10 20 30 40 50 60 70 80 2QUI - Header ----|----|----|----|----|----|----|----|----|----|----|----|----|----|----|----| Asymmetric Unit
HEADER LIGASE 05-AUG-07 2QUI
TITLE CRYSTAL STRUCTURES OF HUMAN TRYPTOPHANYL-TRNA SYNTHETASE IN TITLE 2 COMPLEX WITH TRYPTOPHANAMIDE AND ATP
COMPND MOL_ID: 1; COMPND 2 MOLECULE: TRYPTOPHANYL-TRNA SYNTHETASE; COMPND 3 CHAIN: A, B; COMPND 4 SYNONYM: TRYPTOPHAN-TRNA LIGASE, TRPRS, INTERFERON-INDUCED COMPND 5 PROTEIN 53, IFP53, HWRS; COMPND 6 EC: 6.1.1.2; 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: WARS, IFI53, WRS; 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: PET24A(+)
KEYWDS AMINOACYL-TRNA SYNTHETASE, ROSSMANN FOLD, INDUCED-FIT KEYWDS 2 MECHNISM, ATP-BINDING, CYTOPLASM, LIGASE, NUCLEOTIDE- KEYWDS 3 BINDING, PROTEIN BIOSYNTHESIS
EXPDTA X-RAY DIFFRACTION
AUTHOR N.SHEN,J.P.DING
REVDAT 2 24-FEB-09 2QUI 1 VERSN REVDAT 1 29-APR-08 2QUI 0
JRNL AUTH N.SHEN,M.ZHOU,B.YANG,Y.YU,X.DONG,J.DING JRNL TITL CATALYTIC MECHANISM OF THE TRYPTOPHAN ACTIVATION JRNL TITL 2 REACTION REVEALED BY CRYSTAL STRUCTURES OF HUMAN JRNL TITL 3 TRYPTOPHANYL-TRNA SYNTHETASE IN DIFFERENT JRNL TITL 4 ENZYMATIC STATES JRNL REF NUCLEIC ACIDS RES. V. 36 1288 2008 JRNL REFN ISSN 0305-1048 JRNL PMID 18180246 JRNL DOI 10.1093/NAR/GKM1153
REMARK 1
REMARK 2 REMARK 2 RESOLUTION. 2.40 ANGSTROMS.
REMARK 3 REMARK 3 REFINEMENT. REMARK 3 PROGRAM : CNS 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 : NULL REMARK 3 REMARK 3 DATA USED IN REFINEMENT. REMARK 3 RESOLUTION RANGE HIGH (ANGSTROMS) : 2.40 REMARK 3 RESOLUTION RANGE LOW (ANGSTROMS) : 50.00 REMARK 3 DATA CUTOFF (SIGMA(F)) : 0.000 REMARK 3 DATA CUTOFF HIGH (ABS(F)) : 2682311.920 REMARK 3 DATA CUTOFF LOW (ABS(F)) : 0.0000 REMARK 3 COMPLETENESS (WORKING+TEST) (%) : 95.3 REMARK 3 NUMBER OF REFLECTIONS : 47455 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) : 0.211 REMARK 3 FREE R VALUE : 0.238 REMARK 3 FREE R VALUE TEST SET SIZE (%) : 5.000 REMARK 3 FREE R VALUE TEST SET COUNT : 2363 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 : 6 REMARK 3 BIN RESOLUTION RANGE HIGH (A) : 2.40 REMARK 3 BIN RESOLUTION RANGE LOW (A) : 2.55 REMARK 3 BIN COMPLETENESS (WORKING+TEST) (%) : 76.80 REMARK 3 REFLECTIONS IN BIN (WORKING SET) : 5929 REMARK 3 BIN R VALUE (WORKING SET) : 0.3230 REMARK 3 BIN FREE R VALUE : 0.3620 REMARK 3 BIN FREE R VALUE TEST SET SIZE (%) : 4.70 REMARK 3 BIN FREE R VALUE TEST SET COUNT : 293 REMARK 3 ESTIMATED ERROR OF BIN FREE R VALUE : 0.021 REMARK 3 REMARK 3 NUMBER OF NON-HYDROGEN ATOMS USED IN REFINEMENT. REMARK 3 PROTEIN ATOMS : 6181 REMARK 3 NUCLEIC ACID ATOMS : 0 REMARK 3 HETEROGEN ATOMS : 62 REMARK 3 SOLVENT ATOMS : 226 REMARK 3 REMARK 3 B VALUES. REMARK 3 FROM WILSON PLOT (A**2) : 41.10 REMARK 3 MEAN B VALUE (OVERALL, A**2) : 51.90 REMARK 3 OVERALL ANISOTROPIC B VALUE. REMARK 3 B11 (A**2) : 4.21000 REMARK 3 B22 (A**2) : 12.18000 REMARK 3 B33 (A**2) : -16.39000 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 COORDINATE ERROR. REMARK 3 ESD FROM LUZZATI PLOT (A) : 0.32 REMARK 3 ESD FROM SIGMAA (A) : 0.38 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) : 0.39 REMARK 3 ESD FROM C-V SIGMAA (A) : 0.42 REMARK 3 REMARK 3 RMS DEVIATIONS FROM IDEAL VALUES. REMARK 3 BOND LENGTHS (A) : 0.007 REMARK 3 BOND ANGLES (DEGREES) : 1.30 REMARK 3 DIHEDRAL ANGLES (DEGREES) : 21.70 REMARK 3 IMPROPER ANGLES (DEGREES) : 0.87 REMARK 3 REMARK 3 ISOTROPIC THERMAL MODEL : RESTRAINED 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 : FLAT MODEL REMARK 3 KSOL : 0.35 REMARK 3 BSOL : 47.91 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 : WATER_REP.PARAM REMARK 3 PARAMETER FILE 3 : LTN.PARAM REMARK 3 PARAMETER FILE 4 : ION.PARAM REMARK 3 PARAMETER FILE 5 : ATP.PARAM REMARK 3 PARAMETER FILE 6 : NULL REMARK 3 TOPOLOGY FILE 1 : PROTEIN.TOP REMARK 3 TOPOLOGY FILE 2 : WATER.TOP REMARK 3 TOPOLOGY FILE 3 : LTN.TOP REMARK 3 TOPOLOGY FILE 4 : ION.TOP REMARK 3 TOPOLOGY FILE 5 : ATP.TOP REMARK 3 TOPOLOGY FILE 6 : NULL REMARK 3 REMARK 3 OTHER REFINEMENT REMARKS: NULL
REMARK 4 REMARK 4 2QUI COMPLIES WITH FORMAT V. 3.15, 01-DEC-08
REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY PDBJ ON 09-AUG-07. REMARK 100 THE RCSB ID CODE IS RCSB044071.
REMARK 200 REMARK 200 EXPERIMENTAL DETAILS REMARK 200 EXPERIMENT TYPE : X-RAY DIFFRACTION REMARK 200 DATE OF DATA COLLECTION : NULL REMARK 200 TEMPERATURE (KELVIN) : 77 REMARK 200 PH : 7.0 REMARK 200 NUMBER OF CRYSTALS USED : 1 REMARK 200 REMARK 200 SYNCHROTRON (Y/N) : Y REMARK 200 RADIATION SOURCE : PHOTON FACTORY REMARK 200 BEAMLINE : BL-5A REMARK 200 X-RAY GENERATOR MODEL : NULL REMARK 200 MONOCHROMATIC OR LAUE (M/L) : M REMARK 200 WAVELENGTH OR RANGE (A) : 1.0 REMARK 200 MONOCHROMATOR : NULL REMARK 200 OPTICS : NULL REMARK 200 REMARK 200 DETECTOR TYPE : CCD REMARK 200 DETECTOR MANUFACTURER : ADSC QUANTUM 315 REMARK 200 INTENSITY-INTEGRATION SOFTWARE : HKL-2000 REMARK 200 DATA SCALING SOFTWARE : HKL-2000 REMARK 200 REMARK 200 NUMBER OF UNIQUE REFLECTIONS : 47608 REMARK 200 RESOLUTION RANGE HIGH (A) : 2.400 REMARK 200 RESOLUTION RANGE LOW (A) : 50.000 REMARK 200 REJECTION CRITERIA (SIGMA(I)) : NULL REMARK 200 REMARK 200 OVERALL. REMARK 200 COMPLETENESS FOR RANGE (%) : 95.1 REMARK 200 DATA REDUNDANCY : 7.000 REMARK 200 R MERGE (I) : 0.11400 REMARK 200 R SYM (I) : NULL REMARK 200 <I/SIGMA(I)> FOR THE DATA SET : 16.9000 REMARK 200 REMARK 200 IN THE HIGHEST RESOLUTION SHELL. REMARK 200 HIGHEST RESOLUTION SHELL, RANGE HIGH (A) : 2.40 REMARK 200 HIGHEST RESOLUTION SHELL, RANGE LOW (A) : 2.49 REMARK 200 COMPLETENESS FOR SHELL (%) : 69.9 REMARK 200 DATA REDUNDANCY IN SHELL : 4.80 REMARK 200 R MERGE FOR SHELL (I) : 0.57500 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 1O5T REMARK 200 REMARK 200 REMARK: NULL
