HEADER G-PROTEIN 09-APR-06 2CJW TITLE CRYSTAL STRUCTURE OF THE SMALL GTPASE GEM (GEMDNDCAM) IN COMPLEX TO TITLE 2 MG.GDP COMPND MOL_ID: 1; COMPND 2 MOLECULE: GTP-BINDING PROTEIN GEM; COMPND 3 CHAIN: A; COMPND 4 FRAGMENT: G DOMAIN, RESIDUES 74-261; COMPND 5 SYNONYM: GEM, GTP-BINDING MITOGEN-INDUCED T-CELL PROTEIN, RAS-LIKE COMPND 6 PROTEIN KIR; COMPND 7 ENGINEERED: YES; COMPND 8 MOL_ID: 2; COMPND 9 MOLECULE: GTP-BINDING PROTEIN GEM; COMPND 10 CHAIN: B; COMPND 11 FRAGMENT: G DOMAIN, RESIDUES 74-261; COMPND 12 SYNONYM: GEM, GTP-BINDING MITOGEN-INDUCED T-CELL PROTEIN, RAS-LIKE COMPND 13 PROTEIN KIR; COMPND 14 ENGINEERED: YES SOURCE MOL_ID: 1; SOURCE 2 ORGANISM_SCIENTIFIC: HOMO SAPIENS; SOURCE 3 ORGANISM_COMMON: HUMAN; SOURCE 4 ORGANISM_TAXID: 9606; SOURCE 5 EXPRESSION_SYSTEM: ESCHERICHIA COLI; SOURCE 6 EXPRESSION_SYSTEM_TAXID: 562; SOURCE 7 MOL_ID: 2; SOURCE 8 ORGANISM_SCIENTIFIC: HOMO SAPIENS; SOURCE 9 ORGANISM_COMMON: HUMAN; SOURCE 10 ORGANISM_TAXID: 9606; SOURCE 11 EXPRESSION_SYSTEM: ESCHERICHIA COLI; SOURCE 12 EXPRESSION_SYSTEM_TAXID: 562 KEYWDS G-PROTEIN, NUCLEOTIDE-BINDING, GTP-BINDING, SMALL GTPASE, KEYWDS 2 CONFORMATIONAL CHANGE, CYSTEINE-MODIFIED, G-PROTEIN HYDROLASE EXPDTA X-RAY DIFFRACTION AUTHOR A.SPLINGARD,J.MENETREY,M.PERDERISET,J.CICOLARI,F.HAMOUDI,L.CABANIE, AUTHOR 2 A.EL MARJOU,A.WELLS,A.HOUDUSSE,J.DE GUNZBURG REVDAT 4 16-OCT-24 2CJW 1 REMARK REVDAT 3 13-DEC-23 2CJW 1 REMARK LINK REVDAT 2 24-FEB-09 2CJW 1 VERSN REVDAT 1 09-NOV-06 2CJW 0 JRNL AUTH A.SPLINGARD,J.MENETREY,M.PERDERISET,J.CICOLARI,K.REGAZZONI, JRNL AUTH 2 F.HAMOUDI,L.CABANIE,A.EL MARJOU,A.WELLS,A.HOUDUSSE, JRNL AUTH 3 J.DE GUNZBURG JRNL TITL BIOCHEMICAL AND STRUCTURAL CHARACTERIZATION OF THE GEM JRNL TITL 2 GTPASE. JRNL REF J.BIOL.CHEM. V. 282 1905 2007 JRNL REFN ISSN 0021-9258 JRNL PMID 17107948 JRNL DOI 10.1074/JBC.M604363200 REMARK 2 REMARK 2 RESOLUTION. 2.10 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) : 2.10 REMARK 3 RESOLUTION RANGE LOW (ANGSTROMS) : 60.00 REMARK 3 DATA CUTOFF (SIGMA(F)) : NULL REMARK 3 COMPLETENESS FOR RANGE (%) : 100.0 REMARK 3 NUMBER OF REFLECTIONS : 33159 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) : 0.212 REMARK 3 R VALUE (WORKING SET) : 0.209 REMARK 3 FREE R VALUE : 0.241 REMARK 3 FREE R VALUE TEST SET SIZE (%) : 10.000 REMARK 3 FREE R VALUE TEST SET COUNT : 3669 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) : 2.10 REMARK 3 BIN RESOLUTION RANGE LOW (A) : 2.15 REMARK 3 REFLECTION IN BIN (WORKING SET) : 2480 REMARK 3 BIN COMPLETENESS (WORKING+TEST) (%) : NULL REMARK 3 BIN