HEADER VIRAL PROTEIN 25-MAR-20 6YEM TITLE H1N1 2009 PA ENDONUCLEASE IN COMPLEX WITH QUAMBALARINE B COMPND MOL_ID: 1; COMPND 2 MOLECULE: POLYMERASE ACIDIC PROTEIN,POLYMERASE ACIDIC PROTEIN; COMPND 3 CHAIN: A; COMPND 4 SYNONYM: RNA-DIRECTED RNA POLYMERASE SUBUNIT P2,RNA-DIRECTED RNA COMPND 5 POLYMERASE SUBUNIT P2; COMPND 6 EC: 3.1.-.-,3.1.-.-; COMPND 7 ENGINEERED: YES SOURCE MOL_ID: 1; SOURCE 2 ORGANISM_SCIENTIFIC: INFLUENZA A VIRUS (A/CALIFORNIA/07/2009(H1N1)); SOURCE 3 ORGANISM_TAXID: 641809; SOURCE 4 STRAIN: A/CALIFORNIA/07/2009(H1N1); SOURCE 5 GENE: PA; SOURCE 6 EXPRESSION_SYSTEM: ESCHERICHIA COLI BL21(DE3); SOURCE 7 EXPRESSION_SYSTEM_TAXID: 469008 KEYWDS INFLUENZA, POLYMERASE, ENDONUCLEASE, HYDROLASE, VIRAL PROTEIN EXPDTA X-RAY DIFFRACTION AUTHOR K.RADILOVA,J.BRYNDA REVDAT 3 24-JAN-24 6YEM 1 REMARK REVDAT 2 16-SEP-20 6YEM 1 JRNL REVDAT 1 09-SEP-20 6YEM 0 JRNL AUTH V.ZIMA,K.RADILOVA,M.KOZISEK,C.B.ALBINANA,E.KARLUKOVA, JRNL AUTH 2 J.BRYNDA,J.FANFRLIK,M.FLIEGER,J.HODEK,J.WEBER,P.MAJER, JRNL AUTH 3 J.KONVALINKA,A.MACHARA JRNL TITL UNRAVELING THE ANTI-INFLUENZA EFFECT OF FLAVONOIDS: JRNL TITL 2 EXPERIMENTAL VALIDATION OF LUTEOLIN AND ITS CONGENERS AS JRNL TITL 3 POTENT INFLUENZA ENDONUCLEASE INHIBITORS. JRNL REF EUR.J.MED.CHEM. V. 208 12754 2020 JRNL REFN ISSN 0223-5234 JRNL PMID 32883638 JRNL DOI 10.1016/J.EJMECH.2020.112754 REMARK 2 REMARK 2 RESOLUTION. 2.50 ANGSTROMS. REMARK 3 REMARK 3 REFINEMENT. REMARK 3 PROGRAM : REFMAC 5.8.0103 REMARK 3 AUTHORS : MURSHUDOV,SKUBAK,LEBEDEV,PANNU,STEINER, REMARK 3 : NICHOLLS,WINN,LONG,VAGIN REMARK 3 REMARK 3 REFINEMENT TARGET : NULL REMARK 3 REMARK 3 DATA USED IN REFINEMENT. REMARK 3 RESOLUTION RANGE HIGH (ANGSTROMS) : 2.50 REMARK 3 RESOLUTION RANGE LOW (ANGSTROMS) : 45.21 REMARK 3 DATA CUTOFF (SIGMA(F)) : 0.000 REMARK 3 COMPLETENESS FOR RANGE (%) : 99.7 REMARK 3 NUMBER OF REFLECTIONS : 7223 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) : 0.264 REMARK 3 R VALUE (WORKING SET) : 0.261 REMARK 3 FREE R VALUE : 0.318 REMARK 3 FREE R VALUE TEST SET SIZE (%) : 5.000 REMARK 3 FREE R VALUE TEST SET COUNT : 381 REMARK 3 REMARK 3 FIT IN THE HIGHEST RESOLUTION BIN. REMARK 3 TOTAL NUMBER OF BINS USED : NULL REMARK 3 BIN RESOLUTION RANGE HIGH (A) : 2.50 REMARK 3 BIN RESOLUTION RANGE LOW (A) : 2.56 REMARK 3 REFLECTION IN BIN (WORKING SET) : 515 REMARK 3 BIN COMPLETENESS (WORKING+TEST) (%) : 99.82 REMARK 3 BIN