PDB Short entry for 2Q5H HEADER LIGASE 01-JUN-07 2Q5H TITLE CRYSTAL STRUCTURE OF APO-WILDTYPE GLYCYL-TRNA SYNTHETASE COMPND MOL_ID: 1; COMPND 2 MOLECULE: GLYCYL-TRNA SYNTHETASE; COMPND 3 CHAIN: A; COMPND 4 FRAGMENT: RESIDUES 55-739; COMPND 5 SYNONYM: GLYCINE-TRNA LIGASE, GLYRS; COMPND 6 EC: 6.1.1.14; COMPND 7 ENGINEERED: YES SOURCE MOL_ID: 1; SOURCE 2 ORGANISM_SCIENTIFIC: HOMO SAPIENS; SOURCE 3 ORGANISM_COMMON: HUMAN; SOURCE 4 ORGANISM_TAXID: 9606; SOURCE 5 GENE: GARS; SOURCE 6 EXPRESSION_SYSTEM: ESCHERICHIA COLI BL21(DE3); SOURCE 7 EXPRESSION_SYSTEM_TAXID: 469008; SOURCE 8 EXPRESSION_SYSTEM_STRAIN: BL21(DE3); SOURCE 9 EXPRESSION_SYSTEM_VECTOR_TYPE: PLASMID; SOURCE 10 EXPRESSION_SYSTEM_PLASMID: PET22B KEYWDS AMINOACYL-TRNA SYNTHETASE, ATP-BINDING, STRUCTURAL GENOMICS, GLYCYL- KEYWDS 2 TRNA SYNTHETASE, OXFORD PROTEIN PRODUCTION FACILITY, OPPF, LIGASE EXPDTA X-RAY DIFFRACTION AUTHOR M.Z.CADER,J.REN,P.A.JAMES,L.E.BIRD,K.TALBOT,D.K.STAMMERS,OXFORD AUTHOR 2 PROTEIN PRODUCTION FACILITY (OPPF) REVDAT 5 30-AUG-23 2Q5H 1 SEQADV REVDAT 4 13-JUL-11 2Q5H 1 VERSN REVDAT 3 24-FEB-09 2Q5H 1 VERSN REVDAT 2 24-JUL-07 2Q5H 1 JRNL REVDAT 1 19-JUN-07 2Q5H 0 JRNL AUTH M.Z.CADER,J.REN,P.A.JAMES,L.E.BIRD,K.TALBOT,D.K.STAMMERS JRNL TITL CRYSTAL STRUCTURE OF HUMAN WILDTYPE AND S581L-MUTANT JRNL TITL 2 GLYCYL-TRNA SYNTHETASE, AN ENZYME UNDERLYING DISTAL SPINAL JRNL TITL 3 MUSCULAR ATROPHY. JRNL REF FEBS LETT. V. 581 2959 2007 JRNL REFN ISSN 0014-5793 JRNL PMID 17544401 JRNL DOI 10.1016/J.FEBSLET.2007.05.046 REMARK 2 REMARK 2 RESOLUTION. 3.00 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) : 3.00 REMARK 3 RESOLUTION RANGE LOW (ANGSTROMS) : 29.27 REMARK 3 DATA CUTOFF (SIGMA(F)) : NULL REMARK 3 COMPLETENESS FOR RANGE (%) : 94.6 REMARK 3 NUMBER OF REFLECTIONS : 20082 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) : 0.207 REMARK 3 R VALUE (WORKING SET) : 0.205 REMARK 3 FREE R VALUE : 0.250 REMARK 3 FREE R VALUE TEST SET SIZE (%) : 4.800 REMARK 3 FREE R VALUE TEST SET COUNT : 1021 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) : 3.00 REMARK 3 BIN RESOLUTION RANGE LOW (A) : 3.08 REMARK 3 REFLECTION IN BIN (WORKING SET) : 1182 REMARK 3 BIN COMPLETENESS (WORKING+TEST) (%) : 76.87 REMARK 3 BIN R VALUE (WORKING SET) : 0.3260 REMARK 3 BIN FREE R VALUE SET COUNT : 44 REMARK 3 BIN FREE R VALUE : 0.4460 REMARK 3 REMARK 3 NUMBER OF NON-HYDROGEN ATOMS USED IN REFINEMENT. REMARK 3 PROTEIN ATOMS : 4213 REMARK 3 NUCLEIC ACID ATOMS : 0 REMARK 3 HETEROGEN ATOMS : 0 REMARK 3 SOLVENT ATOMS : 10 REMARK 3 REMARK 3 B VALUES. REMARK 3 B VALUE TYPE : LIKELY RESIDUAL REMARK 3 FROM WILSON PLOT (A**2) : NULL REMARK 3 MEAN B VALUE (OVERALL, A**2) : 31.32 REMARK 3 OVERALL ANISOTROPIC B VALUE. REMARK 