R VALUE (WORKING SET) : 0.2250 REMARK 3 BIN FREE R VALUE SET COUNT : 260 REMARK 3 BIN FREE R VALUE : 0.2440 REMARK 3 REMARK 3 NUMBER OF NON-HYDROGEN ATOMS USED IN REFINEMENT. REMARK 3 PROTEIN ATOMS : 2834 REMARK 3 NUCLEIC ACID ATOMS : 0 REMARK 3 HETEROGEN ATOMS : 58 REMARK 3 SOLVENT ATOMS : 127 REMARK 3 REMARK 3 B VALUES. REMARK 3 FROM WILSON PLOT (A**2) : NULL REMARK 3 MEAN B VALUE (OVERALL, A**2) : 35.22 REMARK 3 OVERALL ANISOTROPIC B VALUE. REMARK 3 B11 (A**2) : 1.20000 REMARK 3 B22 (A**2) : 1.20000 REMARK 3 B33 (A**2) : -1.79000 REMARK 3 B12 (A**2) : 0.60000 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): 0.168 REMARK 3 ESU BASED ON FREE R VALUE (A): 0.156 REMARK 3 ESU BASED ON MAXIMUM LIKELIHOOD (A): 0.096 REMARK 3 ESU FOR B VALUES BASED ON MAXIMUM LIKELIHOOD (A**2): 3.452 REMARK 3 REMARK 3 CORRELATION COEFFICIENTS. REMARK 3 CORRELATION COEFFICIENT FO-FC : 0.940 REMARK 3 CORRELATION COEFFICIENT FO-FC FREE : 0.918 REMARK 3 REMARK 3 RMS DEVIATIONS FROM IDEAL VALUES COUNT RMS WEIGHT REMARK 3 BOND LENGTHS REFINED ATOMS (A): 2841 ; 0.010 ; 0.022 REMARK 3 BOND LENGTHS OTHERS (A): NULL ; NULL ; NULL REMARK 3 BOND ANGLES REFINED ATOMS (DEGREES): 3827 ; 1.271 ; 1.991 REMARK 3 BOND ANGLES OTHERS (DEGREES): NULL ; NULL ; NULL REMARK 3 TORSION ANGLES, PERIOD 1 (DEGREES): 345 ; 5.589 ; 5.000 REMARK 3 TORSION ANGLES, PERIOD 2 (DEGREES): 133 ;33.153 ;22.932 REMARK 3 TORSION ANGLES, PERIOD 3 (DEGREES): 494 ;14.843 ;15.000 REMARK 3 TORSION ANGLES, PERIOD 4 (DEGREES): 31 ;13.912 ;15.000 REMARK 3 CHIRAL-CENTER RESTRAINTS (A**3): 428 ; 0.089 ; 0.200 REMARK 3 GENERAL PLANES REFINED ATOMS (A): 2086 ; 0.004 ; 0.020 REMARK 3 GENERAL PLANES OTHERS (A): NULL ; NULL ; NULL REMARK 3 NON-BONDED CONTACTS REFINED ATOMS (A): 1219 ; 0.204 ; 0.200 REMARK 3 NON-BONDED CONTACTS OTHERS (A): NULL ; NULL ; NULL REMARK 3 NON-BONDED TORSION REFINED ATOMS (A): 1925 ; 0.299 ; 0.200 REMARK 3 NON-BONDED TORSION OTHERS (A): NULL ; NULL ; NULL REMARK 3 H-BOND (X...Y) REFINED ATOMS (A): 137 ; 0.137 ; 0.200 REMARK 3 H-BOND (X...Y) OTHERS (A): NULL ; NULL ; NULL REMARK 3 POTENTIAL METAL-ION REFINED ATOMS (A): NULL ; NULL ; NULL REMARK 3 POTENTIAL METAL-ION OTHERS (A): NULL ; NULL ; NULL REMARK 3 SYMMETRY VDW REFINED ATOMS (A): 52 ; 0.210 ; 0.200 REMARK 3 SYMMETRY VDW OTHERS (A): NULL ; NULL ; NULL REMARK 3 SYMMETRY H-BOND REFINED ATOMS (A): 15 ; 0.226 ; 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): 1786 ; 1.199 ; 1.500 REMARK 3 MAIN-CHAIN BOND OTHER ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 MAIN-CHAIN ANGLE REFINED