PDB Short entry for 5TYD HEADER TRANSFERASE/DNA 19-NOV-16 5TYD TITLE DNA POLYMERASE MU REACTANT COMPLEX, 10 MM MG2+ (45 MIN) COMPND MOL_ID: 1; COMPND 2 MOLECULE: DNA-DIRECTED DNA/RNA POLYMERASE MU; COMPND 3 CHAIN: A; COMPND 4 FRAGMENT: UNP RESIDUES 132-494; COMPND 5 SYNONYM: POL MU,TERMINAL TRANSFERASE; COMPND 6 EC: 2.7.7.7; COMPND 7 ENGINEERED: YES; COMPND 8 MOL_ID: 2; COMPND 9 MOLECULE: DNA (5'-D(*CP*GP*GP*CP*AP*TP*AP*CP*G)-3'); COMPND 10 CHAIN: T; COMPND 11 ENGINEERED: YES; COMPND 12 MOL_ID: 3; COMPND 13 MOLECULE: DNA (5'-D(*CP*GP*TP*AP*T)-3'); COMPND 14 CHAIN: P; COMPND 15 ENGINEERED: YES; COMPND 16 MOL_ID: 4; COMPND 17 MOLECULE: DNA (5'-D(P*GP*CP*CP*G)-3'); COMPND 18 CHAIN: D; COMPND 19 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: POLM, POLMU; SOURCE 6 EXPRESSION_SYSTEM: ESCHERICHIA COLI; SOURCE 7 EXPRESSION_SYSTEM_TAXID: 469008; SOURCE 8 EXPRESSION_SYSTEM_STRAIN: BL21(DE3); SOURCE 9 EXPRESSION_SYSTEM_VARIANT: CODONPLUS-RIL; SOURCE 10 EXPRESSION_SYSTEM_VECTOR_TYPE: PLASMID; SOURCE 11 EXPRESSION_SYSTEM_PLASMID: PGEXM; SOURCE 12 MOL_ID: 2; SOURCE 13 SYNTHETIC: YES; SOURCE 14 ORGANISM_SCIENTIFIC: UNIDENTIFIED; SOURCE 15 ORGANISM_TAXID: 32644; SOURCE 16 MOL_ID: 3; SOURCE 17 SYNTHETIC: YES; SOURCE 18 ORGANISM_SCIENTIFIC: UNIDENTIFIED; SOURCE 19 ORGANISM_TAXID: 32644; SOURCE 20 MOL_ID: 4; SOURCE 21 SYNTHETIC: YES; SOURCE 22 ORGANISM_SCIENTIFIC: UNIDENTIFIED; SOURCE 23 ORGANISM_TAXID: 32644 KEYWDS TIME-LAPSE CRYSTALLOGRAPHY, PRODUCT METAL, DNA POLYMERASE MU, DOUBLE KEYWDS 2 STRAND BREAK REPAIR, TRANSFERASE-DNA COMPLEX EXPDTA X-RAY DIFFRACTION AUTHOR J.A.JAMSEN,S.H.WILSON REVDAT 3 04-OCT-23 5TYD 1 LINK REVDAT 2 18-DEC-19 5TYD 1 REMARK REVDAT 1 30-AUG-17 5TYD 0 JRNL AUTH J.A.JAMSEN,W.A.BEARD,L.C.PEDERSEN,D.D.SHOCK,A.F.MOON, JRNL AUTH 2 J.M.KRAHN,K.BEBENEK,T.A.KUNKEL,S.H.WILSON JRNL TITL TIME-LAPSE CRYSTALLOGRAPHY SNAPSHOTS OF A DOUBLE-STRAND JRNL TITL 2 BREAK REPAIR POLYMERASE IN ACTION. JRNL REF NAT COMMUN V. 8 253 2017 JRNL REFN ESSN 2041-1723 JRNL PMID 28811466 JRNL DOI 10.1038/S41467-017-00271-7 REMARK 2 REMARK 2 RESOLUTION. 