HEADER LIGASE 18-JUL-11 3SZ3 TITLE CRYSTAL STRUCTURE OF TRYPTOPHANYL-TRNA SYNTHETASE FROM VIBRIO CHOLERAE TITLE 2 WITH AN ENDOGENOUS TRYPTOPHAN COMPND MOL_ID: 1; COMPND 2 MOLECULE: TRYPTOPHANYL-TRNA SYNTHETASE; COMPND 3 CHAIN: A; 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: VIBRIO CHOLERAE O1 BIOVAR EL TOR; SOURCE 3 ORGANISM_TAXID: 243277; SOURCE 4 STRAIN: N16961; SOURCE 5 GENE: TRPS, VC_2623; SOURCE 6 EXPRESSION_SYSTEM: ESCHERICHIA COLI; SOURCE 7 EXPRESSION_SYSTEM_TAXID: 562; SOURCE 8 EXPRESSION_SYSTEM_STRAIN: BL21-CODONPLUS(DE3)-RIPL; SOURCE 9 EXPRESSION_SYSTEM_VECTOR_TYPE: PLASMID; SOURCE 10 EXPRESSION_SYSTEM_PLASMID: PMCSG7 KEYWDS STRUCTURAL GENOMICS, CENTER FOR STRUCTURAL GENOMICS OF INFECTIOUS KEYWDS 2 DISEASES, CSGID, ROSSMANN FOLD, LIGASE EXPDTA X-RAY DIFFRACTION AUTHOR D.R.COOPER,M.KUDRITSKA,M.CHRUSZCZ,A.SAVCHENKO,W.F.ANDERSON,W.MINOR, AUTHOR 2 CENTER FOR STRUCTURAL GENOMICS OF INFECTIOUS DISEASES (CSGID) REVDAT 4 13-SEP-23 3SZ3 1 REMARK REVDAT 3 13-APR-22 3SZ3 1 AUTHOR JRNL REMARK SEQADV REVDAT 2 08-NOV-17 3SZ3 1 REMARK REVDAT 1 14-SEP-11 3SZ3 0 JRNL AUTH D.R.COOPER,M.KUDRITSKA,M.CHRUSZCZ,M.GRABOWSKI,W.F.ANDERSON, JRNL AUTH 2 W.MINOR JRNL TITL CRYSTAL STRUCTURE OF TRYPTOPHANYL-TRNA SYNTHETASE FROM JRNL TITL 2 VIBRIO CHOLERAE WITH AN ENDOGENOUS TRYPTOPHAN JRNL REF TO BE PUBLISHED JRNL REFN REMARK 2 REMARK 2 RESOLUTION. 1.50 ANGSTROMS. REMARK 3 REMARK 3 REFINEMENT. REMARK 3 PROGRAM : REFMAC 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) : 1.50 REMARK 3 RESOLUTION RANGE LOW (ANGSTROMS) : 26.09 REMARK 3 DATA CUTOFF (SIGMA(F)) : 0.000 REMARK 3 COMPLETENESS FOR RANGE (%) : 99.2 REMARK 3 NUMBER OF REFLECTIONS : 53996 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) : 0.161 REMARK 3 R VALUE (WORKING SET) : 0.160 REMARK 3 FREE R VALUE : 0.179 REMARK 3 FREE R VALUE TEST SET SIZE (%) : 5.100 REMARK 3 FREE R VALUE TEST SET COUNT : 2745 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) : 1.50 REMARK 3 BIN RESOLUTION RANGE LOW (A) : 1.54 REMARK 3 REFLECTION IN BIN (WORKING SET) : 3499 REMARK 3 BIN COMPLETENESS (WORKING+TEST) (%) : 92.81 REMARK 3 BIN R VALUE (WORKING SET) : 0.1850 REMARK 3 BIN FREE R VALUE SET COUNT : 192 REMARK 3 BIN FREE R VALUE : 0.2010 REMARK 3 REMARK 3 NUMBER OF NON-HYDROGEN ATOMS USED IN REFINEMENT. REMARK 3 PROTEIN ATOMS : 2621 