HEADER TRANSFERASE 07-SEP-15 5ANL TITLE CRYSTAL STRUCTURE OF VPS34 IN COMPLEX WITH (2S)-8-((3R)-3- TITLE 2 METHYLMORPHOLIN-4-YL)-1-(3-METHYL-2-OXO- BUTYL)-2-(TRIFLUOROMETHYL)- TITLE 3 3, 4-DIHYDRO-2H-PYRIMIDO(1,2-A)PYRIMIDIN-6- ONE, PROCESSED WITH THE TITLE 4 CRYSTALDIRECT AUTOMATED MOUNTING AND CRYO-COOLING TECHNOLOGY COMPND MOL_ID: 1; COMPND 2 MOLECULE: PHOSPHATIDYLINOSITOL 3-KINASE CATALYTIC SUBUNIT TYPE 3; COMPND 3 CHAIN: A; COMPND 4 FRAGMENT: VPS34 HELICAL AND KINASE DOMAINS, UNP RESIDUES 282-879; COMPND 5 SYNONYM: PI3-KINASE TYPE 3, PI3K TYPE 3, PTDINS-3-KINASE TYPE 3, COMPND 6 PHOSPHATIDYLINOSITOL 3-KINASE P100 SUBUNIT, PHOSPHOINOSITIDE-3-KINASE COMPND 7 CLASS 3, HVPS34; COMPND 8 EC: 2.7.1.137; COMPND 9 ENGINEERED: YES 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: 562 KEYWDS TRANSFERASE, LIPID KINASE, AUTOMATED CRYSTAL HARVESTING, AUTOMATED KEYWDS 2 CRYO- COOLING, CRYSTALDIRECT EXPDTA X-RAY DIFFRACTION AUTHOR U.ZANDER,G.HOFFMANN,M.MATHIEU,J.-P.MARQUETTE,I.CORNACIU,F.CIPRIANI, AUTHOR 2 J.A.MARQUEZ REVDAT 3 08-MAY-24 5ANL 1 REMARK REVDAT 2 20-APR-16 5ANL 1 JRNL REVDAT 1 13-APR-16 5ANL 0 JRNL AUTH U.ZANDER,G.HOFFMANN,I.CORNACIU,J.-P.MARQUETTE,G.PAPP, JRNL AUTH 2 C.LANDRET,G.SEROUL,J.SINOIR,M.ROEWER,F.FELISAZ, JRNL AUTH 3 S.RODRIGUEZ-PUENTE,V.MARIAULE,P.MURPHY,M.MATHIEU,F.CIPRIANI, JRNL AUTH 4 J.A.MARQUEZ JRNL TITL AUTOMATED HARVESTING AND PROCESSING OF PROTEIN CRYSTALS JRNL TITL 2 THROUGH LASER PHOTOABLATION. JRNL REF ACTA CRYSTALLOGR.,SECT.D V. 72 454 2016 JRNL REFN ISSN 0907-4449 JRNL PMID 27050125 JRNL DOI 10.1107/S2059798316000954 REMARK 2 REMARK 2 RESOLUTION. 2.70 ANGSTROMS. REMARK 3 REMARK 3 REFINEMENT. REMARK 3 PROGRAM : REFMAC 5.8.0073 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) : 2.70 REMARK 3 RESOLUTION RANGE LOW (ANGSTROMS) : 30.00 REMARK 3 DATA CUTOFF (SIGMA(F)) : NULL REMARK 3 COMPLETENESS FOR RANGE (%) : 99.8 REMARK 3 NUMBER OF REFLECTIONS : 21323 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) : 0.208 REMARK 3 R VALUE (WORKING SET) : 0.205 REMARK 3 FREE R VALUE : 0.267 REMARK 3 FREE R VALUE TEST SET SIZE (%) : 4.900 REMARK 3 FREE R VALUE TEST SET COUNT : 1108 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) : 2.70 REMARK 3 BIN RESOLUTION RANGE LOW (A) : 2.77 REMARK 3 REFLECTION IN BIN (WORKING