HEADER TRANSFERASE 10-DEC-03 1RU1 TITLE CRYSTAL STRUCTURE OF A TERNARY COMPLEX OF E. COLI HPPK(V83G/DEL84-89) TITLE 2 WITH MGAMPCPP AND 6-HYDROXYMETHYL-7,8-DIHYDROPTERIN AT 1.40 ANGSTROM TITLE 3 RESOLUTION (MONOCLINIC FORM) COMPND MOL_ID: 1; COMPND 2 MOLECULE: 2-AMINO-4-HYDROXY-6-HYDROXYMETHYLDIHYDROPTERIDINE COMPND 3 PYROPHOSPHOKINASE; COMPND 4 CHAIN: A, B; COMPND 5 SYNONYM: 7,8-DIHYDRO-6-HYDROXYMETHYLPTERIN-PYROPHOSPHOKINASE, HPPK, COMPND 6 6-HYDROXYMETHYL-7,8-DIHYDROPTERIN PYROPHOSPHOKINASE, PPPK; COMPND 7 EC: 2.7.6.3; COMPND 8 ENGINEERED: YES; COMPND 9 MUTATION: YES SOURCE MOL_ID: 1; SOURCE 2 ORGANISM_SCIENTIFIC: ESCHERICHIA COLI; SOURCE 3 ORGANISM_TAXID: 562; SOURCE 4 GENE: FOLK, B0142; SOURCE 5 EXPRESSION_SYSTEM: ESCHERICHIA COLI BL21(DE3); SOURCE 6 EXPRESSION_SYSTEM_TAXID: 469008; SOURCE 7 EXPRESSION_SYSTEM_STRAIN: BL21(DE3); SOURCE 8 EXPRESSION_SYSTEM_VECTOR_TYPE: PLASMID; SOURCE 9 EXPRESSION_SYSTEM_PLASMID: PET17B KEYWDS PYROPHOSPHOKINASE, PYROPHOSPHORYL TRANSFER, FOLATE, HPPK, PTERIN, 6- KEYWDS 2 HYDROXYMETHYL-7, 8-DIHYDROPTERIN, ANTIMICROBIAL AGENT, DRUG DESIGN, KEYWDS 3 DELETION MUTANT, TRANSFERASE EXPDTA X-RAY DIFFRACTION AUTHOR J.BLASZCZYK,X.JI REVDAT 5 30-AUG-23 1RU1 1 AUTHOR JRNL REVDAT 4 23-AUG-23 1RU1 1 REMARK REVDAT 3 27-OCT-21 1RU1 1 REMARK SEQADV LINK REVDAT 2 24-FEB-09 1RU1 1 VERSN REVDAT 1 24-FEB-04 1RU1 0 JRNL AUTH J.BLASZCZYK,Y.LI,Y.WU,G.SHI,X.JI,H.YAN JRNL TITL ESSENTIAL ROLES OF A DYNAMIC LOOP IN THE CATALYSIS OF JRNL TITL 2 6-HYDROXYMETHYL-7,8-DIHYDROPTERIN PYROPHOSPHOKINASE. JRNL REF BIOCHEMISTRY V. 43 1469 2004 JRNL REFN ISSN 0006-2960 JRNL PMID 14769023 JRNL DOI 10.1021/BI036053L REMARK 1 REMARK 1 REFERENCE 1 REMARK 1 AUTH B.XIAO,G.SHI,X.CHEN,H.YAN,X.JI REMARK 1 TITL CRYSTAL STRUCTURE OF 6-HYDROXYMETHYL-7,8-DIHYDROPTERIN REMARK 1 TITL 2 PYROPHOSPHOKINASE, A POTENTIAL TARGET FOR THE DEVELOPMENT OF REMARK 1 TITL 3 NOVEL ANTIMICROBIAL AGENTS REMARK 1 REF STRUCTURE V. 7 489 1999 REMARK 1 REFN ISSN 0969-2126 REMARK 1 DOI 10.1016/S0969-2126(99)80065-3 REMARK 1 REFERENCE 2 REMARK 1 AUTH J.BLASZCZYK,G.SHI,H.YAN,X.JI REMARK 1 TITL CATALYTIC CENTER ASSEMBLY OF HPPK AS REVEALED BY THE CRYSTAL REMARK 1 TITL 2 STRUCTURE OF A TERNARY COMPLEX AT 1.25 A RESOLUTION REMARK 1 REF STRUCTURE V. 8 1049 2000 REMARK 1 REFN ISSN 0969-2126 REMARK 1 DOI 10.1016/S0969-2126(00)00502-5 REMARK 1 REFERENCE 3 REMARK 1 AUTH G.SHI,J.BLASZCZYK,X.JI,H.YAN REMARK 1 TITL BISUBSTRATE ANALOGUE INHIBITORS OF REMARK 1 TITL 2 6-HYDROXYMETHYL-7,8-DIHYDROPTERIN PYROPHOSPHOKINASE: REMARK 1 TITL 3 SYNTHESIS AND BIOCHEMICAL AND CRYSTALLOGRAPHIC STUDIES REMARK 1 REF J.MED.CHEM. V. 44 1364 2001 REMARK 1 REFN ISSN 0022-2623 REMARK 1 DOI 10.1021/JM0004493 REMARK 2 REMARK 2 RESOLUTION. 