REMARK 280 REMARK 280 CRYSTAL REMARK 280 SOLVENT CONTENT, VS (%): 56.29 REMARK 280 MATTHEWS COEFFICIENT, VM (ANGSTROMS**3/DA): 2.81 REMARK 280 REMARK 280 CRYSTALLIZATION CONDITIONS: 1.15M NA CITRATE, 100MM HEPES, REMARK 280 PH7.0, VAPOR DIFFUSION, HANGING DROP, TEMPERATURE 277K
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 191.60000 REMARK 290 SMTRY1 3 0.000000 -1.000000 0.000000 39.85000 REMARK 290 SMTRY2 3 1.000000 0.000000 0.000000 39.85000 REMARK 290 SMTRY3 3 0.000000 0.000000 1.000000 287.40000 REMARK 290 SMTRY1 4 0.000000 1.000000 0.000000 39.85000 REMARK 290 SMTRY2 4 -1.000000 0.000000 0.000000 39.85000 REMARK 290 SMTRY3 4 0.000000 0.000000 1.000000 95.80000 REMARK 290 SMTRY1 5 -1.000000 0.000000 0.000000 39.85000 REMARK 290 SMTRY2 5 0.000000 1.000000 0.000000 39.85000 REMARK 290 SMTRY3 5 0.000000 0.000000 -1.000000 287.40000 REMARK 290 SMTRY1 6 1.000000 0.000000 0.000000 39.85000 REMARK 290 SMTRY2 6 0.000000 -1.000000 0.000000 39.85000 REMARK 290 SMTRY3 6 0.000000 0.000000 -1.000000 95.80000 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 191.60000 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: DIMERIC REMARK 350 SOFTWARE DETERMINED QUATERNARY STRUCTURE: DIMERIC REMARK 350 SOFTWARE USED: PISA REMARK 350 TOTAL BURIED SURFACE AREA: 5020 ANGSTROM**2 REMARK 350 SURFACE AREA OF THE COMPLEX: 30320 ANGSTROM**2 REMARK 350 CHANGE IN SOLVENT FREE ENERGY: -37.2 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 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 PRO A 2 REMARK 465 ASN A 3 REMARK 465 SER A 4 REMARK 465 GLU A 5 REMARK 465 PRO A 6 REMARK 465 ALA A 7 REMARK 465 SER A 8 REMARK 465 LEU A 9 REMARK 465 LEU A 10 REMARK 465 GLU A 11 REMARK 465 LEU A 12 REMARK 465 PHE A 13 REMARK 465 ASN A 14 REMARK 465 SER A 15 REMARK 465 ILE A 16 REMARK 465 ALA A 17 REMARK 465 THR A 18 REMARK 465 GLN A 19 REMARK 465 GLY A 20 REMARK 465 GLU A 21 REMARK 465 LEU A 22 REMARK 465 VAL A 23 REMARK 465 ARG A 24 REMARK 465 SER A 25 REMARK 465 LEU A 26 REMARK 465 LYS A 27 REMARK 465 ALA A 28 REMARK 465 GLY A 29 REMARK 465 ASN A 30 REMARK 465 ALA A 31 REMARK 465 SER A 32 REMARK 465 LYS A 33 REMARK 465 ASP A 34 REMARK 465 GLU A 35 REMARK 465 ILE A 36 REMARK 465 ASP A 37 REMARK 465 SER A 38 REMARK 465 ALA A 39 REMARK 465 VAL A 40 REMARK 465 LYS A 41 REMARK 465 MET A 42 REMARK 465 LEU A 43 REMARK 465 VAL A 44 REMARK 465 SER A 45 REMARK 465 LEU A 46 REMARK 465 LYS A 47 REMARK 465 MET A 48 REMARK 465 SER A 49 REMARK 465 TYR A 50 REMARK 465 LYS A 51 REMARK 465 