3 B11 (A**2) : 0.30000 REMARK 3 B22 (A**2) : 0.30000 REMARK 3 B33 (A**2) : -0.60000 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): 0.734 REMARK 3 ESU BASED ON FREE R VALUE (A): 0.356 REMARK 3 ESU BASED ON MAXIMUM LIKELIHOOD (A): 0.263 REMARK 3 ESU FOR B VALUES BASED ON MAXIMUM LIKELIHOOD (A**2): 32.662 REMARK 3 REMARK 3 CORRELATION COEFFICIENTS. REMARK 3 CORRELATION COEFFICIENT FO-FC : 0.922 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): 4310 ; 0.007 ; 0.022 REMARK 3 BOND LENGTHS OTHERS (A): 2978 ; 0.001 ; 0.020 REMARK 3 BOND ANGLES REFINED ATOMS (DEGREES): 5823 ; 1.004 ; 1.952 REMARK 3 BOND ANGLES OTHERS (DEGREES): 7224 ; 0.773 ; 3.000 REMARK 3 TORSION ANGLES, PERIOD 1 (DEGREES): 525 ; 5.722 ; 5.000 REMARK 3 TORSION ANGLES, PERIOD 2 (DEGREES): 213 ;35.579 ;23.897 REMARK 3 TORSION ANGLES, PERIOD 3 (DEGREES): 741 ;16.347 ;15.000 REMARK 3 TORSION ANGLES, PERIOD 4 (DEGREES): 30 ;16.713 ;15.000 REMARK 3 CHIRAL-CENTER RESTRAINTS (A**3): 628 ; 0.058 ; 0.200 REMARK 3 GENERAL PLANES REFINED ATOMS (A): 4808 ; 0.003 ; 0.020 REMARK 3 GENERAL PLANES OTHERS (A): 910 ; 0.001 ; 0.020 REMARK 3 NON-BONDED CONTACTS REFINED ATOMS (A): 942 ; 0.216 ; 0.200 REMARK 3 NON-BONDED CONTACTS OTHERS (A): 2986 ; 0.181 ; 0.200 REMARK 3 NON-BONDED TORSION REFINED ATOMS (A): 2127 ; 0.181 ; 0.200 REMARK 3 NON-BONDED TORSION OTHERS (A): 2372 ; 0.082 ; 0.200 REMARK 3 H-BOND (X...Y) REFINED ATOMS (A): 88 ; 0.099 ; 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): 15 ; 0.223 ; 0.200 REMARK 3 SYMMETRY VDW OTHERS (A): 49 ; 0.185 ; 0.200 REMARK 3 SYMMETRY H-BOND REFINED ATOMS (A): 3 ; 0.084 ; 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): 3413 ; 2.877 ; 4.000 REMARK 3 MAIN-CHAIN BOND OTHER ATOMS (A**2): 1064 ; 0.555 ; 4.000 REMARK 3 MAIN-CHAIN ANGLE REFINED ATOMS (A**2): 4247 ; 3.966 ; 6.000 REMARK 3 MAIN-CHAIN ANGLE OTHER ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 SIDE-CHAIN BOND REFINED ATOMS (A**2): 1958 ; 5.095 ; 6.000 REMARK 3 SIDE-CHAIN BOND OTHER ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 SIDE-CHAIN ANGLE REFINED ATOMS (A**2): 1576 ; 7.564 ;12.000 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 : 3 REMARK 3 REMARK 3 TLS GROUP : 1 REMARK 3 NUMBER OF COMPONENTS GROUP : 2 REMARK 3 COMPONENTS C SSSEQI TO C SSSEQI REMARK 3 RESIDUE RANGE : A 64 A 143 REMARK 3 RESIDUE RANGE : A 226 A 538 REMARK 3 ORIGIN FOR THE GROUP (A): 83.2221 7.2475-134.5053 REMARK 3 T TENSOR REMARK 3 T11: -0.1531 T22: -0.2473 REMARK 3 T33: -0.2313 T12: 0.0251 REMARK 3 T13: -0.0367 T23: 0.1053 REMARK 3 L TENSOR REMARK 3 L11: 2.4704 L22: 1.6798 REMARK 3 L33: 1.9873 L12: -0.0375 REMARK 3 L13: 0.6363 L23: -0.4395 REMARK 3 S TENSOR REMARK 3 S11: -0.0892 S12: 0.4569 