HEADER TRANSFERASE 05-SEP-23 8QG6 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 8QG6 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. 2.14 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 : ML REMARK 3 REMARK 3 DATA USED IN REFINEMENT. REMARK 3 RESOLUTION RANGE HIGH (ANGSTROMS) : 2.14 REMARK 3 RESOLUTION RANGE LOW (ANGSTROMS) : 34.97 REMARK 3 MIN(FOBS/SIGMA_FOBS) : 1.330 REMARK 3 COMPLETENESS FOR RANGE (%) : 89.4 REMARK 3 NUMBER OF REFLECTIONS : 14151 REMARK 3 REMARK 3 FIT TO DATA USED IN REFINEMENT. REMARK 3 R VALUE (WORKING + TEST SET) : 0.195 REMARK 3 R VALUE (WORKING SET) : 0.194 REMARK 3 FREE R VALUE : 0.218 REMARK 3 FREE R VALUE TEST SET SIZE (%) : 4.840 REMARK 3 FREE R VALUE TEST SET COUNT : 685 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 34.9650 - 3.6618 0.93 2854 115 0.1655 0.1555 REMARK 3 2 3.6618 - 2.9069 0.94 2779 149 0.1911 0.2288 REMARK 3 3 2.9069 - 2.5396 0.88 2606 158 0.2213 0.2951 REMARK 3 4 2.5396 - 2.3075 1.00 2969 142 0.2250 0.2674 REMARK 3 5 2.3075 - 2.1421 0.77 2258 121 0.3540 0.3376 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) : 0.300 REMARK 3 PHASE ERROR (DEGREES, MAXIMUM-LIKELIHOOD BASED) : 28.000 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 : 0.002 2193 REMARK 3 ANGLE : 0.709 2971 REMARK 3 CHIRALITY : 0.068 323 REMARK 3 PLANARITY : 0.003 373 REMARK 3 DIHEDRAL : 15.689 1293 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 1 THROUGH 26 ) REMARK 3 ORIGIN FOR THE GROUP (A): 8.9086 22.7382 28.6005 REMARK 3 T TENSOR REMARK 3 T11: 0.5123 T22: 0.6824 REMARK 3 T33: 0.3810 T12: 0.0949 REMARK 3 T13: 0.0340 T23: -0.1276 REMARK 3 L TENSOR REMARK 3 L11: 4.1965 L22: 2.9464 REMARK 3 L33: 5.5842 L12: -0.8577 REMARK 3 L13: -1.7639 L23: 1.4357 REMARK 3 S TENSOR REMARK 3 S11: -0.2488 S12: -0.8415 S13: 0.0230 REMARK 3 S21: 0.0112 S22: 0.2329 S23: 0.3292 REMARK 3 S31: -0.4305 S32: -0.1978 S33: 0.2316 REMARK 3 TLS GROUP : 2 REMARK 3 SELECTION: CHAIN 'A' AND (RESID 27 THROUGH 55 ) REMARK 3 ORIGIN FOR THE GROUP (A): 9.4679 25.7833 19.4576 REMARK 3 T TENSOR REMARK 3 T11: 0.5183 T22: 0.5594 REMARK 3 T33: 0.4133 T12: 0.1172 REMARK 3 T13: 0.0212 T23: -0.1326 REMARK 3 L TENSOR REMARK 3 L11: 3.7940 L22: 1.5994 REMARK 3 L33: 4.8184 L12: -0.5339 REMARK 3 L13: -1.4886 L23: 0.5246 REMARK 3 S TENSOR REMARK 3 S11: -0.1592 S12: -0.1048 S13: 0.3046 REMARK 3 S21: 0.3518 S22: -0.1214 S23: 0.3645 REMARK 3 S31: -0.3564 S32: -0.5189 S33: 0.1059 REMARK 3 TLS GROUP : 3 REMARK 