HEADER TRANSFERASE/TRANSFERASE INHIBITOR 08-AUG-13 4M5N TITLE THE IDENTIFICATION, ANALYSIS AND STRUCTURE-BASED DEVELOPMENT OF NOVEL TITLE 2 INHIBITORS OF 6-HYDROXYMETHYL-7,8-DIHYDROPTERIN PYROPHOSPHOKINASE COMPND MOL_ID: 1; COMPND 2 MOLECULE: 2-AMINO-4-HYDROXY-6-HYDROXYMETHYLDIHYDROPTERIDINE COMPND 3 PYROPHOSPHOKINASE; COMPND 4 CHAIN: A, B; COMPND 5 SYNONYM: 6-HYDROXYMETHYL-7,8-DIHYDROPTERIN PYROPHOSPHOKINASE, PPPK, COMPND 6 7,8-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: 83333; SOURCE 4 STRAIN: K12; SOURCE 5 GENE: FOLK, B0142, JW0138; SOURCE 6 EXPRESSION_SYSTEM: ESCHERICHIA COLI; SOURCE 7 EXPRESSION_SYSTEM_TAXID: 469008; SOURCE 8 EXPRESSION_SYSTEM_STRAIN: BL21(DE3); SOURCE 9 EXPRESSION_SYSTEM_VECTOR_TYPE: PLASMID; SOURCE 10 EXPRESSION_SYSTEM_PLASMID: PET14B KEYWDS FOLATE BIOSYNTHESIS, DIPHOSPHOTRANSFERASES, PTERIN, ATP BINDING, KEYWDS 2 INHIBITOR, TRANSFERASE-TRANSFERASE INHIBITOR COMPLEX EXPDTA X-RAY DIFFRACTION AUTHOR M.YUN,D.HOAGLAND,G.KUMAR,B.WADDELL,C.O.ROCK,R.E.LEE,S.W.WHITE REVDAT 4 20-SEP-23 4M5N 1 REMARK SEQADV LINK REVDAT 3 11-JUN-14 4M5N 1 HETNAM REVDAT 2 16-APR-14 4M5N 1 JRNL REVDAT 1 02-APR-14 4M5N 0 JRNL AUTH M.K.YUN,D.HOAGLAND,G.KUMAR,M.B.WADDELL,C.O.ROCK,R.E.LEE, JRNL AUTH 2 S.W.WHITE JRNL TITL THE IDENTIFICATION, ANALYSIS AND STRUCTURE-BASED DEVELOPMENT JRNL TITL 2 OF NOVEL INHIBITORS OF 6-HYDROXYMETHYL-7,8-DIHYDROPTERIN JRNL TITL 3 PYROPHOSPHOKINASE. JRNL REF BIOORG.MED.CHEM. V. 22 2157 2014 JRNL REFN ISSN 0968-0896 JRNL PMID 24613625 JRNL DOI 10.1016/J.BMC.2014.02.022 REMARK 2 REMARK 2 RESOLUTION. 2.00 ANGSTROMS. REMARK 3 REMARK 3 REFINEMENT. REMARK 3 PROGRAM : PHENIX (PHENIX.REFINE: 1.7.3_928) 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) : 2.00 REMARK 3 RESOLUTION RANGE LOW (ANGSTROMS) : 35.12 REMARK 3 MIN(FOBS/SIGMA_FOBS) : 1.970 REMARK 3 COMPLETENESS FOR RANGE (%) : 98.3 REMARK 3 NUMBER OF REFLECTIONS : 35827 REMARK 3 REMARK 3 FIT TO DATA USED IN REFINEMENT. REMARK 3 R VALUE (WORKING + TEST SET) : 0.161 REMARK 3 R VALUE (WORKING SET) : 0.159 REMARK 3 FREE R VALUE : 0.192 REMARK 3 FREE R VALUE TEST SET SIZE (%) : 5.100 REMARK 3 FREE R VALUE TEST SET COUNT : 1828 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 35.1240 - 4.6948 1.00 2635 150 0.1602 0.1690 REMARK 3 2 4.6948 - 3.7278 1.00 2666 144 0.1303 0.1450 REMARK 3 3 3.7278 - 3.2569 1.00 2659 140 