HEADER LIGASE 19-SEP-09 3JXE TITLE CRYSTAL STRUCTURE OF PYROCOCCUS HORIKOSHII TRYPTOPHANYL-TRNA TITLE 2 SYNTHETASE IN COMPLEX WITH TRPAMP COMPND MOL_ID: 1; COMPND 2 MOLECULE: TRYPTOPHANYL-TRNA SYNTHETASE; COMPND 3 CHAIN: A, B; COMPND 4 SYNONYM: TRYPTOPHAN-TRNA LIGASE, TRPRS; COMPND 5 EC: 6.1.1.2; COMPND 6 ENGINEERED: YES SOURCE MOL_ID: 1; SOURCE 2 ORGANISM_SCIENTIFIC: PYROCOCCUS HORIKOSHII; SOURCE 3 ORGANISM_TAXID: 53953; SOURCE 4 GENE: PH1921, TRPS; SOURCE 5 EXPRESSION_SYSTEM: ESCHERICHIA COLI; SOURCE 6 EXPRESSION_SYSTEM_TAXID: 562; SOURCE 7 EXPRESSION_SYSTEM_STRAIN: BL21(DE3); SOURCE 8 EXPRESSION_SYSTEM_VECTOR_TYPE: PLASMID; SOURCE 9 EXPRESSION_SYSTEM_PLASMID: PET28A KEYWDS TRYPTOPHANYL-TRNA SYNTHETASE, ADENOSINE TRIPHOSPHATE, ROSSMANN FOLD, KEYWDS 2 P. HORIKOSHII, AMINOACYL-TRNA SYNTHETASE, ATP-BINDING, CYTOPLASM, KEYWDS 3 LIGASE, NUCLEOTIDE-BINDING, PROTEIN BIOSYNTHESIS EXPDTA X-RAY DIFFRACTION AUTHOR M.ZHOU,X.DONG,C.ZHONG,N.SHEN,B.YANG,J.DING REVDAT 2 20-MAR-24 3JXE 1 REMARK SEQADV REVDAT 1 10-NOV-09 3JXE 0 JRNL AUTH M.ZHOU,X.DONG,C.ZHONG,N.SHEN,B.YANG,J.DING JRNL TITL CRYSTAL STRUCTURE OF P. HORIKOSHII TRYPTOPHANYL-TRNA JRNL TITL 2 SYNTHETASE AND STRUCTURE-BASED PHYLOGENETIC ANALYSIS SUGGEST JRNL TITL 3 AN ARCHAEAL ORIGIN OF TRYPTOPHANYL-TRNA SYNTHETASE JRNL REF TO BE PUBLISHED JRNL REFN REMARK 2 REMARK 2 RESOLUTION. 3.00 ANGSTROMS. REMARK 3 REMARK 3 REFINEMENT. REMARK 3 PROGRAM : REFMAC 5.2.0019 REMARK 3 AUTHORS : MURSHUDOV,SKUBAK,LEBEDEV,PANNU,STEINER, REMARK 3 : NICHOLLS,WINN,LONG,VAGIN REMARK 3 REMARK 3 REFINEMENT TARGET : MAXIMUM LIKELIHOOD REMARK 3 REMARK 3 DATA USED IN REFINEMENT. REMARK 3 RESOLUTION RANGE HIGH (ANGSTROMS) : 3.00 REMARK 3 RESOLUTION RANGE LOW (ANGSTROMS) : 50.00 REMARK 3 DATA CUTOFF (SIGMA(F)) : 0.000 REMARK 3 COMPLETENESS FOR RANGE (%) : 99.9 REMARK 3 NUMBER OF REFLECTIONS : 33089 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 + TEST SET) : 0.239 REMARK 3 R VALUE (WORKING SET) : 0.238 REMARK 3 FREE R VALUE : 0.258 REMARK 3 FREE R VALUE TEST SET SIZE (%) : 5.000 REMARK 3 FREE R VALUE TEST SET COUNT : 1650 REMARK 3 REMARK 3 FIT IN THE HIGHEST RESOLUTION BIN. REMARK 3 TOTAL NUMBER OF BINS USED : 20 REMARK 3 BIN RESOLUTION RANGE HIGH (A) : 3.00 REMARK 3 BIN RESOLUTION RANGE LOW (A) : 3.08 REMARK 3 REFLECTION IN BIN (WORKING SET) : 2293 REMARK 3 BIN COMPLETENESS (WORKING+TEST) (%) : 99.26 REMARK 3 BIN R VALUE (WORKING SET) : 0.3840 REMARK 3 BIN FREE R VALUE SET COUNT : 115 REMARK 3 BIN FREE R VALUE : 0.3880 REMARK 3 REMARK 3 NUMBER OF NON-HYDROGEN ATOMS USED IN REFINEMENT. REMARK 3 PROTEIN ATOMS : 6035 REMARK 3 NUCLEIC ACID ATOMS : 0 REMARK 3 HETEROGEN ATOMS : 84 REMARK 3 SOLVENT ATOMS : 12 REMARK 3 REMARK 3 B VALUES. REMARK 3 FROM WILSON PLOT (A**2) : 99.30 REMARK 3 MEAN B VALUE (OVERALL, A**2) : 79.73 REMARK 3 