HEADER HYDROLASE 06-JUL-15 5A7I TITLE CRYSTAL STRUCTURE OF INPP5B IN COMPLEX WITH BIPHENYL 3,3',4,4',5,5'- TITLE 2 HEXAKISPHOSPHATE COMPND MOL_ID: 1; COMPND 2 MOLECULE: TYPE II INOSITOL 1,4,5-TRISPHOSPHATE 5-PHOSPHATASE; COMPND 3 CHAIN: A; COMPND 4 FRAGMENT: UNP RESIDUES 339-643; COMPND 5 SYNONYM: 75 KDA INOSITOL POLYPHOSPHATE-5-PHOSPHATASE, COMPND 6 PHOSPHOINOSITIDE 5-PHOSPHATASE, 5PTASE, TYPE II INOSITOL 1,4,5- COMPND 7 TRISPHOSPHATE 5-PHOSPHATASE, ISOFORM 2; COMPND 8 EC: 3.1.3.36; COMPND 9 ENGINEERED: YES; COMPND 10 OTHER_DETAILS: CLONED WITH A C-TERMINAL HEXAHISTIDINE TAG SOURCE MOL_ID: 1; SOURCE 2 ORGANISM_SCIENTIFIC: HOMO SAPIENS; SOURCE 3 ORGANISM_COMMON: HUMAN; SOURCE 4 ORGANISM_TAXID: 9606; SOURCE 5 EXPRESSION_SYSTEM: ESCHERICHIA COLI; SOURCE 6 EXPRESSION_SYSTEM_TAXID: 469008; SOURCE 7 EXPRESSION_SYSTEM_STRAIN: BL21(DE3); SOURCE 8 EXPRESSION_SYSTEM_VARIANT: R3 PRARE; SOURCE 9 EXPRESSION_SYSTEM_VECTOR_TYPE: PLASMID; SOURCE 10 EXPRESSION_SYSTEM_PLASMID: PNIC-CH2; SOURCE 11 OTHER_DETAILS: MAMMALIAN GENE COLLECTION (MGC) KEYWDS HYDROLASE, SGC, SIGNALLING, STRUCTURAL GENOMICS CONSORTIUM STOCKHOLM, KEYWDS 2 MAGNESIUM BINDING, PROTEIN-INHBITOR COMPLEX, INHIBITOR, KEYWDS 3 PHOSPHOINOSITIDES SIGNALLING EXPDTA X-RAY DIFFRACTION AUTHOR L.TRESAUGUES,S.J.MILLS,C.SILVANDER,G.COZIER,B.V.L.POTTER,P.NORLDUND REVDAT 2 10-JAN-24 5A7I 1 REMARK LINK REVDAT 1 13-APR-16 5A7I 0 JRNL AUTH S.J.MILLS,C.SILVANDER,G.COZIER,L.TRESAUGUES,P.NORDLUND, JRNL AUTH 2 B.V.L.POTTER JRNL TITL CRYSTAL STRUCTURES OF TYPE-II INOSITOL POLYPHOSPHATE JRNL TITL 2 5-PHOSPHATASE INPP5B WITH SYNTHETIC INOSITOL POLYPHOSPHATE JRNL TITL 3 SURROGATES REVEAL NEW MECHANISTIC INSIGHTS FOR THE INOSITOL JRNL TITL 4 5-PHOSPHATASE FAMILY. JRNL REF BIOCHEMISTRY V. 55 1384 2016 JRNL REFN ISSN 0006-2960 JRNL PMID 26854536 JRNL DOI 10.1021/ACS.BIOCHEM.5B00838 REMARK 2 REMARK 2 RESOLUTION. 2.89 ANGSTROMS. REMARK 3 REMARK 3 REFINEMENT. REMARK 3 PROGRAM : REFMAC 5.5.0109 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) : 2.89 REMARK 3 RESOLUTION RANGE LOW (ANGSTROMS) : 34.29 REMARK 3 DATA CUTOFF (SIGMA(F)) : NULL REMARK 3 COMPLETENESS FOR RANGE (%) : 99.9 REMARK 3 NUMBER OF REFLECTIONS : 16012 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) : 0.198 REMARK 3 R VALUE (WORKING SET) : 0.197 REMARK 3 FREE R VALUE : 0.223 REMARK 3 FREE R VALUE TEST SET SIZE (%) : 5.100 REMARK 3 FREE R VALUE TEST SET COUNT : 858 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) : 2.89 REMARK 3 BIN