HEADER SIGNALING PROTEIN 10-SEP-08 3EG5 TITLE CRYSTAL STRUCTURE OF MDIA1-TSH GBD-FH3 IN COMPLEX WITH CDC42-GMPPNP COMPND MOL_ID: 1; COMPND 2 MOLECULE: CELL DIVISION CONTROL PROTEIN 42 HOMOLOG; COMPND 3 CHAIN: A, C; COMPND 4 FRAGMENT: UNP RESIDUES 1-178; COMPND 5 SYNONYM: G25K GTP-BINDING PROTEIN; COMPND 6 ENGINEERED: YES; COMPND 7 MOL_ID: 2; COMPND 8 MOLECULE: PROTEIN DIAPHANOUS HOMOLOG 1; COMPND 9 CHAIN: B, D; COMPND 10 FRAGMENT: MDIAN-TSH, UNP RESIDUES 69-451; COMPND 11 SYNONYM: DIAPHANOUS-RELATED FORMIN-1, DRF1, P140MDIA, MDIA1; COMPND 12 ENGINEERED: YES; COMPND 13 MUTATION: YES SOURCE MOL_ID: 1; SOURCE 2 ORGANISM_SCIENTIFIC: MUS MUSCULUS; SOURCE 3 ORGANISM_COMMON: MOUSE; SOURCE 4 ORGANISM_TAXID: 10090; SOURCE 5 STRAIN: MUS MUSCULUS; SOURCE 6 GENE: CDC42; SOURCE 7 EXPRESSION_SYSTEM: ESCHERICHIA COLI; SOURCE 8 EXPRESSION_SYSTEM_TAXID: 562; SOURCE 9 EXPRESSION_SYSTEM_STRAIN: BL21(DE3); SOURCE 10 EXPRESSION_SYSTEM_VECTOR_TYPE: PGEX-4T1; SOURCE 11 EXPRESSION_SYSTEM_PLASMID: CDC42-1-178-PGEX-4T1; SOURCE 12 MOL_ID: 2; SOURCE 13 ORGANISM_SCIENTIFIC: MUS MUSCULUS; SOURCE 14 ORGANISM_COMMON: MOUSE; SOURCE 15 ORGANISM_TAXID: 10090; SOURCE 16 STRAIN: MUS MUSCULUS; SOURCE 17 GENE: DIAPH1; SOURCE 18 EXPRESSION_SYSTEM: ESCHERICHIA COLI; SOURCE 19 EXPRESSION_SYSTEM_TAXID: 562; SOURCE 20 EXPRESSION_SYSTEM_STRAIN: BL21(DE3); SOURCE 21 EXPRESSION_SYSTEM_VECTOR_TYPE: PGEX-4T1; SOURCE 22 EXPRESSION_SYSTEM_PLASMID: MDIAN-TSH-PGEX-4T1 KEYWDS PROTEIN-PROTEIN COMPLEX, RHO PROTEINS, DIAPHANOUS, FORMINS, ARMADILLO KEYWDS 2 REPEAT, G-PROTEIN, GTPASE, ALTERNATIVE SPLICING, CELL MEMBRANE, GTP- KEYWDS 3 BINDING, LIPOPROTEIN, MEMBRANE, METHYLATION, NUCLEOTIDE-BINDING, KEYWDS 4 PRENYLATION, ACTIN-BINDING, CELL PROJECTION, COILED COIL, CYTOPLASM, KEYWDS 5 CYTOSKELETON, PHOSPHOPROTEIN, UBL CONJUGATION, SIGNALING PROTEIN EXPDTA X-RAY DIFFRACTION AUTHOR M.LAMMERS,S.MEYER,D.KUEHLMANN,A.WITTINGHOFER REVDAT 4 01-NOV-23 3EG5 1 REMARK REVDAT 3 10-NOV-21 3EG5 1 REMARK SEQADV LINK REVDAT 2 13-JAN-09 3EG5 1 JRNL VERSN REVDAT 1 14-OCT-08 3EG5 0 JRNL AUTH M.LAMMERS,S.MEYER,D.KUHLMANN,A.WITTINGHOFER JRNL TITL SPECIFICITY OF INTERACTIONS BETWEEN MDIA ISOFORMS AND RHO JRNL TITL 2 PROTEINS JRNL REF J.BIOL.CHEM. V. 283 35236 2008 JRNL REFN ISSN 0021-9258 JRNL PMID 18829452 JRNL DOI 10.1074/JBC.M805634200 REMARK 2 REMARK 2 RESOLUTION. 2.70 ANGSTROMS. REMARK 3 REMARK 3 REFINEMENT. REMARK 3 PROGRAM : REFMAC 5.2.0019 REMARK 3 AUTHORS : MURSHUDOV,SKUBAK,LEBEDEV,PANNU,STEINER, REMARK 3 : NICHOLLS,WINN,LONG,VAGIN REMARK 3 REMARK 3 REFINEMENT TARGET : MAXIMUM LIKELIHOOD REMARK 3 REMARK 3 DATA USED IN REFINEMENT. REMARK 3 RESOLUTION RANGE HIGH (ANGSTROMS) : 2.70 REMARK 3 RESOLUTION RANGE LOW (ANGSTROMS) : 43.47 REMARK 3 DATA CUTOFF (SIGMA(F)) : NULL REMARK 3 COMPLETENESS FOR RANGE (%) : 99.5 REMARK 3 NUMBER OF REFLECTIONS : 36130 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) : 0.208 REMARK 3 R VALUE (WORKING SET) : 0.206 REMARK 3 FREE R VALUE : 0.243 REMARK 3 FREE R VALUE TEST SET SIZE (%) : 5.000 REMARK 3 FREE R VALUE TEST SET COUNT : 1908 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) : 2.70 