REMARK 3 NUCLEIC ACID ATOMS : 0 REMARK 3 HETEROGEN ATOMS : 17 REMARK 3 SOLVENT ATOMS : 431 REMARK 3 REMARK 3 B VALUES. REMARK 3 FROM WILSON PLOT (A**2) : NULL REMARK 3 MEAN B VALUE (OVERALL, A**2) : 22.81 REMARK 3 OVERALL ANISOTROPIC B VALUE. REMARK 3 B11 (A**2) : -0.82000 REMARK 3 B22 (A**2) : -0.26000 REMARK 3 B33 (A**2) : 1.08000 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 OVERALL COORDINATE ERROR. REMARK 3 ESU BASED ON R VALUE (A): NULL REMARK 3 ESU BASED ON FREE R VALUE (A): 0.069 REMARK 3 ESU BASED ON MAXIMUM LIKELIHOOD (A): 0.044 REMARK 3 ESU FOR B VALUES BASED ON MAXIMUM LIKELIHOOD (A**2): 2.430 REMARK 3 REMARK 3 CORRELATION COEFFICIENTS. REMARK 3 CORRELATION COEFFICIENT FO-FC : 0.970 REMARK 3 CORRELATION COEFFICIENT FO-FC FREE : 0.966 REMARK 3 REMARK 3 RMS DEVIATIONS FROM IDEAL VALUES COUNT RMS WEIGHT REMARK 3 BOND LENGTHS REFINED ATOMS (A): 2870 ; 0.012 ; 0.022 REMARK 3 BOND LENGTHS OTHERS (A): 1919 ; 0.001 ; 0.020 REMARK 3 BOND ANGLES REFINED ATOMS (DEGREES): 3922 ; 1.458 ; 1.966 REMARK 3 BOND ANGLES OTHERS (DEGREES): 4706 ; 0.909 ; 3.000 REMARK 3 TORSION ANGLES, PERIOD 1 (DEGREES): 376 ; 5.426 ; 5.000 REMARK 3 TORSION ANGLES, PERIOD 2 (DEGREES): 129 ;36.970 ;24.729 REMARK 3 TORSION ANGLES, PERIOD 3 (DEGREES): 482 ;12.268 ;15.000 REMARK 3 TORSION ANGLES, PERIOD 4 (DEGREES): 17 ;18.368 ;15.000 REMARK 3 CHIRAL-CENTER RESTRAINTS (A**3): 431 ; 0.085 ; 0.200 REMARK 3 GENERAL PLANES REFINED ATOMS (A): 3305 ; 0.007 ; 0.021 REMARK 3 GENERAL PLANES OTHERS (A): 557 ; 0.001 ; 0.020 REMARK 3 NON-BONDED CONTACTS REFINED ATOMS (A): NULL ; NULL ; NULL REMARK 3 NON-BONDED CONTACTS OTHERS (A): NULL ; NULL ; NULL REMARK 3 NON-BONDED TORSION REFINED ATOMS (A): NULL ; NULL ; NULL REMARK 3 NON-BONDED TORSION OTHERS (A): NULL ; NULL ; NULL REMARK 3 H-BOND (X...Y) REFINED ATOMS (A): NULL ; NULL ; NULL 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): NULL ; NULL ; NULL REMARK 3 SYMMETRY VDW OTHERS (A): NULL ; NULL ; NULL REMARK 3 SYMMETRY H-BOND REFINED ATOMS (A): NULL ; NULL ; NULL 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): 1815 ; 0.806 ; 1.500 REMARK 3 MAIN-CHAIN BOND OTHER ATOMS (A**2): 720 ; 0.216 ; 1.500 REMARK 3 MAIN-CHAIN ANGLE REFINED ATOMS (A**2): 2943 ; 1.407 ; 2.000 REMARK 3 MAIN-CHAIN ANGLE OTHER ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 