R VALUE (WORKING SET) : 0.2890 REMARK 3 BIN FREE R VALUE SET COUNT : 27 REMARK 3 BIN FREE R VALUE : 0.3930 REMARK 3 REMARK 3 NUMBER OF NON-HYDROGEN ATOMS USED IN REFINEMENT. REMARK 3 PROTEIN ATOMS : 1416 REMARK 3 NUCLEIC ACID ATOMS : 0 REMARK 3 HETEROGEN ATOMS : 26 REMARK 3 SOLVENT ATOMS : 19 REMARK 3 REMARK 3 B VALUES. REMARK 3 FROM WILSON PLOT (A**2) : 67.74 REMARK 3 MEAN B VALUE (OVERALL, A**2) : 75.53 REMARK 3 OVERALL ANISOTROPIC B VALUE. REMARK 3 B11 (A**2) : -0.10000 REMARK 3 B22 (A**2) : -0.10000 REMARK 3 B33 (A**2) : 0.34000 REMARK 3 B12 (A**2) : -0.05000 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): 0.698 REMARK 3 ESU BASED ON FREE R VALUE (A): 0.365 REMARK 3 ESU BASED ON MAXIMUM LIKELIHOOD (A): 0.327 REMARK 3 ESU FOR B VALUES BASED ON MAXIMUM LIKELIHOOD (A**2): 15.759 REMARK 3 REMARK 3 CORRELATION COEFFICIENTS. REMARK 3 CORRELATION COEFFICIENT FO-FC : 0.931 REMARK 3 CORRELATION COEFFICIENT FO-FC FREE : 0.898 REMARK 3 REMARK 3 RMS DEVIATIONS FROM IDEAL VALUES COUNT RMS WEIGHT REMARK 3 BOND LENGTHS REFINED ATOMS (A): 1481 ; 0.009 ; 0.019 REMARK 3 BOND LENGTHS OTHERS (A): 1341 ; 0.002 ; 0.020 REMARK 3 BOND ANGLES REFINED ATOMS (DEGREES): 1989 ; 1.248 ; 1.954 REMARK 3 BOND ANGLES OTHERS (DEGREES): 3078 ; 0.923 ; 3.000 REMARK 3 TORSION ANGLES, PERIOD 1 (DEGREES): 180 ; 5.837 ; 5.000 REMARK 3 TORSION ANGLES, PERIOD 2 (DEGREES): 70 ;34.317 ;22.714 REMARK 3 TORSION ANGLES, PERIOD 3 (DEGREES): 257 ;17.201 ;15.000 REMARK 3 TORSION ANGLES, PERIOD 4 (DEGREES): 13 ;15.885 ;15.000 REMARK 3 CHIRAL-CENTER RESTRAINTS (A**3): 206 ; 0.066 ; 0.200 REMARK 3 GENERAL PLANES REFINED ATOMS (A): 1660 ; 0.004 ; 0.020 REMARK 3 GENERAL PLANES OTHERS (A): 358 ; 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): NULL ; NULL ; NULL REMARK 3 MAIN-CHAIN BOND OTHER ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 MAIN-CHAIN ANGLE REFINED ATOMS (A**2): NULL ; NULL ; NULL 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 : NULL REMARK 3 REMARK 3 BULK SOLVENT MODELLING. REMARK 3 METHOD USED : NULL 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 : REFINED INDIVIDUALLY REMARK 4 REMARK 4 6YEM COMPLIES WITH FORMAT V. 3.30, 13-JUL-11 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY PDBE ON 25-MAR-20. REMARK 100 THE DEPOSITION ID IS D_1292107496. REMARK 200 REMARK 200 EXPERIMENTAL DETAILS REMARK 200 EXPERIMENT TYPE : X-RAY DIFFRACTION