND OTHER ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 MAIN-CHAIN ANGLE REFINED ATOMS (A**2): 6037 ; 0.987 ; 2.000 REMARK 3 MAIN-CHAIN ANGLE OTHER ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 SIDE-CHAIN BOND REFINED ATOMS (A**2): 2467 ; 1.768 ; 3.000 REMARK 3 SIDE-CHAIN BOND OTHER ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 SIDE-CHAIN ANGLE REFINED ATOMS (A**2): 2314 ; 3.045 ; 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 : 1 REMARK 3 REMARK 3 NCS GROUP NUMBER : 1 REMARK 3 CHAIN NAMES : A B REMARK 3 NUMBER OF COMPONENTS NCS GROUP : 0 REMARK 3 COMPONENT C SSSEQI TO C SSSEQI CODE REMARK 3 GROUP CHAIN COUNT RMS WEIGHT REMARK 3 MEDIUM POSITIONAL 1 A (A): 3028 ; 0.29 ; 0.50 REMARK 3 MEDIUM THERMAL 1 A (A**2): 3028 ; 0.42 ; 2.00 REMARK 3 REMARK 3 TLS DETAILS REMARK 3 NUMBER OF TLS GROUPS : 4 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 392 A 609 REMARK 3 ORIGIN FOR THE GROUP (A): 50.9418 -37.4779 25.7482 REMARK 3 T TENSOR REMARK 3 T11: 0.4653 T22: 0.4313 REMARK 3 T33: 0.4137 T12: -0.1595 REMARK 3 T13: 0.0196 T23: -0.0320 REMARK 3 L TENSOR REMARK 3 L11: 2.2981 L22: 2.9184 REMARK 3 L33: 12.1177 L12: 0.7287 REMARK 3 L13: 3.2074 L23: 1.0028 REMARK 3 S TENSOR REMARK 3 S11: -0.1465 S12: 0.2981 S13: 0.2725 REMARK 3 S21: -0.1875 S22: -0.0299 S23: -0.1670 REMARK 3 S31: -1.1924 S32: 1.7719 S33: 0.1764 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 : A 610 A 761 REMARK 3 ORIGIN FOR THE GROUP (A): 24.0621 -11.5718 1.4429 REMARK 3 T TENSOR REMARK 3 T11: 0.8312 T22: 0.0568 REMARK 3 T33: 0.2881 T12: -0.1631 REMARK 3 T13: -0.0522 T23: 0.0037 REMARK 3 L TENSOR REMARK 3 L11: 8.7890 L22: 7.6833 REMARK 3 L33: 4.7786 L12: -3.4360 REMARK 3 L13: 0.1920 L23: -1.4263 REMARK 3 S TENSOR REMARK 3 S11: -0.4684 S12: 0.2639 S13: 0.1166 REMARK 3 S21: 0.8989 S22: 0.0735 S23: -0.1581 REMARK 3 S31: 0.3166 S32: -0.0183 S33: 0.3949 REMARK 3 REMARK 3 TLS GROUP : 3 REMARK 3 NUMBER OF COMPONENTS GROUP : 1 REMARK 3 COMPONENTS C SSSEQI TO C SSSEQI REMARK 3 RESIDUE RANGE : B 392 B 609 REMARK 3 ORIGIN FOR THE GROUP (A): 2.0936 15.5590 -17.8930 REMARK 3 T TENSOR REMARK 3 T11: 0.4442 T22: 0.4182 REMARK 3 T33: 0.4320 T12: 0.1834 REMARK 3 T13: 0.0156 T23: 0.0044 REMARK 3 L TENSOR REMARK 3 L11: 2.4557 L22: 2.8164 REMARK 3 L33: 11.8089 L12: -0.6417 REMARK 3 L13: 3.0996 L23: -1.2165 REMARK 3 S TENSOR REMARK 3 S11: -0.1002 S12: -0.3507 S13: 0.3428 REMARK 3 S21: 0.1601 S22: -0.0724 S23: 0.1911 REMARK 3 S31: -1.0785 S32: -1.8059 S33: 0.1727 REMARK 3 