REMARK 3 BIN RESOLUTION RANGE LOW (A) : 2.77 REMARK 3 REFLECTION IN BIN (WORKING SET) : 2693 REMARK 3 BIN COMPLETENESS (WORKING+TEST) (%) : 99.86 REMARK 3 BIN R VALUE (WORKING SET) : 0.2870 REMARK 3 BIN FREE R VALUE SET COUNT : 125 REMARK 3 BIN FREE R VALUE : 0.3060 REMARK 3 REMARK 3 NUMBER OF NON-HYDROGEN ATOMS USED IN REFINEMENT. REMARK 3 PROTEIN ATOMS : 8228 REMARK 3 NUCLEIC ACID ATOMS : 0 REMARK 3 HETEROGEN ATOMS : 66 REMARK 3 SOLVENT ATOMS : 47 REMARK 3 REMARK 3 B VALUES. REMARK 3 FROM WILSON PLOT (A**2) : NULL REMARK 3 MEAN B VALUE (OVERALL, A**2) : 53.03 REMARK 3 OVERALL ANISOTROPIC B VALUE. REMARK 3 B11 (A**2) : 0.19000 REMARK 3 B22 (A**2) : 0.19000 REMARK 3 B33 (A**2) : -0.28000 REMARK 3 B12 (A**2) : 0.09000 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): 0.986 REMARK 3 ESU BASED ON FREE R VALUE (A): 0.322 REMARK 3 ESU BASED ON MAXIMUM LIKELIHOOD (A): 0.248 REMARK 3 ESU FOR B VALUES BASED ON MAXIMUM LIKELIHOOD (A**2): 25.101 REMARK 3 REMARK 3 CORRELATION COEFFICIENTS. REMARK 3 CORRELATION COEFFICIENT FO-FC : 0.935 REMARK 3 CORRELATION COEFFICIENT FO-FC FREE : 0.912 REMARK 3 REMARK 3 RMS DEVIATIONS FROM IDEAL VALUES COUNT RMS WEIGHT REMARK 3 BOND LENGTHS REFINED ATOMS (A): 8428 ; 0.007 ; 0.022 REMARK 3 BOND LENGTHS OTHERS (A): NULL ; NULL ; NULL REMARK 3 BOND ANGLES REFINED ATOMS (DEGREES): 11400 ; 1.104 ; 1.998 REMARK 3 BOND ANGLES OTHERS (DEGREES): NULL ; NULL ; NULL REMARK 3 TORSION ANGLES, PERIOD 1 (DEGREES): 1022 ; 5.023 ; 5.000 REMARK 3 TORSION ANGLES, PERIOD 2 (DEGREES): 386 ;36.536 ;24.922 REMARK 3 TORSION ANGLES, PERIOD 3 (DEGREES): 1592 ;17.867 ;15.000 REMARK 3 TORSION ANGLES, PERIOD 4 (DEGREES): 52 ;15.034 ;15.000 REMARK 3 CHIRAL-CENTER RESTRAINTS (A**3): 1322 ; 0.072 ; 0.200 REMARK 3 GENERAL PLANES REFINED ATOMS (A): 6180 ; 0.003 ; 0.020 REMARK 3 GENERAL PLANES OTHERS (A): NULL ; NULL ; NULL REMARK 3 NON-BONDED CONTACTS REFINED ATOMS (A): 3859 ; 0.203 ; 0.200 REMARK 3 NON-BONDED CONTACTS OTHERS (A): NULL ; NULL ; NULL REMARK 3 NON-BONDED TORSION REFINED ATOMS (A): 5858 ; 0.298 ; 0.200 REMARK 3 NON-BONDED TORSION OTHERS (A): NULL ; NULL ; NULL REMARK 3 H-BOND (X...Y) REFINED ATOMS (A): 230 ; 0.143 ; 0.200 REMARK 3 H-BOND (X...Y) OTHERS (A): NULL ; NULL ; NULL REMARK 3 POTENTIAL METAL-ION REFINED ATOMS (A): 4 ; 0.068 ; 0.200 REMARK 3 POTENTIAL METAL-ION OTHERS (A): NULL ; NULL ; NULL REMARK 3 SYMMETRY VDW REFINED ATOMS (A): 116 ; 0.180 ; 0.200 REMARK 3 SYMMETRY VDW OTHERS (A): NULL ; NULL ; NULL REMARK 3 SYMMETRY H-BOND REFINED ATOMS (A): 2 ; 0.333 ; 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): 5298 ; 0.347 ; 1.500 REMARK 3 MAIN-CHAIN BOND OTHER ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 MAIN-CHAIN ANGLE REFINED ATOMS (A**2): 8360 ; 0.598 ; 2.000 REMARK 3 MAIN-CHAIN ANGLE OTHER ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 SIDE-CHAIN BOND REFINED ATOMS (A**2): 3467 ; 0.828 ; 3.000 REMARK 3 SIDE-CHAIN BOND OTHER ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 SIDE-CHAIN ANGLE REFINED ATOMS (A**2): 3040 ; 1.411 ; 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 : 2 REMARK 3 REMARK 3 NCS GROUP NUMBER : 1 REMARK 3 CHAIN NAMES : A C REMARK 3 NUMBER OF COMPONENTS NCS GROUP : 1 REMARK 3 COMPONENT C SSSEQI TO C SSSEQI CODE REMARK 3 1 A 1 A 178 1 REMARK 3 1 C 1 C 178 1 REMARK 3 GROUP CHAIN COUNT RMS WEIGHT REMARK 3 TIGHT POSITIONAL 1 A (A): 1391 ; 0.01 ; 0.05 REMARK 3 TIGHT THERMAL 1 A (A**2): 1391 ; 0.02 ; 0.50 REMARK 3 REMARK 3 NCS GROUP NUMBER : 2 REMARK 3 CHAIN NAMES : B D REMARK 3 NUMBER OF COMPONENTS NCS GROUP : 1 REMARK 3 COMPONENT C SSSEQI TO C SSSEQI CODE REMARK 3 1 B 83 B 435 1 REMARK 3 1 D 83 D 435 1 REMARK 3 GROUP CHAIN COUNT RMS WEIGHT REMARK 3 TIGHT POSITIONAL 2 B (A): 2723 ; 0.01 ; 0.05 REMARK 3 TIGHT THERMAL 2 B (A**2): 2723 ; 0.02 ; 0.50 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 3EG5 COMPLIES WITH FORMAT V. 3.30, 13-JUL-11 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY PDBJ ON 12-SEP-08. REMARK 100 THE DEPOSITION ID IS D_1000049281. REMARK 200 REMARK 200 EXPERIMENTAL DETAILS REMARK 200 EXPERIMENT TYPE : X-RAY DIFFRACTION REMARK 200 DATE OF DATA COLLECTION : 25-APR-07 REMARK 200 TEMPERATURE (KELVIN) : 100 REMARK 200 PH : 8.8 REMARK 200 NUMBER OF CRYSTALS USED : 1 REMARK 200 REMARK 200 SYNCHROTRON (Y/N) : Y REMARK 200 RADIATION SOURCE : SLS REMARK 200 BEAMLINE : X10SA REMARK 200 X-RAY GENERATOR MODEL : NULL REMARK 200 MONOCHROMATIC OR LAUE (M/L) : M REMARK 200 WAVELENGTH OR RANGE (A) : 0.9763 REMARK 200 MONOCHROMATOR : SAGITALLY - HORIZONTALLY FOCUSED REMARK 200 SI(111) MONOCHROMATOR REMARK 200 OPTICS : MIRRORS REMARK 200 REMARK 200 DETECTOR TYPE : CCD REMARK 200 DETECTOR MANUFACTURER : MAR CCD 165 MM REMARK 200 INTENSITY-INTEGRATION SOFTWARE : XDS REMARK 200 DATA SCALING SOFTWARE : XDS REMARK 200 REMARK 200 NUMBER OF UNIQUE REFLECTIONS : 38038 REMARK 200 RESOLUTION RANGE HIGH (A) : 2.700 REMARK 200 RESOLUTION RANGE LOW (A) : 43.478 REMARK 200 REJECTION CRITERIA (SIGMA(I)) : NULL REMARK 200 REMARK 200 OVERALL. REMARK 200 COMPLETENESS FOR RANGE (%) : 99.5 REMARK 200 DATA REDUNDANCY : 3.200 REMARK 200 R MERGE (I) : 0.07400 REMARK 200 R SYM (I) : 0.08400 REMARK 200 FOR THE DATA SET : 13.5200 REMARK 200 REMARK 200 IN THE HIGHEST RESOLUTION SHELL. REMARK 200 HIGHEST RESOLUTION SHELL, RANGE HIGH (A) : 2.70 REMARK 200 HIGHEST RESOLUTION SHELL, RANGE LOW (A) : 2.80 REMARK 200 COMPLETENESS FOR SHELL (%) : 99.8 REMARK 200 DATA REDUNDANCY IN SHELL : 3.20 REMARK 200 R MERGE FOR SHELL (I) : 0.38100 REMARK 200 R SYM FOR SHELL (I) : 0.33300 REMARK 200 FOR SHELL : 3.690 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 1Z2C REMARK 200 REMARK 200 REMARK: NULL REMARK 280 REMARK 280 CRYSTAL REMARK 280 SOLVENT CONTENT, VS (%): 56.15 REMARK 280 MATTHEWS COEFFICIENT, VM (ANGSTROMS**3/DA): 2.81 REMARK 280 REMARK 280 CRYSTALLIZATION CONDITIONS: BIS-TRIS-PROPANE (PH 8.8 ADJUSTED WITH REMARK 280 CITRIC ACID), 26% (W/V) PEG 3350, 250MM NA-TARTRATE, VAPOR REMARK 280 DIFFUSION, HANGING DROP, TEMPERATURE 293K REMARK 290 REMARK 290 CRYSTALLOGRAPHIC SYMMETRY REMARK 290 SYMMETRY OPERATORS FOR SPACE GROUP: P 32 REMARK 290 REMARK 290 SYMOP SYMMETRY REMARK 290 NNNMMM OPERATOR REMARK 290 1555 X,Y,Z REMARK 290 2555 -Y,X-Y,Z+2/3 REMARK 290 3555 -X+Y,-X,Z+1/3 