HEADER TRANSFERASE 19-SEP-06 2J5V TITLE GLUTAMATE 5-KINASE FROM ESCHERICHIA COLI COMPLEXED WITH GLUTAMYL-5- TITLE 2 PHOSPHATE AND PYROGLUTAMIC ACID COMPND MOL_ID: 1; COMPND 2 MOLECULE: GLUTAMATE 5-KINASE; COMPND 3 CHAIN: A, B; COMPND 4 SYNONYM: GAMMA-GLUTAMYL KINASE, GK; COMPND 5 EC: 2.7.2.11; COMPND 6 ENGINEERED: YES; COMPND 7 MUTATION: YES SOURCE MOL_ID: 1; SOURCE 2 ORGANISM_SCIENTIFIC: ESCHERICHIA COLI; SOURCE 3 ORGANISM_TAXID: 562; SOURCE 4 STRAIN: DH5ALPHA; SOURCE 5 EXPRESSION_SYSTEM: ESCHERICHIA COLI; SOURCE 6 EXPRESSION_SYSTEM_TAXID: 469008; SOURCE 7 EXPRESSION_SYSTEM_STRAIN: BL21(DE3); SOURCE 8 EXPRESSION_SYSTEM_PLASMID: PET22B KEYWDS PROLINE BIOSYNTHESIS, GAMMA GLUTAMYL KINASE, AMINO-ACID BIOSYNTHESIS, KEYWDS 2 GLUTAMATE KINASE, KINASE, TRANSFERASE, FEEDBACK REGULATION, KEYWDS 3 GLUTAMATE 5-KINASE, PUA DOMAIN, AMINO ACID KINASE, GLUTAMATE, KEYWDS 4 GLUTAMYL PHOSPHATE, GAMMA GLUTAMYL PHOSPHATE, PROLINE EXPDTA X-RAY DIFFRACTION AUTHOR C.MARCO-MARIN,F.GIL-ORTIZ,I.PEREZ-ARELLANO,J.CERVERA,I.FITA,V.RUBIO REVDAT 4 13-DEC-23 2J5V 1 LINK REVDAT 3 24-FEB-09 2J5V 1 VERSN REVDAT 2 03-APR-07 2J5V 1 JRNL REVDAT 1 06-MAR-07 2J5V 0 JRNL AUTH C.MARCO-MARIN,F.GIL-ORTIZ,I.PEREZ-ARELLANO,J.CERVERA,I.FITA, JRNL AUTH 2 V.RUBIO JRNL TITL A NOVEL TWO-DOMAIN ARCHITECTURE WITHIN THE AMINO ACID KINASE JRNL TITL 2 ENZYME FAMILY REVEALED BY THE CRYSTAL STRUCTURE OF JRNL TITL 3 ESCHERICHIA COLI GLUTAMATE 5-KINASE. JRNL REF J.MOL.BIOL. V. 367 1431 2007 JRNL REFN ISSN 0022-2836 JRNL PMID 17321544 JRNL DOI 10.1016/J.JMB.2007.01.073 REMARK 2 REMARK 2 RESOLUTION. 2.50 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) : 2.50 REMARK 3 RESOLUTION RANGE LOW (ANGSTROMS) : 88.39 REMARK 3 DATA CUTOFF (SIGMA(F)) : NULL REMARK 3 COMPLETENESS FOR RANGE (%) : 99.5 REMARK 3 NUMBER OF REFLECTIONS : 31155 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) : 0.195 REMARK 3 R VALUE (WORKING SET) : 0.192 REMARK 3 FREE R VALUE : 0.244 REMARK 3 FREE R VALUE TEST SET SIZE (%) : 5.100 REMARK 3 FREE R VALUE TEST SET COUNT : 1667 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) : 2.50 REMARK 3 BIN RESOLUTION RANGE LOW (A) : 2.57 REMARK 3 REFLECTION IN BIN (WORKING SET) : 2135 REMARK 3 BIN COMPLETENESS (WORKING+TEST) (%) : 93.74 REMARK 3 BIN R VALUE (WORKING SET) : 0.2450 REMARK 3 BIN FREE R VALUE SET COUNT : 111 REMARK 3 BIN FREE R VALUE : 0.3310 REMARK 3 REMARK 3 NUMBER OF NON-HYDROGEN ATOMS USED IN REFINEMENT. REMARK 3 PROTEIN ATOMS : 4866 REMARK 3 NUCLEIC ACID ATOMS : 0 REMARK 3 HETEROGEN ATOMS : 57 REMARK 3 SOLVENT ATOMS : 164 REMARK 3 REMARK 3 B VALUES. REMARK 3 FROM WILSON PLOT (A**2) : NULL REMARK 3 MEAN B VALUE (OVERALL, A**2) : 37.04 REMARK 3 OVERALL ANISOTROPIC B VALUE. REMARK 3 B11 (A**2) : 0.32000 REMARK 3 B22 (A**2) : 0.32000 REMARK 3 B33 (A**2) : -0.64000 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): 0.336 REMARK 3 ESU BASED ON FREE R VALUE (A): 0.252 REMARK 3 ESU BASED ON MAXIMUM LIKELIHOOD (A): 0.183 REMARK 3 ESU FOR B VALUES BASED ON MAXIMUM LIKELIHOOD (A**2): 16.509 REMARK 3 REMARK 3 CORRELATION COEFFICIENTS. REMARK 3 CORRELATION COEFFICIENT FO-FC : 0.944 REMARK 3 CORRELATION COEFFICIENT FO-FC FREE : 0.911 REMARK 3 REMARK 3 RMS DEVIATIONS FROM IDEAL VALUES COUNT RMS WEIGHT REMARK 3 BOND LENGTHS REFINED ATOMS (A): 4980 ; 0.011 ; 0.021 REMARK 3 BOND LENGTHS OTHERS (A): NULL ; NULL ; NULL REMARK 3 BOND ANGLES REFINED ATOMS (DEGREES): 6746 ; 1.353 ; 1.972 REMARK 3 BOND ANGLES OTHERS (DEGREES): NULL ; NULL ; NULL REMARK 3 TORSION ANGLES, PERIOD 1 (DEGREES): 644 ; 5.868 ; 5.000 REMARK 3 TORSION ANGLES, PERIOD 2 (DEGREES): 212 ;39.844 ;23.396 REMARK 3 TORSION ANGLES, PERIOD 3 (DEGREES): 840 ;17.168 ;15.000 REMARK 3 TORSION ANGLES, PERIOD 4 (DEGREES): 48 ;20.091 ;15.000 REMARK 3 CHIRAL-CENTER RESTRAINTS (A**3): 796 ; 0.087 ; 0.200 REMARK 3 GENERAL PLANES REFINED ATOMS (A): 3712 ; 0.004 ; 0.020 REMARK 3 GENERAL PLANES OTHERS (A): NULL ; NULL ; NULL REMARK 3 NON-BONDED CONTACTS REFINED ATOMS (A): 2273 ; 0.207 ; 0.200 REMARK 3 NON-BONDED CONTACTS OTHERS (A): NULL ; NULL ; NULL REMARK 3 NON-BONDED TORSION REFINED ATOMS (A): 3409 ; 0.297 ; 0.200 REMARK 3 NON-BONDED TORSION OTHERS (A): NULL ; NULL ; NULL REMARK 3 H-BOND (X...Y) REFINED ATOMS (A): 237 ; 0.172 ; 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 ; 0.136 ; 0.200 REMARK 3 SYMMETRY VDW OTHERS (A): NULL ; NULL ; NULL REMARK 3 SYMMETRY H-BOND REFINED ATOMS (A): 4 ; 0.125 ; 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): 3296 ; 0.515 ; 1.500 REMARK 3 MAIN-CHAIN BOND OTHER ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 MAIN-CHAIN ANGLE REFINED ATOMS (A**2): 5108 ; 0.898 ; 2.000 REMARK 3 MAIN-CHAIN ANGLE OTHER ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 SIDE-CHAIN BOND REFINED ATOMS (A**2): 1849 ; 1.592 ; 3.000 REMARK 3 SIDE-CHAIN BOND OTHER ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 SIDE-CHAIN ANGLE REFINED ATOMS (A**2): 1638 ; 2.639 ; 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 : 1 REMARK 3 REMARK 3 NCS GROUP NUMBER : 1 REMARK 3 CHAIN NAMES : A B REMARK 3 NUMBER OF COMPONENTS NCS GROUP : 1 REMARK 3 COMPONENT C SSSEQI TO C SSSEQI CODE REMARK 3 1 A 3 A 367 5 REMARK 3 1 B 3 B 367 5 REMARK 3 GROUP CHAIN COUNT RMS WEIGHT REMARK 3 MEDIUM POSITIONAL 1 A (A): 1292 ; 0.21 ; 0.50 REMARK 3 LOOSE POSITIONAL 