PDB Short entry for 117E HEADER HYDROLASE 15-SEP-98 117E TITLE THE R78K AND D117E ACTIVE SITE VARIANTS OF SACCHAROMYCES CEREVISIAE TITLE 2 SOLUBLE INORGANIC PYROPHOSPHATASE: STRUCTURAL STUDIES AND MECHANISTIC TITLE 3 IMPLICATIONS COMPND MOL_ID: 1; COMPND 2 MOLECULE: PROTEIN (INORGANIC PYROPHOSPHATASE); COMPND 3 CHAIN: A, B; COMPND 4 SYNONYM: PPASE; COMPND 5 EC: 3.6.1.1; COMPND 6 ENGINEERED: YES; COMPND 7 MUTATION: YES; COMPND 8 OTHER_DETAILS: PRODUCT COMPLEX SOURCE MOL_ID: 1; SOURCE 2 ORGANISM_SCIENTIFIC: SACCHAROMYCES CEREVISIAE; SOURCE 3 ORGANISM_COMMON: BAKER'S YEAST; SOURCE 4 ORGANISM_TAXID: 4932; SOURCE 5 CELLULAR_LOCATION: CYTOPLASM; SOURCE 6 GENE: PPA1; SOURCE 7 EXPRESSION_SYSTEM: ESCHERICHIA COLI; SOURCE 8 EXPRESSION_SYSTEM_TAXID: 562; SOURCE 9 EXPRESSION_SYSTEM_STRAIN: HB101 KEYWDS ENZYME MECHANISM, IORGANIC PYROPHOSPHATASE, MUTAN STRUCTURES, 2-METAL KEYWDS 2 ION MECHANISM, HYDROLASE EXPDTA X-RAY DIFFRACTION AUTHOR V.TUOMINEN,P.HEIKINHEIMO,T.KAJANDER,T.TORKKEL,T.HYYTIA,J.KAPYLA, AUTHOR 2 R.LAHTI,B.S.COOPERMAN,A.GOLDMAN REVDAT 6 09-AUG-23 117E 1 REMARK REVDAT 5 03-NOV-21 117E 1 REMARK SEQADV LINK REVDAT 4 24-FEB-09 117E 1 VERSN REVDAT 3 01-APR-03 117E 1 JRNL REVDAT 2 22-DEC-99 117E 4 HEADER COMPND REMARK JRNL REVDAT 2 2 4 ATOM SOURCE SEQRES REVDAT 1 23-DEC-98 117E 0 JRNL AUTH V.TUOMINEN,P.HEIKINHEIMO,T.KAJANDER,T.TORKKEL,T.HYYTIA, JRNL AUTH 2 J.KAPYLA,R.LAHTI,B.S.COOPERMAN,A.GOLDMAN JRNL TITL THE R78K AND D117E ACTIVE-SITE VARIANTS OF SACCHAROMYCES JRNL TITL 2 CEREVISIAE SOLUBLE INORGANIC PYROPHOSPHATASE: STRUCTURAL JRNL TITL 3 STUDIES AND MECHANISTIC IMPLICATIONS. JRNL REF J.MOL.BIOL. V. 284 1565 1998 JRNL REFN ISSN 0022-2836 JRNL PMID 9878371 JRNL DOI 10.1006/JMBI.1998.2266 REMARK 2 REMARK 2 RESOLUTION. 2.15 ANGSTROMS. REMARK 3 REMARK 3 REFINEMENT. REMARK 3 PROGRAM : X-PLOR 3.851 REMARK 3 AUTHORS : BRUNGER REMARK 3 REMARK 3 DATA USED IN REFINEMENT. REMARK 3 RESOLUTION RANGE HIGH (ANGSTROMS) : 2.15 REMARK 3 RESOLUTION RANGE LOW (ANGSTROMS) : 8.00 REMARK 3 DATA CUTOFF (SIGMA(F)) : 2.000 REMARK 3 DATA CUTOFF HIGH (ABS(F)) : 10000000.000 REMARK 3 DATA CUTOFF LOW (ABS(F)) : 0.0010 REMARK 3 COMPLETENESS (WORKING+TEST) (%) : 87.0 REMARK 3 NUMBER OF REFLECTIONS : 33151 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 SET) : 0.182 REMARK 3 FREE R VALUE : 0.240 REMARK 3 FREE R VALUE TEST SET SIZE (%) : 5.000 REMARK 3 FREE R VALUE TEST SET COUNT : 1646 REMARK 3 ESTIMATED ERROR OF FREE R VALUE : 0.006 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) : 2.15 REMARK 3 BIN RESOLUTION RANGE LOW (A) : 2.19 REMARK 3 BIN COMPLETENESS (WORKING+TEST) (%) : 82.30 REMARK 3 REFLECTIONS IN BIN (WORKING SET) : 1459 REMARK 3 BIN R VALUE (WORKING SET) : 