10 20 30 40 50 60 70 80 2QUH - Header ----|----|----|----|----|----|----|----|----|----|----|----|----|----|----|----| Asymmetric Unit
HEADER LIGASE 05-AUG-07 2QUH
TITLE CRYSTAL STRUCTURES OF HUMAN TRYPTOPHANYL-TRNA SYNTHETASE IN TITLE 2 COMPLEX WITH TRP
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 2QUH 1 VERSN REVDAT 1 29-APR-08 2QUH 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)) : 3252313.990 REMARK 3 DATA CUTOFF LOW (ABS(F)) : 0.0000 REMARK 3 COMPLETENESS (WORKING+TEST) (%) : 86.5 REMARK 3 NUMBER OF REFLECTIONS : 43267 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) : 0.207 REMARK 3 FREE R VALUE : 0.233 REMARK 3 FREE R VALUE TEST SET SIZE (%) : 5.000 REMARK 3 FREE R VALUE TEST SET COUNT : 2168 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) (%) : 48.90 REMARK 3 REFLECTIONS IN BIN (WORKING SET) : 3787 REMARK 3 BIN R VALUE (WORKING SET) : 0.3500 REMARK 3 BIN FREE R VALUE : 0.3580 REMARK 3 BIN FREE R VALUE TEST SET SIZE (%) : 4.80 REMARK 3 BIN FREE R VALUE TEST SET COUNT : 190 REMARK 3 ESTIMATED ERROR OF BIN FREE R VALUE : 0.026 REMARK 3 REMARK 3 NUMBER OF NON-HYDROGEN ATOMS USED IN REFINEMENT. REMARK 3 PROTEIN ATOMS : 6086 REMARK 3 NUCLEIC ACID ATOMS : 0 REMARK 3 HETEROGEN ATOMS : 30 REMARK 3 SOLVENT ATOMS : 278 REMARK 3 REMARK 3 B VALUES. REMARK 3 FROM WILSON PLOT (A**2) : 26.80 REMARK 3 MEAN B VALUE (OVERALL, A**2) : 46.10 REMARK 3 OVERALL ANISOTROPIC B VALUE. REMARK 3 B11 (A**2) : 6.55000 REMARK 3 B22 (A**2) : 6.92000 REMARK 3 B33 (A**2) : -13.46000 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) : 0.33 REMARK 3 ESD FROM SIGMAA (A) : 0.52 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) : 0.37 REMARK 3 ESD FROM C-V SIGMAA (A) : 0.45 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) : 21.60 REMARK 3 IMPROPER ANGLES (DEGREES) : 0.83 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 : 0.36 REMARK 3 BSOL : 52.04 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 : LIG.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 : WATER.TOP REMARK 3 TOPOLOGY FILE 3 : LIG.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 2QUH COMPLIES WITH FORMAT V. 3.15, 01-DEC-08
REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY PDBJ ON 08-AUG-07. REMARK 100 THE RCSB ID CODE IS RCSB044070.
REMARK 200 REMARK 200 EXPERIMENTAL DETAILS REMARK 200 EXPERIMENT TYPE : X-RAY DIFFRACTION REMARK 200 DATE OF DATA COLLECTION : 12-MAR-04 REMARK 200 TEMPERATURE (KELVIN) : 77 REMARK 200 PH : 6.8 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 : 43430 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 (%) : 86.7 REMARK 200 DATA REDUNDANCY : 10.100 REMARK 200 R MERGE (I) : 0.16300 REMARK 200 R SYM (I) : NULL REMARK 200 <I/SIGMA(I)> FOR THE DATA SET : 12.1000 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 (%) : 46.2 REMARK 200 DATA REDUNDANCY IN SHELL : 4.00 REMARK 200 R MERGE FOR SHELL (I) : 0.75600 REMARK 200 R SYM FOR SHELL (I) : NULL REMARK 200 <I/SIGMA(I)> FOR SHELL : 1.000 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 (%): 56.41 