HEADER TRANSFERASE 09-JAN-13 4IPJ TITLE CRYSTAL STRUCTURE OF R314K N-ACETYL NEURAMINIC ACID SYNTHASE FROM TITLE 2 NEISERRIA MENINGITIDIS WITH MALATE BOUND COMPND MOL_ID: 1; COMPND 2 MOLECULE: POLYSIALIC ACID CAPSULE BIOSYNTHESIS PROTEIN SIAC; COMPND 3 CHAIN: A; COMPND 4 SYNONYM: N-ACETYL NEURAMINIC ACID SYNTHASE; COMPND 5 EC: 2.5.1.56; COMPND 6 ENGINEERED: YES; COMPND 7 MUTATION: YES SOURCE MOL_ID: 1; SOURCE 2 ORGANISM_SCIENTIFIC: NEISSERIA MENINGITIDIS; SOURCE 3 ORGANISM_TAXID: 487; SOURCE 4 GENE: SIAC, NMB0068; SOURCE 5 EXPRESSION_SYSTEM: ESCHERICHIA COLI; SOURCE 6 EXPRESSION_SYSTEM_TAXID: 562 KEYWDS ANTIFREEZE PROTEIN FOLD, NANA, N-ACETYLNEURAMINIC ACID, SIALIC ACID, KEYWDS 2 NEISSERIA MENINGITIDIS, TRANSFERASE EXPDTA X-RAY DIFFRACTION AUTHOR D.D.A.JOSEPH,W.JIAO,E.J.PARKER REVDAT 3 20-SEP-23 4IPJ 1 REMARK SEQADV LINK REVDAT 2 01-MAY-13 4IPJ 1 JRNL REVDAT 1 10-APR-13 4IPJ 0 JRNL AUTH D.D.JOSEPH,W.JIAO,E.J.PARKER JRNL TITL ARG314 IS ESSENTIAL FOR CATALYSIS BY N-ACETYL NEURAMINIC JRNL TITL 2 ACID SYNTHASE FROM NEISSERIA MENINGITIDIS. JRNL REF BIOCHEMISTRY V. 52 2609 2013 JRNL REFN ISSN 0006-2960 JRNL PMID 23534460 JRNL DOI 10.1021/BI400062C REMARK 2 REMARK 2 RESOLUTION. 2.15 ANGSTROMS. REMARK 3 REMARK 3 REFINEMENT. REMARK 3 PROGRAM : REFMAC 5.5.0109 REMARK 3 AUTHORS : MURSHUDOV,SKUBAK,LEBEDEV,PANNU,STEINER, REMARK 3 : NICHOLLS,WINN,LONG,VAGIN REMARK 3 REMARK 3 REFINEMENT TARGET : MAXIMUM LIKELIHOOD REMARK 3 REMARK 3 DATA USED IN REFINEMENT. REMARK 3 RESOLUTION RANGE HIGH (ANGSTROMS) : 2.15 REMARK 3 RESOLUTION RANGE LOW (ANGSTROMS) : 34.15 REMARK 3 DATA CUTOFF (SIGMA(F)) : NULL REMARK 3 COMPLETENESS FOR RANGE (%) : 99.8 REMARK 3 NUMBER OF REFLECTIONS : 17394 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) : 0.181 REMARK 3 R VALUE (WORKING SET) : 0.174 REMARK 3 FREE R VALUE : 0.242 REMARK 3 FREE R VALUE TEST SET SIZE (%) : 10.000 REMARK 3 FREE R VALUE TEST SET COUNT : 1937 REMARK 3 REMARK 3 FIT IN THE HIGHEST RESOLUTION BIN. REMARK 3 TOTAL NUMBER OF BINS USED : 20 REMARK 3 BIN RESOLUTION RANGE HIGH (A) : 2.15 REMARK 3 BIN RESOLUTION RANGE LOW (A) : 2.21 REMARK 3 REFLECTION IN BIN (WORKING SET) : 1243 REMARK 3 BIN COMPLETENESS (WORKING+TEST) (%) : 99.93 REMARK 3 BIN R VALUE (WORKING SET) : 0.2110 REMARK 3 BIN FREE R VALUE SET COUNT : 153 REMARK 3 BIN FREE R VALUE : 0.3170 REMARK 3 REMARK 3 NUMBER