HEADER TRANSFERASE 21-JAN-17 5MX8 TITLE CRYSTAL STRUCTURE OF H. PYLORI PURINE NUCLEOSIDE PHOSPHORYLASE FROM TITLE 2 CLINICAL ISOLATE HPPNP-3 COMPND MOL_ID: 1; COMPND 2 MOLECULE: PURINE NUCLEOSIDE PHOSPHORYLASE DEOD-TYPE; COMPND 3 CHAIN: A; COMPND 4 SYNONYM: PNP; COMPND 5 EC: 2.4.2.1 SOURCE MOL_ID: 1; SOURCE 2 ORGANISM_SCIENTIFIC: HELICOBACTER PYLORI; SOURCE 3 ORGANISM_TAXID: 210 KEYWDS PURINE NUCLEOSIDE PHOSPHORYLASE, CLINICAL ISOLATE, HELICOBACTER KEYWDS 2 PYLORI, DEAD-END-COMPLEX, TRANSFERASE EXPDTA X-RAY DIFFRACTION AUTHOR Z.STEFANIC REVDAT 4 17-JAN-24 5MX8 1 REMARK REVDAT 3 16-OCT-19 5MX8 1 REMARK REVDAT 2 12-APR-17 5MX8 1 JRNL REVDAT 1 05-APR-17 5MX8 0 JRNL AUTH Z.STEFANIC,G.MIKLEUSEVIC,M.LUIC,A.BZOWSKA,I.LESCIC ASLER JRNL TITL STRUCTURAL CHARACTERIZATION OF PURINE NUCLEOSIDE JRNL TITL 2 PHOSPHORYLASE FROM HUMAN PATHOGEN HELICOBACTER PYLORI. JRNL REF INT. J. BIOL. MACROMOL. V. 101 518 2017 JRNL REFN ISSN 1879-0003 JRNL PMID 28336275 JRNL DOI 10.1016/J.IJBIOMAC.2017.03.101 REMARK 2 REMARK 2 RESOLUTION. 2.40 ANGSTROMS. REMARK 3 REMARK 3 REFINEMENT. REMARK 3 PROGRAM : PHENIX 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) : 2.40 REMARK 3 RESOLUTION RANGE LOW (ANGSTROMS) : 29.31 REMARK 3 MIN(FOBS/SIGMA_FOBS) : 1.330 REMARK 3 COMPLETENESS FOR RANGE (%) : 99.4 REMARK 3 NUMBER OF REFLECTIONS : 20237 REMARK 3 REMARK 3 FIT TO DATA USED IN REFINEMENT. REMARK 3 R VALUE (WORKING + TEST SET) : 0.216 REMARK 3 R VALUE (WORKING SET) : 0.214 REMARK 3 FREE R VALUE : 0.259 REMARK 3 FREE R VALUE TEST SET SIZE (%) : 4.950 REMARK 3 FREE R VALUE TEST SET COUNT : 1002 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 29.3136 - 4.5865 1.00 2963 152 0.2160 0.2693 REMARK 3 2 4.5865 - 3.6427 0.99 2777 141 0.1798 0.2262 REMARK 3 3 3.6427 - 3.1828 0.99 2726 141 0.2079 0.2267 REMARK 3 4 3.1828 - 2.8921 0.99 2697 146 0.2309 0.2573 REMARK 3 5 2.8921 - 2.6850 1.00 2697 158 0.2396 0.3182 REMARK 3 6 2.6850 - 2.5268 1.00 2703 136 0.2429 0.3049 REMARK 3 7 2.5268 - 2.4003 0.98 2672 128 0.2599 0.3195 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) : 25.370 REMARK 3 REMARK 3 B VALUES. REMARK 3 FROM WILSON PLOT (A**2) : NULL REMARK 3 MEAN B VALUE (OVERALL, A**2) : 37.17 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 : 0.007 1942 REMARK 3 ANGLE : 1.063 2577 REMARK 3 CHIRALITY : 0.056 285 REMARK 3 PLANARITY : 0.005 312 REMARK 3 DIHEDRAL : 16.352 1171 REMARK 3 REMARK 3 TLS DETAILS REMARK 3 NUMBER OF TLS GROUPS : NULL 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 5MX8 COMPLIES WITH FORMAT V. 3.30, 13-JUL-11 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY