HEADER OXIDOREDUCTASE 04-MAR-21 7NRO TITLE CRYSTAL STRUCTURE OF ALKB IN COMPLEX WITH MANGANESE AND N-(4-((6- TITLE 2 ((CARBOXYMETHYL)CARBAMOYL)-5-HYDROXYPYRIDIN-2-YL)AMINO)PHENYL)-N- TITLE 3 OXOHYDROXYLAMMONIUM COMPND MOL_ID: 1; COMPND 2 MOLECULE: ALPHA-KETOGLUTARATE-DEPENDENT DIOXYGENASE ALKB; COMPND 3 CHAIN: A; COMPND 4 SYNONYM: ALKYLATED DNA REPAIR PROTEIN ALKB,DNA OXIDATIVE DEMETHYLASE COMPND 5 ALKB; COMPND 6 EC: 1.14.11.33; COMPND 7 ENGINEERED: YES SOURCE MOL_ID: 1; SOURCE 2 ORGANISM_SCIENTIFIC: ESCHERICHIA COLI K-12; SOURCE 3 ORGANISM_TAXID: 83333; SOURCE 4 GENE: ALKB, AIDD, B2212, JW2200; SOURCE 5 EXPRESSION_SYSTEM: ESCHERICHIA COLI 'BL21-GOLD(DE3)PLYSS AG'; SOURCE 6 EXPRESSION_SYSTEM_TAXID: 866768 KEYWDS ALPHA KETOGLUTARATE AND IRON DEPENDENT OXYGENASE, DNA DEMETHYLASE, KEYWDS 2 INHIBITOR COMPLEX, OXIDOREDUCTASE EXPDTA X-RAY DIFFRACTION AUTHOR S.SHISHODIA,P.MAHESWARAN,T.LEISSING,W.S.AIK,M.A.MCDONOUGH, AUTHOR 2 C.J.SCHOFIELD REVDAT 4 31-JAN-24 7NRO 1 REMARK REVDAT 3 08-DEC-21 7NRO 1 JRNL REMARK REVDAT 2 24-NOV-21 7NRO 1 AUTHOR JRNL REVDAT 1 13-OCT-21 7NRO 0 JRNL AUTH S.SHISHODIA,M.DEMETRIADES,D.ZHANG,N.Y.TAM,P.MAHESWARAN, JRNL AUTH 2 C.CLUNIE-O'CONNOR,A.TUMBER,I.K.H.LEUNG,Y.M.NG,T.M.LEISSING, JRNL AUTH 3 A.H.EL-SAGHEER,E.SALAH,T.BROWN,W.S.AIK,M.A.MCDONOUGH, JRNL AUTH 4 C.J.SCHOFIELD JRNL TITL STRUCTURE-BASED DESIGN OF SELECTIVE FAT MASS AND OBESITY JRNL TITL 2 ASSOCIATED PROTEIN (FTO) INHIBITORS. JRNL REF J.MED.CHEM. V. 64 16609 2021 JRNL REFN ISSN 0022-2623 JRNL PMID 34762429 JRNL DOI 10.1021/ACS.JMEDCHEM.1C01204 REMARK 2 REMARK 2 RESOLUTION. 1.25 ANGSTROMS. REMARK 3 REMARK 3 REFINEMENT. REMARK 3 PROGRAM : PHENIX 1.19.1_4122 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 : GEOSTD + MONOMER LIBRARY + CDL V1.2 REMARK 3 REMARK 3 DATA USED IN REFINEMENT. REMARK 3 RESOLUTION RANGE HIGH (ANGSTROMS) : 1.25 REMARK 3 RESOLUTION RANGE LOW (ANGSTROMS) : 35.15 REMARK 3 MIN(FOBS/SIGMA_FOBS) : 2.090 REMARK 3 COMPLETENESS FOR RANGE (%) : 92.9 REMARK 3 NUMBER OF REFLECTIONS : 50268 REMARK 3 REMARK 3 FIT TO DATA USED IN REFINEMENT. REMARK 3 R VALUE (WORKING + TEST SET) : 0.147 REMARK 3 R VALUE (WORKING SET) : 0.146 REMARK 3 FREE R VALUE : 0.164 REMARK 3 FREE R VALUE TEST SET SIZE (%) : 4.830 REMARK 3 FREE R VALUE TEST SET COUNT : 2427 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 35.1500 - 3.2100 0.93 2794 153 0.1581 0.1704 REMARK 3 2 3.2100 - 2.5500 0.93 2815 162 0.1399 