HEADER TRANSFERASE/TRANSFERASE INHIBITOR 23-DEC-11 3V8P TITLE CRYSTAL STRUCTURE OF NAD KINASE 1 FROM LISTERIA MONOCYTOGENES IN TITLE 2 COMPLEX WITH A NEW DI-ADENOSINE INHIBITOR FORMED IN SITU COMPND MOL_ID: 1; COMPND 2 MOLECULE: PROBABLE INORGANIC POLYPHOSPHATE/ATP-NAD KINASE 1; COMPND 3 CHAIN: A; COMPND 4 SYNONYM: POLY(P)/ATP NAD KINASE 1; COMPND 5 EC: 2.7.1.23; COMPND 6 ENGINEERED: YES SOURCE MOL_ID: 1; SOURCE 2 ORGANISM_SCIENTIFIC: LISTERIA MONOCYTOGENES; SOURCE 3 ORGANISM_TAXID: 1639; SOURCE 4 GENE: PPNK1, LMO0968; SOURCE 5 EXPRESSION_SYSTEM: ESCHERICHIA COLI; SOURCE 6 EXPRESSION_SYSTEM_TAXID: 562 KEYWDS LIGAND-SCREENING BY CRYSTALLOGRAPHY, TWO-DOMAIN KINASE, INORGANIC KEYWDS 2 POLYPHOSPHATE/ATP-NAD KINASE 1, TRANSFERASE-TRANSFERASE INHIBITOR KEYWDS 3 COMPLEX EXPDTA X-RAY DIFFRACTION AUTHOR M.GELIN,G.PONCET-MONTANGE,L.ASSAIRI,L.MORELLATO,V.HUTEAU,L.DUGU, AUTHOR 2 O.DUSSURGET,S.POCHET,G.LABESSE REVDAT 6 28-FEB-24 3V8P 1 REMARK REVDAT 5 24-JUN-20 3V8P 1 REMARK SEQADV REVDAT 4 08-NOV-17 3V8P 1 REMARK REVDAT 3 27-JUN-12 3V8P 1 JRNL REVDAT 2 06-JUN-12 3V8P 1 JRNL REVDAT 1 14-MAR-12 3V8P 0 JRNL AUTH M.GELIN,G.PONCET-MONTANGE,L.ASSAIRI,L.MORELLATO,V.HUTEAU, JRNL AUTH 2 L.DUGUE,O.DUSSURGET,S.POCHET,G.LABESSE JRNL TITL SCREENING AND IN SITU SYNTHESIS USING CRYSTALS OF A NAD JRNL TITL 2 KINASE LEAD TO A POTENT ANTISTAPHYLOCOCCAL COMPOUND. JRNL REF STRUCTURE V. 20 1107 2012 JRNL REFN ISSN 0969-2126 JRNL PMID 22608967 JRNL DOI 10.1016/J.STR.2012.03.024 REMARK 2 REMARK 2 RESOLUTION. 2.29 ANGSTROMS. REMARK 3 REMARK 3 REFINEMENT. REMARK 3 PROGRAM : PHENIX (PHENIX.REFINE: 1.6.4_486) 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) : 2.29 REMARK 3 RESOLUTION RANGE LOW (ANGSTROMS) : 33.51 REMARK 3 MIN(FOBS/SIGMA_FOBS) : 1.380 REMARK 3 COMPLETENESS FOR RANGE (%) : 96.6 REMARK 3 NUMBER OF REFLECTIONS : 12686 REMARK 3 REMARK 3 FIT TO DATA USED IN REFINEMENT. REMARK 3 R VALUE (WORKING + TEST SET) : 0.199 REMARK 3 R VALUE (WORKING SET) : 0.197 REMARK 3 FREE R VALUE : 0.246 REMARK 3 FREE R VALUE TEST SET SIZE (%) : 2.930 REMARK 3 FREE R VALUE TEST SET COUNT : 372 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 33.5148 - 3.3022 0.97 4256 122 0.1846 0.2104 REMARK 3 2 3.3022 - 2.6213 1.00 4189 135 0.2030 0.2694 REMARK 3 3 2.6213 - 2.2901 0.93 3869 115 0.2276 0.3185 REMARK 3 REMARK 3 BULK SOLVENT MODELLING. REMARK 3 METHOD USED : FLAT BULK SOLVENT MODEL REMARK 3 SOLVENT RADIUS : 1.20 REMARK 3 SHRINKAGE RADIUS : 0.95 REMARK 3 