S13: 0.3680 REMARK 3 S21: -0.2751 S22: 0.0693 S23: -0.0565 REMARK 3 S31: -0.3741 S32: 0.1160 S33: 0.0199 REMARK 3 REMARK 3 TLS GROUP : 2 REMARK 3 NUMBER OF COMPONENTS GROUP : 1 REMARK 3 COMPONENTS C SSSEQI TO C SSSEQI REMARK 3 RESIDUE RANGE : A 144 A 225 REMARK 3 ORIGIN FOR THE GROUP (A): 86.9769 36.2537-128.7350 REMARK 3 T TENSOR REMARK 3 T11: 0.3355 T22: 0.0425 REMARK 3 T33: 0.3139 T12: -0.0452 REMARK 3 T13: -0.0193 T23: 0.0562 REMARK 3 L TENSOR REMARK 3 L11: 4.4334 L22: 9.4291 REMARK 3 L33: 1.8046 L12: -4.4347 REMARK 3 L13: 2.7503 L23: -2.0504 REMARK 3 S TENSOR REMARK 3 S11: -0.1797 S12: -0.4896 S13: 0.1460 REMARK 3 S21: 0.7435 S22: 0.1975 S23: 0.0166 REMARK 3 S31: -0.6172 S32: -0.3193 S33: -0.0179 REMARK 3 REMARK 3 TLS GROUP : 3 REMARK 3 NUMBER OF COMPONENTS GROUP : 1 REMARK 3 COMPONENTS C SSSEQI TO C SSSEQI REMARK 3 RESIDUE RANGE : A 539 A 673 REMARK 3 ORIGIN FOR THE GROUP (A): 63.0129 -9.1464-108.6475 REMARK 3 T TENSOR REMARK 3 T11: -0.3139 T22: 0.0004 REMARK 3 T33: -0.2615 T12: 0.1134 REMARK 3 T13: 0.0480 T23: 0.1177 REMARK 3 L TENSOR REMARK 3 L11: 5.0347 L22: 7.3140 REMARK 3 L33: 3.4994 L12: 0.7591 REMARK 3 L13: -1.3713 L23: -2.4547 REMARK 3 S TENSOR REMARK 3 S11: -0.0838 S12: -0.5856 S13: -0.2932 REMARK 3 S21: 0.4786 S22: 0.1825 S23: 0.3950 REMARK 3 S31: -0.0694 S32: -0.4138 S33: -0.0987 REMARK 3 REMARK 3 BULK SOLVENT MODELLING. REMARK 3 METHOD USED : BABINET MODEL WITH 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. O PROGRAM HAS ALSO BEEN USED IN STRUCTURE SOLUTION. REMARK 3 CNS PROGRAM HAS ALSO BEEN USED IN THE REFINEMENT. REMARK 4 REMARK 4 2Q5H COMPLIES WITH FORMAT V. 3.30, 13-JUL-11 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY RCSB ON 07-JUN-07. REMARK 100 THE DEPOSITION ID IS D_1000043173. REMARK 200 REMARK 200 EXPERIMENTAL DETAILS REMARK 200 EXPERIMENT TYPE : X-RAY DIFFRACTION REMARK 200 DATE OF DATA COLLECTION : 23-JUL-05 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 : ESRF REMARK 200 BEAMLINE : ID14-2 REMARK 200 X-RAY GENERATOR MODEL : NULL REMARK 200 MONOCHROMATIC OR LAUE (M/L) : M REMARK 200 WAVELENGTH OR RANGE (A) : 0.93300 REMARK 200 MONOCHROMATOR : NULL REMARK 200 OPTICS : MIRRORS REMARK 200 REMARK 200 DETECTOR TYPE : CCD REMARK 200 DETECTOR MANUFACTURER : ADSC QUANTUM 4 REMARK 200 INTENSITY-INTEGRATION SOFTWARE : DENZO REMARK 200 DATA SCALING SOFTWARE : SCALEPACK REMARK 200 REMARK 200 NUMBER OF UNIQUE REFLECTIONS : 21172 REMARK 200 RESOLUTION RANGE HIGH (A) : 3.000 REMARK 200 RESOLUTION RANGE LOW (A) : 30.000 REMARK 200 REJECTION CRITERIA (SIGMA(I)) : NULL REMARK 200 REMARK 200 OVERALL. REMARK 200 COMPLETENESS FOR RANGE (%) : 95.6 REMARK 200 DATA REDUNDANCY : 9.200 REMARK 200 R MERGE (I) : 0.18600 REMARK 200 R SYM (I) : NULL REMARK 200 <I/SIGMA(I)> FOR THE DATA SET : 10.3000 REMARK 200 REMARK 200 IN THE HIGHEST RESOLUTION SHELL. REMARK 200 HIGHEST RESOLUTION SHELL, RANGE HIGH (A) : 3.00 REMARK 200 HIGHEST RESOLUTION SHELL, RANGE LOW (A) : 3.11 REMARK 200 COMPLETENESS FOR SHELL (%) : 90.0 REMARK 200 DATA REDUNDANCY IN SHELL : 8.00 REMARK 200 R MERGE FOR SHELL (I) : 0.98600 REMARK 200 R SYM FOR SHELL (I) : NULL REMARK 200 <I/SIGMA(I)> FOR SHELL : 1.800 REMARK 200 REMARK 200 DIFFRACTION PROTOCOL: SINGLE WAVELENGTH REMARK 200 METHOD USED TO DETERMINE THE STRUCTURE: MOLECULAR REPLACEMENT REMARK 200 SOFTWARE USED: CNS REMARK 200 STARTING MODEL: PDB ENTRY 1ATI REMARK 200 REMARK 200 REMARK: NULL REMARK 280 REMARK 280 CRYSTAL REMARK 280 SOLVENT CONTENT, VS (%): 63.46 REMARK 280 MATTHEWS COEFFICIENT, VM (ANGSTROMS**3/DA): 3.37 REMARK 280 REMARK 280 CRYSTALLIZATION CONDITIONS: 20% PEG 3350, 0.2M SODIUM BROMIDE, REMARK 280 0.1M BIS-TRIS PROPANE, PH 8.5, VAPOR DIFFUSION, SITTING DROP, REMARK 280 TEMPERATURE 293K REMARK 290 REMARK 290 CRYSTALLOGRAPHIC SYMMETRY REMARK 290 SYMMETRY OPERATORS FOR SPACE GROUP: P 43 21 2 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 -Y+1/2,X+1/2,Z+3/4 REMARK 290 4555 Y+1/2,-X+1/2,Z+1/4 REMARK 290 5555 -X+1/2,Y+1/2,-Z+3/4 REMARK 290 6555 X+1/2,-Y+1/2,-Z+1/4 REMARK 290 7555 Y,X,-Z REMARK 290 8555 -Y,-X,-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 0.00000 REMARK 290 SMTRY2 2 0.000000 -1.000000 0.000000 0.00000 REMARK 290 SMTRY3 2 0.000000 0.000000 1.000000 123.43000 REMARK 290 SMTRY1 3 0.000000 -1.000000 0.000000 46.26500 REMARK 290 SMTRY2 3 1.000000 0.000000 0.000000 46.26500 REMARK 290 SMTRY3 3 0.000000 0.000000 1.000000 185.14500 REMARK 290 SMTRY1 4 0.000000 1.000000 0.000000 46.26500 REMARK 290 SMTRY2 4 -1.000000 0.000000 0.000000 46.26500 REMARK 290 SMTRY3 4 0.000000 0.000000 1.000000 61.71500 REMARK 290 SMTRY1 5 -1.000000 0.000000 0.000000 46.26500 REMARK 290 SMTRY2 5 0.000000 1.000000 0.000000 46.26500 REMARK 290 SMTRY3 5 0.000000 0.000000 -1.000000 185.14500 REMARK 290 SMTRY1 6 1.000000 0.000000 0.000000 46.26500 REMARK 290 SMTRY2 6 0.000000 -1.000000 0.000000 46.26500 REMARK 290 SMTRY3 6 0.000000 0.000000 -1.000000 61.71500 REMARK 290 SMTRY1 7 0.000000 1.000000 0.000000 0.00000 REMARK 290 SMTRY2 7 1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY3 7 0.000000 0.000000 -1.000000 0.00000 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 123.43000 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 ASSEMBLY IS A HOMODIMER GENERATED FROM THE REMARK 300 MONOMER IN THE ASYMMETRIC UNIT BY THE SYMMETRY OPERATION Y,X,-Z 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,PQS REMARK 350 TOTAL BURIED SURFACE AREA: 5510 ANGSTROM**2 