HEADER LIGASE/DNA 01-OCT-25 9YHW TITLE DNA LIGASE 1 E346A/E592A IN COMPLEX WITH NICK CONTAINING 3'-8OXODG:A TITLE 2 CAPTURED AT PRE-CATALYTIC STAGE CAVEAT 9YHW 8OG B 11 HAS WRONG CHIRALITY AT ATOM C3' COMPND MOL_ID: 1; COMPND 2 MOLECULE: DNA LIGASE 1; COMPND 3 CHAIN: A; COMPND 4 SYNONYM: DNA LIGASE I,POLYDEOXYRIBONUCLEOTIDE SYNTHASE [ATP] 1; COMPND 5 EC: 6.5.1.1; COMPND 6 ENGINEERED: YES; COMPND 7 MUTATION: YES; COMPND 8 MOL_ID: 2; COMPND 9 MOLECULE: DNA (5'-D(P*GP*CP*TP*GP*AP*TP*GP*CP*GP*TP*(8OG))-3'); COMPND 10 CHAIN: B; COMPND 11 ENGINEERED: YES; COMPND 12 MOL_ID: 3; COMPND 13 MOLECULE: DNA (5'-D(P*(AMP)P*GP*TP*CP*GP*GP*AP*C)-3'); COMPND 14 CHAIN: C; COMPND 15 ENGINEERED: YES; COMPND 16 MOL_ID: 4; COMPND 17 MOLECULE: DNA (5'- COMPND 18 D(P*GP*TP*CP*CP*GP*AP*CP*AP*AP*CP*GP*CP*AP*TP*CP*AP*GP*C)-3'); COMPND 19 CHAIN: D; COMPND 20 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: LIG1; SOURCE 6 EXPRESSION_SYSTEM: ESCHERICHIA COLI BL21(DE3); SOURCE 7 EXPRESSION_SYSTEM_TAXID: 469008; SOURCE 8 MOL_ID: 2; SOURCE 9 SYNTHETIC: YES; SOURCE 10 ORGANISM_SCIENTIFIC: SYNTHETIC CONSTRUCT; SOURCE 11 ORGANISM_TAXID: 32630; SOURCE 12 MOL_ID: 3; SOURCE 13 SYNTHETIC: YES; SOURCE 14 ORGANISM_SCIENTIFIC: SYNTHETIC CONSTRUCT; SOURCE 15 ORGANISM_TAXID: 32630; SOURCE 16 MOL_ID: 4; SOURCE 17 SYNTHETIC: YES; SOURCE 18 ORGANISM_SCIENTIFIC: SYNTHETIC CONSTRUCT; SOURCE 19 ORGANISM_TAXID: 32630 KEYWDS DNA BINDING PROTEIN, DNA REPAIR, BER, HUMAN DNA LIGASE 1, LIGASE, KEYWDS 2 LIGASE-DNA COMPLEX EXPDTA X-RAY DIFFRACTION AUTHOR B.KANALELAMPARITHI,M.CAGLAYAN REVDAT 1 31-DEC-25 9YHW 0 JRNL AUTH K.E.BALU,D.ALMOHDAR,C.LERNER,J.RATCLIFFE,Q.TANG,T.PARWAL, JRNL AUTH 2 K.M.LEE,A.PRAKASH,M.CAGLAYAN JRNL TITL PROCESSING OF DNA SINGLE-STRAND BREAKS WITH OXIDATIVELY JRNL TITL 2 DAMAGED ENDS BY LIG1. JRNL REF NUCLEIC ACIDS RES. V. 53 2025 JRNL REFN ESSN 1362-4962 JRNL PMID 41370201 JRNL DOI 10.1093/NAR/GKAF1344 REMARK 2 REMARK 2 RESOLUTION. 2.56 ANGSTROMS. REMARK 3 REMARK 3 REFINEMENT. REMARK 3 PROGRAM : PHENIX (1.21.1_5286: ???) 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) : 2.56 REMARK 3 RESOLUTION RANGE LOW (ANGSTROMS) : 29.86 REMARK 3 MIN(FOBS/SIGMA_FOBS) : 1.350 REMARK 3 COMPLETENESS FOR RANGE (%) : 99.7 REMARK 3 NUMBER OF REFLECTIONS : 28293 REMARK 3 REMARK 3 FIT TO DATA USED IN REFINEMENT. REMARK 3 R VALUE (WORKING + TEST SET) : 0.186 REMARK 3 R VALUE (WORKING SET) : 0.182 REMARK 3 FREE R VALUE : 0.229 REMARK 3 FREE R VALUE TEST SET SIZE (%) : 7.070 