SIDE-CHAIN BOND REFINED ATOMS (A**2): 1055 ; 2.105 ; 3.000 REMARK 3 SIDE-CHAIN BOND OTHER ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 SIDE-CHAIN ANGLE REFINED ATOMS (A**2): 977 ; 3.372 ; 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 : 6 REMARK 3 REMARK 3 TLS GROUP : 1 REMARK 3 NUMBER OF COMPONENTS GROUP : 1 REMARK 3 COMPONENTS C SSSEQI TO C SSSEQI REMARK 3 RESIDUE RANGE : A -1 A 83 REMARK 3 ORIGIN FOR THE GROUP (A): 4.3530 20.6110 19.1190 REMARK 3 T TENSOR REMARK 3 T11: 0.0257 T22: 0.0331 REMARK 3 T33: 0.0315 T12: -0.0048 REMARK 3 T13: -0.0082 T23: 0.0099 REMARK 3 L TENSOR REMARK 3 L11: 0.2632 L22: 0.7801 REMARK 3 L33: 0.2902 L12: 0.3139 REMARK 3 L13: -0.1251 L23: -0.1460 REMARK 3 S TENSOR REMARK 3 S11: 0.0088 S12: -0.0014 S13: 0.0523 REMARK 3 S21: 0.0145 S22: 0.0082 S23: -0.0133 REMARK 3 S31: -0.0406 S32: -0.0280 S33: -0.0170 REMARK 3 REMARK 3 TLS GROUP : 2 REMARK 3 NUMBER OF COMPONENTS GROUP : 1 REMARK 3 COMPONENTS C SSSEQI TO C SSSEQI REMARK 3 RESIDUE RANGE : A 84 A 85 REMARK 3 ORIGIN FOR THE GROUP (A): 4.2930 7.9430 23.7520 REMARK 3 T TENSOR REMARK 3 T11: 0.0480 T22: 0.0456 REMARK 3 T33: 0.0410 T12: -0.0063 REMARK 3 T13: -0.0103 T23: 0.0182 REMARK 3 L TENSOR REMARK 3 L11: 4.6179 L22: 3.9733 REMARK 3 L33: 6.2761 L12: 2.0340 REMARK 3 L13: -2.7716 L23: 2.5452 REMARK 3 S TENSOR REMARK 3 S11: 0.0761 S12: -0.2709 S13: -0.1408 REMARK 3 S21: 0.0022 S22: -0.1852 S23: -0.0466 REMARK 3 S31: -0.0807 S32: 0.0755 S33: 0.1091 REMARK 3 REMARK 3 TLS GROUP : 3 REMARK 3 NUMBER OF COMPONENTS GROUP : 1 REMARK 3 COMPONENTS C SSSEQI TO C SSSEQI REMARK 3 RESIDUE RANGE : A 86 A 181 REMARK 3 ORIGIN FOR THE GROUP (A): -6.2870 9.3650 7.4340 REMARK 3 T TENSOR REMARK 3 T11: 0.0783 T22: 0.0655 REMARK 3 T33: 0.0214 T12: -0.0051 REMARK 3 T13: -0.0220 T23: 0.0268 REMARK 3 L TENSOR REMARK 3 L11: 0.5720 L22: 0.9860 REMARK 3 L33: 0.5273 L12: 0.0913 REMARK 3 L13: -0.1150 L23: 0.2605 REMARK 3 S TENSOR REMARK 3 S11: -0.0118 S12: 0.1638 S13: 0.0936 REMARK 3 S21: -0.2079 S22: 0.0234 S23: 0.0558 REMARK 3 S31: -0.0068 S32: -0.0043 S33: -0.0115 REMARK 3 REMARK 3 TLS GROUP : 4 REMARK 3 NUMBER OF COMPONENTS GROUP : 1 REMARK 3 COMPONENTS C SSSEQI TO C SSSEQI REMARK 3 RESIDUE RANGE : A 189 A 288 REMARK 3 ORIGIN FOR THE GROUP (A): 13.4510 42.9920 5.5820 REMARK 3 T TENSOR REMARK 3 T11: 0.1151 T22: 0.1051 