HEADER TRANSFERASE 14-FEB-07 2JGR TITLE CRYSTAL STRUCTURE OF YEGS IN COMPLEX WITH ADP COMPND MOL_ID: 1; COMPND 2 MOLECULE: YEGS; COMPND 3 CHAIN: A; COMPND 4 ENGINEERED: YES SOURCE MOL_ID: 1; SOURCE 2 ORGANISM_SCIENTIFIC: ESCHERICHIA COLI; SOURCE 3 ORGANISM_TAXID: 511693; SOURCE 4 STRAIN: BL21; SOURCE 5 EXPRESSION_SYSTEM: ESCHERICHIA COLI; SOURCE 6 EXPRESSION_SYSTEM_TAXID: 511693; SOURCE 7 EXPRESSION_SYSTEM_STRAIN: BL21 KEYWDS PHOSPHATIDYLGLYCEROLE KINASE, TRANSFERASE, LIPID KINASE, KEYWDS 2 PYRROPHOSPHATE, HYPOTHETICAL PROTEIN EXPDTA X-RAY DIFFRACTION AUTHOR H.M.BAKALI,M.D.HERMAN,K.A.JOHNSON,A.A.KELLY,A.WIESLANDER, AUTHOR 2 B.M.HALLBERG,P.NORDLUND REVDAT 4 13-DEC-23 2JGR 1 LINK REVDAT 3 24-FEB-09 2JGR 1 VERSN REVDAT 2 10-JUL-07 2JGR 1 AUTHOR JRNL REVDAT 1 15-MAY-07 2JGR 0 JRNL AUTH H.M.BAKALI,M.D.HERMAN,K.A.JOHNSON,A.A.KELLY,A.WIESLANDER, JRNL AUTH 2 B.M.HALLBERG,P.NORDLUND JRNL TITL CRYSTAL STRUCTURE OF YEGS, A HOMOLOGUE TO THE MAMMALIAN JRNL TITL 2 DIACYLGLYCEROL KINASES, REVEALS A NOVEL REGULATORY METAL JRNL TITL 3 BINDING SITE. JRNL REF J.BIOL.CHEM. V. 282 19644 2007 JRNL REFN ISSN 0021-9258 JRNL PMID 17351295 JRNL DOI 10.1074/JBC.M604852200 REMARK 2 REMARK 2 RESOLUTION. 2.65 ANGSTROMS. REMARK 3 REMARK 3 REFINEMENT. REMARK 3 PROGRAM : REFMAC 5.2.0005 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) : 2.65 REMARK 3 RESOLUTION RANGE LOW (ANGSTROMS) : 88.39 REMARK 3 DATA CUTOFF (SIGMA(F)) : NULL REMARK 3 COMPLETENESS FOR RANGE (%) : 95.8 REMARK 3 NUMBER OF REFLECTIONS : 11841 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) : 0.205 REMARK 3 R VALUE (WORKING SET) : 0.203 REMARK 3 FREE R VALUE : 0.249 REMARK 3 FREE R VALUE TEST SET SIZE (%) : 4.800 REMARK 3 FREE R VALUE TEST SET COUNT : 602 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) : 2.65 REMARK 3 BIN RESOLUTION RANGE LOW (A) : 2.72 REMARK 3 REFLECTION IN BIN (WORKING SET) : 882 REMARK 3 BIN COMPLETENESS (WORKING+TEST) (%) : NULL REMARK 3 BIN R VALUE (WORKING SET) : 0.3320 REMARK 3 BIN FREE R VALUE SET COUNT : 54 REMARK 3 BIN FREE R VALUE : 0.3790 REMARK 3 REMARK 3 NUMBER OF NON-HYDROGEN ATOMS USED IN REFINEMENT. REMARK 3 PROTEIN ATOMS : 1959 REMARK 3 NUCLEIC ACID ATOMS : 0 REMARK 3 HETEROGEN ATOMS : 9 REMARK 3 SOLVENT ATOMS : 26 REMARK 3 REMARK 3 B VALUES. REMARK 3 FROM WILSON PLOT (A**2) : NULL REMARK 3 MEAN B VALUE (OVERALL, A**2) : 48.71 REMARK 3 OVERALL ANISOTROPIC B VALUE. REMARK 3 B11 (A**2) : 2.15000 REMARK 3 B22 (A**2) : 2.15000 REMARK 3 B33 (A**2) : -4.31000 