HEADER OXIDOREDUCTASE 09-SEP-16 5T9F TITLE PREPHENATE DEHYDROGENASE N222D MUTANT FROM SOYBEAN COMPND MOL_ID: 1; COMPND 2 MOLECULE: PREPHENATE DEHYDROGENASE 1; COMPND 3 CHAIN: A, B; COMPND 4 SYNONYM: UNCHARACTERIZED PROTEIN; COMPND 5 EC: 1.3.1.13; COMPND 6 ENGINEERED: YES; COMPND 7 MUTATION: YES SOURCE MOL_ID: 1; SOURCE 2 ORGANISM_SCIENTIFIC: GLYCINE MAX; SOURCE 3 ORGANISM_COMMON: SOYBEAN; SOURCE 4 ORGANISM_TAXID: 3847; SOURCE 5 GENE: PDH1, GLYMA_18G023100; SOURCE 6 EXPRESSION_SYSTEM: ESCHERICHIA COLI; SOURCE 7 EXPRESSION_SYSTEM_TAXID: 562; SOURCE 8 EXPRESSION_SYSTEM_CELL_LINE: ROSETTA 2; SOURCE 9 EXPRESSION_SYSTEM_PLASMID: PET28A KEYWDS DEHYDROGENASE, TYROSINE BIOSYNTHESIS, OXIDOREDUCTASE EXPDTA X-RAY DIFFRACTION AUTHOR C.K.HOLLAND,J.M.JEZ REVDAT 7 06-MAR-24 5T9F 1 REMARK REVDAT 6 27-NOV-19 5T9F 1 REMARK REVDAT 5 18-APR-18 5T9F 1 REMARK REVDAT 4 27-SEP-17 5T9F 1 REMARK REVDAT 3 30-AUG-17 5T9F 1 JRNL REVDAT 2 19-JUL-17 5T9F 1 JRNL REVDAT 1 28-JUN-17 5T9F 0 JRNL AUTH C.A.SCHENCK,C.K.HOLLAND,M.R.SCHNEIDER,Y.MEN,S.G.LEE,J.M.JEZ, JRNL AUTH 2 H.A.MAEDA JRNL TITL MOLECULAR BASIS OF THE EVOLUTION OF ALTERNATIVE TYROSINE JRNL TITL 2 BIOSYNTHETIC ROUTES IN PLANTS. JRNL REF NAT. CHEM. BIOL. V. 13 1029 2017 JRNL REFN ESSN 1552-4469 JRNL PMID 28671678 JRNL DOI 10.1038/NCHEMBIO.2414 REMARK 2 REMARK 2 RESOLUTION. 1.99 ANGSTROMS. REMARK 3 REMARK 3 REFINEMENT. REMARK 3 PROGRAM : PHENIX (1.10.1_2155: ???) REMARK 3 AUTHORS : PAUL ADAMS,PAVEL AFONINE,VINCENT CHEN,IAN REMARK 3 : DAVIS,KRESHNA GOPAL,RALF GROSSE-KUNSTLEVE, REMARK 3 : LI-WEI HUNG,ROBERT IMMORMINO,TOM IOERGER, REMARK 3 : AIRLIE MCCOY,ERIK MCKEE,NIGEL MORIARTY, REMARK 3 : REETAL PAI,RANDY READ,JANE RICHARDSON, REMARK 3 : DAVID RICHARDSON,TOD ROMO,JIM SACCHETTINI, REMARK 3 : NICHOLAS SAUTER,JACOB SMITH,LAURENT REMARK 3 : STORONI,TOM TERWILLIGER,PETER ZWART REMARK 3 REMARK 3 REFINEMENT TARGET : NULL REMARK 3 REMARK 3 DATA USED IN REFINEMENT. REMARK 3 RESOLUTION RANGE HIGH (ANGSTROMS) : 1.99 REMARK 3 RESOLUTION RANGE LOW (ANGSTROMS) : 33.85 REMARK 3 MIN(FOBS/SIGMA_FOBS) : 1.980 REMARK 3 COMPLETENESS FOR RANGE (%) : 88.4 REMARK 3 NUMBER OF REFLECTIONS : 36686 REMARK 3 REMARK 3 FIT TO DATA USED IN REFINEMENT. REMARK 3 R VALUE (WORKING + TEST SET) : 0.160 REMARK 3 R VALUE (WORKING SET) : 0.158 REMARK 3 FREE R VALUE : 0.206 REMARK 3 FREE R VALUE TEST SET SIZE (%) : 4.990 REMARK 3 FREE R VALUE TEST SET COUNT : 1832 REMARK 3 REMARK 3 FIT TO DATA USED IN REFINEMENT (IN BINS). REMARK 3 BIN RESOLUTION RANGE COMPL. NWORK NFREE RWORK RFREE REMARK 3 1 33.8505 - 4.6853 0.93 2823 154 0.1484 0.1850 REMARK 3 2 4.6853 - 3.7204 0.90 2743 141 0.1290 0.1710 REMARK 3 3 3.7204 - 3.2505 0.94 2832 151 0.1504 0.2040 REMARK 3 4 3.2505 - 2.9535 0.91 2751 151 0.1615 0.2137 REMARK 3 5 2.9535 - 2.7419 0.90 2703 146 0.1622 0.2115 REMARK 3 6 2.7419 - 2.5803 0.91 2801 131 0.1667 0.2062 REMARK 3 7 2.5803 - 2.4512 0.92 2758 153 0.1699 0.2028 REMARK 3 8 2.4512 - 2.3445 0.91 2775 141 0.1705 0.2547 REMARK 3 9 2.3445 - 2.2542 0.81 2493 129 0.1855 0.2444 REMARK 3 10 2.2542 - 2.1765 