HEADER TRANSFERASE 30-DEC-11 3VAX TITLE CRYSTAL STRUCTURE OF DNDA FROM STREPTOMYCES LIVIDANS COMPND MOL_ID: 1; COMPND 2 MOLECULE: PUTATIVE UNCHARACTERIZED PROTEIN DNDA; COMPND 3 CHAIN: A, B; COMPND 4 FRAGMENT: UNP RESIDUES 19-397; COMPND 5 SYNONYM: CYSTEINE DESULFURASE DNDA; COMPND 6 ENGINEERED: YES; COMPND 7 MUTATION: YES SOURCE MOL_ID: 1; SOURCE 2 ORGANISM_SCIENTIFIC: STREPTOMYCES LIVIDANS; SOURCE 3 ORGANISM_TAXID: 1916; SOURCE 4 GENE: DNDA; 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 DESULFURASE, TRANSFERASE EXPDTA X-RAY DIFFRACTION AUTHOR Z.ZHANG,F.CHEN,K.LIN,G.WU REVDAT 3 20-MAR-24 3VAX 1 REMARK SEQADV REVDAT 2 21-DEC-16 3VAX 1 TITLE REVDAT 1 02-JAN-13 3VAX 0 JRNL AUTH F.CHEN,Z.ZHANG,K.LIN,T.QIAN,Y.ZHANG,D.YOU,X.HE,Z.WANG, JRNL AUTH 2 J.LIANG,Z.DENG,G.WU JRNL TITL CRYSTAL STRUCTURE OF THE CYSTEINE DESULFURASE DNDA FROM JRNL TITL 2 STREPTOMYCES LIVIDANS WHICH IS INVOLVED IN DNA JRNL TITL 3 PHOSPHOROTHIOATION JRNL REF PLOS ONE V. 7 36635 2012 JRNL REFN ESSN 1932-6203 JRNL PMID 22570733 JRNL DOI 10.1371/JOURNAL.PONE.0036635 REMARK 2 REMARK 2 RESOLUTION. 2.40 ANGSTROMS. REMARK 3 REMARK 3 REFINEMENT. REMARK 3 PROGRAM : REFMAC 5.5.0102 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) : 2.40 REMARK 3 RESOLUTION RANGE LOW (ANGSTROMS) : 45.00 REMARK 3 DATA CUTOFF (SIGMA(F)) : 0.000 REMARK 3 COMPLETENESS FOR RANGE (%) : 99.8 REMARK 3 NUMBER OF REFLECTIONS : 34563 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) : 0.194 REMARK 3 R VALUE (WORKING SET) : 0.192 REMARK 3 FREE R VALUE : 0.234 REMARK 3 FREE R VALUE TEST SET SIZE (%) : 5.000 REMARK 3 FREE R VALUE TEST SET COUNT : 1738 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) : 2.40 REMARK 3 BIN RESOLUTION RANGE LOW (A) : 2.46 REMARK 3 REFLECTION IN BIN (WORKING SET) : 2415 REMARK 3 BIN COMPLETENESS (WORKING+TEST) (%) : 100.0 REMARK 3 BIN R VALUE (WORKING SET) : 0.2020 REMARK 3 BIN FREE R VALUE SET COUNT : 129 REMARK 3 BIN FREE R VALUE : 0.2880 REMARK 3 REMARK 3 NUMBER OF NON-HYDROGEN ATOMS USED IN REFINEMENT. REMARK 3 PROTEIN ATOMS : 5438 REMARK 3 NUCLEIC ACID ATOMS : 0 REMARK 3 HETEROGEN ATOMS : 30 REMARK 3 SOLVENT ATOMS : 269 REMARK 3 REMARK 3 B VALUES. REMARK 3 FROM WILSON PLOT (A**2) : NULL REMARK 3 MEAN B VALUE (OVERALL, A**2) : 27.96 REMARK 3 OVERALL ANISOTROPIC B VALUE. REMARK 3 B11 (A**2) : -1.18000 REMARK 3 B22 (A**2) : 1.94000 REMARK 3 B33 (A**2) : -0.97000 REMARK 3 B12 (A**2) : 0.00000 REMARK 3 B13 (A**2) : -0.82000 REMARK 3 B23 (A**2) : 0.00000 REMARK 3 REMARK 3 ESTIMATED OVERALL COORDINATE ERROR. REMARK 3 ESU BASED ON R VALUE (A): 0.357 REMARK 3 ESU BASED ON FREE R VALUE (A): 0.239 REMARK 3 ESU BASED ON MAXIMUM LIKELIHOOD (A): 0.166 REMARK 3 ESU FOR B VALUES BASED ON MAXIMUM LIKELIHOOD (A**2): 15.439 REMARK 3 REMARK 