1.90 ANGSTROMS. REMARK 3 REMARK 3 REFINEMENT. REMARK 3 PROGRAM : PHENIX 1.11.1_2575 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) : 1.90 REMARK 3 RESOLUTION RANGE LOW (ANGSTROMS) : 34.94 REMARK 3 MIN(FOBS/SIGMA_FOBS) : 1.340 REMARK 3 COMPLETENESS FOR RANGE (%) : 99.1 REMARK 3 NUMBER OF REFLECTIONS : 36340 REMARK 3 REMARK 3 FIT TO DATA USED IN REFINEMENT. REMARK 3 R VALUE (WORKING + TEST SET) : 0.173 REMARK 3 R VALUE (WORKING SET) : 0.171 REMARK 3 FREE R VALUE : 0.212 REMARK 3 FREE R VALUE TEST SET SIZE (%) : 5.010 REMARK 3 FREE R VALUE TEST SET COUNT : 1822 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 34.9469 - 4.4612 1.00 2864 151 0.1716 0.1944 REMARK 3 2 4.4612 - 3.5421 1.00 2726 145 0.1377 0.1656 REMARK 3 3 3.5421 - 3.0947 1.00 2705 141 0.1628 0.1976 REMARK 3 4 3.0947 - 2.8119 1.00 2694 143 0.1803 0.2098 REMARK 3 5 2.8119 - 2.6104 1.00 2667 138 0.1776 0.2355 REMARK 3 6 2.6104 - 2.4565 1.00 2647 140 0.1650 0.1996 REMARK 3 7 2.4565 - 2.3335 1.00 2683 143 0.1605 0.2070 REMARK 3 8 2.3335 - 2.2320 1.00 2647 137 0.1705 0.2187 REMARK 3 9 2.2320 - 2.1461 1.00 2652 143 0.1789 0.2365 REMARK 3 10 2.1461 - 2.0720 1.00 2639 140 0.1825 0.2715 REMARK 3 11 2.0720 - 2.0072 1.00 2635 138 0.2014 0.2500 REMARK 3 12 2.0072 - 1.9499 0.98 2603 140 0.2216 0.2594 REMARK 3 13 1.9499 - 1.8985 0.91 2356 123 0.2402 0.3413 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) : 0.220 REMARK 3 PHASE ERROR (DEGREES, MAXIMUM-LIKELIHOOD BASED) : 20.010 REMARK 3 REMARK 3 B VALUES. REMARK 3 FROM WILSON PLOT (A**2) : 19.08 REMARK 3 MEAN B VALUE (OVERALL, A**2) : 22.76 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 : 0.007 3322 REMARK 3 ANGLE : 0.898 4620 REMARK 3 CHIRALITY : 0.051 503 REMARK 3 PLANARITY : 0.006 532 REMARK 3 DIHEDRAL : 9.470 1694 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 5TYD COMPLIES WITH FORMAT V. 3.30, 13-JUL-11 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY RCSB ON 28-NOV-16. REMARK 100 THE DEPOSITION ID IS D_1000225030. REMARK 200 REMARK 200 EXPERIMENTAL DETAILS REMARK 200 EXPERIMENT TYPE : X-RAY DIFFRACTION REMARK 200 DATE OF DATA COLLECTION : 23-MAR-15 REMARK 200 TEMPERATURE (KELVIN) : 100 REMARK 200 PH : 7.5 REMARK 200 NUMBER OF CRYSTALS USED : 1 REMARK 200 REMARK 200 SYNCHROTRON (Y/N) : Y REMARK 200 RADIATION SOURCE : APS REMARK 200 BEAMLINE : 22-BM 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 : CCD REMARK 200 DETECTOR MANUFACTURER : RAYONIX MX-225 REMARK 200 INTENSITY-INTEGRATION SOFTWARE : HKL-2000 REMARK 200 DATA SCALING SOFTWARE : HKL-2000 REMARK 200 REMARK 200 NUMBER OF UNIQUE REFLECTIONS : 36696 REMARK 200 RESOLUTION RANGE HIGH (A) : 1.899 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 (%) : 100.0 REMARK 200 DATA REDUNDANCY : 7.400 REMARK 200 R MERGE (I) : 0.07000 REMARK 200 R