ATOMS (A**2): 2741 ; 1.423 ; 2.000 REMARK 3 MAIN-CHAIN ANGLE OTHER ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 SIDE-CHAIN BOND REFINED ATOMS (A**2): 1230 ; 1.886 ; 3.000 REMARK 3 SIDE-CHAIN BOND OTHER ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 SIDE-CHAIN ANGLE REFINED ATOMS (A**2): 1086 ; 2.894 ; 4.500 REMARK 3 SIDE-CHAIN ANGLE OTHER ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 LONG RANGE B REFINED ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 LONG RANGE B OTHER ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 REMARK 3 ANISOTROPIC THERMAL FACTOR RESTRAINTS. COUNT RMS WEIGHT REMARK 3 RIGID-BOND RESTRAINTS (A**2): NULL ; NULL ; NULL REMARK 3 SPHERICITY; FREE ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 SPHERICITY; BONDED ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 REMARK 3 NCS RESTRAINTS STATISTICS REMARK 3 NUMBER OF DIFFERENT NCS GROUPS : NULL REMARK 3 REMARK 3 TLS DETAILS REMARK 3 NUMBER OF TLS GROUPS : NULL REMARK 3 REMARK 3 BULK SOLVENT MODELLING. REMARK 3 METHOD USED : MASK REMARK 3 PARAMETERS FOR MASK CALCULATION REMARK 3 VDW PROBE RADIUS : 1.40 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. RESIDUES 102-105 AND 136-139 IN MOLECULE A AND REMARK 3 RESIDUES 99-110 AND 136-142 IN MOLECULE B WERE DISORDERED AND REMARK 3 NOT MODELED. SOME SIDE-CHAINS WERE MODELED WITH 0.0 OR PARTIAL REMARK 3 OCCUPANCY RATE. REMARK 4 REMARK 4 2CJW COMPLIES WITH FORMAT V. 3.30, 13-JUL-11 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY PDBE ON 09-APR-06. REMARK 100 THE DEPOSITION ID IS D_1290028441. REMARK 200 REMARK 200 EXPERIMENTAL DETAILS REMARK 200 EXPERIMENT TYPE : X-RAY DIFFRACTION REMARK 200 DATE OF DATA COLLECTION : 08-SEP-04 REMARK 200 TEMPERATURE (KELVIN) : 100.0 REMARK 200 PH : NULL REMARK 200 NUMBER OF CRYSTALS USED : NULL REMARK 200 REMARK 200 SYNCHROTRON (Y/N) : Y REMARK 200 RADIATION SOURCE : ESRF REMARK 200 BEAMLINE : ID14-1 REMARK 200 X-RAY GENERATOR MODEL : NULL REMARK 200 MONOCHROMATIC OR LAUE (M/L) : M REMARK 200 WAVELENGTH OR RANGE (A) : 0.96115 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 : MOSFLM REMARK 200 DATA SCALING SOFTWARE : SCALA REMARK 200 REMARK 200 NUMBER OF UNIQUE REFLECTIONS : 36826 REMARK 200 RESOLUTION RANGE HIGH (A) : 2.100 REMARK 200 RESOLUTION RANGE LOW (A) : 60.000 REMARK 200 REJECTION CRITERIA (SIGMA(I)) : 2.000 REMARK 200 REMARK 200 OVERALL. REMARK 200 COMPLETENESS FOR RANGE (%) : 100.0 REMARK 200 DATA REDUNDANCY : 7.700 REMARK 200 R MERGE (I) : 0.08600 REMARK 200 R SYM (I) : NULL REMARK 200 <I/SIGMA(I)> FOR THE DATA SET : 19.0000 REMARK 200 REMARK 200 IN THE HIGHEST RESOLUTION SHELL. REMARK 200 HIGHEST RESOLUTION SHELL, RANGE HIGH (A) : 2.10 REMARK 200 HIGHEST RESOLUTION SHELL, RANGE LOW (A) : 2.21 REMARK 200 COMPLETENESS FOR SHELL (%) : 99.9 REMARK 200 DATA REDUNDANCY IN SHELL : 7.70 REMARK 200 R MERGE FOR SHELL (I) : 0.34200 REMARK 200 R SYM FOR SHELL (I) : NULL REMARK 200 <I/SIGMA(I)> FOR SHELL : 5.300 REMARK 200 REMARK 200 DIFFRACTION PROTOCOL: SINGLE WAVELENGTH REMARK 200 METHOD USED TO DETERMINE THE STRUCTURE: MOLECULAR REPLACEMENT REMARK 200 SOFTWARE USED: AMORE REMARK 200 STARTING MODEL: PDB ENTRY 1KAO REMARK 200 REMARK 200 REMARK: NULL REMARK 280 REMARK 280 CRYSTAL REMARK 280 SOLVENT CONTENT, VS (%): 66.30 REMARK 280 MATTHEWS COEFFICIENT, VM (ANGSTROMS**3/DA): 3.65 REMARK 280 REMARK 280 CRYSTALLIZATION CONDITIONS: 0.1M NACACODYLATE PH6.5, 0.9M REMARK 280 NAACETATE, 5MM MGCL2 AND 2MM DTT REMARK 290 REMARK 290 CRYSTALLOGRAPHIC SYMMETRY REMARK 290 SYMMETRY OPERATORS FOR SPACE GROUP: P 61 REMARK 290 REMARK 290 SYMOP SYMMETRY REMARK 290 NNNMMM OPERATOR REMARK 290 1555 X,Y,Z REMARK 290 2555 -Y,X-Y,Z+1/3 REMARK 290 3555 -X+Y,-X,Z+2/3 REMARK 290 4555 -X,-Y,Z+1/2 REMARK 290 5555 Y,-X+Y,Z+5/6 REMARK 290 6555 X-Y,X,Z+1/6 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 27.13633 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 54.27267 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 40.70450 REMARK 290 SMTRY1 5 0.500000 0.866025 0.000000 0.00000 REMARK 290 SMTRY2 5 -0.866025 0.500000 0.000000 0.00000 REMARK 290 SMTRY3 5 0.000000 0.000000 1.000000 67.84083 REMARK 290 SMTRY1 6 0.500000 -0.866025 0.000000 0.00000 REMARK 290 SMTRY2 6 0.866025 0.500000 0.000000 0.00000 REMARK 290 SMTRY3 6 0.000000 0.000000 1.000000 13.56817 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: PQS 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 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 GLU A 70 REMARK 465 PHE A 71 REMARK 465 GLY A 72 REMARK 465 MET A 102 REMARK 465 ASP A 103 REMARK 465 SER A 104 REMARK 465 ASP A 105 REMARK 465 LYS A 136 REMARK 465 GLY A 137 REMARK 465 GLU A 138 REMARK 465 ASN A 139 REMARK 465 LYS A 259 REMARK 465 GLU A 260 REMARK 465 SER A 261 REMARK 465 HIS B 99 REMARK 465 ASP B 100 REMARK 465 SER B 101 REMARK 465 MET B 102 REMARK 465 ASP B 103 REMARK 465 SER B 104 REMARK 465 ASP B 105 REMARK 465 CAS B 106 REMARK 465 GLU B 107 REMARK 465 VAL B 108 REMARK 465 LEU B 109 REMARK 465 GLY B 110 REMARK 465 LYS B 136 REMARK 465 GLY B 137 REMARK 465 GLU B 138 REMARK 465 ASN