HEADER LYASE 22-MAR-07 2P8C TITLE CRYSTAL STRUCTURE OF N-SUCCINYL ARG/LYS RACEMASE FROM BACILLUS CEREUS TITLE 2 ATCC 14579 COMPLEXED WITH N-SUCCINYL ARG. COMPND MOL_ID: 1; COMPND 2 MOLECULE: MANDELATE RACEMASE/MUCONATE LACTONIZING ENZYME FAMILY COMPND 3 PROTEIN; COMPND 4 CHAIN: A; COMPND 5 ENGINEERED: YES SOURCE MOL_ID: 1; SOURCE 2 ORGANISM_SCIENTIFIC: BACILLUS CEREUS ATCC 14579; SOURCE 3 ORGANISM_TAXID: 226900; SOURCE 4 STRAIN: DSM 31; SOURCE 5 GENE: BC_0371; SOURCE 6 EXPRESSION_SYSTEM: ESCHERICHIA COLI; SOURCE 7 EXPRESSION_SYSTEM_TAXID: 562 KEYWDS ENOLASE SUPERFAMILY, PREDICTION OF FUNCTION, N-SUCCINYL AMINO ACID KEYWDS 2 RACEMASE, LYASE EXPDTA X-RAY DIFFRACTION AUTHOR A.A.FEDOROV,L.SONG,E.V.FEDOROV,J.A.GERLT,S.C.ALMO REVDAT 4 30-AUG-23 2P8C 1 REMARK REVDAT 3 24-FEB-09 2P8C 1 VERSN REVDAT 2 22-JAN-08 2P8C 1 JRNL REVDAT 1 03-JUL-07 2P8C 0 JRNL AUTH L.SONG,C.KALYANARAMAN,A.A.FEDOROV,E.V.FEDOROV,M.E.GLASNER, JRNL AUTH 2 S.BROWN,H.J.IMKER,P.C.BABBITT,S.C.ALMO,M.P.JACOBSON, JRNL AUTH 3 J.A.GERLT JRNL TITL PREDICTION AND ASSIGNMENT OF FUNCTION FOR A DIVERGENT JRNL TITL 2 N-SUCCINYL AMINO ACID RACEMASE. JRNL REF NAT.CHEM.BIOL. V. 3 486 2007 JRNL REFN ISSN 1552-4450 JRNL PMID 17603539 JRNL DOI 10.1038/NCHEMBIO.2007.11 REMARK 2 REMARK 2 RESOLUTION. 2.00 ANGSTROMS. REMARK 3 REMARK 3 REFINEMENT. REMARK 3 PROGRAM : CNS 1.1 REMARK 3 AUTHORS : BRUNGER,ADAMS,CLORE,DELANO,GROS,GROSSE- REMARK 3 : KUNSTLEVE,JIANG,KUSZEWSKI,NILGES,PANNU, REMARK 3 : READ,RICE,SIMONSON,WARREN REMARK 3 REMARK 3 REFINEMENT TARGET : ENGH & HUBER REMARK 3 REMARK 3 DATA USED IN REFINEMENT. REMARK 3 RESOLUTION RANGE HIGH (ANGSTROMS) : 2.00 REMARK 3 RESOLUTION RANGE LOW (ANGSTROMS) : 24.67 REMARK 3 DATA CUTOFF (SIGMA(F)) : 0.000 REMARK 3 DATA CUTOFF HIGH (ABS(F)) : 192683.100 REMARK 3 DATA CUTOFF LOW (ABS(F)) : 0.0000 REMARK 3 COMPLETENESS (WORKING+TEST) (%) : 93.9 REMARK 3 NUMBER OF REFLECTIONS : 26872 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 SET) : 0.180 REMARK 3 FREE R VALUE : 0.199 REMARK 3 FREE R VALUE TEST SET SIZE (%) : 4.900 REMARK 3 FREE R VALUE TEST SET COUNT : 1318 REMARK 3 ESTIMATED ERROR OF FREE R VALUE : 0.005 REMARK 3 REMARK 3 FIT IN THE HIGHEST RESOLUTION BIN. REMARK 3 TOTAL NUMBER OF BINS USED : 10 REMARK 3 BIN RESOLUTION RANGE HIGH (A) : 2.00 REMARK 3 BIN RESOLUTION RANGE LOW (A) : 2.07 REMARK 3 BIN COMPLETENESS (WORKING+TEST) (%) : 82.90 REMARK 3 REFLECTIONS IN BIN (WORKING SET) : 2218 REMARK 3 BIN R VALUE (WORKING SET) : 0.2560 REMARK 3 BIN FREE R VALUE : 0.2570 REMARK 3 BIN FREE