HEADER HYDROLASE 31-AUG-21 7S0Y TITLE STRUCTURES OF TCDB IN COMPLEX WITH CDC42 COMPND MOL_ID: 1; COMPND 2 MOLECULE: TOXIN B; COMPND 3 CHAIN: A; COMPND 4 EC: 3.4.22.-; COMPND 5 ENGINEERED: YES; COMPND 6 MOL_ID: 2; COMPND 7 MOLECULE: CELL DIVISION CONTROL PROTEIN 42 HOMOLOG; COMPND 8 CHAIN: B; COMPND 9 SYNONYM: G25K GTP-BINDING PROTEIN; COMPND 10 EC: 3.6.5.2; COMPND 11 ENGINEERED: YES SOURCE MOL_ID: 1; SOURCE 2 ORGANISM_SCIENTIFIC: CLOSTRIDIOIDES DIFFICILE; SOURCE 3 ORGANISM_COMMON: PEPTOCLOSTRIDIUM DIFFICILE; SOURCE 4 ORGANISM_TAXID: 1496; SOURCE 5 GENE: TCDB, TOXB; SOURCE 6 EXPRESSION_SYSTEM: ESCHERICHIA COLI; SOURCE 7 EXPRESSION_SYSTEM_TAXID: 562; SOURCE 8 MOL_ID: 2; SOURCE 9 ORGANISM_SCIENTIFIC: HOMO SAPIENS; SOURCE 10 ORGANISM_COMMON: HUMAN; SOURCE 11 ORGANISM_TAXID: 9606; SOURCE 12 GENE: CDC42; SOURCE 13 EXPRESSION_SYSTEM: ESCHERICHIA COLI; SOURCE 14 EXPRESSION_SYSTEM_TAXID: 562 KEYWDS TOXIN, SUBSTRATE, ENZYME, HYDROLASE EXPDTA X-RAY DIFFRACTION AUTHOR L.ZHENG,J.RONGSHENG,C.PENG REVDAT 3 18-OCT-23 7S0Y 1 REMARK REVDAT 2 23-MAR-22 7S0Y 1 JRNL REVDAT 1 08-SEP-21 7S0Y 0 JRNL AUTH Z.LIU,S.ZHANG,P.CHEN,S.TIAN,J.ZENG,K.PERRY,M.DONG,R.JIN JRNL TITL STRUCTURAL BASIS FOR SELECTIVE MODIFICATION OF RHO AND RAS JRNL TITL 2 GTPASES BY CLOSTRIDIOIDES DIFFICILE TOXIN B. JRNL REF SCI ADV V. 7 I4582 2021 JRNL REFN ESSN 2375-2548 JRNL PMID 34678063 JRNL DOI 10.1126/SCIADV.ABI4582 REMARK 2 REMARK 2 RESOLUTION. 2.79 ANGSTROMS. REMARK 3 REMARK 3 REFINEMENT. REMARK 3 PROGRAM : REFMAC 5.8.0258 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) : 2.79 REMARK 3 RESOLUTION RANGE LOW (ANGSTROMS) : 92.40 REMARK 3 DATA CUTOFF (SIGMA(F)) : NULL REMARK 3 COMPLETENESS FOR RANGE (%) : 99.9 REMARK 3 NUMBER OF REFLECTIONS : 23173 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) : 0.217 REMARK 3 R VALUE (WORKING SET) : 0.214 REMARK 3 FREE R VALUE : 0.259 REMARK 3 FREE R VALUE TEST SET SIZE (%) : 5.100 REMARK 3 FREE R VALUE TEST SET COUNT : 1241 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) : 2.79 REMARK 3 BIN RESOLUTION RANGE LOW (A) : 2.86 REMARK 3 REFLECTION IN BIN (WORKING SET) : 1715 REMARK 3 BIN COMPLETENESS (WORKING+TEST) (%) : 99.94 REMARK 3 BIN R VALUE (WORKING SET) : 0.2980 REMARK 3 BIN FREE R VALUE SET COUNT : 84 REMARK 3 BIN FREE R VALUE : 0.3720 REMARK 3 REMARK 3 NUMBER OF NON-HYDROGEN ATOMS USED IN REFINEMENT. REMARK 3 PROTEIN ATOMS : 5787 REMARK 3 NUCLEIC ACID ATOMS : 0 REMARK 3 HETEROGEN ATOMS : 110 REMARK 3 SOLVENT ATOMS : 23 REMARK 3 REMARK 3 B VALUES. REMARK 3 FROM