REMARK 290 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 163.30933 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 81.65467 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: TETRAMERIC REMARK 350 APPLY THE FOLLOWING TO CHAINS: A, B, C, D 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 ASP B 69 REMARK 465 PRO B 70 REMARK 465 THR B 71 REMARK 465 ALA B 72 REMARK 465 GLN B 73 REMARK 465 SER B 74 REMARK 465 LEU B 75 REMARK 465 GLN B 76 REMARK 465 ASP B 77 REMARK 465 ILE B 78 REMARK 465 SER B 79 REMARK 465 ASP B 80 REMARK 465 GLU B 81 REMARK 465 GLN B 82 REMARK 465 LYS B 124 REMARK 465 ALA B 125 REMARK 465 GLY B 126 REMARK 465 MET B 127 REMARK 465 ASN B 128 REMARK 465 GLN B 129 REMARK 465 LYS B 130 REMARK 465 GLU B 131 REMARK 465 SER B 132 REMARK 465 GLU B 194 REMARK 465 GLU B 195 REMARK 465 THR B 196 REMARK 465 SER B 197 REMARK 465 GLY B 198 REMARK 465 ASN B 199 REMARK 465 TYR B 200 REMARK 465 LYS B 436 REMARK 465 ASN B 437 REMARK 465 GLY B 438 REMARK 465 THR B 439 REMARK 465 ASP B 440 REMARK 465 PRO B 441 REMARK 465 ASP B 442 REMARK 465 PHE B 443 REMARK 465 LYS B 444 REMARK 465 CYS B 445 REMARK 465 ARG B 446 REMARK 465 HIS B 447 REMARK 465 LEU B 448 REMARK 465 GLN B 449 REMARK 465 ILE B 450 REMARK 465 ASP B 451 REMARK 465 ASP D 69 REMARK 465 PRO D 70 REMARK 465 THR D 71 REMARK 465 ALA D 72 REMARK 465 GLN D 73 REMARK 465 SER D 74 REMARK 465 LEU D 75 REMARK 465 GLN D 76 REMARK 465 ASP D 77 REMARK 465 ILE D 78 REMARK 465 SER D 79 REMARK 465 ASP D 80 REMARK 465 GLU D 81 REMARK 465 GLN D 82 REMARK 465 LYS D 124 REMARK 465 ALA D 125 REMARK 465 GLY D 126 REMARK 465 MET D 127 REMARK 465 ASN D 128 REMARK 465 GLN D 129 REMARK 465 LYS D 130 REMARK 465 GLU D 131 REMARK 465 SER D 132 REMARK 465 GLU D 194 REMARK 465 GLU D 195 REMARK 465 THR D 196 REMARK 465 SER D 197 REMARK 465 GLY D 198 REMARK 465 ASN D 199 REMARK 465 TYR D 200 REMARK 465 LYS D 436 REMARK 465 ASN D 437 REMARK 465 GLY D 438 REMARK 465 THR D 439 REMARK 465 ASP D 440 REMARK 465 PRO D 441 REMARK 465 ASP D 442 REMARK 465 PHE D 443 REMARK 465 LYS D 444 REMARK 465 CYS D 445 REMARK 465 ARG D 446 REMARK 465 HIS D 447 REMARK 465 LEU D 448 REMARK 465 GLN D 449 REMARK 465 ILE D 450 REMARK 465 ASP D 451 REMARK 500 REMARK 500 GEOMETRY AND STEREOCHEMISTRY REMARK 500 SUBTOPIC: TORSION ANGLES REMARK 500 REMARK 500 TORSION ANGLES OUTSIDE THE EXPECTED RAMACHANDRAN REGIONS: REMARK 500 (M=MODEL NUMBER; RES=RESIDUE NAME; C=CHAIN IDENTIFIER; REMARK 500 SSEQ=SEQUENCE NUMBER; I=INSERTION CODE). REMARK 500 REMARK 500 STANDARD TABLE: REMARK 500 FORMAT:(10X,I3,1X,A3,1X,A1,I4,A1,4X,F7.2,3X,F7.2) REMARK 500 REMARK 500 EXPECTED VALUES: GJ KLEYWEGT AND TA JONES (1996). PHI/PSI- REMARK 500 CHOLOGY: RAMACHANDRAN REVISITED. STRUCTURE 4, 1395 - 1400 REMARK 500 REMARK 500 M RES CSSEQI PSI PHI REMARK 500 ASP A 11 157.21 -46.15 REMARK 500 ASP B 149 -122.11 41.50 REMARK 500 ASP B 265 39.61 70.32 REMARK 500 ASP C 11 156.63 -46.26 REMARK 500 ASP D 149 -121.42 42.18 REMARK 500 ASP D 265 39.37 70.33 REMARK 500 REMARK 500 REMARK: NULL REMARK 620 REMARK 620 METAL COORDINATION REMARK 620 (M=MODEL NUMBER; RES=RESIDUE NAME; C=CHAIN