HEADER REPLICATION, TRANSFERASE 24-NOV-21 7SXQ TITLE PLASMODIUM FALCIPARUM APICOPLAST DNA POLYMERASE (EXO-MINUS) WITHOUT TITLE 2 AFFINITY TAG COMPND MOL_ID: 1; COMPND 2 MOLECULE: APICOPLAST DNA POLYMERASE; COMPND 3 CHAIN: A, B; COMPND 4 SYNONYM: PLASTID REPLICATION-REPAIR ENZYME; COMPND 5 EC: 2.7.7.7; COMPND 6 ENGINEERED: YES; COMPND 7 MUTATION: YES SOURCE MOL_ID: 1; SOURCE 2 ORGANISM_SCIENTIFIC: PLASMODIUM FALCIPARUM (ISOLATE 3D7); SOURCE 3 ORGANISM_TAXID: 36329; SOURCE 4 STRAIN: ISOLATE 3D7; SOURCE 5 GENE: PF3D7_1411400; SOURCE 6 EXPRESSION_SYSTEM: ESCHERICHIA COLI 'BL21-GOLD(DE3)PLYSS AG'; SOURCE 7 EXPRESSION_SYSTEM_TAXID: 866768 KEYWDS DNA POLYMERASE, EXONULEASE, APICOPLAST, PLASMODIUM FALCIPARUM, KEYWDS 2 REPLICATION, TRANSFERASE EXPDTA X-RAY DIFFRACTION AUTHOR N.NIETO,P.CHHEDA,R.KERNS,S.NELSON,R.HONZATKO REVDAT 2 18-OCT-23 7SXQ 1 REMARK REVDAT 1 19-OCT-22 7SXQ 0 JRNL AUTH P.R.CHHEDA,N.NIETO,S.KAUR,J.M.BECK,J.R.BECK,R.HONZATKO, JRNL AUTH 2 R.J.KERNS,S.W.NELSON JRNL TITL PROMISING ANTIMALARIALS TARGETING APICOPLAST DNA POLYMERASE JRNL TITL 2 FROM PLASMODIUM FALCIPARUM. JRNL REF EUR.J.MED.CHEM. V. 243 14751 2022 JRNL REFN ISSN 0223-5234 JRNL PMID 36191407 JRNL DOI 10.1016/J.EJMECH.2022.114751 REMARK 1 REMARK 1 REFERENCE 1 REMARK 1 AUTH M.E.MILTON,J.Y.CHOE,R.B.HONZATKO,S.W.NELSON REMARK 1 TITL CRYSTAL STRUCTURE OF THE APICOPLAST DNA POLYMERASE FROM REMARK 1 TITL 2 PLASMODIUM FALCIPARUM: THE FIRST LOOK AT A PLASTIDIC REMARK 1 TITL 3 A-FAMILY DNA POLYMERASE REMARK 1 REF J. MOL. BIOL. V. 428 3920 2016 REMARK 1 REFN ISSN 0022-2836 REMARK 1 PMID 27487482 REMARK 1 DOI 10.1016/J.JMB.2016.07.016 REMARK 2 REMARK 2 RESOLUTION. 2.50 ANGSTROMS. REMARK 3 REMARK 3 REFINEMENT. REMARK 3 PROGRAM : PHENIX 1.19_4092 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 : GEOSTD + MONOMER LIBRARY + CDL V1.2 REMARK 3 REMARK 3 DATA USED IN REFINEMENT. REMARK 3 RESOLUTION RANGE HIGH (ANGSTROMS) : 2.50 REMARK 3 RESOLUTION RANGE LOW (ANGSTROMS) : 19.97 REMARK 3 MIN(FOBS/SIGMA_FOBS) : 1.350 REMARK 3 COMPLETENESS FOR RANGE (%) : 100.0 REMARK 3 NUMBER OF REFLECTIONS : 66504 REMARK 3 REMARK 3 FIT TO DATA USED IN REFINEMENT. REMARK 3 R VALUE (WORKING + TEST SET) : 0.201 REMARK 3 R VALUE (WORKING SET) : 0.201 REMARK 3 FREE R VALUE : 0.225 REMARK 3 FREE R VALUE TEST SET SIZE (%) : 3.000 REMARK 3 FREE R VALUE TEST SET COUNT : 1996 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 19.9700 - 5.9800 1.00 4672 145 0.1898 0.2074 REMARK 3 2 5.9800 - 4.7700 1.00 4621 146 0.1845 0.2080 REMARK 3 3 4.7700 - 4.1700 1.00 4639 146 0.1623 0.1808 REMARK 3 4 4.1700 - 3.8000 1.00 4593 141 0.1779 0.2021 REMARK 3 5 3.8000 - 3.5300 1.00 4588 142 0.1973 0.2109 REMARK 3 6 3.5300 - 3.3200 1.00 4605 144 0.2059 0.2293 REMARK 3 7 3.3200 - 3.1500 1.00 4610 146 