REMARK 3 FREE R VALUE TEST SET COUNT : 2000 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 29.8600 - 6.1600 1.00 2030 154 0.1717 0.1808 REMARK 3 2 6.1600 - 4.8900 1.00 1936 147 0.1788 0.2260 REMARK 3 3 4.8900 - 4.2800 1.00 1881 143 0.1530 0.1798 REMARK 3 4 4.2800 - 3.8900 1.00 1901 145 0.1623 0.2030 REMARK 3 5 3.8900 - 3.6100 1.00 1873 142 0.1754 0.2447 REMARK 3 6 3.6100 - 3.4000 1.00 1859 142 0.1674 0.2497 REMARK 3 7 3.4000 - 3.2300 0.99 1859 142 0.1877 0.2195 REMARK 3 8 3.2300 - 3.0900 0.99 1851 142 0.2020 0.2598 REMARK 3 9 3.0900 - 2.9700 1.00 1866 142 0.2024 0.2506 REMARK 3 10 2.9700 - 2.8700 1.00 1849 140 0.2009 0.2809 REMARK 3 11 2.8700 - 2.7800 1.00 1858 141 0.2141 0.2964 REMARK 3 12 2.7800 - 2.7000 1.00 1855 141 0.2172 0.2748 REMARK 3 13 2.7000 - 2.6300 1.00 1867 142 0.2288 0.2937 REMARK 3 14 2.6300 - 2.5600 0.98 1808 137 0.2439 0.2989 REMARK 3 REMARK 3 BULK SOLVENT MODELLING. REMARK 3 METHOD USED : FLAT BULK SOLVENT MODEL REMARK 3 SOLVENT RADIUS : 1.10 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) : 0.290 REMARK 3 PHASE ERROR (DEGREES, MAXIMUM-LIKELIHOOD BASED) : 21.540 REMARK 3 REMARK 3 B VALUES. REMARK 3 FROM WILSON PLOT (A**2) : NULL 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 : 0.003 5774 REMARK 3 ANGLE : 0.548 8000 REMARK 3 CHIRALITY : 0.037 918 REMARK 3 PLANARITY : 0.005 908 REMARK 3 DIHEDRAL : 16.518 2175 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): -20.3431 3.8817 -10.1771 REMARK 3 T TENSOR REMARK 3 T11: 0.2104 T22: 0.2077 REMARK 3 T33: 0.2073 T12: -0.0084 REMARK 3 T13: 0.0015 T23: -0.0209 REMARK 3 L TENSOR REMARK 3 L11: 0.9020 L22: 0.6874 REMARK 3 L33: 0.9221 L12: 0.1050 REMARK 3 L13: 0.1265 L23: -0.0531 REMARK 3 S TENSOR REMARK 3 S11: 0.0390 S12: -0.0164 S13: -0.0196 REMARK 3 S21: 0.0750 S22: -0.0272 S23: 0.0296 REMARK 3 S31: 0.1005 S32: -0.1404 S33: -0.0126 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 9YHW COMPLIES WITH FORMAT V. 3.30, 13-JUL-11 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY RCSB ON 03-OCT-25. REMARK 100 THE DEPOSITION ID IS D_1000300590. REMARK 200 REMARK 200 EXPERIMENTAL DETAILS REMARK 200 EXPERIMENT TYPE : X-RAY DIFFRACTION REMARK 200 DATE OF DATA COLLECTION : 11-OCT-24 REMARK 200 TEMPERATURE (KELVIN) : 100 REMARK 200 PH : 6.5 REMARK 200 NUMBER OF CRYSTALS USED : 1 REMARK 200 REMARK 200 SYNCHROTRON (Y/N) : Y REMARK 200 RADIATION SOURCE : CHESS REMARK 200 BEAMLINE : 7B2 REMARK 200 X-RAY GENERATOR MODEL : NULL REMARK 200 MONOCHROMATIC