PDB Short entry for 1Y0E HEADER ISOMERASE 15-NOV-04 1Y0E TITLE CRYSTAL STRUCTURE OF PUTATIVE MANNAC-6-P EPIMERASE FROM STAPHYLOCOCCUS TITLE 2 AUREUS (STRAIN N315) COMPND MOL_ID: 1; COMPND 2 MOLECULE: PUTATIVE N-ACETYLMANNOSAMINE-6-PHOSPHATE 2-EPIMERASE; COMPND 3 CHAIN: A, B; COMPND 4 SYNONYM: MANNAC-6-P EPIMERASE; COMPND 5 EC: 5.1.3.9; COMPND 6 ENGINEERED: YES; COMPND 7 MUTATION: YES SOURCE MOL_ID: 1; SOURCE 2 ORGANISM_SCIENTIFIC: STAPHYLOCOCCUS AUREUS SUBSP. AUREUS; SOURCE 3 ORGANISM_TAXID: 158879; SOURCE 4 STRAIN: N315; SOURCE 5 GENE: NANE; SOURCE 6 EXPRESSION_SYSTEM: ESCHERICHIA COLI; SOURCE 7 EXPRESSION_SYSTEM_TAXID: 562; SOURCE 8 EXPRESSION_SYSTEM_STRAIN: B834(DE3); SOURCE 9 EXPRESSION_SYSTEM_VECTOR_TYPE: PLASMID; SOURCE 10 EXPRESSION_SYSTEM_PLASMID: PMSCG7 KEYWDS MANNAC-6-P EPIMERASE, NANE, STRUCTURAL GENOMICS, PROTEIN STRUCTURE KEYWDS 2 INITIATIVE, PSI, MIDWEST CENTER FOR STRUCTURAL GENOMICS, MCSG, KEYWDS 3 ISOMERASE EXPDTA X-RAY DIFFRACTION AUTHOR C.CHANG,A.JOACHIMIAK,H.LI,MIDWEST CENTER FOR STRUCTURAL GENOMICS AUTHOR 2 (MCSG) REVDAT 6 20-OCT-21 1Y0E 1 REMARK SEQADV LINK REVDAT 5 13-JUL-11 1Y0E 1 VERSN REVDAT 4 24-FEB-09 1Y0E 1 VERSN REVDAT 3 14-JUN-05 1Y0E 1 JRNL REVDAT 2 18-JAN-05 1Y0E 1 AUTHOR REVDAT 1 28-DEC-04 1Y0E 0 JRNL AUTH C.CHANG,S.MOY,H.LI,A.JOACHIMIAK JRNL TITL CRYSTAL STRUCTURE OF PUTATIVE MANNAC-6-P EPIMERASE FROM JRNL TITL 2 STAPHYLOCOCCUS AUREUS (STRAIN N315) JRNL REF TO BE PUBLISHED JRNL REFN REMARK 2 REMARK 2 RESOLUTION. 1.95 ANGSTROMS. REMARK 3 REMARK 3 REFINEMENT. REMARK 3 PROGRAM : REFMAC 5.2.0005 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) : 1.95 REMARK 3 RESOLUTION RANGE LOW (ANGSTROMS) : 91.67 REMARK 3 DATA CUTOFF (SIGMA(F)) : NULL REMARK 3 COMPLETENESS FOR RANGE (%) : 97.7 REMARK 3 NUMBER OF REFLECTIONS : 51918 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) : 0.179 REMARK 3 R VALUE (WORKING SET) : 0.177 REMARK 3 FREE R VALUE : 0.216 REMARK 3 FREE R VALUE TEST SET SIZE (%) : 5.100 REMARK 3 FREE R VALUE TEST SET COUNT : 2771 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) : 1.95 REMARK 3 BIN RESOLUTION RANGE LOW (A) : 1.99 REMARK 3 REFLECTION IN BIN (WORKING SET) : 2834 REMARK 3 BIN COMPLETENESS (WORKING+TEST) (%) : 73.39 REMARK 3 BIN R VALUE (WORKING SET) : 0.2900 REMARK 3 BIN FREE R VALUE SET COUNT : 145 REMARK 3 BIN FREE R VALUE : 0.3560 REMARK 3 REMARK 3 NUMBER OF NON-HYDROGEN ATOMS USED IN REFINEMENT. REMARK 3 PROTEIN ATOMS : 3432 REMARK 3 NUCLEIC ACID ATOMS : 0 REMARK 3 HETEROGEN ATOMS : 15 REMARK 3 SOLVENT ATOMS : 401 REMARK 3 REMARK 3 B VALUES. REMARK 3 B VALUE TYPE : LIKELY RESIDUAL REMARK 3 FROM WILSON PLOT (A**2) : NULL REMARK 3 MEAN B VALUE (OVERALL, A**2) : 30.18 REMARK 3 OVERALL ANISOTROPIC B VALUE. REMARK 3 B11 (A**2) : 3.23000 REMARK 3 B22 (A**2) : -1.49000 REMARK 3 B33 (A**2) : -1.74000 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): 0.115 REMARK 3 