HEADER HYDROLASE 11-JUN-19 6PA9 TITLE E. COLI L-ASPARAGINASE II MUTANT (T12V) IN COMPLEX WITH L-ASN AT PH TITLE 2 7.0 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; COMPND 9 OTHER_DETAILS: EXPRESSED VARIANT CONTAINS 8 ADDITIONAL N-TERMINAL COMPND 10 RESIDUES MDHHHHHH (AFFINITY TAG) AND MUTATION (K162M) IN MATURE COMPND 11 PROTEIN 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: JC2 STRAIN LACKING IN ANSA; SOURCE 9 EXPRESSION_SYSTEM_CELL: BACTERIA; SOURCE 10 EXPRESSION_SYSTEM_VECTOR_TYPE: PLASMID; SOURCE 11 EXPRESSION_SYSTEM_PLASMID: PET22B(+) KEYWDS INACTIVE MUTANT, HYDROLYSIS OF L-ASPARAGINE, HYDROLASE EXPDTA X-RAY DIFFRACTION AUTHOR J.LUBKOWSKI,A.WLODAWER REVDAT 3 02-OCT-19 6PA9 1 JRNL REVDAT 2 25-SEP-19 6PA9 1 JRNL REVDAT 1 04-SEP-19 6PA9 0 JRNL AUTH J.LUBKOWSKI,A.WLODAWER JRNL TITL GEOMETRIC CONSIDERATIONS SUPPORT THE DOUBLE-DISPLACEMENT JRNL TITL 2 CATALYTIC MECHANISM OF L-ASPARAGINASE. JRNL REF PROTEIN SCI. V. 28 1850 2019 JRNL REFN ESSN 1469-896X JRNL PMID 31423681 JRNL DOI 10.1002/PRO.3709 REMARK 2 REMARK 2 RESOLUTION. 1.88 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 : MAXIMUM LIKELIHOOD REMARK 3 REMARK 3 DATA USED IN REFINEMENT. REMARK 3 RESOLUTION RANGE HIGH (ANGSTROMS) : 1.88 REMARK 3 RESOLUTION RANGE LOW (ANGSTROMS) : 40.00 REMARK 3 DATA CUTOFF (SIGMA(F)) : 0.000 REMARK 3 COMPLETENESS FOR RANGE (%) : 93.5 REMARK 3 NUMBER OF REFLECTIONS : 40674 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) : 0.165 REMARK 3 R VALUE (WORKING SET) : 0.162 REMARK 3 FREE R VALUE : 0.216 REMARK 3 FREE R VALUE TEST SET SIZE (%) : 4.900 REMARK 3 FREE R VALUE TEST SET COUNT : 2081 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) : 1.88 REMARK 3 BIN RESOLUTION RANGE LOW (A) : 1.93 REMARK 3 REFLECTION IN BIN (WORKING SET) : 2042 REMARK 3 BIN COMPLETENESS (WORKING+TEST) (%) : 65.27 REMARK 3 BIN R VALUE (WORKING SET) : 0.2790 REMARK 3 BIN FREE R VALUE SET COUNT : 117 REMARK 3 BIN FREE R VALUE : 0.2870 REMARK 3 REMARK 3 NUMBER OF NON-HYDROGEN ATOMS USED IN REFINEMENT. REMARK 3 PROTEIN ATOMS : 4772 REMARK 3 NUCLEIC ACID ATOMS : 0 REMARK 3 HETEROGEN ATOMS : 24 REMARK 3 SOLVENT ATOMS : 486 REMARK 3 REMARK 3 B VALUES. REMARK 3 FROM WILSON PLOT (A**2) : NULL REMARK 3 MEAN B VALUE (OVERALL, A**2) : 28.44 REMARK 3 OVERALL ANISOTROPIC B VALUE. REMARK 3 B11 (A**2) : -0.53000 REMARK 3 B22 (A**2) : 0.15000 REMARK 3 B33 (A**2) : 0.38000 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): 0.165 REMARK 3 ESU BASED ON FREE