RESOLUTION RANGE LOW (A) : 2.97 REMARK 3 REFLECTION IN BIN (WORKING SET) : 1148 REMARK 3 BIN COMPLETENESS (WORKING+TEST) (%) : 100.0 REMARK 3 BIN R VALUE (WORKING SET) : 0.3380 REMARK 3 BIN FREE R VALUE SET COUNT : 66 REMARK 3 BIN FREE R VALUE : 0.3450 REMARK 3 REMARK 3 NUMBER OF NON-HYDROGEN ATOMS USED IN REFINEMENT. REMARK 3 PROTEIN ATOMS : 2545 REMARK 3 NUCLEIC ACID ATOMS : 0 REMARK 3 HETEROGEN ATOMS : 65 REMARK 3 SOLVENT ATOMS : 28 REMARK 3 REMARK 3 B VALUES. REMARK 3 FROM WILSON PLOT (A**2) : NULL REMARK 3 MEAN B VALUE (OVERALL, A**2) : 71.19 REMARK 3 OVERALL ANISOTROPIC B VALUE. REMARK 3 B11 (A**2) : -1.25000 REMARK 3 B22 (A**2) : -1.25000 REMARK 3 B33 (A**2) : 2.50000 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): 0.405 REMARK 3 ESU BASED ON FREE R VALUE (A): 0.267 REMARK 3 ESU BASED ON MAXIMUM LIKELIHOOD (A): 0.203 REMARK 3 ESU FOR B VALUES BASED ON MAXIMUM LIKELIHOOD (A**2): 22.814 REMARK 3 REMARK 3 CORRELATION COEFFICIENTS. REMARK 3 CORRELATION COEFFICIENT FO-FC : 0.943 REMARK 3 CORRELATION COEFFICIENT FO-FC FREE : 0.917 REMARK 3 REMARK 3 RMS DEVIATIONS FROM IDEAL VALUES COUNT RMS WEIGHT REMARK 3 BOND LENGTHS REFINED ATOMS (A): 2682 ; 0.007 ; 0.021 REMARK 3 BOND LENGTHS OTHERS (A): 1782 ; 0.002 ; 0.020 REMARK 3 BOND ANGLES REFINED ATOMS (DEGREES): 3645 ; 1.191 ; 1.960 REMARK 3 BOND ANGLES OTHERS (DEGREES): 4329 ; 0.771 ; 3.000 REMARK 3 TORSION ANGLES, PERIOD 1 (DEGREES): 314 ; 5.705 ; 5.000 REMARK 3 TORSION ANGLES, PERIOD 2 (DEGREES): 133 ;35.760 ;24.135 REMARK 3 TORSION ANGLES, PERIOD 3 (DEGREES): 448 ;14.137 ;15.000 REMARK 3 TORSION ANGLES, PERIOD 4 (DEGREES): 13 ;16.177 ;15.000 REMARK 3 CHIRAL-CENTER RESTRAINTS (A**3): 376 ; 0.064 ; 0.200 REMARK 3 GENERAL PLANES REFINED ATOMS (A): 2945 ; 0.003 ; 0.020 REMARK 3 GENERAL PLANES OTHERS (A): 558 ; 0.001 ; 0.020 REMARK 3 NON-BONDED CONTACTS REFINED ATOMS (A): NULL ; NULL ; NULL REMARK 3 NON-BONDED CONTACTS OTHERS (A): NULL ; NULL ; NULL REMARK 3 NON-BONDED TORSION REFINED ATOMS (A): NULL ; NULL ; NULL REMARK 3 NON-BONDED TORSION OTHERS (A): NULL ; NULL ; NULL REMARK 3 H-BOND (X...Y) REFINED ATOMS (A): NULL ; NULL ; NULL 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): 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): 1561 ; 0.237 ; 1.500 REMARK 3 MAIN-CHAIN BOND OTHER ATOMS (A**2): 633 ; 0.030 ; 1.500 REMARK 3 MAIN-CHAIN ANGLE REFINED ATOMS (A**2): 2524 ; 0.456 ; 2.000 REMARK 3 MAIN-CHAIN ANGLE OTHER ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 