OR LAUE (M/L) : M REMARK 200 WAVELENGTH OR RANGE (A) : 0.9686 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 : XDS REMARK 200 DATA SCALING SOFTWARE : XDS REMARK 200 REMARK 200 NUMBER OF UNIQUE REFLECTIONS : 28317 REMARK 200 RESOLUTION RANGE HIGH (A) : 2.560 REMARK 200 RESOLUTION RANGE LOW (A) : 30.000 REMARK 200 REJECTION CRITERIA (SIGMA(I)) : NULL REMARK 200 REMARK 200 OVERALL. REMARK 200 COMPLETENESS FOR RANGE (%) : 99.8 REMARK 200 DATA REDUNDANCY : 13.50 REMARK 200 R MERGE (I) : 0.16900 REMARK 200 R SYM (I) : NULL REMARK 200 FOR THE DATA SET : 22.3100 REMARK 200 REMARK 200 IN THE HIGHEST RESOLUTION SHELL. REMARK 200 HIGHEST RESOLUTION SHELL, RANGE HIGH (A) : 2.56 REMARK 200 HIGHEST RESOLUTION SHELL, RANGE LOW (A) : 2.63 REMARK 200 COMPLETENESS FOR SHELL (%) : NULL REMARK 200 DATA REDUNDANCY IN SHELL : NULL REMARK 200 R MERGE FOR SHELL (I) : 0.97400 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: PHENIX REMARK 200 STARTING MODEL: NULL REMARK 200 REMARK 200 REMARK: NULL REMARK 280 REMARK 280 CRYSTAL REMARK 280 SOLVENT CONTENT, VS (%): 51.01 REMARK 280 MATTHEWS COEFFICIENT, VM (ANGSTROMS**3/DA): 2.51 REMARK 280 REMARK 280 CRYSTALLIZATION CONDITIONS: 100 MM MES (PH 6.5), 100 MM LITHIUM REMARK 280 ACETATE, 12% (W/V) PEG3350, VAPOR DIFFUSION, HANGING DROP, REMARK 280 TEMPERATURE 296K 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 37.24500 REMARK 290 SMTRY2 2 0.000000 -1.000000 0.000000 0.00000 REMARK 290 SMTRY3 2 0.000000 0.000000 1.000000 57.61950 REMARK 290 SMTRY1 3 -1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY2 3 0.000000 1.000000 0.000000 50.06100 REMARK 290 SMTRY3 3 0.000000 0.000000 -1.000000 57.61950 REMARK 290 SMTRY1 4 1.000000 0.000000 0.000000 37.24500 REMARK 290 SMTRY2 4 0.000000 -1.000000 0.000000 50.06100 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: TETRAMERIC REMARK 350 SOFTWARE DETERMINED QUATERNARY STRUCTURE: TETRAMERIC REMARK 350 SOFTWARE USED: PISA REMARK 350 TOTAL BURIED SURFACE AREA: 9270 ANGSTROM**2 REMARK 350 SURFACE AREA OF THE COMPLEX: 29000 ANGSTROM**2 REMARK 350 CHANGE IN SOLVENT FREE ENERGY: -26.0 KCAL/MOL REMARK 350 APPLY THE FOLLOWING TO CHAINS: A, B, C, 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 754 REMARK 465 ASP A 755 REMARK 465 ASN A 905 REMARK 465 GLN A 906 REMARK 465 GLN A 907 REMARK 465 GLY A 908 REMARK 465 GLU A 909 REMARK 465 ASP A 910 REMARK 465 SER A 911 REMARK 465 GLY A 912 REMARK 465 SER A 913 REMARK 465 ASP A 914 REMARK 465 PRO A 