HEADER TRANSFERASE 11-APR-19 6RBZ TITLE CRYSTAL STRUCTURE OF NAD KINASE 1 FROM LISTERIA MONOCYTOGENES IN TITLE 2 COMPLEXE WITH AN ADENINE 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 SEROVAR 1/2A (STRAIN SOURCE 3 ATCC BAA-679 / EGD-E); SOURCE 4 ORGANISM_TAXID: 169963; 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 3 15-MAY-24 6RBZ 1 REMARK REVDAT 2 25-MAR-20 6RBZ 1 JRNL REVDAT 1 19-FEB-20 6RBZ 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. 2.32 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) : 2.32 REMARK 3 RESOLUTION RANGE LOW (ANGSTROMS) : 55.02 REMARK 3 MIN(FOBS/SIGMA_FOBS) : 1.340 REMARK 3 COMPLETENESS FOR RANGE (%) : 98.4 REMARK 3 NUMBER OF REFLECTIONS : 12465 REMARK 3 REMARK 3 FIT TO DATA USED IN REFINEMENT. REMARK 3 R VALUE (WORKING + TEST SET) : 0.215 REMARK 3 R VALUE (WORKING SET) : 0.214 REMARK 3 FREE R VALUE : 0.237 REMARK 3 FREE R VALUE TEST SET SIZE (%) : 4.950 REMARK 3 FREE R VALUE TEST SET COUNT : 617 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 55.0351 - 3.6788 0.97 3035 158 0.1846 0.1798 REMARK 3 2 3.6788 - 2.9200 0.99 2965 145 0.2325 0.2916 REMARK 3 3 2.9200 - 2.5509 0.99 2917 172 0.2713 0.3518 REMARK 3 4 2.5509 - 2.3177 0.99 2931 142 0.2710 0.3272 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) : 0.300 REMARK 3 PHASE ERROR (DEGREES, MAXIMUM-LIKELIHOOD BASED) : 31.450 REMARK 3 REMARK 3 B VALUES. REMARK 3 FROM WILSON PLOT (A**2) : 48.28 REMARK 3 MEAN B VALUE (OVERALL, A**2) : 62.81 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 26 ) REMARK 3 ORIGIN FOR THE GROUP (A): 8.5193 22.9141 28.6397 REMARK 3 T TENSOR REMARK 3 T11: 0.5906 T22: 0.8528 REMARK 3 T33: 0.5477 T12: 0.0495 REMARK 3 T13: 0.0158 T23: -0.0698 REMARK 3 L TENSOR REMARK 3 L11: 3.1594 L22: 2.0780 REMARK 3 L33: 3.5515 L12: -0.8685 REMARK 3 L13: -0.7052 L23: 0.9700 REMARK 3 S TENSOR REMARK 3 S11: -0.0470 S12: -0.9885 S13: 0.1786 REMARK 3 S21: 0.0548 S22: -0.1593 S23: 0.1436 REMARK 3 S31: -0.2614 S32: 0.1871 S33: -0.0576 REMARK 3 TLS GROUP : 2 REMARK 3 SELECTION: CHAIN 'A' AND (RESID 27 THROUGH 102 ) REMARK 3 ORIGIN FOR THE GROUP (A): 14.5707 25.6162 19.7756 REMARK 3 T TENSOR REMARK 3 T11: 0.5592 T22: 0.7384 REMARK 3 T33: 0.6010 T12: 0.0106 REMARK 3 T13: 0.0661 T23: -0.1185 REMARK 3 L TENSOR REMARK 3 L11: 3.3164 L22: 1.5382 REMARK 3 L33: 3.5348 L12: -0.9246 REMARK 3 L13: -1.5941 L23: 1.0262 REMARK 3 S TENSOR REMARK 3 S11: 0.1145 S12: -0.5880 S13: 0.5956 REMARK 3 S21: 0.1082 S22: 0.1104 S23: -0.1326 REMARK 3 S31: -0.2163 S32: -0.0633 S33: -0.1775 REMARK 3 TLS GROUP : 3 REMARK 3 SELECTION: CHAIN 'A' AND (RESID 103 THROUGH 120 ) REMARK 3 ORIGIN FOR THE GROUP (A): 7.2564 20.3595 -5.5192 REMARK 3 T TENSOR REMARK 3 T11: 0.6484 T22: 0.8674 REMARK 3 T33: 0.6665 T12: 