HEADER TRANSFERASE 22-AUG-01 1GKZ TITLE BRANCHED-CHAIN ALPHA-KETOACID DEHYDROGENASE KINASE (BCK) COMPLXED WITH TITLE 2 ADP COMPND MOL_ID: 1; COMPND 2 MOLECULE: [3-METHYL-2-OXOBUTANOATE DEHYDROGENASE [LIPOAMIDE]] KINASE; COMPND 3 CHAIN: A; COMPND 4 SYNONYM: BRANCHED-CHAIN ALPHA-KETOACID DEHYDROGENASE KINASE; COMPND 5 EC: 2.7.1.115; COMPND 6 ENGINEERED: YES; COMPND 7 OTHER_DETAILS: C-TERMINAL HIS6-TAG SOURCE MOL_ID: 1; SOURCE 2 ORGANISM_SCIENTIFIC: RATTUS NORVEGICUS; SOURCE 3 ORGANISM_COMMON: RAT; SOURCE 4 ORGANISM_TAXID: 10116; SOURCE 5 EXPRESSION_SYSTEM: ESCHERICHIA COLI; SOURCE 6 EXPRESSION_SYSTEM_TAXID: 562; SOURCE 7 EXPRESSION_SYSTEM_STRAIN: CG-712; SOURCE 8 EXPRESSION_SYSTEM_VECTOR: PTRCHISB; SOURCE 9 EXPRESSION_SYSTEM_PLASMID: PTRCKINASEHIS6/PGROESL KEYWDS TRANSFERASE, MITOCHONDRIAL PROTEIN KINASE, POTASSIUM EXPDTA X-RAY DIFFRACTION AUTHOR M.MACHIUS,J.L.CHUANG,R.M.WYNN,D.R.TOMCHICK,D.T.CHUANG REVDAT 4 01-MAY-24 1GKZ 1 REMARK LINK REVDAT 3 15-MAY-19 1GKZ 1 REMARK ATOM REVDAT 2 24-FEB-09 1GKZ 1 VERSN REVDAT 1 11-OCT-01 1GKZ 0 JRNL AUTH M.MACHIUS,J.L.CHUANG,R.M.WYNN,D.R.TOMCHICK,D.T.CHUANG JRNL TITL STRUCTURE OF RAT BCKD KINASE: NUCLEOTIDE-INDUCED DOMAIN JRNL TITL 2 COMMUNICATION IN A MITOCHONDRIAL PROTEIN KINASE. JRNL REF PROC.NATL.ACAD.SCI.USA V. 98 11218 2001 JRNL REFN ISSN 0027-8424 JRNL PMID 11562470 JRNL DOI 10.1073/PNAS.201220098 REMARK 2 REMARK 2 RESOLUTION. 2.20 ANGSTROMS. REMARK 3 REMARK 3 REFINEMENT. REMARK 3 PROGRAM : CNS 1.1 REMARK 3 AUTHORS : BRUNGER,ADAMS,CLORE,DELANO,GROS,GROSSE- REMARK 3 : KUNSTLEVE,JIANG,KUSZEWSKI,NILGES,PANNU, REMARK 3 : READ,RICE,SIMONSON,WARREN REMARK 3 REMARK 3 REFINEMENT TARGET : NULL REMARK 3 REMARK 3 DATA USED IN REFINEMENT. REMARK 3 RESOLUTION RANGE HIGH (ANGSTROMS) : 2.20 REMARK 3 RESOLUTION RANGE LOW (ANGSTROMS) : 40.77 REMARK 3 DATA CUTOFF (SIGMA(F)) : 0.000 REMARK 3 DATA CUTOFF HIGH (ABS(F)) : 775826.860 REMARK 3 DATA CUTOFF LOW (ABS(F)) : NULL REMARK 3 COMPLETENESS (WORKING+TEST) (%) : 95.4 REMARK 3 NUMBER OF REFLECTIONS : 30799 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 SET) : 0.237 REMARK 3 FREE R VALUE : 0.268 REMARK 3 FREE R VALUE TEST SET SIZE (%) : 4.600 REMARK 3 FREE R VALUE TEST SET COUNT : 1427 REMARK 3 ESTIMATED ERROR OF FREE R VALUE : 0.007 REMARK 3 REMARK 3 FIT IN THE HIGHEST RESOLUTION BIN. REMARK 3 TOTAL NUMBER OF BINS USED : 6 REMARK 