HEADER HYDROLASE 08-FEB-19 6NX8 TITLE ECAII(D90T,K162T) MUTANT IN COMPLEX WITH CITRATE AT PH 6.2 COMPND MOL_ID: 1; COMPND 2 MOLECULE: L-ASPARAGINASE 2; COMPND 3 CHAIN: A, B; COMPND 4 SYNONYM: L-ASPARAGINASE II,L-ASNASE II,L-ASPARAGINE AMIDOHYDROLASE COMPND 5 II; COMPND 6 EC: 3.5.1.1; COMPND 7 ENGINEERED: YES; COMPND 8 MUTATION: YES SOURCE MOL_ID: 1; SOURCE 2 ORGANISM_SCIENTIFIC: ESCHERICHIA COLI (STRAIN K12); SOURCE 3 ORGANISM_TAXID: 83333; SOURCE 4 STRAIN: K12; SOURCE 5 GENE: ANSB, B2957, JW2924; SOURCE 6 EXPRESSION_SYSTEM: ESCHERICHIA COLI BL21(DE3); SOURCE 7 EXPRESSION_SYSTEM_TAXID: 469008; SOURCE 8 EXPRESSION_SYSTEM_STRAIN: BL21 (DE3); SOURCE 9 EXPRESSION_SYSTEM_VARIANT: ANSA, ANSB, IAAA TRIPLE KNOCKOUT; SOURCE 10 EXPRESSION_SYSTEM_CELL_LINE: JC2; SOURCE 11 EXPRESSION_SYSTEM_CELL: MESOPHILIC BACTERIA; SOURCE 12 EXPRESSION_SYSTEM_VECTOR_TYPE: PLASMID; SOURCE 13 EXPRESSION_SYSTEM_PLASMID: PET-22B KEYWDS INACTIVE MUTANT, HYDROLYSIS OF L-ASPARAGINE, HYDROLASE EXPDTA X-RAY DIFFRACTION AUTHOR J.LUBKOWSKI,A.WLODAWER REVDAT 3 19-AUG-20 6NX8 1 TITLE REVDAT 2 20-NOV-19 6NX8 1 JRNL REVDAT 1 07-AUG-19 6NX8 0 JRNL AUTH J.LUBKOWSKI,W.CHAN,A.WLODAWER JRNL TITL OPPORTUNISTIC COMPLEXES OF E. COLI L-ASPARAGINASES WITH JRNL TITL 2 CITRATE ANIONS. JRNL REF SCI REP V. 9 11070 2019 JRNL REFN ESSN 2045-2322 JRNL PMID 31363102 JRNL DOI 10.1038/S41598-019-46432-0 REMARK 1 REMARK 1 REFERENCE 1 REMARK 1 AUTH M.K.YUN,A.NOURSE,S.W.WHITE,C.O.ROCK,R.J.HEATH REMARK 1 TITL CRYSTAL STRUCTURE AND ALLOSTERIC REGULATION OF THE REMARK 1 TITL 2 CYTOPLASMIC ESCHERICHIA COLI L-ASPARAGINASE I. REMARK 1 REF J. MOL. BIOL. V. 369 794 2007 REMARK 1 REFN ISSN 0022-2836 REMARK 1 PMID 17451745 REMARK 1 DOI 10.1016/J.JMB.2007.03.061 REMARK 2 REMARK 2 RESOLUTION. 1.85 ANGSTROMS. REMARK 3 REMARK 3 REFINEMENT. REMARK 3 PROGRAM : REFMAC 5.8.0158 REMARK 3 AUTHORS : MURSHUDOV,SKUBAK,LEBEDEV,PANNU,STEINER, REMARK 3 : NICHOLLS,WINN,LONG,VAGIN REMARK 3 REMARK 3 REFINEMENT TARGET : NULL REMARK 3 REMARK 3 DATA USED IN REFINEMENT. REMARK 3 RESOLUTION RANGE HIGH (ANGSTROMS) : 1.85 REMARK 3 RESOLUTION RANGE LOW (ANGSTROMS) : 40.00 REMARK 3 DATA CUTOFF (SIGMA(F)) : 0.000 REMARK 3 COMPLETENESS FOR RANGE (%) : 97.0 REMARK 3 NUMBER OF REFLECTIONS : 66360 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) : 0.130 REMARK 3 R VALUE (WORKING SET) : 0.129 REMARK 3 FREE R VALUE : 0.156 REMARK 3 FREE R VALUE TEST SET SIZE (%) : 3.000 REMARK 3 FREE R VALUE TEST SET COUNT : 2047 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) : 1.85 REMARK 3 BIN RESOLUTION RANGE LOW (A) : 1.90 REMARK 3 REFLECTION IN BIN (WORKING SET) : 3804 REMARK 3 BIN COMPLETENESS (WORKING+TEST) (%) : 76.19 REMARK 3 BIN R VALUE (WORKING SET) : 