HEADER TRANSFERASE 04-SEP-15 5DKT TITLE N-TERMINAL HIS TAGGED APPOL EXONUCLEASE MUTANT COMPND MOL_ID: 1; COMPND 2 MOLECULE: PREX DNA POLYMERASE; COMPND 3 CHAIN: A; COMPND 4 FRAGMENT: UNP RESIDUES 1389-2016; COMPND 5 SYNONYM: PFPREX; COMPND 6 EC: 2.7.7.7; COMPND 7 ENGINEERED: YES; COMPND 8 MUTATION: YES SOURCE MOL_ID: 1; SOURCE 2 ORGANISM_SCIENTIFIC: PLASMODIUM FALCIPARUM; SOURCE 3 ORGANISM_TAXID: 36329; SOURCE 4 STRAIN: ISOLATE 3D7; SOURCE 5 GENE: POM1, PF14_0112; SOURCE 6 EXPRESSION_SYSTEM: ESCHERICHIA COLI; SOURCE 7 EXPRESSION_SYSTEM_TAXID: 562; SOURCE 8 EXPRESSION_SYSTEM_STRAIN: BL-21 GEN-X KEYWDS DNA POLYMERASE, TRANSFERASE EXPDTA X-RAY DIFFRACTION AUTHOR M.E.MILTON,R.B.HONZATKO,J.Y.CHOE,S.W.NELSON REVDAT 4 27-SEP-23 5DKT 1 JRNL REMARK LINK REVDAT 3 19-OCT-16 5DKT 1 JRNL REVDAT 2 17-AUG-16 5DKT 1 JRNL REVDAT 1 10-AUG-16 5DKT 0 JRNL AUTH M.E.MILTON,J.Y.CHOE,R.B.HONZATKO,S.W.NELSON JRNL TITL CRYSTAL STRUCTURE OF THE APICOPLAST DNA POLYMERASE FROM JRNL TITL 2 PLASMODIUM FALCIPARUM: THE FIRST LOOK AT A PLASTIDIC JRNL TITL 3 A-FAMILY DNA POLYMERASE. JRNL REF J.MOL.BIOL. V. 428 3920 2016 JRNL REFN ESSN 1089-8638 JRNL PMID 27487482 JRNL DOI 10.1016/J.JMB.2016.07.016 REMARK 1 REMARK 1 REFERENCE 1 REMARK 1 AUTH M.E.MILTON,J.Y.CHOE,R.B.HONZATKO,S.W.NELSON REMARK 1 TITL CRYSTALLIZATION AND PRELIMINARY X-RAY ANALYSIS OF THE REMARK 1 TITL 2 PLASMODIUM FALCIPARUM APICOPLAST DNA POLYMERASE. REMARK 1 REF ACTA CRYSTALLOGR.,SECT.F V. 71 333 2015 REMARK 1 REFN ESSN 2053-230X REMARK 1 PMID 25760711 REMARK 1 DOI 10.1107/S2053230X15002423 REMARK 2 REMARK 2 RESOLUTION. 2.90 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 : ML REMARK 3 REMARK 3 DATA USED IN REFINEMENT. REMARK 3 RESOLUTION RANGE HIGH (ANGSTROMS) : 2.90 REMARK 3 RESOLUTION RANGE LOW (ANGSTROMS) : 47.35 REMARK 3 MIN(FOBS/SIGMA_FOBS) : 1.350 REMARK 3 COMPLETENESS FOR RANGE (%) : 97.5 REMARK 3 NUMBER OF REFLECTIONS : 19694 REMARK 3 REMARK 3 FIT TO DATA USED IN REFINEMENT. REMARK 3 R VALUE (WORKING + TEST SET) : 0.268 REMARK 3 R VALUE (WORKING SET) : 0.265 REMARK 3 FREE R VALUE : 0.300 REMARK 3 FREE R VALUE TEST SET SIZE (%) : 10.000 REMARK 3 FREE R VALUE TEST SET COUNT : 1970 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 47.3527 - 6.9740 0.97 1404 156 0.2008 0.1942 REMARK 3 2 6.9740 - 5.5382 0.98 1313 147 0.2487 0.2929 REMARK 3 3 5.5382 - 4.8390 0.99 1307 145 0.2120 0.2856 REMARK 3 4 4.8390 - 4.3969 0.99 1292 143 0.2079 0.2525 REMARK 3 5 4.3969 - 4.0819 0.98 1275 142 0.2147 0.2674 REMARK 3 6 4.0819 - 3.8414 0.99 1267 141 0.2575 0.2888 REMARK 3 7 3.8414 - 3.6491 0.98 1262 140 0.2731 0.2990 REMARK 3 8 3.6491 - 3.4903 0.98 1262 140 0.2905 0.3284 REMARK 3 9 3.4903 - 3.3559 0.99 1259 140 0.3175 0.3880 REMARK 3 10 3.3559 - 3.2402 0.98 1241 138 0.3374 0.3798 REMARK 3 11 3.2402 - 3.1389 0.98 1258 139 0.3473 0.3508 REMARK 3 12 3.1389 - 3.0492 0.97 1232 137 0.3664 0.4182 REMARK 3 13 3.0492 - 2.9689 0.96 1209 136 0.3765 0.4208 REMARK 3 14 2.9689 - 2.8965 0.90 1143 126 0.3885 0.4079 REMARK 3 REMARK 3 BULK SOLVENT MODELLING. REMARK 3 METHOD USED : FLAT BULK SOLVENT MODEL 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) : 0.590 REMARK 3 PHASE ERROR (DEGREES, MAXIMUM-LIKELIHOOD BASED) : 31.300 REMARK 3 REMARK 3 B VALUES. REMARK 3 FROM WILSON PLOT (A**2) : 47.25 REMARK 3 MEAN B VALUE (OVERALL, A**2) : 53.55 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 : 0.003 4920 REMARK 3 ANGLE : 0.549 6633 REMARK 3 CHIRALITY : 0.025 736 REMARK 3 PLANARITY : 0.003 838 REMARK 3 DIHEDRAL : 9.617 1869 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 5DKT COMPLIES WITH FORMAT V. 3.30, 13-JUL-11 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY RCSB ON 09-SEP-15. REMARK 100 THE DEPOSITION ID IS D_1000213330. REMARK 200 REMARK 200 EXPERIMENTAL DETAILS REMARK 200 EXPERIMENT TYPE : X-RAY DIFFRACTION REMARK 200 DATE OF DATA COLLECTION : 02-AUG-14 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 : APS REMARK 200 BEAMLINE : 23-ID-B REMARK 200 X-RAY GENERATOR MODEL : NULL REMARK 200 MONOCHROMATIC OR LAUE (M/L) : M REMARK 200 WAVELENGTH OR RANGE (A) : 1.0332 REMARK 200 MONOCHROMATOR : NULL REMARK 200 OPTICS : NULL REMARK 200 REMARK 200 DETECTOR TYPE : CCD REMARK 200 DETECTOR MANUFACTURER : MARMOSAIC 300 MM CCD REMARK 200 INTENSITY-INTEGRATION SOFTWARE : HKL-3000 REMARK 200 DATA SCALING SOFTWARE : HKL-3000 REMARK 200 REMARK 200 NUMBER OF UNIQUE REFLECTIONS : 19706 REMARK 200 RESOLUTION RANGE HIGH (A) : 2.900 REMARK 200 RESOLUTION RANGE LOW (A) : 50.000 REMARK 200 REJECTION CRITERIA (SIGMA(I)) : -1.000 REMARK 200 REMARK 200 OVERALL. REMARK 200 COMPLETENESS FOR RANGE (%) : 97.8 REMARK 200 DATA REDUNDANCY : 4.200 REMARK 200 R MERGE (I) : 0.34500 REMARK 200 R SYM (I) : NULL REMARK 200 FOR THE DATA SET : 2.5000 REMARK 200 REMARK 200 IN THE HIGHEST RESOLUTION SHELL. REMARK 200 HIGHEST RESOLUTION SHELL, RANGE HIGH (A) : 2.90 REMARK 200 HIGHEST RESOLUTION SHELL, RANGE LOW (A) : 3.00 REMARK 200 COMPLETENESS FOR SHELL (%) : 96.4 REMARK 200 DATA REDUNDANCY IN SHELL : 3.40 