HEADER HYDROLASE 30-OCT-25 9T4I TITLE HUMAN DIPHOSPHOINOSITOL POLYPHOSPHATE PHOSPHOHYDROLASE 1 (DIPP1) R89S TITLE 2 MUTANT IN COMPLEX WITH IP6 COMPND MOL_ID: 1; COMPND 2 MOLECULE: DIPHOSPHOINOSITOL POLYPHOSPHATE PHOSPHOHYDROLASE 1; COMPND 3 CHAIN: A; COMPND 4 SYNONYM: DIPP-1,DIADENOSINE HEXAPHOSPHATE HYDROLASE,AP6A HYDROLASE, COMPND 5 ENDOPOLYPHOSPHATASE,NUCLEOSIDE DIPHOSPHATE-LINKED MOIETY X MOTIF 3, COMPND 6 NUDIX MOTIF 3,M7GPPPN-MRNA HYDROLASE,M7GPPPX DIPHOSPHATASE; COMPND 7 EC: 3.6.1.52,3.6.1.61,3.6.1.10,3.6.1.62,3.6.1.59; COMPND 8 ENGINEERED: YES; COMPND 9 MUTATION: YES; COMPND 10 OTHER_DETAILS: DELETION OF THE LAST 24 C-TERMINAL RESIDUES (149-172), COMPND 11 THE FIRST THREE AMINO ACIDS (GHM) REMAIN AS RESIDUAL RESIDUES AFTER COMPND 12 REMOVAL OF THE EXPRESSION TAG. SOURCE MOL_ID: 1; SOURCE 2 ORGANISM_SCIENTIFIC: HOMO SAPIENS; SOURCE 3 ORGANISM_COMMON: HUMAN; SOURCE 4 ORGANISM_TAXID: 9606; SOURCE 5 GENE: NUDT3, DIPP, DIPP1; SOURCE 6 EXPRESSION_SYSTEM: ESCHERICHIA COLI BL21; SOURCE 7 EXPRESSION_SYSTEM_TAXID: 511693; SOURCE 8 EXPRESSION_SYSTEM_STRAIN: STAR KEYWDS INOSITOL METABOLISM, PHOSPHATASE, NUDIX HYDROLASES, DIPP1, IP6, KEYWDS 2 HYDROLASE EXPDTA X-RAY DIFFRACTION AUTHOR D.CASAS-FLOREZ,M.A.MARQUEZ-MONINO,B.GONZALEZ REVDAT 1 10-JUN-26 9T4I 0 JRNL AUTH D.CASAS-FLOREZ,H.WHITFIELD,J.M.PEREZ-CANADILLAS, JRNL AUTH 2 B.MONTERROSO,A.M.RILEY,M.A.MARQUEZ-MONINO,M.L.SHIPTON, JRNL AUTH 3 J.SANZ-APARICIO,C.A.BREARLEY,B.V.L.POTTER,B.GONZALEZ JRNL TITL THE DIPP1 FAMILY BINDS IP 8 IN CATALYTICALLY-PRODUCTIVE JRNL TITL 2 TWIST-BOAT AND CHAIR CONFORMATIONS AND ASSOCIATES IN A JRNL TITL 3 LIGAND-DEPENDENT MANNER. JRNL REF INT.J.BIOL.MACROMOL. 52715 2026 JRNL REFN ISSN 0141-8130 JRNL PMID 42202926 JRNL DOI 10.1016/J.IJBIOMAC.2026.152715 REMARK 2 REMARK 2 RESOLUTION. 1.41 ANGSTROMS. REMARK 3 REMARK 3 REFINEMENT. REMARK 3 PROGRAM : REFMAC 5.8.0419 REMARK 3 AUTHORS : MURSHUDOV,SKUBAK,LEBEDEV,PANNU,STEINER, REMARK 3 : NICHOLLS,WINN,LONG,VAGIN REMARK 3 REMARK 3 REFINEMENT TARGET : NULL REMARK 3 REMARK 3 DATA USED IN REFINEMENT. REMARK 3 RESOLUTION RANGE HIGH (ANGSTROMS) : 1.41 REMARK 3 RESOLUTION RANGE LOW (ANGSTROMS) : 39.47 REMARK 3 DATA CUTOFF (SIGMA(F)) : NULL REMARK 3 COMPLETENESS FOR RANGE (%) : 81.0 REMARK 3 NUMBER OF REFLECTIONS : 28541 REMARK 3 REMARK 3 FIT TO DATA USED IN REFINEMENT. REMARK 3 CROSS-VALIDATION METHOD : FREE R-VALUE REMARK 3 FREE R VALUE TEST SET SELECTION : NULL REMARK 3 R VALUE (WORKING + TEST SET) : NULL REMARK 3 R VALUE (WORKING SET) : 0.170 REMARK 3 FREE R VALUE : 0.211 REMARK 3 FREE R VALUE