HEADER BIOSYNTHETIC PROTEIN 15-FEB-10 2X67 TITLE THE TERNARY COMPLEX OF PRNB (THE SECOND ENZYME IN PYRROLNITRIN TITLE 2 BIOSYNTHESIS PATHWAY), TRYPTOPHAN AND CYANIDE COMPND MOL_ID: 1; COMPND 2 MOLECULE: PRNB; COMPND 3 CHAIN: A; COMPND 4 ENGINEERED: YES; COMPND 5 MUTATION: YES SOURCE MOL_ID: 1; SOURCE 2 ORGANISM_SCIENTIFIC: PSEUDOMONAS FLUORESCENS; SOURCE 3 ORGANISM_TAXID: 294; SOURCE 4 STRAIN: BL915; SOURCE 5 EXPRESSION_SYSTEM: PSEUDOMONAS FLUORESCENS; SOURCE 6 EXPRESSION_SYSTEM_TAXID: 294; SOURCE 7 EXPRESSION_SYSTEM_STRAIN: BL915; SOURCE 8 EXPRESSION_SYSTEM_VARIANT: DELTAORF(PRNA-PRND); SOURCE 9 EXPRESSION_SYSTEM_PLASMID: PCIBHISTEVPRNB_TRIPLE_CYSMUTANT KEYWDS BIOSYNTHETIC PROTEIN, INDOLAMINE/TRYPTOPHAN DIOXYGENASE SUPERFAMILY EXPDTA X-RAY DIFFRACTION AUTHOR X.ZHU,K.-H.VAN PEE,J.H.NAISMITH REVDAT 6 20-DEC-23 2X67 1 REMARK REVDAT 5 05-JUL-17 2X67 1 REMARK REVDAT 4 13-JUL-11 2X67 1 VERSN REVDAT 3 07-JUL-10 2X67 1 JRNL REVDAT 2 12-MAY-10 2X67 1 JRNL REVDAT 1 02-MAR-10 2X67 0 JRNL AUTH X.ZHU,K.-H.VAN PEE,J.H.NAISMITH JRNL TITL THE TERNARY COMPLEX OF PRNB (THE SECOND ENZYME IN JRNL TITL 2 PYRROLNITRIN BIOSYNTHESIS PATHWAY), TRYPTOPHAN AND CYANIDE JRNL TITL 3 YIELDS NEW MECHANISTIC INSIGHTS INTO THE INDOLAMINE JRNL TITL 4 DIOXYGENASE SUPERFAMILY. JRNL REF J.BIOL.CHEM. V. 285 21126 2010 JRNL REFN ISSN 0021-9258 JRNL PMID 20421301 JRNL DOI 10.1074/JBC.M110.120485 REMARK 2 REMARK 2 RESOLUTION. 2.16 ANGSTROMS. REMARK 3 REMARK 3 REFINEMENT. REMARK 3 PROGRAM : REFMAC 5.5.0109 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) : 2.16 REMARK 3 RESOLUTION RANGE LOW (ANGSTROMS) : 29.84 REMARK 3 DATA CUTOFF (SIGMA(F)) : NULL REMARK 3 COMPLETENESS FOR RANGE (%) : 99.8 REMARK 3 NUMBER OF REFLECTIONS : 24411 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) : 0.168 REMARK 3 R VALUE (WORKING SET) : 0.166 REMARK 3 FREE R VALUE : 0.211 REMARK 3 FREE R VALUE TEST SET SIZE (%) : 5.200 REMARK 3 FREE R VALUE TEST SET COUNT : 1330 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) : 2.16 REMARK 3 BIN RESOLUTION RANGE LOW (A) : 2.22 REMARK 3 REFLECTION IN BIN (WORKING SET) : 1755 REMARK 3 BIN COMPLETENESS (WORKING+TEST) (%) : 98.77 REMARK 3 BIN R VALUE (WORKING SET) : 0.1940 REMARK 3 BIN FREE R VALUE SET COUNT : 95 REMARK 3 BIN FREE R VALUE : 0.2810 REMARK 3 REMARK 3 NUMBER OF NON-HYDROGEN ATOMS USED IN REFINEMENT. REMARK 3 PROTEIN ATOMS : 2737 REMARK 3 NUCLEIC ACID ATOMS : 0 REMARK 3 HETEROGEN ATOMS : 70 REMARK 3 SOLVENT ATOMS : 304 REMARK 3 REMARK 3 B VALUES. REMARK 3 B VALUE TYPE : LIKELY RESIDUAL