HEADER ISOMERASE 27-AUG-09 3IST TITLE CRYSTAL STRUCTURE OF GLUTAMATE RACEMASE FROM LISTERIA MONOCYTOGENES IN TITLE 2 COMPLEX WITH SUCCINIC ACID COMPND MOL_ID: 1; COMPND 2 MOLECULE: GLUTAMATE RACEMASE; COMPND 3 CHAIN: A, B; COMPND 4 EC: 5.1.1.3; COMPND 5 ENGINEERED: YES SOURCE MOL_ID: 1; SOURCE 2 ORGANISM_SCIENTIFIC: LISTERIA MONOCYTOGENES; SOURCE 3 ORGANISM_TAXID: 169963; SOURCE 4 STRAIN: EGD-E; SOURCE 5 GENE: LMO1237, MURI, RACE; SOURCE 6 EXPRESSION_SYSTEM: ESCHERICHIA COLI; SOURCE 7 EXPRESSION_SYSTEM_TAXID: 469008; SOURCE 8 EXPRESSION_SYSTEM_STRAIN: BL21 DE3 STAR MAGIC; SOURCE 9 EXPRESSION_SYSTEM_VECTOR_TYPE: PLASMID; SOURCE 10 EXPRESSION_SYSTEM_PLASMID: PMCSG7 KEYWDS GLUTAMATE RACEMASE, STRUCTURAL GENOMICS, CELL WALL KEYWDS 2 BIOGENESIS/DEGRADATION, ISOMERASE, PEPTIDOGLYCAN SYNTHESIS, CENTER KEYWDS 3 FOR STRUCTURAL GENOMICS OF INFECTIOUS DISEASES, CSGID, CELL SHAPE EXPDTA X-RAY DIFFRACTION AUTHOR K.A.MAJOREK,M.CHRUSZCZ,T.SKARINA,O.ONOPRIYENKO,J.STAM,W.F.ANDERSON, AUTHOR 2 A.SAVCHENKO,J.M.BUJNICKI,W.MINOR,CENTER FOR STRUCTURAL GENOMICS OF AUTHOR 3 INFECTIOUS DISEASES (CSGID) REVDAT 5 22-NOV-23 3IST 1 REMARK REVDAT 4 06-SEP-23 3IST 1 REMARK REVDAT 3 13-APR-22 3IST 1 AUTHOR JRNL REMARK SEQADV REVDAT 3 2 1 LINK REVDAT 2 13-JUL-11 3IST 1 VERSN REVDAT 1 22-SEP-09 3IST 0 JRNL AUTH K.A.MAJOREK,M.CHRUSZCZ,T.SKARINA,O.ONOPRIYENKO,J.STAM, JRNL AUTH 2 W.F.ANDERSON,A.SAVCHENKO,J.M.BUJNICKI,W.MINOR, JRNL AUTH 3 CENTER FOR STRUCTURAL GENOMICS OF INFECTIOUS DISEASES JRNL AUTH 4 (CSGID) JRNL TITL CRYSTAL STRUCTURE OF GLUTAMATE RACEMASE FROM LISTERIA JRNL TITL 2 MONOCYTOGENES IN COMPLEX WITH SUCCINIC ACID JRNL REF TO BE PUBLISHED JRNL REFN REMARK 2 REMARK 2 RESOLUTION. 1.65 ANGSTROMS. REMARK 3 REMARK 3 REFINEMENT. REMARK 3 PROGRAM : REFMAC 5.5.0072 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) : 1.65 REMARK 3 RESOLUTION RANGE LOW (ANGSTROMS) : 50.00 REMARK 3 DATA CUTOFF (SIGMA(F)) : NULL REMARK 3 COMPLETENESS FOR RANGE (%) : 98.0 REMARK 3 NUMBER OF REFLECTIONS : 66078 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) : 0.173 REMARK 3 R VALUE (WORKING SET) : 0.171 REMARK 3 FREE R VALUE : 0.211 REMARK 3 FREE R VALUE TEST SET SIZE (%) : 5.000 REMARK 3 FREE R VALUE TEST SET COUNT : 3512 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) : 1.65 REMARK 3 BIN RESOLUTION RANGE LOW (A) : 1.69 REMARK 3 REFLECTION IN BIN (WORKING SET) : 4570 REMARK 3 BIN COMPLETENESS (WORKING+TEST) (%) : 93.97 REMARK 3 BIN R VALUE (WORKING SET) : 0.2610 REMARK 3 BIN FREE R VALUE SET COUNT : 246 REMARK 3 BIN FREE R VALUE : 0.3000 REMARK 3 REMARK 3 NUMBER OF NON-HYDROGEN ATOMS USED IN REFINEMENT. REMARK 3 PROTEIN ATOMS : 4071 REMARK 3 NUCLEIC ACID ATOMS : 0 REMARK 3 