ESU BASED ON FREE R VALUE (A): 0.117 REMARK 3 ESU BASED ON MAXIMUM LIKELIHOOD (A): 0.113 REMARK 3 ESU FOR B VALUES BASED ON MAXIMUM LIKELIHOOD (A**2): 8.140 REMARK 3 REMARK 3 CORRELATION COEFFICIENTS. REMARK 3 CORRELATION COEFFICIENT FO-FC : 0.964 REMARK 3 CORRELATION COEFFICIENT FO-FC FREE : 0.945 REMARK 3 REMARK 3 RMS DEVIATIONS FROM IDEAL VALUES COUNT RMS WEIGHT REMARK 3 BOND LENGTHS REFINED ATOMS (A): 3500 ; 0.037 ; 0.022 REMARK 3 BOND LENGTHS OTHERS (A): NULL ; NULL ; NULL REMARK 3 BOND ANGLES REFINED ATOMS (DEGREES): 4750 ; 2.337 ; 1.977 REMARK 3 BOND ANGLES OTHERS (DEGREES): NULL ; NULL ; NULL REMARK 3 TORSION ANGLES, PERIOD 1 (DEGREES): 442 ; 6.694 ; 5.000 REMARK 3 TORSION ANGLES, PERIOD 2 (DEGREES): 150 ;34.599 ;25.200 REMARK 3 TORSION ANGLES, PERIOD 3 (DEGREES): 620 ;15.219 ;15.000 REMARK 3 TORSION ANGLES, PERIOD 4 (DEGREES): 16 ;24.439 ;15.000 REMARK 3 CHIRAL-CENTER RESTRAINTS (A**3): 564 ; 0.160 ; 0.200 REMARK 3 GENERAL PLANES REFINED ATOMS (A): 2580 ; 0.010 ; 0.020 REMARK 3 GENERAL PLANES OTHERS (A): NULL ; NULL ; NULL REMARK 3 NON-BONDED CONTACTS REFINED ATOMS (A): 1782 ; 0.219 ; 0.200 REMARK 3 NON-BONDED CONTACTS OTHERS (A): NULL ; NULL ; NULL REMARK 3 NON-BONDED TORSION REFINED ATOMS (A): 2430 ; 0.307 ; 0.200 REMARK 3 NON-BONDED TORSION OTHERS (A): NULL ; NULL ; NULL REMARK 3 H-BOND (X...Y) REFINED ATOMS (A): 350 ; 0.161 ; 0.200 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): 32 ; 0.194 ; 0.200 REMARK 3 SYMMETRY VDW OTHERS (A): NULL ; NULL ; NULL REMARK 3 SYMMETRY H-BOND REFINED ATOMS (A): 20 ; 0.193 ; 0.200 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): 2298 ; 1.444 ; 1.500 REMARK 3 MAIN-CHAIN BOND OTHER ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 MAIN-CHAIN ANGLE REFINED ATOMS (A**2): 3588 ; 2.101 ; 2.000 REMARK 3 MAIN-CHAIN ANGLE OTHER ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 SIDE-CHAIN BOND REFINED ATOMS (A**2): 1370 ; 4.424 ; 3.000 REMARK 3 SIDE-CHAIN BOND OTHER ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 SIDE-CHAIN ANGLE REFINED ATOMS (A**2): 1162 ; 6.646 ; 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 0 A 58 REMARK 3 ORIGIN FOR THE GROUP (A): -3.1770 25.4400 114.6330 REMARK 3 T TENSOR REMARK 3 T11: -0.0190 T22: 0.0178 REMARK 3 T33: -0.0403 T12: 0.0131 REMARK 3 T13: 0.0174 T23: -0.0077 REMARK 3 L TENSOR REMARK 3 L11: 0.4099 L22: 3.5010 REMARK 3 L33: 2.0244 L12: -0.4801 REMARK 3 L13: 0.4039 L23: -0.0918 REMARK 3 S TENSOR REMARK 3 S11: 0.0366 S12: 0.0799 S13: -0.0263 REMARK 3 S21: 0.1661 S22: 0.0129 S23: 0.1031 REMARK 3 S31: -0.0085 S32: -0.0971 S33: -0.0495 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 59 A 196 REMARK 3 ORIGIN FOR THE GROUP (A): 4.9510 24.4400 98.9810 REMARK 3 T TENSOR REMARK 3 T11: -0.0366 T22: 0.0352 REMARK 3 T33: -0.0579 T12: 0.0189 REMARK 3 T13: 0.0134 T23: -0.0023 REMARK 3 L TENSOR REMARK 3 L11: 0.6761 L22: 0.9011 REMARK 3 