WILSON PLOT (A**2) : NULL REMARK 3 MEAN B VALUE (OVERALL, A**2) : 77.17 REMARK 3 OVERALL ANISOTROPIC B VALUE. REMARK 3 B11 (A**2) : -1.82000 REMARK 3 B22 (A**2) : 4.68000 REMARK 3 B33 (A**2) : -2.86000 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): 0.372 REMARK 3 ESU BASED ON MAXIMUM LIKELIHOOD (A): 0.329 REMARK 3 ESU FOR B VALUES BASED ON MAXIMUM LIKELIHOOD (A**2): 17.558 REMARK 3 REMARK 3 CORRELATION COEFFICIENTS. REMARK 3 CORRELATION COEFFICIENT FO-FC : 0.947 REMARK 3 CORRELATION COEFFICIENT FO-FC FREE : 0.935 REMARK 3 REMARK 3 RMS DEVIATIONS FROM IDEAL VALUES COUNT RMS WEIGHT REMARK 3 BOND LENGTHS REFINED ATOMS (A): 5998 ; 0.004 ; 0.013 REMARK 3 BOND LENGTHS OTHERS (A): 5373 ; 0.001 ; 0.017 REMARK 3 BOND ANGLES REFINED ATOMS (DEGREES): 8136 ; 1.310 ; 1.656 REMARK 3 BOND ANGLES OTHERS (DEGREES): 12539 ; 1.159 ; 1.581 REMARK 3 TORSION ANGLES, PERIOD 1 (DEGREES): 720 ; 6.350 ; 5.000 REMARK 3 TORSION ANGLES, PERIOD 2 (DEGREES): 314 ;34.721 ;24.809 REMARK 3 TORSION ANGLES, PERIOD 3 (DEGREES): 1058 ;14.801 ;15.000 REMARK 3 TORSION ANGLES, PERIOD 4 (DEGREES): 20 ;15.100 ;15.000 REMARK 3 CHIRAL-CENTER RESTRAINTS (A**3): 790 ; 0.051 ; 0.200 REMARK 3 GENERAL PLANES REFINED ATOMS (A): 6599 ; 0.004 ; 0.020 REMARK 3 GENERAL PLANES OTHERS (A): 1173 ; 0.001 ; 0.020 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): 2886 ; 4.524 ; 8.255 REMARK 3 MAIN-CHAIN BOND OTHER ATOMS (A**2): 2885 ; 4.512 ; 8.253 REMARK 3 MAIN-CHAIN ANGLE REFINED ATOMS (A**2): 3604 ; 6.994 ;12.378 REMARK 3 MAIN-CHAIN ANGLE OTHER ATOMS (A**2): 3605 ; 6.996 ;12.381 REMARK 3 SIDE-CHAIN BOND REFINED ATOMS (A**2): 3112 ; 4.198 ; 8.573 REMARK 3 SIDE-CHAIN BOND OTHER ATOMS (A**2): 3060 ; 4.124 ; 8.522 REMARK 3 SIDE-CHAIN ANGLE REFINED ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 SIDE-CHAIN ANGLE OTHER ATOMS (A**2): 4454 ; 6.460 ;12.646 REMARK 3 LONG RANGE B REFINED ATOMS (A**2): 6627 ; 9.514 ;95.088 REMARK 3 LONG RANGE B OTHER ATOMS (A**2): 6621 ; 9.517 ;95.104 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 7S0Y COMPLIES WITH FORMAT V. 3.30, 13-JUL-11 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY RCSB ON 01-SEP-21. REMARK 100 THE DEPOSITION ID IS D_1000259391. REMARK 200 REMARK 200 EXPERIMENTAL DETAILS REMARK 200 EXPERIMENT TYPE : X-RAY DIFFRACTION REMARK 200 DATE OF DATA COLLECTION : 12-JUL-18 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 : 24-ID-C REMARK 200 X-RAY GENERATOR MODEL : NULL REMARK 200 MONOCHROMATIC OR LAUE (M/L) : M REMARK 200 WAVELENGTH OR RANGE (A) : 