3 SELECTION: CHAIN 'A' AND (RESID 56 THROUGH 79 ) REMARK 3 ORIGIN FOR THE GROUP (A): 16.7229 21.5833 17.8237 REMARK 3 T TENSOR REMARK 3 T11: 0.5181 T22: 0.5004 REMARK 3 T33: 0.3698 T12: 0.0024 REMARK 3 T13: 0.0262 T23: -0.0995 REMARK 3 L TENSOR REMARK 3 L11: 4.0075 L22: 2.2573 REMARK 3 L33: 5.0450 L12: -0.9024 REMARK 3 L13: -1.8343 L23: 0.9282 REMARK 3 S TENSOR REMARK 3 S11: -0.4512 S12: -0.6003 S13: 0.0902 REMARK 3 S21: 0.0336 S22: 0.2349 S23: 0.0214 REMARK 3 S31: -0.2399 S32: -0.0392 S33: 0.1246 REMARK 3 TLS GROUP : 4 REMARK 3 SELECTION: CHAIN 'A' AND (RESID 80 THROUGH 101 ) REMARK 3 ORIGIN FOR THE GROUP (A): 20.7024 28.5349 23.8719 REMARK 3 T TENSOR REMARK 3 T11: 0.6177 T22: 0.8185 REMARK 3 T33: 0.5204 T12: -0.0530 REMARK 3 T13: 0.0481 T23: -0.2538 REMARK 3 L TENSOR REMARK 3 L11: 2.0323 L22: 1.1701 REMARK 3 L33: 5.2531 L12: -0.7532 REMARK 3 L13: -1.4646 L23: 0.9357 REMARK 3 S TENSOR REMARK 3 S11: 0.0842 S12: -1.0100 S13: 0.7926 REMARK 3 S21: 0.1369 S22: 0.2914 S23: 0.0743 REMARK 3 S31: -1.3643 S32: 0.5202 S33: -0.1750 REMARK 3 TLS GROUP : 5 REMARK 3 SELECTION: CHAIN 'A' AND (RESID 102 THROUGH 184 ) REMARK 3 ORIGIN FOR THE GROUP (A): 18.8555 13.0286 -3.6416 REMARK 3 T TENSOR REMARK 3 T11: 0.2506 T22: 0.3064 REMARK 3 T33: 0.2499 T12: 0.0268 REMARK 3 T13: 0.0047 T23: 0.0337 REMARK 3 L TENSOR REMARK 3 L11: 2.4675 L22: 2.5872 REMARK 3 L33: 3.9380 L12: -0.4278 REMARK 3 L13: -0.1869 L23: 0.5017 REMARK 3 S TENSOR REMARK 3 S11: 0.0561 S12: 0.2489 S13: 0.1034 REMARK 3 S21: -0.1235 S22: 0.0005 S23: 0.2773 REMARK 3 S31: -0.1730 S32: -0.4234 S33: 0.0420 REMARK 3 TLS GROUP : 6 REMARK 3 SELECTION: CHAIN 'A' AND (RESID 185 THROUGH 198 ) REMARK 3 ORIGIN FOR THE GROUP (A): 25.5285 1.2951 -12.5994 REMARK 3 T TENSOR REMARK 3 T11: 0.4781 T22: 0.4335 REMARK 3 T33: 0.2629 T12: 0.0313 REMARK 3 T13: -0.0281 T23: 0.0344 REMARK 3 L TENSOR REMARK 3 L11: 4.6398 L22: 5.7804 REMARK 3 L33: 4.6930 L12: 0.7827 REMARK 3 L13: -0.3058 L23: 0.2633 REMARK 3 S TENSOR REMARK 3 S11: 0.0100 S12: 0.4726 S13: -0.3188 REMARK 3 S21: -0.7026 S22: -0.1189 S23: 0.0887 REMARK 3 S31: 0.5605 S32: -0.1635 S33: 0.0097 REMARK 3 TLS GROUP : 7 REMARK 3 SELECTION: CHAIN 'A' AND (RESID 199 THROUGH 216 ) REMARK 3 ORIGIN FOR THE GROUP (A): 17.5095 15.6571 -10.2655 REMARK 3 T TENSOR REMARK 3 T11: 0.3631 T22: 0.3901 REMARK 3 T33: 0.3234 T12: 0.0981 REMARK 3 T13: -0.0515 T23: 0.0425 REMARK 3 L TENSOR REMARK 3 L11: 3.6949 L22: 2.4184 REMARK 3 L33: 4.1518 L12: -0.2670 