HEADER HYDROLASE 30-MAR-06 2GJA TITLE STRUCTURE OF THE MNME G-DOMAIN IN COMPLEX WITH GDP*ALF4-, MG2+ AND TITLE 2 NH4+ COMPND MOL_ID: 1; COMPND 2 MOLECULE: TRNA MODIFICATION GTPASE TRME; COMPND 3 CHAIN: A, B; COMPND 4 FRAGMENT: G-DOMAIN (216-384); COMPND 5 SYNONYM: MNME; COMPND 6 ENGINEERED: YES SOURCE MOL_ID: 1; SOURCE 2 ORGANISM_SCIENTIFIC: ESCHERICHIA COLI BL21(DE3); SOURCE 3 ORGANISM_TAXID: 469008; SOURCE 4 STRAIN: BL21DE3; SOURCE 5 GENE: TRME, MNME, THDF; SOURCE 6 EXPRESSION_SYSTEM: ESCHERICHIA COLI BL21(DE3); SOURCE 7 EXPRESSION_SYSTEM_TAXID: 469008; SOURCE 8 EXPRESSION_SYSTEM_STRAIN: BL21DE3; SOURCE 9 EXPRESSION_SYSTEM_VECTOR_TYPE: PLASMID; SOURCE 10 EXPRESSION_SYSTEM_PLASMID: PET 14B KEYWDS G-DOMAIN DIMER, ALPHA-BETA-SANDWICH, HYDROLASE EXPDTA X-RAY DIFFRACTION AUTHOR A.SCRIMA,A.WITTINGHOFER REVDAT 3 14-FEB-24 2GJA 1 REMARK SEQADV LINK REVDAT 2 24-FEB-09 2GJA 1 VERSN REVDAT 1 04-JUL-06 2GJA 0 JRNL AUTH A.SCRIMA,A.WITTINGHOFER JRNL TITL DIMERISATION-DEPENDENT GTPASE REACTION OF MNME: HOW JRNL TITL 2 POTASSIUM ACTS AS GTPASE-ACTIVATING ELEMENT. JRNL REF EMBO J. V. 25 2940 2006 JRNL REFN ISSN 0261-4189 JRNL PMID 16763562 JRNL DOI 10.1038/SJ.EMBOJ.7601171 REMARK 2 REMARK 2 RESOLUTION. 1.85 ANGSTROMS. REMARK 3 REMARK 3 REFINEMENT. REMARK 3 PROGRAM : REFMAC 5.2.0005 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) : 1.85 REMARK 3 RESOLUTION RANGE LOW (ANGSTROMS) : 19.37 REMARK 3 DATA CUTOFF (SIGMA(F)) : NULL REMARK 3 COMPLETENESS FOR RANGE (%) : 100.0 REMARK 3 NUMBER OF REFLECTIONS : 36248 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) : 0.197 REMARK 3 R VALUE (WORKING SET) : 0.195 REMARK 3 FREE R VALUE : 0.228 REMARK 3 FREE R VALUE TEST SET SIZE (%) : 5.000 REMARK 3 FREE R VALUE TEST SET COUNT : 1907 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) : 1.85 REMARK 3 BIN RESOLUTION RANGE LOW (A) : 1.90 REMARK 3 REFLECTION IN BIN (WORKING SET) : 2612 REMARK 3 BIN COMPLETENESS (WORKING+TEST) (%) : 100.0 REMARK 3 BIN R VALUE (WORKING SET) : 0.2170 REMARK 3 BIN FREE R VALUE SET COUNT : 137 REMARK 3 BIN FREE R VALUE : 0.2720 REMARK 3 REMARK 3 NUMBER OF NON-HYDROGEN ATOMS USED IN REFINEMENT. REMARK 3 PROTEIN ATOMS : 2506 REMARK 3 NUCLEIC ACID ATOMS : 0 REMARK 3 HETEROGEN ATOMS : 70 REMARK 3 SOLVENT ATOMS : 183 REMARK 3 REMARK 3 B VALUES. REMARK 3 FROM WILSON PLOT (A**2) : NULL REMARK 3 MEAN B VALUE (OVERALL, A**2) : 20.90 REMARK 3 OVERALL ANISOTROPIC B VALUE. REMARK 3 B11 (A**2) : 0.04000 REMARK 3 B22 (A**2) : -0.02000 REMARK 3 B33 (A**2) : -0.02000 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): 0.122 REMARK 3 ESU BASED ON FREE R VALUE (A): 0.119 REMARK 3 ESU BASED ON MAXIMUM LIKELIHOOD (A): 