HEADER OXIDOREDUCTASE 26-JAN-15 4S3C
TITLE ISPG IN COMPLEX WITH EPOXIDE INTERMEDIATE
COMPND MOL_ID: 1;
COMPND 2 MOLECULE: 4-HYDROXY-3-METHYLBUT-2-EN-1-YL DIPHOSPHATE SYNTHASE;
COMPND 3 CHAIN: A;
COMPND 4 SYNONYM: 1-HYDROXY-2-METHYL-2-(E)-BUTENYL 4-DIPHOSPHATE SYNTHASE;
COMPND 5 EC: 1.17.7.1;
COMPND 6 ENGINEERED: YES
SOURCE MOL_ID: 1;
SOURCE 2 ORGANISM_SCIENTIFIC: THERMUS THERMOPHILUS HB8;
SOURCE 3 ORGANISM_TAXID: 300852;
SOURCE 4 STRAIN: HB8/DSM 579;
SOURCE 5 ATCC: 27634;
SOURCE 6 GENE: ISPG, TTHA0305;
SOURCE 7 EXPRESSION_SYSTEM: ESCHERICHIA COLI;
SOURCE 8 EXPRESSION_SYSTEM_TAXID: 469008;
SOURCE 9 EXPRESSION_SYSTEM_STRAIN: BL21(DE3);
SOURCE 10 EXPRESSION_SYSTEM_PLASMID: PET28B
KEYWDS METHYLERYTHRITOL-PHOSPHATE PATHWAY, TERPENE BIOSYNTHESIS, IRON-SULFUR
KEYWDS 2 ENZYMES, REACTION MECHANISMS, DRUG DEVELOPMENT, OXIDOREDUCTASE
EXPDTA X-RAY DIFFRACTION
AUTHOR F.QUITTERER,A.FRANK,K.WANG,G.RAO,B.O'DOWD,J.LI,F.GUERRA,S.ABDEL-
AUTHOR 2 AZEIM,A.BACHER,J.EPPINGER,E.OLDFIELD,M.GROLL
REVDAT 5 06-DEC-23 4S3C 1 REMARK
REVDAT 4 20-SEP-23 4S3C 1 REMARK LINK
REVDAT 3 07-MAR-18 4S3C 1 REMARK
REVDAT 2 01-JUL-15 4S3C 1 JRNL
REVDAT 1 06-MAY-15 4S3C 0
JRNL AUTH F.QUITTERER,A.FRANK,K.WANG,G.RAO,B.O'DOWD,J.LI,F.GUERRA,
JRNL AUTH 2 S.ABDEL-AZEIM,A.BACHER,J.EPPINGER,E.OLDFIELD,M.GROLL
JRNL TITL ATOMIC-RESOLUTION STRUCTURES OF DISCRETE STAGES ON THE
JRNL TITL 2 REACTION COORDINATE OF THE [FE4S4] ENZYME ISPG (GCPE).
JRNL REF J.MOL.BIOL. V. 427 2220 2015
JRNL REFN ISSN 0022-2836
JRNL PMID 25868383
JRNL DOI 10.1016/J.JMB.2015.04.002
REMARK 2
REMARK 2 RESOLUTION. 1.45 ANGSTROMS.
REMARK 3
REMARK 3 REFINEMENT.
REMARK 3 PROGRAM : REFMAC
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) : 1.45
REMARK 3 RESOLUTION RANGE LOW (ANGSTROMS) : 10.00
REMARK 3 DATA CUTOFF (SIGMA(F)) : NULL
REMARK 3 COMPLETENESS FOR RANGE (%) : 97.4
REMARK 3 NUMBER OF REFLECTIONS : 77599
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) : 0.125
REMARK 3 R VALUE (WORKING SET) : 0.123
REMARK 3 FREE R VALUE : 0.161
REMARK 3 FREE R VALUE TEST SET SIZE (%) : 5.000
REMARK 3 FREE R VALUE TEST SET COUNT : 4085
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) : 1.45
REMARK 3 BIN RESOLUTION RANGE LOW (A) : 1.49
REMARK 3 REFLECTION IN BIN (WORKING SET) : 5683
REMARK 3 BIN COMPLETENESS (WORKING+TEST) (%) : 98.52
REMARK 3 BIN R VALUE (WORKING SET) : 0.2480
REMARK 3 BIN FREE R VALUE SET COUNT : 299
REMARK 3 BIN FREE R VALUE : 0.3030
REMARK 3
REMARK 3 NUMBER OF NON-HYDROGEN ATOMS USED IN REFINEMENT.
