HEADER TRANSFERASE/TRANSFERASE INHIBITOR 17-NOV-15 5ETP TITLE E. COLI 6-HYDROXYMETHYL-7,8-DIHYDROPTERIN PYROPHOSPHOKINASE COMPLEXED TITLE 2 WITH AMPCPP AND INHIBITOR AT 1.05 ANGSTROM RESOLUTION COMPND MOL_ID: 1; COMPND 2 MOLECULE: 2-AMINO-4-HYDROXY-6-HYDROXYMETHYLDIHYDROPTERIDINE COMPND 3 PYROPHOSPHOKINASE; COMPND 4 CHAIN: A; COMPND 5 SYNONYM: 6-HYDROXYMETHYL-7,8-DIHYDROPTERIN PYROPHOSPHOKINASE,PPPK,7, COMPND 6 8-DIHYDRO-6-HYDROXYMETHYLPTERIN-PYROPHOSPHOKINASE,HPPK; COMPND 7 EC: 2.7.6.3; COMPND 8 ENGINEERED: YES SOURCE MOL_ID: 1; SOURCE 2 ORGANISM_SCIENTIFIC: ESCHERICHIA COLI; SOURCE 3 ORGANISM_TAXID: 562; SOURCE 4 GENE: FOLK, B0142, JW0138; SOURCE 5 EXPRESSION_SYSTEM: ESCHERICHIA COLI; SOURCE 6 EXPRESSION_SYSTEM_TAXID: 562 KEYWDS INHIBITOR, COMPLEX, AMPCPP, PYROPHOSPHOKINASE, TRANSFERASE- KEYWDS 2 TRANSFERASE INHIBITOR COMPLEX EXPDTA X-RAY DIFFRACTION AUTHOR M.L.DENNIS,T.S.PEAT,J.D.SWARBRICK REVDAT 3 27-SEP-23 5ETP 1 JRNL REMARK LINK REVDAT 2 22-JUN-16 5ETP 1 JRNL REVDAT 1 04-MAY-16 5ETP 0 JRNL AUTH M.L.DENNIS,N.P.PITCHER,M.D.LEE,A.J.DEBONO,Z.C.WANG, JRNL AUTH 2 J.R.HARJANI,R.RAHMANI,B.CLEARY,T.S.PEAT,J.B.BAELL, JRNL AUTH 3 J.D.SWARBRICK JRNL TITL STRUCTURAL BASIS FOR THE SELECTIVE BINDING OF INHIBITORS TO JRNL TITL 2 6-HYDROXYMETHYL-7,8-DIHYDROPTERIN PYROPHOSPHOKINASE FROM JRNL TITL 3 STAPHYLOCOCCUS AUREUS AND ESCHERICHIA COLI. JRNL REF J.MED.CHEM. V. 59 5248 2016 JRNL REFN ISSN 0022-2623 JRNL PMID 27094768 JRNL DOI 10.1021/ACS.JMEDCHEM.6B00002 REMARK 2 REMARK 2 RESOLUTION. 1.05 ANGSTROMS. REMARK 3 REMARK 3 REFINEMENT. REMARK 3 PROGRAM : REFMAC 5.8.0103 REMARK 3 AUTHORS : MURSHUDOV,SKUBAK,LEBEDEV,PANNU,STEINER, REMARK 3 : NICHOLLS,WINN,LONG,VAGIN REMARK 3 REMARK 3 REFINEMENT TARGET : MAXIMUM LIKELIHOOD REMARK 3 REMARK 3 DATA USED IN REFINEMENT. REMARK 3 RESOLUTION RANGE HIGH (ANGSTROMS) : 1.05 REMARK 3 RESOLUTION RANGE LOW (ANGSTROMS) : 34.70 REMARK 3 DATA CUTOFF (SIGMA(F)) : NULL REMARK 3 COMPLETENESS FOR RANGE (%) : 99.7 REMARK 3 NUMBER OF REFLECTIONS : 63260 REMARK 3 REMARK 3 FIT TO DATA USED IN REFINEMENT. REMARK 3 CROSS-VALIDATION METHOD : THROUGHOUT REMARK 3 FREE R VALUE TEST SET SELECTION : RANDOM REMARK 3 R VALUE (WORKING + TEST SET) : 0.108 REMARK 3 R VALUE (WORKING SET) : 0.107 REMARK 3 FREE R VALUE : 0.125 REMARK 3 FREE R VALUE TEST SET SIZE (%) : 4.800 REMARK 3 FREE R VALUE TEST SET COUNT : 3162 REMARK 3 REMARK 3 FIT IN THE HIGHEST RESOLUTION BIN. REMARK 3 TOTAL NUMBER OF BINS USED : 20 REMARK 3 BIN RESOLUTION RANGE HIGH (A) : 1.05 REMARK 3 BIN RESOLUTION RANGE LOW (A) : 1.07 REMARK 3 REFLECTION IN BIN (WORKING SET) : 4621 REMARK 3 BIN COMPLETENESS (WORKING+TEST) (%) : 99.30 REMARK 3 BIN R VALUE (WORKING SET) : 0.1480 REMARK 3 BIN FREE R VALUE SET