L33: 1.5675 L12: 0.0113 REMARK 3 L13: -0.1451 L23: 0.1984 REMARK 3 S TENSOR REMARK 3 S11: 0.1191 S12: 0.1513 S13: -0.0208 REMARK 3 S21: -0.0805 S22: -0.0258 S23: -0.0352 REMARK 3 S31: -0.1021 S32: 0.0297 S33: -0.0933 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 197 A 221 REMARK 3 ORIGIN FOR THE GROUP (A): 10.9930 34.7100 116.6330 REMARK 3 T TENSOR REMARK 3 T11: 0.0352 T22: -0.0098 REMARK 3 T33: 0.0534 T12: -0.0054 REMARK 3 T13: 0.0810 T23: -0.0363 REMARK 3 L TENSOR REMARK 3 L11: 0.0878 L22: 1.1870 REMARK 3 L33: 3.7328 L12: 0.3225 REMARK 3 L13: 0.3597 L23: 1.2557 REMARK 3 S TENSOR REMARK 3 S11: 0.0712 S12: -0.0238 S13: -0.0476 REMARK 3 S21: -0.2953 S22: 0.1988 S23: -0.3184 REMARK 3 S31: -0.2034 S32: 0.1233 S33: -0.2700 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 0 B 58 REMARK 3 ORIGIN FOR THE GROUP (A): 7.4260 30.4230 134.2470 REMARK 3 T TENSOR REMARK 3 T11: 0.1379 T22: -0.0731 REMARK 3 T33: -0.0509 T12: 0.0277 REMARK 3 T13: -0.0278 T23: -0.0213 REMARK 3 L TENSOR REMARK 3 L11: 2.3916 L22: 1.4709 REMARK 3 L33: 2.2050 L12: 0.8064 REMARK 3 L13: -0.4769 L23: 0.4233 REMARK 3 S TENSOR REMARK 3 S11: 0.1011 S12: 0.0114 S13: -0.0573 REMARK 3 S21: 0.3941 S22: 0.0267 S23: -0.1564 REMARK 3 S31: 0.1613 S32: 0.0797 S33: -0.1277 REMARK 3 REMARK 3 TLS GROUP : 5 REMARK 3 NUMBER OF COMPONENTS GROUP : 1 REMARK 3 COMPONENTS C SSSEQI TO C SSSEQI REMARK 3 RESIDUE RANGE : B 59 B 196 REMARK 3 ORIGIN FOR THE GROUP (A): 6.4050 46.6070 141.6320 REMARK 3 T TENSOR REMARK 3 T11: 0.0628 T22: -0.0520 REMARK 3 T33: -0.0621 T12: -0.0115 REMARK 3 T13: 0.0005 T23: -0.0133 REMARK 3 L TENSOR REMARK 3 L11: 0.3670 L22: 1.4470 REMARK 3 L33: 1.7257 L12: -0.1347 REMARK 3 L13: -0.3819 L23: 1.0443 REMARK 3 S TENSOR REMARK 3 S11: -0.0011 S12: -0.0868 S13: 0.0360 REMARK 3 S21: 0.1163 S22: 0.0970 S23: -0.1112 REMARK 3 S31: -0.0391 S32: 0.1184 S33: -0.0958 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 : B 197 B 221 REMARK 3 ORIGIN FOR THE GROUP (A): 3.8130 41.2510 121.8370 REMARK 3 T TENSOR REMARK 3 T11: 0.1176 T22: -0.0428 REMARK 3 T33: 0.0109 T12: 0.0175 REMARK 3 T13: 0.0433 T23: -0.0358 REMARK 3 L TENSOR REMARK 3 L11: 1.3376 L22: 0.4558 REMARK 3 L33: 4.9883 L12: 0.0587 REMARK 3 L13: 2.2839 L23: 0.5436 REMARK 3 S TENSOR REMARK 3 S11: 0.0421 S12: -0.1368 S13: 0.1967 REMARK 3 S21: -0.0062 S22: -0.0069 S23: -0.1448 REMARK 3 S31: -0.4289 S32: -0.1689 S33: -0.0352 REMARK 3 REMARK 3 BULK SOLVENT MODELLING. REMARK 3 METHOD USED : MASK REMARK 3 PARAMETERS FOR MASK CALCULATION REMARK 3 VDW PROBE RADIUS : 1.20 REMARK 3 ION PROBE RADIUS : 0.80 REMARK 3 SHRINKAGE RADIUS : 0.80 REMARK 3 REMARK 3 OTHER REFINEMENT REMARKS: HYDROGENS HAVE BEEN ADDED IN THE RIDING REMARK 3 POSITIONS REMARK 4 REMARK 4 1Y0E COMPLIES WITH FORMAT V. 3.30, 13-JUL-11 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY RCSB ON 18-NOV-04. REMARK 100 THE DEPOSITION ID IS D_1000030957. REMARK 