HEADER TRANSFERASE/TRANSFERASE INHIBITOR 18-AUG-11 3TH8
TITLE STRUCTURE OF E. COLI UNDECAPRENYL DIPHOSPHATE SYNTHASE COMPLEXED WITH
TITLE 2 BPH-1063
COMPND MOL_ID: 1;
COMPND 2 MOLECULE: UNDECAPRENYL PYROPHOSPHATE SYNTHASE;
COMPND 3 CHAIN: B, A;
COMPND 4 SYNONYM: UPP SYNTHASE, DI-TRANS,POLY-CIS-DECAPRENYLCISTRANSFERASE,
COMPND 5 UNDECAPRENYL DIPHOSPHATE SYNTHASE, UDS;
COMPND 6 EC: 2.5.1.31;
COMPND 7 ENGINEERED: YES
SOURCE MOL_ID: 1;
SOURCE 2 ORGANISM_SCIENTIFIC: ESCHERICHIA COLI;
SOURCE 3 ORGANISM_TAXID: 83333;
SOURCE 4 STRAIN: K12;
SOURCE 5 GENE: UPPS, ISPU, RTH, YAES, B0174, JW0169;
SOURCE 6 EXPRESSION_SYSTEM: ESCHERICHIA COLI;
SOURCE 7 EXPRESSION_SYSTEM_TAXID: 562
KEYWDS ALL HELICES, PRENYL TRANSFERASE, FARNEYL DIPHOSPHATE BINDING,
KEYWDS 2 ISOPENTENYL DIPHOSPHATE BINDING, PRENYLATION, TRANSFERASE-
KEYWDS 3 TRANSFERASE INHIBITOR COMPLEX
EXPDTA X-RAY DIFFRACTION
AUTHOR R.CAO,W.ZHU,Y.ZHANG,E.OLDFIELD
REVDAT 3 13-SEP-23 3TH8 1 REMARK
REVDAT 2 31-JAN-18 3TH8 1 JRNL
REVDAT 1 04-JUL-12 3TH8 0
JRNL AUTH Y.ZHANG,F.-Y.LIN,K.LI,W.ZHU,Y.L.LIU,R.CAO,R.PANG,E.LEE,
JRNL AUTH 2 J.AXELSON,M.HENSLER,K.WANG,K.J.MOLOHON,Y.WANG,D.A.MITCHELL,
JRNL AUTH 3 V.NIZET,E.OLDFIELD
JRNL TITL HIV-1 INTEGRASE INHIBITOR-INSPIRED ANTIBACTERIALS TARGETING
JRNL TITL 2 ISOPRENOID BIOSYNTHESIS.
JRNL REF ACS MED CHEM LETT V. 3 402 2012
JRNL REFN ISSN 1948-5875
JRNL PMID 22662288
JRNL DOI 10.1021/ML300038T
REMARK 2
REMARK 2 RESOLUTION. 2.11 ANGSTROMS.
REMARK 3
REMARK 3 REFINEMENT.
REMARK 3 PROGRAM : REFMAC 5.5.0109
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) : 2.11
REMARK 3 RESOLUTION RANGE LOW (ANGSTROMS) : 41.80
REMARK 3 DATA CUTOFF (SIGMA(F)) : 0.000
REMARK 3 COMPLETENESS FOR RANGE (%) : 97.1
REMARK 3 NUMBER OF REFLECTIONS : 27646
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) : 0.253
REMARK 3 R VALUE (WORKING SET) : 0.250
REMARK 3 FREE R VALUE : 0.309
REMARK 3 FREE R VALUE TEST SET SIZE (%) : 5.100
REMARK 3 FREE R VALUE TEST SET COUNT : 1400
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) : 2.11
REMARK 3 BIN RESOLUTION RANGE LOW (A) : 2.17
REMARK 3 REFLECTION IN BIN (WORKING SET) : 1779
REMARK 3 BIN COMPLETENESS (WORKING+TEST) (%) : 91.26
REMARK 3 BIN R VALUE (WORKING SET) : 0.3690
REMARK 3 BIN FREE R VALUE SET COUNT : 101
REMARK 3 BIN FREE R VALUE : 0.5000
REMARK 3
REMARK 3 NUMBER OF NON-HYDROGEN ATOMS USED IN REFINEMENT.
