10 20 30 40 50 60 70 80 1NFS - Header ----|----|----|----|----|----|----|----|----|----|----|----|----|----|----|----| Asymmetric UnitHEADER ISOMERASE 16-DEC-02 1NFS
TITLE STRUCTURE AND MECHANISM OF ACTION OF TITLE 2 ISOPENTENYLPYROPHOSPHATE-DIMETHYLALLYLPYROPHOSPHATE TITLE 3 ISOMERASE: COMPLEX WITH NIPP
COMPND MOL_ID: 1; COMPND 2 MOLECULE: ISOPENTENYL-DIPHOSPHATE DELTA-ISOMERASE; COMPND 3 CHAIN: A, B; COMPND 4 SYNONYM: DIMETHYLALLYL DIPHOSPHATE ISOMERASE, IPP COMPND 5 ISOMERASE, ISOPENTENYL PYROPHOSPHATE ISOMERASE; COMPND 6 EC: 5.3.3.2; COMPND 7 ENGINEERED: YES
SOURCE MOL_ID: 1; SOURCE 2 ORGANISM_SCIENTIFIC: ESCHERICHIA COLI; SOURCE 3 ORGANISM_TAXID: 562; SOURCE 4 EXPRESSION_SYSTEM: ESCHERICHIA COLI; SOURCE 5 EXPRESSION_SYSTEM_TAXID: 562
KEYWDS COMPLEX, ISOMERASE
EXPDTA X-RAY DIFFRACTION
AUTHOR J.WOUTERS
REVDAT 2 24-FEB-09 1NFS 1 VERSN REVDAT 1 24-JUN-03 1NFS 0
JRNL AUTH J.WOUTERS,Y.OUDJAMA,S.J.BARKLEY,C.TRICOT,V.STALON, JRNL AUTH 2 L.DROOGMANS,C.D.POULTER JRNL TITL CATALYTIC MECHANISM OF ESCHERICHIA COLI JRNL TITL 2 ISOPENTENYL DIPHOSPHATE ISOMERASE INVOLVES CYS-67, JRNL TITL 3 GLU-116, AND TYR-104 AS SUGGESTED BY CRYSTAL JRNL TITL 4 STRUCTURES OF COMPLEXES WITH TRANSITION STATE JRNL TITL 5 ANALOGUES AND IRREVERSIBLE INHIBITORS JRNL REF J.BIOL.CHEM. V. 278 11903 2003 JRNL REFN ISSN 0021-9258 JRNL PMID 12540835 JRNL DOI 10.1074/JBC.M212823200
REMARK 1
REMARK 2 REMARK 2 RESOLUTION. 1.96 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) : 1.96 REMARK 3 RESOLUTION RANGE LOW (ANGSTROMS) : 10.00 REMARK 3 DATA CUTOFF (SIGMA(F)) : 0.000 REMARK 3 COMPLETENESS FOR RANGE (%) : 84.6 REMARK 3 CROSS-VALIDATION METHOD : THROUGHOUT 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) : 0.222 REMARK 3 R VALUE (WORKING SET, NO CUTOFF) : 0.219 REMARK 3 FREE R VALUE (NO CUTOFF) : 0.260 REMARK 3 FREE R VALUE TEST SET SIZE (%, NO CUTOFF) : 0.276 REMARK 3 FREE R VALUE TEST SET COUNT (NO CUTOFF) : 3098 REMARK 3 TOTAL NUMBER OF REFLECTIONS (NO CUTOFF) : 27788 REMARK 3 REMARK 3 FIT/AGREEMENT OF MODEL FOR DATA WITH F>4SIG(F). REMARK 3 R VALUE (WORKING + TEST SET, F>4SIG(F)) : 0.210 REMARK 3 R VALUE (WORKING SET, F>4SIG(F)) : 0.219 REMARK 3 FREE R VALUE (F>4SIG(F)) : 0.262 REMARK 3 FREE R VALUE TEST SET SIZE (%, F>4SIG(F)) : 10.000 REMARK 3 FREE R VALUE TEST SET COUNT (F>4SIG(F)) : 2600 REMARK 3 TOTAL NUMBER OF