PDB Short entry for 5B49 HEADER HYDROLASE 03-APR-16 5B49 TITLE CRYSTAL STRUCTURE OF LPXH WITH MANGANESE FROM PSEUDOMONAS AERUGINOSA 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 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 20-MAR-24 5B49 1 LINK REVDAT 2 26-FEB-20 5B49 1 REMARK REVDAT 1 28-SEP-16 5B49 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. 1.65 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) : 1.65 REMARK 3 RESOLUTION RANGE LOW (ANGSTROMS) : 29.23 REMARK 3 DATA CUTOFF (SIGMA(F)) : NULL REMARK 3 COMPLETENESS FOR RANGE (%) : 99.7 REMARK 3 NUMBER OF REFLECTIONS : 61172 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) : 0.153 REMARK 3 R VALUE (WORKING SET) : 0.152 REMARK 3 FREE R VALUE : 0.177 REMARK 3 FREE R VALUE TEST SET SIZE (%) : 5.100 REMARK 3 FREE R VALUE TEST SET COUNT : 3300 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) : 1.65 REMARK 3 BIN RESOLUTION RANGE LOW (A) : 1.69 REMARK 3 REFLECTION IN BIN (WORKING SET) : 4418 REMARK 3 BIN COMPLETENESS (WORKING+TEST) (%) : 97.45 REMARK 3 BIN R VALUE (WORKING SET) : 0.1980 REMARK 3 BIN FREE R VALUE SET COUNT : 237 REMARK 3 BIN FREE R VALUE : 0.1990 REMARK 3 REMARK 3 NUMBER OF NON-HYDROGEN ATOMS USED IN REFINEMENT. REMARK 3 PROTEIN ATOMS : 3942 REMARK 3 NUCLEIC ACID ATOMS : 0 REMARK 3 HETEROGEN ATOMS : 118 REMARK 3 SOLVENT ATOMS : 580 REMARK 3 REMARK 3 B VALUES. REMARK 3 FROM WILSON PLOT (A**2) : NULL REMARK 3 MEAN B VALUE (OVERALL, A**2) : 21.89 REMARK 3 OVERALL ANISOTROPIC B VALUE. REMARK 3 B11 (A**2) : 0.00000 REMARK 3 B22 (A**2) : 0.01000 REMARK 3 B33 (A**2) : -0.02000 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): 0.084 REMARK 3 ESU BASED ON FREE R VALUE (A): 0.082 REMARK 3 ESU BASED ON MAXIMUM LIKELIHOOD (A): 0.057 REMARK 3 ESU FOR B VALUES BASED ON MAXIMUM LIKELIHOOD (A**2): 3.099 REMARK 3 REMARK 3 CORRELATION COEFFICIENTS. REMARK 3 CORRELATION COEFFICIENT FO-FC : 0.971 REMARK 3 CORRELATION COEFFICIENT FO-FC FREE : 0.962 REMARK 3 REMARK 3 RMS DEVIATIONS FROM IDEAL VALUES COUNT RMS WEIGHT REMARK 3 BOND LENGTHS REFINED ATOMS (A): 4151 ; 0.011 ; 0.019 REMARK 3 BOND LENGTHS OTHERS (A): 4033 ; 0.003 ; 0.020 REMARK 3 BOND ANGLES REFINED ATOMS (DEGREES): 5602 ; 1.403 ; 1.974 REMARK 3 BOND ANGLES OTHERS (DEGREES): 9232 ; 0.971 ; 3.000 REMARK 3 TORSION ANGLES, PERIOD 1 (DEGREES): 484 ; 5.467 ; 5.000 REMARK 3 TORSION ANGLES, PERIOD 2 (DEGREES): 209 ;31.629 ;21.388 REMARK 3 TORSION ANGLES, PERIOD 3 (DEGREES): 684 ;11.586 ;15.000 REMARK 3 TORSION ANGLES, PERIOD 4 (DEGREES): 58 ;15.669 ;15.000 REMARK 3 CHIRAL-CENTER RESTRAINTS (A**3): 600 ; 0.052 ; 0.200 REMARK 3 GENERAL PLANES REFINED ATOMS (A): 4568 ; 0.006 ; 0.021 REMARK 3 GENERAL PLANES OTHERS (A): 1028 ; 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): 1942 ; 1.965 ; 1.606 REMARK 3 MAIN-CHAIN BOND OTHER ATOMS (A**2): 1941 ; 1.963 ; 1.605 REMARK 3 MAIN-CHAIN ANGLE REFINED ATOMS (A**2): 2424 ; 2.671 ; 2.401 REMARK 3 MAIN-CHAIN ANGLE OTHER ATOMS (A**2): 2425 ; 2.671 ; 2.403 REMARK 3 SIDE-CHAIN BOND