REMARK 3 PROTEIN ATOMS : 3312
REMARK 3 NUCLEIC ACID ATOMS : 0
REMARK 3 HETEROGEN ATOMS : 25
REMARK 3 SOLVENT ATOMS : 63
REMARK 3
REMARK 3 B VALUES.
REMARK 3 FROM WILSON PLOT (A**2) : NULL
REMARK 3 MEAN B VALUE (OVERALL, A**2) : 36.00
REMARK 3 OVERALL ANISOTROPIC B VALUE.
REMARK 3 B11 (A**2) : -0.01000
REMARK 3 B22 (A**2) : 0.01000
REMARK 3 B33 (A**2) : 0.00000
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): 0.281
REMARK 3 ESU BASED ON FREE R VALUE (A): 0.241
REMARK 3 ESU BASED ON MAXIMUM LIKELIHOOD (A): 0.169
REMARK 3 ESU FOR B VALUES BASED ON MAXIMUM LIKELIHOOD (A**2): 6.312
REMARK 3
REMARK 3 CORRELATION COEFFICIENTS.
REMARK 3 CORRELATION COEFFICIENT FO-FC : 0.911
REMARK 3 CORRELATION COEFFICIENT FO-FC FREE : 0.889
REMARK 3
REMARK 3 RMS DEVIATIONS FROM IDEAL VALUES COUNT RMS WEIGHT
REMARK 3 BOND LENGTHS REFINED ATOMS (A): 3402 ; 0.021 ; 0.021
REMARK 3 BOND LENGTHS OTHERS (A): NULL ; NULL ; NULL
REMARK 3 BOND ANGLES REFINED ATOMS (DEGREES): 4586 ; 1.791 ; 1.924
REMARK 3 BOND ANGLES OTHERS (DEGREES): NULL ; NULL ; NULL
REMARK 3 TORSION ANGLES, PERIOD 1 (DEGREES): 412 ; 7.122 ; 5.000
REMARK 3 TORSION ANGLES, PERIOD 2 (DEGREES): 181 ;35.797 ;23.370
REMARK 3 TORSION ANGLES, PERIOD 3 (DEGREES): 572 ;15.314 ;15.000
REMARK 3 TORSION ANGLES, PERIOD 4 (DEGREES): 34 ;19.481 ;15.000
REMARK 3 CHIRAL-CENTER RESTRAINTS (A**3): 487 ; 0.125 ; 0.200
REMARK 3 GENERAL PLANES REFINED ATOMS (A): 2627 ; 0.009 ; 0.020
REMARK 3 GENERAL PLANES OTHERS (A): NULL ; NULL ; NULL
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): 2049 ; 1.186 ; 1.500
REMARK 3 MAIN-CHAIN BOND OTHER ATOMS (A**2): NULL ; NULL ; NULL
REMARK 3 MAIN-CHAIN ANGLE REFINED ATOMS (A**2): 3255 ; 2.104 ; 2.000
REMARK 3 MAIN-CHAIN ANGLE OTHER ATOMS (A**2): NULL ; NULL ; NULL
REMARK 3 SIDE-CHAIN BOND REFINED ATOMS (A**2): 1353 ; 3.236 ; 3.000
REMARK 3 SIDE-CHAIN BOND OTHER ATOMS (A**2): NULL ; NULL ; NULL
REMARK 3 SIDE-CHAIN ANGLE REFINED ATOMS (A**2): 1331 ; 5.150 ; 4.500
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 : MASK
REMARK 3 PARAMETERS FOR MASK CALCULATION
REMARK 3 VDW PROBE RADIUS : 1.40
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 3TH8 COMPLIES WITH FORMAT V. 3.30, 13-JUL-11
REMARK 100
REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY RCSB ON 24-AUG-11.
REMARK 100 THE DEPOSITION ID IS D_1000067474.
