PDB Short entry for 4KLH HEADER TRANSFERASE, LYASE/DNA 07-MAY-13 4KLH TITLE DNA POLYMERASE BETA MATCHED PRODUCT COMPLEX WITH MN2+, 40 S COMPND MOL_ID: 1; COMPND 2 MOLECULE: 5'-D(*CP*CP*GP*AP*CP*GP*GP*CP*GP*CP*AP*TP*CP*AP*GP*C)-3'; COMPND 3 CHAIN: T; COMPND 4 ENGINEERED: YES; COMPND 5 MOL_ID: 2; COMPND 6 MOLECULE: 5'-D(*GP*CP*TP*GP*AP*TP*GP*CP*GP*CP*C)-3'; COMPND 7 CHAIN: P; COMPND 8 ENGINEERED: YES; COMPND 9 MOL_ID: 3; COMPND 10 MOLECULE: 5'-D(P*GP*TP*CP*GP*G)-3'; COMPND 11 CHAIN: D; COMPND 12 ENGINEERED: YES; COMPND 13 MOL_ID: 4; COMPND 14 MOLECULE: DNA POLYMERASE BETA; COMPND 15 CHAIN: A; COMPND 16 EC: 2.7.7.7, 4.2.99.-; COMPND 17 ENGINEERED: YES SOURCE MOL_ID: 1; SOURCE 2 SYNTHETIC: YES; SOURCE 3 MOL_ID: 2; SOURCE 4 SYNTHETIC: YES; SOURCE 5 MOL_ID: 3; SOURCE 6 SYNTHETIC: YES; SOURCE 7 MOL_ID: 4; SOURCE 8 ORGANISM_SCIENTIFIC: HOMO SAPIENS; SOURCE 9 ORGANISM_COMMON: HUMAN; SOURCE 10 ORGANISM_TAXID: 9606; SOURCE 11 GENE: POLB; SOURCE 12 EXPRESSION_SYSTEM: ESCHERICHIA COLI; SOURCE 13 EXPRESSION_SYSTEM_TAXID: 562; SOURCE 14 EXPRESSION_SYSTEM_STRAIN: TAP56; SOURCE 15 EXPRESSION_SYSTEM_VECTOR_TYPE: PLASMID; SOURCE 16 EXPRESSION_SYSTEM_PLASMID: PW11 KEYWDS DNA POLYMERASE, TRANSFERASE, LYASE-DNA COMPLEX EXPDTA X-RAY DIFFRACTION AUTHOR B.D.FREUDENTHAL,W.A.BEARD,D.D.SHOCK,S.H.WILSON REVDAT 3 20-SEP-23 4KLH 1 REMARK LINK REVDAT 2 15-NOV-17 4KLH 1 REMARK REVDAT 1 17-JUL-13 4KLH 0 JRNL AUTH B.D.FREUDENTHAL,W.A.BEARD,D.D.SHOCK,S.H.WILSON JRNL TITL OBSERVING A DNA POLYMERASE CHOOSE RIGHT FROM WRONG. JRNL REF CELL(CAMBRIDGE,MASS.) V. 154 157 2013 JRNL REFN ISSN 0092-8674 JRNL PMID 23827680 JRNL DOI 10.1016/J.CELL.2013.05.048 REMARK 2 REMARK 2 RESOLUTION. 1.88 ANGSTROMS. REMARK 3 REMARK 3 REFINEMENT. REMARK 3 PROGRAM : PHENIX 1.7_650 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) : 1.88 REMARK 3 RESOLUTION RANGE LOW (ANGSTROMS) : 25.09 REMARK 3 MIN(FOBS/SIGMA_FOBS) : 0.000 REMARK 3 COMPLETENESS FOR RANGE (%) : 85.7 REMARK 3 NUMBER OF REFLECTIONS : 30493 REMARK 3 REMARK 3 FIT TO DATA USED IN REFINEMENT. REMARK 3 R VALUE (WORKING + TEST SET) : 0.211 REMARK 3 R VALUE (WORKING SET) : 0.205 REMARK 3 FREE R VALUE : 0.269 REMARK 3 FREE R VALUE TEST SET SIZE (%) : 9.980 REMARK 3 FREE R VALUE TEST SET COUNT : 3049 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 25.0912 - 5.8043 0.99 2042 225 0.1895 0.2175 REMARK 3 2 5.8043 - 4.6164 0.98 2002 210 0.1500 0.2492 REMARK 3 3 4.6164 - 4.0356 0.99 2043 226 0.1368 0.1877 REMARK 3 4 4.0356 - 3.6679 0.98 2023 216 0.1613 0.2193 