HEADER TRANSFERASE 10-JUL-00 1F9H TITLE CRYSTAL STRUCTURE OF THE TERNARY COMPLEX OF E. COLI HPPK(R92A) WITH TITLE 2 MGAMPCPP AND 6-HYDROXYMETHYL-7,8-DIHYDROPTERIN AT 1.50 ANGSTROM TITLE 3 RESOLUTION COMPND MOL_ID: 1; COMPND 2 MOLECULE: 6-HYDROXYMETHYL-7,8-DIHYDROPTERIN PYROPHOSPHOKINASE; COMPND 3 CHAIN: A; COMPND 4 SYNONYM: 2-AMINO-4-HYDROXY-6-HYDROXYMETHYLDIHYDROPTERIDINE COMPND 5 PYROPHOSPHOKINASE, HPPK; COMPND 6 EC: 2.7.6.3; COMPND 7 ENGINEERED: YES; COMPND 8 MUTATION: YES SOURCE MOL_ID: 1; SOURCE 2 ORGANISM_SCIENTIFIC: ESCHERICHIA COLI; SOURCE 3 ORGANISM_TAXID: 562; SOURCE 4 EXPRESSION_SYSTEM: ESCHERICHIA COLI BL21(DE3); SOURCE 5 EXPRESSION_SYSTEM_TAXID: 469008; SOURCE 6 EXPRESSION_SYSTEM_STRAIN: BL21(DE3); SOURCE 7 EXPRESSION_SYSTEM_VECTOR_TYPE: PLASMID; SOURCE 8 EXPRESSION_SYSTEM_PLASMID: PET17B KEYWDS PYROPHOSPHOKINASE, PYROPHOSPHORYL TRANSFER, CATALYTIC MECHANISM, KEYWDS 2 FOLATE, HPPK, PTERIN, 6-HYDROXYMETHYL-7, 8-DIHYDROPTERIN, TERNARY KEYWDS 3 COMPLEX, SUBSTRATE SPECIFICITY, ANTIMICROBIAL AGENT, DRUG DESIGN, KEYWDS 4 TRANSFERASE EXPDTA X-RAY DIFFRACTION AUTHOR J.BLASZCZYK,X.JI REVDAT 5 30-AUG-23 1F9H 1 AUTHOR JRNL REVDAT 4 09-AUG-23 1F9H 1 REMARK REVDAT 3 03-NOV-21 1F9H 1 REMARK SEQADV LINK REVDAT 2 24-FEB-09 1F9H 1 VERSN REVDAT 1 15-APR-03 1F9H 0 JRNL AUTH J.BLASZCZYK,Y.LI,G.SHI,H.YAN,X.JI JRNL TITL DYNAMIC ROLES OF ARGININE RESIDUES 82 AND 92 OF ESCHERICHIA JRNL TITL 2 COLI 6-HYDROXYMETHYL-7,8-DIHYDROPTERIN PYROPHOSPHOKINASE: JRNL TITL 3 CRYSTALLOGRAPHIC STUDIES JRNL REF BIOCHEMISTRY V. 42 1573 2003 JRNL REFN ISSN 0006-2960 JRNL PMID 12578370 JRNL DOI 10.1021/BI0267994 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 2 REMARK 2 RESOLUTION. 1.50 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) : 1.50 REMARK 3 RESOLUTION RANGE LOW (ANGSTROMS) : 30.00 REMARK 3 DATA CUTOFF (SIGMA(F)) : 0.000 REMARK 3 COMPLETENESS FOR RANGE (%) : 94.8 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) : NULL REMARK 3 R VALUE (WORKING SET, NO CUTOFF) : 0.111 REMARK 3 FREE R VALUE (NO CUTOFF) : 0.151 REMARK 3 FREE R VALUE TEST SET SIZE (%, NO CUTOFF) : 4.978 REMARK 3 FREE R VALUE TEST SET COUNT (NO CUTOFF) : 1084 REMARK 3 TOTAL NUMBER OF REFLECTIONS (NO CUTOFF) : 21774 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)) : 0.084 REMARK 3 FREE R VALUE (F>4SIG(F)) : 0.118 REMARK 3 FREE R VALUE TEST SET SIZE (%, F>4SIG(F)) : 4.978 REMARK 3 FREE R VALUE TEST SET COUNT (F>4SIG(F)) : 811 REMARK 3 TOTAL NUMBER OF REFLECTIONS (F>4SIG(F)) : 16291 REMARK 3 REMARK 3 NUMBER OF NON-HYDROGEN ATOMS USED IN REFINEMENT. REMARK 3 PROTEIN ATOMS : 1261 REMARK 3 NUCLEIC ACID ATOMS : 0 REMARK 3 HETEROGEN ATOMS : 48 REMARK 3 SOLVENT ATOMS : 412 REMARK 3 REMARK 3 MODEL REFINEMENT. REMARK 3 OCCUPANCY SUM OF NON-HYDROGEN ATOMS : 1705.0 REMARK 3 OCCUPANCY SUM OF HYDROGEN ATOMS : 1273.0 REMARK 3 NUMBER OF DISCRETELY DISORDERED RESIDUES : 21 REMARK 3 NUMBER OF LEAST-SQUARES PARAMETERS : 14342 REMARK 3 NUMBER OF RESTRAINTS : 16916 REMARK 3 REMARK 3 RMS DEVIATIONS