REFINED ATOMS (A**2): 2209 ; 3.605 ; 2.078 REMARK 3 SIDE-CHAIN BOND OTHER ATOMS (A**2): 2209 ; 3.599 ; 2.078 REMARK 3 SIDE-CHAIN ANGLE REFINED ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 SIDE-CHAIN ANGLE OTHER ATOMS (A**2): 3179 ; 5.477 ; 2.945 REMARK 3 LONG RANGE B REFINED ATOMS (A**2): 18281 ; 6.612 ;16.615 REMARK 3 LONG RANGE B OTHER ATOMS (A**2): 17637 ; 6.357 ;16.088 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 240 REMARK 3 ORIGIN FOR THE GROUP (A): 26.7094 25.0543 -3.5770 REMARK 3 T TENSOR REMARK 3 T11: 0.0200 T22: 0.0209 REMARK 3 T33: 0.0040 T12: 0.0056 REMARK 3 T13: 0.0064 T23: -0.0012 REMARK 3 L TENSOR REMARK 3 L11: 0.0813 L22: 0.3657 REMARK 3 L33: 0.2147 L12: -0.0843 REMARK 3 L13: 0.0494 L23: -0.2725 REMARK 3 S TENSOR REMARK 3 S11: -0.0236 S12: 0.0191 S13: -0.0168 REMARK 3 S21: 0.0726 S22: 0.0430 S23: 0.0295 REMARK 3 S31: -0.0568 S32: -0.0352 S33: -0.0194 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 248 REMARK 3 ORIGIN FOR THE GROUP (A): 40.2773 0.9413 20.4527 REMARK 3 T TENSOR REMARK 3 T11: 0.0030 T22: 0.0112 REMARK 3 T33: 0.0142 T12: 0.0038 REMARK 3 T13: 0.0015 T23: 0.0011 REMARK 3 L TENSOR REMARK 3 L11: 0.2616 L22: 0.1823 REMARK 3 L33: 0.0822 L12: -0.1536 REMARK 3 L13: 0.0289 L23: 0.0651 REMARK 3 S TENSOR REMARK 3 S11: -0.0140 S12: 0.0049 S13: -0.0011 REMARK 3 S21: 0.0068 S22: 0.0090 S23: 0.0131 REMARK 3 S31: -0.0005 S32: 0.0172 S33: 0.0050 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 5B49 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_1300000503. REMARK 200 REMARK 200 EXPERIMENTAL DETAILS REMARK 200 EXPERIMENT TYPE : X-RAY DIFFRACTION REMARK 200 DATE OF DATA COLLECTION : 17-FEB-11 REMARK 200 TEMPERATURE (KELVIN) : 100 REMARK 200 PH : 7.6 REMARK 200 NUMBER OF CRYSTALS USED : 1 REMARK 200 REMARK 200 SYNCHROTRON (Y/N) : Y REMARK 200 RADIATION SOURCE : SPRING-8 REMARK 200 BEAMLINE : BL41XU REMARK 200 X-RAY GENERATOR MODEL : NULL REMARK 200 MONOCHROMATIC OR LAUE (M/L) : M REMARK 200 WAVELENGTH OR RANGE (A) : 1.0000, 1.8925 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 : 64565 REMARK 200 RESOLUTION RANGE HIGH (A) : 1.650 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 (%) : 100.0 REMARK 200 DATA REDUNDANCY : 6.700 REMARK 200 R MERGE (I) : NULL REMARK 200 R SYM (I) : 0.07500 REMARK 200 <I/SIGMA(I)> FOR THE DATA SET : 20.4000 REMARK 200 REMARK 200 IN THE HIGHEST RESOLUTION SHELL. REMARK 200 HIGHEST RESOLUTION SHELL, RANGE HIGH (A) : 1.65 REMARK 200 HIGHEST RESOLUTION SHELL, RANGE LOW (A) : 1.71 REMARK 200 COMPLETENESS FOR SHELL (%) : 100.0 REMARK 200 DATA REDUNDANCY IN SHELL : 6.60 REMARK 200 R MERGE FOR SHELL (I) : NULL REMARK 200 R SYM FOR SHELL (I) : 0.48500 REMARK 200 <I/SIGMA(I)> FOR SHELL : 2.230 REMARK 200 REMARK 200 DIFFRACTION PROTOCOL: MAD REMARK 200 METHOD USED TO DETERMINE THE STRUCTURE: MAD REMARK 200 SOFTWARE USED: SHELXCD REMARK 200 STARTING MODEL: NULL REMARK 200 REMARK 200 REMARK: NULL REMARK 280 REMARK 280 CRYSTAL REMARK 280 SOLVENT CONTENT, VS (%): 48.58 REMARK 280 MATTHEWS