0.97918 REMARK 200 MONOCHROMATOR : NULL REMARK 200 OPTICS : NULL REMARK 200 REMARK 200 DETECTOR TYPE : PIXEL REMARK 200 DETECTOR MANUFACTURER : DECTRIS EIGER X 16M REMARK 200 INTENSITY-INTEGRATION SOFTWARE : XDS REMARK 200 DATA SCALING SOFTWARE : XDS REMARK 200 REMARK 200 NUMBER OF UNIQUE REFLECTIONS : 24433 REMARK 200 RESOLUTION RANGE HIGH (A) : 2.790 REMARK 200 RESOLUTION RANGE LOW (A) : 111.800 REMARK 200 REJECTION CRITERIA (SIGMA(I)) : NULL REMARK 200 REMARK 200 OVERALL. REMARK 200 COMPLETENESS FOR RANGE (%) : 100.0 REMARK 200 DATA REDUNDANCY : 6.700 REMARK 200 R MERGE (I) : 0.06300 REMARK 200 R SYM (I) : NULL REMARK 200 <I/SIGMA(I)> FOR THE DATA SET : 16.9000 REMARK 200 REMARK 200 IN THE HIGHEST RESOLUTION SHELL. REMARK 200 HIGHEST RESOLUTION SHELL, RANGE HIGH (A) : 2.79 REMARK 200 HIGHEST RESOLUTION SHELL, RANGE LOW (A) : 2.94 REMARK 200 COMPLETENESS FOR SHELL (%) : NULL REMARK 200 DATA REDUNDANCY IN SHELL : NULL REMARK 200 R MERGE FOR SHELL (I) : NULL REMARK 200 R SYM FOR SHELL (I) : NULL REMARK 200 <I/SIGMA(I)> FOR SHELL : 2.900 REMARK 200 REMARK 200 DIFFRACTION PROTOCOL: SINGLE WAVELENGTH REMARK 200 METHOD USED TO DETERMINE THE STRUCTURE: MOLECULAR REPLACEMENT REMARK 200 SOFTWARE USED: PHENIX REMARK 200 STARTING MODEL: 2BVM REMARK 200 REMARK 200 REMARK: NULL REMARK 280 REMARK 280 CRYSTAL REMARK 280 SOLVENT CONTENT, VS (%): 57.67 REMARK 280 MATTHEWS COEFFICIENT, VM (ANGSTROMS**3/DA): 2.91 REMARK 280 REMARK 280 CRYSTALLIZATION CONDITIONS: 0.1 M SODIUM CACODYLATE (PH 6.6), 2.4 REMARK 280 M AMMONIUM SULFATE, AND 2.5% (V/V) JEFFAMINE M-600 (PH 7.0), REMARK 280 VAPOR DIFFUSION, HANGING DROP, TEMPERATURE 291K REMARK 290 REMARK 290 CRYSTALLOGRAPHIC SYMMETRY REMARK 290 SYMMETRY OPERATORS FOR SPACE GROUP: C 2 2 21 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 -X,Y,-Z+1/2 REMARK 290 4555 X,-Y,-Z REMARK 290 5555 X+1/2,Y+1/2,Z REMARK 290 6555 -X+1/2,-Y+1/2,Z+1/2 REMARK 290 7555 -X+1/2,Y+1/2,-Z+1/2 REMARK 290 8555 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 55.90150 REMARK 290 SMTRY1 3 -1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY2 3 0.000000 1.000000 0.000000 0.00000 REMARK 290 SMTRY3 3 0.000000 0.000000 -1.000000 55.90150 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 0.00000 REMARK 290 SMTRY1 5 1.000000 0.000000 0.000000 61.17700 REMARK 290 SMTRY2 5 0.000000 1.000000 0.000000 70.47400 REMARK 290 SMTRY3 5 0.000000 0.000000 1.000000 0.00000 REMARK 290 SMTRY1 6 -1.000000 0.000000 0.000000 61.17700 REMARK 290 SMTRY2 6 0.000000 -1.000000 0.000000 