COUNT : 210 REMARK 3 BIN FREE R VALUE : 0.1750 REMARK 3 REMARK 3 NUMBER OF NON-HYDROGEN ATOMS USED IN REFINEMENT. REMARK 3 PROTEIN ATOMS : 1280 REMARK 3 NUCLEIC ACID ATOMS : 0 REMARK 3 HETEROGEN ATOMS : 61 REMARK 3 SOLVENT ATOMS : 281 REMARK 3 REMARK 3 B VALUES. REMARK 3 FROM WILSON PLOT (A**2) : NULL REMARK 3 MEAN B VALUE (OVERALL, A**2) : 6.66 REMARK 3 OVERALL ANISOTROPIC B VALUE. REMARK 3 B11 (A**2) : -0.07000 REMARK 3 B22 (A**2) : 0.06000 REMARK 3 B33 (A**2) : -0.02000 REMARK 3 B12 (A**2) : 0.00000 REMARK 3 B13 (A**2) : 0.05000 REMARK 3 B23 (A**2) : 0.00000 REMARK 3 REMARK 3 ESTIMATED OVERALL COORDINATE ERROR. REMARK 3 ESU BASED ON R VALUE (A): 0.021 REMARK 3 ESU BASED ON FREE R VALUE (A): 0.022 REMARK 3 ESU BASED ON MAXIMUM LIKELIHOOD (A): NULL REMARK 3 ESU FOR B VALUES BASED ON MAXIMUM LIKELIHOOD (A**2): NULL REMARK 3 REMARK 3 CORRELATION COEFFICIENTS. REMARK 3 CORRELATION COEFFICIENT FO-FC : 0.981 REMARK 3 CORRELATION COEFFICIENT FO-FC FREE : 0.976 REMARK 3 REMARK 3 RMS DEVIATIONS FROM IDEAL VALUES COUNT RMS WEIGHT REMARK 3 BOND LENGTHS REFINED ATOMS (A): 1433 ; 0.019 ; 0.019 REMARK 3 BOND LENGTHS OTHERS (A): 1339 ; 0.000 ; 0.020 REMARK 3 BOND ANGLES REFINED ATOMS (DEGREES): 1972 ; 2.099 ; 2.045 REMARK 3 BOND ANGLES OTHERS (DEGREES): 3081 ; 3.529 ; 3.000 REMARK 3 TORSION ANGLES, PERIOD 1 (DEGREES): 167 ; 6.346 ; 5.000 REMARK 3 TORSION ANGLES, PERIOD 2 (DEGREES): 62 ;31.606 ;24.032 REMARK 3 TORSION ANGLES, PERIOD 3 (DEGREES): 230 ;10.271 ;15.000 REMARK 3 TORSION ANGLES, PERIOD 4 (DEGREES): 10 ;16.169 ;15.000 REMARK 3 CHIRAL-CENTER RESTRAINTS (A**3): 214 ; 0.116 ; 0.200 REMARK 3 GENERAL PLANES REFINED ATOMS (A): 1607 ; 0.014 ; 0.021 REMARK 3 GENERAL PLANES OTHERS (A): 325 ; 0.022 ; 0.020 REMARK 3 NON-BONDED CONTACTS REFINED ATOMS (A): NULL ; NULL ; NULL REMARK 3 NON-BONDED CONTACTS OTHERS (A): NULL ; NULL ; NULL REMARK 3 NON-BONDED TORSION REFINED ATOMS (A): NULL ; NULL ; NULL REMARK 3 NON-BONDED TORSION OTHERS (A): NULL ; NULL ; NULL REMARK 3 H-BOND (X...Y) REFINED ATOMS (A): NULL ; NULL ; NULL REMARK 3 H-BOND (X...Y) OTHERS (A): NULL ; NULL ; NULL REMARK 3 POTENTIAL METAL-ION REFINED ATOMS (A): NULL ; NULL ; NULL REMARK 3 POTENTIAL METAL-ION OTHERS (A): NULL ; NULL ; NULL REMARK 3 SYMMETRY VDW REFINED ATOMS (A): NULL ; NULL ; NULL REMARK 3 SYMMETRY VDW OTHERS (A): NULL ; NULL ; NULL REMARK 3 SYMMETRY H-BOND REFINED ATOMS (A): NULL ; NULL ; NULL REMARK 3 SYMMETRY H-BOND OTHERS (A): NULL ; NULL ; NULL REMARK 3 SYMMETRY METAL-ION REFINED ATOMS (A): NULL ; NULL ; NULL REMARK 3 SYMMETRY METAL-ION OTHERS (A): NULL ; NULL ; NULL REMARK 3 REMARK 3 ISOTROPIC THERMAL FACTOR RESTRAINTS. COUNT RMS WEIGHT REMARK 3 MAIN-CHAIN BOND REFINED ATOMS (A**2): 656 ; 0.625 ; 