SYM (I) : NULL REMARK 200 <I/SIGMA(I)> FOR THE DATA SET : 7.4000 REMARK 200 REMARK 200 IN THE HIGHEST RESOLUTION SHELL. REMARK 200 HIGHEST RESOLUTION SHELL, RANGE HIGH (A) : 1.90 REMARK 200 HIGHEST RESOLUTION SHELL, RANGE LOW (A) : 1.93 REMARK 200 COMPLETENESS FOR SHELL (%) : 100.0 REMARK 200 DATA REDUNDANCY IN SHELL : 7.40 REMARK 200 R MERGE FOR SHELL (I) : 0.96300 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: 4M04 REMARK 200 REMARK 200 REMARK: NULL REMARK 280 REMARK 280 CRYSTAL REMARK 280 SOLVENT CONTENT, VS (%): 54.03 REMARK 280 MATTHEWS COEFFICIENT, VM (ANGSTROMS**3/DA): 2.68 REMARK 280 REMARK 280 CRYSTALLIZATION CONDITIONS: 85-90MM HEPES PH 7.5, 17-18% PEG4000, REMARK 280 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 29.94550 REMARK 290 SMTRY2 2 0.000000 -1.000000 0.000000 0.00000 REMARK 290 SMTRY3 2 0.000000 0.000000 1.000000 55.23800 REMARK 290 SMTRY1 3 -1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY2 3 0.000000 1.000000 0.000000 34.29500 REMARK 290 SMTRY3 3 0.000000 0.000000 -1.000000 55.23800 REMARK 290 SMTRY1 4 1.000000 0.000000 0.000000 29.94550 REMARK 290 SMTRY2 4 0.000000 -1.000000 0.000000 34.29500 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: 6520 ANGSTROM**2 REMARK 350 SURFACE AREA OF THE COMPLEX: 16100 ANGSTROM**2 REMARK 350 CHANGE IN SOLVENT FREE ENERGY: -48.0 KCAL/MOL REMARK 350 APPLY THE FOLLOWING TO CHAINS: A, T, 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 127 REMARK 465 SER A 128 REMARK 465 ALA A 129 REMARK 465 ALA A 130 REMARK 465 ALA A 131 REMARK 465 PRO A 132 REMARK 465 LEU A 133 REMARK 465 SER A 134 REMARK 465 PRO A 135 REMARK 465 ALA A 136 REMARK 465 HIS A 365 REMARK 465 GLN A 366 REMARK 465 HIS A 367 REMARK 465 SER A 368 REMARK 465 CYS A 369 REMARK 465 CYS A 370 REMARK 465 GLU A 371 REMARK 465 SER A 372 REMARK 465 PRO A 373 REMARK 465 THR A 374 REMARK 465 ARG A 375 REMARK 465 LEU A 376 REMARK 465 ALA A 377 REMARK 465 GLN A 378 REMARK 465 GLN A 379 REMARK 465 SER A 380 REMARK 465 HIS A 381 REMARK 465 MET A 382 REMARK 465 ASP A 383 REMARK 465 ALA A 384 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 TRP A 137 CG CD1 CD2 NE1 CE2 CE3 CZ2 REMARK 470 TRP A 137 CZ3 CH2 REMARK 470 GLN A 200 CG CD OE1 NE2 REMARK 470 GLU A 223 CD OE1 OE2 REMARK 470 GLU A 267 CG CD OE1 OE2 REMARK 470 GLN A 268 CG CD OE1 NE2 REMARK 470 GLN A 270 CG CD OE1 NE2 REMARK 470 LYS A 271 CG CD CE NZ REMARK 470 GLN A 274 CG CD OE1 NE2 REMARK 470 