HEADER TRANSFERASE 24-JAN-13 4IWN
TITLE CRYSTAL STRUCTURE OF A PUTATIVE METHYLTRANSFERASE CMOA IN COMPLEX WITH
TITLE 2 A NOVEL SAM DERIVATIVE
COMPND MOL_ID: 1;
COMPND 2 MOLECULE: TRNA (CMO5U34)-METHYLTRANSFERASE;
COMPND 3 CHAIN: A, B;
COMPND 4 FRAGMENT: UNP RESIDUES 19-247;
COMPND 5 SYNONYM: METHYLTRANSFERASE CMOA;
COMPND 6 EC: 2.1.1.-;
COMPND 7 ENGINEERED: YES
SOURCE MOL_ID: 1;
SOURCE 2 ORGANISM_SCIENTIFIC: ESCHERICHIA COLI;
SOURCE 3 ORGANISM_TAXID: 562;
SOURCE 4 GENE: CMOA, YECO, B1870, JW1859;
SOURCE 5 EXPRESSION_SYSTEM: ESCHERICHIA COLI;
SOURCE 6 EXPRESSION_SYSTEM_TAXID: 511145;
SOURCE 7 EXPRESSION_SYSTEM_STRAIN: K-12 SUBSTR. MG1655;
SOURCE 8 EXPRESSION_SYSTEM_VECTOR_TYPE: PLASMID;
SOURCE 9 EXPRESSION_SYSTEM_PLASMID: POPINF
KEYWDS PUTATIVE TRNA MODIFICATION ENZYME, SCM-SAH, TRANSFERASE
EXPDTA X-RAY DIFFRACTION
AUTHOR P.ALLER,C.M.LOBLEY,R.T.BYRNE,A.A.ANTSON,D.G.WATERMAN
REVDAT 4 20-SEP-23 4IWN 1 COMPND REMARK SEQADV HETNAM
REVDAT 3 19-JUN-13 4IWN 1 HETNAM
REVDAT 2 05-JUN-13 4IWN 1 JRNL
REVDAT 1 29-MAY-13 4IWN 0
JRNL AUTH R.T.BYRNE,F.WHELAN,P.ALLER,L.E.BIRD,A.DOWLE,C.M.LOBLEY,
JRNL AUTH 2 Y.REDDIVARI,J.E.NETTLESHIP,R.J.OWENS,A.A.ANTSON,D.G.WATERMAN
JRNL TITL S-ADENOSYL-S-CARBOXYMETHYL-L-HOMOCYSTEINE: A NOVEL COFACTOR
JRNL TITL 2 FOUND IN THE PUTATIVE TRNA-MODIFYING ENZYME CMOA.
JRNL REF ACTA CRYSTALLOGR.,SECT.D V. 69 1090 2013
JRNL REFN ISSN 0907-4449
JRNL PMID 23695253
JRNL DOI 10.1107/S0907444913004939
REMARK 2
REMARK 2 RESOLUTION. 1.73 ANGSTROMS.
REMARK 3
REMARK 3 REFINEMENT.
REMARK 3 PROGRAM : REFMAC 5.7.0029
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) : 1.73
REMARK 3 RESOLUTION RANGE LOW (ANGSTROMS) : 55.89
REMARK 3 DATA CUTOFF (SIGMA(F)) : 0.000
REMARK 3 COMPLETENESS FOR RANGE (%) : 99.9
REMARK 3 NUMBER OF REFLECTIONS : 52706
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) : 0.198
REMARK 3 R VALUE (WORKING SET) : 0.196
REMARK 3 FREE R VALUE : 0.231
REMARK 3 FREE R VALUE TEST SET SIZE (%) : 5.100
REMARK 3 FREE R VALUE TEST SET COUNT : 2687
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) : 1.73
REMARK 3 BIN RESOLUTION RANGE LOW (A) : 1.78
REMARK 3 REFLECTION IN BIN (WORKING SET) : 3640
REMARK 3 BIN COMPLETENESS (WORKING+TEST) (%) : 99.97
REMARK 3 BIN R VALUE (WORKING SET) : 0.2950
REMARK 3 BIN FREE R VALUE SET COUNT : 212
REMARK 3 BIN FREE R VALUE : 0.3190
REMARK 3
REMARK 3 NUMBER OF NON-HYDROGEN ATOMS USED IN REFINEMENT.