R VALUE (A): 0.152 REMARK 3 ESU BASED ON MAXIMUM LIKELIHOOD (A): 0.108 REMARK 3 ESU FOR B VALUES BASED ON MAXIMUM LIKELIHOOD (A**2): 6.873 REMARK 3 REMARK 3 CORRELATION COEFFICIENTS. REMARK 3 CORRELATION COEFFICIENT FO-FC : 0.966 REMARK 3 CORRELATION COEFFICIENT FO-FC FREE : 0.944 REMARK 3 REMARK 3 RMS DEVIATIONS FROM IDEAL VALUES COUNT RMS WEIGHT REMARK 3 BOND LENGTHS REFINED ATOMS (A): 4880 ; 0.021 ; 0.020 REMARK 3 BOND LENGTHS OTHERS (A): 4523 ; 0.002 ; 0.020 REMARK 3 BOND ANGLES REFINED ATOMS (DEGREES): 6652 ; 2.001 ; 1.958 REMARK 3 BOND ANGLES OTHERS (DEGREES): 10518 ; 1.110 ; 3.000 REMARK 3 TORSION ANGLES, PERIOD 1 (DEGREES): 639 ; 6.541 ; 5.000 REMARK 3 TORSION ANGLES, PERIOD 2 (DEGREES): 204 ;41.098 ;26.078 REMARK 3 TORSION ANGLES, PERIOD 3 (DEGREES): 793 ;15.710 ;15.000 REMARK 3 TORSION ANGLES, PERIOD 4 (DEGREES): 16 ;18.414 ;15.000 REMARK 3 CHIRAL-CENTER RESTRAINTS (A**3): 800 ; 0.126 ; 0.200 REMARK 3 GENERAL PLANES REFINED ATOMS (A): 5499 ; 0.010 ; 0.021 REMARK 3 GENERAL PLANES OTHERS (A): 874 ; 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 : 4 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 1 A 209 REMARK 3 ORIGIN FOR THE GROUP (A): -16.0690 16.1150 -43.0840 REMARK 3 T TENSOR REMARK 3 T11: 0.0701 T22: 0.0330 REMARK 3 T33: 0.1959 T12: -0.0092 REMARK 3 T13: -0.0520 T23: 0.0117 REMARK 3 L TENSOR REMARK 3 L11: 1.6455 L22: 1.7741 REMARK 3 L33: 1.7215 L12: 0.2696 REMARK 3 L13: -0.3472 L23: 0.0758 REMARK 3 S TENSOR REMARK 3 S11: 0.0406 S12: 0.0177 S13: 0.4177 REMARK 3 S21: 0.2171 S22: -0.0210 S23: -0.3128 REMARK 3 S31: -0.2594 S32: 0.0304 S33: -0.0197 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 210 A 326 REMARK 3 ORIGIN FOR THE GROUP (A): -20.7960 -6.6700 -58.2370 REMARK 3 T TENSOR REMARK 3 T11: 0.0339 T22: 0.1288 REMARK 3 T33: 0.0378 T12: 0.0071 REMARK 3 T13: 0.0166 T23: -0.0456 REMARK 3 L TENSOR REMARK 3 L11: 2.8090 L22: 1.8883 REMARK 3 L33: 0.6920 L12: 0.6921 REMARK 3 L13: 0.1147 L23: -0.1066 REMARK 3 S TENSOR REMARK 3 S11: -0.0715 S12: 0.4075 S13: -0.2005 REMARK 3 S21: -0.1811 S22: 0.0859 S23: -0.2265 REMARK 3 S31: 0.1114 S32: 0.0613 S33: -0.0144 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 : B 1 B 209 REMARK 3 ORIGIN FOR THE GROUP (A): -15.9680 -16.4150 -22.6850 REMARK 3 T TENSOR REMARK 3 T11: 0.3557 T22: 0.1091 REMARK 3 T33: 0.2087 T12: 0.0473 REMARK 3 T13: -0.1617 T23: 0.0579 REMARK 3 L TENSOR REMARK 3 L11: 1.7590 L22: 2.0194 REMARK 3 L33: 1.6545 L12: -0.8037 REMARK 3 L13: -0.3107 