K_SOL : 0.33 REMARK 3 B_SOL : 45.98 REMARK 3 REMARK 3 ERROR ESTIMATES. REMARK 3 COORDINATE ERROR (MAXIMUM-LIKELIHOOD BASED) : 0.360 REMARK 3 PHASE ERROR (DEGREES, MAXIMUM-LIKELIHOOD BASED) : 24.090 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) : -1.43560 REMARK 3 B22 (A**2) : 0.06510 REMARK 3 B33 (A**2) : 1.37050 REMARK 3 B12 (A**2) : 0.00000 REMARK 3 B13 (A**2) : 0.00000 REMARK 3 B23 (A**2) : 0.00000 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 2208 REMARK 3 ANGLE : 0.934 2994 REMARK 3 CHIRALITY : 0.065 323 REMARK 3 PLANARITY : 0.003 380 REMARK 3 DIHEDRAL : 14.089 811 REMARK 3 REMARK 3 TLS DETAILS REMARK 3 NUMBER OF TLS GROUPS : 5 REMARK 3 TLS GROUP : 1 REMARK 3 SELECTION: (CHAIN A AND RESID 1:100) REMARK 3 ORIGIN FOR THE GROUP (A): 13.4952 24.4553 22.7431 REMARK 3 T TENSOR REMARK 3 T11: 0.0914 T22: 0.1963 REMARK 3 T33: 0.0381 T12: 0.1025 REMARK 3 T13: 0.0512 T23: -0.1412 REMARK 3 L TENSOR REMARK 3 L11: 0.9016 L22: 0.3261 REMARK 3 L33: 0.3999 L12: -0.4610 REMARK 3 L13: -0.5620 L23: 0.2883 REMARK 3 S TENSOR REMARK 3 S11: -0.1624 S12: -0.3415 S13: 0.0780 REMARK 3 S21: 0.1529 S22: 0.1414 S23: 0.0114 REMARK 3 S31: 0.0486 S32: 0.1012 S33: 0.0066 REMARK 3 TLS GROUP : 2 REMARK 3 SELECTION: (CHAIN A AND RESID 101:264) REMARK 3 ORIGIN FOR THE GROUP (A): 19.3200 13.7553 -1.5910 REMARK 3 T TENSOR REMARK 3 T11: 0.0645 T22: 0.0379 REMARK 3 T33: 0.0696 T12: 0.0342 REMARK 3 T13: 0.0001 T23: -0.0062 REMARK 3 L TENSOR REMARK 3 L11: 0.5313 L22: 0.1503 REMARK 3 L33: 1.0012 L12: 0.0070 REMARK 3 L13: -0.0831 L23: 0.2847 REMARK 3 S TENSOR REMARK 3 S11: 0.0687 S12: 0.0132 S13: 0.1343 REMARK 3 S21: 0.0126 S22: -0.0631 S23: 0.0613 REMARK 3 S31: 0.0168 S32: -0.0907 S33: -0.0074 REMARK 3 TLS GROUP : 3 REMARK 3 SELECTION: (CHAIN A AND RESID 401:513) REMARK 3 ORIGIN FOR THE GROUP (A): 16.2732 17.5994 4.5434 REMARK 3 T TENSOR REMARK 3 T11: 0.0141 T22: 0.0796 REMARK 3 T33: 0.0334 T12: 0.0291 REMARK 3 T13: -0.0047 T23: -0.0068 REMARK 3 L TENSOR REMARK 3 L11: 0.3180 L22: 0.2494 REMARK 3 L33: 0.3243 L12: -0.2738 REMARK 3 L13: -0.2289 L23: 0.2487 REMARK 3 S TENSOR REMARK 3 S11: -0.0033 S12: 0.0243 S13: 0.0276 REMARK 3 S21: 0.0005 S22: -0.0280 S23: 0.0005 REMARK 3 S31: -0.0277 S32: -0.1100 S33: 0.0245 REMARK 3 TLS GROUP : 4 REMARK 3 SELECTION: (CHAIN A AND RESID 301:301) REMARK 3 ORIGIN FOR THE GROUP (A): 29.9590 24.9885 15.0886 REMARK 3 T TENSOR REMARK 3 T11: 0.1012 T22: 0.4336 REMARK 3 T33: 0.2925 T12: -0.0356 REMARK 3 T13: -0.0019 