HEADER TRANSFERASE 10-MAR-21 7M0C TITLE POST-CATALYTIC NICKED COMPLEX OF DNA POLYMERASE LAMBDA WITH BOUND TITLE 2 MISMATCHED DSB SUBSTRATE COMPND MOL_ID: 1; COMPND 2 MOLECULE: DNA POLYMERASE LAMBDA; COMPND 3 CHAIN: A; COMPND 4 SYNONYM: POL LAMBDA,DNA POLYMERASE BETA-2,POL BETA2,DNA POLYMERASE COMPND 5 KAPPA; COMPND 6 EC: 2.7.7.7,4.2.99.-; COMPND 7 ENGINEERED: YES; COMPND 8 MOL_ID: 2; COMPND 9 MOLECULE: DNA (5'-D(*CP*GP*GP*CP*AP*G)-3'); COMPND 10 CHAIN: T; COMPND 11 ENGINEERED: YES; COMPND 12 MOL_ID: 3; COMPND 13 MOLECULE: DNA (5'-D(*TP*AP*CP*TP*G)-3'); COMPND 14 CHAIN: U; COMPND 15 ENGINEERED: YES; COMPND 16 MOL_ID: 4; COMPND 17 MOLECULE: DNA (5'-D(*CP*AP*GP*TP*GP*CP*T)-3'); COMPND 18 CHAIN: P; COMPND 19 ENGINEERED: YES; COMPND 20 MOL_ID: 5; COMPND 21 MOLECULE: DNA (5'-D(P*GP*CP*CP*G)-3'); COMPND 22 CHAIN: D; COMPND 23 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: POLL; SOURCE 6 EXPRESSION_SYSTEM: ESCHERICHIA COLI; SOURCE 7 EXPRESSION_SYSTEM_TAXID: 562; SOURCE 8 EXPRESSION_SYSTEM_VECTOR_TYPE: PLASMID; SOURCE 9 EXPRESSION_SYSTEM_PLASMID: PGEXM; SOURCE 10 MOL_ID: 2; SOURCE 11 SYNTHETIC: YES; SOURCE 12 ORGANISM_SCIENTIFIC: SYNTHETIC CONSTRUCT; SOURCE 13 ORGANISM_TAXID: 32630; SOURCE 14 MOL_ID: 3; SOURCE 15 SYNTHETIC: YES; SOURCE 16 ORGANISM_SCIENTIFIC: SYNTHETIC CONSTRUCT; SOURCE 17 ORGANISM_TAXID: 32630; SOURCE 18 MOL_ID: 4; SOURCE 19 SYNTHETIC: YES; SOURCE 20 ORGANISM_SCIENTIFIC: SYNTHETIC CONSTRUCT; SOURCE 21 ORGANISM_TAXID: 32630; SOURCE 22 MOL_ID: 5; SOURCE 23 SYNTHETIC: YES; SOURCE 24 ORGANISM_SCIENTIFIC: SYNTHETIC CONSTRUCT; SOURCE 25 ORGANISM_TAXID: 32630 KEYWDS NONHOMOLOGOUS END-JOINING, BASE EXCISION REPAIR, TRANSFERASE EXPDTA X-RAY DIFFRACTION AUTHOR A.M.KAMINSKI,K.BEBENEK,L.C.PEDERSEN,T.A.KUNKEL REVDAT 2 18-OCT-23 7M0C 1 JRNL REVDAT 1 16-MAR-22 7M0C 0 JRNL AUTH A.M.KAMINSKI,K.BEBENEK,T.A.KUNKEL,L.C.PEDERSEN JRNL TITL COMPREHENSIVE STRUCTURAL SURVEY OF DNA DOUBLE-STRAND BREAK JRNL TITL 2 SYNAPSIS BY DNA POLYMERASE LAMBDA JRNL REF NOT PUBLISHED JRNL REFN REMARK 2 REMARK 2 RESOLUTION. 2.65 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) : 2.65 REMARK 3 RESOLUTION RANGE LOW (ANGSTROMS) : 39.37 REMARK 3 MIN(FOBS/SIGMA_FOBS) : 1.370 REMARK 3 COMPLETENESS FOR RANGE (%) : 99.2 REMARK 3 NUMBER OF REFLECTIONS : 14302 REMARK 3 REMARK 3 FIT TO DATA USED IN REFINEMENT. REMARK 3 R VALUE (WORKING + TEST SET) : 0.183 REMARK 3 R VALUE (WORKING SET) : 0.180 REMARK 3 FREE R VALUE : 0.229 REMARK 3 FREE R VALUE TEST SET SIZE (%) : 5.000 REMARK 3 FREE R VALUE