3 BIN RESOLUTION RANGE HIGH (A) : 2.20 REMARK 3 BIN RESOLUTION RANGE LOW (A) : 2.34 REMARK 3 BIN COMPLETENESS (WORKING+TEST) (%) : 88.20 REMARK 3 REFLECTIONS IN BIN (WORKING SET) : 4456 REMARK 3 BIN R VALUE (WORKING SET) : 0.3030 REMARK 3 BIN FREE R VALUE : 0.3270 REMARK 3 BIN FREE R VALUE TEST SET SIZE (%) : 4.40 REMARK 3 BIN FREE R VALUE TEST SET COUNT : 204 REMARK 3 ESTIMATED ERROR OF BIN FREE R VALUE : 0.023 REMARK 3 REMARK 3 NUMBER OF NON-HYDROGEN ATOMS USED IN REFINEMENT. REMARK 3 PROTEIN ATOMS : 2550 REMARK 3 NUCLEIC ACID ATOMS : 0 REMARK 3 HETEROGEN ATOMS : 34 REMARK 3 SOLVENT ATOMS : 125 REMARK 3 REMARK 3 B VALUES. REMARK 3 FROM WILSON PLOT (A**2) : 52.10 REMARK 3 MEAN B VALUE (OVERALL, A**2) : 59.50 REMARK 3 OVERALL ANISOTROPIC B VALUE. REMARK 3 B11 (A**2) : 2.53000 REMARK 3 B22 (A**2) : 2.53000 REMARK 3 B33 (A**2) : -5.06000 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 COORDINATE ERROR. REMARK 3 ESD FROM LUZZATI PLOT (A) : 0.30 REMARK 3 ESD FROM SIGMAA (A) : 0.29 REMARK 3 LOW RESOLUTION CUTOFF (A) : 5.00 REMARK 3 REMARK 3 CROSS-VALIDATED ESTIMATED COORDINATE ERROR. REMARK 3 ESD FROM C-V LUZZATI PLOT (A) : 0.37 REMARK 3 ESD FROM C-V SIGMAA (A) : 0.33 REMARK 3 REMARK 3 RMS DEVIATIONS FROM IDEAL VALUES. REMARK 3 BOND LENGTHS (A) : 0.016 REMARK 3 BOND ANGLES (DEGREES) : 1.900 REMARK 3 DIHEDRAL ANGLES (DEGREES) : 22.80 REMARK 3 IMPROPER ANGLES (DEGREES) : 1.290 REMARK 3 REMARK 3 ISOTROPIC THERMAL MODEL : RESTRAINED REMARK 3 REMARK 3 ISOTROPIC THERMAL FACTOR RESTRAINTS. RMS SIGMA REMARK 3 MAIN-CHAIN BOND (A**2) : 1.640 ; 1.500 REMARK 3 MAIN-CHAIN ANGLE (A**2) : 2.730 ; 2.000 REMARK 3 SIDE-CHAIN BOND (A**2) : 2.300 ; 2.000 REMARK 3 SIDE-CHAIN ANGLE (A**2) : 3.390 ; 2.500 REMARK 3 REMARK 3 BULK SOLVENT MODELING. REMARK 3 METHOD USED : FLAT MODEL REMARK 3 KSOL : 0.37 REMARK 3 BSOL : 84.29 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 2 : WATER_REP.PARAM REMARK 3 PARAMETER FILE 3 : ION.PARAM REMARK 3 PARAMETER FILE 4 : MY_ATP-CAB.PARAM REMARK 3 PARAMETER FILE 5 : NULL REMARK 3 TOPOLOGY FILE 1 : &_1_TOPOLOGY_INFILE_1 REMARK 3 TOPOLOGY FILE 2 : &_1_TOPOLOGY_INFILE_2 REMARK 3 TOPOLOGY FILE 3 : &_1_TOPOLOGY_INFILE_3 REMARK 3 TOPOLOGY FILE 4 : &_1_TOPOLOGY_INFILE_4 REMARK 3 TOPOLOGY FILE 5 : NULL REMARK 3 REMARK 3 OTHER REFINEMENT REMARKS: CRYSTAL WAS PRESSURIZED WITH XENON, REMARK 3 WHICH