0.85 2565 141 0.1887 0.2432 REMARK 3 11 2.1765 - 2.1084 0.85 2558 130 0.1856 0.2225 REMARK 3 12 2.1084 - 2.0482 0.86 2632 140 0.1803 0.2477 REMARK 3 13 2.0482 - 1.9943 0.80 2420 124 0.1955 0.2645 REMARK 3 REMARK 3 BULK SOLVENT MODELLING. REMARK 3 METHOD USED : NULL REMARK 3 SOLVENT RADIUS : 1.11 REMARK 3 SHRINKAGE RADIUS : 0.90 REMARK 3 K_SOL : NULL REMARK 3 B_SOL : NULL REMARK 3 REMARK 3 ERROR ESTIMATES. REMARK 3 COORDINATE ERROR (MAXIMUM-LIKELIHOOD BASED) : 0.210 REMARK 3 PHASE ERROR (DEGREES, MAXIMUM-LIKELIHOOD BASED) : 20.180 REMARK 3 REMARK 3 B VALUES. REMARK 3 FROM WILSON PLOT (A**2) : NULL REMARK 3 MEAN B VALUE (OVERALL, A**2) : NULL REMARK 3 OVERALL ANISOTROPIC B VALUE. REMARK 3 B11 (A**2) : NULL REMARK 3 B22 (A**2) : NULL REMARK 3 B33 (A**2) : NULL REMARK 3 B12 (A**2) : NULL REMARK 3 B13 (A**2) : NULL REMARK 3 B23 (A**2) : NULL REMARK 3 REMARK 3 TWINNING INFORMATION. REMARK 3 FRACTION: NULL REMARK 3 OPERATOR: NULL REMARK 3 REMARK 3 DEVIATIONS FROM IDEAL VALUES. REMARK 3 RMSD COUNT REMARK 3 BOND : 0.008 4266 REMARK 3 ANGLE : 0.912 5783 REMARK 3 CHIRALITY : 0.054 664 REMARK 3 PLANARITY : 0.005 723 REMARK 3 DIHEDRAL : 14.333 2535 REMARK 3 REMARK 3 TLS DETAILS REMARK 3 NUMBER OF TLS GROUPS : 12 REMARK 3 TLS GROUP : 1 REMARK 3 SELECTION: ( CHAIN A AND RESID 9:183 ) REMARK 3 ORIGIN FOR THE GROUP (A): 1.6191 -44.4711 -32.7838 REMARK 3 T TENSOR REMARK 3 T11: 0.1891 T22: 0.1844 REMARK 3 T33: 0.2057 T12: 0.0016 REMARK 3 T13: 0.0193 T23: 0.0042 REMARK 3 L TENSOR REMARK 3 L11: 2.0193 L22: 0.8992 REMARK 3 L33: 2.1351 L12: 0.2821 REMARK 3 L13: 0.8249 L23: 0.5962 REMARK 3 S TENSOR REMARK 3 S11: 0.0016 S12: 0.1208 S13: -0.0473 REMARK 3 S21: -0.0857 S22: 0.0201 S23: -0.0503 REMARK 3 S31: -0.0496 S32: 0.0813 S33: -0.0239 REMARK 3 TLS GROUP : 2 REMARK 3 SELECTION: ( CHAIN A AND RESID 184:257 ) REMARK 3 ORIGIN FOR THE GROUP (A): -16.9193 -55.8393 -14.5677 REMARK 3 T TENSOR REMARK 3 T11: 0.1399 T22: 0.1791 REMARK 3 T33: 0.1838 T12: 0.0134 REMARK 3 T13: 0.0002 T23: -0.0148 REMARK 3 L TENSOR REMARK 3 L11: 0.1915 L22: 3.2992 REMARK 3 L33: 2.6200 L12: 0.5342 REMARK 3 L13: -0.4727 L23: -1.9912 REMARK 3 S TENSOR REMARK 3 S11: -0.0272 S12: 0.0224 S13: 0.0294 REMARK 3 S21: 0.1331 S22: -0.0429 S23: -0.1352 REMARK 3 S31: -0.0336 S32: 0.1471 S33: 0.0794 REMARK 3 TLS GROUP : 3 REMARK 3 SELECTION: ( CHAIN B AND RESID 8:50 ) REMARK 3 ORIGIN FOR THE GROUP (A): 15.7009 -40.2653 -5.9646 REMARK 3 T TENSOR REMARK 3 T11: 0.1868 T22: 0.1664 REMARK 3 T33: 0.2350 T12: -0.0065 REMARK 3 T13: 0.0228 T23: -0.0026 REMARK 3 L TENSOR REMARK 3 L11: 2.7377 L22: 3.7682 REMARK 3 L33: 2.7994 L12: -1.2163 REMARK 3 L13: -0.5006 L23: 0.4283 REMARK 3 S TENSOR REMARK 3 S11: 0.0348 S12: -0.1090 S13: -0.0428 REMARK 3 S21: -0.0047 S22: -0.0107 S23: -0.2020 REMARK 3 S31: 0.1091 S32: 0.0499 S33: -0.0019 REMARK 3 TLS GROUP : 4 REMARK 3 SELECTION: ( CHAIN B AND RESID 51:83 ) REMARK 3 ORIGIN FOR THE GROUP (A): 7.3209 -39.0543 0.6434 REMARK 3 T TENSOR REMARK 3 T11: 0.2456 T22: 0.2491 REMARK 3 T33: 0.2904 T12: -0.0304 REMARK 3 T13: 0.0264 T23: 