0.2237 0.2916 REMARK 3 8 3.1500 - 3.0200 1.00 4617 140 0.2262 0.2681 REMARK 3 9 3.0200 - 2.9000 1.00 4584 138 0.2340 0.2616 REMARK 3 10 2.9000 - 2.8000 1.00 4589 142 0.2425 0.2594 REMARK 3 11 2.8000 - 2.7100 1.00 4596 137 0.2507 0.2817 REMARK 3 12 2.7100 - 2.6400 1.00 4607 147 0.2540 0.2643 REMARK 3 13 2.6400 - 2.5700 1.00 4590 138 0.2587 0.2966 REMARK 3 14 2.5700 - 2.5000 1.00 4597 144 0.2942 0.3375 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) : 0.308 REMARK 3 PHASE ERROR (DEGREES, MAXIMUM-LIKELIHOOD BASED) : 24.133 REMARK 3 REMARK 3 B VALUES. REMARK 3 FROM WILSON PLOT (A**2) : 55.84 REMARK 3 MEAN B VALUE (OVERALL, A**2) : 68.09 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 : 0.002 9817 REMARK 3 ANGLE : 0.444 13212 REMARK 3 CHIRALITY : 0.041 1472 REMARK 3 PLANARITY : 0.003 1685 REMARK 3 DIHEDRAL : 10.229 3771 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 7SXQ COMPLIES WITH FORMAT V. 3.30, 13-JUL-11 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY RCSB ON 29-NOV-21. REMARK 100 THE DEPOSITION ID IS D_1000261310. REMARK 200 REMARK 200 EXPERIMENTAL DETAILS REMARK 200 EXPERIMENT TYPE : X-RAY DIFFRACTION REMARK 200 DATE OF DATA COLLECTION : 08-JUL-20 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-D REMARK 200 X-RAY GENERATOR MODEL : NULL REMARK 200 MONOCHROMATIC OR LAUE (M/L) : M REMARK 200 WAVELENGTH OR RANGE (A) : 1.0 REMARK 200 MONOCHROMATOR : NULL REMARK 200 OPTICS : NULL REMARK 200 REMARK 200 DETECTOR TYPE : PIXEL REMARK 200 DETECTOR MANUFACTURER : DECTRIS PILATUS3 6M REMARK 200 INTENSITY-INTEGRATION SOFTWARE : HKL-3000 REMARK 200 DATA SCALING SOFTWARE : HKL-3000 REMARK 200 REMARK 200 NUMBER OF UNIQUE REFLECTIONS : 66691 REMARK 200 RESOLUTION RANGE HIGH (A) : 2.500 REMARK 200 RESOLUTION RANGE LOW (A) : 20.000 REMARK 200 REJECTION CRITERIA (SIGMA(I)) : NULL REMARK 200 REMARK 200 OVERALL. REMARK 200 COMPLETENESS FOR RANGE (%) : 100.0 REMARK 200 DATA REDUNDANCY : 10.20 REMARK 200 R MERGE (I) : NULL REMARK 200 R SYM (I) : NULL REMARK 200 <I/SIGMA(I)> FOR THE DATA SET : 17.8000 REMARK 200 REMARK 200 IN THE HIGHEST RESOLUTION SHELL. REMARK 200 HIGHEST RESOLUTION SHELL, RANGE HIGH (A) : 2.50 REMARK 200 HIGHEST RESOLUTION SHELL, RANGE LOW (A) : 2.64 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 <I/SIGMA(I)> 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: PHENIX REMARK 200 STARTING MODEL: 5DKU REMARK 200 REMARK 200 REMARK: HEXAGONAL BIPYRAMIDAL REMARK 280 REMARK 280 CRYSTAL REMARK 280 SOLVENT CONTENT, VS (%): 63.16 REMARK 280 MATTHEWS COEFFICIENT, VM (ANGSTROMS**3/DA): 3.34 REMARK 280 REMARK 280 CRYSTALLIZATION CONDITIONS: EQUAL PARTS OF PROTEIN AND PRECIPITANT REMARK 280 SOLUTIONS. PROTEIN SOLUTION: 20 MG/ML PROTEIN, 20 MM TRIS, PH REMARK 280 8.0, 500 MM NACL, 