HEADER TRANSFERASE 12-JUN-12 4AXC TITLE INOSITOL 1,3,4,5,6-PENTAKISPHOSPHATE 2-KINASE APO FORM COMPND MOL_ID: 1; COMPND 2 MOLECULE: INOSITOL-PENTAKISPHOSPHATE 2-KINASE; COMPND 3 CHAIN: A; COMPND 4 SYNONYM: INOSITOL-1\,3\,4\,5\,6-PENTAKISPHOSPHATE 2-KINASE, INS(1\, COMPND 5 3\,4\,5\,6)P5 2-KINASE, ATIPK1, INSP5 2-KINASE; COMPND 6 EC: 2.7.1.158; COMPND 7 ENGINEERED: YES SOURCE MOL_ID: 1; SOURCE 2 ORGANISM_SCIENTIFIC: ARABIDOPSIS THALIANA; SOURCE 3 ORGANISM_COMMON: THALE CRESS; SOURCE 4 ORGANISM_TAXID: 3702; SOURCE 5 EXPRESSION_SYSTEM: ESCHERICHIA COLI; SOURCE 6 EXPRESSION_SYSTEM_TAXID: 469008; SOURCE 7 EXPRESSION_SYSTEM_STRAIN: BL21(DE3); SOURCE 8 EXPRESSION_SYSTEM_VARIANT: ROSETTA PLYSS; SOURCE 9 EXPRESSION_SYSTEM_VECTOR: PKLSLT KEYWDS TRANSFERASE, PHYTIC ACID, PROTEIN KINASE, INOSITIDE SIGNALLING EXPDTA X-RAY DIFFRACTION AUTHOR J.I BANOS-SANZ,J.SANZ-APARICIO,B.GONZALEZ REVDAT 3 20-DEC-23 4AXC 1 REMARK LINK REVDAT 2 05-SEP-12 4AXC 1 JRNL REVDAT 1 04-JUL-12 4AXC 0 JRNL AUTH J.I.BANOS-SANZ,J.SANZ-APARICIO,H.WHITFIELD,C.HAMILTON, JRNL AUTH 2 C.A.BREARLEY,B.GONZALEZ JRNL TITL CONFORMATIONAL CHANGES UNDERGONE BY INOSITOL JRNL TITL 2 1,3,4,5,6-PENTAKISPHOSPHATE 2-KINASE UPON SUBSTRATE BINDING: JRNL TITL 3 THE ROLE OF N-LOBE AND ENANTIOMERIC SUBSTRATE PREFERENCE JRNL REF J.BIOL.CHEM. V. 287 29237 2012 JRNL REFN ISSN 0021-9258 JRNL PMID 22745128 JRNL DOI 10.1074/JBC.M112.363671 REMARK 2 REMARK 2 RESOLUTION. 2.25 ANGSTROMS. REMARK 3 REMARK 3 REFINEMENT. REMARK 3 PROGRAM : REFMAC 5.6.0117 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) : 2.25 REMARK 3 RESOLUTION RANGE LOW (ANGSTROMS) : 66.00 REMARK 3 DATA CUTOFF (SIGMA(F)) : NULL REMARK 3 COMPLETENESS FOR RANGE (%) : 99.4 REMARK 3 NUMBER OF REFLECTIONS : 22011 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) : 0.243 REMARK 3 R VALUE (WORKING SET) : 0.242 REMARK 3 FREE R VALUE : 0.278 REMARK 3 FREE R VALUE TEST SET SIZE (%) : 5.100 REMARK 3 FREE R VALUE TEST SET COUNT : 1192 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) : 2.25 REMARK 3 BIN RESOLUTION RANGE LOW (A) : 2.31 REMARK 3 REFLECTION IN BIN (WORKING SET) : 1460 REMARK 3 BIN COMPLETENESS (WORKING+TEST) (%) : 100.0 REMARK 3 BIN R VALUE (WORKING SET) : 0.2950 REMARK 3 BIN FREE R VALUE SET COUNT : 78 REMARK 3 BIN FREE R VALUE : 0.3800 REMARK 3 REMARK 3 NUMBER OF NON-HYDROGEN ATOMS USED IN REFINEMENT. REMARK 3 PROTEIN ATOMS : 3143 REMARK 3 NUCLEIC ACID ATOMS : 0 REMARK 3 HETEROGEN ATOMS : 27 REMARK 3 SOLVENT ATOMS : 74 REMARK 3 REMARK 3 B VALUES. REMARK 