0.0104 REMARK 3 L TENSOR REMARK 3 L11: 1.9809 L22: 4.9683 REMARK 3 L33: 2.1359 L12: -0.1034 REMARK 3 L13: -0.7700 L23: 0.8605 REMARK 3 S TENSOR REMARK 3 S11: -0.0391 S12: 0.0152 S13: -0.2536 REMARK 3 S21: 0.3487 S22: -0.1072 S23: 0.2136 REMARK 3 S31: 0.2596 S32: -0.2181 S33: 0.1010 REMARK 3 TLS GROUP : 5 REMARK 3 SELECTION: ( CHAIN B AND RESID 84:113 ) REMARK 3 ORIGIN FOR THE GROUP (A): 8.5770 -31.8349 8.2085 REMARK 3 T TENSOR REMARK 3 T11: 0.3551 T22: 0.2691 REMARK 3 T33: 0.2224 T12: -0.0115 REMARK 3 T13: 0.0753 T23: -0.0128 REMARK 3 L TENSOR REMARK 3 L11: 3.0327 L22: 2.8571 REMARK 3 L33: 3.5762 L12: 0.9911 REMARK 3 L13: 0.0226 L23: -0.4280 REMARK 3 S TENSOR REMARK 3 S11: -0.0478 S12: -0.1984 S13: -0.2317 REMARK 3 S21: 0.5256 S22: 0.0604 S23: 0.3296 REMARK 3 S31: 0.2834 S32: -0.3554 S33: 0.0020 REMARK 3 TLS GROUP : 6 REMARK 3 SELECTION: ( CHAIN B AND RESID 114:183 ) REMARK 3 ORIGIN FOR THE GROUP (A): 21.2485 -27.2415 4.1938 REMARK 3 T TENSOR REMARK 3 T11: 0.2083 T22: 0.1946 REMARK 3 T33: 0.2233 T12: -0.0006 REMARK 3 T13: -0.0400 T23: -0.0074 REMARK 3 L TENSOR REMARK 3 L11: 2.1089 L22: 4.0134 REMARK 3 L33: 1.5062 L12: -0.3077 REMARK 3 L13: 0.6303 L23: 0.3667 REMARK 3 S TENSOR REMARK 3 S11: -0.0101 S12: -0.0585 S13: -0.0536 REMARK 3 S21: 0.3672 S22: -0.0038 S23: -0.4763 REMARK 3 S31: 0.0153 S32: 0.1142 S33: 0.0149 REMARK 3 TLS GROUP : 7 REMARK 3 SELECTION: ( CHAIN B AND RESID 184:206 ) REMARK 3 ORIGIN FOR THE GROUP (A): 15.2379 -10.8176 -18.8330 REMARK 3 T TENSOR REMARK 3 T11: 0.2524 T22: 0.2417 REMARK 3 T33: 0.2717 T12: -0.0003 REMARK 3 T13: 0.0205 T23: -0.0378 REMARK 3 L TENSOR REMARK 3 L11: 4.1097 L22: 2.7759 REMARK 3 L33: 3.1096 L12: 0.6560 REMARK 3 L13: -0.2354 L23: -0.6936 REMARK 3 S TENSOR REMARK 3 S11: -0.0470 S12: 0.5432 S13: -0.1450 REMARK 3 S21: -0.3147 S22: -0.0215 S23: 0.0303 REMARK 3 S31: 0.3019 S32: 0.0664 S33: 0.1342 REMARK 3 TLS GROUP : 8 REMARK 3 SELECTION: ( CHAIN B AND RESID 207:221 ) REMARK 3 ORIGIN FOR THE GROUP (A): 19.5124 -15.0534 -19.3099 REMARK 3 T TENSOR REMARK 3 T11: 0.3415 T22: 0.2265 REMARK 3 T33: 0.3105 T12: 0.0506 REMARK 3 T13: 0.0115 T23: -0.0344 REMARK 3 L TENSOR REMARK 3 L11: 1.6083 L22: 3.3517 REMARK 3 L33: 6.3291 L12: 1.8761 REMARK 3 L13: -2.7934 L23: -4.5448 REMARK 3 S TENSOR REMARK 3 S11: -0.4414 S12: 0.0614 S13: -0.5490 REMARK 3 S21: -0.4433 S22: 0.0972 S23: -0.7538 REMARK 3 S31: 0.6443 S32: 0.3095 S33: 0.3642 REMARK 3 TLS GROUP : 9 REMARK 3 SELECTION: ( CHAIN B AND RESID 222:236 ) REMARK 3 ORIGIN FOR THE GROUP (A): 7.2953 -17.4036 -3.7970 REMARK 3 T TENSOR REMARK 3 T11: 0.1640 T22: 0.1805 REMARK 3 T33: 0.2546 T12: 0.0246 REMARK 3 T13: 0.0006 T23: 0.0251 REMARK 3 L TENSOR REMARK 3 L11: 1.7385 L22: 3.4848 REMARK 3 L33: 4.6179 L12: -0.0543 REMARK 3 L13: -0.0928 L23: 2.0014 REMARK 3 S TENSOR REMARK 3 S11: 0.1123 S12: -0.0917 S13: -0.1572 REMARK 3 S21: 0.0339 S22: -0.1253 S23: 0.4079 REMARK 3 S31: 0.1101 S32: -0.2696 S33: -0.0380 REMARK 3 TLS GROUP : 10 REMARK 3 SELECTION: ( CHAIN B AND RESID 237:260 ) REMARK 3 ORIGIN FOR THE GROUP (A): 11.8783 