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): 0.402 REMARK 3 ESU BASED ON FREE R VALUE (A): 0.280 REMARK 3 ESU BASED ON MAXIMUM LIKELIHOOD (A): 0.219 REMARK 3 ESU FOR B VALUES BASED ON MAXIMUM LIKELIHOOD (A**2): 22.407 REMARK 3 REMARK 3 CORRELATION COEFFICIENTS. REMARK 3 CORRELATION COEFFICIENT FO-FC : 0.945 REMARK 3 CORRELATION COEFFICIENT FO-FC FREE : 0.926 REMARK 3 REMARK 3 RMS DEVIATIONS FROM IDEAL VALUES COUNT RMS WEIGHT REMARK 3 BOND LENGTHS REFINED ATOMS (A): 2007 ; 0.022 ; 0.022 REMARK 3 BOND LENGTHS OTHERS (A): NULL ; NULL ; NULL REMARK 3 BOND ANGLES REFINED ATOMS (DEGREES): 2723 ; 2.072 ; 1.974 REMARK 3 BOND ANGLES OTHERS (DEGREES): NULL ; NULL ; NULL REMARK 3 TORSION ANGLES, PERIOD 1 (DEGREES): 258 ; 8.391 ; 5.000 REMARK 3 TORSION ANGLES, PERIOD 2 (DEGREES): 90 ;39.739 ;24.778 REMARK 3 TORSION ANGLES, PERIOD 3 (DEGREES): 329 ;20.781 ;15.000 REMARK 3 TORSION ANGLES, PERIOD 4 (DEGREES): 14 ;24.095 ;15.000 REMARK 3 CHIRAL-CENTER RESTRAINTS (A**3): 309 ; 0.126 ; 0.200 REMARK 3 GENERAL PLANES REFINED ATOMS (A): 1524 ; 0.007 ; 0.020 REMARK 3 GENERAL PLANES OTHERS (A): NULL ; NULL ; NULL REMARK 3 NON-BONDED CONTACTS REFINED ATOMS (A): 957 ; 0.247 ; 0.200 REMARK 3 NON-BONDED CONTACTS OTHERS (A): NULL ; NULL ; NULL REMARK 3 NON-BONDED TORSION REFINED ATOMS (A): 1369 ; 0.327 ; 0.200 REMARK 3 NON-BONDED TORSION OTHERS (A): NULL ; NULL ; NULL REMARK 3 H-BOND (X...Y) REFINED ATOMS (A): 90 ; 0.169 ; 0.200 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): 21 ; 0.204 ; 0.200 REMARK 3 SYMMETRY VDW OTHERS (A): NULL ; NULL ; NULL REMARK 3 SYMMETRY H-BOND REFINED ATOMS (A): 6 ; 0.189 ; 0.200 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): 1318 ; 1.177 ; 1.500 REMARK 3 MAIN-CHAIN BOND OTHER ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 MAIN-CHAIN ANGLE REFINED ATOMS (A**2): 2062 ; 2.036 ; 2.000 REMARK 3 MAIN-CHAIN ANGLE OTHER ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 SIDE-CHAIN BOND REFINED ATOMS (A**2): 756 ; 2.819 ; 3.000 REMARK 3 SIDE-CHAIN BOND OTHER ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 SIDE-CHAIN ANGLE REFINED ATOMS (A**2): 661 ; 4.342 ; 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 : 1 REMARK 3 REMARK 3 TLS GROUP : 1 REMARK 3 NUMBER OF COMPONENTS GROUP : 2 REMARK 3 COMPONENTS C SSSEQI TO C SSSEQI REMARK 3 RESIDUE RANGE : A 4 A 145 REMARK 3 RESIDUE RANGE : A 166 A 299 REMARK 3 ORIGIN FOR THE GROUP (A): 8.1981 37.2952 -7.6270 REMARK 3 T TENSOR REMARK 3 T11: 0.0896 T22: 0.0329 REMARK 3 T33: 0.0274 T12: 0.0346 