HETEROGEN ATOMS : 18 REMARK 3 SOLVENT ATOMS : 483 REMARK 3 REMARK 3 B VALUES. REMARK 3 B VALUE TYPE : LIKELY RESIDUAL REMARK 3 FROM WILSON PLOT (A**2) : NULL REMARK 3 MEAN B VALUE (OVERALL, A**2) : 11.56 REMARK 3 OVERALL ANISOTROPIC B VALUE. REMARK 3 B11 (A**2) : 0.98000 REMARK 3 B22 (A**2) : 0.98000 REMARK 3 B33 (A**2) : -1.95000 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): 0.091 REMARK 3 ESU BASED ON FREE R VALUE (A): 0.095 REMARK 3 ESU BASED ON MAXIMUM LIKELIHOOD (A): 0.061 REMARK 3 ESU FOR B VALUES BASED ON MAXIMUM LIKELIHOOD (A**2): 4.005 REMARK 3 REMARK 3 CORRELATION COEFFICIENTS. REMARK 3 CORRELATION COEFFICIENT FO-FC : 0.967 REMARK 3 CORRELATION COEFFICIENT FO-FC FREE : 0.948 REMARK 3 REMARK 3 RMS DEVIATIONS FROM IDEAL VALUES COUNT RMS WEIGHT REMARK 3 BOND LENGTHS REFINED ATOMS (A): 4302 ; 0.019 ; 0.022 REMARK 3 BOND LENGTHS OTHERS (A): 2845 ; 0.006 ; 0.020 REMARK 3 BOND ANGLES REFINED ATOMS (DEGREES): 5857 ; 1.677 ; 1.979 REMARK 3 BOND ANGLES OTHERS (DEGREES): 7030 ; 0.998 ; 3.000 REMARK 3 TORSION ANGLES, PERIOD 1 (DEGREES): 565 ; 5.664 ; 5.000 REMARK 3 TORSION ANGLES, PERIOD 2 (DEGREES): 162 ;40.906 ;24.815 REMARK 3 TORSION ANGLES, PERIOD 3 (DEGREES): 759 ;12.635 ;15.000 REMARK 3 TORSION ANGLES, PERIOD 4 (DEGREES): 19 ;14.149 ;15.000 REMARK 3 CHIRAL-CENTER RESTRAINTS (A**3): 693 ; 0.108 ; 0.200 REMARK 3 GENERAL PLANES REFINED ATOMS (A): 4818 ; 0.009 ; 0.021 REMARK 3 GENERAL PLANES OTHERS (A): 801 ; 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): 2755 ; 0.971 ; 1.500 REMARK 3 MAIN-CHAIN BOND OTHER ATOMS (A**2): 1119 ; 0.310 ; 1.500 REMARK 3 MAIN-CHAIN ANGLE REFINED ATOMS (A**2): 4483 ; 1.687 ; 2.000 REMARK 3 MAIN-CHAIN ANGLE OTHER ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 SIDE-CHAIN BOND REFINED ATOMS (A**2): 1547 ; 3.110 ; 3.000 REMARK 3 SIDE-CHAIN BOND OTHER ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 SIDE-CHAIN ANGLE REFINED ATOMS (A**2): 1374 ; 4.759 ; 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 : 5 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 -2 A 93 REMARK 3 ORIGIN FOR THE GROUP (A): -5.3030 18.7270 -6.2790 REMARK 3 T TENSOR REMARK 3 T11: 0.0852 T22: 0.1222 REMARK 3 T33: 0.0710 T12: -0.0411 REMARK 3 T13: -0.0145 T23: -0.0084 REMARK 3 L TENSOR REMARK 3 L11: 1.2927 L22: 1.8670 REMARK 3 L33: 1.8787 L12: 0.9979 REMARK 3 L13: 0.0641 L23: 0.2322 REMARK 3 S TENSOR REMARK 3 S11: -0.0332 S12: 0.1074 S13: -0.2324 REMARK 3 S21: -0.0676 S22: 0.0885 S23: -0.1983 REMARK 3 S31: 0.0138 S32: 0.0852 S33: -0.0553 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 : A 94 A 203 REMARK 3 ORIGIN FOR THE GROUP (A): -24.3440 18.4380 4.6020 REMARK 3 T TENSOR REMARK 3 T11: 0.0952 T22: 0.1155 