4.3617 -9.7470 REMARK 3 T TENSOR REMARK 3 T11: 0.2282 T22: 0.1946 REMARK 3 T33: 0.2391 T12: 0.0537 REMARK 3 T13: -0.0176 T23: -0.0563 REMARK 3 L TENSOR REMARK 3 L11: 3.0903 L22: 3.2240 REMARK 3 L33: 7.8062 L12: 0.6173 REMARK 3 L13: -0.7558 L23: -4.8923 REMARK 3 S TENSOR REMARK 3 S11: 0.1130 S12: 0.0746 S13: 0.1875 REMARK 3 S21: 0.4716 S22: 0.0369 S23: 0.2158 REMARK 3 S31: -0.5648 S32: -0.0699 S33: -0.2544 REMARK 3 TLS GROUP : 11 REMARK 3 SELECTION: ( CHAIN A AND RESID 302:302 ) REMARK 3 ORIGIN FOR THE GROUP (A): -4.3078 -53.1663 -22.5092 REMARK 3 T TENSOR REMARK 3 T11: 0.6767 T22: 0.6461 REMARK 3 T33: 0.7675 T12: 0.0153 REMARK 3 T13: 0.1830 T23: 0.1711 REMARK 3 L TENSOR REMARK 3 L11: 1.9999 L22: 1.9998 REMARK 3 L33: 2.0004 L12: 2.0002 REMARK 3 L13: 2.0001 L23: 1.9997 REMARK 3 S TENSOR REMARK 3 S11: 0.3302 S12: 0.1287 S13: -0.6834 REMARK 3 S21: -0.5576 S22: 0.0272 S23: 0.9912 REMARK 3 S31: 0.5925 S32: 0.1507 S33: -0.3285 REMARK 3 TLS GROUP : 12 REMARK 3 SELECTION: ( CHAIN B AND RESID 302:302 ) REMARK 3 ORIGIN FOR THE GROUP (A): 17.5190 -22.7315 -8.4560 REMARK 3 T TENSOR REMARK 3 T11: 0.7780 T22: 0.5209 REMARK 3 T33: 0.7396 T12: 0.2335 REMARK 3 T13: 0.0236 T23: 0.0090 REMARK 3 L TENSOR REMARK 3 L11: 2.1383 L22: 2.5580 REMARK 3 L33: 2.5690 L12: 1.7695 REMARK 3 L13: 1.6840 L23: 1.7801 REMARK 3 S TENSOR REMARK 3 S11: 0.0429 S12: -0.3601 S13: 0.2084 REMARK 3 S21: 0.0852 S22: 0.0197 S23: -0.0898 REMARK 3 S31: 0.1186 S32: 1.0539 S33: -0.0974 REMARK 3 REMARK 3 NCS DETAILS REMARK 3 NUMBER OF NCS GROUPS : NULL REMARK 3 REMARK 3 OTHER REFINEMENT REMARKS: NULL REMARK 4 REMARK 4 5T9F COMPLIES WITH FORMAT V. 3.30, 13-JUL-11 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY RCSB ON 14-SEP-16. REMARK 100 THE DEPOSITION ID IS D_1000223917. REMARK 200 REMARK 200 EXPERIMENTAL DETAILS REMARK 200 EXPERIMENT TYPE : X-RAY DIFFRACTION REMARK 200 DATE OF DATA COLLECTION : 25-JUL-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 : APS REMARK 200 BEAMLINE : 19-ID REMARK 200 X-RAY GENERATOR MODEL : NULL REMARK 200 MONOCHROMATIC OR LAUE (M/L) : M REMARK 200 WAVELENGTH OR RANGE (A) : 0.98 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 : NULL REMARK 200 DATA SCALING SOFTWARE : SCALEPACK REMARK 200 REMARK 200 NUMBER OF UNIQUE REFLECTIONS : 36694 REMARK 200 RESOLUTION RANGE HIGH (A) : 1.994 REMARK 200 RESOLUTION RANGE LOW (A) : 33.850 REMARK 200 REJECTION CRITERIA (SIGMA(I)) : NULL REMARK 200 REMARK 200 OVERALL. REMARK 200 COMPLETENESS FOR RANGE (%) : 88.9 REMARK 200 DATA REDUNDANCY : 1.700 REMARK 200 R MERGE (I) : NULL REMARK 200 R SYM (I) : NULL REMARK 200 FOR THE DATA SET : 10.1900 REMARK 200 REMARK 200 IN THE HIGHEST RESOLUTION SHELL. REMARK 200 HIGHEST RESOLUTION SHELL, RANGE HIGH (A) : 1.99 REMARK 200 HIGHEST RESOLUTION SHELL, RANGE LOW (A) : 2.05 REMARK 200 COMPLETENESS FOR SHELL (%) : 85.3 REMARK 200 DATA REDUNDANCY IN SHELL : NULL REMARK 200 R MERGE FOR SHELL (I) : NULL 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: NULL 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 (%): 52.01 