0.1517 REMARK 3 3 2.5500 - 2.2300 0.93 2818 134 0.1329 0.1750 REMARK 3 4 2.2300 - 2.0300 0.93 2824 133 0.1283 0.1403 REMARK 3 5 2.0200 - 1.8800 0.93 2824 152 0.1363 0.1476 REMARK 3 6 1.8800 - 1.7700 0.93 2781 158 0.1443 0.1732 REMARK 3 7 1.7700 - 1.6800 0.93 2819 133 0.1506 0.1741 REMARK 3 8 1.6800 - 1.6100 0.93 2836 132 0.1451 0.1717 REMARK 3 9 1.6100 - 1.5500 0.94 2827 128 0.1463 0.1666 REMARK 3 10 1.5500 - 1.4900 0.94 2862 150 0.1438 0.1545 REMARK 3 11 1.4900 - 1.4500 0.93 2834 141 0.1534 0.1728 REMARK 3 12 1.4500 - 1.4000 0.93 2841 161 0.1624 0.1929 REMARK 3 13 1.4000 - 1.3700 0.93 2806 139 0.1680 0.1875 REMARK 3 14 1.3700 - 1.3300 0.93 2810 126 0.1671 0.1656 REMARK 3 15 1.3300 - 1.3000 0.92 2815 147 0.1610 0.1570 REMARK 3 16 1.3000 - 1.2800 0.92 2807 150 0.1646 0.1845 REMARK 3 17 1.2800 - 1.2500 0.91 2728 128 0.1757 0.1810 REMARK 3 REMARK 3 BULK SOLVENT MODELLING. REMARK 3 METHOD USED : FLAT BULK SOLVENT MODEL 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) : 0.095 REMARK 3 PHASE ERROR (DEGREES, MAXIMUM-LIKELIHOOD BASED) : 16.112 REMARK 3 REMARK 3 B VALUES. REMARK 3 FROM WILSON PLOT (A**2) : 13.08 REMARK 3 MEAN B VALUE (OVERALL, A**2) : 18.88 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 : 0.012 1722 REMARK 3 ANGLE : 1.204 2354 REMARK 3 CHIRALITY : 0.090 242 REMARK 3 PLANARITY : 0.017 335 REMARK 3 DIHEDRAL : 12.855 658 REMARK 3 REMARK 3 TLS DETAILS REMARK 3 NUMBER OF TLS GROUPS : 10 REMARK 3 TLS GROUP : 1 REMARK 3 SELECTION: CHAIN 'A' AND (RESID 14 THROUGH 29 ) REMARK 3 ORIGIN FOR THE GROUP (A): 2.1124 16.0821 -3.3495 REMARK 3 T TENSOR REMARK 3 T11: 0.1233 T22: 0.1239 REMARK 3 T33: 0.1547 T12: 0.0068 REMARK 3 T13: -0.0070 T23: -0.0047 REMARK 3 L TENSOR REMARK 3 L11: 0.9073 L22: 1.7704 REMARK 3 L33: 3.2939 L12: 0.2711 REMARK 3 L13: 0.4054 L23: -1.9648 REMARK 3 S TENSOR REMARK 3 S11: -0.1018 S12: -0.0406 S13: 0.1693 REMARK 3 S21: 0.0840 S22: 0.0590 S23: 0.0574 REMARK 3 S31: -0.4524 S32: -0.1809 S33: -0.0230 REMARK 3 TLS GROUP : 2 REMARK 3 SELECTION: CHAIN 'A' AND (RESID 30 THROUGH 41 ) REMARK 3 ORIGIN FOR THE GROUP (A): 6.9511 0.5991 -14.9735 REMARK 3 T TENSOR REMARK 3 T11: 0.1418 T22: 0.1562 REMARK 3 T33: 0.1293 T12: 0.0030 REMARK 3 T13: 0.0207 T23: -0.0104 REMARK 3 L TENSOR REMARK 3 L11: 1.3834 L22: 1.8536 REMARK 3 L33: 0.1215 L12: 1.5759 REMARK 3 L13: 0.3606 L23: 0.4641 REMARK 3 S TENSOR REMARK 3 S11: -0.0750 S12: 0.3414 S13: 0.0372 REMARK 3 S21: -0.5019 