HEADER LIGASE/RNA 29-FEB-00 1EIY TITLE THE CRYSTAL STRUCTURE OF PHENYLALANYL-TRNA SYNTHETASE FROM THERMUS TITLE 2 THERMOPHILUS COMPLEXED WITH COGNATE TRNAPHE COMPND MOL_ID: 1; COMPND 2 MOLECULE: TRNA(PHE); COMPND 3 CHAIN: C; COMPND 4 MOL_ID: 2; COMPND 5 MOLECULE: PHENYLALANYL-TRNA SYNTHETASE; COMPND 6 CHAIN: A; COMPND 7 FRAGMENT: ALPHA CHAIN; COMPND 8 SYNONYM: PHENYLALANINE--TRNA LIGASE ALPHA CHAIN, PHERS; COMPND 9 EC: 6.1.1.20; COMPND 10 MOL_ID: 3; COMPND 11 MOLECULE: PHENYLALANYL-TRNA SYNTHETASE; COMPND 12 CHAIN: B; COMPND 13 FRAGMENT: BETA CHAIN; COMPND 14 SYNONYM: PHENYLALANINE--TRNA LIGASE BETA CHAIN, PHERS; COMPND 15 EC: 6.1.1.20 SOURCE MOL_ID: 1; SOURCE 2 ORGANISM_SCIENTIFIC: THERMUS THERMOPHILUS; SOURCE 3 ORGANISM_TAXID: 300852; SOURCE 4 STRAIN: HB8; SOURCE 5 MOL_ID: 2; SOURCE 6 ORGANISM_SCIENTIFIC: THERMUS THERMOPHILUS; SOURCE 7 ORGANISM_TAXID: 300852; SOURCE 8 STRAIN: HB8; SOURCE 9 MOL_ID: 3; SOURCE 10 ORGANISM_SCIENTIFIC: THERMUS THERMOPHILUS; SOURCE 11 ORGANISM_TAXID: 300852; SOURCE 12 STRAIN: HB8 KEYWDS AMINOACYL-TRNA SYNTHETASE, TRNA RECOGNITION, LIGASE-RNA COMPLEX EXPDTA X-RAY DIFFRACTION AUTHOR Y.GOLDGUR,L.MOSYAK,L.RESHETNIKOVA,V.ANKILOVA,M.SAFRO REVDAT 10 07-FEB-24 1EIY 1 SEQADV REVDAT 9 04-OCT-17 1EIY 1 REMARK REVDAT 8 13-JUL-11 1EIY 1 VERSN REVDAT 7 24-FEB-09 1EIY 1 VERSN REVDAT 6 01-APR-03 1EIY 1 JRNL REVDAT 5 14-DEC-01 1EIY 1 REMARK REVDAT 4 14-MAR-01 1EIY 1 JRNL DBREF REMARK REVDAT 3 26-JUN-00 1EIY 1 SOURCE REVDAT 2 17-APR-00 1EIY 1 HEADER REVDAT 1 06-MAR-00 1EIY 0 JRNL AUTH Y.GOLDGUR,L.MOSYAK,L.RESHETNIKOVA,V.ANKILOVA,O.LAVRIK, JRNL AUTH 2 S.KHODYREVA,M.SAFRO JRNL TITL THE CRYSTAL STRUCTURE OF PHENYLALANYL-TRNA SYNTHETASE FROM JRNL TITL 2 THERMUS THERMOPHILUS COMPLEXED WITH COGNATE TRNAPHE. JRNL REF STRUCTURE V. 5 59 1997 JRNL REFN ISSN 0969-2126 JRNL PMID 9016717 JRNL DOI 10.1016/S0969-2126(97)00166-4 REMARK 2 REMARK 2 RESOLUTION. 3.30 ANGSTROMS. REMARK 3 REMARK 3 REFINEMENT. REMARK 3 PROGRAM : X-PLOR 3.1 REMARK 3 AUTHORS : BRUNGER REMARK 3 REMARK 3 DATA USED IN REFINEMENT. REMARK 3 RESOLUTION RANGE HIGH (ANGSTROMS) : 3.30 REMARK 3 RESOLUTION RANGE LOW (ANGSTROMS) : 28.00 REMARK 3 DATA CUTOFF (SIGMA(F)) : 0.000 REMARK 3 DATA CUTOFF HIGH (ABS(F)) : NULL REMARK 3 DATA CUTOFF LOW (ABS(F)) : NULL REMARK 3 COMPLETENESS (WORKING+TEST) (%) : 86.3 REMARK 3 NUMBER OF REFLECTIONS : 33340 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 SET) : 0.221 REMARK 3 FREE R VALUE : 0.287 REMARK 3 FREE R VALUE TEST SET SIZE (%) : 5.000 REMARK 3 FREE R VALUE TEST SET COUNT : 1667 REMARK 3 ESTIMATED ERROR OF FREE R VALUE : NULL REMARK 3 REMARK 3 FIT IN THE HIGHEST RESOLUTION BIN. REMARK 3 TOTAL NUMBER OF BINS USED : NULL REMARK 3 BIN RESOLUTION RANGE HIGH (A) : NULL REMARK 3 BIN RESOLUTION RANGE LOW (A) : NULL REMARK 3 BIN COMPLETENESS (WORKING+TEST) (%) : NULL REMARK 3 REFLECTIONS IN BIN (WORKING SET) : NULL REMARK 3 BIN R VALUE (WORKING SET) : NULL REMARK 3 BIN FREE R VALUE : NULL REMARK 3 BIN FREE R VALUE TEST SET SIZE (%) : NULL REMARK 3 BIN FREE R VALUE TEST SET COUNT : NULL REMARK 3 