HEADER HYDROLASE 03-APR-16 5B4C TITLE CRYSTAL STRUCTURE OF H10N MUTANT OF LPXH WITH MANGANESE COMPND MOL_ID: 1; COMPND 2 MOLECULE: UDP-2,3-DIACYLGLUCOSAMINE HYDROLASE; COMPND 3 CHAIN: A, B; COMPND 4 SYNONYM: UDP-2,3-DIACYLGLUCOSAMINE PYROPHOSPHATASE LPXH, UDP-2,3- COMPND 5 DIACYLGLUCOSAMINE DIPHOSPHATASE; COMPND 6 EC: 3.6.1.54; COMPND 7 ENGINEERED: YES; COMPND 8 MUTATION: YES SOURCE MOL_ID: 1; SOURCE 2 ORGANISM_SCIENTIFIC: PSEUDOMONAS AERUGINOSA PAO1; SOURCE 3 ORGANISM_TAXID: 208964; SOURCE 4 STRAIN: PAO1; SOURCE 5 GENE: LPXH, PA1792; SOURCE 6 EXPRESSION_SYSTEM: ESCHERICHIA COLI; SOURCE 7 EXPRESSION_SYSTEM_TAXID: 562; SOURCE 8 EXPRESSION_SYSTEM_VECTOR_TYPE: PLASMID KEYWDS LPXH, LIPID A, LIPID X, UDP-2, 3-DIACYLGLUCOSAMINE, HYDROLASE EXPDTA X-RAY DIFFRACTION AUTHOR C.OKADA,H.WAKABAYASHI,M.YAO,I.TANAKA REVDAT 3 08-NOV-23 5B4C 1 LINK REVDAT 2 26-FEB-20 5B4C 1 REMARK REVDAT 1 28-SEP-16 5B4C 0 JRNL AUTH C.OKADA,H.WAKABAYASHI,M.KOBAYASHI,A.SHINODA,I.TANAKA,M.YAO JRNL TITL CRYSTAL STRUCTURES OF THE UDP-DIACYLGLUCOSAMINE JRNL TITL 2 PYROPHOSPHOHYDRASE LPXH FROM PSEUDOMONAS AERUGINOSA JRNL REF SCI REP V. 6 32822 2016 JRNL REFN ESSN 2045-2322 JRNL PMID 27609419 JRNL DOI 10.1038/SREP32822 REMARK 2 REMARK 2 RESOLUTION. 1.96 ANGSTROMS. REMARK 3 REMARK 3 REFINEMENT. REMARK 3 PROGRAM : REFMAC 5.8.0135 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) : 1.96 REMARK 3 RESOLUTION RANGE LOW (ANGSTROMS) : 49.15 REMARK 3 DATA CUTOFF (SIGMA(F)) : NULL REMARK 3 COMPLETENESS FOR RANGE (%) : 99.3 REMARK 3 NUMBER OF REFLECTIONS : 41454 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) : 0.174 REMARK 3 R VALUE (WORKING SET) : 0.171 REMARK 3 FREE R VALUE : 0.214 REMARK 3 FREE R VALUE TEST SET SIZE (%) : 5.000 REMARK 3 FREE R VALUE TEST SET COUNT : 2200 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) : 1.96 REMARK 3 BIN RESOLUTION RANGE LOW (A) : 2.01 REMARK 3 REFLECTION IN BIN (WORKING SET) : 2868 REMARK 3 BIN COMPLETENESS (WORKING+TEST) (%) : 94.64 REMARK 3 BIN R VALUE (WORKING SET) : 0.2350 REMARK 3 BIN FREE R VALUE SET COUNT : 169 REMARK 3 BIN FREE R VALUE : 0.2700 REMARK 3 REMARK 3 NUMBER OF NON-HYDROGEN ATOMS USED IN REFINEMENT. REMARK 3 PROTEIN ATOMS : 3732 REMARK 3 NUCLEIC ACID ATOMS : 0 REMARK 3 HETEROGEN ATOMS : 26 REMARK 3 SOLVENT ATOMS : 442 REMARK 3 REMARK 3 B VALUES. REMARK 3 FROM WILSON PLOT (A**2) : NULL REMARK 3 MEAN B VALUE (OVERALL, A**2) : 32.59 REMARK 3 OVERALL