IMPROVED DIFFRACTION QUALITY REMARK 4 REMARK 4 1GKZ COMPLIES WITH FORMAT V. 3.30, 13-JUL-11 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY PDBE ON 22-AUG-01. REMARK 100 THE DEPOSITION ID IS D_1290008469. REMARK 200 REMARK 200 EXPERIMENTAL DETAILS REMARK 200 EXPERIMENT TYPE : X-RAY DIFFRACTION REMARK 200 DATE OF DATA COLLECTION : 15-FEB-01 REMARK 200 TEMPERATURE (KELVIN) : 100.0 REMARK 200 PH : 7.50 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) : 1.5418 REMARK 200 MONOCHROMATOR : NULL REMARK 200 OPTICS : NULL REMARK 200 REMARK 200 DETECTOR TYPE : CCD REMARK 200 DETECTOR MANUFACTURER : SBC-CAT REMARK 200 INTENSITY-INTEGRATION SOFTWARE : HKL-2000 REMARK 200 DATA SCALING SOFTWARE : HKL-2000 REMARK 200 REMARK 200 NUMBER OF UNIQUE REFLECTIONS : 32115 REMARK 200 RESOLUTION RANGE HIGH (A) : 2.200 REMARK 200 RESOLUTION RANGE LOW (A) : 40.770 REMARK 200 REJECTION CRITERIA (SIGMA(I)) : -3.000 REMARK 200 REMARK 200 OVERALL. REMARK 200 COMPLETENESS FOR RANGE (%) : 99.5 REMARK 200 DATA REDUNDANCY : 6.300 REMARK 200 R MERGE (I) : 0.03200 REMARK 200 R SYM (I) : NULL REMARK 200 FOR THE DATA SET : 41.7000 REMARK 200 REMARK 200 IN THE HIGHEST RESOLUTION SHELL. REMARK 200 HIGHEST RESOLUTION SHELL, RANGE HIGH (A) : 2.20 REMARK 200 HIGHEST RESOLUTION SHELL, RANGE LOW (A) : 2.24 REMARK 200 COMPLETENESS FOR SHELL (%) : 99.9 REMARK 200 DATA REDUNDANCY IN SHELL : 6.00 REMARK 200 R MERGE FOR SHELL (I) : 0.56500 REMARK 200 R SYM FOR SHELL (I) : NULL REMARK 200 FOR SHELL : 2.700 REMARK 200 REMARK 200 DIFFRACTION PROTOCOL: SINGLE WAVELENGTH REMARK 200 METHOD USED TO DETERMINE THE STRUCTURE: MOLECULAR REPLACEMENT REMARK 200 SOFTWARE USED: CNS 1.0 REMARK 200 STARTING MODEL: BRANCHED-CHAIN ALPHA-KETOACID DEHYDROGENASE KINASE REMARK 200 (BCK) COMLEXED WITH ATP-GAMMA-S REMARK 200 REMARK 200 REMARK: NULL REMARK 280 REMARK 280 CRYSTAL REMARK 280 SOLVENT CONTENT, VS (%): 64.00 REMARK 280 MATTHEWS COEFFICIENT, VM (ANGSTROMS**3/DA): 3.40 REMARK 280 REMARK 280 CRYSTALLIZATION CONDITIONS: VAPOR DIFFUSION, 20C, EQUAL AMOUNTS OF REMARK 280 BCK (20 MG/ML IN 50 MM HEPES, PH 7.5, 1 M SODIUM CHLORIDE, 250 REMARK 280 MM POTASSIUM CHLORIDE, 300 MM ARGININE, 20 MM BETA- REMARK 280 MERCAPTOETHANOL, 2 MM BENZAMIDINE, 2 MM MG-ATPGAMMAS, 2 MM REMARK 280 MAGNESIUM CHLORIDE, 0.5 MM PMSF, 10% (W/V) GLYCEROL) AND REMARK 280 RESERVOIR (8%(W/V) PEG-6000, 