70.47400 REMARK 290 SMTRY3 6 0.000000 0.000000 1.000000 55.90150 REMARK 290 SMTRY1 7 -1.000000 0.000000 0.000000 61.17700 REMARK 290 SMTRY2 7 0.000000 1.000000 0.000000 70.47400 REMARK 290 SMTRY3 7 0.000000 0.000000 -1.000000 55.90150 REMARK 290 SMTRY1 8 1.000000 0.000000 0.000000 61.17700 REMARK 290 SMTRY2 8 0.000000 -1.000000 0.000000 70.47400 REMARK 290 SMTRY3 8 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: 6750 ANGSTROM**2 REMARK 350 SURFACE AREA OF THE COMPLEX: 31600 ANGSTROM**2 REMARK 350 CHANGE IN SOLVENT FREE ENERGY: -181.0 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 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 ARG A 6 CG CD NE CZ NH1 NH2 REMARK 470 LYS A 7 CG CD CE NZ REMARK 470 LYS A 65 CG CD CE NZ REMARK 470 GLU A 159 CG CD OE1 OE2 REMARK 470 LEU A 161 CG CD1 CD2 REMARK 470 ASP A 163 CG OD1 OD2 REMARK 470 PHE A 539 CG CD1 CD2 CE1 CE2 CZ REMARK 470 LYS B 2 CG CD CE NZ REMARK 470 LEU B 3 CG CD1 CD2 REMARK 470 ARG B 120 CG CD NE CZ NH1 NH2 REMARK 470 LYS B 150 CG CD CE 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 GLN A 20 95.93 -66.43 REMARK 500 ASN A 36 47.84 -91.74 REMARK 500 ASN A 89 -64.52 -96.42 REMARK 500 ASN A 122 48.36 -144.62 REMARK 500 ALA A 135 29.28 -143.27 REMARK 500 ASP A 163 82.48 -163.48 REMARK 500 ARG A 165 35.62 -148.96 REMARK 500 PHE A 166 60.66 -106.56 REMARK 500 PHE A 298 -7.50 67.15 REMARK 500 GLU A 299 44.19 -82.61 REMARK 500 SER A 300 -40.08 -130.30 REMARK 500 ILE A 359 -51.84 -126.27 REMARK 500 ASN A 440 -165.96 -126.68 REMARK 500 PHE A 484 52.88 36.26 REMARK 500 MET A 489 -59.05 -120.88 REMARK 500 ASP B 38 -70.16 -62.94 REMARK 500 LYS B 96 -61.07 -120.28 REMARK 500 LYS B 163 -71.46 -60.03 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 MN A 601 MN REMARK 620 N RES CSSEQI ATOM REMARK 620 1 ASP A 288 OD2 REMARK 620 2 GLU A 515 OE1 84.0 REMARK 620 3 UDP A 602 O1A 83.7 154.5 REMARK 620 4 UDP A 602 O1B 170.0 105.0 86.3 REMARK 620 5 HOH A 710 O 92.9 78.9 79.5 84.6 REMARK 620 6 HOH A 711 O 82.2 94.0 106.3 101.4 171.8 REMARK 620 N 1 2 3 4 5 REMARK 620 REMARK 620 COORDINATION ANGLES FOR: M RES CSSEQI METAL REMARK 620 MG B 202 MG REMARK 620 N RES CSSEQI ATOM REMARK 620 1 THR B 17 OG1 REMARK 620 2 GDP B 201 O2B 82.5 REMARK 620 3 HOH B 303 O 79.6 90.1 REMARK 620 4 HOH B 304 O 173.9 98.9 106.3 REMARK 620 5 HOH B 305 O 93.0 100.6 166.2 80.9 REMARK 620 6 HOH B 306 O 76.2 158.4 89.6 101.9 77.3 REMARK 620 N 1 2 3 4 5 DBREF 7S0Y A 1 540 UNP P18177 TCDB_CLODI 1 540 DBREF 7S0Y B 4 179 UNP P60953 CDC42_HUMAN 4 179 