REMARK 3 5 3.6679 - 3.4057 0.99 2069 201 0.1946 0.2606 REMARK 3 6 3.4057 - 3.2053 0.98 2031 214 0.2073 0.2479 REMARK 3 7 3.2053 - 3.0451 0.96 1981 224 0.2101 0.2745 REMARK 3 8 3.0451 - 2.9127 0.94 1919 204 0.2163 0.2791 REMARK 3 9 2.9127 - 2.8007 0.93 1884 233 0.2157 0.2741 REMARK 3 10 2.8007 - 2.7042 0.93 1945 208 0.2092 0.2730 REMARK 3 11 2.7042 - 2.6197 0.93 1887 204 0.2293 0.2923 REMARK 3 12 2.6197 - 2.5449 0.93 1898 207 0.2212 0.2736 REMARK 3 13 2.5449 - 2.4780 0.92 1956 197 0.2241 0.2919 REMARK 3 14 2.4780 - 2.4176 0.92 1840 216 0.2229 0.3225 REMARK 3 15 2.4176 - 2.3627 0.91 1851 220 0.2512 0.3150 REMARK 3 16 2.3627 - 2.3124 0.87 1715 212 0.2437 0.3155 REMARK 3 17 2.3124 - 2.2662 0.83 1745 188 0.2595 0.3325 REMARK 3 18 2.2662 - 2.2235 0.94 1930 214 0.2492 0.3199 REMARK 3 19 2.2235 - 2.1838 0.82 1718 208 0.2556 0.3982 REMARK 3 20 2.1838 - 2.1468 0.88 1805 191 0.2500 0.3285 REMARK 3 21 2.1468 - 2.1122 0.89 1779 208 0.2481 0.2789 REMARK 3 22 2.1122 - 2.0797 0.86 1741 215 0.2439 0.3048 REMARK 3 23 2.0797 - 2.0491 0.84 1723 190 0.2541 0.3573 REMARK 3 24 2.0491 - 2.0203 0.80 1698 170 0.2487 0.3221 REMARK 3 25 2.0203 - 1.9930 0.77 1545 172 0.2655 0.3611 REMARK 3 26 1.9930 - 1.9671 0.71 1474 157 0.2794 0.3870 REMARK 3 27 1.9671 - 1.9425 0.60 1231 149 0.3073 0.3866 REMARK 3 28 1.9425 - 1.9191 0.73 1487 161 0.3159 0.3794 REMARK 3 29 1.9191 - 1.8968 0.63 1304 142 0.3719 0.4121 REMARK 3 30 1.8968 - 1.8760 0.27 538 70 0.3971 0.6126 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 : 0.83 REMARK 3 K_SOL : 0.35 REMARK 3 B_SOL : 35.55 REMARK 3 REMARK 3 ERROR ESTIMATES. REMARK 3 COORDINATE ERROR (MAXIMUM-LIKELIHOOD BASED) : 0.350 REMARK 3 PHASE ERROR (DEGREES, MAXIMUM-LIKELIHOOD BASED) : 29.360 REMARK 3 REMARK 3 B VALUES. REMARK 3 FROM WILSON PLOT (A**2) : NULL REMARK 3 MEAN B VALUE (OVERALL, A**2) : 32.63 REMARK 3 OVERALL ANISOTROPIC B VALUE. REMARK 3 B11 (A**2) : 3.02490 REMARK 3 B22 (A**2) : -0.23890 REMARK 3 B33 (A**2) : -2.78590 REMARK 3 B12 (A**2) : 0.00000 REMARK 3 B13 (A**2) : 3.95360 REMARK 3 B23 (A**2) : 0.00000 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 : 0.012 3484 REMARK 3 ANGLE : 1.114 4858 REMARK 3 CHIRALITY : 0.064 523 REMARK 3 PLANARITY : 0.005 516 REMARK 3 DIHEDRAL : 20.287 1380 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 4KLH COMPLIES WITH FORMAT V. 3.30, 13-JUL-11 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY RCSB ON 08-MAY-13. REMARK 100 THE DEPOSITION ID IS D_1000079487. REMARK 200 REMARK 200 EXPERIMENTAL DETAILS