HEADER TRANSFERASE 07-SEP-16 5LTN TITLE CRYSTAL STRUCTURE OF LYMPHOCYTIC CHORIOMENINGITIS MAMMARENAVIRUS TITLE 2 ENDONUCLEASE COMPLEXED WITH DPBA COMPND MOL_ID: 1; COMPND 2 MOLECULE: RNA-DIRECTED RNA POLYMERASE L; COMPND 3 CHAIN: A, B; COMPND 4 SYNONYM: PROTEIN L; COMPND 5 EC: 2.7.7.48; COMPND 6 ENGINEERED: YES SOURCE MOL_ID: 1; SOURCE 2 ORGANISM_SCIENTIFIC: LYMPHOCYTIC CHORIOMENINGITIS MAMMARENAVIRUS; SOURCE 3 ORGANISM_TAXID: 11623; SOURCE 4 GENE: L, KUE_IGS320002; SOURCE 5 EXPRESSION_SYSTEM: ESCHERICHIA COLI; SOURCE 6 EXPRESSION_SYSTEM_TAXID: 562 KEYWDS ENDONUCLEASE, LCMV ARENAVIRUS DPBA, TRANSFERASE EXPDTA X-RAY DIFFRACTION AUTHOR M.SAEZ-AYALA,E.L.YEKWA,B.CANARD,K.ALVAREZ,F.FERRON REVDAT 5 17-JAN-24 5LTN 1 REMARK LINK REVDAT 4 16-OCT-19 5LTN 1 JRNL REMARK REVDAT 3 30-MAY-18 5LTN 1 JRNL REVDAT 2 18-APR-18 5LTN 1 JRNL REVDAT 1 13-SEP-17 5LTN 0 JRNL AUTH M.SAEZ-AYALA,E.L.YEKWA,M.CARCELLI,B.CANARD,K.ALVAREZ, JRNL AUTH 2 F.FERRON JRNL TITL CRYSTAL STRUCTURES OF LYMPHOCYTIC CHORIOMENINGITIS JRNL TITL 2 VIRUSENDONUCLEASE DOMAIN COMPLEXED WITH DIKETO-ACID LIGANDS. JRNL REF IUCRJ V. 5 223 2018 JRNL REFN ESSN 2052-2525 JRNL PMID 29765612 JRNL DOI 10.1107/S2052252518001021 REMARK 2 REMARK 2 RESOLUTION. 1.88 ANGSTROMS. REMARK 3 REMARK 3 REFINEMENT. REMARK 3 PROGRAM : PHENIX (1.10.1_2155: ???) 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) : 1.88 REMARK 3 RESOLUTION RANGE LOW (ANGSTROMS) : 53.59 REMARK 3 MIN(FOBS/SIGMA_FOBS) : 0.600 REMARK 3 COMPLETENESS FOR RANGE (%) : 99.7 REMARK 3 NUMBER OF REFLECTIONS : 49844 REMARK 3 REMARK 3 FIT TO DATA USED IN REFINEMENT. REMARK 3 R VALUE (WORKING + TEST SET) : 0.192 REMARK 3 R VALUE (WORKING SET) : 0.190 REMARK 3 FREE R VALUE : 0.216 REMARK 3 FREE R VALUE TEST SET SIZE (%) : 4.930 REMARK 3 FREE R VALUE TEST SET COUNT : 2457 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 53.6143 - 4.9259 1.00 2743 135 0.1884 0.2051 REMARK 3 2 4.9259 - 3.9102 1.00 2671 142 0.1570 0.1601 REMARK 3 3 3.9102 - 3.4160 1.00 2687 111 0.1742 0.2048 REMARK 3 4 3.4160 - 3.1037 1.00 2670 124 0.1814 0.1873 REMARK 3 5 3.1037 - 2.8813 1.00 2663 122 0.1927 0.2468 REMARK 3 6 2.8813 - 2.7114 1.00 2596 174 0.1983 0.2581 REMARK 3 7 2.7114 - 2.5756 1.00 2647 120 0.1977 0.2015 REMARK 3 8 2.5756 - 2.4635 1.00 2619 164 0.1898 0.2206 REMARK 3 9 2.4635 - 2.3687 1.00 2617 123 0.1968 0.2197 REMARK 3 10 2.3687 - 2.2869 1.00 2617 156 0.2092 0.2834 REMARK 3 11 2.2869 - 2.2154 1.00 2613 134 0.2219 0.2371 REMARK 3 12 2.2154 - 2.1521 1.00 2595 145 0.2093 0.2326 REMARK 3 13 2.1521 - 2.0954 1.00 2632 143 0.2280 0.2756 REMARK 3 14 2.0954 - 2.0443 1.00 2614 127 0.2383 0.3008 REMARK 3 15 2.0443 - 1.9978 0.99 2539 141 0.2386 0.2744 REMARK 3 16 1.9978 - 