TEST SET COUNT : 715 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 39.3700 - 4.5200 0.99 2868 150 0.1735 0.1815 REMARK 3 2 4.5200 - 3.5900 1.00 2728 142 0.1488 0.1982 REMARK 3 3 3.5900 - 3.1400 1.00 2694 148 0.1837 0.2823 REMARK 3 4 3.1400 - 2.8500 1.00 2686 141 0.2077 0.2671 REMARK 3 5 2.8500 - 2.6500 0.97 2611 134 0.2385 0.2905 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) : 0.255 REMARK 3 PHASE ERROR (DEGREES, MAXIMUM-LIKELIHOOD BASED) : 21.583 REMARK 3 REMARK 3 B VALUES. REMARK 3 FROM WILSON PLOT (A**2) : 29.90 REMARK 3 MEAN B VALUE (OVERALL, A**2) : 31.27 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 : 0.005 3111 REMARK 3 ANGLE : 0.687 4307 REMARK 3 CHIRALITY : 0.041 477 REMARK 3 PLANARITY : 0.003 481 REMARK 3 DIHEDRAL : 13.345 942 REMARK 3 REMARK 3 TLS DETAILS REMARK 3 NUMBER OF TLS GROUPS : 6 REMARK 3 TLS GROUP : 1 REMARK 3 SELECTION: CHAIN A AND RESID 236:329 REMARK 3 ORIGIN FOR THE GROUP (A): -7.7108 25.4398 -26.6066 REMARK 3 T TENSOR REMARK 3 T11: 0.2389 T22: 0.1765 REMARK 3 T33: 0.1952 T12: -0.0344 REMARK 3 T13: 0.0621 T23: -0.0043 REMARK 3 L TENSOR REMARK 3 L11: 0.4539 L22: 0.4054 REMARK 3 L33: 0.2157 L12: -0.3310 REMARK 3 L13: 0.1040 L23: -0.1381 REMARK 3 S TENSOR REMARK 3 S11: 0.0892 S12: 0.1109 S13: -0.0227 REMARK 3 S21: -0.2513 S22: 0.0317 S23: -0.0720 REMARK 3 S31: -0.2047 S32: 0.0355 S33: 0.0397 REMARK 3 TLS GROUP : 2 REMARK 3 SELECTION: CHAIN A AND RESID 330:386 REMARK 3 ORIGIN FOR THE GROUP (A): -13.6342 19.8217 0.9024 REMARK 3 T TENSOR REMARK 3 T11: 0.1481 T22: 0.1594 REMARK 3 T33: 0.1480 T12: 0.0007 REMARK 3 T13: -0.0023 T23: -0.0043 REMARK 3 L TENSOR REMARK 3 L11: 0.1191 L22: 0.3312 REMARK 3 L33: 0.2481 L12: -0.0459 REMARK 3 L13: -0.1404 L23: 0.1700 REMARK 3 S TENSOR REMARK 3 S11: -0.1598 S12: -0.1125 S13: 0.0278 REMARK 3 S21: 0.1811 S22: 0.2079 S23: 0.0061 REMARK 3 S31: 0.0124 S32: -0.1101 S33: 0.0062 REMARK 3 TLS GROUP : 3 REMARK 3 SELECTION: CHAIN A AND RESID 387:495 REMARK 3 ORIGIN FOR THE GROUP (A): -12.1670 -5.3339 -7.4400 REMARK 3 T TENSOR REMARK 3 T11: 0.0681 T22: 0.0875 REMARK 3 T33: 0.1203 T12: -0.0134 REMARK 3 T13: -0.0047 T23: 0.0010 REMARK 3 L TENSOR REMARK 3 L11: 0.2442 L22: 0.5279 REMARK 3 L33: 0.5884 L12: -0.0315 REMARK 3 L13: 0.0111 L23: 0.1857 REMARK 3 S TENSOR REMARK 3 S11: 0.0460 S12: -0.0206 S13: -0.0355 REMARK 3 S21: -0.0016 S22: 0.0588 S23: 0.0364 REMARK 3 S31: 0.0873 S32: 0.0116 S33: 0.0041 REMARK 3 TLS GROUP : 4 REMARK 3 SELECTION: CHAIN A AND RESID 496:575 REMARK 3 ORIGIN FOR THE GROUP (A): -20.0198 