REMARK 3 PROTEIN ATOMS : 3076
REMARK 3 NUCLEIC ACID ATOMS : 0
REMARK 3 HETEROGEN ATOMS : 30
REMARK 3 SOLVENT ATOMS : 281
REMARK 3
REMARK 3 B VALUES.
REMARK 3 FROM WILSON PLOT (A**2) : NULL
REMARK 3 MEAN B VALUE (OVERALL, A**2) : 26.71
REMARK 3 OVERALL ANISOTROPIC B VALUE.
REMARK 3 B11 (A**2) : -0.02000
REMARK 3 B22 (A**2) : 0.23000
REMARK 3 B33 (A**2) : -0.08000
REMARK 3 B12 (A**2) : 0.00000
REMARK 3 B13 (A**2) : -0.05000
REMARK 3 B23 (A**2) : 0.00000
REMARK 3
REMARK 3 ESTIMATED OVERALL COORDINATE ERROR.
REMARK 3 ESU BASED ON R VALUE (A): 0.050
REMARK 3 ESU BASED ON FREE R VALUE (A): 0.051
REMARK 3 ESU BASED ON MAXIMUM LIKELIHOOD (A): 0.034
REMARK 3 ESU FOR B VALUES BASED ON MAXIMUM LIKELIHOOD (A**2): 1.979
REMARK 3
REMARK 3 CORRELATION COEFFICIENTS.
REMARK 3 CORRELATION COEFFICIENT FO-FC : 0.984
REMARK 3 CORRELATION COEFFICIENT FO-FC FREE : 0.975
REMARK 3
REMARK 3 RMS DEVIATIONS FROM IDEAL VALUES COUNT RMS WEIGHT
REMARK 3 BOND LENGTHS REFINED ATOMS (A): 3270 ; 0.024 ; 0.019
REMARK 3 BOND LENGTHS OTHERS (A): 3228 ; 0.001 ; 0.020
REMARK 3 BOND ANGLES REFINED ATOMS (DEGREES): 4491 ; 2.778 ; 2.017
REMARK 3 BOND ANGLES OTHERS (DEGREES): 7440 ; 1.485 ; 3.001
REMARK 3 TORSION ANGLES, PERIOD 1 (DEGREES): 421 ; 5.724 ; 5.000
REMARK 3 TORSION ANGLES, PERIOD 2 (DEGREES): 132 ;35.680 ;22.652
REMARK 3 TORSION ANGLES, PERIOD 3 (DEGREES): 565 ;14.081 ;15.000
REMARK 3 TORSION ANGLES, PERIOD 4 (DEGREES): 34 ;19.590 ;15.000
REMARK 3 CHIRAL-CENTER RESTRAINTS (A**3): 501 ; 0.207 ; 0.200
REMARK 3 GENERAL PLANES REFINED ATOMS (A): 3664 ; 0.011 ; 0.021
REMARK 3 GENERAL PLANES OTHERS (A): 690 ; 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): 1657 ; 4.071 ; 2.114
REMARK 3 MAIN-CHAIN BOND OTHER ATOMS (A**2): 1656 ; 4.034 ; 2.111
REMARK 3 MAIN-CHAIN ANGLE REFINED ATOMS (A**2): 2087 ; 4.784 ; 3.184
REMARK 3 MAIN-CHAIN ANGLE OTHER ATOMS (A**2): 2088 ; 4.572 ; 3.192
REMARK 3 SIDE-CHAIN BOND REFINED ATOMS (A**2): 1613 ; 7.011 ; 2.762
REMARK 3 SIDE-CHAIN BOND OTHER ATOMS (A**2): 1613 ; 6.568 ; 2.757
REMARK 3 SIDE-CHAIN ANGLE REFINED ATOMS (A**2): NULL ; NULL ; NULL
REMARK 3 SIDE-CHAIN ANGLE OTHER ATOMS (A**2): 2343 ; 7.315 ; 3.885
REMARK 3 LONG RANGE B REFINED ATOMS (A**2): 3791 ; 6.617 ;18.897
REMARK 3 LONG RANGE B OTHER ATOMS (A**2): 3791 ; 6.617 ;18.897
REMARK 3
REMARK 3 ANISOTROPIC THERMAL FACTOR RESTRAINTS. COUNT RMS WEIGHT
