HEADER KINASE (GLYCOGEN METABOLISM) 24-AUG-99 1QL6 TITLE THE CATALYTIC MECHANISM OF PHOSPHORYLASE KINASE PROBED BY MUTATIONAL TITLE 2 STUDIES COMPND MOL_ID: 1; COMPND 2 MOLECULE: PHOSPHORYLASE KINASE; COMPND 3 CHAIN: A; COMPND 4 FRAGMENT: GAMMA SUBUNIT, TRUNCATED TO RESIDUES 1 - 298; COMPND 5 SYNONYM: RABBIT MUSCLE PHOSPHORYLASE KINASE; COMPND 6 EC: 2.7.1.38; COMPND 7 ENGINEERED: YES; COMPND 8 MUTATION: YES; COMPND 9 OTHER_DETAILS: LIGANDS ATP AND MN(II) SOURCE MOL_ID: 1; SOURCE 2 ORGANISM_SCIENTIFIC: ORYCTOLAGUS CUNICULUS; SOURCE 3 ORGANISM_COMMON: RABBIT; SOURCE 4 ORGANISM_TAXID: 9986; SOURCE 5 TISSUE: SKELETAL MUSCLE; SOURCE 6 EXPRESSION_SYSTEM: ESCHERICHIA COLI; SOURCE 7 EXPRESSION_SYSTEM_TAXID: 562; SOURCE 8 EXPRESSION_SYSTEM_PLASMID: PMW172 KEYWDS KINASE (GLYCOGEN METABOLISM), GLYCOGEN METABOLISM, TRANSFERASE, KEYWDS 2 SERINE/THREONINE-PROTEIN, KINASE, ATP-BINDING, CALMODULIN-BINDING EXPDTA X-RAY DIFFRACTION AUTHOR V.T.SKAMNAKI,D.J.OWEN,M.E.M.NOBLE,E.D.LOWE,N.G.OIKONOMAKOS, AUTHOR 2 L.N.JOHNSON REVDAT 4 13-DEC-23 1QL6 1 LINK REVDAT 3 12-JUL-17 1QL6 1 REVDAT 2 24-FEB-09 1QL6 1 VERSN REVDAT 1 14-DEC-99 1QL6 0 JRNL AUTH V.T.SKAMNAKI,D.J.OWEN,M.E.NOBLE,E.D.LOWE,G.LOWE, JRNL AUTH 2 N.G.OIKONOMAKOS,L.N.JOHNSON JRNL TITL CATALYTIC MECHANISM OF PHOSPHORYLASE KINASE PROBED BY JRNL TITL 2 MUTATIONAL STUDIES. JRNL REF BIOCHEMISTRY V. 38 14718 1999 JRNL REFN ISSN 0006-2960 JRNL PMID 10545198 JRNL DOI 10.1021/BI991454F REMARK 1 REMARK 1 REFERENCE 1 REMARK 1 AUTH E.D.LOWE,M.E.M.NOBLE,V.T.SKAMNAKI,N.G.OIKONOMAKOS,D.J.OWEN, REMARK 1 AUTH 2 L.N.JOHNSON REMARK 1 TITL THE CRYSTAL STRUCTURE OF A PHOSPHORYLASE KINASE PEPTIDE REMARK 1 TITL 2 SUBSTRATE COMPLEX: KINASE SUBSTRATE RECOGNITION REMARK 1 REF EMBO J. V. 16 6646 1997 REMARK 1 REFN ISSN 0261-4189 REMARK 1 PMID 9362479 REMARK 1 DOI 10.1093/EMBOJ/16.22.6646 REMARK 2 REMARK 2 RESOLUTION. 2.40 ANGSTROMS. REMARK 3 REMARK 3 REFINEMENT. REMARK 3 PROGRAM : REFMAC REMARK 3 AUTHORS : MURSHUDOV,SKUBAK,LEBEDEV,PANNU,STEINER, REMARK 3 : NICHOLLS,WINN,LONG,VAGIN REMARK 3 REMARK 3 DATA USED IN REFINEMENT. REMARK 3 RESOLUTION RANGE HIGH (ANGSTROMS) : 2.40 REMARK 3 RESOLUTION RANGE LOW (ANGSTROMS) : 20.00 REMARK 3 DATA CUTOFF (SIGMA(F)) : 2.000 REMARK 3 COMPLETENESS FOR RANGE (%) : 86.6 REMARK 3 NUMBER OF REFLECTIONS : 12745 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) : NULL REMARK 3 R VALUE (WORKING SET) : 0.240 REMARK 3 FREE R VALUE : 0.330 REMARK 3 FREE R VALUE TEST SET SIZE (%) : 5.000 REMARK 3 FREE R VALUE TEST SET