200 REMARK 200 EXPERIMENTAL DETAILS REMARK 200 EXPERIMENT TYPE : X-RAY DIFFRACTION REMARK 200 DATE OF DATA COLLECTION : 19-OCT-04 REMARK 200 TEMPERATURE (KELVIN) : 100 REMARK 200 PH : 6.5 REMARK 200 NUMBER OF CRYSTALS USED : 1 REMARK 200 REMARK 200 SYNCHROTRON (Y/N) : Y REMARK 200 RADIATION SOURCE : APS REMARK 200 BEAMLINE : 19-BM REMARK 200 X-RAY GENERATOR MODEL : NULL REMARK 200 MONOCHROMATIC OR LAUE (M/L) : M REMARK 200 WAVELENGTH OR RANGE (A) : 0.97951 REMARK 200 MONOCHROMATOR : DOUBLE CRYSTAL REMARK 200 OPTICS : NULL REMARK 200 REMARK 200 DETECTOR TYPE : CCD REMARK 200 DETECTOR MANUFACTURER : CUSTOM-MADE REMARK 200 INTENSITY-INTEGRATION SOFTWARE : HKL-2000 REMARK 200 DATA SCALING SOFTWARE : SCALEPACK REMARK 200 REMARK 200 NUMBER OF UNIQUE REFLECTIONS : 54814 REMARK 200 RESOLUTION RANGE HIGH (A) : 1.950 REMARK 200 RESOLUTION RANGE LOW (A) : 50.000 REMARK 200 REJECTION CRITERIA (SIGMA(I)) : 0.000 REMARK 200 REMARK 200 OVERALL. REMARK 200 COMPLETENESS FOR RANGE (%) : 98.7 REMARK 200 DATA REDUNDANCY : 19.10 REMARK 200 R MERGE (I) : 0.14200 REMARK 200 R SYM (I) : NULL REMARK 200 <I/SIGMA(I)> FOR THE DATA SET : 29.7000 REMARK 200 REMARK 200 IN THE HIGHEST RESOLUTION SHELL. REMARK 200 HIGHEST RESOLUTION SHELL, RANGE HIGH (A) : 1.95 REMARK 200 HIGHEST RESOLUTION SHELL, RANGE LOW (A) : 2.02 REMARK 200 COMPLETENESS FOR SHELL (%) : 87.5 REMARK 200 DATA REDUNDANCY IN SHELL : 6.50 REMARK 200 R MERGE FOR SHELL (I) : 0.53900 REMARK 200 R SYM FOR SHELL (I) : NULL REMARK 200 <I/SIGMA(I)> FOR SHELL : 3.210 REMARK 200 REMARK 200 DIFFRACTION PROTOCOL: SINGLE WAVELENGTH REMARK 200 METHOD USED TO DETERMINE THE STRUCTURE: SAD REMARK 200 SOFTWARE USED: SOLVE REMARK 200 STARTING MODEL: NULL REMARK 200 REMARK 200 REMARK: NULL REMARK 280 REMARK 280 CRYSTAL REMARK 280 SOLVENT CONTENT, VS (%): 67.20 REMARK 280 MATTHEWS COEFFICIENT, VM (ANGSTROMS**3/DA): 3.80 REMARK 280 REMARK 280 CRYSTALLIZATION CONDITIONS: NAH2PO4, K2HPO4, IMIDAZOLE, NACL, PH REMARK 280 6.5, VAPOR DIFFUSION, SITTING DROP, TEMPERATURE 289K REMARK 290 REMARK 290 CRYSTALLOGRAPHIC SYMMETRY REMARK 290 SYMMETRY OPERATORS FOR SPACE GROUP: P 21 21 21 REMARK 290 REMARK 290 SYMOP SYMMETRY REMARK 290 NNNMMM OPERATOR REMARK 290 1555 X,Y,Z REMARK 290 2555 -X+1/2,-Y,Z+1/2 REMARK 290 3555 -X,Y+1/2,-Z+1/2 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 26.48050 REMARK 290 SMTRY2 2 0.000000 -1.000000 0.000000 0.00000 REMARK 290 SMTRY3 2 0.000000 0.000000 1.000000 91.83050 REMARK 290 SMTRY1 3 -1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY2 3 0.000000 1.000000 0.000000 38.14150 REMARK 290 SMTRY3 3 0.000000 0.000000 -1.000000 91.83050 REMARK 290 SMTRY1 4 1.000000 0.000000 0.000000 26.48050 REMARK 290 SMTRY2 4 0.000000 -1.000000 0.000000 38.14150 REMARK 290 SMTRY3 4 0.000000 0.000000 -1.000000 0.00000 REMARK 290 REMARK 290 REMARK: NULL REMARK 300 REMARK 300 BIOMOLECULE: 1, 2, 3 REMARK 300 SEE