HEADER TRANSFERASE 10-JUN-07 2Q8F TITLE STRUCTURE OF PYRUVATE DEHYDROGENASE KINASE ISOFORM 1 COMPND MOL_ID: 1; COMPND 2 MOLECULE: [PYRUVATE DEHYDROGENASE [LIPOAMIDE]] KINASE ISOZYME 1; COMPND 3 CHAIN: A; COMPND 4 SYNONYM: PYRUVATE DEHYDROGENASE KINASE ISOFORM 1; COMPND 5 EC: 2.7.11.2; COMPND 6 ENGINEERED: YES SOURCE MOL_ID: 1; SOURCE 2 ORGANISM_SCIENTIFIC: HOMO SAPIENS; SOURCE 3 ORGANISM_COMMON: HUMAN; SOURCE 4 ORGANISM_TAXID: 9606; SOURCE 5 GENE: PDK1; SOURCE 6 EXPRESSION_SYSTEM: ESCHERICHIA COLI BL21; SOURCE 7 EXPRESSION_SYSTEM_TAXID: 511693; SOURCE 8 EXPRESSION_SYSTEM_STRAIN: BL21; SOURCE 9 EXPRESSION_SYSTEM_VECTOR_TYPE: PLASMID KEYWDS GHKL ATPASE/KINASE FAMILY, PYRUVATE DEHYDROGENASE COMPLEX, KEYWDS 2 MITOCHONDRIAL KINASE, TRANSFERASE EXPDTA X-RAY DIFFRACTION AUTHOR M.KATO,J.LI,J.L.CHUANG,D.T.CHUANG REVDAT 5 30-AUG-23 2Q8F 1 REMARK LINK REVDAT 4 13-JUL-11 2Q8F 1 VERSN REVDAT 3 24-FEB-09 2Q8F 1 VERSN REVDAT 2 28-AUG-07 2Q8F 1 JRNL REVDAT 1 24-JUL-07 2Q8F 0 JRNL AUTH M.KATO,J.LI,J.L.CHUANG,D.T.CHUANG JRNL TITL DISTINCT STRUCTURAL MECHANISMS FOR INHIBITION OF PYRUVATE JRNL TITL 2 DEHYDROGENASE KINASE ISOFORMS BY AZD7545, DICHLOROACETATE, JRNL TITL 3 AND RADICICOL. JRNL REF STRUCTURE V. 15 992 2007 JRNL REFN ISSN 0969-2126 JRNL PMID 17683942 JRNL DOI 10.1016/J.STR.2007.07.001 REMARK 2 REMARK 2 RESOLUTION. 2.03 ANGSTROMS. REMARK 3 REMARK 3 REFINEMENT. REMARK 3 PROGRAM : REFMAC 5.2.0019 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) : 2.03 REMARK 3 RESOLUTION RANGE LOW (ANGSTROMS) : 48.11 REMARK 3 DATA CUTOFF (SIGMA(F)) : NULL REMARK 3 COMPLETENESS FOR RANGE (%) : 97.5 REMARK 3 NUMBER OF REFLECTIONS : 33007 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) : 0.192 REMARK 3 R VALUE (WORKING SET) : 0.190 REMARK 3 FREE R VALUE : 0.212 REMARK 3 FREE R VALUE TEST SET SIZE (%) : 5.000 REMARK 3 FREE R VALUE TEST SET COUNT : 1737 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) : 2.03 REMARK 3 BIN RESOLUTION RANGE LOW (A) : 2.08 REMARK 3 REFLECTION IN BIN (WORKING SET) : 2322 REMARK 3 BIN COMPLETENESS (WORKING+TEST) (%) : 94.02 REMARK 3 BIN R VALUE (WORKING SET) : 0.2420 REMARK 3 BIN FREE R VALUE SET COUNT : 131 REMARK 3 BIN FREE R VALUE : 0.3150 REMARK 3 REMARK 3 NUMBER OF NON-HYDROGEN ATOMS USED IN REFINEMENT. REMARK 3 PROTEIN ATOMS : 2954 REMARK 3 NUCLEIC ACID ATOMS : 0 REMARK 3 HETEROGEN ATOMS : 1 REMARK 3 SOLVENT ATOMS : 212 REMARK 3 REMARK 3 B VALUES. REMARK 3 FROM WILSON PLOT (A**2) : NULL REMARK 3 MEAN B VALUE (OVERALL, A**2) : 53.13 