HEADER OXIDOREDUCTASE 28-SEP-17 5YHI TITLE CRYSTAL STRUCTURE OF YIIM FROM ESCHERICHIA COLI COMPND MOL_ID: 1; COMPND 2 MOLECULE: PROTEIN YIIM; COMPND 3 CHAIN: A, B; COMPND 4 ENGINEERED: 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: YIIM, B3910, JW5559; SOURCE 6 EXPRESSION_SYSTEM: ESCHERICHIA COLI; SOURCE 7 EXPRESSION_SYSTEM_TAXID: 562; SOURCE 8 EXPRESSION_SYSTEM_STRAIN: TP1000 KEYWDS ENZYME, MOSC, OXIDOREDUCTASE EXPDTA X-RAY DIFFRACTION AUTHOR B.NAMGUNG,J.H.KIM,W.S.SONG,S.I.YOON REVDAT 2 22-NOV-23 5YHI 1 REMARK REVDAT 1 07-MAR-18 5YHI 0 JRNL AUTH B.NAMGUNG,J.H.KIM,W.S.SONG,S.I.YOON JRNL TITL CRYSTAL STRUCTURE OF THE HYDROXYLAMINOPURINE RESISTANCE JRNL TITL 2 PROTEIN, YIIM, AND ITS PUTATIVE MOLYBDENUM COFACTOR-BINDING JRNL TITL 3 CATALYTIC SITE. JRNL REF SCI REP V. 8 3304 2018 JRNL REFN ESSN 2045-2322 JRNL PMID 29459651 JRNL DOI 10.1038/S41598-018-21660-Y REMARK 2 REMARK 2 RESOLUTION. 2.85 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 : NULL REMARK 3 REMARK 3 DATA USED IN REFINEMENT. REMARK 3 RESOLUTION RANGE HIGH (ANGSTROMS) : 2.85 REMARK 3 RESOLUTION RANGE LOW (ANGSTROMS) : 30.00 REMARK 3 DATA CUTOFF (SIGMA(F)) : NULL REMARK 3 COMPLETENESS FOR RANGE (%) : 99.5 REMARK 3 NUMBER OF REFLECTIONS : 11838 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) : 0.203 REMARK 3 R VALUE (WORKING SET) : 0.201 REMARK 3 FREE R VALUE : 0.242 REMARK 3 FREE R VALUE TEST SET SIZE (%) : 4.800 REMARK 3 FREE R VALUE TEST SET COUNT : 599 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) : 2.85 REMARK 3 BIN RESOLUTION RANGE LOW (A) : 2.93 REMARK 3 REFLECTION IN BIN (WORKING SET) : 827 REMARK 3 BIN COMPLETENESS (WORKING+TEST) (%) : 96.12 REMARK 3 BIN R VALUE (WORKING SET) : 0.2700 REMARK 3 BIN FREE R VALUE SET COUNT : 39 REMARK 3 BIN FREE R VALUE : 0.3680 REMARK 3 REMARK 3 NUMBER OF NON-HYDROGEN ATOMS USED IN REFINEMENT. REMARK 3 PROTEIN ATOMS : 3193 REMARK 3 NUCLEIC ACID ATOMS : 0 REMARK 3 HETEROGEN ATOMS : 10 REMARK 3 SOLVENT ATOMS : 0 REMARK 3 REMARK 3 B VALUES. REMARK 3 FROM WILSON PLOT (A**2) : NULL REMARK 3 MEAN B VALUE (OVERALL, A**2) : 51.65 REMARK 3 OVERALL ANISOTROPIC B VALUE. REMARK 3 B11 (A**2) : -1.46000 REMARK 3 B22 (A**2) : 2.45000 REMARK 3 B33 (A**2) : -0.99000 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): NULL REMARK 3 ESU BASED ON FREE R VALUE (A): 0.366 REMARK 3 ESU BASED ON MAXIMUM LIKELIHOOD (A): 0.296 REMARK 3 ESU FOR B VALUES BASED ON MAXIMUM LIKELIHOOD (A**2): 33.578 REMARK 3 REMARK 3 CORRELATION COEFFICIENTS. REMARK 3 CORRELATION