HEADER HYDROLASE/HYDROLASE INHIBITOR 18-AUG-15 5D9J TITLE 2009 H1N1 PA ENDONUCLEASE MUTANT F105S IN COMPLEX WITH L-742,001 COMPND MOL_ID: 1; COMPND 2 MOLECULE: POLYMERASE ACIDIC PROTEIN; COMPND 3 CHAIN: A; COMPND 4 FRAGMENT: ENDONUCLEASE DOMAIN (UNP RESIDUES 1-50, 73-196 CONNECTED BY COMPND 5 GGS LINKER); COMPND 6 SYNONYM: PA ENDONUCLEASE; COMPND 7 ENGINEERED: YES; COMPND 8 MUTATION: YES SOURCE MOL_ID: 1; SOURCE 2 ORGANISM_SCIENTIFIC: INFLUENZA A VIRUS; SOURCE 3 ORGANISM_TAXID: 641501; SOURCE 4 STRAIN: SWL A/CALIFORNIA/04/2009 H1N1; SOURCE 5 GENE: PA; SOURCE 6 EXPRESSION_SYSTEM: ESCHERICHIA COLI BL21(DE3); SOURCE 7 EXPRESSION_SYSTEM_TAXID: 469008; SOURCE 8 EXPRESSION_SYSTEM_VECTOR_TYPE: PLASMID; SOURCE 9 EXPRESSION_SYSTEM_PLASMID: PET52B KEYWDS INFLUENZA, RESISTANCE, ENDONUCLEASE INHIBITOR, VIRAL PROTEIN, KEYWDS 2 HYDROLASE-HYDROLASE INHIBITOR COMPLEX EXPDTA X-RAY DIFFRACTION AUTHOR G.KUMAR,S.W.WHITE REVDAT 6 27-SEP-23 5D9J 1 LINK REVDAT 5 11-DEC-19 5D9J 1 REMARK REVDAT 4 13-SEP-17 5D9J 1 JRNL REMARK REVDAT 3 13-APR-16 5D9J 1 JRNL REVDAT 2 30-MAR-16 5D9J 1 JRNL REVDAT 1 16-MAR-16 5D9J 0 JRNL AUTH M.S.SONG,G.KUMAR,W.R.SHADRICK,W.ZHOU,T.JEEVAN,Z.LI, JRNL AUTH 2 P.J.SLAVISH,T.P.FABRIZIO,S.W.YOON,T.R.WEBB,R.J.WEBBY, JRNL AUTH 3 S.W.WHITE JRNL TITL IDENTIFICATION AND CHARACTERIZATION OF INFLUENZA VARIANTS JRNL TITL 2 RESISTANT TO A VIRAL ENDONUCLEASE INHIBITOR. JRNL REF PROC.NATL.ACAD.SCI.USA V. 113 3669 2016 JRNL REFN ESSN 1091-6490 JRNL PMID 26976575 JRNL DOI 10.1073/PNAS.1519772113 REMARK 2 REMARK 2 RESOLUTION. 1.85 ANGSTROMS. REMARK 3 REMARK 3 REFINEMENT. REMARK 3 PROGRAM : REFMAC 5.8.0124 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) : 1.85 REMARK 3 RESOLUTION RANGE LOW (ANGSTROMS) : 35.41 REMARK 3 DATA CUTOFF (SIGMA(F)) : 0.000 REMARK 3 COMPLETENESS FOR RANGE (%) : 99.8 REMARK 3 NUMBER OF REFLECTIONS : 16871 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) : 0.185 REMARK 3 R VALUE (WORKING SET) : 0.183 REMARK 3 FREE R VALUE : 0.230 REMARK 3 FREE R VALUE TEST SET SIZE (%) : 5.400 REMARK 3 FREE R VALUE TEST SET COUNT : 960 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) : 1.85 REMARK 3 BIN RESOLUTION RANGE LOW (A) : 1.90 REMARK 3 REFLECTION IN BIN (WORKING SET) : 1231 REMARK 3 BIN COMPLETENESS (WORKING+TEST) (%) : 98.33 REMARK 3 BIN R VALUE (WORKING SET) : 0.2490 REMARK 3 BIN FREE R VALUE SET COUNT : 63 REMARK 3 BIN FREE R VALUE : 0.3070 REMARK 3 REMARK 3 NUMBER OF NON-HYDROGEN ATOMS USED IN REFINEMENT. REMARK 3 PROTEIN ATOMS : 1413 REMARK 3 NUCLEIC ACID ATOMS : 0 REMARK 3 HETEROGEN ATOMS : 24 REMARK 3 SOLVENT ATOMS : 64 REMARK 3 REMARK 3 B VALUES. REMARK 3 FROM WILSON PLOT (A**2) : NULL REMARK 3 MEAN B VALUE (OVERALL, A**2) : 