ANISOTROPIC B VALUE. REMARK 3 B11 (A**2) : -0.02000 REMARK 3 B22 (A**2) : 0.05000 REMARK 3 B33 (A**2) : -0.03000 REMARK 3 B12 (A**2) : 0.00000 REMARK 3 B13 (A**2) : 0.00000 REMARK 3 B23 (A**2) : 0.00000 REMARK 3 REMARK 3 ESTIMATED OVERALL COORDINATE ERROR. REMARK 3 ESU BASED ON R VALUE (A): 0.141 REMARK 3 ESU BASED ON FREE R VALUE (A): 0.136 REMARK 3 ESU BASED ON MAXIMUM LIKELIHOOD (A): 0.093 REMARK 3 ESU FOR B VALUES BASED ON MAXIMUM LIKELIHOOD (A**2): 6.369 REMARK 3 REMARK 3 CORRELATION COEFFICIENTS. REMARK 3 CORRELATION COEFFICIENT FO-FC : 0.962 REMARK 3 CORRELATION COEFFICIENT FO-FC FREE : 0.942 REMARK 3 REMARK 3 RMS DEVIATIONS FROM IDEAL VALUES COUNT RMS WEIGHT REMARK 3 BOND LENGTHS REFINED ATOMS (A): 3840 ; 0.011 ; 0.019 REMARK 3 BOND LENGTHS OTHERS (A): 3710 ; 0.003 ; 0.020 REMARK 3 BOND ANGLES REFINED ATOMS (DEGREES): 5190 ; 1.340 ; 1.962 REMARK 3 BOND ANGLES OTHERS (DEGREES): 8472 ; 0.952 ; 3.000 REMARK 3 TORSION ANGLES, PERIOD 1 (DEGREES): 458 ; 5.504 ; 5.000 REMARK 3 TORSION ANGLES, PERIOD 2 (DEGREES): 196 ;31.406 ;21.633 REMARK 3 TORSION ANGLES, PERIOD 3 (DEGREES): 644 ;12.361 ;15.000 REMARK 3 TORSION ANGLES, PERIOD 4 (DEGREES): 54 ;13.254 ;15.000 REMARK 3 CHIRAL-CENTER RESTRAINTS (A**3): 560 ; 0.053 ; 0.200 REMARK 3 GENERAL PLANES REFINED ATOMS (A): 4288 ; 0.006 ; 0.021 REMARK 3 GENERAL PLANES OTHERS (A): 950 ; 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): 1844 ; 2.779 ; 2.559 REMARK 3 MAIN-CHAIN BOND OTHER ATOMS (A**2): 1843 ; 2.776 ; 2.557 REMARK 3 MAIN-CHAIN ANGLE REFINED ATOMS (A**2): 2298 ; 3.565 ; 3.805 REMARK 3 MAIN-CHAIN ANGLE OTHER ATOMS (A**2): 2299 ; 3.565 ; 3.807 REMARK 3 SIDE-CHAIN BOND REFINED ATOMS (A**2): 1996 ; 4.190 ; 3.101 REMARK 3 SIDE-CHAIN BOND OTHER ATOMS (A**2): 1996 ; 4.186 ; 3.102 REMARK 3 SIDE-CHAIN ANGLE REFINED ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 SIDE-CHAIN ANGLE OTHER ATOMS (A**2): 2893 ; 6.293 ; 4.448 REMARK 3 LONG RANGE B REFINED ATOMS (A**2): 16873 ; 7.946 ;25.322 REMARK 3 LONG RANGE B OTHER ATOMS (A**2): 16457 ; 7.887 ;24.961 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 2 A 303 REMARK 3 ORIGIN FOR THE GROUP (A): 2.9043 23.5529 24.6541 REMARK 3 T TENSOR REMARK 3 T11: 0.0192 T22: 0.0191 REMARK 3 T33: 0.0182 T12: -0.0033 REMARK 3 T13: -0.0139 T23: -0.0021 REMARK 3 L TENSOR REMARK 3 L11: 0.2170 L22: 0.3446 REMARK 3 L33: 0.4092 L12: 0.0991 REMARK 3 L13: 0.0232 L23: -0.1772 REMARK 3 S TENSOR