1.9553 0.99 2646 142 0.2606 0.3030 REMARK 3 17 1.9553 - 1.9162 1.00 2565 136 0.2762 0.2821 REMARK 3 18 1.9162 - 1.8800 1.00 2653 118 0.3055 0.3289 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) : 0.210 REMARK 3 PHASE ERROR (DEGREES, MAXIMUM-LIKELIHOOD BASED) : 23.160 REMARK 3 REMARK 3 B VALUES. REMARK 3 FROM WILSON PLOT (A**2) : 37.53 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 : 0.010 3160 REMARK 3 ANGLE : 1.101 4258 REMARK 3 CHIRALITY : 0.061 478 REMARK 3 PLANARITY : 0.006 553 REMARK 3 DIHEDRAL : 18.932 1950 REMARK 3 REMARK 3 TLS DETAILS REMARK 3 NUMBER OF TLS GROUPS : 1 REMARK 3 TLS GROUP : 1 REMARK 3 SELECTION: ALL REMARK 3 ORIGIN FOR THE GROUP (A): -55.7601 -15.3583 2.1425 REMARK 3 T TENSOR REMARK 3 T11: 0.2932 T22: 0.2703 REMARK 3 T33: 0.2851 T12: -0.0090 REMARK 3 T13: 0.0497 T23: -0.0014 REMARK 3 L TENSOR REMARK 3 L11: 0.4060 L22: -0.0054 REMARK 3 L33: 0.2566 L12: 0.0305 REMARK 3 L13: -0.3325 L23: -0.0794 REMARK 3 S TENSOR REMARK 3 S11: -0.0530 S12: -0.0052 S13: -0.0841 REMARK 3 S21: -0.0456 S22: 0.0211 S23: -0.0277 REMARK 3 S31: 0.0456 S32: 0.0140 S33: 0.0029 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 5LTN COMPLIES WITH FORMAT V. 3.30, 13-JUL-11 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY PDBE ON 07-SEP-16. REMARK 100 THE DEPOSITION ID IS D_1200001337. REMARK 200 REMARK 200 EXPERIMENTAL DETAILS REMARK 200 EXPERIMENT TYPE : X-RAY DIFFRACTION REMARK 200 DATE OF DATA COLLECTION : 02-JUL-15 REMARK 200 TEMPERATURE (KELVIN) : 93 REMARK 200 PH : NULL REMARK 200 NUMBER OF CRYSTALS USED : 1 REMARK 200 REMARK 200 SYNCHROTRON (Y/N) : Y REMARK 200 RADIATION SOURCE : SOLEIL REMARK 200 BEAMLINE : PROXIMA 1 REMARK 200 X-RAY GENERATOR MODEL : NULL REMARK 200 MONOCHROMATIC OR LAUE (M/L) : M REMARK 200 WAVELENGTH OR RANGE (A) : 0.978 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 : AIMLESS 0.5.12 REMARK 200 REMARK 200 NUMBER OF UNIQUE REFLECTIONS : 241187 REMARK 200 RESOLUTION RANGE HIGH (A) : 1.880 REMARK 200 RESOLUTION RANGE LOW (A) : 53.593 REMARK 200 REJECTION CRITERIA (SIGMA(I)) : NULL REMARK 200 REMARK 200 OVERALL. REMARK 200 COMPLETENESS FOR RANGE (%) : 100.0 REMARK 200 DATA REDUNDANCY : 4.800 REMARK 200 R MERGE (I) : 0.09400 REMARK 200 R SYM (I) : NULL REMARK 200 <I/SIGMA(I)> FOR THE DATA SET : 8.5400 REMARK 200 REMARK 200 IN THE HIGHEST RESOLUTION SHELL. REMARK 200 HIGHEST RESOLUTION SHELL, RANGE HIGH (A) : 1.88 REMARK 200 HIGHEST RESOLUTION SHELL, RANGE LOW (A) : 1.95 REMARK 200 COMPLETENESS FOR SHELL (%) : 100.0 REMARK 200 DATA REDUNDANCY IN SHELL : 2.90 REMARK 200 R MERGE FOR SHELL (I) : 0.86800 REMARK 200 R SYM FOR SHELL (I) : NULL REMARK 200 <I/SIGMA(I)> FOR SHELL : 1.050 REMARK 200 REMARK 200 