S22: 0.0677 S23: -0.3057 REMARK 3 S31: 0.0470 S32: 0.1303 S33: -0.0239 REMARK 3 TLS GROUP : 3 REMARK 3 SELECTION: CHAIN 'A' AND (RESID 42 THROUGH 59 ) REMARK 3 ORIGIN FOR THE GROUP (A): -4.8308 -9.9679 -2.5986 REMARK 3 T TENSOR REMARK 3 T11: 0.1435 T22: 0.1301 REMARK 3 T33: 0.1679 T12: -0.0121 REMARK 3 T13: -0.0039 T23: -0.0067 REMARK 3 L TENSOR REMARK 3 L11: 0.7154 L22: 0.5802 REMARK 3 L33: 0.0703 L12: -0.3523 REMARK 3 L13: 0.0738 L23: 0.0476 REMARK 3 S TENSOR REMARK 3 S11: -0.0094 S12: -0.2515 S13: -0.1077 REMARK 3 S21: 0.0621 S22: 0.0312 S23: 0.0196 REMARK 3 S31: 0.1741 S32: 0.0420 S33: 0.1916 REMARK 3 TLS GROUP : 4 REMARK 3 SELECTION: CHAIN 'A' AND (RESID 60 THROUGH 79 ) REMARK 3 ORIGIN FOR THE GROUP (A): 3.0107 -9.2300 2.7831 REMARK 3 T TENSOR REMARK 3 T11: 0.1875 T22: 0.1728 REMARK 3 T33: 0.2015 T12: -0.0287 REMARK 3 T13: -0.0082 T23: 0.0215 REMARK 3 L TENSOR REMARK 3 L11: 1.3267 L22: 0.9771 REMARK 3 L33: 0.3749 L12: 0.1038 REMARK 3 L13: 0.3545 L23: 0.2472 REMARK 3 S TENSOR REMARK 3 S11: 0.1221 S12: -0.3764 S13: -0.3731 REMARK 3 S21: 0.3478 S22: -0.0795 S23: 0.0559 REMARK 3 S31: 0.3642 S32: -0.2993 S33: 0.0292 REMARK 3 TLS GROUP : 5 REMARK 3 SELECTION: CHAIN 'A' AND (RESID 80 THROUGH 93 ) REMARK 3 ORIGIN FOR THE GROUP (A): 9.4193 -11.1773 -3.9326 REMARK 3 T TENSOR REMARK 3 T11: 0.1147 T22: 0.0904 REMARK 3 T33: 0.2031 T12: 0.0074 REMARK 3 T13: 0.0052 T23: -0.0127 REMARK 3 L TENSOR REMARK 3 L11: 0.0302 L22: 0.0310 REMARK 3 L33: 0.0360 L12: -0.0258 REMARK 3 L13: -0.0365 L23: 0.0014 REMARK 3 S TENSOR REMARK 3 S11: -0.1008 S12: 0.0446 S13: -0.1569 REMARK 3 S21: -0.0738 S22: 0.0490 S23: -0.0950 REMARK 3 S31: 0.0735 S32: 0.0284 S33: -0.0309 REMARK 3 TLS GROUP : 6 REMARK 3 SELECTION: CHAIN 'A' AND (RESID 94 THROUGH 106 ) REMARK 3 ORIGIN FOR THE GROUP (A): 12.9639 8.9350 -4.6422 REMARK 3 T TENSOR REMARK 3 T11: 0.1195 T22: 0.1328 REMARK 3 T33: 0.1696 T12: -0.0142 REMARK 3 T13: -0.0009 T23: -0.0118 REMARK 3 L TENSOR REMARK 3 L11: 0.0874 L22: 0.8055 REMARK 3 L33: 1.1536 L12: -0.2460 REMARK 3 L13: -0.2933 L23: 0.9513 REMARK 3 S TENSOR REMARK 3 S11: -0.0313 S12: 0.0577 S13: 0.2305 REMARK 3 S21: 0.0292 S22: 0.1019 S23: -0.2480 REMARK 3 S31: -0.0744 S32: 0.2065 S33: -0.0603 REMARK 3 TLS GROUP : 7 REMARK 3 SELECTION: CHAIN 'A' AND (RESID 107 THROUGH 142 ) REMARK 3 ORIGIN FOR THE GROUP (A): 2.0413 2.3891 3.6375 REMARK 3 T TENSOR REMARK 3 T11: 0.0686 T22: 0.0420 REMARK 3 T33: 0.0625 T12: 