915 REMARK 465 GLU A 916 REMARK 465 ASP A 917 REMARK 465 THR A 918 REMARK 465 ALA A 919 REMARK 465 ALA A 920 REMARK 465 ALA A 921 REMARK 465 LEU A 922 REMARK 465 GLU A 923 REMARK 465 HIS A 924 REMARK 465 HIS A 925 REMARK 465 HIS A 926 REMARK 465 HIS A 927 REMARK 465 HIS A 928 REMARK 465 HIS A 929 REMARK 470 REMARK 470 MISSING ATOM REMARK 470 THE FOLLOWING RESIDUES HAVE MISSING ATOMS (M=MODEL NUMBER; REMARK 470 RES=RESIDUE NAME; C=CHAIN IDENTIFIER; SSEQ=SEQUENCE NUMBER; REMARK 470 I=INSERTION CODE): REMARK 470 M RES CSSEQI ATOMS REMARK 470 LYS A 282 CD CE NZ REMARK 470 LYS A 286 CE NZ REMARK 470 LEU A 306 CD1 CD2 REMARK 470 LYS A 356 CD CE NZ REMARK 470 GLN A 365 CG CD OE1 NE2 REMARK 470 GLU A 367 CD OE1 OE2 REMARK 470 SER A 368 OG REMARK 470 ARG A 370 NE CZ NH1 NH2 REMARK 470 GLU A 375 CD OE1 OE2 REMARK 470 ASN A 385 OD1 ND2 REMARK 470 ARG A 387 CG CD NE CZ NH1 NH2 REMARK 470 GLN A 390 CG CD OE1 NE2 REMARK 470 ARG A 391 CG CD NE CZ NH1 NH2 REMARK 470 LEU A 392 CD1 CD2 REMARK 470 MET A 393 CG SD CE REMARK 470 LEU A 394 CG CD1 CD2 REMARK 470 SER A 417 OG REMARK 470 LYS A 422 NZ REMARK 470 ARG A 435 CZ NH1 NH2 REMARK 470 GLU A 475 CG CD OE1 OE2 REMARK 470 VAL A 481 CG1 REMARK 470 LYS A 485 CE NZ REMARK 470 LYS A 493 NZ REMARK 470 LYS A 504 CE NZ REMARK 470 GLN A 505 CG CD OE1 NE2 REMARK 470 GLU A 522 CG CD OE1 OE2 REMARK 470 GLU A 526 OE1 OE2 REMARK 470 ARG A 527 CG CD NE CZ NH1 NH2 REMARK 470 GLU A 530 CB CG CD OE1 OE2 REMARK 470 LYS A 533 CE NZ REMARK 470 ILE A 538 CD1 REMARK 470 ARG A 549 CG CD NE CZ NH1 NH2 REMARK 470 SER A 552 OG REMARK 470 LYS A 556 CG CD CE NZ REMARK 470 GLU A 559 CB CG CD OE1 OE2 REMARK 470 GLU A 560 CB CG CD OE1 OE2 REMARK 470 LYS A 629 NZ REMARK 470 LYS A 630 CG CD CE NZ REMARK 470 LYS A 642 CD CE NZ REMARK 470 ARG A 643 CG CD NE CZ NH1 NH2 REMARK 470 LYS A 644 CG CD CE NZ REMARK 470 GLU A 645 CG CD OE1 OE2 REMARK 470 VAL A 646 CB CG1 CG2 REMARK 470 SER A 649 CB OG REMARK 470 GLU A 650 CB CG CD OE1 OE2 REMARK 470 GLN A 652 CD OE1 NE2 REMARK 470 GLU A 668 CG CD OE1 OE2 REMARK 470 ARG A 672 NE CZ NH1 NH2 REMARK 470 GLU A 690 CG CD OE1 OE2 REMARK 470 LYS A 702 CG CD CE NZ REMARK 470 ILE A 704 CD1 REMARK 470 GLU A 705 CD OE1 OE2 REMARK 470 GLU A 709 CD OE1 OE2 REMARK 470 LYS A 716 CE NZ REMARK 470 LYS A 747 CG CD CE NZ REMARK 470 ASP A 751 CG OD1 OD2 REMARK 470 ARG A 774 CD NE CZ NH1 NH2 REMARK 470 GLU A 788 CG CD OE1 OE2 REMARK 470 GLU A 803 CG CD OE1 OE2 REMARK 470 LYS A 813 CG CD CE NZ REMARK 470 ARG A 