REMARK 3 T33: 0.0504 T12: 0.0843 REMARK 3 T13: 0.0578 T23: 0.0550 REMARK 3 L TENSOR REMARK 3 L11: 2.0073 L22: 5.2547 REMARK 3 L33: 1.3094 L12: -1.9177 REMARK 3 L13: 0.2109 L23: -1.4201 REMARK 3 S TENSOR REMARK 3 S11: 0.3832 S12: 0.4054 S13: 0.2754 REMARK 3 S21: -0.5988 S22: -0.5038 S23: -0.2971 REMARK 3 S31: 0.0578 S32: 0.0406 S33: 0.1206 REMARK 3 REMARK 3 TLS GROUP : 5 REMARK 3 NUMBER OF COMPONENTS GROUP : 1 REMARK 3 COMPONENTS C SSSEQI TO C SSSEQI REMARK 3 RESIDUE RANGE : A 289 A 303 REMARK 3 ORIGIN FOR THE GROUP (A): 16.2530 26.7470 25.5390 REMARK 3 T TENSOR REMARK 3 T11: 0.0498 T22: 0.0666 REMARK 3 T33: 0.0657 T12: -0.0372 REMARK 3 T13: -0.0296 T23: 0.0289 REMARK 3 L TENSOR REMARK 3 L11: 0.8408 L22: 4.9999 REMARK 3 L33: 2.8366 L12: -0.4720 REMARK 3 L13: 0.2839 L23: -3.3688 REMARK 3 S TENSOR REMARK 3 S11: 0.0686 S12: -0.1415 S13: 0.0416 REMARK 3 S21: 0.2480 S22: -0.1776 S23: -0.1810 REMARK 3 S31: -0.2382 S32: 0.0829 S33: 0.1091 REMARK 3 REMARK 3 TLS GROUP : 6 REMARK 3 NUMBER OF COMPONENTS GROUP : 1 REMARK 3 COMPONENTS C SSSEQI TO C SSSEQI REMARK 3 RESIDUE RANGE : A 304 A 333 REMARK 3 ORIGIN FOR THE GROUP (A): -2.3680 8.8430 26.9030 REMARK 3 T TENSOR REMARK 3 T11: 0.0313 T22: 0.0461 REMARK 3 T33: 0.0153 T12: -0.0184 REMARK 3 T13: -0.0020 T23: 0.0075 REMARK 3 L TENSOR REMARK 3 L11: 3.0680 L22: 2.1790 REMARK 3 L33: 0.9013 L12: 2.1243 REMARK 3 L13: 1.4923 L23: 1.0433 REMARK 3 S TENSOR REMARK 3 S11: 0.0481 S12: -0.1729 S13: 0.0473 REMARK 3 S21: 0.0878 S22: -0.1170 S23: 0.0716 REMARK 3 S31: 0.0056 S32: -0.0336 S33: 0.0689 REMARK 3 REMARK 3 BULK SOLVENT MODELLING. REMARK 3 METHOD USED : BABINET MODEL WITH 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: HYDROGENS HAVE BEEN ADDED IN THE RIDING REMARK 3 POSITIONS. U VALUES: RESIDUAL ONLY REMARK 4 REMARK 4 3SZ3 COMPLIES WITH FORMAT V. 3.30, 13-JUL-11 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY RCSB ON 22-JUL-11. REMARK 100 THE DEPOSITION ID IS D_1000066831. REMARK 200 REMARK 200 EXPERIMENTAL DETAILS REMARK 200 EXPERIMENT TYPE : X-RAY DIFFRACTION REMARK 200 DATE OF DATA COLLECTION : 11-NOV-10 REMARK 200 TEMPERATURE (KELVIN) : 100 REMARK 200 PH : 7 REMARK 200 NUMBER OF CRYSTALS USED : 1 REMARK 200 REMARK 200 SYNCHROTRON (Y/N) : Y REMARK 200 RADIATION SOURCE : APS REMARK 200 BEAMLINE : 19-BM REMARK 200 X-RAY GENERATOR