HEADER HYDROLASE 19-APR-11 3RL4 TITLE RAT METALLOPHOSPHODIESTERASE MPPED2 G252H MUTANT COMPND MOL_ID: 1; COMPND 2 MOLECULE: METALLOPHOSPHOESTERASE MPPED2; COMPND 3 CHAIN: A; COMPND 4 SYNONYM: 239FB, FETAL BRAIN PROTEIN 239 HOMOLOG, COMPND 5 METALLOPHOSPHOESTERASE DOMAIN-CONTAINING PROTEIN 2; COMPND 6 EC: 3.1.-.-; COMPND 7 ENGINEERED: YES; COMPND 8 MUTATION: YES SOURCE MOL_ID: 1; SOURCE 2 ORGANISM_SCIENTIFIC: RATTUS NORVEGICUS; SOURCE 3 ORGANISM_COMMON: BROWN RAT,RAT,RATS; SOURCE 4 ORGANISM_TAXID: 10116; SOURCE 5 GENE: MPPED2; 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: PPROEXHTC KEYWDS ALPHA-BETA FOLD, METALLOPHOSPHODIESTERASE, ACTIVE SITE MUTANT, GMP, KEYWDS 2 HYDROLASE EXPDTA X-RAY DIFFRACTION AUTHOR M.PODOBNIK,U.DERMOL REVDAT 4 28-FEB-24 3RL4 1 REMARK SEQADV LINK REVDAT 3 08-NOV-17 3RL4 1 REMARK REVDAT 2 04-JAN-12 3RL4 1 JRNL REVDAT 1 10-AUG-11 3RL4 0 JRNL AUTH U.DERMOL,V.JANARDAN,R.TYAGI,S.S.VISWESWARIAH,M.PODOBNIK JRNL TITL UNIQUE UTILIZATION OF A PHOSPHOPROTEIN PHOSPHATASE FOLD BY A JRNL TITL 2 MAMMALIAN PHOSPHODIESTERASE ASSOCIATED WITH WAGR SYNDROME. JRNL REF J.MOL.BIOL. V. 412 481 2011 JRNL REFN ISSN 0022-2836 JRNL PMID 21824479 JRNL DOI 10.1016/J.JMB.2011.07.060 REMARK 1 REMARK 1 REFERENCE 1 REMARK 1 AUTH R.TYAGI,A.R.SHENOY,S.S.VISWESWARIAH REMARK 1 TITL CHARACTERIZATION OF AN EVOLUTIONATILY CONSERVED REMARK 1 TITL 2 METALLOPHOSPHOESTERASE THAT IS EXPRESSED IN THE FETAL BRAIN REMARK 1 TITL 3 AND ASSOCIATED WITH THE WAGR SYNDROME REMARK 1 REF J.BIOL.CHEM. V. 284 5217 2009 REMARK 1 REFN ISSN 0021-9258 REMARK 1 PMID 19004815 REMARK 1 REFERENCE 2 REMARK 1 AUTH M.PODOBNIK,R.TYAGI,N.MATANGE,U.DERMOL,A.K.GUPTA,R.MATTOO, REMARK 1 AUTH 2 K.SESHARDI,S.S.VISWESWARIAH REMARK 1 TITL A MYCOBACTERIAL CYCLIC AMP PHOSPHODIESTERASE THAT MOONLIGHTS REMARK 1 TITL 2 AS A MODIFIER OF CELL WALL PERMEABILITY REMARK 1 REF J.BIOL.CHEM. V. 284 32846 2009 REMARK 1 REFN ISSN 0021-9258 REMARK 1 PMID 19801656 REMARK 1 REFERENCE 3 REMARK 1 AUTH A.R.SHENOY,M.CAPUDER,P.DRASKOVIC,D.LAMBA,S.S.VISWESWARIAH, REMARK 1 AUTH 2 M.PODOBNIK REMARK 1 TITL STRUCTURAL AND BIOCHEMICAL ANALYSIS OF THE RV0805 CYCLIC REMARK 1 TITL 2 NUCLEOTIDE PHOSPHODIESTERASE FROM MYCOBACTERIUM TUBERCULOSIS REMARK 1 REF J.MOL.BIOL. V. 365 211 2007 REMARK 1 REFN ISSN 0022-2836 REMARK 1 PMID 17059828 REMARK 1 REFERENCE 4 REMARK 1 AUTH A.R.SHENOY,N.SREENATH,M.PODOBNIK,M.KOVACEVIC, REMARK 1 AUTH 2 S.S.VISWESWARIAH REMARK 1 TITL THE RV0805 GENE FROM MYCOBACTERIUM TUBERCULOSIS ENCODES A REMARK 1 TITL 2 3',5'-CYCLIC NUCLEOTIDE PHOSPHODIESTERASE: BIOCHEMICAL AND REMARK 1 TITL 3 MUTATIONAL ANALYSIS REMARK 1 REF BIOCHEMISTRY V. 44 15695 2005 REMARK 1 REFN ISSN 0006-2960 REMARK 1 PMID 16313172 REMARK 2 REMARK 2 RESOLUTION. 