R VALUE TEST SET SIZE (%) : 4.60 REMARK 3 BIN FREE R VALUE TEST SET COUNT : 107 REMARK 3 ESTIMATED ERROR OF BIN FREE R VALUE : 0.025 REMARK 3 REMARK 3 NUMBER OF NON-HYDROGEN ATOMS USED IN REFINEMENT. REMARK 3 PROTEIN ATOMS : 2871 REMARK 3 NUCLEIC ACID ATOMS : 0 REMARK 3 HETEROGEN ATOMS : 20 REMARK 3 SOLVENT ATOMS : 165 REMARK 3 REMARK 3 B VALUES. REMARK 3 FROM WILSON PLOT (A**2) : 17.60 REMARK 3 MEAN B VALUE (OVERALL, A**2) : 29.50 REMARK 3 OVERALL ANISOTROPIC B VALUE. REMARK 3 B11 (A**2) : -4.23000 REMARK 3 B22 (A**2) : -4.23000 REMARK 3 B33 (A**2) : 8.45000 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 COORDINATE ERROR. REMARK 3 ESD FROM LUZZATI PLOT (A) : 0.20 REMARK 3 ESD FROM SIGMAA (A) : 0.21 REMARK 3 LOW RESOLUTION CUTOFF (A) : 5.00 REMARK 3 REMARK 3 CROSS-VALIDATED ESTIMATED COORDINATE ERROR. REMARK 3 ESD FROM C-V LUZZATI PLOT (A) : 0.23 REMARK 3 ESD FROM C-V SIGMAA (A) : 0.20 REMARK 3 REMARK 3 RMS DEVIATIONS FROM IDEAL VALUES. REMARK 3 BOND LENGTHS (A) : 0.007 REMARK 3 BOND ANGLES (DEGREES) : 1.200 REMARK 3 DIHEDRAL ANGLES (DEGREES) : 22.70 REMARK 3 IMPROPER ANGLES (DEGREES) : 0.770 REMARK 3 REMARK 3 ISOTROPIC THERMAL MODEL : RESTRAINED REMARK 3 REMARK 3 ISOTROPIC THERMAL FACTOR RESTRAINTS. RMS SIGMA REMARK 3 MAIN-CHAIN BOND (A**2) : 1.090 ; 1.500 REMARK 3 MAIN-CHAIN ANGLE (A**2) : 1.640 ; 2.000 REMARK 3 SIDE-CHAIN BOND (A**2) : 2.160 ; 2.000 REMARK 3 SIDE-CHAIN ANGLE (A**2) : 2.970 ; 2.500 REMARK 3 REMARK 3 BULK SOLVENT MODELING. REMARK 3 METHOD USED : FLAT MODEL REMARK 3 KSOL : 0.34 REMARK 3 BSOL : 44.81 REMARK 3 REMARK 3 NCS MODEL : NULL REMARK 3 REMARK 3 NCS RESTRAINTS. RMS SIGMA/WEIGHT REMARK 3 GROUP 1 POSITIONAL (A) : NULL ; NULL REMARK 3 GROUP 1 B-FACTOR (A**2) : NULL ; NULL REMARK 3 REMARK 3 PARAMETER FILE 1 : PROTEIN_REP.PARAM REMARK 3 PARAMETER FILE 2 : WATER_REP.PARAM REMARK 3 PARAMETER FILE 3 : ION.PARAM REMARK 3 PARAMETER FILE 4 : NSR_PAR.TXT REMARK 3 PARAMETER FILE 5 : &_1_PARAMETER_INFILE_5 REMARK 3 PARAMETER FILE 6 : NULL REMARK 3 TOPOLOGY FILE 1 : PROTEIN.TOP REMARK 3 TOPOLOGY FILE 2 : WATER.TOP REMARK 3 TOPOLOGY FILE 3 : ION.TOP REMARK 3 TOPOLOGY FILE 4 : NSR_TOP.TXT REMARK 3 TOPOLOGY FILE 5 : &_1_TOPOLOGY_INFILE_5 REMARK 3 TOPOLOGY FILE 6 : NULL REMARK 3 REMARK 3 OTHER REFINEMENT REMARKS: NULL REMARK 4 REMARK 4 2P8C COMPLIES WITH FORMAT V. 3.30, 13-JUL-11 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY RCSB ON 04-APR-07. REMARK 100 THE DEPOSITION ID IS D_1000042093. REMARK 200 REMARK 200 EXPERIMENTAL DETAILS REMARK 200 