REMARK 3 RIGID-BOND RESTRAINTS (A**2): 6498 ; 6.176 ; 3.000
REMARK 3 SPHERICITY; FREE ATOMS (A**2): 79 ;29.853 ; 5.000
REMARK 3 SPHERICITY; BONDED ATOMS (A**2): 6620 ;17.898 ; 5.000
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 : 1
REMARK 3
REMARK 3 TLS GROUP : 1
REMARK 3 NUMBER OF COMPONENTS GROUP : 3
REMARK 3 COMPONENTS C SSSEQI TO C SSSEQI
REMARK 3 RESIDUE RANGE : A 3 A 404
REMARK 3 RESIDUE RANGE : A 901 A 903
REMARK 3 RESIDUE RANGE : A 1001 A 1281
REMARK 3 ORIGIN FOR THE GROUP (A): -12.5907 23.4218 2.7327
REMARK 3 T TENSOR
REMARK 3 T11: 0.0037 T22: 0.0240
REMARK 3 T33: 0.0111 T12: 0.0001
REMARK 3 T13: -0.0006 T23: -0.0001
REMARK 3 L TENSOR
REMARK 3 L11: 0.0104 L22: 0.0015
REMARK 3 L33: 0.0046 L12: -0.0018
REMARK 3 L13: 0.0021 L23: -0.0006
REMARK 3 S TENSOR
REMARK 3 S11: -0.0001 S12: -0.0011 S13: -0.0000
REMARK 3 S21: 0.0004 S22: 0.0006 S23: 0.0003
REMARK 3 S31: -0.0005 S32: -0.0011 S33: -0.0005
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 4S3C COMPLIES WITH FORMAT V. 3.30, 13-JUL-11
REMARK 100
REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY RCSB ON 30-JAN-15.
REMARK 100 THE DEPOSITION ID IS D_1000088127.
REMARK 200
REMARK 200 EXPERIMENTAL DETAILS
REMARK 200 EXPERIMENT TYPE : X-RAY DIFFRACTION
REMARK 200 DATE OF DATA COLLECTION : 28-JUL-14
REMARK 200 TEMPERATURE (KELVIN) : 100
REMARK 200 PH : 6.5
REMARK 200 NUMBER OF CRYSTALS USED : 1
REMARK 200
REMARK 200 SYNCHROTRON (Y/N) : Y
REMARK 200 RADIATION SOURCE : SLS
REMARK 200 BEAMLINE : X06SA
REMARK 200 X-RAY GENERATOR MODEL : NULL
REMARK 200 MONOCHROMATIC OR LAUE (M/L) : M
REMARK 200 WAVELENGTH OR RANGE (A) : 0.971
REMARK 200 MONOCHROMATOR : LN2 COOLED FIXED-EXIT. SI(111)
REMARK 200 MONOCHROMATOR
REMARK 200 OPTICS : NULL
REMARK 200
REMARK 200 DETECTOR TYPE : PIXEL
REMARK 200 DETECTOR MANUFACTURER : PSI PILATUS 6M
REMARK 200 INTENSITY-INTEGRATION SOFTWARE : XDS
REMARK 200 DATA SCALING SOFTWARE : XDS, XSCALE
REMARK 200
REMARK 200 NUMBER OF UNIQUE REFLECTIONS : 81686
REMARK 200 RESOLUTION RANGE HIGH (A) : 1.450
REMARK 200 RESOLUTION RANGE LOW (A) : 30.000
REMARK 200 REJECTION CRITERIA (SIGMA(I)) : 2.000
REMARK 200
REMARK 200 OVERALL.
REMARK 200 COMPLETENESS FOR RANGE (%) : 97.1
REMARK 200 DATA REDUNDANCY : 3.000
REMARK 200 R MERGE (I) : 0.03700
REMARK 200 R SYM (I) : NULL
REMARK 200 <I/SIGMA(I)> FOR THE DATA SET : 14.9000
REMARK 200
REMARK 200 IN THE HIGHEST RESOLUTION SHELL.