REMARK 200 DATE OF DATA COLLECTION : 06-MAR-20 REMARK 200 TEMPERATURE (KELVIN) : 100 REMARK 200 PH : 7.5 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) : 1.54187 REMARK 200 MONOCHROMATOR : NULL REMARK 200 OPTICS : NULL REMARK 200 REMARK 200 DETECTOR TYPE : PIXEL REMARK 200 DETECTOR MANUFACTURER : DECTRIS PILATUS 300K REMARK 200 INTENSITY-INTEGRATION SOFTWARE : XDS REMARK 200 DATA SCALING SOFTWARE : XSCALE REMARK 200 REMARK 200 NUMBER OF UNIQUE REFLECTIONS : 13432 REMARK 200 RESOLUTION RANGE HIGH (A) : 2.500 REMARK 200 RESOLUTION RANGE LOW (A) : 45.210 REMARK 200 REJECTION CRITERIA (SIGMA(I)) : NULL REMARK 200 REMARK 200 OVERALL. REMARK 200 COMPLETENESS FOR RANGE (%) : 99.7 REMARK 200 DATA REDUNDANCY : 4.671 REMARK 200 R MERGE (I) : 0.09500 REMARK 200 R SYM (I) : NULL REMARK 200 FOR THE DATA SET : 10.4100 REMARK 200 REMARK 200 IN THE HIGHEST RESOLUTION SHELL. REMARK 200 HIGHEST RESOLUTION SHELL, RANGE HIGH (A) : 2.50 REMARK 200 HIGHEST RESOLUTION SHELL, RANGE LOW (A) : 2.65 REMARK 200 COMPLETENESS FOR SHELL (%) : 99.9 REMARK 200 DATA REDUNDANCY IN SHELL : 2.60 REMARK 200 R MERGE FOR SHELL (I) : 1.30400 REMARK 200 R SYM FOR SHELL (I) : NULL REMARK 200 FOR SHELL : 0.620 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: 6YA5 REMARK 200 REMARK 200 REMARK: NULL REMARK 280 REMARK 280 CRYSTAL REMARK 280 SOLVENT CONTENT, VS (%): 46.74 REMARK 280 MATTHEWS COEFFICIENT, VM (ANGSTROMS**3/DA): 2.31 REMARK 280 REMARK 280 CRYSTALLIZATION CONDITIONS: MDP, PEG 1000, PEG 3350, SODIUM HEPES, REMARK 280 MOPS (ACID), MAGNESIUM CHLORIDE, CALCIUM CHLORIDE, PH 7.5, VAPOR REMARK 280 DIFFUSION, HANGING DROP, TEMPERATURE 291.15K REMARK 290 REMARK 290 CRYSTALLOGRAPHIC SYMMETRY REMARK 290 SYMMETRY OPERATORS FOR SPACE GROUP: P 64 2 2 REMARK 290 REMARK 290 SYMOP SYMMETRY REMARK 290 NNNMMM OPERATOR REMARK 290 1555 X,Y,Z REMARK 290 2555 -Y,X-Y,Z+1/3 REMARK 290 3555 -X+Y,-X,Z+2/3 REMARK 290 4555 -X,-Y,Z REMARK 290 5555 Y,-X+Y,Z+1/3 REMARK 290 6555 X-Y,X,Z+2/3 REMARK 290 7555 Y,X,-Z+1/3 REMARK 290 8555 X-Y,-Y,-Z REMARK 290 9555 -X,-X+Y,-Z+2/3 REMARK 290 10555 -Y,-X,-Z+1/3 REMARK 290 11555 -X+Y,Y,-Z REMARK 290 12555 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 42.91667 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 85.83333 REMARK 290 SMTRY1 4 -1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY2 4 0.000000 -1.000000 0.000000 0.00000 REMARK 290 