0.2330 REMARK 3 BIN FREE R VALUE SET COUNT : 112 REMARK 3 BIN FREE R VALUE : 0.2720 REMARK 3 REMARK 3 NUMBER OF NON-HYDROGEN ATOMS USED IN REFINEMENT. REMARK 3 PROTEIN ATOMS : 4670 REMARK 3 NUCLEIC ACID ATOMS : 0 REMARK 3 HETEROGEN ATOMS : 17 REMARK 3 SOLVENT ATOMS : 420 REMARK 3 REMARK 3 B VALUES. REMARK 3 FROM WILSON PLOT (A**2) : NULL REMARK 3 MEAN B VALUE (OVERALL, A**2) : 25.68 REMARK 3 OVERALL ANISOTROPIC B VALUE. REMARK 3 B11 (A**2) : -0.07000 REMARK 3 B22 (A**2) : -0.07000 REMARK 3 B33 (A**2) : 0.22000 REMARK 3 B12 (A**2) : -0.03000 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): 0.083 REMARK 3 ESU BASED ON FREE R VALUE (A): 0.082 REMARK 3 ESU BASED ON MAXIMUM LIKELIHOOD (A): 0.062 REMARK 3 ESU FOR B VALUES BASED ON MAXIMUM LIKELIHOOD (A**2): 2.194 REMARK 3 REMARK 3 CORRELATION COEFFICIENTS. REMARK 3 CORRELATION COEFFICIENT FO-FC : 0.980 REMARK 3 CORRELATION COEFFICIENT FO-FC FREE : 0.972 REMARK 3 REMARK 3 RMS DEVIATIONS FROM IDEAL VALUES COUNT RMS WEIGHT REMARK 3 BOND LENGTHS REFINED ATOMS (A): 4891 ; 0.019 ; 0.020 REMARK 3 BOND LENGTHS OTHERS (A): 4521 ; 0.002 ; 0.020 REMARK 3 BOND ANGLES REFINED ATOMS (DEGREES): 6704 ; 1.938 ; 1.958 REMARK 3 BOND ANGLES OTHERS (DEGREES): 10544 ; 1.072 ; 3.000 REMARK 3 TORSION ANGLES, PERIOD 1 (DEGREES): 663 ; 6.008 ; 5.000 REMARK 3 TORSION ANGLES, PERIOD 2 (DEGREES): 206 ;42.697 ;26.068 REMARK 3 TORSION ANGLES, PERIOD 3 (DEGREES): 804 ;13.882 ;15.000 REMARK 3 TORSION ANGLES, PERIOD 4 (DEGREES): 16 ;13.506 ;15.000 REMARK 3 CHIRAL-CENTER RESTRAINTS (A**3): 810 ; 0.128 ; 0.200 REMARK 3 GENERAL PLANES REFINED ATOMS (A): 5550 ; 0.010 ; 0.021 REMARK 3 GENERAL PLANES OTHERS (A): 878 ; 0.002 ; 0.020 REMARK 3 NON-BONDED CONTACTS REFINED ATOMS (A): NULL ; NULL ; NULL REMARK 3 NON-BONDED CONTACTS OTHERS (A): NULL ; NULL ; NULL REMARK 3 NON-BONDED TORSION REFINED ATOMS (A): NULL ; NULL ; NULL REMARK 3 NON-BONDED TORSION OTHERS (A): NULL ; NULL ; NULL REMARK 3 H-BOND (X...Y) REFINED ATOMS (A): NULL ; NULL ; NULL REMARK 3 H-BOND (X...Y) OTHERS (A): NULL ; NULL ; NULL REMARK 3 POTENTIAL METAL-ION REFINED ATOMS (A): NULL ; NULL ; NULL REMARK 3 POTENTIAL METAL-ION OTHERS (A): NULL ; NULL ; NULL REMARK 3 SYMMETRY VDW REFINED ATOMS (A): NULL ; NULL ; NULL REMARK 3 SYMMETRY VDW OTHERS (A): NULL ; NULL ; NULL REMARK 3 SYMMETRY H-BOND REFINED ATOMS (A): NULL ; NULL ; NULL REMARK 3 SYMMETRY H-BOND OTHERS (A): NULL ; NULL ; NULL REMARK 3 SYMMETRY METAL-ION REFINED ATOMS (A): NULL ; NULL ; NULL REMARK 3 SYMMETRY METAL-ION OTHERS (A): NULL ; NULL ; NULL REMARK 3 REMARK 3 ISOTROPIC THERMAL FACTOR RESTRAINTS. COUNT RMS WEIGHT REMARK 3 MAIN-CHAIN BOND REFINED ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 MAIN-CHAIN BOND