REMARK 200 HIGHEST RESOLUTION SHELL, RANGE HIGH (A) : 1.45
REMARK 200 HIGHEST RESOLUTION SHELL, RANGE LOW (A) : 1.55
REMARK 200 COMPLETENESS FOR SHELL (%) : 97.7
REMARK 200 DATA REDUNDANCY IN SHELL : NULL
REMARK 200 R MERGE FOR SHELL (I) : 0.48100
REMARK 200 R SYM FOR SHELL (I) : NULL
REMARK 200 <I/SIGMA(I)> FOR SHELL : 2.400
REMARK 200
REMARK 200 DIFFRACTION PROTOCOL: SINGLE WAVELENGTH
REMARK 200 METHOD USED TO DETERMINE THE STRUCTURE: MOLECULAR REPLACEMENT
REMARK 200 SOFTWARE USED: REFMAC
REMARK 200 STARTING MODEL: 4S38
REMARK 200
REMARK 200 REMARK: NULL
REMARK 280
REMARK 280 CRYSTAL
REMARK 280 SOLVENT CONTENT, VS (%): 54.59
REMARK 280 MATTHEWS COEFFICIENT, VM (ANGSTROMS**3/DA): 2.71
REMARK 280
REMARK 280 CRYSTALLIZATION CONDITIONS: 0.1 M BIS-TRIS PROPANE; 20% PEG3350;
REMARK 280 0.2 M NA2SO4 , PH 6.5, VAPOR DIFFUSION, SITTING DROP,
REMARK 280 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 55.46500
REMARK 290 SMTRY2 3 0.000000 1.000000 0.000000 31.42000
REMARK 290 SMTRY3 3 0.000000 0.000000 1.000000 0.00000
REMARK 290 SMTRY1 4 -1.000000 0.000000 0.000000 55.46500
REMARK 290 SMTRY2 4 0.000000 1.000000 0.000000 31.42000
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: 8150 ANGSTROM**2
REMARK 350 SURFACE AREA OF THE COMPLEX: 29760 ANGSTROM**2
REMARK 350 CHANGE IN SOLVENT FREE ENERGY: -64.0 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 BIOMT1 2 -1.000000 0.000000 0.000000 0.00000
REMARK 350 BIOMT2 2 0.000000 1.000000 0.000000 0.00000
REMARK 350 BIOMT3 2 0.000000 0.000000 -1.000000 0.00000
REMARK 375
REMARK 375 SPECIAL POSITION
REMARK 375 THE FOLLOWING ATOMS ARE FOUND TO BE WITHIN 0.15 ANGSTROMS
REMARK 375 OF A SYMMETRY RELATED ATOM AND ARE ASSUMED TO BE ON SPECIAL
REMARK 375 POSITIONS.
REMARK 375
REMARK 375 ATOM RES CSSEQI
REMARK 375 HOH A1232 LIES ON A SPECIAL POSITION.
REMARK 375 HOH A1237 LIES ON A SPECIAL POSITION.
REMARK 465
REMARK 465 MISSING RESIDUES
REMARK 465 THE FOLLOWING RESIDUES WERE NOT LOCATED IN THE
REMARK 465 EXPERIMENT. (M=MODEL NUMBER; RES=RESIDUE NAME; C=CHAIN
REMARK 465 IDENTIFIER; SSSEQ=SEQUENCE NUMBER; I=INSERTION CODE.)
REMARK 465
REMARK 465 M RES C SSSEQI
REMARK 465 MET A 1
REMARK 465 GLU A 2
REMARK 465 LYS A 405
REMARK 465 ALA A 406
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 43Q A 901 O HOH A 1238 1.88
REMARK 500 O HOH A 1033 O HOH A 1236 1.89
REMARK 500 O HOH A 1068 O HOH A 1234 2.10
REMARK 500 O HOH A 1014 O HOH A 1277 2.11
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 1051 O HOH A 1272 4455 2.15
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 SER A 181 CB SER A 181 OG -0.081