10% GLYCEROL AND 5 MM IMIDAZOLE. PRECIPITANT REMARK 280 SOLUTION: PEG 1000 30% (V/V), 100 MM SODIUM CITRATE TRIBASIC REMARK 280 DIHYDRATE, PH 5.5, 400 MM NACL, VAPOR DIFFUSION, HANGING DROP, REMARK 280 TEMPERATURE 277K REMARK 290 REMARK 290 CRYSTALLOGRAPHIC SYMMETRY REMARK 290 SYMMETRY OPERATORS FOR SPACE GROUP: P 65 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 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 110.00400 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 55.00200 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 82.50300 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 27.50100 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 137.50500 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 SOFTWARE DETERMINED QUATERNARY STRUCTURE: MONOMERIC REMARK 350 SOFTWARE USED: PISA 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 AUTHOR DETERMINED BIOLOGICAL UNIT: MONOMERIC REMARK 350 SOFTWARE DETERMINED QUATERNARY STRUCTURE: MONOMERIC REMARK 350 SOFTWARE USED: PISA REMARK 350 APPLY THE FOLLOWING TO CHAINS: 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 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 GLU A 331 REMARK 465 GLU A 332 REMARK 465 ILE A 333 REMARK 465 LYS A 627 REMARK 465 ASP A 628 REMARK 465 ASP B 1 REMARK 465 GLU B 2 REMARK 465 LYS B 283 REMARK 465 LYS B 284 REMARK 465 LYS B 285 REMARK 465 LEU B 286 REMARK 465 LYS B 287 REMARK 465 ASP B 288 REMARK 465 GLU B 289 REMARK 465 ASN B 290 REMARK 465 ILE B 291 REMARK 465 ASN B 292 REMARK 465 VAL B 293 REMARK 465 ASN B 294 REMARK 465 SER B 295 REMARK 465 GLN B 296 REMARK 465 GLN B 297 REMARK 465 GLN B 298 REMARK 465 VAL B 299 REMARK 465 LEU B 300 REMARK 465 LYS B 301 REMARK 465 ALA B 302 REMARK 465 LEU B 303 REMARK 465 GLN B 304 REMARK 465 LYS B 305 REMARK 465 ASN B 306 REMARK 465 ASN B 307 REMARK 465 VAL B 308 REMARK 465 ARG B 309 REMARK 465 ASP B 310 REMARK 465 ILE B 311 REMARK 465 SER B 312 REMARK 465 ASN B 313 REMARK 465 LYS B 314 REMARK 465 LEU B 315 REMARK 465 ILE B 316 REMARK 465 GLU B 317 REMARK 465 ASN B 318 REMARK 465 THR B 319 REMARK 465 SER B 320 REMARK 465 ASP B 321 REMARK 465 SER B 322 REMARK 465 ASN B 323 REMARK 465 LEU B 324 REMARK 465 LYS B 325 REMARK 465 ASN B 326 REMARK 465 PHE B 327 REMARK 465 LEU B 328 REMARK 465 ASN B 329 REMARK 465 HIS B 330 REMARK 465 GLU B 331 REMARK 465 GLU B 332 REMARK 465 ILE B 333 REMARK 465 LYS B 627 REMARK 465 ASP B 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 ASP A 1 H THR A 4 1.60 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 ILE A 3 -64.65 -108.91 REMARK 500 ASP A 16 24.68 -152.38 REMARK 500 ASN A 18 41.23 -146.51 REMARK 500 ASN A 30 -169.88 -118.49 REMARK 500 ASP A 50 43.07 -77.75 REMARK 500 ASN A 139 67.97 68.18 REMARK 500 ASN A 156 