0.0556 REMARK 3 T13: 0.0131 T23: 0.0695 REMARK 3 L TENSOR REMARK 3 L11: 3.5870 L22: 1.3320 REMARK 3 L33: 0.6638 L12: -1.9554 REMARK 3 L13: -1.4807 L23: 0.7886 REMARK 3 S TENSOR REMARK 3 S11: -0.0545 S12: 0.2688 S13: 0.7888 REMARK 3 S21: -0.4289 S22: -0.0842 S23: 0.8931 REMARK 3 S31: -0.4701 S32: -0.4137 S33: 0.0354 REMARK 3 TLS GROUP : 4 REMARK 3 SELECTION: CHAIN 'A' AND (RESID 121 THROUGH 184 ) REMARK 3 ORIGIN FOR THE GROUP (A): 20.4239 11.3645 -3.8126 REMARK 3 T TENSOR REMARK 3 T11: 0.4289 T22: 0.4599 REMARK 3 T33: 0.4275 T12: 0.0203 REMARK 3 T13: 0.0372 T23: 0.0342 REMARK 3 L TENSOR REMARK 3 L11: 1.5263 L22: 0.9960 REMARK 3 L33: 2.6499 L12: 0.1224 REMARK 3 L13: -0.1550 L23: 0.9775 REMARK 3 S TENSOR REMARK 3 S11: 0.0937 S12: 0.2143 S13: 0.0482 REMARK 3 S21: -0.0579 S22: 0.0168 S23: 0.0786 REMARK 3 S31: -0.0904 S32: -0.1458 S33: 0.0027 REMARK 3 TLS GROUP : 5 REMARK 3 SELECTION: CHAIN 'A' AND (RESID 185 THROUGH 198 ) REMARK 3 ORIGIN FOR THE GROUP (A): 25.2457 1.4073 -12.6022 REMARK 3 T TENSOR REMARK 3 T11: 0.7745 T22: 0.7459 REMARK 3 T33: 0.4636 T12: 0.0207 REMARK 3 T13: -0.0024 T23: 0.0793 REMARK 3 L TENSOR REMARK 3 L11: 5.0827 L22: 7.3270 REMARK 3 L33: 6.0074 L12: 1.8765 REMARK 3 L13: 0.9917 L23: 2.3525 REMARK 3 S TENSOR REMARK 3 S11: -0.1510 S12: 0.6875 S13: -0.1412 REMARK 3 S21: -0.6280 S22: 0.5450 S23: 0.0018 REMARK 3 S31: 0.5960 S32: 0.0216 S33: -0.1120 REMARK 3 TLS GROUP : 6 REMARK 3 SELECTION: CHAIN 'A' AND (RESID 199 THROUGH 216 ) REMARK 3 ORIGIN FOR THE GROUP (A): 17.0638 15.4222 -10.5869 REMARK 3 T TENSOR REMARK 3 T11: 0.4581 T22: 0.5945 REMARK 3 T33: 0.4303 T12: 0.0542 REMARK 3 T13: 0.0210 T23: 0.0255 REMARK 3 L TENSOR REMARK 3 L11: 2.9358 L22: 1.2873 REMARK 3 L33: 2.7876 L12: -0.3724 REMARK 3 L13: 0.2783 L23: -0.4005 REMARK 3 S TENSOR REMARK 3 S11: 0.2616 S12: 0.7726 S13: 0.3787 REMARK 3 S21: 0.0084 S22: -0.2051 S23: 0.2515 REMARK 3 S31: -0.0270 S32: -0.4855 S33: 0.0488 REMARK 3 TLS GROUP : 7 REMARK 3 SELECTION: CHAIN 'A' AND (RESID 217 THROUGH 230 ) REMARK 3 ORIGIN FOR THE GROUP (A): 5.9629 10.7108 -1.5225 REMARK 3 T TENSOR REMARK 3 T11: 0.4528 T22: 0.7521 REMARK 3 T33: 0.6139 T12: -0.0791 REMARK 3 T13: 0.0256 T23: 0.0251 REMARK 3 L TENSOR REMARK 3 L11: 5.4936 L22: 4.2646 REMARK 3 L33: 3.6742 L12: 0.2832 REMARK 3 L13: 1.1094 L23: 0.1547 REMARK 3 S TENSOR REMARK 3 S11: -0.0995 S12: -0.3820 S13: -0.1978 REMARK 3 S21: 0.3366 S22: 0.0258 S23: 0.3548 REMARK 3 S31: 0.8421 S32: -1.2078 S33: 0.0228 REMARK 3 TLS GROUP : 8 REMARK 3 SELECTION: CHAIN 'A' AND (RESID 231 THROUGH 264 ) REMARK 3 ORIGIN FOR THE GROUP (A): 23.6302 19.7494 10.5463 REMARK 3 T TENSOR REMARK 3 T11: 0.4741 T22: 0.5146 REMARK 3 T33: 0.5059 T12: -0.0191 REMARK 3 T13: 0.0824 T23: -0.0237 REMARK 3 L TENSOR REMARK 3 