1.29 ANGSTROMS. REMARK 3 REMARK 3 REFINEMENT. REMARK 3 PROGRAM : REFMAC REMARK 3 AUTHORS : MURSHUDOV,SKUBAK,LEBEDEV,PANNU,STEINER, REMARK 3 : NICHOLLS,WINN,LONG,VAGIN REMARK 3 REMARK 3 REFINEMENT TARGET : MAXIMUM LIKELIHOOD REMARK 3 REMARK 3 DATA USED IN REFINEMENT. REMARK 3 RESOLUTION RANGE HIGH (ANGSTROMS) : 1.29 REMARK 3 RESOLUTION RANGE LOW (ANGSTROMS) : 19.68 REMARK 3 DATA CUTOFF (SIGMA(F)) : 0.000 REMARK 3 COMPLETENESS FOR RANGE (%) : 97.2 REMARK 3 NUMBER OF REFLECTIONS : 74916 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 + TEST SET) : 0.168 REMARK 3 R VALUE (WORKING SET) : 0.165 REMARK 3 FREE R VALUE : 0.191 REMARK 3 FREE R VALUE TEST SET SIZE (%) : 10.100 REMARK 3 FREE R VALUE TEST SET COUNT : 7557 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) : 1.29 REMARK 3 BIN RESOLUTION RANGE LOW (A) : 1.33 REMARK 3 REFLECTION IN BIN (WORKING SET) : 4591 REMARK 3 BIN COMPLETENESS (WORKING+TEST) (%) : 90.64 REMARK 3 BIN R VALUE (WORKING SET) : 0.1980 REMARK 3 BIN FREE R VALUE SET COUNT : 530 REMARK 3 BIN FREE R VALUE : 0.2260 REMARK 3 REMARK 3 NUMBER OF NON-HYDROGEN ATOMS USED IN REFINEMENT. REMARK 3 PROTEIN ATOMS : 2213 REMARK 3 NUCLEIC ACID ATOMS : 0 REMARK 3 HETEROGEN ATOMS : 37 REMARK 3 SOLVENT ATOMS : 293 REMARK 3 REMARK 3 B VALUES. REMARK 3 FROM WILSON PLOT (A**2) : 13.88 REMARK 3 MEAN B VALUE (OVERALL, A**2) : 20.24 REMARK 3 OVERALL ANISOTROPIC B VALUE. REMARK 3 B11 (A**2) : 1.34000 REMARK 3 B22 (A**2) : 0.19000 REMARK 3 B33 (A**2) : -1.62000 REMARK 3 B12 (A**2) : 0.00000 REMARK 3 B13 (A**2) : -0.20000 REMARK 3 B23 (A**2) : 0.00000 REMARK 3 REMARK 3 ESTIMATED OVERALL COORDINATE ERROR. REMARK 3 ESU BASED ON R VALUE (A): NULL REMARK 3 ESU BASED ON FREE R VALUE (A): 0.050 REMARK 3 ESU BASED ON MAXIMUM LIKELIHOOD (A): 0.028 REMARK 3 ESU FOR B VALUES BASED ON MAXIMUM LIKELIHOOD (A**2): 1.411 REMARK 3 REMARK 3 CORRELATION COEFFICIENTS. REMARK 3 CORRELATION COEFFICIENT FO-FC : 0.968 REMARK 3 CORRELATION COEFFICIENT FO-FC FREE : 0.958 REMARK 3 REMARK 3 RMS DEVIATIONS FROM IDEAL VALUES COUNT RMS WEIGHT REMARK 3 BOND LENGTHS REFINED ATOMS (A): 2315 ; 0.009 ; 0.022 REMARK 3 BOND LENGTHS OTHERS (A): NULL ; NULL ; NULL REMARK 3 BOND ANGLES REFINED ATOMS (DEGREES): 3168 ; 1.295 ; 1.961 REMARK 3 BOND ANGLES OTHERS (DEGREES): NULL ; NULL ; NULL REMARK 3 TORSION ANGLES, PERIOD 1 (DEGREES): 273 ; 6.383 ; 5.000 REMARK 3 TORSION ANGLES, PERIOD 2 (DEGREES): 109 ;36.622 ;24.128 REMARK 3 TORSION ANGLES, PERIOD 3 (DEGREES): 348 ;11.322 ;15.000 REMARK 3 TORSION ANGLES, PERIOD 4 (DEGREES): 10 ;13.559 ;15.000 REMARK 3 CHIRAL-CENTER RESTRAINTS (A**3): 342 ; 0.091 ; 