HEADER TRANSFERASE 14-APR-20 6YNT TITLE CRYSTAL STRUCTURE OF THE CAMP-DEPENDENT PROTEIN KINASE A IN COMPLEX TITLE 2 WITH AMINOFASUDIL AND PKI (5-24) COMPND MOL_ID: 1; COMPND 2 MOLECULE: CAMP-DEPENDENT PROTEIN KINASE CATALYTIC SUBUNIT ALPHA; COMPND 3 CHAIN: A; COMPND 4 SYNONYM: PKA C-ALPHA; COMPND 5 EC: 2.7.11.11; COMPND 6 ENGINEERED: YES; COMPND 7 MOL_ID: 2; COMPND 8 MOLECULE: CAMP-DEPENDENT PROTEIN KINASE INHIBITOR ALPHA; COMPND 9 CHAIN: B; COMPND 10 SYNONYM: PKI-ALPHA,CAMP-DEPENDENT PROTEIN KINASE INHIBITOR, COMPND 11 MUSCLE/BRAIN ISOFORM; COMPND 12 ENGINEERED: YES SOURCE MOL_ID: 1; SOURCE 2 ORGANISM_SCIENTIFIC: CRICETULUS GRISEUS; SOURCE 3 ORGANISM_COMMON: CHINESE HAMSTER; SOURCE 4 ORGANISM_TAXID: 10029; SOURCE 5 GENE: PRKACA; SOURCE 6 EXPRESSION_SYSTEM: ESCHERICHIA COLI BL21(DE3); SOURCE 7 EXPRESSION_SYSTEM_TAXID: 469008; SOURCE 8 MOL_ID: 2; SOURCE 9 SYNTHETIC: YES; SOURCE 10 ORGANISM_SCIENTIFIC: MUS MUSCULUS; SOURCE 11 ORGANISM_COMMON: HOUSE MOUSE; SOURCE 12 ORGANISM_TAXID: 10090 KEYWDS PHOSPHOTRANSFERASE, SIGNALLING PATHWAYS, GLYCOGEN METABOLISM, KEYWDS 2 SERINE/THREONINE KINASE, TRANSFERASE EXPDTA X-RAY DIFFRACTION AUTHOR M.OEBBEKE,H.-D.GERBER,A.HEINE,G.KLEBE REVDAT 4 24-JAN-24 6YNT 1 REMARK REVDAT 3 20-JAN-21 6YNT 1 JRNL REVDAT 2 21-OCT-20 6YNT 1 JRNL REVDAT 1 14-OCT-20 6YNT 0 JRNL AUTH B.WIENEN-SCHMIDT,M.OEBBEKE,K.NGO,A.HEINE,G.KLEBE JRNL TITL TWO METHODS, ONE GOAL: STRUCTURAL DIFFERENCES BETWEEN JRNL TITL 2 COCRYSTALLIZATION AND CRYSTAL SOAKING TO DISCOVER LIGAND JRNL TITL 3 BINDING POSES. JRNL REF CHEMMEDCHEM V. 16 292 2021 JRNL REFN ESSN 1860-7187 JRNL PMID 33029876 JRNL DOI 10.1002/CMDC.202000565 REMARK 2 REMARK 2 RESOLUTION. 1.52 ANGSTROMS. REMARK 3 REMARK 3 REFINEMENT. REMARK 3 PROGRAM : PHENIX 1.17.1_3660 REMARK 3 AUTHORS : PAUL ADAMS,PAVEL AFONINE,VINCENT CHEN,IAN REMARK 3 : DAVIS,KRESHNA GOPAL,RALF GROSSE-KUNSTLEVE, REMARK 3 : LI-WEI HUNG,ROBERT IMMORMINO,TOM IOERGER, REMARK 3 : AIRLIE MCCOY,ERIK MCKEE,NIGEL MORIARTY, REMARK 3 : REETAL PAI,RANDY READ,JANE RICHARDSON, REMARK 3 : DAVID RICHARDSON,TOD ROMO,JIM SACCHETTINI, REMARK 3 : NICHOLAS SAUTER,JACOB SMITH,LAURENT REMARK 3 : STORONI,TOM TERWILLIGER,PETER ZWART REMARK 3 REMARK 3 REFINEMENT TARGET : NULL REMARK 3 REMARK 3 DATA USED IN REFINEMENT. REMARK 3 RESOLUTION RANGE HIGH (ANGSTROMS) : 1.52 REMARK 3 RESOLUTION RANGE LOW (ANGSTROMS) : 43.63 REMARK 3 