HEADER TRANSFERASE 04-OCT-18 6IIE TITLE CRYSTAL STRUCTURE OF HUMAN DIACYLGLYCEROL KINASE ALPHA EF-HAND DOMAINS TITLE 2 BOUND TO CA2+ COMPND MOL_ID: 1; COMPND 2 MOLECULE: DIACYLGLYCEROL KINASE ALPHA; COMPND 3 CHAIN: A; COMPND 4 SYNONYM: DAG KINASE ALPHA,80 KDA DIACYLGLYCEROL KINASE,DIGLYCERIDE COMPND 5 KINASE ALPHA,DGK-ALPHA; COMPND 6 EC: 2.7.1.107; COMPND 7 ENGINEERED: YES SOURCE MOL_ID: 1; SOURCE 2 ORGANISM_SCIENTIFIC: HOMO SAPIENS; SOURCE 3 ORGANISM_COMMON: HUMAN; SOURCE 4 ORGANISM_TAXID: 9606; SOURCE 5 GENE: DGKA, DAGK, DAGK1; SOURCE 6 EXPRESSION_SYSTEM: ESCHERICHIA COLI; SOURCE 7 EXPRESSION_SYSTEM_TAXID: 562 KEYWDS LIPID KINASE, DIACLYGLYCEROL, DIACYLGLYCEROL KINASE, EF-HAND, CALCIUM KEYWDS 2 BINDING PROTEINS, LIGAND MIMIC HELIX, DIMER FORMATION, TRANSFERASE EXPDTA X-RAY DIFFRACTION AUTHOR D.TAKAHASHI,K.SUZUKI,T.SAKAMOTO,T.IWAMOTO,T.MURATA,F.SAKANE REVDAT 3 27-MAR-24 6IIE 1 REMARK REVDAT 2 03-APR-19 6IIE 1 JRNL REVDAT 1 20-FEB-19 6IIE 0 JRNL AUTH D.TAKAHASHI,K.SUZUKI,T.SAKAMOTO,T.IWAMOTO,T.MURATA,F.SAKANE JRNL TITL CRYSTAL STRUCTURE AND CALCIUM-INDUCED CONFORMATIONAL CHANGES JRNL TITL 2 OF DIACYLGLYCEROL KINASE ALPHA EF-HAND DOMAINS. JRNL REF PROTEIN SCI. V. 28 694 2019 JRNL REFN ESSN 1469-896X JRNL PMID 30653270 JRNL DOI 10.1002/PRO.3572 REMARK 2 REMARK 2 RESOLUTION. 2.14 ANGSTROMS. REMARK 3 REMARK 3 REFINEMENT. REMARK 3 PROGRAM : PHENIX 1.12_2829 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) : 2.14 REMARK 3 RESOLUTION RANGE LOW (ANGSTROMS) : 38.88 REMARK 3 MIN(FOBS/SIGMA_FOBS) : 1.390 REMARK 3 COMPLETENESS FOR RANGE (%) : 99.9 REMARK 3 NUMBER OF REFLECTIONS : 6875 REMARK 3 REMARK 3 FIT TO DATA USED IN REFINEMENT. REMARK 3 R VALUE (WORKING + TEST SET) : 0.188 REMARK 3 R VALUE (WORKING SET) : 0.185 REMARK 3 FREE R VALUE : 0.238 REMARK 3 FREE R VALUE TEST SET SIZE (%) : 5.000 REMARK 3 FREE R VALUE TEST SET COUNT : 344 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 38.8883 - 2.6992 1.00 3335 176 0.1778 0.2296 REMARK 3 2 2.6992 - 2.1425 1.00 3196 168 0.2172 0.2679 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) : 0.230 REMARK 3 PHASE ERROR (DEGREES, MAXIMUM-LIKELIHOOD BASED) : 26.940 REMARK 3 REMARK 3 B VALUES. REMARK 3 FROM WILSON PLOT (A**2) : 44.49 REMARK 3 MEAN B VALUE (OVERALL, A**2) : 60.06 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 : 0.013 746 REMARK 3 ANGLE : 1.315 998 REMARK 3 CHIRALITY : 0.069 111 REMARK 3 PLANARITY : 0.007 124 REMARK 3 DIHEDRAL : 8.402 628 REMARK 3 REMARK 3 TLS DETAILS REMARK 3 NUMBER OF TLS GROUPS : 9 REMARK 3 TLS GROUP : 1 REMARK 