REMARK 3 TLS GROUP : 4 REMARK 3 NUMBER OF COMPONENTS GROUP : 1 REMARK 3 COMPONENTS C SSSEQI TO C SSSEQI REMARK 3 RESIDUE RANGE : B 610 B 761 REMARK 3 ORIGIN FOR THE GROUP (A): 28.9647 41.4537 6.4351 REMARK 3 T TENSOR REMARK 3 T11: 0.8296 T22: 0.0901 REMARK 3 T33: 0.2986 T12: 0.1657 REMARK 3 T13: -0.0673 T23: -0.0042 REMARK 3 L TENSOR REMARK 3 L11: 8.9124 L22: 7.5859 REMARK 3 L33: 4.8347 L12: 3.3764 REMARK 3 L13: -0.6160 L23: 1.5881 REMARK 3 S TENSOR REMARK 3 S11: -0.5108 S12: -0.4440 S13: 0.0661 REMARK 3 S21: -0.9093 S22: 0.1716 S23: 0.1393 REMARK 3 S31: 0.2871 S32: 0.1049 S33: 0.3392 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 3ODO COMPLIES WITH FORMAT V. 3.30, 13-JUL-11 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY RCSB ON 17-AUG-10. REMARK 100 THE DEPOSITION ID IS D_1000060984. REMARK 200 REMARK 200 EXPERIMENTAL DETAILS REMARK 200 EXPERIMENT TYPE : X-RAY DIFFRACTION REMARK 200 DATE OF DATA COLLECTION : 17-JUL-10 REMARK 200 TEMPERATURE (KELVIN) : 100 REMARK 200 PH : NULL REMARK 200 NUMBER OF CRYSTALS USED : 1 REMARK 200 REMARK 200 SYNCHROTRON (Y/N) : Y REMARK 200 RADIATION SOURCE : APS REMARK 200 BEAMLINE : 19-ID REMARK 200 X-RAY GENERATOR MODEL : NULL REMARK 200 MONOCHROMATIC OR LAUE (M/L) : M REMARK 200 WAVELENGTH OR RANGE (A) : 0.97921 REMARK 200 MONOCHROMATOR : DOUBLE-CRYSTAL SI-111 & SI-220 REMARK 200 OPTICS : MIRRORS REMARK 200 REMARK 200 DETECTOR TYPE : CCD REMARK 200 DETECTOR MANUFACTURER : ADSC QUANTUM 315R REMARK 200 INTENSITY-INTEGRATION SOFTWARE : HKL-3000 REMARK 200 DATA SCALING SOFTWARE : HKL-2000 REMARK 200 REMARK 200 NUMBER OF UNIQUE REFLECTIONS : 30747 REMARK 200 RESOLUTION RANGE HIGH (A) : 2.900 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 (%) : 99.3 REMARK 200 DATA REDUNDANCY : 4.500 REMARK 200 R MERGE (I) : 0.06000 REMARK 200 R SYM (I) : NULL REMARK 200 <I/SIGMA(I)> FOR THE DATA SET : 31.5000 REMARK 200 REMARK 200 IN THE HIGHEST RESOLUTION SHELL. REMARK 200 HIGHEST RESOLUTION SHELL, RANGE HIGH (A) : 2.90 REMARK 200 HIGHEST RESOLUTION SHELL, RANGE LOW (A) : 2.95 REMARK 200 COMPLETENESS FOR SHELL (%) : 99.9 REMARK 200 DATA REDUNDANCY IN SHELL : 4.60 REMARK 200 R MERGE FOR SHELL (I) : 0.75000 REMARK 200 R SYM FOR SHELL (I) : NULL REMARK 200 <I/SIGMA(I)> FOR SHELL : 2.300 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 1X86 REMARK 200 REMARK 200 REMARK: NULL REMARK 280 REMARK 280 CRYSTAL REMARK 280 SOLVENT CONTENT, VS (%): 69.60 REMARK 280 MATTHEWS COEFFICIENT, VM (ANGSTROMS**3/DA): 4.05 REMARK 