T23: -0.2056 REMARK 3 L TENSOR REMARK 3 L11: 0.6562 L22: 7.4554 REMARK 3 L33: 4.2151 L12: 0.4560 REMARK 3 L13: -0.3581 L23: 4.4522 REMARK 3 S TENSOR REMARK 3 S11: -0.0225 S12: -0.2031 S13: 0.2192 REMARK 3 S21: -0.0350 S22: 0.0453 S23: 0.0145 REMARK 3 S31: -0.0192 S32: 0.0766 S33: -0.0224 REMARK 3 TLS GROUP : 5 REMARK 3 SELECTION: (CHAIN A AND RESID 302:302) REMARK 3 ORIGIN FOR THE GROUP (A): 17.4243 8.7666 10.7527 REMARK 3 T TENSOR REMARK 3 T11: 0.1428 T22: 0.3150 REMARK 3 T33: 0.1544 T12: -0.1038 REMARK 3 T13: 0.0271 T23: -0.0839 REMARK 3 L TENSOR REMARK 3 L11: 0.4390 L22: 0.2269 REMARK 3 L33: 0.6788 L12: -0.0888 REMARK 3 L13: -0.5429 L23: 0.0692 REMARK 3 S TENSOR REMARK 3 S11: 0.0339 S12: -0.1518 S13: 0.0127 REMARK 3 S21: 0.0357 S22: -0.1034 S23: 0.1149 REMARK 3 S31: -0.0232 S32: 0.0938 S33: 0.0626 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 3V8P COMPLIES WITH FORMAT V. 3.30, 13-JUL-11 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY RCSB ON 06-JAN-12. REMARK 100 THE DEPOSITION ID IS D_1000069735. REMARK 200 REMARK 200 EXPERIMENTAL DETAILS REMARK 200 EXPERIMENT TYPE : X-RAY DIFFRACTION REMARK 200 DATE OF DATA COLLECTION : 07-FEB-09 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 : ID14-4 REMARK 200 X-RAY GENERATOR MODEL : NULL REMARK 200 MONOCHROMATIC OR LAUE (M/L) : M REMARK 200 WAVELENGTH OR RANGE (A) : 1.03900 REMARK 200 MONOCHROMATOR : ASYMMETRIC LAUE 001 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 : SCALA REMARK 200 REMARK 200 NUMBER OF UNIQUE REFLECTIONS : 12686 REMARK 200 RESOLUTION RANGE HIGH (A) : 2.290 REMARK 200 RESOLUTION RANGE LOW (A) : 63.760 REMARK 200 REJECTION CRITERIA (SIGMA(I)) : 0.000 REMARK 200 REMARK 200 OVERALL. REMARK 200 COMPLETENESS FOR RANGE (%) : 99.2 REMARK 200 DATA REDUNDANCY : 4.800 REMARK 200 R MERGE (I) : NULL REMARK 200 R SYM (I) : NULL REMARK 200 FOR THE DATA SET : NULL REMARK 200 REMARK 200 IN THE HIGHEST RESOLUTION SHELL. REMARK 200 HIGHEST RESOLUTION SHELL, RANGE HIGH (A) : 2.29 REMARK 200 HIGHEST RESOLUTION SHELL, RANGE LOW (A) : 2.41 REMARK 200 COMPLETENESS FOR SHELL (%) : 100.0 REMARK 200 DATA REDUNDANCY IN SHELL : 5.40 REMARK 200 R MERGE FOR SHELL (I) : NULL 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: ISOMORPHOUS REPLACEMENT REMARK 200 SOFTWARE USED: ISOMORPHOUS REPLACEMENT REMARK 200 STARTING MODEL: NULL REMARK 200 REMARK 200 REMARK: NULL REMARK 280 REMARK 280 CRYSTAL REMARK 280 SOLVENT CONTENT, VS (%): 45.98 REMARK 280 MATTHEWS