COEFFICIENT, VM (ANGSTROMS**3/DA): 2.39 REMARK 280 REMARK 280 CRYSTALLIZATION CONDITIONS: 0.2M L-PROLINE, 0.1M HEPES PH 7.6, REMARK 280 8.5% PEG 3350, VAPOR DIFFUSION, SITTING DROP, TEMPERATURE 293K REMARK 290 REMARK 290 CRYSTALLOGRAPHIC SYMMETRY REMARK 290 SYMMETRY OPERATORS FOR SPACE GROUP: P 1 21 1 REMARK 290 REMARK 290 SYMOP SYMMETRY REMARK 290 NNNMMM OPERATOR REMARK 290 1555 X,Y,Z REMARK 290 2555 -X,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 54.43100 REMARK 290 SMTRY3 2 0.000000 0.000000 -1.000000 0.00000 REMARK 290 REMARK 290 REMARK: NULL REMARK 300 REMARK 300 BIOMOLECULE: 1, 2 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: 230 ANGSTROM**2 REMARK 350 SURFACE AREA OF THE COMPLEX: 12210 ANGSTROM**2 REMARK 350 CHANGE IN SOLVENT FREE ENERGY: -11.0 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: 240 ANGSTROM**2 REMARK 350 SURFACE AREA OF THE COMPLEX: 13210 ANGSTROM**2 REMARK 350 CHANGE IN SOLVENT FREE ENERGY: -11.0 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 LEU A 241 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 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 HOH B 578 O HOH B 618 2.19 REMARK 500 O47 LP5 B 303 O HOH B 401 2.19 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 29 -43.85 -130.84 REMARK 500 LEU A 39 54.72 -98.44 REMARK 500 HIS A 195 -49.50 71.09 REMARK 500 ARG B 29 -56.17 -134.89 REMARK 500 LEU B 39 52.31 -95.15 REMARK 500 HIS B 195 -49.38 72.49 REMARK 500 LEU B 241 61.15 -119.27 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 A 667 DISTANCE = 6.07 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 MN A 301 MN REMARK 620 N RES CSSEQI ATOM REMARK 620 1 ASP A 8 OD1 REMARK 620 2 HIS A 10 NE2 106.5 REMARK 620 3 ASP A 41 OD2 83.7 105.7 REMARK 620 4 HIS A 197 NE2 86.8 92.8 160.9 REMARK 620 5 HOH A 449 O 91.9 161.6 75.8 88.1 REMARK 620 6 HOH A 544 O 173.9 79.6 94.8 92.8 82.0 REMARK 620 N 1 2 3 4 5 REMARK 620 REMARK 620 COORDINATION ANGLES FOR: M RES CSSEQI METAL REMARK 620 MN A 302 MN REMARK 620 N RES CSSEQI ATOM REMARK 620 1 ASP A 41 OD2 REMARK 620 2 ASN A 79 OD1 107.4 REMARK 620 3 HIS A 114 NE2 91.3 88.0 REMARK 620 4 HIS A 195 ND1 161.7 90.7 91.8 REMARK 620 5 HOH A 449 O 80.2 144.6 127.0 83.5 REMARK 620 N 1 2 3 4 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 8 OD1 REMARK 620 2 HIS B 10 NE2 105.8 REMARK 620 3 ASP B 41 OD2 85.8 102.7 REMARK 620 4 HIS B 197 NE2 90.0 92.8 164.5 REMARK 620 5 HOH B 511 O 94.9 159.2 76.2 89.3 REMARK 620 6 HOH B 583 O 173.4 79.8 89.7 93.1 79.4 REMARK 620 N 1 2 3 4 5 REMARK 620 REMARK 620 COORDINATION ANGLES FOR: M RES CSSEQI METAL REMARK 620 MN B 302 MN REMARK 620 N RES CSSEQI ATOM REMARK 620 1 ASP B 41 OD2 REMARK 620 2 ASN B 79 OD1 102.8 REMARK 620 3 HIS B 114 NE2 95.6 90.6 REMARK 620 4 HIS B 195 ND1 166.1 89.9 89.7 REMARK 620 5 HOH B 511 O 79.3 137.9 131.3 87.6 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 301 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC2 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue MN A 302 