825 NH2 REMARK 470 GLU A 880 OE1 OE2 REMARK 470 GLU A 885 OE1 OE2 REMARK 470 ARG A 898 CG CD NE CZ NH1 NH2 REMARK 470 LYS A 899 CD CE NZ REMARK 470 GLN A 902 CG CD OE1 NE2 REMARK 470 ILE A 903 CG1 CG2 CD1 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 HIS A 436 -109.86 56.79 REMARK 500 ALA A 455 -146.14 -133.46 REMARK 500 GLU A 560 31.77 76.25 REMARK 500 PHE A 660 -2.77 -140.56 REMARK 500 GLU A 692 -57.39 -128.22 REMARK 500 ASP A 728 -39.90 -133.95 REMARK 500 ARG A 738 109.29 -164.51 REMARK 500 HIS A 740 59.01 -111.45 REMARK 500 ARG A 774 -163.41 -125.27 REMARK 500 ASP A 827 -119.48 52.40 REMARK 500 SER A 839 -50.43 -157.17 REMARK 500 ILE A 876 -63.73 -103.38 REMARK 500 ARG A 879 77.97 -102.86 REMARK 500 REMARK 500 REMARK: NULL DBREF 9YHW A 262 918 UNP P18858 DNLI1_HUMAN 262 918 DBREF 9YHW B 1 11 PDB 9YHW 9YHW 1 11 DBREF 9YHW C 11 18 PDB 9YHW 9YHW 11 18 DBREF 9YHW D 1 18 PDB 9YHW 9YHW 1 18 SEQADV 9YHW ALA A 346 UNP P18858 GLU 346 ENGINEERED MUTATION SEQADV 9YHW ALA A 592 UNP P18858 GLU 592 ENGINEERED MUTATION SEQADV 9YHW ALA A 919 UNP P18858 EXPRESSION TAG SEQADV 9YHW ALA A 920 UNP P18858 EXPRESSION TAG SEQADV 9YHW ALA A 921 UNP P18858 EXPRESSION TAG SEQADV 9YHW LEU A 922 UNP P18858 EXPRESSION TAG SEQADV 9YHW GLU A 923 UNP P18858 EXPRESSION TAG SEQADV 9YHW HIS A 924 UNP P18858 EXPRESSION TAG SEQADV 9YHW HIS A 925 UNP P18858 EXPRESSION TAG SEQADV 9YHW HIS A 926 UNP P18858 EXPRESSION TAG SEQADV 9YHW HIS A 927 UNP P18858 EXPRESSION TAG SEQADV 9YHW HIS A 928 UNP P18858 EXPRESSION TAG SEQADV 9YHW HIS A 929 UNP P18858 EXPRESSION TAG SEQRES 1 A 668 ASP PRO SER GLY TYR ASN PRO ALA LYS ASN ASN TYR HIS SEQRES 2 A 668 PRO VAL GLU ASP ALA CYS TRP LYS PRO GLY GLN LYS VAL SEQRES 3 A 668 PRO TYR LEU ALA VAL ALA ARG THR PHE GLU LYS ILE GLU SEQRES 4 A 668 GLU VAL SER ALA ARG LEU ARG MET VAL GLU THR LEU SER SEQRES 5 A 668 ASN LEU LEU ARG SER VAL VAL ALA LEU SER PRO PRO ASP SEQRES 6 A 668 LEU LEU PRO VAL LEU TYR LEU SER LEU ASN HIS LEU GLY SEQRES 7 A 668 PRO PRO GLN GLN GLY LEU ALA LEU GLY VAL GLY ASP GLY SEQRES 8 A 668 VAL LEU LEU LYS ALA VAL ALA GLN ALA THR GLY ARG GLN SEQRES 9 A 668 LEU GLU SER VAL ARG ALA GLU ALA ALA GLU LYS GLY ASP SEQRES 10 A 668 VAL GLY LEU VAL ALA GLU ASN SER ARG SER THR GLN ARG SEQRES 11 A 668 LEU MET LEU PRO PRO PRO PRO LEU THR ALA SER GLY VAL SEQRES 12 A 668 PHE SER LYS PHE ARG ASP ILE ALA ARG LEU THR GLY SER SEQRES 13 A 668 ALA SER THR ALA LYS LYS ILE ASP ILE ILE LYS GLY LEU SEQRES 14 A 668 PHE VAL ALA CYS