FROM RESTRAINT TARGET VALUES. REMARK 3 BOND LENGTHS (A) : 0.009 REMARK 3 ANGLE DISTANCES (A) : 0.027 REMARK 3 SIMILAR DISTANCES (NO TARGET VALUES) (A) : 0.000 REMARK 3 DISTANCES FROM RESTRAINT PLANES (A) : 0.029 REMARK 3 ZERO CHIRAL VOLUMES (A**3) : 0.060 REMARK 3 NON-ZERO CHIRAL VOLUMES (A**3) : 0.057 REMARK 3 ANTI-BUMPING DISTANCE RESTRAINTS (A) : 0.079 REMARK 3 RIGID-BOND ADP COMPONENTS (A**2) : 0.003 REMARK 3 SIMILAR ADP COMPONENTS (A**2) : 0.044 REMARK 3 APPROXIMATELY ISOTROPIC ADPS (A**2) : 0.072 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 AND HUBER REMARK 3 SPECIAL CASE: NULL REMARK 3 REMARK 3 OTHER REFINEMENT REMARKS: REMARK 3 FULL-MATRIX LEAST-SQUARES PROCEDURE, WITH BLOCK OF PARAMETERS REMARK 3 SET FOR EACH CYCLE OF ANISOTROPIC REFINEMENT REMARK 4 REMARK 4 1F9H COMPLIES WITH FORMAT V. 3.30, 13-JUL-11 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY RCSB ON 11-JUL-00. REMARK 100 THE DEPOSITION ID IS D_1000011408. REMARK 200 REMARK 200 EXPERIMENTAL DETAILS REMARK 200 EXPERIMENT TYPE : X-RAY DIFFRACTION REMARK 200 DATE OF DATA COLLECTION : 06-SEP-99 REMARK 200 TEMPERATURE (KELVIN) : 100.0 REMARK 200 PH : 5.20 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) : 0.91700 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 : 22905 REMARK 200 RESOLUTION RANGE HIGH (A) : 1.500 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 (%) : 99.3 REMARK 200 DATA REDUNDANCY : 3.418 REMARK 200 R MERGE (I) : 0.10000 REMARK 200 R SYM (I) : NULL REMARK 200 <I/SIGMA(I)> FOR THE DATA SET : 12.1143 REMARK 200 REMARK 200 IN THE HIGHEST RESOLUTION SHELL. REMARK 200 HIGHEST RESOLUTION SHELL, RANGE HIGH (A) : 1.50 REMARK 200 HIGHEST RESOLUTION SHELL, RANGE LOW (A) : 1.55 REMARK 200 COMPLETENESS FOR SHELL (%) : 94.2 REMARK 200 DATA REDUNDANCY IN SHELL : 3.05 REMARK 200 R MERGE FOR SHELL (I) : 0.44900 REMARK 200 R SYM FOR SHELL (I) : NULL REMARK 200 <I/SIGMA(I)> FOR SHELL : 2.160 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: 1EQO REMARK 200 REMARK 200 REMARK: NULL REMARK 280 REMARK 280 CRYSTAL REMARK 280 SOLVENT CONTENT, VS (%): 33.50 REMARK 280 MATTHEWS COEFFICIENT, VM (ANGSTROMS**3/DA): 1.92 REMARK 280 REMARK 280 CRYSTALLIZATION CONDITIONS: PEG4000, MAGNESIUM CHLORIDE, ACETATE, REMARK 280 GLYCEROL, PH 5.20, VAPOR DIFFUSION, HANGING DROP, TEMPERATURE REMARK 280 292.0K REMARK 290 REMARK 290 CRYSTALLOGRAPHIC SYMMETRY REMARK 290 SYMMETRY OPERATORS FOR SPACE GROUP: C 1 2 1 REMARK 290 REMARK 290 SYMOP SYMMETRY REMARK 290 NNNMMM OPERATOR REMARK 290 1555 X,Y,Z REMARK 290 2555 -X,Y,-Z REMARK 290 3555 X+1/2,Y+1/2,Z REMARK 290 4555 -X+1/2,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 0.00000 REMARK 290 SMTRY3 2 0.000000 0.000000 -1.000000 0.00000 REMARK 290 SMTRY1 3 1.000000 0.000000 0.000000 36.80600 REMARK 290 SMTRY2 3 0.000000 1.000000 0.000000 18.89150 REMARK 290 SMTRY3 3 0.000000 0.000000 1.000000 0.00000 REMARK 290 SMTRY1 4 -1.000000 0.000000 0.000000 36.80600 REMARK 290 SMTRY2 4 0.000000 1.000000 0.000000 18.89150 REMARK 290 