ESTIMATED ERROR OF BIN FREE R VALUE : NULL REMARK 3 REMARK 3 NUMBER OF NON-HYDROGEN ATOMS USED IN REFINEMENT. REMARK 3 PROTEIN ATOMS : 8862 REMARK 3 NUCLEIC ACID ATOMS : 1623 REMARK 3 HETEROGEN ATOMS : 0 REMARK 3 SOLVENT ATOMS : 0 REMARK 3 REMARK 3 B VALUES. REMARK 3 FROM WILSON PLOT (A**2) : NULL REMARK 3 MEAN B VALUE (OVERALL, A**2) : NULL REMARK 3 OVERALL ANISOTROPIC B VALUE. REMARK 3 B11 (A**2) : NULL REMARK 3 B22 (A**2) : NULL REMARK 3 B33 (A**2) : NULL REMARK 3 B12 (A**2) : NULL REMARK 3 B13 (A**2) : NULL REMARK 3 B23 (A**2) : NULL REMARK 3 REMARK 3 ESTIMATED COORDINATE ERROR. REMARK 3 ESD FROM LUZZATI PLOT (A) : NULL REMARK 3 ESD FROM SIGMAA (A) : NULL REMARK 3 LOW RESOLUTION CUTOFF (A) : NULL REMARK 3 REMARK 3 CROSS-VALIDATED ESTIMATED COORDINATE ERROR. REMARK 3 ESD FROM C-V LUZZATI PLOT (A) : NULL REMARK 3 ESD FROM C-V SIGMAA (A) : NULL REMARK 3 REMARK 3 RMS DEVIATIONS FROM IDEAL VALUES. REMARK 3 BOND LENGTHS (A) : 0.025 REMARK 3 BOND ANGLES (DEGREES) : 2.300 REMARK 3 DIHEDRAL ANGLES (DEGREES) : NULL REMARK 3 IMPROPER ANGLES (DEGREES) : NULL REMARK 3 REMARK 3 ISOTROPIC THERMAL MODEL : NULL REMARK 3 REMARK 3 ISOTROPIC THERMAL FACTOR RESTRAINTS. RMS SIGMA REMARK 3 MAIN-CHAIN BOND (A**2) : NULL ; NULL REMARK 3 MAIN-CHAIN ANGLE (A**2) : NULL ; NULL REMARK 3 SIDE-CHAIN BOND (A**2) : NULL ; NULL REMARK 3 SIDE-CHAIN ANGLE (A**2) : NULL ; NULL REMARK 3 REMARK 3 NCS MODEL : NULL REMARK 3 REMARK 3 NCS RESTRAINTS. RMS SIGMA/WEIGHT REMARK 3 GROUP 1 POSITIONAL (A) : NULL ; NULL REMARK 3 GROUP 1 B-FACTOR (A**2) : NULL ; NULL REMARK 3 REMARK 3 PARAMETER FILE 1 : NULL REMARK 3 TOPOLOGY FILE 1 : NULL REMARK 3 REMARK 3 OTHER REFINEMENT REMARKS: NULL REMARK 4 REMARK 4 1EIY COMPLIES WITH FORMAT V. 3.30, 13-JUL-11 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY RCSB ON 01-MAR-00. REMARK 100 THE DEPOSITION ID IS D_1000010620. REMARK 200 REMARK 200 EXPERIMENTAL DETAILS REMARK 200 EXPERIMENT TYPE : X-RAY DIFFRACTION REMARK 200 DATE OF DATA COLLECTION : 10-OCT-92; 10-OCT-93 REMARK 200 TEMPERATURE (KELVIN) : 293; 293 REMARK 200 PH : 7.2 REMARK 200 NUMBER OF CRYSTALS USED : 4 REMARK 200 REMARK 200 SYNCHROTRON (Y/N) : N; Y REMARK 200 RADIATION SOURCE : ROTATING ANODE; LURE REMARK 200 BEAMLINE : NULL; D41A REMARK 200 X-RAY GENERATOR MODEL : RIGAKU RU200; NULL REMARK 200 MONOCHROMATIC OR LAUE (M/L) : M; NULL REMARK 200 WAVELENGTH OR RANGE (A) : 1.5418; 0.9900 REMARK 200 MONOCHROMATOR : NULL; NULL REMARK 200 OPTICS : NULL; NULL REMARK 200 REMARK 200 DETECTOR TYPE : AREA DETECTOR; IMAGE PLATE REMARK 200 DETECTOR MANUFACTURER : XENTRONICS; MARRESEARCH REMARK 200 INTENSITY-INTEGRATION SOFTWARE : DENZO REMARK 200 DATA SCALING SOFTWARE : X-GEN REMARK 200 REMARK 200 NUMBER OF UNIQUE REFLECTIONS : 33340 REMARK 200 RESOLUTION RANGE HIGH (A) : 3.300 REMARK 200 RESOLUTION RANGE LOW (A) : 28.000 REMARK 200 REJECTION CRITERIA (SIGMA(I)) : -3.000 REMARK 200 REMARK 200 OVERALL. REMARK 200 COMPLETENESS FOR RANGE (%) : 86.3 REMARK 200 DATA REDUNDANCY : NULL REMARK 200 R MERGE (I) : 0.15800 REMARK 200 R SYM (I) : NULL REMARK 