REMARK 200 R MERGE FOR SHELL (I) : 0.99100 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: MR-ROSETTA REMARK 200 STARTING MODEL: 2KFN REMARK 200 REMARK 200 REMARK: NULL REMARK 280 REMARK 280 CRYSTAL REMARK 280 SOLVENT CONTENT, VS (%): 56.58 REMARK 280 MATTHEWS COEFFICIENT, VM (ANGSTROMS**3/DA): 2.83 REMARK 280 REMARK 280 CRYSTALLIZATION CONDITIONS: 0.2 M AMMONIUM SULFATE, 0.1 M MES REMARK 280 MONOHYDRATE PH 6.5, 30%(W/V) PEG MONOMETHYL ETHER 5000, VAPOR REMARK 280 DIFFUSION, HANGING DROP, TEMPERATURE 298K REMARK 290 REMARK 290 CRYSTALLOGRAPHIC SYMMETRY REMARK 290 SYMMETRY OPERATORS FOR SPACE GROUP: P 65 2 2 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 -X,-Y,Z+1/2 REMARK 290 5555 Y,-X+Y,Z+1/6 REMARK 290 6555 X-Y,X,Z+5/6 REMARK 290 7555 Y,X,-Z+2/3 REMARK 290 8555 X-Y,-Y,-Z REMARK 290 9555 -X,-X+Y,-Z+1/3 REMARK 290 10555 -Y,-X,-Z+1/6 REMARK 290 11555 -X+Y,Y,-Z+1/2 REMARK 290 12555 X,X-Y,-Z+5/6 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 99.17267 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 49.58633 REMARK 290 SMTRY1 4 -1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY2 4 0.000000 -1.000000 0.000000 0.00000 REMARK 290 SMTRY3 4 0.000000 0.000000 1.000000 74.37950 REMARK 290 SMTRY1 5 0.500000 0.866025 0.000000 0.00000 REMARK 290 SMTRY2 5 -0.866025 0.500000 0.000000 0.00000 REMARK 290 SMTRY3 5 0.000000 0.000000 1.000000 24.79317 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 123.96583 REMARK 290 SMTRY1 7 -0.500000 0.866025 0.000000 0.00000 REMARK 290 SMTRY2 7 0.866025 0.500000 0.000000 0.00000 REMARK 290 SMTRY3 7 0.000000 0.000000 -1.000000 99.17267 REMARK 290 SMTRY1 8 1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY2 8 0.000000 -1.000000 0.000000 0.00000 REMARK 290 SMTRY3 8 0.000000 0.000000 -1.000000 0.00000 REMARK 290 SMTRY1 9 -0.500000 -0.866025 0.000000 0.00000 REMARK 290 SMTRY2 9 -0.866025 0.500000 0.000000 0.00000 REMARK 290 SMTRY3 9 0.000000 0.000000 -1.000000 49.58633 REMARK 290 SMTRY1 10 0.500000 -0.866025 0.000000 0.00000 REMARK 290 SMTRY2 10 -0.866025 -0.500000 0.000000 0.00000 REMARK 290 SMTRY3 10 0.000000 0.000000 -1.000000 24.79317 REMARK 290 SMTRY1 11 -1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY2 11 0.000000 1.000000 0.000000 0.00000 REMARK 290 SMTRY3 11 0.000000 0.000000 -1.000000 74.37950 REMARK 290 SMTRY1 12 0.500000 0.866025 0.000000 0.00000 REMARK 290 SMTRY2 12 0.866025 -0.500000 0.000000 0.00000 REMARK 290 SMTRY3 12 0.000000 0.000000 -1.000000 123.96583 REMARK 290 REMARK 290 