280 REMARK 280 CRYSTALLIZATION CONDITIONS: 2.6-2.8M SODIUM FORMATE, VAPOR REMARK 280 DIFFUSION, HANGING DROP, TEMPERATURE 293K REMARK 290 REMARK 290 CRYSTALLOGRAPHIC SYMMETRY REMARK 290 SYMMETRY OPERATORS FOR SPACE GROUP: P 41 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,X,Z+1/4 REMARK 290 4555 Y,-X,Z+3/4 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 62.98650 REMARK 290 SMTRY1 3 0.000000 -1.000000 0.000000 0.00000 REMARK 290 SMTRY2 3 1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY3 3 0.000000 0.000000 1.000000 31.49325 REMARK 290 SMTRY1 4 0.000000 1.000000 0.000000 0.00000 REMARK 290 SMTRY2 4 -1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY3 4 0.000000 0.000000 1.000000 94.47975 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: PISA 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: PISA 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 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 LEU A 762 REMARK 465 LYS A 763 REMARK 465 VAL A 764 REMARK 465 PRO A 765 REMARK 465 ALA A 766 REMARK 465 LEU B 762 REMARK 465 LYS B 763 REMARK 465 VAL B 764 REMARK 465 PRO B 765 REMARK 465 ALA B 766 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 O LEU A 552 NZ LYS B 701 1545 2.07 REMARK 500 REMARK 500 REMARK: NULL REMARK 500 REMARK 500 GEOMETRY AND STEREOCHEMISTRY REMARK 500 SUBTOPIC: COVALENT BOND LENGTHS REMARK 500 REMARK 500 THE STEREOCHEMICAL PARAMETERS OF THE FOLLOWING RESIDUES REMARK 500 HAVE VALUES WHICH DEVIATE FROM EXPECTED VALUES BY MORE REMARK 500 THAN 6*RMSD (M=MODEL NUMBER; RES=RESIDUE NAME; C=CHAIN REMARK 500 IDENTIFIER; SSEQ=SEQUENCE NUMBER; I=INSERTION CODE). REMARK 500 REMARK 500 STANDARD TABLE: REMARK 500 FORMAT: (10X,I3,1X,2(A3,1X,A1,I4,A1,1X,A4,3X),1X,F6.3) REMARK 500 REMARK 500 EXPECTED VALUES PROTEIN: ENGH AND HUBER, 1999 REMARK 500 EXPECTED VALUES NUCLEIC ACID: CLOWNEY ET AL 1996 REMARK 500 REMARK 500 M RES CSSEQI ATM1 RES CSSEQI ATM2 DEVIATION REMARK 500 GLU B 665 CG GLU B 665 CD 0.114 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 LEU B 401 CA - CB - CG ANGL. DEV. = 18.8 DEGREES REMARK 500 ARG B 482 NE - CZ - NH2 ANGL. DEV. = -3.2 DEGREES REMARK 500 ARG B 548 NE - CZ - NH1 ANGL. DEV. = 3.2 DEGREES REMARK 500 REMARK 500 REMARK: NULL REMARK 500 REMARK 500 GEOMETRY AND STEREOCHEMISTRY REMARK 500 SUBTOPIC: TORSION ANGLES REMARK 500 REMARK 500 TORSION ANGLES OUTSIDE THE EXPECTED RAMACHANDRAN REGIONS: REMARK 500 (M=MODEL NUMBER; RES=RESIDUE NAME; C=CHAIN IDENTIFIER; REMARK 500 