1.40 ANGSTROMS. REMARK 3 REMARK 3 REFINEMENT. REMARK 3 PROGRAM : SHELXL-97 REMARK 3 AUTHORS : G.M.SHELDRICK REMARK 3 REMARK 3 DATA USED IN REFINEMENT. REMARK 3 RESOLUTION RANGE HIGH (ANGSTROMS) : 1.40 REMARK 3 RESOLUTION RANGE LOW (ANGSTROMS) : 30.00 REMARK 3 DATA CUTOFF (SIGMA(F)) : 4.000 REMARK 3 COMPLETENESS FOR RANGE (%) : 89.4 REMARK 3 CROSS-VALIDATION METHOD : FREE R REMARK 3 FREE R VALUE TEST SET SELECTION : RANDOM REMARK 3 REMARK 3 FIT TO DATA USED IN REFINEMENT (NO CUTOFF). REMARK 3 R VALUE (WORKING + TEST SET, NO CUTOFF) : 0.150 REMARK 3 R VALUE (WORKING SET, NO CUTOFF) : 0.150 REMARK 3 FREE R VALUE (NO CUTOFF) : 0.198 REMARK 3 FREE R VALUE TEST SET SIZE (%, NO CUTOFF) : 5.283 REMARK 3 FREE R VALUE TEST SET COUNT (NO CUTOFF) : 2421 REMARK 3 TOTAL NUMBER OF REFLECTIONS (NO CUTOFF) : 45829 REMARK 3 REMARK 3 FIT/AGREEMENT OF MODEL FOR DATA WITH F>4SIG(F). REMARK 3 R VALUE (WORKING + TEST SET, F>4SIG(F)) : NULL REMARK 3 R VALUE (WORKING SET, F>4SIG(F)) : 0.130 REMARK 3 FREE R VALUE (F>4SIG(F)) : 0.178 REMARK 3 FREE R VALUE TEST SET SIZE (%, F>4SIG(F)) : 5.296 REMARK 3 FREE R VALUE TEST SET COUNT (F>4SIG(F)) : 1960 REMARK 3 TOTAL NUMBER OF REFLECTIONS (F>4SIG(F)) : 37009 REMARK 3 REMARK 3 NUMBER OF NON-HYDROGEN ATOMS USED IN REFINEMENT. REMARK 3 PROTEIN ATOMS : 2350 REMARK 3 NUCLEIC ACID ATOMS : 0 REMARK 3 HETEROGEN ATOMS : 95 REMARK 3 SOLVENT ATOMS : 479 REMARK 3 REMARK 3 MODEL REFINEMENT. REMARK 3 OCCUPANCY SUM OF NON-HYDROGEN ATOMS : 2933.0 REMARK 3 OCCUPANCY SUM OF HYDROGEN ATOMS : 2251.0 REMARK 3 NUMBER OF DISCRETELY DISORDERED RESIDUES : 10 REMARK 3 NUMBER OF LEAST-SQUARES PARAMETERS : 24233 REMARK 3 NUMBER OF RESTRAINTS : 31468 REMARK 3 REMARK 3 RMS DEVIATIONS FROM RESTRAINT TARGET VALUES. REMARK 3 BOND LENGTHS (A) : 0.010 REMARK 3 ANGLE DISTANCES (A) : 0.030 REMARK 3 SIMILAR DISTANCES (NO TARGET VALUES) (A) : 0.000 REMARK 3 DISTANCES FROM RESTRAINT PLANES (A) : 0.028 REMARK 3 ZERO CHIRAL VOLUMES (A**3) : 0.053 REMARK 3 NON-ZERO CHIRAL VOLUMES (A**3) : 0.058 REMARK 3 ANTI-BUMPING DISTANCE RESTRAINTS (A) : 0.170 REMARK 3 RIGID-BOND ADP COMPONENTS (A**2) : 0.003 REMARK 3 SIMILAR ADP COMPONENTS (A**2) : 0.058 REMARK 3 APPROXIMATELY ISOTROPIC ADPS (A**2) : 0.071 REMARK 3 REMARK 3 BULK SOLVENT MODELING. REMARK 3 METHOD USED: MOEWS & KRETSINGER, J.MOL.BIOL. 91 (1975) 201-228 REMARK 3 REMARK 3 STEREOCHEMISTRY TARGET VALUES : ENGH & HUBER REMARK 3 SPECIAL CASE: NULL REMARK 3 REMARK 3 OTHER REFINEMENT REMARKS: FULL MATRIX LEAST-SQUARES PROCEDURE, REMARK 3 WITH BLOCK OF PARAMETERS SET FOR EACH CYCLE OF ANISOTROPIC REMARK 3 REFINEMENT REMARK 4 REMARK 4 1RU1 COMPLIES WITH FORMAT V. 3.30, 13-JUL-11 