0.1426 0.1861 REMARK 3 4 3.2569 - 2.9593 1.00 2654 144 0.1590 0.1953 REMARK 3 5 2.9593 - 2.7473 1.00 2663 142 0.1623 0.2136 REMARK 3 6 2.7473 - 2.5854 1.00 2669 148 0.1613 0.2095 REMARK 3 7 2.5854 - 2.4559 1.00 2643 142 0.1683 0.2194 REMARK 3 8 2.4559 - 2.3490 1.00 2644 144 0.1686 0.2173 REMARK 3 9 2.3490 - 2.2586 1.00 2695 150 0.1641 0.1699 REMARK 3 10 2.2586 - 2.1807 1.00 2656 144 0.1702 0.2159 REMARK 3 11 2.1807 - 2.1125 0.99 2631 132 0.1788 0.2359 REMARK 3 12 2.1125 - 2.0521 0.97 2586 137 0.2110 0.2927 REMARK 3 13 2.0521 - 2.0000 0.83 2198 111 0.2452 0.2348 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 : 0.86 REMARK 3 K_SOL : 0.37 REMARK 3 B_SOL : 40.60 REMARK 3 REMARK 3 ERROR ESTIMATES. REMARK 3 COORDINATE ERROR (MAXIMUM-LIKELIHOOD BASED) : 0.230 REMARK 3 PHASE ERROR (DEGREES, MAXIMUM-LIKELIHOOD BASED) : 19.500 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) : 1.16390 REMARK 3 B22 (A**2) : 1.16390 REMARK 3 B33 (A**2) : -2.32780 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 : 0.008 2759 REMARK 3 ANGLE : 1.230 3805 REMARK 3 CHIRALITY : 0.078 412 REMARK 3 PLANARITY : 0.005 477 REMARK 3 DIHEDRAL : 16.773 1029 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 -1:158 ) REMARK 3 ORIGIN FOR THE GROUP (A): 36.1060 -22.1505 -7.2342 REMARK 3 T TENSOR REMARK 3 T11: 0.1130 T22: 0.1509 REMARK 3 T33: 0.0988 T12: 0.0643 REMARK 3 T13: 0.0042 T23: 0.0029 REMARK 3 L TENSOR REMARK 3 L11: 1.5345 L22: 1.9887 REMARK 3 L33: 2.1264 L12: 0.2118 REMARK 3 L13: -0.0751 L23: -0.6072 REMARK 3 S TENSOR REMARK 3 S11: 0.0175 S12: -0.0760 S13: -0.0901 REMARK 3 S21: -0.0359 S22: -0.0639 S23: -0.1808 REMARK 3 S31: 0.2272 S32: 0.2246 S33: 0.0022 REMARK 3 TLS GROUP : 2 REMARK 3 SELECTION: ( CHAIN B AND RESID -1:158 ) REMARK 3 ORIGIN FOR THE GROUP (A): 17.5751 -8.8301 13.6691 REMARK 3 T TENSOR REMARK 3 T11: 0.1099 T22: 0.1484 REMARK 3 T33: 0.0973 T12: 0.0693 REMARK 3 T13: -0.0047 T23: -0.0078 REMARK 3 L TENSOR REMARK 3 L11: 1.3483 L22: 2.0677 REMARK 3 L33: 2.1120 L12: 0.2014 REMARK 3 L13: 0.0977 L23: 0.6059 REMARK 3 S TENSOR REMARK 3 S11: 0.0301 S12: -0.0655 S13: 0.0948 REMARK 3 S21: -0.0133 S22: -0.0793 S23: 0.1761 REMARK 3 S31: -0.2326 S32: -0.2273 S33: 0.0014 REMARK 3 TLS GROUP : 3 REMARK 3 SELECTION: ( CHAIN A AND RESID 503:503 ) REMARK 3 ORIGIN FOR THE GROUP (A): 38.4409 -22.2654 -17.0547 REMARK 3 T