0.0233 REMARK 3 T13: -0.0310 T23: 0.0158 REMARK 3 L TENSOR REMARK 3 L11: 0.2135 L22: 1.1739 REMARK 3 L33: 1.2838 L12: -0.0027 REMARK 3 L13: 0.2187 L23: 0.7077 REMARK 3 S TENSOR REMARK 3 S11: -0.0415 S12: -0.0273 S13: -0.0616 REMARK 3 S21: 0.1097 S22: 0.1249 S23: -0.2641 REMARK 3 S31: -0.0018 S32: 0.1626 S33: 0.4759 REMARK 3 TLS GROUP : 8 REMARK 3 SELECTION: CHAIN 'A' AND (RESID 143 THROUGH 179 ) REMARK 3 ORIGIN FOR THE GROUP (A): -5.4237 9.6977 1.6124 REMARK 3 T TENSOR REMARK 3 T11: 0.1003 T22: 0.1081 REMARK 3 T33: 0.0920 T12: 0.0133 REMARK 3 T13: 0.0028 T23: -0.0081 REMARK 3 L TENSOR REMARK 3 L11: 0.6730 L22: 0.5962 REMARK 3 L33: 0.2224 L12: -0.0219 REMARK 3 L13: 0.1142 L23: -0.2513 REMARK 3 S TENSOR REMARK 3 S11: -0.0490 S12: -0.1053 S13: 0.0814 REMARK 3 S21: 0.1202 S22: 0.0637 S23: 0.0436 REMARK 3 S31: -0.0731 S32: -0.0546 S33: 0.0742 REMARK 3 TLS GROUP : 9 REMARK 3 SELECTION: CHAIN 'A' AND (RESID 180 THROUGH 189 ) REMARK 3 ORIGIN FOR THE GROUP (A): -3.4131 7.5194 9.4220 REMARK 3 T TENSOR REMARK 3 T11: 0.1431 T22: 0.1593 REMARK 3 T33: 0.1153 T12: 0.0046 REMARK 3 T13: -0.0063 T23: -0.0016 REMARK 3 L TENSOR REMARK 3 L11: 0.0059 L22: 0.0132 REMARK 3 L33: 0.0022 L12: 0.0265 REMARK 3 L13: -0.0042 L23: -0.0160 REMARK 3 S TENSOR REMARK 3 S11: 0.0072 S12: -0.1518 S13: 0.0202 REMARK 3 S21: 0.0438 S22: -0.0103 S23: 0.0082 REMARK 3 S31: -0.0207 S32: -0.0129 S33: -0.0002 REMARK 3 TLS GROUP : 10 REMARK 3 SELECTION: CHAIN 'A' AND (RESID 190 THROUGH 215 ) REMARK 3 ORIGIN FOR THE GROUP (A): -2.4045 3.2609 -7.0932 REMARK 3 T TENSOR REMARK 3 T11: 0.0908 T22: 0.1093 REMARK 3 T33: 0.0843 T12: -0.0090 REMARK 3 T13: -0.0119 T23: 0.0028 REMARK 3 L TENSOR REMARK 3 L11: 0.1877 L22: 0.2784 REMARK 3 L33: 0.0961 L12: 0.0643 REMARK 3 L13: -0.1319 L23: 0.0572 REMARK 3 S TENSOR REMARK 3 S11: -0.0364 S12: -0.0131 S13: 0.0106 REMARK 3 S21: 0.0202 S22: 0.0390 S23: -0.0218 REMARK 3 S31: 0.0181 S32: -0.0414 S33: -0.0850 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 7NRO COMPLIES WITH FORMAT V. 3.30, 13-JUL-11 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY PDBE ON 04-MAR-21. REMARK 100 THE DEPOSITION ID IS D_1292114487. REMARK 200 REMARK 200 EXPERIMENTAL DETAILS REMARK 200 EXPERIMENT TYPE : X-RAY DIFFRACTION REMARK 200 DATE OF DATA COLLECTION : 12-DEC-19 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 : DIAMOND REMARK 200 BEAMLINE : I24 REMARK 200 X-RAY GENERATOR MODEL : NULL REMARK 200 