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY RCSB ON 22-DEC-03. REMARK 100 THE DEPOSITION ID IS D_1000021036. REMARK 200 REMARK 200 EXPERIMENTAL DETAILS REMARK 200 EXPERIMENT TYPE : X-RAY DIFFRACTION REMARK 200 DATE OF DATA COLLECTION : 01-OCT-00 REMARK 200 TEMPERATURE (KELVIN) : 100 REMARK 200 PH : 4.6 REMARK 200 NUMBER OF CRYSTALS USED : 1 REMARK 200 REMARK 200 SYNCHROTRON (Y/N) : Y REMARK 200 RADIATION SOURCE : NSLS REMARK 200 BEAMLINE : X9B REMARK 200 X-RAY GENERATOR MODEL : NULL REMARK 200 MONOCHROMATIC OR LAUE (M/L) : M REMARK 200 WAVELENGTH OR RANGE (A) : 0.97793 REMARK 200 MONOCHROMATOR : SILICON 111 REMARK 200 OPTICS : MIRROR REMARK 200 REMARK 200 DETECTOR TYPE : CCD REMARK 200 DETECTOR MANUFACTURER : ADSC QUANTUM 4 REMARK 200 INTENSITY-INTEGRATION SOFTWARE : DENZO REMARK 200 DATA SCALING SOFTWARE : SCALEPACK REMARK 200 REMARK 200 NUMBER OF UNIQUE REFLECTIONS : 49585 REMARK 200 RESOLUTION RANGE HIGH (A) : 1.400 REMARK 200 RESOLUTION RANGE LOW (A) : 30.000 REMARK 200 REJECTION CRITERIA (SIGMA(I)) : 0.000 REMARK 200 REMARK 200 OVERALL. REMARK 200 COMPLETENESS FOR RANGE (%) : 93.9 REMARK 200 DATA REDUNDANCY : 2.683 REMARK 200 R MERGE (I) : 0.06100 REMARK 200 R SYM (I) : NULL REMARK 200 <I/SIGMA(I)> FOR THE DATA SET : 13.9738 REMARK 200 REMARK 200 IN THE HIGHEST RESOLUTION SHELL. REMARK 200 HIGHEST RESOLUTION SHELL, RANGE HIGH (A) : 1.40 REMARK 200 HIGHEST RESOLUTION SHELL, RANGE LOW (A) : 1.45 REMARK 200 COMPLETENESS FOR SHELL (%) : 89.0 REMARK 200 DATA REDUNDANCY IN SHELL : 2.52 REMARK 200 R MERGE FOR SHELL (I) : 0.54100 REMARK 200 R SYM FOR SHELL (I) : NULL REMARK 200 <I/SIGMA(I)> FOR SHELL : 1.936 REMARK 200 REMARK 200 DIFFRACTION PROTOCOL: SINGLE WAVELENGTH REMARK 200 METHOD USED TO DETERMINE THE STRUCTURE: MOLECULAR REPLACEMENT REMARK 200 SOFTWARE USED: AMORE REMARK 200 STARTING MODEL: PDB ID 1Q0N REMARK 200 REMARK 200 REMARK: NULL REMARK 280 REMARK 280 CRYSTAL REMARK 280 SOLVENT CONTENT, VS (%): 36.46 REMARK 280 MATTHEWS COEFFICIENT, VM (ANGSTROMS**3/DA): 1.94 REMARK 280 REMARK 280 CRYSTALLIZATION CONDITIONS: PEG4000, MAGNESIUM CHLORIDE, ACETATE, REMARK 280 GLYCEROL, PH 4.6, VAPOR DIFFUSION, HANGING DROP, TEMPERATURE REMARK 280 292.0K 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 34.37600 REMARK 290 SMTRY3 2 0.000000 0.000000 -1.000000 0.00000 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 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 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 LEU A 45 REMARK 465 GLY A 46 REMARK 465 PRO A 47 REMARK 465 GLN A 48 REMARK 465 ASP A 49 REMARK 465 GLN A 50 REMARK 465 GLY A 89 REMARK 465 GLY A 90 REMARK 465 PRO A 91 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 