EXPERIMENT TYPE : X-RAY DIFFRACTION REMARK 200 DATE OF DATA COLLECTION : 27-OCT-06 REMARK 200 TEMPERATURE (KELVIN) : 100 REMARK 200 PH : 6.2 REMARK 200 NUMBER OF CRYSTALS USED : NULL REMARK 200 REMARK 200 SYNCHROTRON (Y/N) : Y REMARK 200 RADIATION SOURCE : NSLS REMARK 200 BEAMLINE : X4A REMARK 200 X-RAY GENERATOR MODEL : NULL REMARK 200 MONOCHROMATIC OR LAUE (M/L) : M REMARK 200 WAVELENGTH OR RANGE (A) : 0.97915 REMARK 200 MONOCHROMATOR : SI 111 CHANNEL REMARK 200 OPTICS : MIRRORS REMARK 200 REMARK 200 DETECTOR TYPE : CCD REMARK 200 DETECTOR MANUFACTURER : ADSC QUANTUM 4 REMARK 200 INTENSITY-INTEGRATION SOFTWARE : DENZO REMARK 200 DATA SCALING SOFTWARE : SCALEPACK REMARK 200 REMARK 200 NUMBER OF UNIQUE REFLECTIONS : 26872 REMARK 200 RESOLUTION RANGE HIGH (A) : 2.000 REMARK 200 RESOLUTION RANGE LOW (A) : 25.000 REMARK 200 REJECTION CRITERIA (SIGMA(I)) : 0.000 REMARK 200 REMARK 200 OVERALL. REMARK 200 COMPLETENESS FOR RANGE (%) : 93.9 REMARK 200 DATA REDUNDANCY : 12.70 REMARK 200 R MERGE (I) : 0.09800 REMARK 200 R SYM (I) : NULL REMARK 200 FOR THE DATA SET : NULL 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: PHASER REMARK 200 STARTING MODEL: PDB ENTRY 2P88 REMARK 200 REMARK 200 REMARK: NULL REMARK 280 REMARK 280 CRYSTAL REMARK 280 SOLVENT CONTENT, VS (%): 51.29 REMARK 280 MATTHEWS COEFFICIENT, VM (ANGSTROMS**3/DA): 2.53 REMARK 280 REMARK 280 CRYSTALLIZATION CONDITIONS: 35% MPD, 0.1 M NA/K PHOSPHATE, PH 6.2, REMARK 280 VAPOR DIFFUSION, HANGING DROP, TEMPERATURE 293.0K REMARK 290 REMARK 290 CRYSTALLOGRAPHIC SYMMETRY REMARK 290 SYMMETRY OPERATORS FOR SPACE GROUP: I 4 2 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,X,Z REMARK 290 4555 Y,-X,Z REMARK 290 5555 -X,Y,-Z REMARK 290 6555 X,-Y,-Z REMARK 290 7555 Y,X,-Z REMARK 290 8555 -Y,-X,-Z REMARK 290 9555 X+1/2,Y+1/2,Z+1/2 REMARK 290 10555 -X+1/2,-Y+1/2,Z+1/2 REMARK 290 11555 -Y+1/2,X+1/2,Z+1/2 REMARK 290 12555 Y+1/2,-X+1/2,Z+1/2 REMARK 290 13555 -X+1/2,Y+1/2,-Z+1/2 REMARK 290 14555 X+1/2,-Y+1/2,-Z+1/2 REMARK 290 15555 Y+1/2,X+1/2,-Z+1/2 REMARK 290 16555 -Y+1/2,-X+1/2,-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 0.00000 REMARK 290 SMTRY1 3 0.000000 -1.000000 0.000000 0.00000 REMARK 290 SMTRY2 3 1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY3 3 0.000000 0.000000 1.000000 0.00000 REMARK 290 SMTRY1 4 0.000000 1.000000 0.000000 0.00000 REMARK 290 SMTRY2 4 -1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY3 4 0.000000 0.000000 1.000000 0.00000 REMARK 290 SMTRY1 5 -1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY2 