0.452 REMARK 3 MAIN-CHAIN BOND OTHER ATOMS (A**2): 655 ; 0.625 ; 0.451 REMARK 3 MAIN-CHAIN ANGLE REFINED ATOMS (A**2): 824 ; 0.829 ; 0.688 REMARK 3 MAIN-CHAIN ANGLE OTHER ATOMS (A**2): 825 ; 0.829 ; 0.689 REMARK 3 SIDE-CHAIN BOND REFINED ATOMS (A**2): 777 ; 0.931 ; 0.604 REMARK 3 SIDE-CHAIN BOND OTHER ATOMS (A**2): 778 ; 0.931 ; 0.604 REMARK 3 SIDE-CHAIN ANGLE REFINED ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 SIDE-CHAIN ANGLE OTHER ATOMS (A**2): 1148 ; 1.196 ; 0.861 REMARK 3 LONG RANGE B REFINED ATOMS (A**2): 1920 ; 2.407 ; 5.727 REMARK 3 LONG RANGE B OTHER ATOMS (A**2): 1921 ; 2.406 ; 5.729 REMARK 3 REMARK 3 ANISOTROPIC THERMAL FACTOR RESTRAINTS. COUNT RMS WEIGHT REMARK 3 RIGID-BOND RESTRAINTS (A**2): 2772 ;12.398 ; 3.000 REMARK 3 SPHERICITY; FREE ATOMS (A**2): 40 ;20.210 ; 5.000 REMARK 3 SPHERICITY; BONDED ATOMS (A**2): 2981 ; 4.797 ; 5.000 REMARK 3 REMARK 3 NCS RESTRAINTS STATISTICS REMARK 3 NUMBER OF DIFFERENT NCS GROUPS : NULL REMARK 3 REMARK 3 TLS DETAILS REMARK 3 NUMBER OF TLS GROUPS : NULL REMARK 3 REMARK 3 BULK SOLVENT MODELLING. REMARK 3 METHOD USED : MASK REMARK 3 PARAMETERS FOR MASK CALCULATION REMARK 3 VDW PROBE RADIUS : 1.20 REMARK 3 ION PROBE RADIUS : 0.80 REMARK 3 SHRINKAGE RADIUS : 0.80 REMARK 3 REMARK 3 OTHER REFINEMENT REMARKS: HYDROGENS HAVE BEEN ADDED IN THE RIDING REMARK 3 POSITIONS REMARK 4 REMARK 4 5ETP COMPLIES WITH FORMAT V. 3.30, 13-JUL-11 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY RCSB ON 18-NOV-15. REMARK 100 THE DEPOSITION ID IS D_1000215442. REMARK 200 REMARK 200 EXPERIMENTAL DETAILS REMARK 200 EXPERIMENT TYPE : X-RAY DIFFRACTION REMARK 200 DATE OF DATA COLLECTION : 07-FEB-15 REMARK 200 TEMPERATURE (KELVIN) : 100 REMARK 200 PH : 9.1 REMARK 200 NUMBER OF CRYSTALS USED : 1 REMARK 200 REMARK 200 SYNCHROTRON (Y/N) : Y REMARK 200 RADIATION SOURCE : AUSTRALIAN SYNCHROTRON REMARK 200 BEAMLINE : MX2 REMARK 200 X-RAY GENERATOR MODEL : NULL REMARK 200 MONOCHROMATIC OR LAUE (M/L) : M REMARK 200 WAVELENGTH OR RANGE (A) : 0.9707 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 : XDS REMARK 200 DATA SCALING SOFTWARE : AIMLESS REMARK 200 REMARK 200 NUMBER OF UNIQUE REFLECTIONS : 66451 REMARK 200 RESOLUTION RANGE HIGH (A) : 1.050 REMARK 200 RESOLUTION RANGE LOW (A) : 34.700 REMARK 200 REJECTION CRITERIA (SIGMA(I)) : NULL REMARK 200 REMARK 200 OVERALL. REMARK 200 COMPLETENESS FOR RANGE (%) : 99.8 REMARK 200 DATA REDUNDANCY : 7.100 REMARK 200 R MERGE (I) : 0.08700 REMARK 200 R SYM (I) : NULL REMARK 200 FOR THE DATA SET : 13.4000 REMARK 200 REMARK 200 IN THE HIGHEST RESOLUTION SHELL. REMARK 200 HIGHEST RESOLUTION SHELL, RANGE HIGH (A) : 1.05 REMARK 200 HIGHEST RESOLUTION SHELL, RANGE LOW (A) : 1.06 REMARK 200 COMPLETENESS