3 SELECTION: CHAIN 'A' AND (RESID 111 THROUGH 122 ) REMARK 3 ORIGIN FOR THE GROUP (A): -23.8973 17.1909 10.5810 REMARK 3 T TENSOR REMARK 3 T11: 0.5510 T22: 0.3670 REMARK 3 T33: 0.3979 T12: -0.0517 REMARK 3 T13: 0.0244 T23: -0.0270 REMARK 3 L TENSOR REMARK 3 L11: 2.2258 L22: 9.0608 REMARK 3 L33: 2.8931 L12: -2.4047 REMARK 3 L13: 0.8432 L23: -2.9108 REMARK 3 S TENSOR REMARK 3 S11: -0.0119 S12: 0.2777 S13: 0.8384 REMARK 3 S21: 0.1915 S22: 0.2199 S23: -0.3532 REMARK 3 S31: -1.0818 S32: -0.0083 S33: -0.1203 REMARK 3 TLS GROUP : 2 REMARK 3 SELECTION: CHAIN 'A' AND (RESID 123 THROUGH 131 ) REMARK 3 ORIGIN FOR THE GROUP (A): -19.7129 6.0020 14.5531 REMARK 3 T TENSOR REMARK 3 T11: 0.4619 T22: 0.4582 REMARK 3 T33: 0.4492 T12: 0.0002 REMARK 3 T13: -0.0710 T23: -0.0585 REMARK 3 L TENSOR REMARK 3 L11: 2.1456 L22: 9.3758 REMARK 3 L33: 2.3746 L12: -0.0737 REMARK 3 L13: 1.5729 L23: -3.4684 REMARK 3 S TENSOR REMARK 3 S11: -0.2792 S12: -0.2886 S13: -0.4458 REMARK 3 S21: 0.5829 S22: 0.3470 S23: -0.8090 REMARK 3 S31: 0.4027 S32: 0.2778 S33: -0.3715 REMARK 3 TLS GROUP : 3 REMARK 3 SELECTION: CHAIN 'A' AND (RESID 132 THROUGH 148 ) REMARK 3 ORIGIN FOR THE GROUP (A): -27.4424 5.8453 0.5416 REMARK 3 T TENSOR REMARK 3 T11: 0.5409 T22: 0.4153 REMARK 3 T33: 0.3520 T12: -0.1256 REMARK 3 T13: -0.0238 T23: -0.0018 REMARK 3 L TENSOR REMARK 3 L11: 4.5147 L22: 8.1316 REMARK 3 L33: 4.7737 L12: -2.7210 REMARK 3 L13: 2.9707 L23: -3.1727 REMARK 3 S TENSOR REMARK 3 S11: -0.2039 S12: 0.3992 S13: -0.8273 REMARK 3 S21: -0.7819 S22: 0.7732 S23: 0.5001 REMARK 3 S31: 0.4129 S32: -0.3873 S33: -0.7120 REMARK 3 TLS GROUP : 4 REMARK 3 SELECTION: CHAIN 'A' AND (RESID 149 THROUGH 155 ) REMARK 3 ORIGIN FOR THE GROUP (A): -31.0062 8.2757 -12.3202 REMARK 3 T TENSOR REMARK 3 T11: 1.2445 T22: 1.0622 REMARK 3 T33: 0.7999 T12: -0.2455 REMARK 3 T13: -0.0582 T23: -0.0098 REMARK 3 L TENSOR REMARK 3 L11: 1.7789 L22: 8.7710 REMARK 3 L33: 7.6032 L12: -2.1617 REMARK 3 L13: 0.8748 L23: -0.1276 REMARK 3 S TENSOR REMARK 3 S11: 0.3931 S12: 2.5222 S13: -1.0316 REMARK 3 S21: -3.4813 S22: -0.3405 S23: 0.2923 REMARK 3 S31: 0.8019 S32: -1.3995 S33: -0.5389 REMARK 3 TLS GROUP : 5 REMARK 3 SELECTION: CHAIN 'A' AND (RESID 156 THROUGH 167 ) REMARK 3 ORIGIN FOR THE GROUP (A): -18.1761 7.5123 -4.3943 REMARK 3 T TENSOR REMARK 3 T11: 0.7991 T22: 0.5821 REMARK 3 T33: 0.6091 T12: -0.0343 REMARK 3 T13: 0.2964 T23: -0.0020 REMARK 3 L TENSOR REMARK 3 L11: 5.9426 L22: 2.9776 REMARK 3 L33: 6.1027 L12: -0.3530 REMARK 3 L13: 6.0041 L23: 0.0030 REMARK 3 S TENSOR REMARK 3 S11: -0.3713 