DIFFRACTION PROTOCOL: SINGLE WAVELENGTH REMARK 200 METHOD USED TO DETERMINE THE STRUCTURE: MOLECULAR REPLACEMENT REMARK 200 SOFTWARE USED: PHASER 2.5.6 REMARK 200 STARTING MODEL: 5LTF REMARK 200 REMARK 200 REMARK: NULL REMARK 280 REMARK 280 CRYSTAL REMARK 280 SOLVENT CONTENT, VS (%): 62.24 REMARK 280 MATTHEWS COEFFICIENT, VM (ANGSTROMS**3/DA): 3.26 REMARK 280 REMARK 280 CRYSTALLIZATION CONDITIONS: 0,1M PH 6,2, ISOPROPANOL 3,5%, MGCL2 REMARK 280 1MM, DPBA 2MM, VAPOR DIFFUSION, SITTING DROP, TEMPERATURE 293.15K REMARK 290 REMARK 290 CRYSTALLOGRAPHIC SYMMETRY REMARK 290 SYMMETRY OPERATORS FOR SPACE GROUP: P 41 REMARK 290 REMARK 290 SYMOP SYMMETRY REMARK 290 NNNMMM OPERATOR REMARK 290 1555 X,Y,Z REMARK 290 2555 -X,-Y,Z+1/2 REMARK 290 3555 -Y,X,Z+1/4 REMARK 290 4555 Y,-X,Z+3/4 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 26.90350 REMARK 290 SMTRY1 3 0.000000 -1.000000 0.000000 0.00000 REMARK 290 SMTRY2 3 1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY3 3 0.000000 0.000000 1.000000 13.45175 REMARK 290 SMTRY1 4 0.000000 1.000000 0.000000 0.00000 REMARK 290 SMTRY2 4 -1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY3 4 0.000000 0.000000 1.000000 40.35525 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 SOFTWARE DETERMINED QUATERNARY STRUCTURE: DIMERIC REMARK 350 SOFTWARE USED: PISA REMARK 350 TOTAL BURIED SURFACE AREA: 3200 ANGSTROM**2 REMARK 350 SURFACE AREA OF THE COMPLEX: 21150 ANGSTROM**2 REMARK 350 CHANGE IN SOLVENT FREE ENERGY: -60.0 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 MET A -7 REMARK 465 LYS A -6 REMARK 465 HIS A -5 REMARK 465 HIS A -4 REMARK 465 HIS A -3 REMARK 465 HIS A -2 REMARK 465 HIS A -1 REMARK 465 PHE A 183 REMARK 465 ARG A 184 REMARK 465 LEU A 185 REMARK 465 CYS A 186 REMARK 465 GLU A 187 REMARK 465 SER A 188 REMARK 465 LEU A 189 REMARK 465 LYS A 190 REMARK 465 THR A 191 REMARK 465 THR A 192 REMARK 465 ILE A 193 REMARK 465 ASP A 194 REMARK 465 LYS A 195 REMARK 465 ARG A 196 REMARK 465 MET B -7 REMARK 465 LYS B -6 REMARK 465 HIS B -5 REMARK 465 HIS B -4 REMARK 465 HIS B -3 REMARK 465 HIS B -2 REMARK 465 HIS B -1 REMARK 465 ASP B 194 REMARK 465 LYS B 195 REMARK 465 ARG B 196 REMARK 480 REMARK 480 ZERO OCCUPANCY ATOM REMARK 480 THE FOLLOWING RESIDUES HAVE ATOMS MODELED WITH ZERO REMARK 480 OCCUPANCY. THE LOCATION AND PROPERTIES OF THESE ATOMS REMARK 480 MAY NOT BE RELIABLE. (M=MODEL NUMBER; RES=RESIDUE NAME; REMARK 480 C=CHAIN IDENTIFIER; SSEQ=SEQUENCE NUMBER; I=INSERTION CODE): REMARK 480 M RES C SSEQI ATOMS REMARK 480 GLU B 181 CA CB CG CD OE1 OE2 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 MG MG A 201 O11 XI7 A 205 1.59 REMARK 500 O HOH A 301 O HOH A 308 1.91 REMARK 500 O CYS A 102 O HOH