MODEL : NULL REMARK 200 MONOCHROMATIC OR LAUE (M/L) : NULL REMARK 200 WAVELENGTH OR RANGE (A) : 0.97903 REMARK 200 MONOCHROMATOR : SI 111 CHANNEL REMARK 200 OPTICS : MIRRORS REMARK 200 REMARK 200 DETECTOR TYPE : CCD REMARK 200 DETECTOR MANUFACTURER : ADSC QUANTUM 210R REMARK 200 INTENSITY-INTEGRATION SOFTWARE : DENZO, HKL-3000 REMARK 200 DATA SCALING SOFTWARE : SCALEPACK, HKL-3000 REMARK 200 REMARK 200 NUMBER OF UNIQUE REFLECTIONS : 54037 REMARK 200 RESOLUTION RANGE HIGH (A) : 1.500 REMARK 200 RESOLUTION RANGE LOW (A) : 40.000 REMARK 200 REJECTION CRITERIA (SIGMA(I)) : NULL REMARK 200 REMARK 200 OVERALL. REMARK 200 COMPLETENESS FOR RANGE (%) : 99.6 REMARK 200 DATA REDUNDANCY : 6.700 REMARK 200 R MERGE (I) : 0.04100 REMARK 200 R SYM (I) : NULL REMARK 200 FOR THE DATA SET : 19.2000 REMARK 200 REMARK 200 IN THE HIGHEST RESOLUTION SHELL. REMARK 200 HIGHEST RESOLUTION SHELL, RANGE HIGH (A) : 1.50 REMARK 200 HIGHEST RESOLUTION SHELL, RANGE LOW (A) : 1.53 REMARK 200 COMPLETENESS FOR SHELL (%) : 98.5 REMARK 200 DATA REDUNDANCY IN SHELL : 5.90 REMARK 200 R MERGE FOR SHELL (I) : 0.40300 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: MOLECULAR REPLACEMENT REMARK 200 SOFTWARE USED: MOLREP REMARK 200 STARTING MODEL: 3N9I REMARK 200 REMARK 200 REMARK: NULL REMARK 280 REMARK 280 CRYSTAL REMARK 280 SOLVENT CONTENT, VS (%): 44.77 REMARK 280 MATTHEWS COEFFICIENT, VM (ANGSTROMS**3/DA): 2.23 REMARK 280 REMARK 280 CRYSTALLIZATION CONDITIONS: 60% TASCIMATE, PH 7, VAPOR DIFFUSION REMARK 290 REMARK 290 CRYSTALLOGRAPHIC SYMMETRY REMARK 290 SYMMETRY OPERATORS FOR SPACE GROUP: P 21 21 2 REMARK 290 REMARK 290 SYMOP SYMMETRY REMARK 290 NNNMMM OPERATOR REMARK 290 1555 X,Y,Z REMARK 290 2555 -X,-Y,Z REMARK 290 3555 -X+1/2,Y+1/2,-Z REMARK 290 4555 X+1/2,-Y+1/2,-Z 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 0.00000 REMARK 290 SMTRY1 3 -1.000000 0.000000 0.000000 38.01000 REMARK 290 SMTRY2 3 0.000000 1.000000 0.000000 47.02350 REMARK 290 SMTRY3 3 0.000000 0.000000 -1.000000 0.00000 REMARK 290 SMTRY1 4 1.000000 0.000000 0.000000 38.01000 REMARK 290 SMTRY2 4 0.000000 -1.000000 0.000000 47.02350 REMARK 290 SMTRY3 4 0.000000 0.000000 -1.000000 0.00000 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: 4960 ANGSTROM**2 REMARK 350 SURFACE AREA OF THE COMPLEX: 29410 ANGSTROM**2 REMARK 350 