HIS A 72 CG - ND1 - CE1 ANGL. DEV. = 6.2 DEGREES REMARK 500 ARG A 75 NH1 - CZ - NH2 ANGL. DEV. = -7.0 DEGREES REMARK 500 ARG A 75 NE - CZ - NH2 ANGL. DEV. = 8.8 DEGREES REMARK 500 ARG A 82 NE - CZ - NH2 ANGL. DEV. = 3.6 DEGREES REMARK 500 ARG A 92 NE - CZ - NH2 ANGL. DEV. = 3.6 DEGREES REMARK 500 ARG A 110 NE - CZ - NH1 ANGL. DEV. = 3.6 DEGREES REMARK 500 ARG B 241 NE - CZ - NH1 ANGL. DEV. = 3.0 DEGREES REMARK 500 ARG B 275 NH1 - CZ - NH2 ANGL. DEV. = -7.0 DEGREES REMARK 500 ARG B 275 NE - CZ - NH1 ANGL. DEV. = -5.2 DEGREES REMARK 500 ARG B 275 NE - CZ - NH2 ANGL. DEV. = 12.2 DEGREES REMARK 500 ARG B 282 NE - CZ - NH2 ANGL. DEV. = 3.9 DEGREES REMARK 500 ARG B 292 NE - CZ - NH1 ANGL. DEV. = 4.2 DEGREES REMARK 500 ARG B 344 NE - CZ - NH1 ANGL. DEV. = 3.1 DEGREES REMARK 500 ARG B 344 NE - CZ - NH1 ANGL. DEV. = 3.2 DEGREES REMARK 500 ARG B 344 NE - CZ - NH2 ANGL. DEV. = -5.0 DEGREES REMARK 500 ARG B 344 NE - CZ - NH2 ANGL. DEV. = -5.0 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 THR A 93 170.90 177.38 REMARK 500 ARG B 282 -120.97 -127.73 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 161 MG REMARK 620 N RES CSSEQI ATOM REMARK 620 1 ASP A 95 OD1 REMARK 620 2 ASP A 95 OD2 45.2 REMARK 620 3 ASP A 97 OD1 91.2 65.7 REMARK 620 4 APC A 171 O1B 91.9 61.7 98.5 REMARK 620 5 APC A 171 O1A 94.1 125.3 167.6 92.5 REMARK 620 6 HOH A 413 O 87.8 118.7 82.7 178.8 86.3 REMARK 620 7 HOH A 423 O 174.6 135.1 84.9 92.4 89.0 88.0 REMARK 620 N 1 2 3 4 5 6 REMARK 620 REMARK 620 COORDINATION ANGLES FOR: M RES CSSEQI METAL REMARK 620 MG A 162 MG REMARK 620 N RES CSSEQI ATOM REMARK 620 1 ASP A 95 OD2 REMARK 620 2 ASP A 97 OD2 88.1 REMARK 620 3 APC A 171 O3G 174.7 93.5 REMARK 620 4 APC A 171 O1B 86.6 101.2 88.1 REMARK 620 5 PH2 A 181 O4 88.2 167.3 91.3 90.6 REMARK 620 6 HOH A 403 O 91.9 83.3 93.4 175.1 84.7 REMARK 620 N 1 2 3 4 5 REMARK 620 REMARK 620 COORDINATION ANGLES FOR: M RES CSSEQI METAL REMARK 620 MG B 361 MG REMARK 620 N RES CSSEQI ATOM REMARK 620 1 ASP B 295 OD1 REMARK 620 2 ASP B 297 OD1 89.2 REMARK 620 3 APC B 371 O1B 90.7 99.1 REMARK 620 4 APC B 371 O1A 94.0 169.0 91.5 REMARK 620 5 HOH B 426 O 176.5 89.3 92.7 87.0 REMARK 620 6 HOH B 668 O 87.1 84.3 175.9 85.3 89.6 REMARK 620 N 1 2 3 4 5 REMARK 620 REMARK 620 COORDINATION ANGLES FOR: M RES CSSEQI METAL REMARK 620 MG B 362 MG REMARK 620 N RES CSSEQI ATOM REMARK 620 1 ASP B 295 OD2 REMARK 620 2 ASP B 297 OD2 90.5 REMARK 620 3 APC B 371 O3G 175.5 92.7 REMARK 620 4 APC B 371 O1B 87.7 98.9 88.7 REMARK 620 5 PH2 B 381 O4 85.2 171.7 92.0 88.0 REMARK 620 6 HOH B 401 O 91.5 91.3 91.6 169.8 81.8 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 161 