SET) : 1550 REMARK 3 BIN COMPLETENESS (WORKING+TEST) (%) : 100.0 REMARK 3 BIN R VALUE (WORKING SET) : 0.3460 REMARK 3 BIN FREE R VALUE SET COUNT : 66 REMARK 3 BIN FREE R VALUE : 0.4290 REMARK 3 REMARK 3 NUMBER OF NON-HYDROGEN ATOMS USED IN REFINEMENT. REMARK 3 PROTEIN ATOMS : 4304 REMARK 3 NUCLEIC ACID ATOMS : 0 REMARK 3 HETEROGEN ATOMS : 27 REMARK 3 SOLVENT ATOMS : 85 REMARK 3 REMARK 3 B VALUES. REMARK 3 FROM WILSON PLOT (A**2) : NULL REMARK 3 MEAN B VALUE (OVERALL, A**2) : 45.42 REMARK 3 OVERALL ANISOTROPIC B VALUE. REMARK 3 B11 (A**2) : 6.19000 REMARK 3 B22 (A**2) : -0.01000 REMARK 3 B33 (A**2) : -6.18000 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): 0.620 REMARK 3 ESU BASED ON FREE R VALUE (A): 0.333 REMARK 3 ESU BASED ON MAXIMUM LIKELIHOOD (A): 0.312 REMARK 3 ESU FOR B VALUES BASED ON MAXIMUM LIKELIHOOD (A**2): 16.111 REMARK 3 REMARK 3 CORRELATION COEFFICIENTS. REMARK 3 CORRELATION COEFFICIENT FO-FC : 0.944 REMARK 3 CORRELATION COEFFICIENT FO-FC FREE : 0.898 REMARK 3 REMARK 3 RMS DEVIATIONS FROM IDEAL VALUES COUNT RMS WEIGHT REMARK 3 BOND LENGTHS REFINED ATOMS (A): 4416 ; 0.012 ; 0.019 REMARK 3 BOND LENGTHS OTHERS (A): 4236 ; 0.002 ; 0.020 REMARK 3 BOND ANGLES REFINED ATOMS (DEGREES): 5993 ; 1.527 ; 1.981 REMARK 3 BOND ANGLES OTHERS (DEGREES): 9735 ; 0.816 ; 3.000 REMARK 3 TORSION ANGLES, PERIOD 1 (DEGREES): 540 ; 5.861 ; 5.000 REMARK 3 TORSION ANGLES, PERIOD 2 (DEGREES): 203 ;39.657 ;24.877 REMARK 3 TORSION ANGLES, PERIOD 3 (DEGREES): 776 ;16.523 ;15.000 REMARK 3 TORSION ANGLES, PERIOD 4 (DEGREES): 24 ;18.737 ;15.000 REMARK 3 CHIRAL-CENTER RESTRAINTS (A**3): 685 ; 0.075 ; 0.200 REMARK 3 GENERAL PLANES REFINED ATOMS (A): 4995 ; 0.006 ; 0.021 REMARK 3 GENERAL PLANES OTHERS (A): 973 ; 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): 2169 ; 2.902 ; 4.437 REMARK 3 MAIN-CHAIN BOND OTHER ATOMS (A**2): 2170 ; 2.901 ; 4.438 REMARK 3 MAIN-CHAIN ANGLE REFINED ATOMS (A**2): 2707 ; 4.584 ; 6.654 REMARK 3 MAIN-CHAIN ANGLE OTHER ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 SIDE-CHAIN BOND REFINED ATOMS (A**2): 2247 ; 3.321 ; 4.774 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 : NULL REMARK 3 REMARK 3 BULK SOLVENT MODELLING. REMARK 3 METHOD USED : MASK REMARK 3 PARAMETERS FOR MASK CALCULATION REMARK 3 VDW PROBE RADIUS : 1.20 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. U VALUES, REFINED INDIVIDUALLY REMARK 4 REMARK 4 5ANL COMPLIES WITH FORMAT V. 3.30, 13-JUL-11 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY PDBE ON 07-SEP-15. REMARK 100 THE DEPOSITION ID IS D_1290064904. REMARK 200 REMARK 200 EXPERIMENTAL DETAILS REMARK 200 EXPERIMENT TYPE : X-RAY DIFFRACTION REMARK 200 DATE OF DATA COLLECTION : NULL REMARK 200 TEMPERATURE (KELVIN) : 100 REMARK 200 PH : NULL REMARK 200 NUMBER OF CRYSTALS USED : NULL 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) : 0.9763 REMARK 200 MONOCHROMATOR : NULL REMARK 200 OPTICS : NULL REMARK 200 REMARK 200 DETECTOR TYPE : CCD REMARK 200 DETECTOR MANUFACTURER : ADSC QUANTUM 315 REMARK 200 INTENSITY-INTEGRATION SOFTWARE : NULL REMARK 200 DATA SCALING SOFTWARE : NULL REMARK 200 REMARK 200 NUMBER OF UNIQUE REFLECTIONS : 22467 REMARK 200 RESOLUTION RANGE HIGH (A) : 2.700 REMARK 200 RESOLUTION RANGE LOW (A) : 30.000 REMARK 200 REJECTION CRITERIA (SIGMA(I)) : 2.100 REMARK 200 REMARK 200 OVERALL. REMARK 200 COMPLETENESS FOR RANGE (%) : 99.9 REMARK 200 DATA REDUNDANCY : 5.100 REMARK 200 R MERGE (I) : 0.14000 REMARK 200 R SYM (I) : NULL REMARK 200 <I/SIGMA(I)> FOR THE DATA SET : NULL REMARK 200 REMARK 200 IN THE HIGHEST RESOLUTION SHELL. REMARK 200 HIGHEST RESOLUTION SHELL, RANGE HIGH (A) : 2.70 REMARK 200 HIGHEST RESOLUTION SHELL, RANGE LOW (A) : 2.85 REMARK 200 COMPLETENESS FOR SHELL (%) : 100.0 REMARK 200 DATA REDUNDANCY IN SHELL : 5.10 REMARK 200 R MERGE FOR SHELL (I) : NULL REMARK 200 R SYM FOR SHELL (I) : NULL REMARK 200 <I/SIGMA(I)> FOR SHELL : 2.100 REMARK 200 REMARK 200 DIFFRACTION PROTOCOL: SINGLE WAVELENGTH REMARK 200 METHOD USED TO DETERMINE THE STRUCTURE: OTHER REMARK 200 SOFTWARE USED: NULL REMARK 200 STARTING MODEL: NONE REMARK 200 REMARK 200 REMARK: NONE REMARK 280 REMARK 280 CRYSTAL REMARK 280 SOLVENT CONTENT, VS (%): 57.30 REMARK 280 MATTHEWS COEFFICIENT, VM (ANGSTROMS**3/DA): 2.88 REMARK 280 REMARK 280 CRYSTALLIZATION CONDITIONS: 0.1 M TRIS, PH=7.5, 1.8 M AMMONIUM REMARK 280 SULFATE 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 44.10750 REMARK 290 SMTRY2 3 0.000000 1.000000 0.000000 72.88150 REMARK 290 SMTRY3 3 0.000000 0.000000 -1.000000 0.00000 REMARK 290 SMTRY1 4 1.000000 0.000000 