S12: 0.9854 S13: 0.1359 REMARK 3 S21: -1.3095 S22: -0.0838 S23: -0.8618 REMARK 3 S31: 0.5035 S32: 0.8409 S33: 0.4067 REMARK 3 TLS GROUP : 6 REMARK 3 SELECTION: CHAIN 'A' AND (RESID 168 THROUGH 176 ) REMARK 3 ORIGIN FOR THE GROUP (A): -9.8485 8.9824 5.8250 REMARK 3 T TENSOR REMARK 3 T11: 0.5323 T22: 0.8655 REMARK 3 T33: 1.0935 T12: 0.0443 REMARK 3 T13: 0.1459 T23: 0.1948 REMARK 3 L TENSOR REMARK 3 L11: 3.3669 L22: 2.4005 REMARK 3 L33: 8.7413 L12: 2.8126 REMARK 3 L13: 1.4653 L23: 1.9739 REMARK 3 S TENSOR REMARK 3 S11: -0.3192 S12: 0.0222 S13: 0.2059 REMARK 3 S21: -0.2772 S22: -0.3795 S23: -2.5255 REMARK 3 S31: 0.4981 S32: 2.9459 S33: 0.9045 REMARK 3 TLS GROUP : 7 REMARK 3 SELECTION: CHAIN 'A' AND (RESID 177 THROUGH 184 ) REMARK 3 ORIGIN FOR THE GROUP (A): -15.6871 16.5075 6.8005 REMARK 3 T TENSOR REMARK 3 T11: 0.4185 T22: 0.3854 REMARK 3 T33: 0.7411 T12: -0.0909 REMARK 3 T13: -0.0600 T23: -0.0397 REMARK 3 L TENSOR REMARK 3 L11: 8.3183 L22: 6.8331 REMARK 3 L33: 9.8166 L12: -3.6065 REMARK 3 L13: 6.3077 L23: -5.2890 REMARK 3 S TENSOR REMARK 3 S11: -0.0859 S12: 0.8357 S13: -0.0870 REMARK 3 S21: 0.6607 S22: -0.2292 S23: -2.3341 REMARK 3 S31: -0.6948 S32: 1.0357 S33: 0.6903 REMARK 3 TLS GROUP : 8 REMARK 3 SELECTION: CHAIN 'A' AND (RESID 185 THROUGH 189 ) REMARK 3 ORIGIN FOR THE GROUP (A): -18.0444 20.2544 -1.0998 REMARK 3 T TENSOR REMARK 3 T11: 0.5503 T22: 0.4605 REMARK 3 T33: 0.6182 T12: -0.1866 REMARK 3 T13: 0.1209 T23: 0.1362 REMARK 3 L TENSOR REMARK 3 L11: 5.7451 L22: 5.8214 REMARK 3 L33: 7.2020 L12: 2.2100 REMARK 3 L13: 6.4346 L23: 2.3591 REMARK 3 S TENSOR REMARK 3 S11: -1.1310 S12: 1.6421 S13: 1.0166 REMARK 3 S21: 0.3515 S22: 0.6498 S23: -1.8411 REMARK 3 S31: -0.4829 S32: 0.8842 S33: 0.7079 REMARK 3 TLS GROUP : 9 REMARK 3 SELECTION: CHAIN 'A' AND (RESID 190 THROUGH 197 ) REMARK 3 ORIGIN FOR THE GROUP (A): -27.8245 17.1523 0.8446 REMARK 3 T TENSOR REMARK 3 T11: 0.3978 T22: 0.4812 REMARK 3 T33: 0.3664 T12: -0.1337 REMARK 3 T13: 0.0391 T23: 0.0279 REMARK 3 L TENSOR REMARK 3 L11: 5.3814 L22: 5.5747 REMARK 3 L33: 6.4722 L12: -4.0357 REMARK 3 L13: 5.7187 L23: -4.3425 REMARK 3 S TENSOR REMARK 3 S11: -0.4071 S12: -0.4647 S13: 0.7901 REMARK 3 S21: -0.5667 S22: 0.8452 S23: -0.0299 REMARK 3 S31: -0.5870 S32: -0.9590 S33: -0.2368 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 6IIE COMPLIES WITH FORMAT V. 3.30, 13-JUL-11 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY PDBJ ON 15-OCT-18. REMARK 100 THE DEPOSITION ID IS D_1300009228. REMARK 200 REMARK 200 EXPERIMENTAL DETAILS REMARK 200 EXPERIMENT