HEADER HYDROLASE 14-SEP-23 8QJZ TITLE CRYSTAL STRUCTURE OF E. COLI LPXH IN COMPLEX WITH LIPID X COMPND MOL_ID: 1; COMPND 2 MOLECULE: UDP-2,3-DIACYLGLUCOSAMINE HYDROLASE; COMPND 3 CHAIN: A; COMPND 4 ENGINEERED: YES SOURCE MOL_ID: 1; SOURCE 2 ORGANISM_SCIENTIFIC: ESCHERICHIA COLI; SOURCE 3 ORGANISM_TAXID: 562; SOURCE 4 GENE: LPXH; SOURCE 5 EXPRESSION_SYSTEM: ESCHERICHIA COLI; SOURCE 6 EXPRESSION_SYSTEM_TAXID: 562; SOURCE 7 EXPRESSION_SYSTEM_STRAIN: BL21(AI); SOURCE 8 EXPRESSION_SYSTEM_VECTOR_TYPE: PLASMID; SOURCE 9 EXPRESSION_SYSTEM_PLASMID: PET-26B(+) KEYWDS LIPID A BIOSYNTHESIS PATHWAY ENDOTOXIN UDP-DIACYL-GLUCOSAMINE LIPID X KEYWDS 2 GRAM-NEGATIVE BACTERIA LIPOPOLYSACCHARIDES HYDROLASE, HYDROLASE EXPDTA X-RAY DIFFRACTION AUTHOR S.SOORIYAARACHCHI,T.BERGFORS,T.A.JONES,S.L.MOWBRAY REVDAT 1 17-APR-24 8QJZ 0 JRNL AUTH D.L.HUSEBY,S.CAO,E.ZAMARATSKI,S.SOORIYAARACHCHI,S.AHMAD, JRNL AUTH 2 T.BERGFORS,L.KRASNOVA,J.PELSS,M.IKAUNIEKS,E.LOZA, JRNL AUTH 3 M.KATKEVICS,O.BOBILEVA,H.CIRULE,B.GUKALOVA,S.GRINBERGA, JRNL AUTH 4 M.BACKLUND,I.SIMOFF,A.T.LEBER,T.BERRUGA-FERNANDEZ,D.ANTONOV, JRNL AUTH 5 V.R.KONDA,S.LINDSTROM,G.OLANDERS,P.BRANDT,P.BARANCZEWSKI, JRNL AUTH 6 C.VINGSBO LUNDBERG,E.LIEPINSH,E.SUNA,T.A.JONES,S.L.MOWBRAY, JRNL AUTH 7 D.HUGHES,A.KARLEN JRNL TITL ANTIBIOTIC CLASS WITH POTENT IN VIVO ACTIVITY TARGETING JRNL TITL 2 LIPOPOLYSACCHARIDE SYNTHESIS IN GRAM-NEGATIVE BACTERIA. JRNL REF PROC.NATL.ACAD.SCI.USA V. 121 74121 2024 JRNL REFN ESSN 1091-6490 JRNL PMID 38579010 JRNL DOI 10.1073/PNAS.2317274121 REMARK 2 REMARK 2 RESOLUTION. 1.35 ANGSTROMS. REMARK 3 REMARK 3 REFINEMENT. REMARK 3 PROGRAM : REFMAC 5.8.0352 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) : 1.35 REMARK 3 RESOLUTION RANGE LOW (ANGSTROMS) : 30.00 REMARK 3 DATA CUTOFF (SIGMA(F)) : NULL REMARK 3 COMPLETENESS FOR RANGE (%) : 99.2 REMARK 3 NUMBER OF REFLECTIONS : 66887 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) : 0.172 REMARK 3 R VALUE (WORKING SET) : 0.171 REMARK 3 FREE R VALUE : 0.187 REMARK 3 FREE R VALUE TEST SET SIZE (%) : 4.900 REMARK 3 FREE R VALUE TEST SET COUNT : 3468 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) : 1.35 REMARK 3 BIN RESOLUTION RANGE LOW (A) : 1.38 REMARK 3 REFLECTION IN BIN (WORKING SET) : 4713 REMARK 3 BIN COMPLETENESS (WORKING+TEST) (%) : 95.04 REMARK 3 BIN R VALUE (WORKING SET) : 0.2820 REMARK 3 BIN FREE R VALUE SET COUNT : 255 REMARK 3 BIN FREE R VALUE : 0.2970 REMARK 3 REMARK 3 NUMBER OF NON-HYDROGEN ATOMS USED IN REFINEMENT. REMARK 3 PROTEIN ATOMS : 1901 REMARK 3 NUCLEIC ACID ATOMS : 0 REMARK 3 HETEROGEN ATOMS : 50 REMARK 3 