5% (V/V) ETHYLENE GLYCOL, 1 M NACL, REMARK 280 20 MM BETA-MERCAPTOETHANOL), PH 7.50, TEMPERATURE 293K REMARK 290 REMARK 290 CRYSTALLOGRAPHIC SYMMETRY REMARK 290 SYMMETRY OPERATORS FOR SPACE GROUP: P 42 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 -Y+1/2,X+1/2,Z+1/2 REMARK 290 4555 Y+1/2,-X+1/2,Z+1/2 REMARK 290 5555 -X+1/2,Y+1/2,-Z+1/2 REMARK 290 6555 X+1/2,-Y+1/2,-Z+1/2 REMARK 290 7555 Y,X,-Z REMARK 290 8555 -Y,-X,-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 0.000000 -1.000000 0.000000 64.45850 REMARK 290 SMTRY2 3 1.000000 0.000000 0.000000 64.45850 REMARK 290 SMTRY3 3 0.000000 0.000000 1.000000 37.05250 REMARK 290 SMTRY1 4 0.000000 1.000000 0.000000 64.45850 REMARK 290 SMTRY2 4 -1.000000 0.000000 0.000000 64.45850 REMARK 290 SMTRY3 4 0.000000 0.000000 1.000000 37.05250 REMARK 290 SMTRY1 5 -1.000000 0.000000 0.000000 64.45850 REMARK 290 SMTRY2 5 0.000000 1.000000 0.000000 64.45850 REMARK 290 SMTRY3 5 0.000000 0.000000 -1.000000 37.05250 REMARK 290 SMTRY1 6 1.000000 0.000000 0.000000 64.45850 REMARK 290 SMTRY2 6 0.000000 -1.000000 0.000000 64.45850 REMARK 290 SMTRY3 6 0.000000 0.000000 -1.000000 37.05250 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 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: 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 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 1 REMARK 465 THR A 2 REMARK 465 SER A 3 REMARK 465 ALA A 4 REMARK 465 THR A 5 REMARK 465 ASP A 6 REMARK 465 THR A 7 REMARK 465 HIS A 8 REMARK 465 HIS A 9 REMARK 465 VAL A 10 REMARK 465 GLU A 11 REMARK 465 LEU A 12 REMARK 465 ALA A 13 REMARK 465 ARG A 14 REMARK 465 GLU A 15 REMARK 465 ARG A 16 REMARK 465 SER A 17 REMARK 465 LYS A 18 REMARK 465 THR A 19 REMARK 465 VAL A 20 REMARK 465 THR A 21 REMARK 465 SER A 22 REMARK 465 PHE A 23 REMARK 465 TYR A 24 REMARK 465 ASN A 25 REMARK 465 GLN A 26 REMARK 465 SER A 27 REMARK 465 ALA A 28 REMARK 465 ILE A 29 REMARK 465 ASP A 30 REMARK 465 VAL A 31 REMARK 465 VAL A 32 REMARK 465 ALA A 33 REMARK 465 GLU A 34 REMARK 465 LYS A 35 REMARK 465 PRO A 36 REMARK 465 SER A 37 REMARK 465 GLU A 307 REMARK 465 ALA A 308 REMARK 465 SER A 309 REMARK 465 THR A 310 REMARK 465 GLN A 311 REMARK 465 ASP A 312 REMARK 465 PRO A 313 REMARK 465 ARG A 314 REMARK 465 ILE A 315 REMARK 465 SER A 316 REMARK 465 PRO A 317 REMARK 465 LEU A 318 REMARK 465 PHE A 