SEQADV 7S0Y GLY A -1 UNP P18177 EXPRESSION TAG SEQADV 7S0Y GLY A 0 UNP P18177 EXPRESSION TAG SEQADV 7S0Y SER A 395 UNP P18177 CYS 395 CONFLICT SEQADV 7S0Y GLY B 0 UNP P60953 EXPRESSION TAG SEQADV 7S0Y SER B 1 UNP P60953 EXPRESSION TAG SEQADV 7S0Y LYS B 2 UNP P60953 EXPRESSION TAG SEQADV 7S0Y LEU B 3 UNP P60953 EXPRESSION TAG SEQADV 7S0Y ASN B 35 UNP P60953 THR 35 CONFLICT SEQRES 1 A 542 GLY GLY MET SER LEU VAL ASN ARG LYS GLN LEU GLU LYS SEQRES 2 A 542 MET ALA ASN VAL ARG PHE ARG THR GLN GLU ASP GLU TYR SEQRES 3 A 542 VAL ALA ILE LEU ASP ALA LEU GLU GLU TYR HIS ASN MET SEQRES 4 A 542 SER GLU ASN THR VAL VAL GLU LYS TYR LEU LYS LEU LYS SEQRES 5 A 542 ASP ILE ASN SER LEU THR ASP ILE TYR ILE ASP THR TYR SEQRES 6 A 542 LYS LYS SER GLY ARG ASN LYS ALA LEU LYS LYS PHE LYS SEQRES 7 A 542 GLU TYR LEU VAL THR GLU VAL LEU GLU LEU LYS ASN ASN SEQRES 8 A 542 ASN LEU THR PRO VAL GLU LYS ASN LEU HIS PHE VAL TRP SEQRES 9 A 542 ILE GLY GLY GLN ILE ASN ASP THR ALA ILE ASN TYR ILE SEQRES 10 A 542 ASN GLN TRP LYS ASP VAL ASN SER ASP TYR ASN VAL ASN SEQRES 11 A 542 VAL PHE TYR ASP SER ASN ALA PHE LEU ILE ASN THR LEU SEQRES 12 A 542 LYS LYS THR VAL VAL GLU SER ALA ILE ASN ASP THR LEU SEQRES 13 A 542 GLU SER PHE ARG GLU ASN LEU ASN ASP PRO ARG PHE ASP SEQRES 14 A 542 TYR ASN LYS PHE PHE ARG LYS ARG MET GLU ILE ILE TYR SEQRES 15 A 542 ASP LYS GLN LYS ASN PHE ILE ASN TYR TYR LYS ALA GLN SEQRES 16 A 542 ARG GLU GLU ASN PRO GLU LEU ILE ILE ASP ASP ILE VAL SEQRES 17 A 542 LYS THR TYR LEU SER ASN GLU TYR SER LYS GLU ILE ASP SEQRES 18 A 542 GLU LEU ASN THR TYR ILE GLU GLU SER LEU ASN LYS ILE SEQRES 19 A 542 THR GLN ASN SER GLY ASN ASP VAL ARG ASN PHE GLU GLU SEQRES 20 A 542 PHE LYS ASN GLY GLU SER PHE ASN LEU TYR GLU GLN GLU SEQRES 21 A 542 LEU VAL GLU ARG TRP ASN LEU ALA ALA ALA SER ASP ILE SEQRES 22 A 542 LEU ARG ILE SER ALA LEU LYS GLU ILE GLY GLY MET TYR SEQRES 23 A 542 LEU ASP VAL ASP MET LEU PRO GLY ILE GLN PRO ASP LEU SEQRES 24 A 542 PHE GLU SER ILE GLU LYS PRO SER SER VAL THR VAL ASP SEQRES 25 A 542 PHE TRP GLU MET THR LYS LEU GLU ALA ILE MET LYS TYR SEQRES 26 A 542 LYS GLU TYR ILE PRO GLU TYR THR SER GLU HIS PHE ASP SEQRES 27 A 542 MET LEU ASP GLU GLU VAL GLN SER SER PHE GLU SER VAL SEQRES 28 A 542 LEU ALA SER LYS SER ASP LYS SER GLU ILE PHE SER SER SEQRES 29 A 542 LEU GLY ASP MET GLU ALA SER PRO LEU GLU VAL LYS ILE SEQRES 30 A 542 ALA PHE ASN SER LYS GLY ILE ILE ASN GLN GLY LEU ILE SEQRES 31 A 542 SER VAL LYS ASP SER TYR SER SER ASN LEU ILE VAL LYS SEQRES 32 A 542 GLN ILE GLU ASN ARG TYR