0.2180 REMARK 3 BIN FREE R VALUE : 0.2560 REMARK 3 BIN FREE R VALUE TEST SET SIZE (%) : 5.40 REMARK 3 BIN FREE R VALUE TEST SET COUNT : 84 REMARK 3 ESTIMATED ERROR OF BIN FREE R VALUE : 0.030 REMARK 3 REMARK 3 NUMBER OF NON-HYDROGEN ATOMS USED IN REFINEMENT. REMARK 3 PROTEIN ATOMS : 4466 REMARK 3 NUCLEIC ACID ATOMS : 0 REMARK 3 HETEROGEN ATOMS : 23 REMARK 3 SOLVENT ATOMS : 454 REMARK 3 REMARK 3 B VALUES. REMARK 3 FROM WILSON PLOT (A**2) : 2.70 REMARK 3 MEAN B VALUE (OVERALL, A**2) : 9.70 REMARK 3 OVERALL ANISOTROPIC B VALUE. REMARK 3 B11 (A**2) : 0.00000 REMARK 3 B22 (A**2) : 0.00000 REMARK 3 B33 (A**2) : 0.00000 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 ESTIMATED COORDINATE ERROR. REMARK 3 ESD FROM LUZZATI PLOT (A) : 0.21 REMARK 3 ESD FROM SIGMAA (A) : 0.18 REMARK 3 LOW RESOLUTION CUTOFF (A) : 5.00 REMARK 3 REMARK 3 CROSS-VALIDATED ESTIMATED COORDINATE ERROR. REMARK 3 ESD FROM C-V LUZZATI PLOT (A) : 0.28 REMARK 3 ESD FROM C-V SIGMAA (A) : 0.22 REMARK 3 REMARK 3 RMS DEVIATIONS FROM IDEAL VALUES. REMARK 3 BOND LENGTHS (A) : 0.007 REMARK 3 BOND ANGLES (DEGREES) : 1.300 REMARK 3 DIHEDRAL ANGLES (DEGREES) : 26.20 REMARK 3 IMPROPER ANGLES (DEGREES) : 0.710 REMARK 3 REMARK 3 ISOTROPIC THERMAL MODEL : RESTRAINED REMARK 3 REMARK 3 ISOTROPIC THERMAL FACTOR RESTRAINTS. RMS SIGMA REMARK 3 MAIN-CHAIN BOND (A**2) : 1.020 ; 1.500 REMARK 3 MAIN-CHAIN ANGLE (A**2) : 1.450 ; 2.000 REMARK 3 SIDE-CHAIN BOND (A**2) : 1.730 ; 2.000 REMARK 3 SIDE-CHAIN ANGLE (A**2) : 2.290 ; 2.500 REMARK 3 REMARK 3 NCS MODEL : NULL REMARK 3 REMARK 3 NCS RESTRAINTS. RMS SIGMA/WEIGHT REMARK 3 GROUP 1 POSITIONAL (A) : NULL ; NULL REMARK 3 GROUP 1 B-FACTOR (A**2) : NULL ; NULL REMARK 3 REMARK 3 PARAMETER FILE 1 : PROTEIN_REP.PARAM REMARK 3 PARAMETER FILE 2 : PARAMETER.ELEMENTS REMARK 3 PARAMETER FILE 3 : PARAM11.WAT REMARK 3 PARAMETER FILE 4 : NULL REMARK 3 PARAMETER FILE 5 : NULL REMARK 3 TOPOLOGY FILE 1 : TOPHCSDX.PRO REMARK 3 TOPOLOGY FILE 2 : TOPPO4.PRO REMARK 3 TOPOLOGY FILE 3 : TOPH11.WAT REMARK 3 TOPOLOGY FILE 4 : TOPOLOGY.ELEMENTS REMARK 3 TOPOLOGY FILE 5 : NULL REMARK 3 REMARK 3 OTHER REFINEMENT REMARKS: BULK SOLVENT MODEL USED REMARK 4 REMARK 4 117E COMPLIES WITH FORMAT V. 3.30, 13-JUL-11 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY RCSB. REMARK 100 THE DEPOSITION ID IS D_1000008104. REMARK 200 REMARK 200 EXPERIMENTAL DETAILS REMARK 200 EXPERIMENT TYPE : X-RAY DIFFRACTION REMARK 200 DATE OF DATA COLLECTION : SEP-96 REMARK 200 TEMPERATURE (KELVIN) : 100.0 REMARK 200 PH : 6.0 REMARK 200 NUMBER OF CRYSTALS USED : 1 REMARK 200 REMARK 200 SYNCHROTRON (Y/N) : Y REMARK 200 RADIATION SOURCE : EMBL/DESY, HAMBURG REMARK 200 BEAMLINE : BW7A REMARK 200 X-RAY GENERATOR