SOLVENT ATOMS : 233 REMARK 3 REMARK 3 B VALUES. REMARK 3 FROM WILSON PLOT (A**2) : NULL REMARK 3 MEAN B VALUE (OVERALL, A**2) : 16.60 REMARK 3 OVERALL ANISOTROPIC B VALUE. REMARK 3 B11 (A**2) : 0.16000 REMARK 3 B22 (A**2) : -1.40000 REMARK 3 B33 (A**2) : 1.16000 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): 0.046 REMARK 3 ESU BASED ON FREE R VALUE (A): 0.047 REMARK 3 ESU BASED ON MAXIMUM LIKELIHOOD (A): 0.036 REMARK 3 ESU FOR B VALUES BASED ON MAXIMUM LIKELIHOOD (A**2): 0.916 REMARK 3 REMARK 3 CORRELATION COEFFICIENTS. REMARK 3 CORRELATION COEFFICIENT FO-FC : 0.971 REMARK 3 CORRELATION COEFFICIENT FO-FC FREE : 0.970 REMARK 3 REMARK 3 RMS DEVIATIONS FROM IDEAL VALUES COUNT RMS WEIGHT REMARK 3 BOND LENGTHS REFINED ATOMS (A): 2011 ; 0.008 ; 0.012 REMARK 3 BOND LENGTHS OTHERS (A): 1819 ; 0.001 ; 0.016 REMARK 3 BOND ANGLES REFINED ATOMS (DEGREES): 2707 ; 1.281 ; 1.652 REMARK 3 BOND ANGLES OTHERS (DEGREES): 4216 ; 0.465 ; 1.573 REMARK 3 TORSION ANGLES, PERIOD 1 (DEGREES): 239 ; 5.782 ; 5.000 REMARK 3 TORSION ANGLES, PERIOD 2 (DEGREES): 15 ; 7.337 ; 5.000 REMARK 3 TORSION ANGLES, PERIOD 3 (DEGREES): 328 ;11.817 ;10.000 REMARK 3 TORSION ANGLES, PERIOD 4 (DEGREES): NULL ; NULL ; NULL REMARK 3 CHIRAL-CENTER RESTRAINTS (A**3): 303 ; 0.065 ; 0.200 REMARK 3 GENERAL PLANES REFINED ATOMS (A): 2233 ; 0.006 ; 0.020 REMARK 3 GENERAL PLANES OTHERS (A): 407 ; 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): 962 ; 1.190 ; 1.685 REMARK 3 MAIN-CHAIN BOND OTHER ATOMS (A**2): 962 ; 1.173 ; 1.684 REMARK 3 MAIN-CHAIN ANGLE REFINED ATOMS (A**2): 1199 ; 1.837 ; 2.528 REMARK 3 MAIN-CHAIN ANGLE OTHER ATOMS (A**2): 1200 ; 1.837 ; 2.529 REMARK 3 SIDE-CHAIN BOND REFINED ATOMS (A**2): 1049 ; 1.968 ; 1.944 REMARK 3 SIDE-CHAIN BOND OTHER ATOMS (A**2): 1000 ; 1.945 ; 1.911 REMARK 3 SIDE-CHAIN ANGLE REFINED ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 SIDE-CHAIN ANGLE OTHER ATOMS (A**2): 1449 ; 2.933 ; 2.780 REMARK 3 LONG RANGE B REFINED ATOMS (A**2): 2229 ; 4.327 ;25.680 REMARK 3 LONG RANGE B OTHER ATOMS (A**2): 2147 ; 4.139 ;22.123 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 : 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 REMARK 4 REMARK 4 8QJZ COMPLIES WITH FORMAT V. 3.30, 13-JUL-11 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY PDBE ON 14-SEP-23. REMARK 100 THE DEPOSITION ID IS D_1292133136. REMARK 200 REMARK 200 EXPERIMENTAL DETAILS REMARK 200 EXPERIMENT TYPE : X-RAY DIFFRACTION REMARK 200 DATE OF DATA COLLECTION : 11-APR-19 REMARK 200 TEMPERATURE (KELVIN) : 100 REMARK 200 PH : 7.5 REMARK 200 NUMBER OF CRYSTALS USED : 1 REMARK 