HEADER LIGASE 09-AUG-05 2AMC TITLE CRYSTAL STRUCTURE OF PHENYLALANYL-TRNA SYNTHETASE COMPLEXED WITH L- TITLE 2 TYROSINE COMPND MOL_ID: 1; COMPND 2 MOLECULE: PHENYLALANYL-TRNA SYNTHETASE ALPHA CHAIN; COMPND 3 CHAIN: A; COMPND 4 FRAGMENT: RESIDUES 85-350; COMPND 5 SYNONYM: PHENYLALANINE-TRNA LIGASE, PHERS; COMPND 6 EC: 6.1.1.20; COMPND 7 MOL_ID: 2; COMPND 8 MOLECULE: PHENYLALANYL-TRNA SYNTHETASE BETA CHAIN; COMPND 9 CHAIN: B; COMPND 10 SYNONYM: PHENYLALANINE-TRNA LIGASE, PHERS; COMPND 11 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 KEYWDS PROTEIN-AMINO ACID COMPLEX, LIGASE EXPDTA X-RAY DIFFRACTION AUTHOR O.KOTIK-KOGAN,N.MOOR,D.TWOROWSKI,M.SAFRO REVDAT 4 11-OCT-17 2AMC 1 REMARK REVDAT 3 13-JUL-11 2AMC 1 VERSN REVDAT 2 24-FEB-09 2AMC 1 VERSN REVDAT 1 20-DEC-05 2AMC 0 JRNL AUTH O.KOTIK-KOGAN,N.MOOR,D.TWOROWSKI,M.SAFRO JRNL TITL STRUCTURAL BASIS FOR DISCRIMINATION OF L-PHENYLALANINE FROM JRNL TITL 2 L-TYROSINE BY PHENYLALANYL-TRNA SYNTHETASE JRNL REF STRUCTURE V. 13 1799 2005 JRNL REFN ISSN 0969-2126 JRNL PMID 16338408 JRNL DOI 10.1016/J.STR.2005.08.013 REMARK 2 REMARK 2 RESOLUTION. 2.70 ANGSTROMS. REMARK 3 REMARK 3 REFINEMENT. REMARK 3 PROGRAM : CNS 1.1 REMARK 3 AUTHORS : BRUNGER,ADAMS,CLORE,DELANO,GROS,GROSSE- REMARK 3 : KUNSTLEVE,JIANG,KUSZEWSKI,NILGES,PANNU, REMARK 3 : READ,RICE,SIMONSON,WARREN REMARK 3 REMARK 3 REFINEMENT TARGET : ENGH & HUBER REMARK 3 REMARK 3 DATA USED IN REFINEMENT. REMARK 3 RESOLUTION RANGE HIGH (ANGSTROMS) : 2.70 REMARK 3 RESOLUTION RANGE LOW (ANGSTROMS) : 25.41 REMARK 3 DATA CUTOFF (SIGMA(F)) : 2.200 REMARK 3 DATA CUTOFF HIGH (ABS(F)) : NULL REMARK 3 DATA CUTOFF LOW (ABS(F)) : NULL REMARK 3 COMPLETENESS (WORKING+TEST) (%) : 97.0 REMARK 3 NUMBER OF REFLECTIONS : 63833 REMARK 3 REMARK 3 FIT TO DATA USED IN REFINEMENT. REMARK 3 CROSS-VALIDATION METHOD : NULL REMARK 3 FREE R VALUE TEST SET SELECTION : RANDOM REMARK 3 R VALUE (WORKING SET) : 0.229 REMARK 3 FREE R VALUE : 0.255 REMARK 3 FREE R VALUE TEST SET SIZE (%) : 5.000 REMARK 3 FREE R VALUE TEST SET COUNT : 3215 REMARK 3 ESTIMATED ERROR OF FREE R VALUE : 0.005 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) : 2.70 REMARK 3 BIN RESOLUTION RANGE LOW (A) : 2.82 REMARK 3 BIN COMPLETENESS (WORKING+TEST) (%) : 96.60 REMARK 3 REFLECTIONS IN BIN (WORKING SET) : 7443 REMARK 3 BIN R VALUE (WORKING SET) : 0.3260 REMARK 3 BIN FREE R VALUE : 0.3520 REMARK 3 BIN FREE R VALUE TEST SET SIZE (%) : 5.10 REMARK 3 BIN FREE R VALUE TEST SET COUNT : 402 REMARK 3 ESTIMATED ERROR OF BIN FREE