OTHER ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 MAIN-CHAIN ANGLE REFINED ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 MAIN-CHAIN ANGLE OTHER ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 SIDE-CHAIN BOND REFINED ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 SIDE-CHAIN BOND OTHER ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 SIDE-CHAIN ANGLE REFINED ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 SIDE-CHAIN ANGLE OTHER ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 LONG RANGE B REFINED ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 LONG RANGE B OTHER ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 REMARK 3 ANISOTROPIC THERMAL FACTOR RESTRAINTS. COUNT RMS WEIGHT REMARK 3 RIGID-BOND RESTRAINTS (A**2): NULL ; NULL ; NULL REMARK 3 SPHERICITY; FREE ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 SPHERICITY; BONDED ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 REMARK 3 NCS RESTRAINTS STATISTICS REMARK 3 NUMBER OF DIFFERENT NCS GROUPS : NULL REMARK 3 REMARK 3 TLS DETAILS REMARK 3 NUMBER OF TLS GROUPS : NULL REMARK 3 REMARK 3 BULK SOLVENT MODELLING. REMARK 3 METHOD USED : NULL 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 U VALUES : REFINED INDIVIDUALLY REMARK 4 REMARK 4 6NX8 COMPLIES WITH FORMAT V. 3.30, 13-JUL-11 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY RCSB ON 12-FEB-19. REMARK 100 THE DEPOSITION ID IS D_1000239541. REMARK 200 REMARK 200 EXPERIMENTAL DETAILS REMARK 200 EXPERIMENT TYPE : X-RAY DIFFRACTION REMARK 200 DATE OF DATA COLLECTION : 11-MAY-18 REMARK 200 TEMPERATURE (KELVIN) : 298 REMARK 200 PH : 6.2-6.3 REMARK 200 NUMBER OF CRYSTALS USED : 1 REMARK 200 REMARK 200 SYNCHROTRON (Y/N) : N REMARK 200 RADIATION SOURCE : ROTATING ANODE REMARK 200 BEAMLINE : NULL REMARK 200 X-RAY GENERATOR MODEL : RIGAKU MICROMAX-007 HF REMARK 200 MONOCHROMATIC OR LAUE (M/L) : M REMARK 200 WAVELENGTH OR RANGE (A) : 1.5418 REMARK 200 MONOCHROMATOR : MULTILAYER X-RAY MIRRORS VARIMAX REMARK 200 HF REMARK 200 OPTICS : MULTILAYER X-RAY MIRRORS VARIMAX REMARK 200 HF REMARK 200 REMARK 200 DETECTOR TYPE : PIXEL REMARK 200 DETECTOR MANUFACTURER : DECTRIS EIGER R 4M REMARK 200 INTENSITY-INTEGRATION SOFTWARE : HKL-2000 REMARK 200 DATA SCALING SOFTWARE : HKL-2000 REMARK 200 REMARK 200 NUMBER OF UNIQUE REFLECTIONS : 70498 REMARK 200 RESOLUTION RANGE HIGH (A) : 1.850 REMARK 200 RESOLUTION RANGE LOW (A) : 40.000 REMARK 200 REJECTION CRITERIA (SIGMA(I)) : NULL REMARK 200 REMARK 200 OVERALL. REMARK 200 COMPLETENESS FOR RANGE (%) : 99.9 REMARK 200 DATA REDUNDANCY : 4.700 REMARK 200 R MERGE (I) : 0.07100 REMARK 200 R SYM (I) : NULL REMARK 200 FOR THE DATA SET : 12.2000 REMARK 200 REMARK 