REMARK 280 MATTHEWS COEFFICIENT, VM (ANGSTROMS**3/DA): 2.82 REMARK 280 REMARK 280 CRYSTALLIZATION CONDITIONS: 1.0M NA CITRATE, 100MM HEPES, REMARK 280 PH6.8, 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 191.15000 REMARK 290 SMTRY1 3 0.000000 -1.000000 0.000000 39.95000 REMARK 290 SMTRY2 3 1.000000 0.000000 0.000000 39.95000 REMARK 290 SMTRY3 3 0.000000 0.000000 1.000000 286.72500 REMARK 290 SMTRY1 4 0.000000 1.000000 0.000000 39.95000 REMARK 290 SMTRY2 4 -1.000000 0.000000 0.000000 39.95000 REMARK 290 SMTRY3 4 0.000000 0.000000 1.000000 95.57500 REMARK 290 SMTRY1 5 -1.000000 0.000000 0.000000 39.95000 REMARK 290 SMTRY2 5 0.000000 1.000000 0.000000 39.95000 REMARK 290 SMTRY3 5 0.000000 0.000000 -1.000000 286.72500 REMARK 290 SMTRY1 6 1.000000 0.000000 0.000000 39.95000 REMARK 290 SMTRY2 6 0.000000 -1.000000 0.000000 39.95000 REMARK 290 SMTRY3 6 0.000000 0.000000 -1.000000 95.57500 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 191.15000 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: 3510 ANGSTROM**2 REMARK 350 SURFACE AREA OF THE COMPLEX: 30120 ANGSTROM**2 REMARK 350 CHANGE IN SOLVENT FREE ENERGY: -24.2 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 GLU A 82 REMARK 465 ASP A 83 REMARK 465 PHE A 84 REMARK 465 VAL A 85 REMARK 465 ASP A 86 REMARK 465 PRO A 87 REMARK 465 TRP A 88 REMARK 465 THR A 89 REMARK 465 VAL A 90 REMARK 465 GLN A 91 REMARK 465 THR A 92 REMARK 465 SER A 93 REMARK 465 SER A 94 REMARK 465 ALA A 95 REMARK 465 LYS A 96 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 HIS B 473 REMARK 465 HIS B 474 REMARK 465 HIS B 475 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 102 CG CD CE NZ REMARK 470 ARG A 106 CG CD NE CZ NH1 NH2 REMARK 470 LYS A 349 CG CD CE NZ REMARK 470 LYS A 366 CG CD CE NZ REMARK 470 LYS A 374 CG CD CE NZ REMARK 470 LYS A 458 CG CD CE NZ REMARK 470 THR B 92 CB OG1 CG2 REMARK 470 LYS B 102 CG CD CE NZ REMARK 470 LYS B 154 CG CD CE NZ REMARK 470 LYS B 264 CG CD CE NZ REMARK 470 ARG B 298 CG CD NE CZ NH1 NH2 REMARK 470 LYS B 366 CG CD CE NZ REMARK 470 LYS B 374 CG CD CE NZ REMARK 470 GLU B 455 CG CD OE1 OE2 REMARK 470 LYS B 465 CG CD CE NZ REMARK 470 GLN B 471 CG CD OE1 NE2
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 ASP A 113 -168.49 -101.86 REMARK 500 PRO A 164 62.94 -65.53 REMARK 500 ASN A 188 68.14 65.47 REMARK 500 MET A 243 12.53 -140.79 REMARK 500 PRO A 287 7.28 -66.75 REMARK 500 ALA A 346 0.54 -68.33 REMARK 500 SER A 353 50.01 -97.08 REMARK 500 ASP A 354 85.57 -178.10 REMARK 500 SER A 467 49.60 -69.99 REMARK 500 ARG B 106 4.06 -68.79 REMARK 500 MET B 243 45.43 -148.78 REMARK 500 PRO B 287 1.55 -69.67 REMARK 500 ARG B 298 92.00 27.90 REMARK 500 ASP B 299 -23.93 60.78 REMARK 500 LEU B 361 0.29 -67.95 REMARK 500 SER B 467 48.47 17.94 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 TRP B 817 REMARK 800 SITE_IDENTIFIER: AC2 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE TRP B 818
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 2QUH A 1 471 UNP P23381 SYWC_HUMAN 1 471 DBREF 2QUH B 1 471 UNP P23381 SYWC_HUMAN 1 471