PDBE ON 21-JAN-17. REMARK 100 THE DEPOSITION ID IS D_1200003163. REMARK 200 REMARK 200 EXPERIMENTAL DETAILS REMARK 200 EXPERIMENT TYPE : X-RAY DIFFRACTION REMARK 200 DATE OF DATA COLLECTION : 06-MAY-15 REMARK 200 TEMPERATURE (KELVIN) : 100 REMARK 200 PH : 6.2 REMARK 200 NUMBER OF CRYSTALS USED : 1 REMARK 200 REMARK 200 SYNCHROTRON (Y/N) : N REMARK 200 RADIATION SOURCE : SEALED TUBE REMARK 200 BEAMLINE : NULL REMARK 200 X-RAY GENERATOR MODEL : OXFORD DIFFRACTION ENHANCE ULTRA REMARK 200 MONOCHROMATIC OR LAUE (M/L) : M REMARK 200 WAVELENGTH OR RANGE (A) : 1.541 REMARK 200 MONOCHROMATOR : NULL REMARK 200 OPTICS : NULL REMARK 200 REMARK 200 DETECTOR TYPE : CCD REMARK 200 DETECTOR MANUFACTURER : OXFORD RUBY CCD REMARK 200 INTENSITY-INTEGRATION SOFTWARE : CRYSALISPRO REMARK 200 DATA SCALING SOFTWARE : SCALA REMARK 200 REMARK 200 NUMBER OF UNIQUE REFLECTIONS : 20243 REMARK 200 RESOLUTION RANGE HIGH (A) : 2.400 REMARK 200 RESOLUTION RANGE LOW (A) : 29.311 REMARK 200 REJECTION CRITERIA (SIGMA(I)) : NULL REMARK 200 REMARK 200 OVERALL. REMARK 200 COMPLETENESS FOR RANGE (%) : 99.4 REMARK 200 DATA REDUNDANCY : 14.00 REMARK 200 R MERGE (I) : NULL REMARK 200 R SYM (I) : NULL REMARK 200 FOR THE DATA SET : 15.2000 REMARK 200 REMARK 200 IN THE HIGHEST RESOLUTION SHELL. REMARK 200 HIGHEST RESOLUTION SHELL, RANGE HIGH (A) : NULL REMARK 200 HIGHEST RESOLUTION SHELL, RANGE LOW (A) : NULL REMARK 200 COMPLETENESS FOR SHELL (%) : NULL REMARK 200 DATA REDUNDANCY IN SHELL : NULL 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: MOLECULAR REPLACEMENT REMARK 200 SOFTWARE USED: PHASER REMARK 200 STARTING MODEL: 5MX4 REMARK 200 REMARK 200 REMARK: NULL REMARK 280 REMARK 280 CRYSTAL REMARK 280 SOLVENT CONTENT, VS (%): 74.26 REMARK 280 MATTHEWS COEFFICIENT, VM (ANGSTROMS**3/DA): 4.78 REMARK 280 REMARK 280 CRYSTALLIZATION CONDITIONS: 0.2M NACL, 0.1M NA/K PHOSPHATE PH 6.2, REMARK 280 50% PEG 200, VAPOR DIFFUSION, SITTING DROP, TEMPERATURE 291K REMARK 290 REMARK 290 CRYSTALLOGRAPHIC SYMMETRY REMARK 290 SYMMETRY OPERATORS FOR SPACE GROUP: P 41 3 2 REMARK 290 REMARK 290 SYMOP SYMMETRY REMARK 290 NNNMMM OPERATOR REMARK 290 1555 X,Y,Z REMARK 290 2555 -X+1/2,-Y,Z+1/2 REMARK 290 3555 -X,Y+1/2,-Z+1/2 REMARK 290 4555 X+1/2,-Y+1/2,-Z REMARK 290 5555 Z,X,Y REMARK 290 6555 Z+1/2,-X+1/2,-Y REMARK 290 7555 -Z+1/2,-X,Y+1/2 REMARK 290 8555 -Z,X+1/2,-Y+1/2 REMARK 290 9555 Y,Z,X REMARK 290 10555 -Y,Z+1/2,-X+1/2 REMARK 290 11555 Y+1/2,-Z+1/2,-X REMARK 290 12555 -Y+1/2,-Z,X+1/2 REMARK 290 13555 Y+3/4,X+1/4,-Z+1/4 REMARK 290 14555 -Y+3/4,-X+3/4,-Z+3/4 REMARK 290 15555 Y+1/4,-X+1/4,Z+3/4 REMARK 290 16555 -Y+1/4,X+3/4,Z+1/4 REMARK 290 17555 X+3/4,Z+1/4,-Y+1/4 REMARK 290 18555 -X+1/4,Z+3/4,Y+1/4 REMARK 290 19555 -X+3/4,-Z+3/4,-Y+3/4 REMARK 290 20555 X+1/4,-Z+1/4,Y+3/4 REMARK 290 21555 Z+3/4,Y+1/4,-X+1/4 REMARK 290 22555 Z+1/4,-Y+1/4,X+3/4 REMARK 290 23555 -Z+1/4,Y+3/4,X+1/4 REMARK 290 24555 -Z+3/4,-Y+3/4,-X+3/4 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 71.79800 REMARK 290 SMTRY2 2 0.000000 -1.000000 0.000000 0.00000 REMARK 290 SMTRY3 2 0.000000 0.000000 1.000000 71.79800 REMARK 290 SMTRY1 3 -1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY2 3 0.000000 1.000000 0.000000 71.79800 REMARK 290 SMTRY3 3 0.000000 0.000000 -1.000000 71.79800 REMARK 290 SMTRY1 4 1.000000 0.000000 0.000000 71.79800 REMARK 290 SMTRY2 4 0.000000 -1.000000 0.000000 71.79800 REMARK 290 SMTRY3 4 0.000000 0.000000 -1.000000 0.00000 REMARK 290 SMTRY1 5 0.000000 0.000000 1.000000 0.00000 REMARK 290 SMTRY2 5 1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY3 5 0.000000 1.000000 0.000000 0.00000 REMARK 290 SMTRY1 6 0.000000 0.000000 1.000000 71.79800 REMARK 290 SMTRY2 6 -1.000000 0.000000 0.000000 71.79800 REMARK 290 SMTRY3 6 0.000000 -1.000000 0.000000 0.00000 REMARK 290 SMTRY1 7 0.000000 0.000000 -1.000000 71.79800 REMARK 290 SMTRY2 7 -1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY3 7 0.000000 1.000000 0.000000 71.79800 REMARK 290 SMTRY1 8 0.000000 0.000000 -1.000000 0.00000 REMARK 290 SMTRY2 8 1.000000 0.000000 0.000000 71.79800 REMARK 290 SMTRY3 8 0.000000 -1.000000 0.000000 71.79800 REMARK 290 SMTRY1 9 0.000000 1.000000 0.000000 0.00000 REMARK 290 SMTRY2 9 0.000000 0.000000 1.000000 0.00000 REMARK 290 SMTRY3 9 1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY1 10 0.000000 -1.000000 0.000000 0.00000 REMARK 290 SMTRY2 10 0.000000 0.000000 1.000000 71.79800 REMARK 290 SMTRY3 10 -1.000000 0.000000 0.000000 71.79800 REMARK 290 SMTRY1 11 0.000000 1.000000 0.000000 71.79800 REMARK 290 SMTRY2 11 0.000000 0.000000 -1.000000 71.79800 REMARK 290 SMTRY3 11 -1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY1 12 0.000000 -1.000000 0.000000 71.79800 REMARK 290 SMTRY2 12 0.000000 0.000000 -1.000000 0.00000 REMARK 290 SMTRY3 12 1.000000 0.000000 0.000000 71.79800 REMARK 290 SMTRY1 13 0.000000 1.000000 0.000000 107.69700 REMARK 290 SMTRY2 13 1.000000 0.000000 0.000000 35.89900 REMARK 290 SMTRY3 13 0.000000 0.000000 -1.000000 35.89900 REMARK 290 SMTRY1 14 0.000000 -1.000000 0.000000 107.69700 REMARK 290 SMTRY2 14 -1.000000 0.000000 0.000000 107.69700 REMARK 290 SMTRY3 14 0.000000 0.000000 -1.000000 107.69700 REMARK 290 SMTRY1 15 0.000000 1.000000 0.000000 