GLN A 300 CD OE1 NE2 REMARK 470 GLU A 304 CD OE1 OE2 REMARK 470 LYS A 339 CD CE NZ REMARK 470 GLN A 355 CD OE1 NE2 REMARK 470 GLN A 357 OE1 NE2 REMARK 470 GLN A 364 CG CD OE1 NE2 REMARK 470 GLU A 465 OE1 OE2 REMARK 470 LYS A 467 CD CE NZ REMARK 470 GLN A 471 OE1 NE2 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 DT P 3 O3' DT P 3 C3' -0.043 REMARK 500 DG D 1 P DG D 1 OP3 -0.118 REMARK 500 REMARK 500 REMARK: NULL REMARK 500 REMARK 500 GEOMETRY AND STEREOCHEMISTRY REMARK 500 SUBTOPIC: COVALENT BOND ANGLES 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,A3,1X,A1,I4,A1,3(1X,A4,2X),12X,F5.1) 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 ATM2 ATM3 REMARK 500 DT T 6 O4' - C1' - N1 ANGL. DEV. = 3.6 DEGREES 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 153 39.51 -146.10 REMARK 500 GLN A 268 57.71 -140.47 REMARK 500 LEU A 310 95.35 -161.29 REMARK 500 THR A 318 -153.57 -126.88 REMARK 500 THR A 318 -153.04 -129.67 REMARK 500 PRO A 397 106.32 -48.87 REMARK 500 SER A 411 -142.49 -167.48 REMARK 500 ASN A 493 47.65 -84.93 REMARK 500 REMARK 500 REMARK: NULL REMARK 610 REMARK 610 MISSING HETEROATOM REMARK 610 THE FOLLOWING RESIDUES HAVE MISSING ATOMS (M=MODEL NUMBER; REMARK 610 RES=RESIDUE NAME; C=CHAIN IDENTIFIER; SSEQ=SEQUENCE NUMBER; REMARK 610 I=INSERTION CODE): REMARK 610 M RES C SSEQI REMARK 610 EPE A 506 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 503 NA REMARK 620 N RES CSSEQI ATOM REMARK 620 1 THR A 241 O REMARK 620 2 ILE A 243 O 96.5 REMARK 620 3 VAL A 246 O 88.9 94.3 REMARK 620 4 HOH A 823 O 86.7 89.2 174.7 REMARK 620 5 DT P 3 OP1 171.7 91.6 92.1 91.8 REMARK 620 6 HOH P 215 O 83.1 179.0 86.7 89.9 88.8 REMARK 620 N 1 2 3 4 5 REMARK 620 REMARK 620 COORDINATION ANGLES FOR: M RES CSSEQI METAL REMARK 620 MG A 501 MG REMARK 620 N RES CSSEQI ATOM REMARK 620 1 ASP A 330 OD2 REMARK 620 2 ASP A 330 OD2 37.7 REMARK 620 3 ASP A 332 OD1 104.6 86.2 REMARK 620 4 ASP A 418 OD2 99.2 134.7 97.0 REMARK 620 5 TTP A 505 O2A 90.2 57.6 91.5 165.3 REMARK 620 6 HOH A 604 O 66.5 80.8 166.6 94.4 78.9 REMARK 620 7 DA P 4 O3' 162.5 139.8 91.5 85.4 82.4 96.4 REMARK 620 8 DA P 4 O3' 143.4 126.6 106.3 95.9 70.1 79.4 19.4 REMARK 620 9 DT P 5 OP1 96.1 64.0 92.5 159.3 6.4 79.0 76.0 63.7 REMARK 620 N 1 2 3 4 5 6 7 8 REMARK 620 REMARK 620 COORDINATION ANGLES FOR: M RES CSSEQI METAL REMARK 620 MG A 502 MG REMARK 620 N RES CSSEQI ATOM REMARK 620 1 ASP A 330 OD1 REMARK 620 2 ASP A 330 OD2 20.9 