1 A (A): 1137 ; 0.48 ; 5.00 REMARK 3 MEDIUM THERMAL 1 A (A**2): 1292 ; 0.50 ; 2.00 REMARK 3 LOOSE THERMAL 1 A (A**2): 1137 ; 1.18 ; 10.00 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 2J5V COMPLIES WITH FORMAT V. 3.30, 13-JUL-11 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY PDBE ON 19-SEP-06. REMARK 100 THE DEPOSITION ID IS D_1290030009. REMARK 200 REMARK 200 EXPERIMENTAL DETAILS REMARK 200 EXPERIMENT TYPE : X-RAY DIFFRACTION REMARK 200 DATE OF DATA COLLECTION : 10-OCT-03 REMARK 200 TEMPERATURE (KELVIN) : 100.0 REMARK 200 PH : 6.50 REMARK 200 NUMBER OF CRYSTALS USED : 1 REMARK 200 REMARK 200 SYNCHROTRON (Y/N) : Y REMARK 200 RADIATION SOURCE : ESRF REMARK 200 BEAMLINE : BM16 REMARK 200 X-RAY GENERATOR MODEL : NULL REMARK 200 MONOCHROMATIC OR LAUE (M/L) : M REMARK 200 WAVELENGTH OR RANGE (A) : 0.979 REMARK 200 MONOCHROMATOR : SI111 DOUBLE CRYSTAL REMARK 200 OPTICS : A RD COATED FLAT MIRROR AND A RD REMARK 200 COATED TOROIDAL MIRROR 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 : 61566 REMARK 200 RESOLUTION RANGE HIGH (A) : 2.500 REMARK 200 RESOLUTION RANGE LOW (A) : 48.800 REMARK 200 REJECTION CRITERIA (SIGMA(I)) : 1.700 REMARK 200 REMARK 200 OVERALL. REMARK 200 COMPLETENESS FOR RANGE (%) : 99.5 REMARK 200 DATA REDUNDANCY : 11.10 REMARK 200 R MERGE (I) : 0.07000 REMARK 200 R SYM (I) : NULL REMARK 200 FOR THE DATA SET : 6.8000 REMARK 200 REMARK 200 IN THE HIGHEST RESOLUTION SHELL. REMARK 200 HIGHEST RESOLUTION SHELL, RANGE HIGH (A) : 2.50 REMARK 200 HIGHEST RESOLUTION SHELL, RANGE LOW (A) : 2.64 REMARK 200 COMPLETENESS FOR SHELL (%) : 99.5 REMARK 200 DATA REDUNDANCY IN SHELL : 6.20 REMARK 200 R MERGE FOR SHELL (I) : 0.42000 REMARK 200 R SYM FOR SHELL (I) : NULL REMARK 200 FOR SHELL : 1.700 REMARK 200 REMARK 200 DIFFRACTION PROTOCOL: SINGLE WAVELENGTH REMARK 200 METHOD USED TO DETERMINE THE STRUCTURE: MOLECULAR REPLACEMENT REMARK 200 SOFTWARE USED: MOLREP REMARK 200 STARTING MODEL: PDB ENTRY 2AKO REMARK 200 REMARK 200 REMARK: NULL REMARK 280 REMARK 280 CRYSTAL REMARK 280 SOLVENT CONTENT, VS (%): 57.59 REMARK 280 MATTHEWS COEFFICIENT, VM (ANGSTROMS**3/DA): 2.92 REMARK 280 REMARK 280 CRYSTALLIZATION CONDITIONS: 1.6 M MGSO4, 0.1 M KCL, 0.1 M MES PH REMARK 280 6.5, PH 6.50 REMARK 290 REMARK 290 CRYSTALLOGRAPHIC SYMMETRY REMARK 290 SYMMETRY OPERATORS FOR SPACE GROUP: P 41 21 2 REMARK 290 REMARK 290 SYMOP SYMMETRY REMARK 290 NNNMMM OPERATOR REMARK 290 1555 X,Y,Z REMARK 290 2555 -X,-Y,Z+1/2 REMARK 290 3555 -Y+1/2,X+1/2,Z+1/4 REMARK 290 4555 Y+1/2,-X+1/2,Z+3/4 REMARK 290 5555 -X+1/2,Y+1/2,-Z+1/4 REMARK 290 6555 X+1/2,-Y+1/2,-Z+3/4 REMARK 290 7555 Y,X,-Z REMARK 290 8555 -Y,-X,-Z+1/2 