FOR SHELL (%) : 99.2 REMARK 200 DATA REDUNDANCY IN SHELL : 6.50 REMARK 200 R MERGE FOR SHELL (I) : 0.29800 REMARK 200 R SYM FOR SHELL (I) : NULL REMARK 200 FOR SHELL : 5.100 REMARK 200 REMARK 200 DIFFRACTION PROTOCOL: SINGLE WAVELENGTH REMARK 200 METHOD USED TO DETERMINE THE STRUCTURE: MOLECULAR REPLACEMENT REMARK 200 SOFTWARE USED: MOLREP REMARK 200 STARTING MODEL: 1Q0N REMARK 200 REMARK 200 REMARK: NULL REMARK 280 REMARK 280 CRYSTAL REMARK 280 SOLVENT CONTENT, VS (%): 37.48 REMARK 280 MATTHEWS COEFFICIENT, VM (ANGSTROMS**3/DA): 1.97 REMARK 280 REMARK 280 CRYSTALLIZATION CONDITIONS: PROTEIN 6.6 MG/ML 1 MM AMPCPP, 1 MM REMARK 280 INHIBITOR, 2 MM MAGNESIUM CHLORIDE, 20%W/V PEG4000, 0.1 M TRIS REMARK 280 CHLORIDE, 0.172 M CALCIUM CHLORIDE, PH 9.1, VAPOR DIFFUSION, REMARK 280 SITTING DROP, TEMPERATURE 281K REMARK 290 REMARK 290 CRYSTALLOGRAPHIC SYMMETRY REMARK 290 SYMMETRY OPERATORS FOR SPACE GROUP: P 1 21 1 REMARK 290 REMARK 290 SYMOP SYMMETRY REMARK 290 NNNMMM OPERATOR REMARK 290 1555 X,Y,Z REMARK 290 2555 -X,Y+1/2,-Z 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 28.88500 REMARK 290 SMTRY3 2 0.000000 0.000000 -1.000000 0.00000 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: MONOMERIC REMARK 350 SOFTWARE DETERMINED QUATERNARY STRUCTURE: MONOMERIC REMARK 350 SOFTWARE USED: PISA 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 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 -3 REMARK 465 SER A -2 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 313 O HOH A 447 1.92 REMARK 500 REMARK 500 REMARK: NULL REMARK 500 REMARK 500 GEOMETRY AND STEREOCHEMISTRY REMARK 500 SUBTOPIC: COVALENT BOND ANGLES REMARK 500 REMARK 500 THE STEREOCHEMICAL PARAMETERS OF THE FOLLOWING RESIDUES REMARK 500 HAVE VALUES WHICH DEVIATE FROM EXPECTED VALUES BY MORE REMARK 500 THAN 6*RMSD (M=MODEL NUMBER; RES=RESIDUE NAME; C=CHAIN REMARK 500 IDENTIFIER; SSEQ=SEQUENCE NUMBER; I=INSERTION CODE). REMARK 500 REMARK 500 STANDARD TABLE: REMARK 500 FORMAT: (10X,I3,1X,A3,1X,A1,I4,A1,3(1X,A4,2X),12X,F5.1) REMARK 500 REMARK 500 EXPECTED VALUES PROTEIN: ENGH AND HUBER, 1999 REMARK 500 EXPECTED VALUES NUCLEIC ACID: CLOWNEY ET AL 1996 REMARK 500 REMARK 500 M RES CSSEQI ATM1 ATM2 ATM3 REMARK 500 MET A 0 CG - SD - CE ANGL. DEV. = -10.8 DEGREES 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 SER A 13 75.83 65.83 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 580 DISTANCE = 6.19 ANGSTROMS REMARK 525 HOH A 581 DISTANCE = 6.38 ANGSTROMS REMARK 620 REMARK 620 METAL COORDINATION REMARK 620 (M=MODEL NUMBER; RES=RESIDUE NAME; C=CHAIN IDENTIFIER; REMARK 620 SSEQ=SEQUENCE NUMBER; I=INSERTION CODE): REMARK 620 REMARK 620 COORDINATION ANGLES FOR: M RES CSSEQI METAL REMARK 620 NA