42.08 REMARK 3 OVERALL ANISOTROPIC B VALUE. REMARK 3 B11 (A**2) : 0.06000 REMARK 3 B22 (A**2) : 0.06000 REMARK 3 B33 (A**2) : -0.20000 REMARK 3 B12 (A**2) : 0.03000 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): 0.128 REMARK 3 ESU BASED ON FREE R VALUE (A): 0.129 REMARK 3 ESU BASED ON MAXIMUM LIKELIHOOD (A): 0.106 REMARK 3 ESU FOR B VALUES BASED ON MAXIMUM LIKELIHOOD (A**2): 6.202 REMARK 3 REMARK 3 CORRELATION COEFFICIENTS. REMARK 3 CORRELATION COEFFICIENT FO-FC : 0.968 REMARK 3 CORRELATION COEFFICIENT FO-FC FREE : 0.950 REMARK 3 REMARK 3 RMS DEVIATIONS FROM IDEAL VALUES COUNT RMS WEIGHT REMARK 3 BOND LENGTHS REFINED ATOMS (A): 1464 ; 0.029 ; 0.019 REMARK 3 BOND LENGTHS OTHERS (A): 1344 ; 0.004 ; 0.020 REMARK 3 BOND ANGLES REFINED ATOMS (DEGREES): 1975 ; 2.615 ; 1.960 REMARK 3 BOND ANGLES OTHERS (DEGREES): 3080 ; 1.288 ; 3.000 REMARK 3 TORSION ANGLES, PERIOD 1 (DEGREES): 178 ; 6.395 ; 5.000 REMARK 3 TORSION ANGLES, PERIOD 2 (DEGREES): 67 ;35.532 ;22.687 REMARK 3 TORSION ANGLES, PERIOD 3 (DEGREES): 250 ;15.554 ;15.000 REMARK 3 TORSION ANGLES, PERIOD 4 (DEGREES): 13 ;17.892 ;15.000 REMARK 3 CHIRAL-CENTER RESTRAINTS (A**3): 215 ; 0.170 ; 0.200 REMARK 3 GENERAL PLANES REFINED ATOMS (A): 1642 ; 0.014 ; 0.020 REMARK 3 GENERAL PLANES OTHERS (A): 349 ; 0.002 ; 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): 715 ; 2.362 ; 2.612 REMARK 3 MAIN-CHAIN BOND OTHER ATOMS (A**2): 714 ; 2.359 ; 2.608 REMARK 3 MAIN-CHAIN ANGLE REFINED ATOMS (A**2): 892 ; 3.298 ; 3.899 REMARK 3 MAIN-CHAIN ANGLE OTHER ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 SIDE-CHAIN BOND REFINED ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 SIDE-CHAIN BOND OTHER ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 SIDE-CHAIN ANGLE REFINED ATOMS (A**2): NULL ; NULL ; NULL 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 : 2 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 180 REMARK 3 ORIGIN FOR THE GROUP (A): 82.7650 88.3615 0.5986 REMARK 3 T TENSOR REMARK 3 T11: 0.2505 T22: 0.1322 REMARK 3 T33: 0.0289 T12: -0.1018 REMARK 3 T13: 0.0172 T23: 0.0049 REMARK 3 L TENSOR REMARK 3 L11: 0.7611 L22: 1.9908 REMARK 3 L33: 0.8854 L12: -0.0412 REMARK 3 L13: -0.4250 L23: 0.4488 REMARK 3 S TENSOR REMARK 3 S11: -0.1864 S12: -0.1005 S13: -0.0294 REMARK 3 S21: -0.0114 S22: 0.2957 S23: -0.0049 REMARK 3 S31: 0.0095 S32: 0.1374 S33: -0.1093 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 : C 1 C 1 REMARK 3 ORIGIN FOR THE GROUP (A): 84.5688 88.0953 8.4652 REMARK 3 T TENSOR REMARK 3 T11: 0.0970 T22: 0.0850 REMARK 3 T33: 0.1031 T12: -0.0383 REMARK 3 T13: -0.0263 T23: 0.0311 REMARK 3 L TENSOR REMARK 3 L11: 12.1493 L22: 1.4557 REMARK 3 L33: 5.4852 L12: -0.3279 