TEST SET SIZE (%) : 4.832 REMARK 3 FREE R VALUE TEST SET COUNT : 1379 REMARK 3 REMARK 3 FIT IN THE HIGHEST RESOLUTION BIN. REMARK 3 TOTAL NUMBER OF BINS USED : NULL REMARK 3 BIN RESOLUTION RANGE HIGH (A) : 1.41 REMARK 3 BIN RESOLUTION RANGE LOW (A) : 1.45 REMARK 3 REFLECTION IN BIN (WORKING SET) : 95 REMARK 3 BIN COMPLETENESS (WORKING+TEST) (%) : 3.94 REMARK 3 BIN R VALUE (WORKING SET) : 0.2880 REMARK 3 BIN FREE R VALUE SET COUNT : 6 REMARK 3 BIN FREE R VALUE : 0.2430 REMARK 3 REMARK 3 NUMBER OF NON-HYDROGEN ATOMS USED IN REFINEMENT. REMARK 3 PROTEIN ATOMS : 1174 REMARK 3 NUCLEIC ACID ATOMS : 0 REMARK 3 HETEROGEN ATOMS : 47 REMARK 3 SOLVENT ATOMS : 215 REMARK 3 REMARK 3 B VALUES. REMARK 3 FROM WILSON PLOT (A**2) : 13.90 REMARK 3 MEAN B VALUE (OVERALL, A**2) : 16.49 REMARK 3 OVERALL ANISOTROPIC B VALUE. REMARK 3 B11 (A**2) : -0.13200 REMARK 3 B22 (A**2) : 0.10900 REMARK 3 B33 (A**2) : 0.02300 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 OVERALL COORDINATE ERROR. REMARK 3 ESU BASED ON R VALUE (A): 0.071 REMARK 3 ESU BASED ON FREE R VALUE (A): 0.078 REMARK 3 ESU BASED ON MAXIMUM LIKELIHOOD (A): 0.051 REMARK 3 ESU FOR B VALUES BASED ON MAXIMUM LIKELIHOOD (A**2): 1.349 REMARK 3 REMARK 3 CORRELATION COEFFICIENTS. REMARK 3 CORRELATION COEFFICIENT FO-FC : 0.965 REMARK 3 CORRELATION COEFFICIENT FO-FC FREE : 0.946 REMARK 3 REMARK 3 RMS DEVIATIONS FROM IDEAL VALUES COUNT RMS WEIGHT REMARK 3 BOND LENGTHS REFINED ATOMS (A): 1380 ; 0.010 ; 0.012 REMARK 3 BOND LENGTHS OTHERS (A): 1226 ; 0.001 ; 0.016 REMARK 3 BOND ANGLES REFINED ATOMS (DEGREES): 1896 ; 1.900 ; 1.882 REMARK 3 BOND ANGLES OTHERS (DEGREES): 2847 ; 0.651 ; 1.775 REMARK 3 TORSION ANGLES, PERIOD 1 (DEGREES): 164 ; 6.479 ; 5.000 REMARK 3 TORSION ANGLES, PERIOD 2 (DEGREES): 12 ; 8.851 ; 5.000 REMARK 3 TORSION ANGLES, PERIOD 3 (DEGREES): 235 ;13.349 ;10.000 REMARK 3 TORSION ANGLES, PERIOD 4 (DEGREES): NULL ; NULL ; NULL REMARK 3 CHIRAL-CENTER RESTRAINTS (A**3): 209 ; 0.091 ; 0.200 REMARK 3 GENERAL PLANES REFINED ATOMS (A): 1611 ; 0.009 ; 0.020 REMARK 3 GENERAL PLANES OTHERS (A): 311 ; 0.002 ; 0.020 REMARK 3 NON-BONDED CONTACTS REFINED ATOMS (A): 213 ; 0.205 ; 0.200 REMARK 3 NON-BONDED CONTACTS OTHERS (A): 35 ; 0.238 ; 0.200 REMARK 3 NON-BONDED TORSION REFINED ATOMS (A): 587 ; 0.175 ; 0.200 REMARK 3 NON-BONDED TORSION OTHERS (A): NULL ; NULL ; NULL REMARK 3 H-BOND (X...Y) REFINED ATOMS (A): 155 ; 0.216 ; 0.200 REMARK 3 H-BOND (X...Y) OTHERS (A): 1 ; 0.037 ; 0.200 REMARK 3 POTENTIAL METAL-ION REFINED ATOMS (A): 1 ; 0.008 ; 0.200 REMARK 3 POTENTIAL METAL-ION