200 FOR THE DATA SET : NULL REMARK 200 REMARK 200 IN THE HIGHEST RESOLUTION SHELL. REMARK 200 HIGHEST RESOLUTION SHELL, RANGE HIGH (A) : 3.30 REMARK 200 HIGHEST RESOLUTION SHELL, RANGE LOW (A) : 3.40 REMARK 200 COMPLETENESS FOR SHELL (%) : 48.0 REMARK 200 DATA REDUNDANCY IN SHELL : NULL REMARK 200 R MERGE FOR SHELL (I) : 0.33800 REMARK 200 R SYM FOR SHELL (I) : NULL REMARK 200 FOR SHELL : NULL REMARK 200 REMARK 200 DIFFRACTION PROTOCOL: SINGLE WAVELENGTH; NULL REMARK 200 METHOD USED TO DETERMINE THE STRUCTURE: NULL REMARK 200 SOFTWARE USED: X-PLOR REMARK 200 STARTING MODEL: NULL REMARK 200 REMARK 200 REMARK: NULL REMARK 280 REMARK 280 CRYSTAL REMARK 280 SOLVENT CONTENT, VS (%): 70.19 REMARK 280 MATTHEWS COEFFICIENT, VM (ANGSTROMS**3/DA): 4.13 REMARK 280 REMARK 280 CRYSTALLIZATION CONDITIONS: AMMONIUM SULPHATE, MAGNESIUM SULPHATE, REMARK 280 PH 7.2, VAPOR DIFFUSION, HANGING DROP AT 293K REMARK 290 REMARK 290 CRYSTALLOGRAPHIC SYMMETRY REMARK 290 SYMMETRY OPERATORS FOR SPACE GROUP: P 32 2 1 REMARK 290 REMARK 290 SYMOP SYMMETRY REMARK 290 NNNMMM OPERATOR REMARK 290 1555 X,Y,Z REMARK 290 2555 -Y,X-Y,Z+2/3 REMARK 290 3555 -X+Y,-X,Z+1/3 REMARK 290 4555 Y,X,-Z REMARK 290 5555 X-Y,-Y,-Z+1/3 REMARK 290 6555 -X,-X+Y,-Z+2/3 REMARK 290 REMARK 290 WHERE NNN -> OPERATOR NUMBER REMARK 290 MMM -> TRANSLATION VECTOR REMARK 290 REMARK 290 CRYSTALLOGRAPHIC SYMMETRY TRANSFORMATIONS REMARK 290 THE FOLLOWING TRANSFORMATIONS OPERATE ON THE ATOM/HETATM REMARK 290 RECORDS IN THIS ENTRY TO PRODUCE CRYSTALLOGRAPHICALLY REMARK 290 RELATED MOLECULES. REMARK 290 SMTRY1 1 1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY2 1 0.000000 1.000000 0.000000 0.00000 REMARK 290 SMTRY3 1 0.000000 0.000000 1.000000 0.00000 REMARK 290 SMTRY1 2 -0.500000 -0.866025 0.000000 0.00000 REMARK 290 SMTRY2 2 0.866025 -0.500000 0.000000 0.00000 REMARK 290 SMTRY3 2 0.000000 0.000000 1.000000 93.73333 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 46.86667 REMARK 290 SMTRY1 4 -0.500000 0.866025 0.000000 0.00000 REMARK 290 SMTRY2 4 0.866025 0.500000 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 0.00000 REMARK 290 SMTRY2 5 0.000000 -1.000000 0.000000 0.00000 REMARK 290 SMTRY3 5 0.000000 0.000000 -1.000000 46.86667 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 93.73333 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: HEXAMERIC REMARK 350 APPLY THE FOLLOWING TO CHAINS: C, 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 350 BIOMT1 2 -0.500000 0.866025 0.000000 0.00000 REMARK 350 BIOMT2 2 0.866025 0.500000 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 MET A 1 REMARK 465 LEU A 2 REMARK 465 GLU A 3 REMARK 465 GLU A 4 REMARK 465 ALA A 5 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 LEU A 6 CG CD1 CD2 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 109 CB GLU A 109 CG -0.124 REMARK 500 MET B 239 SD MET B 239 CE 0.341 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 U C 20 C2' - C3' - O3' ANGL. DEV. = 12.3 DEGREES REMARK 500 C C 62 N1 - C1' - C2' ANGL. DEV. = -8.1 DEGREES REMARK 500 U C 68 N1 - C1' - C2' ANGL. DEV. = -7.0 DEGREES REMARK 500 G C 71 N9 - C1' - C2' ANGL. DEV. = -8.0 DEGREES REMARK 500 LEU A 39 CA - CB - CG ANGL. DEV. = 18.4 DEGREES REMARK 500 PRO A 164 C - N - CA ANGL. DEV. = 14.9 DEGREES REMARK 500 PRO A 164 C - N - CD ANGL. DEV. = -12.7 DEGREES REMARK 500 ARG A 185 NE - CZ - NH2 ANGL. DEV. = -3.1 DEGREES REMARK 500 PRO A 247 C - N - CA ANGL. DEV. = 14.7 DEGREES REMARK 500 PRO A 288 C - N - CA ANGL. DEV. = 9.8 DEGREES REMARK 500 LEU A 317 CA - CB - CG ANGL. DEV. = 17.3 DEGREES REMARK 500 PRO A 330 C - N - CA ANGL. DEV. = 12.0 DEGREES REMARK 500 LEU A 350 CA - CB - CG ANGL. DEV. = 15.6 DEGREES REMARK 500 ARG B 2 NE - CZ - NH1 ANGL. DEV. = 3.4 DEGREES REMARK 500 PRO B 57 C - N - CA ANGL. DEV. = 10.7 DEGREES REMARK 500 PRO B 97 C - N - CA ANGL. DEV. = 13.1 DEGREES REMARK 500 PRO B 162 C - N - CA ANGL. DEV. = 12.9 DEGREES REMARK 500 PRO B 225 C - N - CA ANGL. DEV. = -10.1 DEGREES REMARK 500 PRO B 310 C - N - CA ANGL. DEV. = 10.1 DEGREES REMARK 500 PRO B 340 C - N - CA ANGL. DEV. = 12.4 DEGREES REMARK 500 LEU B 548 CA - CB - CG ANGL. DEV. = 16.1 DEGREES REMARK 500 LEU B 603 CA - CB - CG ANGL. DEV. = 14.8 DEGREES REMARK 500 LEU B 609 CA - CB - CG ANGL. DEV. = 17.1 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 ALA A 41 65.22 -113.93 REMARK 500 GLU A 45 46.31 -104.87 REMARK 500 ARG A 48 -70.64 95.15 REMARK 500 GLN A 52 -70.75 -76.29 REMARK 500 LEU A 54 -108.88 -94.05 REMARK 500 ASN A 55 -53.34 -27.70 REMARK 500 LEU A 61 13.01 -68.57 REMARK 500 GLU A 62 -51.43 -135.40 REMARK 500 ARG A 83 -75.77 -73.27 REMARK 500 ARG A 85 61.02 -115.26 REMARK 500 LEU A 90 140.19 -178.73 REMARK 500 ALA A 93 135.42 -30.29 REMARK 500 SER A 97 -77.66 -71.58 REMARK 500 GLU A 130 -47.42 1.54 REMARK 500 ASN A 133 -144.14 -67.21 REMARK 500 ASP A 135 -80.04 157.32 REMARK 500 PRO A 144 3.16 -59.13 REMARK 500 PRO A 164 -72.31 -35.84 REMARK 500 LEU A 165 58.83 -97.40 REMARK 500 THR A 208 115.23 -29.36 REMARK 500 PRO A 247 8.79 -47.61 REMARK 500 PRO A 272 -79.23 -29.20 REMARK 500 GLU A 279 -75.71 -86.39 REMARK 500 LEU A 280 -66.78 93.01 REMARK 500 PRO A 304 143.43 -38.09 REMARK 500 TYR A 307 48.46 -107.56 REMARK 500 GLU A 320 -31.01 -31.99 REMARK 500 PRO A 330 -70.19 -64.33 REMARK 500 GLU A 344 -7.23 -56.00 REMARK 500 ARG B 2 93.58 -170.33 REMARK 500 GLU B 16 123.16 28.61 REMARK 500 SER B 17 104.64 94.43 REMARK 500 PHE B 39 34.15 90.76 REMARK 500 PRO B 40 80.51 -68.61 REMARK 500 PRO B 57 131.33 -28.64 REMARK 500 LEU B 66 -166.19 -113.97 REMARK 500 ASP B 67 101.64 -160.62 REMARK 500 ALA B 68 48.57 -91.40 REMARK 500 ARG B 70 89.60 -171.47 REMARK 500 THR B 71 123.25 -29.09 REMARK 500 ASN B 80 -7.10 -55.43 REMARK 500 ALA B 81 95.81 -60.24 REMARK 500 LEU B 91 152.57 -32.22 REMARK 500 PRO B 97 -83.47 -56.97 REMARK 500 MET B 116 146.58 171.82 REMARK 500 GLU B 127 21.07 -70.69 REMARK 500 ALA B 139 -80.62 -27.02 REMARK 500 PRO B 142 108.45 -39.23 REMARK 500 TRP B 150 62.78 -114.61 REMARK 500 GLU B 152 171.00 -54.90 REMARK 500 REMARK 500 THIS ENTRY HAS 112 RAMACHANDRAN OUTLIERS. REMARK 500 REMARK 500 REMARK: NULL REMARK 500 REMARK 500 GEOMETRY AND STEREOCHEMISTRY REMARK 500 SUBTOPIC: PLANAR GROUPS REMARK 500 REMARK 500 PLANAR GROUPS IN THE FOLLOWING RESIDUES HAVE A TOTAL REMARK 500 RMS DISTANCE OF ALL ATOMS FROM THE BEST-FIT PLANE REMARK 500 BY MORE THAN AN EXPECTED VALUE OF 6*RMSD, WITH AN REMARK 500 RMSD 0.02 ANGSTROMS, OR AT LEAST ONE ATOM HAS REMARK 500 AN RMSD GREATER THAN THIS VALUE REMARK 500 (M=MODEL NUMBER; RES=RESIDUE NAME; C=CHAIN IDENTIFIER; REMARK 500 SSEQ=SEQUENCE NUMBER; I=INSERTION CODE). REMARK 500 REMARK 500 M RES CSSEQI RMS TYPE REMARK 500 G C 19 0.06 SIDE CHAIN REMARK 500 G C 30 0.07 SIDE CHAIN REMARK 500 C C 48 0.10 SIDE CHAIN REMARK 500 G C 57 0.05 SIDE CHAIN REMARK 500 U C 60 0.09 SIDE CHAIN REMARK 500 C C 62 0.07 SIDE CHAIN REMARK 500 PHE B 617 0.07 SIDE CHAIN REMARK 500 REMARK 500 REMARK: NULL REMARK 900 REMARK 900 RELATED ENTRIES REMARK 900 RELATED ID: 1PYS RELATED DB: PDB REMARK 900 PHENYLALANYL-TRNA SYNTHETASE FROM THERMUS THERMOPHILUS DBREF 1EIY A 1 350 UNP P27001 SYFA_THETH 1 350 DBREF 1EIY B 1 785 UNP Q5SGX2 Q5SGX2_THET8 1 785 DBREF 1EIY C 1 76 UNP Q5SGX1 Q5SGX1_THET8 1 76 SEQADV 1EIY C C 49 UNP Q5SGX1 G 49 CONFLICT SEQADV 1EIY G C 65 UNP Q5SGX1 C 65 CONFLICT SEQRES 1 C 76 G C C G A G G U A G C U C SEQRES 2 C 76 A G U U G G U A G A G C A SEQRES 3 C 76 U G C G A C U G A A A A U SEQRES 4 C 76 C G C A G U G U C C G C G SEQRES 5 C 76 G U U C G A U U C C G C G SEQRES 6 C 76 C C U C G G C A C C A SEQRES 1 A 350 MET LEU GLU GLU ALA LEU ALA ALA ILE GLN ASN ALA ARG SEQRES 2 A 350 ASP LEU GLU GLU LEU LYS ALA LEU LYS ALA ARG TYR LEU SEQRES 3 A 350 GLY LYS LYS GLY LEU LEU THR GLN GLU MET LYS GLY LEU SEQRES 4 A 350 SER ALA LEU PRO LEU GLU GLU ARG ARG LYS ARG GLY GLN SEQRES 5 A 350 GLU LEU ASN ALA ILE LYS ALA ALA LEU GLU ALA ALA LEU SEQRES 6 A 350 GLU ALA ARG GLU LYS ALA LEU GLU GLU ALA ALA LEU LYS SEQRES 7 A 350 GLU ALA LEU GLU ARG GLU ARG VAL ASP VAL SER LEU PRO SEQRES 8 A 350 GLY ALA SER LEU PHE SER GLY GLY LEU HIS PRO ILE THR SEQRES 9 A 350 LEU MET GLU ARG GLU LEU VAL GLU ILE PHE ARG ALA LEU SEQRES 10 A 350 GLY TYR GLN ALA VAL GLU GLY PRO GLU VAL GLU SER GLU SEQRES 11 A 350 PHE PHE ASN PHE ASP ALA LEU ASN ILE PRO GLU HIS HIS SEQRES 12 A 350 PRO ALA ARG ASP MET TRP ASP THR PHE TRP LEU THR GLY SEQRES 13 A 350 GLU GLY PHE ARG LEU GLU GLY PRO LEU GLY GLU GLU VAL SEQRES 14 A 350 GLU GLY ARG LEU LEU LEU ARG THR HIS THR SER PRO MET SEQRES 15 A 350 GLN VAL ARG TYR MET VAL ALA HIS THR PRO PRO PHE ARG SEQRES 16 A 350 ILE VAL VAL PRO GLY ARG VAL PHE ARG PHE GLU GLN THR SEQRES 17 A 350 ASP ALA THR HIS GLU ALA VAL PHE HIS GLN LEU GLU GLY SEQRES 18 A 350 LEU VAL VAL GLY GLU GLY ILE ALA MET ALA HIS LEU LYS SEQRES 19 A 350 GLY ALA ILE TYR GLU LEU ALA GLN ALA LEU PHE GLY PRO SEQRES 20 A 350 ASP SER LYS VAL ARG PHE GLN PRO VAL TYR PHE PRO PHE SEQRES 21 A 350 VAL GLU PRO GLY ALA GLN PHE ALA VAL TRP TRP PRO GLU SEQRES 22 A 350 GLY GLY LYS TRP LEU GLU LEU GLY GLY ALA GLY MET VAL SEQRES 23 A 350 HIS PRO LYS VAL PHE GLN ALA VAL ASP ALA TYR ARG GLU SEQRES 24 A 350 ARG LEU GLY LEU PRO PRO ALA TYR ARG