OVERALL ANISOTROPIC B VALUE. REMARK 3 B11 (A**2) : NULL REMARK 3 B22 (A**2) : NULL REMARK 3 B33 (A**2) : NULL REMARK 3 B12 (A**2) : NULL REMARK 3 B13 (A**2) : NULL REMARK 3 B23 (A**2) : NULL REMARK 3 REMARK 3 ESTIMATED OVERALL COORDINATE ERROR. REMARK 3 ESU BASED ON R VALUE (A): 0.684 REMARK 3 ESU BASED ON FREE R VALUE (A): 0.347 REMARK 3 ESU BASED ON MAXIMUM LIKELIHOOD (A): 0.276 REMARK 3 ESU FOR B VALUES BASED ON MAXIMUM LIKELIHOOD (A**2): 15.764 REMARK 3 REMARK 3 CORRELATION COEFFICIENTS. REMARK 3 CORRELATION COEFFICIENT FO-FC : 0.927 REMARK 3 CORRELATION COEFFICIENT FO-FC FREE : 0.905 REMARK 3 REMARK 3 RMS DEVIATIONS FROM IDEAL VALUES COUNT RMS WEIGHT REMARK 3 BOND LENGTHS REFINED ATOMS (A): 6292 ; 0.008 ; 0.022 REMARK 3 BOND LENGTHS OTHERS (A): NULL ; NULL ; NULL REMARK 3 BOND ANGLES REFINED ATOMS (DEGREES): 8482 ; 0.985 ; 1.974 REMARK 3 BOND ANGLES OTHERS (DEGREES): NULL ; NULL ; NULL REMARK 3 TORSION ANGLES, PERIOD 1 (DEGREES): 720 ; 4.770 ; 5.000 REMARK 3 TORSION ANGLES, PERIOD 2 (DEGREES): 298 ;36.252 ;23.826 REMARK 3 TORSION ANGLES, PERIOD 3 (DEGREES): 1146 ;16.929 ;15.000 REMARK 3 TORSION ANGLES, PERIOD 4 (DEGREES): 30 ;14.440 ;15.000 REMARK 3 CHIRAL-CENTER RESTRAINTS (A**3): 883 ; 0.071 ; 0.200 REMARK 3 GENERAL PLANES REFINED ATOMS (A): 4716 ; 0.002 ; 0.020 REMARK 3 GENERAL PLANES OTHERS (A): NULL ; NULL ; NULL REMARK 3 NON-BONDED CONTACTS REFINED ATOMS (A): 3078 ; 0.178 ; 0.200 REMARK 3 NON-BONDED CONTACTS OTHERS (A): NULL ; NULL ; NULL REMARK 3 NON-BONDED TORSION REFINED ATOMS (A): 4320 ; 0.303 ; 0.200 REMARK 3 NON-BONDED TORSION OTHERS (A): NULL ; NULL ; NULL REMARK 3 H-BOND (X...Y) REFINED ATOMS (A): 165 ; 0.112 ; 0.200 REMARK 3 H-BOND (X...Y) OTHERS (A): NULL ; NULL ; NULL REMARK 3 POTENTIAL METAL-ION REFINED ATOMS (A): NULL ; NULL ; NULL REMARK 3 POTENTIAL METAL-ION OTHERS (A): NULL ; NULL ; NULL REMARK 3 SYMMETRY VDW REFINED ATOMS (A): 33 ; 0.228 ; 0.200 REMARK 3 SYMMETRY VDW OTHERS (A): NULL ; NULL ; NULL REMARK 3 SYMMETRY H-BOND REFINED ATOMS (A): 5 ; 0.145 ; 0.200 REMARK 3 SYMMETRY H-BOND OTHERS (A): NULL ; NULL ; NULL REMARK 3 SYMMETRY METAL-ION REFINED ATOMS (A): NULL ; NULL ; NULL REMARK 3 SYMMETRY METAL-ION OTHERS (A): NULL ; NULL ; NULL REMARK 3 REMARK 3 ISOTROPIC THERMAL FACTOR RESTRAINTS. COUNT RMS WEIGHT REMARK 3 MAIN-CHAIN BOND REFINED ATOMS (A**2): 3732 ; 0.350 ; 1.500 REMARK 3 MAIN-CHAIN BOND OTHER ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 MAIN-CHAIN ANGLE REFINED ATOMS (A**2): 5872 ; 0.547 ; 2.000 REMARK 3 MAIN-CHAIN ANGLE OTHER ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 SIDE-CHAIN BOND REFINED ATOMS (A**2): 2961 ; 0.550 ; 3.000 REMARK 3 SIDE-CHAIN BOND OTHER ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 SIDE-CHAIN ANGLE REFINED ATOMS (A**2): 2610 ; 0.772 ; 4.500 REMARK 3 SIDE-CHAIN