5 0.000000 1.000000 0.000000 0.00000 REMARK 290 SMTRY3 5 0.000000 0.000000 -1.000000 0.00000 REMARK 290 SMTRY1 6 1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY2 6 0.000000 -1.000000 0.000000 0.00000 REMARK 290 SMTRY3 6 0.000000 0.000000 -1.000000 0.00000 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 SMTRY1 9 1.000000 0.000000 0.000000 68.66950 REMARK 290 SMTRY2 9 0.000000 1.000000 0.000000 68.66950 REMARK 290 SMTRY3 9 0.000000 0.000000 1.000000 43.92500 REMARK 290 SMTRY1 10 -1.000000 0.000000 0.000000 68.66950 REMARK 290 SMTRY2 10 0.000000 -1.000000 0.000000 68.66950 REMARK 290 SMTRY3 10 0.000000 0.000000 1.000000 43.92500 REMARK 290 SMTRY1 11 0.000000 -1.000000 0.000000 68.66950 REMARK 290 SMTRY2 11 1.000000 0.000000 0.000000 68.66950 REMARK 290 SMTRY3 11 0.000000 0.000000 1.000000 43.92500 REMARK 290 SMTRY1 12 0.000000 1.000000 0.000000 68.66950 REMARK 290 SMTRY2 12 -1.000000 0.000000 0.000000 68.66950 REMARK 290 SMTRY3 12 0.000000 0.000000 1.000000 43.92500 REMARK 290 SMTRY1 13 -1.000000 0.000000 0.000000 68.66950 REMARK 290 SMTRY2 13 0.000000 1.000000 0.000000 68.66950 REMARK 290 SMTRY3 13 0.000000 0.000000 -1.000000 43.92500 REMARK 290 SMTRY1 14 1.000000 0.000000 0.000000 68.66950 REMARK 290 SMTRY2 14 0.000000 -1.000000 0.000000 68.66950 REMARK 290 SMTRY3 14 0.000000 0.000000 -1.000000 43.92500 REMARK 290 SMTRY1 15 0.000000 1.000000 0.000000 68.66950 REMARK 290 SMTRY2 15 1.000000 0.000000 0.000000 68.66950 REMARK 290 SMTRY3 15 0.000000 0.000000 -1.000000 43.92500 REMARK 290 SMTRY1 16 0.000000 -1.000000 0.000000 68.66950 REMARK 290 SMTRY2 16 -1.000000 0.000000 0.000000 68.66950 REMARK 290 SMTRY3 16 0.000000 0.000000 -1.000000 43.92500 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 300 REMARK: THE BIOLOGICAL ASSEMBLY IS AN OCTAMER 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: OCTAMERIC REMARK 350 APPLY THE FOLLOWING TO CHAINS: A REMARK 350 BIOMT1 1 1.000000 0.000000 0.000000 0.00000 REMARK 350 BIOMT2 1 0.000000 1.000000 0.000000 0.00000 REMARK 350 BIOMT3 1 0.000000 0.000000 1.000000 0.00000 REMARK 350 BIOMT1 2 -1.000000 0.000000 0.000000 0.00000 REMARK 350 BIOMT2 2 0.000000 -1.000000 0.000000 0.00000 REMARK 350 BIOMT3 2 0.000000 0.000000 1.000000 0.00000 REMARK 350 BIOMT1 3 0.000000 -1.000000 0.000000 0.00000 REMARK 350 BIOMT2 3 1.000000 0.000000 0.000000 0.00000 REMARK 350 BIOMT3 3 0.000000 0.000000 1.000000 0.00000 REMARK 350 BIOMT1 4 0.000000 1.000000 0.000000 0.00000 REMARK 350 BIOMT2 4 -1.000000 0.000000 