3 CORRELATION COEFFICIENTS. REMARK 3 CORRELATION COEFFICIENT FO-FC : 0.933 REMARK 3 CORRELATION COEFFICIENT FO-FC FREE : 0.907 REMARK 3 REMARK 3 RMS DEVIATIONS FROM IDEAL VALUES COUNT RMS WEIGHT REMARK 3 BOND LENGTHS REFINED ATOMS (A): 5576 ; 0.008 ; 0.021 REMARK 3 BOND LENGTHS OTHERS (A): NULL ; NULL ; NULL REMARK 3 BOND ANGLES REFINED ATOMS (DEGREES): 7580 ; 1.119 ; 1.972 REMARK 3 BOND ANGLES OTHERS (DEGREES): NULL ; NULL ; NULL REMARK 3 TORSION ANGLES, PERIOD 1 (DEGREES): 714 ; 5.475 ; 5.000 REMARK 3 TORSION ANGLES, PERIOD 2 (DEGREES): 240 ;37.198 ;23.167 REMARK 3 TORSION ANGLES, PERIOD 3 (DEGREES): 902 ;16.944 ;15.000 REMARK 3 TORSION ANGLES, PERIOD 4 (DEGREES): 50 ;17.585 ;15.000 REMARK 3 CHIRAL-CENTER RESTRAINTS (A**3): 864 ; 0.073 ; 0.200 REMARK 3 GENERAL PLANES REFINED ATOMS (A): 4242 ; 0.005 ; 0.021 REMARK 3 GENERAL PLANES OTHERS (A): NULL ; NULL ; NULL 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): 3556 ; 0.375 ; 1.500 REMARK 3 MAIN-CHAIN BOND OTHER ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 MAIN-CHAIN ANGLE REFINED ATOMS (A**2): 5708 ; 0.754 ; 2.000 REMARK 3 MAIN-CHAIN ANGLE OTHER ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 SIDE-CHAIN BOND REFINED ATOMS (A**2): 2020 ; 1.322 ; 3.000 REMARK 3 SIDE-CHAIN BOND OTHER ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 SIDE-CHAIN ANGLE REFINED ATOMS (A**2): 1872 ; 2.350 ; 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 : 1 REMARK 3 REMARK 3 NCS GROUP NUMBER : 1 REMARK 3 CHAIN NAMES : A B REMARK 3 NUMBER OF COMPONENTS NCS GROUP : 1 REMARK 3 COMPONENT C SSSEQI TO C SSSEQI CODE REMARK 3 1 A 10 A 350 4 REMARK 3 1 B 10 B 350 4 REMARK 3 GROUP CHAIN COUNT RMS WEIGHT REMARK 3 MEDIUM POSITIONAL 1 A (A): 2590 ; 0.230 ; 0.500 REMARK 3 MEDIUM THERMAL 1 A (A**2): 2590 ; 0.270 ; 2.000 REMARK 3 REMARK 3 TLS DETAILS REMARK 3 NUMBER OF TLS GROUPS : 3 REMARK 3 REMARK 3 TLS GROUP : 1 REMARK 3 NUMBER OF COMPONENTS GROUP : 2 REMARK 3 COMPONENTS C SSSEQI TO C SSSEQI REMARK 3 RESIDUE RANGE : A 2 A 359 REMARK 3 RESIDUE RANGE : A 400 A 400 REMARK 3 ORIGIN FOR THE GROUP (A): 5.5972 -7.6880 27.7691 REMARK 3 T TENSOR REMARK 3 T11: 0.0369 T22: 0.0801 REMARK 3 T33: 0.0518 T12: -0.0002 REMARK 3 T13: 0.0147 T23: 0.0087 REMARK 3 L TENSOR REMARK 3 L11: 1.8129 L22: 1.7010 REMARK 3 L33: 1.8854 L12: -0.0185 REMARK 3 L13: 0.3632 L23: 0.0698 REMARK 3 S TENSOR REMARK 3 S11: 0.0024 S12: 0.0097 S13: -0.1162 REMARK 3 S21: -0.1175 S22: -0.0678 S23: 0.1413 REMARK 3 S31: 0.1776 S32: -0.0500 S33: 0.0654 REMARK 3 REMARK 3 TLS GROUP : 2 REMARK 3 NUMBER OF COMPONENTS GROUP : 2 REMARK 3 COMPONENTS C SSSEQI TO C SSSEQI REMARK 3 RESIDUE RANGE : B 2 B 359 REMARK 3 RESIDUE RANGE : B 400 B 400 REMARK 3 ORIGIN FOR THE GROUP (A): 25.8974 13.1558 11.6463 REMARK 3 T