SSEQ=SEQUENCE NUMBER; I=INSERTION CODE). REMARK 500 REMARK 500 STANDARD TABLE: REMARK 500 FORMAT:(10X,I3,1X,A3,1X,A1,I4,A1,4X,F7.2,3X,F7.2) REMARK 500 REMARK 500 EXPECTED VALUES: GJ KLEYWEGT AND TA JONES (1996). PHI/PSI- REMARK 500 CHOLOGY: RAMACHANDRAN REVISITED. STRUCTURE 4, 1395 - 1400 REMARK 500 REMARK 500 M RES CSSEQI PSI PHI REMARK 500 TRP A 398 -60.28 162.29 REMARK 500 PHE A 442 -72.56 -119.96 REMARK 500 PHE A 443 -74.94 -46.32 REMARK 500 LEU A 450 71.35 35.32 REMARK 500 PRO A 462 100.49 -52.73 REMARK 500 TYR A 487 -86.74 73.12 REMARK 500 GLU A 491 108.44 77.40 REMARK 500 GLN A 577 -19.06 -45.60 REMARK 500 PRO A 582 -60.94 -29.32 REMARK 500 MET A 634 0.39 -65.72 REMARK 500 ASN A 640 65.02 69.23 REMARK 500 ASP A 673 -3.61 -148.62 REMARK 500 ASP A 682 -142.41 60.45 REMARK 500 THR A 697 71.32 -174.59 REMARK 500 ASP A 699 174.99 98.66 REMARK 500 TRP B 398 -53.93 150.49 REMARK 500 LEU B 401 71.01 53.91 REMARK 500 HIS B 439 -70.80 -49.23 REMARK 500 PHE B 442 -71.58 -132.04 REMARK 500 GLU B 455 -64.54 -28.87 REMARK 500 PRO B 462 107.26 -59.21 REMARK 500 TYR B 487 -83.13 88.30 REMARK 500 GLU B 491 108.81 77.16 REMARK 500 PHE B 500 -27.24 -174.75 REMARK 500 ARG B 551 -6.09 70.62 REMARK 500 GLN B 577 -19.08 -42.07 REMARK 500 PRO B 582 -78.41 -19.66 REMARK 500 MET B 634 2.41 -67.88 REMARK 500 LYS B 639 -46.65 -152.19 REMARK 500 ASN B 640 63.88 61.82 REMARK 500 ASP B 682 -144.29 56.61 REMARK 500 ASP B 699 -87.77 -153.81 REMARK 500 THR B 720 -54.55 -25.92 REMARK 500 ALA B 759 -77.25 -70.03 REMARK 500 REMARK 500 REMARK: NULL REMARK 500 REMARK 500 GEOMETRY AND STEREOCHEMISTRY REMARK 500 SUBTOPIC: NON-CIS, NON-TRANS REMARK 500 REMARK 500 THE FOLLOWING PEPTIDE BONDS DEVIATE SIGNIFICANTLY FROM BOTH REMARK 500 CIS AND TRANS CONFORMATION. CIS BONDS, IF ANY, ARE LISTED REMARK 500 ON CISPEP RECORDS. TRANS IS DEFINED AS 180 +/- 30 AND REMARK 500 CIS IS DEFINED AS 0 +/- 30 DEGREES. REMARK 500 MODEL OMEGA REMARK 500 THR B 695 PRO B 696 -39.33 REMARK 500 REMARK 500 REMARK: NULL REMARK 900 REMARK 900 RELATED ENTRIES REMARK 900 RELATED ID: 1X86 RELATED DB: PDB REMARK 900 CRYSTAL STRUCTURE OF THE DH/PH DOMAINS OF LEUKEMIA-ASSOCIATED REMARK 900 RHOGEF IN COMPLEX WITH RHOA REMARK 900 RELATED ID: 1TXD RELATED DB: PDB REMARK 900 CRYSTAL STRUCTURE OF THE DH/PH DOMAINS OF LEUKEMIA-ASSOCIATED RHOGEF REMARK 900 RELATED ID: 1XCG RELATED DB: PDB REMARK 900 CRYSTAL STRUCTURE OF HUMAN RHOA IN COMPLEX WITH DH/PH FRAGMENT OF REMARK 900 PDZRHOGEF REMARK 900 RELATED ID: 3KZ1 RELATED