HEADER TRANSFERASE 05-SEP-23 8QGA TITLE CRYSTAL STRUCTURE OF NAD KINASE 1 FROM LISTERIA MONOCYTOGENES IN TITLE 2 COMPLEX WITH A DI-ADENOSINE DERIVATIVE 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 BL21(DE3); SOURCE 6 EXPRESSION_SYSTEM_TAXID: 469008; SOURCE 7 EXPRESSION_SYSTEM_VECTOR_TYPE: PLASMID KEYWDS TETRAMERIC NAD-KINASE, TRANSFERASE EXPDTA X-RAY DIFFRACTION AUTHOR M.GELIN,G.LABESSE,C.LIONNE REVDAT 1 19-MAR-25 8QGA 0 JRNL AUTH M.GELIN,G.LABESSE,D.CLEMENT,S.POCHET,C.LIONNE,C.LESEIGNEUR, JRNL AUTH 2 V.HUTEAU JRNL TITL CRYSTAL STRUCTURE OF NAD KINASE 1 FROM LISTERIA JRNL TITL 2 MONOCYTOGENES IN COMPLEX WITH A DI-ADENOSINE DERIVATIVE JRNL REF TO BE PUBLISHED JRNL REFN REMARK 2 REMARK 2 RESOLUTION. 2.39 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) : 2.39 REMARK 3 RESOLUTION RANGE LOW (ANGSTROMS) : 37.34 REMARK 3 MIN(FOBS/SIGMA_FOBS) : 1.340 REMARK 3 COMPLETENESS FOR RANGE (%) : 98.4 REMARK 3 NUMBER OF REFLECTIONS : 11218 REMARK 3 REMARK 3 FIT TO DATA USED IN REFINEMENT. REMARK 3 R VALUE (WORKING + TEST SET) : 0.225 REMARK 3 R VALUE (WORKING SET) : 0.223 REMARK 3 FREE R VALUE : 0.260 REMARK 3 FREE R VALUE TEST SET SIZE (%) : 4.880 REMARK 3 FREE R VALUE TEST SET COUNT : 547 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 37.3400 - 3.7900 0.98 2776 137 0.1939 0.2172 REMARK 3 2 3.7900 - 3.0100 0.98 2660 118 0.2294 0.2686 REMARK 3 3 3.0100 - 2.6300 0.99 2613 145 0.2805 0.3648 REMARK 3 4 2.6300 - 2.3900 0.99 2622 147 0.2949 0.3421 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) : 0.295 REMARK 3 PHASE ERROR (DEGREES, MAXIMUM-LIKELIHOOD BASED) : 32.092 REMARK 3 REMARK 3 B VALUES. REMARK 3 FROM WILSON PLOT (A**2) : 47.83 REMARK 3 MEAN B VALUE (OVERALL, A**2) : 69.16 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 : 0.004 2188 REMARK 3 ANGLE : 0.611 2971 REMARK 3 CHIRALITY : 0.049 324 REMARK 3 PLANARITY : 0.004 373 REMARK 3 DIHEDRAL : 13.937 787 REMARK 3 REMARK 3 TLS DETAILS REMARK 3 NUMBER OF TLS GROUPS : 7 REMARK 3 TLS GROUP : 1 REMARK 3 SELECTION: CHAIN 'A' AND (RESID 1 THROUGH 25 ) REMARK 3 ORIGIN FOR THE GROUP (A): 8.8011 21.8294 28.4047 REMARK 3 T TENSOR REMARK 3 T11: 0.5801 T22: 0.8111 REMARK 3 T33: 0.4696 T12: 0.1311 REMARK 3 T13: 0.0084 T23: -0.1179 REMARK 3 L TENSOR REMARK 3 L11: 6.6081 L22: 4.5105 REMARK 3 L33: 7.2352 L12: -1.0435 REMARK 3 L13: -0.2903 L23: 3.3692 REMARK 3 S TENSOR REMARK 3 S11: -0.0908 S12: -1.3607 S13: 0.0873 REMARK 3 S21: 0.3479 S22: 0.2835 S23: -0.1499 REMARK 3 S31: -0.4306 S32: -0.1680 S33: 0.0333 REMARK 3 TLS GROUP : 2 REMARK 3 SELECTION: CHAIN 'A' AND (RESID 26 THROUGH 37 ) REMARK 3 ORIGIN