COEFFICIENT FO-FC : 0.934 REMARK 3 CORRELATION COEFFICIENT FO-FC FREE : 0.909 REMARK 3 REMARK 3 RMS DEVIATIONS FROM IDEAL VALUES COUNT RMS WEIGHT REMARK 3 BOND LENGTHS REFINED ATOMS (A): 3285 ; 0.012 ; 0.022 REMARK 3 BOND LENGTHS OTHERS (A): 2220 ; 0.002 ; 0.020 REMARK 3 BOND ANGLES REFINED ATOMS (DEGREES): 4461 ; 1.283 ; 1.949 REMARK 3 BOND ANGLES OTHERS (DEGREES): 5362 ; 0.880 ; 3.000 REMARK 3 TORSION ANGLES, PERIOD 1 (DEGREES): 397 ; 6.364 ; 5.000 REMARK 3 TORSION ANGLES, PERIOD 2 (DEGREES): 156 ;37.656 ;23.462 REMARK 3 TORSION ANGLES, PERIOD 3 (DEGREES): 517 ;17.237 ;15.000 REMARK 3 TORSION ANGLES, PERIOD 4 (DEGREES): 23 ;19.675 ;15.000 REMARK 3 CHIRAL-CENTER RESTRAINTS (A**3): 470 ; 0.069 ; 0.200 REMARK 3 GENERAL PLANES REFINED ATOMS (A): 3664 ; 0.006 ; 0.021 REMARK 3 GENERAL PLANES OTHERS (A): 699 ; 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): 2002 ; 0.350 ; 1.500 REMARK 3 MAIN-CHAIN BOND OTHER ATOMS (A**2): 818 ; 0.086 ; 1.500 REMARK 3 MAIN-CHAIN ANGLE REFINED ATOMS (A**2): 3200 ; 0.708 ; 2.000 REMARK 3 MAIN-CHAIN ANGLE OTHER ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 SIDE-CHAIN BOND REFINED ATOMS (A**2): 1283 ; 1.244 ; 3.000 REMARK 3 SIDE-CHAIN BOND OTHER ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 SIDE-CHAIN ANGLE REFINED ATOMS (A**2): 1261 ; 1.988 ; 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 : 8 REMARK 3 REMARK 3 NCS GROUP NUMBER : 1 REMARK 3 CHAIN NAMES : A B REMARK 3 NUMBER OF COMPONENTS NCS GROUP : 1 REMARK 3 COMPONENT C SSSEQI TO C SSSEQI CODE REMARK 3 1 A 3 A 8 5 REMARK 3 1 B 3 B 8 5 REMARK 3 GROUP CHAIN COUNT RMS WEIGHT REMARK 3 MEDIUM POSITIONAL 1 A (A): 35 ; 0.100 ; 0.500 REMARK 3 LOOSE POSITIONAL 1 A (A): 51 ; 0.190 ; 5.000 REMARK 3 MEDIUM THERMAL 1 A (A**2): 35 ; 0.460 ; 2.000 REMARK 3 LOOSE THERMAL 1 A (A**2): 51 ; 0.350 ;10.000 REMARK 3 REMARK 3 NCS GROUP NUMBER : 2 REMARK 3 CHAIN NAMES : A B REMARK 3 NUMBER OF COMPONENTS NCS GROUP : 1 REMARK 3 COMPONENT C SSSEQI TO C SSSEQI CODE REMARK 3 1 A 26 A 41 5 REMARK 3 1 B 26 B 41 5 REMARK 3 GROUP CHAIN COUNT RMS WEIGHT REMARK 3 MEDIUM POSITIONAL 2 A (A): 93 ; 0.150 ; 0.500 REMARK 3 LOOSE POSITIONAL 2 A (A): 99 ; 0.420 ; 5.000 REMARK 3 MEDIUM THERMAL 2 A (A**2): 93 ; 0.200 ; 2.000 REMARK 3 LOOSE THERMAL 2 A (A**2): 99 ; 0.340 ;10.000 REMARK 3 REMARK 3 NCS GROUP NUMBER : 3 REMARK 3 CHAIN NAMES : A B REMARK 3 NUMBER OF COMPONENTS NCS GROUP : 1 REMARK 3 COMPONENT C SSSEQI TO C SSSEQI CODE REMARK 3 1 A 42 A 61 3 REMARK 3 1 B 42 B 61 3 REMARK 3 GROUP CHAIN COUNT RMS WEIGHT