R VALUE : 0.018 REMARK 3 REMARK 3 NUMBER OF NON-HYDROGEN ATOMS USED IN REFINEMENT. REMARK 3 PROTEIN ATOMS : 8250 REMARK 3 NUCLEIC ACID ATOMS : 0 REMARK 3 HETEROGEN ATOMS : 32 REMARK 3 SOLVENT ATOMS : 232 REMARK 3 REMARK 3 B VALUES. REMARK 3 FROM WILSON PLOT (A**2) : NULL REMARK 3 MEAN B VALUE (OVERALL, A**2) : 46.43 REMARK 3 OVERALL ANISOTROPIC B VALUE. REMARK 3 B11 (A**2) : 2.14000 REMARK 3 B22 (A**2) : 2.14000 REMARK 3 B33 (A**2) : -4.29000 REMARK 3 B12 (A**2) : 9.81000 REMARK 3 B13 (A**2) : 0.00000 REMARK 3 B23 (A**2) : 0.00000 REMARK 3 REMARK 3 ESTIMATED COORDINATE ERROR. REMARK 3 ESD FROM LUZZATI PLOT (A) : 0.34 REMARK 3 ESD FROM SIGMAA (A) : 0.40 REMARK 3 LOW RESOLUTION CUTOFF (A) : 5.00 REMARK 3 REMARK 3 CROSS-VALIDATED ESTIMATED COORDINATE ERROR. REMARK 3 ESD FROM C-V LUZZATI PLOT (A) : 0.40 REMARK 3 ESD FROM C-V SIGMAA (A) : 0.46 REMARK 3 REMARK 3 RMS DEVIATIONS FROM IDEAL VALUES. REMARK 3 BOND LENGTHS (A) : 0.007 REMARK 3 BOND ANGLES (DEGREES) : 1.500 REMARK 3 DIHEDRAL ANGLES (DEGREES) : 24.20 REMARK 3 IMPROPER ANGLES (DEGREES) : 1.080 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 BULK SOLVENT MODELING. REMARK 3 METHOD USED : CNS BULK SOLVENT MODEL USED REMARK 3 KSOL : 0.35 REMARK 3 BSOL : 41.88 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 : PROTEIN_REP.PARAM REMARK 3 PARAMETER FILE 2 : CARBOHYDRATE.PARAM REMARK 3 PARAMETER FILE 3 : WATER.PARAM REMARK 3 PARAMETER FILE 4 : ION.PARAM REMARK 3 PARAMETER FILE 5 : NULL REMARK 3 TOPOLOGY FILE 1 : PROTEIN.TOP REMARK 3 TOPOLOGY FILE 2 : CARBOHYDRATE.TOP REMARK 3 TOPOLOGY FILE 3 : WATER.TOP REMARK 3 TOPOLOGY FILE 4 : ION.TOP REMARK 3 TOPOLOGY FILE 5 : NULL REMARK 3 REMARK 3 OTHER REFINEMENT REMARKS: NULL REMARK 4 REMARK 4 2AMC COMPLIES WITH FORMAT V. 3.30, 13-JUL-11 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY RCSB ON 16-SEP-05. REMARK 100 THE DEPOSITION ID IS D_1000034062. REMARK 200 REMARK 200 EXPERIMENTAL DETAILS REMARK 200 EXPERIMENT TYPE : X-RAY DIFFRACTION REMARK 200 DATE OF DATA COLLECTION : 12-NOV-04 REMARK 200 TEMPERATURE (KELVIN) : 100 REMARK 200 PH : 7.2 REMARK 200 NUMBER OF CRYSTALS USED : 1 REMARK 200 REMARK 200 SYNCHROTRON (Y/N) : N REMARK 200 RADIATION SOURCE : ROTATING ANODE REMARK 200 BEAMLINE : NULL REMARK 200 X-RAY GENERATOR MODEL : RIGAKU REMARK 200 MONOCHROMATIC OR LAUE (M/L) : M REMARK 200 WAVELENGTH OR RANGE (A) : 1.54 REMARK 200 MONOCHROMATOR : NULL REMARK 200 OPTICS : NULL REMARK 200 REMARK 200 DETECTOR TYPE : IMAGE PLATE REMARK 200 DETECTOR MANUFACTURER : RIGAKU REMARK 200 INTENSITY-INTEGRATION SOFTWARE : DENZO REMARK 200 DATA SCALING SOFTWARE : SCALEPACK REMARK 200 REMARK 200 NUMBER OF UNIQUE REFLECTIONS : 64797 REMARK 200 RESOLUTION RANGE HIGH (A) : 2.700 REMARK 200 RESOLUTION RANGE LOW (A) : 25.410 REMARK 200 REJECTION CRITERIA (SIGMA(I)) : 0.000 REMARK 200 REMARK 200 OVERALL. REMARK 200 COMPLETENESS FOR RANGE (%) : 98.5 REMARK 200 DATA REDUNDANCY : NULL REMARK 200 R MERGE (I) : NULL 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) : 2.70 REMARK 200 HIGHEST RESOLUTION SHELL, RANGE LOW (A) : 2.87 REMARK 200 COMPLETENESS FOR SHELL (%) : 88.3 REMARK 200 DATA REDUNDANCY IN SHELL : NULL REMARK 200 R MERGE FOR SHELL (I) : NULL REMARK 200 R SYM FOR SHELL (I) : NULL REMARK 200 FOR SHELL : NULL REMARK 200 REMARK 200 DIFFRACTION PROTOCOL: SINGLE WAVELENGTH REMARK 200 METHOD USED TO DETERMINE THE STRUCTURE: FOURIER SYNTHESIS REMARK 200 SOFTWARE USED: CNS REMARK 200 STARTING MODEL: PDB ENTRY 1PYS REMARK 200 REMARK 200 REMARK: NULL REMARK 280 REMARK 280 CRYSTAL REMARK 280 SOLVENT CONTENT, VS (%): 75.98 REMARK 280 MATTHEWS COEFFICIENT, VM (ANGSTROMS**3/DA): 5.16 REMARK 280 REMARK 280 CRYSTALLIZATION CONDITIONS: 20 MM IMIDAZOLE-HCL, PH 7.2, 27% REMARK 280 (NH4)2SO4, 1MM MGCL2, 1MM NAN3, VAPOR DIFFUSION, HANGING DROP, REMARK 280 TEMPERATURE 277K 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 92.15333 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 46.07667 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 46.07667 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 92.15333 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 SECOND PART OF THE BIOLOGICAL ASSEMBLY IS GENERATED REMARK 300 BY THE TWO FOLD AXIS: 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: TETRAMERIC REMARK 350 SOFTWARE DETERMINED QUATERNARY STRUCTURE: TETRAMERIC REMARK 350 SOFTWARE USED: PISA REMARK 350 TOTAL BURIED SURFACE AREA: 27140 ANGSTROM**2 REMARK 350 SURFACE AREA OF THE COMPLEX: 78240 ANGSTROM**2 REMARK 350 CHANGE IN SOLVENT FREE ENERGY: -154.0 KCAL/MOL 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 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 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 CG1 VAL A 88 O HOH A 902 2.09 REMARK 500 NH2 ARG B 407 O1 SO4 B 786 2.13 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 LEU A 350 N - CA - CB ANGL. DEV. = -17.7 DEGREES REMARK 500 VAL B 38 N - CA - C ANGL. DEV. = 16.4 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 PHE A 134 -63.97 -124.66 REMARK 500 PRO A 140 175.92 -52.72 REMARK 500 HIS A 142 53.61 39.76 REMARK 500 GLU A 167 172.53 -57.60 REMARK 500 ASP A 209 -157.74 -124.71 REMARK 500 GLU A 262 108.14 -167.54 REMARK 500 ALA A 283 -177.37 -179.06 REMARK 500 VAL A 349 110.39 -25.13 REMARK 500 VAL B 12 74.61 -119.35 REMARK 500 SER B 17 164.64 171.55 REMARK 500 ARG B 34 147.88 -176.42 REMARK 500 PHE B 39 64.64 -115.44 REMARK 500 LYS B 102 126.46 -27.29 REMARK 500 GLN B 109 49.16 38.69 REMARK 500 GLU B 148 -9.60 -54.98 REMARK 500 ARG B 164 57.35 -112.74 REMARK 500 LYS B 192 78.15 -116.59 REMARK 500 PRO B 199 37.16 -72.67 REMARK 500 ASN B 244 -79.56 -26.99 REMARK 500 ALA B 257 57.32 37.70 REMARK 500 GLU B 281 122.86 -38.13 REMARK 500 VAL B 316 -55.20 -127.73 REMARK 500 ARG B 349 -38.16 -38.90 REMARK 500 SER B 418 49.43 -141.92 REMARK 500 ARG B 454 -31.95 -135.26 REMARK 500 ASP B 484 3.99 -67.47 REMARK 500 ALA B 568 117.73 178.55 REMARK 500 ARG B 578 106.27 -170.96 REMARK 500 GLU B 579 -50.33 76.80 REMARK 500 PHE B 590 143.54 -172.75 REMARK 500 ALA B 599 -165.76 -73.32 REMARK 500 LYS B 600 -35.82 -130.73 REMARK 500 SER B 604 -166.62 -164.26 REMARK 500 TYR B 606 -62.06 -29.27 REMARK 500 LEU B 697 136.12 175.77 REMARK 500 GLU B 723 -62.56 -93.46 REMARK 500 LEU B 725 97.63 170.62 REMARK 500 ASP B 729 124.36 -174.62 REMARK 500 PRO B 735 32.71 -86.00 REMARK 500 PRO B 737 87.21 -53.07 REMARK 500 GLU B 738 141.13 -14.22 REMARK 500 GLU B 770 -82.39 -49.60 REMARK 500 REMARK 500 REMARK: NULL REMARK 620 REMARK 620 METAL COORDINATION REMARK 620 (M=MODEL NUMBER; RES=RESIDUE NAME; C=CHAIN IDENTIFIER; REMARK 620 SSEQ=SEQUENCE NUMBER; I=INSERTION CODE): REMARK 620 REMARK 620 COORDINATION ANGLES FOR: M RES CSSEQI METAL REMARK 620 MG A 901 MG REMARK 620 N RES CSSEQI ATOM REMARK 620 1 GLU A 262 OE2 REMARK 620 2 GLU B 461 OE1 69.0 REMARK 620 N 1 REMARK 800 REMARK 800 SITE REMARK 800 SITE_IDENTIFIER: AC1 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE MG A 901 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC2 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE SO4 B 786 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC3 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE TYR A 888 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC4 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE TYR B 999 REMARK 900 REMARK 900 RELATED ENTRIES REMARK 900 RELATED ID: 1PYS RELATED DB: PDB REMARK 900 CRYSTAL STRUCTURE OF PHENYLALANYL-TRNA SYNTHETASE FROM THERMUS REMARK 900 THERMOPHILUS, NATIVE