HEADER HYDROLASE 25-FEB-09 3GEE TITLE CRYSTAL STRUCTURE OF MNME FROM CHLOROBIUM TEPIDUM IN COMPLEX WITH GDP TITLE 2 AND FOLINIC ACID COMPND MOL_ID: 1; COMPND 2 MOLECULE: TRNA MODIFICATION GTPASE MNME; COMPND 3 CHAIN: A; COMPND 4 SYNONYM: MNME; COMPND 5 EC: 3.6.-.-; COMPND 6 ENGINEERED: YES SOURCE MOL_ID: 1; SOURCE 2 ORGANISM_SCIENTIFIC: CHLOROBIUM TEPIDUM; SOURCE 3 ORGANISM_TAXID: 1097; SOURCE 4 GENE: MNME, CT2084, THDF, TRME; SOURCE 5 EXPRESSION_SYSTEM: ESCHERICHIA COLI; SOURCE 6 EXPRESSION_SYSTEM_TAXID: 469008; SOURCE 7 EXPRESSION_SYSTEM_STRAIN: BL21(DE3); SOURCE 8 EXPRESSION_SYSTEM_VECTOR_TYPE: PLASMID; SOURCE 9 EXPRESSION_SYSTEM_PLASMID: PET14B-CTMNME KEYWDS G PROTEIN, GTPASE, TRNA MODIFICATION, U34, CYTOPLASM, GTP-BINDING, KEYWDS 2 HYDROLASE, MAGNESIUM, METAL-BINDING, NUCLEOTIDE-BINDING, POTASSIUM, KEYWDS 3 TRNA PROCESSING EXPDTA X-RAY DIFFRACTION AUTHOR S.MEYER,A.WITTINGHOFER REVDAT 2 01-NOV-23 3GEE 1 REMARK SEQADV REVDAT 1 27-OCT-09 3GEE 0 JRNL AUTH S.MEYER,S.BOHME,A.KRUGER,H.-J.STEINHOFF,J.P.KLARE, JRNL AUTH 2 A.WITTINGHOFER JRNL TITL KISSING G DOMAINS OF MNME MONITORED BY X-RAY CRYSTALLOGRAPHY JRNL TITL 2 AND PULSE ELECTRON PARAMAGNETIC RESONANCE SPECTROSCOPY JRNL REF PLOS BIOL. V. 7 00212 2009 JRNL REFN ISSN 1544-9173 JRNL PMID 19806182 JRNL DOI 10.1371/JOURNAL.PBIO.1000212 REMARK 2 REMARK 2 RESOLUTION. 2.95 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) : 2.95 REMARK 3 RESOLUTION RANGE LOW (ANGSTROMS) : 19.90 REMARK 3 DATA CUTOFF (SIGMA(F)) : NULL REMARK 3 COMPLETENESS FOR RANGE (%) : 99.2 REMARK 3 NUMBER OF REFLECTIONS : 17528 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) : 0.234 REMARK 3 R VALUE (WORKING SET) : 0.232 REMARK 3 FREE R VALUE : 0.270 REMARK 3 FREE R VALUE TEST SET SIZE (%) : 5.100 REMARK 3 FREE R VALUE TEST SET COUNT : 941 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) : 2.95 REMARK 3 BIN RESOLUTION RANGE LOW (A) : 3.03 REMARK 3 REFLECTION IN BIN (WORKING SET) : 1261 REMARK 3 BIN COMPLETENESS (WORKING+TEST) (%) : 99.70 REMARK 3 BIN R VALUE (WORKING SET) : 0.3730 REMARK 3 BIN FREE R VALUE SET COUNT : 66 REMARK 3 BIN FREE R VALUE : 0.3920 REMARK 3 REMARK 3 NUMBER OF NON-HYDROGEN ATOMS USED IN REFINEMENT. REMARK 3 PROTEIN ATOMS : 3259 REMARK 3 NUCLEIC ACID ATOMS : 0 REMARK 3 HETEROGEN ATOMS : 62 REMARK 3 SOLVENT ATOMS : 0 REMARK 3 REMARK 3 B VALUES. REMARK 3 FROM WILSON PLOT (A**2) : 