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 56 NE - CZ - NH2 ANGL. DEV. = -3.0 DEGREES
REMARK 500 PHE A 109 CB - CG - CD1 ANGL. DEV. = 4.4 DEGREES
REMARK 500 ARG A 131 NE - CZ - NH1 ANGL. DEV. = 4.0 DEGREES
REMARK 500 ARG A 131 NE - CZ - NH2 ANGL. DEV. = -3.7 DEGREES
REMARK 500 ARG A 209 NE - CZ - NH1 ANGL. DEV. = 3.2 DEGREES
REMARK 500 ASP A 210 CB - CG - OD2 ANGL. DEV. = -6.9 DEGREES
REMARK 500 ARG A 302 NE - CZ - NH2 ANGL. DEV. = -4.3 DEGREES
REMARK 500 ARG A 392 NE - CZ - NH2 ANGL. DEV. = -4.0 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 GLU A 81 38.44 -95.78
REMARK 500 PHE A 90 -45.67 73.32
REMARK 500 SER A 148 54.43 -146.92
REMARK 500 ALA A 203 89.71 -156.57
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 SF4 A 902 FE4
REMARK 620 N RES CSSEQI ATOM
REMARK 620 1 CYS A 297 SG
REMARK 620 2 SF4 A 902 S1 107.9
REMARK 620 3 SF4 A 902 S2 125.8 104.9
REMARK 620 4 SF4 A 902 S3 105.9 114.6 97.9
REMARK 620 N 1 2 3
REMARK 620
REMARK 620 COORDINATION ANGLES FOR: M RES CSSEQI METAL
REMARK 620 SF4 A 902 FE1
REMARK 620 N RES CSSEQI ATOM
REMARK 620 1 CYS A 300 SG
REMARK 620 2 SF4 A 902 S2 115.3
REMARK 620 3 SF4 A 902 S3 120.2 100.5
REMARK 620 4 SF4 A 902 S4 106.2 108.1 105.8
REMARK 620 N 1 2 3
REMARK 620
REMARK 620 COORDINATION ANGLES FOR: M RES CSSEQI METAL
REMARK 620 SF4 A 902 FE3
REMARK 620 N RES CSSEQI ATOM
REMARK 620 1 CYS A 343 SG
REMARK 620 2 SF4 A 902 S1 123.5
REMARK 620 3 SF4 A 902 S2 110.9 105.0
REMARK 620 4 SF4 A 902 S4 105.4 103.0 107.9
REMARK 620 N 1 2 3
REMARK 620
REMARK 620 COORDINATION ANGLES FOR: M RES CSSEQI METAL
REMARK 620 SF4 A 902 FE2
REMARK 620 N RES CSSEQI ATOM
REMARK 620 1 43Q A 901 O1
REMARK 620 2 SF4 A 902 S1 106.7
REMARK 620 3 SF4 A 902 S3 106.7 114.6
REMARK 620 4 SF4 A 902 S4 120.7 102.2 106.3
REMARK 620 N 1 2 3
REMARK 800
REMARK 800 SITE
REMARK 800 SITE_IDENTIFIER: AC1
REMARK 800 EVIDENCE_CODE: SOFTWARE
REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE 43Q A 901
REMARK 800
REMARK 800 SITE_IDENTIFIER: AC2
REMARK 800 EVIDENCE_CODE: SOFTWARE
REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE SF4 A 902
REMARK 800
REMARK 800 SITE_IDENTIFIER: AC3
REMARK 800 EVIDENCE_CODE: SOFTWARE
REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE GOL A 903
REMARK 900
REMARK 900 RELATED ENTRIES
REMARK 900 RELATED ID: 4G9P RELATED DB: PDB
REMARK 900 STRUCTURE OF THE GCPE-MECPP (ISPG) COMPLEX FROM THERMUS THERMOPHILU
REMARK 900 RELATED ID: 2Y0F RELATED DB: PDB
REMARK 900 STRUCTURE OF GCPE (ISPG) FROM THERMUS THERMOPHILUS HB27
REMARK 900 RELATED ID: 3NOY RELATED DB: PDB
REMARK 900 CRYSTAL STRUCTURE OF ISPG (GCPE)
REMARK 900 RELATED ID: 4S38 RELATED DB: PDB