1.8317 -27.7093 REMARK 3 T TENSOR REMARK 3 T11: 0.1988 T22: 0.1124 REMARK 3 T33: 0.1397 T12: 0.0124 REMARK 3 T13: -0.0289 T23: -0.0312 REMARK 3 L TENSOR REMARK 3 L11: 0.0717 L22: 0.2170 REMARK 3 L33: 0.3393 L12: 0.1033 REMARK 3 L13: 0.2451 L23: 0.1062 REMARK 3 S TENSOR REMARK 3 S11: -0.0313 S12: -0.0569 S13: 0.0334 REMARK 3 S21: -0.2596 S22: 0.0678 S23: 0.0463 REMARK 3 S31: 0.0298 S32: -0.0527 S33: 0.0045 REMARK 3 TLS GROUP : 5 REMARK 3 SELECTION: CHAIN T OR CHAIN D REMARK 3 ORIGIN FOR THE GROUP (A): -24.1376 21.6802 -26.9751 REMARK 3 T TENSOR REMARK 3 T11: 0.2789 T22: 0.3081 REMARK 3 T33: 0.2003 T12: 0.0638 REMARK 3 T13: -0.0115 T23: 0.0653 REMARK 3 L TENSOR REMARK 3 L11: 0.0077 L22: 0.0664 REMARK 3 L33: 0.1122 L12: 0.0131 REMARK 3 L13: -0.0507 L23: 0.0589 REMARK 3 S TENSOR REMARK 3 S11: -0.0238 S12: 0.0977 S13: 0.0441 REMARK 3 S21: -0.0191 S22: 0.3908 S23: 0.3685 REMARK 3 S31: -0.2188 S32: -0.2089 S33: 0.0267 REMARK 3 TLS GROUP : 6 REMARK 3 SELECTION: CHAIN U OR CHAIN P REMARK 3 ORIGIN FOR THE GROUP (A): -25.2346 10.1746 -8.3772 REMARK 3 T TENSOR REMARK 3 T11: 0.1369 T22: 0.2787 REMARK 3 T33: 0.1389 T12: -0.0369 REMARK 3 T13: 0.0351 T23: -0.0179 REMARK 3 L TENSOR REMARK 3 L11: 0.0419 L22: 0.1567 REMARK 3 L33: 0.0942 L12: -0.0300 REMARK 3 L13: 0.1064 L23: 0.2326 REMARK 3 S TENSOR REMARK 3 S11: -0.0969 S12: -0.1604 S13: -0.1177 REMARK 3 S21: 0.0807 S22: 0.0833 S23: 0.0411 REMARK 3 S31: 0.3432 S32: -0.3459 S33: 0.1881 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 7M0C COMPLIES WITH FORMAT V. 3.30, 13-JUL-11 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY RCSB ON 11-MAR-21. REMARK 100 THE DEPOSITION ID IS D_1000255346. REMARK 200 REMARK 200 EXPERIMENTAL DETAILS REMARK 200 EXPERIMENT TYPE : X-RAY DIFFRACTION REMARK 200 DATE OF DATA COLLECTION : 06-NOV-20 REMARK 200 TEMPERATURE (KELVIN) : 93 REMARK 200 PH : 6.5 REMARK 200 NUMBER OF CRYSTALS USED : 1 REMARK 200 REMARK 200 SYNCHROTRON (Y/N) : Y REMARK 200 RADIATION SOURCE : APS REMARK 200 BEAMLINE : 22-ID REMARK 200 X-RAY GENERATOR MODEL : NULL REMARK 200 MONOCHROMATIC OR LAUE (M/L) : M REMARK 200 WAVELENGTH OR RANGE (A) : 1.00 REMARK 200 MONOCHROMATOR : NULL REMARK 200 OPTICS : NULL REMARK 200 REMARK 200 DETECTOR TYPE : PIXEL REMARK 200 DETECTOR MANUFACTURER : DECTRIS EIGER X 16M REMARK 200 INTENSITY-INTEGRATION SOFTWARE : HKL-2000 REMARK 200 DATA SCALING SOFTWARE : HKL-2000 REMARK 200 REMARK 200 NUMBER OF UNIQUE REFLECTIONS : 14351 REMARK 200 RESOLUTION RANGE HIGH (A) : 2.650 