REMARK 3 S11: -0.0031 S12: 0.0518 S13: -0.0193 REMARK 3 S21: 0.0572 S22: 0.0039 S23: -0.0400 REMARK 3 S31: -0.0127 S32: -0.0181 S33: -0.0008 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 : B 2 B 303 REMARK 3 ORIGIN FOR THE GROUP (A): 19.0224 2.4769 50.9290 REMARK 3 T TENSOR REMARK 3 T11: 0.0131 T22: 0.0311 REMARK 3 T33: 0.0154 T12: 0.0045 REMARK 3 T13: -0.0035 T23: 0.0171 REMARK 3 L TENSOR REMARK 3 L11: 0.3314 L22: 0.2960 REMARK 3 L33: 0.3120 L12: -0.1081 REMARK 3 L13: 0.1434 L23: 0.1707 REMARK 3 S TENSOR REMARK 3 S11: -0.0494 S12: 0.0032 S13: 0.0318 REMARK 3 S21: -0.0055 S22: -0.0082 S23: 0.0168 REMARK 3 S31: -0.0249 S32: 0.0423 S33: 0.0576 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 REMARK 4 REMARK 4 5B4C COMPLIES WITH FORMAT V. 3.30, 13-JUL-11 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY PDBJ ON 04-APR-16. REMARK 100 THE DEPOSITION ID IS D_1300000512. REMARK 200 REMARK 200 EXPERIMENTAL DETAILS REMARK 200 EXPERIMENT TYPE : X-RAY DIFFRACTION REMARK 200 DATE OF DATA COLLECTION : 11-NOV-11 REMARK 200 TEMPERATURE (KELVIN) : 100 REMARK 200 PH : 6.7 REMARK 200 NUMBER OF CRYSTALS USED : 1 REMARK 200 REMARK 200 SYNCHROTRON (Y/N) : Y REMARK 200 RADIATION SOURCE : SPRING-8 REMARK 200 BEAMLINE : BL32XU REMARK 200 X-RAY GENERATOR MODEL : NULL REMARK 200 MONOCHROMATIC OR LAUE (M/L) : M REMARK 200 WAVELENGTH OR RANGE (A) : 1.0000 REMARK 200 MONOCHROMATOR : NULL REMARK 200 OPTICS : NULL REMARK 200 REMARK 200 DETECTOR TYPE : CCD REMARK 200 DETECTOR MANUFACTURER : RAYONIX MX225HE REMARK 200 INTENSITY-INTEGRATION SOFTWARE : HKL-2000 REMARK 200 DATA SCALING SOFTWARE : HKL-2000 REMARK 200 REMARK 200 NUMBER OF UNIQUE REFLECTIONS : 43726 REMARK 200 RESOLUTION RANGE HIGH (A) : 1.950 REMARK 200 RESOLUTION RANGE LOW (A) : 50.000 REMARK 200 REJECTION CRITERIA (SIGMA(I)) : NULL REMARK 200 REMARK 200 OVERALL. REMARK 200 COMPLETENESS FOR RANGE (%) : 99.7 REMARK 200 DATA REDUNDANCY : 3.600 REMARK 200 R MERGE (I) : NULL REMARK 200 R SYM (I) : 0.07800 REMARK 200 FOR THE DATA SET : 17.7000 REMARK 200 REMARK 200 IN THE HIGHEST RESOLUTION SHELL. REMARK 200 HIGHEST RESOLUTION SHELL, RANGE HIGH (A) : 1.95 REMARK 200 HIGHEST RESOLUTION SHELL, RANGE LOW (A) : 2.02 REMARK 200 COMPLETENESS FOR SHELL (%) : 99.8 REMARK 200 DATA REDUNDANCY IN SHELL : 3.60 REMARK 200 R MERGE FOR SHELL (I) : NULL REMARK 200 R SYM FOR SHELL (I) : 0.45100 REMARK 200 FOR SHELL : NULL REMARK 200 REMARK 