REMARK 350 FOR THE AUTHOR PROVIDED AND/OR PROGRAM REMARK 300 GENERATED ASSEMBLY INFORMATION FOR THE STRUCTURE IN REMARK 300 THIS ENTRY. THE REMARK MAY ALSO PROVIDE INFORMATION ON REMARK 300 BURIED SURFACE AREA. REMARK 350 REMARK 350 COORDINATES FOR A COMPLETE MULTIMER REPRESENTING THE KNOWN REMARK 350 BIOLOGICALLY SIGNIFICANT OLIGOMERIZATION STATE OF THE REMARK 350 MOLECULE CAN BE GENERATED BY APPLYING BIOMT TRANSFORMATIONS REMARK 350 GIVEN BELOW. BOTH NON-CRYSTALLOGRAPHIC AND REMARK 350 CRYSTALLOGRAPHIC OPERATIONS ARE GIVEN. REMARK 350 REMARK 350 BIOMOLECULE: 1 REMARK 350 AUTHOR DETERMINED BIOLOGICAL UNIT: MONOMERIC REMARK 350 APPLY THE FOLLOWING TO CHAINS: A REMARK 350 BIOMT1 1 1.000000 0.000000 0.000000 0.00000 REMARK 350 BIOMT2 1 0.000000 1.000000 0.000000 0.00000 REMARK 350 BIOMT3 1 0.000000 0.000000 1.000000 0.00000 REMARK 350 REMARK 350 BIOMOLECULE: 2 REMARK 350 AUTHOR DETERMINED BIOLOGICAL UNIT: MONOMERIC REMARK 350 APPLY THE FOLLOWING TO CHAINS: B REMARK 350 BIOMT1 1 1.000000 0.000000 0.000000 0.00000 REMARK 350 BIOMT2 1 0.000000 1.000000 0.000000 0.00000 REMARK 350 BIOMT3 1 0.000000 0.000000 1.000000 0.00000 REMARK 350 REMARK 350 BIOMOLECULE: 3 REMARK 350 SOFTWARE DETERMINED QUATERNARY STRUCTURE: DIMERIC REMARK 350 SOFTWARE USED: PISA,PQS REMARK 350 TOTAL BURIED SURFACE AREA: 3810 ANGSTROM**2 REMARK 350 SURFACE AREA OF THE COMPLEX: 17770 ANGSTROM**2 REMARK 350 CHANGE IN SOLVENT FREE ENERGY: -59.0 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 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 ASP A 222 REMARK 465 ASP B 222 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 OE1 GLU B 85 O HOH B 629 2.16 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 MSE A 1 SE MSE A 1 CE 0.486 REMARK 500 GLU A 45 CG GLU A 45 CD 0.109 REMARK 500 GLU A 45 CD GLU A 45 OE1 0.067 REMARK 500 VAL A 80 CB VAL A 80 CG1 0.134 REMARK 500 GLU A 85 CG GLU A 85 CD 0.118 REMARK 500 GLU A 85 CD GLU A 85 OE1 0.116 REMARK 500 MSE A 122 SE MSE A 122 CE 0.410 REMARK 500 TYR A 152 CE2 TYR A 152 CD2 0.104 REMARK 500 MSE B 1 SE MSE B 1 CE 0.557 REMARK 500 GLN B 99 CG GLN B 99 CD 0.153 REMARK 500 TYR B 141 CG TYR B 141 CD1 0.098 REMARK 500 TYR B 141 CZ TYR B 141 CE2 0.087 REMARK 500 GLU B 221 CG GLU B 221 CD 0.130 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 GLU A 85 CG - CD - OE1 ANGL. DEV. = 12.1 DEGREES REMARK 500 ARG A 208 NE - CZ - NH2 ANGL. DEV. = -3.1 DEGREES REMARK 500 ARG A 215 NE - CZ - NH2 ANGL. DEV. = -3.1 DEGREES REMARK 500 LEU B 18 CB - CG - CD1 ANGL. DEV. = 10.5 DEGREES REMARK 500 LYS B 51 CD - CE - NZ ANGL. DEV. = -19.3 DEGREES REMARK 500 ASP B 124 CB - CG - OD1 ANGL. DEV. = 6.5 DEGREES REMARK 500 ASP B 124 CB - CG - OD2 ANGL. DEV. = -6.9 DEGREES REMARK 500 ARG B 215 CD - NE - CZ ANGL. DEV. = 9.8 DEGREES REMARK 500 ARG B 215 NE - CZ - NH1 ANGL. DEV. = 8.1 DEGREES REMARK 500 ARG B 215 NE - CZ - NH2 ANGL. DEV. = -5.7 