B 139 REMARK 465 GLU B 140 REMARK 465 TRP B 141 REMARK 465 LEU B 142 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 CAS A 106 CE1 CE2 REMARK 470 CAS A 215 CE1 CE2 REMARK 470 CAS B 198 CE1 CE2 REMARK 470 CAS B 209 CE1 CE2 REMARK 480 REMARK 480 ZERO OCCUPANCY ATOM REMARK 480 THE FOLLOWING RESIDUES HAVE ATOMS MODELED WITH ZERO REMARK 480 OCCUPANCY. THE LOCATION AND PROPERTIES OF THESE ATOMS REMARK 480 MAY NOT BE RELIABLE. (M=MODEL NUMBER; RES=RESIDUE NAME; REMARK 480 C=CHAIN IDENTIFIER; SSEQ=SEQUENCE NUMBER; I=INSERTION CODE): REMARK 480 M RES C SSEQI ATOMS REMARK 480 ASP A 100 CB CG OD1 OD2 REMARK 480 SER A 101 CB OG REMARK 480 GLU A 107 CB CG CD OE1 OE2 REMARK 480 ASN A 135 CB CG OD1 ND2 REMARK 480 GLN A 180 CB CG CD OE1 NE2 REMARK 480 ARG A 197 CG CD NE CZ NH1 NH2 REMARK 480 LYS A 246 CB CG CD CE NZ REMARK 480 GLU A 247 CB CG CD OE1 OE2 REMARK 480 GLU A 250 CB CG CD OE1 OE2 REMARK 480 LYS A 257 CB CG CD CE NZ REMARK 480 ARG A 258 CB CG CD NE CZ NH1 NH2 REMARK 480 GLU B 134 CB CG CD OE1 OE2 REMARK 480 ASN B 135 CB CG OD1 ND2 REMARK 480 HIS B 143 CB CG ND1 CD2 CE1 NE2 REMARK 480 GLU B 170 CB CG CD OE1 OE2 REMARK 480 ARG B 177 CG CD NE CZ NH1 NH2 REMARK 480 ARG B 197 CG CD NE CZ NH1 NH2 REMARK 480 LYS B 248 CG CD CE NZ REMARK 480 ARG B 251 CG CD NE CZ NH1 NH2 REMARK 480 GLU B 260 CB CG CD OE1 OE2 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 A 83 CB GLU A 83 CG 0.116 REMARK 500 ASP A 100 CA ASP A 100 CB 0.196 REMARK 500 SER A 101 CA SER A 101 CB 0.150 REMARK 500 GLN A 180 CA GLN A 180 CB -0.188 REMARK 500 LYS A 246 CA LYS A 246 CB -0.372 REMARK 500 LYS A 257 CA LYS A 257 CB 0.136 REMARK 500 ARG A 258 CA ARG A 258 CB -0.323 REMARK 500 HIS B 143 CA HIS B 143 CB -0.255 REMARK 500 LYS B 248 CB LYS B 248 CG -0.198 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 SER A 101 CB - CA - C ANGL. DEV. = 30.9 DEGREES REMARK 500 GLU A 107 N - CA - CB ANGL. DEV. = -13.1 DEGREES REMARK 500 ASN A 135 CB - CA - C ANGL. DEV. = 15.6 DEGREES REMARK 500 LYS A 246 CB - CA - C ANGL. DEV. = 20.3 DEGREES REMARK 500 LYS A 257 CB - CA - C ANGL. DEV. = 14.8 DEGREES REMARK 500 LYS A 257 CA - CB - CG ANGL. DEV. = 15.5 DEGREES REMARK 500 ARG A 258 N - CA - CB ANGL. DEV. = -15.2 DEGREES REMARK 500 ARG A 258 CA - CB - CG ANGL. DEV. = -18.6 DEGREES REMARK 500 HIS B 143 N - CA - CB ANGL. DEV. = 20.6 DEGREES REMARK 500 LYS B 248 CA - CB - CG ANGL. DEV. = 17.8 DEGREES REMARK 500 GLU B 260 CB - CA - C ANGL. DEV. = -18.0 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 192 32.57 72.49 REMARK 500 ASP A 214 62.67 63.33 