CHANGE IN SOLVENT FREE ENERGY: -37.0 KCAL/MOL REMARK 350 APPLY THE FOLLOWING TO CHAINS: A 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 -1.000000 0.000000 0.000000 0.00000 REMARK 350 BIOMT2 2 0.000000 -1.000000 0.000000 0.00000 REMARK 350 BIOMT3 2 0.000000 0.000000 1.000000 0.00000 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 ASN A -1 CG OD1 ND2 REMARK 470 LYS A 113 CG CD CE NZ REMARK 470 ARG A 116 CG CD NE CZ NH1 NH2 REMARK 470 ASN A 119 CG OD1 ND2 REMARK 470 LYS A 197 CG CD CE NZ REMARK 470 LYS A 198 CD CE NZ REMARK 470 LYS A 207 CE NZ REMARK 470 LYS A 221 CE NZ 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 NE2 GLN A 11 O HOH A 405 2.17 REMARK 500 O GLN A 11 N SER A 13 2.18 REMARK 500 REMARK 500 REMARK: NULL REMARK 500 REMARK 500 GEOMETRY AND STEREOCHEMISTRY REMARK 500 SUBTOPIC: CLOSE CONTACTS REMARK 500 REMARK 500 THE FOLLOWING ATOMS THAT ARE RELATED BY CRYSTALLOGRAPHIC REMARK 500 SYMMETRY ARE IN CLOSE CONTACT. AN ATOM LOCATED WITHIN 0.15 REMARK 500 ANGSTROMS OF A SYMMETRY RELATED ATOM IS ASSUMED TO BE ON A REMARK 500 SPECIAL POSITION AND IS, THEREFORE, LISTED IN REMARK 375 REMARK 500 INSTEAD OF REMARK 500. ATOMS WITH NON-BLANK ALTERNATE REMARK 500 LOCATION INDICATORS ARE NOT INCLUDED IN THE CALCULATIONS. REMARK 500 REMARK 500 DISTANCE CUTOFF: REMARK 500 2.2 ANGSTROMS FOR CONTACTS NOT INVOLVING HYDROGEN ATOMS REMARK 500 1.6 ANGSTROMS FOR CONTACTS INVOLVING HYDROGEN ATOMS REMARK 500 REMARK 500 ATM1 RES C SSEQI ATM2 RES C SSEQI SSYMOP DISTANCE REMARK 500 OG SER A -2 O HOH A 417 4456 2.01 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 SER A 13 N - CA - C ANGL. DEV. = -20.1 DEGREES REMARK 500 ARG A 311 NE - CZ - NH1 ANGL. DEV. = 3.5 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 PRO A 12 70.07 -61.58 REMARK 500 SER A 13 -94.49 -129.32 REMARK 500 GLU A 15 -66.37 -170.94 REMARK 500 LEU A 16 137.81 67.52 REMARK 500 ALA A 24 -66.92 -141.29 REMARK 500 ALA A 118 -137.75 52.58 REMARK 500 SER A 169 63.08 -152.47 REMARK 500 SER A 169 68.76 -152.77 REMARK 500 ASP A 194 84.25 -153.35 REMARK 500 THR A 228 -111.89 -106.39 REMARK 500 ASP A 239 101.35 -168.98 REMARK 500 GLU A 272 51.78 -104.97 REMARK 500 REMARK 500 REMARK: NULL REMARK 500 REMARK 500 GEOMETRY AND STEREOCHEMISTRY REMARK 500 SUBTOPIC: NON-CIS, NON-TRANS REMARK 500 REMARK 500 THE FOLLOWING