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 89.36400 REMARK 290 SMTRY1 3 0.000000 -1.000000 0.000000 50.72750 REMARK 290 SMTRY2 3 1.000000 0.000000 0.000000 50.72750 REMARK 290 SMTRY3 3 0.000000 0.000000 1.000000 44.68200 REMARK 290 SMTRY1 4 0.000000 1.000000 0.000000 50.72750 REMARK 290 SMTRY2 4 -1.000000 0.000000 0.000000 50.72750 REMARK 290 SMTRY3 4 0.000000 0.000000 1.000000 134.04600 REMARK 290 SMTRY1 5 -1.000000 0.000000 0.000000 50.72750 REMARK 290 SMTRY2 5 0.000000 1.000000 0.000000 50.72750 REMARK 290 SMTRY3 5 0.000000 0.000000 -1.000000 44.68200 REMARK 290 SMTRY1 6 1.000000 0.000000 0.000000 50.72750 REMARK 290 SMTRY2 6 0.000000 -1.000000 0.000000 50.72750 REMARK 290 SMTRY3 6 0.000000 0.000000 -1.000000 134.04600 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 89.36400 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: PQS 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 400 REMARK 400 COMPOUND REMARK 400 ENGINEERED RESIDUE IN CHAIN A, ILE 129 TO VAL REMARK 400 ENGINEERED RESIDUE IN CHAIN B, ILE 129 TO VAL 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 SER A 2 REMARK 465 LYS A 172 REMARK 465 GLY A 173 REMARK 465 LEU A 174 REMARK 465 TYR A 175 REMARK 465 THR A 176 REMARK 465 ALA A 177 REMARK 465 ASP A 178 REMARK 465 PRO A 179 REMARK 465 ARG A 180 REMARK 465 SER A 181 REMARK 465 ASN A 182 REMARK 465 PRO A 183 REMARK 465 GLN A 184 REMARK 465 ALA A 185 REMARK 465 GLU A 186 REMARK 465 LEU A 187 REMARK 465 ILE A 188 REMARK 465 LYS A 189 REMARK 465 ASP A 190 REMARK 465 VAL A 191 REMARK 465 TYR A 192 REMARK 465 GLY A 193 REMARK 465 ILE A 194 REMARK 465 ASP A 195 REMARK 465 ASP A 196 REMARK 465 ALA A 197 REMARK 465 LEU A 198 REMARK 465 ARG A 199 REMARK 465 ALA A 200 REMARK 465 ILE A 201 REMARK 465 ALA A 202 REMARK 465 GLY A 203 REMARK 465 ASP A 204 REMARK 465 SER A 205 REMARK 465 VAL A 206 REMARK 465 SER A 207 REMARK 465 GLY A 208 REMARK 465 LEU A 209 REMARK 465 GLY A 210 REMARK 465 THR A 211 REMARK 465 GLY A 212 REMARK 465 GLY A 213 REMARK 465 MET B 1 REMARK 465 SER B 2 REMARK 465 LYS B 172 REMARK 465 GLY B 173 REMARK 465 LEU B 174 REMARK 465 TYR B 175 REMARK 465 THR B 176 REMARK 465 ALA B 177 REMARK 465 ASP B 178 REMARK 465 PRO B 179 REMARK 465 ARG B 180 REMARK 465 SER B 181 REMARK 465 ASN B 182 REMARK 465 PRO B 183 REMARK 465 GLN B 184 REMARK 465 ALA B 185 REMARK 465 GLU B 186 REMARK 465 LEU B 187 REMARK 465 ILE B 188 REMARK 465 LYS B 189 REMARK 465 ASP B 190 REMARK 465 VAL B 191 REMARK 465 TYR B 192 REMARK 465 GLY B 193 REMARK 465 ILE B 194 REMARK 465 ASP B 195 REMARK 465 ASP B 196 REMARK 465 ALA B 197 REMARK 465 LEU B 198 REMARK 465 ARG B 199 REMARK 465 ALA