REMARK 3 TIGHT POSITIONAL 3 A (A): 63 ; 0.030 ; 0.050 REMARK 3 LOOSE POSITIONAL 3 A (A): 69 ; 0.040 ; 5.000 REMARK 3 TIGHT THERMAL 3 A (A**2): 63 ; 0.060 ; 0.500 REMARK 3 LOOSE THERMAL 3 A (A**2): 69 ; 0.070 ;10.000 REMARK 3 REMARK 3 NCS GROUP NUMBER : 4 REMARK 3 CHAIN NAMES : A B REMARK 3 NUMBER OF COMPONENTS NCS GROUP : 2 REMARK 3 COMPONENT C SSSEQI TO C SSSEQI CODE REMARK 3 1 A 62 A 85 3 REMARK 3 1 B 62 B 85 3 REMARK 3 2 A 117 A 143 3 REMARK 3 2 B 117 B 143 3 REMARK 3 GROUP CHAIN COUNT RMS WEIGHT REMARK 3 TIGHT POSITIONAL 4 A (A): 300 ; 0.030 ; 0.050 REMARK 3 LOOSE POSITIONAL 4 A (A): 402 ; 0.040 ; 5.000 REMARK 3 TIGHT THERMAL 4 A (A**2): 300 ; 0.060 ; 0.500 REMARK 3 LOOSE THERMAL 4 A (A**2): 402 ; 0.080 ;10.000 REMARK 3 REMARK 3 NCS GROUP NUMBER : 5 REMARK 3 CHAIN NAMES : A B REMARK 3 NUMBER OF COMPONENTS NCS GROUP : 1 REMARK 3 COMPONENT C SSSEQI TO C SSSEQI CODE REMARK 3 1 A 86 A 116 3 REMARK 3 1 B 86 B 116 3 REMARK 3 GROUP CHAIN COUNT RMS WEIGHT REMARK 3 TIGHT POSITIONAL 5 A (A): 182 ; 0.030 ; 0.050 REMARK 3 LOOSE POSITIONAL 5 A (A): 220 ; 0.040 ; 5.000 REMARK 3 TIGHT THERMAL 5 A (A**2): 182 ; 0.060 ; 0.500 REMARK 3 LOOSE THERMAL 5 A (A**2): 220 ; 0.090 ;10.000 REMARK 3 REMARK 3 NCS GROUP NUMBER : 6 REMARK 3 CHAIN NAMES : A B REMARK 3 NUMBER OF COMPONENTS NCS GROUP : 1 REMARK 3 COMPONENT C SSSEQI TO C SSSEQI CODE REMARK 3 1 A 144 A 166 3 REMARK 3 1 B 144 B 166 3 REMARK 3 GROUP CHAIN COUNT RMS WEIGHT REMARK 3 TIGHT POSITIONAL 6 A (A): 135 ; 0.030 ; 0.050 REMARK 3 LOOSE POSITIONAL 6 A (A): 148 ; 0.040 ; 5.000 REMARK 3 TIGHT THERMAL 6 A (A**2): 135 ; 0.070 ; 0.500 REMARK 3 LOOSE THERMAL 6 A (A**2): 148 ; 0.080 ;10.000 REMARK 3 REMARK 3 NCS GROUP NUMBER : 7 REMARK 3 CHAIN NAMES : A B REMARK 3 NUMBER OF COMPONENTS NCS GROUP : 1 REMARK 3 COMPONENT C SSSEQI TO C SSSEQI CODE REMARK 3 1 A 167 A 220 3 REMARK 3 1 B 167 B 220 3 REMARK 3 GROUP CHAIN COUNT RMS WEIGHT REMARK 3 TIGHT POSITIONAL 7 A (A): 321 ; 0.040 ; 0.050 REMARK 3 LOOSE POSITIONAL 7 A (A): 412 ; 0.050 ; 5.000 REMARK 3 TIGHT THERMAL 7 A (A**2): 321 ; 0.080 ; 0.500 REMARK 3 LOOSE THERMAL 7 A (A**2): 412 ; 0.090 ;10.000 REMARK 3 REMARK 3 NCS GROUP NUMBER : 8 REMARK 3 CHAIN NAMES : A B REMARK 3 NUMBER OF COMPONENTS NCS GROUP : 1 REMARK 3 COMPONENT C SSSEQI TO C SSSEQI CODE REMARK 3 1 A 301 A 301 1 REMARK 3 1 B 301 B 301 1 REMARK 3 GROUP CHAIN COUNT RMS WEIGHT REMARK 3 TIGHT POSITIONAL 8 A (A): 5 ; 0.020 ; 0.050 REMARK 3 TIGHT THERMAL 8 A (A**2): 5 ; 0.130 ; 0.500 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 