REMARK: NULL REMARK 300 REMARK 300 BIOMOLECULE: 1, 2 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 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 350 REMARK 350 BIOMOLECULE: 2 REMARK 350 SOFTWARE DETERMINED QUATERNARY STRUCTURE: DIMERIC REMARK 350 SOFTWARE USED: PISA REMARK 350 TOTAL BURIED SURFACE AREA: 5320 ANGSTROM**2 REMARK 350 SURFACE AREA OF THE COMPLEX: 56710 ANGSTROM**2 REMARK 350 CHANGE IN SOLVENT FREE ENERGY: -260.0 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 350 BIOMT1 2 0.500000 0.866025 0.000000 -70.88750 REMARK 350 BIOMT2 2 0.866025 -0.500000 0.000000 122.78075 REMARK 350 BIOMT3 2 0.000000 0.000000 -1.000000 123.96583 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 MET A -19 REMARK 465 GLY A -18 REMARK 465 SER A -17 REMARK 465 SER A -16 REMARK 465 HIS A -15 REMARK 465 HIS A -14 REMARK 465 HIS A -13 REMARK 465 HIS A -12 REMARK 465 HIS A -11 REMARK 465 HIS A -10 REMARK 465 SER A -9 REMARK 465 SER A -8 REMARK 465 GLY A -7 REMARK 465 LEU A -6 REMARK 465 VAL A -5 REMARK 465 PRO A -4 REMARK 465 ARG A -3 REMARK 465 GLY A -2 REMARK 465 SER A -1 REMARK 465 HIS A 0 REMARK 465 LEU A 282 REMARK 465 LYS A 283 REMARK 465 LYS A 284 REMARK 465 LYS A 285 REMARK 465 LEU A 286 REMARK 465 LYS A 287 REMARK 465 ASP A 288 REMARK 465 GLU A 289 REMARK 465 ASN A 290 REMARK 465 ILE A 291 REMARK 465 ASN A 292 REMARK 465 VAL A 293 REMARK 465 ASN A 294 REMARK 465 SER A 295 REMARK 465 GLN A 296 REMARK 465 GLN A 297 REMARK 465 GLN A 298 REMARK 465 VAL A 299 REMARK 465 LEU A 300 REMARK 465 LYS A 301 REMARK 465 ALA A 302 REMARK 465 LEU A 303 REMARK 465 GLN A 304 REMARK 465 LYS A 305 REMARK 465 ASN A 306 REMARK 465 ASN A 307 REMARK 465 VAL A 308 REMARK 465 ARG A 309 REMARK 465 ASP A 310 REMARK 465 ILE A 311 REMARK 465 SER A 312 REMARK 465 ASN A 313 REMARK 465 LYS A 314 REMARK 465 LEU A 315 REMARK 465 ILE A 316 REMARK 465 GLU A 317 REMARK 465 ASN A 318 REMARK 465 THR A 319 REMARK 465 SER A 320 REMARK 465 ASP A 321 REMARK 465 SER A 322 REMARK 465 ASN A 323 REMARK 465 LEU A 324 REMARK 465 LYS A 325 REMARK 465 ASN A 326 REMARK 465 PHE A 327 REMARK 465 LEU A 328 REMARK 465 ASN A 329 REMARK 465 HIS A 330 REMARK 465 LYS A 627 REMARK 465 ASP A 628 REMARK 500 REMARK 500 GEOMETRY AND STEREOCHEMISTRY REMARK 500 SUBTOPIC: CLOSE CONTACTS IN SAME ASYMMETRIC UNIT REMARK 500 REMARK 500 THE FOLLOWING ATOMS ARE IN CLOSE CONTACT. REMARK 500 REMARK 500 ATM1 RES C SSEQI ATM2 RES C SSEQI DISTANCE REMARK 500 OD1 ASN A 239 O HOH A 801 2.19 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 