TENSOR REMARK 3 T11: 0.2161 T22: 0.2905 REMARK 3 T33: 0.2213 T12: 0.0641 REMARK 3 T13: 0.0418 T23: 0.0154 REMARK 3 L TENSOR REMARK 3 L11: 0.0780 L22: 0.0988 REMARK 3 L33: 0.0966 L12: 0.0901 REMARK 3 L13: -0.0882 L23: -0.0953 REMARK 3 S TENSOR REMARK 3 S11: -0.0351 S12: 0.0576 S13: 0.0959 REMARK 3 S21: -0.2835 S22: -0.1929 S23: -0.0553 REMARK 3 S31: 0.3074 S32: 0.1421 S33: 0.2988 REMARK 3 TLS GROUP : 4 REMARK 3 SELECTION: ( CHAIN B AND RESID 203:203 ) REMARK 3 ORIGIN FOR THE GROUP (A): 15.2313 -8.7188 3.8205 REMARK 3 T TENSOR REMARK 3 T11: 0.2302 T22: 0.2785 REMARK 3 T33: 0.1850 T12: 0.0516 REMARK 3 T13: -0.0458 T23: -0.0118 REMARK 3 L TENSOR REMARK 3 L11: 0.3583 L22: 2.2817 REMARK 3 L33: 0.4788 L12: 0.8491 REMARK 3 L13: 0.0773 L23: -0.1892 REMARK 3 S TENSOR REMARK 3 S11: -0.0390 S12: 0.1942 S13: 0.0484 REMARK 3 S21: -0.1008 S22: -0.1537 S23: -0.0517 REMARK 3 S31: -0.1625 S32: -0.1857 S33: 0.2034 REMARK 3 TLS GROUP : 5 REMARK 3 SELECTION: ( CHAIN A AND RESID 504:504 ) REMARK 3 ORIGIN FOR THE GROUP (A): 43.2729 -15.9893 -8.8116 REMARK 3 T TENSOR REMARK 3 T11: 0.1285 T22: 0.2789 REMARK 3 T33: 0.3023 T12: 0.0021 REMARK 3 T13: -0.0179 T23: -0.0503 REMARK 3 L TENSOR REMARK 3 L11: 0.0001 L22: -0.0001 REMARK 3 L33: 0.0008 L12: 0.0001 REMARK 3 L13: -0.0000 L23: 0.0001 REMARK 3 S TENSOR REMARK 3 S11: -0.0312 S12: 0.0359 S13: -0.0133 REMARK 3 S21: 0.0329 S22: 0.0057 S23: 0.0097 REMARK 3 S31: 0.0162 S32: -0.0285 S33: -0.0004 REMARK 3 TLS GROUP : 6 REMARK 3 SELECTION: ( CHAIN B AND RESID 204:204 ) REMARK 3 ORIGIN FOR THE GROUP (A): 10.3743 -15.0112 12.0902 REMARK 3 T TENSOR REMARK 3 T11: 0.1124 T22: 0.3011 REMARK 3 T33: 0.2912 T12: -0.0060 REMARK 3 T13: 0.0065 T23: 0.0313 REMARK 3 L TENSOR REMARK 3 L11: 0.0001 L22: 0.0005 REMARK 3 L33: 0.0003 L12: -0.0005 REMARK 3 L13: 0.0001 L23: 0.0002 REMARK 3 S TENSOR REMARK 3 S11: -0.0261 S12: 0.0281 S13: 0.0017 REMARK 3 S21: 0.0313 S22: -0.0107 S23: -0.0157 REMARK 3 S31: -0.0185 S32: 0.0178 S33: -0.0017 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 4M5N COMPLIES WITH FORMAT V. 3.30, 13-JUL-11 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY RCSB ON 05-SEP-13. REMARK 100 THE DEPOSITION ID IS D_1000081496. REMARK 200 REMARK 200 EXPERIMENTAL DETAILS REMARK 200 EXPERIMENT TYPE : X-RAY DIFFRACTION REMARK 200 DATE OF DATA COLLECTION : 03-MAR-13 REMARK 200 TEMPERATURE (KELVIN) : 100 REMARK 200 PH : 6.5 REMARK 200 NUMBER OF CRYSTALS USED : 1 REMARK 200 REMARK 200 SYNCHROTRON (Y/N) : Y REMARK 200 RADIATION SOURCE : APS REMARK 200 BEAMLINE : 22-BM REMARK 200 X-RAY GENERATOR MODEL : NULL REMARK 200 MONOCHROMATIC OR LAUE (M/L) : M REMARK 200 WAVELENGTH OR RANGE (A) : 1.0 REMARK 200 MONOCHROMATOR : DOUBLE CRYSTAL REMARK 200 OPTICS : ROSENBAUM-ROCK DOUBLE-CRYSTAL REMARK 200 MONOCHROMATOR REMARK 200 REMARK 200 DETECTOR TYPE : CCD REMARK 200 DETECTOR MANUFACTURER : MARMOSAIC 225 MM CCD REMARK 200 INTENSITY-INTEGRATION SOFTWARE : HKL-2000 REMARK 200 DATA SCALING SOFTWARE : HKL-2000 REMARK 200 REMARK 200 NUMBER OF UNIQUE REFLECTIONS : 35855 REMARK 200 RESOLUTION RANGE HIGH (A) : 2.000 REMARK 200 RESOLUTION RANGE LOW (A) : 50.000 REMARK 200 REJECTION CRITERIA (SIGMA(I)) : -3.000 REMARK 200 REMARK 200 OVERALL. REMARK 200 COMPLETENESS FOR RANGE (%) : 98.4 REMARK 200 DATA REDUNDANCY : 3.900 REMARK 200 R MERGE (I) : NULL REMARK 200 R SYM (I) : 0.10400 REMARK 200 FOR THE DATA SET : 16.8000 REMARK 200 REMARK 200 IN THE HIGHEST RESOLUTION SHELL. REMARK 200 HIGHEST RESOLUTION SHELL, RANGE HIGH (A) : 2.00 REMARK 200 HIGHEST RESOLUTION SHELL, RANGE LOW (A) : 2.05 REMARK 200 COMPLETENESS FOR SHELL (%) : 82.7 REMARK 200 DATA REDUNDANCY IN SHELL : 2.20 REMARK 200 R MERGE FOR SHELL (I) : NULL REMARK 200 R SYM FOR SHELL (I) : 0.36500 REMARK 200 FOR SHELL : 1.900 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: PDB ENTRY 4M5M REMARK 200 REMARK 200 REMARK: NULL REMARK 280 REMARK 280 CRYSTAL REMARK 280 SOLVENT CONTENT, VS (%): 67.45 REMARK 280 MATTHEWS COEFFICIENT, VM (ANGSTROMS**3/DA): 3.78 REMARK 280 REMARK 280 CRYSTALLIZATION CONDITIONS: 0.1M SODIUM CACODYLATE, 1M TRI-SODIUM REMARK 280 CITRATE, PH 6.5, VAPOR DIFFUSION, SITTING DROP, TEMPERATURE 291K REMARK 290 REMARK 290 CRYSTALLOGRAPHIC SYMMETRY REMARK 290 SYMMETRY OPERATORS FOR SPACE GROUP: P 31 REMARK 290 REMARK 290 SYMOP SYMMETRY REMARK 290 NNNMMM OPERATOR REMARK 290 1555 X,Y,Z REMARK 290 2555 -Y,X-Y,Z+1/3 REMARK 290 3555 -X+Y,-X,Z+2/3 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 -0.500000 -0.866025 0.000000 0.00000 REMARK 290 SMTRY2 2 0.866025 -0.500000 0.000000 0.00000 REMARK 290 SMTRY3 2 0.000000 0.000000 1.000000 13.93167 REMARK 290 SMTRY1 3 -0.500000 0.866025 0.000000 0.00000 REMARK 290 SMTRY2 3 -0.866025 -0.500000 