0.074 REMARK 3 ESU FOR B VALUES BASED ON MAXIMUM LIKELIHOOD (A**2): 2.369 REMARK 3 REMARK 3 CORRELATION COEFFICIENTS. REMARK 3 CORRELATION COEFFICIENT FO-FC : 0.943 REMARK 3 CORRELATION COEFFICIENT FO-FC FREE : 0.919 REMARK 3 REMARK 3 RMS DEVIATIONS FROM IDEAL VALUES COUNT RMS WEIGHT REMARK 3 BOND LENGTHS REFINED ATOMS (A): 2609 ; 0.014 ; 0.021 REMARK 3 BOND LENGTHS OTHERS (A): NULL ; NULL ; NULL REMARK 3 BOND ANGLES REFINED ATOMS (DEGREES): 3549 ; 1.498 ; 1.989 REMARK 3 BOND ANGLES OTHERS (DEGREES): NULL ; NULL ; NULL REMARK 3 TORSION ANGLES, PERIOD 1 (DEGREES): 327 ; 5.291 ; 5.000 REMARK 3 TORSION ANGLES, PERIOD 2 (DEGREES): 113 ;36.590 ;23.540 REMARK 3 TORSION ANGLES, PERIOD 3 (DEGREES): 444 ;14.353 ;15.000 REMARK 3 TORSION ANGLES, PERIOD 4 (DEGREES): 26 ;14.405 ;15.000 REMARK 3 CHIRAL-CENTER RESTRAINTS (A**3): 415 ; 0.098 ; 0.200 REMARK 3 GENERAL PLANES REFINED ATOMS (A): 1921 ; 0.005 ; 0.020 REMARK 3 GENERAL PLANES OTHERS (A): NULL ; NULL ; NULL REMARK 3 NON-BONDED CONTACTS REFINED ATOMS (A): 1183 ; 0.212 ; 0.200 REMARK 3 NON-BONDED CONTACTS OTHERS (A): NULL ; NULL ; NULL REMARK 3 NON-BONDED TORSION REFINED ATOMS (A): 1803 ; 0.306 ; 0.200 REMARK 3 NON-BONDED TORSION OTHERS (A): NULL ; NULL ; NULL REMARK 3 H-BOND (X...Y) REFINED ATOMS (A): 192 ; 0.143 ; 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): 60 ; 0.245 ; 0.200 REMARK 3 SYMMETRY VDW OTHERS (A): NULL ; NULL ; NULL REMARK 3 SYMMETRY H-BOND REFINED ATOMS (A): 13 ; 0.182 ; 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): 1679 ; 1.039 ; 1.500 REMARK 3 MAIN-CHAIN BOND OTHER ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 MAIN-CHAIN ANGLE REFINED ATOMS (A**2): 2618 ; 1.657 ; 2.000 REMARK 3 MAIN-CHAIN ANGLE OTHER ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 SIDE-CHAIN BOND REFINED ATOMS (A**2): 1054 ; 2.789 ; 3.000 REMARK 3 SIDE-CHAIN BOND OTHER ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 SIDE-CHAIN ANGLE REFINED ATOMS (A**2): 931 ; 4.521 ; 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 2GJA COMPLIES WITH FORMAT V. 3.30, 13-JUL-11 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY RCSB ON 11-APR-06. REMARK 100 THE DEPOSITION ID IS D_1000037187. REMARK 200 REMARK 200 EXPERIMENTAL DETAILS REMARK 200 EXPERIMENT TYPE : X-RAY DIFFRACTION REMARK 200 DATE OF DATA COLLECTION : 18-APR-05 REMARK 200 TEMPERATURE (KELVIN) : NULL REMARK 200 PH : 7.0 REMARK 200 NUMBER OF CRYSTALS USED : NULL 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) : 0.950 REMARK 200 MONOCHROMATOR : NULL REMARK 200 OPTICS : NULL REMARK 200 REMARK 200 DETECTOR TYPE : CCD REMARK 200 DETECTOR MANUFACTURER : MARMOSAIC 225 MM CCD REMARK 200 