REFLECTIONS (F>4SIG(F)) : 23302 REMARK 3 REMARK 3 NUMBER OF NON-HYDROGEN ATOMS USED IN REFINEMENT. REMARK 3 PROTEIN ATOMS : 2821 REMARK 3 NUCLEIC ACID ATOMS : 0 REMARK 3 HETEROGEN ATOMS : 32 REMARK 3 SOLVENT ATOMS : 117 REMARK 3 REMARK 3 MODEL REFINEMENT. REMARK 3 OCCUPANCY SUM OF NON-HYDROGEN ATOMS : 2983.00 REMARK 3 OCCUPANCY SUM OF HYDROGEN ATOMS : 0.00 REMARK 3 NUMBER OF DISCRETELY DISORDERED RESIDUES : 0 REMARK 3 NUMBER OF LEAST-SQUARES PARAMETERS : 11935 REMARK 3 NUMBER OF RESTRAINTS : 15429 REMARK 3 REMARK 3 RMS DEVIATIONS FROM RESTRAINT TARGET VALUES. REMARK 3 BOND LENGTHS (A) : 0.005 REMARK 3 ANGLE DISTANCES (A) : 0.019 REMARK 3 SIMILAR DISTANCES (NO TARGET VALUES) (A) : 0.043 REMARK 3 DISTANCES FROM RESTRAINT PLANES (A) : 0.027 REMARK 3 ZERO CHIRAL VOLUMES (A**3) : 0.029 REMARK 3 NON-ZERO CHIRAL VOLUMES (A**3) : 0.033 REMARK 3 ANTI-BUMPING DISTANCE RESTRAINTS (A) : 0.008 REMARK 3 RIGID-BOND ADP COMPONENTS (A**2) : 0.000 REMARK 3 SIMILAR ADP COMPONENTS (A**2) : 0.054 REMARK 3 APPROXIMATELY ISOTROPIC ADPS (A**2) : 0.000 REMARK 3 REMARK 3 BULK SOLVENT MODELING. REMARK 3 METHOD USED: NULL REMARK 3 REMARK 3 STEREOCHEMISTRY TARGET VALUES : ENGH AND HUBER REMARK 3 SPECIAL CASE: NULL REMARK 3 REMARK 3 OTHER REFINEMENT REMARKS: NULL
REMARK 4 REMARK 4 1NFS COMPLIES WITH FORMAT V. 3.15, 01-DEC-08
REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY RCSB ON 06-JAN-03. REMARK 100 THE RCSB ID CODE IS RCSB017834.
REMARK 200 REMARK 200 EXPERIMENTAL DETAILS REMARK 200 EXPERIMENT TYPE : X-RAY DIFFRACTION REMARK 200 DATE OF DATA COLLECTION : NULL REMARK 200 TEMPERATURE (KELVIN) : 100 REMARK 200 PH : 5.5 REMARK 200 NUMBER OF CRYSTALS USED : 1 REMARK 200 REMARK 200 SYNCHROTRON (Y/N) : N REMARK 200 RADIATION SOURCE : ROTATING ANODE REMARK 200 BEAMLINE : NULL REMARK 200 X-RAY GENERATOR MODEL : ENRAF NONIUS REMARK 200 MONOCHROMATIC OR LAUE (M/L) : M REMARK 200 WAVELENGTH OR RANGE (A) : 1.54179 REMARK 200 MONOCHROMATOR : GRAPHITE REMARK 200 OPTICS : MIRRORS REMARK 200 REMARK 200 DETECTOR TYPE : IMAGE PLATE REMARK 200 DETECTOR MANUFACTURER : MARRESEARCH REMARK 200 INTENSITY-INTEGRATION SOFTWARE : MAR REMARK 200 DATA SCALING SOFTWARE : MARFLM REMARK 200 REMARK 200 NUMBER OF UNIQUE REFLECTIONS : 23302 REMARK 200 RESOLUTION RANGE HIGH (A) : 1.960 REMARK 200 RESOLUTION RANGE LOW (A) : 10.000 REMARK 200 REJECTION