REMARK 200 EXPERIMENT TYPE : X-RAY DIFFRACTION REMARK 200 DATE OF DATA COLLECTION : 10-SEP-12 REMARK 200 TEMPERATURE (KELVIN) : 100 REMARK 200 PH : 8.0 REMARK 200 NUMBER OF CRYSTALS USED : 1 REMARK 200 REMARK 200 SYNCHROTRON (Y/N) : N REMARK 200 RADIATION SOURCE : ROTATING ANODE REMARK 200 BEAMLINE : NULL REMARK 200 X-RAY GENERATOR MODEL : RIGAKU MICROMAX-007 HF REMARK 200 MONOCHROMATIC OR LAUE (M/L) : M REMARK 200 WAVELENGTH OR RANGE (A) : 1.54178 REMARK 200 MONOCHROMATOR : NULL REMARK 200 OPTICS : MIRRORS REMARK 200 REMARK 200 DETECTOR TYPE : CCD REMARK 200 DETECTOR MANUFACTURER : RIGAKU SATURN 92 REMARK 200 INTENSITY-INTEGRATION SOFTWARE : DENZO REMARK 200 DATA SCALING SOFTWARE : SCALEPACK REMARK 200 REMARK 200 NUMBER OF UNIQUE REFLECTIONS : 33530 REMARK 200 RESOLUTION RANGE HIGH (A) : 1.876 REMARK 200 RESOLUTION RANGE LOW (A) : 50.000 REMARK 200 REJECTION CRITERIA (SIGMA(I)) : -3.000 REMARK 200 REMARK 200 OVERALL. REMARK 200 COMPLETENESS FOR RANGE (%) : 97.3 REMARK 200 DATA REDUNDANCY : 4.600 REMARK 200 R MERGE (I) : 0.07500 REMARK 200 R SYM (I) : 0.07500 REMARK 200 <I/SIGMA(I)> FOR THE DATA SET : 19.4000 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 (%) : 88.6 REMARK 200 DATA REDUNDANCY IN SHELL : 2.80 REMARK 200 R MERGE FOR SHELL (I) : 0.51600 REMARK 200 R SYM FOR SHELL (I) : 0.51600 REMARK 200 <I/SIGMA(I)> FOR SHELL : 2.039 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: PDB ENTRY 2FMS REMARK 200 REMARK 200 REMARK: NULL REMARK 280 REMARK 280 CRYSTAL REMARK 280 SOLVENT CONTENT, VS (%): 44.85 REMARK 280 MATTHEWS COEFFICIENT, VM (ANGSTROMS**3/DA): 2.23 REMARK 280 REMARK 280 CRYSTALLIZATION CONDITIONS: 50 MM IMIDAZOLE, 350 MM SODIUM REMARK 280 CHLORIDE, 17% PEG3350, PH 8.0, VAPOR DIFFUSION, TEMPERATURE 291K REMARK 290 REMARK 290 CRYSTALLOGRAPHIC SYMMETRY REMARK 290 SYMMETRY OPERATORS FOR SPACE GROUP: P 1 21 1 REMARK 290 REMARK 290 SYMOP SYMMETRY REMARK 290 NNNMMM OPERATOR REMARK 290 1555 X,Y,Z REMARK 290 2555 -X,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 0.00000 REMARK 290 SMTRY2 2 0.000000 1.000000 0.000000 40.10000 REMARK 290 SMTRY3 2 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: 6260 ANGSTROM**2 REMARK 350 SURFACE AREA OF THE COMPLEX: 20170 ANGSTROM**2 REMARK 350 CHANGE IN SOLVENT FREE ENERGY: -115.0 KCAL/MOL REMARK 350 APPLY THE FOLLOWING TO CHAINS: T, P, D, A REMARK 350 BIOMT1 1 1.000000 0.000000 0.000000 0.00000 REMARK 350 BIOMT2 1 0.000000 1.000000 0.000000 0.00000 REMARK 350 BIOMT3 1 0.000000 0.000000 1.000000 0.00000 