319 REMARK 465 GLY A 320 REMARK 465 HIS A 321 REMARK 465 LEU A 322 REMARK 465 ASP A 323 REMARK 465 MET A 324 REMARK 465 HIS A 325 REMARK 465 SER A 326 REMARK 465 GLY A 327 REMARK 465 GLY A 328 REMARK 465 GLN A 329 REMARK 465 SER A 330 REMARK 465 GLY A 331 REMARK 465 SER A 379 REMARK 465 PHE A 380 REMARK 465 ARG A 381 REMARK 465 ILE A 382 REMARK 465 HIS A 383 REMARK 465 HIS A 384 REMARK 465 HIS A 385 REMARK 465 HIS A 386 REMARK 465 HIS A 387 REMARK 465 HIS A 388 REMARK 480 REMARK 480 ZERO OCCUPANCY ATOM REMARK 480 THE FOLLOWING RESIDUES HAVE ATOMS MODELED WITH ZERO REMARK 480 OCCUPANCY. THE LOCATION AND PROPERTIES OF THESE ATOMS REMARK 480 MAY NOT BE RELIABLE. (M=MODEL NUMBER; RES=RESIDUE NAME; REMARK 480 C=CHAIN IDENTIFIER; SSEQ=SEQUENCE NUMBER; I=INSERTION CODE): REMARK 480 M RES C SSEQI ATOMS REMARK 480 LYS A 59 CB CG CD CE NZ REMARK 480 GLN A 66 CG CD OE1 NE2 REMARK 480 ARG A 101 CG CD NE CZ NH1 NH2 REMARK 480 LYS A 113 CG CD CE NZ REMARK 480 LYS A 133 CG CD CE NZ REMARK 480 GLU A 145 CG CD OE1 OE2 REMARK 480 ARG A 297 CZ NH1 NH2 REMARK 480 ARG A 376 CB CG CD NE CZ NH1 NH2 REMARK 480 GLU A 377 CB CG CD OE1 OE2 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 HIS A 149 CB HIS A 149 CG 0.143 REMARK 500 ILE A 150 N ILE A 150 CA 0.124 REMARK 500 GLU A 153 C LYS A 154 N -0.145 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 LEU A 82 CA - CB - CG ANGL. DEV. = 13.8 DEGREES REMARK 500 PRO A 90 C - N - CA ANGL. DEV. = 9.4 DEGREES REMARK 500 GLU A 145 O - C - N ANGL. DEV. = -10.4 DEGREES REMARK 500 LYS A 148 N - CA - C ANGL. DEV. = -22.5 DEGREES REMARK 500 HIS A 149 CA - CB - CG ANGL. DEV. = 10.3 DEGREES REMARK 500 ILE A 150 C - N - CA ANGL. DEV. = 15.3 DEGREES REMARK 500 ILE A 150 N - CA - C ANGL. DEV. = 16.5 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 THR A 41 -74.28 -152.22 REMARK 500 THR A 43 8.32 -165.19 REMARK 500 SER A 51 -104.65 -3.54 REMARK 500 GLN A 52 -120.15 68.64 REMARK 500 ASP A 134 37.24 -97.94 REMARK 500 SER A 146 95.51 -54.39 REMARK 500 ARG A 147 44.99 142.43 REMARK 500 ILE A 150 175.59 17.38 REMARK 500 ASP A 152 104.84 15.49 REMARK 500 ARG A 194 59.01 -142.86 REMARK 500 HIS A 302 -25.33 76.56 REMARK 500 MET A 333 -59.83 99.96 REMARK 500 PHE A 336 39.13 -156.72 REMARK 500 ILE A 362 -53.97 -129.41 REMARK 500 ILE A 373 -87.65 -27.37 REMARK 500 ASP A 374 33.43 -153.99 REMARK 500 