COUNT : NULL REMARK 3 REMARK 3 NUMBER OF NON-HYDROGEN ATOMS USED IN REFINEMENT. REMARK 3 PROTEIN ATOMS : 2270 REMARK 3 NUCLEIC ACID ATOMS : 0 REMARK 3 HETEROGEN ATOMS : 38 REMARK 3 SOLVENT ATOMS : 104 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) : NULL REMARK 3 B22 (A**2) : NULL REMARK 3 B33 (A**2) : NULL REMARK 3 B12 (A**2) : NULL REMARK 3 B13 (A**2) : NULL REMARK 3 B23 (A**2) : NULL REMARK 3 REMARK 3 ESTIMATED OVERALL COORDINATE ERROR. REMARK 3 ESU BASED ON R VALUE (A): NULL REMARK 3 ESU BASED ON FREE R VALUE (A): NULL REMARK 3 ESU BASED ON MAXIMUM LIKELIHOOD (A): NULL REMARK 3 ESU FOR B VALUES BASED ON MAXIMUM LIKELIHOOD (A**2): NULL REMARK 3 REMARK 3 RMS DEVIATIONS FROM IDEAL VALUES. REMARK 3 DISTANCE RESTRAINTS. RMS SIGMA REMARK 3 BOND LENGTH (A) : 0.013 ; 0.020 REMARK 3 ANGLE DISTANCE (A) : 0.042 ; 0.040 REMARK 3 INTRAPLANAR 1-4 DISTANCE (A) : 0.043 ; 0.050 REMARK 3 H-BOND OR METAL COORDINATION (A) : NULL ; NULL REMARK 3 REMARK 3 PLANE RESTRAINT (A) : NULL ; NULL REMARK 3 CHIRAL-CENTER RESTRAINT (A**3) : NULL ; NULL REMARK 3 REMARK 3 NON-BONDED CONTACT RESTRAINTS. REMARK 3 SINGLE TORSION (A) : NULL ; NULL REMARK 3 MULTIPLE TORSION (A) : NULL ; NULL REMARK 3 H-BOND (X...Y) (A) : NULL ; NULL REMARK 3 H-BOND (X-H...Y) (A) : NULL ; NULL REMARK 3 REMARK 3 CONFORMATIONAL TORSION ANGLE RESTRAINTS. REMARK 3 SPECIFIED (DEGREES) : NULL ; NULL REMARK 3 PLANAR (DEGREES) : NULL ; NULL REMARK 3 STAGGERED (DEGREES) : NULL ; NULL REMARK 3 TRANSVERSE (DEGREES) : NULL ; NULL REMARK 3 REMARK 3 ISOTROPIC THERMAL FACTOR RESTRAINTS. RMS SIGMA REMARK 3 MAIN-CHAIN BOND (A**2) : 2.410 ; 2.000 REMARK 3 MAIN-CHAIN ANGLE (A**2) : 3.911 ; 3.000 REMARK 3 SIDE-CHAIN BOND (A**2) : 4.309 ; 2.000 REMARK 3 SIDE-CHAIN ANGLE (A**2) : 4.790 ; 3.000 REMARK 3 REMARK 3 OTHER REFINEMENT REMARKS: NULL REMARK 4 REMARK 4 1QL6 COMPLIES WITH FORMAT V. 3.30, 13-JUL-11 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY PDBE ON 24-AUG-99. REMARK 100 THE DEPOSITION ID IS D_1290004039. REMARK 200 REMARK 200 EXPERIMENTAL DETAILS REMARK 200 EXPERIMENT TYPE : X-RAY DIFFRACTION REMARK 200 DATE OF DATA COLLECTION : 07-NOV-95 REMARK 200 TEMPERATURE (KELVIN) : 100.0 REMARK 200 PH : 6.90 REMARK 200 NUMBER OF CRYSTALS USED : 1 REMARK 200 REMARK 200 SYNCHROTRON (Y/N) : Y REMARK 200 RADIATION SOURCE : ESRF REMARK 200 BEAMLINE : NULL REMARK 200 X-RAY GENERATOR MODEL : NULL REMARK 200 MONOCHROMATIC OR LAUE (M/L) : M REMARK 200 WAVELENGTH OR RANGE (A) : 0.993 REMARK 200 MONOCHROMATOR : NULL REMARK 