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC3 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue LP5 A 303 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC4 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue GOL A 304 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC5 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue MN B 301 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC6 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue MN B 302 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC7 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue LP5 B 303 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC8 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue GOL B 304 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC9 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue GOL B 305 REMARK 900 REMARK 900 RELATED ENTRIES REMARK 900 RELATED ID: 5B4A RELATED DB: PDB REMARK 900 RELATED ID: 5B4B RELATED DB: PDB REMARK 900 RELATED ID: 5B4C RELATED DB: PDB REMARK 900 RELATED ID: 5B4D RELATED DB: PDB DBREF 5B49 A 1 240 UNP Q9I2V0 LPXH_PSEAE 1 240 DBREF 5B49 B 1 240 UNP Q9I2V0 LPXH_PSEAE 1 240 SEQADV 5B49 LEU A 241 UNP Q9I2V0 EXPRESSION TAG SEQADV 5B49 GLU A 242 UNP Q9I2V0 EXPRESSION TAG SEQADV 5B49 HIS A 243 UNP Q9I2V0 EXPRESSION TAG SEQADV 5B49 HIS A 244 UNP Q9I2V0 EXPRESSION TAG SEQADV 5B49 HIS A 245 UNP Q9I2V0 EXPRESSION TAG SEQADV 5B49 HIS A 246 UNP Q9I2V0 EXPRESSION TAG SEQADV 5B49 HIS A 247 UNP Q9I2V0 EXPRESSION TAG SEQADV 5B49 HIS A 248 UNP Q9I2V0 EXPRESSION TAG SEQADV 5B49 LEU B 241 UNP Q9I2V0 EXPRESSION TAG SEQADV 5B49 GLU B 242 UNP Q9I2V0 EXPRESSION TAG SEQADV 5B49 HIS B 243 UNP Q9I2V0 EXPRESSION TAG SEQADV 5B49 HIS B 244 UNP Q9I2V0 EXPRESSION TAG SEQADV 5B49 HIS B 245 UNP Q9I2V0 EXPRESSION TAG SEQADV 5B49 HIS B 246 UNP Q9I2V0 EXPRESSION TAG SEQADV 5B49 HIS B 247 UNP Q9I2V0 EXPRESSION TAG SEQADV 5B49 HIS B 248 UNP Q9I2V0 EXPRESSION TAG SEQRES 1 A 248 MET SER VAL LEU PHE ILE SER ASP LEU HIS 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 HIS 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 MN A 302 1 HET LP5 A 303 48 HET GOL A 304 6 HET MN B 301 1 HET MN B 302 1 HET LP5 B 303 48 HET GOL B 304 6 HET GOL B 305 6 HETNAM MN MANGANESE (II) ION HETNAM LP5 (R)-((2R,3S,4R,5R,6R)-3-HYDROXY-2-(HYDROXYMETHYL)-5- HETNAM 2 LP5 ((R)-3-HYDROXYTETRADECANAMIDO)-6-(PHOSPHONOOXY) HETNAM 3 LP5 TETRAHYDRO-2H-PYRAN-4-YL) 3-HYDROXYTETRADECANOATE HETNAM GOL GLYCEROL HETSYN GOL GLYCERIN; PROPANE-1,2,3-TRIOL FORMUL 3 MN 4(MN 2+) FORMUL 5 LP5 2(C34 H66 N O12 P) FORMUL 6 GOL 3(C3 H8 O3) FORMUL 12 HOH *580(H2 O) HELIX 1 AA1 ARG A 15 ARG A 29 1 15 HELIX 2 AA2 GLY A 48 MET A 52 5 5 HELIX 3 AA3 ASP A 53 GLY A 69 1 17 HELIX 4 AA4 GLY A 85 GLY A 93 1 9 HELIX 5 AA5 GLY A 115 CYS A 119 5 5 HELIX 6 AA6 ASP A 122 ARG A 133 1 12 HELIX 7 AA7 ASN A 134 HIS A 143 1 10 HELIX 8 AA8 PRO A 145 LYS A 167 1 23 HELIX 9 AA9 ALA A 168 ASP A 173 1 6 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 LEU B 144 1 11 HELIX 19 AC1 PRO B 145 ARG B 165 1 21 HELIX 20 AC2 