OF NON-HYDROGEN ATOMS USED IN REFINEMENT. REMARK 3 PROTEIN ATOMS : 2696 REMARK 3 NUCLEIC ACID ATOMS : 0 REMARK 3 HETEROGEN ATOMS : 10 REMARK 3 SOLVENT ATOMS : 189 REMARK 3 REMARK 3 B VALUES. REMARK 3 FROM WILSON PLOT (A**2) : NULL REMARK 3 MEAN B VALUE (OVERALL, A**2) : 13.71 REMARK 3 OVERALL ANISOTROPIC B VALUE. REMARK 3 B11 (A**2) : 0.01000 REMARK 3 B22 (A**2) : -0.01000 REMARK 3 B33 (A**2) : 0.00000 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): 0.286 REMARK 3 ESU BASED ON FREE R VALUE (A): 0.223 REMARK 3 ESU BASED ON MAXIMUM LIKELIHOOD (A): 0.134 REMARK 3 ESU FOR B VALUES BASED ON MAXIMUM LIKELIHOOD (A**2): 11.403 REMARK 3 REMARK 3 CORRELATION COEFFICIENTS. REMARK 3 CORRELATION COEFFICIENT FO-FC : 0.946 REMARK 3 CORRELATION COEFFICIENT FO-FC FREE : 0.899 REMARK 3 REMARK 3 RMS DEVIATIONS FROM IDEAL VALUES COUNT RMS WEIGHT REMARK 3 BOND LENGTHS REFINED ATOMS (A): 2838 ; 0.014 ; 0.022 REMARK 3 BOND LENGTHS OTHERS (A): 1934 ; 0.001 ; 0.020 REMARK 3 BOND ANGLES REFINED ATOMS (DEGREES): 3839 ; 1.370 ; 1.976 REMARK 3 BOND ANGLES OTHERS (DEGREES): 4761 ; 0.888 ; 3.000 REMARK 3 TORSION ANGLES, PERIOD 1 (DEGREES): 367 ; 5.690 ; 5.000 REMARK 3 TORSION ANGLES, PERIOD 2 (DEGREES): 126 ;37.037 ;25.476 REMARK 3 TORSION ANGLES, PERIOD 3 (DEGREES): 514 ;14.705 ;15.000 REMARK 3 TORSION ANGLES, PERIOD 4 (DEGREES): 12 ;20.555 ;15.000 REMARK 3 CHIRAL-CENTER RESTRAINTS (A**3): 419 ; 0.082 ; 0.200 REMARK 3 GENERAL PLANES REFINED ATOMS (A): 3219 ; 0.005 ; 0.021 REMARK 3 GENERAL PLANES OTHERS (A): 528 ; 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): 1793 ; 0.632 ; 1.500 REMARK 3 MAIN-CHAIN BOND OTHER ATOMS (A**2): 734 ; 0.144 ; 1.500 REMARK 3 MAIN-CHAIN ANGLE REFINED ATOMS (A**2): 2892 ; 1.222 ; 2.000 REMARK 3 MAIN-CHAIN ANGLE OTHER ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 SIDE-CHAIN BOND REFINED ATOMS (A**2): 1045 ; 2.170 ; 3.000 REMARK 3 SIDE-CHAIN BOND OTHER ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 SIDE-CHAIN ANGLE REFINED ATOMS (A**2): 947 ; 3.610 ; 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 : 6 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 53 REMARK 3 ORIGIN FOR THE GROUP (A): 104.1330 -9.8480 49.4920 REMARK 3 T TENSOR REMARK 3 T11: 0.0270 T22: 0.0583 REMARK 3 T33: 0.0739 T12: -0.0178 REMARK 3 T13: 0.0060 T23: -0.0032 REMARK 3 L TENSOR REMARK 3 L11: 