SIDE-CHAIN BOND REFINED ATOMS (A**2): 1121 ; 0.641 ; 3.000 REMARK 3 SIDE-CHAIN BOND OTHER ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 SIDE-CHAIN ANGLE REFINED ATOMS (A**2): 1120 ; 1.132 ; 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): 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 : 3 REMARK 3 REMARK 3 TLS GROUP : 1 REMARK 3 NUMBER OF COMPONENTS GROUP : 1 REMARK 3 COMPONENTS C SSSEQI TO C SSSEQI REMARK 3 RESIDUE RANGE : A 258 A 399 REMARK 3 ORIGIN FOR THE GROUP (A): 17.5772 -30.1864 20.5714 REMARK 3 T TENSOR REMARK 3 T11: 0.3405 T22: -0.0074 REMARK 3 T33: 0.1738 T12: -0.1389 REMARK 3 T13: -0.1091 T23: 0.0792 REMARK 3 L TENSOR REMARK 3 L11: 3.3791 L22: 5.2961 REMARK 3 L33: 2.3361 L12: -0.6452 REMARK 3 L13: -1.0142 L23: 1.7829 REMARK 3 S TENSOR REMARK 3 S11: 0.0167 S12: 0.3588 S13: -0.3907 REMARK 3 S21: -0.6552 S22: 0.1074 S23: 0.3000 REMARK 3 S31: 0.2920 S32: -0.2728 S33: -0.1240 REMARK 3 REMARK 3 TLS GROUP : 2 REMARK 3 NUMBER OF COMPONENTS GROUP : 1 REMARK 3 COMPONENTS C SSSEQI TO C SSSEQI REMARK 3 RESIDUE RANGE : A 400 A 448 REMARK 3 ORIGIN FOR THE GROUP (A): 26.8076 -16.7190 22.7778 REMARK 3 T TENSOR REMARK 3 T11: 0.2697 T22: -0.0189 REMARK 3 T33: 0.2021 T12: -0.1625 REMARK 3 T13: 0.1290 T23: -0.0119 REMARK 3 L TENSOR REMARK 3 L11: 7.9608 L22: 13.0752 REMARK 3 L33: 3.7962 L12: -3.1494 REMARK 3 L13: -1.8630 L23: 0.8361 REMARK 3 S TENSOR REMARK 3 S11: -0.1712 S12: -0.4044 S13: 0.4749 REMARK 3 S21: 0.0893 S22: 0.4635 S23: -0.9548 REMARK 3 S31: -0.1572 S32: 0.4095 S33: -0.2923 REMARK 3 REMARK 3 TLS GROUP : 3 REMARK 3 NUMBER OF COMPONENTS GROUP : 1 REMARK 3 COMPONENTS C SSSEQI TO C SSSEQI REMARK 3 RESIDUE RANGE : A 449 A 570 REMARK 3 ORIGIN FOR THE GROUP (A): 17.2144 -18.1882 7.5988 REMARK 3 T TENSOR REMARK 3 T11: 0.8245 T22: 0.3937 REMARK 3 T33: 0.1801 T12: -0.1131 REMARK 3 T13: -0.0837 T23: 0.2006 REMARK 3 L TENSOR REMARK 3 L11: 1.6466 L22: 5.7135 REMARK 3 L33: 1.6871 L12: -0.6384 REMARK 3 L13: -0.3764 L23: 0.2312 REMARK 3 S TENSOR REMARK 3 S11: 0.1717 S12: 0.9317 S13: 0.3607 REMARK 3 S21: -1.4953 S22: 0.1727 S23: 0.1132 REMARK 3 S31: -0.4980 S32: -0.3559 S33: -0.3444 REMARK 3 REMARK 3 BULK SOLVENT MODELLING. REMARK 3 METHOD USED : MASK REMARK 3 PARAMETERS FOR MASK CALCULATION REMARK 3 VDW PROBE RADIUS : 1.40 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. U VALUES WITH TLS ADDED REMARK 4 REMARK 4 5A7I COMPLIES WITH FORMAT V. 3.30, 13-JUL-11 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY PDBE