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 (%) : 99.7 REMARK 200 DATA REDUNDANCY : 6.300 REMARK 200 R MERGE (I) : NULL REMARK 200 R SYM (I) : 0.18200 REMARK 200 FOR THE DATA SET : 8.8600 REMARK 200 REMARK 200 IN THE HIGHEST RESOLUTION SHELL. REMARK 200 HIGHEST RESOLUTION SHELL, RANGE HIGH (A) : 2.65 REMARK 200 HIGHEST RESOLUTION SHELL, RANGE LOW (A) : 2.70 REMARK 200 COMPLETENESS FOR SHELL (%) : 99.7 REMARK 200 DATA REDUNDANCY IN SHELL : 5.90 REMARK 200 R MERGE FOR SHELL (I) : NULL REMARK 200 R SYM FOR SHELL (I) : 0.77000 REMARK 200 FOR SHELL : 1.630 REMARK 200 REMARK 200 DIFFRACTION PROTOCOL: SINGLE WAVELENGTH REMARK 200 METHOD USED TO DETERMINE THE STRUCTURE: MOLECULAR REPLACEMENT REMARK 200 SOFTWARE USED: PHASER REMARK 200 STARTING MODEL: 2PFO REMARK 200 REMARK 200 REMARK: NULL REMARK 280 REMARK 280 CRYSTAL REMARK 280 SOLVENT CONTENT, VS (%): 59.40 REMARK 280 MATTHEWS COEFFICIENT, VM (ANGSTROMS**3/DA): 3.03 REMARK 280 REMARK 280 CRYSTALLIZATION CONDITIONS: 76.5MM NA CACODYLATE PH 6.5, 0.153M REMARK 280 AMMONIUM SULFATE, 22.95% (W/V) PEG 8000, 13.5% (V/V) GLYCEROL, REMARK 280 0.2M NDSB-201, VAPOR DIFFUSION, SITTING DROP, TEMPERATURE 277K REMARK 290 REMARK 290 CRYSTALLOGRAPHIC SYMMETRY REMARK 290 SYMMETRY OPERATORS FOR SPACE GROUP: P 21 21 21 REMARK 290 REMARK 290 SYMOP SYMMETRY REMARK 290 NNNMMM OPERATOR REMARK 290 1555 X,Y,Z REMARK 290 2555 -X+1/2,-Y,Z+1/2 REMARK 290 3555 -X,Y+1/2,-Z+1/2 REMARK 290 4555 X+1/2,-Y+1/2,-Z REMARK 290 REMARK 290 WHERE NNN -> OPERATOR NUMBER REMARK 290 MMM -> TRANSLATION VECTOR REMARK 290 REMARK 290 CRYSTALLOGRAPHIC SYMMETRY TRANSFORMATIONS REMARK 290 THE FOLLOWING TRANSFORMATIONS OPERATE ON THE ATOM/HETATM REMARK 290 RECORDS IN THIS ENTRY TO PRODUCE CRYSTALLOGRAPHICALLY REMARK 290 RELATED MOLECULES. REMARK 290 SMTRY1 1 1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY2 1 0.000000 1.000000 0.000000 0.00000 REMARK 290 SMTRY3 1 0.000000 0.000000 1.000000 0.00000 REMARK 290 SMTRY1 2 -1.000000 0.000000 0.000000 28.10250 REMARK 290 SMTRY2 2 0.000000 -1.000000 0.000000 0.00000 REMARK 290 SMTRY3 2 0.000000 0.000000 1.000000 69.91200 REMARK 290 SMTRY1 3 -1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY2 3 0.000000 1.000000 0.000000 30.01150 REMARK 290 SMTRY3 3 0.000000 0.000000 -1.000000 69.91200 REMARK 290 SMTRY1 4 1.000000 0.000000 0.000000 28.10250 REMARK 290 SMTRY2 4 0.000000 -1.000000 0.000000 30.01150 REMARK 290 SMTRY3 4 0.000000 0.000000 -1.000000 0.00000 REMARK 290 REMARK 290 REMARK: NULL REMARK 300 REMARK 300 BIOMOLECULE: 1 REMARK 