REMARK 3 FROM WILSON PLOT (A**2) : 27.20 REMARK 3 MEAN B VALUE (OVERALL, A**2) : 15.02 REMARK 3 OVERALL ANISOTROPIC B VALUE. REMARK 3 B11 (A**2) : 0.10000 REMARK 3 B22 (A**2) : -0.73000 REMARK 3 B33 (A**2) : 0.88000 REMARK 3 B12 (A**2) : 0.00000 REMARK 3 B13 (A**2) : 0.56000 REMARK 3 B23 (A**2) : 0.00000 REMARK 3 REMARK 3 ESTIMATED OVERALL COORDINATE ERROR. REMARK 3 ESU BASED ON R VALUE (A): 0.188 REMARK 3 ESU BASED ON FREE R VALUE (A): 0.166 REMARK 3 ESU BASED ON MAXIMUM LIKELIHOOD (A): 0.112 REMARK 3 ESU FOR B VALUES BASED ON MAXIMUM LIKELIHOOD (A**2): 9.596 REMARK 3 REMARK 3 CORRELATION COEFFICIENTS. REMARK 3 CORRELATION COEFFICIENT FO-FC : 0.958 REMARK 3 CORRELATION COEFFICIENT FO-FC FREE : 0.934 REMARK 3 REMARK 3 RMS DEVIATIONS FROM IDEAL VALUES COUNT RMS WEIGHT REMARK 3 BOND LENGTHS REFINED ATOMS (A): 2917 ; 0.014 ; 0.022 REMARK 3 BOND LENGTHS OTHERS (A): NULL ; NULL ; NULL REMARK 3 BOND ANGLES REFINED ATOMS (DEGREES): 3990 ; 1.371 ; 2.028 REMARK 3 BOND ANGLES OTHERS (DEGREES): NULL ; NULL ; NULL REMARK 3 TORSION ANGLES, PERIOD 1 (DEGREES): 356 ; 5.057 ; 5.000 REMARK 3 TORSION ANGLES, PERIOD 2 (DEGREES): 131 ;29.548 ;22.061 REMARK 3 TORSION ANGLES, PERIOD 3 (DEGREES): 450 ;14.657 ;15.000 REMARK 3 TORSION ANGLES, PERIOD 4 (DEGREES): 31 ;22.610 ;15.000 REMARK 3 CHIRAL-CENTER RESTRAINTS (A**3): 433 ; 0.092 ; 0.200 REMARK 3 GENERAL PLANES REFINED ATOMS (A): 2268 ; 0.007 ; 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): 1777 ; 0.638 ; 1.500 REMARK 3 MAIN-CHAIN BOND OTHER ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 MAIN-CHAIN ANGLE REFINED ATOMS (A**2): 2852 ; 1.167 ; 2.000 REMARK 3 MAIN-CHAIN ANGLE OTHER ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 SIDE-CHAIN BOND REFINED ATOMS (A**2): 1140 ; 2.122 ; 3.000 REMARK 3 SIDE-CHAIN BOND OTHER ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 SIDE-CHAIN ANGLE REFINED ATOMS (A**2): 1138 ; 3.466 ; 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 : 5 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 4 A 93 REMARK 3 ORIGIN FOR THE GROUP (A): 15.8497 16.3031 -3.2058 REMARK 3 T TENSOR REMARK 3 T11: 0.0236 T22: 0.1060 REMARK 3 T33: 0.0963 T12: 0.0081 REMARK 3 T13: 0.0018 T23: 0.0140 REMARK 3 L TENSOR REMARK 3 L11: 1.0282 L22: 2.5502 REMARK 3 L33: 0.6975 L12: -0.0123 REMARK 3 L13: 0.1155 L23: 0.3823 REMARK 3 S TENSOR REMARK 3 S11: 0.0320 S12: 0.1438 S13: -0.0325 REMARK 3 S21: -0.1724 S22: -0.0700 S23: -0.0274 REMARK 3 S31: -0.0162 S32: 0.0068 S33: 0.0380 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 94 A 270 