PEPTIDE BONDS DEVIATE SIGNIFICANTLY FROM BOTH REMARK 500 CIS AND TRANS CONFORMATION. CIS BONDS, IF ANY, ARE LISTED REMARK 500 ON CISPEP RECORDS. TRANS IS DEFINED AS 180 +/- 30 AND REMARK 500 CIS IS DEFINED AS 0 +/- 30 DEGREES. REMARK 500 MODEL OMEGA REMARK 500 GLU A 15 LEU A 16 141.10 REMARK 500 REMARK 500 REMARK: NULL REMARK 610 REMARK 610 MISSING HETEROATOM REMARK 610 THE FOLLOWING RESIDUES HAVE MISSING ATOMS (M=MODEL NUMBER; REMARK 610 RES=RESIDUE NAME; C=CHAIN IDENTIFIER; SSEQ=SEQUENCE NUMBER; REMARK 610 I=INSERTION CODE): REMARK 610 M RES C SSEQI REMARK 610 TRP A 401 REMARK 800 REMARK 800 SITE REMARK 800 SITE_IDENTIFIER: AC1 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE TRP A 401 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC2 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE GOL A 402 REMARK 900 REMARK 900 RELATED ENTRIES REMARK 900 RELATED ID: IDP90805 RELATED DB: TARGETDB DBREF 3SZ3 A 1 338 UNP Q9KNV7 SYW_VIBCH 1 338 SEQADV 3SZ3 SER A -2 UNP Q9KNV7 EXPRESSION TAG SEQADV 3SZ3 ASN A -1 UNP Q9KNV7 EXPRESSION TAG SEQADV 3SZ3 ALA A 0 UNP Q9KNV7 EXPRESSION TAG SEQRES 1 A 341 SER ASN ALA MET SER LYS PRO ILE VAL LEU SER GLY VAL SEQRES 2 A 341 GLN PRO SER GLY GLU LEU SER ILE GLY ASN TYR LEU GLY SEQRES 3 A 341 ALA LEU ARG GLN TRP GLN GLN MET GLN ASP ASP TYR ASP SEQRES 4 A 341 CYS GLN TYR CYS VAL VAL ASP LEU HIS ALA ILE THR VAL SEQRES 5 A 341 ARG GLN ASP PRO GLN ALA LEU HIS GLU ALA THR LEU ASP SEQRES 6 A 341 ALA LEU ALA ILE CYS LEU ALA VAL GLY VAL ASP PRO LYS SEQRES 7 A 341 LYS SER THR LEU PHE VAL GLN SER HIS VAL PRO GLU HIS SEQRES 8 A 341 ALA GLN LEU GLY TRP VAL LEU ASN CYS TYR THR GLN MET SEQRES 9 A 341 GLY GLU LEU SER ARG MET THR GLN PHE LYS ASP LYS SER SEQRES 10 A 341 ALA ARG TYR ALA ASN ASP VAL ASN ALA GLY LEU PHE GLY SEQRES 11 A 341 TYR PRO VAL LEU MET ALA ALA ASP ILE LEU LEU TYR GLY SEQRES 12 A 341 ALA HIS GLN VAL PRO VAL GLY SER ASP GLN LYS GLN HIS SEQRES 13 A 341 LEU GLU LEU ALA ARG ASP ILE ALA THR ARG PHE ASN ASN SEQRES 14 A 341 ILE TYR SER PRO GLU GLN PRO ILE PHE THR ILE PRO GLU SEQRES 15 A 341 PRO TYR ILE PRO THR VAL ASN ALA ARG VAL MET SER LEU SEQRES 16 A 341 GLN ASP ALA THR LYS LYS MET SER LYS SER ASP ASP ASN SEQRES 17 A 341 ARG LYS ASN VAL ILE THR LEU LEU GLU ASP PRO LYS SER SEQRES 18 A 341 ILE ILE LYS LYS ILE ASN LYS ALA GLN THR ASP ALA GLU SEQRES 