HEADER TRANSFERASE 16-APR-19 6RG6 TITLE CRYSTAL STRUCTURE OF NAD KINASE 1 FROM LISTERIA MONOCYTOGENES IN TITLE 2 COMPLEXE WITH AN INHIBITOR COMPND MOL_ID: 1; COMPND 2 MOLECULE: NAD KINASE 1; COMPND 3 CHAIN: A; COMPND 4 SYNONYM: ATP-DEPENDENT NAD KINASE; COMPND 5 EC: 2.7.1.23; COMPND 6 ENGINEERED: YES SOURCE MOL_ID: 1; SOURCE 2 ORGANISM_SCIENTIFIC: LISTERIA MONOCYTOGENES EGD-E; SOURCE 3 ORGANISM_TAXID: 169963; SOURCE 4 GENE: NADK1, LMO0968; SOURCE 5 EXPRESSION_SYSTEM: ESCHERICHIA COLI; SOURCE 6 EXPRESSION_SYSTEM_TAXID: 562 KEYWDS TETRAMERIC NAD KINASE, TRANSFERASE EXPDTA X-RAY DIFFRACTION AUTHOR M.GELIN,G.LABESSE REVDAT 3 15-MAY-24 6RG6 1 REMARK REVDAT 2 25-MAR-20 6RG6 1 JRNL REVDAT 1 19-FEB-20 6RG6 0 JRNL AUTH M.GELIN,J.PAOLETTI,M.A.NAHORI,V.HUTEAU,C.LESEIGNEUR, JRNL AUTH 2 G.JOUVION,L.DUGUE,D.CLEMENT,J.L.PONS,L.ASSAIRI,S.POCHET, JRNL AUTH 3 G.LABESSE,O.DUSSURGET JRNL TITL FROM SUBSTRATE TO FRAGMENTS TO INHIBITOR ACTIVEIN JRNL TITL 2 VIVOAGAINSTSTAPHYLOCOCCUS AUREUS. JRNL REF ACS INFECT DIS. V. 6 422 2020 JRNL REFN ESSN 2373-8227 JRNL PMID 32017533 JRNL DOI 10.1021/ACSINFECDIS.9B00368 REMARK 2 REMARK 2 RESOLUTION. 2.52 ANGSTROMS. REMARK 3 REMARK 3 REFINEMENT. REMARK 3 PROGRAM : PHENIX 1.13_2998 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) : 2.52 REMARK 3 RESOLUTION RANGE LOW (ANGSTROMS) : 37.62 REMARK 3 MIN(FOBS/SIGMA_FOBS) : 1.340 REMARK 3 COMPLETENESS FOR RANGE (%) : 93.9 REMARK 3 NUMBER OF REFLECTIONS : 9244 REMARK 3 REMARK 3 FIT TO DATA USED IN REFINEMENT. REMARK 3 R VALUE (WORKING + TEST SET) : 0.235 REMARK 3 R VALUE (WORKING SET) : 0.233 REMARK 3 FREE R VALUE : 0.290 REMARK 3 FREE R VALUE TEST SET SIZE (%) : 4.920 REMARK 3 FREE R VALUE TEST SET COUNT : 455 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 37.6217 - 3.6341 0.93 2981 151 0.1990 0.2675 REMARK 3 2 3.6341 - 2.8848 0.96 2956 153 0.2545 0.2896 REMARK 3 3 2.8848 - 2.5202 0.94 2852 151 0.3110 0.3577 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) : 0.420 REMARK 3 PHASE ERROR (DEGREES, MAXIMUM-LIKELIHOOD BASED) : 33.260 REMARK 3 REMARK 3 B VALUES. REMARK 3 FROM WILSON PLOT (A**2) : 40.20 REMARK 3 MEAN B VALUE (OVERALL, A**2) : 53.32 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 : NULL NULL REMARK 3 ANGLE : NULL NULL REMARK 3 CHIRALITY : NULL NULL REMARK 3 PLANARITY : NULL NULL REMARK 3 DIHEDRAL : NULL NULL REMARK 3 REMARK 3 TLS DETAILS REMARK 3 NUMBER OF TLS GROUPS : 9 REMARK 3 TLS GROUP : 1 REMARK 3 SELECTION: CHAIN 