0.1711 L22: 0.9855 REMARK 3 L33: 1.3954 L12: -0.1499 REMARK 3 L13: 0.0422 L23: 0.5379 REMARK 3 S TENSOR REMARK 3 S11: -0.0399 S12: -0.0055 S13: 0.0423 REMARK 3 S21: -0.0719 S22: -0.0209 S23: -0.0914 REMARK 3 S31: -0.0670 S32: 0.0787 S33: 0.0608 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 54 A 110 REMARK 3 ORIGIN FOR THE GROUP (A): 103.6950 -27.6370 47.1130 REMARK 3 T TENSOR REMARK 3 T11: 0.0495 T22: 0.0490 REMARK 3 T33: 0.0453 T12: 0.0101 REMARK 3 T13: 0.0148 T23: -0.0018 REMARK 3 L TENSOR REMARK 3 L11: 1.9551 L22: 2.2681 REMARK 3 L33: 0.4118 L12: 1.7287 REMARK 3 L13: -0.6216 L23: -0.7511 REMARK 3 S TENSOR REMARK 3 S11: -0.0220 S12: 0.0802 S13: -0.0565 REMARK 3 S21: -0.0874 S22: 0.0375 S23: -0.0617 REMARK 3 S31: 0.0465 S32: 0.0011 S33: -0.0155 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 111 A 178 REMARK 3 ORIGIN FOR THE GROUP (A): 104.7760 -21.1820 63.1060 REMARK 3 T TENSOR REMARK 3 T11: 0.0722 T22: 0.0460 REMARK 3 T33: 0.0361 T12: 0.0096 REMARK 3 T13: -0.0144 T23: -0.0102 REMARK 3 L TENSOR REMARK 3 L11: 1.1662 L22: 0.9819 REMARK 3 L33: 0.9197 L12: -0.4982 REMARK 3 L13: -0.2885 L23: 0.4327 REMARK 3 S TENSOR REMARK 3 S11: -0.0127 S12: -0.0912 S13: -0.0560 REMARK 3 S21: 0.0690 S22: -0.0432 S23: -0.0103 REMARK 3 S31: -0.0063 S32: 0.0499 S33: 0.0559 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 : A 179 A 233 REMARK 3 ORIGIN FOR THE GROUP (A): 90.4980 -10.2910 57.5290 REMARK 3 T TENSOR REMARK 3 T11: 0.0769 T22: 0.0422 REMARK 3 T33: 0.0455 T12: -0.0017 REMARK 3 T13: -0.0055 T23: -0.0074 REMARK 3 L TENSOR REMARK 3 L11: 1.0990 L22: 0.7019 REMARK 3 L33: 1.0495 L12: -0.3337 REMARK 3 L13: 0.8318 L23: 0.0688 REMARK 3 S TENSOR REMARK 3 S11: -0.0031 S12: -0.0056 S13: -0.0310 REMARK 3 S21: -0.0070 S22: 0.0591 S23: 0.0434 REMARK 3 S31: 0.0409 S32: 0.0073 S33: -0.0560 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 : A 234 A 282 REMARK 3 ORIGIN FOR THE GROUP (A): 94.5470 -3.5210 47.3980 REMARK 3 T TENSOR REMARK 3 T11: 0.0745 T22: 0.0485 REMARK 3 T33: 0.0519 T12: 0.0095 REMARK 3 T13: -0.0138 T23: -0.0065 REMARK 3 L TENSOR REMARK 3 L11: 0.5181 L22: 3.3356 REMARK 3 L33: 0.8457 L12: -0.7547 REMARK 3 L13: -0.3785 L23: 1.6273 REMARK 3 S TENSOR REMARK 3 S11: 0.0098 S12: 0.0227 S13: 0.0547 REMARK 3 S21: -0.0367 S22: 0.0898 S23: -0.0345 REMARK 3 S31: 0.0311 S32: 0.0913 S33: -0.0997 REMARK 3 