PDB Short entry for 2BU5 HEADER TRANSFERASE 08-JUN-05 2BU5 TITLE CRYSTAL STRUCTURES OF HUMAN PYRUVATE DEHYDROGENASE KINASE 2 CONTAINING TITLE 2 PHYSIOLOGICAL AND SYNTHETIC LIGANDS COMPND MOL_ID: 1; COMPND 2 MOLECULE: PYRUVATE DEHYDROGENASE KINASE ISOENZYME 2; COMPND 3 CHAIN: A; COMPND 4 SYNONYM: PYRUVATE DEHYDROGENASE KINASE ISOFORM 2; COMPND 5 EC: 2.7.1.99; 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 EXPRESSION_SYSTEM: TRICHOPLUSIA NI; SOURCE 6 EXPRESSION_SYSTEM_TAXID: 7111; SOURCE 7 EXPRESSION_SYSTEM_CELL_LINE: HIGH FIVE; SOURCE 8 EXPRESSION_SYSTEM_VECTOR_TYPE: BACULOVIRUS; SOURCE 9 EXPRESSION_SYSTEM_PLASMID: PFASTBAC1 KEYWDS TRANSFERASE, PYRUVATE DEHYDROGENASE KINASE 2, GHKL MOTIF REGULATION EXPDTA X-RAY DIFFRACTION AUTHOR T.R.KNOECHEL,A.D.TUCKER,C.M.ROBINSON,C.PHILLIPS,W.TAYLOR,P.J.BUNGAY, AUTHOR 2 S.A.KASTEN,T.E.ROCHE,D.G.BROWN REVDAT 5 13-DEC-23 2BU5 1 REMARK REVDAT 4 03-APR-19 2BU5 1 REMARK REVDAT 3 27-MAR-19 2BU5 1 SOURCE REVDAT 2 24-FEB-09 2BU5 1 VERSN REVDAT 1 02-FEB-06 2BU5 0 JRNL AUTH T.R.KNOECHEL,A.D.TUCKER,C.M.ROBINSON,C.PHILLIPS,W.TAYLOR, JRNL AUTH 2 P.J.BUNGAY,S.A.KASTEN,T.E.ROCHE,D.G.BROWN JRNL TITL REGULATORY ROLES OF THE N-TERMINAL DOMAIN BASED ON CRYSTAL JRNL TITL 2 STRUCTURES OF HUMAN PYRUVATE DEHYDROGENASE KINASE 2 JRNL TITL 3 CONTAINING PHYSIOLOGICAL AND SYNTHETIC LIGANDS. JRNL REF BIOCHEMISTRY V. 45 402 2006 JRNL REFN ISSN 0006-2960 JRNL PMID 16401071 JRNL DOI 10.1021/BI051402S REMARK 2 REMARK 2 RESOLUTION. 2.35 ANGSTROMS. REMARK 3 REMARK 3 REFINEMENT. REMARK 3 PROGRAM : CNX REMARK 3 AUTHORS : BRUNGER,ADAMS,CLORE,DELANO,GROS,GROSSE- REMARK 3 : KUNSTLEVE,JIANG,KUSZEWSKI,NILGES,PANNU, REMARK 3 : READ,RICE,SIMONSON,WARREN,ACCELRYS REMARK 3 : SOFTWARE INC.(BADGER,BERARD,KUMAR,SZALMA, REMARK 3 : YIP,DZAKULA) REMARK 3 REMARK 3 DATA USED IN REFINEMENT. REMARK 3 RESOLUTION RANGE HIGH (ANGSTROMS) : 2.35 REMARK 3 RESOLUTION RANGE LOW (ANGSTROMS) : 30.00 REMARK 3 DATA CUTOFF (SIGMA(F)) : 0.000 REMARK 3 DATA CUTOFF HIGH (ABS(F)) : NULL REMARK 3 DATA CUTOFF LOW (ABS(F)) : NULL REMARK 3 COMPLETENESS (WORKING+TEST) (%) : NULL REMARK 3 NUMBER OF REFLECTIONS : 22869 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) : 0.237 REMARK 3 R VALUE (WORKING SET) : 0.237 REMARK 3 FREE R VALUE : 0.255 REMARK 3 FREE R VALUE TEST SET SIZE (%) : 4.700 REMARK 3 FREE R VALUE TEST SET COUNT : 1107 REMARK 3 ESTIMATED ERROR OF FREE R VALUE : NULL REMARK 3 REMARK 3 FIT/AGREEMENT OF MODEL WITH ALL DATA. REMARK 3 R VALUE (WORKING + TEST SET, NO CUTOFF) : NULL REMARK 3 R VALUE (WORKING SET, NO CUTOFF) : NULL REMARK 3 FREE R VALUE (NO CUTOFF) : NULL REMARK 3 FREE R VALUE TEST SET SIZE (%, NO CUTOFF) : NULL REMARK 3 FREE R VALUE TEST SET COUNT (NO CUTOFF) : NULL REMARK 3 ESTIMATED ERROR OF FREE R VALUE (NO CUTOFF) : NULL REMARK 3 TOTAL NUMBER OF REFLECTIONS (NO CUTOFF) : NULL REMARK 3 REMARK 3 FIT IN THE HIGHEST RESOLUTION BIN. REMARK 3 TOTAL NUMBER OF BINS USED : NULL REMARK 3 BIN RESOLUTION RANGE HIGH (A) : NULL REMARK 3 BIN RESOLUTION RANGE LOW (A) : NULL REMARK 3 BIN COMPLETENESS (WORKING+TEST) (%) : NULL REMARK 3 REFLECTIONS IN BIN (WORKING SET) : NULL REMARK 3 BIN R VALUE (WORKING SET) : NULL REMARK 3 BIN FREE R VALUE : NULL REMARK 3 BIN FREE R VALUE TEST SET SIZE (%) : NULL REMARK 3 BIN FREE R VALUE TEST SET COUNT : NULL REMARK 3 ESTIMATED ERROR OF BIN FREE R VALUE : NULL REMARK 3 REMARK 3 NUMBER OF NON-HYDROGEN ATOMS USED IN REFINEMENT. REMARK 3 PROTEIN ATOMS : 2860 REMARK 3 NUCLEIC ACID ATOMS : 0 REMARK 3 HETEROGEN ATOMS : 27 REMARK 3 SOLVENT ATOMS : 108 REMARK 3 REMARK 3 B VALUES. REMARK 3 FROM WILSON PLOT (A**2) : NULL REMARK 3 MEAN B VALUE (OVERALL, A**2) : NULL REMARK 3 OVERALL ANISOTROPIC B VALUE. REMARK 3 B11 (A**2) : -4.37800 REMARK 3 B22 (A**2) : -4.37800 REMARK 3 B33 (A**2) : 8.75700 REMARK 3 B12 (A**2) : -5.20100 REMARK 3 B13 (A**2) : 0.00000 REMARK 3 B23 (A**2) : 0.00000 REMARK 3 REMARK 3 ESTIMATED COORDINATE ERROR. REMARK 3 ESD FROM LUZZATI PLOT (A) : NULL REMARK 3 ESD FROM SIGMAA (A) : NULL REMARK 3 LOW RESOLUTION CUTOFF (A) : NULL REMARK 3 REMARK 3 CROSS-VALIDATED ESTIMATED COORDINATE ERROR. REMARK 3 ESD FROM C-V LUZZATI PLOT (A) : NULL REMARK 3 ESD FROM C-V SIGMAA (A) : NULL REMARK 3 REMARK 3 RMS DEVIATIONS FROM IDEAL VALUES. REMARK 3 BOND LENGTHS (A) : 0.008 REMARK 3 BOND ANGLES (DEGREES) : 1.342 REMARK 3 DIHEDRAL ANGLES (DEGREES) : NULL REMARK 3 IMPROPER ANGLES (DEGREES) : NULL REMARK 3 REMARK 3 ISOTROPIC THERMAL MODEL : NULL REMARK 3 REMARK 3 ISOTROPIC THERMAL FACTOR RESTRAINTS. RMS SIGMA REMARK 3 MAIN-CHAIN BOND (A**2) : NULL ; NULL REMARK 3 MAIN-CHAIN ANGLE (A**2) : NULL ; NULL REMARK 3 SIDE-CHAIN BOND (A**2) : NULL ; NULL REMARK 3 SIDE-CHAIN ANGLE (A**2) : NULL ; NULL REMARK 3 REMARK 3 BULK SOLVENT MODELING. REMARK 3 METHOD USED : NULL REMARK 3 KSOL : 