HEADER TRANSFERASE 16-APR-19 6RGE TITLE CRYSTAL STRUCTURE OF NAD KINASE 1 FROM LISTERIA MONOCYTOGENES IN TITLE 2 COMPLEX 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 VARIANT: ATCC BAA-679 / EGD-E; SOURCE 5 GENE: NADK1, LMO0968; SOURCE 6 EXPRESSION_SYSTEM: ESCHERICHIA COLI; SOURCE 7 EXPRESSION_SYSTEM_TAXID: 562 KEYWDS TETRAMERIC NAD KINASE, TRANSFERASE EXPDTA X-RAY DIFFRACTION AUTHOR M.GELIN,G.LABESSE REVDAT 2 15-MAY-24 6RGE 1 REMARK REVDAT 1 13-MAY-20 6RGE 0 JRNL AUTH M.GELIN,G.LABESSE JRNL TITL CRYSTAL STRUCTURE OF NAD KINASE 1 FROM LISTERIA JRNL TITL 2 MONOCYTOGENES IN COMPLEX WITH AN INHIBITOR JRNL REF TO BE PUBLISHED JRNL REFN REMARK 2 REMARK 2 RESOLUTION. 1.80 ANGSTROMS. REMARK 3 REMARK 3 REFINEMENT. REMARK 3 PROGRAM : PHENIX 1.14_3260 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 : ML REMARK 3 REMARK 3 DATA USED IN REFINEMENT. REMARK 3 RESOLUTION RANGE HIGH (ANGSTROMS) : 1.80 REMARK 3 RESOLUTION RANGE LOW (ANGSTROMS) : 59.14 REMARK 3 MIN(FOBS/SIGMA_FOBS) : 1.350 REMARK 3 COMPLETENESS FOR RANGE (%) : 81.0 REMARK 3 NUMBER OF REFLECTIONS : 21413 REMARK 3 REMARK 3 FIT TO DATA USED IN REFINEMENT. REMARK 3 R VALUE (WORKING + TEST SET) : 0.202 REMARK 3 R VALUE (WORKING SET) : 0.201 REMARK 3 FREE R VALUE : 0.223 REMARK 3 FREE R VALUE TEST SET SIZE (%) : 4.800 REMARK 3 FREE R VALUE TEST SET COUNT : 1028 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 59.1719 - 3.4451 0.96 3632 183 0.1766 0.2061 REMARK 3 2 3.4451 - 2.7345 0.94 3374 180 0.2010 0.2093 REMARK 3 3 2.7345 - 2.3888 0.99 3543 185 0.2060 0.2001 REMARK 3 4 2.3888 - 2.1704 0.99 3561 158 0.2269 0.2586 REMARK 3 5 2.1704 - 2.0148 0.96 3410 182 0.2302 0.3039 REMARK 3 6 2.0148 - 1.8960 0.64 2274 108 0.2462 0.2557 REMARK 3 7 1.8960 - 1.8011 0.17 591 32 0.2390 0.2302 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) : 0.170 REMARK 3 PHASE ERROR (DEGREES, MAXIMUM-LIKELIHOOD BASED) : 24.540 REMARK 3 REMARK 3 B VALUES. REMARK 3 FROM WILSON PLOT (A**2) : NULL REMARK 3 MEAN B VALUE (OVERALL, A**2) : 33.67 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 : 8 REMARK 3 TLS GROUP : 1 REMARK 3 SELECTION: CHAIN 'A' AND (RESID 1 THROUGH 79 ) REMARK 3 ORIGIN FOR THE GROUP (A): 11.8674 23.2990 21.9907 REMARK 3 T TENSOR REMARK 3 T11: 0.3672 T22: 0.3116 REMARK 3 T33: 0.2537 T12: 0.0920 REMARK 3 T13: 0.0527 T23: -0.1048 REMARK 3 L TENSOR REMARK 3 L11: 4.1718 L22: 1.3870 REMARK 3 L33: 4.9493 L12: -1.3690 REMARK 3 L13: -2.2527 