REMARK 3 ORIGIN FOR THE GROUP (A): 17.2889 23.3810 14.4336 REMARK 3 T TENSOR REMARK 3 T11: 0.0479 T22: 0.0704 REMARK 3 T33: 0.0851 T12: -0.0052 REMARK 3 T13: -0.0090 T23: 0.0241 REMARK 3 L TENSOR REMARK 3 L11: 0.4628 L22: 1.4645 REMARK 3 L33: 1.3002 L12: -0.2702 REMARK 3 L13: -0.0977 L23: 0.5821 REMARK 3 S TENSOR REMARK 3 S11: -0.0256 S12: -0.1061 S13: -0.0081 REMARK 3 S21: 0.2316 S22: 0.0290 S23: -0.0367 REMARK 3 S31: -0.0148 S32: 0.0462 S33: -0.0035 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 271 A 358 REMARK 3 ORIGIN FOR THE GROUP (A): 16.5395 27.2455 31.6628 REMARK 3 T TENSOR REMARK 3 T11: 0.2255 T22: 0.1468 REMARK 3 T33: 0.0635 T12: -0.0026 REMARK 3 T13: 0.0086 T23: 0.0524 REMARK 3 L TENSOR REMARK 3 L11: 0.7999 L22: 4.0729 REMARK 3 L33: 3.3605 L12: 0.9779 REMARK 3 L13: 0.8791 L23: 2.3483 REMARK 3 S TENSOR REMARK 3 S11: -0.0361 S12: -0.1290 S13: -0.1057 REMARK 3 S21: 0.6182 S22: -0.0575 S23: 0.0076 REMARK 3 S31: 0.2005 S32: -0.0558 S33: 0.0936 REMARK 3 REMARK 3 TLS GROUP : 4 REMARK 3 NUMBER OF COMPONENTS GROUP : 2 REMARK 3 COMPONENTS C SSSEQI TO C SSSEQI REMARK 3 RESIDUE RANGE : A 1359 A 1359 REMARK 3 RESIDUE RANGE : A 1363 A 1363 REMARK 3 ORIGIN FOR THE GROUP (A): 13.5037 16.6339 19.5628 REMARK 3 T TENSOR REMARK 3 T11: 0.0526 T22: 0.0197 REMARK 3 T33: 0.0085 T12: 0.0199 REMARK 3 T13: 0.0090 T23: 0.0012 REMARK 3 L TENSOR REMARK 3 L11: 2.5477 L22: 10.9875 REMARK 3 L33: 7.1673 L12: -3.7763 REMARK 3 L13: -3.8320 L23: 0.6607 REMARK 3 S TENSOR REMARK 3 S11: -0.0803 S12: -0.1107 S13: -0.0681 REMARK 3 S21: 0.2305 S22: 0.1286 S23: 0.3048 REMARK 3 S31: 0.1130 S32: 0.1753 S33: -0.0483 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 1360 A 1360 REMARK 3 ORIGIN FOR THE GROUP (A): 12.9448 13.8101 14.5404 REMARK 3 T TENSOR REMARK 3 T11: 0.3103 T22: 0.1957 REMARK 3 T33: 0.2187 T12: 0.0059 REMARK 3 T13: -0.0658 T23: 0.0131 REMARK 3 L TENSOR REMARK 3 L11: 11.5561 L22: 63.9341 REMARK 3 L33: 45.2600 L12: -18.1517 REMARK 3 L13: 22.9302 L23: -27.9313 REMARK 3 S TENSOR REMARK 3 S11: 0.1854 S12: -0.5431 S13: 0.1414 REMARK 3 S21: -0.4682 S22: -0.2797 S23: 0.1081 REMARK 3 S31: 0.9150 S32: -1.1920 S33: 0.0942 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. ATOM RECORD CONTAINS RESIDUAL B FACTORS ONLY. REMARK 4 REMARK 4 2X67 COMPLIES WITH FORMAT V. 3.30, 13-JUL-11 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY PDBE ON 15-FEB-10. REMARK 100 THE DEPOSITION ID IS D_1290042919. REMARK 200 REMARK 200 EXPERIMENTAL DETAILS REMARK 200 EXPERIMENT TYPE : X-RAY DIFFRACTION REMARK 200 DATE OF