0.38 REMARK 3 BSOL : 68.50 REMARK 3 REMARK 3 NCS MODEL : NULL REMARK 3 REMARK 3 NCS RESTRAINTS. RMS SIGMA/WEIGHT REMARK 3 GROUP 1 POSITIONAL (A) : NULL ; NULL REMARK 3 GROUP 1 B-FACTOR (A**2) : NULL ; NULL REMARK 3 REMARK 3 PARAMETER FILE 1 : PROTEIN_REP.PARAM REMARK 3 PARAMETER FILE 3 : WATER_REP.PARAM REMARK 3 PARAMETER FILE 4 : NULL REMARK 3 TOPOLOGY FILE 1 : NULL REMARK 3 TOPOLOGY FILE 3 : NULL REMARK 3 TOPOLOGY FILE 4 : NULL REMARK 3 REMARK 3 OTHER REFINEMENT REMARKS: NULL REMARK 4 REMARK 4 2BU5 COMPLIES WITH FORMAT V. 3.30, 13-JUL-11 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY PDBE ON 08-JUN-05. REMARK 100 THE DEPOSITION ID IS D_1290024423. REMARK 200 REMARK 200 EXPERIMENTAL DETAILS REMARK 200 EXPERIMENT TYPE : X-RAY DIFFRACTION REMARK 200 DATE OF DATA COLLECTION : NULL REMARK 200 TEMPERATURE (KELVIN) : 100.0 REMARK 200 PH : 6.00 REMARK 200 NUMBER OF CRYSTALS USED : 1 REMARK 200 REMARK 200 SYNCHROTRON (Y/N) : Y REMARK 200 RADIATION SOURCE : ESRF REMARK 200 BEAMLINE : ID14-2 REMARK 200 X-RAY GENERATOR MODEL : NULL REMARK 200 MONOCHROMATIC OR LAUE (M/L) : M REMARK 200 WAVELENGTH OR RANGE (A) : 0.9326 REMARK 200 MONOCHROMATOR : NULL REMARK 200 OPTICS : MIRRORS REMARK 200 REMARK 200 DETECTOR TYPE : CCD REMARK 200 DETECTOR MANUFACTURER : ADSC CCD REMARK 200 INTENSITY-INTEGRATION SOFTWARE : HKL REMARK 200 DATA SCALING SOFTWARE : SCALEPACK REMARK 200 REMARK 200 NUMBER OF UNIQUE REFLECTIONS : 23185 REMARK 200 RESOLUTION RANGE HIGH (A) : 2.350 REMARK 200 RESOLUTION RANGE LOW (A) : 30.000 REMARK 200 REJECTION CRITERIA (SIGMA(I)) : 0.000 REMARK 200 REMARK 200 OVERALL. REMARK 200 COMPLETENESS FOR RANGE (%) : 97.6 REMARK 200 DATA REDUNDANCY : 2.900 REMARK 200 R MERGE (I) : 0.05000 REMARK 200 R SYM (I) : NULL REMARK 200 <I/SIGMA(I)> FOR THE DATA SET : 21.2600 REMARK 200 REMARK 200 IN THE HIGHEST RESOLUTION SHELL. REMARK 200 HIGHEST RESOLUTION SHELL, RANGE HIGH (A) : 2.35 REMARK 200 HIGHEST RESOLUTION SHELL, RANGE LOW (A) : 2.43 REMARK 200 COMPLETENESS FOR SHELL (%) : 98.8 REMARK 200 DATA REDUNDANCY IN SHELL : 2.90 REMARK 200 R MERGE FOR SHELL (I) : 0.23000 REMARK 200 R SYM FOR SHELL (I) : NULL REMARK 200 <I/SIGMA(I)> FOR SHELL : 4.730 REMARK 200 REMARK 200 DIFFRACTION PROTOCOL: SINGLE WAVELENGTH REMARK 200 METHOD USED TO DETERMINE THE STRUCTURE: MOLECULAR REPLACEMENT REMARK 200 SOFTWARE USED: CNX REMARK 200 STARTING MODEL: PDB ENTRY 2BTZ REMARK 200 REMARK 200 REMARK: NULL REMARK 280 REMARK 280 CRYSTAL REMARK 280 SOLVENT CONTENT, VS (%): 62.00 REMARK 280 MATTHEWS COEFFICIENT, VM (ANGSTROMS**3/DA): 3.19 REMARK 280 REMARK 280 CRYSTALLIZATION CONDITIONS: 100MM MES PH5.8-6,10% REMARK 280 ISOPROPANOL,200MM CALCIUM ACETATE,10MG/ML PROTEIN 4 DEGREES, PH REMARK 280 6.00, TEMPERATURE 277K REMARK 290 REMARK 290 CRYSTALLOGRAPHIC SYMMETRY REMARK 290 SYMMETRY OPERATORS FOR SPACE GROUP: P 64 REMARK 290 REMARK 290 SYMOP SYMMETRY REMARK 290 NNNMMM OPERATOR REMARK 290 1555 X,Y,Z REMARK 290 2555 -Y,X-Y,Z+1/3 REMARK 290 3555 -X+Y,-X,Z+2/3 REMARK 290 4555 -X,-Y,Z REMARK 290 5555 Y,-X+Y,Z+1/3 REMARK 290 6555 X-Y,X,Z+2/3 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 -0.500000 -0.866025 0.000000 0.00000 REMARK 290 SMTRY2 2 0.866025 -0.500000 0.000000 0.00000 REMARK 290 SMTRY3 2 0.000000 0.000000 1.000000 28.12833 REMARK 290 SMTRY1 3 -0.500000 0.866025 0.000000 0.00000 REMARK 290 SMTRY2 3 -0.866025 -0.500000 0.000000 0.00000 REMARK 290 SMTRY3 3 0.000000 0.000000 1.000000 56.25667 REMARK 290 SMTRY1 4 -1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY2 4 0.000000 -1.000000 0.000000 0.00000 REMARK 290 SMTRY3 4 0.000000 0.000000 1.000000 0.00000 REMARK 290 SMTRY1 5 0.500000 0.866025 0.000000 0.00000 REMARK 290 SMTRY2 5 -0.866025 0.500000 0.000000 0.00000 REMARK 290 SMTRY3 5 0.000000 0.000000 1.000000 28.12833 REMARK 290 SMTRY1 6 0.500000 -0.866025 0.000000 0.00000 REMARK 290 SMTRY2 6 0.866025 0.500000 0.000000 0.00000 REMARK 290 SMTRY3 6 0.000000 0.000000 1.000000 56.25667 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: DIMERIC REMARK 350 SOFTWARE DETERMINED QUATERNARY STRUCTURE: DIMERIC REMARK 350 SOFTWARE USED: PQS 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 -1.000000 0.000000 0.000000 54.03700 REMARK 350 BIOMT2 2 0.000000 -1.000000 0.000000 93.59483 REMARK 350 BIOMT3 2 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 32 REMARK 465 SER A 33 REMARK 465 GLY A 170 REMARK 465 SER A 171 REMARK 465 THR A 172 REMARK 465 ASN A 173 REMARK 465 PRO A 174 REMARK 465 ALA A 175 REMARK 465 HIS A 176 REMARK 465 PRO A 177 REMARK 465 THR A 305 REMARK 465 PRO A 306 REMARK 465 GLN A 307 REMARK 465 PRO A 308 REMARK 465 GLY A 309 REMARK 465 THR A 310 REMARK 465 GLY A 311 REMARK 465 GLY A 312 REMARK 465 THR A 313 REMARK 465 PRO A 314 REMARK 465 LEU A 315 REMARK 465 ALA A 316 REMARK 465 GLY A 