PDB Short entry for 4KLT HEADER TRANSFERASE, LYASE/DNA 07-MAY-13 4KLT TITLE DNA POLYMERASE BETA MISMATCHED PRODUCT COMPLEX WITH MN2+, 30 MIN COMPND MOL_ID: 1; COMPND 2 MOLECULE: DNA POLYMERASE BETA; COMPND 3 CHAIN: A; COMPND 4 EC: 2.7.7.7, 4.2.99.-; COMPND 5 ENGINEERED: YES; COMPND 6 MOL_ID: 2; COMPND 7 MOLECULE: 5'-D(P*GP*TP*CP*GP*G)-3'; COMPND 8 CHAIN: D; COMPND 9 ENGINEERED: YES; COMPND 10 MOL_ID: 3; COMPND 11 MOLECULE: 5'-D(*GP*CP*TP*GP*AP*TP*GP*CP*GP*CP*A)-3'; COMPND 12 CHAIN: P; COMPND 13 ENGINEERED: YES; COMPND 14 MOL_ID: 4; COMPND 15 MOLECULE: 5'-D(*CP*CP*GP*AP*CP*GP*GP*CP*GP*CP*AP*TP*CP*AP*GP*C)-3'; COMPND 16 CHAIN: T; COMPND 17 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: POLB; SOURCE 6 EXPRESSION_SYSTEM: ESCHERICHIA COLI; SOURCE 7 EXPRESSION_SYSTEM_TAXID: 562; SOURCE 8 EXPRESSION_SYSTEM_STRAIN: TAP56; SOURCE 9 EXPRESSION_SYSTEM_VECTOR_TYPE: PLASMID; SOURCE 10 EXPRESSION_SYSTEM_PLASMID: PWL11; SOURCE 11 MOL_ID: 2; SOURCE 12 SYNTHETIC: YES; SOURCE 13 MOL_ID: 3; SOURCE 14 SYNTHETIC: YES; SOURCE 15 MOL_ID: 4; SOURCE 16 SYNTHETIC: YES 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 4KLT 1 REMARK LINK REVDAT 2 15-NOV-17 4KLT 1 REMARK REVDAT 1 17-JUL-13 4KLT 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. 1.98 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) : 1.98 REMARK 3 RESOLUTION RANGE LOW (ANGSTROMS) : 25.76 REMARK 3 MIN(FOBS/SIGMA_FOBS) : 0.000 REMARK 3 COMPLETENESS FOR RANGE (%) : 86.9 REMARK 3 NUMBER OF REFLECTIONS : 51621 REMARK 3 REMARK 3 FIT TO DATA USED IN REFINEMENT. REMARK 3 R VALUE (WORKING + TEST SET) : 0.232 REMARK 3 R VALUE (WORKING SET) : 0.229 REMARK 3 FREE R VALUE : 0.293 REMARK 3 FREE R VALUE TEST SET SIZE (%) : 5.010 REMARK 3 FREE R VALUE TEST SET COUNT : 1367 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 25.7659 - 5.1729 0.99 3103 174 0.2215 0.2277 REMARK 3 2 5.1729 - 4.1113 0.99 3117 170 0.1715 0.2431 REMARK 3 3 4.1113 - 3.5931 0.97 3036 154 0.1818 0.2772 REMARK 3 4 3.5931 - 3.2653 1.00 3129 166 0.2094 0.2507 REMARK 3 5 3.2653 - 3.0317 0.98 3057 161 0.2287 0.2892 REMARK 3 6 3.0317 - 2.8532 0.92 2881 152 0.2269 0.3054 REMARK 3 7 2.8532 - 2.7104 0.91 2865 148 0.2360 0.2750 REMARK 3 8 2.7104 - 2.5926 0.91 2862 153 0.2601 0.3671 REMARK 3 9 2.5926 - 2.4928 0.92 2873 160 0.2716 0.3730 REMARK 3 10 2.4928 - 2.4069 0.91 2860 145 0.2800 0.3355 REMARK 3 11 2.4069 - 2.3317 0.89 2821 149 0.2539 0.3519 REMARK 3 12 2.3317 - 2.2651 0.70 2157 112 0.3259 0.3779 REMARK 3 13 2.2651 - 2.2055 0.84 2674 135 0.3384 0.5072 REMARK 3 14 2.2055 - 2.1517 0.76 2375 130 0.3032 0.3412 REMARK 3 15 2.1517 - 2.1028 0.84 2642 128 0.2788 0.3109 REMARK 3 16 2.1028 - 2.0581 0.78 2461 135 0.2632 0.3436 REMARK 3 17 2.0581 - 2.0169 0.70 2150 120 0.2915 0.3561 REMARK 3 18 2.0169 - 1.9790 0.62 1973 93 0.3210 0.3982 REMARK 3 REMARK 3 BULK SOLVENT MODELLING. REMARK 3 METHOD USED : FLAT BULK SOLVENT MODEL REMARK 3 SOLVENT RADIUS : 1.00 REMARK 3 SHRINKAGE RADIUS : 0.72 REMARK 3 K_SOL : 0.40 REMARK 3 B_SOL : 59.89 REMARK 3 REMARK 3 ERROR ESTIMATES. REMARK 3 COORDINATE ERROR (MAXIMUM-LIKELIHOOD BASED) : 0.370 REMARK 3 PHASE ERROR (DEGREES, MAXIMUM-LIKELIHOOD BASED) : 31.870 REMARK 3 REMARK 3 B VALUES. REMARK 3 FROM WILSON PLOT (A**2) : NULL REMARK 3 MEAN B VALUE (OVERALL, A**2) : 38.74 REMARK 3 OVERALL ANISOTROPIC B VALUE. REMARK 3 B11 (A**2) : -2.28530 REMARK 3 B22 (A**2) : -2.41320 REMARK 3 B33 (A**2) : 4.69850 REMARK 3 B12 (A**2) : 0.00000 REMARK 3 B13 (A**2) : 2.36540 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 : 0.007 3370 REMARK 3 ANGLE : 1.208 4683 REMARK 3 CHIRALITY : 0.069 511 REMARK 3 PLANARITY : 0.004 496 REMARK 3 DIHEDRAL : 22.406 1328 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 4KLT 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_1000079499. REMARK 200 REMARK 200 EXPERIMENTAL DETAILS REMARK 200 EXPERIMENT TYPE : X-RAY DIFFRACTION REMARK 200 DATE OF DATA COLLECTION : 24-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 : MIRRORS 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 : 29614 REMARK 200 RESOLUTION RANGE HIGH (A) : 1.979 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 (%) : 97.7 REMARK 200 DATA REDUNDANCY : 5.100 REMARK 200 R MERGE (I) : 0.09000 REMARK 200 R SYM (I) : 0.09000 REMARK 200 <I/SIGMA(I)> FOR THE DATA SET : 15.9000 REMARK 200 REMARK 200 IN THE HIGHEST RESOLUTION SHELL. REMARK 200 HIGHEST RESOLUTION SHELL, RANGE HIGH (A) : 1.98 REMARK 200 HIGHEST RESOLUTION SHELL, RANGE LOW (A) : 2.05 REMARK 200 COMPLETENESS FOR SHELL (%) : 89.3 REMARK 200 DATA REDUNDANCY IN SHELL : 2.70 REMARK 200 R MERGE FOR SHELL (I) : 0.43300 REMARK 200 R SYM FOR SHELL (I) : 0.43300 REMARK 200 <I/SIGMA(I)> FOR SHELL : 2.217 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 3C2M REMARK 200 REMARK 200 REMARK: NULL REMARK 280 REMARK 280 CRYSTAL REMARK 280 SOLVENT CONTENT, VS (%): 46.31 REMARK 280 MATTHEWS COEFFICIENT, VM (ANGSTROMS**3/DA): 2.29 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 39.29800 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: 5420 ANGSTROM**2 REMARK 350 SURFACE AREA OF THE COMPLEX: 19990 ANGSTROM**2 REMARK 350 CHANGE IN SOLVENT FREE ENERGY: -77.0 KCAL/MOL REMARK 350 APPLY THE FOLLOWING TO CHAINS: A, D, P, T 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 465 SER A 202 REMARK 465 GLU A 203 REMARK 465 SER A 204 REMARK 465 LYS A 244 REMARK 465 ASN A 245 REMARK 465 ASP A 246 REMARK 465 LEU A 301 REMARK 465 GLY A 302 REMARK 465 VAL A 303 REMARK 465 THR A 304 REMARK 465 GLY A 305 REMARK 465 VAL A 306 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 280 CG CD CE NZ REMARK 470 LEU A 287 CG CD1 CD2 REMARK 470 GLU A 288 CG CD OE1 OE2 REMARK 470 LYS A 289 CG CD CE NZ REMARK 470 TYR A 322 CG CD1 CD2 CE1 CE2 CZ OH 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 128 41.01 -164.03 REMARK 500 ASP A 170 131.02 -170.82 REMARK 500 CYS A 178 -153.10 -115.01 REMARK 500 LYS A 209 -0.44 77.15 REMARK 500 LYS A 248 108.72 -12.20 REMARK 500 ASP A 276 -35.12 -35.87 REMARK 500 GLU A 288 -55.43 -142.21 REMARK 500 ASN A 294 -160.06 -121.40 REMARK 500 SER A 315 160.35 175.83 REMARK 500 TYR A 322 -70.86 -48.50 REMARK 500 ILE A 323 48.10 -86.16 REMARK 500 GLN A 324 -124.70 54.44 REMARK 500 TRP A 325 88.38 68.50 REMARK 500 LYS A 326 132.20 -38.65 REMARK 500 LYS A 331 11.52 -62.23 REMARK 500 ARG A 333 57.58 -97.10 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 402 NA REMARK 620 N RES CSSEQI ATOM REMARK 620 1 LYS A 60 O REMARK 620 2 LEU A 62 O 93.4 REMARK 620 3 VAL A 65 O 101.3 97.9 REMARK 620 4 HOH A 687 O 85.9 83.5 172.5 REMARK 620 5 DC D 3 OP1 166.5 96.7 86.3 86.2 REMARK 620 6 HOH D 105 O 91.5 163.9 96.1 81.6 76.5 REMARK 620 N 1 2 3 4 5 REMARK 620 REMARK 620 COORDINATION ANGLES FOR: M RES CSSEQI METAL REMARK 620 NA A 401 NA REMARK 620 N RES CSSEQI ATOM REMARK 620 1 THR A 101 O REMARK 620 2 VAL A 103 O 88.9 REMARK 620 3 ILE A 106 O 98.4 90.3 REMARK 620 4 DG P 9 OP1 165.4 93.0 96.1 REMARK 620 5 HOH P 102 O 87.8 174.2 94.9 89.1 REMARK 620 6 HOH P 129 O 88.1 94.4 172.1 77.3 80.7 REMARK 620 N 1 2 3 4 5 REMARK 620 REMARK 620 COORDINATION ANGLES FOR: M RES CSSEQI METAL REMARK 620 MN A 404 MN REMARK 620 N RES CSSEQI ATOM REMARK 620 1 ASP A 190 OD1 REMARK 620 2 ASP A 192 OD2 79.3 REMARK 620 3 PPV A 406 O22 163.1 116.7 REMARK 620 4 PPV A 406 O21 87.1 156.4 79.5 REMARK 620 5 HOH A 627 O 87.6 105.0 83.0 93.5 REMARK 620 N 1 2 3 4 REMARK 620 REMARK 620 COORDINATION ANGLES FOR: M RES CSSEQI METAL REMARK 620 MN A 405 MN REMARK 620 N RES CSSEQI ATOM REMARK 620 1 ASP A 190 OD2 REMARK 620 2 ASP A 192 OD1 101.2 REMARK 620 3 ASP A 256 OD2 129.7 101.1 REMARK 620 4 HOH P 128 O 76.0 174.9 83.9 REMARK 620 N 1 2 3 REMARK 620 REMARK 620 COORDINATION ANGLES FOR: M RES CSSEQI METAL REMARK 620 MN A 405 MN REMARK 620 N RES CSSEQI ATOM REMARK 620 1 ASP A 190 OD2 REMARK 620 2 ASP A 192 OD1 87.9 REMARK 620 3 ASP A 192 OD2 98.8 49.7 REMARK 620 4 HOH A 634 O 64.9 147.0 147.6 REMARK 620 5 HOH A 686 O 109.8 154.4 107.5 58.2 REMARK 620 6 DA P 11 O5' 167.1 97.7 93.6 105.7 69.2 REMARK 620 N 1 2 3 4 5 REMARK 800 REMARK 800 SITE REMARK 800 SITE_IDENTIFIER: AC1 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE NA A 401 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC2 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE NA A 402 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC3 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE MN A 403 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC4 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE MN A 404 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC5 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE MN A 405 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC6 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE PPV A 406 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC7 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE CL A 407 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: 4KLH 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: 4KLU RELATED DB: PDB DBREF 4KLT A 1 335 UNP P06746 DPOLB_HUMAN 1 335 DBREF 4KLT D 1 5 PDB 4KLT 4KLT 1 5 DBREF 4KLT P 1 11 PDB 4KLT 4KLT 1 11 DBREF 4KLT T 1 16 PDB 4KLT 4KLT 1 16 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 SEQRES 1 D 5 DG DT DC DG DG SEQRES 1 P 11 DG DC DT DG DA DT DG DC DG DC DA SEQRES 1 T 16 DC DC DG DA DC DG DG DC DG DC DA DT DC SEQRES 2 T 16 DA DG DC HET NA