ON 06-JUL-15. REMARK 100 THE DEPOSITION ID IS D_1290064291. REMARK 200 REMARK 200 EXPERIMENTAL DETAILS REMARK 200 EXPERIMENT TYPE : X-RAY DIFFRACTION REMARK 200 DATE OF DATA COLLECTION : 08-DEC-11 REMARK 200 TEMPERATURE (KELVIN) : 100 REMARK 200 PH : 6.2 REMARK 200 NUMBER OF CRYSTALS USED : 1 REMARK 200 REMARK 200 SYNCHROTRON (Y/N) : Y REMARK 200 RADIATION SOURCE : BESSY REMARK 200 BEAMLINE : 14.1 REMARK 200 X-RAY GENERATOR MODEL : NULL REMARK 200 MONOCHROMATIC OR LAUE (M/L) : M REMARK 200 WAVELENGTH OR RANGE (A) : 0.91841 REMARK 200 MONOCHROMATOR : SI-111 CRYSTAL REMARK 200 OPTICS : MIRRORS REMARK 200 REMARK 200 DETECTOR TYPE : CCD REMARK 200 DETECTOR MANUFACTURER : MARMOSAIC 225 MM CCD REMARK 200 INTENSITY-INTEGRATION SOFTWARE : XDS REMARK 200 DATA SCALING SOFTWARE : XDS REMARK 200 REMARK 200 NUMBER OF UNIQUE REFLECTIONS : 16922 REMARK 200 RESOLUTION RANGE HIGH (A) : 2.890 REMARK 200 RESOLUTION RANGE LOW (A) : 34.290 REMARK 200 REJECTION CRITERIA (SIGMA(I)) : -3.000 REMARK 200 REMARK 200 OVERALL. REMARK 200 COMPLETENESS FOR RANGE (%) : 99.9 REMARK 200 DATA REDUNDANCY : 7.000 REMARK 200 R MERGE (I) : 0.07000 REMARK 200 R SYM (I) : NULL REMARK 200 FOR THE DATA SET : 21.2000 REMARK 200 REMARK 200 IN THE HIGHEST RESOLUTION SHELL. REMARK 200 HIGHEST RESOLUTION SHELL, RANGE HIGH (A) : 2.89 REMARK 200 HIGHEST RESOLUTION SHELL, RANGE LOW (A) : 3.05 REMARK 200 COMPLETENESS FOR SHELL (%) : 100.0 REMARK 200 DATA REDUNDANCY IN SHELL : 7.20 REMARK 200 R MERGE FOR SHELL (I) : 0.84000 REMARK 200 R SYM FOR SHELL (I) : NULL REMARK 200 FOR SHELL : 2.200 REMARK 200 REMARK 200 DIFFRACTION PROTOCOL: SINGLE WAVELENGTH REMARK 200 METHOD USED TO DETERMINE THE STRUCTURE: MOLECULAR REPLACEMENT REMARK 200 SOFTWARE USED: PHASER REMARK 200 STARTING MODEL: PDB ENTRY 3N9V REMARK 200 REMARK 200 REMARK: NONE REMARK 280 REMARK 280 CRYSTAL REMARK 280 SOLVENT CONTENT, VS (%): 75.20 REMARK 280 MATTHEWS COEFFICIENT, VM (ANGSTROMS**3/DA): 4.96 REMARK 280 REMARK 280 CRYSTALLIZATION CONDITIONS: 10% GLYCEROL, 25% PROPANEDIOL AND 0.1 REMARK 280 M SODIUM/POTASSIUM PHOSPHATE PH 6.2 REMARK 290 REMARK 290 CRYSTALLOGRAPHIC SYMMETRY REMARK 290 SYMMETRY OPERATORS FOR SPACE GROUP: P 41 21 2 REMARK 290 REMARK 290 SYMOP SYMMETRY REMARK 290 NNNMMM OPERATOR REMARK 290 1555 X,Y,Z REMARK 290 2555 -X,-Y,Z+1/2 REMARK 290 3555 -Y+1/2,X+1/2,Z+1/4 REMARK 290 4555 Y+1/2,-X+1/2,Z+3/4 REMARK 290 5555 -X+1/2,Y+1/2,-Z+1/4 REMARK 290 6555 X+1/2,-Y+1/2,-Z+3/4 REMARK 290 7555 Y,X,-Z REMARK 290 8555 -Y,-X,-Z+1/2 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 76.07100 REMARK 290 SMTRY1 3 0.000000 -1.000000 0.000000 48.48750 REMARK 290 SMTRY2 3 1.000000 0.000000 0.000000 48.48750 REMARK 290 SMTRY3 3 0.000000 0.000000 1.000000 38.03550 REMARK 290 SMTRY1 4 0.000000 1.000000 0.000000 48.48750 REMARK 290 SMTRY2 4 -1.000000 0.000000 0.000000 48.48750 REMARK 290 SMTRY3 4 0.000000 0.000000 1.000000 114.10650 REMARK 290 SMTRY1 5 -1.000000 0.000000 0.000000 48.48750 REMARK 290 SMTRY2 5 0.000000 1.000000 0.000000 48.48750 REMARK 290 SMTRY3 5 0.000000 0.000000 -1.000000 38.03550 REMARK 290 SMTRY1 6 1.000000 0.000000 0.000000 48.48750 REMARK 290 SMTRY2 6 0.000000 -1.000000 0.000000 48.48750 REMARK 290 SMTRY3 6 0.000000 0.000000 -1.000000 114.10650 REMARK 290 SMTRY1 7 0.000000 1.000000 0.000000 0.00000 REMARK 290 SMTRY2 7 1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY3 7 0.000000 0.000000 -1.000000 0.00000 REMARK 290 SMTRY1 8 0.000000 -1.000000 0.000000 0.00000 REMARK 290 SMTRY2 8 -1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY3 8 0.000000 0.000000 -1.000000 76.07100 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 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 324 CD CE NZ REMARK 470 LYS A 335 CE NZ 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 288 51.03 -148.73 REMARK 500 PHE A 312 40.13 -97.20 REMARK 500 VAL A 345 -102.44 46.04 REMARK 500 ARG A 376 -15.71 -145.46 REMARK 500 ARG A 376 -22.70 -142.10 REMARK 500 HIS A 390 -125.50 49.53 REMARK 500 ASN A 391 43.91 -107.74 REMARK 500 HIS A 404 149.42 89.13 REMARK 500 GLU A 407 32.45 -93.54 REMARK 500 PRO A 433 150.30 -46.53 REMARK 500 GLU A 454 -64.55 67.07 REMARK 500 ASP A 512 114.95 -31.68 REMARK 500 HIS A 569 42.89 -144.13 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 A1574 MG REMARK 620 N RES CSSEQI ATOM REMARK 620 1 GLU A 303 OE2 REMARK 620 2 B6K A1572 O43 81.2 REMARK 620 3 PO4 A1573 O3 74.9 77.2 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 GOL A 1571 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC2 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE B6K A 1572 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC3 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE PO4 A 1573 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC4 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE MG A 1574 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC5 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE PO4 A 1575 