REMARK 3 OVERALL ANISOTROPIC B VALUE. REMARK 3 B11 (A**2) : 0.09000 REMARK 3 B22 (A**2) : 0.09000 REMARK 3 B33 (A**2) : -0.17000 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): 0.157 REMARK 3 ESU BASED ON FREE R VALUE (A): 0.137 REMARK 3 ESU BASED ON MAXIMUM LIKELIHOOD (A): 0.100 REMARK 3 ESU FOR B VALUES BASED ON MAXIMUM LIKELIHOOD (A**2): 6.884 REMARK 3 REMARK 3 CORRELATION COEFFICIENTS. REMARK 3 CORRELATION COEFFICIENT FO-FC : 0.958 REMARK 3 CORRELATION COEFFICIENT FO-FC FREE : 0.953 REMARK 3 REMARK 3 RMS DEVIATIONS FROM IDEAL VALUES COUNT RMS WEIGHT REMARK 3 BOND LENGTHS REFINED ATOMS (A): 3039 ; 0.021 ; 0.022 REMARK 3 BOND LENGTHS OTHERS (A): NULL ; NULL ; NULL REMARK 3 BOND ANGLES REFINED ATOMS (DEGREES): 4120 ; 1.527 ; 1.964 REMARK 3 BOND ANGLES OTHERS (DEGREES): NULL ; NULL ; NULL REMARK 3 TORSION ANGLES, PERIOD 1 (DEGREES): 362 ; 5.980 ; 5.000 REMARK 3 TORSION ANGLES, PERIOD 2 (DEGREES): 149 ;33.986 ;23.557 REMARK 3 TORSION ANGLES, PERIOD 3 (DEGREES): 513 ;14.315 ;15.000 REMARK 3 TORSION ANGLES, PERIOD 4 (DEGREES): 22 ;19.802 ;15.000 REMARK 3 CHIRAL-CENTER RESTRAINTS (A**3): 446 ; 0.110 ; 0.200 REMARK 3 GENERAL PLANES REFINED ATOMS (A): 2333 ; 0.007 ; 0.020 REMARK 3 GENERAL PLANES OTHERS (A): NULL ; NULL ; NULL REMARK 3 NON-BONDED CONTACTS REFINED ATOMS (A): 1351 ; 0.220 ; 0.200 REMARK 3 NON-BONDED CONTACTS OTHERS (A): NULL ; NULL ; NULL REMARK 3 NON-BONDED TORSION REFINED ATOMS (A): 2064 ; 0.310 ; 0.200 REMARK 3 NON-BONDED TORSION OTHERS (A): NULL ; NULL ; NULL REMARK 3 H-BOND (X...Y) REFINED ATOMS (A): 192 ; 0.132 ; 0.200 REMARK 3 H-BOND (X...Y) OTHERS (A): NULL ; NULL ; NULL REMARK 3 POTENTIAL METAL-ION REFINED ATOMS (A): 5 ; 0.249 ; 0.200 REMARK 3 POTENTIAL METAL-ION OTHERS (A): NULL ; NULL ; NULL REMARK 3 SYMMETRY VDW REFINED ATOMS (A): 51 ; 0.165 ; 0.200 REMARK 3 SYMMETRY VDW OTHERS (A): NULL ; NULL ; NULL REMARK 3 SYMMETRY H-BOND REFINED ATOMS (A): 22 ; 0.153 ; 0.200 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): 1829 ; 0.993 ; 1.500 REMARK 3 MAIN-CHAIN BOND OTHER ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 MAIN-CHAIN ANGLE REFINED ATOMS (A**2): 2966 ; 1.801 ; 2.000 REMARK 3 MAIN-CHAIN ANGLE OTHER ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 SIDE-CHAIN BOND REFINED ATOMS (A**2): 1233 ; 2.687 ; 3.000 REMARK 3 SIDE-CHAIN BOND OTHER ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 SIDE-CHAIN ANGLE REFINED ATOMS (A**2): 1154 ; 4.169 ; 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: NULL REMARK 4 