200 REMARK 200 SYNCHROTRON (Y/N) : Y REMARK 200 RADIATION SOURCE : DIAMOND REMARK 200 BEAMLINE : I04-1 REMARK 200 X-RAY GENERATOR MODEL : NULL REMARK 200 MONOCHROMATIC OR LAUE (M/L) : M REMARK 200 WAVELENGTH OR RANGE (A) : 0.91589 REMARK 200 MONOCHROMATOR : NULL REMARK 200 OPTICS : QUASI-PERIODIC ELLIPTICALLY REMARK 200 POLARIZING UNDULATOR (QEPU) REMARK 200 REMARK 200 DETECTOR TYPE : PIXEL REMARK 200 DETECTOR MANUFACTURER : DECTRIS PILATUS 6M-F REMARK 200 INTENSITY-INTEGRATION SOFTWARE : AUTOPROC REMARK 200 DATA SCALING SOFTWARE : SCALA REMARK 200 REMARK 200 NUMBER OF UNIQUE REFLECTIONS : 70366 REMARK 200 RESOLUTION RANGE HIGH (A) : 1.350 REMARK 200 RESOLUTION RANGE LOW (A) : 67.600 REMARK 200 REJECTION CRITERIA (SIGMA(I)) : NULL REMARK 200 REMARK 200 OVERALL. REMARK 200 COMPLETENESS FOR RANGE (%) : 99.0 REMARK 200 DATA REDUNDANCY : 6.100 REMARK 200 R MERGE (I) : NULL REMARK 200 R SYM (I) : NULL REMARK 200 FOR THE DATA SET : 11.1000 REMARK 200 REMARK 200 IN THE HIGHEST RESOLUTION SHELL. REMARK 200 HIGHEST RESOLUTION SHELL, RANGE HIGH (A) : 1.35 REMARK 200 HIGHEST RESOLUTION SHELL, RANGE LOW (A) : 1.42 REMARK 200 COMPLETENESS FOR SHELL (%) : NULL REMARK 200 DATA REDUNDANCY IN SHELL : NULL REMARK 200 R MERGE FOR SHELL (I) : NULL 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: NULL REMARK 200 REMARK 200 REMARK: BIPYRAMIDAL CRYSTAL REMARK 280 REMARK 280 CRYSTAL REMARK 280 SOLVENT CONTENT, VS (%): 58.57 REMARK 280 MATTHEWS COEFFICIENT, VM (ANGSTROMS**3/DA): 2.97 REMARK 280 REMARK 280 CRYSTALLIZATION CONDITIONS: MORPHEUS III (G7) 1.2 % CHOLIC ACID REMARK 280 DERIVATIVES MIX 0.1 M BUFFER SYSTEM 2 7.5 50 % PRECIPITANT MIX 3, REMARK 280 PH 7.5, VAPOR DIFFUSION, TEMPERATURE 293K REMARK 290 REMARK 290 CRYSTALLOGRAPHIC SYMMETRY REMARK 290 SYMMETRY OPERATORS FOR SPACE GROUP: C 1 2 1 REMARK 290 REMARK 290 SYMOP SYMMETRY REMARK 290 NNNMMM OPERATOR REMARK 290 1555 X,Y,Z REMARK 290 2555 -X,Y,-Z REMARK 290 3555 X+1/2,Y+1/2,Z REMARK 290 4555 -X+1/2,Y+1/2,-Z REMARK 290 REMARK 290 WHERE NNN -> OPERATOR NUMBER REMARK 290 MMM -> TRANSLATION VECTOR REMARK 290 REMARK 290 CRYSTALLOGRAPHIC SYMMETRY TRANSFORMATIONS REMARK 290 THE FOLLOWING TRANSFORMATIONS OPERATE ON THE ATOM/HETATM REMARK 290 RECORDS IN THIS ENTRY TO PRODUCE CRYSTALLOGRAPHICALLY REMARK 290 RELATED MOLECULES. REMARK 290 SMTRY1 1 1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY2 1 0.000000 1.000000 0.000000 0.00000 REMARK 290 SMTRY3 1 0.000000 0.000000 1.000000 0.00000 REMARK 290 SMTRY1 2 -1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY2 2 0.000000 1.000000 0.000000 0.00000 REMARK 