200 IN THE HIGHEST RESOLUTION SHELL. REMARK 200 HIGHEST RESOLUTION SHELL, RANGE HIGH (A) : 1.85 REMARK 200 HIGHEST RESOLUTION SHELL, RANGE LOW (A) : 1.88 REMARK 200 COMPLETENESS FOR SHELL (%) : 99.7 REMARK 200 DATA REDUNDANCY IN SHELL : 3.90 REMARK 200 R MERGE FOR SHELL (I) : 0.75000 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: FOURIER SYNTHESIS REMARK 200 SOFTWARE USED: REFMAC REMARK 200 STARTING MODEL: NULL REMARK 200 REMARK 200 REMARK: NULL REMARK 280 REMARK 280 CRYSTAL REMARK 280 SOLVENT CONTENT, VS (%): 57.64 REMARK 280 MATTHEWS COEFFICIENT, VM (ANGSTROMS**3/DA): 2.90 REMARK 280 REMARK 280 CRYSTALLIZATION CONDITIONS: PROTEIN, AT THE CONCENTRATION 15 MG/ML REMARK 280 IN 50 MM HEPES BUFFER PH 7 AND 150 MM SODIUM CHLORIDE WAS MIXED REMARK 280 WITH EQUIVOLUME SOLUTION OF PRECIPITANT THAT CONTAINED, 17% (W/V) REMARK 280 PEG3350, 0.17 M AMMONIUM CITRATE PH 6.2, AND 20 MM L-ASN. REMARK 280 RESULTING DROPLETS WERE EQUILIBRATED AGAINST THE PRECIPITANT. REMARK 280 FOR THE DATA COLLECTION, CRYSTAL WAS MOUNTED IN A QUARTZ REMARK 280 CAPILLARY, VAPOR DIFFUSION, HANGING DROP, TEMPERATURE 293K REMARK 290 REMARK 290 CRYSTALLOGRAPHIC SYMMETRY REMARK 290 SYMMETRY OPERATORS FOR SPACE GROUP: P 31 2 1 REMARK 290 REMARK 290 SYMOP SYMMETRY REMARK 290 NNNMMM OPERATOR REMARK 290 1555 X,Y,Z REMARK 290 2555 -Y,X-Y,Z+1/3 REMARK 290 3555 -X+Y,-X,Z+2/3 REMARK 290 4555 Y,X,-Z REMARK 290 5555 X-Y,-Y,-Z+2/3 REMARK 290 6555 -X,-X+Y,-Z+1/3 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 -0.500000 -0.866025 0.000000 0.00000 REMARK 290 SMTRY2 2 0.866025 -0.500000 0.000000 0.00000 REMARK 290 SMTRY3 2 0.000000 0.000000 1.000000 29.89533 REMARK 290 SMTRY1 3 -0.500000 0.866025 0.000000 0.00000 REMARK 290 SMTRY2 3 -0.866025 -0.500000 0.000000 0.00000 REMARK 290 SMTRY3 3 0.000000 0.000000 1.000000 59.79067 REMARK 290 SMTRY1 4 -0.500000 0.866025 0.000000 0.00000 REMARK 290 SMTRY2 4 0.866025 0.500000 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 59.79067 REMARK 290 SMTRY1 6 -0.500000 -0.866025 0.000000 0.00000 REMARK 290 SMTRY2 6 -0.866025 0.500000 0.000000 0.00000 REMARK 290 SMTRY3 6 0.000000 0.000000 -1.000000 29.89533 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: TETRAMERIC REMARK 350 SOFTWARE DETERMINED QUATERNARY STRUCTURE: TETRAMERIC REMARK 350 SOFTWARE USED: PISA REMARK 350 TOTAL BURIED SURFACE AREA: 14550 ANGSTROM**2 REMARK 350 SURFACE AREA OF THE COMPLEX: 41460 ANGSTROM**2 REMARK 350 CHANGE IN SOLVENT FREE ENERGY: -61.0 KCAL/MOL REMARK 350 APPLY THE FOLLOWING TO CHAINS: A, B REMARK 350 BIOMT1 1 1.000000 0.000000 0.000000 0.00000 REMARK 350 BIOMT2 1 0.000000 1.000000 0.000000 0.00000 REMARK 350 BIOMT3 1 0.000000 0.000000 1.000000 0.00000 REMARK 