DATA COLLECTION : 17-APR-08 REMARK 200 TEMPERATURE (KELVIN) : 100 REMARK 200 PH : 6.4 REMARK 200 NUMBER OF CRYSTALS USED : 1 REMARK 200 REMARK 200 SYNCHROTRON (Y/N) : N REMARK 200 RADIATION SOURCE : ROTATING ANODE REMARK 200 BEAMLINE : NULL REMARK 200 X-RAY GENERATOR MODEL : RIGAKU MICROMAX-007 HF REMARK 200 MONOCHROMATIC OR LAUE (M/L) : M REMARK 200 WAVELENGTH OR RANGE (A) : 1.5418 REMARK 200 MONOCHROMATOR : NULL REMARK 200 OPTICS : OSMIC MIRRORS REMARK 200 REMARK 200 DETECTOR TYPE : CCD REMARK 200 DETECTOR MANUFACTURER : RIGAKU CCD REMARK 200 INTENSITY-INTEGRATION SOFTWARE : HKL-2000 REMARK 200 DATA SCALING SOFTWARE : HKL-2000 REMARK 200 REMARK 200 NUMBER OF UNIQUE REFLECTIONS : 24411 REMARK 200 RESOLUTION RANGE HIGH (A) : 2.160 REMARK 200 RESOLUTION RANGE LOW (A) : 30.000 REMARK 200 REJECTION CRITERIA (SIGMA(I)) : 2.000 REMARK 200 REMARK 200 OVERALL. REMARK 200 COMPLETENESS FOR RANGE (%) : 99.8 REMARK 200 DATA REDUNDANCY : 3.500 REMARK 200 R MERGE (I) : 0.10000 REMARK 200 R SYM (I) : NULL REMARK 200 FOR THE DATA SET : 15.6000 REMARK 200 REMARK 200 IN THE HIGHEST RESOLUTION SHELL. REMARK 200 HIGHEST RESOLUTION SHELL, RANGE HIGH (A) : 2.16 REMARK 200 HIGHEST RESOLUTION SHELL, RANGE LOW (A) : 2.20 REMARK 200 COMPLETENESS FOR SHELL (%) : 99.5 REMARK 200 DATA REDUNDANCY IN SHELL : 3.40 REMARK 200 R MERGE FOR SHELL (I) : 0.46000 REMARK 200 R SYM FOR SHELL (I) : NULL REMARK 200 FOR SHELL : 3.400 REMARK 200 REMARK 200 DIFFRACTION PROTOCOL: SINGLE WAVELENGTH REMARK 200 METHOD USED TO DETERMINE THE STRUCTURE: MOLECULAR REPLACEMENT REMARK 200 SOFTWARE USED: NULL REMARK 200 STARTING MODEL: PDB ENTRY 2V7J REMARK 200 REMARK 200 REMARK: NONE REMARK 280 REMARK 280 CRYSTAL REMARK 280 SOLVENT CONTENT, VS (%): 57.97 REMARK 280 MATTHEWS COEFFICIENT, VM (ANGSTROMS**3/DA): 2.90 REMARK 280 REMARK 280 CRYSTALLIZATION CONDITIONS: 0.1M BIS-TRIS BUFFER PH 6.4, 10% REMARK 280 PEG3350, 0.2M MGSO4 REMARK 290 REMARK 290 CRYSTALLOGRAPHIC SYMMETRY REMARK 290 SYMMETRY OPERATORS FOR SPACE GROUP: C 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 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 34.19600 REMARK 290 SMTRY2 3 0.000000 1.000000 0.000000 39.72050 REMARK 290 SMTRY3 3 0.000000 0.000000 1.000000 0.00000 REMARK 290 SMTRY1 4 -1.000000 0.000000 0.000000 34.19600 REMARK 290 SMTRY2 4 0.000000 1.000000 0.000000 39.72050 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: MONOMERIC REMARK 350 SOFTWARE DETERMINED QUATERNARY STRUCTURE: MONOMERIC REMARK 350 SOFTWARE USED: PISA 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 