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC6 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE PO4 A 1576 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC7 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE CL A 1577 REMARK 900 REMARK 900 RELATED ENTRIES REMARK 900 RELATED ID: 5A7J RELATED DB: PDB REMARK 900 CRYSTAL STRUCTURE OF INPP5B IN COMPLEX WITH BENZENE 1 ,2,4,5- REMARK 900 TETRAKISPHOSPHATE DBREF 5A7I A 259 563 UNP P32019 I5P2_HUMAN 339 643 SEQADV 5A7I MET A 258 UNP P32019 EXPRESSION TAG SEQADV 5A7I ALA A 564 UNP P32019 EXPRESSION TAG SEQADV 5A7I HIS A 565 UNP P32019 EXPRESSION TAG SEQADV 5A7I HIS A 566 UNP P32019 EXPRESSION TAG SEQADV 5A7I HIS A 567 UNP P32019 EXPRESSION TAG SEQADV 5A7I HIS A 568 UNP P32019 EXPRESSION TAG SEQADV 5A7I HIS A 569 UNP P32019 EXPRESSION TAG SEQADV 5A7I HIS A 570 UNP P32019 EXPRESSION TAG SEQRES 1 A 313 MET TYR THR TYR ILE GLN ASN PHE ARG PHE PHE ALA GLY SEQRES 2 A 313 THR TYR ASN VAL ASN GLY GLN SER PRO LYS GLU CYS LEU SEQRES 3 A 313 ARG LEU TRP LEU SER ASN GLY ILE GLN ALA PRO ASP VAL SEQRES 4 A 313 TYR CYS VAL GLY PHE GLN GLU LEU ASP LEU SER LYS GLU SEQRES 5 A 313 ALA PHE PHE PHE HIS ASP THR PRO LYS GLU GLU GLU TRP SEQRES 6 A 313 PHE LYS ALA VAL SER GLU GLY LEU HIS PRO ASP ALA LYS SEQRES 7 A 313 TYR ALA LYS VAL LYS LEU ILE ARG LEU VAL GLY ILE MET SEQRES 8 A 313 LEU LEU LEU TYR VAL LYS GLN GLU HIS ALA ALA TYR ILE SEQRES 9 A 313 SER GLU VAL GLU ALA GLU THR VAL GLY THR GLY ILE MET SEQRES 10 A 313 GLY ARG MET GLY ASN LYS GLY GLY VAL ALA ILE ARG PHE SEQRES 11 A 313 GLN PHE HIS ASN THR SER ILE CYS VAL VAL ASN SER HIS SEQRES 12 A 313 LEU ALA ALA HIS ILE GLU GLU TYR GLU ARG ARG ASN GLN SEQRES 13 A 313 ASP TYR LYS ASP ILE CYS SER ARG MET GLN PHE CYS GLN SEQRES 14 A 313 PRO ASP PRO SER LEU PRO PRO LEU THR ILE SER ASN HIS SEQRES 15 A 313 ASP VAL ILE LEU TRP LEU GLY ASP LEU ASN TYR ARG ILE SEQRES 16 A 313 GLU GLU LEU ASP VAL GLU LYS VAL LYS LYS LEU ILE GLU SEQRES 17 A 313 GLU LYS ASP PHE GLN MET LEU TYR ALA TYR ASP GLN LEU SEQRES 18 A 313 LYS ILE GLN VAL ALA ALA LYS THR VAL PHE GLU GLY PHE SEQRES 19 A 313 THR GLU GLY GLU LEU THR PHE GLN PRO THR TYR LYS TYR SEQRES 20 A 313 ASP THR GLY SER ASP ASP TRP ASP THR SER GLU LYS CYS SEQRES 21 A 313 ARG ALA PRO ALA TRP CYS ASP ARG ILE LEU TRP LYS GLY SEQRES 22 A 313 LYS ASN ILE THR GLN LEU SER TYR GLN SER HIS MET ALA SEQRES 23 A 313 LEU LYS THR SER ASP HIS LYS PRO VAL SER SER VAL PHE SEQRES 24 A 313 ASP ILE GLY VAL ARG VAL VAL ALA HIS HIS HIS HIS