REMARK 280 MATTHEWS COEFFICIENT, VM (ANGSTROMS**3/DA): 2.56 REMARK 280 REMARK 280 CRYSTALLIZATION CONDITIONS: 2 MM OF AN OXOMETALATES SOLUTION REMARK 280 CONTAINING 0.005 M SODIUM CHROMATE TETRAHYDRATE, 0.005 M SODIUM REMARK 280 MOLYBDATE DIHYDRATE, 0.005M SODIUM TUNGSTATE DIHYDRATE, AND REMARK 280 0.005 M SODIUM ORTHOVANADATE, 0.1 M OF MOPSO AND BIS-TRIS, PH REMARK 280 6.5, AND 50% V/V OF A PRECIPITANT MIXTURE OF 20% W/V PEG 8000 REMARK 280 AND 40% V/V 1,5-PENTANEDIOL, VAPOR DIFFUSION, HANGING DROP, REMARK 280 TEMPERATURE 277K REMARK 290 REMARK 290 CRYSTALLOGRAPHIC SYMMETRY REMARK 290 SYMMETRY OPERATORS FOR SPACE GROUP: P 1 REMARK 290 REMARK 290 SYMOP SYMMETRY REMARK 290 NNNMMM OPERATOR REMARK 290 1555 X,Y,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 REMARK 290 REMARK: NULL REMARK 300 REMARK 300 BIOMOLECULE: 1, 2 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 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 REMARK 350 BIOMOLECULE: 2 REMARK 350 SOFTWARE DETERMINED QUATERNARY STRUCTURE: DIMERIC REMARK 350 SOFTWARE USED: PISA REMARK 350 TOTAL BURIED SURFACE AREA: 7350 ANGSTROM**2 REMARK 350 SURFACE AREA OF THE COMPLEX: 20640 ANGSTROM**2 REMARK 350 CHANGE IN SOLVENT FREE ENERGY: -59.0 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 APPLY THE FOLLOWING TO CHAINS: B REMARK 350 BIOMT1 2 1.000000 0.000000 0.000000 -34.45584 REMARK 350 BIOMT2 2 0.000000 1.000000 0.000000 -53.72450 REMARK 350 BIOMT3 2 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 MET A 1 REMARK 465 SER A 2 REMARK 465 THR A 3 REMARK 465 SER A 4 REMARK 465 SER A 5 REMARK 465 SER A 6 REMARK 465 SER A 7 REMARK 465 GLN A 8 REMARK 465 GLN A 258 REMARK 465 ARG A 259 REMARK 465 THR A 260 REMARK 465 ASN A 261 REMARK 465 GLY A 262 REMARK 465 GLU A 263 REMARK 465 GLN A 264 REMARK 465 GLY A 265 REMARK 465 HIS A 266 REMARK 465 LYS A 267 REMARK 465 ARG A 268 REMARK 465 THR A 269 REMARK 465 GLU A 270 REMARK 465 SER A 271 REMARK 465 MET B 1 REMARK 465 SER B 2 REMARK 465 THR B 3 REMARK 465 SER B 4 REMARK 465 SER B 5 REMARK 465 SER B 6 REMARK 465 SER B 7 REMARK 465 ASN B 261 REMARK 465 GLY B 262 REMARK 465 GLU B 263 REMARK 465 GLN B 264 REMARK 465 GLY B 265 REMARK 465 HIS B 266 REMARK 465 LYS B 267 REMARK 465 ARG B 268 REMARK 465 THR B 269 REMARK 465 GLU B 270 REMARK 465 SER B 271 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 OD1 ASP B 67 O HOH B 401 1.88 REMARK 500 O HOH A 495 O HOH A 532 1.90 REMARK 500 OE1 GLN A 184 O HOH A 401 1.97 REMARK 500 O HOH B 532 O HOH B 563 1.97 REMARK 500 NH1 ARG B 112 O HOH B 402 1.98 REMARK 500 O HOH B 427 O HOH B 539 2.03 REMARK 500 OG SER A 101 OH TYR A 302 2.04 REMARK 500 OG SER B 84 O HOH B 403 2.08 REMARK 500 O HOH A 491 O HOH A 568 2.11 REMARK 500 O HOH B 444 O HOH B 585 2.13 REMARK 500 OE2 GLU B 116 O HOH B 404 2.14 REMARK 500 OG1 THR A 131 O TYR A 302 2.14 REMARK 500 O HOH A 584 O HOH A 628 2.16 REMARK 500 O HOH B 457 O HOH B 555 2.16 REMARK 500 OE2 GLU A 108 NH1 ARG A 112 2.17 REMARK 500 O HOH B 428 O HOH B 584 2.18 REMARK 500 O HOH B 558 O HOH B 575 2.19 REMARK 