98.44 77.81 REMARK 500 LEU A 282 -61.69 -97.42 REMARK 500 PHE A 349 -68.20 -125.61 REMARK 500 GLN A 413 55.82 -143.31 REMARK 500 GLN A 413 55.82 -145.08 REMARK 500 ASN A 489 60.36 61.83 REMARK 500 HIS A 578 -119.48 51.40 REMARK 500 VAL B 15 -71.48 -96.29 REMARK 500 ASP B 51 -162.21 -103.69 REMARK 500 ASN B 139 69.00 62.18 REMARK 500 ASN B 156 99.16 72.12 REMARK 500 PHE B 349 -66.94 -141.73 REMARK 500 ASN B 401 -178.04 -63.73 REMARK 500 ASN B 489 73.87 59.39 REMARK 500 HIS B 578 -118.48 50.54 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 706 NA REMARK 620 N RES CSSEQI ATOM REMARK 620 1 ASN A 82 OD1 REMARK 620 2 GLN A 138 O 166.9 REMARK 620 3 ASP A 143 OD2 84.2 94.1 REMARK 620 4 HOH A 897 O 79.5 87.5 86.2 REMARK 620 5 HOH A 941 O 102.3 90.8 99.1 174.5 REMARK 620 6 HOH A 991 O 90.2 91.8 174.1 94.4 80.4 REMARK 620 N 1 2 3 4 5 REMARK 620 REMARK 620 COORDINATION ANGLES FOR: M RES CSSEQI METAL REMARK 620 NA B 707 NA REMARK 620 N RES CSSEQI ATOM REMARK 620 1 ASN B 82 OD1 REMARK 620 2 GLN B 138 O 172.6 REMARK 620 3 ASP B 143 OD2 89.8 92.2 REMARK 620 4 HOH B 831 O 77.5 95.3 90.7 REMARK 620 5 HOH B 997 O 86.9 91.9 173.1 94.5 REMARK 620 N 1 2 3 4 REMARK 900 REMARK 900 RELATED ENTRIES REMARK 900 RELATED ID: 5DKU RELATED DB: PDB DBREF 7SXQ A 1 628 UNP Q8ILY1 Q8ILY1_PLAF7 1389 2016 DBREF 7SXQ B 1 628 UNP Q8ILY1 Q8ILY1_PLAF7 1389 2016 SEQADV 7SXQ ASN A 82 UNP Q8ILY1 ASP 1470 ENGINEERED MUTATION SEQADV 7SXQ GLN A 84 UNP Q8ILY1 GLU 1472 ENGINEERED MUTATION SEQADV 7SXQ PHE A 512 UNP Q8ILY1 TRP 1900 ENGINEERED MUTATION SEQADV 7SXQ ASN B 82 UNP Q8ILY1 ASP 1470 ENGINEERED MUTATION SEQADV 7SXQ GLN B 84 UNP Q8ILY1 GLU 1472 ENGINEERED MUTATION SEQADV 7SXQ PHE B 512 UNP Q8ILY1 TRP 1900 ENGINEERED MUTATION SEQRES 1 A 628 ASP GLU ILE THR LYS LYS TYR ILE LYS ASP ASN ILE ILE SEQRES 2 A 628 ASN VAL ASP ASP ASN ILE ILE LYS LYS LYS ASP ILE PHE SEQRES 3 A 628 LYS LEU LYS ASN GLU ASN ASN GLU ILE THR GLU CYS ALA SEQRES 4 A 628 PHE GLU TYR PHE GLU SER LYS LYS LYS PHE ASP ASP ASP SEQRES 5 A 628 ILE GLU SER ARG PHE PHE ILE ILE ASN ASP ASN ASN TYR SEQRES 6 A 628 ASN GLU ASN ILE ASN LEU ILE TYR LYS ASP ILE LYS TYR SEQRES 7 A 628 CYS GLY LEU ASN ILE GLN THR THR GLY LEU GLU VAL PHE SEQRES 8 A 628 ASP GLU ASN ILE ARG LEU ILE GLN ILE ALA VAL GLU ASN SEQRES 9 A 628 TYR PRO VAL ILE ILE TYR ASP MET PHE ASN ILE ASN LYS SEQRES 10 A 628 LYS ASP ILE LEU ASP GLY LEU ARG LYS VAL LEU GLU ASN SEQRES 11 A 628 LYS ASN ILE ILE LYS ILE ILE GLN ASN GLY LYS PHE ASP SEQRES 12 A 628 ALA LYS PHE LEU LEU HIS ASN ASN PHE LYS ILE GLU ASN SEQRES 13 A 628 ILE PHE ASP THR TYR ILE ALA SER LYS LEU LEU ASP LYS SEQRES 14 A 628 ASN LYS ASN MET TYR GLY PHE LYS LEU ASN ASN ILE VAL SEQRES 15 A 628 GLU LYS TYR LEU ASN VAL ILE LEU ASP LYS GLN GLN GLN SEQRES 16 A 628 ASN SER VAL TRP