ASN A 30 -119.35 -133.96 REMARK 500 GLU A 31 -95.01 57.07 REMARK 500 ASN A 32 -79.06 -103.26 REMARK 500 ASN A 33 -3.79 -146.85 REMARK 500 ASP A 50 -80.89 -61.03 REMARK 500 ASP A 75 33.25 71.13 REMARK 500 ASN A 116 -25.40 -151.88 REMARK 500 ASN A 130 102.99 -59.31 REMARK 500 ASN A 151 73.08 61.84 REMARK 500 ASN A 156 82.08 60.81 REMARK 500 LYS A 192 -116.22 60.22 REMARK 500 ASN A 196 93.47 -56.81 REMARK 500 ILE A 334 -72.41 -54.73 REMARK 500 TYR A 346 -78.38 -81.21 REMARK 500 PHE A 349 -71.16 -127.98 REMARK 500 LEU A 371 -2.40 -140.30 REMARK 500 ARG A 377 -178.85 -67.20 REMARK 500 ARG A 390 60.45 -107.06 REMARK 500 ASP A 402 -71.32 -41.13 REMARK 500 LYS A 448 11.82 59.67 REMARK 500 ASN A 529 49.13 70.70 REMARK 500 HIS A 578 -102.21 54.02 REMARK 500 PHE A 589 40.18 -94.31 REMARK 500 GLN A 590 -73.11 -62.72 REMARK 500 LYS A 611 29.65 -150.52 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 NA A 710 NA REMARK 620 N RES CSSEQI ATOM REMARK 620 1 ASN A 82 OD1 REMARK 620 2 HOH A 816 O 156.2 REMARK 620 3 HOH A 819 O 106.7 91.5 REMARK 620 4 HOH A 822 O 84.0 77.5 100.3 REMARK 620 5 HOH A 844 O 95.5 64.1 154.8 69.9 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 SO4 A 701 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC2 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue SO4 A 702 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC3 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue SO4 A 703 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC4 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue SO4 A 704 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC5 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue SO4 A 705 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC6 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue SO4 A 706 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC7 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue SO4 A 707 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC8 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue SO4 A 708 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC9 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue SO4 A 709 REMARK 800 REMARK 800 SITE_IDENTIFIER: AD1 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue NA A 710 REMARK 900 REMARK 900 RELATED ENTRIES REMARK 900 RELATED ID: 5DKU RELATED DB: PDB DBREF 5DKT A 1 628 UNP Q8ILY1 Q8ILY1_PLAF7 1389 2016 SEQADV 5DKT MET A -19 UNP Q8ILY1 EXPRESSION TAG SEQADV 5DKT GLY A -18 