L23: 0.9939 REMARK 3 S TENSOR REMARK 3 S11: -0.1531 S12: -0.3180 S13: 0.1942 REMARK 3 S21: 0.2261 S22: 0.0341 S23: 0.0375 REMARK 3 S31: -0.3311 S32: -0.3137 S33: 0.0816 REMARK 3 TLS GROUP : 2 REMARK 3 SELECTION: CHAIN 'A' AND (RESID 80 THROUGH 120 ) REMARK 3 ORIGIN FOR THE GROUP (A): 16.4393 25.7094 12.7623 REMARK 3 T TENSOR REMARK 3 T11: 0.2853 T22: 0.2646 REMARK 3 T33: 0.3741 T12: 0.1655 REMARK 3 T13: 0.0484 T23: -0.0368 REMARK 3 L TENSOR REMARK 3 L11: 2.1836 L22: 2.5256 REMARK 3 L33: 5.8867 L12: -0.4068 REMARK 3 L13: -1.0884 L23: 0.8579 REMARK 3 S TENSOR REMARK 3 S11: 0.0874 S12: -0.2493 S13: 0.5790 REMARK 3 S21: 0.0323 S22: -0.0765 S23: 0.0231 REMARK 3 S31: -0.9381 S32: -0.2199 S33: 0.0238 REMARK 3 TLS GROUP : 3 REMARK 3 SELECTION: CHAIN 'A' AND (RESID 121 THROUGH 141 ) REMARK 3 ORIGIN FOR THE GROUP (A): 14.6550 8.3993 -7.2996 REMARK 3 T TENSOR REMARK 3 T11: 0.1427 T22: 0.2624 REMARK 3 T33: 0.2694 T12: 0.0128 REMARK 3 T13: -0.0397 T23: -0.0177 REMARK 3 L TENSOR REMARK 3 L11: 1.7048 L22: 2.4030 REMARK 3 L33: 8.9351 L12: -0.6336 REMARK 3 L13: 0.0939 L23: 1.3896 REMARK 3 S TENSOR REMARK 3 S11: 0.0906 S12: 0.0873 S13: -0.1771 REMARK 3 S21: -0.0160 S22: -0.1714 S23: 0.4486 REMARK 3 S31: 0.6634 S32: -0.7906 S33: 0.0905 REMARK 3 TLS GROUP : 4 REMARK 3 SELECTION: CHAIN 'A' AND (RESID 142 THROUGH 184 ) REMARK 3 ORIGIN FOR THE GROUP (A): 23.3505 11.8154 -1.9955 REMARK 3 T TENSOR REMARK 3 T11: 0.1188 T22: 0.1385 REMARK 3 T33: 0.1532 T12: 0.0344 REMARK 3 T13: 0.0015 T23: -0.0023 REMARK 3 L TENSOR REMARK 3 L11: 1.4021 L22: 1.6405 REMARK 3 L33: 4.3286 L12: 0.4653 REMARK 3 L13: 0.5861 L23: 0.6542 REMARK 3 S TENSOR REMARK 3 S11: 0.0069 S12: 0.0361 S13: 0.1101 REMARK 3 S21: -0.0648 S22: -0.0245 S23: 0.1227 REMARK 3 S31: -0.1397 S32: -0.1080 S33: 0.0159 REMARK 3 TLS GROUP : 5 REMARK 3 SELECTION: CHAIN 'A' AND (RESID 185 THROUGH 216 ) REMARK 3 ORIGIN FOR THE GROUP (A): 20.5733 9.4065 -11.2692 REMARK 3 T TENSOR REMARK 3 T11: 0.1851 T22: 0.2294 REMARK 3 T33: 0.2032 T12: 0.0271 REMARK 3 T13: -0.0200 T23: 0.0099 REMARK 3 L TENSOR REMARK 3 L11: 3.3524 L22: 3.9675 REMARK 3 L33: 4.4069 L12: -0.1403 REMARK 3 L13: 0.5451 L23: -0.1007 REMARK 3 S TENSOR REMARK 3 S11: 0.0362 S12: 0.3498 S13: -0.0918 REMARK 3 S21: -0.3613 S22: -0.0670 S23: 0.6375 REMARK 3 S31: 0.2409 S32: -0.3010 S33: 0.0364 REMARK 3 TLS GROUP : 6 REMARK 3 SELECTION: CHAIN 'A' AND (RESID 217 THROUGH 238 ) REMARK 3 ORIGIN FOR THE GROUP (A): 9.1986 