OTHERS (A): NULL ; NULL ; NULL REMARK 3 SYMMETRY VDW REFINED ATOMS (A): NULL ; NULL ; NULL REMARK 3 SYMMETRY VDW OTHERS (A): NULL ; NULL ; NULL REMARK 3 SYMMETRY H-BOND REFINED ATOMS (A): NULL ; NULL ; NULL 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): 632 ; 1.896 ; 1.434 REMARK 3 MAIN-CHAIN BOND OTHER ATOMS (A**2): 631 ; 1.897 ; 1.434 REMARK 3 MAIN-CHAIN ANGLE REFINED ATOMS (A**2): 804 ; 2.976 ; 2.560 REMARK 3 MAIN-CHAIN ANGLE OTHER ATOMS (A**2): 805 ; 2.974 ; 2.559 REMARK 3 SIDE-CHAIN BOND REFINED ATOMS (A**2): 748 ; 3.119 ; 2.025 REMARK 3 SIDE-CHAIN BOND OTHER ATOMS (A**2): 749 ; 3.118 ; 2.028 REMARK 3 SIDE-CHAIN ANGLE REFINED ATOMS (A**2): 1092 ; 4.853 ; 3.550 REMARK 3 SIDE-CHAIN ANGLE OTHER ATOMS (A**2): 1093 ; 4.851 ; 3.553 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): NULL ; NULL ; NULL REMARK 3 SPHERICITY; FREE ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 SPHERICITY; BONDED ATOMS (A**2): NULL ; NULL ; NULL 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 : MASK BULK SOLVENT 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 THEIR REMARK 3 RIDING POSITIONS REMARK 4 REMARK 4 9T4I COMPLIES WITH FORMAT V. 3.30, 13-JUL-11 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY PDBE ON 31-OCT-25. REMARK 100 THE DEPOSITION ID IS D_1292151631. REMARK 200 REMARK 200 EXPERIMENTAL DETAILS REMARK 200 EXPERIMENT TYPE : X-RAY DIFFRACTION REMARK 200 DATE OF DATA COLLECTION : 06-APR-23 REMARK 200 TEMPERATURE (KELVIN) : 100 REMARK 200 PH : 5 REMARK 200 NUMBER OF CRYSTALS USED : 1 REMARK 200 REMARK 200 SYNCHROTRON (Y/N) : Y REMARK 200 RADIATION SOURCE : ESRF REMARK 200 BEAMLINE : ID23-2 REMARK 200 X-RAY GENERATOR MODEL : NULL REMARK 200 MONOCHROMATIC OR LAUE (M/L) : M REMARK 200 WAVELENGTH OR RANGE (A) : 0.87313 REMARK 200 MONOCHROMATOR : NULL REMARK 200 OPTICS : NULL REMARK 200 REMARK 200 DETECTOR TYPE : PIXEL REMARK 200 DETECTOR MANUFACTURER : DECTRIS EIGER X 9M REMARK 200 INTENSITY-INTEGRATION SOFTWARE : AUTOPROC 1.1.7 REMARK 200 DATA SCALING SOFTWARE : AUTOPROC 1.1.7 REMARK 200 REMARK 200 NUMBER OF UNIQUE REFLECTIONS : 28543 REMARK 200 RESOLUTION RANGE HIGH (A) : 1.400 REMARK 200 RESOLUTION RANGE LOW (A) : 39.470 REMARK 200 REJECTION CRITERIA (SIGMA(I)) : NULL REMARK 200 REMARK 200 OVERALL. REMARK 200 COMPLETENESS FOR RANGE (%) : 94.1 REMARK 200 DATA REDUNDANCY : 12.60 REMARK 200 R MERGE (I) : NULL REMARK 200 R SYM (I) : NULL REMARK 200 FOR THE DATA SET : 11.1000 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) : 1.51 REMARK 200 COMPLETENESS FOR SHELL (%) : NULL 