0.000000 44.10750 REMARK 290 SMTRY2 4 0.000000 -1.000000 0.000000 72.88150 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 279 REMARK 465 ALA A 280 REMARK 465 MET A 281 REMARK 465 SER A 282 REMARK 465 ASP A 283 REMARK 465 HIS A 284 REMARK 465 ASP A 285 REMARK 465 PRO A 417 REMARK 465 THR A 418 REMARK 465 LYS A 419 REMARK 465 LYS A 420 REMARK 465 ASP A 421 REMARK 465 SER A 422 REMARK 465 GLN A 423 REMARK 465 SER A 424 REMARK 465 SER A 425 REMARK 465 VAL A 426 REMARK 465 SER A 427 REMARK 465 GLU A 428 REMARK 465 ASN A 429 REMARK 465 VAL A 430 REMARK 465 SER A 431 REMARK 465 ASN A 432 REMARK 465 SER A 433 REMARK 465 GLY A 434 REMARK 465 ILE A 435 REMARK 465 ASN A 436 REMARK 465 SER A 437 REMARK 465 ALA A 438 REMARK 465 SER A 452 REMARK 465 VAL A 453 REMARK 465 SER A 454 REMARK 465 SER A 455 REMARK 465 PRO A 456 REMARK 465 PRO A 457 REMARK 465 PRO A 458 REMARK 465 ALA A 459 REMARK 465 SER A 460 REMARK 465 LYS A 461 REMARK 465 THR A 462 REMARK 465 LYS A 463 REMARK 465 GLU A 464 REMARK 465 VAL A 465 REMARK 465 PRO A 466 REMARK 465 ASP A 467 REMARK 465 GLY A 468 REMARK 465 GLU A 469 REMARK 465 ASN A 470 REMARK 465 LEU A 870 REMARK 465 PHE A 871 REMARK 465 ALA A 872 REMARK 465 ALA A 873 REMARK 465 VAL A 874 REMARK 465 VAL A 875 REMARK 465 GLU A 876 REMARK 465 GLN A 877 REMARK 465 ILE A 878 REMARK 465 HIS A 879 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 287 CG CD CE NZ REMARK 470 GLN A 307 CG CD OE1 NE2 REMARK 470 TYR A 310 CG CD1 CD2 CE1 CE2 CZ OH REMARK 470 GLU A 327 CG CD OE1 OE2 REMARK 470 LYS A 346 CG CD CE NZ REMARK 470 LYS A 354 CG CD CE NZ REMARK 470 ASP A 362 CG OD1 OD2 REMARK 470 ASP A 388 CG OD1 OD2 REMARK 470 GLU A 390 CG CD OE1 OE2 REMARK 470 ARG A 509 CG CD NE CZ NH1 NH2 REMARK 470 LYS A 512 CG CD CE NZ REMARK 470 LYS A 533 CG CD CE NZ REMARK 470 SER A 540 OG REMARK 470 LYS A 569 CG CD CE NZ REMARK 470 ARG A 572 CG CD NE CZ NH1 NH2 REMARK 470 LYS A 582 CG CD CE NZ REMARK 470 GLU A 589 CG CD OE1 OE2 REMARK 470 LYS A 613 CG CD CE NZ REMARK 470 LYS A 660 CG CD CE NZ REMARK 470 LYS A 678 CG CD CE NZ REMARK 470 LYS A 771 CG CD CE NZ REMARK 470 LYS A 781 CG CD CE NZ REMARK 470 LYS A 837 CG CD CE NZ 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 2060 O HOH A 2061 1.97 REMARK 500 CG2 THR A 305 OE1 GLN A 843 2.08 