HEADER TRANSFERASE 22-DEC-11 3V7U TITLE CRYSTAL STRUCTURE OF NAD KINASE 1 FROM LISTERIA MONOCYTOGENES IN TITLE 2 COMPLEX WITH MTA 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 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 3V7U 1 REMARK REVDAT 5 24-JUN-20 3V7U 1 REMARK SEQADV REVDAT 4 08-NOV-17 3V7U 1 REMARK REVDAT 3 27-JUN-12 3V7U 1 JRNL REVDAT 2 06-JUN-12 3V7U 1 JRNL REVDAT 1 14-MAR-12 3V7U 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. 1.97 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) : 1.97 REMARK 3 RESOLUTION RANGE LOW (ANGSTROMS) : 37.41 REMARK 3 MIN(FOBS/SIGMA_FOBS) : 1.320 REMARK 3 COMPLETENESS FOR RANGE (%) : 92.9 REMARK 3 NUMBER OF REFLECTIONS : 18923 REMARK 3 REMARK 3 FIT TO DATA USED IN REFINEMENT. REMARK 3 R VALUE (WORKING + TEST SET) : 0.207 REMARK 3 R VALUE (WORKING SET) : 0.206 REMARK 3 FREE R VALUE : 0.238 REMARK 3 FREE R VALUE TEST SET SIZE (%) : 2.990 REMARK 3 FREE R VALUE TEST SET COUNT : 607 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 37.4212 - 3.9387 0.98 4611 138 0.1956 0.1875 REMARK 3 2 3.9387 - 3.1267 0.94 4390 118 0.1882 0.2151 REMARK 3 3 3.1267 - 2.7316 1.00 4618 159 0.1922 0.2413 REMARK 3 4 2.7316 - 2.4819 1.00 4674 131 0.1912 0.2631 REMARK 3 5 2.4819 - 2.3041 1.00 4665 144 0.2279 0.3116 REMARK 3 6 2.3041 - 2.1682 0.53 2449 77 0.3270 0.4235 REMARK 3 7 2.1682 - 2.0597 1.00 4626 159 0.2287 0.2740 REMARK 3 8 2.0597 - 1.9700 1.00 4662 142 0.3193 0.3710 REMARK 3 REMARK 3 BULK SOLVENT MODELLING. REMARK 3 METHOD USED : FLAT BULK SOLVENT MODEL REMARK 3 SOLVENT RADIUS : 1.10 REMARK 3 SHRINKAGE RADIUS : 0.83 REMARK 3 K_SOL : 0.38 REMARK 3 B_SOL : 64.93 REMARK 3 REMARK 3 ERROR ESTIMATES. REMARK 3 COORDINATE ERROR (MAXIMUM-LIKELIHOOD BASED) : 0.340 REMARK 3 PHASE ERROR (DEGREES, MAXIMUM-LIKELIHOOD BASED) : 25.300 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) : -16.22000 REMARK 3 B22 (A**2) : 17.22940 REMARK 3 B33 (A**2) : -1.00940 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 : 0.009 2266 REMARK 3 ANGLE : 1.158 3071 REMARK 3 CHIRALITY : 0.081 331 REMARK 3 PLANARITY : 0.005 388 REMARK 3 DIHEDRAL : 14.705 847 REMARK 3 REMARK 3 TLS DETAILS REMARK 3 NUMBER OF TLS GROUPS : 6 REMARK 3 TLS GROUP : 1 REMARK 3 SELECTION: (CHAIN A AND RESID 1:100) REMARK 3 ORIGIN FOR THE GROUP (A): 13.4094 24.5202 22.6786 REMARK 3 T TENSOR REMARK 3 T11: 0.5016 T22: 0.1773 REMARK 3 T33: 0.1092 T12: 0.0622 REMARK 3 T13: 0.0524 T23: -0.1032 REMARK 3 L TENSOR REMARK 3 L11: 0.9477 L22: 1.0283 REMARK 3 L33: 1.1240 L12: -0.7034 REMARK 3 L13: -0.7590 L23: 0.9594 REMARK 3 S TENSOR REMARK 3 S11: -0.0732 S12: -0.4186 S13: 0.0868 REMARK 3 S21: 0.0481 S22: 0.1906 S23: -0.0456 REMARK 3 S31: -0.1173 S32: 0.1278 S33: 0.0124 REMARK 3 TLS GROUP : 2 REMARK 3 SELECTION: (CHAIN A AND RESID 101:264) REMARK 3 ORIGIN FOR THE GROUP (A): 19.1494 13.4834 -1.7712 REMARK 3 T TENSOR REMARK 3 T11: 0.3531 T22: 0.0396 REMARK 