REMARK 3 TLS GROUP : 6 REMARK 3 NUMBER OF COMPONENTS GROUP : 1 REMARK 3 COMPONENTS C SSSEQI TO C SSSEQI REMARK 3 RESIDUE RANGE : A 283 A 349 REMARK 3 ORIGIN FOR THE GROUP (A): 75.1300 40.7540 66.6400 REMARK 3 T TENSOR REMARK 3 T11: 0.0877 T22: 0.0333 REMARK 3 T33: 0.0189 T12: -0.0052 REMARK 3 T13: 0.0206 T23: -0.0152 REMARK 3 L TENSOR REMARK 3 L11: 1.8074 L22: 1.9034 REMARK 3 L33: 1.6222 L12: -0.1537 REMARK 3 L13: -1.2220 L23: 1.3783 REMARK 3 S TENSOR REMARK 3 S11: 0.0890 S12: -0.0833 S13: 0.0190 REMARK 3 S21: 0.0315 S22: -0.1154 S23: 0.0313 REMARK 3 S31: -0.0633 S32: -0.0124 S33: 0.0265 REMARK 3 REMARK 3 BULK SOLVENT MODELLING. REMARK 3 METHOD USED : MASK REMARK 3 PARAMETERS FOR MASK CALCULATION REMARK 3 VDW PROBE RADIUS : 1.40 REMARK 3 ION PROBE RADIUS : 0.80 REMARK 3 SHRINKAGE RADIUS : 0.80 REMARK 3 REMARK 3 OTHER REFINEMENT REMARKS: REMARK 3 HYDROGENS HAVE BEEN ADDED IN THE RIDING POSITIONS REMARK 3 U VALUES : WITH TLS ADDED REMARK 4 REMARK 4 4IPJ COMPLIES WITH FORMAT V. 3.30, 13-JUL-11 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY RCSB ON 15-JAN-13. REMARK 100 THE DEPOSITION ID IS D_1000077046. REMARK 200 REMARK 200 EXPERIMENTAL DETAILS REMARK 200 EXPERIMENT TYPE : X-RAY DIFFRACTION REMARK 200 DATE OF DATA COLLECTION : 19-FEB-11 REMARK 200 TEMPERATURE (KELVIN) : 100 REMARK 200 PH : 6.2 REMARK 200 NUMBER OF CRYSTALS USED : 1 REMARK 200 REMARK 200 SYNCHROTRON (Y/N) : Y REMARK 200 RADIATION SOURCE : AUSTRALIAN SYNCHROTRON REMARK 200 BEAMLINE : MX2 REMARK 200 X-RAY GENERATOR MODEL : NULL REMARK 200 MONOCHROMATIC OR LAUE (M/L) : M REMARK 200 WAVELENGTH OR RANGE (A) : 0.95369 REMARK 200 MONOCHROMATOR : SI(111) REMARK 200 OPTICS : NULL REMARK 200 REMARK 200 DETECTOR TYPE : CCD REMARK 200 DETECTOR MANUFACTURER : ADSC QUANTUM 315R REMARK 200 INTENSITY-INTEGRATION SOFTWARE : IMOSFLM REMARK 200 DATA SCALING SOFTWARE : SCALA REMARK 200 REMARK 200 NUMBER OF UNIQUE REFLECTIONS : 19363 REMARK 200 RESOLUTION RANGE HIGH (A) : 2.150 REMARK 200 RESOLUTION RANGE LOW (A) : 34.150 REMARK 200 REJECTION CRITERIA (SIGMA(I)) : NULL REMARK 200 REMARK 200 OVERALL. REMARK 200 COMPLETENESS FOR RANGE (%) : 100.0 REMARK 200 DATA REDUNDANCY : 13.50 REMARK 200 R MERGE (I) : 0.13700 REMARK 200 R SYM (I) : 0.13700 REMARK 200 FOR THE DATA SET : 15.9000 REMARK 200 REMARK 200 IN THE HIGHEST RESOLUTION SHELL. REMARK 200 HIGHEST