REMARK 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 1 REMARK 465 SER A 2 REMARK 465 LYS A 3 REMARK 465 ARG A 4 REMARK 465 LYS A 5 REMARK 465 ALA A 6 REMARK 465 PRO A 7 REMARK 465 GLN A 8 REMARK 465 GLU A 9 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 DG T 6 O4' - C1' - N9 ANGL. DEV. = -6.4 DEGREES REMARK 500 DC T 8 O4' - C1' - N1 ANGL. DEV. = 4.2 DEGREES REMARK 500 DC P 11 O4' - C1' - N1 ANGL. DEV. = 2.5 DEGREES REMARK 500 DG D 1 O4' - C1' - N9 ANGL. DEV. = -4.7 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 LYS A 120 10.22 -141.49 REMARK 500 ASP A 170 114.57 -168.43 REMARK 500 CYS A 178 -149.58 -120.27 REMARK 500 ASP A 246 -0.91 75.47 REMARK 500 THR A 304 -164.16 -73.74 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 407 NA REMARK 620 N RES CSSEQI ATOM REMARK 620 1 DG P 9 OP1 REMARK 620 2 HOH P 213 O 89.2 REMARK 620 3 THR A 101 O 164.4 75.6 REMARK 620 4 VAL A 103 O 98.6 172.2 96.5 REMARK 620 5 ILE A 106 O 96.5 93.6 88.3 85.8 REMARK 620 6 HOH A 635 O 94.0 90.0 82.5 89.2 168.9 REMARK 620 N 1 2 3 4 5 REMARK 620 REMARK 620 COORDINATION ANGLES FOR: M RES CSSEQI METAL REMARK 620 MN A 401 MN REMARK 620 N RES CSSEQI ATOM REMARK 620 1 DC P 10 O3' REMARK 620 2 DC P 11 OP1 60.2 REMARK 620 3 ASP A 190 OD2 160.8 116.2 REMARK 620 4 ASP A 192 OD1 96.8 84.9 101.7 REMARK 620 5 ASP A 256 OD2 86.1 146.1 94.6 103.0 REMARK 620 6 HOH A 501 O 81.7 83.5 79.1 167.3 89.4 REMARK 620 N 1 2 3 4 5 REMARK 620 REMARK 620 COORDINATION ANGLES FOR: M RES CSSEQI METAL REMARK 620 MN P 101 MN REMARK 620 N RES CSSEQI ATOM REMARK 620 1 DC P 11 OP2 REMARK 620 2 HOH P 201 O 90.4 REMARK 620 3 HOH P 202 O 87.7 82.9 REMARK 620 4 PPV A 403 O12 89.1 176.0 101.0 REMARK 620 5 HOH A 503 O 167.6 91.7 80.5 89.6 REMARK 620 6 HOH A 504 O 97.4 87.9 169.6 88.2 94.9 REMARK 620 N 1 2 3 4 5 REMARK 620 REMARK 620 COORDINATION ANGLES FOR: M RES CSSEQI METAL REMARK 620 MN A 402 MN REMARK 620 N RES CSSEQI ATOM REMARK 620 1 DC P 11 OP1 REMARK 620 2 ASP A 190 OD1 94.8 REMARK 620 3 ASP A 192 OD2 85.0 96.8 REMARK 620 4 PPV A 403 O32 105.2 159.4 89.9 REMARK 620 5 PPV A 403 O11 111.8 88.6 161.9 79.5 REMARK 620 6 HOH A 502 O 163.8 85.5 78.9 76.7 84.4 REMARK 620 N 1 2 3 4 5 REMARK 620 REMARK 620 COORDINATION ANGLES FOR: M RES CSSEQI METAL REMARK 620 NA A 408 NA REMARK 620 N RES CSSEQI ATOM REMARK 620 1 DC D 3 OP1 REMARK 620 2 HOH D 108 O 83.2 REMARK 620 3 LYS A 60 O 170.5 87.9 REMARK 620 4 LEU A 62 O 92.9 170.2 95.4 REMARK 620 5 VAL A 65 O 85.6 83.3 90.3 87.5 REMARK 620 6 HOH A 582 O 89.1 102.9 