TENSOR REMARK 3 T11: 0.0428 T22: 0.1178 REMARK 3 T33: 0.0534 T12: -0.0060 REMARK 3 T13: 0.0276 T23: 0.0178 REMARK 3 L TENSOR REMARK 3 L11: 1.5653 L22: 1.9164 REMARK 3 L33: 2.0751 L12: -0.1141 REMARK 3 L13: 0.4351 L23: -0.0441 REMARK 3 S TENSOR REMARK 3 S11: 0.0631 S12: 0.0884 S13: 0.1588 REMARK 3 S21: -0.1689 S22: -0.0759 S23: -0.0002 REMARK 3 S31: -0.1332 S32: 0.0359 S33: 0.0128 REMARK 3 REMARK 3 TLS GROUP : 3 REMARK 3 NUMBER OF COMPONENTS GROUP : 2 REMARK 3 COMPONENTS C SSSEQI TO C SSSEQI REMARK 3 RESIDUE RANGE : A 501 A 638 REMARK 3 RESIDUE RANGE : B 501 B 631 REMARK 3 ORIGIN FOR THE GROUP (A): 16.9668 2.7806 22.4513 REMARK 3 T TENSOR REMARK 3 T11: 0.1063 T22: 0.1744 REMARK 3 T33: 0.1332 T12: 0.0312 REMARK 3 T13: 0.0295 T23: -0.0198 REMARK 3 L TENSOR REMARK 3 L11: 0.7192 L22: 1.1004 REMARK 3 L33: 0.7330 L12: 0.3540 REMARK 3 L13: -0.2218 L23: -0.3023 REMARK 3 S TENSOR REMARK 3 S11: -0.0030 S12: 0.0110 S13: 0.0310 REMARK 3 S21: 0.0019 S22: -0.0256 S23: 0.0237 REMARK 3 S31: -0.0131 S32: 0.0140 S33: 0.0285 REMARK 3 REMARK 3 BULK SOLVENT MODELLING. REMARK 3 METHOD USED : MASK REMARK 3 PARAMETERS FOR MASK CALCULATION REMARK 3 VDW PROBE RADIUS : 1.40 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: WITH TLS ADDED REMARK 4 REMARK 4 3VAX COMPLIES WITH FORMAT V. 3.30, 13-JUL-11 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY PDBJ ON 18-JAN-12. REMARK 100 THE DEPOSITION ID IS D_1000069815. REMARK 200 REMARK 200 EXPERIMENTAL DETAILS REMARK 200 EXPERIMENT TYPE : X-RAY DIFFRACTION REMARK 200 DATE OF DATA COLLECTION : 20-JAN-11 REMARK 200 TEMPERATURE (KELVIN) : 100 REMARK 200 PH : 5.5 REMARK 200 NUMBER OF CRYSTALS USED : 1 REMARK 200 REMARK 200 SYNCHROTRON (Y/N) : Y REMARK 200 RADIATION SOURCE : SSRF REMARK 200 BEAMLINE : BL17U REMARK 200 X-RAY GENERATOR MODEL : NULL REMARK 200 MONOCHROMATIC OR LAUE (M/L) : M REMARK 200 WAVELENGTH OR RANGE (A) : 1.000 REMARK 200 MONOCHROMATOR : NULL REMARK 200 OPTICS : NULL REMARK 200 REMARK 200 DETECTOR TYPE : CCD REMARK 200 DETECTOR MANUFACTURER : NULL REMARK 200 INTENSITY-INTEGRATION SOFTWARE : MOSFLM REMARK 200 DATA SCALING SOFTWARE : SCALA 3.3.15 REMARK 200 REMARK 200 NUMBER OF UNIQUE REFLECTIONS : 34563 REMARK 200 RESOLUTION RANGE HIGH (A) : 2.400 REMARK 200 RESOLUTION RANGE LOW (A) : 84.915 REMARK 200 REJECTION CRITERIA (SIGMA(I)) : NULL REMARK 200 REMARK 200 OVERALL. REMARK 200 COMPLETENESS FOR RANGE (%) : 99.8 REMARK 200 DATA REDUNDANCY : 7.300 REMARK 200 R MERGE (I) : NULL REMARK 200 R SYM (I) : 0.14700 REMARK 200 FOR THE DATA SET : 10.2000 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) : 2.53 REMARK 200 COMPLETENESS FOR SHELL (%) : 100.0 REMARK 200 DATA REDUNDANCY IN SHELL : 7.40 REMARK 200 R MERGE FOR SHELL (I) : 0.41000 REMARK 200 R SYM FOR SHELL (I) : 0.41000 REMARK 200 FOR SHELL : 1.700 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 (%): 52.15 REMARK 280 MATTHEWS COEFFICIENT, VM (ANGSTROMS**3/DA): 2.57 REMARK 280 REMARK 280 CRYSTALLIZATION CONDITIONS: 20% PEG3350, 0.2M AMMONIUM ACETATE, PH REMARK 280 5.5, VAPOR DIFFUSION, HANGING DROP, TEMPERATURE 287K REMARK 290 REMARK 290 CRYSTALLOGRAPHIC SYMMETRY REMARK 290 SYMMETRY OPERATORS FOR SPACE GROUP: P 1 2 1 REMARK 290 REMARK 290 SYMOP SYMMETRY REMARK 290 NNNMMM OPERATOR REMARK 290 1555 X,Y,Z REMARK 290 2555 -X,Y,-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 REMARK 290 REMARK: NULL REMARK 300 REMARK 300 BIOMOLECULE: 1, 2, 3 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: MONOMERIC 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 REMARK 350 BIOMOLECULE: 2 REMARK 350 AUTHOR DETERMINED BIOLOGICAL UNIT: MONOMERIC REMARK 350 APPLY THE FOLLOWING TO CHAINS: B REMARK 350 BIOMT1 1 1.000000 0.000000 0.000000 0.00000 REMARK 350 BIOMT2 1 0.000000 1.000000 0.000000 0.00000 REMARK 350 BIOMT3 1 0.000000 0.000000 1.000000 0.00000 REMARK 350 REMARK 350 BIOMOLECULE: 3 REMARK 350 SOFTWARE DETERMINED QUATERNARY STRUCTURE: DIMERIC REMARK 350 SOFTWARE USED: PISA REMARK 350 TOTAL BURIED SURFACE AREA: 5080 ANGSTROM**2 REMARK 350 SURFACE AREA OF THE COMPLEX: 29150 ANGSTROM**2 REMARK 350 CHANGE IN SOLVENT FREE ENERGY: -26.0 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 375 REMARK 375 SPECIAL POSITION REMARK 375 THE FOLLOWING ATOMS ARE FOUND TO BE WITHIN 0.15 ANGSTROMS REMARK 375 OF A SYMMETRY RELATED ATOM AND ARE ASSUMED TO BE ON SPECIAL REMARK 375 POSITIONS. REMARK 375 REMARK 375 ATOM RES CSSEQI REMARK 375 HOH A 556 LIES ON A SPECIAL POSITION. 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 -19 REMARK 465 GLY A -18 REMARK 465 SER A -17 REMARK 465 SER A -16 REMARK 465 HIS A -15 REMARK 465 HIS A -14 REMARK 465 HIS A -13 REMARK 465 HIS A -12 REMARK 465 HIS A -11 REMARK 465 HIS A -10 REMARK 465 SER A -9 REMARK 465 SER A -8 REMARK 465 GLY A -7 REMARK 465 LEU A -6 REMARK 465 VAL A -5 REMARK 465 PRO A -4 REMARK 465 ARG A -3 REMARK 465 GLY A -2 REMARK 465 SER A -1 REMARK 465 HIS A 0 REMARK 465 MET A 1 REMARK 465 GLN A 360 REMARK 465 ALA A 361 REMARK 465 THR A 362 REMARK 465 ASP A 363 REMARK 465 LEU A 364 REMARK 465 ASP A 365 REMARK 465 VAL A 366 REMARK 465 GLU A 367 REMARK 465 GLU A 368 REMARK 465 LEU A 369 REMARK 465 ALA A 370 REMARK 465 ARG A 371 REMARK 465 GLY A 372 REMARK 465 VAL A 373 REMARK 465 ALA A 374 REMARK 465 LYS A 375 REMARK 465 LEU A 376 REMARK 465 LYS A 377 REMARK 465 PRO A 378 REMARK 465 SER A 379 REMARK 465 TYR A 380 REMARK 465 MET B -19 REMARK 465 GLY B -18 REMARK 465 SER B -17 REMARK 465 SER B -16 REMARK 465 HIS B -15 REMARK 465 HIS B -14 REMARK 465 HIS B -13 REMARK 