ANGLE OTHER ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 LONG RANGE B REFINED ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 LONG RANGE B OTHER ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 REMARK 3 ANISOTROPIC THERMAL FACTOR RESTRAINTS. COUNT RMS WEIGHT REMARK 3 RIGID-BOND RESTRAINTS (A**2): NULL ; NULL ; NULL REMARK 3 SPHERICITY; FREE ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 SPHERICITY; BONDED ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 REMARK 3 NCS RESTRAINTS STATISTICS REMARK 3 NUMBER OF DIFFERENT NCS GROUPS : NULL REMARK 3 REMARK 3 TLS DETAILS REMARK 3 NUMBER OF TLS GROUPS : NULL REMARK 3 REMARK 3 BULK SOLVENT MODELLING. REMARK 3 METHOD USED : MASK REMARK 3 PARAMETERS FOR MASK CALCULATION REMARK 3 VDW PROBE RADIUS : 1.20 REMARK 3 ION PROBE RADIUS : 0.80 REMARK 3 SHRINKAGE RADIUS : 0.80 REMARK 3 REMARK 3 OTHER REFINEMENT REMARKS: NULL REMARK 4 REMARK 4 3JXE COMPLIES WITH FORMAT V. 3.30, 13-JUL-11 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY PDBJ ON 30-SEP-09. REMARK 100 THE DEPOSITION ID IS D_1000055279. REMARK 200 REMARK 200 EXPERIMENTAL DETAILS REMARK 200 EXPERIMENT TYPE : X-RAY DIFFRACTION REMARK 200 DATE OF DATA COLLECTION : 24-MAY-08 REMARK 200 TEMPERATURE (KELVIN) : 100 REMARK 200 PH : 5.2 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-17A REMARK 200 X-RAY GENERATOR MODEL : NULL REMARK 200 MONOCHROMATIC OR LAUE (M/L) : M REMARK 200 WAVELENGTH OR RANGE (A) : 1.0000 REMARK 200 MONOCHROMATOR : NULL REMARK 200 OPTICS : NULL REMARK 200 REMARK 200 DETECTOR TYPE : CCD REMARK 200 DETECTOR MANUFACTURER : ADSC QUANTUM 270 REMARK 200 INTENSITY-INTEGRATION SOFTWARE : HKL-2000 REMARK 200 DATA SCALING SOFTWARE : HKL-2000 REMARK 200 REMARK 200 NUMBER OF UNIQUE REFLECTIONS : 33131 REMARK 200 RESOLUTION RANGE HIGH (A) : 3.000 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 (%) : 100.0 REMARK 200 DATA REDUNDANCY : 15.50 REMARK 200 R MERGE (I) : 0.08800 REMARK 200 R SYM (I) : NULL REMARK 200 <I/SIGMA(I)> FOR THE DATA SET : 33.1000 REMARK 200 REMARK 200 IN THE HIGHEST RESOLUTION SHELL. REMARK 200 HIGHEST RESOLUTION SHELL, RANGE HIGH (A) : 3.00 REMARK 200 HIGHEST RESOLUTION SHELL, RANGE LOW (A) : 3.11 REMARK 200 COMPLETENESS FOR SHELL (%) : 99.5 REMARK 200 DATA REDUNDANCY IN SHELL : 10.30 REMARK 200 R MERGE FOR SHELL (I) : 0.78800 REMARK 200 R SYM FOR SHELL (I) : NULL REMARK 200 <I/SIGMA(I)> FOR SHELL : 2.600 REMARK 200 REMARK 200 DIFFRACTION PROTOCOL: SINGLE WAVELENGTH REMARK 200 METHOD USED TO DETERMINE THE STRUCTURE: MOLECULAR REPLACEMENT REMARK 200 SOFTWARE USED: PHASER REMARK 200 STARTING MODEL: NULL REMARK 200 REMARK 200 REMARK: NULL REMARK 280 REMARK 280 CRYSTAL REMARK 280 SOLVENT CONTENT, VS (%): 72.34 REMARK 280 MATTHEWS COEFFICIENT, VM (ANGSTROMS**3/DA): 4.45 REMARK 280 REMARK 280 