SMTRY3 4 0.000000 0.000000 1.000000 0.00000 REMARK 290 SMTRY1 5 0.500000 0.866025 0.000000 0.00000 REMARK 290 SMTRY2 5 -0.866025 0.500000 0.000000 0.00000 REMARK 290 SMTRY3 5 0.000000 0.000000 1.000000 42.91667 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 85.83333 REMARK 290 SMTRY1 7 -0.500000 0.866025 0.000000 0.00000 REMARK 290 SMTRY2 7 0.866025 0.500000 0.000000 0.00000 REMARK 290 SMTRY3 7 0.000000 0.000000 -1.000000 42.91667 REMARK 290 SMTRY1 8 1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY2 8 0.000000 -1.000000 0.000000 0.00000 REMARK 290 SMTRY3 8 0.000000 0.000000 -1.000000 0.00000 REMARK 290 SMTRY1 9 -0.500000 -0.866025 0.000000 0.00000 REMARK 290 SMTRY2 9 -0.866025 0.500000 0.000000 0.00000 REMARK 290 SMTRY3 9 0.000000 0.000000 -1.000000 85.83333 REMARK 290 SMTRY1 10 0.500000 -0.866025 0.000000 0.00000 REMARK 290 SMTRY2 10 -0.866025 -0.500000 0.000000 0.00000 REMARK 290 SMTRY3 10 0.000000 0.000000 -1.000000 42.91667 REMARK 290 SMTRY1 11 -1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY2 11 0.000000 1.000000 0.000000 0.00000 REMARK 290 SMTRY3 11 0.000000 0.000000 -1.000000 0.00000 REMARK 290 SMTRY1 12 0.500000 0.866025 0.000000 0.00000 REMARK 290 SMTRY2 12 0.866025 -0.500000 0.000000 0.00000 REMARK 290 SMTRY3 12 0.000000 0.000000 -1.000000 85.83333 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: 370 ANGSTROM**2 REMARK 350 SURFACE AREA OF THE COMPLEX: 9620 ANGSTROM**2 REMARK 350 CHANGE IN SOLVENT FREE ENERGY: -21.0 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 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 303 LIES ON A SPECIAL POSITION. REMARK 375 HOH A 315 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 SER A -8 REMARK 465 GLY A -7 REMARK 465 SER A -6 REMARK 465 GLY A -5 REMARK 465 SER A -4 REMARK 465 GLY A -3 REMARK 465 SER A -2 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 MET A 12 CE REMARK 470 LYS A 29 CE NZ REMARK 470 ILE A 30 CD1 REMARK 470 GLU A 31 OE1 REMARK 470 ASP A 50 OD1 REMARK 470 ASN A 96 CG OD1 ND2 REMARK 470 VAL A 100 CG1 REMARK 470 GLU A 101 OE2 REMARK 470 LYS A 102 CD CE NZ REMARK 470 LYS A 104 CD CE NZ REMARK 470 GLU A 126 CB CG CD OE1 OE2 REMARK 470 ILE A 129 CD1 REMARK 470 LEU A 132 CD1 REMARK 470 ALA A 135 CB REMARK 470 LYS A 137 CB CG CD CE NZ REMARK 470 ILE A 138 CG2 REMARK 470 SER A 140 OG REMARK 470 GLU A 141 CB CG CD OE1 OE2 REMARK 470 LYS A 142 CG