REMARK 200
REMARK 200 EXPERIMENTAL DETAILS
REMARK 200 EXPERIMENT TYPE : X-RAY DIFFRACTION
REMARK 200 DATE OF DATA COLLECTION : 03-APR-10
REMARK 200 TEMPERATURE (KELVIN) : 123
REMARK 200 PH : 7.5
REMARK 200 NUMBER OF CRYSTALS USED : 1
REMARK 200
REMARK 200 SYNCHROTRON (Y/N) : Y
REMARK 200 RADIATION SOURCE : APS
REMARK 200 BEAMLINE : 21-ID-F
REMARK 200 X-RAY GENERATOR MODEL : NULL
REMARK 200 MONOCHROMATIC OR LAUE (M/L) : M
REMARK 200 WAVELENGTH OR RANGE (A) : 0.97872
REMARK 200 MONOCHROMATOR : C(111)
REMARK 200 OPTICS : NULL
REMARK 200
REMARK 200 DETECTOR TYPE : CCD
REMARK 200 DETECTOR MANUFACTURER : MARMOSAIC 225 MM CCD
REMARK 200 INTENSITY-INTEGRATION SOFTWARE : HKL-2000
REMARK 200 DATA SCALING SOFTWARE : HKL-2000
REMARK 200
REMARK 200 NUMBER OF UNIQUE REFLECTIONS : 27971
REMARK 200 RESOLUTION RANGE HIGH (A) : 2.114
REMARK 200 RESOLUTION RANGE LOW (A) : 50.000
REMARK 200 REJECTION CRITERIA (SIGMA(I)) : 1.000
REMARK 200
REMARK 200 OVERALL.
REMARK 200 COMPLETENESS FOR RANGE (%) : 98.2
REMARK 200 DATA REDUNDANCY : NULL
REMARK 200 R MERGE (I) : NULL
REMARK 200 R SYM (I) : NULL
REMARK 200 <I/SIGMA(I)> FOR THE DATA SET : NULL
REMARK 200
REMARK 200 IN THE HIGHEST RESOLUTION SHELL.
REMARK 200 HIGHEST RESOLUTION SHELL, RANGE HIGH (A) : 2.11
REMARK 200 HIGHEST RESOLUTION SHELL, RANGE LOW (A) : 2.16
REMARK 200 COMPLETENESS FOR SHELL (%) : 100.0
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 <I/SIGMA(I)> 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: PHASES
REMARK 200 STARTING MODEL: PDB ENTRY 2E98
REMARK 200
REMARK 200 REMARK: NULL
REMARK 280
REMARK 280 CRYSTAL
REMARK 280 SOLVENT CONTENT, VS (%): 33.64
REMARK 280 MATTHEWS COEFFICIENT, VM (ANGSTROMS**3/DA): 1.85
REMARK 280
REMARK 280 CRYSTALLIZATION CONDITIONS: 5% PEG 4000, PH 7.5, VAPOR DIFFUSION,
REMARK 280 HANGING DROP, TEMPERATURE 298.15K
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 31.30150
REMARK 290 SMTRY2 2 0.000000 -1.000000 0.000000 0.00000
REMARK 290 SMTRY3 2 0.000000 0.000000 1.000000 56.14850
REMARK 290 SMTRY1 3 -1.000000 0.000000 0.000000 0.00000
REMARK 290 SMTRY2 3 0.000000 1.000000 0.000000 34.43100
REMARK 290 SMTRY3 3 0.000000 0.000000 -1.000000 56.14850
REMARK 290 SMTRY1 4 1.000000 0.000000 0.000000 31.30150
REMARK 290 SMTRY2 4 0.000000 -1.000000 0.000000 34.43100
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: DIMERIC
REMARK 350 SOFTWARE DETERMINED QUATERNARY STRUCTURE: DIMERIC
REMARK 350 SOFTWARE USED: PISA
REMARK 350 TOTAL BURIED SURFACE AREA: 3660 ANGSTROM**2