DB: PDB REMARK 900 CRYSTAL STRUCTURE OF THE COMPLEX OF PDZ-RHOGEF DH/PH DOMAINS WITH REMARK 900 GTP-GAMMA-S ACTIVATED RHOA REMARK 900 RELATED ID: 3ODX RELATED DB: PDB REMARK 900 RELATED ID: 3ODW RELATED DB: PDB REMARK 900 CRYSTAL STRUCTURE OF THE LINKER-DH/PH DOMAINS OF P115-RHOGEF DBREF 3ODO A 395 766 UNP Q92888 ARHG1_HUMAN 395 766 DBREF 3ODO B 395 766 UNP Q92888 ARHG1_HUMAN 395 766 SEQADV 3ODO GLN A 392 UNP Q92888 EXPRESSION TAG SEQADV 3ODO THR A 393 UNP Q92888 EXPRESSION TAG SEQADV 3ODO SER A 394 UNP Q92888 EXPRESSION TAG SEQADV 3ODO GLN B 392 UNP Q92888 EXPRESSION TAG SEQADV 3ODO THR B 393 UNP Q92888 EXPRESSION TAG SEQADV 3ODO SER B 394 UNP Q92888 EXPRESSION TAG SEQRES 1 A 375 GLN THR SER PRO PRO GLY TRP ARG GLU LEU VAL PRO PRO SEQRES 2 A 375 ASP THR LEU HIS SER LEU PRO LYS SER GLN VAL LYS ARG SEQRES 3 A 375 GLN GLU VAL ILE SER GLU LEU LEU VAL THR GLU ALA ALA SEQRES 4 A 375 HIS VAL ARG MET LEU ARG VAL LEU HIS ASP LEU PHE PHE SEQRES 5 A 375 GLN PRO MET ALA GLU CYS LEU PHE PHE PRO LEU GLU GLU SEQRES 6 A 375 LEU GLN ASN ILE PHE PRO SER LEU ASP GLU LEU ILE GLU SEQRES 7 A 375 VAL HIS SER LEU PHE LEU ASP ARG LEU MET LYS ARG ARG SEQRES 8 A 375 GLN GLU SER GLY TYR LEU ILE GLU GLU ILE GLY ASP VAL SEQRES 9 A 375 LEU LEU ALA ARG PHE ASP GLY ALA GLU GLY SER TRP PHE SEQRES 10 A 375 GLN LYS ILE SER SER ARG PHE CYS SER ARG GLN SER PHE SEQRES 11 A 375 ALA LEU GLU GLN LEU LYS ALA LYS GLN ARG LYS ASP PRO SEQRES 12 A 375 ARG PHE CYS ALA PHE VAL GLN GLU ALA GLU SER ARG PRO SEQRES 13 A 375 ARG CYS ARG ARG LEU GLN LEU LYS ASP MET ILE PRO THR SEQRES 14 A 375 GLU MET GLN ARG LEU THR LYS TYR PRO LEU LEU LEU GLN SEQRES 15 A 375 SER ILE GLY GLN ASN THR GLU GLU PRO THR GLU ARG GLU SEQRES 16 A 375 LYS VAL GLU LEU ALA ALA GLU CYS CYS ARG GLU ILE LEU SEQRES 17 A 375 HIS HIS VAL ASN GLN ALA VAL ARG ASP MET GLU ASP LEU SEQRES 18 A 375 LEU ARG LEU LYS ASP TYR GLN ARG ARG LEU ASP LEU SER SEQRES 19 A 375 HIS LEU ARG GLN SER SER ASP PRO MET LEU SER GLU PHE SEQRES 20 A 375 LYS ASN LEU ASP ILE THR LYS LYS LYS LEU VAL HIS GLU SEQRES 21 A 375 GLY PRO LEU THR TRP ARG VAL THR LYS ASP LYS ALA VAL SEQRES 22 A 375 GLU VAL HIS VAL LEU LEU LEU ASP ASP LEU LEU LEU LEU SEQRES 23 A 375 LEU GLN ARG GLN ASP GLU ARG LEU LEU LEU LYS SER HIS SEQRES 24 A 375 SER ARG THR LEU THR PRO THR PRO ASP GLY LYS THR MET SEQRES 25 A 375 LEU ARG PRO VAL LEU ARG LEU THR SER ALA MET THR ARG SEQRES 26 A 375 GLU VAL ALA THR ASP HIS LYS ALA PHE TYR VAL LEU PHE SEQRES 27 A 375 THR TRP ASP GLN GLU ALA GLN ILE