'A' AND (RESID 1 THROUGH 26 ) REMARK 3 ORIGIN FOR THE GROUP (A): 8.9270 22.4182 28.7345 REMARK 3 T TENSOR REMARK 3 T11: 0.5769 T22: 0.7695 REMARK 3 T33: 0.4014 T12: 0.1011 REMARK 3 T13: 0.0211 T23: -0.0742 REMARK 3 L TENSOR REMARK 3 L11: 5.1520 L22: 3.0436 REMARK 3 L33: 5.3709 L12: 0.5927 REMARK 3 L13: -1.5216 L23: 1.7129 REMARK 3 S TENSOR REMARK 3 S11: -0.2133 S12: -1.1950 S13: -0.0200 REMARK 3 S21: 0.1586 S22: -0.0376 S23: 0.0757 REMARK 3 S31: -0.4445 S32: -0.1504 S33: 0.1853 REMARK 3 TLS GROUP : 2 REMARK 3 SELECTION: CHAIN 'A' AND (RESID 27 THROUGH 58 ) REMARK 3 ORIGIN FOR THE GROUP (A): 9.2750 25.8891 18.1746 REMARK 3 T TENSOR REMARK 3 T11: 0.5217 T22: 0.6380 REMARK 3 T33: 0.3945 T12: 0.1074 REMARK 3 T13: 0.0287 T23: -0.1382 REMARK 3 L TENSOR REMARK 3 L11: 5.0814 L22: 2.2281 REMARK 3 L33: 5.5585 L12: -0.0013 REMARK 3 L13: -0.2278 L23: 0.6140 REMARK 3 S TENSOR REMARK 3 S11: -0.0715 S12: -0.4263 S13: 0.5879 REMARK 3 S21: 0.3033 S22: 0.0778 S23: 0.3749 REMARK 3 S31: -0.8561 S32: -0.2219 S33: 0.1655 REMARK 3 TLS GROUP : 3 REMARK 3 SELECTION: CHAIN 'A' AND (RESID 59 THROUGH 79 ) REMARK 3 ORIGIN FOR THE GROUP (A): 18.4620 20.8307 19.2202 REMARK 3 T TENSOR REMARK 3 T11: 0.5593 T22: 0.5747 REMARK 3 T33: 0.3883 T12: 0.0999 REMARK 3 T13: -0.0031 T23: -0.0649 REMARK 3 L TENSOR REMARK 3 L11: 7.8766 L22: 2.2530 REMARK 3 L33: 2.6876 L12: -0.4418 REMARK 3 L13: -2.7539 L23: 2.2640 REMARK 3 S TENSOR REMARK 3 S11: -0.2211 S12: -0.8794 S13: -0.4524 REMARK 3 S21: 0.0471 S22: 0.4215 S23: 0.3366 REMARK 3 S31: -0.2138 S32: 0.4738 S33: 0.0297 REMARK 3 TLS GROUP : 4 REMARK 3 SELECTION: CHAIN 'A' AND (RESID 80 THROUGH 109 ) REMARK 3 ORIGIN FOR THE GROUP (A): 17.7921 25.5199 15.1667 REMARK 3 T TENSOR REMARK 3 T11: 0.3928 T22: 0.6003 REMARK 3 T33: 0.5046 T12: 0.1097 REMARK 3 T13: 0.0163 T23: -0.1373 REMARK 3 L TENSOR REMARK 3 L11: 3.2337 L22: 1.8555 REMARK 3 L33: 6.3838 L12: 1.3474 REMARK 3 L13: -1.4356 L23: -1.4299 REMARK 3 S TENSOR REMARK 3 S11: 0.2818 S12: -0.8116 S13: 0.7808 REMARK 3 S21: -0.0335 S22: -0.2980 S23: -0.0429 REMARK 3 S31: -1.3889 S32: -0.1362 S33: -0.1801 REMARK 3 TLS GROUP : 5 REMARK 3 SELECTION: CHAIN 'A' AND (RESID 110 THROUGH 132 ) REMARK 3 ORIGIN FOR THE GROUP (A): 10.5471 13.3199 -2.2949 REMARK 3 T TENSOR REMARK 3 T11: 0.3529 T22: 0.4197 REMARK 3 T33: 0.4138 T12: 0.1376 REMARK 3 T13: 0.0439 T23: -0.0087 REMARK 3 L TENSOR REMARK 3 L11: 4.4607 L22: 3.6064 REMARK 3 L33: 5.3195 L12: 1.7401 REMARK 3 L13: -0.0157 