REMARK 350 SURFACE AREA OF THE COMPLEX: 20040 ANGSTROM**2
REMARK 350 CHANGE IN SOLVENT FREE ENERGY: -12.0 KCAL/MOL
REMARK 350 APPLY THE FOLLOWING TO CHAINS: B, 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 B 1
REMARK 465 MET B 2
REMARK 465 LEU B 3
REMARK 465 SER B 4
REMARK 465 ALA B 5
REMARK 465 THR B 6
REMARK 465 GLN B 7
REMARK 465 PRO B 8
REMARK 465 LEU B 9
REMARK 465 SER B 10
REMARK 465 GLU B 11
REMARK 465 LYS B 12
REMARK 465 LEU B 13
REMARK 465 SER B 71
REMARK 465 SER B 72
REMARK 465 GLU B 73
REMARK 465 ASN B 74
REMARK 465 TRP B 75
REMARK 465 ASN B 76
REMARK 465 ARG B 77
REMARK 465 PRO B 78
REMARK 465 ALA B 79
REMARK 465 GLN B 80
REMARK 465 GLU B 81
REMARK 465 VAL B 82
REMARK 465 SER B 83
REMARK 465 ALA B 84
REMARK 465 LEU B 85
REMARK 465 GLU B 240
REMARK 465 ARG B 241
REMARK 465 ARG B 242
REMARK 465 PHE B 243
REMARK 465 GLY B 244
REMARK 465 GLY B 245
REMARK 465 THR B 246
REMARK 465 GLU B 247
REMARK 465 PRO B 248
REMARK 465 GLY B 249
REMARK 465 ASP B 250
REMARK 465 GLU B 251
REMARK 465 THR B 252
REMARK 465 ALA B 253
REMARK 465 MET A 1
REMARK 465 MET A 2
REMARK 465 LEU A 3
REMARK 465 SER A 4
REMARK 465 ALA A 5
REMARK 465 THR A 6
REMARK 465 GLN A 7
REMARK 465 PRO A 8
REMARK 465 LEU A 9
REMARK 465 SER A 10
REMARK 465 GLU A 11
REMARK 465 LYS A 12
REMARK 465 LEU A 13
REMARK 465 PRO A 14
REMARK 465 ALA A 15
REMARK 465 HIS A 16
REMARK 465 SER A 72
REMARK 465 GLU A 73
REMARK 465 ASN A 74
REMARK 465 TRP A 75
REMARK 465 ASN A 76
REMARK 465 ARG A 77
REMARK 465 PRO A 78
REMARK 465 ALA A 79
REMARK 465 GLN A 80
REMARK 465 GLU A 81
REMARK 465 VAL A 82
REMARK 465 SER A 83
REMARK 465 ALA A 84
REMARK 465 LEU A 85
REMARK 465 MET A 86
REMARK 465 GLU A 87
REMARK 465 LEU A 88
REMARK 465 PHE A 89
REMARK 465 GLU A 240
REMARK 465 ARG A 241
REMARK 465 ARG A 242
REMARK 465 PHE A 243
REMARK 465 GLY A 244
REMARK 465 GLY A 245
REMARK 465 THR A 246
REMARK 465 GLU A 247
REMARK 465 PRO A 248
REMARK 465 GLY A 249
REMARK 465 ASP A 250
REMARK 465 GLU A 251
REMARK 465 THR A 252
REMARK 465 ALA A 253
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 18 CB CYS B 18 SG -0.126
REMARK 500
REMARK 500 REMARK: NULL
REMARK 500
REMARK 500 GEOMETRY AND STEREOCHEMISTRY
REMARK 500 SUBTOPIC: COVALENT BOND ANGLES
REMARK 500
REMARK 500 THE STEREOCHEMICAL PARAMETERS OF THE FOLLOWING RESIDUES
REMARK 500 HAVE VALUES WHICH DEVIATE FROM EXPECTED VALUES BY MORE
REMARK 500 THAN 6*RMSD (M=MODEL NUMBER; RES=RESIDUE NAME; C=CHAIN
REMARK 500 IDENTIFIER; SSEQ=SEQUENCE NUMBER; I=INSERTION CODE).