95.9 85.9 171.3 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 MN P 101 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC2 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE MN A 401 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC3 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE MN A 402 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC4 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE PPV A 403 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC5 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE CL A 404 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC6 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE CL A 405 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC7 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE CL A 406 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC8 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE NA A 407 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC9 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE NA A 408 REMARK 900 REMARK 900 RELATED ENTRIES REMARK 900 RELATED ID: 4KLD RELATED DB: PDB REMARK 900 RELATED ID: 4KLE RELATED DB: PDB REMARK 900 RELATED ID: 4KLF RELATED DB: PDB REMARK 900 RELATED ID: 4KLG RELATED DB: PDB REMARK 900 RELATED ID: 4KLI RELATED DB: PDB REMARK 900 RELATED ID: 4KLJ RELATED DB: PDB REMARK 900 RELATED ID: 4KLL RELATED DB: PDB REMARK 900 RELATED ID: 4KLM RELATED DB: PDB REMARK 900 RELATED ID: 4KLO RELATED DB: PDB REMARK 900 RELATED ID: 4KLP RELATED DB: PDB REMARK 900 RELATED ID: 4KLQ RELATED DB: PDB REMARK 900 RELATED ID: 4KLS RELATED DB: PDB REMARK 900 RELATED ID: 4KLT RELATED DB: PDB REMARK 900 RELATED ID: 4KLU RELATED DB: PDB DBREF 4KLH A 1 335 UNP P06746 DPOLB_HUMAN 1 335 DBREF 4KLH T 1 16 PDB 4KLH 4KLH 1 16 DBREF 4KLH P 1 11 PDB 4KLH 4KLH 1 11 DBREF 4KLH D 1 5 PDB 4KLH 4KLH 1 5 SEQRES 1 T 16 DC DC DG DA DC DG DG DC DG DC DA DT DC SEQRES 2 T 16 DA DG DC SEQRES 1 P 11 DG DC DT DG DA DT DG DC DG DC DC SEQRES 1 D 5 DG DT DC DG DG SEQRES 1 A 335 MET SER LYS ARG LYS ALA PRO GLN GLU THR LEU ASN GLY SEQRES 2 A 335 GLY ILE THR ASP MET LEU THR GLU LEU ALA ASN PHE GLU SEQRES 3 A 335 LYS ASN VAL SER GLN ALA ILE HIS LYS TYR ASN ALA TYR SEQRES 4 A 335 ARG LYS ALA ALA SER VAL ILE ALA LYS TYR PRO HIS LYS SEQRES 5 A 335 ILE LYS SER GLY ALA GLU ALA LYS LYS LEU PRO GLY VAL SEQRES 6 A 335 GLY THR LYS ILE ALA GLU LYS ILE ASP GLU PHE LEU ALA SEQRES 7 A 335 THR GLY LYS LEU ARG LYS LEU GLU LYS ILE ARG GLN ASP SEQRES 8 A 335 ASP THR SER SER SER