86.64 REMARK 3 MEAN B VALUE (OVERALL, A**2) : 106.2 REMARK 3 OVERALL ANISOTROPIC B VALUE. REMARK 3 B11 (A**2) : 0.91000 REMARK 3 B22 (A**2) : 0.91000 REMARK 3 B33 (A**2) : -1.81000 REMARK 3 B12 (A**2) : 0.00000 REMARK 3 B13 (A**2) : 0.00000 REMARK 3 B23 (A**2) : 0.00000 REMARK 3 REMARK 3 ESTIMATED OVERALL COORDINATE ERROR. REMARK 3 ESU BASED ON R VALUE (A): 0.618 REMARK 3 ESU BASED ON FREE R VALUE (A): 0.353 REMARK 3 ESU BASED ON MAXIMUM LIKELIHOOD (A): 0.313 REMARK 3 ESU FOR B VALUES BASED ON MAXIMUM LIKELIHOOD (A**2): 37.548 REMARK 3 REMARK 3 CORRELATION COEFFICIENTS. REMARK 3 CORRELATION COEFFICIENT FO-FC : 0.935 REMARK 3 CORRELATION COEFFICIENT FO-FC FREE : 0.904 REMARK 3 REMARK 3 RMS DEVIATIONS FROM IDEAL VALUES COUNT RMS WEIGHT REMARK 3 BOND LENGTHS REFINED ATOMS (A): 3363 ; 0.006 ; 0.022 REMARK 3 BOND LENGTHS OTHERS (A): NULL ; NULL ; NULL REMARK 3 BOND ANGLES REFINED ATOMS (DEGREES): 4548 ; 1.157 ; 1.999 REMARK 3 BOND ANGLES OTHERS (DEGREES): NULL ; NULL ; NULL REMARK 3 TORSION ANGLES, PERIOD 1 (DEGREES): 424 ; 5.377 ; 5.000 REMARK 3 TORSION ANGLES, PERIOD 2 (DEGREES): 148 ;37.090 ;23.919 REMARK 3 TORSION ANGLES, PERIOD 3 (DEGREES): 587 ;20.403 ;15.000 REMARK 3 TORSION ANGLES, PERIOD 4 (DEGREES): 29 ;14.984 ;15.000 REMARK 3 CHIRAL-CENTER RESTRAINTS (A**3): 534 ; 0.074 ; 0.200 REMARK 3 GENERAL PLANES REFINED ATOMS (A): 2491 ; 0.002 ; 0.020 REMARK 3 GENERAL PLANES OTHERS (A): NULL ; NULL ; NULL REMARK 3 NON-BONDED CONTACTS REFINED ATOMS (A): 1512 ; 0.206 ; 0.200 REMARK 3 NON-BONDED CONTACTS OTHERS (A): NULL ; NULL ; NULL REMARK 3 NON-BONDED TORSION REFINED ATOMS (A): 2322 ; 0.296 ; 0.200 REMARK 3 NON-BONDED TORSION OTHERS (A): NULL ; NULL ; NULL REMARK 3 H-BOND (X...Y) REFINED ATOMS (A): 90 ; 0.129 ; 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): 66 ; 0.163 ; 0.200 REMARK 3 SYMMETRY VDW OTHERS (A): NULL ; NULL ; NULL REMARK 3 SYMMETRY H-BOND REFINED ATOMS (A): 7 ; 0.230 ; 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): 2174 ; 0.316 ; 1.500 REMARK 3 MAIN-CHAIN BOND OTHER ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 MAIN-CHAIN ANGLE REFINED ATOMS (A**2): 3374 ; 0.569 ; 2.000 REMARK 3 MAIN-CHAIN ANGLE OTHER ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 SIDE-CHAIN BOND REFINED ATOMS (A**2): 1311 ; 0.523 ; 3.000 REMARK 3 SIDE-CHAIN BOND OTHER ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 