REMARK 3 PROTEIN ATOMS : 3560
REMARK 3 NUCLEIC ACID ATOMS : 0
REMARK 3 HETEROGEN ATOMS : 76
REMARK 3 SOLVENT ATOMS : 273
REMARK 3
REMARK 3 B VALUES.
REMARK 3 FROM WILSON PLOT (A**2) : NULL
REMARK 3 MEAN B VALUE (OVERALL, A**2) : 31.10
REMARK 3 OVERALL ANISOTROPIC B VALUE.
REMARK 3 B11 (A**2) : -0.25000
REMARK 3 B22 (A**2) : -3.76000
REMARK 3 B33 (A**2) : 4.01000
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): 0.117
REMARK 3 ESU BASED ON FREE R VALUE (A): 0.114
REMARK 3 ESU BASED ON MAXIMUM LIKELIHOOD (A): 0.098
REMARK 3 ESU FOR B VALUES BASED ON MAXIMUM LIKELIHOOD (A**2): 6.096
REMARK 3
REMARK 3 CORRELATION COEFFICIENTS.
REMARK 3 CORRELATION COEFFICIENT FO-FC : 0.958
REMARK 3 CORRELATION COEFFICIENT FO-FC FREE : 0.941
REMARK 3
REMARK 3 RMS DEVIATIONS FROM IDEAL VALUES COUNT RMS WEIGHT
REMARK 3 BOND LENGTHS REFINED ATOMS (A): 3749 ; 0.014 ; 0.019
REMARK 3 BOND LENGTHS OTHERS (A): 3550 ; 0.001 ; 0.020
REMARK 3 BOND ANGLES REFINED ATOMS (DEGREES): 5083 ; 1.700 ; 1.972
REMARK 3 BOND ANGLES OTHERS (DEGREES): 8151 ; 0.872 ; 3.000
REMARK 3 TORSION ANGLES, PERIOD 1 (DEGREES): 464 ; 6.004 ; 5.000
REMARK 3 TORSION ANGLES, PERIOD 2 (DEGREES): 179 ;34.640 ;24.078
REMARK 3 TORSION ANGLES, PERIOD 3 (DEGREES): 631 ;13.754 ;15.000
REMARK 3 TORSION ANGLES, PERIOD 4 (DEGREES): 25 ;20.365 ;15.000
REMARK 3 CHIRAL-CENTER RESTRAINTS (A**3): 568 ; 0.100 ; 0.200
REMARK 3 GENERAL PLANES REFINED ATOMS (A): 4271 ; 0.008 ; 0.020
REMARK 3 GENERAL PLANES OTHERS (A): 892 ; 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): NULL ; NULL ; NULL
REMARK 3 MAIN-CHAIN BOND OTHER ATOMS (A**2): NULL ; NULL ; NULL
REMARK 3 MAIN-CHAIN ANGLE REFINED ATOMS (A**2): NULL ; NULL ; NULL
REMARK 3 MAIN-CHAIN ANGLE OTHER ATOMS (A**2): NULL ; NULL ; NULL
REMARK 3 SIDE-CHAIN BOND REFINED ATOMS (A**2): NULL ; NULL ; NULL
REMARK 3 SIDE-CHAIN BOND OTHER ATOMS (A**2): NULL ; NULL ; NULL
REMARK 3 SIDE-CHAIN ANGLE REFINED ATOMS (A**2): NULL ; NULL ; NULL
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 : 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 19 A 247
REMARK 3 ORIGIN FOR THE GROUP (A): 20.0439 2.4135 33.4807
REMARK 3 T TENSOR
REMARK 3 T11: 0.0777 T22: 0.2247
REMARK 3 T33: 0.0227 T12: -0.0058
REMARK 3 T13: 0.0140 T23: 0.0041
REMARK 3 L TENSOR
REMARK 3 L11: 1.7881 L22: 2.3180
REMARK 3 L33: 0.6393 L12: -0.2788
REMARK 3 L13: 0.1115 L23: 0.2718
REMARK 3 S TENSOR
REMARK 3 S11: 0.0265 S12: -0.0597 S13: -0.0565
REMARK 3 S21: 0.0857 S22: -0.0430 S23: 0.2218
REMARK 3 S31: 0.0463 S32: -0.0085 S33: 0.0165
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 20 B 244
REMARK 3 ORIGIN FOR THE GROUP (A): 20.6938 -4.9885 4.0826
REMARK 3 T TENSOR
REMARK 3 T11: 0.3795 T22: 0.4839
REMARK 3 T33: 0.0925 T12: 0.0060
REMARK 3 T13: -0.1386 T23: 0.0041
REMARK 3 L TENSOR
REMARK 3 L11: 2.3340 L22: 1.8465
REMARK 3 L33: 1.3351 L12: -0.2445
REMARK 3 L13: -0.3993 L23: 0.1569
REMARK 3 S TENSOR
REMARK 3 S11: 0.0735 S12: 0.4514 S13: 0.0905
REMARK 3 S21: -0.4754 S22: 0.0125 S23: 0.3591
REMARK 3 S31: 0.1315 S32: -0.1938 S33: -0.0860
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:
REMARK 3 HYDROGENS HAVE BEEN ADDED IN THE RIDING POSITIONS
REMARK 3 U VALUES : WITH TLS ADDED
REMARK 4
REMARK 4 4IWN COMPLIES WITH FORMAT V. 3.30, 13-JUL-11
REMARK 100
REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY RCSB ON 25-JAN-13.
