HEADER TRANSFERASE 18-APR-12 4AQK TITLE INOSITOL 1,3,4,5,6-PENTAKISPHOSPHATE 2-KINASE IN COMPLEX WITH ADP AND TITLE 2 IP6 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(1,3,4,5, COMPND 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, INOSITIDE KINASE, PHYTIC ACID, INOSITIDE SIGNALLING, KEYWDS 2 INSP5 2-K EXPDTA X-RAY DIFFRACTION AUTHOR J.I BANOS-SANZ,J.SANZ-APARICIO,B.GONZALEZ REVDAT 4 20-DEC-23 4AQK 1 REMARK REVDAT 3 07-OCT-20 4AQK 1 COMPND REMARK HET HETNAM REVDAT 3 2 1 HETSYN LINK SITE ATOM REVDAT 2 05-FEB-14 4AQK 1 JRNL REVDAT 1 02-MAY-12 4AQK 0 JRNL AUTH J.I.BANOS-SANZ,J.SANZ-APARICIO,C.A.BREARLEY,B.GONZALEZ JRNL TITL EXPRESSION, PURIFICATION, CRYSTALLIZATION AND PRELIMINARY JRNL TITL 2 X-RAY DIFFRACTION ANALYSIS OF THE APO FORM OF INSP5 2-K FROM JRNL TITL 3 ARABIDOPSIS THALIANA. JRNL REF ACTA CRYSTALLOGR.,SECT.F V. 68 701 2012 JRNL REFN ESSN 1744-3091 JRNL PMID 22684075 JRNL DOI 10.1107/S1744309112017307 REMARK 2 REMARK 2 RESOLUTION. 2.40 ANGSTROMS. REMARK 3 REMARK 3 REFINEMENT. REMARK 3 PROGRAM : REFMAC 5.5.0102 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) : 2.40 REMARK 3 RESOLUTION RANGE LOW (ANGSTROMS) : 60.90 REMARK 3 DATA CUTOFF (SIGMA(F)) : NULL REMARK 3 COMPLETENESS FOR RANGE (%) : 95.7 REMARK 3 NUMBER OF REFLECTIONS : 18278 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) : 0.246 REMARK 3 R VALUE (WORKING SET) : 0.244 REMARK 3 FREE R VALUE : 0.292 REMARK 3 FREE R VALUE TEST SET SIZE (%) : 5.100 REMARK 3 FREE R VALUE TEST SET COUNT : 984 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) : 2.40 REMARK 3 BIN RESOLUTION RANGE LOW (A) : 2.46 REMARK 3 REFLECTION IN BIN (WORKING SET) : 1223 REMARK 3 BIN COMPLETENESS (WORKING+TEST) (%) : 89.56 REMARK 3 BIN R VALUE (WORKING SET) : 0.3010 REMARK 3 BIN FREE R VALUE SET COUNT : 73 REMARK 3 BIN FREE R VALUE : 0.3000 REMARK 3 REMARK 3 NUMBER OF NON-HYDROGEN ATOMS USED IN REFINEMENT. REMARK 3 PROTEIN ATOMS : 3297 REMARK 3 NUCLEIC ACID ATOMS : 0 REMARK 3 HETEROGEN ATOMS : 65 REMARK 3 SOLVENT ATOMS : 60 REMARK 3 REMARK 3 B VALUES. REMARK 3 FROM WILSON PLOT (A**2) : NULL REMARK 3 MEAN B VALUE (OVERALL, A**2) : 27.45 REMARK 3 OVERALL ANISOTROPIC B VALUE. REMARK 3 B11 (A**2) : -0.66000 REMARK 3 B22 (A**2) : 4.18000 REMARK 3 B33 (A**2) : -3.52000 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): 0.522 REMARK 3 ESU BASED ON FREE R VALUE (A): 0.313 REMARK 3 ESU BASED ON MAXIMUM LIKELIHOOD (A): 0.254 REMARK 3 ESU FOR B VALUES BASED ON MAXIMUM LIKELIHOOD (A**2): 11.004 REMARK 3 REMARK 3 CORRELATION COEFFICIENTS. REMARK 3 CORRELATION COEFFICIENT FO-FC : 0.902 REMARK 3 CORRELATION COEFFICIENT FO-FC FREE : 0.852 REMARK 3 REMARK 3 RMS DEVIATIONS FROM IDEAL VALUES COUNT RMS WEIGHT REMARK 3 BOND LENGTHS REFINED ATOMS (A): 3421 ; 0.006 ; 0.022 REMARK 3 BOND LENGTHS OTHERS (A): NULL ; NULL ; NULL REMARK 3 BOND ANGLES REFINED ATOMS (DEGREES): 4626 ; 1.133 ; 2.002 REMARK 3 BOND ANGLES OTHERS (DEGREES): NULL ; NULL ; NULL REMARK 3 TORSION ANGLES, PERIOD 1 (DEGREES): 410 ; 5.091 ; 5.000 REMARK 3 TORSION ANGLES, PERIOD 2 (DEGREES): 154 ;36.164 ;24.416 REMARK 3 TORSION ANGLES, PERIOD 3 (DEGREES): 628 ;17.174 ;15.000 REMARK 3 TORSION ANGLES, PERIOD 4 (DEGREES): 21 ;16.748 ;15.000 REMARK 3 CHIRAL-CENTER RESTRAINTS (A**3): 513 ; 0.065 ; 0.200 REMARK 3 GENERAL PLANES REFINED ATOMS (A): 2504 ; 0.003 ; 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): 2058 ; 0.362 ; 1.500 REMARK 3 MAIN-CHAIN BOND OTHER ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 MAIN-CHAIN ANGLE REFINED ATOMS (A**2): 3321 ; 0.684 ; 2.000 REMARK 3 MAIN-CHAIN ANGLE OTHER ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 SIDE-CHAIN BOND REFINED ATOMS (A**2): 1363 ; 0.826 ; 3.000 REMARK 3 SIDE-CHAIN BOND OTHER ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 SIDE-CHAIN ANGLE REFINED ATOMS (A**2): 1305 ; 1.487 ; 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 : NULL 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 REFINED INDIVIDUALLY REMARK 4 REMARK 4 4AQK COMPLIES WITH FORMAT V. 3.30, 13-JUL-11 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY PDBE ON 18-APR-12. REMARK 100 THE DEPOSITION ID IS D_1290052111. REMARK 200 REMARK 200 EXPERIMENTAL DETAILS REMARK 200 EXPERIMENT TYPE : X-RAY DIFFRACTION REMARK 200 DATE OF DATA COLLECTION : 09-SEP-10 REMARK 200 TEMPERATURE (KELVIN) : 100 REMARK 200 PH : 5.9 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 : 20463 REMARK 200 RESOLUTION RANGE HIGH (A) : 2.400 REMARK 200 RESOLUTION RANGE LOW (A) : 62.110 REMARK 200 REJECTION CRITERIA (SIGMA(I)) : 2.000 REMARK 200 REMARK 200 OVERALL. REMARK 200 COMPLETENESS FOR RANGE (%) : 96.4 REMARK 200 DATA REDUNDANCY : 5.500 REMARK 200 R MERGE (I) : 0.14000 REMARK 200 R SYM (I) : NULL REMARK 200 FOR THE DATA SET : 9.6000 REMARK 200 REMARK 200 IN THE HIGHEST RESOLUTION SHELL. REMARK 200 HIGHEST RESOLUTION SHELL, RANGE HIGH (A) : 2.40 REMARK 200 HIGHEST RESOLUTION SHELL, RANGE LOW (A) : 2.53 REMARK 200 COMPLETENESS FOR SHELL (%) : 91.0 REMARK 200 DATA REDUNDANCY IN SHELL : 5.00 REMARK 200 R MERGE FOR SHELL (I) : 0.51000 REMARK 200 R SYM FOR SHELL (I) : NULL REMARK 200 FOR SHELL : 3.100 REMARK 200 REMARK 200 DIFFRACTION PROTOCOL: SINGLE WAVELENGTH REMARK 200 METHOD USED TO DETERMINE THE STRUCTURE: MOLECULAR REPLACEMENT REMARK 200 SOFTWARE USED: MOLREP REMARK 200 STARTING MODEL: PDB ENTRY 2XAN REMARK 200 REMARK 200 REMARK: NONE REMARK 280 REMARK 280 CRYSTAL REMARK 280 SOLVENT CONTENT, VS (%): 49.77 REMARK 280 MATTHEWS COEFFICIENT, VM (ANGSTROMS**3/DA): 2.45 REMARK 280 REMARK 280 CRYSTALLIZATION CONDITIONS: 22% PEG 3350, BIS-TRIS PH 5.9 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 31.05500 REMARK 290 SMTRY2 2 0.000000 -1.000000 0.000000 0.00000 REMARK 290 SMTRY3 2 0.000000 0.000000 1.000000 60.89500 REMARK 290 SMTRY1 3 -1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY2 3 0.000000 1.000000 0.000000 32.83000 REMARK 290 SMTRY3 3 0.000000 0.000000 -1.000000 60.89500 REMARK 290 SMTRY1 4 1.000000 0.000000 0.000000 31.05500 REMARK 290 SMTRY2 4 0.000000 -1.000000 0.000000 32.83000 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 