500 NH1 ARG B 238 O HOH B 405 2.19 REMARK 500 OD1 ASP A 198 O HOH A 402 2.19 REMARK 500 REMARK 500 REMARK: NULL REMARK 500 REMARK 500 GEOMETRY AND STEREOCHEMISTRY REMARK 500 SUBTOPIC: CLOSE CONTACTS REMARK 500 REMARK 500 THE FOLLOWING ATOMS THAT ARE RELATED BY CRYSTALLOGRAPHIC REMARK 500 SYMMETRY ARE IN CLOSE CONTACT. AN ATOM LOCATED WITHIN 0.15 REMARK 500 ANGSTROMS OF A SYMMETRY RELATED ATOM IS ASSUMED TO BE ON A REMARK 500 SPECIAL POSITION AND IS, THEREFORE, LISTED IN REMARK 375 REMARK 500 INSTEAD OF REMARK 500. ATOMS WITH NON-BLANK ALTERNATE REMARK 500 LOCATION INDICATORS ARE NOT INCLUDED IN THE CALCULATIONS. REMARK 500 REMARK 500 DISTANCE CUTOFF: REMARK 500 2.2 ANGSTROMS FOR CONTACTS NOT INVOLVING HYDROGEN ATOMS REMARK 500 1.6 ANGSTROMS FOR CONTACTS INVOLVING HYDROGEN ATOMS REMARK 500 REMARK 500 ATM1 RES C SSEQI ATM2 RES C SSEQI SSYMOP DISTANCE REMARK 500 O HOH A 521 O HOH B 571 1445 2.08 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 PHE A 17 46.67 -102.97 REMARK 500 MET A 126 40.26 -78.86 REMARK 500 SER A 183 -76.42 -111.22 REMARK 500 PHE B 17 44.26 -100.88 REMARK 500 MET B 126 48.74 -84.61 REMARK 500 SER B 183 -76.66 -125.12 REMARK 500 REMARK 500 REMARK: NULL REMARK 525 REMARK 525 SOLVENT REMARK 525 REMARK 525 THE SOLVENT MOLECULES HAVE CHAIN IDENTIFIERS THAT REMARK 525 INDICATE THE POLYMER CHAIN WITH WHICH THEY ARE MOST REMARK 525 CLOSELY ASSOCIATED. THE REMARK LISTS ALL THE SOLVENT REMARK 525 MOLECULES WHICH ARE MORE THAN 5A AWAY FROM THE REMARK 525 NEAREST POLYMER CHAIN (M = MODEL NUMBER; REMARK 525 RES=RESIDUE NAME; C=CHAIN IDENTIFIER; SSEQ=SEQUENCE REMARK 525 NUMBER; I=INSERTION CODE): REMARK 525 REMARK 525 M RES CSSEQI REMARK 525 HOH A 633 DISTANCE = 6.20 ANGSTROMS REMARK 525 HOH A 634 DISTANCE = 6.51 ANGSTROMS REMARK 800 REMARK 800 SITE REMARK 800 SITE_IDENTIFIER: AC1 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue NAP A 301 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC2 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue TYR A 302 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC3 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue NAP B 301 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC4 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue TYR B 302 REMARK 900 REMARK 900 RELATED ENTRIES REMARK 900 RELATED ID: 5T9E RELATED DB: PDB REMARK 900 RELATED ID: 5T95 RELATED DB: PDB REMARK 900 RELATED ID: 5T8X RELATED DB: PDB DBREF 5T9F A 1 271 UNP I1MYY4 I1MYY4_SOYBN 1 271 DBREF 5T9F B 1 271 UNP I1MYY4 I1MYY4_SOYBN 1 271 SEQADV 5T9F ASP A 222 UNP I1MYY4 ASN 222 ENGINEERED MUTATION SEQADV 5T9F ASP B 222 UNP I1MYY4 ASN 222 ENGINEERED MUTATION SEQRES 1 A 271 MET SER THR SER SER SER SER GLN SER LEU LYS ILE GLY SEQRES 2 A 271 ILE VAL GLY PHE GLY ASN PHE GLY GLN PHE LEU ALA LYS SEQRES 3 A 271 THR MET ILE LYS GLN GLY HIS THR LEU THR ALA THR SER SEQRES 4 A 271 ARG SER ASP TYR SER GLU LEU CYS LEU GLN MET GLY ILE SEQRES 5 A 271 HIS PHE PHE ARG ASP VAL SER ALA PHE LEU THR ALA ASP SEQRES 6 A 271 ILE ASP VAL ILE VAL LEU CYS THR SER ILE LEU