ALA A 52 REMARK 465 ALA A 53 REMARK 465 ALA A 54 REMARK 465 GLY A 55 REMARK 465 GLU A 56 REMARK 465 ASP A 57 REMARK 465 TYR A 58 REMARK 465 LYS A 59 REMARK 465 ALA A 60 REMARK 465 ASP A 61 REMARK 465 CYS A 62 REMARK 465 PRO A 63 REMARK 465 PRO A 64 REMARK 465 GLY A 65 REMARK 465 ASN A 66 REMARK 465 PRO A 67 REMARK 465 ALA A 68 REMARK 465 PRO A 69 REMARK 465 THR A 70 REMARK 465 SER A 71 REMARK 465 ASN A 72 REMARK 465 HIS A 73 REMARK 465 GLY A 74 REMARK 465 PRO A 75 REMARK 465 ASP A 76 REMARK 465 ALA A 77 REMARK 465 THR A 78 REMARK 465 GLU A 79 REMARK 465 ALA A 80 REMARK 465 GLU A 81 REMARK 465 HIS A 472 REMARK 465 HIS A 473 REMARK 465 HIS A 474 REMARK 465 HIS A 475 REMARK 465 HIS A 476 REMARK 465 HIS A 477 REMARK 465 MET B 1 REMARK 465 PRO B 2 REMARK 465 ASN B 3 REMARK 465 SER B 4 REMARK 465 GLU B 5 REMARK 465 PRO B 6 REMARK 465 ALA B 7 REMARK 465 SER B 8 REMARK 465 LEU B 9 REMARK 465 LEU B 10 REMARK 465 GLU B 11 REMARK 465 LEU B 12 REMARK 465 PHE B 13 REMARK 465 ASN B 14 REMARK 465 SER B 15 REMARK 465 ILE B 16 REMARK 465 ALA B 17 REMARK 465 THR B 18 REMARK 465 GLN B 19 REMARK 465 GLY B 20 REMARK 465 GLU B 21 REMARK 465 LEU B 22 REMARK 465 VAL B 23 REMARK 465 ARG B 24 REMARK 465 SER B 25 REMARK 465 LEU B 26 REMARK 465 LYS B 27 REMARK 465 ALA B 28 REMARK 465 GLY B 29 REMARK 465 ASN B 30 REMARK 465 ALA B 31 REMARK 465 SER B 32 REMARK 465 LYS B 33 REMARK 465 ASP B 34 REMARK 465 GLU B 35 REMARK 465 ILE B 36 REMARK 465 ASP B 37 REMARK 465 SER B 38 REMARK 465 ALA B 39 REMARK 465 VAL B 40 REMARK 465 LYS B 41 REMARK 465 MET B 42 REMARK 465 LEU B 43 REMARK 465 VAL B 44 REMARK 465 SER B 45 REMARK 465 LEU B 46 REMARK 465 LYS B 47 REMARK 465 MET B 48 REMARK 465 SER B 49 REMARK 465 TYR B 50 REMARK 465 LYS B 51 REMARK 465 ALA B 52 REMARK 465 ALA B 53 REMARK 465 ALA B 54 REMARK 465 GLY B 55 REMARK 465 GLU B 56 REMARK 465 ASP B 57 REMARK 465 TYR B 58 REMARK 465 LYS B 59 REMARK 465 ALA B 60 REMARK 465 ASP B 61 REMARK 465 CYS B 62 REMARK 465 PRO B 63 REMARK 465 PRO B 64 REMARK 465 GLY B 65 REMARK 465 ASN B 66 REMARK 465 PRO B 67 REMARK 465 ALA B 68 REMARK 465 PRO B 69 REMARK 465 THR B 70 REMARK 465 SER B 71 REMARK 465 ASN B 72 REMARK 465 HIS B 73 REMARK 465 GLY B 74 REMARK 465 PRO B 75 REMARK 465 ASP B 76 REMARK 465 ALA B 77 REMARK 465 THR B 78 REMARK 465 GLU B 79 REMARK 465 ALA B 80 REMARK 465 GLU B 81 REMARK 465 GLU B 82 REMARK 465 ASP B 83 REMARK 465 PHE B 84 REMARK 465 VAL B 85 REMARK 465 ASP B 86 REMARK 465 PRO B 87 REMARK 465 TRP B 88 REMARK 465 THR B 89 REMARK 465 VAL B 90 REMARK 465 GLN B 91 REMARK 465 THR B 92 REMARK 465 SER B 93 REMARK 465 SER B 94 REMARK 465 ALA B 95 REMARK 465 LYS B 96 REMARK 465 HIS B 476 REMARK 465 HIS B 477