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 ASN A 584 23.45 81.25 REMARK 500 GLU A 596 80.14 -154.26 REMARK 500 SER A 614 140.19 -31.57 REMARK 500 SER A 699 146.53 -172.87 REMARK 500 ALA A 708 50.51 -141.92 REMARK 500 ASP A 761 72.90 57.11 REMARK 500 PHE A 762 56.40 -97.22 REMARK 500 ASP A 769 148.00 -170.13 REMARK 500 LYS A 778 54.17 -104.10 REMARK 500 ASP A 836 -33.33 -32.32 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 A2085 DISTANCE = 7.58 ANGSTROMS REMARK 800 REMARK 800 SITE REMARK 800 SITE_IDENTIFIER: AC1 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE RBQ A 1870 REMARK 900 REMARK 900 RELATED ENTRIES REMARK 900 RELATED ID: 5AMW RELATED DB: PDB REMARK 900 CRYSTAL STRUCTURE OF THE STRAWBERRY PATHOGENESIS-RELATED 10 (PR-10) REMARK 900 FRA A 2 PROTEIN PROCESSED WITH THE CRYSTALDIRECT AUTOMATED MOUNTING REMARK 900 AND CRYO-COOLING TECHNOLOGY REMARK 900 RELATED ID: 5AMX RELATED DB: PDB REMARK 900 CRYSTAL STRUCTURE OF PROTEINASE K PROCESSED WITH THE CRYSTALDIRECT REMARK 900 AUTOMATED MOUNTING AND CRYO-COOLING TECHNOLOGY REMARK 900 RELATED ID: 5AMY RELATED DB: PDB REMARK 900 CRYSTAL STRUCTURE OF HEN EGG WHITE LYSOZYME PROCESSED WITH THE REMARK 900 CRYSTALDIRECT AUTOMATED MOUNTING AND CRYO- COOLING TECHNOLOGY REMARK 900 RELATED ID: 5AMZ RELATED DB: PDB REMARK 900 CRYSTAL STRUCTURE OF THAUMATIN PROCESSED WITH THE CRYSTALDIRECT REMARK 900 AUTOMATED MOUNTING AND CRYO-COOLING TECHNOLOGY REMARK 900 RELATED ID: 5AN2 RELATED DB: PDB REMARK 900 CRYSTAL STRUCTURE OF HUMAN TRANSTHYRETIN (TTR) PROCESSED WITH THE REMARK 900 CRYSTALDIRECT AUTOMATED MOUNTING AND CRYO- COOLING TECHNOLOGY REMARK 900 RELATED ID: 5AN4 RELATED DB: PDB REMARK 900 CRYSTAL STRUCTURE OF THE HUMAN 8-OXOGUANINE GLYCOSYLASE (OGG1) REMARK 900 PROCESSED WITH THE CRYSTALDIRECT AUTOMATED MOUNTING AND CRYO- REMARK 900 COOLING TECHNOLOGY REMARK 900 RELATED ID: 5AND RELATED DB: PDB REMARK 900 CRYSTAL STRUCTURE OF CDK2 IN COMPLEX WITH 2-IMIDAZOL- 1-YL-1H- REMARK 900 BENZIMIDAZOLE PROCESSED WITH THE CRYSTALDIRECT AUTOMATED MOUNTING REMARK 900 AND CRYO-COOLING TECHNOLOGY REMARK 900 RELATED ID: 5ANE RELATED DB: PDB REMARK 900 CRYSTAL STRUCTURE OF CDK2 IN COMPLEX WITH 6-METHOXY- 7H-PURINE REMARK 900 PROCESSED WITH THE CRYSTALDIRECT AUTOMATED MOUNTING AND CRYO- REMARK 900 COOLING