CRYSTALLIZATION CONDITIONS: 0.1M SODIUM CITRATE, 1.6M (NH4)2SO4, REMARK 280 10MM MNCL2, PH 5.2, VAPOR DIFFUSION, HANGING DROP, TEMPERATURE REMARK 280 293K REMARK 290 REMARK 290 CRYSTALLOGRAPHIC SYMMETRY REMARK 290 SYMMETRY OPERATORS FOR SPACE GROUP: P 21 3 REMARK 290 REMARK 290 SYMOP SYMMETRY REMARK 290 NNNMMM OPERATOR REMARK 290 1555 X,Y,Z REMARK 290 2555 -X+1/2,-Y,Z+1/2 REMARK 290 3555 -X,Y+1/2,-Z+1/2 REMARK 290 4555 X+1/2,-Y+1/2,-Z REMARK 290 5555 Z,X,Y REMARK 290 6555 Z+1/2,-X+1/2,-Y REMARK 290 7555 -Z+1/2,-X,Y+1/2 REMARK 290 8555 -Z,X+1/2,-Y+1/2 REMARK 290 9555 Y,Z,X REMARK 290 10555 -Y,Z+1/2,-X+1/2 REMARK 290 11555 Y+1/2,-Z+1/2,-X REMARK 290 12555 -Y+1/2,-Z,X+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 85.09900 REMARK 290 SMTRY2 2 0.000000 -1.000000 0.000000 0.00000 REMARK 290 SMTRY3 2 0.000000 0.000000 1.000000 85.09900 REMARK 290 SMTRY1 3 -1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY2 3 0.000000 1.000000 0.000000 85.09900 REMARK 290 SMTRY3 3 0.000000 0.000000 -1.000000 85.09900 REMARK 290 SMTRY1 4 1.000000 0.000000 0.000000 85.09900 REMARK 290 SMTRY2 4 0.000000 -1.000000 0.000000 85.09900 REMARK 290 SMTRY3 4 0.000000 0.000000 -1.000000 0.00000 REMARK 290 SMTRY1 5 0.000000 0.000000 1.000000 0.00000 REMARK 290 SMTRY2 5 1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY3 5 0.000000 1.000000 0.000000 0.00000 REMARK 290 SMTRY1 6 0.000000 0.000000 1.000000 85.09900 REMARK 290 SMTRY2 6 -1.000000 0.000000 0.000000 85.09900 REMARK 290 SMTRY3 6 0.000000 -1.000000 0.000000 0.00000 REMARK 290 SMTRY1 7 0.000000 0.000000 -1.000000 85.09900 REMARK 290 SMTRY2 7 -1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY3 7 0.000000 1.000000 0.000000 85.09900 REMARK 290 SMTRY1 8 0.000000 0.000000 -1.000000 0.00000 REMARK 290 SMTRY2 8 1.000000 0.000000 0.000000 85.09900 REMARK 290 SMTRY3 8 0.000000 -1.000000 0.000000 85.09900 REMARK 290 SMTRY1 9 0.000000 1.000000 0.000000 0.00000 REMARK 290 SMTRY2 9 0.000000 0.000000 1.000000 0.00000 REMARK 290 SMTRY3 9 1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY1 10 0.000000 -1.000000 0.000000 0.00000 REMARK 290 SMTRY2 10 0.000000 0.000000 1.000000 85.09900 REMARK 290 SMTRY3 10 -1.000000 0.000000 0.000000 85.09900 REMARK 290 SMTRY1 11 0.000000 1.000000 0.000000 85.09900 REMARK 290 SMTRY2 11 0.000000 0.000000 -1.000000 85.09900 REMARK 290 SMTRY3 11 -1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY1 12 0.000000 -1.000000 0.000000 85.09900 REMARK 290 SMTRY2 12 0.000000 0.000000 -1.000000 0.00000 REMARK 290 SMTRY3 12 1.000000 0.000000 0.000000 85.09900 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: 6210 ANGSTROM**2 REMARK 350 SURFACE AREA OF THE COMPLEX: 29870 ANGSTROM**2 REMARK 350 CHANGE IN SOLVENT FREE ENERGY: -67.0 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 