L11: 3.0506 L22: 2.0898 REMARK 3 L33: 2.7168 L12: -0.6605 REMARK 3 L13: 0.8478 L23: 0.6631 REMARK 3 S TENSOR REMARK 3 S11: 0.0311 S12: -0.3821 S13: 0.4055 REMARK 3 S21: 0.1151 S22: -0.0347 S23: -0.0734 REMARK 3 S31: -0.1372 S32: -0.0693 S33: 0.0688 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 6RBZ COMPLIES WITH FORMAT V. 3.30, 13-JUL-11 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY PDBE ON 11-APR-19. REMARK 100 THE DEPOSITION ID IS D_1292101723. REMARK 200 REMARK 200 EXPERIMENTAL DETAILS REMARK 200 EXPERIMENT TYPE : X-RAY DIFFRACTION REMARK 200 DATE OF DATA COLLECTION : 09-MAR-18 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 : ID30B REMARK 200 X-RAY GENERATOR MODEL : NULL REMARK 200 MONOCHROMATIC OR LAUE (M/L) : M REMARK 200 WAVELENGTH OR RANGE (A) : 0.978 REMARK 200 MONOCHROMATOR : NULL REMARK 200 OPTICS : NULL REMARK 200 REMARK 200 DETECTOR TYPE : PIXEL REMARK 200 DETECTOR MANUFACTURER : DECTRIS PILATUS3 S 6M REMARK 200 INTENSITY-INTEGRATION SOFTWARE : XDS REMARK 200 DATA SCALING SOFTWARE : AIMLESS REMARK 200 REMARK 200 NUMBER OF UNIQUE REFLECTIONS : 12508 REMARK 200 RESOLUTION RANGE HIGH (A) : 2.318 REMARK 200 RESOLUTION RANGE LOW (A) : 55.020 REMARK 200 REJECTION CRITERIA (SIGMA(I)) : NULL REMARK 200 REMARK 200 OVERALL. REMARK 200 COMPLETENESS FOR RANGE (%) : 98.8 REMARK 200 DATA REDUNDANCY : 4.700 REMARK 200 R MERGE (I) : 0.05700 REMARK 200 R SYM (I) : NULL REMARK 200 FOR THE DATA SET : 14.2000 REMARK 200 REMARK 200 IN THE HIGHEST RESOLUTION SHELL. REMARK 200 HIGHEST RESOLUTION SHELL, RANGE HIGH (A) : 2.32 REMARK 200 HIGHEST RESOLUTION SHELL, RANGE LOW (A) : 2.36 REMARK 200 COMPLETENESS FOR SHELL (%) : 99.5 REMARK 200 DATA REDUNDANCY IN SHELL : 4.90 REMARK 200 R MERGE FOR SHELL (I) : 0.68000 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 (%): 45.88 REMARK 280 MATTHEWS COEFFICIENT, VM (ANGSTROMS**3/DA): 2.27 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 31.06000 REMARK 290 SMTRY2 5 0.000000 1.000000 0.000000 38.34000 REMARK 290 SMTRY3 5 0.000000 0.000000 1.000000 59.25500 REMARK 290 SMTRY1 6 -1.000000 0.000000 0.000000 31.06000 REMARK 290 SMTRY2 6 0.000000 -1.000000 0.000000 38.34000 REMARK 290 SMTRY3 6 0.000000 0.000000 1.000000 59.25500 REMARK 290 SMTRY1 7 -1.000000 0.000000 0.000000 31.06000 REMARK 290 SMTRY2 7 0.000000 1.000000 0.000000 38.34000 REMARK 290 SMTRY3 7 0.000000 0.000000 -1.000000 59.25500 REMARK 290 SMTRY1 8 1.000000 0.000000 0.000000 31.06000 REMARK 290 SMTRY2 8 0.000000 -1.000000 0.000000 38.34000 REMARK 290 SMTRY3 8 0.000000 0.000000 -1.000000 59.25500 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 62.12000 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 62.12000 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 