PROTEIN REMARK 900 RELATED ID: 1EIY RELATED DB: PDB REMARK 900 CRYSTAL STRUCTURE OF THE SAME PROTEIN COMPLEXED WITH TRNAPHE REMARK 900 RELATED ID: 1B7Y RELATED DB: PDB REMARK 900 CRYSTAL STRUCTURE OF THE SAME PROTEIN COMPLEXED WITH PHENYLALANINYL- REMARK 900 ADENYLATE REMARK 900 RELATED ID: 1JJC RELATED DB: PDB REMARK 900 CRYSTAL STRUCTURE OF THE SAME PROTEIN COMPLEXED WITH PHENYLALANYL- REMARK 900 ADENYLATE IN THE PRESENCE OF MANGANESE REMARK 900 RELATED ID: 1B70 RELATED DB: PDB REMARK 900 CRYSTAL STRUCTURE OF THE SAME PROTEIN COMPLEXED WITH PHENYLALANINE REMARK 900 RELATED ID: 2ALY RELATED DB: PDB REMARK 900 CRYSTAL STRUCTURE OF THE SAME PROTEIN COMPLEXED WITH 5'-O-[N-(L- REMARK 900 TYROSYL)SULPHAMOYL]ADENOSINE DBREF 2AMC A 85 350 UNP P27001 SYFA_THETH 85 350 DBREF 2AMC B 1 785 UNP P27002 SYFB_THETH 1 785 SEQRES 1 A 266 ARG VAL ASP VAL SER LEU PRO GLY ALA SER LEU PHE SER SEQRES 2 A 266 GLY GLY LEU HIS PRO ILE THR LEU MET GLU ARG GLU LEU SEQRES 3 A 266 VAL GLU ILE PHE ARG ALA LEU GLY TYR GLN ALA VAL GLU SEQRES 4 A 266 GLY PRO GLU VAL GLU SER GLU PHE PHE ASN PHE ASP ALA SEQRES 5 A 266 LEU ASN ILE PRO GLU HIS HIS PRO ALA ARG ASP MET TRP SEQRES 6 A 266 ASP THR PHE TRP LEU THR GLY GLU GLY PHE ARG LEU GLU SEQRES 7 A 266 GLY PRO LEU GLY GLU GLU VAL GLU GLY ARG LEU LEU LEU SEQRES 8 A 266 ARG THR HIS THR SER PRO MET GLN VAL ARG TYR MET VAL SEQRES 9 A 266 ALA HIS THR PRO PRO PHE ARG ILE VAL VAL PRO GLY ARG SEQRES 10 A 266 VAL PHE ARG PHE GLU GLN THR ASP ALA THR HIS GLU ALA SEQRES 11 A 266 VAL PHE HIS GLN LEU GLU GLY LEU VAL VAL GLY GLU GLY SEQRES 12 A 266 ILE ALA MET ALA HIS LEU LYS GLY ALA ILE TYR GLU LEU SEQRES 13 A 266 ALA GLN ALA LEU PHE GLY PRO ASP SER LYS VAL ARG PHE SEQRES 14 A 266 GLN PRO VAL TYR PHE PRO PHE VAL GLU PRO GLY ALA GLN SEQRES 15 A 266 PHE ALA VAL TRP TRP PRO GLU GLY GLY LYS TRP LEU GLU SEQRES 16 A 266 LEU GLY GLY ALA GLY MET VAL HIS PRO LYS VAL PHE GLN SEQRES 17 A 266 ALA VAL ASP ALA TYR ARG GLU ARG LEU GLY LEU PRO PRO SEQRES 18 A 266 ALA TYR ARG GLY VAL THR GLY PHE ALA PHE GLY LEU GLY SEQRES 19 A 266 VAL GLU ARG LEU ALA MET LEU ARG TYR GLY ILE PRO ASP SEQRES 20 A 266 ILE ARG TYR PHE PHE GLY GLY ARG LEU LYS PHE LEU GLU SEQRES 21 A 266 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 HET MG A 901 1 HET TYR A 888 13 HET SO4 B 786 5 HET TYR B 999 13 HETNAM MG MAGNESIUM ION HETNAM TYR TYROSINE HETNAM SO4 SULFATE ION FORMUL 3 MG MG 2+ FORMUL 4 TYR 2(C9 H11 N O3) FORMUL 5 SO4 O4 S 2- FORMUL 7 HOH *232(H2 O) HELIX 1 1 HIS A 101 ALA A 116 1 16 