300 SEE REMARK 350 FOR THE AUTHOR PROVIDED AND/OR PROGRAM REMARK 300 GENERATED ASSEMBLY INFORMATION FOR THE STRUCTURE IN REMARK 300 THIS ENTRY. THE REMARK MAY ALSO PROVIDE INFORMATION ON REMARK 300 BURIED SURFACE AREA. REMARK 350 REMARK 350 COORDINATES FOR A COMPLETE MULTIMER REPRESENTING THE KNOWN REMARK 350 BIOLOGICALLY SIGNIFICANT OLIGOMERIZATION STATE OF THE REMARK 350 MOLECULE CAN BE GENERATED BY APPLYING BIOMT TRANSFORMATIONS REMARK 350 GIVEN BELOW. BOTH NON-CRYSTALLOGRAPHIC AND REMARK 350 CRYSTALLOGRAPHIC OPERATIONS ARE GIVEN. REMARK 350 REMARK 350 BIOMOLECULE: 1 REMARK 350 AUTHOR DETERMINED BIOLOGICAL UNIT: PENTAMERIC REMARK 350 SOFTWARE DETERMINED QUATERNARY STRUCTURE: PENTAMERIC REMARK 350 SOFTWARE USED: PISA REMARK 350 TOTAL BURIED SURFACE AREA: 6340 ANGSTROM**2 REMARK 350 SURFACE AREA OF THE COMPLEX: 17040 ANGSTROM**2 REMARK 350 CHANGE IN SOLVENT FREE ENERGY: -107.0 KCAL/MOL REMARK 350 APPLY THE FOLLOWING TO CHAINS: A, T, U, P, D 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 GLY A 230 REMARK 465 SER A 231 REMARK 465 ALA A 232 REMARK 465 ALA A 233 REMARK 465 ALA A 234 REMARK 465 VAL A 235 REMARK 465 ASN A 539 REMARK 465 THR A 540 REMARK 465 HIS A 541 REMARK 465 GLY A 542 REMARK 465 CYS A 543 REMARK 465 LYS A 544 REMARK 465 VAL A 545 REMARK 465 GLY A 546 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 LEU A 236 CG CD1 CD2 REMARK 470 LYS A 238 CG CD CE NZ REMARK 470 THR A 250 OG1 CG2 REMARK 470 LEU A 254 CD1 CD2 REMARK 470 HIS A 255 CG ND1 CD2 CE1 NE2 REMARK 470 LYS A 265 CD CE NZ REMARK 470 LYS A 273 CD CE NZ REMARK 470 GLN A 297 CG CD OE1 NE2 REMARK 470 LYS A 307 CG CD CE NZ REMARK 470 ARG A 308 CD NE CZ NH1 NH2 REMARK 470 ILE A 314 CG1 CG2 CD1 REMARK 470 LEU A 317 CD1 CD2 REMARK 470 ARG A 323 CG CD NE CZ NH1 NH2 REMARK 470 LYS A 324 CE NZ REMARK 470 GLU A 390 CD OE1 OE2 REMARK 470 LEU A 411 CD1 CD2 REMARK 470 ARG A 438 CD NE CZ NH1 NH2 REMARK 470 ARG A 441 CD NE CZ NH1 NH2 REMARK 470 ARG A 446 CZ NH1 NH2 REMARK 470 ASP A 449 CG OD1 OD2 REMARK 470 GLN A 453 CG CD OE1 NE2 REMARK 470 GLU A 466 CG CD OE1 OE2 REMARK 470 ASN A 467 CG OD1 ND2 REMARK 470 GLN A 469 CG CD OE1 NE2 REMARK 470 LYS A 523 NZ REMARK 470 ARG A 538 CG CD NE CZ NH1 NH2 REMARK 470 LYS A 557 CE NZ REMARK 470 GLU A 569 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 O HOH A 759 O HOH A 766 2.03 REMARK 500 O HOH A 729 O HOH A 789 2.15 REMARK 500 O THR A 250 O HOH A 701 2.17 REMARK 500 REMARK 500 REMARK: NULL REMARK 500 REMARK 500 GEOMETRY AND STEREOCHEMISTRY REMARK 500 