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 FOR SHELL : 1.400 REMARK 200 REMARK 200 DIFFRACTION PROTOCOL: SINGLE WAVELENGTH REMARK 200 METHOD USED TO DETERMINE THE STRUCTURE: FOURIER SYNTHESIS REMARK 200 SOFTWARE USED: REFMAC 5.8.0419 REMARK 200 STARTING MODEL: NULL REMARK 200 REMARK 200 REMARK: NULL REMARK 280 REMARK 280 CRYSTAL REMARK 280 SOLVENT CONTENT, VS (%): 53.40 REMARK 280 MATTHEWS COEFFICIENT, VM (ANGSTROMS**3/DA): 2.60 REMARK 280 REMARK 280 CRYSTALLIZATION CONDITIONS: PROTEIN: 20MG/ML IP6: 5MM PRECIPITANT REMARK 280 CONDITIONS: 26% PEG 6K, 0.1M NAOAC PH 5, 0.2M LICL RATIO: 1:1, REMARK 280 VAPOR DIFFUSION, SITTING DROP, TEMPERATURE 289K 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 17.14400 REMARK 290 SMTRY2 2 0.000000 -1.000000 0.000000 0.00000 REMARK 290 SMTRY3 2 0.000000 0.000000 1.000000 39.47450 REMARK 290 SMTRY1 3 -1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY2 3 0.000000 1.000000 0.000000 32.74150 REMARK 290 SMTRY3 3 0.000000 0.000000 -1.000000 39.47450 REMARK 290 SMTRY1 4 1.000000 0.000000 0.000000 17.14400 REMARK 290 SMTRY2 4 0.000000 -1.000000 0.000000 32.74150 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 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 LYS A 5 REMARK 465 SER A 6 REMARK 465 ASN A 7 REMARK 500 REMARK 500 GEOMETRY AND STEREOCHEMISTRY REMARK 500 SUBTOPIC: CLOSE CONTACTS IN SAME ASYMMETRIC UNIT REMARK 500 REMARK 500 THE FOLLOWING ATOMS ARE IN CLOSE CONTACT. REMARK 500 REMARK 500 ATM1 RES C SSEQI ATM2 RES C SSEQI DISTANCE REMARK 500 O HOH A 362 O HOH A 435 1.91 REMARK 500 OE2 GLU A 56 O HOH A 303 2.04 REMARK 500 OG SER A 40 O43 IHP A 201 2.11 REMARK 500 O HOH A 304 O HOH A 328 2.12 REMARK 500 O44 IHP A 201 O HOH A 304 2.17 REMARK 500 O HOH A 370 O HOH A 466 2.18 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 65 NE - CZ - NH2 ANGL. DEV. = -3.4 DEGREES REMARK 500 ARG A 79 NE - CZ - NH1 ANGL. DEV. = 5.0 DEGREES REMARK 500 ARG A 79 NE - CZ - NH2 ANGL. DEV. = -3.6 DEGREES REMARK 500 ARG A 115 NE - CZ - NH1 ANGL. DEV. = 3.4 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 GLU A 56 -11.71 73.13 REMARK 500 GLU A 56 17.66 55.29 REMARK 500 REMARK 500 REMARK: NULL REMARK 500 REMARK 500 GEOMETRY AND STEREOCHEMISTRY REMARK 500 SUBTOPIC: PLANAR GROUPS REMARK 500 REMARK 500 PLANAR GROUPS IN THE FOLLOWING RESIDUES HAVE A TOTAL REMARK 500 RMS DISTANCE OF ALL ATOMS FROM THE BEST-FIT PLANE REMARK 500 BY MORE THAN AN EXPECTED VALUE OF 6*RMSD, WITH AN REMARK 500 RMSD 0.02 ANGSTROMS, OR AT LEAST ONE ATOM HAS REMARK 500 AN RMSD GREATER THAN THIS VALUE REMARK 