SIDE-CHAIN ANGLE REFINED ATOMS (A**2): 1174 ; 0.904 ; 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 : 1.20 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 3GEE COMPLIES WITH FORMAT V. 3.30, 13-JUL-11 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY PDBJ ON 27-FEB-09. REMARK 100 THE DEPOSITION ID IS D_1000051756. REMARK 200 REMARK 200 EXPERIMENTAL DETAILS REMARK 200 EXPERIMENT TYPE : X-RAY DIFFRACTION REMARK 200 DATE OF DATA COLLECTION : 07-MAY-06 REMARK 200 TEMPERATURE (KELVIN) : 100 REMARK 200 PH : 8.5 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) : 0.98003 REMARK 200 MONOCHROMATOR : NULL REMARK 200 OPTICS : NULL 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 : XSCALE REMARK 200 REMARK 200 NUMBER OF UNIQUE REFLECTIONS : 18513 REMARK 200 RESOLUTION RANGE HIGH (A) : 2.950 REMARK 200 RESOLUTION RANGE LOW (A) : 25.000 REMARK 200 REJECTION CRITERIA (SIGMA(I)) : NULL REMARK 200 REMARK 200 OVERALL. REMARK 200 COMPLETENESS FOR RANGE (%) : 98.9 REMARK 200 DATA REDUNDANCY : 7.160 REMARK 200 R MERGE (I) : 0.07700 REMARK 200 R SYM (I) : 0.06100 REMARK 200 FOR THE DATA SET : 24.5000 REMARK 200 REMARK 200 IN THE HIGHEST RESOLUTION SHELL. REMARK 200 HIGHEST RESOLUTION SHELL, RANGE HIGH (A) : 2.95 REMARK 200 HIGHEST RESOLUTION SHELL, RANGE LOW (A) : 3.00 REMARK 200 COMPLETENESS FOR SHELL (%) : 99.7 REMARK 200 DATA REDUNDANCY IN SHELL : 7.28 REMARK 200 R MERGE FOR SHELL (I) : 0.71700 REMARK 200 R SYM FOR SHELL (I) : NULL REMARK 200 FOR SHELL : 2.400 REMARK 200 REMARK 200 DIFFRACTION PROTOCOL: SINGLE WAVELENGTH REMARK 200 METHOD USED TO DETERMINE THE STRUCTURE: MIR REMARK 200 SOFTWARE USED: MOLREP REMARK 200 STARTING MODEL: PDB ENTRY 1XZP REMARK 200 REMARK 200 REMARK: NULL REMARK 280 REMARK 280 CRYSTAL REMARK 280 SOLVENT CONTENT, VS (%): 70.08 REMARK 280 MATTHEWS COEFFICIENT, VM (ANGSTROMS**3/DA): 4.11 REMARK 280 REMARK 280 CRYSTALLIZATION CONDITIONS: 100MM TRIS-HCL, PH 8.5, 2.25M NACL, REMARK 280 15% (W/V) PEG 6000, 5MM GDP, 5MM ALCL3, 50MM NAF, VAPOR REMARK 280 DIFFUSION, HANGING DROP, TEMPERATURE 277K REMARK 290 REMARK 290 CRYSTALLOGRAPHIC SYMMETRY REMARK 290 SYMMETRY OPERATORS FOR SPACE GROUP: I 41 2 2 REMARK 290 REMARK 290 SYMOP SYMMETRY REMARK 290 NNNMMM OPERATOR REMARK 290 1555 X,Y,Z REMARK 290 2555 -X+1/2,-Y+1/2,Z+1/2 REMARK 290 3555 -Y,X+1/2,Z+1/4 REMARK 290 4555 Y+1/2,-X,Z+3/4 REMARK 290 5555 -X+1/2,Y,-Z+3/4 