A 301 1.95 REMARK 500 OD1 ASP A 88 O HOH A 301 1.97 REMARK 500 OE1 GLU A 181 O HOH A 302 1.97 REMARK 500 O11 XI7 A 205 O HOH A 301 2.06 REMARK 500 O8 XI7 A 205 O HOH A 303 2.06 REMARK 500 O10 XI7 A 205 O HOH A 304 2.08 REMARK 500 O HOH A 381 O HOH A 391 2.15 REMARK 500 O HOH B 302 O HOH B 372 2.15 REMARK 500 OE2 GLU B 101 O HOH B 301 2.17 REMARK 500 O HOH A 303 O HOH A 376 2.19 REMARK 500 REMARK 500 REMARK: NULL REMARK 500 REMARK 500 GEOMETRY AND STEREOCHEMISTRY REMARK 500 SUBTOPIC: CLOSE CONTACTS REMARK 500 REMARK 500 THE FOLLOWING ATOMS THAT ARE RELATED BY CRYSTALLOGRAPHIC REMARK 500 SYMMETRY ARE IN CLOSE CONTACT. AN ATOM LOCATED WITHIN 0.15 REMARK 500 ANGSTROMS OF A SYMMETRY RELATED ATOM IS ASSUMED TO BE ON A REMARK 500 SPECIAL POSITION AND IS, THEREFORE, LISTED IN REMARK 375 REMARK 500 INSTEAD OF REMARK 500. ATOMS WITH NON-BLANK ALTERNATE REMARK 500 LOCATION INDICATORS ARE NOT INCLUDED IN THE CALCULATIONS. REMARK 500 REMARK 500 DISTANCE CUTOFF: REMARK 500 2.2 ANGSTROMS FOR CONTACTS NOT INVOLVING HYDROGEN ATOMS REMARK 500 1.6 ANGSTROMS FOR CONTACTS INVOLVING HYDROGEN ATOMS REMARK 500 REMARK 500 ATM1 RES C SSEQI ATM2 RES C SSEQI SSYMOP DISTANCE REMARK 500 C2 GOL B 204 O HOH A 373 2455 0.86 REMARK 500 O2 GOL B 204 O HOH A 373 2455 1.07 REMARK 500 C3 GOL B 204 O HOH A 373 2455 1.38 REMARK 500 O3 GOL B 204 O HOH A 373 2455 1.79 REMARK 500 O HOH A 356 O HOH B 319 2454 1.99 REMARK 500 O HOH A 381 O HOH B 323 2455 2.09 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 CYS A 79 83.62 -158.58 REMARK 500 ASP A 94 -123.52 56.57 REMARK 500 ASP A 94 -123.93 57.19 REMARK 500 GLU A 179 34.05 -94.42 REMARK 500 CYS B 79 101.60 -177.01 REMARK 500 LEU B 82 111.46 22.20 REMARK 500 PRO B 83 159.07 -48.29 REMARK 500 ASP B 94 -122.48 49.89 REMARK 500 LEU B 189 -7.68 -43.75 REMARK 500 LYS B 190 7.65 -54.65 REMARK 500 REMARK 500 REMARK: NULL REMARK 500 REMARK 500 GEOMETRY AND STEREOCHEMISTRY REMARK 500 SUBTOPIC: NON-CIS, NON-TRANS REMARK 500 REMARK 500 THE FOLLOWING PEPTIDE BONDS DEVIATE SIGNIFICANTLY FROM BOTH REMARK 500 CIS AND TRANS CONFORMATION. CIS BONDS, IF ANY, ARE LISTED REMARK 500 ON CISPEP RECORDS. TRANS IS DEFINED AS 180 +/- 30 AND REMARK 500 CIS IS DEFINED AS 0 +/- 30 DEGREES. REMARK 500 MODEL OMEGA REMARK 500 SER A 180 GLU A 181 -139.88 REMARK 500 REMARK 500 REMARK: NULL REMARK 615 REMARK 615 ZERO OCCUPANCY ATOM REMARK 615 THE FOLLOWING RESIDUES HAVE ATOMS MODELED WITH ZERO REMARK 615 OCCUPANCY. THE LOCATION AND PROPERTIES OF THESE ATOMS REMARK 615 MAY NOT BE RELIABLE. (M=MODEL NUMBER; RES=RESIDUE NAME; REMARK 615 C=CHAIN IDENTIFIER; SSEQ=SEQUENCE NUMBER; I=INSERTION CODE): REMARK 615 M RES C SSEQI REMARK 615 XI7 A 205 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 