UNP Q8ILY1 EXPRESSION TAG SEQADV 5DKT SER A -17 UNP Q8ILY1 EXPRESSION TAG SEQADV 5DKT SER A -16 UNP Q8ILY1 EXPRESSION TAG SEQADV 5DKT HIS A -15 UNP Q8ILY1 EXPRESSION TAG SEQADV 5DKT HIS A -14 UNP Q8ILY1 EXPRESSION TAG SEQADV 5DKT HIS A -13 UNP Q8ILY1 EXPRESSION TAG SEQADV 5DKT HIS A -12 UNP Q8ILY1 EXPRESSION TAG SEQADV 5DKT HIS A -11 UNP Q8ILY1 EXPRESSION TAG SEQADV 5DKT HIS A -10 UNP Q8ILY1 EXPRESSION TAG SEQADV 5DKT SER A -9 UNP Q8ILY1 EXPRESSION TAG SEQADV 5DKT SER A -8 UNP Q8ILY1 EXPRESSION TAG SEQADV 5DKT GLY A -7 UNP Q8ILY1 EXPRESSION TAG SEQADV 5DKT LEU A -6 UNP Q8ILY1 EXPRESSION TAG SEQADV 5DKT VAL A -5 UNP Q8ILY1 EXPRESSION TAG SEQADV 5DKT PRO A -4 UNP Q8ILY1 EXPRESSION TAG SEQADV 5DKT ARG A -3 UNP Q8ILY1 EXPRESSION TAG SEQADV 5DKT GLY A -2 UNP Q8ILY1 EXPRESSION TAG SEQADV 5DKT SER A -1 UNP Q8ILY1 EXPRESSION TAG SEQADV 5DKT HIS A 0 UNP Q8ILY1 EXPRESSION TAG SEQADV 5DKT ASN A 82 UNP Q8ILY1 ASP 1470 ENGINEERED MUTATION SEQADV 5DKT GLN A 84 UNP Q8ILY1 GLU 1472 ENGINEERED MUTATION SEQRES 1 A 648 MET GLY SER SER HIS HIS HIS HIS HIS HIS SER SER GLY SEQRES 2 A 648 LEU VAL PRO ARG GLY SER HIS ASP GLU ILE THR LYS LYS SEQRES 3 A 648 TYR ILE LYS ASP ASN ILE ILE ASN VAL ASP ASP ASN ILE SEQRES 4 A 648 ILE LYS LYS LYS ASP ILE PHE LYS LEU LYS ASN GLU ASN SEQRES 5 A 648 ASN GLU ILE THR GLU CYS ALA PHE GLU TYR PHE GLU SER SEQRES 6 A 648 LYS LYS LYS PHE ASP ASP ASP ILE GLU SER ARG PHE PHE SEQRES 7 A 648 ILE ILE ASN ASP ASN ASN TYR ASN GLU ASN ILE ASN LEU SEQRES 8 A 648 ILE TYR LYS ASP ILE LYS TYR CYS GLY LEU ASN ILE GLN SEQRES 9 A 648 THR THR GLY LEU GLU VAL PHE ASP GLU ASN ILE ARG LEU SEQRES 10 A 648 ILE GLN ILE ALA VAL GLU ASN TYR PRO VAL ILE ILE TYR SEQRES 11 A 648 ASP MET PHE ASN ILE ASN LYS LYS ASP ILE LEU ASP GLY SEQRES 12 A 648 LEU ARG LYS VAL LEU GLU ASN LYS ASN ILE ILE LYS ILE SEQRES 13 A 648 ILE GLN ASN GLY LYS PHE ASP ALA LYS PHE LEU LEU HIS SEQRES 14 A 648 ASN ASN PHE LYS ILE GLU ASN ILE PHE ASP THR TYR ILE SEQRES 15 A 648 ALA SER LYS LEU LEU ASP LYS ASN LYS ASN MET TYR GLY SEQRES 16 A 648 PHE LYS LEU ASN ASN ILE VAL GLU LYS TYR LEU ASN VAL SEQRES 17 A 648 ILE LEU ASP LYS GLN GLN GLN ASN SER VAL TRP ASN ASN SEQRES 18 A 648 SER LEU LEU ASN ASN ASN GLN LEU PHE TYR ALA ALA ARG SEQRES 19 A 648 ASP SER SER CYS LEU LEU LYS LEU TYR LYS LYS LEU LYS SEQRES 20 A 648 GLU GLU ILE LYS LYS GLU ASN LEU HIS ILE VAL ASN ASP SEQRES 21 A 648 ILE GLU ASN LYS CYS ILE LEU PRO ILE CYS ASP MET GLU SEQRES 22 A 648 LEU ASN GLY ILE LYS VAL ASP LEU GLU ASN LEU GLN LYS SEQRES 23 