CRITERIA (SIGMA(I)) : 4.000 REMARK 200 REMARK 200 OVERALL. REMARK 200 COMPLETENESS FOR RANGE (%) : 94.8 REMARK 200 DATA REDUNDANCY : NULL REMARK 200 R MERGE (I) : 0.04200 REMARK 200 R SYM (I) : NULL REMARK 200 <I/SIGMA(I)> FOR THE DATA SET : 9.2000 REMARK 200 REMARK 200 IN THE HIGHEST RESOLUTION SHELL. REMARK 200 HIGHEST RESOLUTION SHELL, RANGE HIGH (A) : 1.97 REMARK 200 HIGHEST RESOLUTION SHELL, RANGE LOW (A) : 2.08 REMARK 200 COMPLETENESS FOR SHELL (%) : 94.8 REMARK 200 DATA REDUNDANCY IN SHELL : NULL REMARK 200 R MERGE FOR SHELL (I) : 0.24400 REMARK 200 R SYM FOR SHELL (I) : NULL REMARK 200 <I/SIGMA(I)> FOR SHELL : 6.300 REMARK 200 REMARK 200 DIFFRACTION PROTOCOL: SINGLE WAVELENGTH REMARK 200 METHOD USED TO DETERMINE THE STRUCTURE: MOLECULAR REPLACEMENT REMARK 200 SOFTWARE USED: SHELX REMARK 200 STARTING MODEL: PDB ENTRY 1HZT REMARK 200 REMARK 200 REMARK: NULL
REMARK 280 REMARK 280 CRYSTAL REMARK 280 SOLVENT CONTENT, VS (%): 54.28 REMARK 280 MATTHEWS COEFFICIENT, VM (ANGSTROMS**3/DA): 2.43 REMARK 280 REMARK 280 CRYSTALLIZATION CONDITIONS: PEG 2000, MANGANESE CHLORIDE, PH REMARK 280 5.5, VAPOR DIFFUSION, HANGING DROP, TEMPERATURE 290K
REMARK 290 REMARK 290 CRYSTALLOGRAPHIC SYMMETRY REMARK 290 SYMMETRY OPERATORS FOR SPACE GROUP: P 21 21 21 REMARK 290 REMARK 290 SYMOP SYMMETRY REMARK 290 NNNMMM OPERATOR REMARK 290 1555 X,Y,Z REMARK 290 2555 -X+1/2,-Y,Z+1/2 REMARK 290 3555 -X,Y+1/2,-Z+1/2 REMARK 290 4555 X+1/2,-Y+1/2,-Z REMARK 290 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 34.49100 REMARK 290 SMTRY2 2 0.000000 -1.000000 0.000000 0.00000 REMARK 290 SMTRY3 2 0.000000 0.000000 1.000000 45.72050 REMARK 290 SMTRY1 3 -1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY2 3 0.000000 1.000000 0.000000 35.74650 REMARK 290 SMTRY3 3 0.000000 0.000000 -1.000000 45.72050 REMARK 290 SMTRY1 4 1.000000 0.000000 0.000000 34.49100 REMARK 290 SMTRY2 4 0.000000 -1.000000 0.000000 35.74650 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 300 REMARK: TWO MOLECULES IN THE ASYMERTIC UNIT REMARK 300 FORM THE BIOLOGICAL ASSEMBLY