SMTRY3 4 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 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 375 REMARK 375 SPECIAL POSITION REMARK 375 THE FOLLOWING ATOMS ARE FOUND TO BE WITHIN 0.15 ANGSTROMS REMARK 375 OF A SYMMETRY RELATED ATOM AND ARE ASSUMED TO BE ON SPECIAL REMARK 375 POSITIONS. REMARK 375 REMARK 375 ATOM RES CSSEQI REMARK 375 HOH A 237 LIES ON A SPECIAL POSITION. REMARK 375 HOH A 251 LIES ON A SPECIAL POSITION. REMARK 375 HOH A 482 LIES ON A SPECIAL POSITION. REMARK 375 HOH A 486 LIES ON A SPECIAL POSITION. REMARK 375 HOH A 504 LIES ON A SPECIAL POSITION. REMARK 375 HOH A 540 LIES ON A SPECIAL POSITION. REMARK 375 HOH A 547 LIES ON A SPECIAL POSITION. REMARK 500 REMARK 500 GEOMETRY AND STEREOCHEMISTRY REMARK 500 SUBTOPIC: COVALENT BOND LENGTHS 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,2(A3,1X,A1,I4,A1,1X,A4,3X),1X,F6.3) 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 RES CSSEQI ATM2 DEVIATION REMARK 500 TRP A 158 C TRP A 158 OXT 0.161 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 ARG A 88 NE - CZ - NH2 ANGL. DEV. = -6.2 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 79.41 63.66 REMARK 500 ASP A 49 50.48 -90.47 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 97 OD1 93.3 REMARK 620 3 APC A 171 O1A 93.2 170.8 REMARK 620 4 APC A 171 O1B 91.6 96.6 89.7 REMARK 620 5 HOH A 212 O 173.4 86.6 86.2 94.9 REMARK 620 6 HOH A 226 O 85.1 85.7 88.4 176.1 88.4 REMARK 620 N 1 2 3 4 5 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 92.1 REMARK 620 3 APC A 171 O1B 89.1 96.9 REMARK 620 4 APC A 171 O3G 175.7 92.2 91.2 REMARK 620 5 PH2 A 181 O4 83.0 172.4 88.8 92.7 REMARK 620 6 HOH A 216 O 90.3 89.5 173.6 88.9 84.8 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 APC A 171 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC5 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE PH2 A 181 REMARK 900 REMARK 900 RELATED ENTRIES REMARK 900 RELATED ID: 1HKA RELATED DB: PDB REMARK 900 1HKA IS THE CRYSTAL STRUCTURE OF UNLIGANDED 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. REMARK 900 COLI WITH MGADP. REMARK 900 RELATED ID: 1EQ0 RELATED DB: PDB REMARK 900 1EQ0 IS THE SOLUTION STRUCTURE OF BINARY COMPLEX OF HPPK FROM E. REMARK 900 COLI WITH MGAMPPCP. REMARK 900 RELATED ID: 1EQO RELATED DB: PDB REMARK 900 1EQO IS THE CRYSTAL STRUCTURE OF TERNARY COMPLEX OF HPPK FROM E. REMARK 900 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 HAEMOPHILUS INFLUENZAE WITH A 6-HYDROXYMETHYL-7,8-DIHYDROPTERIN REMARK 900 ANALOG. REMARK 900 RELATED ID: 1DY3 RELATED DB: PDB REMARK 900 1DY3 IS THE CRYSTAL STRUCTURE OF TERNARY COMPLEX OF HPPK FROM E. REMARK 900 COLI WITH MGATP AND A 6-HYDROXYMETHYL-7,8-DIHYDROPTERIN ANALOG. DBREF 1F9H A 1 158 UNP P26281 HPPK_ECOLI 1 158 SEQADV 1F9H ALA A 92 UNP P26281 ARG 92 ENGINEERED MUTATION SEQRES 1 A 158 THR VAL ALA TYR ILE ALA ILE GLY SER ASN LEU ALA SER SEQRES 2 A 158 PRO LEU GLU GLN VAL ASN ALA ALA LEU LYS ALA LEU GLY SEQRES 3 A 158 ASP ILE PRO GLU SER HIS ILE