REMARK 3 L13: -7.5186 L23: -0.8628 REMARK 3 S TENSOR REMARK 3 S11: 0.2082 S12: -0.5758 S13: 0.0839 REMARK 3 S21: 0.0245 S22: -0.0679 S23: 0.1961 REMARK 3 S31: -0.1743 S32: 0.4619 S33: -0.1402 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: HYDROGENS HAVE BEEN ADDED IN THE RIDING REMARK 3 POSITIONS U VALUES : WITH TLS ADDED REMARK 4 REMARK 4 5D9J COMPLIES WITH FORMAT V. 3.30, 13-JUL-11 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY RCSB ON 25-AUG-15. REMARK 100 THE DEPOSITION ID IS D_1000212793. REMARK 200 REMARK 200 EXPERIMENTAL DETAILS REMARK 200 EXPERIMENT TYPE : X-RAY DIFFRACTION REMARK 200 DATE OF DATA COLLECTION : 09-AUG-14 REMARK 200 TEMPERATURE (KELVIN) : 100 REMARK 200 PH : 7.0 REMARK 200 NUMBER OF CRYSTALS USED : 1 REMARK 200 REMARK 200 SYNCHROTRON (Y/N) : Y REMARK 200 RADIATION SOURCE : APS REMARK 200 BEAMLINE : 22-ID 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 : DOUBLE CRYSTAL SI(111) REMARK 200 OPTICS : NULL REMARK 200 REMARK 200 DETECTOR TYPE : CCD REMARK 200 DETECTOR MANUFACTURER : RAYONIX MX300-HS REMARK 200 INTENSITY-INTEGRATION SOFTWARE : HKL-2000 REMARK 200 DATA SCALING SOFTWARE : HKL-2000 REMARK 200 REMARK 200 NUMBER OF UNIQUE REFLECTIONS : 17865 REMARK 200 RESOLUTION RANGE HIGH (A) : 1.850 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 (%) : 100.0 REMARK 200 DATA REDUNDANCY : 18.80 REMARK 200 R MERGE (I) : 0.06300 REMARK 200 R SYM (I) : NULL REMARK 200 FOR THE DATA SET : 10.3000 REMARK 200 REMARK 200 IN THE HIGHEST RESOLUTION SHELL. REMARK 200 HIGHEST RESOLUTION SHELL, RANGE HIGH (A) : 1.85 REMARK 200 HIGHEST RESOLUTION SHELL, RANGE LOW (A) : 1.92 REMARK 200 COMPLETENESS FOR SHELL (%) : 100.0 REMARK 200 DATA REDUNDANCY IN SHELL : 15.70 REMARK 200 R MERGE FOR SHELL (I) : 0.88300 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: PHASER REMARK 200 STARTING MODEL: PDB ENTRY 4E5E REMARK 200 REMARK 200 REMARK: NULL REMARK 280 REMARK 280 CRYSTAL REMARK 280 SOLVENT CONTENT, VS (%): 47.00 REMARK 280 MATTHEWS COEFFICIENT, VM (ANGSTROMS**3/DA): 2.32 REMARK 280 REMARK 280 CRYSTALLIZATION CONDITIONS: 0.8 M SUCCINIC ACID, PH 7.0, 5 MM REMARK 280 MAGNESIUM CHLORIDE, 5 MM MANGANESE CHLORIDE, VAPOR DIFFUSION, REMARK 280 HANGING DROP, TEMPERATURE 291K REMARK 290 REMARK 290 CRYSTALLOGRAPHIC SYMMETRY REMARK 290 SYMMETRY OPERATORS FOR SPACE GROUP: P 32 2 1 REMARK 290 REMARK 290 SYMOP SYMMETRY REMARK 290 NNNMMM OPERATOR REMARK 290 1555 X,Y,Z REMARK 290 2555 -Y,X-Y,Z+2/3 REMARK 290 3555 -X+Y,-X,Z+1/3 REMARK 290 4555 Y,X,-Z REMARK 290 5555 X-Y,-Y,-Z+1/3 REMARK 290 6555 -X,-X+Y,-Z+2/3 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 -0.500000 -0.866025 0.000000 0.00000 REMARK 290 SMTRY2 2 0.866025 -0.500000 