REMARK 100 THE DEPOSITION ID IS D_1000077302.
REMARK 200
REMARK 200 EXPERIMENTAL DETAILS
REMARK 200 EXPERIMENT TYPE : X-RAY DIFFRACTION
REMARK 200 DATE OF DATA COLLECTION : 04-NOV-11
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
REMARK 200 X-RAY GENERATOR MODEL : NULL
REMARK 200 MONOCHROMATIC OR LAUE (M/L) : M
REMARK 200 WAVELENGTH OR RANGE (A) : 0.9795
REMARK 200 MONOCHROMATOR : DOUBLE CRYSTAL SI(111)
REMARK 200 OPTICS : CRL
REMARK 200
REMARK 200 DETECTOR TYPE : CCD
REMARK 200 DETECTOR MANUFACTURER : ADSC QUANTUM 315
REMARK 200 INTENSITY-INTEGRATION SOFTWARE : XSCALE
REMARK 200 DATA SCALING SOFTWARE : SCALA 3.3.16, XSCALE
REMARK 200
REMARK 200 NUMBER OF UNIQUE REFLECTIONS : 52750
REMARK 200 RESOLUTION RANGE HIGH (A) : 1.730
REMARK 200 RESOLUTION RANGE LOW (A) : 55.890
REMARK 200 REJECTION CRITERIA (SIGMA(I)) : NULL
REMARK 200
REMARK 200 OVERALL.
REMARK 200 COMPLETENESS FOR RANGE (%) : 99.9
REMARK 200 DATA REDUNDANCY : 5.000
REMARK 200 R MERGE (I) : NULL
REMARK 200 R SYM (I) : 0.05600
REMARK 200 <I/SIGMA(I)> FOR THE DATA SET : 15.1000
REMARK 200
REMARK 200 IN THE HIGHEST RESOLUTION SHELL.
REMARK 200 HIGHEST RESOLUTION SHELL, RANGE HIGH (A) : 1.73
REMARK 200 HIGHEST RESOLUTION SHELL, RANGE LOW (A) : 1.78
REMARK 200 COMPLETENESS FOR SHELL (%) : 100.0
REMARK 200 DATA REDUNDANCY IN SHELL : 5.00
REMARK 200 R MERGE FOR SHELL (I) : 0.64800
REMARK 200 R SYM FOR SHELL (I) : 0.64800
REMARK 200 <I/SIGMA(I)> FOR SHELL : 1.200
REMARK 200
REMARK 200 DIFFRACTION PROTOCOL: SINGLE WAVELENGTH
REMARK 200 METHOD USED TO DETERMINE THE STRUCTURE: MOLECULAR REPLACEMENT
REMARK 200 SOFTWARE USED: MRBUMP
REMARK 200 STARTING MODEL: PDB ENTRY 1IM8
REMARK 200
REMARK 200 REMARK: NULL
REMARK 280
REMARK 280 CRYSTAL
REMARK 280 SOLVENT CONTENT, VS (%): 49.14
REMARK 280 MATTHEWS COEFFICIENT, VM (ANGSTROMS**3/DA): 2.42
REMARK 280
REMARK 280 CRYSTALLIZATION CONDITIONS: MORPHEUS CRYSTALLIZATION SCREEN
REMARK 280 (MOLECULAR DIMENSIONS) CONDITION E8: 0.3 M DIETHYLENE GLYCOL,
REMARK 280 0.3 M TRIETHYLENE GLYCOL, 0.3 M TETRAETHYLENE GLYCOL, 0.3 M
REMARK 280 PENTAETHYLENE GLYCOL, 0.1 M MOPS/HEPES SODIUM, PH 7.5, 12.5% W/V
REMARK 280 PEG1000, 12.5% W/V PEG3350, 12.5% W/V MPD, VAPOR DIFFUSION,
REMARK 280 SITTING DROP, TEMPERATURE 294K
REMARK 290
REMARK 290 CRYSTALLOGRAPHIC SYMMETRY
REMARK 290 SYMMETRY OPERATORS FOR SPACE GROUP: P 21 21 2
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 38.56000
REMARK 290 SMTRY2 3 0.000000 1.000000 0.000000 45.69000