REMARK 500 GLN B 225 84.88 52.03 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 MG A1000 MG REMARK 620 N RES CSSEQI ATOM REMARK 620 1 SER A 89 OG REMARK 620 2 GDP A 999 O2B 98.8 REMARK 620 3 HOH A2008 O 84.2 175.1 REMARK 620 4 HOH A2024 O 86.6 91.4 84.8 REMARK 620 5 HOH A2028 O 167.0 92.8 83.9 87.2 REMARK 620 6 HOH A2081 O 90.2 93.3 90.6 174.6 95.1 REMARK 620 N 1 2 3 4 5 REMARK 620 REMARK 620 COORDINATION ANGLES FOR: M RES CSSEQI METAL REMARK 620 MG B1000 MG REMARK 620 N RES CSSEQI ATOM REMARK 620 1 SER B 89 OG REMARK 620 2 GDP B 999 O2B 86.9 REMARK 620 3 HOH B2007 O 86.8 170.8 REMARK 620 4 HOH B2024 O 84.0 88.9 83.8 REMARK 620 5 HOH B2045 O 89.8 89.5 97.1 173.7 REMARK 620 6 HOH B2046 O 170.3 94.4 90.8 86.4 99.8 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 MG A1000 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC2 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE MG B1000 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC3 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE GDP A 999 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC4 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE GDP B 999 REMARK 900 REMARK 900 RELATED ENTRIES REMARK 900 RELATED ID: 2HT6 RELATED DB: PDB REMARK 900 CRYSTAL STRUCTURE OF HUMAN GEM G-DOMAIN BOUND TO GDP REMARK 999 REMARK 999 SEQUENCE REMARK 999 RESIDUES 70-72 (EFG) IN MOLECULE B BELONG TO THE REMAINING REMARK 999 PART OF THE TAG. DBREF 2CJW A 70 73 PDB 2CJW 2CJW 70 73 DBREF 2CJW A 74 261 UNP P55040 GEM_HUMAN 74 261 DBREF 2CJW B 70 73 PDB 2CJW 2CJW 70 73 DBREF 2CJW B 74 261 UNP P55040 GEM_HUMAN 74 261 SEQRES 1 A 192 GLU PHE GLY MET THR TYR TYR ARG VAL VAL LEU ILE GLY SEQRES 2 A 192 GLU GLN GLY VAL GLY LYS SER THR LEU ALA ASN ILE PHE SEQRES 3 A 192 ALA GLY VAL HIS ASP SER MET ASP SER ASP CAS GLU VAL SEQRES 4 A 192 LEU GLY GLU ASP THR TYR GLU ARG THR LEU MET VAL ASP SEQRES 5 A 192 GLY GLU SER ALA THR ILE ILE LEU LEU ASP MET TRP GLU SEQRES 6 A 192 ASN LYS GLY GLU ASN GLU TRP LEU HIS ASP HIS CYS MET SEQRES 7 A 192 GLN VAL GLY ASP ALA TYR LEU ILE VAL TYR SER ILE THR SEQRES 8 A 192 ASP ARG ALA SER PHE GLU LYS ALA SER GLU LEU ARG ILE SEQRES 9 A 192 GLN LEU ARG ARG ALA ARG GLN THR GLU ASP ILE PRO ILE SEQRES 10 A 192 ILE LEU VAL GLY ASN LYS SER ASP LEU VAL ARG CAS ARG SEQRES 11 A 192 GLU VAL SER VAL SER GLU GLY ARG ALA CAS ALA VAL VAL SEQRES 12 A 192 PHE ASP CAS LYS PHE ILE GLU THR SER ALA ALA VAL GLN SEQRES 13 A 192 HIS ASN VAL LYS GLU LEU PHE GLU GLY ILE VAL ARG GLN SEQRES 14 A 192 VAL ARG LEU ARG ARG ASP SER LYS GLU LYS ASN GLU ARG