ASN ASN SER LEU LEU ASN ASN ASN GLN SEQRES 17 A 628 LEU PHE TYR ALA ALA ARG ASP SER SER CYS LEU LEU LYS SEQRES 18 A 628 LEU TYR LYS LYS LEU LYS GLU GLU ILE LYS LYS GLU ASN SEQRES 19 A 628 LEU HIS ILE VAL ASN ASP ILE GLU ASN LYS CYS ILE LEU SEQRES 20 A 628 PRO ILE CYS ASP MET GLU LEU ASN GLY ILE LYS VAL ASP SEQRES 21 A 628 LEU GLU ASN LEU GLN LYS SER THR ASN GLU ILE LEU ASN SEQRES 22 A 628 GLU LEU ASN ILE GLU LYS ASP ASN LEU LYS LYS LYS LEU SEQRES 23 A 628 LYS ASP GLU ASN ILE ASN VAL ASN SER GLN GLN GLN VAL SEQRES 24 A 628 LEU LYS ALA LEU GLN LYS ASN ASN VAL ARG ASP ILE SER SEQRES 25 A 628 ASN LYS LEU ILE GLU ASN THR SER ASP SER ASN LEU LYS SEQRES 26 A 628 ASN PHE LEU ASN HIS GLU GLU ILE ILE SER LEU ARG ASN SEQRES 27 A 628 TYR ARG ARG LEU TYR LYS LEU TYR SER ALA PHE TYR LEU SEQRES 28 A 628 LYS LEU PRO LEU HIS ILE ASN THR LYS THR ASN LYS ILE SEQRES 29 A 628 HIS THR THR PHE ASN GLN LEU LYS THR PHE SER GLY ARG SEQRES 30 A 628 PHE SER SER GLU LYS PRO ASN LEU GLN GLN ILE PRO ARG SEQRES 31 A 628 GLN LYS ASN ILE ARG GLU ILE PHE ILE PRO ASN ASP ASN SEQRES 32 A 628 ASN ILE PHE ILE ILE ALA ASP PHE LYS GLN ILE GLU LEU SEQRES 33 A 628 LYS ILE ALA ALA GLU ILE THR ASN ASP GLU ILE MET LEU SEQRES 34 A 628 LYS ALA TYR ASN ASN ASN ILE ASP LEU HIS THR LEU THR SEQRES 35 A 628 ALA SER ILE ILE THR LYS LYS ASN ILE PRO ASP ILE ASN SEQRES 36 A 628 LYS GLU ASP ARG HIS ILE ALA LYS ALA ILE ASN PHE GLY SEQRES 37 A 628 LEU ILE TYR GLY MET ASN TYR VAL ASN LEU LYS ASN TYR SEQRES 38 A 628 ALA ASN THR TYR TYR GLY LEU ASN MET SER LEU ASP GLN SEQRES 39 A 628 CYS LEU TYR PHE TYR ASN SER PHE PHE GLU HIS TYR LYS SEQRES 40 A 628 GLY ILE TYR LYS PHE HIS ASN GLN VAL LYS GLN LYS ARG SEQRES 41 A 628 ALA LEU GLN TYR SER THR LEU SER ASN ARG LYS VAL ILE SEQRES 42 A 628 PHE PRO TYR PHE SER PHE THR LYS ALA LEU ASN TYR PRO SEQRES 43 A 628 VAL GLN GLY THR CYS ALA ASP ILE LEU LYS LEU ALA LEU SEQRES 44 A 628 VAL ASP LEU TYR ASP ASN LEU LYS ASP ILE ASN GLY LYS SEQRES 45 A 628 ILE ILE LEU CYS VAL HIS ASP GLU ILE ILE ILE GLU VAL SEQRES 46 A 628 ASN LYS LYS PHE GLN GLU GLU ALA LEU LYS ILE LEU VAL SEQRES 47 A 628 GLN SER MET GLU ASN SER ALA SER TYR PHE LEU LYS LYS SEQRES 48 A 628 VAL LYS CYS GLU VAL SER VAL LYS ILE ALA GLU ASN TRP SEQRES 49 A 628 GLY SER LYS ASP SEQRES 1 B 628 ASP GLU ILE THR LYS LYS TYR ILE LYS ASP ASN ILE ILE SEQRES 2 B 628 ASN VAL ASP ASP ASN ILE ILE LYS LYS LYS ASP ILE PHE SEQRES 3 B 628 LYS LEU LYS ASN GLU ASN ASN GLU ILE THR GLU CYS ALA SEQRES 4 B 628 PHE GLU TYR PHE GLU SER LYS LYS LYS PHE ASP ASP ASP SEQRES 5 B 628 ILE GLU SER ARG PHE PHE ILE ILE ASN ASP ASN ASN TYR SEQRES 6 B 628 ASN GLU ASN ILE ASN LEU ILE TYR LYS ASP ILE LYS TYR SEQRES 7 B 628 CYS GLY LEU ASN ILE GLN THR THR GLY LEU GLU VAL PHE SEQRES 8 B 628 ASP GLU ASN ILE ARG LEU ILE