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 LEU A 281 REMARK 465 THR A 282 REMARK 465 GLY A 283 REMARK 465 GLY A 284 REMARK 465 ARG A 285 REMARK 465 PRO A 286 REMARK 465 THR A 287 REMARK 465 LEU A 288 REMARK 465 LYS A 289 REMARK 465 GLU A 290 REMARK 465 GLN A 291 REMARK 465 ARG A 292 REMARK 465 GLU A 293 REMARK 465 LYS A 294 REMARK 465 GLY A 295 REMARK 465 GLY A 296 REMARK 465 GLU A 297 REMARK 465 PRO A 298 REMARK 465 GLU A 299 REMARK 465 LYS A 300 REMARK 465 PRO A 382 REMARK 465 LEU A 383 REMARK 465 LYS A 384 REMARK 465 ARG A 385 REMARK 465 SER A 386 REMARK 465 HIS A 387 REMARK 465 HIS A 388 REMARK 465 HIS A 389 REMARK 465 HIS A 390 REMARK 465 HIS A 391 REMARK 465 HIS A 392 REMARK 465 THR B 282 REMARK 465 GLY B 283 REMARK 465 GLY B 284 REMARK 465 ARG B 285 REMARK 465 PRO B 286 REMARK 465 THR B 287 REMARK 465 LEU B 288 REMARK 465 LYS B 289 REMARK 465 GLU B 290 REMARK 465 GLN B 291 REMARK 465 ARG B 292 REMARK 465 GLU B 293 REMARK 465 LYS B 294 REMARK 465 GLY B 295 REMARK 465 GLY B 296 REMARK 465 GLU B 297 REMARK 465 PRO B 298 REMARK 465 GLU B 299 REMARK 465 PRO B 382 REMARK 465 LEU B 383 REMARK 465 LYS B 384 REMARK 465 ARG B 385 REMARK 465 SER B 386 REMARK 465 HIS B 387 REMARK 465 HIS B 388 REMARK 465 HIS B 389 REMARK 465 HIS B 390 REMARK 465 HIS B 391 REMARK 465 HIS B 392 REMARK 500 REMARK 500 GEOMETRY AND STEREOCHEMISTRY REMARK 500 SUBTOPIC: COVALENT BOND LENGTHS REMARK 500 REMARK 500 THE STEREOCHEMICAL PARAMETERS OF THE FOLLOWING RESIDUES REMARK 500 HAVE VALUES WHICH DEVIATE FROM EXPECTED VALUES BY MORE REMARK 500 THAN 6*RMSD (M=MODEL NUMBER; RES=RESIDUE NAME; C=CHAIN REMARK 500 IDENTIFIER; SSEQ=SEQUENCE NUMBER; I=INSERTION CODE). REMARK 500 REMARK 500 STANDARD TABLE: REMARK 500 FORMAT: (10X,I3,1X,2(A3,1X,A1,I4,A1,1X,A4,3X),1X,F6.3) REMARK 500 REMARK 500 EXPECTED VALUES PROTEIN: ENGH AND HUBER, 1999 REMARK 500 EXPECTED VALUES NUCLEIC ACID: CLOWNEY ET AL 1996 REMARK 500 REMARK 500 M RES CSSEQI ATM1 RES CSSEQI ATM2 DEVIATION REMARK 500 GLU B 381 C GLU B 381 O 0.305 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 PRO A 9 3.14 -63.36 REMARK 500 GLU A 157 -60.16 -101.32 REMARK 500 SER A 251 53.38 -101.52 REMARK 500 PHE A 279 -113.01 -114.17 REMARK 500 PHE A 310 -30.64 -141.35 REMARK 500 TYR A 366 -57.26 -135.39 REMARK 500 ASN A 376 25.20 -72.86 REMARK 500 PRO A 380 107.95 -53.99 REMARK 500 PRO B 9 3.78 -62.76 REMARK 500 ASP B 60 29.06 49.28 REMARK 500 THR B 159 5.03 -69.89 REMARK 500 PHE B 310 -37.20 -148.44 REMARK 500 TYR B 366 -57.34 -137.14 REMARK 500 ASN B 376 25.86 -72.15 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 TYM A 400 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC2 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE SO4 A 393 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC3 