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 59.79067 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 -6 REMARK 465 HIS A -5 REMARK 465 HIS A -4 REMARK 465 HIS A -3 REMARK 465 HIS A -2 REMARK 465 GLY A 16 REMARK 465 GLY A 17 REMARK 465 ASP A 18 REMARK 465 SER A 19 REMARK 465 ALA A 20 REMARK 465 THR A 21 REMARK 465 LYS A 22 REMARK 465 SER A 23 REMARK 465 ASN A 24 REMARK 465 TYR A 25 REMARK 465 THR A 26 REMARK 465 VAL A 27 REMARK 465 GLY A 28 REMARK 465 LYS A 29 REMARK 465 VAL A 30 REMARK 465 MET B -6 REMARK 465 HIS B -5 REMARK 465 HIS B -4 REMARK 465 HIS B -3 REMARK 465 HIS B -2 REMARK 465 HIS B -1 REMARK 465 HIS B 0 REMARK 465 GLY B 16 REMARK 465 GLY B 17 REMARK 465 ASP B 18 REMARK 465 SER B 19 REMARK 465 ALA B 20 REMARK 465 THR B 21 REMARK 465 LYS B 22 REMARK 465 SER B 23 REMARK 465 ASN B 24 REMARK 465 TYR B 25 REMARK 465 THR B 26 REMARK 465 VAL B 27 REMARK 465 GLY B 28 REMARK 465 LYS B 29 REMARK 465 VAL B 30 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 539 O HOH A 622 1.47 REMARK 500 O HOH B 504 O HOH B 632 1.65 REMARK 500 O HOH B 686 O HOH B 688 1.72 REMARK 500 O HOH A 506 O HOH A 678 1.78 REMARK 500 O HOH A 667 O HOH A 713 1.86 REMARK 500 O HOH B 620 O HOH B 663 1.93 REMARK 500 O HOH A 667 O HOH A 704 2.02 REMARK 500 O HOH B 634 O HOH B 673 2.03 REMARK 500 ND2 ASN B 248 O HOH B 501 2.07 REMARK 500 ND1 HIS B 183 O HOH B 502 2.14 REMARK 500 OD1 ASN B 64 O HOH B 503 2.17 REMARK 500 O HOH A 518 O HOH A 571 2.17 REMARK 500 OD1 ASP A 188 O HOH A 501 2.19 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 O HOH B 668 O HOH B 668 5555 1.23 REMARK 500 O HOH A 527 O HOH A 527 5555 1.25 REMARK 500 O HOH A 654 O HOH A 692 5555 2.16 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 ASP A 100 CB - CG - OD1 ANGL. DEV. = 6.4 DEGREES REMARK 500 ARG A 144 NE - CZ - NH1 ANGL. DEV. = 3.8 DEGREES REMARK 500 ARG A 158 NE - CZ - NH2 ANGL. DEV. = -3.4 DEGREES REMARK 500 ARG A 191 NE - CZ - NH1 ANGL. DEV. = 3.3 DEGREES REMARK 500 ARG B 144 NE - CZ - NH1 ANGL. DEV. = 3.7 DEGREES REMARK 500 ARG B 144 NE - CZ - NH2 ANGL. DEV. = -3.5 DEGREES REMARK 500 ASP B 167 CB - CG - OD1 ANGL. DEV. = 6.0 DEGREES REMARK 500 ARG B 195 NE - CZ - NH1 ANGL. DEV. = 4.4 DEGREES REMARK 500 ASP B 285 CB - CG - OD2 ANGL. DEV. = -5.5 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 THR A 198 -107.40 43.60 REMARK 500 SER A 270 -160.54 -119.02 REMARK 500 ASP A 281 21.91 47.95 REMARK 500 ALA A 282 -70.40 -83.73 REMARK 500 THR B 198 -111.71 43.51 REMARK 500 SER B 270 -161.64 -118.36 REMARK 500 ASP B 281 14.50 52.61 REMARK 500 ALA B 282 -72.06 -81.92 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 ACY A 401 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC2 