200 OPTICS : NULL REMARK 200 REMARK 200 DETECTOR TYPE : IMAGE PLATE REMARK 200 DETECTOR MANUFACTURER : MARRESEARCH REMARK 200 INTENSITY-INTEGRATION SOFTWARE : MOSFLM REMARK 200 DATA SCALING SOFTWARE : SCALA REMARK 200 REMARK 200 NUMBER OF UNIQUE REFLECTIONS : 12745 REMARK 200 RESOLUTION RANGE HIGH (A) : 2.400 REMARK 200 RESOLUTION RANGE LOW (A) : 20.000 REMARK 200 REJECTION CRITERIA (SIGMA(I)) : 2.000 REMARK 200 REMARK 200 OVERALL. REMARK 200 COMPLETENESS FOR RANGE (%) : 86.6 REMARK 200 DATA REDUNDANCY : 3.200 REMARK 200 R MERGE (I) : 0.06400 REMARK 200 R SYM (I) : 0.04800 REMARK 200 FOR THE DATA SET : 10.1000 REMARK 200 REMARK 200 IN THE HIGHEST RESOLUTION SHELL. REMARK 200 HIGHEST RESOLUTION SHELL, RANGE HIGH (A) : NULL REMARK 200 HIGHEST RESOLUTION SHELL, RANGE LOW (A) : NULL REMARK 200 COMPLETENESS FOR SHELL (%) : NULL REMARK 200 DATA REDUNDANCY IN SHELL : NULL REMARK 200 R MERGE FOR SHELL (I) : NULL REMARK 200 R SYM FOR SHELL (I) : NULL REMARK 200 FOR SHELL : NULL REMARK 200 REMARK 200 DIFFRACTION PROTOCOL: SINGLE WAVELENGTH REMARK 200 METHOD USED TO DETERMINE THE STRUCTURE: MOLECULAR REPLACEMENT REMARK 200 SOFTWARE USED: AMORE REMARK 200 STARTING MODEL: PDB ENTRY 2PHK REMARK 200 REMARK 200 REMARK: NULL REMARK 280 REMARK 280 CRYSTAL REMARK 280 SOLVENT CONTENT, VS (%): 50.00 REMARK 280 MATTHEWS COEFFICIENT, VM (ANGSTROMS**3/DA): 2.66 REMARK 280 REMARK 280 CRYSTALLIZATION CONDITIONS: PH 6.90 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 23.78000 REMARK 290 SMTRY2 2 0.000000 -1.000000 0.000000 0.00000 REMARK 290 SMTRY3 2 0.000000 0.000000 1.000000 56.23750 REMARK 290 SMTRY1 3 -1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY2 3 0.000000 1.000000 0.000000 34.08550 REMARK 290 SMTRY3 3 0.000000 0.000000 -1.000000 56.23750 REMARK 290 SMTRY1 4 1.000000 0.000000 0.000000 23.78000 REMARK 290 SMTRY2 4 0.000000 -1.000000 0.000000 34.08550 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 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 THR A 1 REMARK 465 ARG A 2 REMARK 465 ASP A 3 REMARK 465 ALA A 4 REMARK 465 ALA A 5 REMARK 465 LEU A 6 REMARK 465 PRO A 7 REMARK 465 GLY A 8 REMARK 465 SER A 9 REMARK 465 HIS A 10 REMARK 465 VAL A 292 REMARK 465 GLU A 293 REMARK 465 GLU A 294 REMARK 465 VAL A 295 REMARK 465 ARG A 296 REMARK 465 HIS A 297 REMARK 465 PHE A 298 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 TYR A 16 CB - CG - CD2 ANGL. DEV. = 4.3 DEGREES REMARK 500 GLU A 23 OE1 - CD - OE2 ANGL. DEV. = -8.2 DEGREES REMARK 500 ARG A 27 NE - CZ - NH2 ANGL. DEV. = 4.2 DEGREES REMARK 500 ARG A 34 NE - CZ - NH1 ANGL. DEV. = 4.2 DEGREES REMARK 500 ARG A 34 NE - CZ - NH2 ANGL. DEV. = -9.4 DEGREES REMARK 500 ARG A 35 NH1 - CZ - NH2 ANGL. DEV. = 7.7 DEGREES REMARK 500 ARG A 35 NE - CZ - NH1 ANGL. DEV. = -5.3 DEGREES REMARK 500 GLU A 44 OE1 - CD - OE2 ANGL. DEV. = -8.2 DEGREES REMARK 500 SER A 59 N - CA - CB ANGL. DEV. = 9.1 DEGREES REMARK 500 THR A 92 N - CA - CB ANGL. DEV. = 11.5 DEGREES REMARK 500 TYR A 93 CB - CG - CD1 ANGL. DEV. = -4.2 DEGREES REMARK 500 TYR A 114 CB - CG - CD1 ANGL. DEV. = 3.7 DEGREES REMARK 500 ARG A 127 NH1 - CZ - NH2 ANGL. DEV. = 9.2 DEGREES REMARK 500 ARG A 127 NE - CZ - NH1 ANGL. DEV. = -7.0 DEGREES REMARK 500 ARG A 148 NE - CZ - NH2 ANGL. DEV. = -3.8 DEGREES REMARK 500 ASP A 158 CB - CG - OD2 ANGL. DEV. = 5.7 DEGREES REMARK 500 ASP A 167 CB - CG - OD1 ANGL. DEV. = 7.1 DEGREES REMARK 500 ASP A 175 CB - CG - OD1 ANGL. DEV. = 11.2 DEGREES REMARK 500 GLU A 178 OE1 - CD - OE2 ANGL. DEV. = -10.1 DEGREES REMARK 500 GLY A 249 N - CA - C ANGL. DEV. = 15.9 DEGREES REMARK 500 VAL A 260 CB - CA - C ANGL. DEV. = -14.9 DEGREES REMARK 500 ARG A 266 NE - CZ - NH2 ANGL. DEV. = -4.2 DEGREES REMARK 500 ARG A 275 CD - NE - CZ ANGL. DEV. = 14.8 DEGREES REMARK 500 ARG A 275 NE - CZ - NH1 ANGL. DEV. = 4.8 DEGREES REMARK 500 ARG A 275 NE - CZ - NH2 ANGL. DEV. = -3.4 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 LYS A 22 -131.60 -119.48 REMARK 500 SER A 57 24.30 -146.59 REMARK 500 SER A 59 124.04 128.97 REMARK 500 SER A 81 156.03 -48.57 REMARK 500 VAL A 119 -59.86 75.22 REMARK 500 ASP A 149 32.86 -140.81 REMARK 500 ASP A 167 74.77 53.21 REMARK 500 ARG A 181 -32.61 -132.49 REMARK 500 ASN A 200 111.46 -161.79 REMARK 500 SER A 250 -129.84 29.12 REMARK 500 LEU A 268 46.97 -86.74 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 MN A 303 MN REMARK 620 N RES CSSEQI ATOM REMARK 620 1 ASN A 154 OD1 REMARK 620 2 ASP A 167 OD2 84.2 REMARK 620 3 ATP A 301 O2G 120.3 94.4 REMARK 620 4 ATP A 301 O3B 176.9 94.9 62.7 REMARK 620 5 ATP A 301 O2A 98.4 85.1 141.1 78.6 REMARK 620 6 HOH A 402 O 87.0 168.0 97.1 93.5 88.2 REMARK 620 N 1 2 3 4 5 REMARK 620 REMARK 620 COORDINATION ANGLES FOR: M RES CSSEQI METAL REMARK 620 MN A 302 MN REMARK 620 N RES CSSEQI ATOM REMARK 620 1 ASP A 167 OD1 REMARK 620 2 ASP A 167 OD2 55.6 REMARK 620 3 ATP A 301 O3G 144.0 94.6 REMARK 620 4 ATP A 301 O2B 79.9 90.2 80.7 REMARK 620 5 HOH A 467 O 111.7 167.1 96.5 85.1 REMARK 620 N 1 2 3 4 REMARK 650 REMARK 650 HELIX REMARK 650 