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE TYM B 900 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC4 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE SO4 B 393 DBREF 3JXE A 1 386 UNP O59584 SYW_PYRHO 1 386 DBREF 3JXE B 1 386 UNP O59584 SYW_PYRHO 1 386 SEQADV 3JXE HIS A 387 UNP O59584 EXPRESSION TAG SEQADV 3JXE HIS A 388 UNP O59584 EXPRESSION TAG SEQADV 3JXE HIS A 389 UNP O59584 EXPRESSION TAG SEQADV 3JXE HIS A 390 UNP O59584 EXPRESSION TAG SEQADV 3JXE HIS A 391 UNP O59584 EXPRESSION TAG SEQADV 3JXE HIS A 392 UNP O59584 EXPRESSION TAG SEQADV 3JXE HIS B 387 UNP O59584 EXPRESSION TAG SEQADV 3JXE HIS B 388 UNP O59584 EXPRESSION TAG SEQADV 3JXE HIS B 389 UNP O59584 EXPRESSION TAG SEQADV 3JXE HIS B 390 UNP O59584 EXPRESSION TAG SEQADV 3JXE HIS B 391 UNP O59584 EXPRESSION TAG SEQADV 3JXE HIS B 392 UNP O59584 EXPRESSION TAG SEQRES 1 A 392 MET VAL GLU GLU PHE LYS VAL THR PRO TRP GLU VAL GLU SEQRES 2 A 392 GLY VAL VAL ASP TYR ASP LYS LEU ILE LYS HIS PHE GLY SEQRES 3 A 392 THR SER PRO LEU THR GLU ASP LEU LEU GLU LYS THR ALA SEQRES 4 A 392 GLU LEU THR LYS SER GLU LEU PRO ILE PHE PHE ARG ARG SEQRES 5 A 392 LYS PHE PHE PHE SER HIS ARG ASP TYR ASP LEU ILE LEU SEQRES 6 A 392 LYS ASP TYR GLU GLU GLY ARG GLY PHE PHE LEU TYR THR SEQRES 7 A 392 GLY ARG GLY PRO SER GLY PRO MET HIS ILE GLY HIS ILE SEQRES 8 A 392 ILE PRO PHE PHE ALA THR LYS TRP LEU GLN GLU LYS PHE SEQRES 9 A 392 GLY VAL ASN LEU TYR ILE GLN ILE THR ASP ASP GLU LYS SEQRES 10 A 392 PHE LEU PHE LYS GLU ASN LEU THR PHE ASP ASP THR LYS SEQRES 11 A 392 ARG TRP ALA TYR ASP ASN ILE LEU ASP ILE ILE ALA VAL SEQRES 12 A 392 GLY PHE ASP PRO ASP LYS THR PHE ILE PHE GLN ASN SER SEQRES 13 A 392 GLU PHE THR LYS ILE TYR GLU MET ALA ILE PRO ILE ALA SEQRES 14 A 392 LYS LYS ILE ASN PHE SER MET ALA LYS ALA VAL PHE GLY SEQRES 15 A 392 PHE THR GLU GLN SER LYS ILE GLY MET ILE PHE PHE PRO SEQRES 16 A 392 ALA ILE GLN ILE ALA PRO THR PHE PHE GLU ARG LYS ARG SEQRES 17 A 392 CYS LEU ILE PRO ALA ALA ILE ASP GLN ASP PRO TYR TRP SEQRES 18 A 392 ARG LEU GLN ARG ASP PHE ALA GLU SER LEU GLY TYR TYR SEQRES 19 A 392 LYS THR ALA ALA LEU HIS SER LYS PHE VAL PRO SER LEU SEQRES 20 A 392 THR SER LEU SER GLY LYS MET SER ALA SER LYS PRO GLU SEQRES 21 A 392 THR ALA ILE TYR LEU THR ASP SER PRO GLU ASP VAL GLU SEQRES 22 A 392 LYS LYS VAL TRP LYS PHE THR LEU THR GLY GLY ARG PRO SEQRES 23 A 392 THR LEU LYS GLU GLN ARG GLU LYS GLY GLY GLU PRO GLU SEQRES 24 A 392 LYS CYS VAL VAL PHE LYS TRP LEU GLU ILE PHE PHE GLU SEQRES 25 A 392 GLU ASP ASP LYS LYS LEU LYS GLU ARG TYR TYR ALA CYS SEQRES 26 A 392 LYS ASN GLY GLU LEU THR CYS GLY GLU CYS LYS ARG TYR SEQRES 27 A 392 LEU ILE SER LYS ILE GLN GLU PHE LEU LYS GLU HIS GLN SEQRES 28 A 392 ARG ARG ARG LYS LYS ALA GLU LYS LEU VAL GLU LYS PHE SEQRES 29 A 392 LYS TYR THR GLY LYS LEU ALA GLN GLU MET TRP ASN GLU SEQRES 