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: DIMERIC REMARK 350 SOFTWARE DETERMINED QUATERNARY STRUCTURE: DIMERIC REMARK 350 SOFTWARE USED: PISA REMARK 350 TOTAL BURIED SURFACE AREA: 2970 ANGSTROM**2 REMARK 350 SURFACE AREA OF THE COMPLEX: 15190 ANGSTROM**2 REMARK 350 CHANGE IN SOLVENT FREE ENERGY: -34.0 KCAL/MOL REMARK 350 APPLY THE FOLLOWING TO CHAINS: A, 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 MET A 1 REMARK 465 GLN A 2 REMARK 465 THR A 3 REMARK 465 GLN A 180 REMARK 465 LEU A 181 REMARK 465 LYS A 182 REMARK 465 LEU A 183 REMARK 465 MET B 1 REMARK 465 GLN B 2 REMARK 465 THR B 3
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 THR A 179 C THR A 179 O 3.582 REMARK 500 LEU B 183 C LEU B 183 O 0.115 REMARK 500 LEU B 183 C LEU B 183 OXT 0.276 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 ASP A 108 CB - CG - OD1 ANGL. DEV. = 6.9 DEGREES REMARK 500 THR A 179 CA - C - O ANGL. DEV. = 33.0 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 TYR A 99 79.60 -156.07 REMARK 500 ASN B 10 -168.01 -100.55 REMARK 500 TYR B 99 71.04 -156.02 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 605 DISTANCE = 5.32 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 MN A 201 MN REMARK 620 N RES CSSEQI ATOM REMARK 620 1 HIS A 25 NE2 REMARK 620 2 HIS A 32 NE2 85.7 REMARK 620 3 HIS A 69 NE2 91.5 107.4 REMARK 620 4 GLU A 114 OE2 91.4 93.7 158.8 REMARK 620 5 GLU A 116 OE2 167.2 105.6 90.8 82.1 REMARK 620 6 GLU A 114 OE1 87.8 150.8 101.1 58.0 79.4 REMARK 620 N 1 2 3 4 5 REMARK 620 REMARK 620 COORDINATION ANGLES FOR: M RES CSSEQI METAL REMARK 620 MN B 201 MN REMARK 620 N RES CSSEQI ATOM REMARK 620 1 HIS B 25 NE2 REMARK 620 2 HIS B 32 NE2 89.9 REMARK 620 3 HIS B 69 NE2 95.1 113.1 REMARK 620 4 GLU B 114 OE2 92.4 92.2 153.5 REMARK 620 5 GLU B 116 OE2 165.0 103.2 86.4 80.1 REMARK 620 6 GLU B 114 OE1 88.1 147.0 99.8 55.0 77.0 REMARK 620 N 1 2 3 4 5 REMARK 620 REMARK 620 COORDINATION ANGLES FOR: M RES CSSEQI METAL REMARK 620 MG A 401 MG REMARK 620 N RES CSSEQI ATOM REMARK 620 1 CYS A 67 O REMARK 620 2 GLU A 87 OE2 102.8 REMARK 620 3 DED A 301 O7 95.4 145.6 REMARK 620 4 DED A 301 O2 91.8 89.2 61.0 REMARK 620 5 GLU A 87 OE1 107.9 44.9 151.3 132.4 REMARK 620 6 HOH A 509 O 175.8 81.3 80.6 87.4 75.6 REMARK 620 7 HOH A 508 O 93.3 101.7 106.2 166.7 57.0 86.7 REMARK 620 N 1 2 3 4 5 6 REMARK 620 REMARK 620 COORDINATION ANGLES FOR: M RES CSSEQI METAL REMARK 620 MG B 401 MG REMARK 620 N RES CSSEQI ATOM REMARK 620 1 GLU B 87 OE2 REMARK 620 2 DED B 302 O7 144.9 REMARK 620 3 CYS B 67 O 99.6 80.2 REMARK 620 4 DED B 302 O2 92.9 52.2 79.8 REMARK 620 5 HOH B 523 O 74.2 100.1 169.7 92.2 