317 REMARK 465 PHE A 318 REMARK 465 PRO A 386 REMARK 465 SER A 387 REMARK 465 THR A 388 REMARK 465 GLU A 389 REMARK 465 PRO A 390 REMARK 465 LYS A 391 REMARK 465 ASN A 392 REMARK 465 THR A 393 REMARK 465 SER A 394 REMARK 465 THR A 395 REMARK 465 TYR A 396 REMARK 465 ARG A 397 REMARK 465 VAL A 398 REMARK 465 SER A 399 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 GLN A 378 CG CD OE1 NE2 REMARK 470 GLU A 379 CG CD OE1 OE2 REMARK 470 VAL A 385 CA C O CB CG1 CG2 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 CG LEU A 260 O HOH A 2070 1.43 REMARK 500 CB LEU A 260 O HOH A 2070 1.54 REMARK 500 CD1 LEU A 260 O HOH A 2070 1.63 REMARK 500 CD2 LEU A 260 O HOH A 2070 2.16 REMARK 500 REMARK 500 REMARK: NULL REMARK 500 REMARK 500 GEOMETRY AND STEREOCHEMISTRY REMARK 500 SUBTOPIC: CLOSE CONTACTS REMARK 500 REMARK 500 THE FOLLOWING ATOMS THAT ARE RELATED BY CRYSTALLOGRAPHIC REMARK 500 SYMMETRY ARE IN CLOSE CONTACT. AN ATOM LOCATED WITHIN 0.15 REMARK 500 ANGSTROMS OF A SYMMETRY RELATED ATOM IS ASSUMED TO BE ON A REMARK 500 SPECIAL POSITION AND IS, THEREFORE, LISTED IN REMARK 375 REMARK 500 INSTEAD OF REMARK 500. ATOMS WITH NON-BLANK ALTERNATE REMARK 500 LOCATION INDICATORS ARE NOT INCLUDED IN THE CALCULATIONS. REMARK 500 REMARK 500 DISTANCE CUTOFF: REMARK 500 2.2 ANGSTROMS FOR CONTACTS NOT INVOLVING HYDROGEN ATOMS REMARK 500 1.6 ANGSTROMS FOR CONTACTS INVOLVING HYDROGEN ATOMS REMARK 500 REMARK 500 ATM1 RES C SSEQI ATM2 RES C SSEQI SSYMOP DISTANCE REMARK 500 NZ LYS A 10 O SER A 259 3665 2.03 REMARK 500 REMARK 500 REMARK: NULL 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 GLU A 257 C GLU A 257 O 0.138 REMARK 500 LEU A 260 CG LEU A 260 CD1 0.432 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 ALA A 36 N - CA - C ANGL. DEV. = -17.0 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 HIS A 14 -79.31 -68.74 REMARK 500 ASN A 35 47.54 105.29 REMARK 500 ALA A 36 39.10 -90.13 REMARK 500 CYS A 37 107.43 63.10 REMARK 500 ASN A 61 -17.57 -45.36 REMARK 500 PRO A 64 135.77 -29.67 REMARK 500 PRO A 95 -133.58 -65.41 REMARK 500 GLU A 96 -46.07 65.16 REMARK 500 HIS A 98 -1.03 -54.79 REMARK 500 ASP A 135 79.51 -113.44 REMARK 500 ALA A 210 144.10 -174.65 REMARK 500 SER A 224 -42.10 -23.81 REMARK 500 SER A 258 19.57 -144.97 REMARK 500 PHE A 344 -68.73 -140.61 REMARK 500 GLU A 379 98.57 -176.55 REMARK 500 ALA A 380 105.14 79.94 REMARK 500 CYS A 384 -166.38 -123.41 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 A2016 DISTANCE = 6.20 ANGSTROMS REMARK 800 REMARK 800 SITE REMARK 800 SITE_IDENTIFIER: AC1 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE TF1 A1386 REMARK 900 REMARK 900 RELATED ENTRIES REMARK 900 RELATED ID: 2BTZ RELATED DB: PDB REMARK 900 CRYSTAL STRUCTURES OF HUMAN PYRUVATE DEHYDROGENASE KINASE 2 REMARK 900 CONTAINING PHYSIOLOGICAL AND SYNTHETIC LIGANDS REMARK 900 RELATED ID: 2BU2 RELATED DB: PDB REMARK 900 CRYSTAL STRUCTURES OF HUMAN PYRUVATE DEHYDROGENASE KINASE 2 REMARK 900 CONTAINING PHYSIOLOGICAL AND SYNTHETIC LIGANDS REMARK 900 RELATED ID: 2BU6 RELATED DB: PDB REMARK 900 CRYSTAL STRUCTURES OF HUMAN PYRUVATE DEHYDROGENASE KINASE 2 REMARK 900 CONTAINING PHYSIOLOGICAL AND SYNTHETIC LIGANDS REMARK 900 RELATED ID: 2BU7 RELATED DB: PDB REMARK 900 CRYSTAL STRUCTURES OF HUMAN PYRUVATE DEHYDROGENASE KINASE 2 REMARK 900 CONTAINING PHYSIOLOGICAL AND SYNTHETIC LIGANDS REMARK 900 RELATED ID: 2BU8 RELATED DB: PDB REMARK 900 CRYSTAL STRUCTURES OF HUMAN PYRUVATE DEHYDROGENASE KINASE 2 REMARK 900 CONTAINING PHYSIOLOGICAL AND SYNTHETIC LIGANDS DBREF 2BU5 A 6 7 PDB 2BU5 2BU5 6 7 DBREF 2BU5 A 8 399 UNP Q15119 PDK2_HUMAN 16 407 SEQRES 1 A 394 GLY SER ALA PRO LYS TYR ILE GLU HIS PHE SER LYS PHE SEQRES 2 A 394 SER PRO SER PRO LEU SER MET LYS GLN PHE LEU ASP PHE SEQRES 3 A 394 GLY SER SER ASN ALA CYS GLU LYS THR SER PHE THR PHE SEQRES 4 A 394 LEU ARG GLN GLU LEU PRO VAL ARG LEU ALA ASN ILE MET SEQRES 5 A 394 LYS GLU ILE ASN LEU LEU PRO ASP ARG VAL LEU SER THR SEQRES 6 A 394 PRO SER VAL GLN LEU VAL GLN SER TRP TYR VAL GLN SER SEQRES 7 A 394 LEU LEU ASP ILE MET GLU PHE LEU ASP LYS ASP PRO GLU SEQRES 8 A 394 ASP HIS ARG THR LEU SER GLN PHE THR ASP ALA LEU VAL SEQRES 9 A 394 THR ILE ARG ASN ARG HIS ASN ASP VAL VAL PRO THR MET SEQRES 10 A 394 ALA GLN GLY VAL LEU GLU TYR LYS ASP THR TYR GLY ASP SEQRES 11 A 394 ASP PRO VAL SER ASN GLN ASN ILE GLN TYR PHE LEU ASP SEQRES 12 A 394 ARG PHE TYR LEU SER ARG ILE SER ILE ARG MET LEU ILE SEQRES 13 A 394 ASN GLN HIS THR LEU ILE PHE ASP GLY SER THR ASN PRO SEQRES 14 A 394 ALA HIS PRO LYS HIS ILE GLY SER ILE ASP PRO ASN CYS SEQRES 15 A 394 ASN VAL SER GLU VAL VAL LYS ASP ALA TYR ASP MET ALA SEQRES 16 A 394 LYS LEU LEU CYS ASP LYS TYR TYR MET ALA SER PRO ASP SEQRES 17 A 394 LEU GLU ILE GLN GLU ILE ASN ALA ALA ASN SER LYS GLN SEQRES 18 A 394 PRO ILE HIS