L23: -0.0925 REMARK 3 S TENSOR REMARK 3 S11: -0.1143 S12: -0.2576 S13: -0.3251 REMARK 3 S21: 0.6361 S22: 0.0764 S23: -0.3370 REMARK 3 S31: 0.1888 S32: 0.2129 S33: 0.0379 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 210 B 326 REMARK 3 ORIGIN FOR THE GROUP (A): -20.3510 6.0460 -7.1670 REMARK 3 T TENSOR REMARK 3 T11: 0.8066 T22: 0.3072 REMARK 3 T33: 0.0596 T12: 0.0397 REMARK 3 T13: -0.1634 T23: -0.0838 REMARK 3 L TENSOR REMARK 3 L11: 2.4293 L22: 2.4915 REMARK 3 L33: 1.9385 L12: -1.1303 REMARK 3 L13: -0.2200 L23: 0.1743 REMARK 3 S TENSOR REMARK 3 S11: -0.1726 S12: -0.6564 S13: 0.2777 REMARK 3 S21: 1.1575 S22: 0.2252 S23: -0.3356 REMARK 3 S31: -0.1233 S32: 0.2579 S33: -0.0526 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 U VALUES : WITH TLS ADDED REMARK 4 REMARK 4 6PA9 COMPLIES WITH FORMAT V. 3.30, 13-JUL-11 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY RCSB ON 12-JUN-19. REMARK 100 THE DEPOSITION ID IS D_1000242125. REMARK 200 REMARK 200 EXPERIMENTAL DETAILS REMARK 200 EXPERIMENT TYPE : X-RAY DIFFRACTION REMARK 200 DATE OF DATA COLLECTION : 10-JUL-18 REMARK 200 TEMPERATURE (KELVIN) : 100 REMARK 200 PH : 7.0 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 : 42994 REMARK 200 RESOLUTION RANGE HIGH (A) : 1.880 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 (%) : 94.0 REMARK 200 DATA REDUNDANCY : 5.600 REMARK 200 R MERGE (I) : 0.04400 REMARK 200 R SYM (I) : NULL REMARK 200 FOR THE DATA SET : 14.1000 REMARK 200 REMARK 200 IN THE HIGHEST RESOLUTION SHELL. REMARK 200 HIGHEST RESOLUTION SHELL, RANGE HIGH (A) : 1.88 REMARK 200 HIGHEST RESOLUTION SHELL, RANGE LOW (A) : 1.91 REMARK 200 COMPLETENESS FOR SHELL (%) : 67.1 REMARK 200 DATA REDUNDANCY IN SHELL : 3.80 REMARK 200 R MERGE FOR SHELL (I) : 0.61400 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: NULL REMARK 200 REMARK 200 REMARK: NULL REMARK 280 REMARK 280 CRYSTAL REMARK 280 SOLVENT CONTENT, VS (%): 36.26 REMARK 280 MATTHEWS COEFFICIENT, VM (ANGSTROMS**3/DA): 1.93 REMARK 280 REMARK 280 CRYSTALLIZATION CONDITIONS: CRYSTALS WERE GROWN IN 0.17 M NH4 REMARK 280 -CITRATE, PH 7.0, 17-18% PEG3350, 5 MM L-ASN, VAPOR DIFFUSION, REMARK 280 HANGING DROP, TEMPERATURE 298K REMARK 290 REMARK 290 CRYSTALLOGRAPHIC SYMMETRY REMARK 290 SYMMETRY OPERATORS FOR SPACE GROUP: P 21 21 2 REMARK 290 REMARK 290 SYMOP SYMMETRY REMARK 290 NNNMMM OPERATOR REMARK 290 1555 X,Y,Z REMARK 290 2555 -X,-Y,Z REMARK 290 3555 -X+1/2,Y+1/2,-Z REMARK 290 4555 X+1/2,-Y+1/2,-Z REMARK 290 