SEQADV 2QUH HIS A 472 UNP P23381 EXPRESSION TAG SEQADV 2QUH HIS A 473 UNP P23381 EXPRESSION TAG SEQADV 2QUH HIS A 474 UNP P23381 EXPRESSION TAG SEQADV 2QUH HIS A 475 UNP P23381 EXPRESSION TAG SEQADV 2QUH HIS A 476 UNP P23381 EXPRESSION TAG SEQADV 2QUH HIS A 477 UNP P23381 EXPRESSION TAG SEQADV 2QUH HIS B 472 UNP P23381 EXPRESSION TAG SEQADV 2QUH HIS B 473 UNP P23381 EXPRESSION TAG SEQADV 2QUH HIS B 474 UNP P23381 EXPRESSION TAG SEQADV 2QUH HIS B 475 UNP P23381 EXPRESSION TAG SEQADV 2QUH HIS B 476 UNP P23381 EXPRESSION TAG SEQADV 2QUH 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 TRP B 817 15 HET TRP B 818 15
HETNAM TRP TRYPTOPHAN
FORMUL 3 TRP 2(C11 H12 N2 O2) FORMUL 4 HOH *278(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 246 HIS A 257 1 12 HELIX 10 10 THR A 259 GLY A 268 1 10 HELIX 11 11 CYS A 274 ALA A 286 1 13 HELIX 12 12 PRO A 287 SER A 292 5 6 HELIX 13 13 PHE A 293 ARG A 298 1 6 HELIX 14 14 GLN A 313 ILE A 327 1 15 HELIX 15 15 THR A 364 ALA A 376 1 13 HELIX 16 16 THR A 383 GLY A 391 1 9 HELIX 17 17 ASP A 397 LEU A 407 1 11 HELIX 18 18 ASP A 409 SER A 422 1 14 HELIX 19 19 LEU A 426 LYS A 450 1 25 HELIX 20 20 THR A 453 THR A 462 1 10 HELIX 21 21 ASP B 99 GLY B 108 1 10 HELIX 22 22 ASP B 113 GLY B 125 1 13 HELIX 23 23 HIS B 129 ARG B 134 1 6 HELIX 24 24 ASP B 142 ASN B 152 1 11 HELIX 25 25 HIS B 170 ASN B 188 1 19 HELIX 26 26 THR B 196 LYS B 204 1 9 HELIX 27 27 THR B 207 ALA B 224 1 18 HELIX 28 28 ASP B 237 MET B 241 1 5 HELIX 29 29 GLY B 242 SER B 244 5 3 HELIX 30 30 GLY B 246 HIS B 257 1 12 HELIX 31 31 THR B 259 PHE B 267 1 9 HELIX 32 32 CYS B 274 ALA B 286 1 13 HELIX 33 33 PRO B 287 SER B 292 5 6 HELIX 34 34 PHE B 293 ARG B 298 1 6 HELIX 35 35 GLN B 313 ILE B 327 1 15 HELIX 36 36 THR B 364 ALA B 376 1 13 HELIX 37 37 THR B 383 GLY B 391 1 9 HELIX 38 38 ASP B 397 LEU B 407 1 11 HELIX 39 39 ASP B 409 SER B 422 1 14 HELIX 40 40 LEU B 426 VAL B 452 1 27 HELIX 41 41 THR B 453 MET B 461 1 9
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 7 SER B 110 LYS B 111 0 SHEET 2 B 7 SER B 139 ARG B 141 -1 O HIS B 140 N SER B 110 SHEET 3 B 7 ALA B 333 SER B 337 -1 O HIS B 336 N SER B 139 SHEET 4 B 7 GLN B 304 ALA B 310 1 N ILE B 307 O ALA B 333 SHEET 5 B 7 PHE B 156 ARG B 162 1 N TYR B 157 O LEU B 306 SHEET 6 B 7 LEU B 191 MET B 195 1 O VAL B 192 N LEU B 158 SHEET 7 B 7 THR B 232 SER B 236 1 O PHE B 233 N ILE B 193 SHEET 1 C 2 PRO B 341 ALA B 342 0 SHEET 2 C 2 GLY B 345 LYS B 349 -1 O THR B 348 N ALA B 342
SITE 1 AC1 12 TYR A 159 THR A 160 GLY A 161 GLY A 163 SITE 2 AC1 12 GLN A 194 THR A 196 GLU A 199 LYS A 200 SITE 3 AC1 12 GLN A 284 CYS A 309 GLN A 313 PHE A 317 SITE 1 AC2 13 TYR B 159 THR B 160 GLY B 161 ARG B 162 SITE 2 AC2 13 GLY B 163 GLN B 194 THR B 196 GLU B 199 SITE 3 AC2 13 LYS B 200 GLN B 284 CYS B 309 GLN B 313 SITE 4 AC2 13 PHE B 317
CRYST1 79.900 79.900 382.300 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 0.012513 0.000000 0.000000 0.00000
SCALE2 0.000000 0.012513 0.000000 0.00000
SCALE3 0.000000 0.000000 0.002616 0.00000