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 15 -6.74 78.37 REMARK 500 SER A 20 113.65 164.49 REMARK 500 THR A 43 145.93 79.54 REMARK 500 LYS A 102 -103.97 -136.65 REMARK 500 ALA A 175 154.58 -45.43 REMARK 500 VAL A 183 92.18 -68.33 REMARK 500 CYS B 10 79.41 -117.30 REMARK 500 SER B 20 129.71 173.50 REMARK 500 THR B 43 144.73 83.38 REMARK 500 LYS B 102 -97.57 -143.53 REMARK 500 ALA B 175 155.56 -46.31 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 PO4 A 501 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC2 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE PO4 A 502 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC3 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE PO4 B 503 REMARK 900 REMARK 900 RELATED ENTRIES REMARK 900 RELATED ID: APC23088 RELATED DB: TARGETDB DBREF 1Y0E A 1 222 UNP P65517 NANE_STAAN 1 222 DBREF 1Y0E B 1 222 UNP P65517 NANE_STAAN 1 222 SEQADV 1Y0E ALA A 0 UNP P65517 CLONING ARTIFACT SEQADV 1Y0E MSE A 1 UNP P65517 MET 1 MODIFIED RESIDUE SEQADV 1Y0E PRO A 14 UNP P65517 ALA 14 ENGINEERED MUTATION SEQADV 1Y0E MSE A 24 UNP P65517 MET 24 MODIFIED RESIDUE SEQADV 1Y0E MSE A 27 UNP P65517 MET 27 MODIFIED RESIDUE SEQADV 1Y0E MSE A 122 UNP P65517 MET 122 MODIFIED RESIDUE SEQADV 1Y0E MSE A 188 UNP P65517 MET 188 MODIFIED RESIDUE SEQADV 1Y0E MSE A 193 UNP P65517 MET 193 MODIFIED RESIDUE SEQADV 1Y0E MSE A 220 UNP P65517 MET 220 MODIFIED RESIDUE SEQADV 1Y0E ALA B 0 UNP P65517 CLONING ARTIFACT SEQADV 1Y0E MSE B 1 UNP P65517 MET 1 MODIFIED RESIDUE SEQADV 1Y0E PRO B 14 UNP P65517 ALA 14 ENGINEERED MUTATION SEQADV 1Y0E MSE B 24 UNP P65517 MET 24 MODIFIED RESIDUE SEQADV 1Y0E MSE B 27 UNP P65517 MET 27 MODIFIED RESIDUE SEQADV 1Y0E MSE B 122 UNP P65517 MET 122 MODIFIED RESIDUE SEQADV 1Y0E MSE B 188 UNP P65517 MET 188 MODIFIED RESIDUE SEQADV 1Y0E MSE B 193 UNP P65517 MET 193 MODIFIED RESIDUE SEQADV 1Y0E MSE B 220 UNP P65517 MET 220 MODIFIED RESIDUE SEQRES 1 A 223 ALA MSE LEU PRO HIS GLY LEU ILE VAL SER CYS GLN ALA SEQRES 2 A 223 LEU PRO ASP GLU PRO LEU HIS SER SER PHE ILE MSE SER SEQRES 3 A 223 LYS MSE ALA LEU ALA ALA TYR GLU GLY GLY ALA VAL GLY SEQRES 4 A 223 ILE ARG ALA ASN THR LYS GLU ASP ILE LEU ALA ILE LYS SEQRES 5 A 223 GLU THR VAL ASP LEU PRO VAL ILE GLY ILE VAL LYS ARG SEQRES 6 A 223 ASP TYR ASP HIS SER ASP VAL PHE ILE THR ALA THR SER SEQRES 7 A 223 LYS GLU VAL ASP GLU LEU ILE GLU SER GLN CYS GLU VAL SEQRES 8 A 223 ILE ALA LEU ASP ALA THR LEU GLN GLN ARG PRO LYS GLU SEQRES 9 A 223 THR LEU ASP GLU LEU VAL SER TYR ILE ARG THR HIS ALA SEQRES 10 A 223 PRO ASN VAL GLU ILE MSE ALA ASP ILE ALA THR VAL GLU SEQRES 11 A 223 GLU ALA LYS ASN ALA ALA ARG LEU GLY PHE ASP TYR ILE SEQRES 12 A 223 GLY THR THR LEU HIS GLY TYR THR SER TYR THR GLN GLY SEQRES 13 A 223 GLN LEU LEU TYR GLN ASN ASP PHE GLN PHE LEU LYS ASP SEQRES 14 A 223 VAL LEU GLN SER VAL ASP ALA LYS VAL ILE ALA GLU GLY SEQRES 15 A 223 ASN VAL