REMARK 290 WHERE NNN -> OPERATOR NUMBER REMARK 290 MMM -> TRANSLATION VECTOR REMARK 290 REMARK 290 CRYSTALLOGRAPHIC SYMMETRY TRANSFORMATIONS REMARK 290 THE FOLLOWING TRANSFORMATIONS OPERATE ON THE ATOM/HETATM REMARK 290 RECORDS IN THIS ENTRY TO PRODUCE CRYSTALLOGRAPHICALLY REMARK 290 RELATED MOLECULES. REMARK 290 SMTRY1 1 1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY2 1 0.000000 1.000000 0.000000 0.00000 REMARK 290 SMTRY3 1 0.000000 0.000000 1.000000 0.00000 REMARK 290 SMTRY1 2 -1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY2 2 0.000000 -1.000000 0.000000 0.00000 REMARK 290 SMTRY3 2 0.000000 0.000000 1.000000 0.00000 REMARK 290 SMTRY1 3 -1.000000 0.000000 0.000000 30.53300 REMARK 290 SMTRY2 3 0.000000 1.000000 0.000000 34.45600 REMARK 290 SMTRY3 3 0.000000 0.000000 -1.000000 0.00000 REMARK 290 SMTRY1 4 1.000000 0.000000 0.000000 30.53300 REMARK 290 SMTRY2 4 0.000000 -1.000000 0.000000 34.45600 REMARK 290 SMTRY3 4 0.000000 0.000000 -1.000000 0.00000 REMARK 290 REMARK 290 REMARK: NULL REMARK 300 REMARK 300 BIOMOLECULE: 1 REMARK 300 SEE REMARK 350 FOR THE AUTHOR PROVIDED AND/OR PROGRAM REMARK 300 GENERATED ASSEMBLY INFORMATION FOR THE STRUCTURE IN REMARK 300 THIS ENTRY. THE REMARK MAY ALSO PROVIDE INFORMATION ON REMARK 300 BURIED SURFACE AREA. REMARK 350 REMARK 350 COORDINATES FOR A COMPLETE MULTIMER REPRESENTING THE KNOWN REMARK 350 BIOLOGICALLY SIGNIFICANT OLIGOMERIZATION STATE OF THE REMARK 350 MOLECULE CAN BE GENERATED BY APPLYING BIOMT TRANSFORMATIONS REMARK 350 GIVEN BELOW. BOTH NON-CRYSTALLOGRAPHIC AND REMARK 350 CRYSTALLOGRAPHIC OPERATIONS ARE GIVEN. REMARK 350 REMARK 350 BIOMOLECULE: 1 REMARK 350 AUTHOR DETERMINED BIOLOGICAL UNIT: TETRAMERIC REMARK 350 SOFTWARE DETERMINED QUATERNARY STRUCTURE: TETRAMERIC REMARK 350 SOFTWARE USED: PISA REMARK 350 TOTAL BURIED SURFACE AREA: 16170 ANGSTROM**2 REMARK 350 SURFACE AREA OF THE COMPLEX: 40090 ANGSTROM**2 REMARK 350 CHANGE IN SOLVENT FREE ENERGY: -56.0 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 -61.06600 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 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 749 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 MET A -7 REMARK 465 ASP A -6 REMARK 465 HIS A -5 REMARK 465 HIS A -4 REMARK 465 HIS A -3 REMARK 465 HIS A -2 REMARK 465 HIS A -1 REMARK 465 HIS A 0 REMARK 465 MET B -7 REMARK 465 ASP 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 GLY B 15 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 