3 FROM WILSON PLOT (A**2) : NULL REMARK 3 MEAN B VALUE (OVERALL, A**2) : 56.51 REMARK 3 OVERALL ANISOTROPIC B VALUE. REMARK 3 B11 (A**2) : 1.89000 REMARK 3 B22 (A**2) : -1.40000 REMARK 3 B33 (A**2) : -0.49000 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): 0.333 REMARK 3 ESU BASED ON FREE R VALUE (A): 0.245 REMARK 3 ESU BASED ON MAXIMUM LIKELIHOOD (A): 0.203 REMARK 3 ESU FOR B VALUES BASED ON MAXIMUM LIKELIHOOD (A**2): 14.591 REMARK 3 REMARK 3 CORRELATION COEFFICIENTS. REMARK 3 CORRELATION COEFFICIENT FO-FC : 0.934 REMARK 3 CORRELATION COEFFICIENT FO-FC FREE : 0.906 REMARK 3 REMARK 3 RMS DEVIATIONS FROM IDEAL VALUES COUNT RMS WEIGHT REMARK 3 BOND LENGTHS REFINED ATOMS (A): 3229 ; 0.008 ; 0.020 REMARK 3 BOND LENGTHS OTHERS (A): NULL ; NULL ; NULL REMARK 3 BOND ANGLES REFINED ATOMS (DEGREES): 4354 ; 1.700 ; 1.984 REMARK 3 BOND ANGLES OTHERS (DEGREES): NULL ; NULL ; NULL REMARK 3 TORSION ANGLES, PERIOD 1 (DEGREES): 391 ; 5.954 ; 5.000 REMARK 3 TORSION ANGLES, PERIOD 2 (DEGREES): 146 ;34.950 ;24.452 REMARK 3 TORSION ANGLES, PERIOD 3 (DEGREES): 599 ;19.258 ;15.000 REMARK 3 TORSION ANGLES, PERIOD 4 (DEGREES): 19 ;21.082 ;15.000 REMARK 3 CHIRAL-CENTER RESTRAINTS (A**3): 491 ; 0.202 ; 0.200 REMARK 3 GENERAL PLANES REFINED ATOMS (A): 2372 ; 0.004 ; 0.021 REMARK 3 GENERAL PLANES OTHERS (A): NULL ; NULL ; NULL 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): NULL ; NULL ; NULL REMARK 3 MAIN-CHAIN BOND OTHER ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 MAIN-CHAIN ANGLE REFINED ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 MAIN-CHAIN ANGLE OTHER ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 SIDE-CHAIN BOND REFINED ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 SIDE-CHAIN BOND OTHER ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 SIDE-CHAIN ANGLE REFINED ATOMS (A**2): NULL ; NULL ; NULL 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 : 2 REMARK 3 REMARK 3 TLS GROUP : 1 REMARK 3 NUMBER OF COMPONENTS GROUP : 2 REMARK 3 COMPONENTS C SSSEQI TO C SSSEQI REMARK 3 RESIDUE RANGE : A 9 A 46 REMARK 3 RESIDUE RANGE : A 103 A 148 REMARK 3 ORIGIN FOR THE GROUP (A): -15.7835 -4.2762 -13.1449 REMARK 3 T TENSOR REMARK 3 T11: 0.2493 T22: 0.0888 REMARK 3 T33: 0.2082 T12: -0.0066 REMARK 3 T13: -0.1245 T23: 0.0437 REMARK 3 L TENSOR REMARK 3 L11: 4.4212 L22: 9.9819 REMARK 3 L33: 2.3382 L12: 1.0337 REMARK 3 L13: -0.3295 L23: 3.9655 REMARK 3 S TENSOR REMARK 3 S11: -0.2532 S12: 0.1114 S13: 0.0777 REMARK 3 S21: 0.7050 S22: 0.2517 S23: -0.6914 