0.000000 0.00000 REMARK 290 SMTRY3 3 0.000000 0.000000 1.000000 27.86333 REMARK 290 REMARK 290 REMARK: NULL REMARK 300 REMARK 300 BIOMOLECULE: 1, 2 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 350 REMARK 350 BIOMOLECULE: 2 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: B 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 465 GLY B -3 REMARK 465 SER B -2 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 HIS A -1 CG ND1 CD2 CE1 NE2 REMARK 470 HIS B -1 CG ND1 CD2 CE1 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 SER A 13 78.63 59.96 REMARK 500 ASP A 49 47.87 -89.65 REMARK 500 SER B 13 76.73 61.80 REMARK 500 ASP B 49 48.39 -91.67 REMARK 500 REMARK 500 REMARK: NULL 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 MG A 501 MG REMARK 620 N RES CSSEQI ATOM REMARK 620 1 ASP A 95 OD1 REMARK 620 2 ASP A 97 OD1 95.6 REMARK 620 3 APC A 503 O1A 91.9 171.4 REMARK 620 4 APC A 503 O1B 87.2 98.4 86.2 REMARK 620 5 HOH A 603 O 177.7 83.7 89.0 90.7 REMARK 620 6 HOH A 604 O 92.0 83.2 92.4 178.3 90.1 REMARK 620 N 1 2 3 4 5 REMARK 620 REMARK 620 COORDINATION ANGLES FOR: M RES CSSEQI METAL REMARK 620 MG A 502 MG REMARK 620 N RES CSSEQI ATOM REMARK 620 1 ASP A 95 OD2 REMARK 620 2 ASP A 97 OD2 100.4 REMARK 620 3 APC A 503 O1B 92.2 101.1 REMARK 620 4 APC A 503 O2G 170.8 88.7 85.7 REMARK 620 5 HOH A 601 O 90.2 84.3 173.6 91.1 REMARK 620 6 HOH A 602 O 88.0 160.4 96.2 83.4 78.0 REMARK 620 N 1 2 3 4 5 REMARK 620 REMARK 620 COORDINATION ANGLES FOR: M RES CSSEQI METAL REMARK 620 MG B 201 MG REMARK 620 N RES CSSEQI ATOM REMARK 620 1 ASP B 95 OD2 REMARK 620 2 ASP B 97 OD2 96.8 REMARK 620 3 APC B 203 O2G 172.3 89.8 REMARK 620 4 APC B 203 O1B 88.2 98.6 87.1 REMARK 620 5 HOH B 341 O 90.0 83.9 94.6 177.1 REMARK 620 6 HOH B 342 O 89.8 164.8 84.7 95.3 82.4 REMARK 620 N 1 2 3 4 5 REMARK 620 REMARK 620 COORDINATION ANGLES FOR: M RES CSSEQI METAL REMARK 620 MG B 202 MG REMARK 620 N RES CSSEQI ATOM REMARK 620 1 ASP B 95 OD1 REMARK 620 2 ASP B 97 OD1 95.2 REMARK 620 3 APC B 203 O1A 94.3 169.5 REMARK 620 4 APC B 203 O1B 87.4 98.7 86.1 REMARK 620 5 HOH B 309 O 92.1 82.9 92.4 178.4 REMARK 620 6 HOH B 373 O 177.7 83.5 87.2 90.9 89.6 REMARK 620 N 1 2 3 4 5 REMARK 800 REMARK 800 SITE REMARK 800 SITE_IDENTIFIER: AC1 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE MG A 501 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC2 