REMARK 290 6555 X,-Y+1/2,-Z+1/4 REMARK 290 7555 Y+1/2,X+1/2,-Z+1/2 REMARK 290 8555 -Y,-X,-Z REMARK 290 9555 X+1/2,Y+1/2,Z+1/2 REMARK 290 10555 -X,-Y,Z REMARK 290 11555 -Y+1/2,X,Z+3/4 REMARK 290 12555 Y,-X+1/2,Z+1/4 REMARK 290 13555 -X,Y+1/2,-Z+1/4 REMARK 290 14555 X+1/2,-Y,-Z+3/4 REMARK 290 15555 Y,X,-Z REMARK 290 16555 -Y+1/2,-X+1/2,-Z+1/2 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 65.40200 REMARK 290 SMTRY2 2 0.000000 -1.000000 0.000000 65.40200 REMARK 290 SMTRY3 2 0.000000 0.000000 1.000000 100.30550 REMARK 290 SMTRY1 3 0.000000 -1.000000 0.000000 0.00000 REMARK 290 SMTRY2 3 1.000000 0.000000 0.000000 65.40200 REMARK 290 SMTRY3 3 0.000000 0.000000 1.000000 50.15275 REMARK 290 SMTRY1 4 0.000000 1.000000 0.000000 65.40200 REMARK 290 SMTRY2 4 -1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY3 4 0.000000 0.000000 1.000000 150.45825 REMARK 290 SMTRY1 5 -1.000000 0.000000 0.000000 65.40200 REMARK 290 SMTRY2 5 0.000000 1.000000 0.000000 0.00000 REMARK 290 SMTRY3 5 0.000000 0.000000 -1.000000 150.45825 REMARK 290 SMTRY1 6 1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY2 6 0.000000 -1.000000 0.000000 65.40200 REMARK 290 SMTRY3 6 0.000000 0.000000 -1.000000 50.15275 REMARK 290 SMTRY1 7 0.000000 1.000000 0.000000 65.40200 REMARK 290 SMTRY2 7 1.000000 0.000000 0.000000 65.40200 REMARK 290 SMTRY3 7 0.000000 0.000000 -1.000000 100.30550 REMARK 290 SMTRY1 8 0.000000 -1.000000 0.000000 0.00000 REMARK 290 SMTRY2 8 -1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY3 8 0.000000 0.000000 -1.000000 0.00000 REMARK 290 SMTRY1 9 1.000000 0.000000 0.000000 65.40200 REMARK 290 SMTRY2 9 0.000000 1.000000 0.000000 65.40200 REMARK 290 SMTRY3 9 0.000000 0.000000 1.000000 100.30550 REMARK 290 SMTRY1 10 -1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY2 10 0.000000 -1.000000 0.000000 0.00000 REMARK 290 SMTRY3 10 0.000000 0.000000 1.000000 0.00000 REMARK 290 SMTRY1 11 0.000000 -1.000000 0.000000 65.40200 REMARK 290 SMTRY2 11 1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY3 11 0.000000 0.000000 1.000000 150.45825 REMARK 290 SMTRY1 12 0.000000 1.000000 0.000000 0.00000 REMARK 290 SMTRY2 12 -1.000000 0.000000 0.000000 65.40200 REMARK 290 SMTRY3 12 0.000000 0.000000 1.000000 50.15275 REMARK 290 SMTRY1 13 -1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY2 13 0.000000 1.000000 0.000000 65.40200 REMARK 290 