IDENTIFIER; REMARK 620 SSEQ=SEQUENCE NUMBER; I=INSERTION CODE): REMARK 620 REMARK 620 COORDINATION ANGLES FOR: M RES CSSEQI METAL REMARK 620 MG A 180 MG REMARK 620 N RES CSSEQI ATOM REMARK 620 1 THR A 17 OG1 REMARK 620 2 THR A 35 OG1 105.1 REMARK 620 3 GNP A 179 O2G 149.1 74.7 REMARK 620 4 GNP A 179 O2B 97.0 156.0 81.5 REMARK 620 5 HOH A 181 O 109.0 79.7 101.5 102.2 REMARK 620 6 HOH A 194 O 83.9 95.1 65.5 77.8 166.9 REMARK 620 N 1 2 3 4 5 REMARK 620 REMARK 620 COORDINATION ANGLES FOR: M RES CSSEQI METAL REMARK 620 MG C 180 MG REMARK 620 N RES CSSEQI ATOM REMARK 620 1 THR C 17 OG1 REMARK 620 2 THR C 35 OG1 106.2 REMARK 620 3 GNP C 179 O2G 149.8 74.6 REMARK 620 4 GNP C 179 O2B 97.1 155.1 80.8 REMARK 620 5 HOH C 181 O 112.7 81.8 97.4 97.3 REMARK 620 6 HOH C 185 O 83.1 95.8 66.9 78.3 164.2 REMARK 620 N 1 2 3 4 5 REMARK 800 REMARK 800 SITE REMARK 800 SITE_IDENTIFIER: AC1 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE GNP A 179 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC2 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE MG A 180 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC3 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE GNP C 179 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC4 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE MG C 180 REMARK 900 REMARK 900 RELATED ENTRIES REMARK 900 RELATED ID: 1Z2C RELATED DB: PDB REMARK 900 CRYSTAL STRUCTURE OF MDIA1 GBD-FH3 IN COMPLEX WITH RHOC-GMPPNP REMARK 900 RELATED ID: 2BAP RELATED DB: PDB REMARK 900 CRYSTAL STRUCTURE OF THE N-TERMINAL MDIA1 ARMADILLO REPEAT REGION REMARK 900 AND DIMERISATION DOMAIN IN COMPLEX WITH THE MDIA1 AUTOREGULATORY REMARK 900 DOMAIN (DAD) DBREF 3EG5 A 1 178 UNP P60766 CDC42_MOUSE 1 178 DBREF 3EG5 B 69 451 UNP O08808 DIAP1_MOUSE 69 451 DBREF 3EG5 C 1 178 UNP P60766 CDC42_MOUSE 1 178 DBREF 3EG5 D 69 451 UNP O08808 DIAP1_MOUSE 69 451 SEQADV 3EG5 THR B 164 UNP O08808 ASN 164 ENGINEERED MUTATION SEQADV 3EG5 SER B 165 UNP O08808 ASN 165 ENGINEERED MUTATION SEQADV 3EG5 HIS B 166 UNP O08808 ASN 166 ENGINEERED MUTATION SEQADV 3EG5 THR D 164 UNP O08808 ASN 164 ENGINEERED MUTATION SEQADV 3EG5 SER D 165 UNP O08808 ASN 165 ENGINEERED MUTATION SEQADV 3EG5 HIS D 166 UNP O08808 ASN 166 ENGINEERED MUTATION SEQRES 1 A 178 MET GLN THR ILE LYS CYS VAL VAL VAL GLY ASP GLY ALA SEQRES 2 A 178 VAL GLY LYS THR CYS LEU LEU ILE SER TYR THR THR ASN SEQRES 3 A 178 LYS PHE PRO SER GLU TYR VAL PRO THR VAL PHE ASP ASN SEQRES 4 A 178 TYR ALA VAL THR VAL MET ILE GLY GLY GLU PRO TYR THR SEQRES 5 A 178 LEU GLY LEU PHE ASP THR ALA GLY GLN GLU ASP TYR ASP SEQRES 6 A 178 ARG LEU ARG PRO LEU SER TYR PRO GLN THR ASP VAL PHE SEQRES 7 A 178 LEU VAL CYS PHE SER VAL VAL SER PRO SER SER PHE GLU SEQRES 8 A 178 ASN VAL LYS GLU LYS TRP VAL PRO GLU ILE THR HIS HIS SEQRES 9 A 178 CYS PRO LYS THR PRO PHE LEU LEU VAL GLY THR GLN ILE SEQRES 10 A 178 ASP LEU ARG ASP ASP PRO SER THR ILE GLU LYS LEU ALA SEQRES 11 A 178 LYS ASN LYS GLN LYS PRO ILE THR PRO GLU THR ALA GLU SEQRES 12 A 178 LYS LEU ALA ARG ASP LEU LYS ALA VAL LYS TYR VAL GLU SEQRES 13 A 178 CYS SER ALA LEU THR GLN ARG GLY LEU LYS ASN