FOR THE GROUP (A): 6.8395 32.9041 25.0352 REMARK 3 T TENSOR REMARK 3 T11: 0.8792 T22: 1.4937 REMARK 3 T33: 0.8154 T12: -0.0271 REMARK 3 T13: 0.1889 T23: -0.4326 REMARK 3 L TENSOR REMARK 3 L11: 0.7739 L22: 3.1105 REMARK 3 L33: 3.8465 L12: -0.4471 REMARK 3 L13: 1.2880 L23: -2.9069 REMARK 3 S TENSOR REMARK 3 S11: 0.5865 S12: -0.7581 S13: 1.0648 REMARK 3 S21: 0.6119 S22: 1.2043 S23: 0.2442 REMARK 3 S31: -1.7672 S32: -0.3065 S33: -0.8527 REMARK 3 TLS GROUP : 3 REMARK 3 SELECTION: CHAIN 'A' AND (RESID 38 THROUGH 68 ) REMARK 3 ORIGIN FOR THE GROUP (A): 12.2730 23.2948 15.7553 REMARK 3 T TENSOR REMARK 3 T11: 0.5996 T22: 0.7818 REMARK 3 T33: 0.5165 T12: 0.1324 REMARK 3 T13: 0.0428 T23: -0.1127 REMARK 3 L TENSOR REMARK 3 L11: 2.7013 L22: 2.0051 REMARK 3 L33: 5.7875 L12: 1.3970 REMARK 3 L13: -2.2122 L23: -0.6055 REMARK 3 S TENSOR REMARK 3 S11: -0.0598 S12: -0.2588 S13: 0.3160 REMARK 3 S21: 0.3912 S22: 0.2180 S23: 0.2357 REMARK 3 S31: -0.5324 S32: 0.1515 S33: 0.0626 REMARK 3 TLS GROUP : 4 REMARK 3 SELECTION: CHAIN 'A' AND (RESID 69 THROUGH 92 ) REMARK 3 ORIGIN FOR THE GROUP (A): 20.4101 21.5053 26.4189 REMARK 3 T TENSOR REMARK 3 T11: 0.5649 T22: 1.1002 REMARK 3 T33: 0.6595 T12: 0.0940 REMARK 3 T13: 0.0764 T23: -0.1777 REMARK 3 L TENSOR REMARK 3 L11: 6.5586 L22: 6.8562 REMARK 3 L33: 9.4661 L12: -3.2810 REMARK 3 L13: -3.8581 L23: 4.9897 REMARK 3 S TENSOR REMARK 3 S11: -0.2092 S12: -1.7722 S13: 1.3837 REMARK 3 S21: 0.6366 S22: 1.4024 S23: -1.1679 REMARK 3 S31: -0.5207 S32: 2.2937 S33: -1.0838 REMARK 3 TLS GROUP : 5 REMARK 3 SELECTION: CHAIN 'A' AND (RESID 93 THROUGH 167 ) REMARK 3 ORIGIN FOR THE GROUP (A): 17.5165 14.9588 -2.2738 REMARK 3 T TENSOR REMARK 3 T11: 0.3128 T22: 0.5652 REMARK 3 T33: 0.4470 T12: 0.0805 REMARK 3 T13: 0.0190 T23: 0.0260 REMARK 3 L TENSOR REMARK 3 L11: 1.8246 L22: 2.9867 REMARK 3 L33: 4.6244 L12: -0.4506 REMARK 3 L13: -0.7349 L23: 1.3185 REMARK 3 S TENSOR REMARK 3 S11: 0.1817 S12: 0.2292 S13: 0.2661 REMARK 3 S21: -0.2327 S22: -0.1097 S23: 0.2078 REMARK 3 S31: -0.4193 S32: -0.4018 S33: 0.0308 REMARK 3 TLS GROUP : 6 REMARK 3 SELECTION: CHAIN 'A' AND (RESID 168 THROUGH 238 ) REMARK 3 ORIGIN FOR THE GROUP (A): 18.0668 12.3407 -5.8447 REMARK 3 T TENSOR REMARK 3 T11: 0.3628 T22: 0.6799 REMARK 3 T33: 0.4346 T12: 0.1003 REMARK 3 T13: 0.0172 T23: 0.0461 REMARK 3 L TENSOR REMARK 3 L11: 3.0257 L22: 3.7668 REMARK 3 L33: 3.5032 L12: -0.2821 REMARK 3 L13: 0.5562 L23: -0.0944 REMARK 3 S TENSOR REMARK 3 S11: 0.1625 S12: 0.1792 S13: 0.0843 REMARK 3 S21: -0.1675 S22: -0.0613 S23: 0.5622 REMARK 3 S31: -0.1345 S32: -0.6968 S33: -0.0320 REMARK 3 TLS GROUP : 