MG A 201 MG REMARK 620 N RES CSSEQI ATOM REMARK 620 1 ASP A 88 OD1 REMARK 620 2 GLU A 101 OE2 96.2 REMARK 620 3 XI7 A 205 O8 124.2 139.5 REMARK 620 4 HOH A 301 O 44.3 127.9 88.5 REMARK 620 5 HOH A 314 O 175.3 84.9 55.1 131.9 REMARK 620 6 HOH A 315 O 92.5 84.8 90.3 121.2 92.2 REMARK 620 7 HOH A 339 O 85.1 93.6 92.5 58.0 90.2 177.0 REMARK 620 N 1 2 3 4 5 6 REMARK 620 REMARK 620 COORDINATION ANGLES FOR: M RES CSSEQI METAL REMARK 620 MG A 202 MG REMARK 620 N RES CSSEQI ATOM REMARK 620 1 ASP A 88 OD2 REMARK 620 2 XI7 A 205 O11 75.6 REMARK 620 3 XI7 A 205 O10 67.3 56.7 REMARK 620 4 HOH A 304 O 84.4 116.3 59.7 REMARK 620 5 HOH A 315 O 95.3 64.0 120.6 179.4 REMARK 620 6 HOH A 394 O 93.7 154.3 140.4 85.0 94.5 REMARK 620 N 1 2 3 4 5 REMARK 620 REMARK 620 COORDINATION ANGLES FOR: M RES CSSEQI METAL REMARK 620 NA A 209 NA REMARK 620 N RES CSSEQI ATOM REMARK 620 1 ASP A 94 OD1 REMARK 620 2 ASP A 94 OD2 44.2 REMARK 620 3 PEG A 208 O1 66.7 110.7 REMARK 620 N 1 2 REMARK 620 REMARK 620 COORDINATION ANGLES FOR: M RES CSSEQI METAL REMARK 620 MG B 201 MG REMARK 620 N RES CSSEQI ATOM REMARK 620 1 GLU B 50 OE2 REMARK 620 2 ASP B 88 OD1 100.2 REMARK 620 3 HOH B 307 O 123.5 58.2 REMARK 620 4 HOH B 384 O 81.8 107.4 151.0 REMARK 620 5 HOH B 397 O 153.7 103.4 62.6 101.7 REMARK 620 N 1 2 3 4 REMARK 620 REMARK 620 COORDINATION ANGLES FOR: M RES CSSEQI METAL REMARK 620 MG B 202 MG REMARK 620 N RES CSSEQI ATOM REMARK 620 1 ASP B 88 OD2 REMARK 620 2 CYS B 102 O 94.9 REMARK 620 3 HOH B 301 O 69.0 120.0 REMARK 620 4 HOH B 314 O 107.4 72.0 60.4 REMARK 620 5 HOH B 384 O 108.6 78.1 161.7 134.5 REMARK 620 6 HOH B 397 O 113.5 149.3 64.4 87.8 102.2 REMARK 620 N 1 2 3 4 5 REMARK 800 REMARK 800 SITE REMARK 800 SITE_IDENTIFIER: AC1 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue MG A 201 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC2 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue MG 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 XI7 A 205 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC6 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue CL A 206 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC7 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue PEG A 207 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC8 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue PEG A 208 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC9 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue NA A 209 REMARK 800 REMARK 800 SITE_IDENTIFIER: AD1 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue NA A 210 REMARK 800 REMARK 800 SITE_IDENTIFIER: AD2 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue MG B 201 REMARK 