L23: 1.1081 REMARK 3 S TENSOR REMARK 3 S11: 0.0890 S12: 0.2021 S13: 0.1099 REMARK 3 S21: -0.4852 S22: -0.1177 S23: 0.0726 REMARK 3 S31: -0.6309 S32: -1.2854 S33: -0.0235 REMARK 3 TLS GROUP : 6 REMARK 3 SELECTION: CHAIN 'A' AND (RESID 133 THROUGH 184 ) REMARK 3 ORIGIN FOR THE GROUP (A): 22.5166 11.9462 -3.8821 REMARK 3 T TENSOR REMARK 3 T11: 0.2255 T22: 0.3208 REMARK 3 T33: 0.3115 T12: 0.0276 REMARK 3 T13: 0.0087 T23: 0.0131 REMARK 3 L TENSOR REMARK 3 L11: 2.2477 L22: 3.9462 REMARK 3 L33: 2.8202 L12: -1.2027 REMARK 3 L13: 0.8718 L23: -0.9244 REMARK 3 S TENSOR REMARK 3 S11: 0.0617 S12: 0.1838 S13: 0.1503 REMARK 3 S21: -0.1016 S22: 0.0879 S23: 0.1937 REMARK 3 S31: 0.1485 S32: -0.0621 S33: -0.1287 REMARK 3 TLS GROUP : 7 REMARK 3 SELECTION: CHAIN 'A' AND (RESID 185 THROUGH 221 ) REMARK 3 ORIGIN FOR THE GROUP (A): 19.1825 9.1714 -10.3162 REMARK 3 T TENSOR REMARK 3 T11: 0.4130 T22: 0.4781 REMARK 3 T33: 0.3060 T12: 0.1164 REMARK 3 T13: -0.1169 T23: 0.0208 REMARK 3 L TENSOR REMARK 3 L11: 2.2490 L22: 2.3268 REMARK 3 L33: 3.1645 L12: -0.6914 REMARK 3 L13: -0.7076 L23: -0.9856 REMARK 3 S TENSOR REMARK 3 S11: 0.0259 S12: 0.1953 S13: -0.2421 REMARK 3 S21: -0.2941 S22: 0.0801 S23: 0.1540 REMARK 3 S31: 0.5796 S32: -0.2188 S33: -0.1443 REMARK 3 TLS GROUP : 8 REMARK 3 SELECTION: CHAIN 'A' AND (RESID 222 THROUGH 238 ) REMARK 3 ORIGIN FOR THE GROUP (A): 8.9763 14.3528 -4.3593 REMARK 3 T TENSOR REMARK 3 T11: 0.4092 T22: 0.6238 REMARK 3 T33: 0.5078 T12: 0.2056 REMARK 3 T13: 0.0116 T23: 0.0398 REMARK 3 L TENSOR REMARK 3 L11: 2.1281 L22: 4.0670 REMARK 3 L33: 5.1563 L12: -0.1223 REMARK 3 L13: -0.4680 L23: -0.2820 REMARK 3 S TENSOR REMARK 3 S11: 0.2940 S12: 1.0064 S13: 0.1197 REMARK 3 S21: 0.0761 S22: 0.2295 S23: 0.7152 REMARK 3 S31: -0.6206 S32: -2.0190 S33: -0.0997 REMARK 3 TLS GROUP : 9 REMARK 3 SELECTION: CHAIN 'A' AND (RESID 239 THROUGH 264 ) REMARK 3 ORIGIN FOR THE GROUP (A): 26.9868 20.1968 16.1139 REMARK 3 T TENSOR REMARK 3 T11: 0.5781 T22: 0.4466 REMARK 3 T33: 0.4463 T12: 0.0069 REMARK 3 T13: 0.0083 T23: -0.1366 REMARK 3 L TENSOR REMARK 3 L11: 2.1886 L22: 4.3464 REMARK 3 L33: 2.2566 L12: -0.8684 REMARK 3 L13: -0.5238 L23: -1.0385 REMARK 3 S TENSOR REMARK 3 S11: -0.2736 S12: -0.7171 S13: 0.7229 REMARK 3 S21: 0.6039 S22: 0.0060 S23: -0.3857 REMARK 3 S31: -0.3842 S32: 0.1264 S33: 0.0115 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 6RG6 COMPLIES WITH FORMAT V. 3.30, 13-JUL-11 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY PDBE ON 16-APR-19. REMARK 100 THE DEPOSITION ID IS D_1292101860. REMARK 200 REMARK 200 EXPERIMENTAL DETAILS REMARK 200 EXPERIMENT TYPE : X-RAY DIFFRACTION REMARK 200 DATE OF DATA COLLECTION : 16-SEP-10 REMARK 200 TEMPERATURE (KELVIN) : 100 REMARK 200 PH : 5.0 REMARK 200 NUMBER OF CRYSTALS USED : 1 REMARK 200 REMARK 200 SYNCHROTRON (Y/N) : Y REMARK 200 RADIATION SOURCE : ESRF REMARK 200 BEAMLINE : ID14-1 REMARK 200 X-RAY GENERATOR MODEL : NULL REMARK 200 MONOCHROMATIC OR LAUE (M/L) : M REMARK 200 WAVELENGTH OR RANGE (A) : 0.933400 REMARK 200 MONOCHROMATOR : NULL REMARK 200 OPTICS : NULL REMARK 200 REMARK 200 DETECTOR TYPE : CCD REMARK 200 DETECTOR MANUFACTURER : ADSC QUANTUM 210 REMARK 200 INTENSITY-INTEGRATION SOFTWARE : MOSFLM REMARK 200 DATA SCALING SOFTWARE : AIMLESS 0.7.1 REMARK 200 REMARK 200 NUMBER OF UNIQUE REFLECTIONS : 9254 REMARK 200 RESOLUTION RANGE HIGH (A) : 2.520 REMARK 200 RESOLUTION RANGE LOW (A) : 37.620 REMARK 200 REJECTION CRITERIA (SIGMA(I)) : NULL REMARK 200 REMARK 200 OVERALL. REMARK 200 COMPLETENESS FOR RANGE (%) : 94.4 REMARK 200 DATA REDUNDANCY : 8.700 REMARK 200 R MERGE (I) : 0.21200 REMARK 200 R SYM (I) : NULL REMARK 200 FOR THE DATA SET : 8.0000 REMARK 200 REMARK 200 IN THE HIGHEST RESOLUTION SHELL. REMARK 200 HIGHEST RESOLUTION SHELL, RANGE HIGH (A) : 2.52 REMARK 200 HIGHEST RESOLUTION SHELL, RANGE LOW (A) : 2.62 REMARK 200 COMPLETENESS FOR SHELL (%) : 99.7 REMARK 200 DATA REDUNDANCY IN SHELL : 8.10 REMARK 200 R MERGE FOR SHELL (I) : 1.14800 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: MOLECULAR REPLACEMENT REMARK 200 SOFTWARE USED: PHENIX REMARK 200 STARTING MODEL: NULL REMARK 200 REMARK 200 REMARK: NULL REMARK 280 REMARK 280 CRYSTAL REMARK 280 SOLVENT CONTENT, VS (%): 45.58 REMARK 280 MATTHEWS COEFFICIENT, VM (ANGSTROMS**3/DA): 2.26 REMARK 280 REMARK 280 CRYSTALLIZATION CONDITIONS: 30 MM NABR, 220 MM KCITRATE, GLYCEROL REMARK 280 6%, 15-16% W/V PEG400, PH 5.0, EVAPORATION, TEMPERATURE 291.15K REMARK 290 REMARK 290 CRYSTALLOGRAPHIC SYMMETRY REMARK 290 SYMMETRY OPERATORS FOR SPACE GROUP: I 2 2 2 REMARK 290 REMARK 290 SYMOP SYMMETRY REMARK 290 NNNMMM OPERATOR REMARK 290 1555 X,Y,Z REMARK 290 2555 -X,-Y,Z REMARK 290 3555 -X,Y,-Z REMARK 290 4555 X,-Y,-Z REMARK 290 5555 X+1/2,Y+1/2,Z+1/2 REMARK 290 6555 -X+1/2,-Y+1/2,Z+1/2 REMARK 290 7555 -X+1/2,Y+1/2,-Z+1/2 REMARK 290 8555 X+1/2,-Y+1/2,-Z+1/2 REMARK 290 REMARK 290 WHERE NNN -> OPERATOR NUMBER REMARK 290 MMM -> TRANSLATION VECTOR REMARK 290 REMARK 290 CRYSTALLOGRAPHIC SYMMETRY TRANSFORMATIONS REMARK 290 THE FOLLOWING TRANSFORMATIONS OPERATE ON THE ATOM/HETATM REMARK 290 RECORDS IN THIS ENTRY TO PRODUCE CRYSTALLOGRAPHICALLY REMARK 290 RELATED MOLECULES. REMARK 290 SMTRY1 1 1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY2 1 0.000000 1.000000 0.000000 0.00000 REMARK 290 SMTRY3 1 0.000000 0.000000 1.000000 0.00000 REMARK 290 SMTRY1 2 -1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY2 2 0.000000 -1.000000 0.000000 0.00000 REMARK 290 SMTRY3 2 0.000000 0.000000 1.000000 0.00000 REMARK 290 SMTRY1 3 -1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY2 3 0.000000 1.000000 0.000000 0.00000 REMARK 290 SMTRY3 3 0.000000 0.000000 -1.000000 0.00000 REMARK 290 SMTRY1 4 1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY2 4 0.000000 -1.000000 0.000000 0.00000 REMARK 290 SMTRY3 4 0.000000 0.000000 -1.000000 0.00000 REMARK 290 SMTRY1 5 1.000000 0.000000 0.000000 31.45500 REMARK 290 SMTRY2 5 0.000000 1.000000 0.000000 37.61750 REMARK 290 SMTRY3 5 0.000000 0.000000 1.000000 59.30000 REMARK 290 SMTRY1 6 -1.000000 0.000000 0.000000 31.45500 REMARK 290 SMTRY2 6 0.000000 -1.000000 0.000000 37.61750 REMARK 290 SMTRY3 6 0.000000 0.000000 1.000000 59.30000 REMARK 290 SMTRY1 7 -1.000000 0.000000 0.000000 31.45500 REMARK 290 SMTRY2 7 0.000000 1.000000 0.000000 37.61750 REMARK 290 SMTRY3 7 0.000000 0.000000 -1.000000 59.30000 REMARK 290 SMTRY1 8 1.000000 0.000000 0.000000 31.45500 REMARK 290 SMTRY2 8 0.000000 -1.000000 0.000000 37.61750 REMARK 290 SMTRY3 8 0.000000 0.000000 -1.000000 59.30000 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: TETRAMERIC 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: A REMARK 350 BIOMT1 2 -1.000000 0.000000 0.000000 62.91000 REMARK 350 BIOMT2 2 0.000000 -1.000000 0.000000 0.00000 REMARK 350 BIOMT3 2 0.000000 0.000000 1.000000 0.00000 REMARK 350 APPLY THE FOLLOWING TO CHAINS: A REMARK 350 BIOMT1 3 -1.000000 0.000000 0.000000 62.91000 REMARK 350 BIOMT2 3 0.000000 1.000000 0.000000 0.00000 REMARK 350 BIOMT3 3 0.000000 0.000000 -1.000000 0.00000 REMARK 350 APPLY THE FOLLOWING TO CHAINS: A REMARK 350 BIOMT1 4 1.000000 0.000000 0.000000 0.00000 REMARK 350 BIOMT2 4 0.000000 -1.000000 0.000000 0.00000 REMARK 350 BIOMT3 4 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 LYS A 92 REMARK 465 GLY A 93 REMARK 465 GLU A 94 REMARK 465 ILE A 111 REMARK 465 GLY A 112 REMARK 465 LYS A 113 