TYR GLU LEU VAL ALA SEQRES 28 A 375 GLN THR VAL SER GLU ARG LYS ASN TRP CYS ALA LEU ILE SEQRES 29 A 375 THR GLU THR ALA GLY SER LEU LYS VAL PRO ALA SEQRES 1 B 375 GLN THR SER PRO PRO GLY TRP ARG GLU LEU VAL PRO PRO SEQRES 2 B 375 ASP THR LEU HIS SER LEU PRO LYS SER GLN VAL LYS ARG SEQRES 3 B 375 GLN GLU VAL ILE SER GLU LEU LEU VAL THR GLU ALA ALA SEQRES 4 B 375 HIS VAL ARG MET LEU ARG VAL LEU HIS ASP LEU PHE PHE SEQRES 5 B 375 GLN PRO MET ALA GLU CYS LEU PHE PHE PRO LEU GLU GLU SEQRES 6 B 375 LEU GLN ASN ILE PHE PRO SER LEU ASP GLU LEU ILE GLU SEQRES 7 B 375 VAL HIS SER LEU PHE LEU ASP ARG LEU MET LYS ARG ARG SEQRES 8 B 375 GLN GLU SER GLY TYR LEU ILE GLU GLU ILE GLY ASP VAL SEQRES 9 B 375 LEU LEU ALA ARG PHE ASP GLY ALA GLU GLY SER TRP PHE SEQRES 10 B 375 GLN LYS ILE SER SER ARG PHE CYS SER ARG GLN SER PHE SEQRES 11 B 375 ALA LEU GLU GLN LEU LYS ALA LYS GLN ARG LYS ASP PRO SEQRES 12 B 375 ARG PHE CYS ALA PHE VAL GLN GLU ALA GLU SER ARG PRO SEQRES 13 B 375 ARG CYS ARG ARG LEU GLN LEU LYS ASP MET ILE PRO THR SEQRES 14 B 375 GLU MET GLN ARG LEU THR LYS TYR PRO LEU LEU LEU GLN SEQRES 15 B 375 SER ILE GLY GLN ASN THR GLU GLU PRO THR GLU ARG GLU SEQRES 16 B 375 LYS VAL GLU LEU ALA ALA GLU CYS CYS ARG GLU ILE LEU SEQRES 17 B 375 HIS HIS VAL ASN GLN ALA VAL ARG ASP MET GLU ASP LEU SEQRES 18 B 375 LEU ARG LEU LYS ASP TYR GLN ARG ARG LEU ASP LEU SER SEQRES 19 B 375 HIS LEU ARG GLN SER SER ASP PRO MET LEU SER GLU PHE SEQRES 20 B 375 LYS ASN LEU ASP ILE THR LYS LYS LYS LEU VAL HIS GLU SEQRES 21 B 375 GLY PRO LEU THR TRP ARG VAL THR LYS ASP LYS ALA VAL SEQRES 22 B 375 GLU VAL HIS VAL LEU LEU LEU ASP ASP LEU LEU LEU LEU SEQRES 23 B 375 LEU GLN ARG GLN ASP GLU ARG LEU LEU LEU LYS SER HIS SEQRES 24 B 375 SER ARG THR LEU THR PRO THR PRO ASP GLY LYS THR MET SEQRES 25 B 375 LEU ARG PRO VAL LEU ARG LEU THR SER ALA MET THR ARG SEQRES 26 B 375 GLU VAL ALA THR ASP HIS LYS ALA PHE TYR VAL LEU PHE SEQRES 27 B 375 THR TRP ASP GLN GLU ALA GLN ILE TYR GLU LEU VAL ALA SEQRES 28 B 375 GLN THR VAL SER GLU ARG LYS ASN TRP CYS ALA LEU ILE SEQRES 29 B 375 THR GLU THR ALA GLY SER LEU LYS VAL PRO ALA HELIX 1 1 PRO A 403 HIS A 408 1 6 HELIX 2 2 PRO A 411 PHE A 442 1 32 HELIX 3 3 PHE A 442 LEU A 450 1 9 HELIX 4 4 PRO A 453 PHE A 461 1 9 HELIX 5 5 SER A 463 SER A 485 1 23 HELIX 6 6 ILE A 492 ASP A 501 1 10 HELIX 7 7 ASP A 501 ARG A 518 1 18 HELIX 8 8 ARG A 518 ARG A 531 1 14 HELIX 9 9 ASP A 533 SER A 545 1 13 HELIX 10 10 ARG A 546 ARG A 550 5 5 HELIX 11 11 GLN A 553 ILE A 558 1 6 