VAL PHE SEQRES 14 A 178 ASP GLU ALA ILE LEU ALA ALA LEU GLU SEQRES 1 B 383 ASP PRO THR ALA GLN SER LEU GLN ASP ILE SER ASP GLU SEQRES 2 B 383 GLN VAL LEU VAL LEU PHE GLU GLN MET LEU VAL ASP MET SEQRES 3 B 383 ASN LEU ASN GLU GLU LYS GLN GLN PRO LEU ARG GLU LYS SEQRES 4 B 383 ASP ILE VAL ILE LYS ARG GLU MET VAL SER GLN TYR LEU SEQRES 5 B 383 HIS THR SER LYS ALA GLY MET ASN GLN LYS GLU SER SER SEQRES 6 B 383 ARG SER ALA MET MET TYR ILE GLN GLU LEU ARG SER GLY SEQRES 7 B 383 LEU ARG ASP MET HIS LEU LEU SER CYS LEU GLU SER LEU SEQRES 8 B 383 ARG VAL SER LEU THR SER HIS PRO VAL SER TRP VAL GLN SEQRES 9 B 383 THR PHE GLY ALA GLU GLY LEU ALA SER LEU LEU ASP ILE SEQRES 10 B 383 LEU LYS ARG LEU HIS ASP GLU LYS GLU GLU THR SER GLY SEQRES 11 B 383 ASN TYR ASP SER ARG ASN GLN HIS GLU ILE ILE ARG CYS SEQRES 12 B 383 LEU LYS ALA PHE MET ASN ASN LYS PHE GLY ILE LYS THR SEQRES 13 B 383 MET LEU GLU THR GLU GLU GLY ILE LEU LEU LEU VAL ARG SEQRES 14 B 383 ALA MET ASP PRO ALA VAL PRO ASN MET MET ILE ASP ALA SEQRES 15 B 383 ALA LYS LEU LEU SER ALA LEU CYS ILE LEU PRO GLN PRO SEQRES 16 B 383 GLU ASP MET ASN GLU ARG VAL LEU GLU ALA MET THR GLU SEQRES 17 B 383 ARG ALA GLU MET ASP GLU VAL GLU ARG PHE GLN PRO LEU SEQRES 18 B 383 LEU ASP GLY LEU LYS SER GLY THR SER ILE ALA LEU LYS SEQRES 19 B 383 VAL GLY CYS LEU GLN LEU ILE ASN ALA LEU ILE THR PRO SEQRES 20 B 383 ALA GLU GLU LEU ASP PHE ARG VAL HIS ILE ARG SER GLU SEQRES 21 B 383 LEU MET ARG LEU GLY LEU HIS GLN VAL LEU GLN GLU LEU SEQRES 22 B 383 ARG GLU ILE GLU ASN GLU ASP MET LYS VAL GLN LEU CYS SEQRES 23 B 383 VAL PHE ASP GLU GLN GLY ASP GLU ASP PHE PHE ASP LEU SEQRES 24 B 383 LYS GLY ARG LEU ASP ASP ILE ARG MET GLU MET ASP ASP SEQRES 25 B 383 PHE GLY GLU VAL PHE GLN ILE ILE LEU ASN THR VAL LYS SEQRES 26 B 383 ASP SER LYS ALA GLU PRO HIS PHE LEU SER ILE LEU GLN SEQRES 27 B 383 HIS LEU LEU LEU VAL ARG ASN ASP TYR GLU ALA ARG PRO SEQRES 28 B 383 GLN TYR TYR LYS LEU ILE GLU GLU CYS VAL SER GLN ILE SEQRES 29 B 383 VAL LEU HIS LYS ASN GLY THR ASP PRO ASP PHE LYS CYS SEQRES 30 B 383 ARG HIS LEU GLN ILE ASP SEQRES 1 C 178 MET GLN THR ILE LYS CYS VAL VAL VAL GLY ASP GLY ALA SEQRES 2 C 178 VAL GLY LYS THR CYS LEU LEU ILE SER TYR THR THR ASN SEQRES 3 C 178 LYS PHE PRO SER GLU TYR VAL PRO THR VAL PHE ASP ASN SEQRES 4 C 178 TYR ALA VAL THR VAL MET ILE GLY GLY GLU PRO TYR THR SEQRES 5 C 178 LEU GLY LEU PHE ASP THR ALA GLY GLN GLU ASP TYR ASP SEQRES 6 C 178 ARG LEU ARG PRO LEU SER TYR PRO GLN THR ASP VAL PHE SEQRES 7 C 178 LEU VAL CYS PHE SER VAL VAL SER PRO SER SER PHE GLU SEQRES 8 C 178 ASN VAL LYS GLU LYS TRP VAL PRO GLU ILE THR HIS HIS SEQRES 9 C 178 CYS PRO LYS THR PRO PHE LEU LEU VAL GLY THR GLN ILE SEQRES 10 C 178 ASP LEU ARG ASP ASP PRO SER THR ILE GLU LYS LEU ALA SEQRES 11 C 178 LYS ASN LYS GLN LYS PRO ILE THR PRO GLU THR ALA GLU SEQRES 12 C 178 LYS LEU ALA ARG ASP LEU LYS ALA VAL LYS TYR VAL GLU SEQRES 13 C 178 CYS SER ALA LEU THR GLN ARG GLY LEU LYS ASN VAL PHE SEQRES 14 C 178 ASP GLU ALA ILE LEU ALA ALA LEU GLU SEQRES 1 D 383 ASP PRO THR ALA GLN SER LEU GLN ASP ILE SER ASP GLU SEQRES 2 D 383 GLN VAL LEU VAL LEU PHE GLU GLN MET LEU VAL