REMARK 4 2Q8F COMPLIES WITH FORMAT V. 3.30, 13-JUL-11 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY RCSB ON 12-JUN-07. REMARK 100 THE DEPOSITION ID IS D_1000043279. REMARK 200 REMARK 200 EXPERIMENTAL DETAILS REMARK 200 EXPERIMENT TYPE : X-RAY DIFFRACTION REMARK 200 DATE OF DATA COLLECTION : 26-OCT-06 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 : APS REMARK 200 BEAMLINE : 19-BM REMARK 200 X-RAY GENERATOR MODEL : NULL REMARK 200 MONOCHROMATIC OR LAUE (M/L) : M REMARK 200 WAVELENGTH OR RANGE (A) : 0.98 REMARK 200 MONOCHROMATOR : SI 111 REMARK 200 OPTICS : MIRRORS REMARK 200 REMARK 200 DETECTOR TYPE : CCD REMARK 200 DETECTOR MANUFACTURER : SBC-3 REMARK 200 INTENSITY-INTEGRATION SOFTWARE : HKL-2000 REMARK 200 DATA SCALING SOFTWARE : HKL-2000 REMARK 200 REMARK 200 NUMBER OF UNIQUE REFLECTIONS : 34783 REMARK 200 RESOLUTION RANGE HIGH (A) : 2.030 REMARK 200 RESOLUTION RANGE LOW (A) : 50.000 REMARK 200 REJECTION CRITERIA (SIGMA(I)) : 0.000 REMARK 200 REMARK 200 OVERALL. REMARK 200 COMPLETENESS FOR RANGE (%) : 97.6 REMARK 200 DATA REDUNDANCY : 9.200 REMARK 200 R MERGE (I) : 0.04500 REMARK 200 R SYM (I) : NULL REMARK 200 FOR THE DATA SET : 11.7000 REMARK 200 REMARK 200 IN THE HIGHEST RESOLUTION SHELL. REMARK 200 HIGHEST RESOLUTION SHELL, RANGE HIGH (A) : 2.03 REMARK 200 HIGHEST RESOLUTION SHELL, RANGE LOW (A) : 2.10 REMARK 200 COMPLETENESS FOR SHELL (%) : 96.7 REMARK 200 DATA REDUNDANCY IN SHELL : 5.80 REMARK 200 R MERGE FOR SHELL (I) : 0.53600 REMARK 200 R SYM FOR SHELL (I) : NULL REMARK 200 FOR SHELL : 2.600 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 1Y8P REMARK 200 REMARK 200 REMARK: NULL REMARK 280 REMARK 280 CRYSTAL REMARK 280 SOLVENT CONTENT, VS (%): 57.12 REMARK 280 MATTHEWS COEFFICIENT, VM (ANGSTROMS**3/DA): 2.87 REMARK 280 REMARK 280 CRYSTALLIZATION CONDITIONS: 0.42 M NAK TARTRATE, 0.1 M NA CITRATE, REMARK 280 PH 5.6, VAPOR DIFFUSION, HANGING DROP, TEMPERATURE 293K 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 55.20150 REMARK 290 SMTRY1 3 0.000000 -1.000000 0.000000 49.09500 REMARK 290 SMTRY2 3 1.000000 0.000000 0.000000 49.09500 REMARK 290 SMTRY3 3 0.000000 0.000000 1.000000 27.60075 REMARK 290 SMTRY1 4 0.000000 1.000000 0.000000 49.09500 REMARK 290 SMTRY2 4 -1.000000 0.000000 0.000000 49.09500 REMARK 290 SMTRY3 4 0.000000 0.000000 1.000000 82.80225 REMARK 290 SMTRY1 5 -1.000000 0.000000 0.000000 49.09500 REMARK 290 SMTRY2 5 0.000000 1.000000 0.000000 49.09500 REMARK 290 SMTRY3 5 0.000000 0.000000 -1.000000 27.60075 