0.200 REMARK 3 GENERAL PLANES REFINED ATOMS (A): 1800 ; 0.006 ; 0.020 REMARK 3 GENERAL PLANES OTHERS (A): NULL ; NULL ; NULL REMARK 3 NON-BONDED CONTACTS REFINED ATOMS (A): 1060 ; 0.197 ; 0.200 REMARK 3 NON-BONDED CONTACTS OTHERS (A): NULL ; NULL ; NULL REMARK 3 NON-BONDED TORSION REFINED ATOMS (A): 1606 ; 0.316 ; 0.200 REMARK 3 NON-BONDED TORSION OTHERS (A): NULL ; NULL ; NULL REMARK 3 H-BOND (X...Y) REFINED ATOMS (A): 226 ; 0.095 ; 0.200 REMARK 3 H-BOND (X...Y) OTHERS (A): NULL ; NULL ; NULL REMARK 3 POTENTIAL METAL-ION REFINED ATOMS (A): NULL ; NULL ; NULL REMARK 3 POTENTIAL METAL-ION OTHERS (A): NULL ; NULL ; NULL REMARK 3 SYMMETRY VDW REFINED ATOMS (A): 37 ; 0.166 ; 0.200 REMARK 3 SYMMETRY VDW OTHERS (A): NULL ; NULL ; NULL REMARK 3 SYMMETRY H-BOND REFINED ATOMS (A): 18 ; 0.044 ; 0.200 REMARK 3 SYMMETRY H-BOND OTHERS (A): NULL ; NULL ; NULL REMARK 3 SYMMETRY METAL-ION REFINED ATOMS (A): NULL ; NULL ; NULL REMARK 3 SYMMETRY METAL-ION OTHERS (A): NULL ; NULL ; NULL REMARK 3 REMARK 3 ISOTROPIC THERMAL FACTOR RESTRAINTS. COUNT RMS WEIGHT REMARK 3 MAIN-CHAIN BOND REFINED ATOMS (A**2): 1398 ; 1.092 ; 1.500 REMARK 3 MAIN-CHAIN BOND OTHER ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 MAIN-CHAIN ANGLE REFINED ATOMS (A**2): 2262 ; 1.683 ; 2.000 REMARK 3 MAIN-CHAIN ANGLE OTHER ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 SIDE-CHAIN BOND REFINED ATOMS (A**2): 1043 ; 2.510 ; 3.000 REMARK 3 SIDE-CHAIN BOND OTHER ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 SIDE-CHAIN ANGLE REFINED ATOMS (A**2): 906 ; 2.844 ; 4.500 REMARK 3 SIDE-CHAIN ANGLE OTHER ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 LONG RANGE B REFINED ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 LONG RANGE B OTHER ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 REMARK 3 ANISOTROPIC THERMAL FACTOR RESTRAINTS. COUNT RMS WEIGHT REMARK 3 RIGID-BOND RESTRAINTS (A**2): 2441 ; 2.113 ; 3.000 REMARK 3 SPHERICITY; FREE ATOMS (A**2): 302 ; 4.084 ; 3.000 REMARK 3 SPHERICITY; BONDED ATOMS (A**2): 2241 ; 2.836 ; 3.000 REMARK 3 REMARK 3 NCS RESTRAINTS STATISTICS REMARK 3 NUMBER OF DIFFERENT NCS GROUPS : NULL REMARK 3 REMARK 3 TLS DETAILS REMARK 3 NUMBER OF TLS GROUPS : NULL REMARK 3 REMARK 3 BULK SOLVENT MODELLING. REMARK 3 METHOD USED : BABINET MODEL WITH MASK REMARK 3 PARAMETERS FOR MASK CALCULATION REMARK 3 VDW PROBE RADIUS : 1.20 REMARK 3 ION PROBE RADIUS : 0.80 REMARK 3 SHRINKAGE RADIUS : 0.80 REMARK 3 REMARK 3 OTHER REFINEMENT REMARKS: HYDROGENS HAVE BEEN ADDED IN THE RIDING REMARK 3 POSITIONS REMARK 4 REMARK 4 3RL4 COMPLIES WITH FORMAT V. 3.30, 13-JUL-11 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY RCSB ON 