GLY VAL THR GLY SEQRES 25 A 350 PHE ALA PHE GLY LEU GLY VAL GLU ARG LEU ALA MET LEU SEQRES 26 A 350 ARG TYR GLY ILE PRO ASP ILE ARG TYR PHE PHE GLY GLY SEQRES 27 A 350 ARG LEU LYS PHE LEU GLU GLN PHE LYS GLY VAL LEU SEQRES 1 B 785 MET ARG VAL PRO PHE SER TRP LEU LYS ALA TYR VAL PRO SEQRES 2 B 785 GLU LEU GLU SER PRO GLU VAL LEU GLU GLU ARG LEU ALA SEQRES 3 B 785 GLY LEU GLY PHE GLU THR ASP ARG ILE GLU ARG VAL PHE SEQRES 4 B 785 PRO ILE PRO ARG GLY VAL VAL PHE ALA ARG VAL LEU GLU SEQRES 5 B 785 ALA HIS PRO ILE PRO GLY THR ARG LEU LYS ARG LEU VAL SEQRES 6 B 785 LEU ASP ALA GLY ARG THR VAL GLU VAL VAL SER GLY ALA SEQRES 7 B 785 GLU ASN ALA ARG LYS GLY ILE GLY VAL ALA LEU ALA LEU SEQRES 8 B 785 PRO GLY THR GLU LEU PRO GLY LEU GLY GLN LYS VAL GLY SEQRES 9 B 785 GLU ARG VAL ILE GLN GLY VAL ARG SER PHE GLY MET ALA SEQRES 10 B 785 LEU SER PRO ARG GLU LEU GLY VAL GLY GLU TYR GLY GLY SEQRES 11 B 785 GLY LEU LEU GLU PHE PRO GLU ASP ALA LEU PRO PRO GLY SEQRES 12 B 785 THR PRO LEU SER GLU ALA TRP PRO GLU GLU VAL VAL LEU SEQRES 13 B 785 ASP LEU GLU VAL THR PRO ASN ARG PRO ASP ALA LEU GLY SEQRES 14 B 785 LEU LEU GLY LEU ALA ARG ASP LEU HIS ALA LEU GLY TYR SEQRES 15 B 785 ALA LEU VAL GLU PRO GLU ALA ALA LEU LYS ALA GLU ALA SEQRES 16 B 785 LEU PRO LEU PRO PHE ALA LEU LYS VAL GLU ASP PRO GLU SEQRES 17 B 785 GLY ALA PRO HIS PHE THR LEU GLY TYR ALA PHE GLY LEU SEQRES 18 B 785 ARG VAL ALA PRO SER PRO LEU TRP MET GLN ARG ALA LEU SEQRES 19 B 785 PHE ALA ALA GLY MET ARG PRO ILE ASN ASN VAL VAL ASP SEQRES 20 B 785 VAL THR ASN TYR VAL MET LEU GLU ARG ALA GLN PRO MET SEQRES 21 B 785 HIS ALA PHE ASP LEU ARG PHE VAL GLY GLU GLY ILE ALA SEQRES 22 B 785 VAL ARG ARG ALA ARG GLU GLY GLU ARG LEU LYS THR LEU SEQRES 23 B 785 ASP GLY VAL GLU ARG THR LEU HIS PRO GLU ASP LEU VAL SEQRES 24 B 785 ILE ALA GLY TRP ARG GLY GLU GLU SER PHE PRO LEU GLY SEQRES 25 B 785 LEU ALA GLY VAL MET GLY GLY ALA GLU SER GLU VAL ARG SEQRES 26 B 785 GLU ASP THR GLU ALA ILE ALA LEU GLU VAL ALA CYS PHE SEQRES 27 B 785 ASP PRO VAL SER ILE ARG LYS THR ALA ARG ARG HIS GLY SEQRES 28 B 785 LEU ARG THR GLU ALA SER HIS ARG PHE GLU ARG GLY VAL SEQRES 29 B 785 ASP PRO LEU GLY GLN VAL PRO ALA GLN ARG ARG ALA LEU SEQRES 30 B 785 SER LEU LEU GLN ALA LEU ALA GLY ALA ARG VAL ALA GLU SEQRES 31 B 785 ALA LEU LEU GLU ALA GLY SER PRO LYS PRO PRO GLU ALA SEQRES 32 B 785 ILE PRO PHE ARG PRO GLU TYR ALA ASN ARG LEU LEU GLY SEQRES 33 B 785 THR SER TYR PRO GLU ALA GLU GLN ILE ALA ILE LEU LYS SEQRES 34 B 785 ARG LEU GLY CYS ARG VAL GLU GLY GLU GLY PRO THR TYR SEQRES 35 B 785 ARG VAL THR PRO PRO SER HIS ARG LEU ASP LEU ARG LEU SEQRES 36 B 785 GLU GLU ASP LEU VAL GLU GLU VAL ALA ARG ILE GLN GLY SEQRES 37 B 785 TYR GLU THR ILE PRO LEU ALA LEU PRO ALA PHE PHE PRO SEQRES 38 B 785 ALA PRO ASP ASN ARG GLY VAL GLU ALA PRO TYR ARG LYS SEQRES 39 B 785 GLU GLN ARG LEU ARG GLU VAL LEU SER GLY LEU GLY PHE SEQRES 40 B 785 GLN GLU VAL TYR THR TYR SER PHE MET ASP PRO GLU ASP SEQRES 41 B 785 ALA ARG ARG PHE ARG LEU ASP PRO PRO ARG LEU LEU LEU SEQRES 42 B 785 LEU ASN PRO LEU ALA PRO GLU LYS ALA ALA