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE MG A 502 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC3 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE APC A 503 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC4 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE YH7 A 504 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC5 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE MG B 201 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC6 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE MG B 202 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC7 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE APC B 203 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC8 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE YH7 B 204 REMARK 900 REMARK 900 RELATED ENTRIES REMARK 900 RELATED ID: 1Q0N RELATED DB: PDB REMARK 900 RELATED ID: 1HKA RELATED DB: PDB REMARK 900 RELATED ID: 1KBR RELATED DB: PDB REMARK 900 RELATED ID: 4M5G RELATED DB: PDB REMARK 900 RELATED ID: 4M5H RELATED DB: PDB REMARK 900 RELATED ID: 4M5I RELATED DB: PDB REMARK 900 RELATED ID: 4M5J RELATED DB: PDB REMARK 900 RELATED ID: 4M5K RELATED DB: PDB REMARK 900 RELATED ID: 4M5L RELATED DB: PDB REMARK 900 RELATED ID: 4M5M RELATED DB: PDB DBREF 4M5N A 0 158 UNP P26281 HPPK_ECOLI 1 159 DBREF 4M5N B 0 158 UNP P26281 HPPK_ECOLI 1 159 SEQADV 4M5N GLY A -3 UNP P26281 EXPRESSION TAG SEQADV 4M5N SER A -2 UNP P26281 EXPRESSION TAG SEQADV 4M5N HIS A -1 UNP P26281 EXPRESSION TAG SEQADV 4M5N GLY B -3 UNP P26281 EXPRESSION TAG SEQADV 4M5N SER B -2 UNP P26281 EXPRESSION TAG SEQADV 4M5N HIS B -1 UNP P26281 EXPRESSION TAG SEQRES 1 A 162 GLY SER HIS 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 SEQRES 1 B 162 GLY SER HIS MET THR VAL ALA TYR ILE ALA ILE GLY SER SEQRES 2 B 162 ASN LEU ALA SER PRO LEU GLU GLN VAL ASN ALA ALA LEU SEQRES 3 B 162 LYS ALA LEU GLY ASP ILE PRO GLU SER HIS ILE LEU THR SEQRES 4 B 162 VAL SER SER PHE TYR ARG THR PRO PRO LEU GLY PRO GLN SEQRES 5 B 162 ASP GLN PRO ASP TYR LEU ASN ALA ALA VAL ALA LEU GLU SEQRES 6 B 162 THR SER LEU ALA PRO GLU GLU LEU LEU ASN HIS THR GLN SEQRES 7 B 162 ARG ILE GLU LEU GLN GLN GLY ARG VAL ARG LYS ALA GLU SEQRES 8 B 162 ARG TRP GLY PRO ARG THR LEU ASP LEU ASP ILE MET LEU SEQRES 9 B 162 PHE GLY ASN GLU VAL ILE ASN THR GLU ARG