35.89900 REMARK 290 SMTRY2 15 -1.000000 0.000000 0.000000 35.89900 REMARK 290 SMTRY3 15 0.000000 0.000000 1.000000 107.69700 REMARK 290 SMTRY1 16 0.000000 -1.000000 0.000000 35.89900 REMARK 290 SMTRY2 16 1.000000 0.000000 0.000000 107.69700 REMARK 290 SMTRY3 16 0.000000 0.000000 1.000000 35.89900 REMARK 290 SMTRY1 17 1.000000 0.000000 0.000000 107.69700 REMARK 290 SMTRY2 17 0.000000 0.000000 1.000000 35.89900 REMARK 290 SMTRY3 17 0.000000 -1.000000 0.000000 35.89900 REMARK 290 SMTRY1 18 -1.000000 0.000000 0.000000 35.89900 REMARK 290 SMTRY2 18 0.000000 0.000000 1.000000 107.69700 REMARK 290 SMTRY3 18 0.000000 1.000000 0.000000 35.89900 REMARK 290 SMTRY1 19 -1.000000 0.000000 0.000000 107.69700 REMARK 290 SMTRY2 19 0.000000 0.000000 -1.000000 107.69700 REMARK 290 SMTRY3 19 0.000000 -1.000000 0.000000 107.69700 REMARK 290 SMTRY1 20 1.000000 0.000000 0.000000 35.89900 REMARK 290 SMTRY2 20 0.000000 0.000000 -1.000000 35.89900 REMARK 290 SMTRY3 20 0.000000 1.000000 0.000000 107.69700 REMARK 290 SMTRY1 21 0.000000 0.000000 1.000000 107.69700 REMARK 290 SMTRY2 21 0.000000 1.000000 0.000000 35.89900 REMARK 290 SMTRY3 21 -1.000000 0.000000 0.000000 35.89900 REMARK 290 SMTRY1 22 0.000000 0.000000 1.000000 35.89900 REMARK 290 SMTRY2 22 0.000000 -1.000000 0.000000 35.89900 REMARK 290 SMTRY3 22 1.000000 0.000000 0.000000 107.69700 REMARK 290 SMTRY1 23 0.000000 0.000000 -1.000000 35.89900 REMARK 290 SMTRY2 23 0.000000 1.000000 0.000000 107.69700 REMARK 290 SMTRY3 23 1.000000 0.000000 0.000000 35.89900 REMARK 290 SMTRY1 24 0.000000 0.000000 -1.000000 107.69700 REMARK 290 SMTRY2 24 0.000000 -1.000000 0.000000 107.69700 REMARK 290 SMTRY3 24 -1.000000 0.000000 0.000000 107.69700 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: HEXAMERIC REMARK 350 SOFTWARE DETERMINED QUATERNARY STRUCTURE: HEXAMERIC REMARK 350 SOFTWARE USED: PISA REMARK 350 TOTAL BURIED SURFACE AREA: 46750 ANGSTROM**2 REMARK 350 SURFACE AREA OF THE COMPLEX: 40720 ANGSTROM**2 REMARK 350 CHANGE IN SOLVENT FREE ENERGY: 34.0 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 0.000000 0.000000 1.000000 0.00000 REMARK 350 BIOMT2 2 1.000000 0.000000 0.000000 0.00000 REMARK 350 BIOMT3 2 0.000000 1.000000 0.000000 0.00000 REMARK 350 BIOMT1 3 0.000000 1.000000 0.000000 0.00000 REMARK 350 BIOMT2 3 0.000000 0.000000 1.000000 0.00000 REMARK 350 BIOMT3 3 1.000000 0.000000 0.000000 0.00000 REMARK 350 BIOMT1 4 0.000000 -1.000000 0.000000 -35.89900 REMARK 350 BIOMT2 4 -1.000000 0.000000 0.000000 -35.89900 REMARK 350 BIOMT3 4 0.000000 0.000000 -1.000000 -35.89900 REMARK 350 BIOMT1 5 -1.000000 0.000000 0.000000 -35.89900 