28-APR-11. REMARK 100 THE DEPOSITION ID IS D_1000065066. REMARK 200 REMARK 200 EXPERIMENTAL DETAILS REMARK 200 EXPERIMENT TYPE : X-RAY DIFFRACTION REMARK 200 DATE OF DATA COLLECTION : 22-JAN-09 REMARK 200 TEMPERATURE (KELVIN) : 100 REMARK 200 PH : 5.2 REMARK 200 NUMBER OF CRYSTALS USED : 1 REMARK 200 REMARK 200 SYNCHROTRON (Y/N) : Y REMARK 200 RADIATION SOURCE : ELETTRA REMARK 200 BEAMLINE : 5.2R REMARK 200 X-RAY GENERATOR MODEL : NULL REMARK 200 MONOCHROMATIC OR LAUE (M/L) : M REMARK 200 WAVELENGTH OR RANGE (A) : 0.99996 REMARK 200 MONOCHROMATOR : DOUBLE CRYSTAL SI111 REMARK 200 OPTICS : MONOCHROMATORS, MIRRORS REMARK 200 REMARK 200 DETECTOR TYPE : CCD REMARK 200 DETECTOR MANUFACTURER : MAR CCD 165 MM REMARK 200 INTENSITY-INTEGRATION SOFTWARE : DENZO REMARK 200 DATA SCALING SOFTWARE : SCALEPACK REMARK 200 REMARK 200 NUMBER OF UNIQUE REFLECTIONS : 74944 REMARK 200 RESOLUTION RANGE HIGH (A) : 1.290 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 (%) : 97.1 REMARK 200 DATA REDUNDANCY : 4.000 REMARK 200 R MERGE (I) : 0.10600 REMARK 200 R SYM (I) : NULL REMARK 200 FOR THE DATA SET : 12.4000 REMARK 200 REMARK 200 IN THE HIGHEST RESOLUTION SHELL. REMARK 200 HIGHEST RESOLUTION SHELL, RANGE HIGH (A) : 1.29 REMARK 200 HIGHEST RESOLUTION SHELL, RANGE LOW (A) : 1.32 REMARK 200 COMPLETENESS FOR SHELL (%) : 89.7 REMARK 200 DATA REDUNDANCY IN SHELL : 3.50 REMARK 200 R MERGE FOR SHELL (I) : 0.37800 REMARK 200 R SYM FOR SHELL (I) : NULL REMARK 200 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: PHASER 1.3.1 REMARK 200 STARTING MODEL: NULL REMARK 200 REMARK 200 REMARK: NULL REMARK 280 REMARK 280 CRYSTAL REMARK 280 SOLVENT CONTENT, VS (%): 47.25 REMARK 280 MATTHEWS COEFFICIENT, VM (ANGSTROMS**3/DA): 2.33 REMARK 280 REMARK 280 CRYSTALLIZATION CONDITIONS: MNCL2, PEG 3350, PH 5.2, VAPOR REMARK 280 DIFFUSION, HANGING DROP, TEMPERATURE 293K 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 49.03000 REMARK 290 SMTRY2 3 0.000000 1.000000 0.000000 34.69250 REMARK 290 SMTRY3 3 0.000000 0.000000 1.000000 0.00000 REMARK 290 SMTRY1 4 -1.000000 0.000000 0.000000 49.03000 REMARK 290 SMTRY2 4 0.000000 1.000000 0.000000 34.69250 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 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 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 -1 REMARK 465 ALA A 0 REMARK 465 MET A 1 REMARK 465 ALA A 2 REMARK 465 HIS A 3 REMARK 465 GLY A 4 REMARK 465 ILE A 5 REMARK 465 PRO A 6 REMARK 465 SER A 7 REMARK 465 GLN A 8 REMARK 465 GLY A 9 REMARK 465 LYS A 10 REMARK 465 LYS A 132 REMARK 465 GLN A 133 REMARK 465 ASP A 134 REMARK 465 TYR A 135 REMARK 465 TYR A 136 REMARK 465 ARG A 137 REMARK 465 GLN A 