REMARK 290 SMTRY1 6 1.000000 0.000000 0.000000 49.09500 REMARK 290 SMTRY2 6 0.000000 -1.000000 0.000000 49.09500 REMARK 290 SMTRY3 6 0.000000 0.000000 -1.000000 82.80225 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 55.20150 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 300 REMARK: THE SECOND PART OF THE BIOLOGICAL ASSEMBLY IS GENERATED REMARK 300 BY THE FOLLOWING OPERATION: Y,X,-Z 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: DIMERIC REMARK 350 SOFTWARE DETERMINED QUATERNARY STRUCTURE: DIMERIC REMARK 350 SOFTWARE USED: PISA,PQS REMARK 350 TOTAL BURIED SURFACE AREA: 4530 ANGSTROM**2 REMARK 350 SURFACE AREA OF THE COMPLEX: 32240 ANGSTROM**2 REMARK 350 CHANGE IN SOLVENT FREE ENERGY: -17.0 KCAL/MOL 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 350 BIOMT1 2 0.000000 1.000000 0.000000 0.00000 REMARK 350 BIOMT2 2 1.000000 0.000000 0.000000 0.00000 REMARK 350 BIOMT3 2 0.000000 0.000000 -1.000000 0.00000 REMARK 375 REMARK 375 SPECIAL POSITION REMARK 375 THE FOLLOWING ATOMS ARE FOUND TO BE WITHIN 0.15 ANGSTROMS REMARK 375 OF A SYMMETRY RELATED ATOM AND ARE ASSUMED TO BE ON SPECIAL REMARK 375 POSITIONS. REMARK 375 REMARK 375 ATOM RES CSSEQI REMARK 375 HOH A 536 LIES ON A SPECIAL POSITION. 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 SER A 30 REMARK 465 ASP A 31 REMARK 465 SER A 32 REMARK 465 GLY A 33 REMARK 465 SER A 34 REMARK 465 SER A 35 REMARK 465 PRO A 36 REMARK 465 ALA A 37 REMARK 465 SER A 38 REMARK 465 GLU A 39 REMARK 465 ARG A 40 REMARK 465 VAL A 68 REMARK 465 ASN A 69 REMARK 465 ALA A 70 REMARK 465 GLY A 168 REMARK 465 VAL A 169 REMARK 465 GLY A 204 REMARK 465 LYS A 205 REMARK 465 GLY A 206 REMARK 465 LYS A 207 REMARK 465 GLY A 208 REMARK 465 SER A 209 REMARK 465 PRO A 210 REMARK 465 SER A 211 REMARK 465 HIS A 212 REMARK 465 ARG A 213 REMARK 465 LYS A 214 REMARK 465 HIS A 415 REMARK 465 GLU A 416 REMARK 465 SER A 424 REMARK 465 ARG A 425 REMARK 465 GLU A 426 REMARK 465 PRO A 427 REMARK 465 LYS A 428 REMARK 465 ASP A 429 REMARK 465 MET A 430 REMARK 465 THR A 431 REMARK 465 THR A 432 REMARK 465 PHE A 433 REMARK 465 ARG A 434 REMARK 465 SER A 435 REMARK 465 ALA A 436 REMARK 500 REMARK 500 GEOMETRY AND STEREOCHEMISTRY REMARK 500 SUBTOPIC: COVALENT BOND LENGTHS 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,2(A3,1X,A1,I4,A1,1X,A4,3X),1X,F6.3) 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 RES CSSEQI ATM2 DEVIATION REMARK 500 SER A 128 C ALA A 129 N 0.154 REMARK 500 GLU A 130 CG GLU A 130 CD 0.113 REMARK 500 