SER LEU SEQRES 7 A 271 SER GLU VAL VAL GLY SER MET PRO LEU THR SER LEU LYS SEQRES 8 A 271 ARG PRO THR LEU PHE VAL ASP VAL LEU SER VAL LYS GLU SEQRES 9 A 271 HIS PRO ARG GLU LEU LEU LEU ARG GLU LEU PRO GLU ASP SEQRES 10 A 271 SER ASP ILE LEU CYS THR HIS PRO MET PHE GLY PRO GLN SEQRES 11 A 271 THR ALA LYS ASN GLY TRP THR ASP HIS THR PHE MET TYR SEQRES 12 A 271 ASP LYS VAL ARG ILE ARG ASP GLU VAL ILE CYS SER ASN SEQRES 13 A 271 PHE ILE GLN ILE PHE ALA THR GLU GLY CYS LYS MET VAL SEQRES 14 A 271 GLN MET SER CYS GLU GLU HIS ASP ARG ALA ALA ALA LYS SEQRES 15 A 271 SER GLN PHE ILE THR HIS THR ILE GLY ARG THR LEU GLY SEQRES 16 A 271 GLU MET ASP ILE GLN SER THR PRO ILE ASP THR LYS GLY SEQRES 17 A 271 PHE GLU THR LEU VAL LYS LEU LYS GLU THR MET MET ARG SEQRES 18 A 271 ASP SER PHE ASP LEU TYR SER GLY LEU PHE VAL TYR ASN SEQRES 19 A 271 ARG PHE ALA ARG GLN GLU LEU GLU ASN LEU GLU HIS ALA SEQRES 20 A 271 LEU HIS LYS VAL LYS GLU THR LEU MET ILE GLN ARG THR SEQRES 21 A 271 ASN GLY GLU GLN GLY HIS LYS ARG THR GLU SER SEQRES 1 B 271 MET SER THR SER SER SER SER GLN SER LEU LYS ILE GLY SEQRES 2 B 271 ILE VAL GLY PHE GLY ASN PHE GLY GLN PHE LEU ALA LYS SEQRES 3 B 271 THR MET ILE LYS GLN GLY HIS THR LEU THR ALA THR SER SEQRES 4 B 271 ARG SER ASP TYR SER GLU LEU CYS LEU GLN MET GLY ILE SEQRES 5 B 271 HIS PHE PHE ARG ASP VAL SER ALA PHE LEU THR ALA ASP SEQRES 6 B 271 ILE ASP VAL ILE VAL LEU CYS THR SER ILE LEU SER LEU SEQRES 7 B 271 SER GLU VAL VAL GLY SER MET PRO LEU THR SER LEU LYS SEQRES 8 B 271 ARG PRO THR LEU PHE VAL ASP VAL LEU SER VAL LYS GLU SEQRES 9 B 271 HIS PRO ARG GLU LEU LEU LEU ARG GLU LEU PRO GLU ASP SEQRES 10 B 271 SER ASP ILE LEU CYS THR HIS PRO MET PHE GLY PRO GLN SEQRES 11 B 271 THR ALA LYS ASN GLY TRP THR ASP HIS THR PHE MET TYR SEQRES 12 B 271 ASP LYS VAL ARG ILE ARG ASP GLU VAL ILE CYS SER ASN SEQRES 13 B 271 PHE ILE GLN ILE PHE ALA THR GLU GLY CYS LYS MET VAL SEQRES 14 B 271 GLN MET SER CYS GLU GLU HIS ASP ARG ALA ALA ALA LYS SEQRES 15 B 271 SER GLN PHE ILE THR HIS THR ILE GLY ARG THR LEU GLY SEQRES 16 B 271 GLU MET ASP ILE GLN SER THR PRO ILE ASP THR LYS GLY SEQRES 17 B 271 PHE GLU THR LEU VAL LYS LEU LYS GLU THR MET MET ARG SEQRES 18 B 271 ASP SER PHE ASP LEU TYR SER GLY LEU PHE VAL TYR ASN SEQRES 19 B 271 ARG PHE ALA ARG GLN GLU LEU GLU ASN LEU GLU HIS ALA SEQRES 20 B 271 LEU HIS LYS VAL LYS GLU THR LEU MET ILE GLN ARG THR SEQRES 21 B 271 ASN GLY GLU GLN GLY HIS LYS ARG THR GLU SER HET NAP A 301 48 HET TYR A 302 13 HET NAP B 301 48 HET TYR B 302 13 HETNAM NAP NADP NICOTINAMIDE-ADENINE-DINUCLEOTIDE PHOSPHATE HETNAM TYR TYROSINE HETSYN NAP 2'-MONOPHOSPHOADENOSINE 5'-DIPHOSPHORIBOSE FORMUL 3 NAP 2(C21 H28 N7 O17 P3) FORMUL 4 TYR 2(C9 H11 N O3) FORMUL 7 HOH *435(H2 O) HELIX 1 AA1 GLY A 18 GLN A 31 1 14 HELIX 2 AA2 TYR A 43 GLY A 51 1 9 HELIX 3 AA3 ASP A 57 ALA A 64 1 8 HELIX 4 AA4 SER A 74 LEU A 76 5 3 HELIX 5 AA5 SER A 77 SER A 84 1 8 HELIX 6 AA6 MET A 85 LEU A 90 5 6 HELIX 7 AA7 LYS A 103 LEU A 114 1 12 HELIX 8 AA8 ASP A 150 THR A 163 1 14 HELIX 9 AA9 SER A 172 SER A 183 1 12 HELIX 