3 T33: 0.0647 T12: 0.0412 REMARK 3 T13: 0.0218 T23: -0.0019 REMARK 3 L TENSOR REMARK 3 L11: 0.6660 L22: 0.5479 REMARK 3 L33: 1.4539 L12: -0.0766 REMARK 3 L13: 0.1142 L23: 0.2218 REMARK 3 S TENSOR REMARK 3 S11: 0.0783 S12: -0.0094 S13: 0.0461 REMARK 3 S21: 0.0693 S22: -0.0741 S23: 0.0549 REMARK 3 S31: -0.0280 S32: -0.1974 S33: -0.0108 REMARK 3 TLS GROUP : 3 REMARK 3 SELECTION: (CHAIN A AND RESID 401:512) REMARK 3 ORIGIN FOR THE GROUP (A): 18.2112 14.6117 5.0221 REMARK 3 T TENSOR REMARK 3 T11: 0.4320 T22: 0.1038 REMARK 3 T33: 0.1251 T12: 0.0244 REMARK 3 T13: 0.0070 T23: 0.0098 REMARK 3 L TENSOR REMARK 3 L11: 0.3521 L22: 0.1137 REMARK 3 L33: 0.2435 L12: -0.1610 REMARK 3 L13: -0.1008 L23: 0.1854 REMARK 3 S TENSOR REMARK 3 S11: 0.0216 S12: -0.0208 S13: 0.0130 REMARK 3 S21: -0.0660 S22: -0.0122 S23: 0.0397 REMARK 3 S31: -0.2170 S32: -0.0630 S33: -0.0015 REMARK 3 TLS GROUP : 4 REMARK 3 SELECTION: (CHAIN A AND RESID 303:303) REMARK 3 ORIGIN FOR THE GROUP (A): 29.6756 24.6640 15.3451 REMARK 3 T TENSOR REMARK 3 T11: 0.7625 T22: 0.6135 REMARK 3 T33: 0.3929 T12: 0.1320 REMARK 3 T13: -0.0593 T23: -0.3358 REMARK 3 L TENSOR REMARK 3 L11: 0.6969 L22: 0.7755 REMARK 3 L33: 1.4644 L12: -0.3888 REMARK 3 L13: 0.7920 L23: -1.0032 REMARK 3 S TENSOR REMARK 3 S11: -0.1190 S12: 0.0011 S13: 0.0454 REMARK 3 S21: 0.0947 S22: -0.0060 S23: 0.0861 REMARK 3 S31: -0.1182 S32: -0.1212 S33: 0.0816 REMARK 3 TLS GROUP : 5 REMARK 3 SELECTION: (CHAIN A AND RESID 301:302) REMARK 3 ORIGIN FOR THE GROUP (A): 17.7270 8.7025 11.1752 REMARK 3 T TENSOR REMARK 3 T11: 0.6464 T22: 0.1100 REMARK 3 T33: 0.1164 T12: -0.0441 REMARK 3 T13: 0.1081 T23: -0.0517 REMARK 3 L TENSOR REMARK 3 L11: 2.0938 L22: 2.9503 REMARK 3 L33: 1.0737 L12: 0.4429 REMARK 3 L13: -1.4156 L23: -0.8772 REMARK 3 S TENSOR REMARK 3 S11: -0.1964 S12: -0.2003 S13: -0.0071 REMARK 3 S21: 1.2577 S22: 0.0574 S23: 0.1572 REMARK 3 S31: 0.2267 S32: 0.0891 S33: 0.0418 REMARK 3 TLS GROUP : 6 REMARK 3 SELECTION: (CHAIN A AND RESID 304:304) REMARK 3 ORIGIN FOR THE GROUP (A): 13.4751 9.4753 18.8636 REMARK 3 T TENSOR REMARK 3 T11: 0.9253 T22: 0.1920 REMARK 3 T33: 0.3525 T12: 0.1182 REMARK 3 T13: 0.0745 T23: -0.0094 REMARK 3 L TENSOR REMARK 3 L11: 2.0000 L22: 2.0000 REMARK 3 L33: 2.0000 L12: 2.0000 REMARK 3 L13: 2.0000 L23: 2.0000 REMARK 3 S TENSOR REMARK 3 S11: 3.7402 S12: 3.0329 S13: -0.7423 REMARK 3 S21: -7.8133 S22: -1.7441 S23: -0.0721 REMARK 3 S31: 0.3277 S32: -1.6870 S33: -2.0007 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 3V7U COMPLIES WITH FORMAT V. 3.30, 13-JUL-11 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY RCSB ON 05-JAN-12. REMARK 100 THE DEPOSITION ID IS D_1000069704. REMARK 200 REMARK 200 EXPERIMENTAL DETAILS REMARK 200 EXPERIMENT TYPE : X-RAY DIFFRACTION REMARK 200 DATE OF DATA COLLECTION : 13-NOV-06 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) : 0.975485 REMARK 200 MONOCHROMATOR : ASYMMETRIC