REMARK 465 LEU A 265 REMARK 465 GLU A 266 REMARK 465 HIS A 267 REMARK 465 HIS A 268 REMARK 465 HIS A 269 REMARK 465 HIS A 270 REMARK 465 HIS A 271 REMARK 465 HIS A 272 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 ASP A 28 CG OD1 OD2 REMARK 470 ARG A 79 CG CD NE CZ NH1 NH2 REMARK 470 LYS A 114 CG CD CE NZ REMARK 470 GLN A 232 CG CD OE1 NE2 REMARK 470 GLU A 263 CG CD OE1 OE2 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 TYR A 109 -166.38 -107.06 REMARK 500 ASN A 122 -71.99 -97.95 REMARK 500 ASP A 141 -3.45 65.35 REMARK 500 ALA A 162 -114.51 -99.48 REMARK 500 ASN A 189 -152.22 -134.62 REMARK 500 PRO A 202 -169.01 -78.58 REMARK 500 HIS A 204 -2.56 64.55 REMARK 500 ASN A 213 -70.55 -117.29 REMARK 500 ASP A 222 -126.74 58.08 REMARK 500 ARG A 249 -163.15 -161.53 REMARK 500 ILE A 262 -75.76 -89.79 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 CIT A 301 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC2 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue K3B A 302 DBREF 6RG6 A 1 264 UNP Q8Y8D7 NADK1_LISMO 1 264 SEQADV 6RG6 LEU A 265 UNP Q8Y8D7 EXPRESSION TAG SEQADV 6RG6 GLU A 266 UNP Q8Y8D7 EXPRESSION TAG SEQADV 6RG6 HIS A 267 UNP Q8Y8D7 EXPRESSION TAG SEQADV 6RG6 HIS A 268 UNP Q8Y8D7 EXPRESSION TAG SEQADV 6RG6 HIS A 269 UNP Q8Y8D7 EXPRESSION TAG SEQADV 6RG6 HIS A 270 UNP Q8Y8D7 EXPRESSION TAG SEQADV 6RG6 HIS A 271 UNP Q8Y8D7 EXPRESSION TAG SEQADV 6RG6 HIS A 272 UNP Q8Y8D7 EXPRESSION TAG SEQRES 1 A 272 MET LYS TYR MET ILE THR SER LYS GLY ASP GLU LYS SER SEQRES 2 A 272 ASP LEU LEU ARG LEU ASN MET ILE ALA GLY PHE GLY GLU SEQRES 3 A 272 TYR ASP MET GLU TYR ASP ASP VAL GLU PRO GLU ILE VAL SEQRES 4 A 272 ILE SER ILE GLY GLY ASP GLY THR PHE LEU SER ALA PHE SEQRES 5 A 272 HIS GLN TYR GLU GLU ARG LEU ASP GLU ILE ALA PHE ILE SEQRES 6 A 272 GLY ILE HIS THR GLY HIS LEU GLY PHE TYR ALA ASP TRP SEQRES 7 A 272 ARG PRO ALA GLU ALA ASP LYS LEU VAL LYS LEU LEU ALA SEQRES 8 A 272 LYS GLY GLU TYR GLN LYS VAL SER TYR PRO LEU LEU LYS SEQRES 9 A 272 THR THR VAL LYS TYR GLY ILE GLY LYS LYS GLU ALA THR SEQRES 10 A 272 TYR LEU ALA LEU ASN GLU SER THR VAL LYS SER SER GLY SEQRES 11 A 272 GLY PRO PHE VAL VAL ASP VAL VAL ILE ASN ASP ILE HIS SEQRES 12 A 272 PHE GLU ARG PHE ARG GLY ASP GLY LEU CYS MET SER THR SEQRES 13 A 272 PRO SER GLY THR THR ALA TYR ASN LYS SER LEU GLY GLY SEQRES 14 A 272 ALA LEU MET HIS PRO SER ILE GLU ALA MET GLN LEU THR SEQRES 15 A 272 GLU MET ALA SER ILE ASN ASN ARG VAL TYR ARG THR ILE SEQRES 