RESOLUTION SHELL, RANGE HIGH (A) : 2.15 REMARK 200 HIGHEST RESOLUTION SHELL, RANGE LOW (A) : 2.27 REMARK 200 COMPLETENESS FOR SHELL (%) : 100.0 REMARK 200 DATA REDUNDANCY IN SHELL : 13.70 REMARK 200 R MERGE FOR SHELL (I) : 0.40500 REMARK 200 R SYM FOR SHELL (I) : 0.40500 REMARK 200 FOR SHELL : 7.300 REMARK 200 REMARK 200 DIFFRACTION PROTOCOL: SINGLE WAVELENGTH REMARK 200 METHOD USED TO DETERMINE THE STRUCTURE: MOLECULAR REPLACEMENT REMARK 200 SOFTWARE USED: CCP4 REMARK 200 STARTING MODEL: PDB ENTRY 1XUZ REMARK 200 REMARK 200 REMARK: NULL REMARK 280 REMARK 280 CRYSTAL REMARK 280 SOLVENT CONTENT, VS (%): 44.93 REMARK 280 MATTHEWS COEFFICIENT, VM (ANGSTROMS**3/DA): 2.23 REMARK 280 REMARK 280 CRYSTALLIZATION CONDITIONS: 1.9 M MALIC ACID, 10 MM MAGNESIUM REMARK 280 CHLORIDE, PH 6.2, VAPOR DIFFUSION, HANGING DROP, TEMPERATURE REMARK 280 298.15K 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 29.11500 REMARK 290 SMTRY2 3 0.000000 1.000000 0.000000 38.02500 REMARK 290 SMTRY3 3 0.000000 0.000000 -1.000000 0.00000 REMARK 290 SMTRY1 4 1.000000 0.000000 0.000000 29.11500 REMARK 290 SMTRY2 4 0.000000 -1.000000 0.000000 38.02500 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: DIMERIC REMARK 350 SOFTWARE DETERMINED QUATERNARY STRUCTURE: DIMERIC REMARK 350 SOFTWARE USED: PISA REMARK 350 TOTAL BURIED SURFACE AREA: 7410 ANGSTROM**2 REMARK 350 SURFACE AREA OF THE COMPLEX: 26360 ANGSTROM**2 REMARK 350 CHANGE IN SOLVENT FREE ENERGY: -56.0 KCAL/MOL 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 174.69000 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 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 MN MN A 401 O HOH A 517 1.69 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 ARG A 235 NE - CZ - NH2 ANGL. DEV. = 3.3 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 ASP A 124 49.16 72.64 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 MN A 401 MN REMARK 620 N RES CSSEQI ATOM REMARK 620 1 TYR A 186 OH REMARK 620 2 HIS A 215 NE2 86.5 REMARK 620 3 HIS A 236 NE2 87.5 107.0 REMARK 620 4 LMR A 402 O1B 67.5 99.2 142.4 REMARK 620 5 LMR A 402 O2 99.9 170.3 80.6 76.8 REMARK 620 N 1 2 3 4 REMARK 800 REMARK 800 SITE REMARK 800 SITE_IDENTIFIER: AC1 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE MN A 401 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC2 