TECHNOLOGY REMARK 900 RELATED ID: 5ANG RELATED DB: PDB REMARK 900 CRYSTAL STRUCTURE OF CDK2 IN COMPLEX WITH 7-HYDROXY- 4- REMARK 900 (MORPHOLINOMETHYL)CHROMEN-2-ONE PROCESSED WITH THE CRYSTALDIRECT REMARK 900 AUTOMATED MOUNTING AND CRYO-COOLING TECHNOLOGY REMARK 900 RELATED ID: 5ANI RELATED DB: PDB REMARK 900 CRYSTAL STRUCTURE OF CDK2 IN COMPLEX WITH 6-CHLORO- 7H-PURINE REMARK 900 PROCESSED WITH THE CRYSTALDIRECT AUTOMATED MOUNTING AND CRYO- REMARK 900 COOLING TECHNOLOGY REMARK 900 RELATED ID: 5ANJ RELATED DB: PDB REMARK 900 CRYSTAL STRUCTURE OF CDK2 IN COMPLEX WITH N-(9H- PURIN-6-YL) REMARK 900 THIOPHENE-2-CARBOXAMIDE PROCESSED WITH THE CRYSTALDIRECT AUTOMATED REMARK 900 MOUNTING AND CRYO-COOLING TECHNOLOGY REMARK 900 RELATED ID: 5ANK RELATED DB: PDB REMARK 900 CRYSTAL STRUCTURE OF CDK2 IN COMPLEX WITH 2,4,6- TRIOXO-1-PHENYL- REMARK 900 HEXAHYDROPYRIMIDINE-5-CARBOXAMIDE PROCESSED WITH THE CRYSTALDIRECT REMARK 900 AUTOMATED MOUNTING AND CRYO-COOLING TECHNOLOGY REMARK 900 RELATED ID: 5ANO RELATED DB: PDB REMARK 900 CRYSTAL STRUCTURE OF CDK2 PROCESSED WITH THE CRYSTALDIRECT REMARK 900 AUTOMATED MOUNTING AND CRYO-COOLING TECHNOLOGY DBREF 5ANL A 282 879 UNP Q8NEB9 PK3C3_HUMAN 282 879 SEQADV 5ANL GLY A 279 UNP Q8NEB9 EXPRESSION TAG SEQADV 5ANL ALA A 280 UNP Q8NEB9 EXPRESSION TAG SEQADV 5ANL MET A 281 UNP Q8NEB9 EXPRESSION TAG SEQRES 1 A 601 GLY ALA MET SER ASP HIS ASP LEU LYS PRO ASN ALA ALA SEQRES 2 A 601 THR ARG ASP GLN LEU ASN ILE ILE VAL SER TYR PRO PRO SEQRES 3 A 601 THR LYS GLN LEU THR TYR GLU GLU GLN ASP LEU VAL TRP SEQRES 4 A 601 LYS PHE ARG TYR TYR LEU THR ASN GLN GLU LYS ALA LEU SEQRES 5 A 601 THR LYS PHE LEU LYS CYS VAL ASN TRP ASP LEU PRO GLN SEQRES 6 A 601 GLU ALA LYS GLN ALA LEU GLU LEU LEU GLY LYS TRP LYS SEQRES 7 A 601 PRO MET ASP VAL GLU ASP SER LEU GLU LEU LEU SER SER SEQRES 8 A 601 HIS TYR THR ASN PRO THR VAL ARG ARG TYR ALA VAL ALA SEQRES 9 A 601 ARG LEU ARG GLN ALA ASP ASP GLU ASP LEU LEU MET TYR SEQRES 10 A 601 LEU LEU GLN LEU VAL GLN ALA LEU LYS TYR GLU ASN PHE SEQRES 11 A 601 ASP ASP ILE LYS ASN GLY LEU GLU PRO THR LYS LYS ASP SEQRES 12 A 601 SER GLN SER SER VAL SER GLU ASN VAL SER ASN SER GLY SEQRES 13 A 601 ILE ASN SER ALA GLU ILE ASP SER SER GLN ILE ILE THR SEQRES 14 A 601 SER PRO LEU PRO SER VAL SER SER PRO PRO PRO ALA SER