REMARK 900 RELATED ID: 4S39 RELATED DB: PDB
REMARK 900 RELATED ID: 4S3A RELATED DB: PDB
REMARK 900 RELATED ID: 4S3B RELATED DB: PDB
REMARK 900 RELATED ID: 4S3D RELATED DB: PDB
REMARK 900 RELATED ID: 4S3E RELATED DB: PDB
REMARK 900 RELATED ID: 4S3F RELATED DB: PDB
DBREF 4S3C A 1 406 UNP Q5SLI8 ISPG_THET8 1 406
SEQRES 1 A 406 MET GLU GLY MET ARG ARG PRO THR PRO THR VAL TYR VAL
SEQRES 2 A 406 GLY ARG VAL PRO ILE GLY GLY ALA HIS PRO ILE ALA VAL
SEQRES 3 A 406 GLN SER MET THR ASN THR PRO THR ARG ASP VAL GLU ALA
SEQRES 4 A 406 THR THR ALA GLN VAL LEU GLU LEU HIS ARG ALA GLY SER
SEQRES 5 A 406 GLU ILE VAL ARG LEU THR VAL ASN ASP GLU GLU ALA ALA
SEQRES 6 A 406 LYS ALA VAL PRO GLU ILE LYS ARG ARG LEU LEU ALA GLU
SEQRES 7 A 406 GLY ALA GLU VAL PRO LEU VAL GLY ASP PHE HIS PHE ASN
SEQRES 8 A 406 GLY HIS LEU LEU LEU ARG LYS TYR PRO LYS MET ALA GLU
SEQRES 9 A 406 ALA LEU ASP KCX PHE ARG ILE ASN PRO GLY THR LEU GLY
SEQRES 10 A 406 ARG GLY ARG HIS LYS ASP GLU HIS PHE ALA GLU MET ILE
SEQRES 11 A 406 ARG ILE ALA MET ASP LEU GLY LYS PRO VAL ARG ILE GLY
SEQRES 12 A 406 ALA ASN TRP GLY SER LEU ASP PRO ALA LEU LEU THR GLU
SEQRES 13 A 406 LEU MET ASP ARG ASN ALA ARG ARG PRO GLU PRO LYS SER
SEQRES 14 A 406 ALA HIS GLU VAL VAL LEU GLU ALA LEU VAL GLU SER ALA
SEQRES 15 A 406 VAL ARG ALA TYR GLU ALA ALA LEU GLU MET GLY LEU GLY
SEQRES 16 A 406 GLU ASP LYS LEU VAL LEU SER ALA LYS VAL SER LYS ALA
SEQRES 17 A 406 ARG ASP LEU VAL TRP VAL TYR ARG GLU LEU ALA ARG ARG
SEQRES 18 A 406 THR GLN ALA PRO LEU HIS LEU GLY LEU THR GLU ALA GLY
SEQRES 19 A 406 MET GLY VAL LYS GLY ILE VAL ALA SER ALA ALA ALA LEU
SEQRES 20 A 406 ALA PRO LEU LEU LEU GLU GLY ILE GLY ASP THR ILE ARG
SEQRES 21 A 406 VAL SER LEU THR PRO ALA PRO GLY GLU PRO ARG THR LYS
SEQRES 22 A 406 GLU VAL GLU VAL ALA GLN GLU ILE LEU GLN ALA LEU GLY
SEQRES 23 A 406 LEU ARG ALA PHE ALA PRO GLU VAL THR SER CYS PRO GLY
SEQRES 24 A 406 CYS GLY ARG THR THR SER THR PHE PHE GLN GLU LEU ALA
SEQRES 25 A 406 GLU GLU VAL SER ARG ARG LEU LYS GLU ARG LEU PRO GLU
SEQRES 26 A 406 TRP ARG ALA ARG TYR PRO GLY VAL GLU GLU LEU LYS VAL
SEQRES 27 A 406 ALA VAL MET GLY CYS VAL VAL ASN GLY PRO GLY GLU SER
SEQRES 28 A 406 LYS HIS ALA HIS ILE GLY ILE SER LEU PRO GLY ALA GLY
SEQRES 29 A 406 GLU GLU PRO LYS ALA PRO VAL TYR ALA ASP GLY LYS LEU
SEQRES 30 A 406 LEU THR ILE LEU LYS GLY GLU GLY ILE ALA GLU GLU PHE
SEQRES 31 A 406 LEU ARG LEU VAL GLU ASP TYR VAL LYS THR ARG PHE ALA
SEQRES 32 A 406 PRO LYS ALA
MODRES 4S3C KCX A 108 LYS LYSINE NZ-CARBOXYLIC ACID
HET KCX A 108 12
HET 43Q A 901 16
HET SF4 A 902 8
HET GOL A 903 6
HETNAM KCX LYSINE NZ-CARBOXYLIC ACID
HETNAM 43Q (3S)-1,3-DIHYDROXY-4-{[(S)-HYDROXY(PHOSPHONOOXY)