INTENSITY-INTEGRATION SOFTWARE : NULL REMARK 200 DATA SCALING SOFTWARE : XSCALE REMARK 200 REMARK 200 NUMBER OF UNIQUE REFLECTIONS : 38156 REMARK 200 RESOLUTION RANGE HIGH (A) : 1.850 REMARK 200 RESOLUTION RANGE LOW (A) : 20.000 REMARK 200 REJECTION CRITERIA (SIGMA(I)) : NULL REMARK 200 REMARK 200 OVERALL. REMARK 200 COMPLETENESS FOR RANGE (%) : 97.0 REMARK 200 DATA REDUNDANCY : NULL REMARK 200 R MERGE (I) : 0.06800 REMARK 200 R SYM (I) : NULL REMARK 200 <I/SIGMA(I)> FOR THE DATA SET : 14.4400 REMARK 200 REMARK 200 IN THE HIGHEST RESOLUTION SHELL. REMARK 200 HIGHEST RESOLUTION SHELL, RANGE HIGH (A) : 1.85 REMARK 200 HIGHEST RESOLUTION SHELL, RANGE LOW (A) : 1.90 REMARK 200 COMPLETENESS FOR SHELL (%) : NULL REMARK 200 DATA REDUNDANCY IN SHELL : NULL REMARK 200 R MERGE FOR SHELL (I) : 0.31700 REMARK 200 R SYM FOR SHELL (I) : NULL REMARK 200 <I/SIGMA(I)> FOR SHELL : 5.500 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: NULL REMARK 200 REMARK 200 REMARK: NULL REMARK 280 REMARK 280 CRYSTAL REMARK 280 SOLVENT CONTENT, VS (%): 59.03 REMARK 280 MATTHEWS COEFFICIENT, VM (ANGSTROMS**3/DA): 3.00 REMARK 280 REMARK 280 CRYSTALLIZATION CONDITIONS: 1.5 M AMMONIUM SULPHATE, 100 MM HEPES REMARK 280 7.0, VAPOR DIFFUSION, HANGING DROP, TEMPERATURE 293K, PH 7.0 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 69.23500 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 69.23500 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 35.64000 REMARK 290 SMTRY2 5 0.000000 1.000000 0.000000 45.32500 REMARK 290 SMTRY3 5 0.000000 0.000000 1.000000 0.00000 REMARK 290 SMTRY1 6 -1.000000 0.000000 0.000000 35.64000 REMARK 290 SMTRY2 6 0.000000 -1.000000 0.000000 45.32500 REMARK 290 SMTRY3 6 0.000000 0.000000 1.000000 69.23500 REMARK 290 SMTRY1 7 -1.000000 0.000000 0.000000 35.64000 REMARK 290 SMTRY2 7 0.000000 1.000000 0.000000 45.32500 REMARK 290 SMTRY3 7 0.000000 0.000000 -1.000000 69.23500 REMARK 290 SMTRY1 8 1.000000 0.000000 0.000000 35.64000 REMARK 290 SMTRY2 8 0.000000 -1.000000 0.000000 45.32500 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 300 REMARK: THE BIOLOGICAL UNIT CORRESPONDS TO A G-DOMAIN DIMER. 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 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 GLY A 213 REMARK 465 SER A 214 REMARK 465 GLU A 383 REMARK 465 GLY A 384 REMARK 465 GLY B 213 REMARK 465 SER B 214 REMARK 465 MET B 376 REMARK 465 GLY B 377 REMARK 465 PHE B 378 REMARK 465 ASP B 379 REMARK 465 THR B 380 REMARK 465 ASN B 381 REMARK 465 MET B 382 REMARK 465 GLU B 383 REMARK 465 GLY B 384 REMARK 500 REMARK 500 GEOMETRY AND STEREOCHEMISTRY REMARK 500 SUBTOPIC: CLOSE CONTACTS IN SAME ASYMMETRIC UNIT