19 A 341 THR PRO PRO ARG ILE ALA TYR ASP VAL GLU ASN LYS ALA SEQRES 20 A 341 GLY ILE ALA ASN LEU MET GLY LEU TYR SER ALA ALA THR SEQRES 21 A 341 GLY LYS THR PHE ALA GLU ILE GLU ALA GLN TYR ALA GLY SEQRES 22 A 341 VAL GLU MET TYR GLY PRO PHE LYS LYS ASP VAL GLY GLU SEQRES 23 A 341 ALA VAL VAL ALA MET LEU GLU PRO VAL GLN ALA GLU TYR SEQRES 24 A 341 GLN ARG ILE ARG ASN ASP ARG GLU TYR LEU ASN SER VAL SEQRES 25 A 341 MET ARG ASP GLY ALA GLU LYS ALA SER ALA LYS ALA LEU SEQRES 26 A 341 GLN THR LEU LYS LYS VAL TYR ALA ALA VAL GLY PHE VAL SEQRES 27 A 341 ALA ARG PRO HET TRP A 401 11 HET GOL A 402 6 HETNAM TRP TRYPTOPHAN HETNAM GOL GLYCEROL HETSYN GOL GLYCERIN; PROPANE-1,2,3-TRIOL FORMUL 2 TRP C11 H12 N2 O2 FORMUL 3 GOL C3 H8 O3 FORMUL 4 HOH *431(H2 O) HELIX 1 1 ASN A -1 LYS A 3 5 5 HELIX 2 2 SER A 17 ALA A 24 1 8 HELIX 3 3 GLN A 27 TYR A 35 1 9 HELIX 4 4 VAL A 42 ILE A 47 1 6 HELIX 5 5 ASP A 52 VAL A 70 1 19 HELIX 6 6 SER A 83 VAL A 85 5 3 HELIX 7 7 PRO A 86 CYS A 97 1 12 HELIX 8 8 GLN A 100 ARG A 106 1 7 HELIX 9 9 MET A 107 ALA A 118 1 12 HELIX 10 10 ASN A 119 VAL A 121 5 3 HELIX 11 11 ASN A 122 LEU A 138 1 17 HELIX 12 12 GLY A 147 ASP A 149 5 3 HELIX 13 13 GLN A 150 SER A 169 1 20 HELIX 14 14 ASN A 205 VAL A 209 5 5 HELIX 15 15 ASP A 215 LYS A 225 1 11 HELIX 16 16 LYS A 243 GLY A 258 1 16 HELIX 17 17 THR A 260 TYR A 268 1 9 HELIX 18 18 TYR A 274 ASN A 301 1 28 HELIX 19 19 ASP A 302 GLY A 333 1 32 SHEET 1 A 3 ILE A 5 VAL A 10 0 SHEET 2 A 3 ASP A 36 VAL A 41 1 O CYS A 40 N VAL A 10 SHEET 3 A 3 THR A 78 VAL A 81 1 O THR A 78 N TYR A 39 SHEET 1 B 2 GLN A 143 VAL A 144 0 SHEET 2 B 2 GLU A 179 PRO A 180 1 O GLU A 179 N VAL A 144 SHEET 1 C 2 MET A 190 SER A 191 0 SHEET 2 C 2 ASP A 194 LYS A 198 -1 O LYS A 197 N SER A 191 CISPEP 1 SER A -2 ASN A -1 0 -8.47 CISPEP 2 THR A 232 PRO A 233 0 -4.74 SITE 1 AC1 11 LEU A 7 GLY A 9 GLN A 11 VAL A 42 SITE 2 AC1 11 HIS A 45 TYR A 128 MET A 132 ASP A 135 SITE 3 AC1 11 VAL A 144 GLN A 150 HOH A 369 SITE 1 AC2 9 ARG A 50 ARG A 163 ASN A 166 ILE A 167 SITE 2 AC2 9 GLN A 227 THR A 228 ASP A 229 HOH A 372 SITE 3 AC2 9 HOH A 572 CRYST1 76.020 94.047 47.036 90.00 90.00 90.00 P 21 21 2 4 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 0.013154 0.000000 0.000000 0.00000 SCALE2 0.000000 0.010633 0.000000 0.00000 SCALE3 0.000000 0.000000 0.021260 0.00000