292 REMARK 465 GLY A 293 REMARK 465 SER A 294 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 ARG A 69 55.02 -107.00 REMARK 500 THR A 84 31.73 -99.69 REMARK 500 PHE A 183 -54.35 -125.22 REMARK 500 TRP A 186 -155.92 -80.74 REMARK 500 HIS A 252 -54.11 73.46 REMARK 500 TYR A 257 129.71 -38.37 REMARK 500 TYR A 264 -58.22 -132.92 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 A 772 MN REMARK 620 N RES CSSEQI ATOM REMARK 620 1 ASP A 45 OD2 REMARK 620 2 HOH A 508 O 75.6 REMARK 620 3 HOH A 509 O 74.4 70.7 REMARK 620 N 1 2 REMARK 620 REMARK 620 COORDINATION ANGLES FOR: M RES CSSEQI METAL REMARK 620 MN A 444 MN REMARK 620 N RES CSSEQI ATOM REMARK 620 1 ASP A 65 OD1 REMARK 620 2 HIS A 67 NE2 108.0 REMARK 620 3 ASP A 86 OD2 83.6 95.0 REMARK 620 4 HIS A 254 NE2 89.1 94.5 169.5 REMARK 620 5 HOH A 467 O 80.6 164.0 72.2 99.2 REMARK 620 6 5GP A 951 O2P 161.8 88.4 87.1 97.7 81.6 REMARK 620 N 1 2 3 4 5 REMARK 620 REMARK 620 COORDINATION ANGLES FOR: M RES CSSEQI METAL REMARK 620 MN A 555 MN REMARK 620 N RES CSSEQI ATOM REMARK 620 1 ASP A 86 OD2 REMARK 620 2 ASN A 117 OD1 100.5 REMARK 620 3 HIS A 213 NE2 88.4 85.6 REMARK 620 4 HIS A 252 ND1 166.1 92.1 86.8 REMARK 620 5 HOH A 467 O 74.3 163.5 109.6 95.0 REMARK 620 6 5GP A 951 O1P 93.3 85.1 170.8 93.5 79.6 REMARK 620 N 1 2 3 4 5 REMARK 620 REMARK 620 COORDINATION ANGLES FOR: M RES CSSEQI METAL REMARK 620 MN A 771 MN REMARK 620 N RES CSSEQI ATOM REMARK 620 1 GLU A 109 OE2 REMARK 620 2 HOH A 498 O 83.9 REMARK 620 3 HOH A 499 O 88.8 171.0 REMARK 620 4 HOH A 500 O 87.1 83.0 101.9 REMARK 620 5 HOH A 564 O 152.6 78.6 110.1 70.0 REMARK 620 N 1 2 3 4 REMARK 620 REMARK 620 COORDINATION ANGLES FOR: M RES CSSEQI METAL REMARK 620 MN A 666 MN REMARK 620 N RES CSSEQI ATOM REMARK 620 1 GLU A 147 OE1 REMARK 620 2 GLU A 147 O 95.2 REMARK 620 3 ASP A 150 OD1 97.7 85.3 REMARK 620 4 HOH A 532 O 121.1 86.7 140.9 REMARK 620 N 1 2 3 REMARK 620 REMARK 620 COORDINATION ANGLES FOR: M RES CSSEQI METAL REMARK 620 MN A 775 MN REMARK 620 N RES CSSEQI ATOM REMARK 620 1 GLU A 205 O REMARK 620 2 VAL A 243 O 89.5 REMARK 620 3 HOH A 413 O 168.4 86.9 REMARK 620 4 HOH A 510 O 84.3 91.3 84.8 REMARK 620 5 HOH A 511 O 89.7 94.1 101.6 171.8 REMARK 620 6 HOH A 517 O 94.0 169.9 91.5 98.4 76.4 REMARK 620 N 1 2 3 4 5 REMARK 620 REMARK 620 COORDINATION ANGLES FOR: M RES CSSEQI METAL REMARK 620 MN A 774 MN REMARK 620 N RES CSSEQI ATOM REMARK 620 1 GLY A 206 O REMARK 620 2 ASP A 208 OD1 94.5 REMARK 620 N 1 REMARK 620 REMARK 620 COORDINATION ANGLES FOR: M RES CSSEQI METAL REMARK 620 MN A 773 MN REMARK 620 N RES CSSEQI ATOM REMARK 620 1 ASP A 208 OD1 REMARK 620 2 HOH A 563 O 122.9 REMARK 620 3 HOH A 590 O 111.2 71.6 REMARK 