LEU ARG THR SEQRES 43 B 785 HIS LEU PHE PRO GLY LEU VAL ARG VAL LEU LYS GLU ASN SEQRES 44 B 785 LEU ASP LEU ASP ARG PRO GLU ARG ALA LEU LEU PHE GLU SEQRES 45 B 785 VAL GLY ARG VAL PHE ARG GLU ARG GLU GLU THR HIS LEU SEQRES 46 B 785 ALA GLY LEU LEU PHE GLY GLU GLY VAL GLY LEU PRO TRP SEQRES 47 B 785 ALA LYS GLU ARG LEU SER GLY TYR PHE LEU LEU LYS GLY SEQRES 48 B 785 TYR LEU GLU ALA LEU PHE ALA ARG LEU GLY LEU ALA PHE SEQRES 49 B 785 ARG VAL GLU ALA GLN ALA PHE PRO PHE LEU HIS PRO GLY SEQRES 50 B 785 VAL SER GLY ARG VAL LEU VAL GLU GLY GLU GLU VAL GLY SEQRES 51 B 785 PHE LEU GLY ALA LEU HIS PRO GLU ILE ALA GLN GLU LEU SEQRES 52 B 785 GLU LEU PRO PRO VAL HIS LEU PHE GLU LEU ARG LEU PRO SEQRES 53 B 785 LEU PRO ASP LYS PRO LEU ALA PHE GLN ASP PRO SER ARG SEQRES 54 B 785 HIS PRO ALA ALA PHE ARG ASP LEU ALA VAL VAL VAL PRO SEQRES 55 B 785 ALA PRO THR PRO TYR GLY GLU VAL GLU ALA LEU VAL ARG SEQRES 56 B 785 GLU ALA ALA GLY PRO TYR LEU GLU SER LEU ALA LEU PHE SEQRES 57 B 785 ASP LEU TYR GLN GLY PRO PRO LEU PRO GLU GLY HIS LYS SEQRES 58 B 785 SER LEU ALA PHE HIS LEU ARG PHE ARG HIS PRO LYS ARG SEQRES 59 B 785 THR LEU ARG ASP GLU GLU VAL GLU GLU ALA VAL SER ARG SEQRES 60 B 785 VAL ALA GLU ALA LEU ARG ALA ARG GLY PHE GLY LEU ARG SEQRES 61 B 785 GLY LEU ASP THR PRO HELIX 1 1 ALA A 8 GLU A 16 1 9 HELIX 2 2 GLU A 16 GLY A 38 1 23 HELIX 3 3 ARG A 48 GLU A 53 1 6 HELIX 4 4 LEU A 54 ALA A 59 1 6 HELIX 5 5 ALA A 59 ALA A 71 1 13 HELIX 6 6 LEU A 72 GLU A 84 1 13 HELIX 7 7 HIS A 101 ALA A 116 1 16 HELIX 8 8 ALA A 145 TRP A 149 5 5 HELIX 9 9 SER A 180 HIS A 190 1 11 HELIX 10 10 ALA A 229 GLY A 246 1 18 HELIX 11 11 PRO A 272 GLY A 275 5 4 HELIX 12 12 HIS A 287 LEU A 301 1 15 HELIX 13 13 VAL A 319 ARG A 326 1 8 HELIX 14 14 ILE A 332 GLY A 337 1 6 HELIX 15 15 ARG A 339 GLU A 344 1 6 HELIX 16 16 GLN A 345 LYS A 347 5 3 HELIX 17 17 PHE B 5 VAL B 12 1 8 HELIX 18 18 SER B 17 GLY B 29 1 13 HELIX 19 19 SER B 119 GLY B 124 1 6 HELIX 20 20 GLY B 169 HIS B 178 1 10 HELIX 21 21 PRO B 227 ALA B 236 1 10 HELIX 22 22 ASN B 243 ALA B 257 1 15 HELIX 23 23 ARG B 266 GLY B 269 5 4 HELIX 24 24 ASP B 339 GLY B 351 1 13 HELIX 25 25 THR B 354 GLY B 363 1 10 HELIX 26 26 GLY B 368 ALA B 384 1 17 HELIX 27 27 ARG B 407 GLY B 416 1 10 HELIX 28 28 PRO B 420 ARG B 430 1 11 HELIX 29 29 LEU B 455 GLN B 467 1 13 HELIX 30 30 GLY B 468 ILE B 472 5 5 HELIX 31 31 ALA B 482 ARG B 486 5 5 HELIX 32 32 GLU B 489 GLY B 506 1 18 HELIX 33 33 GLU B 519 PHE B 524 1 6 HELIX 34 34 ALA B 538 ALA B 542 5 5 HELIX 35 35 LEU B 548 ARG B 564 1 17 HELIX 36 36 SER B 604 ARG B 619 1 16 HELIX 37 37 HIS B 656 LEU B 663 1 8 HELIX 38 38 PRO B 706 ALA B 718 1 13 HELIX 39 39 ASP B 758 ALA B 774 1 17 SHEET 1 A 7 GLN A 120 ALA A 121 0 SHEET 2 A 7 PHE A 194 PHE A 203 1 O ARG A 195 N GLN A 120 SHEET 3 A 7 VAL A 215 GLY A 225 -1 O PHE A 216 N VAL A 202 SHEET 4 A 7 THR A 311 GLY A 318 -1 O THR A 311 N GLY A 225 SHEET 5 A 7 GLY A 281 VAL A 286 -1 N GLY A 282 O GLY A 316 SHEET 6 A 7 VAL A 261 TRP A 270 -1 N GLU A 262 O MET A 285 SHEET 7 A 7 VAL A 251 PRO A 255 -1 N ARG A 252 O ALA A 268 