REMARK 290 SMTRY3 3 0.000000 0.000000 -1.000000 0.00000
REMARK 290 SMTRY1 4 1.000000 0.000000 0.000000 38.56000
REMARK 290 SMTRY2 4 0.000000 -1.000000 0.000000 45.69000
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: 3480 ANGSTROM**2
REMARK 350 SURFACE AREA OF THE COMPLEX: 18400 ANGSTROM**2
REMARK 350 CHANGE IN SOLVENT FREE ENERGY: -46.0 KCAL/MOL
REMARK 350 APPLY THE FOLLOWING TO CHAINS: A, 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 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 A 548 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 THR B 19
REMARK 465 ASP B 245
REMARK 465 ALA B 246
REMARK 465 ALA B 247
REMARK 470
REMARK 470 MISSING ATOM
REMARK 470 THE FOLLOWING RESIDUES HAVE MISSING ATOMS (M=MODEL NUMBER;
REMARK 470 RES=RESIDUE NAME; C=CHAIN IDENTIFIER; SSEQ=SEQUENCE NUMBER;
REMARK 470 I=INSERTION CODE):
REMARK 470 M RES CSSEQI ATOMS
REMARK 470 GLU A 26 CG CD OE1 OE2
REMARK 470 GLN A 136 CG CD OE1 NE2
REMARK 470 GLU B 22 CG CD OE1 OE2
REMARK 470 GLU B 26 CG CD OE1 OE2
REMARK 470 GLU B 124 CG CD OE1 OE2
REMARK 470 LYS B 198 CG CD CE NZ
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 199 NE - CZ - NH1 ANGL. DEV. = 4.8 DEGREES
REMARK 500 LEU A 228 CA - CB - CG ANGL. DEV. = 16.1 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 SER A 66 -117.00 58.55
REMARK 500 PHE A 233 -128.67 53.99
REMARK 500 SER B 66 -117.83 57.61
REMARK 500 PHE B 233 -125.72 53.94
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 GEK A 301
REMARK 800
REMARK 800 SITE_IDENTIFIER: AC2
REMARK 800 EVIDENCE_CODE: SOFTWARE
REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE MPD A 302
REMARK 800
REMARK 800 SITE_IDENTIFIER: AC3
REMARK 800 EVIDENCE_CODE: SOFTWARE
REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE GEK B 301
REMARK 800
REMARK 800 SITE_IDENTIFIER: AC4
REMARK 800 EVIDENCE_CODE: SOFTWARE
REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE MPD B 302
DBREF 4IWN A 19 247 UNP P76290 CMOA_ECOLI 19 247
DBREF 4IWN B 19 247 UNP P76290 CMOA_ECOLI 19 247
SEQADV 4IWN HIS A 100 UNP P76290 ARG 100 CONFLICT
SEQADV 4IWN HIS B 100 UNP P76290 ARG 100 CONFLICT
SEQRES 1 A 229 THR PHE ASP GLU ARG VAL ALA GLU VAL PHE PRO ASP MET
SEQRES 2 A 229 ILE GLN ARG SER VAL PRO GLY TYR SER ASN ILE ILE SER
SEQRES 3 A 229 MET ILE GLY MET LEU ALA GLU ARG PHE VAL GLN PRO GLY
SEQRES 4 A 229 THR GLN VAL TYR ASP LEU GLY CYS SER LEU GLY ALA ALA
SEQRES 5 A 229 THR LEU SER VAL ARG ARG ASN ILE HIS HIS ASP ASN CYS