ARG HIS SER GLU ALA ARG PHE ILE ALA SEQRES 15 A 668 ARG SER LEU SER GLY ARG LEU ARG LEU GLY LEU ALA GLU SEQRES 16 A 668 GLN SER VAL LEU ALA ALA LEU SER GLN ALA VAL SER LEU SEQRES 17 A 668 THR PRO PRO GLY GLN GLU PHE PRO PRO ALA MET VAL ASP SEQRES 18 A 668 ALA GLY LYS GLY LYS THR ALA GLU ALA ARG LYS THR TRP SEQRES 19 A 668 LEU GLU GLU GLN GLY MET ILE LEU LYS GLN THR PHE CYS SEQRES 20 A 668 GLU VAL PRO ASP LEU ASP ARG ILE ILE PRO VAL LEU LEU SEQRES 21 A 668 GLU HIS GLY LEU GLU ARG LEU PRO GLU HIS CYS LYS LEU SEQRES 22 A 668 SER PRO GLY ILE PRO LEU LYS PRO MET LEU ALA HIS PRO SEQRES 23 A 668 THR ARG GLY ILE SER GLU VAL LEU LYS ARG PHE GLU GLU SEQRES 24 A 668 ALA ALA PHE THR CYS GLU TYR LYS TYR ASP GLY GLN ARG SEQRES 25 A 668 ALA GLN ILE HIS ALA LEU GLU GLY GLY GLU VAL LYS ILE SEQRES 26 A 668 PHE SER ARG ASN GLN ALA ASP ASN THR GLY LYS TYR PRO SEQRES 27 A 668 ASP ILE ILE SER ARG ILE PRO LYS ILE LYS LEU PRO SER SEQRES 28 A 668 VAL THR SER PHE ILE LEU ASP THR GLU ALA VAL ALA TRP SEQRES 29 A 668 ASP ARG GLU LYS LYS GLN ILE GLN PRO PHE GLN VAL LEU SEQRES 30 A 668 THR THR ARG LYS ARG LYS GLU VAL ASP ALA SER GLU ILE SEQRES 31 A 668 GLN VAL GLN VAL CYS LEU TYR ALA PHE ASP LEU ILE TYR SEQRES 32 A 668 LEU ASN GLY GLU SER LEU VAL ARG GLU PRO LEU SER ARG SEQRES 33 A 668 ARG ARG GLN LEU LEU ARG GLU ASN PHE VAL GLU THR GLU SEQRES 34 A 668 GLY GLU PHE VAL PHE ALA THR SER LEU ASP THR LYS ASP SEQRES 35 A 668 ILE GLU GLN ILE ALA GLU PHE LEU GLU GLN SER VAL LYS SEQRES 36 A 668 ASP SER CYS GLU GLY LEU MET VAL LYS THR LEU ASP VAL SEQRES 37 A 668 ASP ALA THR TYR GLU ILE ALA LYS ARG SER HIS ASN TRP SEQRES 38 A 668 LEU LYS LEU LYS LYS ASP TYR LEU ASP GLY VAL GLY ASP SEQRES 39 A 668 THR LEU ASP LEU VAL VAL ILE GLY ALA TYR LEU GLY ARG SEQRES 40 A 668 GLY LYS ARG ALA GLY ARG TYR GLY GLY PHE LEU LEU ALA SEQRES 41 A 668 SER TYR ASP GLU ASP SER GLU GLU LEU GLN ALA ILE CYS SEQRES 42 A 668 LYS LEU GLY THR GLY PHE SER ASP GLU GLU LEU GLU GLU SEQRES 43 A 668 HIS HIS GLN SER LEU LYS ALA LEU VAL LEU PRO SER PRO SEQRES 44 A 668 ARG PRO TYR VAL ARG ILE ASP GLY ALA VAL ILE PRO ASP SEQRES 45 A 668 HIS TRP LEU ASP PRO SER ALA VAL TRP GLU VAL LYS CYS SEQRES 46 A 668 ALA ASP LEU SER LEU SER PRO ILE TYR PRO ALA ALA ARG SEQRES 47 A 668 GLY LEU VAL ASP SER ASP LYS GLY ILE SER LEU ARG PHE SEQRES 48 A 668 PRO ARG PHE ILE ARG VAL ARG GLU ASP LYS GLN PRO GLU SEQRES 49 A 668 GLN ALA THR THR SER ALA GLN VAL ALA CYS LEU TYR ARG SEQRES 50 A 668 LYS GLN SER GLN ILE GLN ASN GLN GLN