REMARK 3 T33: 0.0906 T12: -0.0552 REMARK 3 T13: 0.0130 T23: -0.0053 REMARK 3 L TENSOR REMARK 3 L11: 1.7095 L22: 1.6011 REMARK 3 L33: 2.1170 L12: 0.5443 REMARK 3 L13: 0.5860 L23: -0.6199 REMARK 3 S TENSOR REMARK 3 S11: 0.1419 S12: -0.0743 S13: 0.1498 REMARK 3 S21: 0.1312 S22: -0.0411 S23: 0.2919 REMARK 3 S31: -0.0120 S32: -0.2412 S33: -0.1009 REMARK 3 REMARK 3 TLS GROUP : 3 REMARK 3 NUMBER OF COMPONENTS GROUP : 1 REMARK 3 COMPONENTS C SSSEQI TO C SSSEQI REMARK 3 RESIDUE RANGE : A 204 A 265 REMARK 3 ORIGIN FOR THE GROUP (A): -6.8480 28.3290 -8.4720 REMARK 3 T TENSOR REMARK 3 T11: 0.1344 T22: 0.1035 REMARK 3 T33: 0.0463 T12: -0.0589 REMARK 3 T13: -0.0220 T23: 0.0296 REMARK 3 L TENSOR REMARK 3 L11: 1.4630 L22: 1.0507 REMARK 3 L33: 1.7622 L12: 0.8756 REMARK 3 L13: -0.0738 L23: 0.2803 REMARK 3 S TENSOR REMARK 3 S11: -0.1284 S12: 0.1958 S13: 0.0394 REMARK 3 S21: -0.1762 S22: 0.1381 S23: 0.0397 REMARK 3 S31: -0.2337 S32: 0.0703 S33: -0.0096 REMARK 3 REMARK 3 TLS GROUP : 4 REMARK 3 NUMBER OF COMPONENTS GROUP : 1 REMARK 3 COMPONENTS C SSSEQI TO C SSSEQI REMARK 3 RESIDUE RANGE : B 1 B 88 REMARK 3 ORIGIN FOR THE GROUP (A): 5.2570 26.6690 25.6700 REMARK 3 T TENSOR REMARK 3 T11: 0.1532 T22: 0.1402 REMARK 3 T33: 0.0462 T12: -0.0408 REMARK 3 T13: -0.0291 T23: 0.0014 REMARK 3 L TENSOR REMARK 3 L11: 1.7047 L22: 2.1123 REMARK 3 L33: 4.7825 L12: 0.5429 REMARK 3 L13: 0.8423 L23: 0.3317 REMARK 3 S TENSOR REMARK 3 S11: 0.0224 S12: 0.0576 S13: -0.0696 REMARK 3 S21: 0.0893 S22: 0.0889 S23: -0.2848 REMARK 3 S31: -0.1900 S32: 0.5052 S33: -0.1113 REMARK 3 REMARK 3 TLS GROUP : 5 REMARK 3 NUMBER OF COMPONENTS GROUP : 1 REMARK 3 COMPONENTS C SSSEQI TO C SSSEQI REMARK 3 RESIDUE RANGE : B 89 B 266 REMARK 3 ORIGIN FOR THE GROUP (A): -5.1850 35.7650 22.9960 REMARK 3 T TENSOR REMARK 3 T11: 0.1524 T22: 0.1025 REMARK 3 T33: 0.0036 T12: 0.0232 REMARK 3 T13: -0.0059 T23: 0.0101 REMARK 3 L TENSOR REMARK 3 L11: 0.5932 L22: 0.9112 REMARK 3 L33: 4.1141 L12: -0.1931 REMARK 3 L13: 0.5440 L23: -0.3490 REMARK 3 S TENSOR REMARK 3 S11: -0.0759 S12: -0.0817 S13: 0.0224 REMARK 3 S21: 0.1340 S22: 0.0969 S23: 0.0035 REMARK 3 S31: -0.5781 S32: -0.2787 S33: -0.0210 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 3IST COMPLIES WITH FORMAT V. 3.30, 13-JUL-11 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY RCSB ON 02-SEP-09. REMARK 100 THE DEPOSITION ID IS D_1000054821. REMARK 200 REMARK 200 EXPERIMENTAL DETAILS REMARK 200 EXPERIMENT TYPE : X-RAY DIFFRACTION REMARK 200 DATE OF DATA COLLECTION : 14-JUN-09 REMARK 200 TEMPERATURE (KELVIN) : 100 REMARK 200 PH : 7.0 REMARK 200 NUMBER OF CRYSTALS USED : 1 REMARK 200 REMARK 200 SYNCHROTRON (Y/N) : Y REMARK 200 RADIATION SOURCE : APS REMARK 200 