REMARK 3 S31: 0.3059 S32: 0.2009 S33: 0.0015 REMARK 3 REMARK 3 TLS GROUP : 2 REMARK 3 NUMBER OF COMPONENTS GROUP : 2 REMARK 3 COMPONENTS C SSSEQI TO C SSSEQI REMARK 3 RESIDUE RANGE : A 160 A 378 REMARK 3 RESIDUE RANGE : A 388 A 430 REMARK 3 ORIGIN FOR THE GROUP (A): -34.3878 6.9788 -30.4394 REMARK 3 T TENSOR REMARK 3 T11: 0.0820 T22: 0.0608 REMARK 3 T33: 0.0790 T12: 0.0090 REMARK 3 T13: -0.0562 T23: 0.0357 REMARK 3 L TENSOR REMARK 3 L11: 2.7621 L22: 2.2164 REMARK 3 L33: 4.8952 L12: 0.6580 REMARK 3 L13: -2.1330 L23: -0.9559 REMARK 3 S TENSOR REMARK 3 S11: 0.1427 S12: -0.0371 S13: -0.1897 REMARK 3 S21: -0.0194 S22: -0.3602 S23: -0.2569 REMARK 3 S31: 0.0699 S32: 0.0765 S33: 0.2174 REMARK 3 REMARK 3 BULK SOLVENT MODELLING. REMARK 3 METHOD USED : 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 4AXC COMPLIES WITH FORMAT V. 3.30, 13-JUL-11 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY PDBE ON 12-JUN-12. REMARK 100 THE DEPOSITION ID IS D_1290052764. REMARK 200 REMARK 200 EXPERIMENTAL DETAILS REMARK 200 EXPERIMENT TYPE : X-RAY DIFFRACTION REMARK 200 DATE OF DATA COLLECTION : 09-DEC-10 REMARK 200 TEMPERATURE (KELVIN) : 100 REMARK 200 PH : 5.6 REMARK 200 NUMBER OF CRYSTALS USED : 1 REMARK 200 REMARK 200 SYNCHROTRON (Y/N) : Y REMARK 200 RADIATION SOURCE : ESRF REMARK 200 BEAMLINE : ID14-4 REMARK 200 X-RAY GENERATOR MODEL : NULL REMARK 200 MONOCHROMATIC OR LAUE (M/L) : M REMARK 200 WAVELENGTH OR RANGE (A) : 0.97940 REMARK 200 MONOCHROMATOR : NULL REMARK 200 OPTICS : NULL REMARK 200 REMARK 200 DETECTOR TYPE : CCD REMARK 200 DETECTOR MANUFACTURER : ADSC CCD REMARK 200 INTENSITY-INTEGRATION SOFTWARE : MOSFLM REMARK 200 DATA SCALING SOFTWARE : SCALA REMARK 200 REMARK 200 NUMBER OF UNIQUE REFLECTIONS : 24181 REMARK 200 RESOLUTION RANGE HIGH (A) : 2.250 REMARK 200 RESOLUTION RANGE LOW (A) : 47.440 REMARK 200 REJECTION CRITERIA (SIGMA(I)) : 2.000 REMARK 200 REMARK 200 OVERALL. REMARK 200 COMPLETENESS FOR RANGE (%) : 99.6 REMARK 200 DATA REDUNDANCY : 7.300 REMARK 200 R MERGE (I) : 0.07000 REMARK 200 R SYM (I) : NULL REMARK 200 FOR THE DATA SET : 15.4000 REMARK 200 REMARK 200 IN THE HIGHEST RESOLUTION SHELL. REMARK 200 HIGHEST RESOLUTION SHELL, RANGE HIGH (A) : 2.25 REMARK 200 HIGHEST RESOLUTION SHELL, RANGE LOW (A) : 2.31 REMARK 200 COMPLETENESS FOR SHELL (%) : 100.0 REMARK 200 DATA REDUNDANCY IN SHELL : 7.40 REMARK 200 R MERGE FOR SHELL (I) : 0.52000 REMARK 200 R SYM FOR SHELL (I) : NULL REMARK 200 FOR SHELL : 3.800 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 