A 207 NA REMARK 620 N RES CSSEQI ATOM REMARK 620 1 MET A 0 O REMARK 620 2 MET A 0 O 0.1 REMARK 620 3 HOH A 327 O 75.4 75.6 REMARK 620 4 HOH A 350 O 124.7 124.7 76.0 REMARK 620 5 HOH A 454 O 84.2 84.2 121.5 150.7 REMARK 620 6 HOH A 509 O 121.0 120.8 163.5 91.5 65.9 REMARK 620 7 HOH A 521 O 112.0 112.1 73.5 103.8 64.5 99.6 REMARK 620 N 1 2 3 4 5 6 REMARK 620 REMARK 620 COORDINATION ANGLES FOR: M RES CSSEQI METAL REMARK 620 CA A 202 CA REMARK 620 N RES CSSEQI ATOM REMARK 620 1 GLY A 26 O REMARK 620 2 ILE A 28 O 101.5 REMARK 620 3 SER A 31 O 130.2 102.0 REMARK 620 4 GLU A 109 OE2 107.0 23.1 81.8 REMARK 620 5 HOH A 361 O 69.7 87.7 68.2 69.7 REMARK 620 6 HOH A 396 O 86.2 172.2 72.3 153.6 95.0 REMARK 620 7 HOH A 434 O 73.8 90.7 148.2 113.8 142.2 91.6 REMARK 620 N 1 2 3 4 5 6 REMARK 620 REMARK 620 COORDINATION ANGLES FOR: M RES CSSEQI METAL REMARK 620 NA A 208 NA REMARK 620 N RES CSSEQI ATOM REMARK 620 1 GLU A 30 OE1 REMARK 620 2 SER A 63 O 84.0 REMARK 620 3 HOH A 313 O 73.4 109.1 REMARK 620 4 HOH A 430 O 74.3 102.4 131.5 REMARK 620 5 HOH A 480 O 135.6 76.7 75.8 148.7 REMARK 620 6 HOH A 511 O 106.9 169.0 76.1 79.9 95.7 REMARK 620 7 HOH A 574 O 136.5 79.6 150.1 70.5 78.7 91.3 REMARK 620 N 1 2 3 4 5 6 REMARK 620 REMARK 620 COORDINATION ANGLES FOR: M RES CSSEQI METAL REMARK 620 CA A 203 CA REMARK 620 N RES CSSEQI ATOM REMARK 620 1 LEU A 34 O REMARK 620 2 ASP A 49 OD1 34.5 REMARK 620 3 ASP A 49 OD2 34.6 1.7 REMARK 620 4 GLU A 87 OE1 27.5 7.4 7.1 REMARK 620 5 GLU A 87 OE2 28.3 6.3 6.8 3.1 REMARK 620 6 HOH A 379 O 30.2 4.4 4.5 3.1 2.4 REMARK 620 7 HOH A 405 O 31.4 4.3 3.4 3.9 4.9 2.6 REMARK 620 8 HOH A 448 O 31.2 5.6 4.4 4.2 5.9 3.9 1.5 REMARK 620 N 1 2 3 4 5 6 7 REMARK 620 REMARK 620 COORDINATION ANGLES FOR: M RES CSSEQI METAL REMARK 620 CA A 204 CA REMARK 620 N RES CSSEQI ATOM REMARK 620 1 ASP A 95 OD2 REMARK 620 2 ASP A 97 OD2 90.9 REMARK 620 3 APC A 201 O2G 167.4 92.5 REMARK 620 4 APC A 201 O2G 167.1 91.7 0.9 REMARK 620 5 APC A 201 O2B 86.3 105.5 81.0 80.7 REMARK 620 6 APC A 201 O2B 87.6 104.4 79.7 79.4 1.7 REMARK 620 7 HOH A 356 O 90.3 167.4 89.1 89.9 87.1 88.1 REMARK 620 8 HOH A 471 O 80.1 89.7 112.1 112.6 159.8 161.4 78.1 REMARK 620 N 1 2 3 4 5 6 7 REMARK 620 REMARK 620 COORDINATION ANGLES FOR: M RES CSSEQI METAL REMARK 620 CA A 205 CA REMARK 620 N RES CSSEQI ATOM REMARK 620 1 ASP A 95 OD1 REMARK 620 2 ASP A 97 OD1 91.0 REMARK 620 3 APC A 201 O2B 87.3 92.7 REMARK 620 4 APC A 201 O2B 89.0 92.4 1.7 REMARK 620 5 APC A 201 O2A 95.4 169.7 79.6 79.7 REMARK 620 6 APC A 201 O2A 96.8 169.7 81.0 81.1 2.0 REMARK 620 7 HOH A 428 O 176.3 86.1 95.0 93.3 87.8 86.3 REMARK 620 8 HOH A 498 O 84.0 105.1 160.3 161.2 83.6 82.4 94.6 REMARK 620 N 1 2 3 4 5 6 7 REMARK 620 REMARK 620 COORDINATION