290 SMTRY3 2 0.000000 0.000000 -1.000000 0.00000 REMARK 290 SMTRY1 3 1.000000 0.000000 0.000000 61.91350 REMARK 290 SMTRY2 3 0.000000 1.000000 0.000000 40.69600 REMARK 290 SMTRY3 3 0.000000 0.000000 1.000000 0.00000 REMARK 290 SMTRY1 4 -1.000000 0.000000 0.000000 61.91350 REMARK 290 SMTRY2 4 0.000000 1.000000 0.000000 40.69600 REMARK 290 SMTRY3 4 0.000000 0.000000 -1.000000 0.00000 REMARK 290 REMARK 290 REMARK: NULL REMARK 300 REMARK 300 BIOMOLECULE: 1 REMARK 300 SEE REMARK 350 FOR THE AUTHOR PROVIDED AND/OR PROGRAM REMARK 300 GENERATED ASSEMBLY INFORMATION FOR THE STRUCTURE IN REMARK 300 THIS ENTRY. THE REMARK MAY ALSO PROVIDE INFORMATION ON REMARK 300 BURIED SURFACE AREA. REMARK 350 REMARK 350 COORDINATES FOR A COMPLETE MULTIMER REPRESENTING THE KNOWN REMARK 350 BIOLOGICALLY SIGNIFICANT OLIGOMERIZATION STATE OF THE REMARK 350 MOLECULE CAN BE GENERATED BY APPLYING BIOMT TRANSFORMATIONS REMARK 350 GIVEN BELOW. BOTH NON-CRYSTALLOGRAPHIC AND REMARK 350 CRYSTALLOGRAPHIC OPERATIONS ARE GIVEN. REMARK 350 REMARK 350 BIOMOLECULE: 1 REMARK 350 AUTHOR DETERMINED BIOLOGICAL UNIT: MONOMERIC REMARK 350 SOFTWARE DETERMINED QUATERNARY STRUCTURE: MONOMERIC REMARK 350 SOFTWARE USED: PISA REMARK 350 TOTAL BURIED SURFACE AREA: 1780 ANGSTROM**2 REMARK 350 SURFACE AREA OF THE COMPLEX: 11320 ANGSTROM**2 REMARK 350 CHANGE IN SOLVENT FREE ENERGY: -17.0 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 MET A 1 REMARK 465 HIS A 241 REMARK 465 HIS A 242 REMARK 465 HIS A 243 REMARK 465 HIS A 244 REMARK 465 HIS A 245 REMARK 465 HIS A 246 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 TRP A 219 O HOH A 401 2.16 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 LEU A 11 C OCS A 12 N 0.236 REMARK 500 OCS A 12 C VAL A 13 N 0.173 REMARK 500 REMARK 500 REMARK: NULL REMARK 500 REMARK 500 GEOMETRY AND STEREOCHEMISTRY REMARK 500 SUBTOPIC: TORSION ANGLES REMARK 500 REMARK 500 TORSION ANGLES OUTSIDE THE EXPECTED RAMACHANDRAN REGIONS: REMARK 500 (M=MODEL NUMBER; RES=RESIDUE NAME; C=CHAIN IDENTIFIER; REMARK 500 SSEQ=SEQUENCE NUMBER; I=INSERTION CODE). REMARK 500 REMARK 500 STANDARD TABLE: REMARK 500 FORMAT:(10X,I3,1X,A3,1X,A1,I4,A1,4X,F7.2,3X,F7.2) REMARK 500 REMARK 500 EXPECTED VALUES: GJ KLEYWEGT AND TA JONES (1996). PHI/PSI- REMARK 500 CHOLOGY: RAMACHANDRAN REVISITED. STRUCTURE 4, 1395 - 1400 REMARK 500 REMARK 500 M RES CSSEQI PSI PHI REMARK 500 LEU A 39 49.84 -95.77 REMARK 500 HIS A 195 -50.71 75.96 REMARK 500 HIS A 220 -74.57 -139.83 REMARK 500 REMARK 500 REMARK: NULL REMARK 500 REMARK 500 GEOMETRY AND STEREOCHEMISTRY REMARK 500 SUBTOPIC: PLANAR GROUPS REMARK 500 