800 REMARK 800 SITE_IDENTIFIER: AD3 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue MG B 202 REMARK 800 REMARK 800 SITE_IDENTIFIER: AD4 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue GOL B 203 REMARK 800 REMARK 800 SITE_IDENTIFIER: AD5 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue GOL B 204 REMARK 800 REMARK 800 SITE_IDENTIFIER: AD6 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue CL B 205 REMARK 900 REMARK 900 RELATED ENTRIES REMARK 900 RELATED ID: 5LTF RELATED DB: PDB REMARK 900 LCMV ENDONUCLEASE COMPLEXED WITH IONS REMARK 900 RELATED ID: 5T2T RELATED DB: PDB REMARK 900 LCMV ENDONUCLEASE COMPLEXED WITH L742001 DBREF1 5LTN A 1 196 UNP A0A059U381_9VIRU DBREF2 5LTN A A0A059U381 2 197 DBREF1 5LTN B 1 196 UNP A0A059U381_9VIRU DBREF2 5LTN B A0A059U381 2 197 SEQADV 5LTN MET A -7 UNP A0A059U38 INITIATING METHIONINE SEQADV 5LTN LYS A -6 UNP A0A059U38 EXPRESSION TAG SEQADV 5LTN HIS A -5 UNP A0A059U38 EXPRESSION TAG SEQADV 5LTN HIS A -4 UNP A0A059U38 EXPRESSION TAG SEQADV 5LTN HIS A -3 UNP A0A059U38 EXPRESSION TAG SEQADV 5LTN HIS A -2 UNP A0A059U38 EXPRESSION TAG SEQADV 5LTN HIS A -1 UNP A0A059U38 EXPRESSION TAG SEQADV 5LTN HIS A 0 UNP A0A059U38 EXPRESSION TAG SEQADV 5LTN ASP A 173 UNP A0A059U38 ASN 174 CONFLICT SEQADV 5LTN MET B -7 UNP A0A059U38 INITIATING METHIONINE SEQADV 5LTN LYS B -6 UNP A0A059U38 EXPRESSION TAG SEQADV 5LTN HIS B -5 UNP A0A059U38 EXPRESSION TAG SEQADV 5LTN HIS B -4 UNP A0A059U38 EXPRESSION TAG SEQADV 5LTN HIS B -3 UNP A0A059U38 EXPRESSION TAG SEQADV 5LTN HIS B -2 UNP A0A059U38 EXPRESSION TAG SEQADV 5LTN HIS B -1 UNP A0A059U38 EXPRESSION TAG SEQADV 5LTN HIS B 0 UNP A0A059U38 EXPRESSION TAG SEQADV 5LTN ASP B 173 UNP A0A059U38 ASN 174 CONFLICT SEQRES 1 A 204 MET LYS HIS HIS HIS HIS HIS HIS ASP GLU ILE ILE SER SEQRES 2 A 204 GLU LEU ARG GLU LEU CYS LEU ASN TYR ILE GLU GLN ASP SEQRES 3 A 204 GLU ARG LEU SER ARG GLN LYS LEU ASN PHE LEU GLY GLN SEQRES 4 A 204 ARG GLU PRO ARG MET VAL LEU ILE GLU GLY LEU LYS LEU SEQRES 5 A 204 LEU SER ARG CYS ILE GLU ILE ASP SER ALA ASP LYS SER SEQRES 6 A 204 GLY CYS THR HIS ASN HIS ASP ASP LYS SER VAL GLU THR SEQRES 7 A 204 ILE LEU VAL GLU SER GLY ILE VAL CYS PRO GLY LEU PRO SEQRES 8 A 204 LEU ILE ILE PRO ASP GLY TYR LYS LEU ILE ASP ASN SER SEQRES 9 A 204 LEU ILE LEU LEU GLU CYS PHE VAL ARG SER THR PRO ALA SEQRES 10 A 204 SER PHE GLU LYS LYS PHE ILE GLU ASP THR ASN LYS LEU SEQRES 11 A 204 ALA CYS ILE ARG GLU ASP LEU ALA VAL ALA GLY VAL THR SEQRES 12 A 204 LEU VAL PRO ILE VAL ASP GLY ARG CYS ASP TYR ASP ASN SEQRES 13 A 204 SER PHE MET PRO GLU TRP ALA ASN PHE LYS PHE ARG ASP SEQRES 14 A 204 LEU LEU PHE LYS LEU LEU GLU TYR SER ASN GLN ASP GLU SEQRES 15 A 204 LYS VAL PHE GLU