REMARK 3 T13: 0.0338 T23: 0.0179 REMARK 3 L TENSOR REMARK 3 L11: 1.6363 L22: 0.8386 REMARK 3 L33: 0.7125 L12: -1.0791 REMARK 3 L13: -0.2926 L23: 0.4825 REMARK 3 S TENSOR REMARK 3 S11: 0.0509 S12: 0.0755 S13: -0.0182 REMARK 3 S21: 0.0641 S22: -0.0543 S23: 0.0633 REMARK 3 S31: 0.1256 S32: 0.0413 S33: 0.0034 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 2JGR COMPLIES WITH FORMAT V. 3.30, 13-JUL-11 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY PDBE ON 14-FEB-07. REMARK 100 THE DEPOSITION ID IS D_1290031444. REMARK 200 REMARK 200 EXPERIMENTAL DETAILS REMARK 200 EXPERIMENT TYPE : X-RAY DIFFRACTION REMARK 200 DATE OF DATA COLLECTION : 23-APR-05 REMARK 200 TEMPERATURE (KELVIN) : 287.0 REMARK 200 PH : NULL REMARK 200 NUMBER OF CRYSTALS USED : 1 REMARK 200 REMARK 200 SYNCHROTRON (Y/N) : Y REMARK 200 RADIATION SOURCE : ESRF REMARK 200 BEAMLINE : ID14-3 REMARK 200 X-RAY GENERATOR MODEL : NULL REMARK 200 MONOCHROMATIC OR LAUE (M/L) : M REMARK 200 WAVELENGTH OR RANGE (A) : 0.931 REMARK 200 MONOCHROMATOR : NULL REMARK 200 OPTICS : NULL REMARK 200 REMARK 200 DETECTOR TYPE : CCD REMARK 200 DETECTOR MANUFACTURER : MARRESEARCH REMARK 200 INTENSITY-INTEGRATION SOFTWARE : MOSFLM REMARK 200 DATA SCALING SOFTWARE : SCALA REMARK 200 REMARK 200 NUMBER OF UNIQUE REFLECTIONS : 11841 REMARK 200 RESOLUTION RANGE HIGH (A) : 2.650 REMARK 200 RESOLUTION RANGE LOW (A) : 88.000 REMARK 200 REJECTION CRITERIA (SIGMA(I)) : 2.000 REMARK 200 REMARK 200 OVERALL. REMARK 200 COMPLETENESS FOR RANGE (%) : 97.1 REMARK 200 DATA REDUNDANCY : 4.400 REMARK 200 R MERGE (I) : 0.09000 REMARK 200 R SYM (I) : NULL REMARK 200 FOR THE DATA SET : 12.0000 REMARK 200 REMARK 200 IN THE HIGHEST RESOLUTION SHELL. REMARK 200 HIGHEST RESOLUTION SHELL, RANGE HIGH (A) : NULL REMARK 200 HIGHEST RESOLUTION SHELL, RANGE LOW (A) : NULL 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: NULL REMARK 200 STARTING MODEL: PDB ENTRY 2BON REMARK 200 REMARK 200 REMARK: NULL REMARK 280 REMARK 280 CRYSTAL REMARK 280 SOLVENT CONTENT, VS (%): 62.31 REMARK 280 MATTHEWS COEFFICIENT, VM (ANGSTROMS**3/DA): 3.26 REMARK 280 REMARK 280 CRYSTALLIZATION CONDITIONS: NULL REMARK 290 REMARK 290 CRYSTALLOGRAPHIC SYMMETRY REMARK 290 SYMMETRY OPERATORS FOR SPACE GROUP: P 42 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 -Y+1/2,X+1/2,Z+1/2 REMARK 290 4555 Y+1/2,-X+1/2,Z+1/2 REMARK 290 5555 -X+1/2,Y+1/2,-Z+1/2 REMARK 290 6555 X+1/2,-Y+1/2,-Z+1/2 REMARK 290 7555 Y,X,-Z REMARK 290 8555 -Y,-X,-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 