465 HIS B -12 REMARK 465 HIS B -11 REMARK 465 HIS B -10 REMARK 465 SER B -9 REMARK 465 SER B -8 REMARK 465 GLY B -7 REMARK 465 LEU B -6 REMARK 465 VAL B -5 REMARK 465 PRO B -4 REMARK 465 ARG B -3 REMARK 465 GLY B -2 REMARK 465 SER B -1 REMARK 465 HIS B 0 REMARK 465 MET B 1 REMARK 465 GLN B 360 REMARK 465 ALA B 361 REMARK 465 THR B 362 REMARK 465 ASP B 363 REMARK 465 LEU B 364 REMARK 465 ASP B 365 REMARK 465 VAL B 366 REMARK 465 GLU B 367 REMARK 465 GLU B 368 REMARK 465 LEU B 369 REMARK 465 ALA B 370 REMARK 465 ARG B 371 REMARK 465 GLY B 372 REMARK 465 VAL B 373 REMARK 465 ALA B 374 REMARK 465 LYS B 375 REMARK 465 LEU B 376 REMARK 465 LYS B 377 REMARK 465 PRO B 378 REMARK 465 SER B 379 REMARK 465 TYR B 380 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 THR A 2 OG1 CG2 REMARK 470 THR B 2 OG1 CG2 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 ALA A 7 65.57 -110.63 REMARK 500 ASN A 30 47.68 -89.50 REMARK 500 ASP A 219 -84.61 41.94 REMARK 500 ASP A 220 36.01 -162.37 REMARK 500 LYS A 237 -6.91 68.00 REMARK 500 SER A 282 40.55 -106.76 REMARK 500 PHE B 28 -75.24 -79.38 REMARK 500 ASN B 30 36.52 -92.44 REMARK 500 ALA B 31 87.64 -66.00 REMARK 500 PRO B 190 49.75 -76.85 REMARK 500 MET B 218 57.54 -97.50 REMARK 500 LYS B 237 -7.35 74.76 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 PLP A 400 REMARK 610 PLP B 400 REMARK 800 REMARK 800 SITE REMARK 800 SITE_IDENTIFIER: AC1 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE PLP A 400 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC2 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE PLP B 400 DBREF 3VAX A 2 380 UNP A7TUX7 A7TUX7_STRLI 19 397 DBREF 3VAX B 2 380 UNP A7TUX7 A7TUX7_STRLI 19 397 SEQADV 3VAX MET A -19 UNP A7TUX7 EXPRESSION TAG SEQADV 3VAX GLY A -18 UNP A7TUX7 EXPRESSION TAG SEQADV 3VAX SER A -17 UNP A7TUX7 EXPRESSION TAG SEQADV 3VAX SER A -16 UNP A7TUX7 EXPRESSION TAG SEQADV 3VAX HIS A -15 UNP A7TUX7 EXPRESSION TAG SEQADV 3VAX HIS A -14 UNP A7TUX7 EXPRESSION TAG SEQADV 3VAX HIS A -13 UNP A7TUX7 EXPRESSION TAG SEQADV 3VAX HIS A -12 UNP A7TUX7 EXPRESSION TAG SEQADV 3VAX HIS A -11 UNP A7TUX7 EXPRESSION TAG SEQADV 3VAX HIS A -10 UNP A7TUX7 EXPRESSION TAG SEQADV 3VAX SER A -9 UNP A7TUX7 EXPRESSION TAG SEQADV 3VAX SER A -8 UNP A7TUX7 EXPRESSION TAG SEQADV 3VAX GLY A -7 UNP A7TUX7 EXPRESSION TAG SEQADV 3VAX LEU A -6 UNP A7TUX7 EXPRESSION TAG SEQADV 3VAX VAL A -5 UNP A7TUX7 EXPRESSION TAG SEQADV 3VAX PRO A -4 UNP A7TUX7 EXPRESSION TAG SEQADV 3VAX ARG A -3 UNP A7TUX7 EXPRESSION TAG SEQADV 3VAX GLY A -2 UNP A7TUX7 EXPRESSION TAG SEQADV 3VAX SER A -1 UNP A7TUX7 EXPRESSION TAG SEQADV 3VAX HIS A 0 UNP A7TUX7 EXPRESSION TAG SEQADV 3VAX MET A 1 UNP A7TUX7 EXPRESSION TAG SEQADV 3VAX SER A 327 UNP A7TUX7 CYS 344 ENGINEERED MUTATION SEQADV 