HEADER TRANSFERASE 14-JUL-16 5LI5 OBSLTE 16-NOV-16 5LI5 5LX2 TITLE LT 14-3-3 IN COMPLEX WITH PI4KIIIB PEPTIDE COMPND MOL_ID: 1; COMPND 2 MOLECULE: KLTH0G14146P; COMPND 3 CHAIN: A; COMPND 4 ENGINEERED: YES; COMPND 5 MOL_ID: 2; COMPND 6 MOLECULE: PI4KIIIB PEPTIDE; COMPND 7 CHAIN: B; COMPND 8 ENGINEERED: YES SOURCE MOL_ID: 1; SOURCE 2 ORGANISM_SCIENTIFIC: LACHANCEA THERMOTOLERANS; SOURCE 3 ORGANISM_TAXID: 381046; SOURCE 4 GENE: KLTH0G14146G; SOURCE 5 EXPRESSION_SYSTEM: ESCHERICHIA COLI BL21(DE3); SOURCE 6 EXPRESSION_SYSTEM_TAXID: 469008; SOURCE 7 MOL_ID: 2; SOURCE 8 SYNTHETIC: YES; SOURCE 9 ORGANISM_SCIENTIFIC: HOMO SAPIENS; SOURCE 10 ORGANISM_COMMON: HUMAN; SOURCE 11 ORGANISM_TAXID: 9606 KEYWDS PHOSPHOSERIN, KINASE, REGULATION, TRANSFERASE EXPDTA X-RAY DIFFRACTION AUTHOR E.BOURA,A.EISENREICHOVA REVDAT 5 16-NOV-16 5LI5 1 REVDAT 4 09-NOV-16 5LI5 1 JRNL REVDAT 3 19-OCT-16 5LI5 1 REMARK REVDAT 2 28-SEP-16 5LI5 1 REVDAT 1 03-AUG-16 5LI5 0 JRNL AUTH A.EISENREICHOVA,M.KLIMA,E.BOURA JRNL TITL CRYSTAL STRUCTURES OF A YEAST 14-3-3 PROTEIN FROM LACHANCEA JRNL TITL 2 THERMOTOLERANS IN THE UNLIGANDED FORM AND BOUND TO A HUMAN JRNL TITL 3 LIPID KINASE PI4KB-DERIVED PEPTIDE REVEAL HIGH EVOLUTIONARY JRNL TITL 4 CONSERVATION JRNL REF ACTA CRYSTALLOGR.,SECT.F V. 72 799 2016 JRNL REFN ESSN 2053-230X JRNL DOI 10.1107/S2053230X16015053 REMARK 2 REMARK 2 RESOLUTION. 2.79 ANGSTROMS. REMARK 3 REMARK 3 REFINEMENT. REMARK 3 PROGRAM : PHENIX 1.9_1692 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) : 2.79 REMARK 3 RESOLUTION RANGE LOW (ANGSTROMS) : 44.51 REMARK 3 MIN(FOBS/SIGMA_FOBS) : 1.340 REMARK 3 COMPLETENESS FOR RANGE (%) : 98.2 REMARK 3 NUMBER OF REFLECTIONS : 7991 REMARK 3 REMARK 3 FIT TO DATA USED IN REFINEMENT. REMARK 3 R VALUE (WORKING + TEST SET) : 0.191 REMARK 3 R VALUE (WORKING SET) : 0.188 REMARK 3 FREE R VALUE : 0.249 REMARK 3 FREE R VALUE TEST SET SIZE (%) : 5.010 REMARK 3 FREE R VALUE TEST SET COUNT : 400 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 44.5148 - 4.0225 0.98 2638 139 0.1774 0.2268 REMARK 3 2 4.0225 - 3.1930 0.98 2494 132 0.1804 0.2504 REMARK 3 3 3.1930 - 2.7895 0.98 2459 129 0.2314 0.3155 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) : 0.390 REMARK 3 PHASE ERROR (DEGREES, MAXIMUM-LIKELIHOOD BASED) : 25.500 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 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 : 0.009 1901 REMARK 3 ANGLE : 1.089 2569 REMARK 3 CHIRALITY : 0.039 293 REMARK 3 PLANARITY : 0.009 327 REMARK 3 DIHEDRAL : 15.990 713 REMARK 3 REMARK 3 TLS DETAILS REMARK 3 NUMBER OF TLS GROUPS : NULL 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 5LI5 COMPLIES WITH FORMAT V. 3.30, 13-JUL-11 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY PDBE ON 14-JUL-16. REMARK 100 THE DEPOSITION ID IS D_1200000757. REMARK 200 REMARK 200 EXPERIMENTAL DETAILS REMARK 200 EXPERIMENT TYPE : X-RAY DIFFRACTION REMARK 200 DATE OF DATA COLLECTION : 29-AUG-15 REMARK 200 TEMPERATURE (KELVIN) : 100 REMARK 200 PH : NULL 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) : 0.91841 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 : 7994 REMARK 200 RESOLUTION RANGE HIGH (A) : 2.789 REMARK 200 RESOLUTION RANGE LOW (A) : 44.510 REMARK 200 REJECTION CRITERIA (SIGMA(I)) : NULL REMARK 200 REMARK 200 OVERALL. REMARK 200 COMPLETENESS FOR RANGE (%) : 98.2 REMARK 200 DATA REDUNDANCY : 3.890 REMARK 200 R MERGE (I) : 0.13700 REMARK 200 R SYM (I) : NULL REMARK 200 FOR THE DATA SET : 8.1000 REMARK 200 REMARK 200 IN THE HIGHEST RESOLUTION SHELL. REMARK 200 HIGHEST RESOLUTION SHELL, RANGE HIGH (A) : 2.79 REMARK 200 HIGHEST RESOLUTION SHELL, RANGE LOW (A) : 2.89 REMARK 200 COMPLETENESS FOR SHELL (%) : NULL REMARK 200 DATA REDUNDANCY IN SHELL : NULL REMARK 200 R MERGE FOR SHELL (I) : 0.65560 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: PHASER REMARK 200 STARTING MODEL: 5LHO REMARK 200 REMARK 200 REMARK: NULL REMARK 280 REMARK 280 CRYSTAL REMARK 280 SOLVENT CONTENT, VS (%): 53.44 REMARK 280 MATTHEWS COEFFICIENT, VM (ANGSTROMS**3/DA): 2.64 REMARK 280 REMARK 280 CRYSTALLIZATION CONDITIONS: MES, PEG 8000, ETHYLENE GLYCOL, VAPOR REMARK 280 DIFFUSION, SITTING DROP, TEMPERATURE 291K REMARK 290 REMARK 290 CRYSTALLOGRAPHIC SYMMETRY REMARK 290 SYMMETRY OPERATORS FOR SPACE GROUP: P 21 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 -X+1/2,Y+1/2,-Z 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 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 -1.000000 0.000000 0.000000 32.04500 REMARK 290 SMTRY2 3 0.000000 1.000000 0.000000 61.86000 REMARK 290 SMTRY3 3 0.000000 0.000000 -1.000000 0.00000 REMARK 290 SMTRY1 4 1.000000 0.000000 0.000000 32.04500 REMARK 290 SMTRY2 4 0.000000 -1.000000 0.000000 61.86000 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: TETRAMERIC REMARK 350 SOFTWARE DETERMINED QUATERNARY STRUCTURE: TETRAMERIC REMARK 350 SOFTWARE USED: PISA REMARK 350 TOTAL BURIED SURFACE AREA: 3820 ANGSTROM**2 REMARK 350 SURFACE AREA OF THE COMPLEX: 22380 ANGSTROM**2 REMARK 350 CHANGE IN SOLVENT FREE ENERGY: -20.0 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 350 BIOMT1 2 -1.000000 0.000000 0.000000 -64.09000 REMARK 350 BIOMT2 2 0.000000 -1.000000 0.000000 0.00000 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 SER A 2 REMARK 465 GLN A 3 REMARK 465 ASP A 75 REMARK 465 LYS A 76 REMARK 465 SER A 77 REMARK 465 MET A 237 REMARK 465 SER A 238 REMARK 465 GLU A 239 REMARK 465 ALA A 240 