MONOCHROMATIC OR LAUE (M/L) : M REMARK 200 WAVELENGTH OR RANGE (A) : 0.9686 REMARK 200 MONOCHROMATOR : NULL REMARK 200 OPTICS : K-B MIRRORS REMARK 200 REMARK 200 DETECTOR TYPE : PIXEL REMARK 200 DETECTOR MANUFACTURER : DECTRIS PILATUS 6M-F REMARK 200 INTENSITY-INTEGRATION SOFTWARE : XIA2 0.6.277 REMARK 200 DATA SCALING SOFTWARE : AIMLESS 0.7.4 REMARK 200 REMARK 200 NUMBER OF UNIQUE REFLECTIONS : 50272 REMARK 200 RESOLUTION RANGE HIGH (A) : 1.250 REMARK 200 RESOLUTION RANGE LOW (A) : 35.150 REMARK 200 REJECTION CRITERIA (SIGMA(I)) : NULL REMARK 200 REMARK 200 OVERALL. REMARK 200 COMPLETENESS FOR RANGE (%) : 92.9 REMARK 200 DATA REDUNDANCY : 3.300 REMARK 200 R MERGE (I) : 0.05100 REMARK 200 R SYM (I) : NULL REMARK 200 FOR THE DATA SET : 20.4800 REMARK 200 REMARK 200 IN THE HIGHEST RESOLUTION SHELL. REMARK 200 HIGHEST RESOLUTION SHELL, RANGE HIGH (A) : 1.25 REMARK 200 HIGHEST RESOLUTION SHELL, RANGE LOW (A) : 1.27 REMARK 200 COMPLETENESS FOR SHELL (%) : 90.8 REMARK 200 DATA REDUNDANCY IN SHELL : 3.00 REMARK 200 R MERGE FOR SHELL (I) : 0.07540 REMARK 200 R SYM FOR SHELL (I) : NULL REMARK 200 FOR SHELL : 12.16 REMARK 200 REMARK 200 DIFFRACTION PROTOCOL: SINGLE WAVELENGTH REMARK 200 METHOD USED TO DETERMINE THE STRUCTURE: MOLECULAR REPLACEMENT REMARK 200 SOFTWARE USED: PHASER 2.8.2 REMARK 200 STARTING MODEL: 2FDJ REMARK 200 REMARK 200 REMARK: RHOMBOHEDRAL 150UM X 150UM X 100 UM REMARK 280 REMARK 280 CRYSTAL REMARK 280 SOLVENT CONTENT, VS (%): 41.28 REMARK 280 MATTHEWS COEFFICIENT, VM (ANGSTROMS**3/DA): 2.09 REMARK 280 REMARK 280 CRYSTALLIZATION CONDITIONS: 0.1M HEPES PH 7.5, 2MM MNCL2, 0.1M REMARK 280 NACL, 22% W/V PEG 3350, ALKB PROTEIN 20MG/ML, 2MM N-(4-((6- REMARK 280 ((CARBOXYMETHYL)CARBAMOYL)-5-HYDROXYPYRIDIN-2-YL)AMINO)PHENYL)-N- REMARK 280 OXOHYDROXYLAMMONIUM, 0.5% V/V DMSO, VAPOR DIFFUSION, SITTING REMARK 280 DROP, TEMPERATURE 293K 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 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 SOFTWARE DETERMINED QUATERNARY STRUCTURE: MONOMERIC REMARK 350 SOFTWARE USED: PISA REMARK 350 TOTAL BURIED SURFACE AREA: 120 ANGSTROM**2 REMARK 350 SURFACE AREA OF THE COMPLEX: 9440 ANGSTROM**2 REMARK 350 CHANGE IN SOLVENT FREE ENERGY: -5.0 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 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 LEU A 2 REMARK 465 ASP A 3 REMARK 465 LEU A 4 REMARK 465 PHE A 5 REMARK 465 ALA A 6 REMARK 465 