2XAN REMARK 200 REMARK 200 REMARK: NONE REMARK 280 REMARK 280 CRYSTAL REMARK 280 SOLVENT CONTENT, VS (%): 47.41 REMARK 280 MATTHEWS COEFFICIENT, VM (ANGSTROMS**3/DA): 2.34 REMARK 280 REMARK 280 CRYSTALLIZATION CONDITIONS: 0.2 M LITHIUM SULFATE 0.1 M TRIS HCL REMARK 280 PH 8.0 AND 29%(W/V) PEG 4000, PH 5.6 REMARK 290 REMARK 290 CRYSTALLOGRAPHIC SYMMETRY REMARK 290 SYMMETRY OPERATORS FOR SPACE GROUP: P 21 21 2 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 52.90000 REMARK 290 SMTRY2 3 0.000000 1.000000 0.000000 34.11500 REMARK 290 SMTRY3 3 0.000000 0.000000 -1.000000 0.00000 REMARK 290 SMTRY1 4 1.000000 0.000000 0.000000 52.90000 REMARK 290 SMTRY2 4 0.000000 -1.000000 0.000000 34.11500 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 -4 REMARK 465 GLU A -3 REMARK 465 PHE A -2 REMARK 465 GLU A -1 REMARK 465 LEU A 0 REMARK 465 MET A 1 REMARK 465 GLU A 2 REMARK 465 ASN A 47 REMARK 465 ASP A 48 REMARK 465 LYS A 49 REMARK 465 ALA A 50 REMARK 465 ILE A 51 REMARK 465 LYS A 52 REMARK 465 ASN A 53 REMARK 465 SER A 54 REMARK 465 ASN A 55 REMARK 465 GLY A 56 REMARK 465 VAL A 57 REMARK 465 VAL A 58 REMARK 465 SER A 59 REMARK 465 VAL A 60 REMARK 465 PHE A 152 REMARK 465 SER A 153 REMARK 465 GLN A 154 REMARK 465 GLY A 155 REMARK 465 ILE A 156 REMARK 465 THR A 157 REMARK 465 SER A 158 REMARK 465 GLY A 159 REMARK 465 GLY A 160 REMARK 465 ASP A 161 REMARK 465 LYS A 334 REMARK 465 GLU A 335 REMARK 465 GLY A 336 REMARK 465 ARG A 337 REMARK 465 PRO A 338 REMARK 465 LEU A 339 REMARK 465 GLU A 340 REMARK 465 ALA A 341 REMARK 465 ASP A 382 REMARK 465 SER A 383 REMARK 465 GLU A 384 REMARK 465 PRO A 385 REMARK 465 SER A 386 REMARK 465 GLY A 387 REMARK 465 LYS A 435 REMARK 465 ALA A 436 REMARK 465 GLU A 437 REMARK 465 ASN A 438 REMARK 465 THR A 439 REMARK 465 ALA A 440 REMARK 465 GLU A 441 REMARK 465 GLN A 442 REMARK 465 ILE A 443 REMARK 465 GLY A 444 REMARK 465 ASN A 445 REMARK 465 SER A 446 REMARK 465 LYS A 447 REMARK 465 PRO A 448 REMARK 465 SER A 449 REMARK 465 HIS A 450 REMARK 465 SER A 451 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 LEU A 23 CA - CB - CG ANGL. DEV. = 15.2 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 ARG A 70 -35.50 -35.04 REMARK 500 LYS A 170 -161.72 66.78 REMARK 500 GLN A 237 -124.08 44.32 REMARK 500 ARG A 259 131.51 -38.71 REMARK 500 ASP A 314 149.14 74.17 REMARK 500 ALA A 380 -29.90 -39.49 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 A2073 DISTANCE = 7.36 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 ZN A1435 ZN REMARK 