HETNAM 2 43Q PHOSPHORYL]OXY}-2-METHYLBUT-2-YLIUM, CARBOKATION
HETNAM 3 43Q INTERMEDIATE
HETNAM SF4 IRON/SULFUR CLUSTER
HETNAM GOL GLYCEROL
HETSYN GOL GLYCERIN; PROPANE-1,2,3-TRIOL
FORMUL 1 KCX C7 H14 N2 O4
FORMUL 2 43Q C5 H13 O9 P2 1+
FORMUL 3 SF4 FE4 S4
FORMUL 4 GOL C3 H8 O3
FORMUL 5 HOH *281(H2 O)
HELIX 1 1 ASP A 36 GLY A 51 1 16
HELIX 2 2 ASP A 61 GLU A 78 1 18
HELIX 3 3 ASN A 91 TYR A 99 1 9
HELIX 4 4 TYR A 99 LEU A 106 1 8
HELIX 5 5 ARG A 118 GLY A 137 1 20
HELIX 6 6 GLY A 147 LEU A 149 5 3
HELIX 7 7 ASP A 150 ARG A 163 1 14
HELIX 8 8 SER A 169 MET A 192 1 24
HELIX 9 9 GLY A 195 ASP A 197 5 3
HELIX 10 10 LYS A 207 THR A 222 1 16
HELIX 11 11 GLY A 236 GLU A 253 1 18
HELIX 12 12 THR A 272 LEU A 285 1 14
HELIX 13 13 THR A 304 TYR A 330 1 27
HELIX 14 14 GLY A 332 GLU A 335 5 4
HELIX 15 15 ASN A 346 ALA A 354 1 9
HELIX 16 16 GLY A 385 PHE A 402 1 18
SHEET 1 A 2 VAL A 11 VAL A 13 0
SHEET 2 A 2 VAL A 16 ILE A 18 -1 O VAL A 16 N VAL A 13
SHEET 1 B 8 LEU A 199 LYS A 204 0
SHEET 2 B 8 VAL A 140 ASN A 145 1 N ALA A 144 O LYS A 204
SHEET 3 B 8 KCX A 108 ILE A 111 1 N ILE A 111 O GLY A 143
SHEET 4 B 8 LEU A 84 ASP A 87 1 N GLY A 86 O ARG A 110
SHEET 5 B 8 ILE A 54 THR A 58 1 N LEU A 57 O VAL A 85
SHEET 6 B 8 ALA A 25 MET A 29 1 N SER A 28 O ARG A 56
SHEET 7 B 8 THR A 258 ILE A 259 1 O ILE A 259 N GLN A 27
SHEET 8 B 8 HIS A 227 LEU A 228 1 N LEU A 228 O THR A 258
SHEET 1 C 2 GLY A 234 MET A 235 0
SHEET 2 C 2 LEU A 263 THR A 264 1 O THR A 264 N GLY A 234
SHEET 1 D 5 GLU A 293 SER A 296 0
SHEET 2 D 5 LYS A 337 MET A 341 1 O VAL A 338 N THR A 295
SHEET 3 D 5 ILE A 356 SER A 359 1 O ILE A 358 N MET A 341
SHEET 4 D 5 ALA A 369 ALA A 373 -1 O TYR A 372 N GLY A 357
SHEET 5 D 5 LYS A 376 LEU A 381 -1 O LEU A 378 N VAL A 371
LINK C ASP A 107 N KCX A 108 1555 1555 1.31
LINK C KCX A 108 N PHE A 109 1555 1555 1.35
LINK SG CYS A 297 FE4 SF4 A 902 1555 1555 2.35
LINK SG CYS A 300 FE1 SF4 A 902 1555 1555 2.32
LINK SG CYS A 343 FE3 SF4 A 902 1555 1555 2.27
LINK O1 43Q A 901 FE2 SF4 A 902 1555 1555 1.95
SITE 1 AC1 16 MET A 29 ARG A 56 ASP A 87 HIS A 89
SITE 2 AC1 16 ARG A 110 ARG A 141 ASN A 145 LYS A 204
SITE 3 AC1 16 THR A 231 GLU A 232 ARG A 260 SER A 262
SITE 4 AC1 16 ASN A 346 SF4 A 902 HOH A1011 HOH A1238
SITE 1 AC2 5 CYS A 297 GLY A 299 CYS A 300 CYS A 343
SITE 2 AC2 5 43Q A 901
SITE 1 AC3 7 GLU A 276 GLN A 279 GLU A 280 GLN A 283
SITE 2 AC3 7 ALA A 291 HOH A1099 HOH A1275
CRYST1 110.930 62.840 86.200 90.00 127.02 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 0.009015 0.000000 0.006798 0.00000
SCALE2 0.000000 0.015913 0.000000 0.00000
SCALE3 0.000000 0.000000 0.014530 0.00000