REMARK 500 PLANAR GROUPS IN THE FOLLOWING RESIDUES HAVE A TOTAL REMARK 500 RMS DISTANCE OF ALL ATOMS FROM THE BEST-FIT PLANE REMARK 500 BY MORE THAN AN EXPECTED VALUE OF 6*RMSD, WITH AN REMARK 500 RMSD 0.02 ANGSTROMS, OR AT LEAST ONE ATOM HAS REMARK 500 AN RMSD GREATER THAN THIS VALUE REMARK 500 (M=MODEL NUMBER; RES=RESIDUE NAME; C=CHAIN IDENTIFIER; REMARK 500 SSEQ=SEQUENCE NUMBER; I=INSERTION CODE). REMARK 500 REMARK 500 M RES CSSEQI RMS TYPE REMARK 500 ARG A 149 0.08 SIDE CHAIN REMARK 500 REMARK 500 REMARK: NULL REMARK 500 REMARK 500 GEOMETRY AND STEREOCHEMISTRY REMARK 500 SUBTOPIC: MAIN CHAIN PLANARITY REMARK 500 REMARK 500 THE FOLLOWING RESIDUES HAVE A PSEUDO PLANARITY REMARK 500 TORSION ANGLE, C(I) - CA(I) - N(I+1) - O(I), GREATER REMARK 500 10.0 DEGREES. (M=MODEL NUMBER; RES=RESIDUE NAME; REMARK 500 C=CHAIN IDENTIFIER; SSEQ=SEQUENCE NUMBER; REMARK 500 I=INSERTION CODE). REMARK 500 REMARK 500 M RES CSSEQI ANGLE REMARK 500 CYS A 12 -11.07 REMARK 500 OCS A 12 12.64 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 8 OD1 REMARK 620 2 HIS A 10 NE2 107.1 REMARK 620 3 ASP A 41 OD2 86.9 104.7 REMARK 620 4 HIS A 197 NE2 93.5 91.6 162.9 REMARK 620 5 HOH A 471 O 101.3 151.6 78.1 85.1 REMARK 620 6 HOH A 475 O 172.6 72.9 86.0 93.9 79.2 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 96.4 REMARK 620 3 HIS A 114 NE2 95.2 97.4 REMARK 620 4 HIS A 195 ND1 170.2 89.4 91.8 REMARK 620 5 HOH A 471 O 78.7 128.5 134.0 91.6 REMARK 620 N 1 2 3 4 DBREF1 8QJZ A 1 240 UNP A0A066QL39_ECOLX DBREF2 8QJZ A A0A066QL39 1 240 SEQADV 8QJZ GLU A 28 UNP A0A066QL3 GLY 28 CONFLICT SEQADV 8QJZ HIS A 241 UNP A0A066QL3 EXPRESSION TAG SEQADV 8QJZ HIS A 242 UNP A0A066QL3 EXPRESSION TAG SEQADV 8QJZ HIS A 243 UNP A0A066QL3 EXPRESSION TAG SEQADV 8QJZ HIS A 244 UNP A0A066QL3 EXPRESSION TAG SEQADV 8QJZ HIS A 245 UNP A0A066QL3 EXPRESSION TAG SEQADV 8QJZ HIS A 246 UNP A0A066QL3 EXPRESSION TAG SEQRES 1 A 246 MET ALA THR LEU PHE ILE ALA ASP LEU HIS LEU CYS VAL SEQRES 2 A 246 GLU GLU PRO ALA ILE THR ALA GLY PHE LEU ARG PHE LEU SEQRES 3 A 246 ALA GLU GLU ALA ARG LYS ALA ASP ALA LEU TYR ILE LEU SEQRES 4 A 246 GLY ASP LEU PHE GLU ALA TRP ILE GLY ASP ASP ASP PRO SEQRES 5 A 246 ASN PRO LEU HIS ARG GLN MET ALA ALA ALA ILE LYS ALA SEQRES 6 A 246 VAL SER ASP SER GLY VAL PRO CYS TYR PHE ILE HIS GLY SEQRES 7 A 246 ASN ARG ASP PHE LEU LEU GLY LYS ARG PHE ALA ARG GLU SEQRES 8 A 246 SER GLY MET THR LEU LEU PRO GLU GLU LYS VAL LEU GLU SEQRES 9 A 246 LEU TYR GLY ARG ARG VAL LEU ILE MET HIS GLY ASP THR SEQRES 10 A 246 LEU CYS THR ASP ASP ALA GLY TYR GLN ALA PHE ARG ALA SEQRES 11 A 246 LYS VAL HIS