MODEL : NULL REMARK 200 MONOCHROMATIC OR LAUE (M/L) : M REMARK 200 WAVELENGTH OR RANGE (A) : 0.891 REMARK 200 MONOCHROMATOR : NULL REMARK 200 OPTICS : NULL REMARK 200 REMARK 200 DETECTOR TYPE : IMAGE PLATE REMARK 200 DETECTOR MANUFACTURER : MARRESEARCH REMARK 200 INTENSITY-INTEGRATION SOFTWARE : DENZO REMARK 200 DATA SCALING SOFTWARE : SCALEPACK REMARK 200 REMARK 200 NUMBER OF UNIQUE REFLECTIONS : 36385 REMARK 200 RESOLUTION RANGE HIGH (A) : 2.150 REMARK 200 RESOLUTION RANGE LOW (A) : 20.000 REMARK 200 REJECTION CRITERIA (SIGMA(I)) : 2.000 REMARK 200 REMARK 200 OVERALL. REMARK 200 COMPLETENESS FOR RANGE (%) : 88.9 REMARK 200 DATA REDUNDANCY : 6.300 REMARK 200 R MERGE (I) : 0.08600 REMARK 200 R SYM (I) : NULL REMARK 200 <I/SIGMA(I)> FOR THE DATA SET : 5.7000 REMARK 200 REMARK 200 IN THE HIGHEST RESOLUTION SHELL. REMARK 200 HIGHEST RESOLUTION SHELL, RANGE HIGH (A) : 2.15 REMARK 200 HIGHEST RESOLUTION SHELL, RANGE LOW (A) : 2.19 REMARK 200 COMPLETENESS FOR SHELL (%) : 86.0 REMARK 200 DATA REDUNDANCY IN SHELL : NULL REMARK 200 R MERGE FOR SHELL (I) : NULL REMARK 200 R SYM FOR SHELL (I) : NULL REMARK 200 <I/SIGMA(I)> FOR SHELL : NULL REMARK 200 REMARK 200 DIFFRACTION PROTOCOL: SINGLE WAVELENGTH REMARK 200 METHOD USED TO DETERMINE THE STRUCTURE: MOLECULAR REPLACEMENT REMARK 200 SOFTWARE USED: X-PLOR REMARK 200 STARTING MODEL: 1WGJ REMARK 200 REMARK 200 REMARK: NULL REMARK 280 REMARK 280 CRYSTAL REMARK 280 SOLVENT CONTENT, VS (%): 54.69 REMARK 280 MATTHEWS COEFFICIENT, VM (ANGSTROMS**3/DA): 2.71 REMARK 280 REMARK 280 CRYSTALLIZATION CONDITIONS: 17-19% MPD, 25 MM MES, PH 6.0, 1 MM REMARK 280 MNCL2, 0.5 MM NA2HPO4, 10 MG/ML PROTEIN 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 29.20000 REMARK 290 SMTRY2 2 0.000000 -1.000000 0.000000 0.00000 REMARK 290 SMTRY3 2 0.000000 0.000000 1.000000 58.35000 REMARK 290 SMTRY1 3 -1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY2 3 0.000000 1.000000 0.000000 51.40000 REMARK 290 SMTRY3 3 0.000000 0.000000 -1.000000 58.35000 REMARK 290 SMTRY1 4 1.000000 0.000000 0.000000 29.20000 REMARK 290 SMTRY2 4 0.000000 -1.000000 0.000000 51.40000 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: DIMERIC 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 SER A 283 REMARK 465 GLY A 284 REMARK 465 SER A 285 REMARK 465 VAL A 286 REMARK 465 SER B 1283 REMARK 465 GLY B 1284 REMARK 465 SER B 1285 REMARK 465 VAL B 1286 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 LYS A 24 CG CD CE NZ REMARK 470 LYS A 76 CG CD CE NZ REMARK 470 ARG A 183 CG CD NE CZ NH1 NH2 REMARK 470 GLN A 202 CG CD OE1 NE2 REMARK 470 LYS A 255 CG CD CE NZ REMARK 470 LYS B1024 CG CD CE NZ REMARK 470 GLU B1039 CG CD OE1 OE2 REMARK 470 LYS