REMARK 620 6 HOH B 522 O 101.0 113.8 84.4 160.4 104.7 REMARK 620 7 GLU B 87 OE1 44.2 170.2 95.3 135.9 85.9 56.8 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 MN A 201 REMARK 800 SITE_IDENTIFIER: AC2 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE MN B 201 REMARK 800 SITE_IDENTIFIER: AC3 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE MG A 401 REMARK 800 SITE_IDENTIFIER: AC4 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE MG B 401 REMARK 800 SITE_IDENTIFIER: AC5 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE DED A 301 REMARK 800 SITE_IDENTIFIER: AC6 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE DED B 302
REMARK 900 REMARK 900 RELATED ENTRIES REMARK 900 RELATED ID: 1NFZ RELATED DB: PDB REMARK 900 STRUCTURE AND MECHANISM OF ACTION OF REMARK 900 ISOPENTENYLPYROPHOSPHATE-DIMETHYLALLYLPYROPHOSPHATE REMARK 900 ISOMERASE: COMPLEX WITH EIPP
DBREF 1NFS A 1 182 UNP Q46822 IDI_ECOLI 1 182 DBREF 1NFS B 1 182 UNP Q46822 IDI_ECOLI 1 182
SEQADV 1NFS LEU A 183 UNP Q46822 CLONING ARTIFACT SEQADV 1NFS LEU B 183 UNP Q46822 CLONING ARTIFACT
SEQRES 1 A 183 MET GLN THR GLU HIS VAL ILE LEU LEU ASN ALA GLN GLY SEQRES 2 A 183 VAL PRO THR GLY THR LEU GLU LYS TYR ALA ALA HIS THR SEQRES 3 A 183 ALA ASP THR ARG LEU HIS LEU ALA PHE SER SER TRP LEU SEQRES 4 A 183 PHE ASN ALA LYS GLY GLN LEU LEU VAL THR ARG ARG ALA SEQRES 5 A 183 LEU SER LYS LYS ALA TRP PRO GLY VAL TRP THR ASN SER SEQRES 6 A 183 VAL CYS GLY HIS PRO GLN LEU GLY GLU SER ASN GLU ASP SEQRES 7 A 183 ALA VAL ILE ARG ARG CYS ARG TYR GLU LEU GLY VAL GLU SEQRES 8 A 183 ILE THR PRO PRO GLU SER ILE TYR PRO ASP PHE ARG TYR SEQRES 9 A 183 ARG ALA THR ASP PRO SER GLY ILE VAL GLU ASN GLU VAL SEQRES 10 A 183 CYS PRO VAL PHE ALA ALA ARG THR THR SER ALA LEU GLN SEQRES 11 A 183 ILE ASN ASP ASP GLU VAL MET ASP TYR GLN TRP CYS ASP SEQRES 12 A 183 LEU ALA ASP VAL LEU HIS GLY ILE ASP ALA THR PRO TRP SEQRES 13 A 183 ALA PHE SER PRO TRP MET VAL MET GLN ALA THR ASN ARG SEQRES 14 A 183 GLU ALA ARG LYS ARG LEU SER ALA PHE THR GLN LEU LYS SEQRES 15 A 183 LEU SEQRES 1 B 183 MET GLN THR GLU HIS VAL ILE LEU LEU ASN ALA GLN GLY SEQRES 2 B 183 VAL PRO THR GLY THR LEU GLU LYS TYR ALA ALA HIS THR SEQRES 3 B 183 ALA ASP THR ARG LEU HIS LEU ALA PHE SER SER TRP LEU SEQRES 4 B 183 PHE ASN ALA LYS GLY GLN LEU LEU VAL THR ARG ARG ALA SEQRES 5 B 183 LEU SER