B 200 REMARK 465 ILE B 201 REMARK 465 ALA B 202 REMARK 465 GLY B 203 REMARK 465 ASP B 204 REMARK 465 SER B 205 REMARK 465 VAL B 206 REMARK 465 SER B 207 REMARK 465 GLY B 208 REMARK 465 LEU B 209 REMARK 465 GLY B 210 REMARK 465 THR B 211 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 O4 SO4 A 1371 O HOH A 2088 2.01 REMARK 500 O HOH A 2005 O HOH A 2027 2.09 REMARK 500 O HOH A 2012 O HOH A 2039 2.12 REMARK 500 NH2 ARG A 44 OD2 ASP A 126 2.18 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 121 CA - CB - CG ANGL. DEV. = 15.8 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 20 -169.47 -111.47 REMARK 500 SER A 50 -156.88 -94.13 REMARK 500 ALA A 140 140.54 178.37 REMARK 500 ASP A 281 155.68 -40.28 REMARK 500 TYR A 354 54.36 -113.51 REMARK 500 SER B 50 -154.60 -91.65 REMARK 500 ALA B 140 143.65 -174.28 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 366 ARG A 367 145.29 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 MG A1368 MG REMARK 620 N RES CSSEQI ATOM REMARK 620 1 LYS A 10 NZ REMARK 620 2 GLY A 12 N 79.3 REMARK 620 3 LEU A 168 O 126.6 113.3 REMARK 620 4 SO4 A1371 O2 115.9 80.3 117.4 REMARK 620 5 SO4 A1371 O1 71.9 98.1 145.3 52.1 REMARK 620 N 1 2 3 4 REMARK 800 REMARK 800 SITE REMARK 800 SITE_IDENTIFIER: AC1 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE MG A1368 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC2 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE SO4 A1371 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC3 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE SO4 B1370 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC4 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE PCA A1369 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC5 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE RGP A1370 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC6 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE PCA B1368 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC7 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE RGP B1369 REMARK 900 REMARK 900 RELATED ENTRIES REMARK 900 RELATED ID: 2J5T RELATED DB: PDB REMARK 900 GLUTAMATE 5-KINASE FROM ESCHERICHIA COLI COMPLEXED WITH GLUTAMATE DBREF 2J5V A 1 367 UNP P0A7B5 PROB_ECOLI 1 367 DBREF 2J5V B 1 367 UNP P0A7B5 PROB_ECOLI 1 367 SEQADV 2J5V VAL A 129 UNP P0A7B5 ILE 129 ENGINEERED MUTATION SEQADV 2J5V VAL B 129 UNP P0A7B5 ILE 129 ENGINEERED MUTATION SEQRES 1 A 367 MET SER ASP SER GLN THR LEU VAL VAL LYS LEU GLY THR SEQRES 2 A 367 SER VAL LEU THR GLY GLY SER ARG ARG LEU ASN ARG ALA SEQRES 3 A 367 HIS ILE VAL GLU LEU VAL ARG GLN CYS ALA GLN LEU HIS SEQRES 4 A 367 ALA