REMARK 350 SURFACE AREA OF THE COMPLEX: 46740 ANGSTROM**2 REMARK 350 CHANGE IN SOLVENT FREE ENERGY: -40.0 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 0.000000 1.000000 0.000000 92.53000 REMARK 350 BIOMT2 2 1.000000 0.000000 0.000000 -92.53000 REMARK 350 BIOMT3 2 0.000000 0.000000 -1.000000 -246.86000 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 MET A 1 REMARK 465 ASP A 2 REMARK 465 GLY A 3 REMARK 465 ALA A 4 REMARK 465 GLY A 5 REMARK 465 ALA A 6 REMARK 465 GLU A 7 REMARK 465 GLU A 8 REMARK 465 VAL A 9 REMARK 465 LEU A 10 REMARK 465 ALA A 11 REMARK 465 PRO A 12 REMARK 465 LEU A 13 REMARK 465 ARG A 14 REMARK 465 LEU A 15 REMARK 465 ALA A 16 REMARK 465 VAL A 17 REMARK 465 ARG A 18 REMARK 465 GLN A 19 REMARK 465 GLN A 20 REMARK 465 GLY A 21 REMARK 465 ASP A 22 REMARK 465 LEU A 23 REMARK 465 VAL A 24 REMARK 465 ARG A 25 REMARK 465 LYS A 26 REMARK 465 LEU A 27 REMARK 465 LYS A 28 REMARK 465 GLU A 29 REMARK 465 ASP A 30 REMARK 465 LYS A 31 REMARK 465 ALA A 32 REMARK 465 PRO A 33 REMARK 465 GLN A 34 REMARK 465 VAL A 35 REMARK 465 ASP A 36 REMARK 465 VAL A 37 REMARK 465 ASP A 38 REMARK 465 LYS A 39 REMARK 465 ALA A 40 REMARK 465 VAL A 41 REMARK 465 ALA A 42 REMARK 465 GLU A 43 REMARK 465 LEU A 44 REMARK 465 LYS A 45 REMARK 465 ALA A 46 REMARK 465 ARG A 47 REMARK 465 LYS A 48 REMARK 465 ARG A 49 REMARK 465 VAL A 50 REMARK 465 LEU A 51 REMARK 465 GLU A 52 REMARK 465 ALA A 53 REMARK 465 LYS A 54 REMARK 465 GLU A 55 REMARK 465 LEU A 56 REMARK 465 ALA A 57 REMARK 465 LEU A 58 REMARK 465 GLN A 59 REMARK 465 PRO A 60 REMARK 465 LYS A 61 REMARK 465 ASP A 62 REMARK 465 ASP A 63 REMARK 465 ALA A 384 REMARK 465 HIS A 385 REMARK 465 LEU A 432 REMARK 465 LYS A 433 REMARK 465 GLU A 434 REMARK 465 PRO A 435 REMARK 465 LYS A 436 REMARK 465 THR A 437 REMARK 465 VAL A 438 REMARK 465 ASN A 439 REMARK 465 VAL A 440 REMARK 465 VAL A 441 REMARK 465 GLN A 442 REMARK 465 PHE A 443 REMARK 465 GLU A 444 REMARK 465 PRO A 445 REMARK 465 SER A 446 REMARK 465 LYS A 447 REMARK 465 GLY A 448 REMARK 465 ALA A 449 REMARK 465 ILE A 450 REMARK 465 GLY A 451 REMARK 465 LYS A 452 REMARK 465 ALA A 453 REMARK 465 TYR A 454 REMARK 465 LYS A 455 REMARK 465 LYS A 456 REMARK 465 ASP A 457 REMARK 465 ALA A 458 REMARK 465 LYS A 459 REMARK 465 LEU A 460 REMARK 465 VAL A 461 REMARK 465 MET A 462 REMARK 465 GLU A 463 REMARK 465 TYR A 464 REMARK 465 LEU A 465 REMARK 465 ALA A 466 REMARK 465 ILE A 467 REMARK 465 CYS A 468 REMARK 465 ASP A 469 REMARK 465 GLU A 470 REMARK 465 CYS A 471 REMARK 465 TYR A 472 REMARK 465 ILE A 473 REMARK 465 THR A 474 REMARK 465 GLU A 475 REMARK 465 MET A 476 REMARK 465 GLU A 477 REMARK 465 MET A 478 REMARK 465 LEU A 479 REMARK 465 LEU A 480 REMARK 465 ASN A 481 REMARK 