SEQRES 15 A 601 LYS THR LYS GLU VAL PRO ASP GLY GLU ASN LEU GLU GLN SEQRES 16 A 601 ASP LEU CYS THR PHE LEU ILE SER ARG ALA CYS LYS ASN SEQRES 17 A 601 SER THR LEU ALA ASN TYR LEU TYR TRP TYR VAL ILE VAL SEQRES 18 A 601 GLU CYS GLU ASP GLN ASP THR GLN GLN ARG ASP PRO LYS SEQRES 19 A 601 THR HIS GLU MET TYR LEU ASN VAL MET ARG ARG PHE SER SEQRES 20 A 601 GLN ALA LEU LEU LYS GLY ASP LYS SER VAL ARG VAL MET SEQRES 21 A 601 ARG SER LEU LEU ALA ALA GLN GLN THR PHE VAL ASP ARG SEQRES 22 A 601 LEU VAL HIS LEU MET LYS ALA VAL GLN ARG GLU SER GLY SEQRES 23 A 601 ASN ARG LYS LYS LYS ASN GLU ARG LEU GLN ALA LEU LEU SEQRES 24 A 601 GLY ASP ASN GLU LYS MET ASN LEU SER ASP VAL GLU LEU SEQRES 25 A 601 ILE PRO LEU PRO LEU GLU PRO GLN VAL LYS ILE ARG GLY SEQRES 26 A 601 ILE ILE PRO GLU THR ALA THR LEU PHE LYS SER ALA LEU SEQRES 27 A 601 MET PRO ALA GLN LEU PHE PHE LYS THR GLU ASP GLY GLY SEQRES 28 A 601 LYS TYR PRO VAL ILE PHE LYS HIS GLY ASP ASP LEU ARG SEQRES 29 A 601 GLN ASP GLN LEU ILE LEU GLN ILE ILE SER LEU MET ASP SEQRES 30 A 601 LYS LEU LEU ARG LYS GLU ASN LEU ASP LEU LYS LEU THR SEQRES 31 A 601 PRO TYR LYS VAL LEU ALA THR SER THR LYS HIS GLY PHE SEQRES 32 A 601 MET GLN PHE ILE GLN SER VAL PRO VAL ALA GLU VAL LEU SEQRES 33 A 601 ASP THR GLU GLY SER ILE GLN ASN PHE PHE ARG LYS TYR SEQRES 34 A 601 ALA PRO SER GLU ASN GLY PRO ASN GLY ILE SER ALA GLU SEQRES 35 A 601 VAL MET ASP THR TYR VAL LYS SER CYS ALA GLY TYR CYS SEQRES 36 A 601 VAL ILE THR TYR ILE LEU GLY VAL GLY ASP ARG HIS LEU SEQRES 37 A 601 ASP ASN LEU LEU LEU THR LYS THR GLY LYS LEU PHE HIS SEQRES 38 A 601 ILE ASP PHE GLY TYR ILE LEU GLY ARG ASP PRO LYS PRO SEQRES 39 A 601 LEU PRO PRO PRO MET LYS LEU ASN LYS GLU MET VAL GLU SEQRES 40 A 601 GLY MET GLY GLY THR GLN SER GLU GLN TYR GLN GLU PHE SEQRES 41 A 601 ARG LYS GLN CYS TYR THR ALA PHE LEU HIS LEU ARG ARG SEQRES 42 A 601 TYR SER ASN LEU ILE LEU ASN LEU PHE SER LEU MET VAL SEQRES 43 A 601 ASP ALA ASN ILE PRO ASP ILE ALA LEU GLU PRO ASP LYS SEQRES 44 A 601 THR VAL LYS LYS VAL GLN ASP LYS PHE ARG LEU ASP LEU SEQRES 45 A 601 SER ASP GLU GLU ALA VAL HIS TYR MET GLN SER LEU ILE SEQRES 46 A 601 ASP GLU SER VAL HIS ALA LEU PHE ALA ALA VAL VAL GLU SEQRES 47 A 601 GLN ILE HIS HET RBQ A1870 27 HETNAM RBQ (8S)-2-(MORPHOLIN-4-YL)-9-[2-(PROPAN-2-YLOXY)ETHYL]-8- HETNAM 