COEFFICIENT, VM (ANGSTROMS**3/DA): 2.28 REMARK 280 REMARK 280 CRYSTALLIZATION CONDITIONS: 30 MM SODIUM BROMIDE, 220 MM POTASSIUM REMARK 280 CITRATE, PH 4.8-5.1, GLYCEROL 6%, 15-16% W/V POLYETHYLENE GLYCOL REMARK 280 400, VAPOR DIFFUSION, HANGING DROP, TEMPERATURE 291.15K, PH 5.0 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 31.47500 REMARK 290 SMTRY2 5 0.000000 1.000000 0.000000 37.82000 REMARK 290 SMTRY3 5 0.000000 0.000000 1.000000 59.38000 REMARK 290 SMTRY1 6 -1.000000 0.000000 0.000000 31.47500 REMARK 290 SMTRY2 6 0.000000 -1.000000 0.000000 37.82000 REMARK 290 SMTRY3 6 0.000000 0.000000 1.000000 59.38000 REMARK 290 SMTRY1 7 -1.000000 0.000000 0.000000 31.47500 REMARK 290 SMTRY2 7 0.000000 1.000000 0.000000 37.82000 REMARK 290 SMTRY3 7 0.000000 0.000000 -1.000000 59.38000 REMARK 290 SMTRY1 8 1.000000 0.000000 0.000000 31.47500 REMARK 290 SMTRY2 8 0.000000 -1.000000 0.000000 37.82000 REMARK 290 SMTRY3 8 0.000000 0.000000 -1.000000 59.38000 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 BIOMT1 2 -1.000000 0.000000 0.000000 62.95000 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 62.95000 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 461 LIES ON A SPECIAL POSITION. REMARK 375 HOH A 491 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 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 92 CG CD CE NZ REMARK 470 GLU A 94 CG CD OE1 OE2 REMARK 470 LYS A 114 CG CD CE NZ 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 ASP A 77 47.04 -106.14 REMARK 500 GLU A 94 55.13 -98.81 REMARK 500 ASN A 122 -74.19 -100.59 REMARK 500 ASP A 141 -0.02 80.62 REMARK 500 ALA A 162 -127.94 -100.45 REMARK 500 PRO A 174 1.06 -68.27 REMARK 500 HIS A 204 -6.82 79.03 REMARK 500 ASN A 213 -79.58 -131.47 REMARK 500 ASP A 222 -119.80 60.53 REMARK 500 ILE A 262 -60.48 -92.06 REMARK 500 GLU A 263 127.49 -171.54 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 ZNB A 302 REMARK 900 REMARK 900 RELATED ENTRIES REMARK 900 RELATED ID: 2I2C RELATED DB: PDB REMARK 900 RELATED ID: 3V7V RELATED DB: PDB REMARK 900 RELATED ID: 3V7W RELATED DB: PDB REMARK 900 RELATED ID: 3V7Y RELATED DB: PDB REMARK 900 RELATED ID: 3V80 RELATED DB: PDB REMARK 900 RELATED ID: 3V8M RELATED DB: PDB REMARK 900 RELATED ID: 3V8N RELATED DB: PDB REMARK 900 RELATED ID: 3V8Q RELATED DB: PDB REMARK 900 RELATED ID: 3V8R RELATED DB: PDB DBREF 3V8P A 1 264 UNP Q8Y8D7 PPNK1_LISMO 1 264 SEQADV 3V8P LEU A 265 UNP Q8Y8D7 EXPRESSION TAG SEQADV 3V8P GLU A 