HELIX 12 12 PRO A 559 ASN A 578 1 20 HELIX 13 13 GLU A 581 ARG A 621 1 41 HELIX 14 14 LEU A 624 GLN A 629 1 6 HELIX 15 15 ASP A 632 SER A 636 5 5 HELIX 16 16 THR A 744 GLY A 760 1 17 HELIX 17 17 PRO B 403 HIS B 408 1 6 HELIX 18 18 PRO B 411 PHE B 442 1 32 HELIX 19 19 PHE B 442 LEU B 450 1 9 HELIX 20 20 PRO B 453 PHE B 461 1 9 HELIX 21 21 SER B 463 SER B 485 1 23 HELIX 22 22 ILE B 492 ARG B 499 1 8 HELIX 23 23 ASP B 501 ARG B 518 1 18 HELIX 24 24 ARG B 518 ASP B 533 1 16 HELIX 25 25 ASP B 533 ARG B 546 1 14 HELIX 26 26 PRO B 547 ARG B 550 5 4 HELIX 27 27 GLN B 553 ILE B 558 1 6 HELIX 28 28 PRO B 559 THR B 579 1 21 HELIX 29 29 GLU B 581 ARG B 621 1 41 HELIX 30 30 LEU B 624 GLN B 629 1 6 HELIX 31 31 ASP B 632 SER B 636 5 5 HELIX 32 32 THR B 744 GLY B 760 1 17 SHEET 1 A 4 LEU A 622 ASP A 623 0 SHEET 2 A 4 ARG A 684 LEU A 686 1 O LEU A 685 N ASP A 623 SHEET 3 A 4 LEU A 674 GLN A 681 -1 N GLN A 681 O ARG A 684 SHEET 4 A 4 VAL A 707 ARG A 709 -1 O LEU A 708 N LEU A 675 SHEET 1 B 8 LEU A 622 ASP A 623 0 SHEET 2 B 8 ARG A 684 LEU A 686 1 O LEU A 685 N ASP A 623 SHEET 3 B 8 LEU A 674 GLN A 681 -1 N GLN A 681 O ARG A 684 SHEET 4 B 8 ALA A 663 LEU A 671 -1 N HIS A 667 O LEU A 678 SHEET 5 B 8 LEU A 648 ARG A 657 -1 N GLY A 652 O VAL A 668 SHEET 6 B 8 ALA A 735 VAL A 741 -1 O VAL A 741 N THR A 655 SHEET 7 B 8 ALA A 724 THR A 730 -1 N PHE A 725 O LEU A 740 SHEET 8 B 8 MET A 714 GLU A 717 -1 N ARG A 716 O TYR A 726 SHEET 1 C 4 LEU B 622 ASP B 623 0 SHEET 2 C 4 ARG B 684 LEU B 686 1 O LEU B 685 N ASP B 623 SHEET 3 C 4 LEU B 674 GLN B 681 -1 N GLN B 679 O LEU B 686 SHEET 4 C 4 VAL B 707 ARG B 709 -1 O LEU B 708 N LEU B 675 SHEET 1 D 8 LEU B 622 ASP B 623 0 SHEET 2 D 8 ARG B 684 LEU B 686 1 O LEU B 685 N ASP B 623 SHEET 3 D 8 LEU B 674 GLN B 681 -1 N GLN B 679 O LEU B 686 SHEET 4 D 8 ALA B 663 LEU B 671 -1 N HIS B 667 O LEU B 678 SHEET 5 D 8 LEU B 648 ARG B 657 -1 N GLY B 652 O VAL B 668 SHEET 6 D 8 ALA B 735 VAL B 741 -1 O VAL B 741 N THR B 655 SHEET 7 D 8 ALA B 724 THR B 730 -1 N PHE B 725 O LEU B 740 SHEET 8 D 8 ALA B 713 GLU B 717 -1 N ARG B 716 O TYR B 726 CISPEP 1 LYS A 639 ASN A 640 0 1.72 CISPEP 2 PRO A 696 THR A 697 0 -4.23 CISPEP 3 LYS B 639 ASN B 640 0 5.90 CISPEP 4 PRO B 696 THR B 697 0 -2.45 CISPEP 5 PRO B 698 ASP B 699 0 0.30 CRYST1 106.049 106.049 125.973 90.00 90.00 90.00 P 41 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 0.009430 0.000000 0.000000 0.00000 SCALE2 0.000000 0.009430 0.000000 0.00000 SCALE3 0.000000 0.000000 0.007938 0.00000