SMTRY3 13 0.000000 0.000000 -1.000000 50.15275 REMARK 290 SMTRY1 14 1.000000 0.000000 0.000000 65.40200 REMARK 290 SMTRY2 14 0.000000 -1.000000 0.000000 0.00000 REMARK 290 SMTRY3 14 0.000000 0.000000 -1.000000 150.45825 REMARK 290 SMTRY1 15 0.000000 1.000000 0.000000 0.00000 REMARK 290 SMTRY2 15 1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY3 15 0.000000 0.000000 -1.000000 0.00000 REMARK 290 SMTRY1 16 0.000000 -1.000000 0.000000 65.40200 REMARK 290 SMTRY2 16 -1.000000 0.000000 0.000000 65.40200 REMARK 290 SMTRY3 16 0.000000 0.000000 -1.000000 100.30550 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: 7530 ANGSTROM**2 REMARK 350 SURFACE AREA OF THE COMPLEX: 40140 ANGSTROM**2 REMARK 350 CHANGE IN SOLVENT FREE ENERGY: -33.0 KCAL/MOL 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 BIOMT1 2 -1.000000 0.000000 0.000000 0.00000 REMARK 350 BIOMT2 2 0.000000 -1.000000 0.000000 0.00000 REMARK 350 BIOMT3 2 0.000000 0.000000 1.000000 0.00000 REMARK 465 REMARK 465 MISSING RESIDUES REMARK 465 THE FOLLOWING RESIDUES WERE NOT LOCATED IN THE REMARK 465 EXPERIMENT. (M=MODEL NUMBER; RES=RESIDUE NAME; C=CHAIN REMARK 465 IDENTIFIER; SSSEQ=SEQUENCE NUMBER; I=INSERTION CODE.) REMARK 465 REMARK 465 M RES C SSSEQI REMARK 465 GLY A -2 REMARK 465 SER A -1 REMARK 465 HIS A 0 REMARK 465 MET A 1 REMARK 465 SER A 2 REMARK 465 PRO A 3 REMARK 465 SER A 4 REMARK 465 ASP A 5 REMARK 465 LEU A 6 REMARK 465 HIS A 7 REMARK 465 LEU A 8 REMARK 465 GLY A 252 REMARK 465 GLN A 253 REMARK 465 GLU A 254 REMARK 465 ARG A 255 REMARK 465 ALA A 256 REMARK 465 ILE A 257 REMARK 465 VAL A 258 REMARK 465 SER A 259 REMARK 465 HIS A 260 REMARK 465 MET A 261 REMARK 465 PRO A 262 REMARK 465 GLY A 263 REMARK 465 THR A 264 REMARK 465 THR A 265 REMARK 465 ARG A 266 REMARK 465 ASP A 267 REMARK 465 TYR A 268 REMARK 465 ILE A 269 REMARK 465 THR A 285 REMARK 465 ALA A 286 REMARK 465 GLY A 287 REMARK 465 LEU A 288 REMARK 465 ARG A 289 REMARK 465 GLU A 290 REMARK 465 ALA A 291 REMARK 465 GLY A 292 REMARK 465 GLU A 293 REMARK 465 GLU A 294 REMARK 465 ILE A 295 REMARK 465 GLU A 296 REMARK 465 HIS A 297 REMARK 465 GLU A 298 REMARK 465 GLY A 299 REMARK 465 ILE A 300 REMARK 465 ARG A 301 REMARK 465 ARG A 302 REMARK 465 SER A 303 REMARK 465 ARG A 304 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 PHE A 197 CG CD1 CD2 CE1 CE2 CZ REMARK 470 GLN A 198 CG CD OE1 NE2 REMARK 470 THR