ILE THR PRO ASP MSE TYR LYS ARG VAL MSE ASP SEQRES 16 A 223 LEU GLY VAL HIS CYS SER VAL VAL GLY GLY ALA ILE THR SEQRES 17 A 223 ARG PRO LYS GLU ILE THR LYS ARG PHE VAL GLN VAL MSE SEQRES 18 A 223 GLU ASP SEQRES 1 B 223 ALA MSE LEU PRO HIS GLY LEU ILE VAL SER CYS GLN ALA SEQRES 2 B 223 LEU PRO ASP GLU PRO LEU HIS SER SER PHE ILE MSE SER SEQRES 3 B 223 LYS MSE ALA LEU ALA ALA TYR GLU GLY GLY ALA VAL GLY SEQRES 4 B 223 ILE ARG ALA ASN THR LYS GLU ASP ILE LEU ALA ILE LYS SEQRES 5 B 223 GLU THR VAL ASP LEU PRO VAL ILE GLY ILE VAL LYS ARG SEQRES 6 B 223 ASP TYR ASP HIS SER ASP VAL PHE ILE THR ALA THR SER SEQRES 7 B 223 LYS GLU VAL ASP GLU LEU ILE GLU SER GLN CYS GLU VAL SEQRES 8 B 223 ILE ALA LEU ASP ALA THR LEU GLN GLN ARG PRO LYS GLU SEQRES 9 B 223 THR LEU ASP GLU LEU VAL SER TYR ILE ARG THR HIS ALA SEQRES 10 B 223 PRO ASN VAL GLU ILE MSE ALA ASP ILE ALA THR VAL GLU SEQRES 11 B 223 GLU ALA LYS ASN ALA ALA ARG LEU GLY PHE ASP TYR ILE SEQRES 12 B 223 GLY THR THR LEU HIS GLY TYR THR SER TYR THR GLN GLY SEQRES 13 B 223 GLN LEU LEU TYR GLN ASN ASP PHE GLN PHE LEU LYS ASP SEQRES 14 B 223 VAL LEU GLN SER VAL ASP ALA LYS VAL ILE ALA GLU GLY SEQRES 15 B 223 ASN VAL ILE THR PRO ASP MSE TYR LYS ARG VAL MSE ASP SEQRES 16 B 223 LEU GLY VAL HIS CYS SER VAL VAL GLY GLY ALA ILE THR SEQRES 17 B 223 ARG PRO LYS GLU ILE THR LYS ARG PHE VAL GLN VAL MSE SEQRES 18 B 223 GLU ASP MODRES 1Y0E MSE A 1 MET SELENOMETHIONINE MODRES 1Y0E MSE A 24 MET SELENOMETHIONINE MODRES 1Y0E MSE A 27 MET SELENOMETHIONINE MODRES 1Y0E MSE A 122 MET SELENOMETHIONINE MODRES 1Y0E MSE A 188 MET SELENOMETHIONINE MODRES 1Y0E MSE A 193 MET SELENOMETHIONINE MODRES 1Y0E MSE A 220 MET SELENOMETHIONINE MODRES 1Y0E MSE B 1 MET SELENOMETHIONINE MODRES 1Y0E MSE B 24 MET SELENOMETHIONINE MODRES 1Y0E MSE B 27 MET SELENOMETHIONINE MODRES 1Y0E MSE B 122 MET SELENOMETHIONINE MODRES 1Y0E MSE B 188 MET SELENOMETHIONINE MODRES 1Y0E MSE B 193 MET SELENOMETHIONINE MODRES 1Y0E MSE B 220 MET SELENOMETHIONINE HET MSE A 1 8 HET MSE A 24 8 HET MSE A 27 8 HET MSE A 122 8 HET MSE A 188 8 HET MSE A 193 8 HET MSE A 220 8 HET MSE B 1 8 HET MSE B 24 8 HET MSE B 27 8 HET MSE B 122 8 HET MSE B 188 8 HET MSE B 193 8 HET MSE B 220 8 HET PO4 A 501 5 HET PO4 A 502 5 HET PO4 B 503 5 HETNAM MSE SELENOMETHIONINE HETNAM PO4 PHOSPHATE ION FORMUL 1 MSE 14(C5 H11 N O2 SE) FORMUL 3 PO4 3(O4 P 3-) FORMUL 6 HOH *401(H2 O) HELIX 1 1 SER A 20 GLY A 35 1 16 HELIX 2 2 THR A 43 VAL A 54 1 12 HELIX 3 3 THR A 76 GLN A 87 1 12 HELIX 4 4 THR A 104 ALA A 116 1 13 HELIX 5 5 THR A 127 LEU A 137 1 11 HELIX 6 6 TYR A 159 VAL A 173 1 15 HELIX 7 7 THR A 185 LEU A 195 1 11 HELIX 8 8 GLY A 203 ARG A 208 1 6 HELIX 9 9 ARG A 208 VAL A 219 1 12 HELIX 10 10 SER B 20 GLY B 35 1 16 HELIX 11 11 THR B 43 GLU B 52 1 10 HELIX 12 12 THR B 76 GLN B 87 1 12 HELIX 13 13 THR B 104 ALA B 116 1 13 HELIX 14 14 THR B 127 LEU B 137 1 11 HELIX 15 15 TYR B 159 VAL B 173 