0.000000 -1.000000 0.000000 62.48400 REMARK 290 SMTRY2 3 1.000000 0.000000 0.000000 62.48400 REMARK 290 SMTRY3 3 0.000000 0.000000 1.000000 27.08150 REMARK 290 SMTRY1 4 0.000000 1.000000 0.000000 62.48400 REMARK 290 SMTRY2 4 -1.000000 0.000000 0.000000 62.48400 REMARK 290 SMTRY3 4 0.000000 0.000000 1.000000 27.08150 REMARK 290 SMTRY1 5 -1.000000 0.000000 0.000000 62.48400 REMARK 290 SMTRY2 5 0.000000 1.000000 0.000000 62.48400 REMARK 290 SMTRY3 5 0.000000 0.000000 -1.000000 27.08150 REMARK 290 SMTRY1 6 1.000000 0.000000 0.000000 62.48400 REMARK 290 SMTRY2 6 0.000000 -1.000000 0.000000 62.48400 REMARK 290 SMTRY3 6 0.000000 0.000000 -1.000000 27.08150 REMARK 290 SMTRY1 7 0.000000 1.000000 0.000000 0.00000 REMARK 290 SMTRY2 7 1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY3 7 0.000000 0.000000 -1.000000 0.00000 REMARK 290 SMTRY1 8 0.000000 -1.000000 0.000000 0.00000 REMARK 290 SMTRY2 8 -1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY3 8 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: PQS 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 MSE A 1 REMARK 465 ALA A 2 REMARK 465 GLU A 3 REMARK 465 ARG A 146 REMARK 465 ILE A 147 REMARK 465 THR A 148 REMARK 465 THR A 149 REMARK 465 GLU A 150 REMARK 465 THR A 151 REMARK 465 PRO A 152 REMARK 465 GLU A 153 REMARK 465 LYS A 154 REMARK 465 LEU A 155 REMARK 465 LYS A 156 REMARK 465 ALA A 157 REMARK 465 ALA A 158 REMARK 465 LEU A 159 REMARK 465 GLY A 160 REMARK 465 SER A 161 REMARK 465 VAL A 162 REMARK 465 SER A 163 REMARK 465 TYR A 164 REMARK 465 ILE A 165 REMARK 465 GLU A 230 REMARK 465 ILE A 231 REMARK 465 LEU A 232 REMARK 465 PRO A 233 REMARK 465 ALA A 234 REMARK 465 LEU A 235 REMARK 465 VAL A 236 REMARK 465 SER A 237 REMARK 465 THR A 238 REMARK 465 LEU A 239 REMARK 465 LYS A 240 REMARK 465 SER A 241 REMARK 465 ASP A 242 REMARK 465 GLU A 243 REMARK 465 ASP A 244 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 NH1 ARG A 202 O ALA A 214 2.09 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 CYS A 134 CB CYS A 134 SG -0.196 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 LEU A 27 CA - CB - CG ANGL. DEV. = 17.8 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 15 42.19 -65.64 REMARK 500 THR A 16 -85.64 -83.96 REMARK 500 ASP A 17 105.29 -18.88 REMARK 500 ASN A 18 76.85 174.26 REMARK 500 ILE A 78 0.30 -66.53 REMARK 500 ALA A 108 109.46 -41.14 REMARK 500 LYS A 131 30.95 34.05 REMARK 500 GLN A 132 -90.72 -139.69 REMARK 500 ASN A 137 -73.51 -122.45 REMARK 500 