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue CIT B 401 REMARK 900 REMARK 900 RELATED ENTRIES REMARK 900 RELATED ID: 6NX6 RELATED DB: PDB REMARK 900 RELATED ID: 6NX7 RELATED DB: PDB REMARK 900 RELATED ID: 6NX9 RELATED DB: PDB REMARK 900 RELATED ID: 6NXA RELATED DB: PDB REMARK 900 RELATED ID: 6NXB RELATED DB: PDB REMARK 900 RELATED ID: 6NXC RELATED DB: PDB REMARK 900 RELATED ID: 6NXD RELATED DB: PDB DBREF 6NX8 A 1 326 UNP P00805 ASPG2_ECOLI 23 348 DBREF 6NX8 B 1 326 UNP P00805 ASPG2_ECOLI 23 348 SEQADV 6NX8 MET A -6 UNP P00805 INITIATING METHIONINE SEQADV 6NX8 HIS A -5 UNP P00805 EXPRESSION TAG SEQADV 6NX8 HIS A -4 UNP P00805 EXPRESSION TAG SEQADV 6NX8 HIS A -3 UNP P00805 EXPRESSION TAG SEQADV 6NX8 HIS A -2 UNP P00805 EXPRESSION TAG SEQADV 6NX8 HIS A -1 UNP P00805 EXPRESSION TAG SEQADV 6NX8 HIS A 0 UNP P00805 EXPRESSION TAG SEQADV 6NX8 THR A 90 UNP P00805 ASP 112 ENGINEERED MUTATION SEQADV 6NX8 THR A 162 UNP P00805 LYS 184 ENGINEERED MUTATION SEQADV 6NX8 MET B -6 UNP P00805 INITIATING METHIONINE SEQADV 6NX8 HIS B -5 UNP P00805 EXPRESSION TAG SEQADV 6NX8 HIS B -4 UNP P00805 EXPRESSION TAG SEQADV 6NX8 HIS B -3 UNP P00805 EXPRESSION TAG SEQADV 6NX8 HIS B -2 UNP P00805 EXPRESSION TAG SEQADV 6NX8 HIS B -1 UNP P00805 EXPRESSION TAG SEQADV 6NX8 HIS B 0 UNP P00805 EXPRESSION TAG SEQADV 6NX8 THR B 90 UNP P00805 ASP 112 ENGINEERED MUTATION SEQADV 6NX8 THR B 162 UNP P00805 LYS 184 ENGINEERED MUTATION SEQRES 1 A 333 MET HIS HIS HIS HIS HIS HIS LEU PRO ASN ILE THR ILE SEQRES 2 A 333 LEU ALA THR GLY GLY THR ILE ALA GLY GLY GLY ASP SER SEQRES 3 A 333 ALA THR LYS SER ASN TYR THR VAL GLY LYS VAL GLY VAL SEQRES 4 A 333 GLU ASN LEU VAL ASN ALA VAL PRO GLN LEU LYS ASP ILE SEQRES 5 A 333 ALA ASN VAL LYS GLY GLU GLN VAL VAL ASN ILE GLY SER SEQRES 6 A 333 GLN ASP MET ASN ASP ASN VAL TRP LEU THR LEU ALA LYS SEQRES 7 A 333 LYS ILE ASN THR ASP CYS ASP LYS THR ASP GLY PHE VAL SEQRES 8 A 333 ILE THR HIS GLY THR THR THR MET GLU GLU THR ALA TYR SEQRES 9 A 333 PHE LEU ASP LEU THR VAL LYS CYS ASP LYS PRO VAL VAL SEQRES 10 A 333 MET VAL GLY ALA MET ARG PRO SER THR SER MET SER ALA SEQRES 11 A 333 ASP GLY PRO PHE ASN LEU TYR ASN ALA VAL VAL THR ALA SEQRES 12 A 333 ALA ASP LYS ALA SER ALA ASN ARG GLY VAL LEU VAL VAL SEQRES 13 A 333 MET ASN ASP THR VAL LEU ASP GLY ARG ASP VAL THR THR SEQRES 14 A 333 THR ASN THR THR ASP VAL ALA THR PHE LYS SER VAL ASN SEQRES 15 A 333 TYR GLY PRO LEU GLY TYR ILE HIS ASN GLY LYS ILE ASP SEQRES 16 A 333 TYR GLN ARG THR PRO ALA ARG LYS HIS THR SER ASP THR SEQRES 17 A 333 PRO PHE ASP VAL SER LYS LEU ASN GLU LEU PRO LYS VAL SEQRES 18 A 333 GLY ILE VAL TYR ASN TYR ALA ASN ALA SER ASP LEU PRO SEQRES 19 A 333 ALA LYS ALA LEU VAL ASP ALA GLY TYR ASP GLY ILE VAL