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC2 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE MG A 162 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC3 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE CL A 163 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC4 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE MG B 361 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC5 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE MG B 362 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC6 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE APC A 171 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC7 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE PH2 A 181 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC8 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE APC B 371 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC9 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE PH2 B 381 REMARK 900 REMARK 900 RELATED ENTRIES REMARK 900 RELATED ID: 1HKA RELATED DB: PDB REMARK 900 1HKA IS THE CRYSTAL STRUCTURE OF APO-HPPK FROM E.COLI. REMARK 900 RELATED ID: 1EQM RELATED DB: PDB REMARK 900 1EQM IS THE CRYSTAL STRUCTURE OF BINARY COMPLEX OF HPPK FROM E.COLI REMARK 900 WITH MGADP. REMARK 900 RELATED ID: 1EQ0 RELATED DB: PDB REMARK 900 1EQ0 IS THE SOLUTION STRUCTURE OF BINARY COMPLEX OF HPPK FROM REMARK 900 E.COLI WITH MGAMPPCP. REMARK 900 RELATED ID: 1Q0N RELATED DB: PDB REMARK 900 1Q0N IS THE CRYSTAL STRUCTURE OF TERNARY COMPLEX OF HPPK FROM REMARK 900 E.COLI WITH MGAMPCPP AND 6-HYDROXYMETHYL-7,8-DIHYDROPTERIN. REMARK 900 RELATED ID: 1EX8 RELATED DB: PDB REMARK 900 1EX8 IS THE CRYSTAL STRUCTURE OF HPPK FROM E.COLI COMPLEXED WITH REMARK 900 HP4A, A TWO-SUBSTRATE-MIMICKING INHIBITOR. REMARK 900 RELATED ID: 1CBK RELATED DB: PDB REMARK 900 1CBK IS THE CRYSTAL STRUCTURE OF BINARY COMPLEX OF HPPK FROM REMARK 900 H.INFLUENZAE WITH A 6-HYDROXYMETHYL-7,8-DIHYDROPTERIN ANALOG. REMARK 900 RELATED ID: 1DY3 RELATED DB: PDB REMARK 900 1DY3 IS THE CRYSTAL STRUCTURE OF TERNARY COMPLEX OF HPPK FROM REMARK 900 E.COLI WITH MGATP AND A 6-HYDROXYMETHYL-7,8-DIHYDROPTERIN ANALOG. REMARK 900 RELATED ID: 1F9Y RELATED DB: PDB REMARK 900 1F9Y IS THE CRYSTAL STRUCTURE OF TERNARY COMPLEX OF HP FROM E.COLI REMARK 900 WITH MGAMPCPP AND 6-HYDROXYMETHYL-7,8-PKDIHYDROPTERIN ANALOGS. REMARK 900 RELATED ID: 1F9H RELATED DB: PDB REMARK 900 1F9H IS THE CRYSTAL STRUCTURE OF TERNARY COMPLEX OF HPPK(R92A) FROM REMARK 900 E.COLI WITH MGAMPCPP AND 6-HYDROXYMETHYL-7,8-DIHYDROPTERIN. REMARK 900 RELATED ID: 1G4C RELATED DB: PDB REMARK 900 1G4C IS THE CRYSTAL STRUCTURE OF A COMPLEX OF HPPK(R92A) FROM REMARK 900 E.COLI WITH MG2+. REMARK 900 