TYPE : X-RAY DIFFRACTION REMARK 200 DATE OF DATA COLLECTION : 27-NOV-17; 06-MAR-18 REMARK 200 TEMPERATURE (KELVIN) : 100; 100 REMARK 200 PH : 7.0 REMARK 200 NUMBER OF CRYSTALS USED : 1 REMARK 200 REMARK 200 SYNCHROTRON (Y/N) : Y; N REMARK 200 RADIATION SOURCE : PHOTON FACTORY; NULL REMARK 200 BEAMLINE : BL-1A; NULL REMARK 200 X-RAY GENERATOR MODEL : NULL; NULL REMARK 200 MONOCHROMATIC OR LAUE (M/L) : M; NULL REMARK 200 WAVELENGTH OR RANGE (A) : 1.1; NULL REMARK 200 MONOCHROMATOR : CRYO-COOLED CHANNEL-CUT SI(111); REMARK 200 NULL REMARK 200 OPTICS : NULL; NULL REMARK 200 REMARK 200 DETECTOR TYPE : PIXEL; PIXEL REMARK 200 DETECTOR MANUFACTURER : DECTRIS EIGER X 4M; DECTRIS REMARK 200 EIGER X 4M REMARK 200 INTENSITY-INTEGRATION SOFTWARE : XDS REMARK 200 DATA SCALING SOFTWARE : XSCALE REMARK 200 REMARK 200 NUMBER OF UNIQUE REFLECTIONS : 6876 REMARK 200 RESOLUTION RANGE HIGH (A) : 2.142 REMARK 200 RESOLUTION RANGE LOW (A) : 50.000 REMARK 200 REJECTION CRITERIA (SIGMA(I)) : NULL REMARK 200 REMARK 200 OVERALL. REMARK 200 COMPLETENESS FOR RANGE (%) : 99.9 REMARK 200 DATA REDUNDANCY : 9.700 REMARK 200 R MERGE (I) : 0.08300 REMARK 200 R SYM (I) : 0.08300 REMARK 200 <I/SIGMA(I)> FOR THE DATA SET : 15.1300 REMARK 200 REMARK 200 IN THE HIGHEST RESOLUTION SHELL. REMARK 200 HIGHEST RESOLUTION SHELL, RANGE HIGH (A) : 2.14 REMARK 200 HIGHEST RESOLUTION SHELL, RANGE LOW (A) : 2.27 REMARK 200 COMPLETENESS FOR SHELL (%) : 99.2 REMARK 200 DATA REDUNDANCY IN SHELL : 9.88 REMARK 200 R MERGE FOR SHELL (I) : 0.66100 REMARK 200 R SYM FOR SHELL (I) : NULL REMARK 200 <I/SIGMA(I)> FOR SHELL : 2.910 REMARK 200 REMARK 200 DIFFRACTION PROTOCOL: SINGLE WAVELENGTH; NULL REMARK 200 METHOD USED TO DETERMINE THE STRUCTURE: SAD REMARK 200 SOFTWARE USED: AUTOSOL REMARK 200 STARTING MODEL: NULL REMARK 200 REMARK 200 REMARK: NULL REMARK 280 REMARK 280 CRYSTAL REMARK 280 SOLVENT CONTENT, VS (%): 56.33 REMARK 280 MATTHEWS COEFFICIENT, VM (ANGSTROMS**3/DA): 2.82 REMARK 280 REMARK 280 CRYSTALLIZATION CONDITIONS: 0.1 M HEPES, 1.0 M SUCCINIC ACID, 2 % REMARK 280 PEG MONOMETHYL ETHER 2000, 10 % GLYCEROL, PH 7.0, VAPOR REMARK 280 DIFFUSION, SITTING DROP, TEMPERATURE 296K REMARK 290 REMARK 290 CRYSTALLOGRAPHIC SYMMETRY REMARK 290 SYMMETRY OPERATORS FOR SPACE GROUP: P 32 2 1 REMARK 290 REMARK 290 SYMOP SYMMETRY REMARK 290 NNNMMM OPERATOR REMARK 290 1555 X,Y,Z REMARK 290 2555 -Y,X-Y,Z+2/3 REMARK 290 3555 -X+Y,-X,Z+1/3 REMARK 290 4555 Y,X,-Z REMARK 290 5555 X-Y,-Y,-Z+1/3 REMARK 290 6555 -X,-X+Y,-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 