620 N RES CSSEQI ATOM REMARK 620 1 HIS A 320 ND1 REMARK 620 2 CYS A 330 SG 111.2 REMARK 620 3 CYS A 333 SG 95.5 112.8 REMARK 620 4 HIS A 346 NE2 109.6 118.3 107.0 REMARK 620 N 1 2 3 REMARK 800 REMARK 800 SITE REMARK 800 SITE_IDENTIFIER: AC1 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE ZN A 1435 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC2 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE SO4 A 1436 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC3 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE SO4 A 1437 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC4 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE SO4 A 1438 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC5 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE SO4 A 1439 REMARK 900 REMARK 900 RELATED ENTRIES REMARK 900 RELATED ID: 2XAL RELATED DB: PDB REMARK 900 LEAD DERIVATIVE OF INOSITOL 1,3,4,5,6- PENTAKISPHOSPHATE 2-KINASE REMARK 900 FROM A. THALIANA IN COMPLEX WITH ADP AND IP6. REMARK 900 RELATED ID: 2XAM RELATED DB: PDB REMARK 900 INOSITOL 1,3,4,5,6-PENTAKISPHOSPHATE 2-KINASE FROM A. THALIANA IN REMARK 900 COMPLEX WITH ADP AND IP6. REMARK 900 RELATED ID: 2XAN RELATED DB: PDB REMARK 900 INOSITOL 1,3,4,5,6-PENTAKISPHOSPHATE 2-KINASE FROM A. THALIANA IN REMARK 900 COMPLEX WITH AMP PNP AND IP5 REMARK 900 RELATED ID: 2XAO RELATED DB: PDB REMARK 900 INOSITOL 1,3,4,5,6-PENTAKISPHOSPHATE 2-KINASE FROM A. THALIANA IN REMARK 900 COMPLEX WITH IP5 REMARK 900 RELATED ID: 2XAR RELATED DB: PDB REMARK 900 INOSITOL 1,3,4,5,6-PENTAKISPHOSPHATE 2-KINASE FROM A. THALIANA IN REMARK 900 COMPLEX WITH IP6. REMARK 900 RELATED ID: 4AQK RELATED DB: PDB REMARK 900 INOSITOL 1,3,4,5,6-PENTAKISPHOSPHATE 2-KINASE IN COMPLEX WITH ADP REMARK 900 AND IP6 REMARK 900 RELATED ID: 4AXD RELATED DB: PDB REMARK 900 INOSITOL 1,3,4,5,6-PENTAKISPHOSPHATE 2-KINASE IN COMPLEX WITH AMPPNP REMARK 900 RELATED ID: 4AXE RELATED DB: PDB REMARK 900 INOSITOL 1,3,4,5,6-PENTAKISPHOSPHATE 2-KINASE IN COMPLEX WITH ADP REMARK 900 RELATED ID: 4AXF RELATED DB: PDB REMARK 900 INSP5 2-K IN COMPLEX WITH INS(3,4,5,6)P4 PLUS AMPPNP DBREF 4AXC A 1 451 UNP Q93YN9 IPPK_ARATH 1 451 SEQADV 4AXC GLY A -4 UNP Q93YN9 EXPRESSION TAG SEQADV 4AXC GLU A -3 UNP Q93YN9 EXPRESSION TAG SEQADV 4AXC PHE A -2 UNP Q93YN9 EXPRESSION TAG SEQADV 4AXC GLU A -1 UNP Q93YN9 EXPRESSION TAG SEQADV 4AXC LEU A 0 UNP Q93YN9 EXPRESSION TAG SEQADV 4AXC SER A 54 UNP Q93YN9 ALA 54 CONFLICT SEQADV 4AXC GLN A 90 UNP Q93YN9 LYS 90 CONFLICT SEQADV 4AXC