ALA GLY HIS ARG ILE VAL ILE VAL THR SER GLY ALA SEQRES 5 A 367 ILE ALA ALA GLY ARG GLU HIS LEU GLY TYR PRO GLU LEU SEQRES 6 A 367 PRO ALA THR ILE ALA SER LYS GLN LEU LEU ALA ALA VAL SEQRES 7 A 367 GLY GLN SER ARG LEU ILE GLN LEU TRP GLU GLN LEU PHE SEQRES 8 A 367 SER ILE TYR GLY ILE HIS VAL GLY GLN MET LEU LEU THR SEQRES 9 A 367 ARG ALA ASP MET GLU ASP ARG GLU ARG PHE LEU ASN ALA SEQRES 10 A 367 ARG ASP THR LEU ARG ALA LEU LEU ASP ASN ASN VAL VAL SEQRES 11 A 367 PRO VAL ILE ASN GLU ASN ASP ALA VAL ALA THR ALA GLU SEQRES 12 A 367 ILE LYS VAL GLY ASP ASN ASP ASN LEU SER ALA LEU ALA SEQRES 13 A 367 ALA ILE LEU ALA GLY ALA ASP LYS LEU LEU LEU LEU THR SEQRES 14 A 367 ASP GLN LYS GLY LEU TYR THR ALA ASP PRO ARG SER ASN SEQRES 15 A 367 PRO GLN ALA GLU LEU ILE LYS ASP VAL TYR GLY ILE ASP SEQRES 16 A 367 ASP ALA LEU ARG ALA ILE ALA GLY ASP SER VAL SER GLY SEQRES 17 A 367 LEU GLY THR GLY GLY MET SER THR LYS LEU GLN ALA ALA SEQRES 18 A 367 ASP VAL ALA CYS ARG ALA GLY ILE ASP THR ILE ILE ALA SEQRES 19 A 367 ALA GLY SER LYS PRO GLY VAL ILE GLY ASP VAL MET GLU SEQRES 20 A 367 GLY ILE SER VAL GLY THR LEU PHE HIS ALA GLN ALA THR SEQRES 21 A 367 PRO LEU GLU ASN ARG LYS ARG TRP ILE PHE GLY ALA PRO SEQRES 22 A 367 PRO ALA GLY GLU ILE THR VAL ASP GLU GLY ALA THR ALA SEQRES 23 A 367 ALA ILE LEU GLU ARG GLY SER SER LEU LEU PRO LYS GLY SEQRES 24 A 367 ILE LYS SER VAL THR GLY ASN PHE SER ARG GLY GLU VAL SEQRES 25 A 367 ILE ARG ILE CYS ASN LEU GLU GLY ARG ASP ILE ALA HIS SEQRES 26 A 367 GLY VAL SER ARG TYR ASN SER ASP ALA LEU ARG ARG ILE SEQRES 27 A 367 ALA GLY HIS HIS SER GLN GLU ILE ASP ALA ILE LEU GLY SEQRES 28 A 367 TYR GLU TYR GLY PRO VAL ALA VAL HIS ARG ASP ASP MET SEQRES 29 A 367 ILE THR ARG SEQRES 1 B 367 MET SER ASP SER GLN THR LEU VAL VAL LYS LEU GLY THR SEQRES 2 B 367 SER VAL LEU THR GLY GLY SER ARG ARG LEU ASN ARG ALA SEQRES 3 B 367 HIS ILE VAL GLU LEU VAL ARG GLN CYS ALA GLN LEU HIS SEQRES 4 B 367 ALA ALA GLY HIS ARG ILE VAL ILE VAL THR SER GLY ALA SEQRES 5 B 367 ILE ALA ALA GLY ARG GLU HIS LEU GLY TYR PRO GLU LEU SEQRES 6 B 367 PRO ALA THR ILE ALA SER LYS GLN LEU LEU ALA ALA VAL SEQRES 7 B 367 GLY GLN SER ARG LEU ILE GLN LEU TRP GLU GLN LEU PHE SEQRES 8 B 367 SER ILE TYR GLY ILE HIS VAL GLY GLN MET LEU LEU THR SEQRES 9 B 367 ARG ALA ASP MET GLU ASP ARG GLU ARG PHE LEU ASN ALA SEQRES 10 B 367 ARG ASP THR LEU ARG ALA LEU LEU ASP ASN ASN VAL VAL SEQRES 11 B 367 PRO VAL ILE ASN GLU ASN ASP ALA VAL ALA THR ALA GLU SEQRES 12 B 367 ILE LYS VAL GLY ASP ASN ASP ASN LEU SER ALA LEU ALA SEQRES 13 B 367 ALA ILE LEU ALA GLY ALA ASP LYS LEU LEU LEU LEU THR SEQRES 14 B 367 ASP GLN LYS GLY LEU TYR THR ALA ASP PRO ARG SER