10 AB1 SER A 183 ASP A 198 1 16 HELIX 11 AB2 THR A 206 MET A 220 1 15 HELIX 12 AB3 SER A 223 TYR A 233 1 11 HELIX 13 AB4 PHE A 236 ILE A 257 1 22 HELIX 14 AB5 GLY B 18 GLN B 31 1 14 HELIX 15 AB6 TYR B 43 GLY B 51 1 9 HELIX 16 AB7 ASP B 57 THR B 63 1 7 HELIX 17 AB8 SER B 74 LEU B 76 5 3 HELIX 18 AB9 SER B 77 SER B 84 1 8 HELIX 19 AC1 PRO B 86 LEU B 90 5 5 HELIX 20 AC2 LYS B 103 LEU B 114 1 12 HELIX 21 AC3 ASP B 150 GLU B 164 1 15 HELIX 22 AC4 SER B 172 SER B 183 1 12 HELIX 23 AC5 SER B 183 ASP B 198 1 16 HELIX 24 AC6 THR B 206 MET B 220 1 15 HELIX 25 AC7 SER B 223 TYR B 233 1 11 HELIX 26 AC8 PHE B 236 THR B 260 1 25 SHEET 1 AA1 8 HIS A 53 PHE A 55 0 SHEET 2 AA1 8 THR A 34 THR A 38 1 N ALA A 37 O PHE A 55 SHEET 3 AA1 8 LYS A 11 VAL A 15 1 N ILE A 14 O THR A 36 SHEET 4 AA1 8 VAL A 68 LEU A 71 1 O VAL A 68 N GLY A 13 SHEET 5 AA1 8 LEU A 95 ASP A 98 1 O VAL A 97 N LEU A 71 SHEET 6 AA1 8 ILE A 120 PRO A 125 1 O LEU A 121 N PHE A 96 SHEET 7 AA1 8 THR A 140 ARG A 147 -1 O ASP A 144 N CYS A 122 SHEET 8 AA1 8 LYS A 167 GLN A 170 1 O LYS A 167 N PHE A 141 SHEET 1 AA2 8 HIS B 53 PHE B 55 0 SHEET 2 AA2 8 THR B 34 THR B 38 1 N ALA B 37 O PHE B 55 SHEET 3 AA2 8 LYS B 11 VAL B 15 1 N ILE B 14 O THR B 36 SHEET 4 AA2 8 VAL B 68 LEU B 71 1 O VAL B 70 N GLY B 13 SHEET 5 AA2 8 LEU B 95 ASP B 98 1 O VAL B 97 N LEU B 71 SHEET 6 AA2 8 ILE B 120 PRO B 125 1 O LEU B 121 N PHE B 96 SHEET 7 AA2 8 THR B 140 ARG B 147 -1 O ARG B 147 N ILE B 120 SHEET 8 AA2 8 LYS B 167 GLN B 170 1 O LYS B 167 N PHE B 141 SITE 1 AC1 37 GLY A 16 PHE A 17 GLY A 18 ASN A 19 SITE 2 AC1 37 PHE A 20 SER A 39 ARG A 40 SER A 41 SITE 3 AC1 37 TYR A 43 CYS A 72 THR A 73 SER A 74 SITE 4 AC1 37 ILE A 75 SER A 77 GLU A 80 VAL A 81 SITE 5 AC1 37 VAL A 99 LEU A 100 SER A 101 PRO A 125 SITE 6 AC1 37 PHE A 127 GLY A 128 PRO A 129 ASP A 222 SITE 7 AC1 37 SER A 223 TYR A 302 HOH A 404 HOH A 420 SITE 8 AC1 37 HOH A 449 HOH A 463 HOH A 476 HOH A 481 SITE 9 AC1 37 HOH A 488 HOH A 492 HOH A 504 HOH A 510 SITE 10 AC1 37 HOH A 522 SITE 1 AC2 13 SER A 101 HIS A 124 PHE A 127 GLY A 128 SITE 2 AC2 13 PRO A 129 GLN A 130 THR A 131 GLN A 184 SITE 3 AC2 13 HIS A 188 ASP A 222 NAP A 301 HOH A 556 SITE 4 AC2 13 HOH A 578 SITE 1 AC3 36 GLY B 16 PHE B 17 GLY B 18 ASN B 19 SITE 2 AC3 36 PHE B 20 SER B 39 ARG B 40 SER B 41 SITE 3 AC3 36 TYR B 43 CYS B 72 THR B 73 SER B 74 SITE 4 AC3 36 ILE B 75 SER B 77 GLU B 80 VAL B 81 SITE 5 AC3 36 VAL B 99 LEU B 100 SER B 101 HIS B 124 SITE 6 AC3 36 PRO B 125 PHE B 127 GLY B 128 PRO B 129 SITE 7 AC3 36 ASP B 222 SER B 223 TYR B 302 HOH B 420 SITE 8 AC3 36 HOH B 435 HOH B 464 HOH B 465 HOH B 469 SITE 9 AC3 36 HOH B 472 HOH B 489 HOH B 497 HOH B 538 SITE 1 AC4 12 SER B 101 HIS B 124 PHE B 127 GLY B 128 SITE 2 AC4 12 PRO B 129 GLN B 130 THR B 131 GLN B 184 SITE 3 AC4 12 ASP B 222 NAP B 301 HOH B 425 HOH B 552 CRYST1 46.445 55.046 68.387 107.82 99.56 102.58 P 1 2 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 0.021531 0.004806 0.005709 0.00000 SCALE2 0.000000 0.018614 0.007080 0.00000 SCALE3 0.000000 0.000000 0.015865 0.00000