2 RBQ (TRIFLUOROMETHYL)-6,7,8,9-TETRAHYDRO-4H-PYRIMIDO[1,2- HETNAM 3 RBQ A]PYRIMIDIN-4-ONE FORMUL 2 RBQ C17 H25 F3 N4 O3 FORMUL 3 HOH *85(H2 O) HELIX 1 1 ASN A 289 SER A 301 1 13 HELIX 2 2 THR A 309 PHE A 319 1 11 HELIX 3 3 PHE A 319 THR A 324 1 6 HELIX 4 4 ASN A 325 LYS A 328 5 4 HELIX 5 5 ALA A 329 CYS A 336 1 8 HELIX 6 6 LEU A 341 GLY A 353 1 13 HELIX 7 7 ASP A 359 LEU A 367 1 9 HELIX 8 8 ASN A 373 ARG A 385 1 13 HELIX 9 9 ASP A 388 LEU A 403 1 16 HELIX 10 10 LYS A 404 GLU A 406 5 3 HELIX 11 11 ASN A 407 ASN A 413 1 7 HELIX 12 12 ASP A 441 ILE A 445 5 5 HELIX 13 13 ASP A 474 LYS A 485 1 12 HELIX 14 14 ASN A 486 ASP A 503 1 18 HELIX 15 15 ASP A 503 ASP A 510 1 8 HELIX 16 16 ASP A 510 LYS A 530 1 21 HELIX 17 17 ASP A 532 GLU A 562 1 31 HELIX 18 18 ASN A 565 ASP A 579 1 15 HELIX 19 19 LEU A 641 GLU A 661 1 21 HELIX 20 20 VAL A 690 GLY A 698 1 9 HELIX 21 21 SER A 699 ALA A 708 1 10 HELIX 22 22 GLY A 713 GLY A 716 5 4 HELIX 23 23 SER A 718 LEU A 739 1 22 HELIX 24 24 ASN A 780 MET A 787 1 8 HELIX 25 25 SER A 792 ARG A 811 1 20 HELIX 26 26 TYR A 812 LEU A 822 1 11 HELIX 27 27 ILE A 828 LEU A 833 1 6 HELIX 28 28 GLU A 834 ASP A 836 5 3 HELIX 29 29 LYS A 837 PHE A 846 1 10 HELIX 30 30 SER A 851 ALA A 869 1 19 SHEET 1 AA 6 ILE A 591 LEU A 593 0 SHEET 2 AA 6 GLU A 596 ILE A 604 -1 N GLU A 596 O LEU A 593 SHEET 3 AA 6 ALA A 619 THR A 625 -1 O LYS A 624 N ARG A 602 SHEET 4 AA 6 LYS A 630 HIS A 637 -1 O TYR A 631 N PHE A 623 SHEET 5 AA 6 HIS A 679 GLN A 683 -1 O GLY A 680 N LYS A 636 SHEET 6 AA 6 VAL A 672 ALA A 674 -1 O LEU A 673 N PHE A 681 SHEET 1 AB 4 ILE A 591 LEU A 593 0 SHEET 2 AB 4 GLU A 596 ILE A 604 -1 N GLU A 596 O LEU A 593 SHEET 3 AB 4 ALA A 619 THR A 625 -1 O LYS A 624 N ARG A 602 SHEET 4 AB 4 THR A 610 LEU A 611 1 O THR A 610 N GLN A 620 SHEET 1 AC 3 VAL A 688 PRO A 689 0 SHEET 2 AC 3 LEU A 749 LEU A 751 -1 O LEU A 751 N VAL A 688 SHEET 3 AC 3 LEU A 757 HIS A 759 -1 O PHE A 758 N LEU A 750 SITE 1 AC1 10 PHE A 612 PRO A 618 ILE A 634 MET A 682 SITE 2 AC1 10 GLN A 683 PHE A 684 ILE A 685 PRO A 689 SITE 3 AC1 10 ILE A 760 ASP A 761 CRYST1 88.215 145.763 61.474 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 0.011336 0.000000 0.000000 0.00000 SCALE2 0.000000 0.006860 0.000000 0.00000 SCALE3 0.000000 0.000000 0.016267 0.00000