ALA B 168 ASP B 173 1 6 HELIX 21 AC3 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 GLN A 222 ASP A 229 -1 O ILE A 228 N VAL A 3 SHEET 6 AA1 6 GLY A 232 PRO A 239 -1 O GLY A 232 N ASP A 229 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 HIS A 202 O ARG A 213 SHEET 1 AA3 6 CYS B 94 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 ILE B 228 -1 O ILE B 228 N VAL B 3 SHEET 6 AA3 6 HIS B 233 PRO B 239 -1 O ARG B 234 N GLU B 227 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 THR B 190 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 OD1 ASP A 8 MN MN A 301 1555 1555 2.16 LINK NE2 HIS A 10 MN MN A 301 1555 1555 2.25 LINK OD2 ASP A 41 MN MN A 301 1555 1555 2.35 LINK OD2 ASP A 41 MN MN A 302 1555 1555 2.20 LINK OD1 ASN A 79 MN MN A 302 1555 1555 2.10 LINK NE2 HIS A 114 MN MN A 302 1555 1555 2.22 LINK ND1 HIS A 195 MN MN A 302 1555 1555 2.28 LINK NE2 HIS A 197 MN MN A 301 1555 1555 2.32 LINK MN MN A 301 O HOH A 449 1555 1555 2.26 LINK MN MN A 301 O HOH A 544 1555 1555 2.24 LINK MN MN A 302 O HOH A 449 1555 1555 2.19 LINK OD1 ASP B 8 MN MN B 301 1555 1555 2.18 LINK NE2 HIS B 10 MN MN B 301 1555 1555 2.27 LINK OD2 ASP B 41 MN MN B 301 1555 1555 2.32 LINK OD2 ASP B 41 MN MN B 302 1555 1555 2.23 LINK OD1 ASN B 79 MN MN B 302 1555 1555 2.03 LINK NE2 HIS B 114 MN MN B 302 1555 1555 2.23 LINK ND1 HIS B 195 MN MN B 302 1555 1555 2.31 LINK NE2 HIS B 197 MN MN B 301 1555 1555 2.32 LINK MN MN B 301 O HOH B 511 1555 1555 2.17 LINK MN MN B 301 O HOH B 583 1555 1555 2.26 LINK MN MN B 302 O HOH B 511 1555 1555 2.11 CISPEP 1 ASP A 99 PRO A 100 0 5.22 CISPEP 2 ASP B 99 PRO B 100 0 7.08 SITE 1 AC1 7 ASP A 8 HIS A 10 ASP A 41 HIS A 197 SITE 2 AC1 7 MN A 302 HOH A 449 HOH A 544 SITE 1 AC2 7 ASP A 41 ASN A 79 HIS A 114 HIS A 195 SITE 2 AC2 7 MN A 301 LP5 A 303 HOH A 449 SITE 1 AC3 21 ASN A 79 ARG A 80 LEU A 83 ASP A 122 SITE 2 AC3 21 ALA A 124 TYR A 125 LEU A 141 ARG A 149 SITE 3 AC3 21 ARG A 157 SER A 160 THR A 164 LYS A 167 SITE 4 AC3 21 HIS A 195 MN A 302 HOH A 401 HOH A 415 SITE 5 AC3 21 HOH A 429 HOH A 449 HOH A 487 HOH A 544 SITE 6 AC3 21 HIS B 246 SITE 1 AC4 7 GLU A 44 HIS A 150 ALA A 153 ARG A 157 SITE 2 AC4 7 HOH A 430 HOH A 523 HOH A 539 SITE 1 AC5 7 ASP B 8 HIS B 10 ASP B 41 HIS B 197 SITE 2 AC5 7 MN B 302 HOH B 511 HOH B 583 SITE 1 AC6 6 ASP B 41 ASN B 79 HIS B 114 HIS B 195 SITE 2 AC6 6 MN B 301 HOH B 511 SITE 1 AC7 19 ASN B 79 ARG B 80 GLY B 107 PRO B 109 SITE 2 AC7 19 ASP B 122 ALA B 124 TYR B 125 LEU B 156 SITE 3 AC7 19 ARG B 157 SER B 160 THR B 164 LYS B 167 SITE 4 AC7 19 HIS B 195 HOH B 401 HOH B 433 HOH B 456 SITE 5 AC7 19 HOH B 467 HOH B 583 HOH B 618 SITE 1 AC8 7 GLU B 44 ALA B 45 HIS B 150 ARG B 154 SITE 2 AC8 7 ARG B 157 HOH B 412 HOH B 550 SITE 1 AC9 5 LEU B 105 ILE B 228 HOH B 402 HOH B 483 SITE 2 AC9 5 HOH B 536 CRYST1 48.937 108.862 51.555 90.00 92.68 90.00 P 1 21 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 0.020434 0.000000 0.000956 0.00000 SCALE2 0.000000 0.009186 0.000000 0.00000 SCALE3 0.000000 0.000000 0.019418 0.00000