ASP MET SEQRES 3 D 383 ASN LEU ASN GLU GLU LYS GLN GLN PRO LEU ARG GLU LYS SEQRES 4 D 383 ASP ILE VAL ILE LYS ARG GLU MET VAL SER GLN TYR LEU SEQRES 5 D 383 HIS THR SER LYS ALA GLY MET ASN GLN LYS GLU SER SER SEQRES 6 D 383 ARG SER ALA MET MET TYR ILE GLN GLU LEU ARG SER GLY SEQRES 7 D 383 LEU ARG ASP MET HIS LEU LEU SER CYS LEU GLU SER LEU SEQRES 8 D 383 ARG VAL SER LEU THR SER HIS PRO VAL SER TRP VAL GLN SEQRES 9 D 383 THR PHE GLY ALA GLU GLY LEU ALA SER LEU LEU ASP ILE SEQRES 10 D 383 LEU LYS ARG LEU HIS ASP GLU LYS GLU GLU THR SER GLY SEQRES 11 D 383 ASN TYR ASP SER ARG ASN GLN HIS GLU ILE ILE ARG CYS SEQRES 12 D 383 LEU LYS ALA PHE MET ASN ASN LYS PHE GLY ILE LYS THR SEQRES 13 D 383 MET LEU GLU THR GLU GLU GLY ILE LEU LEU LEU VAL ARG SEQRES 14 D 383 ALA MET ASP PRO ALA VAL PRO ASN MET MET ILE ASP ALA SEQRES 15 D 383 ALA LYS LEU LEU SER ALA LEU CYS ILE LEU PRO GLN PRO SEQRES 16 D 383 GLU ASP MET ASN GLU ARG VAL LEU GLU ALA MET THR GLU SEQRES 17 D 383 ARG ALA GLU MET ASP GLU VAL GLU ARG PHE GLN PRO LEU SEQRES 18 D 383 LEU ASP GLY LEU LYS SER GLY THR SER ILE ALA LEU LYS SEQRES 19 D 383 VAL GLY CYS LEU GLN LEU ILE ASN ALA LEU ILE THR PRO SEQRES 20 D 383 ALA GLU GLU LEU ASP PHE ARG VAL HIS ILE ARG SER GLU SEQRES 21 D 383 LEU MET ARG LEU GLY LEU HIS GLN VAL LEU GLN GLU LEU SEQRES 22 D 383 ARG GLU ILE GLU ASN GLU ASP MET LYS VAL GLN LEU CYS SEQRES 23 D 383 VAL PHE ASP GLU GLN GLY ASP GLU ASP PHE PHE ASP LEU SEQRES 24 D 383 LYS GLY ARG LEU ASP ASP ILE ARG MET GLU MET ASP ASP SEQRES 25 D 383 PHE GLY GLU VAL PHE GLN ILE ILE LEU ASN THR VAL LYS SEQRES 26 D 383 ASP SER LYS ALA GLU PRO HIS PHE LEU SER ILE LEU GLN SEQRES 27 D 383 HIS LEU LEU LEU VAL ARG ASN ASP TYR GLU ALA ARG PRO SEQRES 28 D 383 GLN TYR TYR LYS LEU ILE GLU GLU CYS VAL SER GLN ILE SEQRES 29 D 383 VAL LEU HIS LYS ASN GLY THR ASP PRO ASP PHE LYS CYS SEQRES 30 D 383 ARG HIS LEU GLN ILE ASP HET GNP A 179 32 HET MG A 180 1 HET GNP C 179 32 HET MG C 180 1 HETNAM GNP PHOSPHOAMINOPHOSPHONIC ACID-GUANYLATE ESTER HETNAM MG MAGNESIUM ION FORMUL 5 GNP 2(C10 H17 N6 O13 P3) FORMUL 6 MG 2(MG 2+) FORMUL 9 HOH *47(H2 O) HELIX 1 1 GLY A 15 ASN A 26 1 12 HELIX 2 2 GLN A 61 ASP A 65 5 5 HELIX 3 3 LEU A 67 TYR A 72 5 6 HELIX 4 4 SER A 86 LYS A 96 1 11 HELIX 5 5 LYS A 96 CYS A 105 1 10 HELIX 6 6 GLN A 116 ARG A 120 5 5 HELIX 7 7 ASP A 122 ASN A 132 1 11 HELIX 8 8 THR A 138 LEU A 149 1 12 HELIX 9 9 GLY A 164 GLU A 178 1 15 HELIX 10 10 LEU B 84 MET B 94 1 11 HELIX 11 11 ASN B 97 GLU B 106 1 10 HELIX 12 12 ASP B 108 SER B 123 1 16 HELIX 13 13 SER B 135 ARG B 144 1 10 HELIX 14 14 ARG B 148 HIS B 166 1 19 HELIX 15 15 PRO B 167 ASP B 191 1 25 HELIX 16 16 ASP B 201 MET B 216 1 16 HELIX 17 17 ASN B 218 GLU B 227 1 10 HELIX 18 18 GLU B 230 ALA B 238 1 9 HELIX 19 19 VAL B 243 ILE B 259 1 17 HELIX 20 20 ASP B 265 GLU B 282 1 18 HELIX 21 21 PHE B 286 GLY B 292 1 7 HELIX 22 22 SER B 298 THR B 314 1 17 HELIX 23 23 GLU B 318 LEU B 332 1 15 HELIX 24 24 GLY B 333 ARG B 342 1 10 HELIX 25 25 ASN B 346 MET B 378 1 33 HELIX 26 26 ASP B 380 VAL B 392 1 13 HELIX 27 27 ALA B 397 LEU B 408 1 12 HELIX 28 28 ALA B 417 LEU B 434 1 18 HELIX 29 29 