B1076 CG CD CE NZ REMARK 470 GLN B1202 CG CD OE1 NE2 REMARK 470 GLU B1221 CG CD OE1 OE2 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 ASP A 236 98.62 -170.54 REMARK 500 PHE A 281 76.64 -108.59 REMARK 500 ASN B1011 31.34 75.77 REMARK 500 LEU B1065 -1.47 76.72 REMARK 500 ASP B1236 109.08 -169.13 REMARK 500 SER B1265 54.62 -147.71 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 MN A2001 MN REMARK 620 N RES CSSEQI ATOM REMARK 620 1 ASP A 115 OD2 REMARK 620 2 GLU A 117 OE2 83.5 REMARK 620 3 ASP A 120 OD2 160.9 115.1 REMARK 620 4 ASP A 152 OD1 90.7 172.4 71.1 REMARK 620 5 PO4 A3002 O4 99.9 70.4 90.9 106.0 REMARK 620 N 1 2 3 4 REMARK 620 REMARK 620 COORDINATION ANGLES FOR: M RES CSSEQI METAL REMARK 620 MN A2002 MN REMARK 620 N RES CSSEQI ATOM REMARK 620 1 GLU A 117 OE2 REMARK 620 2 ASP A 120 OD1 98.9 REMARK 620 3 PO4 A3002 O1 73.9 102.0 REMARK 620 N 1 2 REMARK 620 REMARK 620 COORDINATION ANGLES FOR: M RES CSSEQI METAL REMARK 620 MN A2004 MN REMARK 620 N RES CSSEQI ATOM REMARK 620 1 ASP A 147 OD2 REMARK 620 2 ASP A 152 OD2 97.3 REMARK 620 3 PO4 A3001 O4 81.5 171.3 REMARK 620 4 PO4 A3002 O4 165.2 95.8 84.4 REMARK 620 5 HOH A4009 O 91.6 93.9 94.7 94.3 REMARK 620 6 HOH A4010 O 96.4 79.6 92.0 79.3 170.3 REMARK 620 N 1 2 3 4 5 REMARK 620 REMARK 620 COORDINATION ANGLES FOR: M RES CSSEQI METAL REMARK 620 MN A2003 MN REMARK 620 N RES CSSEQI ATOM REMARK 620 1 PO4 A3001 O1 REMARK 620 2 HOH A4414 O 79.6 REMARK 620 N 1 REMARK 620 REMARK 620 COORDINATION ANGLES FOR: M RES CSSEQI METAL REMARK 620 MN B2005 MN REMARK 620 N RES CSSEQI ATOM REMARK 620 1 ASP B1115 OD2 REMARK 620 2 GLU B1117 OE2 83.8 REMARK 620 3 ASP B1152 OD1 89.9 173.7 REMARK 620 4 PO4 B3004 O4 105.8 87.4 93.8 REMARK 620 N 1 2 3 REMARK 620 REMARK 620 COORDINATION ANGLES FOR: M RES CSSEQI METAL REMARK 620 MN B2006 MN REMARK 620 N RES CSSEQI ATOM REMARK 620 1 GLU B1117 OE2 REMARK 620 2 ASP B1120 OD1 94.0 REMARK 620 3 PO4 B3004 O1 80.7 92.5 REMARK 620 4 HOH B4014 O 168.3 85.4 111.0 REMARK 620 5 HOH B4015 O 88.7 173.1 94.2 90.7 REMARK 620 N 1 2 3 4 REMARK 620 REMARK 620 COORDINATION ANGLES FOR: M RES CSSEQI METAL REMARK 620 MN B2007 MN REMARK 620 N RES CSSEQI ATOM REMARK 620 1 GLU B1117 OE1 REMARK 620 2 PO4 B3004 O2 111.2 REMARK 620 3 HOH B4417 O 79.7 163.6 REMARK 620 N 1 2 REMARK 620 REMARK 620 COORDINATION ANGLES FOR: M RES CSSEQI METAL REMARK 620 MN B2008 MN REMARK 620 N RES CSSEQI ATOM REMARK 620 1 ASP B1147 OD2 REMARK 620 2 ASP B1152 OD2 101.7 REMARK 620 3 PO4 B3004 O4 164.6 84.8 REMARK 620 4 HOH B4019 O 92.7 89.8 101.2 REMARK 620 5 HOH B4416 O 82.2 172.0 89.8 97.0 REMARK 620 N 1 2 3 4 REMARK 800 REMARK 800 SITE REMARK 800 SITE_IDENTIFIER: MN1 REMARK 800 EVIDENCE_CODE: AUTHOR REMARK 800 