3VAX MET B -19 UNP A7TUX7 EXPRESSION TAG SEQADV 3VAX GLY B -18 UNP A7TUX7 EXPRESSION TAG SEQADV 3VAX SER B -17 UNP A7TUX7 EXPRESSION TAG SEQADV 3VAX SER B -16 UNP A7TUX7 EXPRESSION TAG SEQADV 3VAX HIS B -15 UNP A7TUX7 EXPRESSION TAG SEQADV 3VAX HIS B -14 UNP A7TUX7 EXPRESSION TAG SEQADV 3VAX HIS B -13 UNP A7TUX7 EXPRESSION TAG SEQADV 3VAX HIS B -12 UNP A7TUX7 EXPRESSION TAG SEQADV 3VAX HIS B -11 UNP A7TUX7 EXPRESSION TAG SEQADV 3VAX HIS B -10 UNP A7TUX7 EXPRESSION TAG SEQADV 3VAX SER B -9 UNP A7TUX7 EXPRESSION TAG SEQADV 3VAX SER B -8 UNP A7TUX7 EXPRESSION TAG SEQADV 3VAX GLY B -7 UNP A7TUX7 EXPRESSION TAG SEQADV 3VAX LEU B -6 UNP A7TUX7 EXPRESSION TAG SEQADV 3VAX VAL B -5 UNP A7TUX7 EXPRESSION TAG SEQADV 3VAX PRO B -4 UNP A7TUX7 EXPRESSION TAG SEQADV 3VAX ARG B -3 UNP A7TUX7 EXPRESSION TAG SEQADV 3VAX GLY B -2 UNP A7TUX7 EXPRESSION TAG SEQADV 3VAX SER B -1 UNP A7TUX7 EXPRESSION TAG SEQADV 3VAX HIS B 0 UNP A7TUX7 EXPRESSION TAG SEQADV 3VAX MET B 1 UNP A7TUX7 EXPRESSION TAG SEQADV 3VAX SER B 327 UNP A7TUX7 CYS 344 ENGINEERED MUTATION SEQRES 1 A 400 MET GLY SER SER HIS HIS HIS HIS HIS HIS SER SER GLY SEQRES 2 A 400 LEU VAL PRO ARG GLY SER HIS MET THR TYR LEU ASP ALA SEQRES 3 A 400 ALA ALA THR THR ARG VAL ASP GLN ARG VAL ALA ASP ILE SEQRES 4 A 400 VAL LEU HIS TRP MET THR ALA GLU PHE GLY ASN ALA GLY SEQRES 5 A 400 SER ARG HIS GLU TYR GLY ILE ARG ALA LYS ARG GLY VAL SEQRES 6 A 400 GLU ARG ALA ARG GLU TYR LEU ALA SER THR VAL SER ALA SEQRES 7 A 400 GLU PRO ASP GLU LEU ILE PHE THR SER GLY ALA THR GLU SEQRES 8 A 400 SER ASN ASN ILE ALA LEU LEU GLY LEU ALA PRO TYR GLY SEQRES 9 A 400 GLU ARG THR GLY ARG ARG HIS ILE ILE THR SER ALA ILE SEQRES 10 A 400 GLU HIS LYS ALA VAL LEU GLU PRO LEU GLU HIS LEU ALA SEQRES 11 A 400 GLY ARG GLY PHE GLU VAL ASP PHE LEU THR PRO GLY PRO SEQRES 12 A 400 SER GLY ARG ILE SER VAL GLU GLY VAL MET GLU ARG LEU SEQRES 13 A 400 ARG PRO ASP THR LEU LEU VAL SER LEU MET HIS VAL ASN SEQRES 14 A 400 ASN GLU THR GLY VAL ILE GLN PRO VAL ALA GLU LEU ALA SEQRES 15 A 400 GLN GLN LEU ARG ALA THR PRO THR TYR LEU HIS VAL ASP SEQRES 16 A 400 ALA ALA GLN GLY TYR GLY LYS VAL PRO GLY ASP LEU THR SEQRES 17 A 400 THR PRO ILE ASP MET ILE SER ILE SER GLY HIS LYS ILE SEQRES 18 A 400 GLY ALA PRO LYS GLY VAL GLY ALA LEU VAL THR ARG ARG SEQRES 19 A 400 ARG GLU GLU MET ASP ASP GLU ARG VAL PRO LEU GLU PRO SEQRES 20 A 400 ILE MET PHE GLY GLY GLY GLN GLU ARG LYS LEU ARG PRO SEQRES 21 A 400 GLY THR LEU PRO VAL PRO LEU ILE MET GLY LEU ALA GLU SEQRES 22 A 400 ALA ALA LYS ILE PHE GLU ALA GLU HIS ALA GLN TRP GLN SEQRES 23 A 400 VAL ALA ALA GLN ASP LEU ARG SER ARG LEU LEU ALA GLY SEQRES 24 A 400 LEU ALA SER THR SER PHE GLN VAL ASN GLY ASP GLN ASP SEQRES 25 A 400 HIS VAL VAL PRO HIS ILE LEU ASN LEU SER PHE GLU ASP SEQRES 