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE LMR A 402 REMARK 900 REMARK 900 RELATED ENTRIES REMARK 900 RELATED ID: 1XUU RELATED DB: PDB REMARK 900 MALATE-BOUND WILD-TYPE ENZYME REMARK 900 RELATED ID: 1XUZ RELATED DB: PDB REMARK 900 SUBSTRATE-BOUND WILD-TYPE ENZYME REMARK 900 RELATED ID: 4IPI RELATED DB: PDB DBREF 4IPJ A 1 349 UNP Q7DDU0 Q7DDU0_NEIMB 1 349 SEQADV 4IPJ GLY A -1 UNP Q7DDU0 EXPRESSION TAG SEQADV 4IPJ ALA A 0 UNP Q7DDU0 EXPRESSION TAG SEQADV 4IPJ LYS A 314 UNP Q7DDU0 ARG 314 ENGINEERED MUTATION SEQRES 1 A 351 GLY ALA MET GLN ASN ASN ASN GLU PHE LYS ILE GLY ASN SEQRES 2 A 351 ARG SER VAL GLY TYR ASN HIS GLU PRO LEU ILE ILE CYS SEQRES 3 A 351 GLU ILE GLY ILE ASN HIS GLU GLY SER LEU LYS THR ALA SEQRES 4 A 351 PHE GLU MET VAL ASP ALA ALA TYR ASN ALA GLY ALA GLU SEQRES 5 A 351 VAL VAL LYS HIS GLN THR HIS ILE VAL GLU ASP GLU MET SEQRES 6 A 351 SER ASP GLU ALA LYS GLN VAL ILE PRO GLY ASN ALA ASP SEQRES 7 A 351 VAL SER ILE TYR GLU ILE MET GLU ARG CYS ALA LEU ASN SEQRES 8 A 351 GLU GLU ASP GLU ILE LYS LEU LYS GLU TYR VAL GLU SER SEQRES 9 A 351 LYS GLY MET ILE PHE ILE SER THR PRO PHE SER ARG ALA SEQRES 10 A 351 ALA ALA LEU ARG LEU GLN ARG MET ASP ILE PRO ALA TYR SEQRES 11 A 351 LYS ILE GLY SER GLY GLU CYS ASN ASN TYR PRO LEU ILE SEQRES 12 A 351 LYS LEU VAL ALA SER PHE GLY LYS PRO ILE ILE LEU SER SEQRES 13 A 351 THR GLY MET ASN SER ILE GLU SER ILE LYS LYS SER VAL SEQRES 14 A 351 GLU ILE ILE ARG GLU ALA GLY VAL PRO TYR ALA LEU LEU SEQRES 15 A 351 HIS CYS THR ASN ILE TYR PRO THR PRO TYR GLU ASP VAL SEQRES 16 A 351 ARG LEU GLY GLY MET ASN ASP LEU SER GLU ALA PHE PRO SEQRES 17 A 351 ASP ALA ILE ILE GLY LEU SER ASP HIS THR LEU ASP ASN SEQRES 18 A 351 TYR ALA CYS LEU GLY ALA VAL ALA LEU GLY GLY SER ILE SEQRES 19 A 351 LEU GLU ARG HIS PHE THR ASP ARG MET ASP ARG PRO GLY SEQRES 20 A 351 PRO ASP ILE VAL CYS SER MET ASN PRO ASP THR PHE LYS SEQRES 21 A 351 GLU LEU LYS GLN GLY ALA HIS ALA LEU LYS LEU ALA ARG SEQRES 22 A 351 GLY GLY LYS LYS ASP THR ILE ILE ALA GLY GLU LYS PRO SEQRES 23 A 351 THR LYS ASP PHE ALA PHE ALA SER VAL VAL ALA ASP LYS SEQRES 24 A 351 ASP ILE LYS LYS GLY GLU LEU LEU SER GLY ASP ASN LEU SEQRES 25 A 351 TRP VAL LYS LYS PRO GLY ASN GLY ASP PHE SER VAL ASN SEQRES 26 A 351 GLU TYR GLU THR LEU PHE GLY LYS VAL ALA ALA CYS ASN SEQRES 27 A 351 ILE ARG LYS GLY ALA GLN ILE LYS LYS THR ASP ILE GLU HET MN A 401 