ARG A 376 -149.28 -73.99 REMARK 500 GLU A 377 139.56 156.20 REMARK 500 REMARK 500 REMARK: NULL REMARK 500 REMARK 500 GEOMETRY AND STEREOCHEMISTRY REMARK 500 SUBTOPIC: PLANAR GROUPS REMARK 500 REMARK 500 PLANAR GROUPS IN THE FOLLOWING RESIDUES HAVE A TOTAL REMARK 500 RMS DISTANCE OF ALL ATOMS FROM THE BEST-FIT PLANE REMARK 500 BY MORE THAN AN EXPECTED VALUE OF 6*RMSD, WITH AN REMARK 500 RMSD 0.02 ANGSTROMS, OR AT LEAST ONE ATOM HAS REMARK 500 AN RMSD GREATER THAN THIS VALUE REMARK 500 (M=MODEL NUMBER; RES=RESIDUE NAME; C=CHAIN IDENTIFIER; REMARK 500 SSEQ=SEQUENCE NUMBER; I=INSERTION CODE). REMARK 500 REMARK 500 M RES CSSEQI RMS TYPE REMARK 500 TYR A 263 0.07 SIDE CHAIN 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 MG A 401 MG REMARK 620 N RES CSSEQI ATOM REMARK 620 1 ASN A 249 OD1 REMARK 620 2 ADP A 601 O2B 94.5 REMARK 620 3 ADP A 601 O1A 99.4 97.0 REMARK 620 4 HOH A2072 O 82.5 163.1 99.9 REMARK 620 5 HOH A2100 O 79.5 84.5 178.2 78.6 REMARK 620 6 HOH A2124 O 169.6 88.4 90.2 91.9 90.8 REMARK 620 N 1 2 3 4 5 REMARK 620 REMARK 620 COORDINATION ANGLES FOR: M RES CSSEQI METAL REMARK 620 K A 402 K REMARK 620 N RES CSSEQI ATOM REMARK 620 1 VAL A 298 O REMARK 620 2 ASP A 300 O 97.6 REMARK 620 3 PHE A 303 O 124.7 98.5 REMARK 620 4 GLY A 337 O 152.4 80.1 82.7 REMARK 620 5 ADP A 601 O2A 87.6 150.3 102.4 82.0 REMARK 620 N 1 2 3 4 REMARK 800 REMARK 800 SITE REMARK 800 SITE_IDENTIFIER: AC1 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE MG A 401 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC2 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE K A 402 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC3 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE CL A 701 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC4 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE CL A 702 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC5 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE XE A 502 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC6 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE ADP A 601 REMARK 900 REMARK 900 RELATED ENTRIES REMARK 900 RELATED ID: 1GJV RELATED DB: PDB REMARK 900 BRANCHED-CHAIN ALPHA-KETOACID DEHYDROGENASE KINASE (BCK) COMPLXED REMARK 900 WITH ATP-GAMMA-S REMARK 900 RELATED ID: 1GKX RELATED DB: PDB REMARK 900 BRANCHED-CHAIN ALPHA-KETOACID