GLN ILE ALA VAL GLU ASN SEQRES 9 B 628 TYR PRO VAL ILE ILE TYR ASP MET PHE ASN ILE ASN LYS SEQRES 10 B 628 LYS ASP ILE LEU ASP GLY LEU ARG LYS VAL LEU GLU ASN SEQRES 11 B 628 LYS ASN ILE ILE LYS ILE ILE GLN ASN GLY LYS PHE ASP SEQRES 12 B 628 ALA LYS PHE LEU LEU HIS ASN ASN PHE LYS ILE GLU ASN SEQRES 13 B 628 ILE PHE ASP THR TYR ILE ALA SER LYS LEU LEU ASP LYS SEQRES 14 B 628 ASN LYS ASN MET TYR GLY PHE LYS LEU ASN ASN ILE VAL SEQRES 15 B 628 GLU LYS TYR LEU ASN VAL ILE LEU ASP LYS GLN GLN GLN SEQRES 16 B 628 ASN SER VAL TRP ASN ASN SER LEU LEU ASN ASN ASN GLN SEQRES 17 B 628 LEU PHE TYR ALA ALA ARG ASP SER SER CYS LEU LEU LYS SEQRES 18 B 628 LEU TYR LYS LYS LEU LYS GLU GLU ILE LYS LYS GLU ASN SEQRES 19 B 628 LEU HIS ILE VAL ASN ASP ILE GLU ASN LYS CYS ILE LEU SEQRES 20 B 628 PRO ILE CYS ASP MET GLU LEU ASN GLY ILE LYS VAL ASP SEQRES 21 B 628 LEU GLU ASN LEU GLN LYS SER THR ASN GLU ILE LEU ASN SEQRES 22 B 628 GLU LEU ASN ILE GLU LYS ASP ASN LEU LYS LYS LYS LEU SEQRES 23 B 628 LYS ASP GLU ASN ILE ASN VAL ASN SER GLN GLN GLN VAL SEQRES 24 B 628 LEU LYS ALA LEU GLN LYS ASN ASN VAL ARG ASP ILE SER SEQRES 25 B 628 ASN LYS LEU ILE GLU ASN THR SER ASP SER ASN LEU LYS SEQRES 26 B 628 ASN PHE LEU ASN HIS GLU GLU ILE ILE SER LEU ARG ASN SEQRES 27 B 628 TYR ARG ARG LEU TYR LYS LEU TYR SER ALA PHE TYR LEU SEQRES 28 B 628 LYS LEU PRO LEU HIS ILE ASN THR LYS THR ASN LYS ILE SEQRES 29 B 628 HIS THR THR PHE ASN GLN LEU LYS THR PHE SER GLY ARG SEQRES 30 B 628 PHE SER SER GLU LYS PRO ASN LEU GLN GLN ILE PRO ARG SEQRES 31 B 628 GLN LYS ASN ILE ARG GLU ILE PHE ILE PRO ASN ASP ASN SEQRES 32 B 628 ASN ILE PHE ILE ILE ALA ASP PHE LYS GLN ILE GLU LEU SEQRES 33 B 628 LYS ILE ALA ALA GLU ILE THR ASN ASP GLU ILE MET LEU SEQRES 34 B 628 LYS ALA TYR ASN ASN ASN ILE ASP LEU HIS THR LEU THR SEQRES 35 B 628 ALA SER ILE ILE THR LYS LYS ASN ILE PRO ASP ILE ASN SEQRES 36 B 628 LYS GLU ASP ARG HIS ILE ALA LYS ALA ILE ASN PHE GLY SEQRES 37 B 628 LEU ILE TYR GLY MET ASN TYR VAL ASN LEU LYS ASN TYR SEQRES 38 B 628 ALA ASN THR TYR TYR GLY LEU ASN MET SER LEU ASP GLN SEQRES 39 B 628 CYS LEU TYR PHE TYR ASN SER PHE PHE GLU HIS TYR LYS SEQRES 40 B 628 GLY ILE TYR LYS PHE HIS ASN GLN VAL LYS GLN LYS ARG SEQRES 41 B 628 ALA LEU GLN TYR SER THR LEU SER ASN ARG LYS VAL ILE SEQRES 42 B 628 PHE PRO TYR PHE SER PHE THR LYS ALA LEU ASN TYR PRO SEQRES 43 B 628 VAL GLN GLY THR CYS ALA ASP ILE LEU LYS LEU ALA LEU SEQRES 44 B 628 VAL ASP LEU TYR ASP ASN LEU LYS ASP ILE ASN GLY LYS SEQRES 45 B 628 ILE ILE LEU CYS VAL HIS ASP GLU ILE ILE ILE GLU VAL SEQRES 46 B 628 ASN LYS LYS PHE GLN GLU GLU ALA LEU LYS ILE LEU VAL SEQRES 47 B 628 GLN SER MET GLU ASN SER ALA SER TYR PHE LEU LYS LYS SEQRES 48 B 628 VAL LYS CYS GLU VAL SER VAL LYS ILE ALA GLU ASN TRP SEQRES 49 B 