0.000000 0.00000 REMARK 290 SMTRY3 2 0.000000 0.000000 1.000000 63.98667 REMARK 290 SMTRY1 3 -0.500000 0.866025 0.000000 0.00000 REMARK 290 SMTRY2 3 -0.866025 -0.500000 0.000000 0.00000 REMARK 290 SMTRY3 3 0.000000 0.000000 1.000000 31.99333 REMARK 290 SMTRY1 4 -0.500000 0.866025 0.000000 0.00000 REMARK 290 SMTRY2 4 0.866025 0.500000 0.000000 0.00000 REMARK 290 SMTRY3 4 0.000000 0.000000 -1.000000 0.00000 REMARK 290 SMTRY1 5 1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY2 5 0.000000 -1.000000 0.000000 0.00000 REMARK 290 SMTRY3 5 0.000000 0.000000 -1.000000 31.99333 REMARK 290 SMTRY1 6 -0.500000 -0.866025 0.000000 0.00000 REMARK 290 SMTRY2 6 -0.866025 0.500000 0.000000 0.00000 REMARK 290 SMTRY3 6 0.000000 0.000000 -1.000000 63.98667 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 TOTAL BURIED SURFACE AREA: 150 ANGSTROM**2 REMARK 350 SURFACE AREA OF THE COMPLEX: 9230 ANGSTROM**2 REMARK 350 CHANGE IN SOLVENT FREE ENERGY: -7.0 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 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 ALA A 180 REMARK 465 GLU A 181 REMARK 465 LEU A 182 REMARK 465 ALA A 183 REMARK 465 LEU A 184 REMARK 465 VAL A 185 REMARK 465 PRO A 186 REMARK 465 ARG A 187 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 GLU A 2 CG CD OE1 OE2 REMARK 470 ASP A 3 CG OD1 OD2 REMARK 470 GLN A 7 CG CD OE1 NE2 REMARK 470 LYS A 22 CG CD CE NZ REMARK 470 LYS A 29 CG CD CE NZ REMARK 470 ILE A 30 CG1 CG2 CD1 REMARK 470 HIS A 55 CG ND1 CD2 CE1 NE2 REMARK 470 ARG A 65 CG CD NE CZ NH1 NH2 REMARK 470 LYS A 118 CE NZ REMARK 470 LYS A 120 CG CD CE NZ REMARK 470 GLU A 122 CG CD OE1 OE2 REMARK 470 LYS A 123 CE NZ REMARK 470 GLU A 147 CG CD OE1 OE2 REMARK 470 GLN A 161 CG CD OE1 NE2 REMARK 470 GLU A 162 CG CD OE1 OE2 REMARK 470 GLN A 174 CG CD OE1 NE2 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 CYS A 8 CB CYS A 8 SG 0.110 REMARK 500 TYR A 24 CE1 TYR A 24 CZ 0.092 REMARK 500 GLU A 43 CD GLU A 43 OE2 -0.068 REMARK 500 GLU A 61 CD GLU A 61 OE1 0.070 REMARK 500 ARG A 105 CD ARG A 105 NE -0.118 REMARK 500 TYR A 112 CG TYR A 112 CD2 -0.104 REMARK 500 TYR A 112 CE1 TYR A 112 CZ -0.096 REMARK 500 SER A 130 CA SER A 130 CB 0.097 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 MET A 67 CG - SD - CE ANGL. DEV. = -11.4 DEGREES REMARK 500 ASP A 89 CB - CG - OD2 ANGL. DEV. = 8.6 DEGREES REMARK 500 ARG A 105 NE - CZ - NH1 ANGL. DEV. = 8.4 DEGREES REMARK 500 ARG A 105 NE - CZ - NH2 ANGL. DEV. = -8.0 DEGREES REMARK 500 ARG A 106 NE - CZ - NH1 ANGL. DEV. = 3.1 DEGREES REMARK 500 MET A 136 CG - SD - CE ANGL. DEV. = -12.4 DEGREES REMARK 500 ASP A 145 CB - CG - OD1 ANGL. DEV. = 6.0 DEGREES REMARK 500 GLU A 146 N - CA - CB ANGL. DEV. = -10.8 