CD CE NZ REMARK 470 GLU A 153 OE2 REMARK 470 LYS A 158 CE NZ REMARK 470 GLU A 165 OE1 REMARK 470 GLU A 166 OE2 REMARK 470 ARG A 170 CG CD NE CZ NH1 NH2 REMARK 470 THR A 177 CG2 REMARK 470 GLN A 180 OE1 REMARK 470 ARG A 185 NH1 REMARK 470 ASP A 189 CB CG OD1 OD2 REMARK 470 ARG A 196 NE CZ NH1 NH2 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 OE2 GLU A 80 MN MN A 202 1.69 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 125 -157.87 -92.89 REMARK 500 LYS A 139 -77.57 62.65 REMARK 500 SER A 140 97.69 -24.12 REMARK 500 THR A 162 -69.20 65.50 REMARK 500 REMARK 500 REMARK: NULL 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 108 OD2 97.3 REMARK 620 3 ILE A 120 O 90.1 102.1 REMARK 620 4 OOH A 205 O 80.6 97.7 159.1 REMARK 620 5 OOH A 205 O6 81.6 171.0 69.0 91.0 REMARK 620 N 1 2 3 4 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 ASP A 108 OD1 REMARK 620 2 OOH A 205 O1 160.5 REMARK 620 3 OOH A 205 O 89.0 73.6 REMARK 620 4 HOH A 301 O 88.5 83.5 91.7 REMARK 620 5 HOH A 302 O 87.9 106.7 165.5 74.1 REMARK 620 N 1 2 3 4 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 CL A 204 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC4 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue OOH A 205 DBREF 6YEM A 1 50 UNP C3W5X6 C3W5X6_9INFA 1 50 DBREF 6YEM A 73 196 UNP C3W5X6 C3W5X6_9INFA 73 196 SEQADV 6YEM SER A -8 UNP C3W5X6 EXPRESSION TAG SEQADV 6YEM GLY A -7 UNP C3W5X6 EXPRESSION TAG SEQADV 6YEM SER A -6 UNP C3W5X6 EXPRESSION TAG SEQADV 6YEM GLY A -5 UNP C3W5X6 EXPRESSION TAG SEQADV 6YEM SER A -4 UNP C3W5X6 EXPRESSION TAG SEQADV 6YEM GLY A -3 UNP C3W5X6 EXPRESSION TAG SEQADV 6YEM SER A -2 UNP C3W5X6 EXPRESSION TAG SEQADV 6YEM GLY A -1 UNP C3W5X6 EXPRESSION TAG SEQADV 6YEM SER A 0 UNP C3W5X6 EXPRESSION TAG SEQADV 6YEM GLY A 51 UNP C3W5X6 LINKER SEQADV 6YEM GLY A 52 UNP C3W5X6 LINKER SEQADV 6YEM SER A 53 UNP C3W5X6 LINKER SEQRES 1 A 186 SER GLY SER GLY SER GLY SER GLY SER MET GLU ASP PHE SEQRES 2 A 186 VAL ARG GLN CYS PHE ASN PRO MET ILE VAL GLU LEU ALA SEQRES 3 A 186 GLU LYS ALA MET LYS GLU TYR GLY GLU ASP PRO LYS ILE SEQRES 4 A 186 GLU THR ASN LYS PHE ALA ALA ILE CYS THR HIS LEU GLU SEQRES 5 A 186 VAL CYS PHE MET TYR SER ASP GLY GLY SER LYS HIS ARG SEQRES 6 A 186 PHE GLU ILE ILE GLU GLY ARG ASP ARG ILE MET ALA TRP SEQRES 7 A 186 THR VAL VAL ASN SER ILE CYS ASN THR THR GLY VAL GLU SEQRES 8 A 186 LYS PRO LYS PHE LEU PRO ASP