ASP A 7 REMARK 465 ALA A 8 REMARK 465 GLU A 9 REMARK 465 PRO A 10 REMARK 465 TRP A 11 REMARK 465 GLN A 12 REMARK 465 GLU A 13 REMARK 465 GLU A 216 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 15 CG CD1 CD2 REMARK 470 LYS A 134 NZ REMARK 470 LYS A 160 CD CE NZ REMARK 470 LYS A 166 NZ REMARK 470 LYS A 214 CG CD CE NZ REMARK 470 LYS A 215 O CG CD CE NZ REMARK 500 REMARK 500 GEOMETRY AND STEREOCHEMISTRY REMARK 500 SUBTOPIC: CLOSE CONTACTS IN SAME ASYMMETRIC UNIT REMARK 500 REMARK 500 THE FOLLOWING ATOMS ARE IN CLOSE CONTACT. REMARK 500 REMARK 500 ATM1 RES C SSEQI ATM2 RES C SSEQI DISTANCE REMARK 500 O HOH A 515 O HOH A 570 2.11 REMARK 500 O HOH A 572 O HOH A 646 2.13 REMARK 500 O HOH A 421 O HOH A 581 2.13 REMARK 500 O HOH A 611 O HOH A 613 2.17 REMARK 500 O HOH A 593 O HOH A 611 2.19 REMARK 500 O HOH A 644 O HOH A 649 2.19 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 ILE A 201 -72.43 72.33 REMARK 500 REMARK 500 REMARK: NULL REMARK 500 REMARK 500 GEOMETRY AND STEREOCHEMISTRY REMARK 500 SUBTOPIC: PLANAR GROUPS REMARK 500 REMARK 500 PLANAR GROUPS IN THE FOLLOWING RESIDUES HAVE A TOTAL REMARK 500 RMS DISTANCE OF ALL ATOMS FROM THE BEST-FIT PLANE REMARK 500 BY MORE THAN AN EXPECTED VALUE OF 6*RMSD, WITH AN REMARK 500 RMSD 0.02 ANGSTROMS, OR AT LEAST ONE ATOM HAS REMARK 500 AN RMSD GREATER THAN THIS VALUE REMARK 500 (M=MODEL NUMBER; RES=RESIDUE NAME; C=CHAIN IDENTIFIER; REMARK 500 SSEQ=SEQUENCE NUMBER; I=INSERTION CODE). REMARK 500 REMARK 500 M RES CSSEQI RMS TYPE REMARK 500 ARG A 210 0.08 SIDE CHAIN 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 677 DISTANCE = 5.86 ANGSTROMS REMARK 525 HOH A 678 DISTANCE = 5.93 ANGSTROMS REMARK 525 HOH A 679 DISTANCE = 6.21 ANGSTROMS 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 302 MN REMARK 620 N RES CSSEQI ATOM REMARK 620 1 HIS A 131 NE2 REMARK 620 2 ASP A 133 OD1 96.1 REMARK 620 3 HIS A 187 NE2 86.5 91.2 REMARK 620 4 UPW A 301 N1 90.8 112.4 156.5 REMARK 620 5 UPW A 301 O 109.6 153.9 86.1 72.8 REMARK 620 6 HOH A 476 O 171.4 75.3 93.1 92.9 79.0 REMARK 620 N 1 2 3 4 5 REMARK 900 REMARK 900 RELATED ENTRIES REMARK 900 RELATED ID: 3T3Y RELATED DB: PDB REMARK 900 ANALOGUE INHIBITOR DBREF 7NRO A 1 216 UNP P05050 ALKB_ECOLI 1 216 SEQRES 1 A 216 MET LEU ASP LEU PHE ALA ASP ALA GLU PRO TRP GLN GLU SEQRES 2 A 216 PRO LEU ALA ALA GLY ALA VAL ILE LEU ARG ARG PHE ALA SEQRES 3 A 216 PHE ASN ALA ALA GLU GLN LEU ILE ARG ASP ILE ASN