SUBTOPIC: COVALENT BOND LENGTHS REMARK 500 REMARK 500 THE STEREOCHEMICAL PARAMETERS OF THE FOLLOWING RESIDUES REMARK 500 HAVE VALUES WHICH DEVIATE FROM EXPECTED VALUES BY MORE REMARK 500 THAN 6*RMSD (M=MODEL NUMBER; RES=RESIDUE NAME; C=CHAIN REMARK 500 IDENTIFIER; SSEQ=SEQUENCE NUMBER; I=INSERTION CODE). REMARK 500 REMARK 500 STANDARD TABLE: REMARK 500 FORMAT: (10X,I3,1X,2(A3,1X,A1,I4,A1,1X,A4,3X),1X,F6.3) REMARK 500 REMARK 500 EXPECTED VALUES PROTEIN: ENGH AND HUBER, 1999 REMARK 500 EXPECTED VALUES NUCLEIC ACID: CLOWNEY ET AL 1996 REMARK 500 REMARK 500 M RES CSSEQI ATM1 RES CSSEQI ATM2 DEVIATION REMARK 500 DG D 1 P DG D 1 OP3 -0.121 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 253 23.48 -152.66 REMARK 500 ASN A 407 99.20 -160.97 REMARK 500 CYS A 415 -136.16 -113.65 REMARK 500 ARG A 438 -30.69 -141.42 REMARK 500 SER A 463 87.01 -164.08 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 604 NA REMARK 620 N RES CSSEQI ATOM REMARK 620 1 CYS A 300 O REMARK 620 2 ILE A 302 O 82.8 REMARK 620 3 ILE A 305 O 80.6 72.8 REMARK 620 4 HOH A 737 O 88.9 78.4 150.4 REMARK 620 5 DC D 3 OP1 163.1 80.3 94.8 87.2 REMARK 620 6 HOH D 103 O 106.1 169.4 113.8 95.8 90.6 REMARK 620 N 1 2 3 4 5 REMARK 620 REMARK 620 COORDINATION ANGLES FOR: M RES CSSEQI METAL REMARK 620 NA A 603 NA REMARK 620 N RES CSSEQI ATOM REMARK 620 1 SER A 339 O REMARK 620 2 ILE A 341 O 106.4 REMARK 620 3 ALA A 344 O 85.6 78.4 REMARK 620 4 DG P 5 OP1 152.9 94.7 82.1 REMARK 620 5 HOH P 104 O 95.3 106.4 174.7 94.9 REMARK 620 N 1 2 3 4 REMARK 620 REMARK 620 COORDINATION ANGLES FOR: M RES CSSEQI METAL REMARK 620 MG A 601 MG REMARK 620 N RES CSSEQI ATOM REMARK 620 1 ASP A 427 OD2 REMARK 620 2 ASP A 429 OD1 99.9 REMARK 620 3 ASP A 490 OD2 99.4 108.8 REMARK 620 4 DC P 6 O3' 141.1 114.0 87.5 REMARK 620 5 DT P 7 OP1 94.4 101.8 143.5 61.6 REMARK 620 N 1 2 3 4 REMARK 620 REMARK 620 COORDINATION ANGLES FOR: M RES CSSEQI METAL REMARK 620 MG A 602 MG REMARK 620 N RES CSSEQI ATOM REMARK 620 1 ASP A 427 OD1 REMARK 620 2 ASP A 429 OD2 90.3 REMARK 620 3 PPV A 607 O12 166.8 101.2 REMARK 620 4 PPV A 607 O11 82.5 172.3 86.2 REMARK 620 5 HOH A 752 O 82.5 86.5 91.9 95.1 REMARK 620 6 DT P 7 OP1 84.3 81.8 103.4 94.8 162.3 REMARK 620 N 1 2 3 4 5 DBREF 7M0C A 234 575 UNP Q9UGP5 DPOLL_HUMAN 234 575 DBREF 7M0C T 1 6 PDB 7M0C 7M0C 1 6 DBREF 7M0C U 1 5 PDB 7M0C 7M0C 1 5 DBREF 7M0C P 1 7 PDB 7M0C 7M0C 1 7 DBREF 7M0C D 1 4 PDB 7M0C 7M0C 1 4 SEQADV 7M0C GLY A 230 UNP Q9UGP5 EXPRESSION TAG SEQADV 7M0C SER A 231 UNP Q9UGP5 EXPRESSION TAG SEQADV 