A 401 1 HET NA A 402 1 HET MN A 403 1 HET MN A 404 1 HET MN A 405 2 HET PPV A 406 9 HET CL A 407 1 HETNAM NA SODIUM ION HETNAM MN MANGANESE (II) ION HETNAM PPV PYROPHOSPHATE HETNAM CL CHLORIDE ION FORMUL 5 NA 2(NA 1+) FORMUL 7 MN 3(MN 2+) FORMUL 10 PPV H4 O7 P2 FORMUL 11 CL CL 1- FORMUL 12 HOH *272(H2 O) HELIX 1 1 ASN A 12 VAL A 29 1 18 HELIX 2 2 ALA A 32 LYS A 48 1 17 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 GLU A 117 1 11 HELIX 8 8 THR A 121 LYS A 127 1 7 HELIX 9 9 ASN A 128 LEU A 132 5 5 HELIX 10 10 ASN A 133 TYR A 142 1 10 HELIX 11 11 TYR A 142 LYS A 148 1 7 HELIX 12 12 ARG A 152 ASP A 170 1 19 HELIX 13 13 GLY A 179 GLY A 184 5 6 HELIX 14 14 LYS A 209 VAL A 221 1 13 HELIX 15 15 PRO A 261 ASP A 263 5 3 HELIX 16 16 GLN A 264 THR A 273 1 10 HELIX 17 17 SER A 275 LEU A 287 1 13 HELIX 18 18 SER A 315 ILE A 323 1 9 HELIX 19 19 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 ARG A 258 N LEU A 195 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 THR A 292 ILE A 293 0 SHEET 2 C 2 ILE A 298 ARG A 299 -1 O ARG A 299 N THR A 292 LINK O LYS A 60 NA NA A 402 1555 1555 2.51 LINK O LEU A 62 NA NA A 402 1555 1555 2.21 LINK O VAL A 65 NA NA A 402 1555 1555 2.17 LINK O THR A 101 NA NA A 401 1555 1555 2.34 LINK O VAL A 103 NA NA A 401 1555 1555 2.60 LINK O ILE A 106 NA NA A 401 1555 1555 2.38 LINK OD1 ASP A 124 MN MN A 403 1555 1555 2.51 LINK OD1 ASP A 190 MN MN A 404 1555 1555 2.36 LINK OD2 ASP A 190 MN B MN A 405 1555 1555 2.50 LINK OD2 ASP A 190 MN A MN A 405 1555 1555 2.74 LINK OD2 ASP A 192 MN MN A 404 1555 1555 2.31 LINK OD1 ASP A 192 MN B MN A 405 1555 1555 2.23 LINK OD1 ASP A 192 MN A MN A 405 1555 1555 2.52 LINK OD2 ASP A 192 MN A MN A 405 1555 1555 2.66 LINK OD2 ASP A 256 MN B MN A 405 1555 1555 2.56 LINK NA NA A 401 OP1 DG P 9 1555 1555 2.39 LINK NA NA A 401 O HOH P 102 1555 1555 2.57 LINK NA NA A 401 O HOH P 129 1555 1555 3.06 LINK NA NA A 402 O HOH A 687 1555 1555 2.40 LINK NA NA A 402 OP1 DC D 3 1555 1555 2.65 LINK NA NA A 402 O HOH D 105 1555 1555 2.47 LINK MN MN A 404 O22BPPV A 406 1555 1555 2.34 LINK MN MN A 404 O21BPPV A 406 1555 1555 2.43 LINK MN MN A 404 O HOH A 627 1555 1555 2.43 LINK MN A MN A 405 O HOH A 634 1555 1555 2.38 LINK MN A MN A 405 O HOH A 686 1555 1555 2.61 LINK MN A MN A 405 O5'A DA P 11 1555 1555 2.63 LINK MN B MN A 405 O HOH P 128 1555 1555 2.09 SITE 1 AC1 6 THR A 101 VAL A 103 ILE A 106 DG P 9 SITE 2 AC1 6 HOH P 102 HOH P 129 SITE 1 AC2 6 LYS A 60 LEU A 62 VAL A 65 HOH A 687 SITE 2 AC2 6 DC D 3 HOH D 105 SITE 1 AC3 4 ASP A 124 ASP A 318 HOH A 526 HOH A 586 SITE 1 AC4 5 ASP A 190 ASP A 192 MN A 405 PPV A 406 SITE 2 AC4 5 HOH A 627 SITE 1 AC5 9 ASP A 190 ASP A 192 ASP A 256 MN A 404 SITE 2 AC5 9 HOH A 634 HOH A 686 DC P 10 DA P 11 SITE 3 AC5 9 HOH P 128 SITE 1 AC6 9 GLY A 179 SER A 180 ARG A 183 GLY A 189 SITE 2 AC6 9 ASP A 190 MN A 404 HOH A 648 HOH A 686 SITE 3 AC6 9 DA P 11 SITE 1 AC7 2 ALA A 32 HIS A 34 CRYST1 55.082 78.596 54.980 90.00 112.43 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 0.018155 0.000000 0.007494 0.00000 SCALE2 0.000000 0.012723 0.000000 0.00000 SCALE3 0.000000 0.000000 0.019677 0.00000