465 GLU A 482 REMARK 465 LYS A 483 REMARK 465 GLY A 484 REMARK 465 GLU A 485 REMARK 465 PHE A 486 REMARK 465 THR A 487 REMARK 465 ILE A 488 REMARK 465 GLU A 489 REMARK 465 THR A 490 REMARK 465 GLU A 491 REMARK 465 GLY A 492 REMARK 465 LYS A 493 REMARK 465 THR A 494 REMARK 465 PHE A 495 REMARK 465 GLN A 496 REMARK 465 LEU A 497 REMARK 465 THR A 498 REMARK 465 LYS A 499 REMARK 465 ASP A 500 REMARK 465 MET A 501 REMARK 465 ILE A 502 REMARK 465 ASN A 503 REMARK 465 VAL A 504 REMARK 465 LYS A 505 REMARK 465 ARG A 506 REMARK 465 PHE A 507 REMARK 465 GLN A 508 REMARK 465 LYS A 509 REMARK 465 THR A 510 REMARK 465 LEU A 511 REMARK 465 GLY A 674 REMARK 465 GLN A 675 REMARK 465 GLU A 676 REMARK 465 THR A 677 REMARK 465 GLY A 678 REMARK 465 LYS A 679 REMARK 465 LYS A 680 REMARK 465 GLU A 681 REMARK 465 THR A 682 REMARK 465 ILE A 683 REMARK 465 GLU A 684 REMARK 465 GLU A 685 REMARK 465 HIS A 686 REMARK 465 HIS A 687 REMARK 465 HIS A 688 REMARK 465 HIS A 689 REMARK 465 HIS A 690 REMARK 465 HIS A 691 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 ASN A 154 -83.64 -77.99 REMARK 500 TYR A 195 127.56 -38.95 REMARK 500 ASN A 208 67.21 36.59 REMARK 500 SER A 281 82.32 -153.45 REMARK 500 ARG A 283 29.99 -147.01 REMARK 500 GLU A 305 57.44 -106.06 REMARK 500 LYS A 306 58.43 -103.90 REMARK 500 CYS A 407 89.34 -154.86 REMARK 500 SER A 411 -60.64 -100.76 REMARK 500 GLN A 547 65.39 60.95 REMARK 500 ASN A 570 113.69 -28.17 REMARK 500 REMARK 500 REMARK: NULL REMARK 900 REMARK 900 RELATED ENTRIES REMARK 900 RELATED ID: 2Q5I RELATED DB: PDB REMARK 900 CRYSTAL STRUCTURE OF APO S581L GLYCYL-TRNA SYNTHETASE MUTANT DBREF 2Q5H A 1 685 UNP P41250 SYG_HUMAN 55 739 SEQADV 2Q5H HIS A 686 UNP P41250 EXPRESSION TAG SEQADV 2Q5H HIS A 687 UNP P41250 EXPRESSION TAG SEQADV 2Q5H HIS A 688 UNP P41250 EXPRESSION TAG SEQADV 2Q5H HIS A 689 UNP P41250 EXPRESSION TAG SEQADV 2Q5H HIS A 690 UNP P41250 EXPRESSION TAG SEQADV 2Q5H HIS A 691 UNP P41250 EXPRESSION TAG SEQRES 1 A 691 MET ASP GLY ALA GLY ALA GLU GLU VAL LEU ALA PRO LEU SEQRES 2 A 691 ARG LEU ALA VAL ARG GLN GLN GLY ASP LEU VAL ARG LYS SEQRES 3 A 691 LEU LYS GLU ASP LYS ALA PRO GLN VAL ASP VAL ASP LYS SEQRES 4 A 691 ALA VAL ALA GLU LEU LYS ALA ARG LYS ARG VAL LEU GLU SEQRES 5 A 691 ALA LYS GLU LEU ALA LEU GLN PRO LYS ASP ASP ILE VAL SEQRES 6 A 691 ASP ARG ALA LYS MET GLU ASP THR LEU LYS ARG ARG PHE SEQRES 7 A 691 PHE TYR ASP GLN ALA PHE ALA ILE TYR GLY GLY VAL SER SEQRES 8 A 691 GLY LEU TYR ASP PHE GLY PRO VAL GLY CYS ALA LEU LYS SEQRES 9 A 691 ASN ASN ILE ILE GLN THR TRP ARG GLN HIS PHE ILE GLN SEQRES 10 A 691 GLU GLU GLN ILE LEU GLU ILE ASP CYS THR MET LEU THR SEQRES 11 A 691 PRO GLU PRO VAL LEU LYS THR SER GLY HIS VAL ASP LYS SEQRES 12 A 691 