LEU THR VAL SER SER PHE SEQRES 4 A 158 TYR ARG THR PRO PRO LEU GLY PRO GLN ASP GLN PRO ASP SEQRES 5 A 158 TYR LEU ASN ALA ALA VAL ALA LEU GLU THR SER LEU ALA SEQRES 6 A 158 PRO GLU GLU LEU LEU ASN HIS THR GLN ARG ILE GLU LEU SEQRES 7 A 158 GLN GLN GLY ARG VAL ARG LYS ALA GLU ARG TRP GLY PRO SEQRES 8 A 158 ALA THR LEU ASP LEU ASP ILE MET LEU PHE GLY ASN GLU SEQRES 9 A 158 VAL ILE ASN THR GLU ARG LEU THR VAL PRO HIS TYR ASP SEQRES 10 A 158 MET LYS ASN ARG GLY PHE MET LEU TRP PRO LEU PHE GLU SEQRES 11 A 158 ILE ALA PRO GLU LEU VAL PHE PRO ASP GLY GLU MET LEU SEQRES 12 A 158 ARG GLN ILE LEU HIS THR ARG ALA PHE ASP LYS LEU ASN SEQRES 13 A 158 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 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 2 MG 2(MG 2+) FORMUL 4 CL CL 1- FORMUL 5 APC C11 H18 N5 O12 P3 FORMUL 6 PH2 C7 H9 N5 O2 FORMUL 7 HOH *412(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 ALA A 151 1 10 SHEET 1 A 4 ASP A 95 PHE A 101 0 SHEET 2 A 4 VAL A 2 SER A 9 -1 N TYR A 4 O LEU A 100 SHEET 3 A 4 TYR A 53 THR A 62 -1 N LEU A 54 O SER A 9 SHEET 4 A 4 SER A 31 VAL A 36 -1 O HIS A 32 N GLU A 61 SHEET 1 B 5 ASP A 95 PHE A 101 0 SHEET 2 B 5 VAL A 2 SER A 9 -1 N TYR A 4 O LEU A 100 SHEET 3 B 5 TYR A 53 THR A 62 -1 N LEU A 54 O SER A 9 SHEET 4 B 5 TYR A 40 THR A 42 -1 O TYR A 40 N ASN A 55 SHEET 5 B 5 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 LINK OD1 ASP A 95 MG MG A 161 1555 1555 2.09 LINK OD2 ASP A 95 MG MG A 162 1555 1555 2.10 LINK OD1 ASP A 97 MG MG A 161 1555 1555 2.08 LINK OD2 ASP A 97 MG MG A 162 1555 1555 2.02 LINK MG MG A 161 O1A APC A 171 1555 1555 2.10 LINK MG MG A 161 O1B APC A 171 1555 1555 2.08 LINK MG MG A 161 O HOH A 212 1555 1555 2.04 LINK MG MG A 161 O HOH A 226 1555 1555 2.14 LINK MG MG A 162 O1B APC A 171 1555 1555 2.12 LINK MG MG A 162 O3G APC A 171 1555 1555 2.05 LINK MG MG A 162 O4 PH2 A 181 1555 1555 2.10 LINK MG MG A 162 O HOH A 216 1555 1555 2.18 CISPEP 1 VAL A 113 PRO A 114 0 -7.23 SITE 1 AC1 6 ASP A 95 ASP A 97 MG A 162 APC A 171 SITE 2 AC1 6 HOH A 212 HOH A 226 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 216 SITE 1 AC3 6 LYS A 119 PHE A 137 PRO A 138 ASP A 139 SITE 2 AC3 6 HOH A 219 HOH A 362 SITE 1 AC4 29 GLN A 74 ARG A 82 ARG A 84 TRP A 89 SITE 2 AC4 29 ASP A 95 ASP A 97 ILE A 98 ARG A 110 SITE 3 AC4 29 LEU A 111 THR A 112 HIS A 115 TYR A 116 SITE 4 AC4 29 ARG A 121 MG A 161 MG A 162 PH2 A 181 SITE 5 AC4 29 HOH A 212 HOH A 215 HOH A 216 HOH A 226 SITE 6 AC4 29 HOH A 254 HOH A 255 HOH A 342 HOH A 351 SITE 7 AC4 29 HOH A 363 HOH A 421 HOH A 448 HOH A 505 SITE 8 AC4 29 HOH A 594 SITE 1 AC5 14 THR A 42 PRO A 43 PRO A 44 LEU A 45 SITE 2 AC5 14 TYR A 53 ASN A 55 ASP A 95 PHE A 123 SITE 3 AC5 14 MG A 162 APC A 171 HOH A 205 HOH A 216 SITE 4 AC5 14 HOH A 244 HOH A 380 CRYST1 73.612 37.783 57.970 90.00 117.04 90.00 C 1 2 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 0.013585 0.000000 0.006934 0.00000 SCALE2 0.000000 0.026467 0.000000 0.00000 SCALE3 0.000000 0.000000 0.019367 0.00000