RELATED ID: 1HQ2 RELATED DB: PDB REMARK 900 1HQ2 IS THE CRYSTAL STRUCTURE OF TERNARY COMPLEX OF HPPK(R82A) FROM REMARK 900 E.COLI WITH MGAMPCPP AND 6-HYDROXYMETHYL-7,8-DIHYDROPTERIN. REMARK 900 RELATED ID: 1HQ9 RELATED DB: PDB REMARK 900 1HQ9 IS THE CRYSTAL STRUCTURE OF TERNARY COMPLEX OF HPPK FROM REMARK 900 E.COLI WITH AMP AND 6-HYDROXYMETHYLPTERIN-DIPHOSPHATE. REMARK 900 RELATED ID: 1IM6 RELATED DB: PDB REMARK 900 1IM6 IS THE CRYSTAL STRUCTURE OF APO-HPPK(R82A) FROM E.COLI. REMARK 900 RELATED ID: 1KBR RELATED DB: PDB REMARK 900 1KBR IS THE CRYSTAL STRUCTURE OF APO-HPPK(R92A) FROM E.COLI. REMARK 900 RELATED ID: 1RAO RELATED DB: PDB REMARK 900 1RAO IS THE CRYSTAL STRUCTURE OF TERNARY COMPLEX OF HPPK FROM REMARK 900 E.COLI WITH AMP AND 6-HYDROXYMETHYLPTERIN-DIPHOSPHATE. REMARK 900 RELATED ID: 1RB0 RELATED DB: PDB REMARK 900 1RB0 IS THE CRYSTAL STRUCTURE OF BINARY COMPLEX OF HPPK FROM E.COLI REMARK 900 WITH 6-HYDROXYMETHYLPTERIN-DIPHOSPHATE. REMARK 900 RELATED ID: 1RTZ RELATED DB: PDB REMARK 900 1RTZ IS THE CRYSTAL STRUCTURE OF APO-HPPK(V83G/DEL84-89) DELETION REMARK 900 MUTANT FROM E.COLI. REMARK 900 RELATED ID: 1RU2 RELATED DB: PDB REMARK 900 CRYSTAL STRUCTURE OF A TERNARY COMPLEX OF E.COLI HPPK(V83G/DEL84-89) REMARK 900 WITH MGAMPCPP AND 6-HYDROXYMETHYLPTERIN AT 1.48 ANGSTROM REMARK 900 RESOLUTION (ORTHORHOMBIC FORM) DBREF 1RU1 A 1 158 UNP P26281 HPPK_ECOLI 1 158 DBREF 1RU1 B 201 358 UNP P26281 HPPK_ECOLI 1 158 SEQADV 1RU1 GLY A 89 UNP P26281 VAL 83 ENGINEERED MUTATION SEQADV 1RU1 A UNP P26281 ARG 84 DELETION SEQADV 1RU1 A UNP P26281 LYS 85 DELETION SEQADV 1RU1 A UNP P26281 ALA 86 DELETION SEQADV 1RU1 A UNP P26281 GLU 87 DELETION SEQADV 1RU1 A UNP P26281 ARG 88 DELETION SEQADV 1RU1 A UNP P26281 TRP 89 DELETION SEQADV 1RU1 GLY B 283 UNP P26281 VAL 83 ENGINEERED MUTATION SEQADV 1RU1 A UNP P26281 ARG 84 DELETION SEQADV 1RU1 A UNP P26281 LYS 85 DELETION SEQADV 1RU1 A UNP P26281 ALA 86 DELETION SEQADV 1RU1 A UNP P26281 GLU 87 DELETION SEQADV 1RU1 A UNP P26281 ARG 88 DELETION SEQADV 1RU1 A UNP P26281 TRP 89 DELETION SEQRES 1 A 152 THR VAL ALA TYR ILE ALA ILE GLY SER ASN LEU ALA SER SEQRES 2 A 152 PRO LEU GLU GLN VAL ASN ALA ALA LEU LYS ALA LEU GLY SEQRES 3 A 152 ASP ILE PRO GLU SER HIS ILE LEU THR VAL SER SER PHE SEQRES 4 A 152 TYR ARG THR PRO PRO LEU GLY PRO GLN ASP GLN PRO ASP SEQRES 5 A 152 TYR LEU ASN ALA ALA VAL ALA LEU GLU THR SER LEU ALA SEQRES 6 A 152 PRO GLU GLU LEU LEU ASN HIS THR GLN ARG ILE GLU LEU SEQRES 7 A 152 GLN GLN GLY ARG GLY GLY PRO ARG THR LEU ASP LEU ASP SEQRES 8 A 152 ILE MET LEU PHE GLY ASN GLU VAL ILE ASN THR GLU ARG SEQRES 9 A 152 LEU THR VAL PRO HIS TYR ASP MET LYS ASN ARG GLY PHE SEQRES 10 A 152 MET LEU TRP PRO