ALA A 129 UNP Q93YN9 TRP 129 CONFLICT SEQADV 4AXC THR A 157 UNP Q93YN9 SER 157 CONFLICT SEQADV 4AXC ILE A 204 UNP Q93YN9 ASN 204 CONFLICT SEQADV 4AXC ARG A 224 UNP Q93YN9 SER 224 CONFLICT SEQADV 4AXC CYS A 321 UNP Q93YN9 SER 321 CONFLICT SEQADV 4AXC ILE A 325 UNP Q93YN9 LEU 325 CONFLICT SEQADV 4AXC ARG A 337 UNP Q93YN9 LYS 337 CONFLICT SEQRES 1 A 456 GLY GLU PHE GLU LEU MET GLU MET ILE LEU GLU GLU LYS SEQRES 2 A 456 ASP ALA SER ASP TRP ILE TYR ARG GLY GLU GLY GLY ALA SEQRES 3 A 456 ASN LEU VAL LEU ALA TYR ALA GLY SER SER PRO LEU PHE SEQRES 4 A 456 VAL GLY LYS VAL ILE ARG ILE GLN LYS ALA ARG ARG ASN SEQRES 5 A 456 ASP LYS ALA ILE LYS ASN SER ASN GLY VAL VAL SER VAL SEQRES 6 A 456 LEU THR SER ASP GLU GLN HIS LEU TRP ARG GLU ASN ASN SEQRES 7 A 456 GLU LEU ILE SER SER PRO ASN LYS GLU VAL LEU GLU GLN SEQRES 8 A 456 ARG TYR VAL GLN ASN VAL ILE ILE PRO LEU LEU GLY PRO SEQRES 9 A 456 LYS HIS VAL ASP ALA GLY VAL ARG VAL SER VAL SER LYS SEQRES 10 A 456 GLU PHE LEU GLU CYS VAL ASP LYS LYS VAL THR LYS GLN SEQRES 11 A 456 ARG PRO LEU ALA ARG VAL ASN ALA ALA ASN VAL ASP THR SEQRES 12 A 456 SER HIS ASP SER ALA LEU ILE LEU ASN ASP HIS SER LEU SEQRES 13 A 456 PHE SER GLN GLY ILE THR SER GLY GLY ASP CYS ILE SER SEQRES 14 A 456 VAL GLU ILE LYS PRO LYS CYS GLY PHE LEU PRO THR SER SEQRES 15 A 456 ARG PHE ILE GLY LYS GLU ASN MET LEU LYS THR SER VAL SEQRES 16 A 456 SER ARG PHE LYS MET HIS GLN LEU LEU LYS LEU GLU TYR SEQRES 17 A 456 ILE GLU ILE SER GLU GLU SER GLU TYR ASP PRO LEU ASP SEQRES 18 A 456 LEU PHE SER GLY SER LYS GLU ARG VAL LEU GLU ALA ILE SEQRES 19 A 456 LYS ALA LEU TYR SER THR PRO GLN ASN ASN PHE ARG VAL SEQRES 20 A 456 PHE LEU ASN GLY SER LEU ILE LEU GLY GLY SER GLY GLU SEQRES 21 A 456 SER THR GLY ARG THR SER PRO GLU ILE GLY TYR ALA PHE SEQRES 22 A 456 GLU ASP ALA LEU LYS GLY PHE ILE GLN SER GLU ASP GLY SEQRES 23 A 456 HIS ARG THR GLU CYS PHE LEU GLN LEU VAL SER ASP ALA SEQRES 24 A 456 VAL TYR GLY SER GLY VAL LEU ASP ARG LEU LEU GLU ILE SEQRES 25 A 456 GLN LYS LEU ASP LYS LEU ASP ILE GLU GLY ALA ILE HIS SEQRES 26 A 456 CYS TYR TYR ASP ILE ILE ASN GLN PRO CYS PRO ILE CYS SEQRES 27 A 456 LYS GLU GLY ARG PRO LEU GLU ALA GLU LEU SER LEU HIS SEQRES 28 A 456 ALA LEU PRO LEU ASP GLU SER LEU LYS ILE VAL LYS GLU SEQRES 29 A 456 TYR LEU ILE ALA ALA THR ALA LYS ASP CYS SER ILE MET SEQRES 30 A 456 ILE SER PHE GLN SER ARG ASN ALA TRP ASP SER GLU PRO SEQRES 31 A 456 SER GLY ASP TYR VAL SER LEU LYS PRO THR ASN GLN THR SEQRES 32 A 456 PHE ASP TYR LYS VAL HIS PHE ILE ASP LEU SER LEU LYS