SEQRES 6 A 229 LYS ILE ILE ALA ILE ASP ASN SER PRO ALA MET ILE GLU
SEQRES 7 A 229 ARG CYS ARG HIS HIS ILE ASP ALA TYR LYS ALA PRO THR
SEQRES 8 A 229 PRO VAL ASP VAL ILE GLU GLY ASP ILE ARG ASP ILE ALA
SEQRES 9 A 229 ILE GLU ASN ALA SER MET VAL VAL LEU ASN PHE THR LEU
SEQRES 10 A 229 GLN PHE LEU GLU PRO SER GLU ARG GLN ALA LEU LEU ASP
SEQRES 11 A 229 LYS ILE TYR GLN GLY LEU ASN PRO GLY GLY ALA LEU VAL
SEQRES 12 A 229 LEU SER GLU LYS PHE SER PHE GLU ASP ALA LYS VAL GLY
SEQRES 13 A 229 GLU LEU LEU PHE ASN MET HIS HIS ASP PHE LYS ARG ALA
SEQRES 14 A 229 ASN GLY TYR SER GLU LEU GLU ILE SER GLN LYS ARG SER
SEQRES 15 A 229 MET LEU GLU ASN VAL MET LEU THR ASP SER VAL GLU THR
SEQRES 16 A 229 HIS LYS ALA ARG LEU HIS ASN ALA GLY PHE GLU HIS SER
SEQRES 17 A 229 GLU LEU TRP PHE GLN CYS PHE ASN PHE GLY SER LEU VAL
SEQRES 18 A 229 ALA LEU LYS ALA GLU ASP ALA ALA
SEQRES 1 B 229 THR PHE ASP GLU ARG VAL ALA GLU VAL PHE PRO ASP MET
SEQRES 2 B 229 ILE GLN ARG SER VAL PRO GLY TYR SER ASN ILE ILE SER
SEQRES 3 B 229 MET ILE GLY MET LEU ALA GLU ARG PHE VAL GLN PRO GLY
SEQRES 4 B 229 THR GLN VAL TYR ASP LEU GLY CYS SER LEU GLY ALA ALA
SEQRES 5 B 229 THR LEU SER VAL ARG ARG ASN ILE HIS HIS ASP ASN CYS
SEQRES 6 B 229 LYS ILE ILE ALA ILE ASP ASN SER PRO ALA MET ILE GLU
SEQRES 7 B 229 ARG CYS ARG HIS HIS ILE ASP ALA TYR LYS ALA PRO THR
SEQRES 8 B 229 PRO VAL ASP VAL ILE GLU GLY ASP ILE ARG ASP ILE ALA
SEQRES 9 B 229 ILE GLU ASN ALA SER MET VAL VAL LEU ASN PHE THR LEU
SEQRES 10 B 229 GLN PHE LEU GLU PRO SER GLU ARG GLN ALA LEU LEU ASP
SEQRES 11 B 229 LYS ILE TYR GLN GLY LEU ASN PRO GLY GLY ALA LEU VAL
SEQRES 12 B 229 LEU SER GLU LYS PHE SER PHE GLU ASP ALA LYS VAL GLY
SEQRES 13 B 229 GLU LEU LEU PHE ASN MET HIS HIS ASP PHE LYS ARG ALA
SEQRES 14 B 229 ASN GLY TYR SER GLU LEU GLU ILE SER GLN LYS ARG SER
SEQRES 15 B 229 MET LEU GLU ASN VAL MET LEU THR ASP SER VAL GLU THR
SEQRES 16 B 229 HIS LYS ALA ARG LEU HIS ASN ALA GLY PHE GLU HIS SER
SEQRES 17 B 229 GLU LEU TRP PHE GLN CYS PHE ASN PHE GLY SER LEU VAL
SEQRES 18 B 229 ALA LEU LYS ALA GLU ASP ALA ALA
HET GEK A 301 30
HET MPD A 302 8
HET GEK B 301 30
HET MPD B 302 8
HETNAM GEK (2S)-4-[{[(2S,3S,4R,5R)-5-(6-AMINO-9H-PURIN-9-YL)-3,4-
HETNAM 2 GEK DIHYDROXYTETRAHYDROFURAN-2-
HETNAM 3 GEK YL]METHYL}(CARBOXYLATOMETHYL)SULFONIO] -2-
HETNAM 4 GEK AMMONIOBUTANOATE
HETNAM MPD (4S)-2-METHYL-2,4-PENTANEDIOL
HETSYN GEK CARBOXY-S-ADENOSYLMETHIONINE
FORMUL 3 GEK 2(C16 H22 N6 O7 S)
FORMUL 4 MPD 2(C6 H14 O2)
FORMUL 7 HOH *273(H2 O)