500 (M=MODEL NUMBER; RES=RESIDUE NAME; C=CHAIN IDENTIFIER; REMARK 500 SSEQ=SEQUENCE NUMBER; I=INSERTION CODE). REMARK 500 REMARK 500 M RES CSSEQI RMS TYPE REMARK 500 ARG A 27 0.09 SIDE CHAIN REMARK 500 ARG A 115 0.07 SIDE CHAIN 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 513 DISTANCE = 6.17 ANGSTROMS REMARK 525 HOH A 514 DISTANCE = 6.45 ANGSTROMS REMARK 525 HOH A 515 DISTANCE = 6.53 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 MG A 204 MG REMARK 620 N RES CSSEQI ATOM REMARK 620 1 GLY A 50 O REMARK 620 2 GLU A 70 OE1 85.2 REMARK 620 3 IHP A 201 O22 91.5 174.4 REMARK 620 4 IHP A 201 O22 87.2 165.9 8.6 REMARK 620 5 HOH A 308 O 173.2 98.6 85.2 90.3 REMARK 620 6 HOH A 313 O 81.9 80.9 94.2 86.3 104.3 REMARK 620 7 HOH A 318 O 97.5 62.3 122.8 130.7 79.4 143.0 REMARK 620 N 1 2 3 4 5 6 DBREF 9T4I A 1 148 UNP O95989 NUDT3_HUMAN 1 148 SEQADV 9T4I SER A 89 UNP O95989 ARG 89 ENGINEERED MUTATION SEQRES 1 A 148 MET MET LYS LEU LYS SER ASN GLN THR ARG THR TYR ASP SEQRES 2 A 148 GLY ASP GLY TYR LYS LYS ARG ALA ALA CYS LEU CYS PHE SEQRES 3 A 148 ARG SER GLU SER GLU GLU GLU VAL LEU LEU VAL SER SER SEQRES 4 A 148 SER ARG HIS PRO ASP ARG TRP ILE VAL PRO GLY GLY GLY SEQRES 5 A 148 MET GLU PRO GLU GLU GLU PRO SER VAL ALA ALA VAL ARG SEQRES 6 A 148 GLU VAL CYS GLU GLU ALA GLY VAL LYS GLY THR LEU GLY SEQRES 7 A 148 ARG LEU VAL GLY ILE PHE GLU ASN GLN GLU SER LYS HIS SEQRES 8 A 148 ARG THR TYR VAL TYR VAL LEU ILE VAL THR GLU VAL LEU SEQRES 9 A 148 GLU ASP TRP GLU ASP SER VAL ASN ILE GLY ARG LYS ARG SEQRES 10 A 148 GLU TRP PHE LYS ILE GLU ASP ALA ILE LYS VAL LEU GLN SEQRES 11 A 148 TYR HIS LYS PRO VAL GLN ALA SER TYR PHE GLU THR LEU SEQRES 12 A 148 ARG GLN GLY TYR SER HET IHP A 201 72 HET EDO A 202 4 HET EDO A 203 4 HET MG A 204 1 HET CL A 205 1 HET CL A 206 1 HETNAM IHP INOSITOL HEXAKISPHOSPHATE HETNAM EDO 1,2-ETHANEDIOL HETNAM MG MAGNESIUM ION HETNAM CL CHLORIDE ION HETSYN IHP MYO-INOSITOL HEXAKISPHOSPHATE; INOSITOL 1,2,3,4,5,6- HETSYN 2 IHP HEXAKISPHOSPHATE HETSYN EDO ETHYLENE GLYCOL FORMUL 2 IHP C6 H18 O24 P6 FORMUL 3 EDO 2(C2 H6 O2) FORMUL 5 MG MG 2+ FORMUL 6 CL 2(CL 1-) FORMUL 8 HOH *215(H2 O) HELIX 1 AA1 GLU A 58 GLY A 72 1 15 HELIX 2 AA2 TRP A 107 GLY A 114 1 8 HELIX 3 AA3 ILE A 122 TYR A 131 1 10 HELIX 4 AA4 LYS A 133 TYR A 139 1 7 SHEET 1 AA1 4 GLY A 50 GLY A 52 0 SHEET 2 AA1 4 LYS A 18 PHE A 26 -1 N ALA A 21 O GLY A 51 SHEET 3 AA1 4 HIS A 91 VAL A 103 1 O TYR A 96 N LEU A 24 SHEET 4 AA1 4 VAL A 73 ASN A 86 -1 N GLY A 78 O VAL A 97 SHEET 1 AA2 3 TRP A 46 ILE A 47 0 SHEET 2 AA2 3 GLU A 33 SER A 38 -1 N