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 B 627 O HOH B 628 1.28 REMARK 500 O HOH A 563 O HOH A 683 1.56 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 A 646 O HOH A 693 2455 1.75 REMARK 500 O HOH B 629 O HOH B 629 2455 1.84 REMARK 500 O HOH B 534 O HOH B 534 2555 1.97 REMARK 500 REMARK 500 REMARK: NULL REMARK 500 REMARK 500 GEOMETRY AND STEREOCHEMISTRY REMARK 500 SUBTOPIC: COVALENT BOND LENGTHS REMARK 500 REMARK 500 THE STEREOCHEMICAL PARAMETERS OF THE FOLLOWING RESIDUES REMARK 500 HAVE VALUES WHICH DEVIATE FROM EXPECTED VALUES BY MORE REMARK 500 THAN 6*RMSD (M=MODEL NUMBER; RES=RESIDUE NAME; C=CHAIN REMARK 500 IDENTIFIER; SSEQ=SEQUENCE NUMBER; I=INSERTION CODE). REMARK 500 REMARK 500 STANDARD TABLE: REMARK 500 FORMAT: (10X,I3,1X,2(A3,1X,A1,I4,A1,1X,A4,3X),1X,F6.3) REMARK 500 REMARK 500 EXPECTED VALUES PROTEIN: ENGH AND HUBER, 1999 REMARK 500 EXPECTED VALUES NUCLEIC ACID: CLOWNEY ET AL 1996 REMARK 500 REMARK 500 M RES CSSEQI ATM1 RES CSSEQI ATM2 DEVIATION REMARK 500 GLU A 210 CD GLU A 210 OE2 -0.073 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 76 CB - CG - OD2 ANGL. DEV. = -5.6 DEGREES REMARK 500 CYS A 105 CA - CB - SG ANGL. DEV. = 10.2 DEGREES REMARK 500 ARG A 144 NE - CZ - NH1 ANGL. DEV. = 3.7 DEGREES REMARK 500 ARG A 144 NE - CZ - NH2 ANGL. DEV. = -4.2 DEGREES REMARK 500 ASP A 167 CB - CG - OD1 ANGL. DEV. = 6.7 DEGREES REMARK 500 ASP A 167 CB - CG - OD2 ANGL. DEV. = -6.8 DEGREES REMARK 500 ARG A 195 NE - CZ - NH1 ANGL. DEV. = 4.1 DEGREES REMARK 500 GLU A 210 OE1 - CD - OE2 ANGL. DEV. = -8.1 DEGREES REMARK 500 ARG A 272 NE - CZ - NH1 ANGL. DEV. = -3.4 DEGREES REMARK 500 ASP B 60 CB - CG - OD1 ANGL. DEV. = 10.5 DEGREES REMARK 500 ASP B 60 CB - CG - OD2 ANGL. DEV. = -7.6 DEGREES REMARK 500 ASP B 90 CB - CG - OD1 ANGL. DEV. = 6.2 DEGREES REMARK 500 ASP B 106 CB - CG - OD1 ANGL. DEV. = 6.2 DEGREES REMARK 500 ARG B 144 NE - CZ - NH1 ANGL. DEV. = 3.2 DEGREES REMARK 500 ARG B 144 NE - CZ - NH2 ANGL. DEV. = -3.4 DEGREES REMARK 500 ASP B 152 CB - CG - OD1 ANGL. DEV. = 5.5 DEGREES REMARK 500 ASP B 156 CB - CG - OD1 ANGL. DEV. = 6.2 DEGREES REMARK 500 ASP B 315 CB - CG - OD1 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 -117.83 45.71 REMARK 500 SER A 270 -166.21 -118.76 REMARK 500 ALA A 282 -120.77 -113.57 REMARK 500 VAL B 39 71.30 -118.90 REMARK 500 ASN B 151 54.70 39.68 REMARK 500 THR B 198 -115.79 48.01 REMARK 500 ALA B 234 0.83 -67.83 REMARK 500 SER B 270 -165.95 -123.63 REMARK 500 ALA B 282 -113.71 -114.74 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 ASN A 401 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC2 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue ASN B 401 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC3 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue GOL B 402 DBREF 6PA9 A 1 326 UNP P00805 ASPG2_ECOLI 23 348 DBREF 6PA9 B 1 326 UNP P00805 ASPG2_ECOLI 23 348 SEQADV 6PA9 MET A -7 UNP P00805 INITIATING METHIONINE SEQADV 6PA9 ASP A -6 UNP P00805 EXPRESSION TAG SEQADV 6PA9 HIS A -5 UNP P00805 EXPRESSION TAG SEQADV 6PA9 HIS A -4 UNP P00805 EXPRESSION TAG SEQADV 6PA9 HIS A -3 UNP P00805 EXPRESSION TAG SEQADV 6PA9 HIS A -2 UNP P00805 EXPRESSION TAG SEQADV 6PA9 HIS A -1 UNP P00805 EXPRESSION TAG SEQADV 6PA9 HIS A 0 UNP P00805 EXPRESSION TAG SEQADV 6PA9 VAL A 12 UNP P00805 THR 34 ENGINEERED MUTATION SEQADV 6PA9 MET B -7 UNP P00805 INITIATING METHIONINE SEQADV 6PA9 ASP B -6 UNP P00805 EXPRESSION TAG SEQADV 6PA9 HIS B -5 UNP P00805 EXPRESSION TAG SEQADV 6PA9 HIS B -4 UNP P00805 EXPRESSION TAG SEQADV 6PA9 HIS B -3 UNP P00805 EXPRESSION TAG SEQADV 6PA9 HIS B -2 UNP P00805 EXPRESSION TAG SEQADV 6PA9 HIS B -1 UNP P00805 EXPRESSION TAG SEQADV 6PA9 HIS B 0 UNP P00805 EXPRESSION TAG SEQADV 6PA9 VAL B 12 UNP P00805 THR 34 ENGINEERED MUTATION SEQRES 1 A 334 MET ASP HIS HIS HIS HIS HIS HIS LEU PRO ASN ILE THR SEQRES 2 A 334 ILE LEU ALA THR GLY GLY VAL ILE ALA GLY GLY GLY ASP SEQRES 3 A 334 SER ALA THR LYS SER ASN TYR THR VAL GLY LYS VAL GLY SEQRES 4 A 334 VAL GLU ASN LEU VAL ASN ALA VAL PRO GLN LEU LYS ASP SEQRES 5 A 334 ILE ALA ASN VAL LYS GLY GLU GLN VAL VAL ASN ILE GLY SEQRES 6 A 334 SER GLN ASP MET ASN ASP ASN VAL TRP LEU THR LEU ALA SEQRES 7 A 334 LYS LYS ILE ASN THR ASP CYS ASP LYS THR ASP GLY PHE SEQRES 8 A 334 VAL ILE THR HIS GLY THR ASP THR MET GLU GLU THR ALA SEQRES 9 A 334 TYR PHE LEU ASP LEU THR VAL LYS CYS ASP LYS PRO VAL SEQRES 10 A 334 VAL MET VAL GLY ALA MET ARG PRO SER THR SER MET SER SEQRES 11 A 334 ALA ASP GLY PRO PHE ASN LEU TYR ASN ALA VAL VAL THR SEQRES 12 A 334 ALA ALA ASP LYS ALA SER ALA ASN ARG GLY VAL LEU VAL SEQRES 13 A 334 VAL MET ASN ASP THR VAL LEU ASP GLY ARG ASP VAL THR SEQRES 14 A 334 LYS THR ASN THR THR ASP VAL ALA THR PHE LYS SER VAL SEQRES 15 A 334 ASN TYR GLY PRO LEU GLY TYR ILE HIS ASN GLY LYS ILE SEQRES 16 A 334 ASP TYR GLN ARG THR PRO ALA ARG LYS HIS THR SER ASP SEQRES 17 A 334 THR PRO PHE ASP VAL SER LYS LEU ASN GLU LEU PRO LYS SEQRES 18 A 334 VAL