A 321 OG1 CG2 REMARK 470 HIS A 400 CG ND1 CD2 CE1 NE2 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 VAL A 10 120.17 -32.25 REMARK 500 ASP A 69 62.11 -106.08 REMARK 500 ALA A 84 -131.17 56.50 REMARK 500 ARG A 86 58.48 -92.32 REMARK 500 PHE A 190 42.21 -92.15 REMARK 500 GLU A 193 56.84 -157.17 REMARK 500 PHE A 197 85.79 55.64 REMARK 500 GLU A 309 85.20 68.97 REMARK 500 ALA A 353 78.35 55.45 REMARK 500 ASN A 355 -13.69 -165.51 REMARK 500 ALA A 356 23.05 -72.74 REMARK 500 LEU A 396 -86.33 -147.86 REMARK 500 ASP A 397 -85.38 -166.81 REMARK 500 LYS A 398 102.07 61.22 REMARK 500 SER A 408 113.74 68.77 REMARK 500 HIS A 431 -53.43 -161.28 REMARK 500 GLU A 432 -8.08 -152.32 REMARK 500 GLU A 459 23.36 47.60 REMARK 500 GLU A 460 -30.26 -146.60 REMARK 500 REMARK 500 REMARK: NULL REMARK 800 REMARK 800 SITE REMARK 800 SITE_IDENTIFIER: AC1 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE GDP A 474 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC2 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE FON A 475 REMARK 900 REMARK 900 RELATED ENTRIES REMARK 900 RELATED ID: 1RFL RELATED DB: PDB REMARK 900 NMR DATA DRIVEN STRUCTURAL MODEL OF G-DOMAIN OF MNME PROTEIN REMARK 900 RELATED ID: 1XZP RELATED DB: PDB REMARK 900 GTP-BINDING PROTEIN TRME REMARK 900 RELATED ID: 1XZQ RELATED DB: PDB REMARK 900 STRUCTURE OF THE GTP-BINDING PROTEIN TRME FROM THERMOTOGA MARITIMA REMARK 900 COMPLEXED WITH 5-FORMYL-THF REMARK 900 RELATED ID: 2GJA RELATED DB: PDB REMARK 900 STRUCTURE OF THE MNME G-DOMAIN IN COMPLEX WITH GDP*ALF4-, MG2+ AND REMARK 900 NH4+ REMARK 900 RELATED ID: 2GJ8 RELATED DB: PDB REMARK 900 MNME G-DOMAIN IN COMPLEX WITH GDP-ALF4-, MG2+ AND K+ REMARK 900 RELATED ID: 2GJ9 RELATED DB: PDB REMARK 900 MNME G-DOMAIN IN COMPLEX WITH GDP-ALF4-, MG2+ AND RB+ REMARK 900 RELATED ID: 3CP2 RELATED DB: PDB REMARK 900 GIDA FROM ESCHERICHIA COLI REMARK 900 RELATED ID: 3CP8 RELATED DB: PDB REMARK 900 GIDA FROM CHLOROBIUM TEPIDUM REMARK 900 RELATED ID: 3GEH RELATED DB: PDB REMARK 900 MNME FROM NOSTOC IN COMPLEX WITH FOLINIC ACID, GDP AND ZN REMARK 900 RELATED ID: 3GEI RELATED DB: PDB REMARK 900 MNME FROM CHLOROBIUM TEPIDUM IN COMPLEX WITH GCP AND MG DBREF 3GEE A 1 473 UNP Q8KAS1 MNME_CHLTE 1 473 SEQADV 3GEE GLY A -2 UNP Q8KAS1 EXPRESSION TAG SEQADV 3GEE SER A -1 UNP Q8KAS1 EXPRESSION TAG SEQADV 3GEE HIS A 0 UNP Q8KAS1 EXPRESSION TAG SEQRES 1 A 476 