266 UNP Q8Y8D7 EXPRESSION TAG SEQADV 3V8P HIS A 267 UNP Q8Y8D7 EXPRESSION TAG SEQADV 3V8P HIS A 268 UNP Q8Y8D7 EXPRESSION TAG SEQADV 3V8P HIS A 269 UNP Q8Y8D7 EXPRESSION TAG SEQADV 3V8P HIS A 270 UNP Q8Y8D7 EXPRESSION TAG SEQADV 3V8P HIS A 271 UNP Q8Y8D7 EXPRESSION TAG SEQADV 3V8P 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 ZNB A 302 45 HETNAM CIT CITRIC ACID HETNAM ZNB 2-[6-AZANYL-9-[(2R,3R,4S,5R)-5-[[(AZANYLIDENE-$L^{4}- HETNAM 2 ZNB AZANYLIDENE)AMINO]METHYL]-3,4-BIS(OXIDANYL)OXOLAN-2- HETNAM 3 ZNB YL]PURIN-8-YL]SULFANYL-N-[[(2R,3S,4R,5R)-5-(6-AZANYL- HETNAM 4 ZNB 8-BROMANYL-PURIN-9-YL)-3,4-BIS(OXIDANYL)OXOLAN-2- HETNAM 5 ZNB YL]METHYL]ETHANAMIDE FORMUL 2 CIT C6 H8 O7 FORMUL 3 ZNB C22 H26 BR N14 O7 S 1+ FORMUL 4 HOH *113(H2 O) HELIX 1 1 ASP A 10 GLY A 25 1 16 HELIX 2 2 GLY A 44 TYR A 55 1 12 HELIX 3 3 GLU A 56 ILE A 62 5 7 HELIX 4 4 ARG A 79 ALA A 81 5 3 HELIX 5 5 GLU A 82 GLY A 93 1 12 HELIX 6 6 PRO A 157 THR A 161 5 5 HELIX 7 7 ALA A 162 LEU A 167 1 6 HELIX 8 8 PRO A 252 ILE A 262 1 11 SHEET 1 A 4 GLU A 30 TYR A 31 0 SHEET 2 A 4 LYS A 2 SER A 7 1 N TYR A 3 O GLU A 30 SHEET 3 A 4 ILE A 38 GLY A 43 1 O ILE A 40 N MET A 4 SHEET 4 A 4 ALA A 63 HIS A 68 1 O ILE A 67 N SER A 41 SHEET 1 B 6 ALA A 116 ALA A 120 0 SHEET 2 B 6 GLN A 96 LYS A 108 -1 N VAL A 107 O ALA A 116 SHEET 3 B 6 GLU A 233 ARG A 247 -1 O PHE A 245 N VAL A 98 SHEET 4 B 6 VAL A 207 PRO A 211 -1 N VAL A 207 O TYR A 236 SHEET 5 B 6 PHE A 133 ILE A 139 -1 N ASP A 136 O GLN A 210 SHEET 6 B 6 ILE A 142 GLY A 149 -1 O GLU A 145 N VAL A 137 SHEET 1 C 6 LEU A 199 PRO A 202 0 SHEET 2 C 6 ALA A 178 MET A 184 -1 N MET A 179 O PHE A 201 SHEET 3 C 6 GLY A 151 SER A 155 -1 N SER A 155 O GLN A 180 SHEET 4 C 6 GLU A 123 SER A 128 -1 N SER A 124 O MET A 154 SHEET 5 C 6 PHE A 217 VAL A 221 -1 O SER A 220 N THR A 125 SHEET 6 C 6 LEU A 224 HIS A 228 -1 O LEU A 224 N VAL A 221 CISPEP 1 THR A 69 GLY A 70 0 4.11 SITE 1 AC1 9 VAL A 98 TYR A 100 HIS A 173 ARG A 247 SITE 2 AC1 9 PHE A 251 PRO A 252 PHE A 253 ARG A 256 SITE 3 AC1 9 HOH A 447 SITE 1 AC2 17 ASP A 45 GLY A 46 PHE A 74 TYR A 75 SITE 2 AC2 17 ASN A 122 GLU A 123 ASP A 150 SER A 158 SITE 3 AC2 17 THR A 161 ALA A 162 TYR A 163 SER A 166 SITE 4 AC2 17 ALA A 185 ILE A 187 ASP A 222 HOH A 440 SITE 5 AC2 17 HOH A 484 CRYST1 62.950 75.640 118.760 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 0.015886 0.000000 0.000000 0.00000 SCALE2 0.000000 0.013221 0.000000 0.00000 SCALE3 0.000000 0.000000 0.008420 0.00000