LEU TYR ASP TYR LYS GLU SEQRES 9 A 186 ASN ARG PHE ILE GLU ILE GLY VAL THR ARG ARG GLU VAL SEQRES 10 A 186 HIS ILE TYR TYR LEU GLU LYS ALA ASN LYS ILE LYS SER SEQRES 11 A 186 GLU LYS THR HIS ILE HIS ILE PHE SER PHE THR GLY GLU SEQRES 12 A 186 GLU MET ALA THR LYS ALA ASP TYR THR LEU ASP GLU GLU SEQRES 13 A 186 SER ARG ALA ARG ILE LYS THR ARG LEU PHE THR ILE ARG SEQRES 14 A 186 GLN GLU MET ALA SER ARG SER LEU TRP ASP SER PHE ARG SEQRES 15 A 186 GLN SER GLU ARG HET MN A 201 1 HET MN A 202 1 HET MG A 203 1 HET CL A 204 1 HET OOH A 205 22 HETNAM MN MANGANESE (II) ION HETNAM MG MAGNESIUM ION HETNAM CL CHLORIDE ION HETNAM OOH 3,5,6,8-TETRAKIS(OXIDANYL)-2-PENTANOYL-NAPHTHALENE-1,4- HETNAM 2 OOH DIONE FORMUL 2 MN 2(MN 2+) FORMUL 4 MG MG 2+ FORMUL 5 CL CL 1- FORMUL 6 OOH C15 H14 O7 FORMUL 7 HOH *19(H2 O) HELIX 1 AA1 GLY A -1 PHE A 9 1 11 HELIX 2 AA2 ASN A 10 GLU A 23 1 14 HELIX 3 AA3 GLU A 31 GLY A 51 1 21 HELIX 4 AA4 ASP A 83 THR A 98 1 16 HELIX 5 AA5 GLU A 126 LYS A 139 1 14 HELIX 6 AA6 LYS A 158 ASP A 160 5 3 HELIX 7 AA7 ASP A 164 ARG A 185 1 22 HELIX 8 AA8 LEU A 187 SER A 194 1 8 SHEET 1 AA1 5 PHE A 76 ILE A 78 0 SHEET 2 AA1 5 LEU A 109 ASP A 111 -1 O TYR A 110 N GLU A 77 SHEET 3 AA1 5 ARG A 116 THR A 123 -1 O ARG A 116 N ASP A 111 SHEET 4 AA1 5 HIS A 144 SER A 149 1 O HIS A 144 N GLU A 119 SHEET 5 AA1 5 GLU A 154 ALA A 156 -1 O MET A 155 N ILE A 147 LINK NE2 HIS A 41 MN MN A 201 1555 1555 2.54 LINK OD2 ASP A 108 MN MN A 201 1555 1555 1.97 LINK OD1 ASP A 108 MN MN A 202 1555 1555 1.99 LINK O ILE A 120 MN MN A 201 1555 1555 2.08 LINK MN MN A 201 O OOH A 205 1555 1555 1.99 LINK MN MN A 201 O6 OOH A 205 1555 1555 1.86 LINK MN MN A 202 O1 OOH A 205 1555 1555 1.99 LINK MN MN A 202 O OOH A 205 1555 1555 2.30 LINK MN MN A 202 O HOH A 301 1555 1555 2.11 LINK MN MN A 202 O HOH A 302 1555 1555 2.28 SITE 1 AC1 5 HIS A 41 ASP A 108 GLU A 119 ILE A 120 SITE 2 AC1 5 OOH A 205 SITE 1 AC2 6 HIS A 41 GLU A 80 ASP A 108 OOH A 205 SITE 2 AC2 6 HOH A 301 HOH A 302 SITE 1 AC3 2 GLN A 7 PHE A 9 SITE 1 AC4 11 HIS A 41 GLU A 80 ASP A 108 GLU A 119 SITE 2 AC4 11 ILE A 120 GLY A 121 TYR A 130 LYS A 134 SITE 3 AC4 11 MN A 201 MN A 202 HOH A 301 CRYST1 73.340 73.340 128.750 90.00 90.00 120.00 P 64 2 2 12 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 0.013635 0.007872 0.000000 0.00000 SCALE2 0.000000 0.015744 0.000000 0.00000 SCALE3 0.000000 0.000000 0.007767 0.00000