MIN(FOBS/SIGMA_FOBS) : 1.370 REMARK 3 COMPLETENESS FOR RANGE (%) : 99.6 REMARK 3 NUMBER OF REFLECTIONS : 67315 REMARK 3 REMARK 3 FIT TO DATA USED IN REFINEMENT. REMARK 3 R VALUE (WORKING + TEST SET) : 0.171 REMARK 3 R VALUE (WORKING SET) : 0.169 REMARK 3 FREE R VALUE : 0.191 REMARK 3 FREE R VALUE TEST SET SIZE (%) : 5.000 REMARK 3 FREE R VALUE TEST SET COUNT : 3366 REMARK 3 REMARK 3 FIT TO DATA USED IN REFINEMENT (IN BINS). REMARK 3 BIN RESOLUTION RANGE COMPL. NWORK NFREE RWORK RFREE REMARK 3 1 43.6300 - 4.3800 0.99 2843 150 0.1879 0.1852 REMARK 3 2 4.3800 - 3.4800 0.99 2718 143 0.1563 0.1807 REMARK 3 3 3.4800 - 3.0400 0.99 2717 143 0.1753 0.1914 REMARK 3 4 3.0400 - 2.7600 1.00 2690 142 0.1726 0.1860 REMARK 3 5 2.7600 - 2.5600 1.00 2690 141 0.1700 0.2147 REMARK 3 6 2.5600 - 2.4100 0.99 2664 141 0.1608 0.1853 REMARK 3 7 2.4100 - 2.2900 0.99 2676 140 0.1547 0.1850 REMARK 3 8 2.2900 - 2.1900 1.00 2643 139 0.1559 0.2030 REMARK 3 9 2.1900 - 2.1100 1.00 2687 142 0.1587 0.1654 REMARK 3 10 2.1100 - 2.0300 1.00 2662 140 0.1570 0.1652 REMARK 3 11 2.0300 - 1.9700 0.99 2638 139 0.1624 0.1782 REMARK 3 12 1.9700 - 1.9100 0.99 2636 139 0.1625 0.1860 REMARK 3 13 1.9100 - 1.8600 1.00 2657 139 0.1504 0.1874 REMARK 3 14 1.8600 - 1.8200 1.00 2644 140 0.1603 0.2038 REMARK 3 15 1.8200 - 1.7800 1.00 2648 139 0.1613 0.1914 REMARK 3 16 1.7800 - 1.7400 1.00 2649 139 0.1717 0.2115 REMARK 3 17 1.7400 - 1.7000 1.00 2645 140 0.1755 0.2486 REMARK 3 18 1.7000 - 1.6700 1.00 2655 139 0.1868 0.2131 REMARK 3 19 1.6700 - 1.6400 1.00 2614 138 0.1868 0.2170 REMARK 3 20 1.6400 - 1.6100 1.00 2643 139 0.1852 0.2330 REMARK 3 21 1.6100 - 1.5900 1.00 2650 139 0.1982 0.2289 REMARK 3 22 1.5900 - 1.5600 1.00 2635 139 0.1975 0.2000 REMARK 3 23 1.5600 - 1.5400 1.00 2642 139 0.2051 0.2789 REMARK 3 24 1.5400 - 1.5200 0.99 2603 137 0.2078 0.2252 REMARK 3 REMARK 3 BULK SOLVENT MODELLING. REMARK 3 METHOD USED : NULL REMARK 3 SOLVENT RADIUS : 1.11 REMARK 3 SHRINKAGE RADIUS : 0.90 REMARK 3 K_SOL : NULL REMARK 3 B_SOL : NULL REMARK 3 REMARK 3 ERROR ESTIMATES. REMARK 3 COORDINATE ERROR (MAXIMUM-LIKELIHOOD BASED) : 0.131 REMARK 3 PHASE ERROR (DEGREES, MAXIMUM-LIKELIHOOD BASED) : 17.144 REMARK 3 REMARK 3 B VALUES. REMARK 3 FROM WILSON PLOT (A**2) : 20.29 REMARK 3 MEAN B VALUE (OVERALL, A**2) : 26.59 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 TWINNING INFORMATION. REMARK 3 FRACTION: NULL REMARK 3 OPERATOR: NULL REMARK 3 REMARK 3 DEVIATIONS FROM IDEAL VALUES. REMARK 3 RMSD COUNT REMARK 3 BOND : 0.008 3093 REMARK 3 ANGLE : 0.971 4214 REMARK 3 CHIRALITY : 0.056 451 REMARK 3 PLANARITY : 0.007 550 REMARK 3 DIHEDRAL : 21.777 1118 REMARK 3 REMARK 3 TLS DETAILS REMARK 3 NUMBER OF TLS GROUPS : 6 REMARK 3 TLS GROUP : 1 REMARK 3 SELECTION: CHAIN 'A' AND (RESID 5 THROUGH 114 ) REMARK 3 ORIGIN FOR THE GROUP (A): -32.9434 -11.0018 7.3155 REMARK 3 T TENSOR REMARK 3 T11: 0.0941 T22: 0.2074 REMARK 3 T33: 0.1829 T12: -0.0105 REMARK 3 T13: 0.0135 T23: 0.0032 REMARK 3 L TENSOR REMARK 3 L11: 0.7796 L22: 1.2792 REMARK 3 L33: 1.3353 L12: 0.0770 REMARK 3 L13: 0.0916 L23: -0.0480 REMARK 3 S TENSOR REMARK 3 S11: -0.0376 S12: 0.0238 S13: -0.0248 REMARK 3 S21: 0.0392 S22: 0.0531 S23: 0.0976 REMARK 3 S31: -0.0230 S32: -0.1357 S33: -0.0155 REMARK 3 TLS GROUP : 2 REMARK 3 SELECTION: CHAIN 'A' AND (RESID 115 THROUGH 198 ) REMARK 3 ORIGIN FOR THE GROUP (A): -28.6939 0.2384 0.9334 REMARK 3 T TENSOR REMARK 3 T11: 0.1304 T22: 0.1715 REMARK 3 T33: 0.1554 T12: 0.0102 REMARK 3 T13: -0.0054 T23: -0.0050 REMARK 3 L TENSOR REMARK 3 L11: 0.5637 L22: 1.3609 REMARK 3 L33: 1.6069 L12: 0.2482 REMARK 3 L13: -0.1089 L23: -0.9444 REMARK 3 S TENSOR REMARK 3 S11: -0.0335 S12: 0.0522 S13: 0.0165 REMARK 3 S21: 0.0285 S22: 0.0461 S23: 0.0766 REMARK 3 S31: -0.2054 S32: -0.1266 S33: -0.0213 REMARK 3 TLS GROUP : 3 REMARK 3 SELECTION: CHAIN 'A' AND (RESID 199 THROUGH 297 ) REMARK 3 ORIGIN FOR THE GROUP (A): -18.5104 11.9642 1.9773 REMARK 3 T TENSOR REMARK 3 T11: 0.3173 T22: 0.1627 REMARK 3 T33: 0.1800 T12: -0.0721 REMARK 3 T13: -0.0193 T23: 0.0090 REMARK 3 L TENSOR REMARK 3 L11: 1.2033 L22: 1.1480 REMARK 3 L33: 2.1651 L12: 0.0706 REMARK 3 L13: 0.1142 L23: -0.3521 REMARK 3 S TENSOR REMARK 3 S11: 0.0340 S12: -0.0353 S13: 0.2041 REMARK 3 S21: 0.1694 S22: -0.0981 S23: -0.1018 REMARK 3 S31: -0.6268 S32: 0.2432 S33: 0.0391 REMARK 3 TLS GROUP : 4 REMARK 3 SELECTION: CHAIN 'A' AND (RESID 298 THROUGH 350 ) REMARK 3 ORIGIN FOR THE GROUP (A): -32.0801 -9.1568 -2.1191 REMARK 3 T TENSOR REMARK 3 T11: 0.1156 T22: 0.2405 REMARK 3 T33: 0.2031 T12: 0.0180 REMARK 3 T13: 0.0055 T23: 0.0097 REMARK 3 L TENSOR REMARK 3 L11: 0.4022 L22: 0.9498 REMARK 3 L33: 1.5639 L12: 0.6190 REMARK 3 L13: -0.0527 L23: -0.0770 REMARK 3 S TENSOR REMARK 3 S11: -0.0581 S12: 0.1647 S13: -0.0138 REMARK 3 