DEHYDROGENASE KINASE (BCK) REMARK 999 REMARK 999 SEQUENCE REMARK 999 CRYSTALLIZED VERSION CONTAINS A C-TERMINAL HIS6-TAG DBREF 1GKZ A 1 382 UNP Q00972 BCKD_RAT 31 412 DBREF 1GKZ A 383 388 PDB 1GKZ 1GKZ 383 388 SEQRES 1 A 388 SER THR SER ALA THR ASP THR HIS HIS VAL GLU LEU ALA SEQRES 2 A 388 ARG GLU ARG SER LYS THR VAL THR SER PHE TYR ASN GLN SEQRES 3 A 388 SER ALA ILE ASP VAL VAL ALA GLU LYS PRO SER VAL ARG SEQRES 4 A 388 LEU THR PRO THR MET MET LEU TYR SER GLY ARG SER GLN SEQRES 5 A 388 ASP GLY SER HIS LEU LEU LYS SER GLY ARG TYR LEU GLN SEQRES 6 A 388 GLN GLU LEU PRO VAL ARG ILE ALA HIS ARG ILE LYS GLY SEQRES 7 A 388 PHE ARG SER LEU PRO PHE ILE ILE GLY CYS ASN PRO THR SEQRES 8 A 388 ILE LEU HIS VAL HIS GLU LEU TYR ILE ARG ALA PHE GLN SEQRES 9 A 388 LYS LEU THR ASP PHE PRO PRO ILE LYS ASP GLN ALA ASP SEQRES 10 A 388 GLU ALA GLN TYR CYS GLN LEU VAL ARG GLN LEU LEU ASP SEQRES 11 A 388 ASP HIS LYS ASP VAL VAL THR LEU LEU ALA GLU GLY LEU SEQRES 12 A 388 ARG GLU SER ARG LYS HIS ILE GLU ASP GLU LYS LEU VAL SEQRES 13 A 388 ARG TYR PHE LEU ASP LYS THR LEU THR SER ARG LEU GLY SEQRES 14 A 388 ILE ARG MET LEU ALA THR HIS HIS LEU ALA LEU HIS GLU SEQRES 15 A 388 ASP LYS PRO ASP PHE VAL GLY ILE ILE CYS THR ARG LEU SEQRES 16 A 388 SER PRO LYS LYS ILE ILE GLU LYS TRP VAL ASP PHE ALA SEQRES 17 A 388 ARG ARG LEU CYS GLU HIS LYS TYR GLY ASN ALA PRO ARG SEQRES 18 A 388 VAL ARG ILE ASN GLY HIS VAL ALA ALA ARG PHE PRO PHE SEQRES 19 A 388 ILE PRO MET PRO LEU ASP TYR ILE LEU PRO GLU LEU LEU SEQRES 20 A 388 LYS ASN ALA MET ARG ALA THR MET GLU SER HIS LEU ASP SEQRES 21 A 388 THR PRO TYR ASN VAL PRO ASP VAL VAL ILE THR ILE ALA SEQRES 22 A 388 ASN ASN ASP VAL ASP LEU ILE ILE ARG ILE SER ASP ARG SEQRES 23 A 388 GLY GLY GLY ILE ALA HIS LYS ASP LEU ASP ARG VAL MET SEQRES 24 A 388 ASP TYR HIS PHE THR THR ALA GLU ALA SER THR GLN ASP SEQRES 25 A 388 PRO ARG ILE SER PRO LEU PHE GLY HIS LEU ASP MET HIS SEQRES 26 A 388 SER GLY GLY GLN SER GLY PRO MET HIS GLY PHE GLY PHE SEQRES 27 A 388 GLY LEU PRO THR SER ARG ALA TYR ALA GLU TYR LEU GLY SEQRES 28 A 388 GLY SER LEU GLN LEU GLN SER LEU GLN GLY ILE GLY THR SEQRES 29 A 388 ASP VAL TYR LEU ARG LEU ARG HIS ILE ASP GLY ARG GLU SEQRES 30 A 388 GLU SER PHE ARG ILE HIS HIS HIS HIS HIS HIS HET MG A 401 1 HET K A 402 1 HET XE A 501 1 HET XE A 502 1 HET ADP A 601 27 HET CL A 701 1 HET CL A 702 1 HET CL A 703 1 