1 HET LMR A 402 9 HETNAM MN MANGANESE (II) ION HETNAM LMR (2S)-2-HYDROXYBUTANEDIOIC ACID HETSYN LMR L-MALATE FORMUL 2 MN MN 2+ FORMUL 3 LMR C4 H6 O5 FORMUL 4 HOH *189(H2 O) HELIX 1 1 SER A 33 ALA A 47 1 15 HELIX 2 2 ILE A 58 MET A 63 1 6 HELIX 3 3 SER A 64 VAL A 70 5 7 HELIX 4 4 SER A 78 ALA A 87 1 10 HELIX 5 5 ASN A 89 LYS A 103 1 15 HELIX 6 6 SER A 113 ASP A 124 1 12 HELIX 7 7 GLY A 131 CYS A 135 5 5 HELIX 8 8 ASN A 137 SER A 146 1 10 HELIX 9 9 SER A 159 GLY A 174 1 16 HELIX 10 10 PRO A 189 VAL A 193 5 5 HELIX 11 11 ARG A 194 LEU A 195 5 2 HELIX 12 12 GLY A 196 PHE A 205 1 10 HELIX 13 13 ASN A 219 GLY A 229 1 11 HELIX 14 14 ASP A 247 SER A 251 5 5 HELIX 15 15 ASN A 253 ARG A 271 1 19 HELIX 16 16 ILE A 279 GLY A 281 5 3 HELIX 17 17 GLU A 282 PHE A 290 1 9 HELIX 18 18 SER A 321 PHE A 329 5 9 HELIX 19 19 LYS A 344 ILE A 348 5 5 SHEET 1 A 2 GLU A 6 ILE A 9 0 SHEET 2 A 2 ARG A 12 GLY A 15 -1 O ARG A 12 N ILE A 9 SHEET 1 B 9 LEU A 21 GLY A 27 0 SHEET 2 B 9 VAL A 51 THR A 56 1 O LYS A 53 N CYS A 24 SHEET 3 B 9 ILE A 106 PRO A 111 1 O ILE A 106 N VAL A 52 SHEET 4 B 9 TYR A 128 ILE A 130 1 O LYS A 129 N SER A 109 SHEET 5 B 9 ILE A 151 SER A 154 1 O SER A 154 N ILE A 130 SHEET 6 B 9 TYR A 177 HIS A 181 1 O ALA A 178 N LEU A 153 SHEET 7 B 9 ILE A 209 SER A 213 1 O SER A 213 N HIS A 181 SHEET 8 B 9 ILE A 232 HIS A 236 1 O ILE A 232 N LEU A 212 SHEET 9 B 9 LEU A 21 GLY A 27 1 N ILE A 23 O LEU A 233 SHEET 1 C 2 SER A 292 ALA A 295 0 SHEET 2 C 2 LEU A 310 LYS A 313 -1 O TRP A 311 N VAL A 294 LINK OH BTYR A 186 MN MN A 401 1555 1555 2.55 LINK NE2 HIS A 215 MN MN A 401 1555 1555 2.13 LINK NE2 HIS A 236 MN MN A 401 1555 1555 2.34 LINK MN MN A 401 O1B LMR A 402 1555 1555 2.24 LINK MN MN A 401 O2 LMR A 402 1555 1555 2.42 CISPEP 1 TYR A 186 PRO A 187 0 4.97 CISPEP 2 TYR A 186 PRO A 187 0 -13.23 CISPEP 3 LYS A 314 PRO A 315 0 -1.24 SITE 1 AC1 6 GLU A 25 TYR A 186 HIS A 215 HIS A 236 SITE 2 AC1 6 LMR A 402 HOH A 517 SITE 1 AC2 13 GLU A 25 LYS A 53 GLN A 55 THR A 110 SITE 2 AC2 13 LYS A 129 GLY A 131 ASN A 184 TYR A 186 SITE 3 AC2 13 HIS A 215 HIS A 236 MN A 401 HOH A 517 SITE 4 AC2 13 HOH A 518 CRYST1 58.230 76.050 77.670 90.00 90.00 90.00 P 21 21 2 4 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 0.017173 0.000000 0.000000 0.00000 SCALE2 0.000000 0.013149 0.000000 0.00000 SCALE3 0.000000 0.000000 0.012875 0.00000