REMARK 350 BIOMT2 5 0.000000 0.000000 -1.000000 -35.89900 REMARK 350 BIOMT3 5 0.000000 -1.000000 0.000000 -35.89900 REMARK 350 BIOMT1 6 0.000000 0.000000 -1.000000 -35.89900 REMARK 350 BIOMT2 6 0.000000 -1.000000 0.000000 -35.89900 REMARK 350 BIOMT3 6 -1.000000 0.000000 0.000000 -35.89900 REMARK 500 REMARK 500 GEOMETRY AND STEREOCHEMISTRY REMARK 500 SUBTOPIC: CLOSE CONTACTS IN SAME ASYMMETRIC UNIT REMARK 500 REMARK 500 THE FOLLOWING ATOMS ARE IN CLOSE CONTACT. REMARK 500 REMARK 500 ATM1 RES C SSEQI ATM2 RES C SSEQI DISTANCE REMARK 500 O HOH A 431 O HOH A 470 1.95 REMARK 500 O HOH A 428 O HOH A 470 2.02 REMARK 500 O GLN A 172 O HOH A 401 2.06 REMARK 500 O HOH A 463 O HOH A 484 2.15 REMARK 500 O HOH A 424 O HOH A 447 2.17 REMARK 500 OD2 ASP A 157 O HOH A 402 2.18 REMARK 500 REMARK 500 REMARK: NULL REMARK 500 REMARK 500 GEOMETRY AND STEREOCHEMISTRY REMARK 500 SUBTOPIC: CLOSE CONTACTS REMARK 500 REMARK 500 THE FOLLOWING ATOMS THAT ARE RELATED BY CRYSTALLOGRAPHIC REMARK 500 SYMMETRY ARE IN CLOSE CONTACT. AN ATOM LOCATED WITHIN 0.15 REMARK 500 ANGSTROMS OF A SYMMETRY RELATED ATOM IS ASSUMED TO BE ON A REMARK 500 SPECIAL POSITION AND IS, THEREFORE, LISTED IN REMARK 375 REMARK 500 INSTEAD OF REMARK 500. ATOMS WITH NON-BLANK ALTERNATE REMARK 500 LOCATION INDICATORS ARE NOT INCLUDED IN THE CALCULATIONS. REMARK 500 REMARK 500 DISTANCE CUTOFF: REMARK 500 2.2 ANGSTROMS FOR CONTACTS NOT INVOLVING HYDROGEN ATOMS REMARK 500 1.6 ANGSTROMS FOR CONTACTS INVOLVING HYDROGEN ATOMS REMARK 500 REMARK 500 ATM1 RES C SSEQI ATM2 RES C SSEQI SSYMOP DISTANCE REMARK 500 O HOH A 402 O HOH A 402 24444 1.77 REMARK 500 O HOH A 406 O HOH A 406 24444 1.84 REMARK 500 O HOH A 444 O HOH A 444 14444 1.85 REMARK 500 O HOH A 433 O HOH A 433 14444 1.87 REMARK 500 O HOH A 474 O HOH A 474 6445 1.99 REMARK 500 OD1 ASN A 193 O HOH A 401 14444 2.13 REMARK 500 NZ LYS A 215 O3 PG4 A 304 13455 2.17 REMARK 500 REMARK 500 REMARK: NULL 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 41 20.80 -155.81 REMARK 500 THR A 164 -60.41 -139.53 REMARK 500 GLU A 179 -157.55 -139.69 REMARK 500 MET A 180 12.71 -141.13 REMARK 500 GLU A 181 -24.50 -141.23 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 502 DISTANCE = 6.48 ANGSTROMS REMARK 525 HOH A 503 DISTANCE = 6.61 ANGSTROMS REMARK 525 HOH A 504 DISTANCE = 7.02 ANGSTROMS REMARK 610 REMARK 610 MISSING HETEROATOM REMARK 610 THE FOLLOWING RESIDUES HAVE MISSING ATOMS (M=MODEL NUMBER; REMARK 610 RES=RESIDUE NAME; C=CHAIN IDENTIFIER; SSEQ=SEQUENCE NUMBER; REMARK 610 I=INSERTION CODE): REMARK 610 M RES C SSEQI REMARK 610 PG4 A 304 REMARK 800 REMARK 800 SITE