ANGLES FOR: M RES CSSEQI METAL REMARK 620 NA A 206 NA REMARK 620 N RES CSSEQI ATOM REMARK 620 1 ASP A 139 OD2 REMARK 620 2 HOH A 321 O 64.5 REMARK 620 3 HOH A 406 O 77.0 86.6 REMARK 620 4 HOH A 409 O 86.9 75.3 159.8 REMARK 620 5 HOH A 465 O 77.7 134.8 109.0 78.8 REMARK 620 6 HOH A 528 O 116.2 57.6 121.3 55.6 129.4 REMARK 620 7 HOH A 539 O 140.7 87.1 74.6 112.7 137.5 60.1 REMARK 620 N 1 2 3 4 5 6 REMARK 800 REMARK 800 SITE REMARK 800 SITE_IDENTIFIER: AC1 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue APC A 201 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC2 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue CA A 202 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC3 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue CA A 203 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC4 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue CA A 204 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC5 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue CA A 205 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC6 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue NA A 206 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC7 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue NA A 207 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC8 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue NA A 208 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC9 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue 5RZ A 209 REMARK 800 REMARK 800 SITE_IDENTIFIER: AD1 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue CL A 210 REMARK 900 REMARK 900 RELATED ENTRIES REMARK 900 RELATED ID: 5ETK RELATED DB: PDB REMARK 900 RELATED ID: 5ETL RELATED DB: PDB REMARK 900 RELATED ID: 5ETM RELATED DB: PDB REMARK 900 RELATED ID: 5ETN RELATED DB: PDB REMARK 900 RELATED ID: 5ETO RELATED DB: PDB REMARK 900 RELATED ID: 5ETQ RELATED DB: PDB REMARK 900 RELATED ID: 5ETR RELATED DB: PDB REMARK 900 RELATED ID: 5ETS RELATED DB: PDB REMARK 900 RELATED ID: 5ETT RELATED DB: PDB REMARK 900 RELATED ID: 5ETV RELATED DB: PDB DBREF 5ETP A 0 158 UNP P26281 HPPK_ECOLI 1 159 SEQADV 5ETP GLY A -3 UNP P26281 EXPRESSION TAG SEQADV 5ETP SER A -2 UNP P26281 EXPRESSION TAG SEQADV 5ETP ALA A -1 UNP P26281 EXPRESSION TAG SEQRES 1 A 162 GLY SER ALA MET THR VAL ALA TYR ILE ALA ILE GLY SER SEQRES 2 A 162 ASN LEU ALA SER PRO LEU GLU GLN VAL ASN ALA ALA LEU SEQRES 3 A 162 LYS ALA LEU GLY ASP ILE PRO GLU SER HIS ILE LEU THR SEQRES 4 A 162 VAL SER SER PHE TYR ARG THR PRO PRO LEU GLY PRO GLN SEQRES 5 A 162 ASP GLN PRO ASP TYR LEU ASN ALA ALA VAL ALA LEU GLU SEQRES 6 A 162 THR SER LEU ALA PRO GLU GLU LEU LEU ASN HIS THR GLN SEQRES 7 A 162 ARG ILE GLU LEU GLN