7 REMARK 3 SELECTION: CHAIN 'A' AND (RESID 239 THROUGH 263 ) REMARK 3 ORIGIN FOR THE GROUP (A): 26.9470 19.9073 15.6956 REMARK 3 T TENSOR REMARK 3 T11: 0.6351 T22: 0.5222 REMARK 3 T33: 0.4595 T12: -0.0930 REMARK 3 T13: 0.0942 T23: -0.1322 REMARK 3 L TENSOR REMARK 3 L11: 6.0237 L22: 5.0102 REMARK 3 L33: 5.5122 L12: -3.8289 REMARK 3 L13: 2.0295 L23: -0.7988 REMARK 3 S TENSOR REMARK 3 S11: -0.2694 S12: -0.7256 S13: 0.8007 REMARK 3 S21: 0.4819 S22: 0.1616 S23: -0.5920 REMARK 3 S31: -0.7317 S32: 0.1467 S33: 0.0893 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 8QGA COMPLIES WITH FORMAT V. 3.30, 13-JUL-11 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY PDBE ON 07-SEP-23. REMARK 100 THE DEPOSITION ID IS D_1292133130. REMARK 200 REMARK 200 EXPERIMENTAL DETAILS REMARK 200 EXPERIMENT TYPE : X-RAY DIFFRACTION REMARK 200 DATE OF DATA COLLECTION : 07-NOV-14 REMARK 200 TEMPERATURE (KELVIN) : 100 REMARK 200 PH : 4.8-5.1 REMARK 200 NUMBER OF CRYSTALS USED : 1 REMARK 200 REMARK 200 SYNCHROTRON (Y/N) : Y REMARK 200 RADIATION SOURCE : ESRF REMARK 200 BEAMLINE : ID29 REMARK 200 X-RAY GENERATOR MODEL : NULL REMARK 200 MONOCHROMATIC OR LAUE (M/L) : M REMARK 200 WAVELENGTH OR RANGE (A) : 0.97625 REMARK 200 MONOCHROMATOR : NULL REMARK 200 OPTICS : NULL REMARK 200 REMARK 200 DETECTOR TYPE : PIXEL REMARK 200 DETECTOR MANUFACTURER : DECTRIS PILATUS 6M REMARK 200 INTENSITY-INTEGRATION SOFTWARE : XDS REMARK 200 DATA SCALING SOFTWARE : SCALA REMARK 200 REMARK 200 NUMBER OF UNIQUE REFLECTIONS : 13674 REMARK 200 RESOLUTION RANGE HIGH (A) : 2.230 REMARK 200 RESOLUTION RANGE LOW (A) : 48.140 REMARK 200 REJECTION CRITERIA (SIGMA(I)) : NULL REMARK 200 REMARK 200 OVERALL. REMARK 200 COMPLETENESS FOR RANGE (%) : 98.0 REMARK 200 DATA REDUNDANCY : 4.100 REMARK 200 R MERGE (I) : 0.05600 REMARK 200 R SYM (I) : NULL REMARK 200 FOR THE DATA SET : 14.6000 REMARK 200 REMARK 200 IN THE HIGHEST RESOLUTION SHELL. REMARK 200 HIGHEST RESOLUTION SHELL, RANGE HIGH (A) : 2.23 REMARK 200 HIGHEST RESOLUTION SHELL, RANGE LOW (A) : 2.31 REMARK 200 COMPLETENESS FOR SHELL (%) : NULL REMARK 200 DATA REDUNDANCY IN SHELL : 4.00 REMARK 200 R MERGE FOR SHELL (I) : 4.69300 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, PHENIX REMARK 200 STARTING MODEL: NULL REMARK 200 REMARK 200 REMARK: NULL REMARK 280 REMARK 280 CRYSTAL REMARK 280 SOLVENT CONTENT, VS (%): 45.11 REMARK 280 MATTHEWS COEFFICIENT, VM (ANGSTROMS**3/DA): 2.24 REMARK 280 REMARK 280 CRYSTALLIZATION CONDITIONS: 30 MM NABR, 220 MM KCITRATE, GLYCEROL REMARK 280 6%, 15-16% W/V PEG400, VAPOR DIFFUSION, HANGING DROP, REMARK 280 