REMARK 800 SITE_IDENTIFIER: AC1 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue HPA A 301 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC2 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue PO4 A 302 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC3 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue PG4 A 303 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC4 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue PG4 A 304 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC5 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue PG4 A 305 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC6 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue PG4 A 306 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC7 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue PG4 A 307 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC8 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue PG4 A 308 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC9 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue PG4 A 309 REMARK 800 REMARK 800 SITE_IDENTIFIER: AD1 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue PG4 A 310 REMARK 900 REMARK 900 RELATED ENTRIES REMARK 900 RELATED ID: 5MX4 RELATED DB: PDB REMARK 900 5MX4 IS THE SAME COMPLEX FROM DIFFERENT CRYSTALLIZATION CONDITIONS REMARK 900 RELATED ID: 5MX6 RELATED DB: PDB REMARK 900 5MX6 IS THE SAME COMPLEX FROM DIFFERENT CRYSTALLIZATION CONDITIONS DBREF 5MX8 A 1 233 UNP K2JXG0 K2JXG0_HELPX 1 233 SEQADV 5MX8 THR A 107 UNP K2JXG0 ILE 107 CONFLICT SEQRES 1 A 233 MET THR PRO HIS ILE ASN ALA LYS ILE GLY ASP PHE TYR SEQRES 2 A 233 PRO GLN CYS LEU LEU CYS GLY ASP PRO LEU ARG VAL SER SEQRES 3 A 233 TYR ILE ALA LYS LYS PHE LEU GLN ASP ALA LYS GLU ILE SEQRES 4 A 233 THR ASN VAL ARG ASN MET LEU GLY PHE SER GLY LYS TYR SEQRES 5 A 233 LYS GLY LYS GLY ILE SER LEU MET GLY HIS GLY MET GLY SEQRES 6 A 233 ILE ALA SER CYS THR ILE TYR VAL THR GLU LEU ILE LYS SEQRES 7 A 233 THR TYR GLN VAL LYS GLU LEU LEU ARG ILE GLY THR CYS SEQRES 8 A 233 GLY ALA ILE SER PRO LYS VAL GLY LEU LYS ASP ILE ILE SEQRES 9 A 233 MET ALA THR GLY ALA SER THR ASP SER LYS THR ASN ARG SEQRES 10 A 233 VAL ARG PHE LEU ASN HIS ASP LEU SER ALA THR PRO ASP SEQRES 11 A 233 PHE GLU LEU SER LEU ARG ALA TYR GLN THR ALA LYS ARG SEQRES 12 A 233 LEU GLY ILE ASP LEU LYS ILE GLY ASN VAL PHE SER SER SEQRES 13 A 233 ASP PHE PHE TYR SER PHE GLU THR HIS ALA PHE ASP LEU SEQRES 14 A 233 MET ALA GLN TYR ASN HIS LEU ALA ILE GLU MET GLU ALA SEQRES 15 A 233 ALA GLY LEU TYR ALA THR ALA MET GLU LEU ASN ALA LYS SEQRES 16 A 233 ALA LEU