DEGREES REMARK 500 ARG A 149 NE - CZ - NH1 ANGL. DEV. = 5.9 DEGREES REMARK 500 ARG A 149 NE - CZ - NH2 ANGL. DEV. = -9.5 DEGREES REMARK 500 ARG A 177 NE - CZ - NH1 ANGL. DEV. = 3.4 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 ARG A 106 -166.38 -102.95 REMARK 500 THR A 143 -57.32 69.14 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 0N8 A 203 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 MN A 201 MN REMARK 620 N RES CSSEQI ATOM REMARK 620 1 HIS A 41 NE2 REMARK 620 2 ASP A 89 OD2 97.8 REMARK 620 3 GLU A 100 OE2 174.6 86.5 REMARK 620 4 ILE A 101 O 89.8 91.8 86.7 REMARK 620 5 0N8 A 203 O25 89.3 171.2 86.7 93.4 REMARK 620 6 0N8 A 203 O28 91.9 99.7 90.6 168.0 74.7 REMARK 620 N 1 2 3 4 5 REMARK 620 REMARK 620 COORDINATION ANGLES FOR: M RES CSSEQI METAL REMARK 620 MN A 202 MN REMARK 620 N RES CSSEQI ATOM REMARK 620 1 GLU A 61 OE2 REMARK 620 2 ASP A 89 OD1 89.1 REMARK 620 3 0N8 A 203 O28 102.9 93.6 REMARK 620 4 0N8 A 203 O27 88.2 176.0 84.2 REMARK 620 5 HOH A 313 O 86.9 92.3 168.6 90.4 REMARK 620 6 HOH A 333 O 169.7 89.3 87.3 93.9 83.0 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 MN A 201 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC2 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue MN A 202 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC3 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue 0N8 A 203 REMARK 900 REMARK 900 RELATED ENTRIES REMARK 900 RELATED ID: 5CGV RELATED DB: PDB REMARK 900 RELATED ID: 5CCY RELATED DB: PDB REMARK 900 RELATED ID: 5CL0 RELATED DB: PDB REMARK 900 RELATED ID: 5D2O RELATED DB: PDB REMARK 900 RELATED ID: 5D42 RELATED DB: PDB REMARK 900 RELATED ID: 5D4G RELATED DB: PDB REMARK 900 RELATED ID: 5CZN RELATED DB: PDB REMARK 900 RELATED ID: 5D8U RELATED DB: PDB DBREF 5D9J A 1 50 UNP C3W5S0 C3W5S0_I09A0 1 50 DBREF 5D9J A 54 177 UNP C3W5S0 C3W5S0_I09A0 73 196 SEQADV 5D9J GLY A 51 UNP C3W5S0 LINKER SEQADV 5D9J GLY A 52 UNP C3W5S0 LINKER SEQADV 5D9J SER A 53 UNP C3W5S0 LINKER SEQADV 5D9J SER A 86 UNP C3W5S0 PHE 105 ENGINEERED MUTATION SEQADV 5D9J ALA A 178 UNP C3W5S0 EXPRESSION TAG SEQADV 5D9J ALA A 179 UNP C3W5S0 EXPRESSION TAG SEQADV 5D9J ALA A 180 UNP C3W5S0 EXPRESSION TAG SEQADV 5D9J GLU A 181 UNP C3W5S0 EXPRESSION TAG SEQADV 5D9J LEU A 182 UNP C3W5S0 EXPRESSION TAG SEQADV 5D9J ALA A 183 UNP C3W5S0 EXPRESSION TAG SEQADV 5D9J LEU A 184 UNP C3W5S0 EXPRESSION TAG SEQADV 5D9J VAL A 185 UNP C3W5S0 EXPRESSION TAG SEQADV 5D9J PRO A 186 UNP C3W5S0 EXPRESSION TAG SEQADV 5D9J ARG A 187 UNP C3W5S0 EXPRESSION TAG SEQRES 1 A 187 MET GLU ASP PHE VAL ARG GLN CYS PHE ASN PRO MET ILE SEQRES 2 A 187 VAL GLU LEU ALA GLU LYS ALA MET LYS GLU TYR GLY GLU SEQRES 3 A 187 ASP PRO LYS ILE GLU THR