SEQRES 15 A 192 ARG LEU ALA TYR GLN LYS ARG LYS GLU SER SEQRES 1 B 192 GLU PHE GLY MET THR TYR TYR ARG VAL VAL LEU ILE GLY SEQRES 2 B 192 GLU GLN GLY VAL GLY LYS SER THR LEU ALA ASN ILE PHE SEQRES 3 B 192 ALA GLY VAL HIS ASP SER MET ASP SER ASP CAS GLU VAL SEQRES 4 B 192 LEU GLY GLU ASP THR TYR GLU ARG THR LEU MET VAL ASP SEQRES 5 B 192 GLY GLU SER ALA THR ILE ILE LEU LEU ASP MET TRP GLU SEQRES 6 B 192 ASN LYS GLY GLU ASN GLU TRP LEU HIS ASP HIS CAS MET SEQRES 7 B 192 GLN VAL GLY ASP ALA TYR LEU ILE VAL TYR SER ILE THR SEQRES 8 B 192 ASP ARG ALA SER PHE GLU LYS ALA SER GLU LEU ARG ILE SEQRES 9 B 192 GLN LEU ARG ARG ALA ARG GLN THR GLU ASP ILE PRO ILE SEQRES 10 B 192 ILE LEU VAL GLY ASN LYS SER ASP LEU VAL ARG CAS ARG SEQRES 11 B 192 GLU VAL SER VAL SER GLU GLY ARG ALA CAS ALA VAL VAL SEQRES 12 B 192 PHE ASP CYS LYS PHE ILE GLU THR SER ALA ALA VAL GLN SEQRES 13 B 192 HIS ASN VAL LYS GLU LEU PHE GLU GLY ILE VAL ARG GLN SEQRES 14 B 192 VAL ARG LEU ARG ARG ASP SER LYS GLU LYS ASN GLU ARG SEQRES 15 B 192 ARG LEU ALA TYR GLN LYS ARG LYS GLU SER MODRES 2CJW CAS A 106 CYS S-(DIMETHYLARSENIC)CYSTEINE MODRES 2CJW CAS A 198 CYS S-(DIMETHYLARSENIC)CYSTEINE MODRES 2CJW CAS A 209 CYS S-(DIMETHYLARSENIC)CYSTEINE MODRES 2CJW CAS A 215 CYS S-(DIMETHYLARSENIC)CYSTEINE MODRES 2CJW CAS B 146 CYS S-(DIMETHYLARSENIC)CYSTEINE MODRES 2CJW CAS B 198 CYS S-(DIMETHYLARSENIC)CYSTEINE MODRES 2CJW CAS B 209 CYS S-(DIMETHYLARSENIC)CYSTEINE HET CAS A 106 7 HET CAS A 198 9 HET CAS A 209 9 HET CAS A 215 7 HET CAS B 146 9 HET CAS B 198 7 HET CAS B 209 7 HET GDP A 999 28 HET MG A1000 1 HET GDP B 999 28 HET MG B1000 1 HETNAM CAS S-(DIMETHYLARSENIC)CYSTEINE HETNAM GDP GUANOSINE-5'-DIPHOSPHATE HETNAM MG MAGNESIUM ION FORMUL 1 CAS 7(C5 H12 AS N O2 S) FORMUL 3 GDP 2(C10 H15 N5 O11 P2) FORMUL 4 MG 2(MG 2+) FORMUL 7 HOH *127(H2 O) HELIX 1 1 GLY A 87 HIS A 99 1 13 HELIX 2 2 CAS A 106 GLY A 110 5 5 HELIX 3 3 LEU A 142 ASP A 144 5 3 HELIX 4 4 HIS A 145 GLY A 150 1 6 HELIX 5 5 ASP A 161 ARG A 179 1 19 HELIX 6 6 LEU A 195 ARG A 199 5 5 HELIX 7 7 SER A 202 PHE A 213 1 12 HELIX 8 8 ASN A 227 ASP A 244 1 18 HELIX 9 9 SER A 245 ARG A 258 1 14 HELIX 10 10 GLY B 87 GLY B 97 1 11 HELIX 11 11 HIS B 145 GLY B 150 1 6 HELIX 12 12 ASP B 161 ARG B 179 1 19 HELIX 13 13 LEU B 195 ARG B 199 5 5 HELIX 14 14 SER B 202 ASP B 214 1 13 HELIX 15 15 ASN B 227 ASP B 244 1 18 HELIX 16 16 SER B 245 SER B 261 1 17 SHEET 1 AA 6 THR A 113 VAL A 120 0 SHEET 2 AA 6 GLU A 123 LEU A 130 -1 O GLU A 123 N VAL A 120 SHEET 3 AA 6 TYR A 75 ILE A 81 1 O TYR A 76 N ILE A 128 SHEET 4 AA 6 