REMARK 500 REMARK 500 THE FOLLOWING ATOMS ARE IN CLOSE CONTACT. REMARK 500 REMARK 500 ATM1 RES C SSEQI ATM2 RES C SSEQI DISTANCE REMARK 500 O HOH B 12 O HOH B 138 2.12 REMARK 500 REMARK 500 REMARK: NULL REMARK 500 REMARK 500 GEOMETRY AND STEREOCHEMISTRY REMARK 500 SUBTOPIC: CLOSE CONTACTS REMARK 500 REMARK 500 THE FOLLOWING ATOMS THAT ARE RELATED BY CRYSTALLOGRAPHIC REMARK 500 SYMMETRY ARE IN CLOSE CONTACT. AN ATOM LOCATED WITHIN 0.15 REMARK 500 ANGSTROMS OF A SYMMETRY RELATED ATOM IS ASSUMED TO BE ON A REMARK 500 SPECIAL POSITION AND IS, THEREFORE, LISTED IN REMARK 375 REMARK 500 INSTEAD OF REMARK 500. ATOMS WITH NON-BLANK ALTERNATE REMARK 500 LOCATION INDICATORS ARE NOT INCLUDED IN THE CALCULATIONS. REMARK 500 REMARK 500 DISTANCE CUTOFF: REMARK 500 2.2 ANGSTROMS FOR CONTACTS NOT INVOLVING HYDROGEN ATOMS REMARK 500 1.6 ANGSTROMS FOR CONTACTS INVOLVING HYDROGEN ATOMS REMARK 500 REMARK 500 ATM1 RES C SSEQI ATM2 RES C SSEQI SSYMOP DISTANCE REMARK 500 OE2 GLU A 280 OE2 GLU A 280 3555 1.72 REMARK 500 O HOH A 25 O HOH A 152 3555 2.15 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 ARG A 252 -58.63 -128.38 REMARK 500 TRP A 317 80.48 -160.10 REMARK 500 LYS A 336 34.11 71.66 REMARK 500 ARG B 252 -56.12 -126.10 REMARK 500 TRP B 317 79.87 -154.74 REMARK 500 LYS B 327 -7.80 76.35 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 ALF A 401 AL REMARK 620 N RES CSSEQI ATOM REMARK 620 1 HOH A 2 O REMARK 620 2 ALF A 401 F1 85.8 REMARK 620 3 ALF A 401 F2 92.9 178.5 REMARK 620 4 ALF A 401 F3 87.4 92.2 88.5 REMARK 620 5 ALF A 401 F4 90.2 90.2 89.1 176.5 REMARK 620 6 GDP A 400 O2B 176.2 91.0 90.3 90.7 91.9 REMARK 620 7 GDP A 400 O3B 136.0 86.6 94.8 49.7 133.2 41.6 REMARK 620 8 MG A 402 MG 105.8 96.9 84.2 18.7 162.9 72.6 32.8 REMARK 620 N 1 2 3 4 5 6 7 REMARK 620 REMARK 620 COORDINATION ANGLES FOR: M RES CSSEQI METAL REMARK 620 MG A 402 MG REMARK 620 N RES CSSEQI ATOM REMARK 620 1 HOH A 100 O REMARK 620 2 HOH A 101 O 176.4 REMARK 620 3 SER A 230 OG 88.5 87.8 REMARK 620 4 THR A 251 OG1 90.9 89.2 85.5 REMARK 620 5 GDP A 400 O3B 90.2 89.9 97.6 176.8 REMARK 620 6 ALF A 401 F3 84.5 99.2 169.7 87.1 89.9 REMARK 620 N 1 2 3 4 5 REMARK 620 REMARK 620 COORDINATION ANGLES FOR: M RES CSSEQI METAL REMARK 620 ALF B 501 AL REMARK 620 N RES CSSEQI ATOM REMARK 620 1 HOH B 99 O REMARK 620 2 ALF B 501 F1 87.8 REMARK 620 3 ALF B 501 F2 91.3 179.0 REMARK 620 4 ALF B 501 F3 87.2 90.9 89.2 REMARK 620 5 ALF B 501 F4 90.3 92.1 87.7 176.0 REMARK 620 6 GDP B 500 O2B 176.4 90.9 90.0 89.5 93.1 REMARK 620 7 GDP B 500 O3B 137.3 87.1 93.7 50.6 132.2 39.2 REMARK 620 8 MG B 502 MG 106.5 96.7 83.8 20.0 161.3 70.3 32.7 REMARK 620 N 1 2 3 4 5 6 7 REMARK 620 REMARK 