200 DIFFRACTION PROTOCOL: SINGLE WAVELENGTH REMARK 200 METHOD USED TO DETERMINE THE STRUCTURE: MOLECULAR REPLACEMENT REMARK 200 SOFTWARE USED: MOLREP REMARK 200 STARTING MODEL: 5B49 REMARK 200 REMARK 200 REMARK: NULL REMARK 280 REMARK 280 CRYSTAL REMARK 280 SOLVENT CONTENT, VS (%): 52.79 REMARK 280 MATTHEWS COEFFICIENT, VM (ANGSTROMS**3/DA): 2.61 REMARK 280 REMARK 280 CRYSTALLIZATION CONDITIONS: 0.2M PROLINE, 0.1M MES PH 6.7, 12.5% REMARK 280 PEG 3350, VAPOR DIFFUSION, SITTING DROP, TEMPERATURE 293K REMARK 290 REMARK 290 CRYSTALLOGRAPHIC SYMMETRY REMARK 290 SYMMETRY OPERATORS FOR SPACE GROUP: P 21 21 21 REMARK 290 REMARK 290 SYMOP SYMMETRY REMARK 290 NNNMMM OPERATOR REMARK 290 1555 X,Y,Z REMARK 290 2555 -X+1/2,-Y,Z+1/2 REMARK 290 3555 -X,Y+1/2,-Z+1/2 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 26.81100 REMARK 290 SMTRY2 2 0.000000 -1.000000 0.000000 0.00000 REMARK 290 SMTRY3 2 0.000000 0.000000 1.000000 56.81550 REMARK 290 SMTRY1 3 -1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY2 3 0.000000 1.000000 0.000000 48.99950 REMARK 290 SMTRY3 3 0.000000 0.000000 -1.000000 56.81550 REMARK 290 SMTRY1 4 1.000000 0.000000 0.000000 26.81100 REMARK 290 SMTRY2 4 0.000000 -1.000000 0.000000 48.99950 REMARK 290 SMTRY3 4 0.000000 0.000000 -1.000000 0.00000 REMARK 290 REMARK 290 REMARK: NULL REMARK 300 REMARK 300 BIOMOLECULE: 1, 2 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: 130 ANGSTROM**2 REMARK 350 SURFACE AREA OF THE COMPLEX: 11900 ANGSTROM**2 REMARK 350 CHANGE IN SOLVENT FREE ENERGY: -6.0 KCAL/MOL REMARK 350 APPLY THE FOLLOWING TO CHAINS: A REMARK 350 BIOMT1 1 1.000000 0.000000 0.000000 0.00000 REMARK 350 BIOMT2 1 0.000000 1.000000 0.000000 0.00000 REMARK 350 BIOMT3 1 0.000000 0.000000 1.000000 0.00000 REMARK 350 REMARK 350 BIOMOLECULE: 2 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: 130 ANGSTROM**2 REMARK 350 SURFACE AREA OF THE COMPLEX: 12040 ANGSTROM**2 REMARK 350 CHANGE IN SOLVENT FREE ENERGY: -6.0 KCAL/MOL 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 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 ARG A 161 REMARK 465 ALA A 162 REMARK 465 GLN A 163 REMARK 465 THR A 164 REMARK 465 ARG A 165 REMARK 465 MET A 166 REMARK 465 LYS A 167 REMARK 465 ALA A 168 REMARK 465 VAL A 169 REMARK 465 GLU A 242 REMARK 465 HIS A 243 REMARK 465 HIS A 244 REMARK 465 HIS A 245 REMARK 465 HIS A 246 REMARK 465 HIS A 247 REMARK 465 HIS A 248 REMARK 465 