620 N 1 2 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 444 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC2 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE MN A 555 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC3 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE MN A 666 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC4 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE MN A 771 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC5 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE MN A 772 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC6 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE MN A 773 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC7 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE MN A 774 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC8 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE MN A 775 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC9 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE CL A 888 REMARK 800 REMARK 800 SITE_IDENTIFIER: BC1 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE 5GP A 951 REMARK 800 REMARK 800 SITE_IDENTIFIER: BC2 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE EDO A 333 REMARK 900 REMARK 900 RELATED ENTRIES REMARK 900 RELATED ID: 3IB7 RELATED DB: PDB REMARK 900 CRYSTAL STRUCTURE OF FULL LENGTH RV0805 REMARK 900 RELATED ID: 3IB8 RELATED DB: PDB REMARK 900 CRYSTAL STRUCTURE OF FULL LENGTH RV0805 IN COMPLEX WITH 5'-AMP REMARK 900 RELATED ID: 2HY1 RELATED DB: PDB REMARK 900 CRYSTAL STRUCTURE OF RV0805 REMARK 900 RELATED ID: 2HY0 RELATED DB: PDB REMARK 900 CRYSTAL STRUCTURE OF RV0805 N97A MUTANT REMARK 900 RELATED ID: 2HYP RELATED DB: PDB REMARK 900 CRYSTAL STRUCTURE OF RV0805 D66A MUTANT REMARK 900 RELATED ID: 3RL3 RELATED DB: PDB REMARK 900 RELATED ID: 3RL5 RELATED DB: PDB DBREF 3RL4 A 1 294 UNP B1WBP0 MPPD2_RAT 1 294 SEQADV 3RL4 GLY A -1 UNP B1WBP0 EXPRESSION TAG SEQADV 3RL4 ALA A 0 UNP B1WBP0 EXPRESSION TAG SEQADV 3RL4 HIS A 252 UNP B1WBP0 GLY 252 ENGINEERED MUTATION SEQRES 1 A 296 GLY ALA MET ALA HIS GLY ILE PRO SER GLN GLY LYS VAL SEQRES 2 A 296 THR ILE THR VAL ASP GLU TYR SER SER ASN PRO THR GLN SEQRES 3 A 296 ALA PHE THR HIS TYR ASN ILE ASN GLN SER ARG PHE GLN SEQRES 4 A 296 PRO PRO HIS VAL HIS MET VAL ASP PRO ILE PRO TYR ASP SEQRES 5 A 296 THR PRO LYS PRO ALA GLY HIS THR ARG PHE VAL CYS ILE SEQRES 6 A 296 SER ASP THR HIS SER ARG THR ASP GLY ILE GLN MET PRO SEQRES 7 A 296 TYR GLY ASP ILE LEU LEU HIS THR GLY ASP PHE THR GLU SEQRES 8 A 296 LEU GLY LEU PRO SER GLU VAL LYS LYS PHE ASN ASP TRP SEQRES 9 A 296 LEU GLY ASN LEU PRO TYR GLU TYR LYS ILE VAL ILE ALA