S21: -0.1919 S22: 0.0792 S23: 0.0824 REMARK 3 S31: 0.0033 S32: -0.2280 S33: 0.0154 REMARK 3 TLS GROUP : 5 REMARK 3 SELECTION: CHAIN 'B' AND (RESID 5 THROUGH 12 ) REMARK 3 ORIGIN FOR THE GROUP (A): -13.2129 7.7939 -16.3060 REMARK 3 T TENSOR REMARK 3 T11: 0.1708 T22: 0.2167 REMARK 3 T33: 0.1571 T12: -0.0473 REMARK 3 T13: -0.0061 T23: 0.0014 REMARK 3 L TENSOR REMARK 3 L11: 2.9950 L22: 7.6720 REMARK 3 L33: 5.3691 L12: -2.9278 REMARK 3 L13: 1.0282 L23: -2.0960 REMARK 3 S TENSOR REMARK 3 S11: 0.0033 S12: -0.0780 S13: 0.0268 REMARK 3 S21: 0.0065 S22: -0.1547 S23: 0.2553 REMARK 3 S31: -0.1520 S32: -0.0367 S33: 0.1436 REMARK 3 TLS GROUP : 6 REMARK 3 SELECTION: CHAIN 'B' AND (RESID 13 THROUGH 23 ) REMARK 3 ORIGIN FOR THE GROUP (A): -14.5265 -3.1968 -5.6682 REMARK 3 T TENSOR REMARK 3 T11: 0.1536 T22: 0.1689 REMARK 3 T33: 0.1840 T12: -0.0100 REMARK 3 T13: 0.0267 T23: 0.0118 REMARK 3 L TENSOR REMARK 3 L11: 2.6272 L22: 6.7492 REMARK 3 L33: 8.4789 L12: 1.5863 REMARK 3 L13: -4.4894 L23: -3.2505 REMARK 3 S TENSOR REMARK 3 S11: -0.3026 S12: -0.0131 S13: -0.2686 REMARK 3 S21: -0.0884 S22: -0.1509 S23: -0.1672 REMARK 3 S31: 0.3076 S32: 0.3254 S33: 0.4754 REMARK 3 REMARK 3 NCS DETAILS REMARK 3 NUMBER OF NCS GROUPS : NULL REMARK 3 REMARK 3 OTHER REFINEMENT REMARKS: NULL REMARK 4 REMARK 4 6YNT COMPLIES WITH FORMAT V. 3.30, 13-JUL-11 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY PDBE ON 14-APR-20. REMARK 100 THE DEPOSITION ID IS D_1292107952. REMARK 200 REMARK 200 EXPERIMENTAL DETAILS REMARK 200 EXPERIMENT TYPE : X-RAY DIFFRACTION REMARK 200 DATE OF DATA COLLECTION : 11-JUL-19 REMARK 200 TEMPERATURE (KELVIN) : 100 REMARK 200 PH : 6.9 REMARK 200 NUMBER OF CRYSTALS USED : 1 REMARK 200 REMARK 200 SYNCHROTRON (Y/N) : Y REMARK 200 RADIATION SOURCE : BESSY REMARK 200 BEAMLINE : 14.1 REMARK 200 X-RAY GENERATOR MODEL : NULL REMARK 200 MONOCHROMATIC OR LAUE (M/L) : M REMARK 200 WAVELENGTH OR RANGE (A) : 0.918400 REMARK 200 MONOCHROMATOR : NULL REMARK 200 OPTICS : NULL REMARK 200 REMARK 200 DETECTOR TYPE : PIXEL REMARK 200 DETECTOR MANUFACTURER : DECTRIS PILATUS 6M REMARK 200 INTENSITY-INTEGRATION SOFTWARE : XDS REMARK 200 DATA SCALING SOFTWARE : XDS REMARK 200 REMARK 200 NUMBER OF UNIQUE REFLECTIONS : 67316 REMARK 200 RESOLUTION RANGE HIGH (A) : 1.520 REMARK 200 RESOLUTION RANGE LOW (A) : 43.630 REMARK 200 REJECTION CRITERIA (SIGMA(I)) : NULL REMARK 