620 COORDINATION ANGLES FOR: M RES CSSEQI METAL REMARK 620 MG B 502 MG REMARK 620 N RES CSSEQI ATOM REMARK 620 1 HOH B 113 O REMARK 620 2 HOH B 114 O 171.8 REMARK 620 3 SER B 230 OG 84.0 87.9 REMARK 620 4 THR B 251 OG1 86.5 91.3 84.6 REMARK 620 5 GDP B 500 O3B 88.7 93.4 94.1 175.1 REMARK 620 6 ALF B 501 F3 102.9 84.9 168.9 87.2 94.7 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 ALF A 401 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC2 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE MG A 402 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC3 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE NH4 A 403 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC4 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE ALF B 501 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC5 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE MG B 502 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC6 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE NH4 B 503 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC7 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE GDP A 400 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC8 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE GDP B 500 REMARK 900 REMARK 900 RELATED ENTRIES REMARK 900 RELATED ID: 1XZP RELATED DB: PDB REMARK 900 STRUCTURE OF THE GTP-BINDING PROTEIN TRME FROM THERMOTOGA MARITIMA 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: 1RFL RELATED DB: PDB REMARK 900 NMR DATA DRIVEN STRUCTURAL MODEL OF G-DOMAIN OF MNME PROTEIN REMARK 900 RELATED ID: 2GJ8 RELATED DB: PDB REMARK 900 RELATED ID: 2GJ9 RELATED DB: PDB DBREF 2GJA A 216 384 UNP P25522 TRME_ECOLI 216 384 DBREF 2GJA B 216 384 UNP P25522 TRME_ECOLI 216 384 SEQADV 2GJA GLY A 213 UNP P25522 CLONING ARTIFACT SEQADV 2GJA SER A 214 UNP P25522 CLONING ARTIFACT SEQADV 2GJA HIS A 215 UNP P25522 CLONING ARTIFACT SEQADV 2GJA GLY B 213 UNP P25522 CLONING ARTIFACT SEQADV 2GJA SER B 214 UNP P25522 CLONING ARTIFACT SEQADV 2GJA HIS B 215 UNP P25522 CLONING ARTIFACT SEQRES 1 A 172 GLY SER HIS GLY MET LYS VAL VAL ILE ALA GLY ARG PRO SEQRES 2 A 172 ASN ALA GLY LYS SER SER LEU LEU ASN ALA LEU ALA GLY SEQRES 3 A 172 ARG GLU ALA ALA ILE VAL THR ASP ILE ALA GLY THR THR SEQRES 4 A 172 ARG ASP VAL LEU ARG GLU HIS ILE HIS ILE ASP GLY MET SEQRES 5 A 172 PRO LEU HIS ILE ILE ASP THR ALA GLY LEU ARG GLU ALA SEQRES 6 A 172 SER ASP GLU VAL GLU ARG ILE GLY ILE GLU ARG ALA TRP SEQRES 7 A 172 GLN GLU ILE GLU GLN ALA ASP ARG VAL LEU PHE MET VAL SEQRES 8 A 172 ASP GLY THR THR THR ASP ALA VAL ASP PRO ALA GLU ILE SEQRES 9 A 172 TRP PRO GLU PHE ILE ALA ARG LEU PRO ALA LYS LEU PRO SEQRES 10 A 