REMARK 620 3 ASP A 332 OD2 92.7 95.5 REMARK 620 4 TTP A 505 O2A 100.6 79.6 98.6 REMARK 620 5 TTP A 505 O2B 169.7 167.8 90.2 88.8 REMARK 620 6 TTP A 505 O3G 85.9 84.1 177.1 84.2 90.8 REMARK 620 7 PPV A 510 O21 160.3 164.7 99.0 93.3 10.7 81.7 REMARK 620 8 PPV A 510 O32 88.7 88.3 173.0 87.9 87.3 5.2 77.9 REMARK 620 9 HOH A 629 O 76.2 97.1 84.7 175.5 94.2 92.5 89.1 88.9 REMARK 620 N 1 2 3 4 5 6 7 8 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 501 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC2 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue MG A 502 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC3 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue NA A 503 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC4 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue DTT A 504 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC5 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue TTP A 505 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC6 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue EPE A 506 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC7 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue EDO A 507 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC8 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue EDO A 508 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC9 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue EDO A 509 REMARK 800 REMARK 800 SITE_IDENTIFIER: AD1 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue PPV A 510 REMARK 800 REMARK 800 SITE_IDENTIFIER: AD2 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue EDO P 101 REMARK 900 REMARK 900 RELATED ENTRIES REMARK 900 RELATED ID: 5TXX RELATED DB: PDB REMARK 900 RELATED ID: 5TXZ RELATED DB: PDB REMARK 900 RELATED ID: 5TYB RELATED DB: PDB REMARK 900 RELATED ID: 5TYC RELATED DB: PDB REMARK 900 RELATED ID: 5TYE RELATED DB: PDB REMARK 900 RELATED ID: 5TYF RELATED DB: PDB REMARK 900 RELATED ID: 5TYG RELATED DB: PDB REMARK 900 RELATED ID: 5TYU RELATED DB: PDB REMARK 900 RELATED ID: 5TYV RELATED DB: PDB REMARK 900 RELATED ID: 5TYW RELATED DB: PDB REMARK 900 RELATED ID: 5TYX RELATED DB: PDB REMARK 900 RELATED ID: 5TYY RELATED DB: PDB REMARK 900 RELATED ID: 5TYZ RELATED DB: PDB DBREF 5TYD A 132 494 UNP Q9NP87 DPOLM_HUMAN 132 494 DBREF 5TYD T 1 9 PDB 5TYD 5TYD 1 9 DBREF 5TYD P 1 5 PDB 5TYD 5TYD 1 5 DBREF 5TYD D 1 4 PDB 5TYD 5TYD 1 4 SEQADV 5TYD