LEU PHE GLU ILE ALA PRO GLU LEU VAL SEQRES 11 A 152 PHE PRO ASP GLY GLU MET LEU ARG GLN ILE LEU HIS THR SEQRES 12 A 152 ARG ALA PHE ASP LYS LEU ASN LYS TRP SEQRES 1 B 152 THR VAL ALA TYR ILE ALA ILE GLY SER ASN LEU ALA SER SEQRES 2 B 152 PRO LEU GLU GLN VAL ASN ALA ALA LEU LYS ALA LEU GLY SEQRES 3 B 152 ASP ILE PRO GLU SER HIS ILE LEU THR VAL SER SER PHE SEQRES 4 B 152 TYR ARG THR PRO PRO LEU GLY PRO GLN ASP GLN PRO ASP SEQRES 5 B 152 TYR LEU ASN ALA ALA VAL ALA LEU GLU THR SER LEU ALA SEQRES 6 B 152 PRO GLU GLU LEU LEU ASN HIS THR GLN ARG ILE GLU LEU SEQRES 7 B 152 GLN GLN GLY ARG GLY GLY PRO ARG THR LEU ASP LEU ASP SEQRES 8 B 152 ILE MET LEU PHE GLY ASN GLU VAL ILE ASN THR GLU ARG SEQRES 9 B 152 LEU THR VAL PRO HIS TYR ASP MET LYS ASN ARG GLY PHE SEQRES 10 B 152 MET LEU TRP PRO LEU PHE GLU ILE ALA PRO GLU LEU VAL SEQRES 11 B 152 PHE PRO ASP GLY GLU MET LEU ARG GLN ILE LEU HIS THR SEQRES 12 B 152 ARG ALA PHE ASP LYS LEU ASN LYS TRP HET MG A 161 1 HET MG A 162 1 HET CL A 163 1 HET APC A 171 31 HET PH2 A 181 14 HET MG B 361 1 HET MG B 362 1 HET APC B 371 31 HET PH2 B 381 14 HETNAM MG MAGNESIUM ION HETNAM CL CHLORIDE ION HETNAM APC DIPHOSPHOMETHYLPHOSPHONIC ACID ADENOSYL ESTER HETNAM PH2 2-AMINO-6-HYDROXYMETHYL-7,8-DIHYDRO-3H-PTERIDIN-4-ONE HETSYN APC ALPHA,BETA-METHYLENEADENOSINE-5'-TRIPHOSPHATE FORMUL 3 MG 4(MG 2+) FORMUL 5 CL CL 1- FORMUL 6 APC 2(C11 H18 N5 O12 P3) FORMUL 7 PH2 2(C7 H9 N5 O2) FORMUL 12 HOH *479(H2 O) HELIX 1 1 PRO A 14 ASP A 27 1 14 HELIX 2 2 ALA A 65 GLY A 81 1 17 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 ALA A 151 1 10 HELIX 6 6 SER B 213 ILE B 228 1 16 HELIX 7 7 ALA B 265 GLY B 281 1 17 HELIX 8 8 ASP B 317 ASN B 320 5 4 HELIX 9 9 ARG B 321 ALA B 332 1 12 HELIX 10 10 MET B 342 ALA B 351 1 10 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 THR A 35 SHEET 3 A 4 VAL A 2 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 THR A 35 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 231 VAL B 236 0 SHEET 2 D 4 TYR B 253 THR B 262 -1 O GLU B 261 N HIS B 232 SHEET 3 D 4 VAL B 202 SER B 209 -1 N ALA B 203 O LEU B 260 SHEET 4 D 4 ASP B 295 PHE B 301 -1 O ASP B 297 N ALA B 206 SHEET 1 E 4 SER B 231 VAL B 236 0 SHEET 2 E 4 TYR B 253 THR B 262 -1 O GLU B 261 N HIS B 232 SHEET 3 E 4 TYR B 240 THR B 242 -1 N THR B 242 O TYR B 253 SHEET 4 E 4 ASN B 356 LYS B 357 -1 O ASN B 356 N ARG B 241 SHEET 1 F 2 ILE B 306 ASN B 307 0 SHEET 2 F 2 THR B 312 VAL B 313 -1 O VAL B 313 N ILE B 306 LINK OD1 ASP A 95 MG MG A 161 1555 1555 1.96 LINK OD2 ASP A 95 MG MG A 161 1555 1555 3.13 LINK OD2 ASP A 95 MG MG A 162 1555 1555 2.00 LINK OD1 ASP A 97 MG MG A 161 1555 1555 2.12 LINK OD2 ASP A 97 MG MG A 162 1555 1555 2.05 