172 ILE THR VAL VAL ARG ASN LYS ALA ASP ILE THR GLY GLU SEQRES 11 A 172 THR LEU GLY MET SER GLU VAL ASN GLY HIS ALA LEU ILE SEQRES 12 A 172 ARG LEU SER ALA ARG THR GLY GLU GLY VAL ASP VAL LEU SEQRES 13 A 172 ARG ASN HIS LEU LYS GLN SER MET GLY PHE ASP THR ASN SEQRES 14 A 172 MET GLU GLY SEQRES 1 B 172 GLY SER HIS GLY MET LYS VAL VAL ILE ALA GLY ARG PRO SEQRES 2 B 172 ASN ALA GLY LYS SER SER LEU LEU ASN ALA LEU ALA GLY SEQRES 3 B 172 ARG GLU ALA ALA ILE VAL THR ASP ILE ALA GLY THR THR SEQRES 4 B 172 ARG ASP VAL LEU ARG GLU HIS ILE HIS ILE ASP GLY MET SEQRES 5 B 172 PRO LEU HIS ILE ILE ASP THR ALA GLY LEU ARG GLU ALA SEQRES 6 B 172 SER ASP GLU VAL GLU ARG ILE GLY ILE GLU ARG ALA TRP SEQRES 7 B 172 GLN GLU ILE GLU GLN ALA ASP ARG VAL LEU PHE MET VAL SEQRES 8 B 172 ASP GLY THR THR THR ASP ALA VAL ASP PRO ALA GLU ILE SEQRES 9 B 172 TRP PRO GLU PHE ILE ALA ARG LEU PRO ALA LYS LEU PRO SEQRES 10 B 172 ILE THR VAL VAL ARG ASN LYS ALA ASP ILE THR GLY GLU SEQRES 11 B 172 THR LEU GLY MET SER GLU VAL ASN GLY HIS ALA LEU ILE SEQRES 12 B 172 ARG LEU SER ALA ARG THR GLY GLU GLY VAL ASP VAL LEU SEQRES 13 B 172 ARG ASN HIS LEU LYS GLN SER MET GLY PHE ASP THR ASN SEQRES 14 B 172 MET GLU GLY HET ALF A 401 5 HET MG A 402 1 HET NH4 A 403 1 HET GDP A 400 28 HET ALF B 501 5 HET MG B 502 1 HET NH4 B 503 1 HET GDP B 500 28 HETNAM ALF TETRAFLUOROALUMINATE ION HETNAM MG MAGNESIUM ION HETNAM NH4 AMMONIUM ION HETNAM GDP GUANOSINE-5'-DIPHOSPHATE FORMUL 3 ALF 2(AL F4 1-) FORMUL 4 MG 2(MG 2+) FORMUL 5 NH4 2(H4 N 1+) FORMUL 6 GDP 2(C10 H15 N5 O11 P2) FORMUL 11 HOH *183(H2 O) HELIX 1 1 GLY A 228 GLY A 238 1 11 HELIX 2 2 ASP A 279 ALA A 296 1 18 HELIX 3 3 ASP A 312 TRP A 317 1 6 HELIX 4 4 TRP A 317 LEU A 324 1 8 HELIX 5 5 LYS A 336 GLY A 341 1 6 HELIX 6 6 GLY A 364 MET A 376 1 13 HELIX 7 7 GLY B 228 GLY B 238 1 11 HELIX 8 8 ASP B 279 GLN B 295 1 17 HELIX 9 9 ASP B 312 TRP B 317 1 6 HELIX 10 10 TRP B 317 LEU B 324 1 8 HELIX 11 11 LYS B 336 GLY B 341 1 6 HELIX 12 12 GLY B 364 SER B 375 1 12 SHEET 1 A 7 LEU A 255 ILE A 261 0 SHEET 2 A 7 MET A 264 ASP A 270 -1 O ILE A 268 N GLU A 257 SHEET 3 A 7 MET A 217 GLY A 223 1 N ILE A 221 O ILE A 269 SHEET 4 A 7 ARG A 298 ASP A 304 1 O LEU A 300 N VAL A 220 SHEET 5 A 7 ILE A 330 ASN A 335 1 O VAL A 333 N VAL A 303 SHEET 6 A 7 HIS A 352 ARG A 356 1 O ILE A 355 N VAL A 332 SHEET 7 A 7 GLY A 345 VAL A 349 -1 N SER A 347 O LEU A 354 SHEET 1 B 7 LEU B 255 ILE B 261 0 SHEET 2 B 7 MET B 264 ASP B 270 -1 O ASP B 270 N LEU B 255 SHEET 3 B 7 MET B 217 GLY B 223 1 N ILE B 221 O ILE B 269 SHEET 4 B 7 ARG B 298 ASP B 304 1 O LEU B 300 N VAL B 220 SHEET 5 B 7 ILE B 330 ASN B 335 1 O VAL B 333 N PHE B 301 SHEET 6 B 7 HIS B 352 