GLY GLU ASP SER SEQRES 51 A 668 GLY SER ASP PRO GLU ASP THR ALA ALA ALA LEU GLU HIS SEQRES 52 A 668 HIS HIS HIS HIS HIS SEQRES 1 B 11 DG DC DT DG DA DT DG DC DG DT 8OG SEQRES 1 C 8 AMP DG DT DC DG DG DA DC SEQRES 1 D 18 DG DT DC DC DG DA DC DA DA DC DG DC DA SEQRES 2 D 18 DT DC DA DG DC HET 8OG B 11 22 HET AMP C 11 22 HET DMS A1001 4 HET DMS A1002 4 HET DMS A1003 4 HET DMS A1004 4 HET DMS A1005 4 HETNAM 8OG 8-OXO-2'-DEOXY-GUANOSINE-5'-MONOPHOSPHATE HETNAM AMP ADENOSINE MONOPHOSPHATE HETNAM DMS DIMETHYL SULFOXIDE HETSYN 8OG 8-OXO-7,8-DIHYDRO-2'-DEOXY-GUANOSINE-5'-MONOPHOSPHATE FORMUL 2 8OG C10 H14 N5 O8 P FORMUL 3 AMP C10 H14 N5 O7 P FORMUL 5 DMS 5(C2 H6 O S) FORMUL 10 HOH *195(H2 O) HELIX 1 AA1 ASP A 262 TYR A 266 5 5 HELIX 2 AA2 PRO A 288 VAL A 302 1 15 HELIX 3 AA3 ALA A 304 SER A 323 1 20 HELIX 4 AA4 ASP A 326 ASN A 336 1 11 HELIX 5 AA5 PRO A 340 GLY A 344 5 5 HELIX 6 AA6 GLY A 350 GLY A 363 1 14 HELIX 7 AA7 GLN A 365 GLY A 377 1 13 HELIX 8 AA8 ASP A 378 SER A 386 1 9 HELIX 9 AA9 THR A 400 LEU A 414 1 15 HELIX 10 AB1 ALA A 418 ALA A 433 1 16 HELIX 11 AB2 SER A 437 GLY A 448 1 12 HELIX 12 AB3 ALA A 455 THR A 470 1 16 HELIX 13 AB4 THR A 488 VAL A 510 1 23 HELIX 14 AB5 ASP A 512 GLY A 524 1 13 HELIX 15 AB6 ARG A 527 HIS A 531 5 5 HELIX 16 AB7 GLY A 550 PHE A 558 1 9 HELIX 17 AB8 ASN A 594 LYS A 597 5 4 HELIX 18 AB9 TYR A 598 LYS A 609 1 12 HELIX 19 AC1 PRO A 634 THR A 639 1 6 HELIX 20 AC2 ASP A 647 ILE A 651 5 5 HELIX 21 AC3 PRO A 674 PHE A 686 1 13 HELIX 22 AC4 ASP A 703 ASP A 717 1 15 HELIX 23 AC5 ASP A 748 LEU A 750 5 3 HELIX 24 AC6 ARG A 768 ALA A 772 5 5 HELIX 25 AC7 SER A 801 LYS A 813 1 13 HELIX 26 AC8 GLN A 883 ALA A 887 5 5 HELIX 27 AC9 THR A 889 GLN A 900 1 12 SHEET 1 AA1 5 ALA A 545 PRO A 547 0 SHEET 2 AA1 5 TRP A 742 LYS A 746 1 O LYS A 744 N HIS A 546 SHEET 3 AA1 5 CYS A 719 THR A 726 -1 N VAL A 724 O LEU A 743 SHEET 4 AA1 5 PHE A 563 TYR A 569 -1 N GLU A 566 O MET A 723 SHEET 5 AA1 5 SER A 698 ASP A 700 -1 O LEU A 699 N CYS A 565 SHEET 1 AA2 5 VAL A 584 PHE A 587 0 SHEET 2 AA2 5 GLN A 572 ALA A 578 -1 N HIS A 577 O LYS A 585 SHEET 3 AA2 5 PHE A 616 ASP A 626 -1 O PHE A 616 N ALA A 578 SHEET 4 AA2 5 VAL A 655 LEU A 665 -1 O CYS A 656 N VAL A 623 SHEET 5 AA2 5 GLU A 668 SER A 669 -1 O GLU A 668 N LEU A 665 SHEET 1 AA3 4 GLN A 631 ILE A 632 0 SHEET 2 AA3 4 PHE A 616 ASP A 626 -1 N ASP A 626 O GLN A 631 SHEET 3 AA3 4 VAL A 655 LEU A 665 -1 O CYS A 656 N VAL A 623 SHEET 4 AA3 4 PHE A 693 PHE A 695 1 O VAL A 694 N LEU