LINK MG MG A 161 O1B APC A 171 1555 1555 2.07 LINK MG MG A 161 O1A APC A 171 1555 1555 2.05 LINK MG MG A 161 O HOH A 413 1555 1555 2.07 LINK MG MG A 161 O HOH A 423 1555 1555 2.14 LINK MG MG A 162 O3G APC A 171 1555 1555 2.06 LINK MG MG A 162 O1B APC A 171 1555 1555 2.11 LINK MG MG A 162 O4 PH2 A 181 1555 1555 2.12 LINK MG MG A 162 O HOH A 403 1555 1555 2.10 LINK OD1 ASP B 295 MG MG B 361 1555 1555 2.12 LINK OD2 ASP B 295 MG MG B 362 1555 1555 2.09 LINK OD1 ASP B 297 MG MG B 361 1555 1555 2.07 LINK OD2 ASP B 297 MG MG B 362 1555 1555 1.98 LINK MG MG B 361 O1B APC B 371 1555 1555 2.08 LINK MG MG B 361 O1A APC B 371 1555 1555 2.13 LINK MG MG B 361 O HOH B 426 1555 1555 2.13 LINK MG MG B 361 O HOH B 668 1555 1555 2.10 LINK MG MG B 362 O3G APC B 371 1555 1555 2.04 LINK MG MG B 362 O1B APC B 371 1555 1555 2.16 LINK MG MG B 362 O4 PH2 B 381 1555 1555 2.14 LINK MG MG B 362 O HOH B 401 1555 1555 2.09 CISPEP 1 VAL A 113 PRO A 114 0 -2.38 CISPEP 2 VAL B 313 PRO B 314 0 -8.03 SITE 1 AC1 6 ASP A 95 ASP A 97 MG A 162 APC A 171 SITE 2 AC1 6 HOH A 413 HOH A 423 SITE 1 AC2 6 ASP A 95 ASP A 97 MG A 161 APC A 171 SITE 2 AC2 6 PH2 A 181 HOH A 403 SITE 1 AC3 4 LYS A 119 PHE A 137 PRO A 138 ASP A 139 SITE 1 AC4 6 ASP B 295 ASP B 297 MG B 362 APC B 371 SITE 2 AC4 6 HOH B 426 HOH B 668 SITE 1 AC5 6 ASP B 295 ASP B 297 MG B 361 APC B 371 SITE 2 AC5 6 PH2 B 381 HOH B 401 SITE 1 AC6 26 GLN A 74 ASP A 95 ASP A 97 ILE A 98 SITE 2 AC6 26 ARG A 110 LEU A 111 THR A 112 VAL A 113 SITE 3 AC6 26 HIS A 115 TYR A 116 ARG A 121 MG A 161 SITE 4 AC6 26 MG A 162 PH2 A 181 HOH A 403 HOH A 413 SITE 5 AC6 26 HOH A 423 HOH A 442 HOH A 473 HOH A 539 SITE 6 AC6 26 HOH A 540 HOH A 651 HOH A 681 HOH A 682 SITE 7 AC6 26 HOH A 798 HOH A 818 SITE 1 AC7 13 THR A 42 PRO A 43 TYR A 53 ASN A 55 SITE 2 AC7 13 ASP A 95 PHE A 123 MG A 162 APC A 171 SITE 3 AC7 13 HOH A 403 HOH A 640 HOH A 708 HOH A 713 SITE 4 AC7 13 HOH A 818 SITE 1 AC8 27 LEU B 270 ASP B 295 ASP B 297 ILE B 298 SITE 2 AC8 27 ARG B 310 LEU B 311 THR B 312 HIS B 315 SITE 3 AC8 27 TYR B 316 ARG B 321 HIS B 348 MG B 361 SITE 4 AC8 27 MG B 362 PH2 B 381 HOH B 401 HOH B 415 SITE 5 AC8 27 HOH B 420 HOH B 425 HOH B 426 HOH B 427 SITE 6 AC8 27 HOH B 514 HOH B 515 HOH B 524 HOH B 530 SITE 7 AC8 27 HOH B 668 HOH B 688 HOH B 772 SITE 1 AC9 13 THR B 242 PRO B 243 LEU B 245 TYR B 253 SITE 2 AC9 13 ASN B 255 ASP B 295 PHE B 323 MG B 362 SITE 3 AC9 13 APC B 371 HOH B 401 HOH B 446 HOH B 461 SITE 4 AC9 13 HOH B 588 CRYST1 52.797 68.752 36.491 90.00 90.50 90.00 P 1 21 1 4 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 0.018940 0.000000 0.000165 0.00000 SCALE2 0.000000 0.014545 0.000000 0.00000 SCALE3 0.000000 0.000000 0.027405 0.00000