GLN GLY ARG VAL ARG LYS ALA GLU SEQRES 8 A 162 ARG TRP GLY PRO ARG THR LEU ASP LEU ASP ILE MET LEU SEQRES 9 A 162 PHE GLY ASN GLU VAL ILE ASN THR GLU ARG LEU THR VAL SEQRES 10 A 162 PRO HIS TYR ASP MET LYS ASN ARG GLY PHE MET LEU TRP SEQRES 11 A 162 PRO LEU PHE GLU ILE ALA PRO GLU LEU VAL PHE PRO ASP SEQRES 12 A 162 GLY GLU MET LEU ARG GLN ILE LEU HIS THR ARG ALA PHE SEQRES 13 A 162 ASP LYS LEU ASN LYS TRP HET APC A 201 62 HET CA A 202 1 HET CA A 203 1 HET CA A 204 1 HET CA A 205 1 HET NA A 206 1 HET NA A 207 1 HET NA A 208 1 HET 5RZ A 209 22 HET CL A 210 1 HETNAM APC DIPHOSPHOMETHYLPHOSPHONIC ACID ADENOSYL ESTER HETNAM CA CALCIUM ION HETNAM NA SODIUM ION HETNAM 5RZ 2-AZANYL-8-[2-(4-BROMOPHENYL)-2-OXIDANYLIDENE- HETNAM 2 5RZ ETHYL]SULFANYL-1,9-DIHYDROPURIN-6-ONE HETNAM CL CHLORIDE ION HETSYN APC ALPHA,BETA-METHYLENEADENOSINE-5'-TRIPHOSPHATE FORMUL 2 APC C11 H18 N5 O12 P3 FORMUL 3 CA 4(CA 2+) FORMUL 7 NA 3(NA 1+) FORMUL 10 5RZ C13 H10 BR N5 O2 S FORMUL 11 CL CL 1- FORMUL 12 HOH *281(H2 O) HELIX 1 AA1 SER A 13 ASP A 27 1 15 HELIX 2 AA2 ALA A 65 GLN A 80 1 16 HELIX 3 AA3 ASP A 117 ASN A 120 5 4 HELIX 4 AA4 ARG A 121 ALA A 132 1 12 HELIX 5 AA5 MET A 142 ARG A 150 1 9 SHEET 1 AA1 4 SER A 31 VAL A 36 0 SHEET 2 AA1 4 TYR A 53 THR A 62 -1 O ALA A 59 N LEU A 34 SHEET 3 AA1 4 THR A 1 SER A 9 -1 N ALA A 3 O LEU A 60 SHEET 4 AA1 4 ASP A 95 PHE A 101 -1 O ASP A 97 N ALA A 6 SHEET 1 AA2 4 SER A 31 VAL A 36 0 SHEET 2 AA2 4 TYR A 53 THR A 62 -1 O ALA A 59 N LEU A 34 SHEET 3 AA2 4 TYR A 40 THR A 42 -1 N THR A 42 O TYR A 53 SHEET 4 AA2 4 ASN A 156 LYS A 157 -1 O ASN A 156 N ARG A 41 SHEET 1 AA3 2 ILE A 106 ASN A 107 0 SHEET 2 AA3 2 THR A 112 VAL A 113 -1 O VAL A 113 N ILE A 106 LINK O AMET A 0 NA NA A 207 1555 1555 2.20 LINK O BMET A 0 NA NA A 207 1555 1555 2.20 LINK O GLY A 26 CA CA A 202 1555 1555 2.57 LINK O ILE A 28 CA CA A 202 1555 1555 2.32 LINK OE1 GLU A 30 NA NA A 208 1555 1555 2.44 LINK O SER A 31 CA CA A 202 1555 1555 2.41 LINK O LEU A 34 CA CA A 203 1555 2444 2.36 LINK OD1 ASP A 49 CA CA A 203 1555 1555 2.61 LINK OD2 ASP A 49 CA CA A 203 1555 1555 2.41 LINK O SER A 63 NA NA A 208 1555 1555 2.71 LINK OE1 GLU A 87 CA CA A 203 1555 1555 2.60 LINK OE2 GLU A 87 CA CA A 203 1555 1555 2.42 LINK OD2 ASP A 95 CA CA A 204 1555 1555 2.38 LINK OD1 ASP A 95 CA CA A 205 1555 1555 2.30 LINK OD2 ASP A 97 CA CA A 204 1555 1555 2.28 LINK OD1 ASP A 97 CA CA A 205 1555 1555 2.30 LINK OE2 GLU A 109 CA CA A 202 1555 2555 2.36 LINK OD2 ASP A 139 NA NA A 206 1555 1555 2.28 LINK O2GAAPC A 201 CA CA A 204 1555 1555 2.35 LINK O2GBAPC A 201 CA CA A 204 1555 1555 2.36 LINK O2BAAPC A 201 CA CA A 204 1555 1555 2.34 LINK O2BBAPC A 201 CA CA A 204 1555 1555 2.36 LINK O2BAAPC A 201 CA CA A 205 1555 