GLY A 127 UNP Q9NP87 EXPRESSION TAG SEQADV 5TYD SER A 128 UNP Q9NP87 EXPRESSION TAG SEQADV 5TYD ALA A 129 UNP Q9NP87 EXPRESSION TAG SEQADV 5TYD ALA A 130 UNP Q9NP87 EXPRESSION TAG SEQADV 5TYD ALA A 131 UNP Q9NP87 EXPRESSION TAG SEQADV 5TYD A UNP Q9NP87 PRO 398 DELETION SEQADV 5TYD A UNP Q9NP87 GLY 399 DELETION SEQADV 5TYD A UNP Q9NP87 ALA 400 DELETION SEQADV 5TYD A UNP Q9NP87 ALA 401 DELETION SEQADV 5TYD A UNP Q9NP87 VAL 402 DELETION SEQADV 5TYD A UNP Q9NP87 GLY 403 DELETION SEQADV 5TYD A UNP Q9NP87 GLY 404 DELETION SEQADV 5TYD A UNP Q9NP87 SER 405 DELETION SEQADV 5TYD A UNP Q9NP87 THR 406 DELETION SEQADV 5TYD A UNP Q9NP87 ARG 407 DELETION SEQADV 5TYD A UNP Q9NP87 PRO 408 DELETION SEQADV 5TYD A UNP Q9NP87 CYS 409 DELETION SEQADV 5TYD GLY A 410 UNP Q9NP87 PRO 410 CONFLICT SEQRES 1 A 356 GLY SER ALA ALA ALA PRO LEU SER PRO ALA TRP MET PRO SEQRES 2 A 356 ALA TYR ALA CYS GLN ARG PRO THR PRO LEU THR HIS HIS SEQRES 3 A 356 ASN THR GLY LEU SER GLU ALA LEU GLU ILE LEU ALA GLU SEQRES 4 A 356 ALA ALA GLY PHE GLU GLY SER GLU GLY ARG LEU LEU THR SEQRES 5 A 356 PHE CYS ARG ALA ALA SER VAL LEU LYS ALA LEU PRO SER SEQRES 6 A 356 PRO VAL THR THR LEU SER GLN LEU GLN GLY LEU PRO HIS SEQRES 7 A 356 PHE GLY GLU HIS SER SER ARG VAL VAL GLN GLU LEU LEU SEQRES 8 A 356 GLU HIS GLY VAL CYS GLU GLU VAL GLU ARG VAL ARG ARG SEQRES 9 A 356 SER GLU ARG TYR GLN THR MET LYS LEU PHE THR GLN ILE SEQRES 10 A 356 PHE GLY VAL GLY VAL LYS THR ALA ASP ARG TRP TYR ARG SEQRES 11 A 356 GLU GLY LEU ARG THR LEU ASP ASP LEU ARG GLU GLN PRO SEQRES 12 A 356 GLN LYS LEU THR GLN GLN GLN LYS ALA GLY LEU GLN HIS SEQRES 13 A 356 HIS GLN ASP LEU SER THR PRO VAL LEU ARG SER ASP VAL SEQRES 14 A 356 ASP ALA LEU GLN GLN VAL VAL GLU GLU ALA VAL GLY GLN SEQRES 15 A 356 ALA LEU PRO GLY ALA THR VAL THR LEU THR GLY GLY PHE SEQRES 16 A 356 ARG ARG GLY LYS LEU GLN GLY HIS ASP VAL ASP PHE LEU SEQRES 17 A 356 ILE THR HIS PRO LYS GLU GLY GLN GLU ALA GLY LEU LEU SEQRES 18 A 356 PRO ARG VAL MET CYS ARG LEU GLN ASP GLN GLY LEU ILE SEQRES 19 A 356 LEU TYR HIS GLN HIS GLN HIS SER CYS CYS GLU SER PRO SEQRES 20 A 356 THR ARG LEU ALA GLN GLN SER HIS MET ASP ALA PHE GLU SEQRES 21 A 356 ARG SER PHE CYS ILE PHE ARG LEU PRO GLN PRO GLY SER SEQRES 22 A 356 TRP LYS ALA VAL ARG VAL ASP LEU VAL VAL ALA PRO VAL SEQRES 23 A 356 SER GLN PHE PRO PHE ALA LEU LEU GLY TRP THR GLY SER SEQRES 24 A 356 LYS LEU PHE GLN ARG GLU LEU ARG ARG PHE SER ARG LYS SEQRES 25 A 356 GLU LYS