MET B 1 REMARK 465 ARG B 161 REMARK 465 ALA B 162 REMARK 465 GLN B 163 REMARK 465 THR B 164 REMARK 465 ARG B 165 REMARK 465 MET B 166 REMARK 465 LYS B 167 REMARK 465 ALA B 168 REMARK 465 VAL B 169 REMARK 465 GLU B 242 REMARK 465 HIS B 243 REMARK 465 HIS B 244 REMARK 465 HIS B 245 REMARK 465 HIS B 246 REMARK 465 HIS B 247 REMARK 465 HIS B 248 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 O ASP B 205 O HOH B 401 2.08 REMARK 500 O HOH B 404 O HOH B 576 2.13 REMARK 500 O HOH A 564 O HOH A 618 2.19 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 480 O HOH B 594 3655 2.14 REMARK 500 REMARK 500 REMARK: NULL 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 B 94 CB CYS B 94 SG -0.108 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 15 66.89 -119.35 REMARK 500 LEU A 39 52.47 -98.32 REMARK 500 CYS A 119 57.65 -94.43 REMARK 500 GLU A 159 5.47 -66.64 REMARK 500 HIS A 195 -45.51 71.66 REMARK 500 LEU B 39 50.95 -96.73 REMARK 500 CYS B 119 59.87 -90.46 REMARK 500 HIS B 195 -50.15 72.13 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 301 MN REMARK 620 N RES CSSEQI ATOM REMARK 620 1 ASP A 41 OD2 REMARK 620 2 ASN A 79 OD1 106.3 REMARK 620 3 HIS A 114 NE2 91.2 83.9 REMARK 620 4 HIS A 195 ND1 160.1 93.6 91.1 REMARK 620 5 HOH A 481 O 81.5 155.3 119.9 80.2 REMARK 620 6 HOH A 510 O 85.8 88.9 171.1 94.6 68.0 REMARK 620 N 1 2 3 4 5 REMARK 620 REMARK 620 COORDINATION ANGLES FOR: M RES CSSEQI METAL REMARK 620 MN B 301 MN REMARK 620 N RES CSSEQI ATOM REMARK 620 1 ASP B 41 OD2 REMARK 620 2 ASN B 79 OD1 106.9 REMARK 620 3 HIS B 114 NE2 89.9 83.6 REMARK 620 4 HIS B 195 ND1 164.4 88.6 89.9 REMARK 620 5 HOH B 454 O 83.7 155.1 119.5 82.8 REMARK 620 6 HOH B 514 O 87.9 88.1 170.5 94.6 69.5 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 301 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC2 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue GOL A 302 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC3 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue GOL A 303 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC4 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue MN B 301 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC5 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue GOL B 302 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC6 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue GOL B 303 REMARK 900 REMARK 900 RELATED