SEQRES 10 A 296 GLY ASN HIS GLU LEU THR PHE ASP LYS GLU PHE MET ALA SEQRES 11 A 296 ASP LEU VAL LYS GLN ASP TYR TYR ARG PHE PRO SER VAL SEQRES 12 A 296 SER LYS LEU LYS PRO GLU ASP PHE ASP ASN VAL GLN SER SEQRES 13 A 296 LEU LEU THR ASN SER ILE TYR LEU GLN ASP SER GLU VAL SEQRES 14 A 296 THR VAL LYS GLY PHE ARG ILE TYR GLY ALA PRO TRP THR SEQRES 15 A 296 PRO TRP PHE ASN GLY TRP GLY PHE ASN LEU PRO ARG GLY SEQRES 16 A 296 GLN SER LEU LEU ASP LYS TRP ASN LEU ILE PRO GLU GLY SEQRES 17 A 296 THR ASP ILE LEU MET THR HIS GLY PRO PRO LEU GLY PHE SEQRES 18 A 296 ARG ASP TRP VAL PRO LYS GLU LEU GLN ARG VAL GLY CYS SEQRES 19 A 296 VAL GLU LEU LEU ASN THR VAL GLN ARG ARG VAL ARG PRO SEQRES 20 A 296 LYS LEU HIS VAL PHE GLY HIS ILE HIS GLU GLY TYR GLY SEQRES 21 A 296 THR MET THR ASP GLY TYR THR THR TYR ILE ASN ALA SER SEQRES 22 A 296 THR CYS THR VAL SER PHE GLN PRO THR ASN PRO PRO ILE SEQRES 23 A 296 ILE PHE ASP LEU PRO ASN PRO GLN GLY SER HET MN A 444 1 HET MN A 555 1 HET MN A 666 1 HET MN A 771 1 HET MN A 772 1 HET MN A 773 1 HET MN A 774 1 HET MN A 775 1 HET CL A 888 1 HET 5GP A 951 24 HET EDO A 333 4 HETNAM MN MANGANESE (II) ION HETNAM CL CHLORIDE ION HETNAM 5GP GUANOSINE-5'-MONOPHOSPHATE HETNAM EDO 1,2-ETHANEDIOL HETSYN EDO ETHYLENE GLYCOL FORMUL 2 MN 8(MN 2+) FORMUL 10 CL CL 1- FORMUL 11 5GP C10 H14 N5 O8 P FORMUL 12 EDO C2 H6 O2 FORMUL 13 HOH *293(H2 O) HELIX 1 1 ASN A 21 SER A 34 1 14 HELIX 2 2 LEU A 92 ASN A 105 1 14 HELIX 3 3 GLU A 119 PHE A 122 5 4 HELIX 4 4 ASP A 123 LEU A 130 1 8 HELIX 5 5 PHE A 138 LYS A 143 1 6 HELIX 6 6 LYS A 145 ASP A 150 1 6 HELIX 7 7 VAL A 152 LEU A 156 5 5 HELIX 8 8 GLY A 193 ASN A 201 1 9 HELIX 9 9 CYS A 232 ARG A 242 1 11 HELIX 10 10 ILE A 253 TYR A 257 5 5 SHEET 1 A 7 HIS A 42 MET A 43 0 SHEET 2 A 7 GLY A 258 THR A 261 -1 O THR A 261 N HIS A 42 SHEET 3 A 7 THR A 266 ASN A 269 -1 O ASN A 269 N GLY A 258 SHEET 4 A 7 LEU A 247 PHE A 250 1 N HIS A 248 O THR A 266 SHEET 5 A 7 ILE A 209 THR A 212 1 N LEU A 210 O LEU A 247 SHEET 6 A 7 PHE A 172 ALA A 177 1 N TYR A 175 O MET A 211 SHEET 7 A 7 SER A 165 VAL A 169 -1 N VAL A 167 O ILE A 174 SHEET 1 B 5 ILE A 160 TYR A 161 0 SHEET 2 B 5 TYR A 110 VAL A 113 1 N LYS A 111 O ILE A 160 SHEET 3 B 5 ILE A 80 HIS A 83 1 N LEU A 81 O ILE A 112 SHEET 4 B 5 HIS A 57 ILE A 63 1 N VAL A 61 O LEU A 82 SHEET 5 B 5 ILE A 284 PRO A 289 -1 O PHE A 286 N PHE A 60 SHEET 1 C 2 THR A 180 PRO A 181 0 SHEET 2 C 2 ASN A 189 LEU A 190 1 O LEU A 190 N THR A 180 SHEET 1 D 2 TRP A 222 VAL A 223 0 SHEET 2 D 2 GLN A 228 ARG A 229 -1 O GLN A 228 N VAL A 223 LINK OD2 ASP A 45 MN MN A 772 1555 1555 2.38 LINK OD1 ASP A 65 MN MN A 444 1555 1555 2.07 LINK NE2 HIS A 67 MN MN A 444 1555 