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 LYS A 153 CG CD CE NZ REMARK 470 LYS A 264 CG CD CE NZ REMARK 470 ARG A 298 CG CD NE CZ NH1 NH2 REMARK 470 GLU A 455 CG CD OE1 OE2 REMARK 470 PHE A 468 CG CD1 CD2 CE1 CE2 CZ REMARK 470 GLN A 471 CG CD OE1 NE2 REMARK 470 ARG B 106 CG CD NE CZ NH1 NH2 REMARK 470 ASP B 299 CG OD1 OD2 REMARK 470 GLN B 347 CG CD OE1 NE2 REMARK 470 LYS B 349 CG CD CE NZ REMARK 470 LYS B 374 CG CD CE NZ
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 TRP A 88 -57.51 -127.23 REMARK 500 MET A 243 41.41 -151.69 REMARK 500 PRO A 281 -34.20 -38.93 REMARK 500 PRO A 287 2.07 -69.38 REMARK 500 PHE A 293 71.66 -119.69 REMARK 500 ARG A 298 82.84 36.43 REMARK 500 ASP A 299 -6.64 57.11 REMARK 500 ALA A 346 3.22 -65.65 REMARK 500 SER A 353 15.39 -64.43 REMARK 500 ASP A 354 74.78 -171.96 REMARK 500 SER A 467 77.90 -28.57 REMARK 500 PHE A 468 121.16 -179.33 REMARK 500 PRO B 164 71.67 -64.60 REMARK 500 SER B 166 -179.45 -174.08 REMARK 500 ASN B 188 65.89 62.59 REMARK 500 PRO B 287 0.89 -67.82 REMARK 500 MET B 350 -155.16 -67.84 REMARK 500 SER B 351 128.99 162.39 REMARK 500 SER B 353 -82.33 -73.25 REMARK 500 PRO B 355 -7.34 -58.99 REMARK 500 HIS B 474 -172.31 -175.74 REMARK 500 REMARK 500 REMARK: NULL
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 500 REMARK 800 SITE_IDENTIFIER: AC2 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE LTN A 501 REMARK 800 SITE_IDENTIFIER: AC3 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE LTN B 478 REMARK 800 SITE_IDENTIFIER: AC4 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE ATP A 502
REMARK 900 REMARK 900 RELATED ENTRIES REMARK 900 RELATED ID: 1O5T RELATED DB: PDB REMARK 900 APO FORM REMARK 900 RELATED ID: 2AKE RELATED DB: PDB REMARK 900 HUMAN TRYPTOPHANYL-TRNA SYNTHETASE IN COMPLEX WITH TRP AND REMARK 900 TRNA
DBREF 2QUI A 1 471 UNP P23381 SYWC_HUMAN 1 471 DBREF 2QUI B 1 471 UNP P23381 SYWC_HUMAN 1 471
SEQADV 2QUI HIS A 472 UNP P23381 EXPRESSION TAG SEQADV 2QUI HIS A 473 UNP P23381 EXPRESSION TAG SEQADV 2QUI HIS A 474 UNP P23381 EXPRESSION TAG SEQADV 2QUI HIS A 475 UNP P23381 EXPRESSION TAG SEQADV 2QUI HIS A 476 UNP P23381 EXPRESSION TAG SEQADV 2QUI HIS A 477 UNP P23381 EXPRESSION TAG SEQADV 2QUI HIS B 472 UNP P23381 EXPRESSION TAG SEQADV 2QUI HIS B 473 UNP P23381 EXPRESSION TAG SEQADV 2QUI HIS B 474 UNP P23381 EXPRESSION TAG SEQADV 2QUI HIS B 475 UNP P23381 EXPRESSION TAG SEQADV 2QUI HIS B 476 UNP P23381 EXPRESSION TAG SEQADV 2QUI HIS B 477 UNP P23381 EXPRESSION TAG