PHE ALA ASP PHE MET VAL LYS ASP VAL LYS ASN GLY GLU SEQRES 13 A 691 CYS PHE ARG ALA ASP HIS LEU LEU LYS ALA HIS LEU GLN SEQRES 14 A 691 LYS LEU MET SER ASP LYS LYS CYS SER VAL GLU LYS LYS SEQRES 15 A 691 SER GLU MET GLU SER VAL LEU ALA GLN LEU ASP ASN TYR SEQRES 16 A 691 GLY GLN GLN GLU LEU ALA ASP LEU PHE VAL ASN TYR ASN SEQRES 17 A 691 VAL LYS SER PRO ILE THR GLY ASN ASP LEU SER PRO PRO SEQRES 18 A 691 VAL SER PHE ASN LEU MET PHE LYS THR PHE ILE GLY PRO SEQRES 19 A 691 GLY GLY ASN MET PRO GLY TYR LEU ARG PRO GLU THR ALA SEQRES 20 A 691 GLN GLY ILE PHE LEU ASN PHE LYS ARG LEU LEU GLU PHE SEQRES 21 A 691 ASN GLN GLY LYS LEU PRO PHE ALA ALA ALA GLN ILE GLY SEQRES 22 A 691 ASN SER PHE ARG ASN GLU ILE SER PRO ARG SER GLY LEU SEQRES 23 A 691 ILE ARG VAL ARG GLU PHE THR MET ALA GLU ILE GLU HIS SEQRES 24 A 691 PHE VAL ASP PRO SER GLU LYS ASP HIS PRO LYS PHE GLN SEQRES 25 A 691 ASN VAL ALA ASP LEU HIS LEU TYR LEU TYR SER ALA LYS SEQRES 26 A 691 ALA GLN VAL SER GLY GLN SER ALA ARG LYS MET ARG LEU SEQRES 27 A 691 GLY ASP ALA VAL GLU GLN GLY VAL ILE ASN ASN THR VAL SEQRES 28 A 691 LEU GLY TYR PHE ILE GLY ARG ILE TYR LEU TYR LEU THR SEQRES 29 A 691 LYS VAL GLY ILE SER PRO ASP LYS LEU ARG PHE ARG GLN SEQRES 30 A 691 HIS MET GLU ASN GLU MET ALA HIS TYR ALA CYS ASP CYS SEQRES 31 A 691 TRP ASP ALA GLU SER LYS THR SER TYR GLY TRP ILE GLU SEQRES 32 A 691 ILE VAL GLY CYS ALA ASP ARG SER CYS TYR ASP LEU SER SEQRES 33 A 691 CYS HIS ALA ARG ALA THR LYS VAL PRO LEU VAL ALA GLU SEQRES 34 A 691 LYS PRO LEU LYS GLU PRO LYS THR VAL ASN VAL VAL GLN SEQRES 35 A 691 PHE GLU PRO SER LYS GLY ALA ILE GLY LYS ALA TYR LYS SEQRES 36 A 691 LYS ASP ALA LYS LEU VAL MET GLU TYR LEU ALA ILE CYS SEQRES 37 A 691 ASP GLU CYS TYR ILE THR GLU MET GLU MET LEU LEU ASN SEQRES 38 A 691 GLU LYS GLY GLU PHE THR ILE GLU THR GLU GLY LYS THR SEQRES 39 A 691 PHE GLN LEU THR LYS ASP MET ILE ASN VAL LYS ARG PHE SEQRES 40 A 691 GLN LYS THR LEU TYR VAL GLU GLU VAL VAL PRO ASN VAL SEQRES 41 A 691 ILE GLU PRO SER PHE GLY LEU GLY ARG ILE MET TYR THR SEQRES 42 A 691 VAL PHE GLU HIS THR PHE HIS VAL ARG GLU GLY ASP GLU SEQRES 43 A 691 GLN ARG THR PHE PHE SER PHE PRO ALA VAL VAL ALA PRO SEQRES 44 A 691 PHE LYS CYS SER VAL LEU PRO LEU SER GLN ASN GLN GLU SEQRES 45 A 691 PHE MET PRO PHE VAL LYS GLU LEU SER GLU ALA LEU THR SEQRES 46 A 691 ARG HIS GLY VAL SER HIS LYS VAL ASP ASP SER SER GLY SEQRES 47 A 691 SER ILE GLY ARG ARG TYR ALA ARG THR ASP GLU ILE GLY SEQRES 48 A 691 VAL ALA PHE GLY VAL THR ILE ASP PHE ASP THR VAL ASN SEQRES 49 A 691 LYS THR PRO HIS THR ALA THR LEU ARG ASP ARG ASP SER SEQRES 50 A 691 MET ARG GLN ILE ARG ALA GLU ILE SER GLU LEU PRO SER SEQRES 51 A 691 ILE VAL GLN ASP LEU ALA ASN GLY ASN ILE THR TRP ALA