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 6 25-DEC-24 2AMC 1 REMARK LINK REVDAT 5 23-AUG-23 2AMC 1 REMARK LINK 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 NH2 ARG B 413 O4 SO4 B 786 2.02 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 OE2 GLU A 262 MG MG A 901 1555 1555 2.36 LINK MG MG A 901 OE1 GLU B 461 1555 1555 2.25 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