SEQRES 33 A 456 PRO LEU LYS ARG MET GLU SER TYR TYR LYS LEU ASP LYS SEQRES 34 A 456 LYS ILE ILE SER PHE TYR ASN ARG LYS GLN LYS ALA GLU SEQRES 35 A 456 ASN THR ALA GLU GLN ILE GLY ASN SER LYS PRO SER HIS SEQRES 36 A 456 SER HET ZN A1435 1 HET SO4 A1436 5 HET SO4 A1437 5 HET SO4 A1438 5 HET SO4 A1439 5 HET GOL A1440 6 HETNAM ZN ZINC ION HETNAM SO4 SULFATE ION HETNAM GOL GLYCEROL HETSYN GOL GLYCERIN; PROPANE-1,2,3-TRIOL FORMUL 2 ZN ZN 2+ FORMUL 3 SO4 4(O4 S 2-) FORMUL 7 GOL C3 H8 O3 FORMUL 8 HOH *74(H2 O) HELIX 1 1 LYS A 8 SER A 11 5 4 HELIX 2 2 THR A 62 ARG A 70 1 9 HELIX 3 3 ASN A 72 SER A 77 1 6 HELIX 4 4 ASN A 80 VAL A 92 1 13 HELIX 5 5 ILE A 93 GLY A 98 1 6 HELIX 6 6 PRO A 99 VAL A 102 5 4 HELIX 7 7 SER A 111 ARG A 126 1 16 HELIX 8 8 PRO A 127 VAL A 131 5 5 HELIX 9 9 GLY A 181 SER A 189 5 9 HELIX 10 10 SER A 191 TYR A 203 1 13 HELIX 11 11 ASP A 213 PHE A 218 1 6 HELIX 12 12 SER A 221 THR A 235 1 15 HELIX 13 13 SER A 261 LEU A 272 1 12 HELIX 14 14 HIS A 282 GLY A 299 1 18 HELIX 15 15 GLY A 299 LYS A 309 1 11 HELIX 16 16 ASP A 314 ILE A 326 1 13 HELIX 17 17 PRO A 349 CYS A 369 1 21 HELIX 18 18 PRO A 412 LYS A 414 5 3 HELIX 19 19 ARG A 415 GLN A 434 1 20 SHEET 1 AA 5 TRP A 13 GLU A 18 0 SHEET 2 AA 5 ASN A 22 TYR A 27 -1 O VAL A 24 N ARG A 16 SHEET 3 AA 5 LYS A 37 GLN A 42 -1 O LYS A 37 N TYR A 27 SHEET 4 AA 5 SER A 142 ASN A 147 -1 O LEU A 144 N ARG A 40 SHEET 5 AA 5 VAL A 106 SER A 109 -1 O VAL A 106 N ILE A 145 SHEET 1 AB 6 SER A 247 LEU A 250 0 SHEET 2 AB 6 PHE A 240 LEU A 244 -1 O VAL A 242 N ILE A 249 SHEET 3 AB 6 ILE A 163 ILE A 167 -1 O SER A 164 N PHE A 243 SHEET 4 AB 6 SER A 370 ARG A 378 -1 O ILE A 371 N ILE A 167 SHEET 5 AB 6 GLN A 397 ILE A 406 -1 O THR A 398 N ARG A 378 SHEET 6 AB 6 TYR A 389 LEU A 392 -1 O VAL A 390 N PHE A 399 LINK ND1 HIS A 320 ZN ZN A1435 1555 1555 2.26 LINK SG CYS A 330 ZN ZN A1435 1555 1555 2.37 LINK SG CYS A 333 ZN ZN A1435 1555 1555 2.44 LINK NE2 HIS A 346 ZN ZN A1435 1555 1555 2.05 SITE 1 AC1 4 HIS A 320 CYS A 330 CYS A 333 HIS A 346 SITE 1 AC2 5 GLY A 20 LYS A 43 ALA A 133 ALA A 134 SITE 2 AC2 5 LYS A 309 SITE 1 AC3 5 LYS A 168 LYS A 200 ASN A 238 GLU A 255 SITE 2 AC3 5 HOH A2047 SITE 1 AC4 4 GLY A 19 GLY A 20 ALA A 21 ASN A 22 SITE 1 AC5 5 SER A 374 PHE A 375 GLN A 376 ASP A 400 SITE 2 AC5 5 LYS A 402 CRYST1 105.800 68.230 66.000 90.00 90.00 90.00 P 21 21 2 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 0.009452 0.000000 0.000000 0.00000 SCALE2 0.000000 0.014656 0.000000 0.00000 SCALE3 0.000000 0.000000 0.015152 0.00000