DETERMINATION METHOD: AUTHOR PROVIDED. REMARK 700 REMARK 700 SHEET REMARK 700 DETERMINATION METHOD: AUTHOR PROVIDED. REMARK 800 REMARK 800 SITE REMARK 800 SITE_IDENTIFIER: AC1 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE MN B 382 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC2 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE MN B 383 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC3 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE SO4 C 401 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC4 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE ATP B 381 REMARK 900 REMARK 900 RELATED ENTRIES REMARK 900 RELATED ID: 1PHK RELATED DB: PDB REMARK 900 TWO STRUCTURES OF THE CATALYTIC DOMAIN OF PHOSPHORYLASE, KINASE: AN REMARK 900 ACTIVE PROTEIN KINASE COMPLEXED WITH NUCLEOTIDE, SUBSTRATE-ANALOGUE REMARK 900 AND PRODUCT REMARK 900 RELATED ID: 2PHK RELATED DB: PDB REMARK 900 THE CRYSTAL STRUCTURE OF A PHOSPHORYLASE KINASE PEPTIDE SUBSTRATE REMARK 900 COMPLEX: KINASE SUBSTRATE RECOGNITION DBREF 1QL6 A 1 298 UNP P00518 KPBG_RABIT 1 298 SEQADV 1QL6 SER A 182 UNP P00518 GLU 182 ENGINEERED MUTATION SEQRES 1 A 298 THR ARG ASP ALA ALA LEU PRO GLY SER HIS SER THR HIS SEQRES 2 A 298 GLY PHE TYR GLU ASN TYR GLU PRO LYS GLU ILE LEU GLY SEQRES 3 A 298 ARG GLY VAL SER SER VAL VAL ARG ARG CYS ILE HIS LYS SEQRES 4 A 298 PRO THR CYS LYS GLU TYR ALA VAL LYS ILE ILE ASP VAL SEQRES 5 A 298 THR GLY GLY GLY SER PHE SER ALA GLU GLU VAL GLN GLU SEQRES 6 A 298 LEU ARG GLU ALA THR LEU LYS GLU VAL ASP ILE LEU ARG SEQRES 7 A 298 LYS VAL SER GLY HIS PRO ASN ILE ILE GLN LEU LYS ASP SEQRES 8 A 298 THR TYR GLU THR ASN THR PHE PHE PHE LEU VAL PHE ASP SEQRES 9 A 298 LEU MET LYS LYS GLY GLU LEU PHE ASP TYR LEU THR GLU SEQRES 10 A 298 LYS VAL THR LEU SER GLU LYS GLU THR ARG LYS ILE MET SEQRES 11 A 298 ARG ALA LEU LEU GLU VAL ILE CYS ALA LEU HIS LYS LEU SEQRES 12 A 298 ASN ILE VAL HIS ARG ASP LEU LYS PRO GLU ASN ILE LEU SEQRES 13 A 298 LEU ASP ASP ASP MET ASN ILE LYS LEU THR ASP PHE GLY SEQRES 14 A 298 PHE SER CYS GLN LEU ASP PRO GLY GLU LYS LEU ARG SER SEQRES 15 A 298 VAL CYS GLY THR PRO SER TYR LEU ALA PRO GLU ILE ILE SEQRES 16 A 298 GLU CYS SER MET ASN ASP ASN HIS PRO GLY TYR GLY LYS SEQRES 17 A 298 GLU VAL ASP MET TRP SER THR GLY VAL ILE MET TYR THR SEQRES 18 A 298 LEU LEU ALA GLY SER PRO PRO PHE TRP HIS ARG LYS GLN SEQRES 19 A 298 MET LEU MET LEU ARG MET ILE MET SER GLY ASN TYR GLN SEQRES 20 A 298 PHE GLY SER PRO GLU TRP ASP ASP TYR SER ASP THR VAL SEQRES 