1555 2.37 LINK O2BBAPC A 201 CA CA A 205 1555 1555 2.37 LINK O2AAAPC A 201 CA CA A 205 1555 1555 2.35 LINK O2ABAPC A 201 CA CA A 205 1555 1555 2.34 LINK CA CA A 202 O HOH A 361 1555 1555 2.51 LINK CA CA A 202 O HOH A 396 1555 1555 2.38 LINK CA CA A 202 O HOH A 434 1555 1555 2.32 LINK CA CA A 203 O HOH A 379 1555 2454 2.44 LINK CA CA A 203 O HOH A 405 1555 1555 2.47 LINK CA CA A 203 O HOH A 448 1555 1555 2.44 LINK CA CA A 204 O HOH A 356 1555 1555 2.33 LINK CA CA A 204 O HOH A 471 1555 1555 2.48 LINK CA CA A 205 O HOH A 428 1555 1555 2.36 LINK CA CA A 205 O HOH A 498 1555 1655 2.33 LINK NA NA A 206 O HOH A 321 1555 1555 2.69 LINK NA NA A 206 O HOH A 406 1555 1555 2.29 LINK NA NA A 206 O HOH A 409 1555 1555 2.21 LINK NA NA A 206 O HOH A 465 1555 1555 2.58 LINK NA NA A 206 O HOH A 528 1555 1555 2.54 LINK NA NA A 206 O HOH A 539 1555 1555 2.23 LINK NA NA A 207 O HOH A 327 1555 1555 2.21 LINK NA NA A 207 O HOH A 350 1555 1556 2.45 LINK NA NA A 207 O HOH A 454 1555 1555 2.98 LINK NA NA A 207 O HOH A 509 1555 1555 2.19 LINK NA NA A 207 O HOH A 521 1555 1556 2.98 LINK NA NA A 208 O HOH A 313 1555 1555 2.43 LINK NA NA A 208 O HOH A 430 1555 1555 2.43 LINK NA NA A 208 O HOH A 480 1555 1555 2.41 LINK NA NA A 208 O HOH A 511 1555 1555 2.39 LINK NA NA A 208 O HOH A 574 1555 1656 2.43 CISPEP 1 VAL A 113 PRO A 114 0 2.04 SITE 1 AC1 28 GLN A 74 ARG A 82 ARG A 84 TRP A 89 SITE 2 AC1 28 ARG A 92 ASP A 95 ASP A 97 ILE A 98 SITE 3 AC1 28 ARG A 110 LEU A 111 THR A 112 HIS A 115 SITE 4 AC1 28 TYR A 116 ARG A 121 GLN A 145 HIS A 148 SITE 5 AC1 28 CA A 204 CA A 205 5RZ A 209 HOH A 314 SITE 6 AC1 28 HOH A 316 HOH A 333 HOH A 338 HOH A 372 SITE 7 AC1 28 HOH A 413 HOH A 428 HOH A 498 HOH A 503 SITE 1 AC2 6 GLY A 26 ILE A 28 SER A 31 HOH A 361 SITE 2 AC2 6 HOH A 396 HOH A 434 SITE 1 AC3 4 ASP A 49 GLU A 87 HOH A 405 HOH A 448 SITE 1 AC4 5 ASP A 95 ASP A 97 APC A 201 HOH A 356 SITE 2 AC4 5 HOH A 471 SITE 1 AC5 5 ASP A 95 ASP A 97 APC A 201 HOH A 428 SITE 2 AC5 5 HOH A 498 SITE 1 AC6 7 ASP A 139 HOH A 321 HOH A 406 HOH A 409 SITE 2 AC6 7 HOH A 465 HOH A 528 HOH A 539 SITE 1 AC7 6 MET A 0 HOH A 327 HOH A 350 HOH A 454 SITE 2 AC7 6 HOH A 509 HOH A 521 SITE 1 AC8 7 GLU A 30 SER A 63 HOH A 313 HOH A 430 SITE 2 AC8 7 HOH A 480 HOH A 511 HOH A 574 SITE 1 AC9 12 THR A 42 PRO A 43 PRO A 44 LEU A 45 SITE 2 AC9 12 TYR A 53 ASN A 55 TRP A 89 ARG A 121 SITE 3 AC9 12 PHE A 123 APC A 201 HOH A 356 HOH A 407 SITE 1 AD1 5 ARG A 82 VAL A 83 ARG A 92 THR A 93 SITE 2 AD1 5 HOH A 384 CRYST1 35.950 57.770 38.640 90.00 116.11 90.00 P 1 21 1 2 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 0.027817 0.000000 0.013633 0.00000 SCALE2 0.000000 0.017310 0.000000 0.00000 SCALE3 0.000000 0.000000 0.028821 0.00000