ENTRIES REMARK 900 RELATED ID: 5B49 RELATED DB: PDB REMARK 900 RELATED ID: 5B4A RELATED DB: PDB REMARK 900 RELATED ID: 5B4B RELATED DB: PDB REMARK 900 RELATED ID: 5B4D RELATED DB: PDB DBREF 5B4C A 1 240 UNP Q9I2V0 LPXH_PSEAE 1 240 DBREF 5B4C B 1 240 UNP Q9I2V0 LPXH_PSEAE 1 240 SEQADV 5B4C ASN A 10 UNP Q9I2V0 HIS 10 ENGINEERED MUTATION SEQADV 5B4C LEU A 241 UNP Q9I2V0 EXPRESSION TAG SEQADV 5B4C GLU A 242 UNP Q9I2V0 EXPRESSION TAG SEQADV 5B4C HIS A 243 UNP Q9I2V0 EXPRESSION TAG SEQADV 5B4C HIS A 244 UNP Q9I2V0 EXPRESSION TAG SEQADV 5B4C HIS A 245 UNP Q9I2V0 EXPRESSION TAG SEQADV 5B4C HIS A 246 UNP Q9I2V0 EXPRESSION TAG SEQADV 5B4C HIS A 247 UNP Q9I2V0 EXPRESSION TAG SEQADV 5B4C HIS A 248 UNP Q9I2V0 EXPRESSION TAG SEQADV 5B4C ASN B 10 UNP Q9I2V0 HIS 10 ENGINEERED MUTATION SEQADV 5B4C LEU B 241 UNP Q9I2V0 EXPRESSION TAG SEQADV 5B4C GLU B 242 UNP Q9I2V0 EXPRESSION TAG SEQADV 5B4C HIS B 243 UNP Q9I2V0 EXPRESSION TAG SEQADV 5B4C HIS B 244 UNP Q9I2V0 EXPRESSION TAG SEQADV 5B4C HIS B 245 UNP Q9I2V0 EXPRESSION TAG SEQADV 5B4C HIS B 246 UNP Q9I2V0 EXPRESSION TAG SEQADV 5B4C HIS B 247 UNP Q9I2V0 EXPRESSION TAG SEQADV 5B4C HIS B 248 UNP Q9I2V0 EXPRESSION TAG SEQRES 1 A 248 MET SER VAL LEU PHE ILE SER ASP LEU ASN LEU GLU ALA SEQRES 2 A 248 GLU ARG PRO ASP ILE THR ARG ALA PHE LEU SER PHE LEU SEQRES 3 A 248 ASP GLU ARG ALA ARG ARG ALA GLU ALA LEU TYR ILE LEU SEQRES 4 A 248 GLY ASP PHE PHE GLU ALA TRP ILE GLY ASP ASP GLY MET SEQRES 5 A 248 ASP ALA PHE GLN ARG SER ILE ALA GLN SER LEU ARG GLN SEQRES 6 A 248 VAL ALA ASP GLY GLY THR ARG ILE TYR LEU MET HIS GLY SEQRES 7 A 248 ASN ARG ASP PHE LEU ILE GLY LYS ALA PHE CYS ARG GLU SEQRES 8 A 248 ALA GLY CYS THR LEU LEU PRO ASP PRO SER VAL ILE ASP SEQRES 9 A 248 LEU TYR GLY GLU PRO VAL LEU LEU MET HIS GLY ASP SER SEQRES 10 A 248 LEU CYS THR ARG ASP GLU ALA TYR MET ARG LEU ARG ARG SEQRES 11 A 248 TRP LEU ARG ASN PRO LEU THR LEU TRP VAL LEU ARG HIS SEQRES 12 A 248 LEU PRO LEU ALA THR ARG HIS LYS LEU ALA ARG LYS LEU SEQRES 13 A 248 ARG LYS GLU SER ARG ALA GLN THR ARG MET LYS ALA VAL SEQRES 14 A 248 ASP ILE ILE ASP VAL THR PRO GLU GLU VAL PRO ARG VAL SEQRES 15 A 248 MET ARG GLY HIS GLY VAL ARG THR LEU ILE HIS GLY HIS SEQRES 16 A 248 THR HIS ARG PRO ALA GLU HIS PRO LEU ASP ILE ASP GLY SEQRES 17 A 248 GLN PRO ALA ARG ARG ILE VAL LEU GLY ASP TRP ASP ARG SEQRES 18 A 248 GLN GLY TRP ALA LEU GLU ILE ASP ALA ASN GLY HIS ARG SEQRES 19 A 248 GLN ALA PRO PHE PRO