ALA A 152 SER A 158 1 O ALA A 152 N VAL A 79 SHEET 5 AA 6 ILE A 186 ASN A 191 1 O ILE A 187 N ILE A 155 SHEET 6 AA 6 LYS A 216 GLU A 219 1 O LYS A 216 N LEU A 188 SHEET 1 BA 6 THR B 113 VAL B 120 0 SHEET 2 BA 6 GLU B 123 LEU B 130 -1 O GLU B 123 N VAL B 120 SHEET 3 BA 6 TYR B 75 GLY B 82 1 O TYR B 76 N ILE B 128 SHEET 4 BA 6 ALA B 152 SER B 158 1 O ALA B 152 N VAL B 79 SHEET 5 BA 6 ILE B 186 ASN B 191 1 O ILE B 187 N ILE B 155 SHEET 6 BA 6 LYS B 216 THR B 220 1 O LYS B 216 N LEU B 188 LINK C CAS A 106 N GLU A 107 1555 1555 1.34 LINK C ARG A 197 N CAS A 198 1555 1555 1.33 LINK C CAS A 198 N ARG A 199 1555 1555 1.33 LINK C ALA A 208 N CAS A 209 1555 1555 1.34 LINK C CAS A 209 N ALA A 210 1555 1555 1.34 LINK C ASP A 214 N CAS A 215 1555 1555 1.33 LINK C CAS A 215 N LYS A 216 1555 1555 1.33 LINK C HIS B 145 N CAS B 146 1555 1555 1.33 LINK C CAS B 146 N MET B 147 1555 1555 1.33 LINK C ARG B 197 N CAS B 198 1555 1555 1.33 LINK C CAS B 198 N ARG B 199 1555 1555 1.33 LINK C ALA B 208 N CAS B 209 1555 1555 1.34 LINK C CAS B 209 N ALA B 210 1555 1555 1.33 LINK OG SER A 89 MG MG A1000 1555 1555 2.21 LINK O2B GDP A 999 MG MG A1000 1555 1555 1.99 LINK MG MG A1000 O HOH A2008 1555 1555 2.27 LINK MG MG A1000 O HOH A2024 1555 1555 2.03 LINK MG MG A1000 O HOH A2028 1555 1555 2.15 LINK MG MG A1000 O HOH A2081 1555 1555 2.11 LINK OG SER B 89 MG MG B1000 1555 1555 2.26 LINK O2B GDP B 999 MG MG B1000 1555 1555 2.18 LINK MG MG B1000 O HOH B2007 1555 1555 1.93 LINK MG MG B1000 O HOH B2024 1555 1555 2.16 LINK MG MG B1000 O HOH B2045 1555 1555 2.15 LINK MG MG B1000 O HOH B2046 1555 1555 2.18 SITE 1 AC1 6 SER A 89 GDP A 999 HOH A2008 HOH A2024 SITE 2 AC1 6 HOH A2028 HOH A2081 SITE 1 AC2 6 SER B 89 GDP B 999 HOH B2007 HOH B2024 SITE 2 AC2 6 HOH B2045 HOH B2046 SITE 1 AC3 24 GLN A 84 GLY A 85 VAL A 86 GLY A 87 SITE 2 AC3 24 LYS A 88 SER A 89 THR A 90 ASN A 191 SITE 3 AC3 24 LYS A 192 ASP A 194 LEU A 195 PHE A 213 SITE 4 AC3 24 SER A 221 ALA A 222 ALA A 223 MG A1000 SITE 5 AC3 24 HOH A2024 HOH A2028 HOH A2045 HOH A2076 SITE 6 AC3 24 HOH A2077 HOH A2079 HOH A2080 HOH A2081 SITE 1 AC4 18 GLU B 83 GLY B 85 VAL B 86 GLY B 87 SITE 2 AC4 18 LYS B 88 SER B 89 THR B 90 ASN B 191 SITE 3 AC4 18 LYS B 192 ASP B 194 LEU B 195 SER B 221 SITE 4 AC4 18 ALA B 222 ALA B 223 MG B1000 HOH B2024 SITE 5 AC4 18 HOH B2045 HOH B2046 CRYST1 116.617 116.617 81.409 90.00 90.00 120.00 P 61 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 0.008575 0.004951 0.000000 0.00000 SCALE2 0.000000 0.009902 0.000000 0.00000 SCALE3 0.000000 0.000000 0.012284 0.00000