HIS A 167 -117.21 -31.37 REMARK 500 LEU A 169 -26.03 -35.14 REMARK 500 MSE A 170 55.05 175.09 REMARK 500 ARG A 171 23.53 38.18 REMARK 500 ASP A 173 -51.68 -132.13 REMARK 500 GLN A 209 108.51 -46.94 REMARK 500 CYS A 295 121.47 -32.94 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 THR A 16 ASP A 17 149.79 REMARK 500 REMARK 500 REMARK: NULL REMARK 700 REMARK 700 SHEET REMARK 700 THE SHEET STRUCTURE OF THIS MOLECULE IS BIFURCATED. IN REMARK 700 ORDER TO REPRESENT THIS FEATURE IN THE SHEET RECORDS BELOW, REMARK 700 TWO SHEETS ARE DEFINED. REMARK 800 REMARK 800 SITE REMARK 800 SITE_IDENTIFIER: AC1 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE POP A1300 REMARK 900 REMARK 900 RELATED ENTRIES REMARK 900 RELATED ID: 2BON RELATED DB: PDB REMARK 900 STRUCTURE OF AN ESCHERICHIA COLI LIPID KINASE (YEGS) DBREF 2JGR A 1 299 UNP P76407 YEGS_ECOLI 1 299 SEQRES 1 A 299 MSE ALA GLU PHE PRO ALA SER LEU LEU ILE LEU ASN GLY SEQRES 2 A 299 LYS SER THR ASP ASN LEU PRO LEU ARG GLU ALA ILE MSE SEQRES 3 A 299 LEU LEU ARG GLU GLU GLY MSE THR ILE HIS VAL ARG VAL SEQRES 4 A 299 THR TRP GLU LYS GLY ASP ALA ALA ARG TYR VAL GLU GLU SEQRES 5 A 299 ALA ARG LYS PHE GLY VAL ALA THR VAL ILE ALA GLY GLY SEQRES 6 A 299 GLY ASP GLY THR ILE ASN GLU VAL SER THR ALA LEU ILE SEQRES 7 A 299 GLN CYS GLU GLY ASP ASP ILE PRO ALA LEU GLY ILE LEU SEQRES 8 A 299 PRO LEU GLY THR ALA ASN ASP PHE ALA THR SER VAL GLY SEQRES 9 A 299 ILE PRO GLU ALA LEU ASP LYS ALA LEU LYS LEU ALA ILE SEQRES 10 A 299 ALA GLY ASP ALA ILE ALA ILE ASP MSE ALA GLN VAL ASN SEQRES 11 A 299 LYS GLN THR CYS PHE ILE ASN MSE ALA THR GLY GLY PHE SEQRES 12 A 299 GLY THR ARG ILE THR THR GLU THR PRO GLU LYS LEU LYS SEQRES 13 A 299 ALA ALA LEU GLY SER VAL SER TYR ILE ILE HIS GLY LEU SEQRES 14 A 299 MSE ARG MSE ASP THR LEU GLN PRO ASP ARG CYS GLU ILE SEQRES 15 A 299 ARG GLY GLU ASN PHE HIS TRP GLN GLY ASP ALA LEU VAL SEQRES 16 A 299 ILE GLY ILE GLY ASN GLY ARG GLN ALA GLY GLY GLY GLN SEQRES 17 A 299 GLN LEU CYS PRO ASN ALA LEU ILE ASN ASP GLY LEU LEU SEQRES 18 A 299 GLN LEU ARG ILE PHE THR GLY ASP GLU ILE LEU PRO ALA SEQRES 19 A 299 LEU VAL SER THR LEU LYS SER ASP GLU ASP ASN PRO ASN SEQRES 20 A 299 ILE ILE GLU GLY ALA SER SER TRP PHE ASP ILE GLN ALA SEQRES 21 A 299 PRO HIS ASP ILE THR PHE ASN LEU ASP GLY GLU PRO LEU SEQRES 22 A 299 SER GLY GLN ASN PHE HIS ILE GLU ILE LEU PRO ALA ALA SEQRES 23 A 299 LEU ARG CYS ARG LEU PRO PRO ASP CYS PRO LEU LEU ARG MODRES 2JGR MSE A 26 MET SELENOMETHIONINE MODRES 2JGR MSE A 33 MET SELENOMETHIONINE