ASN SEQRES 15 B 367 PRO GLN ALA GLU LEU ILE LYS ASP VAL TYR GLY ILE ASP SEQRES 16 B 367 ASP ALA LEU ARG ALA ILE ALA GLY ASP SER VAL SER GLY SEQRES 17 B 367 LEU GLY THR GLY GLY MET SER THR LYS LEU GLN ALA ALA SEQRES 18 B 367 ASP VAL ALA CYS ARG ALA GLY ILE ASP THR ILE ILE ALA SEQRES 19 B 367 ALA GLY SER LYS PRO GLY VAL ILE GLY ASP VAL MET GLU SEQRES 20 B 367 GLY ILE SER VAL GLY THR LEU PHE HIS ALA GLN ALA THR SEQRES 21 B 367 PRO LEU GLU ASN ARG LYS ARG TRP ILE PHE GLY ALA PRO SEQRES 22 B 367 PRO ALA GLY GLU ILE THR VAL ASP GLU GLY ALA THR ALA SEQRES 23 B 367 ALA ILE LEU GLU ARG GLY SER SER LEU LEU PRO LYS GLY SEQRES 24 B 367 ILE LYS SER VAL THR GLY ASN PHE SER ARG GLY GLU VAL SEQRES 25 B 367 ILE ARG ILE CYS ASN LEU GLU GLY ARG ASP ILE ALA HIS SEQRES 26 B 367 GLY VAL SER ARG TYR ASN SER ASP ALA LEU ARG ARG ILE SEQRES 27 B 367 ALA GLY HIS HIS SER GLN GLU ILE ASP ALA ILE LEU GLY SEQRES 28 B 367 TYR GLU TYR GLY PRO VAL ALA VAL HIS ARG ASP ASP MET SEQRES 29 B 367 ILE THR ARG HET MG A1368 1 HET PCA A1369 9 HET RGP A1370 14 HET SO4 A1371 5 HET PCA B1368 9 HET RGP B1369 14 HET SO4 B1370 5 HETNAM MG MAGNESIUM ION HETNAM PCA PYROGLUTAMIC ACID HETNAM RGP GAMMA-GLUTAMYL PHOSPHATE HETNAM SO4 SULFATE ION HETSYN RGP 5-OXO-5-(PHOSPHONOOXY)-D-NORVALINE FORMUL 3 MG MG 2+ FORMUL 4 PCA 2(C5 H7 N O3) FORMUL 5 RGP 2(C5 H10 N O7 P) FORMUL 6 SO4 2(O4 S 2-) FORMUL 10 HOH *164(H2 O) HELIX 1 1 GLY A 12 THR A 17 1 6 HELIX 2 2 ASN A 24 ALA A 41 1 18 HELIX 3 3 GLY A 51 GLY A 61 1 11 HELIX 4 4 THR A 68 ILE A 93 1 26 HELIX 5 5 THR A 104 GLU A 109 5 6 HELIX 6 6 ASP A 110 ASN A 127 1 18 HELIX 7 7 THR A 141 LYS A 145 5 5 HELIX 8 8 ASP A 148 GLY A 161 1 14 HELIX 9 9 MET A 214 ALA A 227 1 14 HELIX 10 10 GLY A 240 GLY A 248 1 9 HELIX 11 11 GLU A 263 GLY A 271 5 9 HELIX 12 12 ASP A 281 GLY A 292 1 12 HELIX 13 13 LEU A 296 LYS A 298 5 3 HELIX 14 14 ASN A 331 ALA A 339 1 9 HELIX 15 15 HIS A 342 GLN A 344 5 3 HELIX 16 16 GLU A 345 GLY A 351 1 7 HELIX 17 17 HIS A 360 ASP A 362 5 3 HELIX 18 18 GLY B 12 GLY B 18 1 7 HELIX 19 19 ASN B 24 ALA B 41 1 18 HELIX 20 20 GLY B 51 LEU B 60 1 10 HELIX 21 21 THR B 68 ILE B 93 1 26 HELIX 22 22 THR B 104 GLU B 109 5 6 HELIX 23 23 ASP B 110 ASN B 127 1 18 HELIX 24 24 THR B 141 LYS B 145 5 5 HELIX 25 25 ASP B 148 ALA B 160 1 13 HELIX 26 26 GLY B 212 ALA B 227 1 16 HELIX 27 27 GLY B 240 GLY B 248 1 9 HELIX 28 28 GLU B 263 GLY B 271 5 9 HELIX 29 29 ASP B 281 GLU B 290 1 10 HELIX 30 30 LEU B 296 LYS B 298 5 3 HELIX 31 31 ASN B 331 ALA B 339 1 9 HELIX 32 32 HIS B 342 GLN B 344 5 3 HELIX 33 33 GLU B 345 GLY B 351 1 7 SHEET 1 AA 7 VAL A 98 LEU A 103 0 SHEET 2 AA 7 VAL A 130 GLU A 135 1 O VAL A 130 N GLY A 99 