ILE ASN PHE LEU THR ARG VAL SER SEQRES 9 A 335 GLY ILE GLY PRO SER ALA ALA ARG LYS PHE VAL ASP GLU SEQRES 10 A 335 GLY ILE LYS THR LEU GLU ASP LEU ARG LYS ASN GLU ASP SEQRES 11 A 335 LYS LEU ASN HIS HIS GLN ARG ILE GLY LEU LYS TYR PHE SEQRES 12 A 335 GLY ASP PHE GLU LYS ARG ILE PRO ARG GLU GLU MET LEU SEQRES 13 A 335 GLN MET GLN ASP ILE VAL LEU ASN GLU VAL LYS LYS VAL SEQRES 14 A 335 ASP SER GLU TYR ILE ALA THR VAL CYS GLY SER PHE ARG SEQRES 15 A 335 ARG GLY ALA GLU SER SER GLY ASP MET ASP VAL LEU LEU SEQRES 16 A 335 THR HIS PRO SER PHE THR SER GLU SER THR LYS GLN PRO SEQRES 17 A 335 LYS LEU LEU HIS GLN VAL VAL GLU GLN LEU GLN LYS VAL SEQRES 18 A 335 HIS PHE ILE THR ASP THR LEU SER LYS GLY GLU THR LYS SEQRES 19 A 335 PHE MET GLY VAL CYS GLN LEU PRO SER LYS ASN ASP GLU SEQRES 20 A 335 LYS GLU TYR PRO HIS ARG ARG ILE ASP ILE ARG LEU ILE SEQRES 21 A 335 PRO LYS ASP GLN TYR TYR CYS GLY VAL LEU TYR PHE THR SEQRES 22 A 335 GLY SER ASP ILE PHE ASN LYS ASN MET ARG ALA HIS ALA SEQRES 23 A 335 LEU GLU LYS GLY PHE THR ILE ASN GLU TYR THR ILE ARG SEQRES 24 A 335 PRO LEU GLY VAL THR GLY VAL ALA GLY GLU PRO LEU PRO SEQRES 25 A 335 VAL ASP SER GLU LYS ASP ILE PHE ASP TYR ILE GLN TRP SEQRES 26 A 335 LYS TYR ARG GLU PRO LYS ASP ARG SER GLU HET MN P 101 1 HET MN A 401 1 HET MN A 402 1 HET PPV A 403 9 HET CL A 404 1 HET CL A 405 1 HET CL A 406 1 HET NA A 407 1 HET NA A 408 1 HETNAM MN MANGANESE (II) ION HETNAM PPV PYROPHOSPHATE HETNAM CL CHLORIDE ION HETNAM NA SODIUM ION FORMUL 5 MN 3(MN 2+) FORMUL 8 PPV H4 O7 P2 FORMUL 9 CL 3(CL 1-) FORMUL 12 NA 2(NA 1+) FORMUL 14 HOH *264(H2 O) HELIX 1 1 ASN A 12 VAL A 29 1 18 HELIX 2 2 ALA A 32 TYR A 49 1 18 HELIX 3 3 SER A 55 LYS A 61 1 7 HELIX 4 4 GLY A 66 GLY A 80 1 15 HELIX 5 5 LEU A 82 ASP A 91 1 10 HELIX 6 6 ASP A 91 THR A 101 1 11 HELIX 7 7 GLY A 107 GLY A 118 1 12 HELIX 8 8 THR A 121 ASN A 128 1 8 HELIX 9 9 GLU A 129 LEU A 132 5 4 HELIX 10 10 ASN A 133 TYR A 142 1 10 HELIX 11 11 TYR A 142 GLU A 147 1 6 HELIX 12 12 ARG A 152 ASP A 170 1 19 HELIX 13 13 LYS A 209 VAL A 221 1 13 HELIX 14 14 PRO A 261 ASP A 263 5 3 HELIX 15 15 GLN A 264 GLY A 274 1 11 HELIX 16 16 SER A 275 LYS A 289 1 15 HELIX 17 17 SER A 315 ILE A 323 1 9 HELIX 18 18 GLU A 329 ARG A 333 5 5 SHEET 1 A 2 ILE A 150 PRO A 151 0 SHEET 2 A 2 SER A 187 SER A 188 -1 O SER A 188 N ILE A 150 SHEET 1 B 5 ILE A 174 CYS A 178 0 SHEET 2 B 5 MET A 191 THR A 196 -1 O LEU A 194 N THR A 176 SHEET 3 B 5 ARG A 253 LEU A 259 1 O ASP A 256 N VAL A 193 SHEET 4 B 5 LYS A 234 CYS A 239 -1 N CYS