SEQRES 20 A 333 SER ALA GLY VAL GLY ASN GLY ASN LEU TYR LYS SER VAL SEQRES 21 A 333 PHE ASP THR LEU ALA THR ALA ALA LYS THR GLY THR ALA SEQRES 22 A 333 VAL VAL ARG SER SER ARG VAL PRO THR GLY ALA THR THR SEQRES 23 A 333 GLN ASP ALA GLU VAL ASP ASP ALA LYS TYR GLY PHE VAL SEQRES 24 A 333 ALA SER GLY THR LEU ASN PRO GLN LYS ALA ARG VAL LEU SEQRES 25 A 333 LEU GLN LEU ALA LEU THR GLN THR LYS ASP PRO GLN GLN SEQRES 26 A 333 ILE GLN GLN ILE PHE ASN GLN TYR SEQRES 1 B 333 MET HIS HIS HIS HIS HIS HIS LEU PRO ASN ILE THR ILE SEQRES 2 B 333 LEU ALA THR GLY GLY THR ILE ALA GLY GLY GLY ASP SER SEQRES 3 B 333 ALA THR LYS SER ASN TYR THR VAL GLY LYS VAL GLY VAL SEQRES 4 B 333 GLU ASN LEU VAL ASN ALA VAL PRO GLN LEU LYS ASP ILE SEQRES 5 B 333 ALA ASN VAL LYS GLY GLU GLN VAL VAL ASN ILE GLY SER SEQRES 6 B 333 GLN ASP MET ASN ASP ASN VAL TRP LEU THR LEU ALA LYS SEQRES 7 B 333 LYS ILE ASN THR ASP CYS ASP LYS THR ASP GLY PHE VAL SEQRES 8 B 333 ILE THR HIS GLY THR THR THR MET GLU GLU THR ALA TYR SEQRES 9 B 333 PHE LEU ASP LEU THR VAL LYS CYS ASP LYS PRO VAL VAL SEQRES 10 B 333 MET VAL GLY ALA MET ARG PRO SER THR SER MET SER ALA SEQRES 11 B 333 ASP GLY PRO PHE ASN LEU TYR ASN ALA VAL VAL THR ALA SEQRES 12 B 333 ALA ASP LYS ALA SER ALA ASN ARG GLY VAL LEU VAL VAL SEQRES 13 B 333 MET ASN ASP THR VAL LEU ASP GLY ARG ASP VAL THR THR SEQRES 14 B 333 THR ASN THR THR ASP VAL ALA THR PHE LYS SER VAL ASN SEQRES 15 B 333 TYR GLY PRO LEU GLY TYR ILE HIS ASN GLY LYS ILE ASP SEQRES 16 B 333 TYR GLN ARG THR PRO ALA ARG LYS HIS THR SER ASP THR SEQRES 17 B 333 PRO PHE ASP VAL SER LYS LEU ASN GLU LEU PRO LYS VAL SEQRES 18 B 333 GLY ILE VAL TYR ASN TYR ALA ASN ALA SER ASP LEU PRO SEQRES 19 B 333 ALA LYS ALA LEU VAL ASP ALA GLY TYR ASP GLY ILE VAL SEQRES 20 B 333 SER ALA GLY VAL GLY ASN GLY ASN LEU TYR LYS SER VAL SEQRES 21 B 333 PHE ASP THR LEU ALA THR ALA ALA LYS THR GLY THR ALA SEQRES 22 B 333 VAL VAL ARG SER SER ARG VAL PRO THR GLY ALA THR THR SEQRES 23 B 333 GLN ASP ALA GLU VAL ASP ASP ALA LYS TYR GLY PHE VAL SEQRES 24 B 333 ALA SER GLY THR LEU ASN PRO GLN LYS ALA ARG VAL LEU SEQRES 25 B 333 LEU GLN LEU ALA LEU THR GLN THR LYS ASP PRO GLN GLN SEQRES 26 B 333 ILE GLN GLN ILE PHE ASN GLN TYR HET ACY A 401 4 HET CIT B 401 13 HETNAM ACY ACETIC ACID HETNAM CIT CITRIC ACID FORMUL 3 ACY C2 H4 O2 FORMUL 4 CIT C6 H8 O7 FORMUL 5 HOH *420(H2 O) HELIX 1 AA1 ASN A 34 VAL A 39 1 6 HELIX 2 AA2 PRO A 40 ILE A 45 5 6 HELIX 3 AA3 GLY A 57 MET A 61 5 5 HELIX 4 AA4 ASN A 62 CYS A 77 1 16 HELIX 5 AA5 ASP A 78 THR A 80 5 3 HELIX 6 AA6 THR A 91 VAL A 103 1 13 HELIX 7 AA7 ASP A 124 ASP A 138 1 15 HELIX 8 AA8 LYS A 139 ALA A 142 5 4 HELIX 9 AA9 HIS A 197 THR A 201 5 5 HELIX 10 AB1 ASP A 225 ALA A 234 1 10 HELIX 