REMARK 3 L13: -0.1124 L23: -0.2882 REMARK 3 S TENSOR REMARK 3 S11: 0.1758 S12: 0.7101 S13: 0.2703 REMARK 3 S21: -0.1178 S22: -0.1041 S23: 0.5124 REMARK 3 S31: -0.1250 S32: -0.4570 S33: 0.0617 REMARK 3 TLS GROUP : 8 REMARK 3 SELECTION: CHAIN 'A' AND (RESID 217 THROUGH 238 ) REMARK 3 ORIGIN FOR THE GROUP (A): 8.9958 13.3679 -3.9744 REMARK 3 T TENSOR REMARK 3 T11: 0.3077 T22: 0.5359 REMARK 3 T33: 0.4596 T12: 0.1032 REMARK 3 T13: -0.0148 T23: -0.0332 REMARK 3 L TENSOR REMARK 3 L11: 3.9540 L22: 3.5227 REMARK 3 L33: 4.5998 L12: 0.5974 REMARK 3 L13: 1.0139 L23: 1.2854 REMARK 3 S TENSOR REMARK 3 S11: -0.0560 S12: 0.3643 S13: 0.0915 REMARK 3 S21: 0.0246 S22: 0.0364 S23: 0.9101 REMARK 3 S31: 0.1068 S32: -1.0246 S33: 0.0592 REMARK 3 TLS GROUP : 9 REMARK 3 SELECTION: CHAIN 'A' AND (RESID 239 THROUGH 252 ) REMARK 3 ORIGIN FOR THE GROUP (A): 22.8577 26.6655 14.9383 REMARK 3 T TENSOR REMARK 3 T11: 0.6193 T22: 0.3758 REMARK 3 T33: 0.4617 T12: -0.0463 REMARK 3 T13: 0.0824 T23: -0.1257 REMARK 3 L TENSOR REMARK 3 L11: 3.6614 L22: 3.1667 REMARK 3 L33: 3.9087 L12: -0.8260 REMARK 3 L13: -0.2370 L23: 0.8754 REMARK 3 S TENSOR REMARK 3 S11: -0.1705 S12: -0.6342 S13: 0.6627 REMARK 3 S21: 0.2670 S22: 0.2275 S23: -0.1284 REMARK 3 S31: -1.1663 S32: -0.0808 S33: 0.0459 REMARK 3 TLS GROUP : 10 REMARK 3 SELECTION: CHAIN 'A' AND (RESID 253 THROUGH 264 ) REMARK 3 ORIGIN FOR THE GROUP (A): 31.0959 13.1338 17.5024 REMARK 3 T TENSOR REMARK 3 T11: 0.4709 T22: 0.5093 REMARK 3 T33: 0.2885 T12: -0.0516 REMARK 3 T13: 0.0246 T23: -0.0958 REMARK 3 L TENSOR REMARK 3 L11: 6.0666 L22: 7.4544 REMARK 3 L33: 6.0316 L12: -0.2960 REMARK 3 L13: -0.2733 L23: 0.4686 REMARK 3 S TENSOR REMARK 3 S11: -0.1559 S12: -1.2539 S13: 0.2735 REMARK 3 S21: 0.8456 S22: 0.1644 S23: -0.6862 REMARK 3 S31: 0.0179 S32: 0.0865 S33: -0.0180 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 8QG6 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_1292132973. REMARK 200 REMARK 200 EXPERIMENTAL DETAILS REMARK 200 EXPERIMENT TYPE : X-RAY DIFFRACTION REMARK 200 DATE OF DATA COLLECTION : 12-DEC-12 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 : ID14-4 REMARK 200 X-RAY GENERATOR MODEL : NULL REMARK 200 MONOCHROMATIC OR LAUE (M/L) : M REMARK 200 WAVELENGTH OR RANGE (A) : 0.979288 REMARK 200 MONOCHROMATOR : NULL REMARK 200 OPTICS : NULL REMARK 200 REMARK 200 DETECTOR TYPE : CCD REMARK 200 DETECTOR MANUFACTURER : ADSC QUANTUM 315R REMARK 200 INTENSITY-INTEGRATION SOFTWARE : MOSFLM REMARK 200 DATA SCALING SOFTWARE : AIMLESS REMARK 200 REMARK 200 NUMBER OF UNIQUE REFLECTIONS : 14311 REMARK 200 RESOLUTION RANGE HIGH (A) : 2.140 REMARK 200 RESOLUTION RANGE LOW (A) : 63.580 REMARK 200 REJECTION CRITERIA (SIGMA(I)) : NULL REMARK 200 REMARK 200 OVERALL. REMARK 200 COMPLETENESS FOR RANGE (%) : 90.4 REMARK 200 DATA REDUNDANCY : 6.400 REMARK 200 R MERGE (I) : 0.10200 REMARK 200 R SYM (I) : NULL REMARK 200 FOR THE DATA SET : 10.8000 REMARK 200 REMARK 200 IN THE HIGHEST RESOLUTION SHELL. REMARK 200 HIGHEST RESOLUTION SHELL, RANGE HIGH (A) : 2.14 REMARK 200 HIGHEST RESOLUTION SHELL, RANGE LOW (A) : 2.20 REMARK 200 COMPLETENESS FOR SHELL (%) : NULL REMARK 200 DATA REDUNDANCY IN SHELL : 5.00 REMARK 200 R MERGE FOR SHELL (I) : 0.58800 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 (%): 45.49 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, 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 31.40000 REMARK 290 SMTRY2 5 0.000000 1.000000 0.000000 37.68000 REMARK 290 SMTRY3 5 0.000000 0.000000 1.000000 59.20500 REMARK 290 SMTRY1 6 -1.000000 0.000000 0.000000 31.40000 REMARK 290 SMTRY2 6 0.000000 -1.000000 0.000000 37.68000 REMARK 290 SMTRY3 6 0.000000 0.000000 1.000000 59.20500 REMARK 290 SMTRY1 7 -1.000000 0.000000 0.000000 31.40000 REMARK 290 SMTRY2 7 0.000000 1.000000 0.000000 37.68000 REMARK 290 SMTRY3 7 0.000000 0.000000 -1.000000 59.20500 REMARK 290 SMTRY1 8 1.000000 0.000000 0.000000 31.40000 REMARK 290 SMTRY2 8 0.000000 -1.000000 0.000000 37.68000 REMARK 290 SMTRY3 8 0.000000 0.000000 -1.000000 59.20500 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 62.80000 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 62.80000 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 425 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 93 REMARK 465 GLU A 94 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 GLU A 11 CG CD OE1 OE2 REMARK 470 LYS A 85 CG CD CE NZ REMARK 470 ARG A 190 CG CD NE CZ NH1 NH2 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 -68.80 -99.47 REMARK 500 ASP A 141 -0.23 76.71 REMARK 500 ALA A 162 -123.52 -108.92 REMARK 500 ASN A 189 -158.98 -144.15 REMARK 500 HIS A 204 -1.43 73.87 REMARK 500 ASN A 213 -70.40 -129.26 REMARK 500 ASP A 222 -122.03 59.03 REMARK 500 GLU A 233 146.17 -170.91 REMARK 500 REMARK 500 REMARK: NULL REMARK 900 REMARK 900 RELATED ENTRIES REMARK 900 RELATED ID: 8A9V RELATED DB: PDB DBREF 8QG6 A 1 264 UNP Q8Y8D7 NADK1_LISMO 