GLY LEU TRP LEU ASN SER HIS GLY LEU PHE ASP SEQRES 26 A 356 PRO GLU GLN LYS THR PHE PHE GLN ALA ALA SER GLU GLU SEQRES 27 A 356 ASP ILE PHE ARG HIS LEU GLY LEU GLU TYR LEU PRO PRO SEQRES 28 A 356 GLU GLN ARG ASN ALA SEQRES 1 T 9 DC DG DG DC DA DT DA DC DG SEQRES 1 P 5 DC DG DT DA DT SEQRES 1 D 4 DG DC DC DG HET MG A 501 1 HET MG A 502 1 HET NA A 503 1 HET DTT A 504 1 HET TTP A 505 29 HET EPE A 506 4 HET EDO A 507 4 HET EDO A 508 4 HET EDO A 509 4 HET PPV A 510 9 HET EDO P 101 4 HETNAM MG MAGNESIUM ION HETNAM NA SODIUM ION HETNAM DTT 2,3-DIHYDROXY-1,4-DITHIOBUTANE HETNAM TTP THYMIDINE-5'-TRIPHOSPHATE HETNAM EPE 4-(2-HYDROXYETHYL)-1-PIPERAZINE ETHANESULFONIC ACID HETNAM EDO 1,2-ETHANEDIOL HETNAM PPV PYROPHOSPHATE HETSYN DTT 1,4-DITHIOTHREITOL HETSYN EPE HEPES HETSYN EDO ETHYLENE GLYCOL FORMUL 5 MG 2(MG 2+) FORMUL 7 NA NA 1+ FORMUL 8 DTT C4 H10 O2 S2 FORMUL 9 TTP C10 H17 N2 O14 P3 FORMUL 10 EPE C8 H18 N2 O4 S FORMUL 11 EDO 4(C2 H6 O2) FORMUL 14 PPV H4 O7 P2 FORMUL 16 HOH *346(H2 O) HELIX 1 AA1 TYR A 141 ARG A 145 5 5 HELIX 2 AA2 ASN A 153 GLU A 170 1 18 HELIX 3 AA3 SER A 172 ALA A 188 1 17 HELIX 4 AA4 THR A 195 GLN A 200 5 6 HELIX 5 AA5 GLY A 206 GLY A 220 1 15 HELIX 6 AA6 CYS A 222 SER A 231 1 10 HELIX 7 AA7 SER A 231 GLN A 242 1 12 HELIX 8 AA8 GLY A 247 GLU A 257 1 11 HELIX 9 AA9 THR A 261 GLU A 267 1 7 HELIX 10 AB1 GLN A 268 LEU A 272 5 5 HELIX 11 AB2 THR A 273 HIS A 282 1 10 HELIX 12 AB3 HIS A 282 SER A 287 1 6 HELIX 13 AB4 ARG A 292 LEU A 310 1 19 HELIX 14 AB5 THR A 318 ARG A 323 1 6 HELIX 15 AB6 GLY A 345 GLN A 357 1 13 HELIX 16 AB7 PRO A 423 SER A 425 5 3 HELIX 17 AB8 GLN A 426 GLY A 436 1 11 HELIX 18 AB9 SER A 437 GLY A 453 1 17 HELIX 19 AC1 SER A 474 LEU A 482 1 9 HELIX 20 AC2 PRO A 488 ARG A 492 5 5 SHEET 1 AA1 2 VAL A 290 LEU A 291 0 SHEET 2 AA1 2 GLN A 327 GLY A 328 -1 O GLY A 328 N VAL A 290 SHEET 1 AA2 5 THR A 314 LEU A 317 0 SHEET 2 AA2 5 VAL A 331 THR A 336 -1 O LEU A 334 N THR A 316 SHEET 3 AA2 5 SER A 411 VAL A 421 1 O VAL A 420 N ILE A 335 SHEET 4 AA2 5 ARG A 387 GLN A 396 -1 N PHE A 392 O VAL A 415 SHEET 5 AA2 5 ILE A 360 TYR A 362 -1 N LEU A 361 O ILE A 391 SHEET 1 AA3 3 TRP A 455 LEU A 456 0 SHEET 2 AA3 3 LEU A 461 ASP A 463 -1 O PHE A 462 N TRP A 455 SHEET 3 AA3 3 THR A 468 PHE A 469 -1 O THR A 468 N ASP A 463 LINK SG ACYS A 180 S1 ADTT A 504 1555 1555 2.01 LINK O THR A 241 NA NA A 503 1555 1555 2.40 LINK O ILE A 243 NA NA A 503 1555 1555 2.34 LINK O VAL A 246 NA NA