16 A 272 GLY SER PRO LEU VAL PHE PRO LYS HIS HIS VAL VAL SER SEQRES 17 A 272 LEU GLN PRO VAL ASN ASP LYS ASP PHE GLN ILE SER VAL SEQRES 18 A 272 ASP HIS LEU SER ILE LEU HIS ARG ASP VAL GLN GLU ILE SEQRES 19 A 272 ARG TYR GLU VAL SER ALA LYS LYS ILE HIS PHE ALA ARG SEQRES 20 A 272 PHE ARG SER PHE PRO PHE TRP ARG ARG VAL HIS ASP SER SEQRES 21 A 272 PHE ILE GLU ASP LEU GLU HIS HIS HIS HIS HIS HIS HET CIT A 301 13 HET K3B A 302 32 HETNAM CIT CITRIC ACID HETNAM K3B (2~{R},3~{R},4~{S},5~{R})-2-(6-AMINOPURIN-9-YL)-5-[3- HETNAM 2 K3B (6-AZANYL-9~{H}-PURIN-8-YL)PROP-2-YNOXYMETHYL]OXOLANE- HETNAM 3 K3B 3,4-DIOL FORMUL 2 CIT C6 H8 O7 FORMUL 3 K3B C18 H18 N10 O4 FORMUL 4 HOH *48(H2 O) HELIX 1 AA1 ASP A 10 GLY A 25 1 16 HELIX 2 AA2 GLY A 44 TYR A 55 1 12 HELIX 3 AA3 ARG A 79 GLU A 82 5 4 HELIX 4 AA4 ALA A 83 LEU A 90 1 8 HELIX 5 AA5 PRO A 157 THR A 161 5 5 HELIX 6 AA6 ALA A 162 LEU A 167 1 6 HELIX 7 AA7 PRO A 252 ILE A 262 1 11 SHEET 1 AA1 4 GLU A 30 TYR A 31 0 SHEET 2 AA1 4 LYS A 2 SER A 7 1 N TYR A 3 O GLU A 30 SHEET 3 AA1 4 ILE A 38 GLY A 43 1 O ILE A 40 N THR A 6 SHEET 4 AA1 4 ALA A 63 HIS A 68 1 O ILE A 65 N SER A 41 SHEET 1 AA2 2 GLN A 96 TYR A 100 0 SHEET 2 AA2 2 ILE A 243 ARG A 247 -1 O ARG A 247 N GLN A 96 SHEET 1 AA3 6 GLU A 115 ALA A 120 0 SHEET 2 AA3 6 LEU A 103 TYR A 109 -1 N VAL A 107 O ALA A 116 SHEET 3 AA3 6 VAL A 231 VAL A 238 -1 O ARG A 235 N THR A 106 SHEET 4 AA3 6 VAL A 207 PRO A 211 -1 N VAL A 207 O TYR A 236 SHEET 5 AA3 6 PHE A 133 ILE A 139 -1 N VAL A 138 O SER A 208 SHEET 6 AA3 6 ILE A 142 GLY A 149 -1 O GLU A 145 N VAL A 137 SHEET 1 AA4 6 LEU A 199 PHE A 201 0 SHEET 2 AA4 6 MET A 179 MET A 184 -1 N MET A 179 O PHE A 201 SHEET 3 AA4 6 GLY A 151 SER A 155 -1 N SER A 155 O GLN A 180 SHEET 4 AA4 6 GLU A 123 SER A 128 -1 N SER A 124 O MET A 154 SHEET 5 AA4 6 PHE A 217 VAL A 221 -1 O SER A 220 N THR A 125 SHEET 6 AA4 6 LEU A 224 HIS A 228 -1 O HIS A 228 N PHE A 217 SITE 1 AC1 8 TYR A 100 HIS A 173 ARG A 247 PHE A 251 SITE 2 AC1 8 PRO A 252 PHE A 253 ARG A 256 HOH A 403 SITE 1 AC2 16 ASP A 45 GLY A 46 LEU A 49 PHE A 74 SITE 2 AC2 16 ASN A 122 GLU A 123 ASP A 150 SER A 158 SITE 3 AC2 16 THR A 161 ALA A 162 TYR A 163 SER A 166 SITE 4 AC2 16 ALA A 185 ILE A 187 HIS A 223 HOH A 414 CRYST1 62.910 75.235 118.600 90.00 90.00 90.00 I 2 2 2 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 0.015896 0.000000 0.000000 0.00000 SCALE2 0.000000 0.013292 0.000000 0.00000 SCALE3 0.000000 0.000000 0.008432 0.00000