0 A 166 REMARK 3 ORIGIN FOR THE GROUP (A): 56.4210 -0.6450 221.3890 REMARK 3 T TENSOR REMARK 3 T11: 0.2850 T22: 0.7169 REMARK 3 T33: 0.1592 T12: 0.0214 REMARK 3 T13: -0.0690 T23: 0.0149 REMARK 3 L TENSOR REMARK 3 L11: 2.5567 L22: 2.8771 REMARK 3 L33: 3.8946 L12: -1.0161 REMARK 3 L13: -1.6448 L23: 0.4819 REMARK 3 S TENSOR REMARK 3 S11: -0.2336 S12: -0.0412 S13: -0.3032 REMARK 3 S21: 0.1983 S22: 0.0709 S23: 0.3668 REMARK 3 S31: 0.6390 S32: -0.0753 S33: 0.1627 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 : B 0 B 166 REMARK 3 ORIGIN FOR THE GROUP (A): 59.2480 17.7130 187.2360 REMARK 3 T TENSOR REMARK 3 T11: 0.2411 T22: 0.7357 REMARK 3 T33: 0.1077 T12: 0.0419 REMARK 3 T13: -0.0624 T23: 0.0047 REMARK 3 L TENSOR REMARK 3 L11: 3.2284 L22: 1.7897 REMARK 3 L33: 5.7916 L12: -0.9027 REMARK 3 L13: -2.1811 L23: 1.9895 REMARK 3 S TENSOR REMARK 3 S11: 0.1645 S12: 0.4697 S13: 0.0404 REMARK 3 S21: -0.3268 S22: -0.1261 S23: 0.1014 REMARK 3 S31: -0.1941 S32: -0.3833 S33: -0.0385 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 167 A 224 REMARK 3 ORIGIN FOR THE GROUP (A): 53.5830 18.6560 216.8880 REMARK 3 T TENSOR REMARK 3 T11: 0.1275 T22: 0.6337 REMARK 3 T33: 0.0458 T12: 0.0250 REMARK 3 T13: -0.0355 T23: -0.0237 REMARK 3 L TENSOR REMARK 3 L11: 4.2031 L22: 3.5717 REMARK 3 L33: 4.0255 L12: -0.1081 REMARK 3 L13: -2.4871 L23: -0.3466 REMARK 3 S TENSOR REMARK 3 S11: 0.2070 S12: -0.0196 S13: 0.3131 REMARK 3 S21: -0.1063 S22: -0.0023 S23: 0.0093 REMARK 3 S31: -0.0514 S32: 0.0163 S33: -0.2047 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 167 B 223 REMARK 3 ORIGIN FOR THE GROUP (A): 72.5540 6.6360 197.7650 REMARK 3 T TENSOR REMARK 3 T11: 0.1878 T22: 0.8257 REMARK 3 T33: 0.0906 T12: 0.0986 REMARK 3 T13: 0.0150 T23: -0.0752 REMARK 3 L TENSOR REMARK 3 L11: 3.9565 L22: 4.1020 REMARK 3 L33: 5.2433 L12: -3.1090 REMARK 3 L13: 1.0185 L23: -1.8713 REMARK 3 S TENSOR REMARK 3 S11: -0.1084 S12: -0.0674 S13: -0.2077 REMARK 3 S21: -0.0454 S22: 0.1061 S23: -0.1775 REMARK 3 S31: 0.3260 S32: 0.3692 S33: 0.0023 REMARK 3 REMARK 3 BULK SOLVENT MODELLING. REMARK 3 METHOD USED : NULL 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: HYDROGENS HAVE BEEN ADDED IN THE RIDING REMARK 3 POSITIONS REMARK 4 REMARK 4 5YHI COMPLIES WITH FORMAT V. 3.30, 13-JUL-11 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY PDBJ ON 06-OCT-17. REMARK 100 THE DEPOSITION ID IS D_1300005284. REMARK 200 REMARK 200 EXPERIMENTAL DETAILS REMARK 200 EXPERIMENT TYPE : X-RAY DIFFRACTION REMARK 200 DATE OF DATA COLLECTION : 24-FEB-16 REMARK 200 TEMPERATURE (KELVIN) : 100 REMARK 200 PH : NULL REMARK 200 NUMBER OF CRYSTALS USED : 1 REMARK 200 REMARK 200 SYNCHROTRON (Y/N) : Y REMARK 200 RADIATION SOURCE : PAL/PLS REMARK 200 BEAMLINE : 5C (4A) REMARK 200 X-RAY GENERATOR MODEL : NULL REMARK 200 MONOCHROMATIC OR LAUE (M/L) : M REMARK 200 WAVELENGTH OR RANGE (A) : 0.98000 REMARK 200 MONOCHROMATOR : NULL REMARK 200 OPTICS : NULL REMARK 200 REMARK 200 DETECTOR TYPE : PIXEL REMARK 200 DETECTOR MANUFACTURER : DECTRIS PILATUS3 S 6M REMARK 200 INTENSITY-INTEGRATION SOFTWARE : HKL-2000 REMARK 200 DATA SCALING SOFTWARE : HKL-2000 REMARK 200 REMARK 200 NUMBER OF UNIQUE REFLECTIONS : 12483 REMARK 200 RESOLUTION RANGE HIGH (A) : 2.850 REMARK 200 RESOLUTION RANGE LOW (A) : 30.000 REMARK 200 REJECTION CRITERIA (SIGMA(I)) : NULL REMARK 200 REMARK 200 OVERALL. REMARK 200 COMPLETENESS FOR RANGE (%) : 99.7 REMARK 200 DATA REDUNDANCY : 6.300 REMARK 200 R MERGE (I) : 0.12200 REMARK 200 R SYM (I) : NULL REMARK 200 FOR THE DATA SET : 14.7000 REMARK 200 REMARK 200 IN THE HIGHEST RESOLUTION SHELL. REMARK 200 HIGHEST RESOLUTION SHELL, RANGE HIGH (A) : 2.85 REMARK 200 HIGHEST RESOLUTION SHELL, RANGE LOW (A) : 2.90 REMARK 200 COMPLETENESS FOR SHELL (%) : NULL REMARK 200 DATA REDUNDANCY IN SHELL : NULL REMARK 200 R MERGE FOR SHELL (I) : 0.43000 REMARK 200 R SYM FOR SHELL (I) : NULL REMARK 200 FOR SHELL : 2.300 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: 1O65 REMARK 200 REMARK 200 REMARK: NULL REMARK 280 REMARK 280 CRYSTAL REMARK 280 SOLVENT CONTENT, VS (%): 50.24 REMARK 280 MATTHEWS COEFFICIENT, VM (ANGSTROMS**3/DA): 2.47 REMARK 280 REMARK 280 CRYSTALLIZATION CONDITIONS: 1.1M AMMONIUM DIHYDROGEN PHOSPHATE, REMARK 280 0.08M CHES, PH 9.5, 20% GLYCEROL, VAPOR DIFFUSION, SITTING DROP, REMARK 280 TEMPERATURE 291K 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 28.08100 REMARK 290 SMTRY2 2 0.000000 -1.000000 0.000000 0.00000 REMARK 290 SMTRY3 2 0.000000 0.000000 1.000000 53.81500 REMARK 290 SMTRY1 3 -1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY2 3 0.000000 1.000000 0.000000 42.41850 REMARK 290 SMTRY3 3 0.000000 0.000000 -1.000000 53.81500 REMARK 290 SMTRY1 4 1.000000 0.000000 0.000000 28.08100 REMARK 290 SMTRY2 4 0.000000 -1.000000 0.000000 42.41850 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: 2480 ANGSTROM**2 REMARK 350 SURFACE AREA OF THE COMPLEX: 17390 ANGSTROM**2 REMARK 350 CHANGE IN SOLVENT FREE ENERGY: -17.0 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 GLY A -5 REMARK 