ILE A 111 REMARK 465 GLY A 112 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 LYS A 92 CG CD CE NZ REMARK 470 GLU A 94 CG CD OE1 OE2 REMARK 470 LYS A 113 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 GLU A 35 54.07 -119.51 REMARK 500 LYS A 114 -128.63 66.79 REMARK 500 ASN A 122 -69.30 -100.39 REMARK 500 ALA A 162 -126.36 -93.33 REMARK 500 ALA A 185 64.05 38.26 REMARK 500 HIS A 204 -4.03 74.60 REMARK 500 ASN A 213 -79.46 -116.37 REMARK 500 ASP A 222 -109.91 55.61 REMARK 500 GLU A 263 145.44 166.02 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 JXK A 302 DBREF 6RBZ A 1 264 UNP Q8Y8D7 NADK1_LISMO 1 264 SEQADV 6RBZ LEU A 265 UNP Q8Y8D7 EXPRESSION TAG SEQADV 6RBZ GLU A 266 UNP Q8Y8D7 EXPRESSION TAG SEQADV 6RBZ HIS A 267 UNP Q8Y8D7 EXPRESSION TAG SEQADV 6RBZ HIS A 268 UNP Q8Y8D7 EXPRESSION TAG SEQADV 6RBZ HIS A 269 UNP Q8Y8D7 EXPRESSION TAG SEQADV 6RBZ HIS A 270 UNP Q8Y8D7 EXPRESSION TAG SEQADV 6RBZ HIS A 271 UNP Q8Y8D7 EXPRESSION TAG SEQADV 6RBZ 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 JXK A 302 26 HETNAM CIT CITRIC ACID HETNAM JXK 9-(3-AZANYLPROPYL)-8-BROMANYL-PURIN-6-AMINE FORMUL 2 CIT C6 H8 O7 FORMUL 3 JXK C8 H11 BR N6 FORMUL 4 HOH *30(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 GLU A 56 ILE A 62 5 7 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 MET A 4 SHEET 4 AA1 4 ALA A 63 HIS A 68 1 O ILE A 65 N SER A 41 SHEET 1 AA2 8 GLU A 115 ALA A 120 0 SHEET 2 AA2 8 GLN A 96 TYR A 109 -1 N VAL A 107 O ALA A 116 SHEET 3 AA2 8 VAL A 231 ARG A 247 -1 O PHE A 245 N VAL A 98 SHEET 4 AA2 8 VAL A 207 PRO A 211 -1 N LEU A 209 O ILE A 234 SHEET 5 AA2 8 PHE A 133 ILE A 139 -1 N VAL A 138 O SER A 208 SHEET 6 AA2 8 ILE A 142 SER A 155 -1 O GLU A 145 N VAL A 137 SHEET 7 AA2 8 ALA A 178 SER A 186 -1 O GLN A 180 N SER A 155 SHEET 8 AA2 8 LEU A 199 PRO A 202 -1 O PHE A 201 N MET A 179 SHEET 1 AA3 9 GLU A 115 ALA A 120 0 SHEET 2 AA3 9 GLN A 96 TYR A 109 -1 N VAL A 107 O ALA A 116 SHEET 3 AA3 9 VAL A 231 ARG A 247 -1 O PHE A 245 N VAL A 98 SHEET 4 AA3 9 VAL A 207 PRO A 211 -1 N LEU A 209 O ILE A 234 SHEET 5 AA3 9 PHE A 133 ILE A 139 -1 N VAL A 138 O SER A 208 SHEET 6 AA3 9 ILE A 142 SER A 155 -1 O GLU A 145 N VAL A 137 SHEET 7 AA3 9 GLU A 123 SER A 128 -1 N SER A 124 O MET A 154 SHEET 8 AA3 9 PHE A 217 VAL A 221 -1 O SER A 220 N THR A 125 SHEET 9 AA3 9 LEU A 224 HIS A 228 -1 O ILE A 226 N ILE A 219 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 405 SITE 1 AC2 8 ASP A 45 LEU A 49 PHE A 74 TYR A 75 SITE 2 AC2 8 ASN A 122 SER A 158 THR A 161 ALA A 162 CRYST1 62.120 76.680 118.510 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 0.016098 0.000000 0.000000 0.00000 SCALE2 0.000000 0.013041 0.000000 0.00000 SCALE3 0.000000 0.000000 0.008438 0.00000