GLY ILE VAL TYR ASN TYR ALA ASN ALA SER ASP LEU SEQRES 19 A 334 PRO ALA LYS ALA LEU VAL ASP ALA GLY TYR ASP GLY ILE SEQRES 20 A 334 VAL SER ALA GLY VAL GLY ASN GLY ASN LEU TYR LYS SER SEQRES 21 A 334 VAL PHE ASP THR LEU ALA THR ALA ALA LYS THR GLY THR SEQRES 22 A 334 ALA VAL VAL ARG SER SER ARG VAL PRO THR GLY ALA THR SEQRES 23 A 334 THR GLN ASP ALA GLU VAL ASP ASP ALA LYS TYR GLY PHE SEQRES 24 A 334 VAL ALA SER GLY THR LEU ASN PRO GLN LYS ALA ARG VAL SEQRES 25 A 334 LEU LEU GLN LEU ALA LEU THR GLN THR LYS ASP PRO GLN SEQRES 26 A 334 GLN ILE GLN GLN ILE PHE ASN GLN TYR SEQRES 1 B 334 MET ASP HIS HIS HIS HIS HIS HIS LEU PRO ASN ILE THR SEQRES 2 B 334 ILE LEU ALA THR GLY GLY VAL ILE ALA GLY GLY GLY ASP SEQRES 3 B 334 SER ALA THR LYS SER ASN TYR THR VAL GLY LYS VAL GLY SEQRES 4 B 334 VAL GLU ASN LEU VAL ASN ALA VAL PRO GLN LEU LYS ASP SEQRES 5 B 334 ILE ALA ASN VAL LYS GLY GLU GLN VAL VAL ASN ILE GLY SEQRES 6 B 334 SER GLN ASP MET ASN ASP ASN VAL TRP LEU THR LEU ALA SEQRES 7 B 334 LYS LYS ILE ASN THR ASP CYS ASP LYS THR ASP GLY PHE SEQRES 8 B 334 VAL ILE THR HIS GLY THR ASP THR MET GLU GLU THR ALA SEQRES 9 B 334 TYR PHE LEU ASP LEU THR VAL LYS CYS ASP LYS PRO VAL SEQRES 10 B 334 VAL MET VAL GLY ALA MET ARG PRO SER THR SER MET SER SEQRES 11 B 334 ALA ASP GLY PRO PHE ASN LEU TYR ASN ALA VAL VAL THR SEQRES 12 B 334 ALA ALA ASP LYS ALA SER ALA ASN ARG GLY VAL LEU VAL SEQRES 13 B 334 VAL MET ASN ASP THR VAL LEU ASP GLY ARG ASP VAL THR SEQRES 14 B 334 LYS THR ASN THR THR ASP VAL ALA THR PHE LYS SER VAL SEQRES 15 B 334 ASN TYR GLY PRO LEU GLY TYR ILE HIS ASN GLY LYS ILE SEQRES 16 B 334 ASP TYR GLN ARG THR PRO ALA ARG LYS HIS THR SER ASP SEQRES 17 B 334 THR PRO PHE ASP VAL SER LYS LEU ASN GLU LEU PRO LYS SEQRES 18 B 334 VAL GLY ILE VAL TYR ASN TYR ALA ASN ALA SER ASP LEU SEQRES 19 B 334 PRO ALA LYS ALA LEU VAL ASP ALA GLY TYR ASP GLY ILE SEQRES 20 B 334 VAL SER ALA GLY VAL GLY ASN GLY ASN LEU TYR LYS SER SEQRES 21 B 334 VAL PHE ASP THR LEU ALA THR ALA ALA LYS THR GLY THR SEQRES 22 B 334 ALA VAL VAL ARG SER SER ARG VAL PRO THR GLY ALA THR SEQRES 23 B 334 THR GLN ASP ALA GLU VAL ASP ASP ALA LYS TYR GLY PHE SEQRES 24 B 334 VAL ALA SER GLY THR LEU ASN PRO GLN LYS ALA ARG VAL SEQRES 25 B 334 LEU LEU GLN LEU ALA LEU THR GLN THR LYS ASP PRO GLN SEQRES 26 B 334 GLN ILE GLN GLN ILE PHE ASN GLN TYR HET ASN A 401 9 HET ASN B 401 9 HET GOL B 402 6 HETNAM ASN ASPARAGINE HETNAM GOL GLYCEROL HETSYN GOL GLYCERIN; PROPANE-1,2,3-TRIOL FORMUL 3 ASN 2(C4 H8 N2 