465 SER A -4 REMARK 465 ALA A -3 REMARK 465 LYS A -2 REMARK 465 ASP A -1 REMARK 465 LYS A 11 REMARK 465 ILE A 12 REMARK 465 GLN A 13 REMARK 465 ALA A 14 REMARK 465 TYR A 15 REMARK 465 PRO A 16 REMARK 465 GLU A 17 REMARK 465 GLY A 18 REMARK 465 LYS A 19 REMARK 465 PRO A 20 REMARK 465 SER A 21 REMARK 465 ALA A 22 REMARK 465 ILE A 23 REMARK 465 ALA A 24 REMARK 465 GLU A 43 REMARK 465 GLN A 44 REMARK 465 ALA A 45 REMARK 465 GLU A 46 REMARK 465 LYS A 47 REMARK 465 LYS A 48 REMARK 465 VAL A 49 REMARK 465 HIS A 50 REMARK 465 GLY A 51 REMARK 465 GLY B -5 REMARK 465 SER B -4 REMARK 465 ALA B -3 REMARK 465 LYS B -2 REMARK 465 ASP B -1 REMARK 465 LYS B 11 REMARK 465 ILE B 12 REMARK 465 GLN B 13 REMARK 465 ALA B 14 REMARK 465 TYR B 15 REMARK 465 PRO B 16 REMARK 465 GLU B 17 REMARK 465 GLY B 18 REMARK 465 LYS B 19 REMARK 465 PRO B 20 REMARK 465 SER B 21 REMARK 465 ALA B 22 REMARK 465 ILE B 23 REMARK 465 ALA B 24 REMARK 465 GLU B 43 REMARK 465 GLN B 44 REMARK 465 ALA B 45 REMARK 465 GLU B 46 REMARK 465 LYS B 47 REMARK 465 LYS B 48 REMARK 465 VAL B 49 REMARK 465 HIS B 50 REMARK 465 GLY B 51 REMARK 465 LYS B 224 REMARK 470 REMARK 470 MISSING ATOM REMARK 470 THE FOLLOWING RESIDUES HAVE MISSING ATOMS (M=MODEL NUMBER; REMARK 470 RES=RESIDUE NAME; C=CHAIN IDENTIFIER; SSEQ=SEQUENCE NUMBER; REMARK 470 I=INSERTION CODE): REMARK 470 M RES CSSEQI ATOMS REMARK 470 LEU A 66 CG CD1 CD2 REMARK 470 GLU A 74 CG CD OE1 OE2 REMARK 470 GLU A 77 CG CD OE1 OE2 REMARK 470 ASP A 128 CG OD1 OD2 REMARK 470 LYS A 153 CD CE NZ REMARK 470 ARG B 2 CG CD NE CZ NH1 NH2 REMARK 470 ARG B 55 CG CD NE CZ NH1 NH2 REMARK 470 LYS B 213 CG CD CE NZ REMARK 470 ARG B 219 CG CD NE CZ NH1 NH2 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 PRO A 82 51.19 -100.73 REMARK 500 PRO B 82 54.26 -102.80 REMARK 500 TRP B 222 -42.73 -133.46 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 301 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC2 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue PO4 B 301 REMARK 900 REMARK 900 RELATED ENTRIES REMARK 900 RELATED ID: 5YHH RELATED DB: PDB DBREF 5YHI A 1 224 UNP P32157 YIIM_ECOLI 1 224 DBREF 5YHI B 1 224 UNP P32157 YIIM_ECOLI 1 224 SEQADV 5YHI GLY A -5 UNP P32157 EXPRESSION TAG SEQADV 5YHI SER A -4 UNP P32157 EXPRESSION TAG SEQADV 5YHI ALA A -3 UNP P32157 EXPRESSION TAG SEQADV 5YHI LYS A -2 UNP P32157 EXPRESSION TAG SEQADV 5YHI ASP A -1 UNP P32157 EXPRESSION TAG SEQADV 5YHI PRO A 0 UNP P32157 EXPRESSION TAG SEQADV 5YHI GLY B -5 UNP P32157 EXPRESSION TAG SEQADV 5YHI SER B -4 UNP P32157 EXPRESSION TAG SEQADV 5YHI ALA B -3 UNP P32157 EXPRESSION TAG SEQADV 5YHI LYS B -2 UNP P32157 EXPRESSION TAG SEQADV 5YHI ASP B -1 UNP P32157 EXPRESSION TAG SEQADV 5YHI PRO B 0 UNP P32157 EXPRESSION TAG SEQRES 1 A 230 GLY SER ALA LYS ASP PRO MET ARG TYR PRO VAL ASP VAL SEQRES 2 A 230 TYR THR GLY LYS ILE GLN ALA TYR PRO GLU GLY LYS PRO SEQRES 3 A 230 SER ALA ILE ALA LYS ILE GLN VAL ASP GLY GLU LEU MET SEQRES 4 A 230 LEU THR GLU LEU GLY LEU GLU GLY ASP GLU GLN ALA GLU SEQRES 5 A 230 LYS LYS VAL HIS GLY GLY PRO ASP ARG ALA LEU CYS HIS SEQRES 6 A 230 TYR PRO ARG GLU HIS TYR LEU TYR TRP ALA ARG GLU PHE SEQRES 7 A 230 PRO GLU GLN ALA GLU LEU PHE VAL ALA PRO ALA PHE GLY SEQRES 8 A 230 GLU ASN LEU SER THR ASP GLY LEU THR GLU SER ASN VAL SEQRES 9 A 230 TYR MET GLY ASP ILE PHE ARG TRP GLY GLU ALA LEU ILE SEQRES 10 A 230 GLN VAL SER GLN PRO ARG SER PRO CYS TYR LYS LEU ASN SEQRES 11 A 230 TYR HIS PHE ASP ILE SER ASP ILE ALA GLN LEU MET GLN SEQRES 12 A 230 ASN THR GLY LYS VAL GLY TRP LEU TYR SER VAL ILE ALA SEQRES 13 A 230 PRO GLY LYS VAL SER ALA ASP ALA PRO LEU GLU LEU VAL SEQRES 14 A 230 SER ARG VAL SER ASP VAL THR VAL GLN GLU ALA ALA ALA SEQRES 15 A 230 ILE ALA TRP HIS MET PRO PHE ASP ASP ASP GLN TYR HIS SEQRES 16 A 230 ARG LEU LEU SER ALA ALA GLY LEU SER LYS SER TRP THR SEQRES 17 A 230 ARG THR MET GLN LYS ARG ARG LEU SER GLY LYS ILE GLU SEQRES 18 A 230 ASP PHE SER ARG ARG LEU TRP GLY LYS SEQRES 1 B 230 GLY SER ALA LYS ASP PRO MET ARG TYR PRO VAL ASP VAL SEQRES 2 B 230 TYR THR GLY LYS ILE GLN ALA TYR PRO GLU GLY LYS PRO SEQRES 3 B 230 SER ALA ILE ALA LYS ILE GLN VAL ASP GLY GLU LEU MET SEQRES 4 B 230 LEU THR GLU LEU GLY LEU GLU GLY ASP GLU GLN ALA GLU SEQRES 5 B 230 LYS LYS VAL HIS GLY GLY PRO ASP ARG ALA LEU CYS HIS SEQRES 6 B 230 TYR PRO ARG GLU HIS TYR LEU TYR TRP ALA ARG GLU PHE SEQRES 7 B 230 PRO GLU GLN ALA GLU LEU PHE VAL ALA PRO ALA PHE GLY SEQRES 8 B 230 GLU ASN LEU SER THR ASP GLY LEU THR GLU SER ASN VAL SEQRES 9 B 230 TYR MET GLY ASP ILE PHE ARG TRP GLY GLU ALA LEU ILE SEQRES 10 B 230 GLN VAL SER GLN PRO ARG SER PRO CYS TYR LYS LEU ASN SEQRES 11 B 230 TYR HIS PHE ASP ILE SER ASP ILE ALA GLN LEU MET GLN SEQRES 12 B 230 ASN THR GLY LYS VAL GLY TRP LEU TYR SER VAL ILE ALA SEQRES 13 B 230 PRO GLY LYS VAL SER ALA ASP ALA PRO LEU GLU LEU VAL SEQRES 14 B 230 SER ARG VAL SER ASP VAL THR VAL GLN GLU ALA ALA ALA SEQRES 15 B 230 ILE ALA TRP HIS MET PRO PHE ASP ASP ASP GLN TYR HIS SEQRES 16 B 230 ARG LEU LEU SER ALA ALA GLY LEU SER LYS SER TRP THR SEQRES 17 B 230 ARG