LEU THR VAL SEQRES 10 B 162 PRO HIS TYR ASP MET LYS ASN ARG GLY PHE MET LEU TRP SEQRES 11 B 162 PRO LEU PHE GLU ILE ALA PRO GLU LEU VAL PHE PRO ASP SEQRES 12 B 162 GLY GLU MET LEU ARG GLN ILE LEU HIS THR ARG ALA PHE SEQRES 13 B 162 ASP LYS LEU ASN LYS TRP HET MG A 501 1 HET MG A 502 1 HET APC A 503 31 HET YH7 A 504 11 HET MG B 201 1 HET MG B 202 1 HET APC B 203 31 HET YH7 B 204 11 HETNAM MG MAGNESIUM ION HETNAM APC DIPHOSPHOMETHYLPHOSPHONIC ACID ADENOSYL ESTER HETNAM YH7 6-AMINO-1,9-DIHYDRO-2H-PURINE-2-THIONE HETSYN APC ALPHA,BETA-METHYLENEADENOSINE-5'-TRIPHOSPHATE FORMUL 3 MG 4(MG 2+) FORMUL 5 APC 2(C11 H18 N5 O12 P3) FORMUL 6 YH7 2(C5 H5 N5 S) FORMUL 11 HOH *279(H2 O) HELIX 1 1 SER A 13 ASP A 27 1 15 HELIX 2 2 ALA A 65 GLN A 80 1 16 HELIX 3 3 ASP A 117 ASN A 120 5 4 HELIX 4 4 ARG A 121 ALA A 132 1 12 HELIX 5 5 MET A 142 ARG A 150 1 9 HELIX 6 6 SER B 13 ASP B 27 1 15 HELIX 7 7 ALA B 65 GLN B 80 1 16 HELIX 8 8 ASP B 117 ASN B 120 5 4 HELIX 9 9 ARG B 121 ALA B 132 1 12 HELIX 10 10 MET B 142 ARG B 150 1 9 SHEET 1 A 4 SER A 31 VAL A 36 0 SHEET 2 A 4 TYR A 53 THR A 62 -1 O ALA A 59 N LEU A 34 SHEET 3 A 4 THR A 1 SER A 9 -1 N ALA A 3 O LEU A 60 SHEET 4 A 4 ASP A 95 PHE A 101 -1 O ASP A 97 N ALA A 6 SHEET 1 B 4 SER A 31 VAL A 36 0 SHEET 2 B 4 TYR A 53 THR A 62 -1 O ALA A 59 N LEU A 34 SHEET 3 B 4 TYR A 40 THR A 42 -1 N THR A 42 O TYR A 53 SHEET 4 B 4 ASN A 156 LYS A 157 -1 O ASN A 156 N ARG A 41 SHEET 1 C 2 ILE A 106 ASN A 107 0 SHEET 2 C 2 THR A 112 VAL A 113 -1 O VAL A 113 N ILE A 106 SHEET 1 D 4 SER B 31 VAL B 36 0 SHEET 2 D 4 TYR B 53 THR B 62 -1 O ALA B 59 N LEU B 34 SHEET 3 D 4 THR B 1 SER B 9 -1 N ALA B 3 O LEU B 60 SHEET 4 D 4 ASP B 95 PHE B 101 -1 O ASP B 97 N ALA B 6 SHEET 1 E 4 SER B 31 VAL B 36 0 SHEET 2 E 4 TYR B 53 THR B 62 -1 O ALA B 59 N LEU B 34 SHEET 3 E 4 TYR B 40 THR B 42 -1 N THR B 42 O TYR B 53 SHEET 4 E 4 ASN B 156 LYS B 157 -1 O ASN B 156 N ARG B 41 SHEET 1 F 2 ILE B 106 ASN B 107 0 SHEET 2 F 2 THR B 112 VAL B 113 -1 O VAL B 113 N ILE B 106 LINK OD1 ASP A 95 MG MG A 501 1555 1555 2.07 LINK OD2 ASP A 95 MG MG A 502 1555 1555 2.06 LINK OD1 ASP A 97 MG MG A 501 1555 1555 2.08 LINK OD2 ASP A 97 MG MG A 502 1555 1555 2.00 LINK MG MG A 501 O1A APC A 503 1555 1555 2.10 LINK MG MG A 501 O1B APC A 503 1555 1555 2.15 LINK MG MG A 501 O HOH A 603 1555 1555 2.12 LINK MG MG A 501 O HOH A 604 