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 31.49500 REMARK 290 SMTRY2 5 0.000000 1.000000 0.000000 37.33000 REMARK 290 SMTRY3 5 0.000000 0.000000 1.000000 59.16850 REMARK 290 SMTRY1 6 -1.000000 0.000000 0.000000 31.49500 REMARK 290 SMTRY2 6 0.000000 -1.000000 0.000000 37.33000 REMARK 290 SMTRY3 6 0.000000 0.000000 1.000000 59.16850 REMARK 290 SMTRY1 7 -1.000000 0.000000 0.000000 31.49500 REMARK 290 SMTRY2 7 0.000000 1.000000 0.000000 37.33000 REMARK 290 SMTRY3 7 0.000000 0.000000 -1.000000 59.16850 REMARK 290 SMTRY1 8 1.000000 0.000000 0.000000 31.49500 REMARK 290 SMTRY2 8 0.000000 -1.000000 0.000000 37.33000 REMARK 290 SMTRY3 8 0.000000 0.000000 -1.000000 59.16850 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 SOFTWARE DETERMINED QUATERNARY STRUCTURE: TETRAMERIC REMARK 350 SOFTWARE USED: PISA REMARK 350 TOTAL BURIED SURFACE AREA: 10340 ANGSTROM**2 REMARK 350 SURFACE AREA OF THE COMPLEX: 39980 ANGSTROM**2 REMARK 350 CHANGE IN SOLVENT FREE ENERGY: -47.0 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 BIOMT1 2 -1.000000 0.000000 0.000000 62.99000 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 BIOMT1 3 -1.000000 0.000000 0.000000 62.99000 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 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 405 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 ASP A 264 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 114 CG CD CE NZ REMARK 470 ARG A 190 CG CD NE CZ NH1 NH2 REMARK 470 ARG A 193 CD NE CZ NH1 NH2 REMARK 470 GLN A 232 CG CD OE1 NE2 REMARK 470 ARG A 249 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 ASP A 77 45.22 -102.24 REMARK 500 ASN A 122 -65.44 -99.17 REMARK 500 SER A 129 21.08 -77.43 REMARK 500 ALA A 162 -126.80 -101.92 REMARK 500 ASN A 189 -154.80 -145.18 REMARK 500 VAL A 212 -61.53 -102.47 REMARK 500 ASN A 213 -77.67 -122.08 REMARK 500 ASP A 222 -112.46 57.30 REMARK 500 ILE A 262 -71.39 -93.07 REMARK 500 REMARK 500 REMARK: NULL REMARK 900 REMARK 900 RELATED ENTRIES REMARK 900 RELATED ID: 8A9V RELATED DB: PDB DBREF 8QGA A 1 264 UNP Q8Y8D7 NADK1_LISMO 1 264 SEQADV 8QGA LEU A 265 UNP Q8Y8D7 EXPRESSION TAG SEQADV 8QGA GLU A 266 UNP Q8Y8D7 EXPRESSION TAG SEQADV 8QGA HIS A 267 UNP Q8Y8D7 EXPRESSION TAG SEQADV 8QGA HIS A 268 UNP Q8Y8D7 EXPRESSION TAG SEQADV 8QGA HIS A 269 UNP Q8Y8D7 EXPRESSION TAG SEQADV 8QGA HIS A 270 UNP Q8Y8D7 EXPRESSION TAG SEQADV 8QGA HIS A 271 UNP Q8Y8D7 EXPRESSION TAG SEQADV 8QGA 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 UV0 A 302 55 HETNAM CIT CITRIC ACID HETNAM UV0 1-[[(2~{R},3~{S},4~{R},5~{R})-5-[8-[3-[[(2~{R},3~{S}, HETNAM 2 