LYS ILE LEU ASN ASN SER LEU SEQRES 33 A 542 ASN PRO ALA ILE SER GLU ASP ASN ASP PHE ASN THR THR SEQRES 34 A 542 THR ASN THR PHE ILE ASP SER ILE MET ALA GLU ALA ASN SEQRES 35 A 542 ALA ASP ASN GLY ARG PHE MET MET GLU LEU GLY LYS TYR SEQRES 36 A 542 LEU ARG VAL GLY PHE PHE PRO ASP VAL LYS THR THR ILE SEQRES 37 A 542 ASN LEU SER GLY PRO GLU ALA TYR ALA ALA ALA TYR GLN SEQRES 38 A 542 ASP LEU LEU MET PHE LYS GLU GLY SER MET ASN ILE HIS SEQRES 39 A 542 LEU ILE GLU ALA ASP LEU ARG ASN PHE GLU ILE SER LYS SEQRES 40 A 542 THR ASN ILE SER GLN SER THR GLU GLN GLU MET ALA SER SEQRES 41 A 542 LEU TRP SER PHE ASP ASP ALA ARG ALA LYS ALA GLN PHE SEQRES 42 A 542 GLU GLU TYR LYS ARG ASN TYR PHE GLU SEQRES 1 B 180 GLY SER LYS LEU ILE LYS CYS VAL VAL VAL GLY ASP GLY SEQRES 2 B 180 ALA VAL GLY LYS THR CYS LEU LEU ILE SER TYR THR THR SEQRES 3 B 180 ASN LYS PHE PRO SER GLU TYR VAL PRO ASN VAL PHE ASP SEQRES 4 B 180 ASN TYR ALA VAL THR VAL MET ILE GLY GLY GLU PRO TYR SEQRES 5 B 180 THR LEU GLY LEU PHE ASP THR ALA GLY GLN GLU ASP TYR SEQRES 6 B 180 ASP ARG LEU ARG PRO LEU SER TYR PRO GLN THR ASP VAL SEQRES 7 B 180 PHE LEU VAL CYS PHE SER VAL VAL SER PRO SER SER PHE SEQRES 8 B 180 GLU ASN VAL LYS GLU LYS TRP VAL PRO GLU ILE THR HIS SEQRES 9 B 180 HIS CYS PRO LYS THR PRO PHE LEU LEU VAL GLY THR GLN SEQRES 10 B 180 ILE ASP LEU ARG ASP ASP PRO SER THR ILE GLU LYS LEU SEQRES 11 B 180 ALA LYS ASN LYS GLN LYS PRO ILE THR PRO GLU THR ALA SEQRES 12 B 180 GLU LYS LEU ALA ARG ASP LEU LYS ALA VAL LYS TYR VAL SEQRES 13 B 180 GLU CYS SER ALA LEU THR GLN LYS GLY LEU LYS ASN VAL SEQRES 14 B 180 PHE ASP GLU ALA ILE LEU ALA ALA LEU GLU PRO HET MN A 601 1 HET UDP A 602 25 HET SO4 A 603 5 HET SO4 A 604 5 HET SO4 A 605 5 HET SO4 A 606 5 HET SO4 A 607 5 HET SO4 A 608 5 HET SO4 A 609 5 HET SO4 A 610 5 HET SO4 A 611 5 HET GDP B 201 28 HET MG B 202 1 HET SO4 B 203 5 HET SO4 B 204 5 HETNAM MN MANGANESE (II) ION HETNAM UDP URIDINE-5'-DIPHOSPHATE HETNAM SO4 SULFATE ION HETNAM GDP GUANOSINE-5'-DIPHOSPHATE HETNAM MG MAGNESIUM ION FORMUL 3 MN MN 2+ FORMUL 4 UDP C9 H14 N2 O12 P2 FORMUL 5 SO4 11(O4 S 2-) FORMUL 14 GDP C10 H15 N5 O11 P2 FORMUL 15 MG MG 2+ FORMUL 18 HOH *23(H2 O) HELIX 1 AA1 ASN A 5 ASN A 14 1 10 HELIX 2 AA2 GLU A 21 ASN A 36 1 16 HELIX 3 AA3 THR A 41 TYR A 63 1 23 HELIX 4 AA4 ARG A 68 ASN A 90 1 23 HELIX 5 AA5 ASN A 108 ASP A 120 1 13 HELIX 6 AA6 LEU A 137 GLU A 159 1 23 HELIX 7 AA7 ASP A 167 ASN A 197 1 31 HELIX 8 AA8 ILE A 201 SER A 215 1 15 HELIX 9 AA9 GLU A 217 THR A 233 1 17 HELIX 10 AB1 PHE A 243 GLY A 