26 A 400 VAL ASP ALA GLU ALA PHE LEU VAL THR LEU LYS ASP LEU SEQRES 27 A 400 VAL ALA VAL ALA THR GLY SER ALA SER THR SER ALA SER SEQRES 28 A 400 PHE THR PRO SER HIS VAL LEU ARG ALA MET GLY LEU PRO SEQRES 29 A 400 GLU GLU ALA ALA SER LYS SER LEU ARG PHE SER TRP THR SEQRES 30 A 400 PRO GLY GLN ALA THR ASP LEU ASP VAL GLU GLU LEU ALA SEQRES 31 A 400 ARG GLY VAL ALA LYS LEU LYS PRO SER TYR SEQRES 1 B 400 MET GLY SER SER HIS HIS HIS HIS HIS HIS SER SER GLY SEQRES 2 B 400 LEU VAL PRO ARG GLY SER HIS MET THR TYR LEU ASP ALA SEQRES 3 B 400 ALA ALA THR THR ARG VAL ASP GLN ARG VAL ALA ASP ILE SEQRES 4 B 400 VAL LEU HIS TRP MET THR ALA GLU PHE GLY ASN ALA GLY SEQRES 5 B 400 SER ARG HIS GLU TYR GLY ILE ARG ALA LYS ARG GLY VAL SEQRES 6 B 400 GLU ARG ALA ARG GLU TYR LEU ALA SER THR VAL SER ALA SEQRES 7 B 400 GLU PRO ASP GLU LEU ILE PHE THR SER GLY ALA THR GLU SEQRES 8 B 400 SER ASN ASN ILE ALA LEU LEU GLY LEU ALA PRO TYR GLY SEQRES 9 B 400 GLU ARG THR GLY ARG ARG HIS ILE ILE THR SER ALA ILE SEQRES 10 B 400 GLU HIS LYS ALA VAL LEU GLU PRO LEU GLU HIS LEU ALA SEQRES 11 B 400 GLY ARG GLY PHE GLU VAL ASP PHE LEU THR PRO GLY PRO SEQRES 12 B 400 SER GLY ARG ILE SER VAL GLU GLY VAL MET GLU ARG LEU SEQRES 13 B 400 ARG PRO ASP THR LEU LEU VAL SER LEU MET HIS VAL ASN SEQRES 14 B 400 ASN GLU THR GLY VAL ILE GLN PRO VAL ALA GLU LEU ALA SEQRES 15 B 400 GLN GLN LEU ARG ALA THR PRO THR TYR LEU HIS VAL ASP SEQRES 16 B 400 ALA ALA GLN GLY TYR GLY LYS VAL PRO GLY ASP LEU THR SEQRES 17 B 400 THR PRO ILE ASP MET ILE SER ILE SER GLY HIS LYS ILE SEQRES 18 B 400 GLY ALA PRO LYS GLY VAL GLY ALA LEU VAL THR ARG ARG SEQRES 19 B 400 ARG GLU GLU MET ASP ASP GLU ARG VAL PRO LEU GLU PRO SEQRES 20 B 400 ILE MET PHE GLY GLY GLY GLN GLU ARG LYS LEU ARG PRO SEQRES 21 B 400 GLY THR LEU PRO VAL PRO LEU ILE MET GLY LEU ALA GLU SEQRES 22 B 400 ALA ALA LYS ILE PHE GLU ALA GLU HIS ALA GLN TRP GLN SEQRES 23 B 400 VAL ALA ALA GLN ASP LEU ARG SER ARG LEU LEU ALA GLY SEQRES 24 B 400 LEU ALA SER THR SER PHE GLN VAL ASN GLY ASP GLN ASP SEQRES 25 B 400 HIS VAL VAL PRO HIS ILE LEU ASN LEU SER PHE GLU ASP SEQRES 26 B 400 VAL ASP ALA GLU ALA PHE LEU VAL THR LEU LYS ASP LEU SEQRES 27 B 400 VAL ALA VAL ALA THR GLY SER ALA SER THR SER ALA SER SEQRES 28 B 400 PHE THR PRO SER HIS VAL LEU ARG ALA MET GLY LEU PRO SEQRES 29 B 400 GLU GLU ALA ALA SER LYS SER LEU ARG PHE SER TRP THR SEQRES 30 B 400 PRO GLY GLN ALA THR ASP LEU ASP VAL GLU GLU LEU ALA SEQRES 31 B 400 ARG GLY VAL ALA LYS LEU LYS PRO SER TYR HET PLP A 400 15 HET PLP B 400 15 HETNAM PLP PYRIDOXAL-5'-PHOSPHATE HETSYN PLP VITAMIN B6 PHOSPHATE FORMUL 3 PLP 2(C8 H10 N O6 P) FORMUL 5 HOH *269(H2 O) HELIX 1 1 ASP A 13 GLY A 29 1 17 HELIX 2 2 SER A 33 VAL A 56 1 24 HELIX 3 3 GLU A 59 ASP A 61 5 3 HELIX 4 4 GLY A 68 GLY