LYS LYS ALA TRP PRO GLY VAL TRP THR ASN SER SEQRES 6 B 183 VAL CYS GLY HIS PRO GLN LEU GLY GLU SER ASN GLU ASP SEQRES 7 B 183 ALA VAL ILE ARG ARG CYS ARG TYR GLU LEU GLY VAL GLU SEQRES 8 B 183 ILE THR PRO PRO GLU SER ILE TYR PRO ASP PHE ARG TYR SEQRES 9 B 183 ARG ALA THR ASP PRO SER GLY ILE VAL GLU ASN GLU VAL SEQRES 10 B 183 CYS PRO VAL PHE ALA ALA ARG THR THR SER ALA LEU GLN SEQRES 11 B 183 ILE ASN ASP ASP GLU VAL MET ASP TYR GLN TRP CYS ASP SEQRES 12 B 183 LEU ALA ASP VAL LEU HIS GLY ILE ASP ALA THR PRO TRP SEQRES 13 B 183 ALA PHE SER PRO TRP MET VAL MET GLN ALA THR ASN ARG SEQRES 14 B 183 GLU ALA ARG LYS ARG LEU SER ALA PHE THR GLN LEU LYS SEQRES 15 B 183 LEU
HET MN A 201 1 HET MN B 201 1 HET MG A 401 1 HET MG B 401 1 HET DED A 301 14 HET DED B 302 14
HETNAM MN MANGANESE (II) ION HETNAM MG MAGNESIUM ION HETNAM DED 2-DIMETHYLAMINO-ETHYL-DIPHOSPHATE
FORMUL 3 MN 2(MN 2+) FORMUL 5 MG 2(MG 2+) FORMUL 7 DED 2(C4 H13 N O7 P2) FORMUL 9 HOH *117(H2 O)
HELIX 1 1 LYS A 21 HIS A 25 1 5 HELIX 2 2 SER A 75 GLY A 89 1 15 HELIX 3 3 ASP A 143 THR A 154 1 12 HELIX 4 4 PRO A 155 PHE A 158 5 4 HELIX 5 5 SER A 159 ASN A 168 1 10 HELIX 6 6 ASN A 168 SER A 176 1 9 HELIX 7 7 ALA A 177 THR A 179 5 3 HELIX 8 8 LYS B 21 HIS B 25 1 5 HELIX 9 9 SER B 75 GLY B 89 1 15 HELIX 10 10 ASP B 143 THR B 154 1 12 HELIX 11 11 PRO B 155 PHE B 158 5 4 HELIX 12 12 SER B 159 ASN B 168 1 10 HELIX 13 13 ASN B 168 PHE B 178 1 11
SHEET 1 A 2 HIS A 5 LEU A 9 0 SHEET 2 A 2 PRO A 15 GLU A 20 -1 O GLY A 17 N LEU A 8 SHEET 1 B 3 HIS A 32 LEU A 33 0 SHEET 2 B 3 VAL A 113 VAL A 117 1 O VAL A 117 N HIS A 32 SHEET 3 B 3 ARG A 103 THR A 107 -1 N ALA A 106 O GLU A 114 SHEET 1 C 4 VAL A 66 GLY A 68 0 SHEET 2 C 4 PHE A 35 PHE A 40 -1 N SER A 37 O VAL A 66 SHEET 3 C 4 VAL A 120 ARG A 124 1 O PHE A 121 N SER A 36 SHEET 4 C 4 GLU A 96 TYR A 99 -1 N GLU A 96 O ALA A 122 SHEET 1 D 3 TRP A 62 ASN A 64 0 SHEET 2 D 3 LEU A 46 ARG A 51 -1 N THR A 49 O THR A 63 SHEET 3 D 3 VAL A 136 CYS A 142 -1 O CYS A 142 N LEU A 46 SHEET 1 E 2 HIS B 5 LEU B 9 0 SHEET 2 E 2 PRO B 15 GLU B 20 -1 O LEU B 19 N VAL B 6 SHEET 1 F 3 HIS B 32 LEU B 33 0 SHEET 2 F 3 VAL B 113 VAL B 117 1 O VAL B 117 N HIS B 32 SHEET 3 F 3 ARG B 103 THR B 107 -1 N ALA B 106 O GLU B 114 SHEET 1 G 4 VAL B 66 GLY B 68 0 SHEET 2 G 4 PHE B 35 PHE B 40 -1 N SER B 37 O VAL B 66 SHEET 3 G 4 VAL B 120 ARG B 124 1 O PHE B 121 N SER B 36 SHEET 4 G 4 GLU B 96 TYR B 99 -1 N GLU B 96 O ALA B 122 SHEET 1 H 3 TRP B 62 THR B 63 0 SHEET 2 H 3 LEU B 46 ARG B 51 -1 N THR B 49 O THR B 63 SHEET 3 H 3 VAL B 136 CYS B 142 -1 O MET B 137 N ARG B 50