SHEET 1 B 7 GLN A 120 ALA A 121 0 SHEET 2 B 7 PHE A 194 PHE A 203 1 O ARG A 195 N GLN A 120 SHEET 3 B 7 VAL A 215 GLY A 225 -1 O PHE A 216 N VAL A 202 SHEET 4 B 7 THR A 311 GLY A 318 -1 O THR A 311 N GLY A 225 SHEET 5 B 7 GLY A 281 VAL A 286 -1 N GLY A 282 O GLY A 316 SHEET 6 B 7 VAL A 261 TRP A 270 -1 N GLU A 262 O MET A 285 SHEET 7 B 7 TRP A 277 LEU A 278 -1 O LEU A 278 N VAL A 269 SHEET 1 C 2 VAL A 127 SER A 129 0 SHEET 2 C 2 LEU A 173 LEU A 175 -1 N LEU A 174 O GLU A 128 SHEET 1 D 2 LEU A 154 THR A 155 0 SHEET 2 D 2 LEU B 532 LEU B 533 -1 N LEU B 532 O THR A 155 SHEET 1 E 3 VAL B 3 PRO B 4 0 SHEET 2 E 3 GLU B 153 LEU B 156 -1 O LEU B 156 N VAL B 3 SHEET 3 E 3 ILE B 35 VAL B 38 -1 O GLU B 36 N VAL B 155 SHEET 1 F 3 VAL B 45 ARG B 49 0 SHEET 2 F 3 ILE B 85 ALA B 90 -1 N VAL B 87 O ALA B 48 SHEET 3 F 3 PHE B 135 PRO B 136 -1 O PHE B 135 N GLY B 86 SHEET 1 G 3 GLU B 52 PRO B 55 0 SHEET 2 G 3 LYS B 62 ASP B 67 -1 N ARG B 63 O HIS B 54 SHEET 3 G 3 THR B 71 SER B 76 -1 O VAL B 72 N LEU B 66 SHEET 1 H 2 THR B 94 GLU B 95 0 SHEET 2 H 2 LYS B 102 VAL B 103 -1 N VAL B 103 O THR B 94 SHEET 1 I 2 GLU B 105 ILE B 108 0 SHEET 2 I 2 VAL B 111 PHE B 114 -1 O VAL B 111 N ILE B 108 SHEET 1 J 5 HIS B 261 ASP B 264 0 SHEET 2 J 5 ALA B 330 GLU B 334 -1 O ALA B 332 N PHE B 263 SHEET 3 J 5 PHE B 213 PHE B 219 -1 O GLY B 216 N LEU B 333 SHEET 4 J 5 ARG B 387 ALA B 389 -1 N ARG B 387 O PHE B 219 SHEET 5 J 5 ALA B 193 GLU B 194 1 N GLU B 194 O VAL B 388 SHEET 1 K 4 HIS B 261 ASP B 264 0 SHEET 2 K 4 ALA B 330 GLU B 334 -1 O ALA B 332 N PHE B 263 SHEET 3 K 4 PHE B 213 PHE B 219 -1 O GLY B 216 N LEU B 333 SHEET 4 K 4 LEU B 393 ALA B 395 -1 N LEU B 393 O LEU B 215 SHEET 1 L 4 ALA B 201 VAL B 204 0 SHEET 2 L 4 GLY B 271 ARG B 276 1 O ILE B 272 N LYS B 203 SHEET 3 L 4 LEU B 298 ARG B 304 -1 N VAL B 299 O ARG B 275 SHEET 4 L 4 GLU B 307 GLY B 312 -1 O GLU B 307 N ARG B 304 SHEET 1 M 2 ARG B 434 VAL B 435 0 SHEET 2 M 2 VAL B 444 THR B 445 -1 N THR B 445 O ARG B 434 SHEET 1 N 2 GLN B 508 GLU B 509 0 SHEET 2 N 2 LEU B 570 PHE B 571 1 N PHE B 571 O GLN B 508 SHEET 1 O 2 PHE B 515 MET B 516 0 SHEET 2 O 2 ALA B 543 LEU B 544 -1 O ALA B 543 N MET B 516 SHEET 1 P 6 ARG B 575 PHE B 577 0 SHEET 2 P 6 GLU B 581 PHE B 590 -1 N GLU B 582 O VAL B 576 SHEET 3 P 6 VAL B 668 LEU B 675 -1 O HIS B 669 N LEU B 589 SHEET 4 P 6 GLU B 647 GLY B 653 -1 O PHE B 651 N GLU B 672 SHEET 5 P 6 SER B 639 VAL B 644 -1 O GLY B 640 N LEU B 652 SHEET 6 P 6 PHE B 624 ALA B 628 -1 O ARG B 625 N LEU B 643 SHEET 1 Q 3 ASP B 696 VAL B 699 0 SHEET 2 Q 3 LYS B 741 HIS B 746 -1 N LEU B 743 O VAL B 699 SHEET 3 Q 3 ALA B 726 GLN B 732 -1 O ALA B 726 N HIS B 746 CISPEP 1 PRO A 192 PRO A 193 0 0.02 CISPEP 2 GLU A 262 PRO A 263 0 0.31 CISPEP 3 GLY B 439 PRO B 440 0 -2.03 CISPEP 4 LEU B 675 PRO B 676 0 -1.86 CISPEP 5 PRO B 734 PRO B 735 0 5.59 CRYST1 175.000 175.000 140.600 90.00 90.00 120.00 P 32 2 1 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 0.005714 0.003299 0.000000 0.00000 SCALE2 0.000000 0.006598 0.000000 0.00000 SCALE3 0.000000 0.000000 0.007112 0.00000