LAUE 001 REMARK 200 OPTICS : NULL REMARK 200 REMARK 200 DETECTOR TYPE : CCD REMARK 200 DETECTOR MANUFACTURER : ADSC QUANTUM 4 REMARK 200 INTENSITY-INTEGRATION SOFTWARE : MOSFLM REMARK 200 DATA SCALING SOFTWARE : SCALA REMARK 200 REMARK 200 NUMBER OF UNIQUE REFLECTIONS : 24196 REMARK 200 RESOLUTION RANGE HIGH (A) : 1.750 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 (%) : 84.2 REMARK 200 DATA REDUNDANCY : 4.400 REMARK 200 R MERGE (I) : 0.03200 REMARK 200 R SYM (I) : 0.01500 REMARK 200 FOR THE DATA SET : 14.7000 REMARK 200 REMARK 200 IN THE HIGHEST RESOLUTION SHELL. REMARK 200 HIGHEST RESOLUTION SHELL, RANGE HIGH (A) : 1.75 REMARK 200 HIGHEST RESOLUTION SHELL, RANGE LOW (A) : 1.84 REMARK 200 COMPLETENESS FOR SHELL (%) : 73.6 REMARK 200 DATA REDUNDANCY IN SHELL : 3.60 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 (%): 45.58 REMARK 280 MATTHEWS COEFFICIENT, VM (ANGSTROMS**3/DA): 2.26 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 31.26050 REMARK 290 SMTRY2 5 0.000000 1.000000 0.000000 37.79750 REMARK 290 SMTRY3 5 0.000000 0.000000 1.000000 59.38700 REMARK 290 SMTRY1 6 -1.000000 0.000000 0.000000 31.26050 REMARK 290 SMTRY2 6 0.000000 -1.000000 0.000000 37.79750 REMARK 290 SMTRY3 6 0.000000 0.000000 1.000000 59.38700 REMARK 290 SMTRY1 7 -1.000000 0.000000 0.000000 31.26050 REMARK 290 SMTRY2 7 0.000000 1.000000 0.000000 37.79750 REMARK 290 SMTRY3 7 0.000000 0.000000 -1.000000 59.38700 REMARK 290 SMTRY1 8 1.000000 0.000000 0.000000 31.26050 REMARK 290 SMTRY2 8 0.000000 -1.000000 0.000000 37.79750 REMARK 290 SMTRY3 8 0.000000 0.000000 -1.000000 59.38700 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 62.52100 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 62.52100 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 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 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 GLU A 94 CG CD OE1 OE2 REMARK 470 LYS A 108 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 ALA A 76 77.81 -102.37 REMARK 500 ASN A 122 -69.24 -99.98 REMARK 500 ASP A 141 -1.62 75.79 REMARK 500 ALA A 162 -129.58 -101.16 REMARK 500 ASN A 189 -155.08 -138.03 REMARK 500 HIS A 204 -14.09 82.21 REMARK 500 ASN A 213 -79.18 -117.90 REMARK 500 ASP A 222 -121.54 50.59 REMARK 500 GLU A 263 139.74 -175.34 REMARK 500 REMARK 500 REMARK: NULL REMARK 525 REMARK 525 SOLVENT REMARK 525 REMARK 525 THE SOLVENT MOLECULES HAVE CHAIN IDENTIFIERS THAT REMARK 525 INDICATE THE POLYMER CHAIN WITH WHICH THEY ARE MOST REMARK 525 CLOSELY ASSOCIATED. THE REMARK LISTS ALL THE SOLVENT REMARK 525 MOLECULES WHICH ARE MORE THAN 5A AWAY FROM THE REMARK 525 NEAREST POLYMER CHAIN (M = MODEL NUMBER; REMARK 525 RES=RESIDUE NAME; C=CHAIN IDENTIFIER; SSEQ=SEQUENCE REMARK 525 NUMBER; I=INSERTION CODE): REMARK 525 REMARK 525 M RES CSSEQI REMARK 525 HOH A 450 DISTANCE = 6.45 ANGSTROMS REMARK 525 HOH A 496 DISTANCE = 5.84 ANGSTROMS