A 648 SER THR ASN GLU ILE LEU ASN GLU LEU ASN ILE GLU LYS SEQRES 24 A 648 ASP ASN LEU LYS LYS LYS LEU LYS ASP GLU ASN ILE ASN SEQRES 25 A 648 VAL ASN SER GLN GLN GLN VAL LEU LYS ALA LEU GLN LYS SEQRES 26 A 648 ASN ASN VAL ARG ASP ILE SER ASN LYS LEU ILE GLU ASN SEQRES 27 A 648 THR SER ASP SER ASN LEU LYS ASN PHE LEU ASN HIS GLU SEQRES 28 A 648 GLU ILE ILE SER LEU ARG ASN TYR ARG ARG LEU TYR LYS SEQRES 29 A 648 LEU TYR SER ALA PHE TYR LEU LYS LEU PRO LEU HIS ILE SEQRES 30 A 648 ASN THR LYS THR ASN LYS ILE HIS THR THR PHE ASN GLN SEQRES 31 A 648 LEU LYS THR PHE SER GLY ARG PHE SER SER GLU LYS PRO SEQRES 32 A 648 ASN LEU GLN GLN ILE PRO ARG GLN LYS ASN ILE ARG GLU SEQRES 33 A 648 ILE PHE ILE PRO ASN ASP ASN ASN ILE PHE ILE ILE ALA SEQRES 34 A 648 ASP PHE LYS GLN ILE GLU LEU LYS ILE ALA ALA GLU ILE SEQRES 35 A 648 THR ASN ASP GLU ILE MET LEU LYS ALA TYR ASN ASN ASN SEQRES 36 A 648 ILE ASP LEU HIS THR LEU THR ALA SER ILE ILE THR LYS SEQRES 37 A 648 LYS ASN ILE PRO ASP ILE ASN LYS GLU ASP ARG HIS ILE SEQRES 38 A 648 ALA LYS ALA ILE ASN PHE GLY LEU ILE TYR GLY MET ASN SEQRES 39 A 648 TYR VAL ASN LEU LYS ASN TYR ALA ASN THR TYR TYR GLY SEQRES 40 A 648 LEU ASN MET SER LEU ASP GLN CYS LEU TYR PHE TYR ASN SEQRES 41 A 648 SER PHE PHE GLU HIS TYR LYS GLY ILE TYR LYS TRP HIS SEQRES 42 A 648 ASN GLN VAL LYS GLN LYS ARG ALA LEU GLN TYR SER THR SEQRES 43 A 648 LEU SER ASN ARG LYS VAL ILE PHE PRO TYR PHE SER PHE SEQRES 44 A 648 THR LYS ALA LEU ASN TYR PRO VAL GLN GLY THR CYS ALA SEQRES 45 A 648 ASP ILE LEU LYS LEU ALA LEU VAL ASP LEU TYR ASP ASN SEQRES 46 A 648 LEU LYS ASP ILE ASN GLY LYS ILE ILE LEU CYS VAL HIS SEQRES 47 A 648 ASP GLU ILE ILE ILE GLU VAL ASN LYS LYS PHE GLN GLU SEQRES 48 A 648 GLU ALA LEU LYS ILE LEU VAL GLN SER MET GLU ASN SER SEQRES 49 A 648 ALA SER TYR PHE LEU LYS LYS VAL LYS CYS GLU VAL SER SEQRES 50 A 648 VAL LYS ILE ALA GLU ASN TRP GLY SER LYS ASP HET SO4 A 701 5 HET SO4 A 702 5 HET SO4 A 703 5 HET SO4 A 704 5 HET SO4 A 705 5 HET SO4 A 706 5 HET SO4 A 707 5 HET SO4 A 708 5 HET SO4 A 709 5 HET NA A 710 1 HETNAM SO4 SULFATE ION HETNAM NA SODIUM ION FORMUL 2 SO4 9(O4 S 2-) FORMUL 11 NA NA 1+ FORMUL 12 HOH *63(H2 O) HELIX 1 AA1 ILE A 3 ILE A 8 5 6 HELIX 2 AA2 ASN A 66 TYR A 73 5 8 HELIX 3 AA3 GLU A 89 GLU A 93 5 5 HELIX 4 AA4 LYS A 117 ASN A 130 1 14 HELIX 5 AA5 ASN A 139 ASN A 150 1 12 HELIX 6 AA6 THR A 160 ASP A 168 1 9 HELIX 7 AA7 LYS A 177 LEU A 186 1 10 HELIX 8 AA8 ASN A 205 GLU A 233 1 29 HELIX 9 AA9 LEU A 235 GLY A 256 1 22 HELIX 10 AB1 ASP A 260 