0.000000 0.00000 REMARK 350 BIOMT3 4 0.000000 0.000000 1.000000 0.00000 REMARK 350 BIOMT1 5 -1.000000 0.000000 0.000000 0.00000 REMARK 350 BIOMT2 5 0.000000 1.000000 0.000000 0.00000 REMARK 350 BIOMT3 5 0.000000 0.000000 -1.000000 0.00000 REMARK 350 BIOMT1 6 1.000000 0.000000 0.000000 0.00000 REMARK 350 BIOMT2 6 0.000000 -1.000000 0.000000 0.00000 REMARK 350 BIOMT3 6 0.000000 0.000000 -1.000000 0.00000 REMARK 350 BIOMT1 7 0.000000 1.000000 0.000000 0.00000 REMARK 350 BIOMT2 7 1.000000 0.000000 0.000000 0.00000 REMARK 350 BIOMT3 7 0.000000 0.000000 -1.000000 0.00000 REMARK 350 BIOMT1 8 0.000000 -1.000000 0.000000 0.00000 REMARK 350 BIOMT2 8 -1.000000 0.000000 0.000000 0.00000 REMARK 350 BIOMT3 8 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 532 LIES ON A SPECIAL POSITION. REMARK 375 HOH A 577 LIES ON A SPECIAL POSITION. REMARK 375 HOH A 582 LIES ON A SPECIAL POSITION. REMARK 375 HOH A 637 LIES ON A SPECIAL POSITION. REMARK 375 HOH A 652 LIES ON A SPECIAL POSITION. REMARK 500 REMARK 500 GEOMETRY AND STEREOCHEMISTRY REMARK 500 SUBTOPIC: CLOSE CONTACTS IN SAME ASYMMETRIC UNIT REMARK 500 REMARK 500 THE FOLLOWING ATOMS ARE IN CLOSE CONTACT. REMARK 500 REMARK 500 ATM1 RES C SSEQI ATM2 RES C SSEQI DISTANCE REMARK 500 O HOH A 574 O HOH A 644 2.14 REMARK 500 REMARK 500 REMARK: NULL REMARK 500 REMARK 500 GEOMETRY AND STEREOCHEMISTRY REMARK 500 SUBTOPIC: CLOSE CONTACTS REMARK 500 REMARK 500 THE FOLLOWING ATOMS THAT ARE RELATED BY CRYSTALLOGRAPHIC REMARK 500 SYMMETRY ARE IN CLOSE CONTACT. AN ATOM LOCATED WITHIN 0.15 REMARK 500 ANGSTROMS OF A SYMMETRY RELATED ATOM IS ASSUMED TO BE ON A REMARK 500 SPECIAL POSITION AND IS, THEREFORE, LISTED IN REMARK 375 REMARK 500 INSTEAD OF REMARK 500. ATOMS WITH NON-BLANK ALTERNATE REMARK 500 LOCATION INDICATORS ARE NOT INCLUDED IN THE CALCULATIONS. REMARK 500 REMARK 500 DISTANCE CUTOFF: REMARK 500 2.2 ANGSTROMS FOR CONTACTS NOT INVOLVING HYDROGEN ATOMS REMARK 500 1.6 ANGSTROMS FOR CONTACTS INVOLVING HYDROGEN ATOMS REMARK 500 REMARK 500 ATM1 RES C SSEQI ATM2 RES C SSEQI SSYMOP DISTANCE REMARK 500 NH2 ARG A 250 NH2 ARG A 250 5555 1.82 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 VAL A 96 53.19 35.50 REMARK 500 ALA A 140 -178.60 -172.84 REMARK 500 LYS A 197 -57.15 65.27 REMARK 500 GLN A 219 67.89 31.98 REMARK 500 ASP A 243 -84.64 -119.62 REMARK 500 LYS A 247 -66.04 -125.83 REMARK 500 VAL A 297 88.20 80.61 REMARK 500 PRO A 339 24.34 -79.27 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 A 401 MG REMARK 620 N RES CSSEQI ATOM