628 GLY SER LYS ASP HET PEG A 701 17 HET PEG A 702 17 HET CL A 703 1 HET CL A 704 1 HET CL A 705 1 HET NA A 706 1 HET EDO B 701 10 HET PEG B 702 17 HET PEG B 703 17 HET CL B 704 1 HET CL B 705 1 HET CL B 706 1 HET NA B 707 1 HETNAM PEG DI(HYDROXYETHYL)ETHER HETNAM CL CHLORIDE ION HETNAM NA SODIUM ION HETNAM EDO 1,2-ETHANEDIOL HETSYN EDO ETHYLENE GLYCOL FORMUL 3 PEG 4(C4 H10 O3) FORMUL 5 CL 6(CL 1-) FORMUL 8 NA 2(NA 1+) FORMUL 9 EDO C2 H6 O2 FORMUL 16 HOH *435(H2 O) HELIX 1 AA1 TYR A 7 ASP A 10 5 4 HELIX 2 AA2 ASN A 66 LYS A 74 5 9 HELIX 3 AA3 PHE A 113 ILE A 115 5 3 HELIX 4 AA4 LYS A 117 ILE A 120 5 4 HELIX 5 AA5 LEU A 121 ASN A 130 1 10 HELIX 6 AA6 ASN A 139 ASN A 150 1 12 HELIX 7 AA7 THR A 160 LYS A 169 1 10 HELIX 8 AA8 LYS A 177 ASN A 187 1 11 HELIX 9 AA9 ASP A 191 SER A 197 5 7 HELIX 10 AB1 ASN A 206 GLU A 233 1 28 HELIX 11 AB2 LEU A 235 GLY A 256 1 22 HELIX 12 AB3 ASP A 260 LYS A 283 1 24 HELIX 13 AB4 SER A 335 PHE A 349 1 15 HELIX 14 AB5 LYS A 352 ILE A 357 5 6 HELIX 15 AB6 ASN A 384 ILE A 388 5 5 HELIX 16 AB7 GLN A 391 GLU A 396 1 6 HELIX 17 AB8 GLN A 413 ASN A 424 1 12 HELIX 18 AB9 ASP A 425 ASN A 434 1 10 HELIX 19 AC1 ASP A 437 LYS A 448 1 12 HELIX 20 AC2 ASN A 450 ILE A 454 5 5 HELIX 21 AC3 ASN A 455 TYR A 471 1 17 HELIX 22 AC4 ASN A 474 GLY A 487 1 14 HELIX 23 AC5 SER A 491 TYR A 506 1 16 HELIX 24 AC6 TYR A 506 ARG A 520 1 15 HELIX 25 AC7 SER A 538 LEU A 566 1 29 HELIX 26 AC8 LYS A 567 ASN A 570 5 4 HELIX 27 AC9 PHE A 589 LEU A 609 1 21 HELIX 28 AD1 TYR B 7 ASP B 10 5 4 HELIX 29 AD2 ASN B 66 LYS B 74 5 9 HELIX 30 AD3 GLU B 89 GLU B 93 5 5 HELIX 31 AD4 PHE B 113 ILE B 115 5 3 HELIX 32 AD5 LYS B 117 ILE B 120 5 4 HELIX 33 AD6 LEU B 121 ASN B 130 1 10 HELIX 34 AD7 ASN B 139 ASN B 150 1 12 HELIX 35 AD8 THR B 160 LYS B 169 1 10 HELIX 36 AD9 LYS B 177 ASN B 187 1 11 HELIX 37 AE1 LYS B 192 SER B 197 1 6 HELIX 38 AE2 ASN B 206 GLU B 233 1 28 HELIX 39 AE3 LEU B 235 CYS B 245 1 11 HELIX 40 AE4 CYS B 245 GLY B 256 1 12 HELIX 41 AE5 ASP B 260 LEU B 282 1 23 HELIX 42 AE6 SER B 335 PHE B 349 1 15 HELIX 43 AE7 LYS B 352 ILE B 357 5 6 HELIX 44 AE8 ASN B 384 ILE B 388 5 5 HELIX 45 AE9 GLN B 391 GLU B 396 1 6 HELIX 46 AF1 GLN B 413 ASN B 424 1 12 HELIX 47 AF2 ASP B 425 ASN B 434 1 10 HELIX 48 AF3 ASP B 437 LYS B 448 1 12 HELIX 49 AF4 ASN B 450 ILE B 454 5 5 HELIX 50 AF5 ASN B 455 TYR B 471 1 17 HELIX 51 AF6 ASN B 474 TYR B 486 1 13 HELIX 52 AF7 SER B 491 TYR B 506 1 16 HELIX 53 AF8 TYR B 506 ARG B 520 1 15 HELIX 54 AF9 SER B 538 LEU B 566 1 29 HELIX 55 AG1 LYS B 567 ASN B 570 5 4 HELIX 56 AG2 PHE B 589 LEU B 609 1 21 SHEET 1 AA1 2 ILE A 12 ILE A 13 0 SHEET 2 AA1 2 LEU A 204 ASN A 205 1 O LEU A 204 N ILE A 13 SHEET 1 AA2 2 ILE A 20 LYS A 29 0 SHEET 2 AA2 2 ILE A 35 GLU A 44 -1 O CYS A 38 N PHE A 26 SHEET 1 AA3 6 PHE