A 657 SHEET 1 AA4 6 VAL A 816 LEU A 817 0 SHEET 2 AA4 6 HIS A 834 LEU A 836 -1 O TRP A 835 N LEU A 817 SHEET 3 AA4 6 LEU A 757 LEU A 766 -1 N ALA A 764 O HIS A 834 SHEET 4 AA4 6 TYR A 775 ASP A 784 -1 O ALA A 781 N VAL A 760 SHEET 5 AA4 6 GLU A 789 LEU A 796 -1 O CYS A 794 N LEU A 780 SHEET 6 AA4 6 VAL A 824 ARG A 825 1 O ARG A 825 N LEU A 790 SHEET 1 AA5 5 VAL A 816 LEU A 817 0 SHEET 2 AA5 5 HIS A 834 LEU A 836 -1 O TRP A 835 N LEU A 817 SHEET 3 AA5 5 LEU A 757 LEU A 766 -1 N ALA A 764 O HIS A 834 SHEET 4 AA5 5 VAL A 841 LYS A 845 -1 O VAL A 844 N LEU A 757 SHEET 5 AA5 5 ARG A 874 VAL A 878 -1 O ARG A 877 N GLU A 843 SHEET 1 AA6 2 ASP A 848 SER A 852 0 SHEET 2 AA6 2 GLY A 867 ARG A 871 -1 O ARG A 871 N ASP A 848 LINK O3' DT B 10 P 8OG B 11 1555 1555 1.56 CISPEP 1 PHE A 476 PRO A 477 0 -1.62 CRYST1 74.490 100.122 115.239 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 0.013425 0.000000 0.000000 0.00000 SCALE2 0.000000 0.009988 0.000000 0.00000 SCALE3 0.000000 0.000000 0.008678 0.00000 CONECT 5004 5016 CONECT 5016 5004 5017 5018 CONECT 5017 5016 CONECT 5018 5016 5019 CONECT 5019 5018 5020 CONECT 5020 5019 5021 5022 CONECT 5021 5020 5025 CONECT 5022 5020 5023 5024 CONECT 5023 5022 CONECT 5024 5022 5025 CONECT 5025 5021 5024 5026 CONECT 5026 5025 5027 5036 CONECT 5027 5026 5028 5037 CONECT 5028 5027 5029 CONECT 5029 5028 5030 5036 CONECT 5030 5029 5031 5032 CONECT 5031 5030 CONECT 5032 5030 5033 CONECT 5033 5032 5034 5035 CONECT 5034 5033 CONECT 5035 5033 5036 CONECT 5036 5026 5029 5035 CONECT 5037 5027 CONECT 5039 5040 5041 5042 CONECT 5040 5039 CONECT 5041 5039 CONECT 5042 5039 5043 CONECT 5043 5042 5044 CONECT 5044 5043 5045 5046 CONECT 5045 5044 5050 CONECT 5046 5044 5047 5048 CONECT 5047 5046 CONECT 5048 5046 5049 5050 CONECT 5049 5048 CONECT 5050 5045 5048 5051 CONECT 5051 5050 5052 5060 CONECT 5052 5051 5053 CONECT 5053 5052 5054 CONECT 5054 5053 5055 5060 CONECT 5055 5054 5056 5057 CONECT 5056 5055 CONECT 5057 5055 5058 CONECT 5058 5057 5059 CONECT 5059 5058 5060 CONECT 5060 5051 5054 5059 CONECT 5571 5572 5573 5574 CONECT 5572 5571 CONECT 5573 5571 CONECT 5574 5571 CONECT 5575 5576 5577 5578 CONECT 5576 5575 CONECT 5577 5575 CONECT 5578 5575 CONECT 5579 5580 5581 5582 CONECT 5580 5579 CONECT 5581 5579 CONECT 5582 5579 CONECT 5583 5584 5585 5586 CONECT 5584 5583 CONECT 5585 5583 CONECT 5586 5583 CONECT 5587 5588 5589 5590 CONECT 5588 5587 CONECT 5589 5587 CONECT 5590 5587 MASTER 358 0 7 27 27 0 0 6 5769 4 65 56 END