THR MET GLN LYS ARG ARG LEU SER GLY LYS ILE GLU SEQRES 18 B 230 ASP PHE SER ARG ARG LEU TRP GLY LYS HET PO4 A 301 5 HET PO4 B 301 5 HETNAM PO4 PHOSPHATE ION FORMUL 3 PO4 2(O4 P 3-) HELIX 1 AA1 GLY A 52 ALA A 56 5 5 HELIX 2 AA2 GLU A 63 PHE A 72 1 10 HELIX 3 AA3 PRO A 73 PHE A 79 5 7 HELIX 4 AA4 TYR A 121 ASP A 128 1 8 HELIX 5 AA5 ASP A 131 GLY A 140 1 10 HELIX 6 AA6 THR A 170 HIS A 180 1 11 HELIX 7 AA7 ASP A 184 SER A 193 1 10 HELIX 8 AA8 SER A 198 GLY A 212 1 15 HELIX 9 AA9 PHE A 217 GLY A 223 1 7 HELIX 10 AB1 GLY B 52 ALA B 56 5 5 HELIX 11 AB2 GLU B 63 PHE B 72 1 10 HELIX 12 AB3 PRO B 73 PHE B 79 5 7 HELIX 13 AB4 TYR B 121 ASP B 128 1 8 HELIX 14 AB5 ASP B 131 GLY B 140 1 10 HELIX 15 AB6 THR B 170 HIS B 180 1 11 HELIX 16 AB7 ASP B 184 SER B 193 1 10 HELIX 17 AB8 SER B 198 GLY B 212 1 15 HELIX 18 AB9 PHE B 217 GLY B 223 1 7 SHEET 1 AA1 9 ARG A 2 TYR A 3 0 SHEET 2 AA1 9 LEU A 160 SER A 164 -1 O LEU A 160 N TYR A 3 SHEET 3 AA1 9 ILE A 103 TRP A 106 -1 N ILE A 103 O VAL A 163 SHEET 4 AA1 9 ALA A 109 PRO A 116 -1 O ILE A 111 N PHE A 104 SHEET 5 AA1 9 TRP A 144 ALA A 150 -1 O LEU A 145 N SER A 114 SHEET 6 AA1 9 LEU A 57 PRO A 61 -1 N HIS A 59 O TRP A 144 SHEET 7 AA1 9 LEU A 88 THR A 90 1 O LEU A 88 N TYR A 60 SHEET 8 AA1 9 ASP A 6 THR A 9 -1 N ASP A 6 O SER A 89 SHEET 9 AA1 9 ILE A 26 VAL A 28 -1 O ILE A 26 N THR A 9 SHEET 1 AA2 3 GLY A 38 LEU A 39 0 SHEET 2 AA2 3 GLU A 31 THR A 35 -1 N THR A 35 O GLY A 38 SHEET 3 AA2 3 GLY A 152 SER A 155 -1 O VAL A 154 N LEU A 32 SHEET 1 AA3 9 ARG B 2 TYR B 3 0 SHEET 2 AA3 9 LEU B 160 SER B 164 -1 O LEU B 160 N TYR B 3 SHEET 3 AA3 9 ILE B 103 TRP B 106 -1 N ILE B 103 O SER B 164 SHEET 4 AA3 9 ALA B 109 PRO B 116 -1 O ILE B 111 N PHE B 104 SHEET 5 AA3 9 TRP B 144 ALA B 150 -1 O SER B 147 N GLN B 112 SHEET 6 AA3 9 LEU B 57 PRO B 61 -1 N LEU B 57 O TYR B 146 SHEET 7 AA3 9 LEU B 88 THR B 90 1 O LEU B 88 N CYS B 58 SHEET 8 AA3 9 ASP B 6 THR B 9 -1 N ASP B 6 O SER B 89 SHEET 9 AA3 9 ILE B 26 VAL B 28 -1 O ILE B 26 N THR B 9 SHEET 1 AA4 3 GLY B 38 LEU B 39 0 SHEET 2 AA4 3 GLU B 31 THR B 35 -1 N THR B 35 O GLY B 38 SHEET 3 AA4 3 GLY B 152 SER B 155 -1 O VAL B 154 N LEU B 32 CISPEP 1 ALA A 81 PRO A 82 0 -3.96 CISPEP 2 ALA B 81 PRO B 82 0 -0.88 SITE 1 AC1 4 GLN A 115 SER A 118 SER A 200 TRP A 201 SITE 1 AC2 4 GLN B 115 SER B 118 SER B 200 TRP B 201 CRYST1 56.162 84.837 107.630 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 0.017806 0.000000 0.000000 0.00000 SCALE2 0.000000 0.011787 0.000000 0.00000 SCALE3 0.000000 0.000000 0.009291 0.00000