200 REMARK 200 OVERALL. REMARK 200 COMPLETENESS FOR RANGE (%) : 99.5 REMARK 200 DATA REDUNDANCY : 4.400 REMARK 200 R MERGE (I) : NULL REMARK 200 R SYM (I) : 0.04400 REMARK 200 FOR THE DATA SET : 17.0800 REMARK 200 REMARK 200 IN THE HIGHEST RESOLUTION SHELL. REMARK 200 HIGHEST RESOLUTION SHELL, RANGE HIGH (A) : 1.52 REMARK 200 HIGHEST RESOLUTION SHELL, RANGE LOW (A) : 1.61 REMARK 200 COMPLETENESS FOR SHELL (%) : 99.6 REMARK 200 DATA REDUNDANCY IN SHELL : NULL REMARK 200 R MERGE FOR SHELL (I) : NULL REMARK 200 R SYM FOR SHELL (I) : 0.44000 REMARK 200 FOR SHELL : 2.970 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: 6F14 REMARK 200 REMARK 200 REMARK: NULL REMARK 280 REMARK 280 CRYSTAL REMARK 280 SOLVENT CONTENT, VS (%): 53.49 REMARK 280 MATTHEWS COEFFICIENT, VM (ANGSTROMS**3/DA): 2.64 REMARK 280 REMARK 280 CRYSTALLIZATION CONDITIONS: 0.2 MM PKA , 100 MM MBT (MES/BIS-TRIS REMARK 280 PUFFER PH 6.9), 1 MM DTT, 0.1 MM EDTA, 75 MM LICL, 0.2 MM MEGA8, REMARK 280 0.5 MM PKI, 16-23% (V/V) METHANOL. SOAKING IN BUFFER WITH 10% (V/ REMARK 280 V) OF AMINOFASUDIL (50MM STOCK) IN DMSO AND 30% (V/V) MPD, VAPOR REMARK 280 DIFFUSION, HANGING DROP, TEMPERATURE 277K 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 36.26200 REMARK 290 SMTRY2 2 0.000000 -1.000000 0.000000 0.00000 REMARK 290 SMTRY3 2 0.000000 0.000000 1.000000 40.17950 REMARK 290 SMTRY1 3 -1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY2 3 0.000000 1.000000 0.000000 37.23000 REMARK 290 SMTRY3 3 0.000000 0.000000 -1.000000 40.17950 REMARK 290 SMTRY1 4 1.000000 0.000000 0.000000 36.26200 REMARK 290 SMTRY2 4 0.000000 -1.000000 0.000000 37.23000 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: DIMERIC REMARK 350 SOFTWARE DETERMINED QUATERNARY STRUCTURE: DIMERIC REMARK 350 SOFTWARE USED: PISA REMARK 350 TOTAL BURIED SURFACE AREA: 3150 ANGSTROM**2 REMARK 350 SURFACE AREA OF THE COMPLEX: 15780 ANGSTROM**2 REMARK 350 CHANGE IN SOLVENT FREE ENERGY: -19.0 KCAL/MOL REMARK 350 APPLY THE FOLLOWING TO CHAINS: A, B 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 -2 REMARK 465 HIS A -1 REMARK 465 MET A 0 REMARK 465 GLY A 1 REMARK 465 ASN A 2 REMARK 465 ALA A 3 REMARK 465 ALA A 4 REMARK 465 ASP B 24 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 7 CG CD CE NZ REMARK 470 LYS A 8 CG CD CE NZ REMARK 470 GLU A 11 CD OE1 OE2 REMARK 470 LYS A 16 CE NZ REMARK 470 GLU