40.74667 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 20.37333 REMARK 290 SMTRY1 4 -0.500000 0.866025 0.000000 0.00000 REMARK 290 SMTRY2 4 0.866025 0.500000 0.000000 0.00000 REMARK 290 SMTRY3 4 0.000000 0.000000 -1.000000 0.00000 REMARK 290 SMTRY1 5 1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY2 5 0.000000 -1.000000 0.000000 0.00000 REMARK 290 SMTRY3 5 0.000000 0.000000 -1.000000 20.37333 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 40.74667 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: PISA REMARK 350 TOTAL BURIED SURFACE AREA: 90 ANGSTROM**2 REMARK 350 SURFACE AREA OF THE COMPLEX: 5640 ANGSTROM**2 REMARK 350 CHANGE IN SOLVENT FREE ENERGY: -12.0 KCAL/MOL 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 HIS A 105 REMARK 465 MET A 106 REMARK 465 GLU A 107 REMARK 465 GLY A 108 REMARK 465 GLY A 109 REMARK 465 ARG A 110 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 165 CD CE NZ 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 168 88.79 -68.42 REMARK 500 THR A 186 -66.59 -121.62 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 CA A 201 CA REMARK 620 N RES CSSEQI ATOM REMARK 620 1 ASP A 123 OD1 REMARK 620 2 ASP A 125 OD2 82.4 REMARK 620 3 ASN A 127 OD1 87.7 80.0 REMARK 620 4 ILE A 129 O 90.3 165.7 87.4 REMARK 620 5 GLU A 134 OE1 110.9 119.5 153.7 74.6 REMARK 620 6 GLU A 134 OE2 85.4 74.2 154.0 117.6 50.3 REMARK 620 7 HOH A 301 O 163.3 82.6 82.5 102.7 83.0 97.5 REMARK 620 N 1 2 3 4 5 6 REMARK 620 REMARK 620 COORDINATION ANGLES FOR: M RES CSSEQI METAL REMARK 620 CA A 202 CA REMARK 620 N RES CSSEQI ATOM REMARK 620 1 ASP A 168 OD2 REMARK 620 2 ASP A 170 OD2 72.5 REMARK 620 3 SER A 172 OG 85.9 82.0 REMARK 620 4 SER A 174 O 66.7 129.9 67.6 REMARK 620 5 GLU A 179 OE1 83.5 80.2 161.3 121.1 REMARK 620 6 GLU A 179 OE2 92.1 126.9 148.9 83.1 47.1 REMARK 620 7 HOH A 309 O 162.9 97.3 79.0 113.7 108.8 105.0 REMARK 620 N 1 2 3 4 5 6 REMARK 800 REMARK 800 SITE REMARK 800 SITE_IDENTIFIER: AC1 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue CA A 201 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC2 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue CA A 202 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC3 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue GOL A 203 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC4 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue GOL A 204 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC5 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue PG4 A 205 