BEAMLINE : 19-ID REMARK 200 X-RAY GENERATOR MODEL : NULL REMARK 200 MONOCHROMATIC OR LAUE (M/L) : M REMARK 200 WAVELENGTH OR RANGE (A) : 0.97934 REMARK 200 MONOCHROMATOR : SI 111 CHANNEL REMARK 200 OPTICS : MIRRORS REMARK 200 REMARK 200 DETECTOR TYPE : CCD REMARK 200 DETECTOR MANUFACTURER : ADSC QUANTUM 315R REMARK 200 INTENSITY-INTEGRATION SOFTWARE : HKL-3000 REMARK 200 DATA SCALING SOFTWARE : HKL-3000 REMARK 200 REMARK 200 NUMBER OF UNIQUE REFLECTIONS : 69724 REMARK 200 RESOLUTION RANGE HIGH (A) : 1.650 REMARK 200 RESOLUTION RANGE LOW (A) : 50.000 REMARK 200 REJECTION CRITERIA (SIGMA(I)) : -3.000 REMARK 200 REMARK 200 OVERALL. REMARK 200 COMPLETENESS FOR RANGE (%) : 97.9 REMARK 200 DATA REDUNDANCY : 6.500 REMARK 200 R MERGE (I) : 0.07300 REMARK 200 R SYM (I) : 0.07300 REMARK 200 FOR THE DATA SET : 39.4000 REMARK 200 REMARK 200 IN THE HIGHEST RESOLUTION SHELL. REMARK 200 HIGHEST RESOLUTION SHELL, RANGE HIGH (A) : 1.65 REMARK 200 HIGHEST RESOLUTION SHELL, RANGE LOW (A) : 1.68 REMARK 200 COMPLETENESS FOR SHELL (%) : 92.6 REMARK 200 DATA REDUNDANCY IN SHELL : 4.90 REMARK 200 R MERGE FOR SHELL (I) : 0.67100 REMARK 200 R SYM FOR SHELL (I) : 0.67100 REMARK 200 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: HKL-3000 MOLREP REMARK 200 STARTING MODEL: 3HFR REMARK 200 REMARK 200 REMARK: NULL REMARK 280 REMARK 280 CRYSTAL REMARK 280 SOLVENT CONTENT, VS (%): 48.64 REMARK 280 MATTHEWS COEFFICIENT, VM (ANGSTROMS**3/DA): 2.39 REMARK 280 REMARK 280 CRYSTALLIZATION CONDITIONS: PEG3350 15%, SUCCINIC ACID 0.1M, PH 7, REMARK 280 10MM L-GLUTAMIC ACID, VAPOR DIFFUSION, HANGING DROP, TEMPERATURE REMARK 280 293K, PH 7.0 REMARK 290 REMARK 290 CRYSTALLOGRAPHIC SYMMETRY REMARK 290 SYMMETRY OPERATORS FOR SPACE GROUP: P 43 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+3/4 REMARK 290 4555 Y+1/2,-X+1/2,Z+1/4 REMARK 290 5555 -X+1/2,Y+1/2,-Z+3/4 REMARK 290 6555 X+1/2,-Y+1/2,-Z+1/4 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 129.38700 REMARK 290 SMTRY1 3 0.000000 -1.000000 0.000000 33.21000 REMARK 290 SMTRY2 3 1.000000 0.000000 0.000000 33.21000 REMARK 290 SMTRY3 3 0.000000 0.000000 1.000000 194.08050 REMARK 290 SMTRY1 4 0.000000 1.000000 0.000000 33.21000 REMARK 290 SMTRY2 4 -1.000000 0.000000 0.000000 33.21000 REMARK 290 SMTRY3 4 0.000000 0.000000 1.000000 64.69350 REMARK 290 SMTRY1 5 -1.000000 0.000000 0.000000 33.21000 REMARK 290 SMTRY2 5 0.000000 1.000000 0.000000 33.21000 REMARK 290 SMTRY3 5 0.000000 0.000000 -1.000000 194.08050 REMARK 290 SMTRY1 6 1.000000 0.000000 0.000000 33.21000 REMARK 290 SMTRY2 6 0.000000 -1.000000 0.000000 33.21000 REMARK 290 SMTRY3 6 0.000000 0.000000 -1.000000 64.69350 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 