MET VAL TYR VAL PRO SER HIS LEU TYR HIS SEQRES 19 A 394 MET LEU PHE GLU LEU PHE LYS ASN ALA MET ARG ALA THR SEQRES 20 A 394 VAL GLU SER HIS GLU SER SER LEU ILE LEU PRO PRO ILE SEQRES 21 A 394 LYS VAL MET VAL ALA LEU GLY GLU GLU ASP LEU SER ILE SEQRES 22 A 394 LYS MET SER ASP ARG GLY GLY GLY VAL PRO LEU ARG LYS SEQRES 23 A 394 ILE GLU ARG LEU PHE SER TYR MET TYR SER THR ALA PRO SEQRES 24 A 394 THR PRO GLN PRO GLY THR GLY GLY THR PRO LEU ALA GLY SEQRES 25 A 394 PHE GLY TYR GLY LEU PRO ILE SER ARG LEU TYR ALA LYS SEQRES 26 A 394 TYR PHE GLN GLY ASP LEU GLN LEU PHE SER MET GLU GLY SEQRES 27 A 394 PHE GLY THR ASP ALA VAL ILE TYR LEU LYS ALA LEU SER SEQRES 28 A 394 THR ASP SER VAL GLU ARG LEU PRO VAL TYR ASN LYS SER SEQRES 29 A 394 ALA TRP ARG HIS TYR GLN THR ILE GLN GLU ALA GLY ASP SEQRES 30 A 394 TRP CYS VAL PRO SER THR GLU PRO LYS ASN THR SER THR SEQRES 31 A 394 TYR ARG VAL SER HET TF1 A1386 27 HETNAM TF1 4-({(2R,5S)-2,5-DIMETHYL-4-[(2R)-3,3,3-TRIFLUORO-2- HETNAM 2 TF1 HYDROXY-2-METHYLPROPANOYL]PIPERAZIN-1-YL}CARBONYL) HETNAM 3 TF1 BENZONITRILE FORMUL 2 TF1 C18 H20 F3 N3 O3 FORMUL 3 HOH *108(H2 O) HELIX 1 1 SER A 7 SER A 16 1 10 HELIX 2 2 SER A 24 PHE A 31 1 8 HELIX 3 3 CYS A 37 ASN A 61 1 25 HELIX 4 4 PRO A 64 SER A 69 1 6 HELIX 5 5 THR A 70 GLU A 89 1 20 HELIX 6 6 PHE A 90 ASP A 92 5 3 HELIX 7 7 LEU A 101 HIS A 115 1 15 HELIX 8 8 ASP A 117 GLY A 134 1 18 HELIX 9 9 ASP A 136 PHE A 168 1 33 HELIX 10 10 VAL A 189 MET A 209 1 21 HELIX 11 11 VAL A 233 HIS A 256 1 24 HELIX 12 12 PRO A 288 PHE A 296 1 9 HELIX 13 13 TYR A 320 PHE A 332 1 13 HELIX 14 14 ASN A 367 ARG A 372 1 6 HELIX 15 15 HIS A 373 GLN A 375 5 3 SHEET 1 AA 2 ASP A 184 ASN A 188 0 SHEET 2 AA 2 HIS A 229 TYR A 232 -1 O MET A 230 N CYS A 187 SHEET 1 AB 5 LEU A 214 ASN A 220 0 SHEET 2 AB 5 ILE A 265 LEU A 271 1 O ILE A 265 N GLU A 215 SHEET 3 AB 5 ASP A 275 GLY A 285 -1 O SER A 277 N ALA A 270 SHEET 4 AB 5 PHE A 344 LYS A 353 -1 O PHE A 344 N GLY A 285 SHEET 5 AB 5 ASP A 335 MET A 341 -1 O ASP A 335 N TYR A 351 CISPEP 1 ALA A 303 PRO A 304 0 -0.68 SITE 1 AC1 9 LEU A 23 GLN A 27 PHE A 28 PHE A 31 SITE 2 AC1 9 SER A 41 PHE A 44 LEU A 45 LEU A 160 SITE 3 AC1 9 GLN A 163 CRYST1 108.074 108.074 84.385 90.00 90.00 120.00 P 64 6 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 0.009253 0.005342 0.000000 0.00000 SCALE2 0.000000 0.010684 0.000000 0.00000 SCALE3 0.000000 0.000000 0.011850 0.00000