MODRES 2JGR MSE A 126 MET SELENOMETHIONINE MODRES 2JGR MSE A 138 MET SELENOMETHIONINE MODRES 2JGR MSE A 170 MET SELENOMETHIONINE MODRES 2JGR MSE A 172 MET SELENOMETHIONINE HET MSE A 26 8 HET MSE A 33 8 HET MSE A 126 8 HET MSE A 138 8 HET MSE A 170 8 HET MSE A 172 8 HET POP A1300 9 HETNAM MSE SELENOMETHIONINE HETNAM POP PYROPHOSPHATE 2- FORMUL 1 MSE 6(C5 H11 N O2 SE) FORMUL 2 POP H2 O7 P2 2- FORMUL 3 HOH *26(H2 O) HELIX 1 1 ASN A 18 GLU A 31 1 14 HELIX 2 2 GLY A 44 PHE A 56 1 13 HELIX 3 3 GLY A 66 ILE A 78 1 13 HELIX 4 4 ASN A 97 VAL A 103 1 7 HELIX 5 5 ALA A 108 GLY A 119 1 12 SHEET 1 AA 4 ILE A 35 VAL A 39 0 SHEET 2 AA 4 SER A 7 LEU A 11 1 O SER A 7 N HIS A 36 SHEET 3 AA 4 THR A 60 GLY A 65 1 O THR A 60 N LEU A 8 SHEET 4 AA 4 ALA A 87 PRO A 92 1 O ALA A 87 N VAL A 61 SHEET 1 AB 8 THR A 133 PHE A 135 0 SHEET 2 AB 8 ALA A 121 VAL A 129 -1 O ALA A 127 N PHE A 135 SHEET 3 AB 8 GLU A 271 ARG A 290 -1 O GLU A 281 N GLN A 128 SHEET 4 AB 8 TRP A 255 LEU A 268 -1 O PHE A 256 N ILE A 280 SHEET 5 AB 8 MSE A 138 GLY A 142 -1 O THR A 140 N ASN A 267 SHEET 6 AB 8 VAL A 195 GLY A 199 -1 O ILE A 196 N GLY A 141 SHEET 7 AB 8 LEU A 221 PHE A 226 -1 O GLN A 222 N GLY A 199 SHEET 8 AB 8 ILE A 248 SER A 253 -1 O ILE A 249 N ILE A 225 SHEET 1 AC 6 THR A 133 PHE A 135 0 SHEET 2 AC 6 ALA A 121 VAL A 129 -1 O ALA A 127 N PHE A 135 SHEET 3 AC 6 GLU A 271 ARG A 290 -1 O GLU A 281 N GLN A 128 SHEET 4 AC 6 TRP A 255 LEU A 268 -1 O PHE A 256 N ILE A 280 SHEET 5 AC 6 ASP A 178 GLY A 184 -1 O GLU A 181 N GLN A 259 SHEET 6 AC 6 PHE A 187 ALA A 193 -1 O PHE A 187 N GLY A 184 SHEET 1 AD 2 GLN A 203 ALA A 204 0 SHEET 2 AD 2 GLN A 208 GLN A 209 -1 O GLN A 208 N ALA A 204 LINK C ILE A 25 N MSE A 26 1555 1555 1.34 LINK C MSE A 26 N LEU A 27 1555 1555 1.34 LINK C GLY A 32 N MSE A 33 1555 1555 1.32 LINK C MSE A 33 N THR A 34 1555 1555 1.32 LINK C ASP A 125 N MSE A 126 1555 1555 1.32 LINK C MSE A 126 N ALA A 127 1555 1555 1.32 LINK C ASN A 137 N MSE A 138 1555 1555 1.34 LINK C MSE A 138 N ALA A 139 1555 1555 1.33 LINK C LEU A 169 N MSE A 170 1555 1555 1.35 LINK C MSE A 170 N ARG A 171 1555 1555 1.34 LINK C ARG A 171 N MSE A 172 1555 1555 1.33 LINK C MSE A 172 N ASP A 173 1555 1555 1.34 SITE 1 AC1 7 GLY A 66 ASP A 67 GLY A 68 THR A 69 SITE 2 AC1 7 GLY A 94 THR A 95 ALA A 96 CRYST1 124.968 124.968 54.163 90.00 90.00 90.00 P 42 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 0.008002 0.000000 0.000000 0.00000 SCALE2 0.000000 0.008002 0.000000 0.00000 SCALE3 0.000000 0.000000 0.018463 0.00000