HELIX 2 2 GLU A 130 PHE A 134 1 5 HELIX 3 3 ASP A 135 ASN A 138 5 4 HELIX 4 4 HIS A 143 TRP A 149 5 7 HELIX 5 5 SER A 180 HIS A 190 1 11 HELIX 6 6 ALA A 229 GLY A 246 1 18 HELIX 7 7 HIS A 287 ARG A 300 1 14 HELIX 8 8 VAL A 319 GLY A 328 1 10 HELIX 9 9 ASP A 331 PHE A 335 5 5 HELIX 10 10 ARG A 339 GLU A 344 1 6 HELIX 11 11 GLN A 345 LYS A 347 5 3 HELIX 12 12 PHE B 5 ALA B 10 1 6 HELIX 13 13 SER B 17 GLY B 29 1 13 HELIX 14 14 SER B 119 GLY B 124 1 6 HELIX 15 15 PRO B 145 TRP B 150 5 6 HELIX 16 16 ARG B 164 LEU B 168 5 5 HELIX 17 17 GLY B 169 LEU B 180 1 12 HELIX 18 18 PRO B 227 ALA B 237 1 11 HELIX 19 19 ASN B 243 ALA B 257 1 15 HELIX 20 20 ARG B 266 VAL B 268 5 3 HELIX 21 21 ASP B 339 HIS B 350 1 12 HELIX 22 22 THR B 354 GLY B 363 1 10 HELIX 23 23 GLY B 368 ALA B 384 1 17 HELIX 24 24 ARG B 407 GLY B 416 1 10 HELIX 25 25 PRO B 420 LEU B 431 1 12 HELIX 26 26 LEU B 455 GLY B 468 1 14 HELIX 27 27 TYR B 469 ILE B 472 5 4 HELIX 28 28 ALA B 482 ARG B 486 5 5 HELIX 29 29 GLU B 489 GLY B 506 1 18 HELIX 30 30 GLU B 519 PHE B 524 1 6 HELIX 31 31 ALA B 538 ALA B 542 5 5 HELIX 32 32 LEU B 548 ASP B 563 1 16 HELIX 33 33 SER B 604 GLY B 621 1 18 HELIX 34 34 HIS B 656 LEU B 663 1 8 HELIX 35 35 PRO B 706 GLY B 719 1 14 HELIX 36 36 ARG B 757 ARG B 775 1 19 SHEET 1 A 7 GLN A 120 ALA A 121 0 SHEET 2 A 7 PHE A 194 PHE A 203 1 O VAL A 197 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 LYS A 276 VAL A 286 -1 N VAL A 286 O GLY A 312 SHEET 6 A 7 VAL A 261 TRP A 271 -1 N PHE A 267 O GLY A 281 SHEET 7 A 7 VAL A 251 PRO A 255 -1 N GLN A 254 O GLN A 266 SHEET 1 B 2 VAL A 127 SER A 129 0 SHEET 2 B 2 LEU A 173 LEU A 175 -1 O LEU A 174 N GLU A 128 SHEET 1 C 2 LEU A 154 THR A 155 0 SHEET 2 C 2 LEU B 532 LEU B 533 -1 O LEU B 532 N THR A 155 SHEET 1 D 3 ARG B 2 PRO B 4 0 SHEET 2 D 3 VAL B 154 LEU B 158 -1 O LEU B 156 N VAL B 3 SHEET 3 D 3 THR B 32 ARG B 37 -1 N GLU B 36 O VAL B 155 SHEET 1 E 5 THR B 71 SER B 76 0 SHEET 2 E 5 LYS B 62 ASP B 67 -1 N LEU B 64 O VAL B 74 SHEET 3 E 5 VAL B 45 PRO B 55 -1 N HIS B 54 O ARG B 63 SHEET 4 E 5 GLY B 86 ALA B 90 -1 O LEU B 89 N VAL B 46 SHEET 5 E 5 MET B 116 ALA B 117 -1 O MET B 116 N ALA B 90 SHEET 1 F 2 GLU B 105 ILE B 108 0 SHEET 2 F 2 VAL B 111 PHE B 114 -1 O SER B 113 N ARG B 106 SHEET 1 G 5 ALA B 193 GLU B 194 0 SHEET 2 G 5 ARG B 387 ALA B 389 1 O VAL B 388 N GLU B 194 SHEET 3 G 5 HIS B 212 PHE B 219 -1 N PHE B 219 O ARG B 387 SHEET 4 G 5 ILE B 331 CYS B 337 -1 O ILE B 331 N ALA B 218 SHEET 5 G 5 MET B 260 ASP B 264 -1 N HIS B 261 O GLU