11 AB2 TYR A 250 THR A 263 1 14 HELIX 12 AB3 ASP A 285 GLY A 290 1 6 HELIX 13 AB4 ASN A 298 LEU A 310 1 13 HELIX 14 AB5 ASP A 315 TYR A 326 1 12 HELIX 15 AB6 ASN B 34 VAL B 39 1 6 HELIX 16 AB7 PRO B 40 ILE B 45 5 6 HELIX 17 AB8 GLY B 57 MET B 61 5 5 HELIX 18 AB9 ASN B 62 CYS B 77 1 16 HELIX 19 AC1 ASP B 78 THR B 80 5 3 HELIX 20 AC2 THR B 91 VAL B 103 1 13 HELIX 21 AC3 ASP B 124 ASP B 138 1 15 HELIX 22 AC4 LYS B 139 ALA B 142 5 4 HELIX 23 AC5 HIS B 197 THR B 201 5 5 HELIX 24 AC6 ASP B 225 ALA B 234 1 10 HELIX 25 AC7 TYR B 250 THR B 263 1 14 HELIX 26 AC8 ASP B 285 GLY B 290 1 6 HELIX 27 AC9 ASN B 298 LEU B 310 1 13 HELIX 28 AD1 ASP B 315 TYR B 326 1 12 SHEET 1 AA1 8 ASN A 47 GLN A 52 0 SHEET 2 AA1 8 ASN A 3 ALA A 8 1 N ILE A 6 O LYS A 49 SHEET 3 AA1 8 GLY A 82 THR A 86 1 O VAL A 84 N LEU A 7 SHEET 4 AA1 8 VAL A 109 VAL A 112 1 O VAL A 110 N ILE A 85 SHEET 5 AA1 8 LEU A 147 MET A 150 1 O LEU A 147 N MET A 111 SHEET 6 AA1 8 THR A 153 ASP A 156 -1 O LEU A 155 N VAL A 148 SHEET 7 AA1 8 GLY A 180 HIS A 183 -1 O GLY A 180 N VAL A 154 SHEET 8 AA1 8 LYS A 186 TYR A 189 -1 O LYS A 186 N HIS A 183 SHEET 1 AA2 2 VAL A 160 THR A 162 0 SHEET 2 AA2 2 PHE A 171 SER A 173 -1 O LYS A 172 N THR A 161 SHEET 1 AA3 4 VAL A 214 TYR A 218 0 SHEET 2 AA3 4 GLY A 238 GLY A 243 1 O ALA A 242 N VAL A 217 SHEET 3 AA3 4 ALA A 266 SER A 271 1 O SER A 270 N SER A 241 SHEET 4 AA3 4 VAL A 292 ALA A 293 1 O VAL A 292 N ARG A 269 SHEET 1 AA4 8 ASN B 47 GLN B 52 0 SHEET 2 AA4 8 ASN B 3 ALA B 8 1 N ILE B 6 O LYS B 49 SHEET 3 AA4 8 GLY B 82 THR B 86 1 O VAL B 84 N LEU B 7 SHEET 4 AA4 8 VAL B 109 VAL B 112 1 O VAL B 110 N ILE B 85 SHEET 5 AA4 8 LEU B 147 MET B 150 1 O LEU B 147 N MET B 111 SHEET 6 AA4 8 THR B 153 ASP B 156 -1 O LEU B 155 N VAL B 148 SHEET 7 AA4 8 GLY B 180 HIS B 183 -1 O GLY B 180 N VAL B 154 SHEET 8 AA4 8 LYS B 186 TYR B 189 -1 O ASP B 188 N TYR B 181 SHEET 1 AA5 2 VAL B 160 THR B 162 0 SHEET 2 AA5 2 PHE B 171 SER B 173 -1 O LYS B 172 N THR B 161 SHEET 1 AA6 4 VAL B 214 TYR B 218 0 SHEET 2 AA6 4 GLY B 238 GLY B 243 1 O ALA B 242 N VAL B 217 SHEET 3 AA6 4 ALA B 266 SER B 271 1 O VAL B 268 N SER B 241 SHEET 4 AA6 4 PHE B 291 ALA B 293 1 O VAL B 292 N ARG B 269 SSBOND 1 CYS A 77 CYS A 105 1555 1555 2.06 SSBOND 2 CYS B 77 CYS B 105 1555 1555 2.05 SITE 1 AC1 6 GLY A 57 SER A 58 GLY A 88 HOH A 558 SITE 2 AC1 6 HOH A 652 HOH A 674 SITE 1 AC2 9 HIS A 0 GLY B 11 GLY B 57 SER B 58 SITE 2 AC2 9 GLY B 88 HOH B 531 HOH B 534 HOH B 649 SITE 3 AC2 9 HOH B 652 CRYST1 126.280 126.280 89.686 90.00 90.00 120.00 P 31 2 1 12 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 0.007919 0.004572 0.000000 0.00000 SCALE2 0.000000 0.009144 0.000000 0.00000 SCALE3 0.000000 0.000000 0.011150 0.00000