REMARK 500
REMARK 500 STANDARD TABLE:
REMARK 500 FORMAT: (10X,I3,1X,A3,1X,A1,I4,A1,3(1X,A4,2X),12X,F5.1)
REMARK 500
REMARK 500 EXPECTED VALUES PROTEIN: ENGH AND HUBER, 1999
REMARK 500 EXPECTED VALUES NUCLEIC ACID: CLOWNEY ET AL 1996
REMARK 500
REMARK 500 M RES CSSEQI ATM1 ATM2 ATM3
REMARK 500 ARG A 200 NE - CZ - NH2 ANGL. DEV. = -3.5 DEGREES
REMARK 500
REMARK 500 REMARK: NULL
REMARK 500
REMARK 500 GEOMETRY AND STEREOCHEMISTRY
REMARK 500 SUBTOPIC: TORSION ANGLES
REMARK 500
REMARK 500 TORSION ANGLES OUTSIDE THE EXPECTED RAMACHANDRAN REGIONS:
REMARK 500 (M=MODEL NUMBER; RES=RESIDUE NAME; C=CHAIN IDENTIFIER;
REMARK 500 SSEQ=SEQUENCE NUMBER; I=INSERTION CODE).
REMARK 500
REMARK 500 STANDARD TABLE:
REMARK 500 FORMAT:(10X,I3,1X,A3,1X,A1,I4,A1,4X,F7.2,3X,F7.2)
REMARK 500
REMARK 500 EXPECTED VALUES: GJ KLEYWEGT AND TA JONES (1996). PHI/PSI-
REMARK 500 CHOLOGY: RAMACHANDRAN REVISITED. STRUCTURE 4, 1395 - 1400
REMARK 500
REMARK 500 M RES CSSEQI PSI PHI
REMARK 500 LEU B 88 -7.30 -33.81
REMARK 500 TRP B 91 53.28 -55.36
REMARK 500 SER B 118 -49.39 18.88
REMARK 500 PHE B 204 -151.14 -82.28
REMARK 500 LEU B 206 -66.48 -124.93
REMARK 500 ASP B 225 -169.61 -116.69
REMARK 500 TRP A 91 -16.78 -48.36
REMARK 500 PHE A 116 135.38 -22.54
REMARK 500 GLN A 164 -16.23 -48.17
REMARK 500 LEU A 167 131.46 -171.34
REMARK 500 HIS A 199 68.93 -115.40
REMARK 500 PHE A 204 -151.10 -69.52
REMARK 500 LEU A 206 -67.20 -129.23
REMARK 500 ASP A 225 -165.34 -125.42
REMARK 500
REMARK 500 REMARK: NULL
REMARK 500
REMARK 500 GEOMETRY AND STEREOCHEMISTRY
REMARK 500 SUBTOPIC: NON-CIS, NON-TRANS
REMARK 500
REMARK 500 THE FOLLOWING PEPTIDE BONDS DEVIATE SIGNIFICANTLY FROM BOTH
REMARK 500 CIS AND TRANS CONFORMATION. CIS BONDS, IF ANY, ARE LISTED
REMARK 500 ON CISPEP RECORDS. TRANS IS DEFINED AS 180 +/- 30 AND
REMARK 500 CIS IS DEFINED AS 0 +/- 30 DEGREES.