SEQRES 1 A 477 MET PRO ASN SER GLU PRO ALA SER LEU LEU GLU LEU PHE SEQRES 2 A 477 ASN SER ILE ALA THR GLN GLY GLU LEU VAL ARG SER LEU SEQRES 3 A 477 LYS ALA GLY ASN ALA SER LYS ASP GLU ILE ASP SER ALA SEQRES 4 A 477 VAL LYS MET LEU VAL SER LEU LYS MET SER TYR LYS ALA SEQRES 5 A 477 ALA ALA GLY GLU ASP TYR LYS ALA ASP CYS PRO PRO GLY SEQRES 6 A 477 ASN PRO ALA PRO THR SER ASN HIS GLY PRO ASP ALA THR SEQRES 7 A 477 GLU ALA GLU GLU ASP PHE VAL ASP PRO TRP THR VAL GLN SEQRES 8 A 477 THR SER SER ALA LYS GLY ILE ASP TYR ASP LYS LEU ILE SEQRES 9 A 477 VAL ARG PHE GLY SER SER LYS ILE ASP LYS GLU LEU ILE SEQRES 10 A 477 ASN ARG ILE GLU ARG ALA THR GLY GLN ARG PRO HIS HIS SEQRES 11 A 477 PHE LEU ARG ARG GLY ILE PHE PHE SER HIS ARG ASP MET SEQRES 12 A 477 ASN GLN VAL LEU ASP ALA TYR GLU ASN LYS LYS PRO PHE SEQRES 13 A 477 TYR LEU TYR THR GLY ARG GLY PRO SER SER GLU ALA MET SEQRES 14 A 477 HIS VAL GLY HIS LEU ILE PRO PHE ILE PHE THR LYS TRP SEQRES 15 A 477 LEU GLN ASP VAL PHE ASN VAL PRO LEU VAL ILE GLN MET SEQRES 16 A 477 THR ASP ASP GLU LYS TYR LEU TRP LYS ASP LEU THR LEU SEQRES 17 A 477 ASP GLN ALA TYR SER TYR ALA VAL GLU ASN ALA LYS ASP SEQRES 18 A 477 ILE ILE ALA CYS GLY PHE ASP ILE ASN LYS THR PHE ILE SEQRES 19 A 477 PHE SER ASP LEU ASP TYR MET GLY MET SER SER GLY PHE SEQRES 20 A 477 TYR LYS ASN VAL VAL LYS ILE GLN LYS HIS VAL THR PHE SEQRES 21 A 477 ASN GLN VAL LYS GLY ILE PHE GLY PHE THR ASP SER ASP SEQRES 22 A 477 CYS ILE GLY LYS ILE SER PHE PRO ALA ILE GLN ALA ALA SEQRES 23 A 477 PRO SER PHE SER ASN SER PHE PRO GLN ILE PHE ARG ASP SEQRES 24 A 477 ARG THR ASP ILE GLN CYS LEU ILE PRO CYS ALA ILE ASP SEQRES 25 A 477 GLN ASP PRO TYR PHE ARG MET THR ARG ASP VAL ALA PRO SEQRES 26 A 477 ARG ILE GLY TYR PRO LYS PRO ALA LEU LEU HIS SER THR SEQRES 27 A 477 PHE PHE PRO ALA LEU GLN GLY ALA GLN THR LYS MET SER SEQRES 28 A 477 ALA SER ASP PRO ASN SER SER ILE PHE LEU THR ASP THR SEQRES 29 A 477 ALA LYS GLN ILE LYS THR LYS VAL ASN LYS HIS ALA PHE SEQRES 30 A 477 SER GLY GLY ARG ASP THR ILE GLU GLU HIS ARG GLN PHE SEQRES 31 A 477 GLY GLY ASN CYS ASP VAL ASP VAL SER PHE MET TYR LEU SEQRES 32 A 477 THR PHE PHE LEU GLU ASP ASP ASP LYS LEU GLU GLN ILE SEQRES 33 A 477 ARG LYS ASP TYR THR SER GLY ALA MET LEU THR GLY GLU SEQRES 34 A 477 LEU LYS LYS ALA LEU ILE GLU VAL LEU GLN PRO LEU ILE SEQRES 35 A 477 ALA GLU HIS GLN ALA ARG ARG LYS GLU VAL THR ASP GLU SEQRES 36 A 477 ILE VAL LYS GLU PHE MET THR PRO ARG LYS LEU SER PHE SEQRES 37 A 477 ASP PHE GLN HIS HIS HIS HIS HIS HIS SEQRES 1 B 477 MET PRO ASN SER GLU PRO ALA SER LEU LEU GLU LEU PHE SEQRES 2 B 477 ASN SER ILE ALA THR GLN GLY GLU LEU VAL ARG SER LEU SEQRES 3 B 477 LYS ALA GLY ASN ALA SER LYS ASP GLU ILE ASP SER ALA SEQRES 4 B 477 VAL LYS MET LEU VAL SER LEU LYS MET SER TYR LYS ALA SEQRES 5 B 477 ALA ALA GLY GLU ASP TYR LYS ALA ASP CYS PRO PRO GLY SEQRES 6 B 477 ASN PRO ALA PRO THR SER ASN HIS GLY PRO ASP ALA THR SEQRES 7 B 477 GLU ALA GLU GLU ASP PHE VAL ASP PRO TRP THR VAL GLN SEQRES 8 B 477 THR SER SER ALA LYS GLY ILE ASP TYR ASP LYS LEU ILE SEQRES 9 B 477 VAL ARG PHE GLY