129.38700 REMARK 290 REMARK 290 REMARK: NULL REMARK 300 REMARK 300 BIOMOLECULE: 1, 2, 3 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 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 350 REMARK 350 BIOMOLECULE: 2 REMARK 350 SOFTWARE DETERMINED QUATERNARY STRUCTURE: MONOMERIC REMARK 350 SOFTWARE USED: PISA 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 REMARK 350 BIOMOLECULE: 3 REMARK 350 SOFTWARE DETERMINED QUATERNARY STRUCTURE: MONOMERIC REMARK 350 SOFTWARE USED: PISA REMARK 350 APPLY THE FOLLOWING TO CHAINS: 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 464 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 LYS A 266 REMARK 465 SER B -2 REMARK 465 ASN B -1 REMARK 465 ALA B 0 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 ASP A 45 OD1 OD2 REMARK 470 ILE A 159 CD1 REMARK 470 ASP A 199 OD1 OD2 REMARK 470 LYS B 46 CE NZ REMARK 470 GLU B 47 CG CD OE1 OE2 REMARK 470 GLU B 85 CD OE1 OE2 REMARK 470 ARG B 135 NE CZ NH1 NH2 REMARK 470 LYS B 162 CD CE NZ REMARK 470 LYS B 175 CE NZ REMARK 470 GLU B 230 CG CD OE1 OE2 REMARK 470 LYS B 266 CG CD CE NZ 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 ALA A 71 48.48 -93.78 REMARK 500 ALA A 79 -1.79 -141.53 REMARK 500 ASN A 253 75.26 56.32 REMARK 500 MSE A 254 75.24 -155.01 REMARK 500 ALA B 71 47.93 -94.25 REMARK 500 ALA B 79 -0.96 -145.20 REMARK 500 MSE B 123 17.12 59.98 REMARK 500 REMARK 500 REMARK: NULL REMARK 800 REMARK 800 SITE REMARK 800 SITE_IDENTIFIER: AC1 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE SIN A 267 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC2 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE SIN B 267 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC3 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE CL B 268 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC4 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE CL A 268 REMARK 900 REMARK 900 RELATED ENTRIES REMARK 900 RELATED ID: 3HFR RELATED DB: PDB REMARK 900 CRYSTAL STRUCTURE OF GLUTAMATE RACEMASE FROM LISTERIA MONOCYTOGENES REMARK 900 RELATED ID: IDP00347 RELATED DB: TARGETDB REMARK 900 RELATED ID: 3ISV RELATED DB: PDB REMARK 900 CRYSTAL STRUCTURE OF GLUTAMATE RACEMASE FROM LISTERIA MONOCYTOGENES REMARK 900 IN COMPLEX WITH ACETATE ION DBREF 3IST A 1 266 UNP Q8Y7N7 MURI_LISMO 1 266 DBREF 3IST B 1 266 UNP Q8Y7N7 MURI_LISMO 1 266 SEQADV 3IST SER A -2 UNP Q8Y7N7 EXPRESSION TAG SEQADV 3IST ASN A -1 UNP Q8Y7N7 EXPRESSION TAG SEQADV 3IST ALA A 0 UNP Q8Y7N7 EXPRESSION TAG SEQADV 3IST SER B -2 UNP Q8Y7N7 EXPRESSION TAG SEQADV 3IST ASN B -1 UNP Q8Y7N7 EXPRESSION TAG SEQADV 3IST ALA B 0 UNP Q8Y7N7 EXPRESSION TAG SEQRES 1 A 269 SER ASN ALA MSE LYS GLN ALA ILE