LYS PRO TRP LEU GLN MET LEU PHE LEU ALA SEQRES 12 A 246 LEU PRO LEU PHE VAL ARG LYS ARG ILE ALA ALA ARG MET SEQRES 13 A 246 ARG ALA ASN SER LYS GLU ALA ASN SER SER LYS SER LEU SEQRES 14 A 246 ALA ILE MET ASP VAL ASN GLN ASN ALA VAL VAL SER ALA SEQRES 15 A 246 MET GLU LYS HIS GLN VAL GLN TRP LEU ILE HIS GLY HIS SEQRES 16 A 246 THR HIS ARG PRO ALA VAL HIS GLU LEU ILE ALA ASN GLN SEQRES 17 A 246 GLN PRO ALA PHE ARG VAL VAL LEU GLY ALA TRP HIS THR SEQRES 18 A 246 GLU GLY SER MET VAL LYS VAL THR ALA ASP ASP VAL GLU SEQRES 19 A 246 LEU ILE HIS PHE PRO PHE HIS HIS HIS HIS HIS HIS HET OCS A 12 9 HET MN A 301 1 HET MN A 302 1 HET LP5 A 303 48 HETNAM OCS CYSTEINESULFONIC ACID 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 FORMUL 1 OCS C3 H7 N O5 S FORMUL 2 MN 2(MN 2+) FORMUL 4 LP5 C34 H66 N O12 P FORMUL 5 HOH *233(H2 O) HELIX 1 AA1 GLU A 15 GLU A 29 1 15 HELIX 2 AA2 ALA A 30 ALA A 33 5 4 HELIX 3 AA3 ASN A 53 SER 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 HIS A 133 1 12 HELIX 7 AA7 LYS A 134 ALA A 143 1 10 HELIX 8 AA8 PRO A 145 SER A 165 1 21 HELIX 9 AA9 ASN A 175 HIS A 186 1 12 SHEET 1 AA1 6 MET A 94 LEU A 96 0 SHEET 2 AA1 6 CYS A 73 PHE A 75 1 N CYS A 73 O THR A 95 SHEET 3 AA1 6 ALA A 35 ILE A 38 1 N ILE A 38 O TYR A 74 SHEET 4 AA1 6 THR A 3 ILE A 6 1 N LEU A 4 O TYR A 37 SHEET 5 AA1 6 GLU A 222 VAL A 228 -1 O VAL A 228 N THR A 3 SHEET 6 AA1 6 VAL A 233 PRO A 239 -1 O ILE A 236 N MET A 225 SHEET 1 AA2 5 GLU A 100 LEU A 105 0 SHEET 2 AA2 5 ARG A 108 MET A 113 -1 O VAL A 110 N LEU A 103 SHEET 3 AA2 5 TRP A 190 HIS A 193 1 O TRP A 190 N LEU A 111 SHEET 4 AA2 5 GLN A 209 VAL A 215 1 O VAL A 214 N LEU A 191 SHEET 5 AA2 5 ALA A 200 ALA A 206 -1 N ALA A 200 O VAL A 215 LINK C LEU A 11 N BOCS A 12 1555 1555 1.57 LINK C BOCS A 12 N VAL A 13 1555 1555 1.51 LINK OD1 ASP A 8 MN MN A 301 1555 1555 2.14 LINK NE2 HIS A 10 MN MN A 301 1555 1555 2.21 LINK OD2 ASP A 41 MN MN A 301 1555 1555 2.23 LINK OD2 ASP A 41 MN MN A 302 1555 1555 2.21 LINK OD1 ASN A 79 MN MN A 302 1555 1555 2.05 LINK NE2 HIS A 114 MN MN A 302 1555 1555 2.20 LINK ND1 HIS A 195 MN MN A 302 1555 1555 2.29 LINK NE2 HIS A 197 MN MN A 301 1555 1555 2.24 LINK MN MN A 301 O HOH A 471 1555 1555 2.12 LINK MN MN A 301 O HOH A 475 1555 1555 2.38 LINK MN MN A 302 O HOH A 471 1555 1555 2.11 CRYST1 123.827 81.392 33.127 90.00 100.32 90.00 C 1 2 1 4 ORIGX1 1.000000 0.000000 0.000000 0.00000 ORIGX2 0.000000 1.000000 0.000000 0.00000 ORIGX3 0.000000 0.000000 1.000000 0.00000 SCALE1 0.008076 0.000000 0.001470 0.00000 SCALE2 0.000000 0.012286 0.000000 0.00000 SCALE3 0.000000 0.000000 0.030683 0.00000