400 REMARK 400 COMPOUND REMARK 400 ENGINEERED RESIDUE IN CHAIN A, CYS 21 TO SER REMARK 400 ENGINEERED RESIDUE IN CHAIN A, CYS 60 TO SER REMARK 400 ENGINEERED RESIDUE IN CHAIN A, CYS 175 TO SER 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 GLU A 2 REMARK 465 ARG A 3 REMARK 465 GLY A 324 REMARK 465 GLN A 325 REMARK 465 SER A 326 REMARK 465 GLY A 327 REMARK 465 PRO A 328 REMARK 465 ASP A 359 REMARK 465 GLU A 360 REMARK 465 SER A 361 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 OE1 GLN A 183 NH2 ARG A 308 2.16 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 O HOH A 2157 O HOH A 2157 2555 2.05 REMARK 500 O HOH A 2172 O HOH A 2172 2555 2.08 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 LEU A 5 56.46 -93.26 REMARK 500 PRO A 110 46.06 -85.52 REMARK 500 THR A 118 -89.17 -115.59 REMARK 500 PRO A 228 29.03 -75.32 REMARK 500 REMARK 500 REMARK: NULL REMARK 525 REMARK 525 SOLVENT REMARK 525 REMARK 525 THE SOLVENT MOLECULES HAVE CHAIN IDENTIFIERS THAT REMARK 525 INDICATE THE POLYMER CHAIN WITH WHICH THEY ARE MOST REMARK 525 CLOSELY ASSOCIATED. THE REMARK LISTS ALL THE SOLVENT REMARK 525 MOLECULES WHICH ARE MORE THAN 5A AWAY FROM THE REMARK 525 NEAREST POLYMER CHAIN (M = MODEL NUMBER; REMARK 525 RES=RESIDUE NAME; C=CHAIN IDENTIFIER; SSEQ=SEQUENCE REMARK 525 NUMBER; I=INSERTION CODE): REMARK 525 REMARK 525 M RES CSSEQI REMARK 525 HOH A2006 DISTANCE = 6.01 ANGSTROMS REMARK 525 HOH A2055 DISTANCE = 6.03 ANGSTROMS REMARK 620 REMARK 620 METAL COORDINATION REMARK 620 (M=MODEL NUMBER; RES=RESIDUE NAME; C=CHAIN IDENTIFIER; REMARK 620 SSEQ=SEQUENCE NUMBER; I=INSERTION CODE): REMARK 620 REMARK 620 COORDINATION ANGLES FOR: M RES CSSEQI METAL REMARK 620 HEM A1359 FE REMARK 620 N RES CSSEQI ATOM REMARK 620 1 HIS A 313 NE2 REMARK 620 2 HEM A1359 NA 91.4 REMARK 620 3 HEM A1359 NB 93.1 91.8 REMARK 620 4 HEM A1359 NC 88.6 179.1 89.0 REMARK 620 5 HEM A1359 ND 87.0 90.3 177.8 88.8 REMARK 620 6 CYN A1363 C 169.8 90.1 96.9 89.7 82.9 REMARK 620 N 1 2 3 4 5 REMARK 800 REMARK 800 SITE REMARK 800 SITE_IDENTIFIER: AC1 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE HEM A 1359 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC2 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE TRP A 1360 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC3 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE SO4 A 1361 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC4 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE SO4 A 1362 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC5 