GLY PHE ILE ASP SER SEQRES 2 A 269 GLY VAL GLY GLY LEU THR VAL VAL ARG GLU VAL LEU LYS SEQRES 3 A 269 GLN LEU PRO HIS GLU GLN VAL TYR TYR LEU GLY ASP THR SEQRES 4 A 269 ALA ARG CYS PRO TYR GLY PRO ARG ASP LYS GLU GLU VAL SEQRES 5 A 269 ALA LYS PHE THR TRP GLU MSE THR ASN PHE LEU VAL ASP SEQRES 6 A 269 ARG GLY ILE LYS MSE LEU VAL ILE ALA CYS ASN THR ALA SEQRES 7 A 269 THR ALA ALA ALA LEU TYR ASP ILE ARG GLU LYS LEU ASP SEQRES 8 A 269 ILE PRO VAL ILE GLY VAL ILE GLN PRO GLY SER ARG ALA SEQRES 9 A 269 ALA LEU LYS ALA THR ARG ASN ASN LYS ILE GLY VAL LEU SEQRES 10 A 269 GLY THR LEU GLY THR VAL GLU SER MSE ALA TYR PRO THR SEQRES 11 A 269 ALA LEU LYS GLY LEU ASN ARG ARG VAL GLU VAL ASP SER SEQRES 12 A 269 LEU ALA CYS PRO LYS PHE VAL SER VAL VAL GLU SER GLY SEQRES 13 A 269 GLU TYR LYS SER ALA ILE ALA LYS LYS VAL VAL ALA GLU SEQRES 14 A 269 SER LEU LEU PRO LEU LYS SER THR LYS ILE ASP THR VAL SEQRES 15 A 269 ILE LEU GLY CYS THR HIS TYR PRO LEU LEU LYS PRO ILE SEQRES 16 A 269 ILE GLU ASN PHE MSE GLY ASP GLY VAL ALA VAL ILE ASN SEQRES 17 A 269 SER GLY GLU GLU THR ALA SER GLU VAL SER ALA LEU LEU SEQRES 18 A 269 ASP TYR HIS ASN LEU LEU ASP ALA THR ASP GLU GLU ILE SEQRES 19 A 269 GLU HIS ARG PHE PHE THR THR GLY SER THR GLN ILE PHE SEQRES 20 A 269 LYS ASP ILE ALA LYS ASP TRP LEU ASN MSE PRO ASP MSE SEQRES 21 A 269 THR VAL GLU HIS ILE LYS LEU GLY LYS SEQRES 1 B 269 SER ASN ALA MSE LYS GLN ALA ILE GLY PHE ILE ASP SER SEQRES 2 B 269 GLY VAL GLY GLY LEU THR VAL VAL ARG GLU VAL LEU LYS SEQRES 3 B 269 GLN LEU PRO HIS GLU GLN VAL TYR TYR LEU GLY ASP THR SEQRES 4 B 269 ALA ARG CYS PRO TYR GLY PRO ARG ASP LYS GLU GLU VAL SEQRES 5 B 269 ALA LYS PHE THR TRP GLU MSE THR ASN PHE LEU VAL ASP SEQRES 6 B 269 ARG GLY ILE LYS MSE LEU VAL ILE ALA CYS ASN THR ALA SEQRES 7 B 269 THR ALA ALA ALA LEU TYR ASP ILE ARG GLU LYS LEU ASP SEQRES 8 B 269 ILE PRO VAL ILE GLY VAL ILE GLN PRO GLY SER ARG ALA SEQRES 9 B 269 ALA LEU LYS ALA THR ARG ASN ASN LYS ILE GLY VAL LEU SEQRES 10 B 269 GLY THR LEU GLY THR VAL GLU SER MSE ALA TYR PRO THR SEQRES 11 B 269 ALA LEU LYS GLY LEU ASN ARG ARG VAL GLU VAL ASP SER SEQRES 12 B 269 LEU ALA CYS PRO LYS PHE VAL SER VAL VAL GLU SER GLY SEQRES 13 B 269 GLU TYR LYS SER ALA ILE ALA LYS LYS VAL VAL ALA GLU SEQRES 14 B 269 SER LEU LEU PRO LEU LYS SER THR LYS ILE ASP THR VAL SEQRES 15 B 269 ILE LEU GLY CYS THR HIS TYR PRO LEU LEU LYS PRO ILE SEQRES 16 B 269 ILE GLU ASN PHE MSE GLY ASP GLY VAL ALA VAL ILE ASN SEQRES 17 B 269 SER GLY GLU GLU THR ALA SER GLU VAL SER ALA LEU LEU SEQRES 18 B 269 ASP TYR HIS ASN LEU LEU ASP ALA THR ASP GLU GLU ILE SEQRES 19 B 269 GLU HIS ARG PHE PHE THR THR GLY SER THR GLN ILE PHE SEQRES 20 B 269 LYS ASP ILE ALA LYS ASP TRP LEU ASN