SITE_DESCRIPTION: NULL REMARK 800 REMARK 800 SITE_IDENTIFIER: MN2 REMARK 800 EVIDENCE_CODE: AUTHOR REMARK 800 SITE_DESCRIPTION: NULL REMARK 800 REMARK 800 SITE_IDENTIFIER: MN4 REMARK 800 EVIDENCE_CODE: AUTHOR REMARK 800 SITE_DESCRIPTION: NULL REMARK 800 REMARK 800 SITE_IDENTIFIER: MN5 REMARK 800 EVIDENCE_CODE: AUTHOR REMARK 800 SITE_DESCRIPTION: NULL REMARK 800 REMARK 800 SITE_IDENTIFIER: MN6 REMARK 800 EVIDENCE_CODE: AUTHOR REMARK 800 SITE_DESCRIPTION: NULL REMARK 800 REMARK 800 SITE_IDENTIFIER: MN8 REMARK 800 EVIDENCE_CODE: AUTHOR REMARK 800 SITE_DESCRIPTION: NULL REMARK 800 REMARK 800 SITE_IDENTIFIER: AC1 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE MN A 2001 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC2 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE MN A 2002 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC3 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE MN A 2003 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC4 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE MN A 2004 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC5 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE MN B 2005 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC6 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE MN B 2006 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC7 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE MN B 2007 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC8 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE MN B 2008 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC9 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE PO4 A 3001 REMARK 800 REMARK 800 SITE_IDENTIFIER: BC1 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE PO4 A 3002 REMARK 800 REMARK 800 SITE_IDENTIFIER: BC2 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE PO4 B 3004 DBREF 117E A 1 286 UNP P00817 IPYR_YEAST 1 286 DBREF 117E B 1001 1286 UNP P00817 IPYR_YEAST 1 286 SEQADV 117E GLU A 117 UNP P00817 ASP 117 ENGINEERED MUTATION SEQADV 117E GLU B 1117 UNP P00817 ASP 117 ENGINEERED MUTATION SEQRES 1 A 286 THR TYR THR THR ARG GLN ILE GLY ALA LYS ASN THR LEU SEQRES 2 A 286 GLU TYR LYS VAL TYR ILE GLU LYS ASP GLY LYS PRO VAL SEQRES 3 A 286 SER ALA PHE HIS ASP ILE PRO LEU TYR ALA ASP LYS GLU SEQRES 4 A 286 ASN ASN ILE PHE ASN MET VAL VAL GLU ILE PRO ARG TRP SEQRES 5 A 286 THR ASN ALA LYS LEU GLU ILE THR LYS GLU GLU THR LEU SEQRES 6 A 286 ASN PRO ILE ILE GLN ASP THR LYS LYS GLY LYS LEU ARG SEQRES 7 A 286 PHE VAL ARG ASN CYS PHE PRO HIS HIS GLY TYR ILE HIS SEQRES 8 A 286 ASN TYR GLY ALA PHE PRO GLN THR TRP GLU ASP PRO ASN SEQRES 9 A 286 VAL SER HIS PRO GLU THR LYS ALA VAL GLY ASP ASN GLU