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 ILE A 156 REMARK 465 THR A 157 REMARK 465 SER A 158 REMARK 465 ASN A 379 REMARK 465 ALA A 380 REMARK 465 TRP A 381 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 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 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 ASN A 438 CA C O CB CG OD1 ND2 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 NH2 ARG A 337 CD2 LEU A 339 2.16 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 GLU A 335 CB - CA - C ANGL. DEV. = -16.9 DEGREES REMARK 500 LEU A 339 CB - CA - C ANGL. DEV. = -23.6 DEGREES REMARK 500 GLU A 340 N - CA - CB ANGL. DEV. = 11.2 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 ALA A 28 18.99 -142.38 REMARK 500 VAL A 92 -53.43 -124.85 REMARK 500 LYS A 170 -162.83 63.91 REMARK 500 GLN A 237 -127.92 39.39 REMARK 500 ASP A 280 -67.81 -109.80 REMARK 500 ASP A 314 163.67 63.92 REMARK 500 GLU A 335 4.81 54.96 REMARK 500 LEU A 339 -4.04 71.44 REMARK 500 LEU A 408 63.83 -104.98 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 ZN A 700 ZN REMARK 620 N RES CSSEQI ATOM REMARK 620 1 HIS A 320 ND1 REMARK 620 2 CYS A 330 SG 108.2 REMARK 620 3 CYS A 333 SG 100.7 119.2 REMARK 620 4 HIS A 346 NE2 110.5 116.4 100.7 REMARK 620 N 1 2 3 REMARK 620 REMARK 620 COORDINATION ANGLES FOR: M RES CSSEQI METAL REMARK 620 MG A 800 MG REMARK 620 N RES CSSEQI ATOM REMARK 620 1 ASP A 407 OD1 REMARK 620 2 SER A 409 OG 73.9 REMARK 620 3 IHP A 500 O43 76.2 145.2 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 IHP A 500 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC2 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE ADP A 600 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC3 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE ZN A 700 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC4 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE MG A 800 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. DBREF 4AQK A 1 451 UNP Q93YN9 IPPK_ARATH 1 451 SEQADV 4AQK GLY A -4 UNP Q93YN9 EXPRESSION TAG SEQADV 4AQK GLU A -3 UNP Q93YN9 EXPRESSION TAG SEQADV 4AQK PHE A -2 UNP Q93YN9 EXPRESSION TAG SEQADV 4AQK GLU A -1 UNP Q93YN9 EXPRESSION TAG SEQADV 4AQK LEU A 0 UNP Q93YN9 EXPRESSION TAG SEQADV 4AQK SER A 54 UNP Q93YN9 ALA 54 SEE REMARK 999 SEQADV 4AQK GLN A 90 UNP Q93YN9 LYS 90 SEE REMARK 999 SEQADV 4AQK THR A 157 UNP Q93YN9 SER 157 SEE REMARK 999 SEQADV 4AQK ILE A 204 UNP Q93YN9 ASN 204 SEE REMARK 999 SEQADV 4AQK ARG A 224 UNP Q93YN9 SER 224 SEE REMARK 999 SEQADV 4AQK CYS A 321 UNP Q93YN9 SER 321 SEE REMARK 999 SEQADV 4AQK ILE A 325 UNP Q93YN9 LEU 325 SEE REMARK 999 SEQADV 4AQK ARG A 334 UNP Q93YN9 LYS 334 CONFLICT SEQADV 4AQK ARG A 337 UNP Q93YN9 LYS 337 SEE REMARK 999 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 TRP 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 ARG 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 IHP A 500 36 HET ADP A 600 27 HET ZN A 700 1 HET MG A 800 1 HETNAM IHP INOSITOL HEXAKISPHOSPHATE HETNAM ADP ADENOSINE-5'-DIPHOSPHATE HETNAM ZN ZINC ION HETNAM MG