REMARK 465 GLY A 241 REMARK 465 GLN A 242 REMARK 465 ASP A 243 REMARK 465 GLU A 244 REMARK 465 GLN A 245 REMARK 465 GLN A 246 REMARK 465 PRO A 247 REMARK 465 ALA A 248 REMARK 465 GLU A 249 REMARK 465 GLY A 250 REMARK 465 ALA A 251 REMARK 465 GLN A 252 REMARK 465 GLU A 253 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 SER A 235 -0.17 -56.05 REMARK 500 SEP B 294 -93.08 -116.37 REMARK 500 ASN B 295 71.12 39.78 REMARK 500 REMARK 500 REMARK: NULL DBREF 5LI5 A 2 253 UNP C5DN49 C5DN49_LACTC 2 253 DBREF 5LI5 B 292 296 PDB 5LI5 5LI5 292 296 SEQRES 1 A 252 SER GLN SER ARG GLU ASP SER VAL TYR LEU ALA LYS LEU SEQRES 2 A 252 ALA GLU GLN ALA GLU ARG TYR GLU GLU MET VAL ASP SER SEQRES 3 A 252 MET LYS ALA VAL ALA SER SER GLY GLN GLU LEU SER VAL SEQRES 4 A 252 GLU GLU ARG ASN LEU LEU SER VAL ALA TYR LYS ASN VAL SEQRES 5 A 252 ILE GLY ALA ARG ARG ALA SER TRP ARG ILE VAL SER SER SEQRES 6 A 252 ILE GLU GLN LYS GLU GLU ALA LYS ASP LYS SER GLU HIS SEQRES 7 A 252 GLN VAL LYS LEU ILE ARG ASP TYR ARG SER LYS ILE GLU SEQRES 8 A 252 THR GLU LEU THR LYS ILE CYS ASP ASP ILE LEU SER VAL SEQRES 9 A 252 LEU ASP THR HIS LEU ILE PRO SER ALA THR THR GLY GLU SEQRES 10 A 252 SER LYS VAL PHE TYR TYR LYS MET LYS GLY ASP TYR HIS SEQRES 11 A 252 ARG TYR LEU ALA GLU PHE SER SER GLY GLU VAL ARG ASP SEQRES 12 A 252 LYS ALA THR ASN ALA SER LEU GLU ALA TYR LYS THR ALA SEQRES 13 A 252 SER GLU ILE ALA THR THR GLU LEU PRO PRO THR HIS PRO SEQRES 14 A 252 ILE ARG LEU GLY LEU ALA LEU ASN PHE SER VAL PHE TYR SEQRES 15 A 252 TYR GLU ILE GLN ASN SER PRO ASP LYS ALA CYS HIS LEU SEQRES 16 A 252 ALA LYS GLN ALA PHE ASP ASP ALA ILE ALA GLU LEU ASP SEQRES 17 A 252 THR LEU SER GLU GLU SER TYR LYS ASP SER THR LEU ILE SEQRES 18 A 252 MET GLN LEU LEU ARG ASP ASN LEU THR LEU TRP THR SER SEQRES 19 A 252 ASP MET SER GLU ALA GLY GLN ASP GLU GLN GLN PRO ALA SEQRES 20 A 252 GLU GLY ALA GLN GLU SEQRES 1 B 5 THR ALA SEP ASN PRO HET SEP B 294 10 HETNAM SEP PHOSPHOSERINE HETSYN SEP PHOSPHONOSERINE FORMUL 2 SEP C3 H8 N O6 P HELIX 1 AA1 SER A 4 ALA A 18 1 15 HELIX 2 AA2 ARG A 20 SER A 33 1 14 HELIX 3 AA3 SER A 39 GLU A 71 1 33 HELIX 4 AA4 HIS A 79 HIS A 109 1 31 HELIX 5 AA5 HIS A 109 ALA A 114 1 6 HELIX 6 AA6 THR A 116 SER A 138 1 23 HELIX 7 AA7 SER A 139 LEU A 165 1 27 HELIX 8 AA8 HIS A 169 ILE A 186 1 18 HELIX 9 AA9 SER A 189 LEU A 208 1 20 HELIX 10 AB1 ASP A 209 LEU A 211 5 3 HELIX 11 AB2 SER A 212 SER A 235 1 24 LINK C ALA B 293 N SEP B 294 1555 1555 1.34 LINK C SEP B 294 N ASN B 295 1555 1555 1.34 CRYST1 64.090 123.720 38.702 90.00 90.00 90.00 P 21 21 2 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 0.015603 0.000000 0.000000 0.00000 SCALE2 0.000000 0.008083 0.000000 0.00000 SCALE3 0.000000 0.000000 0.025838 0.00000