MSE PRO ASP MSE SEQRES 21 B 269 THR VAL GLU HIS ILE LYS LEU GLY LYS MODRES 3IST MSE A 1 MET SELENOMETHIONINE MODRES 3IST MSE A 56 MET SELENOMETHIONINE MODRES 3IST MSE A 67 MET SELENOMETHIONINE MODRES 3IST MSE A 123 MET SELENOMETHIONINE MODRES 3IST MSE A 197 MET SELENOMETHIONINE MODRES 3IST MSE A 254 MET SELENOMETHIONINE MODRES 3IST MSE A 257 MET SELENOMETHIONINE MODRES 3IST MSE B 1 MET SELENOMETHIONINE MODRES 3IST MSE B 56 MET SELENOMETHIONINE MODRES 3IST MSE B 67 MET SELENOMETHIONINE MODRES 3IST MSE B 123 MET SELENOMETHIONINE MODRES 3IST MSE B 197 MET SELENOMETHIONINE MODRES 3IST MSE B 254 MET SELENOMETHIONINE MODRES 3IST MSE B 257 MET SELENOMETHIONINE HET MSE A 1 8 HET MSE A 56 8 HET MSE A 67 8 HET MSE A 123 16 HET MSE A 197 8 HET MSE A 254 16 HET MSE A 257 8 HET MSE B 1 16 HET MSE B 56 8 HET MSE B 67 8 HET MSE B 123 8 HET MSE B 197 8 HET MSE B 254 8 HET MSE B 257 8 HET SIN A 267 8 HET CL A 268 1 HET SIN B 267 8 HET CL B 268 1 HETNAM MSE SELENOMETHIONINE HETNAM SIN SUCCINIC ACID HETNAM CL CHLORIDE ION FORMUL 1 MSE 14(C5 H11 N O2 SE) FORMUL 3 SIN 2(C4 H6 O4) FORMUL 4 CL 2(CL 1-) FORMUL 7 HOH *483(H2 O) HELIX 1 1 GLY A 14 LEU A 25 1 12 HELIX 2 2 THR A 36 CYS A 39 5 4 HELIX 3 3 ASP A 45 ARG A 63 1 19 HELIX 4 4 CYS A 72 LEU A 87 1 16 HELIX 5 5 VAL A 94 THR A 106 1 13 HELIX 6 6 THR A 116 MSE A 123 1 8 HELIX 7 7 MSE A 123 ASN A 133 1 11 HELIX 8 8 PRO A 144 SER A 152 1 9 HELIX 9 9 SER A 157 LEU A 169 1 13 HELIX 10 10 PRO A 170 THR A 174 5 5 HELIX 11 11 HIS A 185 LEU A 188 5 4 HELIX 12 12 LEU A 189 GLY A 198 1 10 HELIX 13 13 SER A 206 HIS A 221 1 16 HELIX 14 14 SER A 240 ASN A 253 1 14 HELIX 15 15 GLY B 14 LEU B 25 1 12 HELIX 16 16 THR B 36 CYS B 39 5 4 HELIX 17 17 ASP B 45 GLY B 64 1 20 HELIX 18 18 CYS B 72 LEU B 87 1 16 HELIX 19 19 VAL B 94 THR B 106 1 13 HELIX 20 20 THR B 116 MSE B 123 1 8 HELIX 21 21 MSE B 123 ASN B 133 1 11 HELIX 22 22 LYS B 145 SER B 152 1 8 HELIX 23 23 SER B 157 LEU B 169 1 13 HELIX 24 24 PRO B 170 THR B 174 5 5 HELIX 25 25 HIS B 185 LEU B 188 5 4 HELIX 26 26 LEU B 189 GLY B 198 1 10 HELIX 27 27 ASN B 205 HIS B 221 1 17 HELIX 28 28 SER B 240 LEU B 252 1 13 SHEET 1 A 6 VAL A 91 GLY A 93 0 SHEET 2 A 6 MSE A 67 ILE A 70 1 N ILE A 70 O ILE A 92 SHEET 3 A 6 ILE A 5 ASP A 9 1 N GLY A 6 O MSE A 67 SHEET 4 A 6 VAL A 30 GLY A 34 1 O LEU A 33 N PHE A 7 SHEET 5 A 6 ARG A 234 THR A 237 1 O PHE A 236 N TYR A 32 SHEET 6 A 6 VAL A 259 HIS A 261 1 O GLU A 260 N PHE A 235 SHEET 1 B 4 GLU A 137 ALA A 142 0 SHEET 2 B 4 LYS A 110 GLY A 115 1 N ILE A 111 O GLU A 137 SHEET 3 B 4 THR A 178 LEU A 181 1 O ILE A 180 N GLY A 112 SHEET 4 B 4 ALA A 202 ILE A 204 1 O ILE A 204 N VAL A 179 SHEET 1 C 6 VAL B 91 GLY B 93 0 SHEET 2 C 6 ILE B 65 ILE B 70 1 N