VAL A 37 O ILE A 47 SHEET 3 AA2 3 ARG A 117 LYS A 121 -1 O PHE A 120 N VAL A 34 LINK O GLY A 50 MG MG A 204 1555 1555 2.36 LINK OE1 GLU A 70 MG MG A 204 1555 1555 2.32 LINK O22AIHP A 201 MG MG A 204 1555 1555 2.55 LINK O22BIHP A 201 MG MG A 204 1555 1555 2.47 LINK MG MG A 204 O HOH A 308 1555 1555 1.98 LINK MG MG A 204 O HOH A 313 1555 1555 2.18 LINK MG MG A 204 O HOH A 318 1555 1555 2.99 CRYST1 34.288 65.483 78.949 90.00 90.00 90.00 P 21 21 21 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 0.029165 0.000000 0.000000 0.00000 SCALE2 0.000000 0.015271 0.000000 0.00000 SCALE3 0.000000 0.000000 0.012666 0.00000 CONECT 401 1350 CONECT 563 1350 CONECT 1270 1272 1280 1282 CONECT 1271 1273 1281 1283 CONECT 1272 1270 1274 1292 CONECT 1273 1271 1275 1293 CONECT 1274 1272 1276 1302 CONECT 1275 1273 1277 1303 CONECT 1276 1274 1278 1312 CONECT 1277 1275 1279 1313 CONECT 1278 1276 1280 1322 CONECT 1279 1277 1281 1323 CONECT 1280 1270 1278 1332 CONECT 1281 1271 1279 1333 CONECT 1282 1270 1284 CONECT 1283 1271 1285 CONECT 1284 1282 1286 1288 1290 CONECT 1285 1283 1287 1289 1291 CONECT 1286 1284 CONECT 1287 1285 CONECT 1288 1284 CONECT 1289 1285 CONECT 1290 1284 CONECT 1291 1285 CONECT 1292 1272 1294 CONECT 1293 1273 1295 CONECT 1294 1292 1296 1298 1300 CONECT 1295 1293 1297 1299 1301 CONECT 1296 1294 1350 CONECT 1297 1295 1350 CONECT 1298 1294 CONECT 1299 1295 CONECT 1300 1294 CONECT 1301 1295 CONECT 1302 1274 1304 CONECT 1303 1275 1305 CONECT 1304 1302 1306 1308 1310 CONECT 1305 1303 1307 1309 1311 CONECT 1306 1304 CONECT 1307 1305 CONECT 1308 1304 CONECT 1309 1305 CONECT 1310 1304 CONECT 1311 1305 CONECT 1312 1276 1314 CONECT 1313 1277 1315 CONECT 1314 1312 1316 1318 1320 CONECT 1315 1313 1317 1319 1321 CONECT 1316 1314 CONECT 1317 1315 CONECT 1318 1314 CONECT 1319 1315 CONECT 1320 1314 CONECT 1321 1315 CONECT 1322 1278 1324 CONECT 1323 1279 1325 CONECT 1324 1322 1326 1328 1330 CONECT 1325 1323 1327 1329 1331 CONECT 1326 1324 CONECT 1327 1325 CONECT 1328 1324 CONECT 1329 1325 CONECT 1330 1324 CONECT 1331 1325 CONECT 1332 1280 1334 CONECT 1333 1281 1335 CONECT 1334 1332 1336 1338 1340 CONECT 1335 1333 1337 1339 1341 CONECT 1336 1334 CONECT 1337 1335 CONECT 1338 1334 CONECT 1339 1335 CONECT 1340 1334 CONECT 1341 1335 CONECT 1342 1343 1344 CONECT 1343 1342 CONECT 1344 1342 1345 CONECT 1345 1344 CONECT 1346 1347 1348 CONECT 1347 1346 CONECT 1348 1346 1349 CONECT 1349 1348 CONECT 1350 401 563 1296 1297 CONECT 1350 1360 1365 1370 CONECT 1360 1350 CONECT 1365 1350 CONECT 1370 1350 MASTER 349 0 6 4 7 0 0 6 1436 1 87 12 END