A 79 1 12 HELIX 5 5 LEU A 80 GLY A 88 1 9 HELIX 6 6 HIS A 99 GLY A 111 1 13 HELIX 7 7 SER A 128 GLU A 134 1 7 HELIX 8 8 PRO A 157 ARG A 166 1 10 HELIX 9 9 VAL A 183 THR A 189 5 7 HELIX 10 10 HIS A 199 GLY A 202 5 4 HELIX 11 11 GLN A 234 LEU A 238 5 5 HELIX 12 12 PRO A 244 GLU A 261 1 18 HELIX 13 13 GLU A 261 ALA A 281 1 21 HELIX 14 14 ASP A 307 ALA A 322 1 16 HELIX 15 15 PRO A 334 ALA A 340 1 7 HELIX 16 16 PRO A 344 SER A 349 1 6 HELIX 17 17 ASP B 13 GLY B 29 1 17 HELIX 18 18 SER B 33 VAL B 56 1 24 HELIX 19 19 GLU B 59 ASP B 61 5 3 HELIX 20 20 GLY B 68 GLY B 79 1 12 HELIX 21 21 LEU B 80 GLY B 88 1 9 HELIX 22 22 HIS B 99 GLY B 111 1 13 HELIX 23 23 SER B 128 LEU B 136 1 9 HELIX 24 24 PRO B 157 ARG B 166 1 10 HELIX 25 25 VAL B 183 LEU B 187 5 5 HELIX 26 26 HIS B 199 GLY B 202 5 4 HELIX 27 27 GLN B 234 LEU B 238 5 5 HELIX 28 28 PRO B 244 GLU B 261 1 18 HELIX 29 29 GLU B 261 ALA B 281 1 21 HELIX 30 30 ASP B 307 THR B 323 1 17 HELIX 31 31 PRO B 334 ALA B 340 1 7 HELIX 32 32 PRO B 344 SER B 349 1 6 SHEET 1 A 7 LEU A 63 THR A 66 0 SHEET 2 A 7 GLY A 208 THR A 212 -1 O GLY A 208 N THR A 66 SHEET 3 A 7 MET A 193 SER A 197 -1 N ILE A 194 O VAL A 211 SHEET 4 A 7 TYR A 171 ASP A 175 1 N VAL A 174 O MET A 193 SHEET 5 A 7 THR A 140 SER A 144 1 N VAL A 143 O HIS A 173 SHEET 6 A 7 HIS A 91 SER A 95 1 N ILE A 93 O SER A 144 SHEET 7 A 7 GLU A 115 LEU A 119 1 O ASP A 117 N THR A 94 SHEET 1 B 4 GLN A 286 VAL A 287 0 SHEET 2 B 4 ILE A 298 SER A 302 -1 O SER A 302 N GLN A 286 SHEET 3 B 4 SER A 351 PRO A 358 -1 O PHE A 354 N LEU A 299 SHEET 4 B 4 ALA A 326 PHE A 332 -1 N SER A 331 O ARG A 353 SHEET 1 C 7 LEU B 63 THR B 66 0 SHEET 2 C 7 GLY B 208 THR B 212 -1 O GLY B 208 N THR B 66 SHEET 3 C 7 MET B 193 SER B 197 -1 N ILE B 196 O ALA B 209 SHEET 4 C 7 TYR B 171 ASP B 175 1 N VAL B 174 O MET B 193 SHEET 5 C 7 THR B 140 SER B 144 1 N VAL B 143 O HIS B 173 SHEET 6 C 7 HIS B 91 SER B 95 1 N ILE B 93 O SER B 144 SHEET 7 C 7 GLU B 115 LEU B 119 1 O ASP B 117 N THR B 94 SHEET 1 D 4 GLN B 286 VAL B 287 0 SHEET 2 D 4 ILE B 298 SER B 302 -1 O SER B 302 N GLN B 286 SHEET 3 D 4 SER B 351 PRO B 358 -1 O LEU B 352 N LEU B 301 SHEET 4 D 4 ALA B 326 PHE B 332 -1 N SER B 331 O ARG B 353 SITE 1 AC1 13 GLY A 68 ALA A 69 THR A 70 HIS A 99 SITE 2 AC1 13 ASN A 150 ASP A 175 ALA A 177 SER A 197 SITE 3 AC1 13 HIS A 199 LYS A 200 HOH A 516 HOH A 609 SITE 4 AC1 13 THR B 242 SITE 1 AC2 12 GLY B 68 ALA B 69 THR B 70 HIS B 99 SITE 2 AC2 12 ASN B 150 ASP B 175 ALA B 177 SER B 197 SITE 3 AC2 12 HIS B 199 LYS B 200 HOH B 505 HOH B 595 CRYST1 77.900 67.280 85.560 90.00 97.04 90.00 P 1 2 1 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 0.012837 0.000000 0.001585 0.00000 SCALE2 0.000000 0.014863 0.000000 0.00000 SCALE3 0.000000 0.000000 0.011776 0.00000