13.7245 -4.1276 REMARK 3 T TENSOR REMARK 3 T11: 0.1916 T22: 0.5048 REMARK 3 T33: 0.4396 T12: 0.0875 REMARK 3 T13: -0.0142 T23: -0.0380 REMARK 3 L TENSOR REMARK 3 L11: 2.3311 L22: 4.2137 REMARK 3 L33: 6.4659 L12: -0.1173 REMARK 3 L13: 0.8784 L23: 0.4096 REMARK 3 S TENSOR REMARK 3 S11: -0.0114 S12: 0.0273 S13: -0.0001 REMARK 3 S21: -0.2002 S22: -0.1612 S23: 0.9039 REMARK 3 S31: 0.1369 S32: -1.6790 S33: 0.0764 REMARK 3 TLS GROUP : 7 REMARK 3 SELECTION: CHAIN 'A' AND (RESID 239 THROUGH 252 ) REMARK 3 ORIGIN FOR THE GROUP (A): 23.2659 26.6130 15.0783 REMARK 3 T TENSOR REMARK 3 T11: 0.3871 T22: 0.2722 REMARK 3 T33: 0.3464 T12: 0.0376 REMARK 3 T13: 0.0496 T23: -0.1255 REMARK 3 L TENSOR REMARK 3 L11: 8.1990 L22: 5.4742 REMARK 3 L33: 1.7647 L12: -3.4965 REMARK 3 L13: 2.3216 L23: -0.6786 REMARK 3 S TENSOR REMARK 3 S11: -0.3128 S12: -1.0650 S13: 1.0645 REMARK 3 S21: 0.2006 S22: 0.1667 S23: -0.4838 REMARK 3 S31: -0.7786 S32: -0.4706 S33: 0.1742 REMARK 3 TLS GROUP : 8 REMARK 3 SELECTION: CHAIN 'A' AND (RESID 253 THROUGH 264 ) REMARK 3 ORIGIN FOR THE GROUP (A): 31.7327 12.8272 17.5724 REMARK 3 T TENSOR REMARK 3 T11: 0.2428 T22: 0.2248 REMARK 3 T33: 0.1945 T12: 0.0069 REMARK 3 T13: 0.0075 T23: -0.0514 REMARK 3 L TENSOR REMARK 3 L11: 7.1738 L22: 2.7002 REMARK 3 L33: 7.2889 L12: -0.6117 REMARK 3 L13: -0.2529 L23: 2.7339 REMARK 3 S TENSOR REMARK 3 S11: 0.0542 S12: -0.7992 S13: 0.0103 REMARK 3 S21: 0.7349 S22: 0.0220 S23: -0.2981 REMARK 3 S31: -0.2162 S32: 0.1712 S33: 0.0424 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 6RGE 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_1292101876. REMARK 200 REMARK 200 EXPERIMENTAL DETAILS REMARK 200 EXPERIMENT TYPE : X-RAY DIFFRACTION REMARK 200 DATE OF DATA COLLECTION : 24-OCT-16 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 : MASSIF-3 REMARK 200 X-RAY GENERATOR MODEL : NULL REMARK 200 MONOCHROMATIC OR LAUE (M/L) : M REMARK 200 WAVELENGTH OR RANGE (A) : 0.967700 REMARK 200 MONOCHROMATOR : NULL REMARK 200 OPTICS : NULL REMARK 200 REMARK 200 DETECTOR TYPE : PIXEL REMARK 200 DETECTOR MANUFACTURER : DECTRIS EIGER X 4M REMARK 200 INTENSITY-INTEGRATION SOFTWARE : XDS REMARK 200 DATA SCALING SOFTWARE : AIMLESS REMARK 200 REMARK 200 NUMBER OF UNIQUE REFLECTIONS : 25981 REMARK 200 RESOLUTION RANGE HIGH (A) : 1.799 REMARK 200 RESOLUTION RANGE LOW (A) : 59.140 REMARK 200 REJECTION CRITERIA (SIGMA(I)) : NULL REMARK 200 REMARK 200 OVERALL. REMARK 200 COMPLETENESS