ASN A 281 1 22 HELIX 11 AB2 GLU A 332 SER A 347 1 16 HELIX 12 AB3 LYS A 352 HIS A 356 5 5 HELIX 13 AB4 GLN A 391 GLU A 396 1 6 HELIX 14 AB5 GLN A 413 ASN A 424 1 12 HELIX 15 AB6 ASP A 425 ASN A 434 1 10 HELIX 16 AB7 ASP A 437 LYS A 448 1 12 HELIX 17 AB8 ASN A 455 ILE A 470 1 16 HELIX 18 AB9 ASN A 474 TYR A 486 1 13 HELIX 19 AC1 SER A 491 TYR A 506 1 16 HELIX 20 AC2 TYR A 506 ARG A 520 1 15 HELIX 21 AC3 SER A 538 LEU A 566 1 29 HELIX 22 AC4 PHE A 589 LEU A 609 1 21 SHEET 1 AA1 2 ILE A 19 LYS A 27 0 SHEET 2 AA1 2 GLU A 37 SER A 45 -1 O PHE A 40 N ASP A 24 SHEET 1 AA2 6 PHE A 57 ILE A 60 0 SHEET 2 AA2 6 VAL A 107 ASP A 111 1 O VAL A 107 N PHE A 58 SHEET 3 AA2 6 ILE A 95 ALA A 101 -1 N ILE A 98 O TYR A 110 SHEET 4 AA2 6 TYR A 78 THR A 85 -1 N GLN A 84 O LEU A 97 SHEET 5 AA2 6 ILE A 134 ILE A 137 1 O ILE A 136 N CYS A 79 SHEET 6 AA2 6 ILE A 157 ASP A 159 1 O PHE A 158 N LYS A 135 SHEET 1 AA3 3 LYS A 363 ILE A 364 0 SHEET 2 AA3 3 ILE A 257 VAL A 259 -1 N ILE A 257 O ILE A 364 SHEET 3 AA3 3 PHE A 398 ILE A 399 -1 O ILE A 399 N LYS A 258 SHEET 1 AA4 2 THR A 367 ASN A 369 0 SHEET 2 AA4 2 SER A 379 GLU A 381 -1 O GLU A 381 N THR A 367 SHEET 1 AA5 4 LYS A 572 VAL A 577 0 SHEET 2 AA5 4 GLU A 580 ASN A 586 -1 O GLU A 580 N VAL A 577 SHEET 3 AA5 4 ASN A 404 LYS A 412 -1 N ALA A 409 O ILE A 581 SHEET 4 AA5 4 GLU A 615 ALA A 621 -1 O GLU A 615 N LYS A 412 SHEET 1 AA6 2 GLN A 523 TYR A 524 0 SHEET 2 AA6 2 VAL A 532 ILE A 533 -1 O VAL A 532 N TYR A 524 LINK OD1 ASN A 82 NA NA A 710 1555 1555 2.50 LINK NA NA A 710 O HOH A 816 1555 1555 2.50 LINK NA NA A 710 O HOH A 819 1555 1555 2.50 LINK NA NA A 710 O HOH A 822 1555 1555 2.50 LINK NA NA A 710 O HOH A 844 1555 1555 2.50 CISPEP 1 LYS A 382 PRO A 383 0 -5.37 SITE 1 AC1 4 LYS A 519 ALA A 521 LEU A 522 GLN A 523 SITE 1 AC2 3 GLN A 194 TRP A 199 HOH A 816 SITE 1 AC3 5 GLN A 138 ASN A 139 LYS A 177 LEU A 178 SITE 2 AC3 5 HOH A 822 SITE 1 AC4 2 ASN A 384 GLN A 387 SITE 1 AC5 3 THR A 373 PHE A 374 SER A 375 SITE 1 AC6 4 LYS A 352 LYS A 382 PRO A 383 ASN A 384 SITE 1 AC7 2 ASN A 424 LYS A 511 SITE 1 AC8 3 ASN A 234 LEU A 235 HIS A 236 SITE 1 AC9 6 LYS A 169 LYS A 171 ASN A 435 HOH A 802 SITE 2 AC9 6 HOH A 807 HOH A 821 SITE 1 AD1 6 ASN A 82 GLN A 84 HOH A 816 HOH A 819 SITE 2 AD1 6 HOH A 822 HOH A 844 CRYST1 141.775 141.775 148.759 90.00 90.00 120.00 P 65 2 2 12 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 0.007053 0.004072 0.000000 0.00000 SCALE2 0.000000 0.008145 0.000000 0.00000 SCALE3 0.000000 0.000000 0.006722 0.00000