REMARK 500 MODEL OMEGA
REMARK 500 ALA B 69 PHE B 70 -139.92
REMARK 500 GLN B 164 GLY B 165 -145.98
REMARK 500
REMARK 500 REMARK: NULL
REMARK 800
REMARK 800 SITE
REMARK 800 SITE_IDENTIFIER: AC1
REMARK 800 EVIDENCE_CODE: SOFTWARE
REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE TH9 B 289
DBREF 3TH8 A 1 253 UNP P60472 UPPS_ECOLI 1 253
DBREF 3TH8 B 1 253 UNP P60472 UPPS_ECOLI 1 253
SEQRES 1 B 253 MET MET LEU SER ALA THR GLN PRO LEU SER GLU LYS LEU
SEQRES 2 B 253 PRO ALA HIS GLY CYS ARG HIS VAL ALA ILE ILE MET ASP
SEQRES 3 B 253 GLY ASN GLY ARG TRP ALA LYS LYS GLN GLY LYS ILE ARG
SEQRES 4 B 253 ALA PHE GLY HIS LYS ALA GLY ALA LYS SER VAL ARG ARG
SEQRES 5 B 253 ALA VAL SER PHE ALA ALA ASN ASN GLY ILE GLU ALA LEU
SEQRES 6 B 253 THR LEU TYR ALA PHE SER SER GLU ASN TRP ASN ARG PRO
SEQRES 7 B 253 ALA GLN GLU VAL SER ALA LEU MET GLU LEU PHE VAL TRP
SEQRES 8 B 253 ALA LEU ASP SER GLU VAL LYS SER LEU HIS ARG HIS ASN
SEQRES 9 B 253 VAL ARG LEU ARG ILE ILE GLY ASP THR SER ARG PHE ASN
SEQRES 10 B 253 SER ARG LEU GLN GLU ARG ILE ARG LYS SER GLU ALA LEU
SEQRES 11 B 253 THR ALA GLY ASN THR GLY LEU THR LEU ASN ILE ALA ALA
SEQRES 12 B 253 ASN TYR GLY GLY ARG TRP ASP ILE VAL GLN GLY VAL ARG
SEQRES 13 B 253 GLN LEU ALA GLU LYS VAL GLN GLN GLY ASN LEU GLN PRO
SEQRES 14 B 253 ASP GLN ILE ASP GLU GLU MET LEU ASN GLN HIS VAL CYS
SEQRES 15 B 253 MET HIS GLU LEU ALA PRO VAL ASP LEU VAL ILE ARG THR
SEQRES 16 B 253 GLY GLY GLU HIS ARG ILE SER ASN PHE LEU LEU TRP GLN
SEQRES 17 B 253 ILE ALA TYR ALA GLU LEU TYR PHE THR ASP VAL LEU TRP
SEQRES 18 B 253 PRO ASP PHE ASP GLU GLN ASP PHE GLU GLY ALA LEU ASN
SEQRES 19 B 253 ALA PHE ALA ASN ARG GLU ARG ARG PHE GLY GLY THR GLU
SEQRES 20 B 253 PRO GLY ASP GLU THR ALA
SEQRES 1 A 253 MET MET LEU SER ALA THR GLN PRO LEU SER GLU LYS LEU
SEQRES 2 A 253 PRO ALA HIS GLY CYS ARG HIS VAL ALA ILE ILE MET ASP
SEQRES 3 A 253 GLY ASN GLY ARG TRP ALA LYS LYS GLN GLY LYS ILE ARG
SEQRES 4 A 253 ALA PHE GLY HIS LYS ALA GLY ALA LYS SER VAL ARG ARG
SEQRES 5 A 253 ALA VAL SER PHE ALA ALA ASN ASN GLY ILE GLU ALA LEU
SEQRES 6 A 253 THR LEU TYR ALA PHE SER SER GLU ASN TRP ASN ARG PRO
SEQRES 7 A 253 ALA GLN GLU VAL SER ALA LEU MET GLU LEU PHE VAL TRP
SEQRES 8 A 253 ALA LEU ASP SER GLU VAL LYS SER LEU HIS ARG HIS ASN
SEQRES 9 A 253 VAL ARG LEU ARG ILE ILE GLY ASP THR SER ARG PHE ASN
SEQRES 10 A 253 SER ARG LEU GLN GLU ARG ILE ARG LYS SER GLU ALA LEU
SEQRES 11 A 253 THR ALA GLY ASN THR GLY LEU THR LEU ASN ILE ALA ALA