SHEET 3 AA 7 ARG A 44 THR A 49 1 O ILE A 47 N ILE A 133 SHEET 4 AA 7 THR A 6 LEU A 11 1 O LEU A 7 N VAL A 46 SHEET 5 AA 7 LYS A 164 THR A 169 1 O LYS A 164 N VAL A 8 SHEET 6 AA 7 ASP A 230 ALA A 235 1 O ASP A 230 N LEU A 165 SHEET 7 AA 7 THR A 253 PHE A 255 -1 O THR A 253 N ILE A 233 SHEET 1 AB 5 ILE A 300 THR A 304 0 SHEET 2 AB 5 GLU A 277 VAL A 280 -1 O GLU A 277 N THR A 304 SHEET 3 AB 5 VAL A 312 ASN A 317 1 O ARG A 314 N ILE A 278 SHEET 4 AB 5 ASP A 322 VAL A 327 -1 N ILE A 323 O ILE A 315 SHEET 5 AB 5 MET A 364 THR A 366 -1 O ILE A 365 N HIS A 325 SHEET 1 BA 7 VAL B 98 LEU B 103 0 SHEET 2 BA 7 VAL B 130 GLU B 135 1 O VAL B 130 N GLY B 99 SHEET 3 BA 7 ARG B 44 THR B 49 1 O ILE B 47 N ILE B 133 SHEET 4 BA 7 THR B 6 LEU B 11 1 O LEU B 7 N VAL B 46 SHEET 5 BA 7 LYS B 164 THR B 169 1 O LYS B 164 N VAL B 8 SHEET 6 BA 7 ASP B 230 ALA B 235 1 O ASP B 230 N LEU B 165 SHEET 7 BA 7 THR B 253 PHE B 255 -1 O THR B 253 N ILE B 233 SHEET 1 BB 5 ILE B 300 THR B 304 0 SHEET 2 BB 5 GLU B 277 VAL B 280 -1 O GLU B 277 N THR B 304 SHEET 3 BB 5 VAL B 312 ASN B 317 1 O ARG B 314 N ILE B 278 SHEET 4 BB 5 ASP B 322 SER B 328 -1 N ILE B 323 O ILE B 315 SHEET 5 BB 5 VAL B 359 THR B 366 -1 N HIS B 360 O VAL B 327 LINK NZ LYS A 10 MG MG A1368 1555 1555 2.80 LINK N GLY A 12 MG MG A1368 1555 1555 3.10 LINK O LEU A 168 MG MG A1368 1555 1555 2.32 LINK MG MG A1368 O2 SO4 A1371 1555 1555 2.36 LINK MG MG A1368 O1 SO4 A1371 1555 1555 3.01 SITE 1 AC1 4 LYS A 10 GLY A 12 LEU A 168 SO4 A1371 SITE 1 AC2 10 LYS A 10 GLY A 12 THR A 13 SER A 14 SITE 2 AC2 10 VAL A 15 LYS A 217 MG A1368 RGP A1370 SITE 3 AC2 10 HOH A2088 HOH A2089 SITE 1 AC3 9 LYS B 10 GLY B 12 THR B 13 SER B 14 SITE 2 AC3 9 VAL B 15 ASP B 170 LYS B 217 RGP B1369 SITE 3 AC3 9 HOH B2075 SITE 1 AC4 7 THR A 13 SER A 50 GLY A 51 ALA A 52 SITE 2 AC4 7 ILE A 53 ASN A 134 RGP A1370 SITE 1 AC5 11 LYS A 10 GLY A 12 THR A 13 SER A 50 SITE 2 AC5 11 GLU A 135 ASP A 137 LYS A 145 ASP A 148 SITE 3 AC5 11 ASN A 149 PCA A1369 SO4 A1371 SITE 1 AC6 9 THR B 13 SER B 50 GLY B 51 ALA B 52 SITE 2 AC6 9 ILE B 53 ALA B 54 ASN B 134 ASP B 137 SITE 3 AC6 9 RGP B1369 SITE 1 AC7 12 LYS B 10 GLY B 12 THR B 13 SER B 50 SITE 2 AC7 12 GLU B 135 ASP B 137 GLY B 147 ASP B 148 SITE 3 AC7 12 ASN B 149 ASP B 150 PCA B1368 SO4 B1370 CRYST1 101.455 101.455 178.728 90.00 90.00 90.00 P 41 21 2 16 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 0.009857 0.000000 0.000000 0.00000 SCALE2 0.000000 0.009857 0.000000 0.00000 SCALE3 0.000000 0.000000 0.005595 0.00000 MTRIX1 1 -0.854630 0.178410 -0.487630 -51.80048 1 MTRIX2 1 0.146390 -0.818240 -0.555930 4.15018 1 MTRIX3 1 -0.498180 -0.546490 0.673170 -13.89432 1