A 57 ILE A 60 0 SHEET 2 AA3 6 VAL A 107 ASP A 111 1 O ILE A 109 N PHE A 58 SHEET 3 AA3 6 ILE A 95 ALA A 101 -1 N ILE A 98 O TYR A 110 SHEET 4 AA3 6 TYR A 78 THR A 85 -1 N ASN A 82 O GLN A 99 SHEET 5 AA3 6 ILE A 134 ILE A 137 1 O ILE A 136 N LEU A 81 SHEET 6 AA3 6 ILE A 157 ASP A 159 1 O PHE A 158 N LYS A 135 SHEET 1 AA4 3 LYS A 363 ILE A 364 0 SHEET 2 AA4 3 ILE A 257 VAL A 259 -1 N ILE A 257 O ILE A 364 SHEET 3 AA4 3 PHE A 398 ILE A 399 -1 O ILE A 399 N LYS A 258 SHEET 1 AA5 2 THR A 367 ASN A 369 0 SHEET 2 AA5 2 SER A 379 GLU A 381 -1 O SER A 379 N ASN A 369 SHEET 1 AA6 4 LYS A 572 VAL A 577 0 SHEET 2 AA6 4 GLU A 580 ASN A 586 -1 O GLU A 584 N LYS A 572 SHEET 3 AA6 4 ASN A 404 PHE A 411 -1 N ILE A 405 O VAL A 585 SHEET 4 AA6 4 VAL A 616 ALA A 621 -1 O SER A 617 N ASP A 410 SHEET 1 AA7 2 GLN A 523 SER A 525 0 SHEET 2 AA7 2 LYS A 531 ILE A 533 -1 O VAL A 532 N TYR A 524 SHEET 1 AA8 2 ILE B 12 ILE B 13 0 SHEET 2 AA8 2 LEU B 204 ASN B 205 1 O LEU B 204 N ILE B 13 SHEET 1 AA9 2 ILE B 20 PHE B 26 0 SHEET 2 AA9 2 CYS B 38 GLU B 44 -1 O TYR B 42 N LYS B 22 SHEET 1 AB1 6 PHE B 57 ILE B 60 0 SHEET 2 AB1 6 VAL B 107 ASP B 111 1 O VAL B 107 N PHE B 58 SHEET 3 AB1 6 ILE B 95 ALA B 101 -1 N ILE B 100 O ILE B 108 SHEET 4 AB1 6 TYR B 78 THR B 85 -1 N ASN B 82 O GLN B 99 SHEET 5 AB1 6 ILE B 134 ILE B 137 1 O ILE B 136 N LEU B 81 SHEET 6 AB1 6 ILE B 157 ASP B 159 1 O PHE B 158 N ILE B 137 SHEET 1 AB2 3 LYS B 363 ILE B 364 0 SHEET 2 AB2 3 ILE B 257 VAL B 259 -1 N ILE B 257 O ILE B 364 SHEET 3 AB2 3 PHE B 398 ILE B 399 -1 O ILE B 399 N LYS B 258 SHEET 1 AB3 2 THR B 367 ASN B 369 0 SHEET 2 AB3 2 SER B 379 GLU B 381 -1 O SER B 379 N ASN B 369 SHEET 1 AB4 4 LYS B 572 VAL B 577 0 SHEET 2 AB4 4 GLU B 580 ASN B 586 -1 O GLU B 584 N LYS B 572 SHEET 3 AB4 4 ASN B 404 PHE B 411 -1 N ILE B 405 O VAL B 585 SHEET 4 AB4 4 VAL B 616 ALA B 621 -1 O SER B 617 N ASP B 410 SHEET 1 AB5 2 GLN B 523 SER B 525 0 SHEET 2 AB5 2 LYS B 531 ILE B 533 -1 O VAL B 532 N TYR B 524 LINK OD1 ASN A 82 NA NA A 706 1555 1555 2.49 LINK O GLN A 138 NA NA A 706 1555 1555 2.48 LINK OD2 ASP A 143 NA NA A 706 1555 1555 2.49 LINK NA NA A 706 O HOH A 897 1555 1555 2.50 LINK NA NA A 706 O HOH A 941 1555 1555 2.50 LINK NA NA A 706 O HOH A 991 1555 1555 2.50 LINK OD1 ASN B 82 NA NA B 707 1555 1555 2.51 LINK O GLN B 138 NA NA B 707 1555 1555 2.52 LINK OD2 ASP B 143 NA NA B 707 1555 1555 2.49 LINK NA NA B 707 O HOH B 831 1555 1555 2.50 LINK NA NA B 707 O HOH B 997 1555 1555 2.49 CISPEP 1 LYS A 382 PRO A 383 0 -3.78 CISPEP 2 LYS B 382 PRO B 383 0 -3.22 CRYST1 143.999 143.999 165.006 90.00 90.00 120.00 P 65 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 0.006944 0.004009 0.000000 0.00000 SCALE2 0.000000 0.008019 0.000000 0.00000 SCALE3 0.000000 0.000000 0.006060 0.00000