O3) FORMUL 5 GOL C3 H8 O3 FORMUL 6 HOH *486(H2 O) HELIX 1 AA1 VAL A 12 GLY A 15 5 4 HELIX 2 AA2 GLY A 31 ALA A 38 1 8 HELIX 3 AA3 VAL A 39 ILE A 45 5 7 HELIX 4 AA4 GLY A 57 MET A 61 5 5 HELIX 5 AA5 ASN A 62 CYS A 77 1 16 HELIX 6 AA6 ASP A 78 THR A 80 5 3 HELIX 7 AA7 THR A 91 VAL A 103 1 13 HELIX 8 AA8 ASP A 124 ASP A 138 1 15 HELIX 9 AA9 LYS A 139 ALA A 142 5 4 HELIX 10 AB1 HIS A 197 THR A 201 5 5 HELIX 11 AB2 ASP A 225 ALA A 234 1 10 HELIX 12 AB3 TYR A 250 THR A 263 1 14 HELIX 13 AB4 ASP A 285 GLY A 290 1 6 HELIX 14 AB5 ASN A 298 THR A 311 1 14 HELIX 15 AB6 ASP A 315 TYR A 326 1 12 HELIX 16 AB7 GLY B 31 VAL B 39 1 9 HELIX 17 AB8 PRO B 40 ILE B 45 5 6 HELIX 18 AB9 GLY B 57 MET B 61 5 5 HELIX 19 AC1 ASN B 62 CYS B 77 1 16 HELIX 20 AC2 ASP B 78 THR B 80 5 3 HELIX 21 AC3 THR B 91 VAL B 103 1 13 HELIX 22 AC4 ASP B 124 ASP B 138 1 15 HELIX 23 AC5 LYS B 139 ALA B 142 5 4 HELIX 24 AC6 HIS B 197 THR B 201 5 5 HELIX 25 AC7 ASP B 225 ALA B 234 1 10 HELIX 26 AC8 TYR B 250 GLY B 264 1 15 HELIX 27 AC9 ASP B 285 GLY B 290 1 6 HELIX 28 AD1 ASN B 298 LEU B 310 1 13 HELIX 29 AD2 ASP B 315 TYR B 326 1 12 SHEET 1 AA1 8 ASN A 47 ILE A 56 0 SHEET 2 AA1 8 ASN A 3 GLY A 10 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 LYS 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 VAL A 268 N SER A 241 SHEET 4 AA3 4 PHE A 291 ALA A 293 1 O VAL A 292 N ARG A 269 SHEET 1 AA4 8 ASN B 47 ILE B 56 0 SHEET 2 AA4 8 ASN B 3 GLY B 10 1 N ILE B 6 O GLU B 51 SHEET 3 AA4 8 GLY B 82 THR B 86 1 O GLY B 82 N THR B 5 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 LYS B 186 N HIS B 183 SHEET 1 AA5 2 VAL B 160 LYS 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 SER B 270 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 2.03 SSBOND 2 CYS B 77 CYS B 105 1555 1555 2.05 SITE 1 AC1 13 GLY A 11 VAL A 12 GLY A 57 SER A 58 SITE 2 AC1 13 GLN A 59 GLY A 88 THR A 89 ASP A 90 SITE 3 AC1 13 ALA A 114 ASN A 248 GLU A 283 HOH A 678 SITE 4 AC1 13 HOH A 680 SITE 1 AC2 13 GLY B 11 VAL B 12 GLY B 57 SER B 58 SITE 2 AC2 13 GLN B 59 GLY B 88 THR B 89 ASP B 90 SITE 3 AC2 13 ALA B 114 ASN B 248 GLU B 283 HOH B 584 SITE 4 AC2 13 HOH B 610 SITE 1 AC3 2 GLY B 11 ASN B 55 CRYST1 61.066 68.912 130.969 90.00 90.00 90.00 P 21 21 2 8 ORIGX1 1.000000 0.000000 0.000000 0.00000 ORIGX2 0.000000 1.000000 0.000000 0.00000 ORIGX3 0.000000 0.000000 1.000000 0.00000 SCALE1 0.016376 0.000000 0.000000 0.00000 SCALE2 0.000000 0.014511 0.000000 0.00000 SCALE3 0.000000 0.000000 0.007635 0.00000