FOR RANGE (%) : 98.0 REMARK 200 DATA REDUNDANCY : 3.900 REMARK 200 R MERGE (I) : 0.03600 REMARK 200 R SYM (I) : NULL REMARK 200 FOR THE DATA SET : 16.2000 REMARK 200 REMARK 200 IN THE HIGHEST RESOLUTION SHELL. REMARK 200 HIGHEST RESOLUTION SHELL, RANGE HIGH (A) : 1.80 REMARK 200 HIGHEST RESOLUTION SHELL, RANGE LOW (A) : 1.83 REMARK 200 COMPLETENESS FOR SHELL (%) : 95.7 REMARK 200 DATA REDUNDANCY IN SHELL : 3.90 REMARK 200 R MERGE FOR SHELL (I) : 0.47200 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 (%): 45.57 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 31.54000 REMARK 290 SMTRY2 5 0.000000 1.000000 0.000000 37.61000 REMARK 290 SMTRY3 5 0.000000 0.000000 1.000000 59.14000 REMARK 290 SMTRY1 6 -1.000000 0.000000 0.000000 31.54000 REMARK 290 SMTRY2 6 0.000000 -1.000000 0.000000 37.61000 REMARK 290 SMTRY3 6 0.000000 0.000000 1.000000 59.14000 REMARK 290 SMTRY1 7 -1.000000 0.000000 0.000000 31.54000 REMARK 290 SMTRY2 7 0.000000 1.000000 0.000000 37.61000 REMARK 290 SMTRY3 7 0.000000 0.000000 -1.000000 59.14000 REMARK 290 SMTRY1 8 1.000000 0.000000 0.000000 31.54000 REMARK 290 SMTRY2 8 0.000000 -1.000000 0.000000 37.61000 REMARK 290 SMTRY3 8 0.000000 0.000000 -1.000000 59.14000 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 63.08000 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 63.08000 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 375 REMARK 375 SPECIAL POSITION REMARK 375 THE FOLLOWING ATOMS ARE FOUND TO BE WITHIN 0.15 ANGSTROMS REMARK 375 OF A SYMMETRY RELATED ATOM AND ARE ASSUMED TO BE ON SPECIAL REMARK 375 POSITIONS. REMARK 375 REMARK 375 ATOM RES CSSEQI REMARK 375 HOH A 421 LIES ON A SPECIAL POSITION. 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 110 REMARK 465 ILE A 111 REMARK 465 GLY A 112 REMARK 465 LYS A 113 REMARK 465 LYS A 114 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 LYS A 85 CG CD CE NZ REMARK 470 LYS A 88 CG CD CE NZ REMARK 470 GLU A 94 CG CD OE1 OE2 REMARK 470 LYS A 108 CG CD CE NZ REMARK 470 ARG A 190 CG CD NE CZ NH1 NH2 REMARK 470 ILE A 226 CG1 CG2 CD1 REMARK 470 GLN A 232 CG CD OE1 NE2 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 ASN A 122 -69.23 -98.09 REMARK 500 SER A 129 -75.65 -86.51 REMARK 500 ALA A 162 -126.97 -110.12 REMARK 500 HIS A 204 -3.16 72.17 REMARK 500 ASN A 213 -79.83 -121.43 REMARK 500 ASP A 222 -129.39 53.85 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 K1Z A 302 DBREF 6RGE A 1 264 