249 1 7 HELIX 11 AB2 SER A 251 GLU A 261 1 11 HELIX 12 AB3 ASN A 264 GLY A 281 1 18 HELIX 13 AB4 THR A 308 GLU A 325 1 18 HELIX 14 AB5 HIS A 334 LEU A 338 5 5 HELIX 15 AB6 ASP A 339 SER A 352 1 14 HELIX 16 AB7 ASP A 355 ILE A 359 5 5 HELIX 17 AB8 SER A 393 SER A 419 1 27 HELIX 18 AB9 ASP A 423 ALA A 439 1 17 HELIX 19 AC1 ASN A 443 GLY A 451 1 9 HELIX 20 AC2 LYS A 452 VAL A 456 5 5 HELIX 21 AC3 LYS A 463 SER A 469 1 7 HELIX 22 AC4 GLY A 470 MET A 483 1 14 HELIX 23 AC5 ILE A 494 ARG A 499 1 6 HELIX 24 AC6 ASN A 500 GLU A 502 5 3 HELIX 25 AC7 ASP A 523 GLU A 540 1 18 HELIX 26 AC8 GLY B 15 ASN B 26 1 12 HELIX 27 AC9 GLN B 61 ASP B 65 5 5 HELIX 28 AD1 LEU B 67 TYR B 72 5 6 HELIX 29 AD2 SER B 86 LYS B 96 1 11 HELIX 30 AD3 LYS B 96 CYS B 105 1 10 HELIX 31 AD4 GLN B 116 ARG B 120 5 5 HELIX 32 AD5 ASP B 122 ALA B 130 1 9 HELIX 33 AD6 THR B 138 LEU B 149 1 12 HELIX 34 AD7 GLY B 164 ALA B 176 1 13 SHEET 1 AA1 2 THR A 92 PRO A 93 0 SHEET 2 AA1 2 GLU A 367 ALA A 368 -1 O ALA A 368 N THR A 92 SHEET 1 AA2 6 GLY A 237 ASP A 239 0 SHEET 2 AA2 6 ASN A 126 TYR A 131 1 N VAL A 129 O ASN A 238 SHEET 3 AA2 6 ASN A 97 VAL A 101 1 N PHE A 100 O ASN A 128 SHEET 4 AA2 6 GLY A 282 LEU A 285 1 O MET A 283 N ASN A 97 SHEET 5 AA2 6 GLY A 381 SER A 389 -1 O SER A 389 N GLY A 282 SHEET 6 AA2 6 VAL A 373 ASN A 378 -1 N ASN A 378 O GLY A 381 SHEET 1 AA3 2 LEU A 290 PRO A 291 0 SHEET 2 AA3 2 ILE A 508 SER A 509 -1 O SER A 509 N LEU A 290 SHEET 1 AA4 6 ALA B 41 ILE B 46 0 SHEET 2 AA4 6 GLU B 49 PHE B 56 -1 O LEU B 53 N VAL B 42 SHEET 3 AA4 6 LYS B 2 GLY B 10 1 N CYS B 6 O GLY B 54 SHEET 4 AA4 6 VAL B 77 SER B 83 1 O LEU B 79 N VAL B 9 SHEET 5 AA4 6 PHE B 110 THR B 115 1 O VAL B 113 N VAL B 80 SHEET 6 AA4 6 TYR B 154 GLU B 156 1 O VAL B 155 N GLY B 114 LINK OD2 ASP A 288 MN MN A 601 1555 1555 2.10 LINK OE1 GLU A 515 MN MN A 601 1555 1555 2.28 LINK MN MN A 601 O1A UDP A 602 1555 1555 1.98 LINK MN MN A 601 O1B UDP A 602 1555 1555 2.06 LINK MN MN A 601 O HOH A 710 1555 1555 2.01 LINK MN MN A 601 O HOH A 711 1555 1555 2.42 LINK OG1 THR B 17 MG MG B 202 1555 1555 2.24 LINK O2B GDP B 201 MG MG B 202 1555 1555 2.20 LINK MG MG B 202 O HOH B 303 1555 1555 1.86 LINK MG MG B 202 O HOH B 304 1555 1555 1.95 LINK MG MG B 202 O HOH B 305 1555 1555 1.77 LINK MG MG B 202 O HOH B 306 1555 1555 2.44 CRYST1 122.354 140.948 111.803 90.00 90.00 90.00 C 2 2 21 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 0.008173 0.000000 0.000000 0.00000 SCALE2 0.000000 0.007095 0.000000 0.00000 SCALE3 0.000000 0.000000 0.008944 0.00000