LEU LEU GLU HIS HIS HIS HIS HIS SEQRES 20 A 248 HIS SEQRES 1 B 248 MET SER VAL LEU PHE ILE SER ASP LEU ASN LEU GLU ALA SEQRES 2 B 248 GLU ARG PRO ASP ILE THR ARG ALA PHE LEU SER PHE LEU SEQRES 3 B 248 ASP GLU ARG ALA ARG ARG ALA GLU ALA LEU TYR ILE LEU SEQRES 4 B 248 GLY ASP PHE PHE GLU ALA TRP ILE GLY ASP ASP GLY MET SEQRES 5 B 248 ASP ALA PHE GLN ARG SER ILE ALA GLN SER LEU ARG GLN SEQRES 6 B 248 VAL ALA ASP GLY GLY THR ARG ILE TYR LEU MET HIS GLY SEQRES 7 B 248 ASN ARG ASP PHE LEU ILE GLY LYS ALA PHE CYS ARG GLU SEQRES 8 B 248 ALA GLY CYS THR LEU LEU PRO ASP PRO SER VAL ILE ASP SEQRES 9 B 248 LEU TYR GLY GLU PRO VAL LEU LEU MET HIS GLY ASP SER SEQRES 10 B 248 LEU CYS THR ARG ASP GLU ALA TYR MET ARG LEU ARG ARG SEQRES 11 B 248 TRP LEU ARG ASN PRO LEU THR LEU TRP VAL LEU ARG HIS SEQRES 12 B 248 LEU PRO LEU ALA THR ARG HIS LYS LEU ALA ARG LYS LEU SEQRES 13 B 248 ARG LYS GLU SER ARG ALA GLN THR ARG MET LYS ALA VAL SEQRES 14 B 248 ASP ILE ILE ASP VAL THR PRO GLU GLU VAL PRO ARG VAL SEQRES 15 B 248 MET ARG GLY HIS GLY VAL ARG THR LEU ILE HIS GLY HIS SEQRES 16 B 248 THR HIS ARG PRO ALA GLU HIS PRO LEU ASP ILE ASP GLY SEQRES 17 B 248 GLN PRO ALA ARG ARG ILE VAL LEU GLY ASP TRP ASP ARG SEQRES 18 B 248 GLN GLY TRP ALA LEU GLU ILE ASP ALA ASN GLY HIS ARG SEQRES 19 B 248 GLN ALA PRO PHE PRO LEU LEU GLU HIS HIS HIS HIS HIS SEQRES 20 B 248 HIS HET MN A 301 1 HET GOL A 302 6 HET GOL A 303 6 HET MN B 301 1 HET GOL B 302 6 HET GOL B 303 6 HETNAM MN MANGANESE (II) ION HETNAM GOL GLYCEROL HETSYN GOL GLYCERIN; PROPANE-1,2,3-TRIOL FORMUL 3 MN 2(MN 2+) FORMUL 4 GOL 4(C3 H8 O3) FORMUL 9 HOH *442(H2 O) HELIX 1 AA1 ARG A 15 ARG A 29 1 15 HELIX 2 AA2 ALA A 30 ALA A 33 5 4 HELIX 3 AA3 GLY A 48 MET A 52 5 5 HELIX 4 AA4 ASP A 53 GLY A 69 1 17 HELIX 5 AA5 GLY A 85 GLY A 93 1 9 HELIX 6 AA6 GLY A 115 CYS A 119 5 5 HELIX 7 AA7 ASP A 122 ASN A 134 1 13 HELIX 8 AA8 ASN A 134 LEU A 144 1 11 HELIX 9 AA9 PRO A 145 GLU A 159 1 15 HELIX 10 AB1 GLU A 177 HIS A 186 1 10 HELIX 11 AB2 ARG B 15 ARG B 29 1 15 HELIX 12 AB3 ALA B 30 ALA B 33 5 4 HELIX 13 AB4 GLY B 48 MET B 52 5 5 HELIX 14 AB5 ASP B 53 GLY B 69 1 17 HELIX 15 AB6 GLY B 85 GLY B 93 1 9 HELIX 16 AB7 GLY B 115 CYS B 119 5 5 HELIX 17 AB8 ASP B 122 ARG B 133 1 12 HELIX 18 AB9 ASN B 134 HIS B 143 1 10 HELIX 19 AC1 PRO B 145 SER B 160 1 16 HELIX 20 AC2 GLU B 177 GLY B 187 1 11 SHEET 1 AA1 6 THR A 95 LEU A 97 0 SHEET 2 AA1 6 ARG A 72 MET A 76 1 N LEU A 75 