UNP Q8Y8D7 NADK1_LISMO 1 264 SEQADV 6RGE LEU A 265 UNP Q8Y8D7 EXPRESSION TAG SEQADV 6RGE GLU A 266 UNP Q8Y8D7 EXPRESSION TAG SEQADV 6RGE HIS A 267 UNP Q8Y8D7 EXPRESSION TAG SEQADV 6RGE HIS A 268 UNP Q8Y8D7 EXPRESSION TAG SEQADV 6RGE HIS A 269 UNP Q8Y8D7 EXPRESSION TAG SEQADV 6RGE HIS A 270 UNP Q8Y8D7 EXPRESSION TAG SEQADV 6RGE HIS A 271 UNP Q8Y8D7 EXPRESSION TAG SEQADV 6RGE 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 K1Z A 302 45 HETNAM CIT CITRIC ACID HETNAM K1Z [(2~{R},3~{R},4~{R},5~{R})-2-[8-[3-[[(2~{R},3~{S}, HETNAM 2 K1Z 4~{R},5~{R})-5-(6-AMINOPURIN-9-YL)-3,4-BIS(OXIDANYL) HETNAM 3 K1Z OXOLAN-2-YL]METHOXY]PROP-1-YNYL]-6-AZANYL-PURIN-9-YL]- HETNAM 4 K1Z 5-(HYDROXYMETHYL)-4-OXIDANYL-OXOLAN-3-YL] DIHYDROGEN HETNAM 5 K1Z PHOSPHATE FORMUL 2 CIT C6 H8 O7 FORMUL 3 K1Z C23 H27 N10 O11 P FORMUL 4 HOH *74(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 58 ILE A 62 5 5 HELIX 4 AA4 ARG A 79 ALA A 81 5 3 HELIX 5 AA5 GLU A 82 GLY A 93 1 12 HELIX 6 AA6 PRO A 157 THR A 161 5 5 HELIX 7 AA7 ALA A 162 LEU A 167 1 6 HELIX 8 AA8 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 67 N SER A 41 SHEET 1 AA2 6 ALA A 116 ALA A 120 0 SHEET 2 AA2 6 GLN A 96 LYS A 108 -1 N VAL A 107 O ALA A 116 SHEET 3 AA2 6 GLU A 233 ARG A 247 -1 O ARG A 247 N GLN A 96 SHEET 4 AA2 6 VAL A 207 PRO A 211 -1 N LEU A 209 O ILE A 234 SHEET 5 AA2 6 PHE A 133 ILE A 139 -1 N VAL A 138 O SER A 208 SHEET 6 AA2 6 ILE A 142 GLY A 149 -1 O GLU A 145 N VAL A 137 SHEET 1 AA3 6 LEU A 199 PRO A 202 0 SHEET 2 AA3 6 ALA A 178 MET A 184 -1 N LEU A 181 O LEU A 199 SHEET 3 AA3 6 GLY A 151 SER A 155 -1 N SER A 155 O GLN A 180 SHEET 4 AA3 6 GLU A 123 SER A 128 -1 N SER A 124 O MET A 154 SHEET 5 AA3 6 PHE A 217 VAL A 221 -1 O GLN A 218 N LYS A 127 SHEET 6 AA3 6 LEU A 224 HIS A 228 -1 O LEU A 224 N VAL A 221 SITE 1 AC1 10 VAL A 98 TYR A 100 HIS A 173 ARG A 247 SITE 2 AC1 10 PHE A 251 PRO A 252 PHE A 253 ARG A 256 SITE 3 AC1 10 HOH A 413 HOH A 458 SITE 1 AC2 22 GLY A 44 ASP A 45 GLY A 46 LEU A 49 SITE 2 AC2 22 HIS A 71 PHE A 74 TYR A 75 ASN A 122 SITE 3 AC2 22 GLU A 123 ASP A 150 SER A 158 THR A 161 SITE 4 AC2 22 ALA A 162 TYR A 163 SER A 166 ALA A 185 SITE 5 AC2 22 ILE A 187 HOH A 410 HOH A 434 HOH A 448 SITE 6 AC2 22 HOH A 449 HOH A 450 CRYST1 63.080 75.220 118.280 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 0.015853 0.000000 0.000000 0.00000 SCALE2 0.000000 0.013294 0.000000 0.00000 SCALE3 0.000000 0.000000 0.008455 0.00000