SEQRES 52 A 691 ASP VAL GLU ALA ARG TYR PRO LEU PHE GLU GLY GLN GLU SEQRES 53 A 691 THR GLY LYS LYS GLU THR ILE GLU GLU HIS HIS HIS HIS SEQRES 54 A 691 HIS HIS FORMUL 2 HOH *10(H2 O) HELIX 1 1 ASP A 66 ARG A 77 1 12 HELIX 2 2 PHE A 84 GLY A 88 5 5 HELIX 3 3 GLY A 97 PHE A 115 1 19 HELIX 4 4 PHE A 115 GLN A 120 1 6 HELIX 5 5 GLU A 132 SER A 138 1 7 HELIX 6 6 GLY A 139 PHE A 144 1 6 HELIX 7 7 ALA A 160 LEU A 171 1 12 HELIX 8 8 SER A 178 GLN A 191 1 14 HELIX 9 9 GLY A 196 TYR A 207 1 12 HELIX 10 10 THR A 246 ASN A 253 1 8 HELIX 11 11 ASN A 253 ASN A 261 1 9 HELIX 12 12 SER A 284 ARG A 288 5 5 HELIX 13 13 LYS A 310 VAL A 314 5 5 HELIX 14 14 SER A 323 GLY A 330 1 8 HELIX 15 15 LEU A 338 GLN A 344 1 7 HELIX 16 16 ASN A 349 VAL A 366 1 18 HELIX 17 17 SER A 369 ASP A 371 5 3 HELIX 18 18 MET A 379 MET A 383 5 5 HELIX 19 19 TYR A 413 LYS A 423 1 11 HELIX 20 20 LEU A 527 THR A 538 1 12 HELIX 21 21 PHE A 573 HIS A 587 1 15 HELIX 22 22 SER A 599 ILE A 610 1 12 HELIX 23 23 ASP A 619 LYS A 625 1 7 HELIX 24 24 GLU A 647 ASN A 657 1 11 HELIX 25 25 THR A 661 TYR A 669 1 9 SHEET 1 A 2 TYR A 80 GLN A 82 0 SHEET 2 A 2 TYR A 94 PHE A 96 -1 O ASP A 95 N ASP A 81 SHEET 1 B 9 LEU A 122 GLU A 123 0 SHEET 2 B 9 PHE A 267 PHE A 276 1 O ALA A 268 N LEU A 122 SHEET 3 B 9 GLU A 291 VAL A 301 -1 O MET A 294 N GLY A 273 SHEET 4 B 9 ASN A 519 GLY A 526 -1 O PHE A 525 N ALA A 295 SHEET 5 B 9 GLY A 400 ARG A 410 -1 N GLY A 406 O SER A 524 SHEET 6 B 9 ASP A 389 THR A 397 -1 N ALA A 393 O VAL A 405 SHEET 7 B 9 LEU A 373 GLN A 377 -1 N ARG A 374 O GLU A 394 SHEET 8 B 9 HIS A 318 TYR A 322 1 N TYR A 322 O PHE A 375 SHEET 9 B 9 ARG A 334 ARG A 337 -1 O ARG A 334 N LEU A 321 SHEET 1 C 3 LEU A 129 PRO A 131 0 SHEET 2 C 3 MET A 238 LEU A 242 -1 O TYR A 241 N THR A 130 SHEET 3 C 3 LYS A 229 ILE A 232 -1 N ILE A 232 O MET A 238 SHEET 1 D 3 CYS A 157 ARG A 159 0 SHEET 2 D 3 ALA A 145 LYS A 150 -1 N VAL A 149 O PHE A 158 SHEET 3 D 3 VAL A 222 ASN A 225 -1 O VAL A 222 N MET A 148 SHEET 1 E 2 PHE A 539 VAL A 541 0 SHEET 2 E 2 THR A 549 PHE A 551 -1 O PHE A 550 N HIS A 540 SHEET 1 F 5 HIS A 591 VAL A 593 0 SHEET 2 F 5 CYS A 562 PRO A 566 1 N CYS A 562 O LYS A 592 SHEET 3 F 5 PHE A 614 ILE A 618 1 O ILE A 618 N LEU A 565 SHEET 4 F 5 THR A 629 ASP A 634 -1 O ARG A 633 N GLY A 615 SHEET 5 F 5 GLN A 640 GLU A 644 -1 O ALA A 643 N ALA A 630 CISPEP 1 LEU A 265 PRO A 266 0 8.34 CISPEP 2 THR A 626 PRO A 627 0 9.09 CRYST1 92.530 92.530 246.860 90.00 90.00 90.00 P 43 21 2 8 ORIGX1 1.000000 0.000000 0.000000 0.00000 ORIGX2 0.000000 1.000000 0.000000 0.00000 ORIGX3 0.000000 0.000000 1.000000 0.00000 SCALE1 0.010807 0.000000 0.000000 0.00000 SCALE2 0.000000 0.010807 0.000000 0.00000 SCALE3 0.000000 0.000000 0.004051 0.00000