GLU A 130 CD GLU A 130 OE1 0.100 REMARK 500 GLU A 130 CD GLU A 130 OE2 0.086 REMARK 500 GLU A 130 C GLU A 130 O 0.141 REMARK 500 ASP A 131 CG ASP A 131 OD1 0.404 REMARK 500 LYS A 133 CE LYS A 133 NZ 0.336 REMARK 500 LYS A 133 C LYS A 133 O -0.149 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 319 46.33 -108.30 REMARK 500 TYR A 381 -63.42 -126.24 REMARK 500 ASN A 404 -168.91 -164.03 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 K A 437 K REMARK 620 N RES CSSEQI ATOM REMARK 620 1 ALA A 50 O REMARK 620 2 ARG A 51 O 69.3 REMARK 620 3 PHE A 52 O 81.2 67.0 REMARK 620 4 ASN A 89 OD1 88.8 141.1 78.5 REMARK 620 5 TYR A 403 O 100.6 126.7 166.1 87.7 REMARK 620 6 HOH A 510 O 131.6 63.2 88.7 135.4 100.0 REMARK 620 N 1 2 3 4 5 REMARK 800 REMARK 800 SITE REMARK 800 SITE_IDENTIFIER: AC1 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE K A 437 REMARK 900 REMARK 900 RELATED ENTRIES REMARK 900 RELATED ID: 2Q8G RELATED DB: PDB REMARK 900 PDK1-AZD7545 COMPLEX REMARK 900 RELATED ID: 2Q8H RELATED DB: PDB REMARK 900 PDK1-DCA COMPLEX REMARK 900 RELATED ID: 2Q8I RELATED DB: PDB REMARK 900 PDK3-RADICICOL COMPLEX DBREF 2Q8F A 30 436 UNP Q15118 PDK1_HUMAN 30 436 SEQRES 1 A 407 SER ASP SER GLY SER SER PRO ALA SER GLU ARG GLY VAL SEQRES 2 A 407 PRO GLY GLN VAL ASP PHE TYR ALA ARG PHE SER PRO SER SEQRES 3 A 407 PRO LEU SER MET LYS GLN PHE LEU ASP PHE GLY SER VAL SEQRES 4 A 407 ASN ALA CYS GLU LYS THR SER PHE MET PHE LEU ARG GLN SEQRES 5 A 407 GLU LEU PRO VAL ARG LEU ALA ASN ILE MET LYS GLU ILE SEQRES 6 A 407 SER LEU LEU PRO ASP ASN LEU LEU ARG THR PRO SER VAL SEQRES 7 A 407 GLN LEU VAL GLN SER TRP TYR ILE GLN SER LEU GLN GLU SEQRES 8 A 407 LEU LEU ASP PHE LYS ASP LYS SER ALA GLU ASP ALA LYS SEQRES 9 A 407 ALA ILE TYR ASP PHE THR ASP THR VAL ILE ARG ILE ARG SEQRES 10 A 407 ASN ARG HIS ASN ASP VAL ILE PRO THR MET ALA GLN GLY SEQRES 11 A 407 VAL ILE GLU TYR LYS GLU SER PHE GLY VAL ASP PRO VAL SEQRES 12 A 407 THR SER GLN ASN VAL GLN TYR PHE LEU ASP ARG PHE TYR SEQRES 13 A 407 MET SER ARG ILE SER ILE ARG MET LEU LEU ASN GLN HIS SEQRES 14 A 407 SER LEU LEU PHE GLY GLY LYS GLY LYS GLY SER PRO SER SEQRES 15 A 407 HIS ARG LYS HIS ILE GLY SER ILE ASN PRO ASN CYS ASN SEQRES 16 A 407 VAL LEU GLU VAL ILE LYS ASP GLY TYR GLU ASN ALA ARG SEQRES 17 A 407 ARG LEU CYS ASP LEU TYR TYR ILE ASN SER PRO GLU LEU SEQRES 18 A 407 GLU LEU GLU GLU LEU ASN ALA LYS SER PRO GLY GLN PRO SEQRES 19 A 407 ILE GLN VAL VAL TYR VAL PRO SER HIS LEU TYR HIS MET SEQRES 20 A 407 VAL PHE GLU LEU PHE LYS