1555 1555 2.06 LINK MG MG A 502 O1B APC A 503 1555 1555 2.09 LINK MG MG A 502 O2G APC A 503 1555 1555 2.23 LINK MG MG A 502 O HOH A 601 1555 1555 2.09 LINK MG MG A 502 O HOH A 602 1555 1555 2.07 LINK OD2 ASP B 95 MG MG B 201 1555 1555 2.08 LINK OD1 ASP B 95 MG MG B 202 1555 1555 2.03 LINK OD2 ASP B 97 MG MG B 201 1555 1555 2.04 LINK OD1 ASP B 97 MG MG B 202 1555 1555 2.09 LINK MG MG B 201 O2G APC B 203 1555 1555 2.16 LINK MG MG B 201 O1B APC B 203 1555 1555 2.17 LINK MG MG B 201 O HOH B 341 1555 1555 2.09 LINK MG MG B 201 O HOH B 342 1555 1555 2.09 LINK MG MG B 202 O1A APC B 203 1555 1555 2.07 LINK MG MG B 202 O1B APC B 203 1555 1555 2.13 LINK MG MG B 202 O HOH B 309 1555 1555 2.09 LINK MG MG B 202 O HOH B 373 1555 1555 2.12 CISPEP 1 VAL A 113 PRO A 114 0 -2.66 CISPEP 2 VAL B 113 PRO B 114 0 -2.23 SITE 1 AC1 6 ASP A 95 ASP A 97 MG A 502 APC A 503 SITE 2 AC1 6 HOH A 603 HOH A 604 SITE 1 AC2 6 ASP A 95 ASP A 97 MG A 501 APC A 503 SITE 2 AC2 6 HOH A 601 HOH A 602 SITE 1 AC3 28 GLN A 74 ARG A 82 ARG A 88 ARG A 92 SITE 2 AC3 28 ASP A 95 ASP A 97 ILE A 98 ARG A 110 SITE 3 AC3 28 LEU A 111 THR A 112 HIS A 115 TYR A 116 SITE 4 AC3 28 ARG A 121 MG A 501 MG A 502 HOH A 601 SITE 5 AC3 28 HOH A 602 HOH A 603 HOH A 604 HOH A 605 SITE 6 AC3 28 HOH A 606 HOH A 608 HOH A 609 HOH A 610 SITE 7 AC3 28 HOH A 614 HOH A 688 HOH A 689 HOH A 740 SITE 1 AC4 11 THR A 42 PRO A 43 PRO A 44 LEU A 45 SITE 2 AC4 11 TYR A 53 ASN A 55 TRP A 89 ARG A 92 SITE 3 AC4 11 ASP A 95 PHE A 123 HOH A 615 SITE 1 AC5 6 ASP B 95 ASP B 97 MG B 202 APC B 203 SITE 2 AC5 6 HOH B 341 HOH B 342 SITE 1 AC6 6 ASP B 95 ASP B 97 MG B 201 APC B 203 SITE 2 AC6 6 HOH B 309 HOH B 373 SITE 1 AC7 24 GLN B 74 ARG B 82 ARG B 88 ARG B 92 SITE 2 AC7 24 ASP B 95 ASP B 97 ILE B 98 ARG B 110 SITE 3 AC7 24 LEU B 111 THR B 112 HIS B 115 TYR B 116 SITE 4 AC7 24 ARG B 121 MG B 201 MG B 202 HOH B 307 SITE 5 AC7 24 HOH B 308 HOH B 309 HOH B 310 HOH B 314 SITE 6 AC7 24 HOH B 342 HOH B 373 HOH B 374 HOH B 376 SITE 1 AC8 11 THR B 42 PRO B 43 PRO B 44 LEU B 45 SITE 2 AC8 11 TYR B 53 ASN B 55 TRP B 89 ARG B 92 SITE 3 AC8 11 ASP B 95 PHE B 123 HOH B 343 CRYST1 107.305 107.305 41.795 90.00 90.00 120.00 P 31 6 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 0.009319 0.005380 0.000000 0.00000 SCALE2 0.000000 0.010761 0.000000 0.00000 SCALE3 0.000000 0.000000 0.023926 0.00000