ASP SEQRES 4 A 216 VAL ALA SER GLN SER PRO PHE ARG GLN MET VAL THR PRO SEQRES 5 A 216 GLY GLY TYR THR MET SER VAL ALA MET THR ASN CYS GLY SEQRES 6 A 216 HIS LEU GLY TRP THR THR HIS ARG GLN GLY TYR LEU TYR SEQRES 7 A 216 SER PRO ILE ASP PRO GLN THR ASN LYS PRO TRP PRO ALA SEQRES 8 A 216 MET PRO GLN SER PHE HIS ASN LEU CYS GLN ARG ALA ALA SEQRES 9 A 216 THR ALA ALA GLY TYR PRO ASP PHE GLN PRO ASP ALA CYS SEQRES 10 A 216 LEU ILE ASN ARG TYR ALA PRO GLY ALA LYS LEU SER LEU SEQRES 11 A 216 HIS GLN ASP LYS ASP GLU PRO ASP LEU ARG ALA PRO ILE SEQRES 12 A 216 VAL SER VAL SER LEU GLY LEU PRO ALA ILE PHE GLN PHE SEQRES 13 A 216 GLY GLY LEU LYS ARG ASN ASP PRO LEU LYS ARG LEU LEU SEQRES 14 A 216 LEU GLU HIS GLY ASP VAL VAL VAL TRP GLY GLY GLU SER SEQRES 15 A 216 ARG LEU PHE TYR HIS GLY ILE GLN PRO LEU LYS ALA GLY SEQRES 16 A 216 PHE HIS PRO LEU THR ILE ASP CYS ARG TYR ASN LEU THR SEQRES 17 A 216 PHE ARG GLN ALA GLY LYS LYS GLU HET UPW A 301 35 HET MN A 302 1 HETNAM UPW 2-[[6-[(4-NITROPHENYL)AMINO]-3-OXIDANYL-PYRIDIN-2- HETNAM 2 UPW YL]CARBONYLAMINO]ETHANOIC ACID HETNAM MN MANGANESE (II) ION FORMUL 2 UPW C14 H13 N4 O6 1+ FORMUL 3 MN MN 2+ FORMUL 4 HOH *279(H2 O) HELIX 1 AA1 ALA A 29 SER A 42 1 14 HELIX 2 AA2 PRO A 93 GLY A 108 1 16 HELIX 3 AA3 GLY A 180 PHE A 185 5 6 SHEET 1 AA1 6 ALA A 19 LEU A 22 0 SHEET 2 AA1 6 VAL A 175 TRP A 178 -1 O VAL A 175 N LEU A 22 SHEET 3 AA1 6 ILE A 143 GLY A 149 -1 N SER A 145 O VAL A 176 SHEET 4 AA1 6 ARG A 204 PHE A 209 -1 O PHE A 209 N VAL A 144 SHEET 5 AA1 6 ALA A 116 TYR A 122 -1 N TYR A 122 O ARG A 204 SHEET 6 AA1 6 ALA A 60 GLY A 65 -1 N ALA A 60 O ARG A 121 SHEET 1 AA2 2 GLY A 68 HIS A 72 0 SHEET 2 AA2 2 GLY A 75 SER A 79 -1 O LEU A 77 N THR A 70 SHEET 1 AA3 4 LEU A 128 HIS A 131 0 SHEET 2 AA3 4 HIS A 187 ILE A 189 -1 O HIS A 187 N HIS A 131 SHEET 3 AA3 4 ALA A 152 PHE A 156 -1 N GLN A 155 O GLY A 188 SHEET 4 AA3 4 LYS A 166 LEU A 170 -1 O LEU A 170 N ALA A 152 LINK NE2 HIS A 131 MN MN A 302 1555 1555 2.25 LINK OD1 ASP A 133 MN MN A 302 1555 1555 2.10 LINK NE2 HIS A 187 MN MN A 302 1555 1555 2.18 LINK N1 UPW A 301 MN MN A 302 1555 1555 2.25 LINK O UPW A 301 MN MN A 302 1555 1555 2.18 LINK MN MN A 302 O HOH A 476 1555 1555 2.41 CRYST1 36.880 38.750 40.250 77.60 75.38 66.14 P 1 1 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 0.027115 -0.011993 -0.005592 0.00000 SCALE2 0.000000 0.028218 -0.003621 0.00000 SCALE3 0.000000 0.000000 0.025887 0.00000