B 334 SHEET 1 H 4 ALA B 193 GLU B 194 0 SHEET 2 H 4 ARG B 387 ALA B 389 1 O VAL B 388 N GLU B 194 SHEET 3 H 4 HIS B 212 PHE B 219 -1 N PHE B 219 O ARG B 387 SHEET 4 H 4 LEU B 393 ALA B 395 -1 O ALA B 395 N PHE B 213 SHEET 1 I 5 ALA B 201 VAL B 204 0 SHEET 2 I 5 GLY B 271 ARG B 276 1 O ILE B 272 N ALA B 201 SHEET 3 I 5 LEU B 298 ARG B 304 -1 O VAL B 299 N ARG B 275 SHEET 4 I 5 GLU B 307 LEU B 313 -1 O LEU B 311 N ILE B 300 SHEET 5 I 5 MET B 317 GLY B 318 -1 O MET B 317 N LEU B 313 SHEET 1 J 2 ARG B 282 LYS B 284 0 SHEET 2 J 2 GLU B 290 THR B 292 -1 O ARG B 291 N LEU B 283 SHEET 1 K 3 ILE B 404 PHE B 406 0 SHEET 2 K 3 TYR B 442 THR B 445 -1 O VAL B 444 N ILE B 404 SHEET 3 K 3 ARG B 434 GLU B 436 -1 N ARG B 434 O THR B 445 SHEET 1 L 7 GLN B 508 GLU B 509 0 SHEET 2 L 7 ARG B 567 PHE B 577 1 O PHE B 571 N GLN B 508 SHEET 3 L 7 GLU B 581 GLY B 591 -1 O GLU B 582 N VAL B 576 SHEET 4 L 7 HIS B 669 LEU B 675 -1 O LEU B 675 N THR B 583 SHEET 5 L 7 GLU B 647 LEU B 655 -1 N GLY B 653 O LEU B 670 SHEET 6 L 7 LEU B 634 VAL B 644 -1 N HIS B 635 O ALA B 654 SHEET 7 L 7 PHE B 624 ALA B 628 -1 N ARG B 625 O LEU B 643 SHEET 1 M 2 PHE B 515 MET B 516 0 SHEET 2 M 2 ALA B 543 LEU B 544 -1 O ALA B 543 N MET B 516 SHEET 1 N 2 VAL B 594 GLY B 595 0 SHEET 2 N 2 ARG B 602 LEU B 603 -1 O LEU B 603 N VAL B 594 SHEET 1 O 3 ALA B 693 PRO B 702 0 SHEET 2 O 3 HIS B 740 PHE B 749 -1 O LYS B 741 N VAL B 701 SHEET 3 O 3 LEU B 722 TYR B 731 -1 N TYR B 731 O SER B 742 LINK MG MG A 901 OE2 GLU A 262 1555 1555 2.36 LINK MG MG A 901 OE1 GLU B 461 1555 1555 2.25 LINK NH2 ARG B 413 O4 SO4 B 786 1555 1555 2.02 CISPEP 1 PRO A 192 PRO A 193 0 0.06 CISPEP 2 GLU A 262 PRO A 263 0 -0.14 CISPEP 3 GLY B 439 PRO B 440 0 0.14 CISPEP 4 LEU B 675 PRO B 676 0 -0.14 CISPEP 5 PRO B 734 PRO B 735 0 0.26 SITE 1 AC1 3 GLU A 262 ASP B 452 GLU B 461 SITE 1 AC2 4 ARG B 407 TYR B 410 ARG B 413 HOH B1130 SITE 1 AC3 14 TRP A 149 HIS A 178 SER A 180 ARG A 204 SITE 2 AC3 14 GLN A 218 GLU A 220 PHE A 258 PHE A 260 SITE 3 AC3 14 VAL A 261 ALA A 283 ALA A 314 PHE A 315 SITE 4 AC3 14 GLY A 316 HOH A 903 SITE 1 AC4 13 MET B 260 HIS B 261 LEU B 286 GLY B 315 SITE 2 AC4 13 VAL B 316 MET B 317 GLY B 318 GLU B 334 SITE 3 AC4 13 PHE B 338 ALA B 356 HOH B1015 HOH B1039 SITE 4 AC4 13 HOH B1061 CRYST1 173.200 173.200 138.230 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 0.005774 0.003333 0.000000 0.00000 SCALE2 0.000000 0.006667 0.000000 0.00000 SCALE3 0.000000 0.000000 0.007234 0.00000 MASTER 371 0 4 36 54 0 10 6 0 0 0 82 END