SEQRES 12 A 253 ASN TYR GLY GLY ARG TRP ASP ILE VAL GLN GLY VAL ARG
SEQRES 13 A 253 GLN LEU ALA GLU LYS VAL GLN GLN GLY ASN LEU GLN PRO
SEQRES 14 A 253 ASP GLN ILE ASP GLU GLU MET LEU ASN GLN HIS VAL CYS
SEQRES 15 A 253 MET HIS GLU LEU ALA PRO VAL ASP LEU VAL ILE ARG THR
SEQRES 16 A 253 GLY GLY GLU HIS ARG ILE SER ASN PHE LEU LEU TRP GLN
SEQRES 17 A 253 ILE ALA TYR ALA GLU LEU TYR PHE THR ASP VAL LEU TRP
SEQRES 18 A 253 PRO ASP PHE ASP GLU GLN ASP PHE GLU GLY ALA LEU ASN
SEQRES 19 A 253 ALA PHE ALA ASN ARG GLU ARG ARG PHE GLY GLY THR GLU
SEQRES 20 A 253 PRO GLY ASP GLU THR ALA
HET TH9 B 289 25
HETNAM TH9 (2Z)-4-({3-[3-(HEXYLOXY)PHENYL]PROPYL}AMINO)-2-HYDROXY-
HETNAM 2 TH9 4-OXOBUT-2-ENOIC ACID
HETSYN TH9 BPH-1063
FORMUL 3 TH9 C19 H27 N O5
FORMUL 4 HOH *63(H2 O)
HELIX 1 1 GLY B 27 GLN B 35 1 9
HELIX 2 2 ILE B 38 ASN B 60 1 23
HELIX 3 3 MET B 86 TRP B 91 5 6
HELIX 4 4 ALA B 92 HIS B 103 1 12
HELIX 5 5 SER B 118 ALA B 132 1 15
HELIX 6 6 GLY B 146 GLN B 164 1 19
HELIX 7 7 GLN B 168 ILE B 172 5 5
HELIX 8 8 ASP B 173 GLN B 179 1 7
HELIX 9 9 LEU B 206 ALA B 210 5 5
HELIX 10 10 LEU B 220 PHE B 224 5 5
HELIX 11 11 ASP B 225 ARG B 239 1 15
HELIX 12 12 GLY A 27 GLN A 35 1 9
HELIX 13 13 ILE A 38 ASN A 60 1 23
HELIX 14 14 GLU A 96 HIS A 103 1 8
HELIX 15 15 ASN A 117 ALA A 132 1 16
HELIX 16 16 GLY A 146 GLN A 164 1 19
HELIX 17 17 GLN A 168 ILE A 172 5 5
HELIX 18 18 ASP A 173 GLN A 179 1 7
HELIX 19 19 LEU A 206 ALA A 210 5 5
HELIX 20 20 LEU A 220 PHE A 224 5 5
HELIX 21 21 ASP A 225 ASN A 238 1 14
SHEET 1 A 6 ARG B 106 ILE B 110 0
SHEET 2 A 6 THR B 138 ALA B 142 1 O LEU B 139 N ARG B 106
SHEET 3 A 6 ALA B 64 ALA B 69 1 N LEU B 67 O ASN B 140
SHEET 4 A 6 HIS B 20 MET B 25 1 N ILE B 23 O TYR B 68
SHEET 5 A 6 LEU B 191 ARG B 194 1 O ILE B 193 N ILE B 24
SHEET 6 A 6 GLU B 213 PHE B 216 1 O TYR B 215 N VAL B 192
SHEET 1 B 6 ARG A 106 ILE A 110 0
SHEET 2 B 6 THR A 138 ALA A 142 1 O LEU A 139 N ARG A 106
SHEET 3 B 6 ALA A 64 TYR A 68 1 N LEU A 65 O ASN A 140
SHEET 4 B 6 HIS A 20 ILE A 24 1 N ILE A 23 O THR A 66
SHEET 5 B 6 LEU A 191 ARG A 194 1 O ILE A 193 N ALA A 22
SHEET 6 B 6 GLU A 213 PHE A 216 1 O TYR A 215 N ARG A 194
SITE 1 AC1 11 ASP B 26 ASN B 28 GLY B 29 ARG B 39
SITE 2 AC1 11 HIS B 43 GLY B 46 ALA B 47 ALA B 69
SITE 3 AC1 11 PHE B 70 ILE B 141 HOH B 293
CRYST1 62.603 68.862 112.297 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 0.015974 0.000000 0.000000 0.00000
SCALE2 0.000000 0.014522 0.000000 0.00000
SCALE3 0.000000 0.000000 0.008905 0.00000