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC6 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue PG4 A 206 DBREF 6IIE A 107 197 UNP P23743 DGKA_HUMAN 107 197 SEQADV 6IIE HIS A 105 UNP P23743 EXPRESSION TAG SEQADV 6IIE MET A 106 UNP P23743 EXPRESSION TAG SEQRES 1 A 93 HIS MET GLU GLY GLY ARG PRO GLU ASP LYS LEU GLU PHE SEQRES 2 A 93 THR PHE LYS LEU TYR ASP THR ASP ARG ASN GLY ILE LEU SEQRES 3 A 93 ASP SER SER GLU VAL ASP LYS ILE ILE LEU GLN MET MET SEQRES 4 A 93 ARG VAL ALA GLU TYR LEU ASP TRP ASP VAL SER GLU LEU SEQRES 5 A 93 ARG PRO ILE LEU GLN GLU MET MET LYS GLU ILE ASP TYR SEQRES 6 A 93 ASP GLY SER GLY SER VAL SER GLN ALA GLU TRP VAL ARG SEQRES 7 A 93 ALA GLY ALA THR THR VAL PRO LEU LEU VAL LEU LEU GLY SEQRES 8 A 93 LEU GLU HET CA A 201 1 HET CA A 202 1 HET GOL A 203 6 HET GOL A 204 6 HET PG4 A 205 13 HET PG4 A 206 13 HETNAM CA CALCIUM ION HETNAM GOL GLYCEROL HETNAM PG4 TETRAETHYLENE GLYCOL HETSYN GOL GLYCERIN; PROPANE-1,2,3-TRIOL FORMUL 2 CA 2(CA 2+) FORMUL 4 GOL 2(C3 H8 O3) FORMUL 6 PG4 2(C8 H18 O5) FORMUL 8 HOH *9(H2 O) HELIX 1 AA1 PRO A 111 ASP A 123 1 13 HELIX 2 AA2 ASP A 131 LEU A 149 1 19 HELIX 3 AA3 LEU A 156 ASP A 168 1 13 HELIX 4 AA4 GLN A 177 THR A 186 1 10 HELIX 5 AA5 PRO A 189 LEU A 194 1 6 SHEET 1 AA1 2 ILE A 129 LEU A 130 0 SHEET 2 AA1 2 VAL A 175 SER A 176 -1 O VAL A 175 N LEU A 130 LINK OD1 ASP A 123 CA CA A 201 1555 1555 2.21 LINK OD2 ASP A 125 CA CA A 201 1555 1555 2.25 LINK OD1 ASN A 127 CA CA A 201 1555 1555 2.30 LINK O ILE A 129 CA CA A 201 1555 1555 2.27 LINK OE1 GLU A 134 CA CA A 201 1555 1555 2.56 LINK OE2 GLU A 134 CA CA A 201 1555 1555 2.56 LINK OD2 ASP A 168 CA CA A 202 1555 1555 2.42 LINK OD2 ASP A 170 CA CA A 202 1555 1555 2.44 LINK OG SER A 172 CA CA A 202 1555 1555 2.83 LINK O SER A 174 CA CA A 202 1555 1555 2.59 LINK OE1 GLU A 179 CA CA A 202 1555 1555 2.93 LINK OE2 GLU A 179 CA CA A 202 1555 1555 2.57 LINK CA CA A 201 O HOH A 301 1555 1555 2.40 LINK CA CA A 202 O HOH A 309 1555 1555 2.53 SITE 1 AC1 6 ASP A 123 ASP A 125 ASN A 127 ILE A 129 SITE 2 AC1 6 GLU A 134 HOH A 301 SITE 1 AC2 6 ASP A 168 ASP A 170 SER A 172 SER A 174 SITE 2 AC2 6 GLU A 179 HOH A 309 SITE 1 AC3 5 THR A 124 ARG A 126 GLY A 184 THR A 186 SITE 2 AC3 5 PRO A 189 SITE 1 AC4 3 GLN A 141 TYR A 148 PG4 A 206 SITE 1 AC5 1 TRP A 151 SITE 1 AC6 3 GLY A 195 GOL A 204 HOH A 302 CRYST1 58.190 58.190 61.120 90.00 90.00 120.00 P 32 2 1 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 0.017185 0.009922 0.000000 0.00000 SCALE2 0.000000 0.019844 0.000000 0.00000 SCALE3 0.000000 0.000000 0.016361 0.00000