REMARK 800 REMARK 800 SITE REMARK 800 SITE_IDENTIFIER: AC1 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE MTA A 301 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC2 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE MTA A 302 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC3 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE CIT A 303 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC4 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE GOL A 304 REMARK 900 REMARK 900 RELATED ENTRIES REMARK 900 RELATED ID: 2I2C 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: 3V8P RELATED DB: PDB REMARK 900 RELATED ID: 3V8Q RELATED DB: PDB REMARK 900 RELATED ID: 3V8R RELATED DB: PDB DBREF 3V7U A 1 264 UNP Q8Y8D7 PPNK1_LISMO 1 264 SEQADV 3V7U LEU A 265 UNP Q8Y8D7 EXPRESSION TAG SEQADV 3V7U GLU A 266 UNP Q8Y8D7 EXPRESSION TAG SEQADV 3V7U HIS A 267 UNP Q8Y8D7 EXPRESSION TAG SEQADV 3V7U HIS A 268 UNP Q8Y8D7 EXPRESSION TAG SEQADV 3V7U HIS A 269 UNP Q8Y8D7 EXPRESSION TAG SEQADV 3V7U HIS A 270 UNP Q8Y8D7 EXPRESSION TAG SEQADV 3V7U HIS A 271 UNP Q8Y8D7 EXPRESSION TAG SEQADV 3V7U 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 MTA A 301 20 HET MTA A 302 20 HET CIT A 303 13 HET GOL A 304 6 HETNAM MTA 5'-DEOXY-5'-METHYLTHIOADENOSINE HETNAM CIT CITRIC ACID HETNAM GOL GLYCEROL HETSYN GOL GLYCERIN; PROPANE-1,2,3-TRIOL FORMUL 2 MTA 2(C11 H15 N5 O3 S) FORMUL 4 CIT C6 H8 O7 FORMUL 5 GOL C3 H8 O3 FORMUL 6 HOH *112(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 ILE A 42 1 O ILE A 40 N MET A 4 SHEET 4 A 4 ALA A 63 ILE A 67 1 O ILE A 67 N SER A 41 SHEET 1 B 6 GLU A 115 ALA A 120 0 SHEET 2 B 6 GLN A 96 TYR A 109 -1 N VAL A 107 O ALA A 116 SHEET 3 B 6 VAL A 231 ARG A 247 -1 O PHE A 245 N VAL A 98 SHEET 4 B 6 VAL A 207 PRO A 211 -1 N LEU A 209 O ILE A 234 SHEET 5 B 6 PHE A 133 ILE A 139 -1 N VAL A 138 O SER A 208 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 LEU A 181 O LEU A 199 SHEET 3 C 6 GLY A 151 SER A 155 -1 N CYS A 153 O THR A 182 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 GLN A 218 N LYS A 127 SHEET 6 C 6 LEU A 224 HIS A 228 -1 O HIS A 228 N PHE A 217 SITE 1 AC1 13 ASP A 45 PHE A 74 TYR A 75 ASN A 122 SITE 2 AC1 13 SER A 158 THR A 161 ALA A 162 ILE A 187 SITE 3 AC1 13 MTA A 302 HOH A 429 HOH A 450 HOH A 470 SITE 4 AC1 13 HOH A 484 SITE 1 AC2 14 GLY A 46 LEU A 49 ASN A 122 GLU A 123 SITE 2 AC2 14 GLY A 149 ASP A 150 ALA A 162 TYR A 163 SITE 3 AC2 14 SER A 166 ALA A 185 ILE A 187 MTA A 301 SITE 4 AC2 14 HOH A 429 HOH A 442 SITE 1 AC3 10 VAL A 98 TYR A 100 HIS A 173 ARG A 247 SITE 2 AC3 10 PHE A 251 PRO A 252 PHE A 253 ARG A 256 SITE 3 AC3 10 HOH A 434 HOH A 454 SITE 1 AC4 4 LYS A 8 GLY A 44 GLY A 46 THR A 47 CRYST1 62.521 75.595 118.774 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 0.015995 0.000000 0.000000 0.00000 SCALE2 0.000000 0.013228 0.000000 0.00000 SCALE3 0.000000 0.000000 0.008419 0.00000