30 A 392 ALA ILE PRO GLU PRO LEU LYS ARG SER HIS HIS HIS HIS SEQRES 31 A 392 HIS HIS SEQRES 1 B 392 MET VAL GLU GLU PHE LYS VAL THR PRO TRP GLU VAL GLU SEQRES 2 B 392 GLY VAL VAL ASP TYR ASP LYS LEU ILE LYS HIS PHE GLY SEQRES 3 B 392 THR SER PRO LEU THR GLU ASP LEU LEU GLU LYS THR ALA SEQRES 4 B 392 GLU LEU THR LYS SER GLU LEU PRO ILE PHE PHE ARG ARG SEQRES 5 B 392 LYS PHE PHE PHE SER HIS ARG ASP TYR ASP LEU ILE LEU SEQRES 6 B 392 LYS ASP TYR GLU GLU GLY ARG GLY PHE PHE LEU TYR THR SEQRES 7 B 392 GLY ARG GLY PRO SER GLY PRO MET HIS ILE GLY HIS ILE SEQRES 8 B 392 ILE PRO PHE PHE ALA THR LYS TRP LEU GLN GLU LYS PHE SEQRES 9 B 392 GLY VAL ASN LEU TYR ILE GLN ILE THR ASP ASP GLU LYS SEQRES 10 B 392 PHE LEU PHE LYS GLU ASN LEU THR PHE ASP ASP THR LYS SEQRES 11 B 392 ARG TRP ALA TYR ASP ASN ILE LEU ASP ILE ILE ALA VAL SEQRES 12 B 392 GLY PHE ASP PRO ASP LYS THR PHE ILE PHE GLN ASN SER SEQRES 13 B 392 GLU PHE THR LYS ILE TYR GLU MET ALA ILE PRO ILE ALA SEQRES 14 B 392 LYS LYS ILE ASN PHE SER MET ALA LYS ALA VAL PHE GLY SEQRES 15 B 392 PHE THR GLU GLN SER LYS ILE GLY MET ILE PHE PHE PRO SEQRES 16 B 392 ALA ILE GLN ILE ALA PRO THR PHE PHE GLU ARG LYS ARG SEQRES 17 B 392 CYS LEU ILE PRO ALA ALA ILE ASP GLN ASP PRO TYR TRP SEQRES 18 B 392 ARG LEU GLN ARG ASP PHE ALA GLU SER LEU GLY TYR TYR SEQRES 19 B 392 LYS THR ALA ALA LEU HIS SER LYS PHE VAL PRO SER LEU SEQRES 20 B 392 THR SER LEU SER GLY LYS MET SER ALA SER LYS PRO GLU SEQRES 21 B 392 THR ALA ILE TYR LEU THR ASP SER PRO GLU ASP VAL GLU SEQRES 22 B 392 LYS LYS VAL TRP LYS PHE THR LEU THR GLY GLY ARG PRO SEQRES 23 B 392 THR LEU LYS GLU GLN ARG GLU LYS GLY GLY GLU PRO GLU SEQRES 24 B 392 LYS CYS VAL VAL PHE LYS TRP LEU GLU ILE PHE PHE GLU SEQRES 25 B 392 GLU ASP ASP LYS LYS LEU LYS GLU ARG TYR TYR ALA CYS SEQRES 26 B 392 LYS ASN GLY GLU LEU THR CYS GLY GLU CYS LYS ARG TYR SEQRES 27 B 392 LEU ILE SER LYS ILE GLN GLU PHE LEU LYS GLU HIS GLN SEQRES 28 B 392 ARG ARG ARG LYS LYS ALA GLU LYS LEU VAL GLU LYS PHE SEQRES 29 B 392 LYS TYR THR GLY LYS LEU ALA GLN GLU MET TRP ASN GLU SEQRES 30 B 392 ALA ILE PRO GLU PRO LEU LYS ARG SER HIS HIS HIS HIS SEQRES 31 B 392 HIS HIS HET TYM A 400 37 HET SO4 A 393 5 HET TYM B 900 37 HET SO4 B 393 5 HETNAM TYM TRYPTOPHANYL-5'AMP HETNAM SO4 SULFATE ION FORMUL 3 TYM 2(C21 H24 N7 O8 P) FORMUL 4 SO4 2(O4 S 2-) FORMUL 7 HOH *12(H2 O) HELIX 1 1 ASP A 17 PHE A 25 1 9 HELIX 2 2 THR A 31 THR A 42 1 12 HELIX 3 3 PRO A 47 ARG A 52 1 6 HELIX 4 4 ASP A 60 GLU A 70 1 11 HELIX 5 5 HIS A 87 GLY A 105 1 19 HELIX 6 6 THR A 113 LYS A 121 1 9 HELIX 7 7 THR A 125 ALA A 142 1 18 HELIX 8 8 THR A 159 ILE A 172 1 14 HELIX 9 9 ASN A 173 GLY A 182 1 10 HELIX 10 10 LYS A 188 ALA A 200 1 13 HELIX 11 11 PRO A 201 PHE A 204 5 4 HELIX 12 12 GLN A 217 ALA A 228 1 12 HELIX 13 13 GLU A 229 GLY A 232 5 4 HELIX 