LINK MN MN A 201 NE2 HIS A 25 1555 1555 2.09 LINK MN MN A 201 NE2 HIS A 32 1555 1555 2.05 LINK MN MN A 201 NE2 HIS A 69 1555 1555 2.06 LINK MN MN A 201 OE2 GLU A 114 1555 1555 2.07 LINK MN MN A 201 OE2 GLU A 116 1555 1555 1.85 LINK MN MN B 201 NE2 HIS B 25 1555 1555 1.97 LINK MN MN B 201 NE2 HIS B 32 1555 1555 1.97 LINK MN MN B 201 NE2 HIS B 69 1555 1555 2.02 LINK MN MN B 201 OE2 GLU B 114 1555 1555 2.15 LINK MN MN B 201 OE2 GLU B 116 1555 1555 1.98 LINK MG MG A 401 O CYS A 67 1555 1555 2.09 LINK MG MG A 401 OE2 GLU A 87 1555 1555 2.02 LINK MG MG B 401 OE2 GLU B 87 1555 1555 1.91 LINK MN MN A 201 OE1 GLU A 114 1555 1555 2.39 LINK O7 DED A 301 MG MG A 401 1555 1555 1.79 LINK O2 DED A 301 MG MG A 401 1555 1555 1.92 LINK MG MG A 401 OE1 GLU A 87 1555 1555 3.11 LINK MG MG A 401 O HOH A 509 1555 1555 2.06 LINK MG MG A 401 O HOH A 508 1555 1555 1.92 LINK MN MN B 201 OE1 GLU B 114 1555 1555 2.49 LINK O7 DED B 302 MG MG B 401 1555 1555 1.71 LINK MG MG B 401 O CYS B 67 1555 1555 2.49 LINK MG MG B 401 O2 DED B 302 1555 1555 2.33 LINK MG MG B 401 O HOH B 523 1555 1555 1.98 LINK MG MG B 401 O HOH B 522 1555 1555 2.09 LINK MG MG B 401 OE1 GLU B 87 1555 1555 3.09
SITE 1 AC1 5 HIS A 25 HIS A 32 HIS A 69 GLU A 114 SITE 2 AC1 5 GLU A 116 SITE 1 AC2 5 HIS B 25 HIS B 32 HIS B 69 GLU B 114 SITE 2 AC2 5 GLU B 116 SITE 1 AC3 5 CYS A 67 GLU A 87 DED A 301 HOH A 508 SITE 2 AC3 5 HOH A 509 SITE 1 AC4 5 CYS B 67 GLU B 87 DED B 302 HOH B 522 SITE 2 AC4 5 HOH B 523 SITE 1 AC5 17 LYS A 21 ARG A 51 LYS A 55 CYS A 67 SITE 2 AC5 17 GLY A 68 HIS A 69 ARG A 83 GLU A 87 SITE 3 AC5 17 TYR A 104 GLU A 114 GLU A 116 TRP A 161 SITE 4 AC5 17 MG A 401 HOH A 506 HOH A 508 HOH A 509 SITE 5 AC5 17 HOH A 512 SITE 1 AC6 14 LYS B 21 ARG B 51 LYS B 55 CYS B 67 SITE 2 AC6 14 GLY B 68 HIS B 69 ARG B 83 GLU B 87 SITE 3 AC6 14 TYR B 104 GLU B 114 GLU B 116 MG B 401 SITE 4 AC6 14 HOH B 516 HOH B 523
CRYST1 68.982 71.493 91.441 90.00 90.00 90.00 P 21 21 21 8
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 0.014497 0.000000 0.000000 0.00000
SCALE2 0.000000 0.013987 0.000000 0.00000
SCALE3 0.000000 0.000000 0.010936 0.00000