SEQRES 10 A 286 PRO ILE ASP VAL LEU GLU ILE GLY GLU THR ILE ALA TYR SEQRES 11 A 286 THR GLY GLN VAL LYS GLN VAL LYS ALA LEU GLY ILE MET SEQRES 12 A 286 ALA LEU LEU ASP GLU GLY GLU THR ASP TRP LYS VAL ILE SEQRES 13 A 286 ALA ILE ASP ILE ASN ASP PRO LEU ALA PRO LYS LEU ASN SEQRES 14 A 286 ASP ILE GLU ASP VAL GLU LYS TYR PHE PRO GLY LEU LEU SEQRES 15 A 286 ARG ALA THR ASN GLU TRP PHE ARG ILE TYR LYS ILE PRO SEQRES 16 A 286 ASP GLY LYS PRO GLU ASN GLN PHE ALA PHE SER GLY GLU SEQRES 17 A 286 ALA LYS ASN LYS LYS TYR ALA LEU ASP ILE ILE LYS GLU SEQRES 18 A 286 THR HIS ASP SER TRP LYS GLN LEU ILE ALA GLY LYS SER SEQRES 19 A 286 SER ASP SER LYS GLY ILE ASP LEU THR ASN VAL THR LEU SEQRES 20 A 286 PRO ASP THR PRO THR TYR SER LYS ALA ALA SER ASP ALA SEQRES 21 A 286 ILE PRO PRO ALA SER LEU LYS ALA ASP ALA PRO ILE ASP SEQRES 22 A 286 LYS SER ILE ASP LYS TRP PHE PHE ILE SER GLY SER VAL SEQRES 1 B 286 THR TYR THR THR ARG GLN ILE GLY ALA LYS ASN THR LEU SEQRES 2 B 286 GLU TYR LYS VAL TYR ILE GLU LYS ASP GLY LYS PRO VAL SEQRES 3 B 286 SER ALA PHE HIS ASP ILE PRO LEU TYR ALA ASP LYS GLU SEQRES 4 B 286 ASN ASN ILE PHE ASN MET VAL VAL GLU ILE PRO ARG TRP SEQRES 5 B 286 THR ASN ALA LYS LEU GLU ILE THR LYS GLU GLU THR LEU SEQRES 6 B 286 ASN PRO ILE ILE GLN ASP THR LYS LYS GLY LYS LEU ARG SEQRES 7 B 286 PHE VAL ARG ASN CYS PHE PRO HIS HIS GLY TYR ILE HIS SEQRES 8 B 286 ASN TYR GLY ALA PHE PRO GLN THR TRP GLU ASP PRO ASN SEQRES 9 B 286 VAL SER HIS PRO GLU THR LYS ALA VAL GLY ASP ASN GLU SEQRES 10 B 286 PRO ILE ASP VAL LEU GLU ILE GLY GLU THR ILE ALA TYR SEQRES 11 B 286 THR GLY GLN VAL LYS GLN VAL LYS ALA LEU GLY ILE MET SEQRES 12 B 286 ALA LEU LEU ASP GLU GLY GLU THR ASP TRP LYS VAL ILE SEQRES 13 B 286 ALA ILE ASP ILE ASN ASP PRO LEU ALA PRO LYS LEU ASN SEQRES 14 B 286 ASP ILE GLU ASP VAL GLU LYS TYR PHE PRO GLY LEU LEU SEQRES 15 B 286 ARG ALA THR ASN GLU TRP PHE ARG ILE TYR LYS ILE PRO SEQRES 16 B 286 ASP GLY LYS PRO GLU ASN GLN PHE ALA PHE SER GLY GLU SEQRES 17 B 286 ALA LYS ASN LYS LYS TYR ALA LEU ASP ILE ILE LYS GLU SEQRES 18 B 286 THR HIS ASP SER TRP LYS GLN LEU ILE ALA GLY LYS SER SEQRES 19 B 286 SER ASP SER LYS GLY ILE ASP LEU THR ASN VAL THR LEU SEQRES 20 B 286 PRO ASP THR PRO THR TYR SER LYS ALA ALA SER ASP ALA SEQRES 21 B 286 ILE PRO PRO ALA SER LEU LYS ALA ASP ALA PRO ILE ASP SEQRES 22 B 286 LYS SER ILE ASP LYS TRP PHE PHE ILE SER GLY SER VAL HET MN A2001 1 HET MN A2002 1 HET MN A2003 1 HET MN A2004 1 HET PO4 A3001 5 HET PO4 A3002 5 HET MN B2005 1 HET MN B2006 1 HET MN B2007 1 HET MN B2008 1 HET PO4 B3004 5 HETNAM MN MANGANESE (II) ION HETNAM PO4 PHOSPHATE ION FORMUL 3 MN 8(MN 2+) FORMUL 7 PO4 3(O4 P 3-) FORMUL 14 HOH *454(H2 O) HELIX 1 1 LYS A 38 ASN A 40 5 