REMARK 620 1 GLU A 218 OE2 REMARK 620 2 ASP A 243 OD2 88.9 REMARK 620 3 SUG A 501 O 107.1 89.3 REMARK 620 N 1 2 REMARK 800 REMARK 800 SITE REMARK 800 SITE_IDENTIFIER: AC1 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE MG A 401 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC2 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE SUG A 501 REMARK 900 REMARK 900 RELATED ENTRIES REMARK 900 RELATED ID: 2P88 RELATED DB: PDB REMARK 900 CRYSTAL STRUCTURE OF N-SUCCINYL ARG/LYS RACEMASE FROM BACILLUS REMARK 900 CEREUS ATCC 14579, UNLIGANDED REMARK 900 RELATED ID: 2P8B RELATED DB: PDB REMARK 900 CRYSTAL STRUCTURE OF N-SUCCINYL ARG/LYS RACEMASE FROM BACILLUS REMARK 900 CEREUS ATCC 14579 COMPLEXED WITH N-SUCCINYL LYSINE DBREF 2P8C A 1 369 UNP Q81IL5 Q81IL5_BACCR 1 369 SEQRES 1 A 369 MET LYS ILE THR ALA ILE HIS LEU TYR ALA ILE ARG LEU SEQRES 2 A 369 PRO LEU ARG ASN PRO PHE VAL ILE SER TYR GLY SER TYR SEQRES 3 A 369 SER ASP MET PRO SER ILE ILE VAL LYS MET GLU THR ASP SEQRES 4 A 369 GLU GLY ILE ILE GLY TYR GLY GLU GLY VAL ALA ASP ASP SEQRES 5 A 369 HIS VAL THR GLY GLU SER TRP GLU SER THR PHE HIS THR SEQRES 6 A 369 LEU LYS HIS THR LEU THR PRO ALA LEU ILE GLY GLN ASN SEQRES 7 A 369 PRO MET ASN ILE GLU LYS ILE HIS ASP MET MET ASP ASN SEQRES 8 A 369 THR ILE TYR GLY VAL PRO THR ALA LYS ALA ALA ILE ASP SEQRES 9 A 369 ILE ALA CYS PHE ASP ILE MET GLY LYS LYS LEU ASN GLN SEQRES 10 A 369 PRO VAL TYR GLN LEU ILE GLY GLY ARG TYR HIS GLU GLU SEQRES 11 A 369 PHE PRO VAL THR HIS VAL LEU SER ILE ALA ASP PRO GLU SEQRES 12 A 369 ASN MET ALA GLU GLU ALA ALA SER MET ILE GLN LYS GLY SEQRES 13 A 369 TYR GLN SER PHE LYS MET LYS VAL GLY THR ASN VAL LYS SEQRES 14 A 369 GLU ASP VAL LYS ARG ILE GLU ALA VAL ARG GLU ARG VAL SEQRES 15 A 369 GLY ASN ASP ILE ALA ILE ARG VAL ASP VAL ASN GLN GLY SEQRES 16 A 369 TRP LYS ASN SER ALA ASN THR LEU THR ALA LEU ARG SER SEQRES 17 A 369 LEU GLY HIS LEU ASN ILE ASP TRP ILE GLU GLN PRO VAL SEQRES 18 A 369 ILE ALA ASP ASP ILE ASP ALA MET ALA HIS ILE ARG SER SEQRES 19 A 369 LYS THR ASP LEU PRO LEU MET ILE ASP GLU GLY LEU LYS SEQRES 20 A 369 SER SER ARG GLU MET ARG GLN ILE ILE LYS LEU GLU ALA SEQRES 21 A 369 ALA ASP LYS VAL ASN ILE LYS LEU MET LYS CYS GLY GLY SEQRES 22 A 369 ILE TYR PRO ALA VAL LYS LEU ALA HIS GLN ALA GLU MET SEQRES 23 A 369 ALA GLY ILE GLU CYS GLN VAL GLY SER MET VAL GLU SER SEQRES 24 A 369 SER VAL ALA SER SER ALA GLY PHE HIS VAL ALA PHE SER SEQRES 25 A 369 LYS LYS ILE ILE THR SER VAL GLU LEU THR GLY PRO LEU SEQRES 26 A 369 LYS PHE THR LYS ASP ILE GLY