ILE B 70 O ILE B 92 SHEET 3 C 6 ALA B 4 ASP B 9 1 N GLY B 6 O MSE B 67 SHEET 4 C 6 VAL B 30 GLY B 34 1 O LEU B 33 N PHE B 7 SHEET 5 C 6 ARG B 234 THR B 237 1 O PHE B 236 N TYR B 32 SHEET 6 C 6 VAL B 259 HIS B 261 1 O GLU B 260 N PHE B 235 SHEET 1 D 4 GLU B 137 ALA B 142 0 SHEET 2 D 4 LYS B 110 GLY B 115 1 N ILE B 111 O GLU B 137 SHEET 3 D 4 THR B 178 LEU B 181 1 O ILE B 180 N GLY B 112 SHEET 4 D 4 ALA B 202 ILE B 204 1 O ILE B 204 N VAL B 179 LINK C ALA A 0 N MSE A 1 1555 1555 1.33 LINK C MSE A 1 N LYS A 2 1555 1555 1.33 LINK C GLU A 55 N MSE A 56 1555 1555 1.34 LINK C MSE A 56 N THR A 57 1555 1555 1.34 LINK C LYS A 66 N MSE A 67 1555 1555 1.32 LINK C MSE A 67 N LEU A 68 1555 1555 1.32 LINK C SER A 122 N AMSE A 123 1555 1555 1.34 LINK C SER A 122 N BMSE A 123 1555 1555 1.34 LINK C AMSE A 123 N ALA A 124 1555 1555 1.33 LINK C BMSE A 123 N ALA A 124 1555 1555 1.32 LINK C PHE A 196 N MSE A 197 1555 1555 1.33 LINK C MSE A 197 N GLY A 198 1555 1555 1.33 LINK C AASN A 253 N AMSE A 254 1555 1555 1.32 LINK C BASN A 253 N BMSE A 254 1555 1555 1.32 LINK C AMSE A 254 N PRO A 255 1555 1555 1.34 LINK C BMSE A 254 N PRO A 255 1555 1555 1.34 LINK C ASP A 256 N MSE A 257 1555 1555 1.32 LINK C MSE A 257 N THR A 258 1555 1555 1.33 LINK C AMSE B 1 N LYS B 2 1555 1555 1.34 LINK C BMSE B 1 N LYS B 2 1555 1555 1.34 LINK C GLU B 55 N MSE B 56 1555 1555 1.34 LINK C MSE B 56 N THR B 57 1555 1555 1.34 LINK C LYS B 66 N MSE B 67 1555 1555 1.31 LINK C MSE B 67 N LEU B 68 1555 1555 1.34 LINK C SER B 122 N MSE B 123 1555 1555 1.33 LINK C MSE B 123 N ALA B 124 1555 1555 1.34 LINK C PHE B 196 N MSE B 197 1555 1555 1.33 LINK C MSE B 197 N GLY B 198 1555 1555 1.33 LINK C AASN B 253 N MSE B 254 1555 1555 1.33 LINK C BASN B 253 N MSE B 254 1555 1555 1.33 LINK C MSE B 254 N PRO B 255 1555 1555 1.35 LINK C ASP B 256 N MSE B 257 1555 1555 1.32 LINK C MSE B 257 N THR B 258 1555 1555 1.33 CISPEP 1 CYS A 39 PRO A 40 0 12.11 CISPEP 2 CYS B 39 PRO B 40 0 1.71 CISPEP 3 CYS B 39 PRO B 40 0 -5.91 SITE 1 AC1 13 SER A 10 CYS A 39 PRO A 40 TYR A 41 SITE 2 AC1 13 GLY A 42 THR A 74 THR A 116 THR A 119 SITE 3 AC1 13 VAL A 147 CYS A 183 HOH A 283 HOH A 358 SITE 4 AC1 13 HOH A 374 SITE 1 AC2 11 SER B 10 PRO B 40 TYR B 41 GLY B 42 SITE 2 AC2 11 CYS B 72 ASN B 73 THR B 74 HOH B 270 SITE 3 AC2 11 HOH B 358 HOH B 445 HOH B 446 SITE 1 AC3 6 HOH A 273 ARG B 84 ILE B 92 GLY B 93 SITE 2 AC3 6 HOH B 278 HOH B 408 SITE 1 AC4 5 GLY A 42 THR A 116 LEU A 117 HOH A 374 SITE 2 AC4 5 HOH A 520 CRYST1 66.420 66.420 258.774 90.00 90.00 90.00 P 43 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 0.015056 0.000000 0.000000 0.00000 SCALE2 0.000000 0.015056 0.000000 0.00000 SCALE3 0.000000 0.000000 0.003864 0.00000