1 264 SEQADV 8QG6 LEU A 265 UNP Q8Y8D7 EXPRESSION TAG SEQADV 8QG6 GLU A 266 UNP Q8Y8D7 EXPRESSION TAG SEQADV 8QG6 HIS A 267 UNP Q8Y8D7 EXPRESSION TAG SEQADV 8QG6 HIS A 268 UNP Q8Y8D7 EXPRESSION TAG SEQADV 8QG6 HIS A 269 UNP Q8Y8D7 EXPRESSION TAG SEQADV 8QG6 HIS A 270 UNP Q8Y8D7 EXPRESSION TAG SEQADV 8QG6 HIS A 271 UNP Q8Y8D7 EXPRESSION TAG SEQADV 8QG6 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 V09 A 302 39 HETNAM CIT CITRIC ACID HETNAM V09 (2~{R},3~{R},4~{S},5~{R})-2-(6-AMINOPURIN-9-YL)-5-[3- HETNAM 2 V09 [6-AZANYL-9-(PHENYLMETHYL)PURIN-8-YL]PROP-2- HETNAM 3 V09 YNOXYMETHYL]OXOLANE-3,4-DIOL FORMUL 2 CIT C6 H8 O7 FORMUL 3 V09 C25 H24 N10 O4 FORMUL 4 HOH *95(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 LYS A 92 1 11 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 PHE A 245 N VAL A 98 SHEET 4 AA2 6 VAL A 207 PRO A 211 -1 N VAL A 207 O TYR A 236 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 GLN A 218 N LYS A 127 SHEET 6 AA3 6 LEU A 224 HIS A 228 -1 O HIS A 228 N PHE A 217 CRYST1 62.800 75.360 118.410 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 0.015924 0.000000 0.000000 0.00000 SCALE2 0.000000 0.013270 0.000000 0.00000 SCALE3 0.000000 0.000000 0.008445 0.00000 CONECT 2087 2088 2089 2090 CONECT 2088 2087 CONECT 2089 2087 CONECT 2090 2087 2091 CONECT 2091 2090 2092 2093 2097 CONECT 2092 2091 CONECT 2093 2091 2094 CONECT 2094 2093 2095 2096 CONECT 2095 2094 CONECT 2096 2094 CONECT 2097 2091 2098 2099 CONECT 2098 2097 CONECT 2099 2097 CONECT 2100 2126 2127 CONECT 2101 2102 2104 2127 CONECT 2102 2101 2103 2129 CONECT 2103 2102 2126 2128 CONECT 2104 2101 2110 2117 CONECT 2105 2106 2130 2137 CONECT 2106 2105 2107 2135 CONECT 2107 2106 2108 2136 CONECT 2108 2107 2109 2137 CONECT 2109 2108 2138 CONECT 2110 2104 2118 2129 CONECT 2111 2112 2116 CONECT 2112 2111 2113 CONECT 2113 2112 2114 CONECT 2114 2113 2115 2117 CONECT 2115 2114 2116 CONECT 2116 2111 2115 CONECT 2117 2104 2114 CONECT 2118 2110 2119 CONECT 2119 2118 2120 CONECT 2120 2119 2138 CONECT 2121 2130 2131 CONECT 2122 2123 2125 2131 CONECT 2123 2122 2130 2132 CONECT 2124 2132 2133 CONECT 2125 2122 2133 2134 CONECT 2126 2100 2103 CONECT 2127 2100 2101 CONECT 2128 2103 CONECT 2129 2102 2110 CONECT 2130 2105 2121 2123 CONECT 2131 2121 2122 CONECT 2132 2123 2124 CONECT 2133 2124 2125 CONECT 2134 2125 CONECT 2135 2106 CONECT 2136 2107 CONECT 2137 2105 2108 CONECT 2138 2109 2120 MASTER 438 0 2 8 16 0 0 6 2193 1 52 21 END