HELIX 1 1 THR A 19 VAL A 36 1 18
HELIX 2 2 GLY A 38 VAL A 54 1 17
HELIX 3 3 GLY A 68 ASN A 77 1 10
HELIX 4 4 SER A 91 ALA A 104 1 14
HELIX 5 5 THR A 134 LEU A 138 5 5
HELIX 6 6 GLU A 139 GLY A 153 1 15
HELIX 7 7 ASP A 170 ASN A 188 1 19
HELIX 8 8 GLY A 189 GLU A 194 5 6
HELIX 9 9 ILE A 195 ASN A 204 1 10
HELIX 10 10 SER A 210 GLY A 222 1 13
HELIX 11 11 ASP B 21 VAL B 36 1 16
HELIX 12 12 GLY B 38 VAL B 54 1 17
HELIX 13 13 GLY B 68 ARG B 76 1 9
HELIX 14 14 SER B 91 ALA B 104 1 14
HELIX 15 15 THR B 134 LEU B 138 5 5
HELIX 16 16 GLU B 139 SER B 141 5 3
HELIX 17 17 GLU B 142 GLY B 153 1 12
HELIX 18 18 ASP B 170 ASN B 188 1 19
HELIX 19 19 GLY B 189 GLU B 194 5 6
HELIX 20 20 ILE B 195 MET B 206 1 12
HELIX 21 21 SER B 210 ALA B 221 1 12
SHEET 1 A14 VAL A 111 GLU A 115 0
SHEET 2 A14 LYS A 84 ASP A 89 1 N ALA A 87 O ILE A 114
SHEET 3 A14 GLN A 59 LEU A 63 1 N VAL A 60 O ILE A 86
SHEET 4 A14 ALA A 126 ASN A 132 1 O VAL A 130 N TYR A 61
SHEET 5 A14 LEU A 154 LYS A 165 1 O VAL A 161 N LEU A 131
SHEET 6 A14 PHE A 235 LEU A 241 -1 O LEU A 238 N LEU A 162
SHEET 7 A14 HIS A 225 CYS A 232 -1 N CYS A 232 O PHE A 235
SHEET 8 A14 HIS B 225 CYS B 232 -1 O GLN B 231 N GLN A 231
SHEET 9 A14 PHE B 235 LEU B 241 -1 O SER B 237 N PHE B 230
SHEET 10 A14 LEU B 154 LYS B 165 -1 N LEU B 160 O ALA B 240
SHEET 11 A14 ALA B 126 ASN B 132 1 N LEU B 131 O VAL B 161
SHEET 12 A14 GLN B 59 LEU B 63 1 N LEU B 63 O VAL B 130
SHEET 13 A14 LYS B 84 ASP B 89 1 O ILE B 86 N VAL B 60
SHEET 14 A14 VAL B 111 GLU B 115 1 O ILE B 114 N ALA B 87
SITE 1 AC1 21 PHE A 28 TYR A 39 GLY A 64 SER A 66
SITE 2 AC1 21 ALA A 69 ASP A 89 ASN A 90 SER A 91
SITE 3 AC1 21 GLY A 116 ASP A 117 ILE A 118 ASN A 132
SITE 4 AC1 21 PHE A 133 PHE A 137 LEU A 138 ARG A 199
SITE 5 AC1 21 HOH A 405 HOH A 408 HOH A 413 HOH A 462
SITE 6 AC1 21 HOH A 541
SITE 1 AC2 4 ASN A 41 GLY B 38 PHE B 233 HOH B 430
SITE 1 AC3 21 PHE B 28 TYR B 39 GLY B 64 SER B 66
SITE 2 AC3 21 ALA B 69 ASP B 89 ASN B 90 SER B 91
SITE 3 AC3 21 GLY B 116 ASP B 117 ILE B 118 ARG B 119
SITE 4 AC3 21 ASN B 132 PHE B 133 THR B 134 PHE B 137
SITE 5 AC3 21 ARG B 199 HOH B 417 HOH B 440 HOH B 442
SITE 6 AC3 21 HOH B 471
SITE 1 AC4 6 ASN A 41 PHE A 184 PHE A 233 SER B 44
SITE 2 AC4 6 HOH B 421 HOH B 461
CRYST1 77.120 91.380 70.640 90.00 90.00 90.00 P 21 21 2 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 0.012967 0.000000 0.000000 0.00000
SCALE2 0.000000 0.010943 0.000000 0.00000
SCALE3 0.000000 0.000000 0.014156 0.00000