3 HELIX 2 2 ASP A 147 GLY A 149 5 3 HELIX 3 3 ALA A 165 LYS A 167 5 3 HELIX 4 4 ILE A 171 TYR A 177 1 7 HELIX 5 5 LEU A 181 ILE A 191 1 11 HELIX 6 6 ILE A 194 ASP A 196 5 3 HELIX 7 7 PHE A 205 GLY A 207 5 3 HELIX 8 8 LYS A 212 ILE A 230 1 19 HELIX 9 9 LYS A 255 ALA A 257 5 3 HELIX 10 10 LYS A 274 ASP A 277 5 4 HELIX 11 11 ILE B 1171 TYR B 1177 5 7 HELIX 12 12 LEU B 1181 ILE B 1191 1 11 HELIX 13 13 ILE B 1194 ASP B 1196 5 3 HELIX 14 14 ALA B 1204 GLY B 1207 5 4 HELIX 15 15 LYS B 1212 ILE B 1230 1 19 HELIX 16 16 LYS B 1255 ALA B 1260 5 6 HELIX 17 17 LYS B 1274 ASP B 1277 5 4 SHEET 1 A 4 SER A 265 LYS A 267 0 SHEET 2 A 4 TYR A 2 ALA A 9 1 N GLY A 8 O SER A 265 SHEET 3 A 4 LYS A 16 LYS A 21 -1 N GLU A 20 O THR A 3 SHEET 4 A 4 LYS A 24 VAL A 26 -1 N VAL A 26 O ILE A 19 SHEET 1 B 7 VAL A 134 LYS A 138 0 SHEET 2 B 7 ILE A 42 ILE A 49 -1 N MET A 45 O LYS A 135 SHEET 3 B 7 ASN A 92 PHE A 96 -1 N ALA A 95 O VAL A 46 SHEET 4 B 7 ASP A 120 GLU A 123 -1 N GLU A 123 O ASN A 92 SHEET 5 B 7 LYS A 154 ASP A 159 1 N VAL A 155 O ASP A 120 SHEET 6 B 7 VAL A 137 MET A 143 -1 N MET A 143 O LYS A 154 SHEET 7 B 7 ALA A 209 ASN A 211 -1 N LYS A 210 O ILE A 142 SHEET 1 C 2 LEU A 57 ILE A 59 0 SHEET 2 C 2 ILE A 68 GLN A 70 -1 N ILE A 69 O GLU A 58 SHEET 1 D 4 SER B1265 LYS B1267 0 SHEET 2 D 4 TYR B1002 ALA B1009 1 N GLY B1008 O SER B1265 SHEET 3 D 4 LYS B1016 LYS B1021 -1 N GLU B1020 O THR B1003 SHEET 4 D 4 LYS B1024 VAL B1026 -1 N VAL B1026 O ILE B1019 SHEET 1 E 7 VAL B1134 LYS B1138 0 SHEET 2 E 7 ILE B1042 ILE B1049 -1 N MET B1045 O LYS B1135 SHEET 3 E 7 ASN B1092 PHE B1096 -1 N ALA B1095 O VAL B1046 SHEET 4 E 7 ASP B1120 GLU B1123 -1 N GLU B1123 O ASN B1092 SHEET 5 E 7 LYS B1154 ASP B1159 1 N VAL B1155 O ASP B1120 SHEET 6 E 7 VAL B1137 MET B1143 -1 N MET B1143 O LYS B1154 SHEET 7 E 7 ALA B1209 ASN B1211 -1 N LYS B1210 O ILE B1142 SHEET 1 F 2 LEU B1057 ILE B1059 0 SHEET 2 F 2 ILE B1068 GLN B1070 -1 N ILE B1069 O GLU B1058 LINK OD2 ASP A 115 MN MN A2001 1555 1555 2.39 LINK OE2 GLU A 117 MN MN A2001 1555 1555 2.21 LINK OE2 GLU A 117 MN MN A2002 1555 1555 2.42 LINK OD2 ASP A 120 MN MN A2001 1555 1555 2.47 LINK OD1 ASP A 120 MN MN A2002 1555 1555 2.34 LINK OD2 ASP A 147 MN MN A2004 1555 1555 2.28 LINK OD1 ASP A 152 MN MN A2001 1555 1555 2.32 LINK OD2 ASP A 152 MN MN A2004 1555 1555 2.40 LINK MN MN A2001 O4 PO4 A3002 1555 1555 2.28 LINK MN MN A2002 O1 PO4 A3002 1555 1555 1.99 LINK MN MN A2003 O1 PO4 A3001 1555 1555 2.26 LINK MN MN A2003 O HOH A4414 1555 1555 1.91 LINK MN MN A2004 O4 PO4 A3001 1555 1555 2.27 LINK MN MN A2004 O4 PO4 A3002 1555 1555 2.44 LINK MN MN A2004 O HOH A4009 1555 1555 2.08 LINK MN MN A2004 O HOH A4010 1555 1555 2.29 LINK OD2 ASP B1115 MN MN B2005 1555 