HETNAM MG MAGNESIUM ION HETNAM K POTASSIUM ION HETNAM XE XENON HETNAM ADP ADENOSINE-5'-DIPHOSPHATE HETNAM CL CHLORIDE ION FORMUL 2 MG MG 2+ FORMUL 3 K K 1+ FORMUL 4 XE 2(XE) FORMUL 6 ADP C10 H15 N5 O10 P2 FORMUL 7 CL 3(CL 1-) FORMUL 10 HOH *125(H2 O) HELIX 1 1 SER A 55 SER A 81 1 27 HELIX 2 2 PRO A 83 CYS A 88 1 6 HELIX 3 3 ASN A 89 PHE A 109 1 21 HELIX 4 4 ASP A 114 HIS A 132 1 19 HELIX 5 5 ASP A 134 SER A 146 1 13 HELIX 6 6 LYS A 154 LEU A 180 1 27 HELIX 7 7 SER A 196 GLY A 217 1 22 HELIX 8 8 PRO A 236 SER A 257 1 22 HELIX 9 9 PHE A 338 LEU A 350 1 13 SHEET 1 AA 2 ARG A 39 LEU A 40 0 SHEET 2 AA 2 MET A 45 LEU A 46 -1 O LEU A 46 N ARG A 39 SHEET 1 AB 3 PHE A 187 VAL A 188 0 SHEET 2 AB 3 ILE A 191 LEU A 195 -1 O ILE A 191 N VAL A 188 SHEET 3 AB 3 PHE A 232 PHE A 234 -1 O PHE A 232 N LEU A 195 SHEET 1 AC 5 VAL A 222 GLY A 226 0 SHEET 2 AC 5 VAL A 268 ASN A 274 1 O VAL A 268 N ARG A 223 SHEET 3 AC 5 ASP A 278 SER A 284 -1 O ILE A 280 N ALA A 273 SHEET 4 AC 5 GLY A 363 ARG A 371 -1 O VAL A 366 N ILE A 283 SHEET 5 AC 5 SER A 353 LEU A 359 -1 O SER A 353 N ARG A 369 LINK OD1 ASN A 249 MG MG A 401 1555 1555 2.33 LINK O VAL A 298 K K A 402 1555 1555 2.92 LINK O ASP A 300 K K A 402 1555 1555 2.77 LINK O PHE A 303 K K A 402 1555 1555 2.81 LINK O GLY A 337 K K A 402 1555 1555 2.93 LINK MG MG A 401 O2B ADP A 601 1555 1555 2.15 LINK MG MG A 401 O1A ADP A 601 1555 1555 1.95 LINK MG MG A 401 O HOH A2072 1555 1555 2.14 LINK MG MG A 401 O HOH A2100 1555 1555 2.25 LINK MG MG A 401 O HOH A2124 1555 1555 2.35 LINK K K A 402 O2A ADP A 601 1555 1555 2.81 SITE 1 AC1 6 ASN A 249 HIS A 334 ADP A 601 HOH A2072 SITE 2 AC1 6 HOH A2100 HOH A2124 SITE 1 AC2 6 VAL A 298 ASP A 300 PHE A 303 GLY A 337 SITE 2 AC2 6 PRO A 341 ADP A 601 SITE 1 AC3 1 ILE A 235 SITE 1 AC4 1 HOH A2009 SITE 1 AC5 1 HIS A 132 SITE 1 AC6 24 ASN A 249 ARG A 252 ALA A 253 ASP A 285 SITE 2 AC6 24 GLY A 289 ILE A 290 VAL A 298 THR A 304 SITE 3 AC6 24 THR A 305 HIS A 334 PHE A 336 GLY A 337 SITE 4 AC6 24 GLY A 339 LEU A 340 PRO A 341 THR A 364 SITE 5 AC6 24 MG A 401 K A 402 HOH A2091 HOH A2100 SITE 6 AC6 24 HOH A2122 HOH A2123 HOH A2124 HOH A2125 CRYST1 128.917 128.917 74.105 90.00 90.00 90.00 P 42 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 0.007757 0.000000 0.000000 0.00000 SCALE2 0.000000 0.007757 0.000000 0.00000 SCALE3 0.000000 0.000000 0.013494 0.00000