A 17 CD OE1 OE2 REMARK 470 LYS A 21 CG CD CE NZ REMARK 470 GLU A 24 CD OE1 OE2 REMARK 470 LYS A 28 CE NZ REMARK 470 PHE A 54 CG CD1 CD2 CE1 CE2 CZ REMARK 470 LYS A 61 CE NZ REMARK 470 LYS A 63 NZ REMARK 470 GLU A 64 CG CD OE1 OE2 REMARK 470 LYS A 78 NZ REMARK 470 LYS A 81 CE NZ REMARK 470 LYS A 83 CD CE NZ REMARK 470 LYS A 105 CD CE NZ REMARK 470 ARG A 134 CZ NH1 NH2 REMARK 470 GLN A 177 OE1 NE2 REMARK 470 ARG A 194 NH1 NH2 REMARK 470 LYS A 213 CD CE NZ REMARK 470 GLN A 242 OE1 NE2 REMARK 470 GLN A 245 OE1 NE2 REMARK 470 LYS A 254 CG CD CE NZ REMARK 470 ASP A 276 CG OD1 OD2 REMARK 470 LYS A 279 CG CD CE NZ REMARK 470 LYS A 285 CD CE NZ REMARK 470 LYS A 295 CG CD CE NZ REMARK 470 ILE A 303 CD1 REMARK 470 LYS A 309 CE NZ REMARK 470 LYS A 317 CG CD CE NZ REMARK 470 PHE A 318 CG CD1 CD2 CE1 CE2 CZ REMARK 470 LYS A 319 CG CD CE NZ REMARK 470 GLU A 331 CG CD OE1 OE2 REMARK 470 GLU A 333 CG CD OE1 OE2 REMARK 470 GLU A 334 CG CD OE1 OE2 REMARK 470 ARG A 336 CG CD NE CZ NH1 NH2 REMARK 470 ILE A 339 CD1 REMARK 470 LYS A 345 CD CE NZ REMARK 470 HIS B 23 CG ND1 CD2 CE1 NE2 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 ASP A 166 43.50 -150.22 REMARK 500 ASP A 184 78.46 61.66 REMARK 500 ASP A 184 78.46 52.72 REMARK 500 ASN A 216 -159.05 -143.56 REMARK 500 LEU A 273 46.19 -90.29 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 A 750 DISTANCE = 6.82 ANGSTROMS REMARK 800 REMARK 800 SITE REMARK 800 SITE_IDENTIFIER: AC1 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue MPD A 401 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC2 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue MPD A 402 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC3 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue DMS A 403 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC4 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue DMS A 404 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC5 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue LRT A 405 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC6 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue MRD A 406 DBREF 6YNT A 0 350 UNP P25321 KAPCA_CRIGR 1 351 DBREF 6YNT B 5 24 UNP P63248 IPKA_MOUSE 6 25 SEQADV 6YNT GLY A -2 UNP P25321 EXPRESSION TAG SEQADV 6YNT HIS A -1 UNP P25321 EXPRESSION TAG SEQRES 1 A 353 GLY HIS MET GLY ASN ALA ALA ALA ALA LYS LYS GLY SEP