GLY SER HIS MET SER PRO SER ASP LEU HIS LEU PRO VAL SEQRES 2 A 476 PRO GLY HIS PRO ILE ALA ALA ILE ALA THR PRO VAL GLY SEQRES 3 A 476 VAL GLY ALA LEU ALA ILE VAL ARG ILE SER GLY ALA GLY SEQRES 4 A 476 VAL LEU ASP LEU ALA ASP ARG VAL PHE ARG LYS VAL HIS SEQRES 5 A 476 GLY SER GLY LYS LEU ALA GLU ALA ALA GLY TYR THR ALA SEQRES 6 A 476 HIS PHE GLY ARG LEU TYR ASP GLY GLU GLU MET VAL ASP SEQRES 7 A 476 GLU VAL ILE ALA LEU VAL PHE ARG ALA PRO ARG SER PHE SEQRES 8 A 476 THR ALA GLU GLN MET VAL GLU PHE THR CYS HIS GLY GLY SEQRES 9 A 476 PRO VAL VAL VAL GLY ARG VAL LEU ARG LEU MET LEU ASP SEQRES 10 A 476 ASN GLY CYS ARG LEU ALA GLU PRO GLY GLU PHE THR ARG SEQRES 11 A 476 ARG ALA PHE LEU ASN GLY ARG ILE ASP LEU LEU GLN ALA SEQRES 12 A 476 GLU ALA ILE GLY GLU MET ILE HIS ALA ARG THR GLU SER SEQRES 13 A 476 ALA TYR ARG THR ALA VAL SER GLN MET LYS GLY ASP LEU SEQRES 14 A 476 SER VAL ARG LEU GLY GLY LEU ARG GLU GLN LEU ILE ARG SEQRES 15 A 476 SER CYS ALA LEU ILE GLU LEU GLU LEU ASP PHE SER GLU SEQRES 16 A 476 GLU ASP VAL GLU PHE GLN SER ARG ASP GLU LEU THR MET SEQRES 17 A 476 GLN ILE GLU THR LEU ARG SER GLU VAL ASN ARG LEU ILE SEQRES 18 A 476 ASP SER TYR GLN HIS GLY ARG ILE VAL SER GLU GLY VAL SEQRES 19 A 476 SER THR VAL ILE ALA GLY LYS PRO ASN ALA GLY LYS SER SEQRES 20 A 476 THR LEU LEU ASN THR LEU LEU GLY GLN GLU ARG ALA ILE SEQRES 21 A 476 VAL SER HIS MET PRO GLY THR THR ARG ASP TYR ILE GLU SEQRES 22 A 476 GLU CYS PHE ILE HIS ASP LYS THR MET PHE ARG LEU THR SEQRES 23 A 476 ASP THR ALA GLY LEU ARG GLU ALA GLY GLU GLU ILE GLU SEQRES 24 A 476 HIS GLU GLY ILE ARG ARG SER ARG MET LYS MET ALA GLU SEQRES 25 A 476 ALA ASP LEU ILE LEU TYR LEU LEU ASP LEU GLY THR GLU SEQRES 26 A 476 ARG LEU ASP ASP GLU LEU THR GLU ILE ARG GLU LEU LYS SEQRES 27 A 476 ALA ALA HIS PRO ALA ALA LYS PHE LEU THR VAL ALA ASN SEQRES 28 A 476 LYS LEU ASP ARG ALA ALA ASN ALA ASP ALA LEU ILE ARG SEQRES 29 A 476 ALA ILE ALA ASP GLY THR GLY THR GLU VAL ILE GLY ILE SEQRES 30 A 476 SER ALA LEU ASN GLY ASP GLY ILE ASP THR LEU LYS GLN SEQRES 31 A 476 HIS MET GLY ASP LEU VAL LYS ASN LEU ASP LYS LEU HIS SEQRES 32 A 476 GLU ALA SER VAL LEU VAL THR SER LEU ARG HIS TYR GLU SEQRES 33 A 476 ALA LEU ARG ASN ALA SER ASP ALA LEU GLN ASN ALA LEU SEQRES 34 A 476 GLU LEU ILE ALA HIS GLU SER GLU THR GLU LEU ILE ALA SEQRES 35 A 476 PHE GLU LEU ARG ALA ALA LEU ASP TYR VAL GLY GLN ILE SEQRES 36 A 476 THR