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE CYN A 1363 REMARK 900 REMARK 900 RELATED ENTRIES REMARK 900 RELATED ID: 2V7I RELATED DB: PDB REMARK 900 PRNB NATIVE REMARK 900 RELATED ID: 2V7K RELATED DB: PDB REMARK 900 PRNB D-TRYPTOPHAN COMPLEX REMARK 900 RELATED ID: 2V7M RELATED DB: PDB REMARK 900 PRNB 7-CL-D-TRYPTOPHAN COMPLEX REMARK 900 RELATED ID: 2V7L RELATED DB: PDB REMARK 900 PRNB 7CL-L-TRYPTOPHAN COMPLEX REMARK 900 RELATED ID: 2V7J RELATED DB: PDB REMARK 900 PRNB L-TRYPTOPHAN COMPLEX REMARK 900 RELATED ID: 2X66 RELATED DB: PDB REMARK 900 THE BINARY COMPLEX OF PRNB (THE SECOND ENZYME IN PYRROLNITRIN REMARK 900 BIOSYNTHESIS PATHWAY) AND CYANIDE REMARK 900 RELATED ID: 2X68 RELATED DB: PDB REMARK 900 THE TERNARY COMPLEX OF PRNB (THE SECOND ENZYME IN PYRROLNITRIN REMARK 900 BIOSYNTHESIS PATHWAY), 7-CL-L-TRYPTOPHAN AND CYANIDE DBREF 2X67 A 1 361 UNP P95481 P95481_PSEFL 1 361 SEQADV 2X67 SER A 21 UNP P95481 CYS 21 ENGINEERED MUTATION SEQADV 2X67 SER A 60 UNP P95481 CYS 60 ENGINEERED MUTATION SEQADV 2X67 SER A 175 UNP P95481 CYS 175 ENGINEERED MUTATION SEQRES 1 A 361 MET GLU ARG THR LEU ASP ARG VAL GLY VAL PHE ALA ALA SEQRES 2 A 361 THR HIS ALA ALA VAL ALA ALA SER ASP PRO LEU GLN ALA SEQRES 3 A 361 ARG ALA LEU VAL LEU GLN LEU PRO GLY LEU ASN ARG ASN SEQRES 4 A 361 LYS ASP VAL PRO GLY ILE VAL GLY LEU LEU ARG GLU PHE SEQRES 5 A 361 LEU PRO VAL ARG GLY LEU PRO SER GLY TRP GLY PHE VAL SEQRES 6 A 361 GLU ALA ALA ALA ALA MET ARG ASP ILE GLY PHE PHE LEU SEQRES 7 A 361 GLY SER LEU LYS ARG HIS GLY HIS GLU PRO ALA GLU VAL SEQRES 8 A 361 VAL PRO GLY LEU GLU PRO VAL LEU LEU ASP LEU ALA ARG SEQRES 9 A 361 ALA THR ASN LEU PRO PRO ARG GLU THR LEU LEU HIS VAL SEQRES 10 A 361 THR VAL TRP ASN PRO THR ALA ALA ASP ALA GLN ARG SER SEQRES 11 A 361 TYR THR GLY LEU PRO ASP GLU ALA HIS LEU LEU GLU SER SEQRES 12 A 361 VAL ARG ILE SER MET ALA ALA LEU GLU ALA ALA ILE ALA SEQRES 13 A 361 LEU THR VAL GLU LEU PHE ASP VAL SER LEU ARG SER PRO SEQRES 14 A 361 GLU PHE ALA GLN ARG SER ASP GLU LEU GLU ALA TYR LEU SEQRES 15 A 361 GLN LYS MET VAL GLU SER ILE VAL TYR ALA TYR ARG PHE SEQRES 16 A 361 ILE SER PRO GLN VAL PHE TYR ASP GLU LEU ARG PRO PHE SEQRES 17 A 361 TYR GLU PRO ILE ARG VAL GLY GLY GLN SER TYR LEU GLY SEQRES 18 A 361 PRO GLY ALA VAL GLU MET PRO LEU PHE VAL LEU GLU HIS SEQRES 19 A 361 VAL LEU TRP GLY SER GLN SER ASP ASP GLN THR TYR ARG SEQRES 20 A 361 GLU PHE LYS GLU THR TYR LEU PRO TYR VAL LEU PRO ALA SEQRES 21 A 361 TYR ARG ALA VAL TYR ALA ARG PHE SER GLY GLU PRO ALA SEQRES 22 A 361 LEU