SEQRES 2 A 353 GLU GLN GLU SER VAL LYS GLU PHE LEU ALA LYS ALA LYS SEQRES 3 A 353 GLU GLU PHE LEU LYS LYS TRP GLU SER PRO SER GLN ASN SEQRES 4 A 353 THR ALA GLN LEU ASP HIS PHE ASP ARG ILE LYS THR LEU SEQRES 5 A 353 GLY THR GLY SER PHE GLY ARG VAL MET LEU VAL LYS HIS SEQRES 6 A 353 LYS GLU THR GLY ASN HIS TYR ALA MET LYS ILE LEU ASP SEQRES 7 A 353 LYS GLN LYS VAL VAL LYS LEU LYS GLN ILE GLU HIS THR SEQRES 8 A 353 LEU ASN GLU LYS ARG ILE LEU GLN ALA VAL ASN PHE PRO SEQRES 9 A 353 PHE LEU VAL LYS LEU GLU PHE SER PHE LYS ASP ASN SER SEQRES 10 A 353 ASN LEU TYR MET VAL MET GLU TYR VAL PRO GLY GLY GLU SEQRES 11 A 353 MET PHE SER HIS LEU ARG ARG ILE GLY ARG PHE SER GLU SEQRES 12 A 353 PRO HIS ALA ARG PHE TYR ALA ALA GLN ILE VAL LEU THR SEQRES 13 A 353 PHE GLU TYR LEU HIS SER LEU ASP LEU ILE TYR ARG ASP SEQRES 14 A 353 LEU LYS PRO GLU ASN LEU LEU ILE ASP GLN GLN GLY TYR SEQRES 15 A 353 ILE GLN VAL THR ASP PHE GLY PHE ALA LYS ARG VAL LYS SEQRES 16 A 353 GLY ARG THR TRP TPO LEU CYS GLY THR PRO GLU TYR LEU SEQRES 17 A 353 ALA PRO GLU ILE ILE LEU SER LYS GLY TYR ASN LYS ALA SEQRES 18 A 353 VAL ASP TRP TRP ALA LEU GLY VAL LEU ILE TYR GLU MET SEQRES 19 A 353 ALA ALA GLY TYR PRO PRO PHE PHE ALA ASP GLN PRO ILE SEQRES 20 A 353 GLN ILE TYR GLU LYS ILE VAL SER GLY LYS VAL ARG PHE SEQRES 21 A 353 PRO SER HIS PHE SER SER ASP LEU LYS ASP LEU LEU ARG SEQRES 22 A 353 ASN LEU LEU GLN VAL ASP LEU THR LYS ARG PHE GLY ASN SEQRES 23 A 353 LEU LYS ASN GLY VAL ASN ASP ILE LYS ASN HIS LYS TRP SEQRES 24 A 353 PHE ALA THR THR ASP TRP ILE ALA ILE TYR GLN ARG LYS SEQRES 25 A 353 VAL GLU ALA PRO PHE ILE PRO LYS PHE LYS GLY PRO GLY SEQRES 26 A 353 ASP THR SER ASN PHE ASP ASP TYR GLU GLU GLU GLU ILE SEQRES 27 A 353 ARG VAL SEP ILE ASN GLU LYS CYS GLY LYS GLU PHE THR SEQRES 28 A 353 GLU PHE SEQRES 1 B 20 THR THR TYR ALA ASP PHE ILE ALA SER GLY ARG THR GLY SEQRES 2 B 20 ARG ARG ASN ALA ILE HIS ASP MODRES 6YNT SEP A 10 SER MODIFIED RESIDUE MODRES 6YNT TPO A 197 THR MODIFIED RESIDUE MODRES 6YNT SEP A 338 SER MODIFIED RESIDUE HET SEP A 10 20 HET TPO A 197 16 HET SEP A 338 10 HET MPD A 401 8 HET MPD A 402 8 HET DMS A 403 4 HET DMS A 404 4 HET LRT A 405 21 HET MRD A 406 8 HETNAM SEP PHOSPHOSERINE HETNAM TPO PHOSPHOTHREONINE HETNAM MPD (4S)-2-METHYL-2,4-PENTANEDIOL HETNAM DMS DIMETHYL SULFOXIDE HETNAM LRT 5-(1,4-DIAZEPAN-1-YLSULFONYL)ISOQUINOLIN-1-AMINE HETNAM MRD (4R)-2-METHYLPENTANE-2,4-DIOL HETSYN SEP PHOSPHONOSERINE HETSYN TPO PHOSPHONOTHREONINE FORMUL 1 SEP 2(C3 H8 N O6 P) FORMUL 1 TPO C4 H10 N O6 P FORMUL 3 MPD 2(C6 H14 O2) FORMUL 5 DMS 2(C2 H6 O S) FORMUL 7 LRT C14 H18 N4 O2 S FORMUL 8 MRD C6 H14 O2 FORMUL 9 HOH *270(H2 O) HELIX 1 AA1 GLY A 9 SER A 32 1 24 HELIX 2 AA2 GLN A 39 ASP A 41 5 3 HELIX 3 AA3 LYS A 76 LEU A 82 1 7 HELIX 4 AA4 GLN A 84 VAL A 98 1 15 HELIX 5 AA5 GLU A 127 GLY A 136 1 10 HELIX 6 AA6 SER A 139 LEU A 160 1 22 HELIX 7 AA7 LYS A 168 GLU A 170 5 3 HELIX 8 AA8 THR A 201 LEU A 205 5 5 HELIX 9 AA9 ALA A 206 LEU A 211 1 6 HELIX 10 AB1 LYS A 217 GLY A 234 1 18 HELIX 11 AB2 GLN A 242 SER A 252 1 11 HELIX 12 AB3 SER A 262 LEU A 273 1 12 HELIX 13 AB4 ASP A 276 ARG A 280 5 5 HELIX 14 AB5 VAL A 288 ASN A 293 1 6 HELIX 15 AB6 HIS A 294 ALA A 298 5 5 HELIX 16 AB7 ASP A 301 GLN A 307 1 7 HELIX 17 AB8 THR B 6 ALA B 12 1 7 SHEET 1 AA1 5 PHE A 43 GLY A 52 0 SHEET 2 AA1 5 GLY A 55 HIS A 62 -1 O LEU A 59 N LYS A 47 SHEET 3 AA1 5 HIS A 68 ASP A 75 -1 O MET A 71 N MET A 58 SHEET 4 AA1 5 ASN A 115 GLU A 121 -1 O MET A 120 N ALA A 70 SHEET 5 AA1 5 LEU A 106 LYS A 111 -1 N PHE A 108 O VAL A 119 SHEET 1 AA2 2 LEU A 162 ILE A 163 0 SHEET 2 AA2 2 LYS A 189 ARG A 190 -1 O LYS A 189 N ILE A 163 SHEET 1 AA3 2 LEU A 172 ILE A 174 0 SHEET 2 AA3 2 ILE A 180 VAL A 182 -1 O GLN A 181 N LEU A 173 LINK C GLY A 9 N ASEP A 10 1555 1555 1.33 LINK C GLY A 9 N BSEP A 10 1555 1555 1.33 LINK C ASEP A 10 N GLU A 11 1555 1555 1.33 LINK C BSEP A 10 N GLU A 11 1555 1555 1.33 LINK C TRP A 196 N TPO A 197 1555 1555 1.33 LINK C TPO A 197 N LEU A 198 1555 1555 1.33 LINK C VAL A 337 N SEP A 338 1555 1555 1.33 LINK C SEP A 338 N ILE A 339 1555 1555 1.33 SITE 1 AC1 5 VAL A 15 LEU A 152 GLU A 155 TYR A 306 SITE 2 AC1 5 HOH A 620 SITE 1 AC2 3 ARG A 137 HOH A 689 TYR B 7 SITE 1 AC3 4 GLN A 39 LEU A 40 ASP A 41 HOH A 521 SITE 1 AC4 4 ASN A 36 THR A 37 ALA A 38 HIS A 42 SITE 1 AC5 16 LEU A 49 GLY A 50 THR A 51 VAL A 57 SITE 2 AC5 16 ALA A 70 VAL A 104 GLU A 121 TYR A 122 SITE 3 AC5 16 VAL A 123 GLU A 127 GLU A 170 ASN A 171 SITE 4 AC5 16 LEU A 173 THR A 183 PHE A 327 HOH A 503 SITE 1 AC6 4 ARG A 134 ASN A 326 PHE A 327 ASP A 328 CRYST1 72.524 74.460 80.359 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 0.013789 0.000000 0.000000 0.00000 SCALE2 0.000000 0.013430 0.000000 0.00000 SCALE3 0.000000 0.000000 0.012444 0.00000