HIS SEQRES 25 A 313 HIS HET GOL A1571 6 HET B6K A1572 42 HET PO4 A1573 5 HET MG A1574 1 HET PO4 A1575 5 HET PO4 A1576 5 HET CL A1577 1 HETNAM GOL GLYCEROL HETNAM B6K BIPHENYL 3,3',4,4',5,5'-HEXAKISPHOSPHATE HETNAM PO4 PHOSPHATE ION HETNAM MG MAGNESIUM ION HETNAM CL CHLORIDE ION HETSYN GOL GLYCERIN; PROPANE-1,2,3-TRIOL FORMUL 2 GOL C3 H8 O3 FORMUL 3 B6K C12 H16 O24 P6 FORMUL 4 PO4 3(O4 P 3-) FORMUL 5 MG MG 2+ FORMUL 8 CL CL 1- FORMUL 9 HOH *28(H2 O) HELIX 1 1 LEU A 283 SER A 288 1 6 HELIX 2 2 SER A 307 PHE A 312 1 6 HELIX 3 3 PRO A 317 LEU A 330 1 14 HELIX 4 4 GLU A 356 ALA A 359 5 4 HELIX 5 5 GLY A 372 ARG A 376 5 5 HELIX 6 6 HIS A 404 GLU A 406 5 3 HELIX 7 7 GLU A 407 MET A 422 1 16 HELIX 8 8 ASP A 456 GLU A 466 1 11 HELIX 9 9 ASP A 468 ALA A 474 1 7 HELIX 10 10 ASP A 476 ALA A 484 1 9 SHEET 1 AA 6 TYR A 336 LEU A 344 0 SHEET 2 AA 6 ILE A 347 LYS A 354 -1 O ILE A 347 N LEU A 344 SHEET 3 AA 6 VAL A 296 GLN A 302 -1 O TYR A 297 N TYR A 352 SHEET 4 AA 6 TYR A 259 ASN A 273 1 O ARG A 266 N VAL A 296 SHEET 5 AA 6 VAL A 552 ALA A 564 -1 O VAL A 552 N THR A 271 SHEET 6 AA 6 ILE A 533 SER A 540 -1 O THR A 534 N ASP A 557 SHEET 1 AB 5 ILE A 361 GLY A 370 0 SHEET 2 AB 5 GLY A 381 PHE A 389 -1 O GLY A 382 N VAL A 369 SHEET 3 AB 5 THR A 392 HIS A 400 -1 O THR A 392 N PHE A 389 SHEET 4 AB 5 VAL A 441 ASP A 447 1 O VAL A 441 N CYS A 395 SHEET 5 AB 5 ASP A 524 GLY A 530 -1 O ARG A 525 N GLY A 446 LINK OE2 GLU A 303 MG MG A1574 5545 1555 2.32 LINK O43 B6K A1572 MG MG A1574 1555 1555 2.33 LINK O3 PO4 A1573 MG MG A1574 1555 1555 2.37 CISPEP 1 TYR A 502 LYS A 503 0 -4.91 SITE 1 AC1 4 ILE A 373 MET A 374 ARG A 410 HIS A 567 SITE 1 AC2 19 MET A 258 GLU A 303 ASN A 379 LYS A 380 SITE 2 AC2 19 HIS A 400 ALA A 403 HIS A 404 TYR A 502 SITE 3 AC2 19 LYS A 516 ARG A 518 HIS A 565 HIS A 566 SITE 4 AC2 19 HIS A 567 HIS A 568 HIS A 569 HIS A 570 SITE 5 AC2 19 PO4 A1573 MG A1574 HOH A2027 SITE 1 AC3 9 ASN A 273 GLU A 303 HIS A 400 ASP A 447 SITE 2 AC3 9 ASN A 449 ARG A 451 HIS A 549 B6K A1572 SITE 3 AC3 9 MG A1574 SITE 1 AC4 5 ASN A 275 GLU A 303 ASP A 548 B6K A1572 SITE 2 AC4 5 PO4 A1573 SITE 1 AC5 5 TYR A 473 LYS A 479 VAL A 482 GLU A 493 SITE 2 AC5 5 HOH A2021 SITE 1 AC6 3 GLY A 370 ARG A 376 ARG A 421 SITE 1 AC7 2 LYS A 338 LEU A 341 CRYST1 96.975 96.975 152.142 90.00 90.00 90.00 P 41 21 2 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 0.010312 0.000000 0.000000 0.00000 SCALE2 0.000000 0.010312 0.000000 0.00000 SCALE3 0.000000 0.000000 0.006573 0.00000