1555 2.16 LINK OD2 ASP A 86 MN MN A 444 1555 1555 2.25 LINK OD2 ASP A 86 MN MN A 555 1555 1555 2.26 LINK OE2 GLU A 109 MN MN A 771 1555 1555 2.30 LINK OD1 ASN A 117 MN MN A 555 1555 1555 2.12 LINK OE1 GLU A 147 MN MN A 666 1555 1555 2.04 LINK O GLU A 147 MN MN A 666 1555 1555 2.16 LINK OD1 ASP A 150 MN MN A 666 1555 1555 2.11 LINK O GLU A 205 MN MN A 775 1555 1555 2.17 LINK O GLY A 206 MN MN A 774 1555 1555 2.42 LINK OD1 ASP A 208 MN MN A 773 1555 1555 2.22 LINK OD1 ASP A 208 MN MN A 774 1555 1555 2.69 LINK NE2 HIS A 213 MN MN A 555 1555 1555 2.22 LINK O VAL A 243 MN MN A 775 1555 1555 2.06 LINK ND1 HIS A 252 MN MN A 555 1555 1555 2.27 LINK NE2 HIS A 254 MN MN A 444 1555 1555 2.23 LINK O HOH A 413 MN MN A 775 1555 1555 2.64 LINK MN MN A 444 O HOH A 467 1555 1555 2.08 LINK MN MN A 444 O2P 5GP A 951 1555 1555 2.11 LINK O HOH A 467 MN MN A 555 1555 1555 1.93 LINK O HOH A 498 MN MN A 771 1555 1555 2.20 LINK O HOH A 499 MN MN A 771 1555 1555 2.04 LINK O HOH A 500 MN MN A 771 1555 1555 2.19 LINK O HOH A 508 MN MN A 772 1555 1555 2.61 LINK O HOH A 509 MN MN A 772 1555 1555 2.04 LINK O HOH A 510 MN MN A 775 1555 1555 2.03 LINK O HOH A 511 MN MN A 775 1555 1555 2.05 LINK O HOH A 517 MN MN A 775 1555 1555 2.33 LINK O HOH A 532 MN MN A 666 1555 1555 1.97 LINK MN MN A 555 O1P 5GP A 951 1555 1555 2.17 LINK O HOH A 563 MN MN A 773 1555 1555 2.02 LINK O HOH A 564 MN MN A 771 1555 1555 2.06 LINK O HOH A 590 MN MN A 773 1555 1555 2.47 CISPEP 1 PRO A 38 PRO A 39 0 1.78 SITE 1 AC1 7 ASP A 65 HIS A 67 ASP A 86 HIS A 254 SITE 2 AC1 7 HOH A 467 MN A 555 5GP A 951 SITE 1 AC2 7 ASP A 86 ASN A 117 HIS A 213 HIS A 252 SITE 2 AC2 7 MN A 444 HOH A 467 5GP A 951 SITE 1 AC3 4 GLU A 147 ASP A 150 ASN A 151 HOH A 532 SITE 1 AC4 5 GLU A 109 HOH A 498 HOH A 499 HOH A 500 SITE 2 AC4 5 HOH A 564 SITE 1 AC5 3 ASP A 45 HOH A 508 HOH A 509 SITE 1 AC6 4 ASP A 208 HOH A 563 HOH A 590 MN A 774 SITE 1 AC7 4 GLY A 206 ASP A 208 HOH A 590 MN A 773 SITE 1 AC8 6 GLU A 205 VAL A 243 HOH A 413 HOH A 510 SITE 2 AC8 6 HOH A 511 HOH A 517 SITE 1 AC9 3 ARG A 220 ARG A 229 HOH A 322 SITE 1 BC1 21 HIS A 67 ASP A 86 ASN A 117 HIS A 118 SITE 2 BC1 21 PHE A 183 GLU A 226 VAL A 230 HIS A 252 SITE 3 BC1 21 HIS A 254 GLU A 255 VAL A 275 PHE A 277 SITE 4 BC1 21 HOH A 374 MN A 444 HOH A 447 HOH A 467 SITE 5 BC1 21 HOH A 476 HOH A 522 MN A 555 HOH A 586 SITE 6 BC1 21 HOH A 589 SITE 1 BC2 7 VAL A 44 ASP A 45 PRO A 46 THR A 259 SITE 2 BC2 7 ILE A 284 HOH A 330 HOH A 572 CRYST1 98.060 69.385 47.234 90.00 102.96 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 0.010198 0.000000 0.002346 0.00000 SCALE2 0.000000 0.014412 0.000000 0.00000 SCALE3 0.000000 0.000000 0.021724 0.00000