O LEU A 97 SHEET 3 AA1 6 ALA A 35 LEU A 39 1 N ILE A 38 O MET A 76 SHEET 4 AA1 6 VAL A 3 ILE A 6 1 N LEU A 4 O TYR A 37 SHEET 5 AA1 6 GLY A 223 ILE A 228 -1 O ILE A 228 N VAL A 3 SHEET 6 AA1 6 HIS A 233 PHE A 238 -1 O PHE A 238 N GLY A 223 SHEET 1 AA2 5 SER A 101 LEU A 105 0 SHEET 2 AA2 5 GLU A 108 MET A 113 -1 O GLU A 108 N LEU A 105 SHEET 3 AA2 5 THR A 190 HIS A 193 1 O ILE A 192 N LEU A 111 SHEET 4 AA2 5 GLN A 209 VAL A 215 1 O ILE A 214 N LEU A 191 SHEET 5 AA2 5 ALA A 200 ILE A 206 -1 N ALA A 200 O VAL A 215 SHEET 1 AA3 6 THR B 95 LEU B 97 0 SHEET 2 AA3 6 ARG B 72 MET B 76 1 N LEU B 75 O LEU B 97 SHEET 3 AA3 6 ALA B 35 LEU B 39 1 N ILE B 38 O MET B 76 SHEET 4 AA3 6 VAL B 3 ILE B 6 1 N LEU B 4 O TYR B 37 SHEET 5 AA3 6 GLN B 222 ASP B 229 -1 O ILE B 228 N VAL B 3 SHEET 6 AA3 6 GLY B 232 PRO B 239 -1 O PHE B 238 N GLY B 223 SHEET 1 AA4 5 SER B 101 LEU B 105 0 SHEET 2 AA4 5 GLU B 108 MET B 113 -1 O LEU B 112 N SER B 101 SHEET 3 AA4 5 THR B 190 HIS B 193 1 O ILE B 192 N LEU B 111 SHEET 4 AA4 5 GLN B 209 VAL B 215 1 O ILE B 214 N LEU B 191 SHEET 5 AA4 5 ALA B 200 ILE B 206 -1 N ALA B 200 O VAL B 215 LINK OD2 ASP A 41 MN MN A 301 1555 1555 2.17 LINK OD1 ASN A 79 MN MN A 301 1555 1555 2.14 LINK NE2 HIS A 114 MN MN A 301 1555 1555 2.28 LINK ND1 HIS A 195 MN MN A 301 1555 1555 2.32 LINK MN MN A 301 O HOH A 481 1555 1555 2.30 LINK MN MN A 301 O HOH A 510 1555 1555 2.08 LINK OD2 ASP B 41 MN MN B 301 1555 1555 2.14 LINK OD1 ASN B 79 MN MN B 301 1555 1555 2.15 LINK NE2 HIS B 114 MN MN B 301 1555 1555 2.30 LINK ND1 HIS B 195 MN MN B 301 1555 1555 2.26 LINK MN MN B 301 O HOH B 454 1555 1555 2.30 LINK MN MN B 301 O HOH B 514 1555 1555 2.40 CISPEP 1 ASP A 99 PRO A 100 0 8.48 CISPEP 2 ASP B 99 PRO B 100 0 6.00 SITE 1 AC1 6 ASP A 41 ASN A 79 HIS A 114 HIS A 195 SITE 2 AC1 6 HOH A 481 HOH A 510 SITE 1 AC2 5 CYS A 119 ASP A 122 ILE A 171 ILE A 172 SITE 2 AC2 5 HIS A 195 SITE 1 AC3 4 GLU A 34 ARG A 72 ASP A 104 TYR A 106 SITE 1 AC4 6 ASP B 41 ASN B 79 HIS B 114 HIS B 195 SITE 2 AC4 6 HOH B 454 HOH B 514 SITE 1 AC5 5 CYS B 119 ASP B 122 ILE B 171 ILE B 172 SITE 2 AC5 5 HIS B 195 SITE 1 AC6 6 GLU B 34 ARG B 72 ASP B 104 LEU B 105 SITE 2 AC6 6 TYR B 106 HOH B 416 CRYST1 53.622 97.999 113.631 90.00 90.00 90.00 P 21 21 21 8 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 0.018649 0.000000 0.000000 0.00000 SCALE2 0.000000 0.010204 0.000000 0.00000 SCALE3 0.000000 0.000000 0.008800 0.00000