SER SER LYS ILE ASP LYS GLU LEU ILE SEQRES 10 B 477 ASN ARG ILE GLU ARG ALA THR GLY GLN ARG PRO HIS HIS SEQRES 11 B 477 PHE LEU ARG ARG GLY ILE PHE PHE SER HIS ARG ASP MET SEQRES 12 B 477 ASN GLN VAL LEU ASP ALA TYR GLU ASN LYS LYS PRO PHE SEQRES 13 B 477 TYR LEU TYR THR GLY ARG GLY PRO SER SER GLU ALA MET SEQRES 14 B 477 HIS VAL GLY HIS LEU ILE PRO PHE ILE PHE THR LYS TRP SEQRES 15 B 477 LEU GLN ASP VAL PHE ASN VAL PRO LEU VAL ILE GLN MET SEQRES 16 B 477 THR ASP ASP GLU LYS TYR LEU TRP LYS ASP LEU THR LEU SEQRES 17 B 477 ASP GLN ALA TYR SER TYR ALA VAL GLU ASN ALA LYS ASP SEQRES 18 B 477 ILE ILE ALA CYS GLY PHE ASP ILE ASN LYS THR PHE ILE SEQRES 19 B 477 PHE SER ASP LEU ASP TYR MET GLY MET SER SER GLY PHE SEQRES 20 B 477 TYR LYS ASN VAL VAL LYS ILE GLN LYS HIS VAL THR PHE SEQRES 21 B 477 ASN GLN VAL LYS GLY ILE PHE GLY PHE THR ASP SER ASP SEQRES 22 B 477 CYS ILE GLY LYS ILE SER PHE PRO ALA ILE GLN ALA ALA SEQRES 23 B 477 PRO SER PHE SER ASN SER PHE PRO GLN ILE PHE ARG ASP SEQRES 24 B 477 ARG THR ASP ILE GLN CYS LEU ILE PRO CYS ALA ILE ASP SEQRES 25 B 477 GLN ASP PRO TYR PHE ARG MET THR ARG ASP VAL ALA PRO SEQRES 26 B 477 ARG ILE GLY TYR PRO LYS PRO ALA LEU LEU HIS SER THR SEQRES 27 B 477 PHE PHE PRO ALA LEU GLN GLY ALA GLN THR LYS MET SER SEQRES 28 B 477 ALA SER ASP PRO ASN SER SER ILE PHE LEU THR ASP THR SEQRES 29 B 477 ALA LYS GLN ILE LYS THR LYS VAL ASN LYS HIS ALA PHE SEQRES 30 B 477 SER GLY GLY ARG ASP THR ILE GLU GLU HIS ARG GLN PHE SEQRES 31 B 477 GLY GLY ASN CYS ASP VAL ASP VAL SER PHE MET TYR LEU SEQRES 32 B 477 THR PHE PHE LEU GLU ASP ASP ASP LYS LEU GLU GLN ILE SEQRES 33 B 477 ARG LYS ASP TYR THR SER GLY ALA MET LEU THR GLY GLU SEQRES 34 B 477 LEU LYS LYS ALA LEU ILE GLU VAL LEU GLN PRO LEU ILE SEQRES 35 B 477 ALA GLU HIS GLN ALA ARG ARG LYS GLU VAL THR ASP GLU SEQRES 36 B 477 ILE VAL LYS GLU PHE MET THR PRO ARG LYS LEU SER PHE SEQRES 37 B 477 ASP PHE GLN HIS HIS HIS HIS HIS HIS
HET MG A 500 1 HET LTN A 501 15 HET ATP A 502 31 HET LTN B 478 15
HETNAM MG MAGNESIUM ION HETNAM LTN L-TRYPTOPHANAMIDE HETNAM ATP ADENOSINE-5'-TRIPHOSPHATE
FORMUL 3 MG MG 2+ FORMUL 4 LTN 2(C11 H13 N3 O) FORMUL 5 ATP C10 H16 N5 O13 P3 FORMUL 7 HOH *226(H2 O)
HELIX 1 1 ASP A 99 GLY A 108 1 10 HELIX 2 2 ASP A 113 GLY A 125 1 13 HELIX 3 3 HIS A 129 ARG A 134 1 6 HELIX 4 4 ASP A 142 ASN A 152 1 11 HELIX 5 5 HIS A 170 ASN A 188 1 19 HELIX 6 6 THR A 196 LYS A 204 1 9 HELIX 7 7 THR A 207 ALA A 224 1 18 HELIX 8 8 ASP A 237 MET A 241 1 5 HELIX 9 9 GLY A 242 SER A 244 5 3 HELIX 10 10 GLY A 246 HIS A 257 1 12 HELIX 11 11 THR A 259 GLY A 268 1 10 HELIX 12 12 CYS A 274 ALA A 286 1 13 HELIX 13 13 PRO A 287 SER A 292 5 6 HELIX 14 14 PHE A 293 ARG A 298 1 6 HELIX 15 15 GLN A 313 ILE A 327 1 15 HELIX 16 16 ASP A 354 SER A 