7M0C ALA A 232 UNP Q9UGP5 EXPRESSION TAG SEQADV 7M0C ALA A 233 UNP Q9UGP5 EXPRESSION TAG SEQRES 1 A 346 GLY SER ALA ALA ALA VAL LEU ASP LYS TRP VAL CYS ALA SEQRES 2 A 346 GLN PRO SER SER GLN LYS ALA THR ASN HIS ASN LEU HIS SEQRES 3 A 346 ILE THR GLU LYS LEU GLU VAL LEU ALA LYS ALA TYR SER SEQRES 4 A 346 VAL GLN GLY ASP LYS TRP ARG ALA LEU GLY TYR ALA LYS SEQRES 5 A 346 ALA ILE ASN ALA LEU LYS SER PHE HIS LYS PRO VAL THR SEQRES 6 A 346 SER TYR GLN GLU ALA CYS SER ILE PRO GLY ILE GLY LYS SEQRES 7 A 346 ARG MET ALA GLU LYS ILE ILE GLU ILE LEU GLU SER GLY SEQRES 8 A 346 HIS LEU ARG LYS LEU ASP HIS ILE SER GLU SER VAL PRO SEQRES 9 A 346 VAL LEU GLU LEU PHE SER ASN ILE TRP GLY ALA GLY THR SEQRES 10 A 346 LYS THR ALA GLN MET TRP TYR GLN GLN GLY PHE ARG SER SEQRES 11 A 346 LEU GLU ASP ILE ARG SER GLN ALA SER LEU THR THR GLN SEQRES 12 A 346 GLN ALA ILE GLY LEU LYS HIS TYR SER ASP PHE LEU GLU SEQRES 13 A 346 ARG MET PRO ARG GLU GLU ALA THR GLU ILE GLU GLN THR SEQRES 14 A 346 VAL GLN LYS ALA ALA GLN ALA PHE ASN SER GLY LEU LEU SEQRES 15 A 346 CYS VAL ALA CYS GLY SER TYR ARG ARG GLY LYS ALA THR SEQRES 16 A 346 CYS GLY ASP VAL ASP VAL LEU ILE THR HIS PRO ASP GLY SEQRES 17 A 346 ARG SER HIS ARG GLY ILE PHE SER ARG LEU LEU ASP SER SEQRES 18 A 346 LEU ARG GLN GLU GLY PHE LEU THR ASP ASP LEU VAL SER SEQRES 19 A 346 GLN GLU GLU ASN GLY GLN GLN GLN LYS TYR LEU GLY VAL SEQRES 20 A 346 CYS ARG LEU PRO GLY PRO GLY ARG ARG HIS ARG ARG LEU SEQRES 21 A 346 ASP ILE ILE VAL VAL PRO TYR SER GLU PHE ALA CYS ALA SEQRES 22 A 346 LEU LEU TYR PHE THR GLY SER ALA HIS PHE ASN ARG SER SEQRES 23 A 346 MET ARG ALA LEU ALA LYS THR LYS GLY MET SER LEU SER SEQRES 24 A 346 GLU HIS ALA LEU SER THR ALA VAL VAL ARG ASN THR HIS SEQRES 25 A 346 GLY CYS LYS VAL GLY PRO GLY ARG VAL LEU PRO THR PRO SEQRES 26 A 346 THR GLU LYS ASP VAL PHE ARG LEU LEU GLY LEU PRO TYR SEQRES 27 A 346 ARG GLU PRO ALA GLU ARG ASP TRP SEQRES 1 T 6 DC DG DG DC DA DG SEQRES 1 U 5 DT DA DC DT DG SEQRES 1 P 7 DC DA DG DT DG DC DT SEQRES 1 D 4 DG DC DC DG HET MG A 601 1 HET MG A 602 1 HET NA A 603 1 HET NA A 604 1 HET CL A 605 1 HET CL A 606 1 HET PPV A 607 9 HET SO4 A 608 5 HET EDO A 609 4 HETNAM MG MAGNESIUM ION HETNAM NA SODIUM ION HETNAM CL CHLORIDE ION HETNAM PPV PYROPHOSPHATE HETNAM SO4 SULFATE ION HETNAM EDO 1,2-ETHANEDIOL HETSYN EDO ETHYLENE GLYCOL FORMUL 6 MG 2(MG 2+) FORMUL 8 NA 2(NA 1+) FORMUL 10 CL 2(CL 1-) FORMUL 12 PPV H4 O7 P2 FORMUL 13 SO4 O4 S 2- FORMUL 14 EDO C2 H6 O2 FORMUL 15 HOH *108(H2 O) HELIX 1 AA1 TRP A 239 GLN A 