ASN ALA MET ARG ALA THR MET SEQRES 21 A 407 GLU HIS HIS ALA ASN ARG GLY VAL TYR PRO PRO ILE GLN SEQRES 22 A 407 VAL HIS VAL THR LEU GLY ASN GLU ASP LEU THR VAL LYS SEQRES 23 A 407 MET SER ASP ARG GLY GLY GLY VAL PRO LEU ARG LYS ILE SEQRES 24 A 407 ASP ARG LEU PHE ASN TYR MET TYR SER THR ALA PRO ARG SEQRES 25 A 407 PRO ARG VAL GLU THR SER ARG ALA VAL PRO LEU ALA GLY SEQRES 26 A 407 PHE GLY TYR GLY LEU PRO ILE SER ARG LEU TYR ALA GLN SEQRES 27 A 407 TYR PHE GLN GLY ASP LEU LYS LEU TYR SER LEU GLU GLY SEQRES 28 A 407 TYR GLY THR ASP ALA VAL ILE TYR ILE LYS ALA LEU SER SEQRES 29 A 407 THR ASP SER ILE GLU ARG LEU PRO VAL TYR ASN LYS ALA SEQRES 30 A 407 ALA TRP LYS HIS TYR ASN THR ASN HIS GLU ALA ASP ASP SEQRES 31 A 407 TRP CYS VAL PRO SER ARG GLU PRO LYS ASP MET THR THR SEQRES 32 A 407 PHE ARG SER ALA HET K A 437 1 HETNAM K POTASSIUM ION FORMUL 2 K K 1+ FORMUL 3 HOH *212(H2 O) HELIX 1 1 GLY A 41 ARG A 51 1 11 HELIX 2 2 SER A 58 SER A 67 1 10 HELIX 3 3 CYS A 71 SER A 95 1 25 HELIX 4 4 PRO A 98 ARG A 103 1 6 HELIX 5 5 THR A 104 LEU A 122 1 19 HELIX 6 6 ASP A 123 LYS A 125 5 3 HELIX 7 7 ASP A 131 HIS A 149 1 19 HELIX 8 8 ASP A 151 PHE A 167 1 17 HELIX 9 9 PRO A 171 GLY A 203 1 33 HELIX 10 10 VAL A 225 ILE A 245 1 21 HELIX 11 11 VAL A 269 HIS A 292 1 24 HELIX 12 12 PRO A 324 ASP A 329 1 6 HELIX 13 13 ARG A 330 ASN A 333 5 4 HELIX 14 14 TYR A 357 PHE A 369 1 13 HELIX 15 15 ASN A 404 ASN A 412 1 9 SHEET 1 A 2 ASN A 220 ASN A 224 0 SHEET 2 A 2 GLN A 265 TYR A 268 -1 O TYR A 268 N ASN A 220 SHEET 1 B 5 LEU A 250 ASN A 256 0 SHEET 2 B 5 ILE A 301 LEU A 307 1 O VAL A 305 N GLU A 253 SHEET 3 B 5 ASP A 311 ASP A 318 -1 O SER A 317 N GLN A 302 SHEET 4 B 5 GLY A 382 LYS A 390 -1 O ILE A 389 N LEU A 312 SHEET 5 B 5 ASP A 372 LEU A 378 -1 N LYS A 374 O VAL A 386 LINK O ALA A 50 K K A 437 1555 1555 2.34 LINK O ARG A 51 K K A 437 1555 1555 3.61 LINK O PHE A 52 K K A 437 1555 1555 2.72 LINK OD1 ASN A 89 K K A 437 1555 1555 2.65 LINK O TYR A 403 K K A 437 1555 1555 2.51 LINK K K A 437 O HOH A 510 1555 1555 2.73 SITE 1 AC1 7 ALA A 50 ARG A 51 PHE A 52 ASN A 89 SITE 2 AC1 7 VAL A 402 TYR A 403 HOH A 510 CRYST1 98.190 98.190 110.403 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 0.010184 0.000000 0.000000 0.00000 SCALE2 0.000000 0.010184 0.000000 0.00000 SCALE3 0.000000 0.000000 0.009058 0.00000 CONECT 73 2968 CONECT 78 2968 CONECT 89 2968 CONECT 367 2968 CONECT 2808 2968 CONECT 2968 73 78 89 367 CONECT 2968 2808 3041 CONECT 3041 2968 MASTER 390 0 1 15 7 0 2 6 3167 1 8 32 END