CYS LEU CYS SER VAL SER ASP HIS LEU ILE THR SEQRES 17 A 233 LYS GLU ALA LEU SER PRO LYS GLU ARG ILE GLU SER PHE SEQRES 18 A 233 ASP ASN MET ILE ILE LEU ALA LEU GLU MET MET SER HET HPA A 301 10 HET PO4 A 302 5 HET PG4 A 303 13 HET PG4 A 304 7 HET PG4 A 305 13 HET PG4 A 306 13 HET PG4 A 307 13 HET PG4 A 308 13 HET PG4 A 309 13 HET PG4 A 310 13 HETNAM HPA HYPOXANTHINE HETNAM PO4 PHOSPHATE ION HETNAM PG4 TETRAETHYLENE GLYCOL FORMUL 2 HPA C5 H4 N4 O FORMUL 3 PO4 O4 P 3- FORMUL 4 PG4 8(C8 H18 O5) FORMUL 12 HOH *104(H2 O) HELIX 1 AA1 ASP A 21 LEU A 33 1 13 HELIX 2 AA2 ASN A 41 MET A 45 5 5 HELIX 3 AA3 GLY A 65 THR A 79 1 15 HELIX 4 AA4 LYS A 114 PHE A 120 1 7 HELIX 5 AA5 ASP A 130 GLY A 145 1 16 HELIX 6 AA6 THR A 164 TYR A 173 1 10 HELIX 7 AA7 GLU A 181 ASN A 193 1 13 HELIX 8 AA8 LYS A 215 SER A 220 1 6 HELIX 9 AA9 PHE A 221 MET A 232 1 12 SHEET 1 AA110 GLN A 34 THR A 40 0 SHEET 2 AA110 GLY A 47 TYR A 52 -1 O SER A 49 N LYS A 37 SHEET 3 AA110 LYS A 55 GLY A 61 -1 O LYS A 55 N TYR A 52 SHEET 4 AA110 GLN A 15 CYS A 19 1 N LEU A 17 O SER A 58 SHEET 5 AA110 GLU A 84 ALA A 93 1 O ILE A 88 N LEU A 18 SHEET 6 AA110 LYS A 195 HIS A 205 1 O ASP A 204 N ALA A 93 SHEET 7 AA110 ILE A 103 THR A 111 -1 N ILE A 104 O CYS A 200 SHEET 8 AA110 LEU A 148 SER A 155 1 O SER A 155 N SER A 110 SHEET 9 AA110 HIS A 175 GLU A 179 1 O LEU A 176 N ASN A 152 SHEET 10 AA110 GLU A 84 ALA A 93 -1 N GLY A 92 O ILE A 178 SITE 1 AC1 9 THR A 90 CYS A 91 GLY A 92 PHE A 159 SITE 2 AC1 9 ILE A 178 GLU A 179 SER A 203 ASP A 204 SITE 3 AC1 9 HOH A 445 SITE 1 AC2 7 CYS A 19 GLY A 20 ARG A 24 ARG A 43 SITE 2 AC2 7 ARG A 87 GLY A 89 THR A 90 SITE 1 AC3 6 LYS A 78 TYR A 160 SER A 161 PHE A 162 SITE 2 AC3 6 GLU A 191 LEU A 192 SITE 1 AC4 7 MET A 1 LYS A 8 LYS A 215 GLU A 216 SITE 2 AC4 7 GLU A 219 PG4 A 306 PG4 A 307 SITE 1 AC5 5 GLU A 163 HIS A 165 ALA A 166 GLN A 172 SITE 2 AC5 5 HOH A 420 SITE 1 AC6 5 LYS A 8 LYS A 101 GLU A 216 SER A 220 SITE 2 AC6 5 PG4 A 304 SITE 1 AC7 8 MET A 1 ASN A 6 ALA A 7 LEU A 23 SITE 2 AC7 8 PRO A 214 GLU A 219 PG4 A 304 HOH A 476 SITE 1 AC8 6 PRO A 96 VAL A 98 ASP A 102 ASP A 147 SITE 2 AC8 6 LYS A 149 HIS A 205 SITE 1 AC9 10 LYS A 101 ILE A 103 ILE A 146 ASP A 147 SITE 2 AC9 10 SER A 201 SER A 220 PHE A 221 ASP A 222 SITE 3 AC9 10 ASN A 223 MET A 224 SITE 1 AD1 7 ASP A 112 LYS A 114 ARG A 117 VAL A 118 SITE 2 AD1 7 ASN A 122 HIS A 123 GLU A 163 CRYST1 143.596 143.596 143.596 90.00 90.00 90.00 P 41 3 2 24 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 0.006964 0.000000 0.000000 0.00000 SCALE2 0.000000 0.006964 0.000000 0.00000 SCALE3 0.000000 0.000000 0.006964 0.00000