243 5 5 HELIX 2 AA2 PRO A 244 THR A 250 5 7 HELIX 3 AA3 ASN A 253 GLN A 270 1 18 HELIX 4 AA4 ASP A 272 PHE A 289 1 18 HELIX 5 AA5 SER A 295 SER A 301 1 7 HELIX 6 AA6 GLY A 306 GLY A 320 1 15 HELIX 7 AA7 LEU A 322 ILE A 328 5 7 HELIX 8 AA8 SER A 331 ASN A 340 1 10 HELIX 9 AA9 GLY A 345 GLY A 356 1 12 HELIX 10 AB1 SER A 359 ALA A 367 1 9 HELIX 11 AB2 THR A 370 HIS A 379 1 10 HELIX 12 AB3 HIS A 379 GLU A 385 1 7 HELIX 13 AB4 ARG A 389 ASN A 407 1 19 HELIX 14 AB5 CYS A 415 ARG A 420 1 6 HELIX 15 AB6 ILE A 443 GLU A 454 1 12 HELIX 16 AB7 PRO A 495 SER A 497 5 3 HELIX 17 AB8 GLU A 498 GLY A 508 1 11 HELIX 18 AB9 SER A 509 LYS A 523 1 15 HELIX 19 AC1 THR A 555 LEU A 563 1 9 HELIX 20 AC2 GLU A 569 ASP A 574 5 6 SHEET 1 AA1 2 MET A 387 PRO A 388 0 SHEET 2 AA1 2 THR A 424 CYS A 425 -1 O CYS A 425 N MET A 387 SHEET 1 AA2 5 LEU A 411 ALA A 414 0 SHEET 2 AA2 5 ASP A 427 THR A 433 -1 O LEU A 431 N VAL A 413 SHEET 3 AA2 5 ARG A 487 VAL A 493 1 O ASP A 490 N VAL A 430 SHEET 4 AA2 5 LYS A 472 CYS A 477 -1 N TYR A 473 O ILE A 491 SHEET 5 AA2 5 LEU A 457 VAL A 462 -1 N ASP A 459 O VAL A 476 SHEET 1 AA3 2 MET A 525 LEU A 527 0 SHEET 2 AA3 2 LEU A 532 THR A 534 -1 O SER A 533 N SER A 526 LINK O CYS A 300 NA NA A 604 1555 1555 2.54 LINK O ILE A 302 NA NA A 604 1555 1555 3.00 LINK O ILE A 305 NA NA A 604 1555 1555 2.47 LINK O SER A 339 NA NA A 603 1555 1555 2.47 LINK O ILE A 341 NA NA A 603 1555 1555 2.43 LINK O ALA A 344 NA NA A 603 1555 1555 2.50 LINK OD2 ASP A 427 MG MG A 601 1555 1555 1.79 LINK OD1 ASP A 427 MG MG A 602 1555 1555 2.14 LINK OD1 ASP A 429 MG MG A 601 1555 1555 1.84 LINK OD2 ASP A 429 MG MG A 602 1555 1555 2.19 LINK OD2 ASP A 490 MG MG A 601 1555 1555 2.20 LINK MG MG A 601 O3' DC P 6 1555 1555 2.68 LINK MG MG A 601 OP1 DT P 7 1555 1555 2.12 LINK MG MG A 602 O12 PPV A 607 1555 1555 2.11 LINK MG MG A 602 O11 PPV A 607 1555 1555 2.23 LINK MG MG A 602 O HOH A 752 1555 1555 2.49 LINK MG MG A 602 OP1 DT P 7 1555 1555 2.52 LINK NA NA A 603 OP1 DG P 5 1555 1555 2.31 LINK NA NA A 603 O HOH P 104 1555 1555 2.23 LINK NA NA A 604 O HOH A 737 1555 1555 3.01 LINK NA NA A 604 OP1 DC D 3 1555 1555 2.66 LINK NA NA A 604 O HOH D 103 1555 1555 2.52 CISPEP 1 GLY A 508 SER A 509 0 2.97 CRYST1 56.205 60.023 139.824 90.00 90.00 90.00 P 21 21 21 4 ORIGX1 1.000000 0.000000 0.000000 0.00000 ORIGX2 0.000000 1.000000 0.000000 0.00000 ORIGX3 0.000000 0.000000 1.000000 0.00000 SCALE1 0.017792 0.000000 0.000000 0.00000 SCALE2 0.000000 0.016660 0.000000 0.00000 SCALE3 0.000000 0.000000 0.007152 0.00000