A 239 O ARG A 253 SHEET 5 B 5 ILE A 224 LYS A 230 -1 N LEU A 228 O MET A 236 SHEET 1 C 2 PHE A 291 ILE A 293 0 SHEET 2 C 2 ILE A 298 PRO A 300 -1 O ARG A 299 N THR A 292 LINK OP1 DG P 9 NA NA A 407 1555 1555 2.42 LINK O3' DC P 10 MN MN A 401 1555 1555 2.69 LINK OP2 DC P 11 MN MN P 101 1555 1555 2.15 LINK OP1 DC P 11 MN MN A 401 1555 1555 2.20 LINK OP1 DC P 11 MN MN A 402 1555 1555 2.16 LINK MN MN P 101 O HOH P 201 1555 1555 2.15 LINK MN MN P 101 O HOH P 202 1555 1555 2.21 LINK MN MN P 101 O12 PPV A 403 1555 1555 2.29 LINK MN MN P 101 O HOH A 503 1555 1555 2.19 LINK MN MN P 101 O HOH A 504 1555 1555 2.23 LINK O HOH P 213 NA NA A 407 1555 1555 2.47 LINK OP1 DC D 3 NA NA A 408 1555 1555 2.61 LINK O HOH D 108 NA NA A 408 1555 1555 2.50 LINK O LYS A 60 NA NA A 408 1555 1555 2.36 LINK O LEU A 62 NA NA A 408 1555 1555 2.36 LINK O VAL A 65 NA NA A 408 1555 1555 2.50 LINK O THR A 101 NA NA A 407 1555 1555 2.48 LINK O VAL A 103 NA NA A 407 1555 1555 2.50 LINK O ILE A 106 NA NA A 407 1555 1555 2.53 LINK OD2 ASP A 190 MN MN A 401 1555 1555 2.15 LINK OD1 ASP A 190 MN MN A 402 1555 1555 2.13 LINK OD1 ASP A 192 MN MN A 401 1555 1555 2.10 LINK OD2 ASP A 192 MN MN A 402 1555 1555 2.12 LINK OD2 ASP A 256 MN MN A 401 1555 1555 2.11 LINK MN MN A 401 O HOH A 501 1555 1555 2.16 LINK MN MN A 402 O32 PPV A 403 1555 1555 2.10 LINK MN MN A 402 O11 PPV A 403 1555 1555 2.26 LINK MN MN A 402 O HOH A 502 1555 1555 2.04 LINK NA NA A 407 O HOH A 635 1555 1555 2.62 LINK NA NA A 408 O HOH A 582 1555 1555 2.50 CISPEP 1 GLY A 274 SER A 275 0 0.66 SITE 1 AC1 6 PPV A 403 HOH A 503 HOH A 504 DC P 11 SITE 2 AC1 6 HOH P 201 HOH P 202 SITE 1 AC2 7 ASP A 190 ASP A 192 ASP A 256 MN A 402 SITE 2 AC2 7 HOH A 501 DC P 10 DC P 11 SITE 1 AC3 6 ASP A 190 ASP A 192 MN A 401 PPV A 403 SITE 2 AC3 6 HOH A 502 DC P 11 SITE 1 AC4 13 GLY A 179 SER A 180 ARG A 183 SER A 188 SITE 2 AC4 13 GLY A 189 ASP A 190 ASP A 192 MN A 402 SITE 3 AC4 13 HOH A 502 HOH A 503 HOH A 508 DC P 11 SITE 4 AC4 13 MN P 101 SITE 1 AC5 3 ALA A 32 HIS A 34 LYS A 35 SITE 1 AC6 4 ASN A 294 THR A 297 ARG A 299 HOH A 693 SITE 1 AC7 3 LEU A 82 ARG A 89 HOH A 616 SITE 1 AC8 6 THR A 101 VAL A 103 ILE A 106 HOH A 635 SITE 2 AC8 6 DG P 9 HOH P 213 SITE 1 AC9 6 LYS A 60 LEU A 62 VAL A 65 HOH A 582 SITE 2 AC9 6 DC D 3 HOH D 108 CRYST1 50.900 80.200 55.100 90.00 107.90 90.00 P 1 21 1 2 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 0.019646 0.000000 0.006346 0.00000 SCALE2 0.000000 0.012469 0.000000 0.00000 SCALE3 0.000000 0.000000 0.019072 0.00000