ASN LYS PHE ALA ALA ILE CYS SEQRES 4 A 187 THR HIS LEU GLU VAL CYS PHE MET TYR SER ASP GLY GLY SEQRES 5 A 187 SER LYS HIS ARG PHE GLU ILE ILE GLU GLY ARG ASP ARG SEQRES 6 A 187 ILE MET ALA TRP THR VAL VAL ASN SER ILE CYS ASN THR SEQRES 7 A 187 THR GLY VAL GLU LYS PRO LYS SER LEU PRO ASP LEU TYR SEQRES 8 A 187 ASP TYR LYS GLU ASN ARG PHE ILE GLU ILE GLY VAL THR SEQRES 9 A 187 ARG ARG GLU VAL HIS ILE TYR TYR LEU GLU LYS ALA ASN SEQRES 10 A 187 LYS ILE LYS SER GLU LYS THR HIS ILE HIS ILE PHE SER SEQRES 11 A 187 PHE THR GLY GLU GLU MET ALA THR LYS ALA ASP TYR THR SEQRES 12 A 187 LEU ASP GLU GLU SER ARG ALA ARG ILE LYS THR ARG LEU SEQRES 13 A 187 PHE THR ILE ARG GLN GLU MET ALA SER ARG SER LEU TRP SEQRES 14 A 187 ASP SER PHE ARG GLN SER GLU ARG ALA ALA ALA GLU LEU SEQRES 15 A 187 ALA LEU VAL PRO ARG HET MN A 201 1 HET MN A 202 1 HET 0N8 A 203 22 HETNAM MN MANGANESE (II) ION HETNAM 0N8 (2Z)-4-[1-BENZYL-4-(4-CHLOROBENZYL)PIPERIDIN-4-YL]-2- HETNAM 2 0N8 HYDROXY-4-OXOBUT-2-ENOIC ACID FORMUL 2 MN 2(MN 2+) FORMUL 4 0N8 C23 H24 CL N O4 FORMUL 5 HOH *64(H2 O) HELIX 1 AA1 MET A 1 PHE A 9 1 9 HELIX 2 AA2 ASN A 10 TYR A 24 1 15 HELIX 3 AA3 GLU A 31 GLY A 51 1 21 HELIX 4 AA4 ASP A 64 GLY A 80 1 17 HELIX 5 AA5 GLU A 107 LYS A 120 1 14 HELIX 6 AA6 LYS A 139 ASP A 141 5 3 HELIX 7 AA7 ASP A 145 ARG A 166 1 22 HELIX 8 AA8 LEU A 168 ALA A 179 1 12 SHEET 1 AA1 5 PHE A 57 ILE A 59 0 SHEET 2 AA1 5 LEU A 90 ASP A 92 -1 O TYR A 91 N GLU A 58 SHEET 3 AA1 5 ARG A 97 THR A 104 -1 O ARG A 97 N ASP A 92 SHEET 4 AA1 5 HIS A 125 SER A 130 1 O HIS A 127 N GLY A 102 SHEET 5 AA1 5 GLU A 135 ALA A 137 -1 O MET A 136 N ILE A 128 LINK NE2 HIS A 41 MN MN A 201 1555 1555 2.29 LINK OE2 GLU A 61 MN MN A 202 1555 1555 2.06 LINK OD2 ASP A 89 MN MN A 201 1555 1555 1.97 LINK OD1 ASP A 89 MN MN A 202 1555 1555 2.16 LINK OE2 GLU A 100 MN MN A 201 1555 1555 2.20 LINK O ILE A 101 MN MN A 201 1555 1555 2.22 LINK MN MN A 201 O25 0N8 A 203 1555 1555 1.91 LINK MN MN A 201 O28 0N8 A 203 1555 1555 2.18 LINK MN MN A 202 O28 0N8 A 203 1555 1555 2.13 LINK MN MN A 202 O27 0N8 A 203 1555 1555 2.04 LINK MN MN A 202 O HOH A 313 1555 1555 2.25 LINK MN MN A 202 O HOH A 333 1555 1555 1.96 SITE 1 AC1 5 HIS A 41 ASP A 89 GLU A 100 ILE A 101 SITE 2 AC1 5 0N8 A 203 SITE 1 AC2 5 GLU A 61 ASP A 89 0N8 A 203 HOH A 313 SITE 2 AC2 5 HOH A 333 SITE 1 AC3 12 ILE A 38 HIS A 41 GLU A 61 ASP A 89 SITE 2 AC3 12 GLU A 100 ILE A 101 LYS A 115 MN A 201 SITE 3 AC3 12 MN A 202 HOH A 313 HOH A 329 HOH A 333 CRYST1 60.585 60.585 95.980 90.00 90.00 120.00 P 32 2 1 6 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 0.016506 0.009530 0.000000 0.00000 SCALE2 0.000000 0.019059 0.000000 0.00000 SCALE3 0.000000 0.000000 0.010419 0.00000