UV0 4~{R},5~{R})-5-(6-AMINOPURIN-9-YL)-3,4-BIS(OXIDANYL) HETNAM 3 UV0 OXOLAN-2-YL]METHYL-METHYL-AMINO]PROP-1-YNYL]-6-AZANYL- HETNAM 4 UV0 PURIN-9-YL]-3,4-BIS(OXIDANYL)OXOLAN-2-YL]METHYL]-3- HETNAM 5 UV0 NAPHTHALEN-1-YL-UREA FORMUL 2 CIT C6 H8 O7 FORMUL 3 UV0 C35 H37 N13 O7 FORMUL 4 HOH *14(H2 O) HELIX 1 AA1 ASP A 10 GLU A 26 1 17 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 3 TYR A 3 SER A 7 0 SHEET 2 AA1 3 ILE A 38 GLY A 43 1 O ILE A 40 N THR A 6 SHEET 3 AA1 3 ALA A 63 HIS A 68 1 O ILE A 65 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 PHE A 245 N VAL A 98 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 MET A 179 O PHE A 201 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 SER A 220 N THR A 125 SHEET 6 AA3 6 LEU A 224 HIS A 228 -1 O LEU A 224 N VAL A 221 CRYST1 62.990 74.660 118.337 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 0.015876 0.000000 0.000000 0.00000 SCALE2 0.000000 0.013394 0.000000 0.00000 SCALE3 0.000000 0.000000 0.008450 0.00000 CONECT 2064 2065 2066 2067 CONECT 2065 2064 CONECT 2066 2064 CONECT 2067 2064 2068 CONECT 2068 2067 2069 2070 2074 CONECT 2069 2068 CONECT 2070 2068 2071 CONECT 2071 2070 2072 2073 CONECT 2072 2071 CONECT 2073 2071 CONECT 2074 2068 2075 2076 CONECT 2075 2074 CONECT 2076 2074 CONECT 2077 2078 2082 2116 CONECT 2078 2077 2079 2115 CONECT 2079 2078 2081 2114 CONECT 2080 2087 2115 2116 CONECT 2081 2079 2083 CONECT 2082 2077 2083 CONECT 2083 2081 2082 CONECT 2084 2117 CONECT 2085 2086 2117 CONECT 2086 2085 2087 CONECT 2087 2080 2086 CONECT 2088 2103 2116 2125 CONECT 2089 2090 2102 2125 CONECT 2090 2089 2118 CONECT 2091 2118 2119 2126 CONECT 2092 2093 2101 2119 CONECT 2093 2092 2094 2098 CONECT 2094 2093 2095 CONECT 2095 2094 2096 CONECT 2096 2095 2097 CONECT 2097 2096 2098 CONECT 2098 2093 2097 2099 CONECT 2099 2098 2100 CONECT 2100 2099 2101 CONECT 2101 2092 2100 CONECT 2102 2089 2103 2127 CONECT 2103 2088 2102 2128 CONECT 2104 2105 2117 CONECT 2105 2104 2108 2129 CONECT 2106 2107 2120 2129 CONECT 2107 2106 2108 2130 CONECT 2108 2105 2107 2131 CONECT 2109 2120 2121 CONECT 2110 2111 2113 2121 CONECT 2111 2110 2120 2122 CONECT 2112 2122 2123 CONECT 2113 2110 2123 2124 CONECT 2114 2079 CONECT 2115 2078 2080 CONECT 2116 2077 2080 2088 CONECT 2117 2084 2085 2104 CONECT 2118 2090 2091 CONECT 2119 2091 2092 CONECT 2120 2106 2109 2111 CONECT 2121 2109 2110 CONECT 2122 2111 2112 CONECT 2123 2112 2113 CONECT 2124 2113 CONECT 2125 2088 2089 CONECT 2126 2091 CONECT 2127 2102 CONECT 2128 2103 CONECT 2129 2105 2106 CONECT 2130 2107 CONECT 2131 2108 MASTER 395 0 2 8 15 0 0 6 2131 1 68 21 END