ASN LEU HIS TYR ASP VAL SEQRES 27 A 369 PRO PHE ILE ARG LEU ASN GLU LYS PRO GLY LEU GLY ILE SEQRES 28 A 369 GLU ILE ASN GLU ASP THR LEU GLN GLU LEU THR VAL PHE SEQRES 29 A 369 GLN ASP ILE VAL ARG HET MG A 401 1 HET SUG A 501 19 HETNAM MG MAGNESIUM ION HETNAM SUG N~2~-(3-CARBOXYPROPANOYL)-L-ARGININE HETSYN SUG N~2~-SUCCINYLARGININE FORMUL 2 MG MG 2+ FORMUL 3 SUG C10 H18 N4 O5 FORMUL 4 HOH *165(H2 O) HELIX 1 1 ASP A 51 GLY A 56 1 6 HELIX 2 2 SER A 58 THR A 69 1 12 HELIX 3 3 THR A 71 ILE A 75 5 5 HELIX 4 4 ASN A 81 ILE A 93 1 13 HELIX 5 5 VAL A 96 ASN A 116 1 21 HELIX 6 6 PRO A 118 ILE A 123 1 6 HELIX 7 7 ASP A 141 GLN A 154 1 14 HELIX 8 8 ASN A 167 GLY A 183 1 17 HELIX 9 9 ASN A 198 SER A 208 1 11 HELIX 10 10 LEU A 209 ASN A 213 5 5 HELIX 11 11 ASP A 225 SER A 234 1 10 HELIX 12 12 SER A 248 GLU A 259 1 12 HELIX 13 13 LYS A 267 GLY A 272 1 6 HELIX 14 14 GLY A 273 ALA A 287 1 15 HELIX 15 15 SER A 299 SER A 312 1 14 HELIX 16 16 THR A 322 PHE A 327 1 6 HELIX 17 17 ASN A 354 LEU A 361 1 8 SHEET 1 A 4 ILE A 43 GLY A 48 0 SHEET 2 A 4 GLY A 24 THR A 38 -1 N MET A 36 O GLY A 44 SHEET 3 A 4 ILE A 3 ILE A 21 -1 N ALA A 5 O GLU A 37 SHEET 4 A 4 THR A 362 VAL A 368 -1 O VAL A 363 N ALA A 10 SHEET 1 B 2 PHE A 131 PRO A 132 0 SHEET 2 B 2 PHE A 340 ILE A 341 -1 O ILE A 341 N PHE A 131 SHEET 1 C 8 HIS A 135 LEU A 137 0 SHEET 2 C 8 SER A 159 LYS A 163 1 O LYS A 161 N LEU A 137 SHEET 3 C 8 ALA A 187 ASP A 191 1 O ASP A 191 N MET A 162 SHEET 4 C 8 ILE A 217 GLU A 218 1 O GLU A 218 N VAL A 190 SHEET 5 C 8 LEU A 240 ILE A 242 1 O MET A 241 N ILE A 217 SHEET 6 C 8 LYS A 263 ILE A 266 1 O ASN A 265 N ILE A 242 SHEET 7 C 8 GLU A 290 VAL A 293 1 O GLN A 292 N ILE A 266 SHEET 8 C 8 ILE A 316 VAL A 319 1 O THR A 317 N CYS A 291 LINK OE2 GLU A 218 MG MG A 401 1555 1555 2.25 LINK OD2 ASP A 243 MG MG A 401 1555 1555 2.18 LINK MG MG A 401 O SUG A 501 1555 1555 2.42 CISPEP 1 VAL A 338 PRO A 339 0 0.39 SITE 1 AC1 6 LYS A 161 ASP A 191 GLU A 218 ASP A 243 SITE 2 AC1 6 SUG A 501 HOH A 502 SITE 1 AC2 22 PHE A 19 TYR A 26 MET A 29 ASP A 51 SITE 2 AC2 22 VAL A 136 LYS A 161 LYS A 163 ASP A 191 SITE 3 AC2 22 ASN A 193 ASP A 243 LYS A 267 SER A 295 SITE 4 AC2 22 MET A 296 GLU A 320 LEU A 321 THR A 322 SITE 5 AC2 22 MG A 401 HOH A 505 HOH A 511 HOH A 524 SITE 6 AC2 22 HOH A 606 HOH A 630 CRYST1 137.339 137.339 87.850 90.00 90.00 90.00 I 4 2 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 0.007281 0.000000 0.000000 0.00000 SCALE2 0.000000 0.007281 0.000000 0.00000 SCALE3 0.000000 0.000000 0.011383 0.00000