A 503 1555 1555 2.35 LINK OD2AASP A 330 MG MG A 501 1555 1555 1.81 LINK OD2BASP A 330 MG MG A 501 1555 1555 2.68 LINK OD1AASP A 330 MG MG A 502 1555 1555 2.08 LINK OD2BASP A 330 MG MG A 502 1555 1555 1.96 LINK OD1 ASP A 332 MG MG A 501 1555 1555 2.09 LINK OD2 ASP A 332 MG MG A 502 1555 1555 2.02 LINK OD2 ASP A 418 MG MG A 501 1555 1555 2.14 LINK MG MG A 501 O2AATTP A 505 1555 1555 2.45 LINK MG MG A 501 O HOH A 604 1555 1555 2.41 LINK MG MG A 501 O3'A DA P 4 1555 1555 2.43 LINK MG MG A 501 O3'B DA P 4 1555 1555 2.42 LINK MG MG A 501 OP1B DT P 5 1555 1555 2.28 LINK MG MG A 502 O2AATTP A 505 1555 1555 1.92 LINK MG MG A 502 O2BATTP A 505 1555 1555 2.00 LINK MG MG A 502 O3GATTP A 505 1555 1555 2.11 LINK MG MG A 502 O21BPPV A 510 1555 1555 2.06 LINK MG MG A 502 O32BPPV A 510 1555 1555 2.25 LINK MG MG A 502 O HOH A 629 1555 1555 2.06 LINK MG MG A 502 OP1B DT P 5 1555 1555 2.19 LINK NA NA A 503 O HOH A 823 1555 1555 2.48 LINK NA NA A 503 OP1 DT P 3 1555 1555 2.58 LINK NA NA A 503 O HOH P 215 1555 1555 2.33 CISPEP 1 GLY A 436 SER A 437 0 -3.47 SITE 1 AC1 8 ASP A 330 ASP A 332 ASP A 418 MG A 502 SITE 2 AC1 8 TTP A 505 HOH A 604 DA P 4 DT P 5 SITE 1 AC2 7 ASP A 330 ASP A 332 MG A 501 TTP A 505 SITE 2 AC2 7 PPV A 510 HOH A 629 DT P 5 SITE 1 AC3 6 THR A 241 ILE A 243 VAL A 246 HOH A 823 SITE 2 AC3 6 DT P 3 HOH P 215 SITE 1 AC4 1 CYS A 180 SITE 1 AC5 27 GLY A 319 GLY A 320 ARG A 323 LYS A 325 SITE 2 AC5 27 HIS A 329 ASP A 330 ASP A 332 GLY A 433 SITE 3 AC5 27 TRP A 434 GLY A 436 LYS A 438 MG A 501 SITE 4 AC5 27 MG A 502 PPV A 510 HOH A 603 HOH A 604 SITE 5 AC5 27 HOH A 613 HOH A 629 HOH A 639 HOH A 667 SITE 6 AC5 27 HOH A 723 HOH A 785 DA P 4 DT P 5 SITE 7 AC5 27 EDO P 101 HOH P 212 DA T 5 SITE 1 AC6 4 LYS A 325 LEU A 326 GLN A 327 HOH A 618 SITE 1 AC7 3 THR A 314 THR A 336 HOH A 677 SITE 1 AC8 5 PRO A 190 SER A 191 PRO A 192 GLN A 198 SITE 2 AC8 5 HOH A 631 SITE 1 AC9 1 HIS A 459 SITE 1 AD1 17 GLY A 319 GLY A 320 ARG A 323 LYS A 325 SITE 2 AD1 17 GLY A 328 HIS A 329 ASP A 330 ASP A 332 SITE 3 AD1 17 MG A 502 TTP A 505 HOH A 603 HOH A 613 SITE 4 AD1 17 HOH A 629 HOH A 667 HOH A 723 HOH A 785 SITE 5 AD1 17 DT P 5 SITE 1 AD2 7 ARG A 387 GLY A 433 TRP A 434 ARG A 445 SITE 2 AD2 7 TTP A 505 DA P 4 DT P 5 CRYST1 59.891 68.590 110.476 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 0.016697 0.000000 0.000000 0.00000 SCALE2 0.000000 0.014579 0.000000 0.00000 SCALE3 0.000000 0.000000 0.009052 0.00000