21 A 298 LYS ASP LEU VAL SER ARG PHE LEU VAL VAL GLN PRO GLN SEQRES 22 A 298 LYS ARG TYR THR ALA GLU GLU ALA LEU ALA HIS PRO PHE SEQRES 23 A 298 PHE GLN GLN TYR VAL VAL GLU GLU VAL ARG HIS PHE HET ATP A 301 31 HET MN A 302 1 HET MN A 303 1 HET SO4 A 304 5 HETNAM ATP ADENOSINE-5'-TRIPHOSPHATE HETNAM MN MANGANESE (II) ION HETNAM SO4 SULFATE ION FORMUL 2 ATP C10 H16 N5 O13 P3 FORMUL 3 MN 2(MN 2+) FORMUL 5 SO4 O4 S 2- FORMUL 6 HOH *104(H2 O) HELIX 1 1 SER A 11 ASN A 18 1 8 HELIX 2 2 ALA A 60 VAL A 80 1 21 HELIX 3 3 LEU A 111 LYS A 118 1 8 HELIX 4 4 GLU A 123 LYS A 142 1 20 HELIX 5 5 PRO A 152 ASN A 154 5 3 HELIX 6 6 PRO A 187 TYR A 189 5 3 HELIX 7 7 PRO A 192 MET A 199 1 8 HELIX 8 8 LYS A 208 ALA A 224 1 17 HELIX 9 9 GLN A 234 SER A 243 1 10 HELIX 10 10 TRP A 253 ASP A 255 5 3 HELIX 11 11 ASP A 258 PHE A 267 1 10 HELIX 12 12 PRO A 272 LYS A 274 5 3 HELIX 13 13 ALA A 278 ALA A 283 1 6 HELIX 14 14 PRO A 285 PHE A 287 5 3 SHEET 1 A 5 TYR A 19 PRO A 21 0 SHEET 2 A 5 SER A 31 HIS A 38 -1 N ILE A 37 O GLU A 20 SHEET 3 A 5 LYS A 43 ASP A 51 -1 N ILE A 49 O VAL A 32 SHEET 4 A 5 PHE A 98 ASP A 104 -1 N PHE A 103 O ALA A 46 SHEET 5 A 5 LEU A 89 GLU A 94 -1 N TYR A 93 O PHE A 100 SHEET 1 B 2 ILE A 155 LEU A 157 0 SHEET 2 B 2 ILE A 163 LEU A 165 -1 N LYS A 164 O LEU A 156 SHEET 1 C 2 ILE A 24 ARG A 27 0 SHEET 2 C 2 VAL A 32 ARG A 34 -1 N VAL A 33 O LEU A 25 LINK OD1 ASN A 154 MN MN A 303 1555 1555 2.25 LINK OD1 ASP A 167 MN MN A 302 1555 1555 2.19 LINK OD2 ASP A 167 MN MN A 302 1555 1555 2.43 LINK OD2 ASP A 167 MN MN A 303 1555 1555 2.20 LINK O3G ATP A 301 MN MN A 302 1555 1555 2.20 LINK O2B ATP A 301 MN MN A 302 1555 1555 2.29 LINK O2G ATP A 301 MN MN A 303 1555 1555 2.00 LINK O3B ATP A 301 MN MN A 303 1555 1555 2.64 LINK O2A ATP A 301 MN MN A 303 1555 1555 2.13 LINK MN MN A 302 O HOH A 467 1555 1555 2.30 LINK MN MN A 303 O HOH A 402 1555 1555 2.41 SITE 1 AC1 3 ASP A 167 ATP A 301 HOH A 467 SITE 1 AC2 4 ASN A 154 ASP A 167 ATP A 301 HOH A 402 SITE 1 AC3 5 LYS A 72 ARG A 148 LEU A 180 HOH A 448 SITE 2 AC3 5 HOH A 415 SITE 1 AC4 20 LEU A 25 GLY A 26 GLY A 28 SER A 31 SITE 2 AC4 20 VAL A 33 ALA A 46 LYS A 48 ASP A 104 SITE 3 AC4 20 MET A 106 GLU A 110 LYS A 124 GLU A 153 SITE 4 AC4 20 ASN A 154 LEU A 156 ASP A 167 MN A 302 SITE 5 AC4 20 MN A 303 HOH A 447 HOH A 422 HOH A 402 CRYST1 47.560 68.171 112.475 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 0.021026 0.000000 0.000000 0.00000 SCALE2 0.000000 0.014669 0.000000 0.00000 SCALE3 0.000000 0.000000 0.008891 0.00000