1 15 HELIX 16 16 THR B 185 LEU B 195 1 11 HELIX 17 17 GLY B 203 ARG B 208 1 6 HELIX 18 18 ARG B 208 VAL B 219 1 12 SHEET 1 A 9 GLY A 5 SER A 9 0 SHEET 2 A 9 GLY A 38 ASN A 42 1 O GLY A 38 N VAL A 8 SHEET 3 A 9 VAL A 58 ILE A 61 1 O ILE A 59 N ILE A 39 SHEET 4 A 9 VAL A 90 ASP A 94 1 O VAL A 90 N GLY A 60 SHEET 5 A 9 GLU A 120 ASP A 124 1 O ASP A 124 N LEU A 93 SHEET 6 A 9 TYR A 141 GLY A 143 1 O GLY A 143 N ALA A 123 SHEET 7 A 9 LYS A 176 GLU A 180 1 O LYS A 176 N ILE A 142 SHEET 8 A 9 CYS A 199 VAL A 202 1 O VAL A 201 N ALA A 179 SHEET 9 A 9 GLY A 5 SER A 9 1 N ILE A 7 O SER A 200 SHEET 1 B 9 LEU B 6 SER B 9 0 SHEET 2 B 9 GLY B 38 ASN B 42 1 O GLY B 38 N VAL B 8 SHEET 3 B 9 VAL B 58 ILE B 61 1 O ILE B 59 N ALA B 41 SHEET 4 B 9 VAL B 90 ASP B 94 1 O VAL B 90 N GLY B 60 SHEET 5 B 9 GLU B 120 ASP B 124 1 O GLU B 120 N ILE B 91 SHEET 6 B 9 TYR B 141 GLY B 143 1 O GLY B 143 N ALA B 123 SHEET 7 B 9 LYS B 176 GLU B 180 1 O ILE B 178 N ILE B 142 SHEET 8 B 9 CYS B 199 VAL B 202 1 O VAL B 201 N ALA B 179 SHEET 9 B 9 LEU B 6 SER B 9 1 N ILE B 7 O SER B 200 LINK C ALA A 0 N MSE A 1 1555 1555 1.32 LINK C MSE A 1 N LEU A 2 1555 1555 1.35 LINK C ILE A 23 N MSE A 24 1555 1555 1.35 LINK C MSE A 24 N SER A 25 1555 1555 1.34 LINK C LYS A 26 N MSE A 27 1555 1555 1.37 LINK C MSE A 27 N ALA A 28 1555 1555 1.32 LINK C ILE A 121 N MSE A 122 1555 1555 1.34 LINK C MSE A 122 N ALA A 123 1555 1555 1.33 LINK C ASP A 187 N MSE A 188 1555 1555 1.33 LINK C MSE A 188 N TYR A 189 1555 1555 1.33 LINK C VAL A 192 N MSE A 193 1555 1555 1.34 LINK C MSE A 193 N ASP A 194 1555 1555 1.34 LINK C VAL A 219 N MSE A 220 1555 1555 1.34 LINK C MSE A 220 N GLU A 221 1555 1555 1.33 LINK C ALA B 0 N MSE B 1 1555 1555 1.34 LINK C MSE B 1 N LEU B 2 1555 1555 1.36 LINK C ILE B 23 N MSE B 24 1555 1555 1.36 LINK C MSE B 24 N SER B 25 1555 1555 1.33 LINK C LYS B 26 N MSE B 27 1555 1555 1.33 LINK C MSE B 27 N ALA B 28 1555 1555 1.36 LINK C ILE B 121 N MSE B 122 1555 1555 1.35 LINK C MSE B 122 N ALA B 123 1555 1555 1.34 LINK C ASP B 187 N MSE B 188 1555 1555 1.33 LINK C MSE B 188 N TYR B 189 1555 1555 1.35 LINK C VAL B 192 N MSE B 193 1555 1555 1.34 LINK C MSE B 193 N ASP B 194 1555 1555 1.33 LINK C VAL B 219 N MSE B 220 1555 1555 1.30 LINK C MSE B 220 N GLU B 221 1555 1555 1.31 SITE 1 AC1 8 SER A 9 ARG A 208 PO4 A 502 HOH A 515 SITE 2 AC1 8 HOH A 556 HOH A 572 HOH A 584 HOH A 613 SITE 1 AC2 10 ASN A 182 GLY A 203 GLY A 204 PO4 A 501 SITE 2 AC2 10 HOH A 516 HOH A 550 HOH A 556 HOH A 572 SITE 3 AC2 10 HOH A 589 HOH A 627 SITE 1 AC3 10 GLY B 181 ASN B 182 GLY B 203 GLY B 204 SITE 2 AC3 10 HOH B 518 HOH B 547 HOH B 566 HOH B 605 SITE 3 AC3 10 HOH B 615 HOH B 665 CRYST1 52.961 76.283 183.661 90.00 90.00 90.00 P 21 21 21 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 0.018882 0.000000 0.000000 0.00000 SCALE2 0.000000 0.013109 0.000000 0.00000 SCALE3 0.000000 0.000000 0.005445 0.00000