GLU SER GLU TYR PHE ARG LEU CYS GLU SEQRES 16 A 204 SER LEU LYS THR THR ILE ASP LYS ARG SEQRES 1 B 204 MET LYS HIS HIS HIS HIS HIS HIS ASP GLU ILE ILE SER SEQRES 2 B 204 GLU LEU ARG GLU LEU CYS LEU ASN TYR ILE GLU GLN ASP SEQRES 3 B 204 GLU ARG LEU SER ARG GLN LYS LEU ASN PHE LEU GLY GLN SEQRES 4 B 204 ARG GLU PRO ARG MET VAL LEU ILE GLU GLY LEU LYS LEU SEQRES 5 B 204 LEU SER ARG CYS ILE GLU ILE ASP SER ALA ASP LYS SER SEQRES 6 B 204 GLY CYS THR HIS ASN HIS ASP ASP LYS SER VAL GLU THR SEQRES 7 B 204 ILE LEU VAL GLU SER GLY ILE VAL CYS PRO GLY LEU PRO SEQRES 8 B 204 LEU ILE ILE PRO ASP GLY TYR LYS LEU ILE ASP ASN SER SEQRES 9 B 204 LEU ILE LEU LEU GLU CYS PHE VAL ARG SER THR PRO ALA SEQRES 10 B 204 SER PHE GLU LYS LYS PHE ILE GLU ASP THR ASN LYS LEU SEQRES 11 B 204 ALA CYS ILE ARG GLU ASP LEU ALA VAL ALA GLY VAL THR SEQRES 12 B 204 LEU VAL PRO ILE VAL ASP GLY ARG CYS ASP TYR ASP ASN SEQRES 13 B 204 SER PHE MET PRO GLU TRP ALA ASN PHE LYS PHE ARG ASP SEQRES 14 B 204 LEU LEU PHE LYS LEU LEU GLU TYR SER ASN GLN ASP GLU SEQRES 15 B 204 LYS VAL PHE GLU GLU SER GLU TYR PHE ARG LEU CYS GLU SEQRES 16 B 204 SER LEU LYS THR THR ILE ASP LYS ARG HET MG A 201 1 HET MG A 202 1 HET GOL A 203 6 HET GOL A 204 6 HET XI7 A 205 14 HET CL A 206 1 HET PEG A 207 7 HET PEG A 208 7 HET NA A 209 1 HET NA A 210 1 HET MG B 201 1 HET MG B 202 1 HET GOL B 203 6 HET GOL B 204 6 HET CL B 205 1 HETNAM MG MAGNESIUM ION HETNAM GOL GLYCEROL HETNAM XI7 2-4-DIOXO-4-PHENYLBUTANOIC ACID HETNAM CL CHLORIDE ION HETNAM PEG DI(HYDROXYETHYL)ETHER HETNAM NA SODIUM ION HETSYN GOL GLYCERIN; PROPANE-1,2,3-TRIOL FORMUL 3 MG 4(MG 2+) FORMUL 5 GOL 4(C3 H8 O3) FORMUL 7 XI7 C10 H8 O4 FORMUL 8 CL 2(CL 1-) FORMUL 9 PEG 2(C4 H10 O3) FORMUL 11 NA 2(NA 1+) FORMUL 18 HOH *229(H2 O) HELIX 1 AA1 HIS A 0 ILE A 15 1 16 HELIX 2 AA2 ASP A 18 ARG A 20 5 3 HELIX 3 AA3 LEU A 21 GLY A 30 1 10 HELIX 4 AA4 GLU A 33 GLY A 58 1 26 HELIX 5 AA5 SER A 67 SER A 75 1 9 HELIX 6 AA6 THR A 107 CYS A 124 1 18 HELIX 7 AA7 ILE A 125 ALA A 132 1 8 HELIX 8 AA8 PRO A 152 GLU A 179 1 28 HELIX 9 AA9 ASP B 1 ILE B 15 1 15 HELIX 10 AB1 ASP B 18 ARG B 20 5 3 HELIX 11 AB2 LEU B 21 GLY B 30 1 10 HELIX 12 AB3 GLU B 33 SER B 57 1 25 HELIX 13 AB4 SER B 67 SER B 75 1 9 HELIX 14 AB5 THR B 107 CYS B 124 1 18 HELIX 15 AB6 ILE B 125 ALA B 132 1 8 HELIX 16 AB7 PRO B 152 GLU B 178 1 27 HELIX 17 AB8 SER B 180 LEU B 189 1 10 HELIX 18 AB9 LYS B 190 THR B 192 5 3 SHEET 1 AA1 4 THR A 60 HIS A 61 0 SHEET 2 AA1 4 GLY A 89 ILE A 93 -1 O TYR A 90 N THR A 60 SHEET 3 AA1 4 SER A 96 VAL A 104 -1 O ILE A 98 N LYS A 91 SHEET 4 AA1 4 THR A 135 ARG A 143 1 O ILE A 139 N LEU A 99 SHEET 1 AA2 4 THR B 60 HIS B 61 0 SHEET 2 AA2 4 GLY B 89 ILE B 93 -1 O TYR B 90 N THR B 