ARG B 356 1 O ILE B 355 N ARG B 334 SHEET 7 B 7 GLY B 345 VAL B 349 -1 N SER B 347 O LEU B 354 LINK O HOH A 2 AL ALF A 401 1555 1555 2.10 LINK O HOH A 100 MG MG A 402 1555 1555 2.13 LINK O HOH A 101 MG MG A 402 1555 1555 2.08 LINK OG SER A 230 MG MG A 402 1555 1555 2.06 LINK OG1 THR A 251 MG MG A 402 1555 1555 2.05 LINK O2B GDP A 400 AL ALF A 401 1555 1555 1.92 LINK O3B GDP A 400 AL ALF A 401 1555 1555 3.57 LINK O3B GDP A 400 MG MG A 402 1555 1555 2.00 LINK AL ALF A 401 MG MG A 402 1555 1555 3.52 LINK F3 ALF A 401 MG MG A 402 1555 1555 1.93 LINK O HOH B 99 AL ALF B 501 1555 1555 2.00 LINK O HOH B 113 MG MG B 502 1555 1555 2.14 LINK O HOH B 114 MG MG B 502 1555 1555 2.16 LINK OG SER B 230 MG MG B 502 1555 1555 2.07 LINK OG1 THR B 251 MG MG B 502 1555 1555 2.11 LINK O2B GDP B 500 AL ALF B 501 1555 1555 1.86 LINK O3B GDP B 500 AL ALF B 501 1555 1555 3.71 LINK O3B GDP B 500 MG MG B 502 1555 1555 2.04 LINK AL ALF B 501 MG MG B 502 1555 1555 3.51 LINK F3 ALF B 501 MG MG B 502 1555 1555 1.93 SITE 1 AC1 15 HOH A 2 HOH A 100 HOH A 101 PRO A 225 SITE 2 AC1 15 ASN A 226 LYS A 229 ILE A 247 ALA A 248 SITE 3 AC1 15 GLY A 249 THR A 250 THR A 251 GLY A 273 SITE 4 AC1 15 GDP A 400 MG A 402 NH4 A 403 SITE 1 AC2 6 HOH A 100 HOH A 101 SER A 230 THR A 251 SITE 2 AC2 6 GDP A 400 ALF A 401 SITE 1 AC3 6 ASN A 226 THR A 245 ILE A 247 THR A 250 SITE 2 AC3 6 GDP A 400 ALF A 401 SITE 1 AC4 14 HOH B 99 HOH B 114 PRO B 225 ASN B 226 SITE 2 AC4 14 LYS B 229 ILE B 247 ALA B 248 GLY B 249 SITE 3 AC4 14 THR B 250 THR B 251 GLY B 273 GDP B 500 SITE 4 AC4 14 MG B 502 NH4 B 503 SITE 1 AC5 6 HOH B 113 HOH B 114 SER B 230 THR B 251 SITE 2 AC5 6 GDP B 500 ALF B 501 SITE 1 AC6 6 ASN B 226 THR B 245 ILE B 247 THR B 250 SITE 2 AC6 6 GDP B 500 ALF B 501 SITE 1 AC7 25 HOH A 32 HOH A 100 HOH A 101 HOH A 116 SITE 2 AC7 25 HOH A 118 ASN A 226 ALA A 227 GLY A 228 SITE 3 AC7 25 LYS A 229 SER A 230 SER A 231 VAL A 244 SITE 4 AC7 25 THR A 245 ASP A 246 ASN A 335 LYS A 336 SITE 5 AC7 25 ASP A 338 ILE A 339 SER A 358 ALA A 359 SITE 6 AC7 25 ARG A 360 ALF A 401 MG A 402 NH4 A 403 SITE 7 AC7 25 HOH B 41 SITE 1 AC8 25 HOH B 44 HOH B 60 HOH B 113 HOH B 114 SITE 2 AC8 25 HOH B 120 HOH B 121 ASN B 226 ALA B 227 SITE 3 AC8 25 GLY B 228 LYS B 229 SER B 230 SER B 231 SITE 4 AC8 25 VAL B 244 THR B 245 ASP B 246 ASN B 335 SITE 5 AC8 25 LYS B 336 ASP B 338 ILE B 339 SER B 358 SITE 6 AC8 25 ALA B 359 ARG B 360 ALF B 501 MG B 502 SITE 7 AC8 25 NH4 B 503 CRYST1 71.280 90.650 138.470 90.00 90.00 90.00 C 2 2 21 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 0.014029 0.000000 0.000000 0.00000 SCALE2 0.000000 0.011031 0.000000 0.00000 SCALE3 0.000000 0.000000 0.007222 0.00000