14 14 LYS A 258 ALA A 262 5 5 HELIX 15 15 SER A 268 LYS A 278 1 11 HELIX 16 16 CYS A 301 PHE A 310 1 10 HELIX 17 17 ASP A 314 ASN A 327 1 14 HELIX 18 18 THR A 331 GLU A 358 1 28 HELIX 19 19 LEU A 360 TYR A 366 1 7 HELIX 20 20 GLY A 368 ASN A 376 1 9 HELIX 21 21 ASP B 17 GLY B 26 1 10 HELIX 22 22 THR B 31 LYS B 43 1 13 HELIX 23 23 PRO B 47 ARG B 52 1 6 HELIX 24 24 ASP B 60 GLU B 70 1 11 HELIX 25 25 HIS B 87 GLY B 105 1 19 HELIX 26 26 THR B 113 LYS B 121 1 9 HELIX 27 27 THR B 125 ALA B 142 1 18 HELIX 28 28 THR B 159 ILE B 172 1 14 HELIX 29 29 ASN B 173 GLY B 182 1 10 HELIX 30 30 LYS B 188 ALA B 200 1 13 HELIX 31 31 PRO B 201 PHE B 204 5 4 HELIX 32 32 GLN B 217 ALA B 228 1 12 HELIX 33 33 LYS B 258 ALA B 262 5 5 HELIX 34 34 SER B 268 LYS B 278 1 11 HELIX 35 35 LYS B 300 PHE B 310 1 11 HELIX 36 36 ASP B 314 ASN B 327 1 14 HELIX 37 37 THR B 331 TYR B 366 1 36 HELIX 38 38 GLY B 368 ASN B 376 1 9 SHEET 1 A 2 LYS A 6 VAL A 7 0 SHEET 2 A 2 VAL A 12 GLU A 13 -1 O GLU A 13 N LYS A 6 SHEET 1 B 7 SER A 28 PRO A 29 0 SHEET 2 B 7 PHE A 55 ARG A 59 -1 O HIS A 58 N SER A 28 SHEET 3 B 7 ALA A 237 SER A 241 -1 O HIS A 240 N SER A 57 SHEET 4 B 7 CYS A 209 ALA A 214 1 N CYS A 209 O ALA A 237 SHEET 5 B 7 PHE A 75 ARG A 80 1 N PHE A 75 O LEU A 210 SHEET 6 B 7 ASN A 107 ILE A 112 1 O ASN A 107 N LEU A 76 SHEET 7 B 7 THR A 150 GLN A 154 1 O PHE A 151 N ILE A 110 SHEET 1 C 2 LYS B 6 THR B 8 0 SHEET 2 C 2 GLU B 11 GLU B 13 -1 O GLU B 11 N THR B 8 SHEET 1 D 7 SER B 28 PRO B 29 0 SHEET 2 D 7 PHE B 55 ARG B 59 -1 O HIS B 58 N SER B 28 SHEET 3 D 7 ALA B 237 SER B 241 -1 O HIS B 240 N SER B 57 SHEET 4 D 7 CYS B 209 ALA B 214 1 N CYS B 209 O ALA B 237 SHEET 5 D 7 PHE B 75 ARG B 80 1 N PHE B 75 O LEU B 210 SHEET 6 D 7 LEU B 108 ILE B 112 1 O GLN B 111 N ARG B 80 SHEET 7 D 7 THR B 150 GLN B 154 1 O PHE B 151 N ILE B 110 SITE 1 AC1 23 TYR A 77 THR A 78 GLY A 79 ARG A 80 SITE 2 AC1 23 GLY A 81 GLY A 89 HIS A 90 PRO A 93 SITE 3 AC1 23 GLN A 111 THR A 113 GLU A 116 LYS A 117 SITE 4 AC1 23 GLN A 198 ALA A 213 ALA A 214 ASP A 216 SITE 5 AC1 23 GLN A 217 TRP A 221 LYS A 242 PHE A 243 SITE 6 AC1 23 VAL A 244 LYS A 253 MET A 254 SITE 1 AC2 5 HIS A 87 HIS A 90 LYS A 253 SER A 255 SITE 2 AC2 5 ALA A 256 SITE 1 AC3 21 TYR B 77 GLY B 79 ARG B 80 GLY B 81 SITE 2 AC3 21 GLY B 89 HIS B 90 PRO B 93 GLN B 111 SITE 3 AC3 21 THR B 113 GLU B 116 LYS B 117 GLN B 198 SITE 4 AC3 21 ALA B 213 ALA B 214 ASP B 216 GLN B 217 SITE 5 AC3 21 TRP B 221 PHE B 243 VAL B 244 LYS B 253 SITE 6 AC3 21 MET B 254 SITE 1 AC4 6 HIS B 87 HIS B 90 LYS B 253 MET B 254 SITE 2 AC4 6 SER B 255 ALA B 256 CRYST1 170.198 170.198 170.198 90.00 90.00 90.00 P 21 3 24 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 0.005876 0.000000 0.000000 0.00000 SCALE2 0.000000 0.005876 0.000000 0.00000 SCALE3 0.000000 0.000000 0.005876 0.00000