60 SHEET 3 AA2 4 SER B 96 VAL B 104 -1 O ILE B 98 N LYS B 91 SHEET 4 AA2 4 THR B 135 ARG B 143 1 O ASP B 141 N GLU B 101 LINK OD1 ASP A 88 MG MG A 201 1555 1555 2.59 LINK OD2 ASP A 88 MG MG A 202 1555 1555 2.23 LINK OD1BASP A 94 NA NA A 209 1555 1555 2.24 LINK OD2BASP A 94 NA NA A 209 1555 1555 3.14 LINK OE2 GLU A 101 MG MG A 201 1555 1555 2.02 LINK OD1 ASP A 128 NA NA A 210 1555 1555 2.84 LINK MG MG A 201 O8 XI7 A 205 1555 1555 2.91 LINK MG MG A 201 O HOH A 301 1555 1555 2.64 LINK MG MG A 201 O HOH A 314 1555 1555 1.99 LINK MG MG A 201 O HOH A 315 1555 1555 2.14 LINK MG MG A 201 O HOH A 339 1555 1555 1.84 LINK MG MG A 202 O11 XI7 A 205 1555 1555 2.21 LINK MG MG A 202 O10 XI7 A 205 1555 1555 2.23 LINK MG MG A 202 O HOH A 304 1555 1555 1.92 LINK MG MG A 202 O HOH A 315 1555 1555 2.35 LINK MG MG A 202 O HOH A 394 1555 1555 2.38 LINK O1 PEG A 208 NA NA A 209 1555 1555 2.95 LINK OE2 GLU B 50 MG MG B 201 1555 1555 2.79 LINK OD1 ASP B 88 MG MG B 201 1555 1555 2.21 LINK OD2 ASP B 88 MG MG B 202 1555 1555 2.18 LINK O CYS B 102 MG MG B 202 1555 1555 2.34 LINK MG MG B 201 O HOH B 307 1555 1555 2.58 LINK MG MG B 201 O HOH B 384 1555 1555 2.39 LINK MG MG B 201 O HOH B 397 1555 1555 2.51 LINK MG MG B 202 O HOH B 301 1555 1555 2.26 LINK MG MG B 202 O HOH B 314 1555 1555 2.68 LINK MG MG B 202 O HOH B 384 1555 1555 2.52 LINK MG MG B 202 O HOH B 397 1555 1555 2.37 SITE 1 AC1 8 ASP A 88 GLU A 101 MG A 202 XI7 A 205 SITE 2 AC1 8 HOH A 301 HOH A 314 HOH A 315 HOH A 339 SITE 1 AC2 6 ASP A 88 MG A 201 XI7 A 205 HOH A 304 SITE 2 AC2 6 HOH A 315 HOH A 394 SITE 1 AC3 7 LYS A 114 GLU A 117 HOH A 352 GLU B 179 SITE 2 AC3 7 GLU B 181 HOH B 379 HOH B 404 SITE 1 AC4 7 ARG A 20 ARG A 23 GLN A 24 LYS A 43 SITE 2 AC4 7 ARG A 47 HIS A 61 HIS A 63 SITE 1 AC5 16 SER A 46 GLU A 50 ASP A 88 GLU A 101 SITE 2 AC5 16 MG A 201 MG A 202 HOH A 301 HOH A 303 SITE 3 AC5 16 HOH A 304 HOH A 308 HOH A 314 HOH A 315 SITE 4 AC5 16 HOH A 339 HOH A 376 HOH A 381 TYR B 182 SITE 1 AC6 2 ARG A 126 LYS B 56 SITE 1 AC7 5 ASP A 147 ASN A 148 SER A 149 MET A 151 SITE 2 AC7 5 HOH A 402 SITE 1 AC8 3 ASP A 94 ALA A 132 NA A 209 SITE 1 AC9 2 ASP A 94 PEG A 208 SITE 1 AD1 1 ASP A 128 SITE 1 AD2 6 GLU B 50 ASP B 88 MG B 202 HOH B 307 SITE 2 AD2 6 HOH B 384 HOH B 397 SITE 1 AD3 7 ASP B 88 CYS B 102 MG B 201 HOH B 301 SITE 2 AD3 7 HOH B 314 HOH B 384 HOH B 397 SITE 1 AD4 2 TYR A 182 TYR B 146 SITE 1 AD5 5 PHE A 157 ASP A 161 HOH A 323 HOH A 373 SITE 2 AD5 5 GLU B 153 SITE 1 AD6 1 ARG B 105 CRYST1 107.185 107.185 53.807 90.00 90.00 90.00 P 41 8 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 0.009330 0.000000 0.000000 0.00000 SCALE2 0.000000 0.009330 0.000000 0.00000 SCALE3 0.000000 0.000000 0.018585 0.00000