MAGNESIUM ION HETSYN IHP MYO-INOSITOL HEXAKISPHOSPHATE; INOSITOL 1,2,3,4,5,6- HETSYN 2 IHP HEXAKISPHOSPHATE FORMUL 2 IHP C6 H18 O24 P6 FORMUL 3 ADP C10 H15 N5 O10 P2 FORMUL 4 ZN ZN 2+ FORMUL 5 MG MG 2+ FORMUL 6 HOH *60(H2 O) HELIX 1 1 GLU A 7 SER A 11 5 5 HELIX 2 2 THR A 62 TRP A 69 1 8 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 HIS A 101 5 3 HELIX 7 7 SER A 111 THR A 123 1 13 HELIX 8 8 LYS A 124 ARG A 126 5 3 HELIX 9 9 PRO A 127 ALA A 133 1 7 HELIX 10 10 THR A 176 ILE A 180 5 5 HELIX 11 11 GLY A 181 SER A 189 5 9 HELIX 12 12 SER A 191 TYR A 203 1 13 HELIX 13 13 ASP A 213 SER A 219 1 7 HELIX 14 14 SER A 221 THR A 235 1 15 HELIX 15 15 SER A 261 LEU A 272 1 12 HELIX 16 16 HIS A 282 GLY A 299 1 18 HELIX 17 17 GLY A 299 LYS A 309 1 11 HELIX 18 18 ASP A 314 ILE A 326 1 13 HELIX 19 19 GLU A 342 ALA A 347 1 6 HELIX 20 20 PRO A 349 ASP A 368 1 20 HELIX 21 21 PRO A 412 LYS A 414 5 3 HELIX 22 22 ARG A 415 ALA A 436 1 22 SHEET 1 AA 5 ILE A 4 LEU A 5 0 SHEET 2 AA 5 VAL A 106 VAL A 110 1 O SER A 109 N LEU A 5 SHEET 3 AA 5 SER A 142 ASN A 147 -1 O ALA A 143 N VAL A 108 SHEET 4 AA 5 LYS A 37 ARG A 45 -1 O VAL A 38 N LEU A 146 SHEET 5 AA 5 ALA A 134 VAL A 136 -1 O ASN A 135 N ALA A 44 SHEET 1 AB 6 ILE A 4 LEU A 5 0 SHEET 2 AB 6 VAL A 106 VAL A 110 1 O SER A 109 N LEU A 5 SHEET 3 AB 6 SER A 142 ASN A 147 -1 O ALA A 143 N VAL A 108 SHEET 4 AB 6 LYS A 37 ARG A 45 -1 O VAL A 38 N LEU A 146 SHEET 5 AB 6 ASN A 22 TYR A 27 -1 O LEU A 23 N ILE A 41 SHEET 6 AB 6 TRP A 13 GLU A 18 -1 O ILE A 14 N ALA A 26 SHEET 1 AC 2 ALA A 134 VAL A 136 0 SHEET 2 AC 2 LYS A 37 ARG A 45 -1 O ALA A 44 N ASN A 135 SHEET 1 AD 5 SER A 247 LEU A 250 0 SHEET 2 AD 5 PHE A 240 LEU A 244 -1 O VAL A 242 N ILE A 249 SHEET 3 AD 5 ILE A 163 ILE A 167 -1 O SER A 164 N PHE A 243 SHEET 4 AD 5 SER A 370 LEU A 392 -1 O ILE A 371 N ILE A 167 SHEET 5 AD 5 GLN A 397 ILE A 406 -1 O GLN A 397 N LEU A 392 LINK ND1 HIS A 320 ZN ZN A 700 1555 1555 2.11 LINK SG CYS A 330 ZN ZN A 700 1555 1555 2.12 LINK SG CYS A 333 ZN ZN A 700 1555 1555 2.14 LINK NE2 HIS A 346 ZN ZN A 700 1555 1555 1.97 LINK OD1 ASP A 407 MG MG A 800 1555 1555 2.68 LINK OG SER A 409 MG MG A 800 1555 1555 2.82 LINK O43 IHP A 500 MG MG A 800 1555 1555 2.97 CISPEP 1 ARG A 46 ASN A 47 0 6.82 CISPEP 2 GLY A 159 GLY A 160 0 -1.27 CISPEP 3 GLU A 279 ASP A 280 0 -7.27 SITE 1 AC1 16 GLY A 19 GLY A 20 ALA A 21 ARG A 130 SITE 2 AC1 16 LYS A 170 HIS A 196 LYS A 200 ASN A 238 SITE 3 AC1 16 ASP A 368 ASP A 407 LYS A 411 ARG A 415 SITE 4 AC1 16 TYR A 419 ADP A 600 MG A 800 HOH A2043 SITE 1 AC2 17 GLY A 19 GLY A 20 ALA A 21 ASN A 22 SITE 2 AC2 17 VAL A 24 VAL A 38 ARG A 40 ASN A 147 SITE 3 AC2 17 ASP A 148 HIS A 149 GLU A 166 ARG A 241 SITE 4 AC2 17 MET A 372 ASP A 407 IHP A 500 MG A 800 SITE 5 AC2 17 HOH A2060 SITE 1 AC3 4 HIS A 320 CYS A 330 CYS A 333 HIS A 346 SITE 1 AC4 4 ASP A 407 SER A 409 IHP A 500 ADP A 600 CRYST1 62.110 65.660 121.790 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 0.016100 0.000000 0.000000 0.00000 SCALE2 0.000000 0.015230 0.000000 0.00000 SCALE3 0.000000 0.000000 0.008211 0.00000