GLY LYS VAL VAL ASN GLU GLU VAL LEU ASN THR ILE SEQRES 37 A 476 PHE ASP LYS PHE CYS ILE GLY LYS HET GDP A 474 28 HET FON A 475 34 HETNAM GDP GUANOSINE-5'-DIPHOSPHATE HETNAM FON N-{[4-({[(6R)-2-AMINO-5-FORMYL-4-OXO-1,4,5,6,7,8- HETNAM 2 FON HEXAHYDROPTERIDIN-6-YL]METHYL}AMINO)PHENYL]CARBONYL}- HETNAM 3 FON L-GLUTAMIC ACID HETSYN FON [6R]-5-FORMYL-5,6,7,8-TETRAHYDROFOLATE; 6R-FOLINIC ACID FORMUL 2 GDP C10 H15 N5 O11 P2 FORMUL 3 FON C20 H23 N7 O7 HELIX 1 1 GLY A 36 VAL A 44 1 9 HELIX 2 2 LYS A 53 ALA A 57 5 5 HELIX 3 3 GLY A 101 ASN A 115 1 15 HELIX 4 4 GLY A 123 ASN A 132 1 10 HELIX 5 5 ASP A 136 ALA A 149 1 14 HELIX 6 6 THR A 151 GLY A 164 1 14 HELIX 7 7 GLY A 164 GLU A 175 1 12 HELIX 8 8 GLU A 175 LEU A 183 1 9 HELIX 9 9 SER A 199 GLY A 230 1 32 HELIX 10 10 GLY A 242 LEU A 250 1 9 HELIX 11 11 LEU A 324 ASP A 326 5 3 HELIX 12 12 GLU A 327 HIS A 338 1 12 HELIX 13 13 ALA A 356 GLY A 368 1 13 HELIX 14 14 GLY A 381 GLY A 390 1 10 HELIX 15 15 GLY A 390 ASN A 395 1 6 HELIX 16 16 SER A 408 GLU A 427 1 20 HELIX 17 17 LEU A 437 GLY A 454 1 18 HELIX 18 18 GLU A 460 ASP A 467 1 8 SHEET 1 A 7 PHE A 45 LYS A 47 0 SHEET 2 A 7 THR A 61 TYR A 68 -1 O ARG A 66 N ARG A 46 SHEET 3 A 7 MET A 73 PHE A 82 -1 O ALA A 79 N HIS A 63 SHEET 4 A 7 MET A 93 HIS A 99 -1 O MET A 93 N PHE A 82 SHEET 5 A 7 LEU A 27 SER A 33 -1 N VAL A 30 O PHE A 96 SHEET 6 A 7 ILE A 15 ILE A 18 -1 N ILE A 15 O SER A 33 SHEET 7 A 7 ARG A 118 LEU A 119 1 O ARG A 118 N ALA A 16 SHEET 1 B 6 GLU A 271 HIS A 275 0 SHEET 2 B 6 THR A 278 THR A 283 -1 O LEU A 282 N GLU A 271 SHEET 3 B 6 VAL A 231 ALA A 236 1 N THR A 233 O ARG A 281 SHEET 4 B 6 LEU A 312 ASP A 318 1 O LEU A 314 N VAL A 234 SHEET 5 B 6 LYS A 342 ASN A 348 1 O VAL A 346 N TYR A 315 SHEET 6 B 6 VAL A 371 GLY A 373 1 O ILE A 372 N THR A 345 SITE 1 AC1 12 ASN A 240 ALA A 241 GLY A 242 LYS A 243 SITE 2 AC1 12 SER A 244 THR A 245 ASN A 348 ASP A 351 SITE 3 AC1 12 ARG A 352 SER A 375 ALA A 376 LEU A 377 SITE 1 AC2 16 LEU A 27 ARG A 31 VAL A 48 HIS A 49 SITE 2 AC2 16 TYR A 60 PHE A 64 GLU A 76 ILE A 78 SITE 3 AC2 16 ARG A 86 SER A 87 PHE A 88 GLU A 95 SITE 4 AC2 16 THR A 97 HIS A 99 ARG A 134 LYS A 473 CRYST1 130.804 130.804 200.611 90.00 90.00 90.00 I 41 2 2 16 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 0.007645 0.000000 0.000000 0.00000 SCALE2 0.000000 0.007645 0.000000 0.00000 SCALE3 0.000000 0.000000 0.004985 0.00000