1555 2.33 LINK OE2 GLU B1117 MN MN B2005 1555 1555 2.35 LINK OE2 GLU B1117 MN MN B2006 1555 1555 2.39 LINK OE1 GLU B1117 MN MN B2007 1555 1555 2.44 LINK OD1 ASP B1120 MN MN B2006 1555 1555 2.32 LINK OD2 ASP B1147 MN MN B2008 1555 1555 2.26 LINK OD1 ASP B1152 MN MN B2005 1555 1555 2.31 LINK OD2 ASP B1152 MN MN B2008 1555 1555 2.34 LINK MN MN B2005 O4 PO4 B3004 1555 1555 2.27 LINK MN MN B2006 O1 PO4 B3004 1555 1555 2.05 LINK MN MN B2006 O HOH B4014 1555 1555 2.26 LINK MN MN B2006 O HOH B4015 1555 1555 2.23 LINK MN MN B2007 O2 PO4 B3004 1555 1555 2.11 LINK MN MN B2007 O HOH B4417 1555 1555 2.14 LINK MN MN B2008 O4 PO4 B3004 1555 1555 2.14 LINK MN MN B2008 O HOH B4019 1555 1555 2.29 LINK MN MN B2008 O HOH B4416 1555 1555 2.21 CISPEP 1 PHE A 84 PRO A 85 0 0.35 CISPEP 2 PHE B 1084 PRO B 1085 0 0.25 SITE 1 MN1 4 GLU A 117 ASP A 152 ASP A 115 ASP A 120 SITE 1 MN2 3 GLU A 117 TYR A 93 ASP A 120 SITE 1 MN4 2 ASP A 152 ASP A 147 SITE 1 MN5 4 GLU B1117 ASP B1152 ASP B1115 ASP B1120 SITE 1 MN6 3 GLU B1117 TYR B1093 ASP B1120 SITE 1 MN8 2 ASP B1152 ASP B1147 SITE 1 AC1 7 ASP A 115 GLU A 117 ASP A 120 ASP A 152 SITE 2 AC1 7 MN A2002 PO4 A3002 HOH A4002 SITE 1 AC2 7 GLU A 117 ASP A 120 MN A2001 PO4 A3002 SITE 2 AC2 7 HOH A4003 HOH A4004 HOH A4005 SITE 1 AC3 5 PO4 A3001 HOH A4006 HOH A4008 HOH A4405 SITE 2 AC3 5 HOH A4414 SITE 1 AC4 6 ASP A 147 ASP A 152 PO4 A3001 PO4 A3002 SITE 2 AC4 6 HOH A4009 HOH A4010 SITE 1 AC5 8 ASP B1115 GLU B1117 ASP B1120 ASP B1152 SITE 2 AC5 8 MN B2006 MN B2008 PO4 B3004 HOH B4012 SITE 1 AC6 7 GLU B1117 ASP B1120 MN B2005 PO4 B3004 SITE 2 AC6 7 HOH B4013 HOH B4014 HOH B4015 SITE 1 AC7 6 GLU B1058 GLU B1117 PO4 B3004 HOH B4016 SITE 2 AC7 6 HOH B4017 HOH B4417 SITE 1 AC8 7 ASP B1147 ASP B1152 MN B2005 PO4 B3004 SITE 2 AC8 7 HOH B4019 HOH B4020 HOH B4416 SITE 1 AC9 11 LYS A 56 ARG A 78 ASP A 147 TYR A 192 SITE 2 AC9 11 LYS A 193 MN A2003 MN A2004 PO4 A3002 SITE 3 AC9 11 HOH A4006 HOH A4182 HOH A4414 SITE 1 BC1 14 LYS A 56 TYR A 93 ASP A 115 GLU A 117 SITE 2 BC1 14 ASP A 120 ASP A 152 MN A2001 MN A2002 SITE 3 BC1 14 MN A2004 PO4 A3001 HOH A4006 HOH A4010 SITE 4 BC1 14 HOH A4401 HOH A4405 SITE 1 BC2 16 LYS B1056 TYR B1093 ASP B1115 GLU B1117 SITE 2 BC2 16 ASP B1120 ASP B1152 LYS B1154 MN B2005 SITE 3 BC2 16 MN B2006 MN B2007 MN B2008 HOH B4017 SITE 4 BC2 16 HOH B4020 HOH B4056 HOH B4409 HOH B4416 CRYST1 58.400 102.800 116.700 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 0.017123 0.000000 0.000000 0.00000 SCALE2 0.000000 0.009728 0.000000 0.00000 SCALE3 0.000000 0.000000 0.008569 0.00000 MTRIX1 1 0.798845 0.601385 0.013493 34.92260 1 MTRIX2 1 0.601466 -0.798894 -0.002595 -103.10710 1 MTRIX3 1 0.009219 0.010188 -0.999906 -89.94470 1