ILE ASP ARG ALA LEU ASP GLU ALA ARG ALA VAL GLY SEQRES 23 A 361 THR ARG ASP GLU HIS VAL ARG ALA GLY LEU THR ALA LEU SEQRES 24 A 361 GLU ARG VAL PHE LYS VAL LEU LEU ARG PHE ARG ALA PRO SEQRES 25 A 361 HIS LEU LYS LEU ALA GLU ARG ALA TYR GLU VAL GLY GLN SEQRES 26 A 361 SER GLY PRO GLU ILE GLY SER GLY GLY TYR ALA PRO SER SEQRES 27 A 361 MET LEU GLY GLU LEU LEU THR LEU THR TYR ALA ALA ARG SEQRES 28 A 361 SER ARG VAL ARG ALA ALA LEU ASP GLU SER HET HEM A1359 43 HET TRP A1360 15 HET SO4 A1361 5 HET SO4 A1362 5 HET CYN A1363 2 HETNAM HEM PROTOPORPHYRIN IX CONTAINING FE HETNAM TRP TRYPTOPHAN HETNAM SO4 SULFATE ION HETNAM CYN CYANIDE ION HETSYN HEM HEME FORMUL 2 HEM C34 H32 FE N4 O4 FORMUL 3 TRP C11 H12 N2 O2 FORMUL 4 SO4 2(O4 S 2-) FORMUL 6 CYN C N 1- FORMUL 7 HOH *304(H2 O) HELIX 1 1 ARG A 7 ALA A 20 1 14 HELIX 2 2 ALA A 26 LEU A 31 1 6 HELIX 3 3 GLN A 32 ASN A 39 1 8 HELIX 4 4 ASP A 41 GLU A 51 1 11 HELIX 5 5 GLY A 63 HIS A 84 1 22 HELIX 6 6 GLU A 87 VAL A 92 1 6 HELIX 7 7 GLY A 94 ASN A 107 1 14 HELIX 8 8 THR A 113 THR A 118 1 6 HELIX 9 9 LEU A 134 ASP A 163 1 30 HELIX 10 10 SER A 168 ILE A 196 1 29 HELIX 11 11 SER A 197 LEU A 205 1 9 HELIX 12 12 ARG A 206 GLU A 210 5 5 HELIX 13 13 GLY A 223 MET A 227 5 5 HELIX 14 14 PRO A 228 TRP A 237 1 10 HELIX 15 15 ASP A 243 LEU A 254 1 12 HELIX 16 16 PRO A 255 VAL A 257 5 3 HELIX 17 17 LEU A 258 SER A 269 1 12 HELIX 18 18 ALA A 273 GLY A 286 1 14 HELIX 19 19 ASP A 289 GLU A 322 1 34 HELIX 20 20 PRO A 337 LEU A 358 1 22 SHEET 1 AA 2 ILE A 212 VAL A 214 0 SHEET 2 AA 2 GLN A 217 TYR A 219 -1 O GLN A 217 N VAL A 214 LINK NE2 HIS A 313 FE HEM A1359 1555 1555 2.06 LINK FE HEM A1359 C CYN A1363 1555 1555 2.03 SITE 1 AC1 23 SER A 143 SER A 188 ILE A 189 PHE A 201 SITE 2 AC1 23 ALA A 224 MET A 227 PHE A 249 PHE A 309 SITE 3 AC1 23 ARG A 310 HIS A 313 LEU A 316 ALA A 317 SITE 4 AC1 23 ALA A 320 GLY A 331 SER A 332 GLY A 333 SITE 5 AC1 23 GLY A 334 TYR A 335 LEU A 343 TRP A1360 SITE 6 AC1 23 CYN A1363 HOH A2299 HOH A2300 SITE 1 AC2 12 LEU A 140 PHE A 201 ARG A 206 TYR A 209 SITE 2 AC2 12 PRO A 222 GLY A 223 ALA A 224 TYR A 321 SITE 3 AC2 12 GLY A 331 SER A 332 HEM A1359 CYN A1363 SITE 1 AC3 4 ARG A 104 ARG A 262 HOH A2301 HOH A2302 SITE 1 AC4 3 ARG A 213 GLY A 216 HOH A2303 SITE 1 AC5 5 GLY A 223 ALA A 224 VAL A 225 HEM A1359 SITE 2 AC5 5 TRP A1360 CRYST1 68.392 79.441 92.058 90.00 103.17 90.00 C 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 0.014622 0.000000 0.003421 0.00000 SCALE2 0.000000 0.012588 0.000000 0.00000 SCALE3 0.000000 0.000000 0.011156 0.00000