GLY C 15 ASN C 26 1 12 HELIX 30 30 GLN C 61 ASP C 65 5 5 HELIX 31 31 LEU C 67 TYR C 72 5 6 HELIX 32 32 SER C 86 LYS C 96 1 11 HELIX 33 33 LYS C 96 CYS C 105 1 10 HELIX 34 34 GLN C 116 ASP C 121 5 6 HELIX 35 35 ASP C 122 ASN C 132 1 11 HELIX 36 36 THR C 138 LEU C 149 1 12 HELIX 37 37 GLY C 164 GLU C 178 1 15 HELIX 38 38 LEU D 84 MET D 94 1 11 HELIX 39 39 ASN D 97 GLU D 106 1 10 HELIX 40 40 ASP D 108 SER D 123 1 16 HELIX 41 41 SER D 135 ARG D 144 1 10 HELIX 42 42 ARG D 148 HIS D 166 1 19 HELIX 43 43 PRO D 167 ASP D 191 1 25 HELIX 44 44 ASP D 201 MET D 216 1 16 HELIX 45 45 ASN D 218 GLU D 227 1 10 HELIX 46 46 GLU D 230 ALA D 238 1 9 HELIX 47 47 VAL D 243 ILE D 259 1 17 HELIX 48 48 ASP D 265 GLU D 282 1 18 HELIX 49 49 PHE D 286 GLY D 292 1 7 HELIX 50 50 SER D 298 THR D 314 1 17 HELIX 51 51 GLU D 318 LEU D 332 1 15 HELIX 52 52 GLY D 333 ARG D 342 1 10 HELIX 53 53 ASN D 346 MET D 378 1 33 HELIX 54 54 ASP D 380 VAL D 392 1 13 HELIX 55 55 ALA D 397 LEU D 408 1 12 HELIX 56 56 ALA D 417 LEU D 434 1 18 SHEET 1 A 6 PHE A 37 ILE A 46 0 SHEET 2 A 6 GLU A 49 THR A 58 -1 O ASP A 57 N ASP A 38 SHEET 3 A 6 ILE A 4 VAL A 9 1 N CYS A 6 O GLY A 54 SHEET 4 A 6 VAL A 77 SER A 83 1 O CYS A 81 N VAL A 9 SHEET 5 A 6 PHE A 110 THR A 115 1 O THR A 115 N PHE A 82 SHEET 6 A 6 TYR A 154 GLU A 156 1 O VAL A 155 N LEU A 112 SHEET 1 B 6 PHE C 37 ILE C 46 0 SHEET 2 B 6 GLU C 49 THR C 58 -1 O ASP C 57 N ASP C 38 SHEET 3 B 6 ILE C 4 VAL C 9 1 N CYS C 6 O GLY C 54 SHEET 4 B 6 VAL C 77 SER C 83 1 O CYS C 81 N VAL C 9 SHEET 5 B 6 PHE C 110 THR C 115 1 O LEU C 111 N VAL C 80 SHEET 6 B 6 TYR C 154 GLU C 156 1 O VAL C 155 N LEU C 112 LINK OG1 THR A 17 MG MG A 180 1555 1555 1.90 LINK OG1 THR A 35 MG MG A 180 1555 1555 2.03 LINK O2G GNP A 179 MG MG A 180 1555 1555 2.24 LINK O2B GNP A 179 MG MG A 180 1555 1555 1.96 LINK MG MG A 180 O HOH A 181 1555 1555 1.99 LINK MG MG A 180 O HOH A 194 1555 1555 2.16 LINK OG1 THR C 17 MG MG C 180 1555 1555 1.89 LINK OG1 THR C 35 MG MG C 180 1555 1555 1.99 LINK O2G GNP C 179 MG MG C 180 1555 1555 2.23 LINK O2B GNP C 179 MG MG C 180 1555 1555 2.01 LINK MG MG C 180 O HOH C 181 1555 1555 2.03 LINK MG MG C 180 O HOH C 185 1555 1555 2.21 SITE 1 AC1 22 GLY A 12 ALA A 13 VAL A 14 GLY A 15 SITE 2 AC1 22 LYS A 16 THR A 17 CYS A 18 PHE A 28 SITE 3 AC1 22 TYR A 32 PRO A 34 THR A 35 GLY A 60 SITE 4 AC1 22 GLN A 116 ASP A 118 LEU A 119 SER A 158 SITE 5 AC1 22 ALA A 159 LEU A 160 MG A 180 HOH A 181 SITE 6 AC1 22 HOH A 186 HOH A 194 SITE 1 AC2 5 THR A 17 THR A 35 GNP A 179 HOH A 181 SITE 2 AC2 5 HOH A 194 SITE 1 AC3 22 ASP C 11 GLY C 12 ALA C 13 VAL C 14 SITE 2 AC3 22 GLY C 15 LYS C 16 THR C 17 CYS C 18 SITE 3 AC3 22 PHE C 28 TYR C 32 THR C 35 GLY C 60 SITE 4 AC3 22 GLN C 116 ASP C 118 LEU C 119 SER C 158 SITE 5 AC3 22 ALA C 159 LEU C 160 MG C 180 HOH C 181 SITE 6 AC3 22 HOH C 184 HOH C 185 SITE 1 AC4 5 THR C 17 THR C 35 GNP C 179 HOH C 181 SITE 2 AC4 5 HOH C 185 CRYST1 71.269 71.269 244.964 90.00 90.00 120.00 P 32 6 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 0.014031 0.008101 0.000000 0.00000 SCALE2 0.000000 0.016202 0.000000 0.00000 SCALE3 0.000000 0.000000 0.004082 0.00000