358 5 5 HELIX 17 17 THR A 364 ALA A 376 1 13 HELIX 18 18 THR A 383 GLY A 391 1 9 HELIX 19 19 ASP A 397 LEU A 407 1 11 HELIX 20 20 ASP A 409 SER A 422 1 14 HELIX 21 21 LEU A 426 VAL A 452 1 27 HELIX 22 22 THR A 453 MET A 461 1 9 HELIX 23 23 ASP B 99 GLY B 108 1 10 HELIX 24 24 ASP B 113 GLY B 125 1 13 HELIX 25 25 HIS B 129 ARG B 134 1 6 HELIX 26 26 ASP B 142 ASN B 152 1 11 HELIX 27 27 HIS B 170 ASN B 188 1 19 HELIX 28 28 THR B 196 LYS B 204 1 9 HELIX 29 29 THR B 207 ALA B 224 1 18 HELIX 30 30 ASP B 237 GLY B 242 1 6 HELIX 31 31 GLY B 246 HIS B 257 1 12 HELIX 32 32 THR B 259 GLY B 268 1 10 HELIX 33 33 CYS B 274 ALA B 286 1 13 HELIX 34 34 PRO B 287 SER B 292 5 6 HELIX 35 35 PHE B 293 ARG B 298 1 6 HELIX 36 36 GLN B 313 ALA B 324 1 12 HELIX 37 37 PRO B 325 GLY B 328 5 4 HELIX 38 38 THR B 364 ALA B 376 1 13 HELIX 39 39 THR B 383 GLY B 391 1 9 HELIX 40 40 ASP B 397 LEU B 407 1 11 HELIX 41 41 ASP B 409 SER B 422 1 14 HELIX 42 42 LEU B 426 GLU B 451 1 26 HELIX 43 43 THR B 453 THR B 462 1 10
SHEET 1 A 7 SER A 110 LYS A 111 0 SHEET 2 A 7 PHE A 137 ARG A 141 -1 O HIS A 140 N SER A 110 SHEET 3 A 7 ALA A 333 SER A 337 -1 O HIS A 336 N SER A 139 SHEET 4 A 7 GLN A 304 ALA A 310 1 N CYS A 305 O ALA A 333 SHEET 5 A 7 PHE A 156 ARG A 162 1 N TYR A 157 O LEU A 306 SHEET 6 A 7 LEU A 191 MET A 195 1 O GLN A 194 N ARG A 162 SHEET 7 A 7 THR A 232 SER A 236 1 O PHE A 235 N MET A 195 SHEET 1 B 2 PRO A 341 ALA A 342 0 SHEET 2 B 2 GLY A 345 LYS A 349 -1 O THR A 348 N ALA A 342 SHEET 1 C 7 SER B 110 LYS B 111 0 SHEET 2 C 7 PHE B 137 ARG B 141 -1 O HIS B 140 N SER B 110 SHEET 3 C 7 ALA B 333 SER B 337 -1 O HIS B 336 N SER B 139 SHEET 4 C 7 GLN B 304 ALA B 310 1 N CYS B 305 O ALA B 333 SHEET 5 C 7 PHE B 156 ARG B 162 1 N TYR B 157 O LEU B 306 SHEET 6 C 7 LEU B 191 MET B 195 1 O GLN B 194 N ARG B 162 SHEET 7 C 7 THR B 232 SER B 236 1 O PHE B 233 N ILE B 193
SITE 1 AC1 2 SER A 165 LYS A 200 SITE 1 AC2 12 TYR A 159 THR A 160 GLY A 161 GLY A 163 SITE 2 AC2 12 GLN A 194 THR A 196 GLU A 199 LYS A 200 SITE 3 AC2 12 GLN A 284 CYS A 309 GLN A 313 PHE A 317 SITE 1 AC3 12 TYR B 159 THR B 160 GLY B 161 GLY B 163 SITE 2 AC3 12 GLN B 194 THR B 196 GLU B 199 LYS B 200 SITE 3 AC3 12 GLN B 284 CYS B 309 GLN B 313 PHE B 317 SITE 1 AC4 16 ARG A 162 GLY A 163 SER A 165 ALA A 168 SITE 2 AC4 16 HIS A 170 GLY A 172 HIS A 173 ASP A 312 SITE 3 AC4 16 GLN A 313 PHE A 339 PHE A 340 LYS A 349 SITE 4 AC4 16 MET A 350 SER A 351 ALA A 352 SER A 353
CRYST1 79.700 79.700 383.200 90.00 90.00 90.00 P 43 21 2 16
ORIGX1 1.000000 0.000000 0.000000 0.00000
ORIGX2 0.000000 1.000000 0.000000 0.00000
ORIGX3 0.000000 0.000000 1.000000 0.00000
SCALE1 0.012547 0.000000 0.000000 0.00000
SCALE2 0.000000 0.012547 0.000000 0.00000
SCALE3 0.000000 0.000000 0.002610 0.00000