HEADER REPLICATION 21-MAR-21 7M4H TITLE DNA POLYMERASE LAMBDA, DCTP:AT MN2+ REACTION STATE TERNARY COMPLEX, TITLE 2 225 MIN COMPND MOL_ID: 1; COMPND 2 MOLECULE: DNA POLYMERASE LAMBDA; COMPND 3 CHAIN: A; COMPND 4 SYNONYM: POL LAMBDA,DNA POLYMERASE BETA-2,POL BETA2,DNA POLYMERASE COMPND 5 KAPPA; COMPND 6 EC: 2.7.7.7,4.2.99.-; COMPND 7 ENGINEERED: YES; COMPND 8 MUTATION: YES; COMPND 9 MOL_ID: 2; COMPND 10 MOLECULE: DNA (5'-D(*CP*GP*GP*CP*AP*GP*TP*AP*CP*TP*G)-3'); COMPND 11 CHAIN: T; COMPND 12 ENGINEERED: YES; COMPND 13 MOL_ID: 3; COMPND 14 MOLECULE: DNA (5'-D(*CP*AP*GP*TP*AP*CP*C)-3'); COMPND 15 CHAIN: P; COMPND 16 ENGINEERED: YES; COMPND 17 MOL_ID: 4; COMPND 18 MOLECULE: DNA (5'-D(P*GP*CP*CP*G)-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: POLL; SOURCE 6 EXPRESSION_SYSTEM: ESCHERICHIA COLI BL21(DE3); SOURCE 7 EXPRESSION_SYSTEM_TAXID: 469008; SOURCE 8 EXPRESSION_SYSTEM_STRAIN: BL21(DE3); SOURCE 9 EXPRESSION_SYSTEM_VECTOR_TYPE: PLASMID; SOURCE 10 EXPRESSION_SYSTEM_PLASMID: PET; SOURCE 11 MOL_ID: 2; SOURCE 12 SYNTHETIC: YES; SOURCE 13 ORGANISM_SCIENTIFIC: HOMO SAPIENS; SOURCE 14 ORGANISM_COMMON: HUMAN; SOURCE 15 ORGANISM_TAXID: 9606; SOURCE 16 MOL_ID: 3; SOURCE 17 SYNTHETIC: YES; SOURCE 18 ORGANISM_SCIENTIFIC: HOMO SAPIENS; SOURCE 19 ORGANISM_COMMON: HUMAN; SOURCE 20 ORGANISM_TAXID: 9606; SOURCE 21 MOL_ID: 4; SOURCE 22 SYNTHETIC: YES; SOURCE 23 ORGANISM_SCIENTIFIC: HOMO SAPIENS; SOURCE 24 ORGANISM_COMMON: HUMAN; SOURCE 25 ORGANISM_TAXID: 9606 KEYWDS TIME-LAPSE CRYSTALLOGRAPHY, DOUBLE STRAND BREAK REPAIR, DNA SYNTHESIS KEYWDS 2 FIDELITY, REPLICATION EXPDTA X-RAY DIFFRACTION AUTHOR J.A.JAMSEN,S.H.WILSON REVDAT 2 18-OCT-23 7M4H 1 REMARK REVDAT 1 06-JUL-22 7M4H 0 JRNL AUTH J.A.JAMSEN,D.D.SHOCK,S.H.WILSON JRNL TITL WATCHING RIGHT AND WRONG NUCLEOTIDE INSERTION CAPTURES JRNL TITL 2 HIDDEN POLYMERASE FIDELITY CHECKPOINTS. JRNL REF NAT COMMUN V. 13 3193 2022 JRNL REFN ESSN 2041-1723 JRNL PMID 35680862 JRNL DOI 10.1038/S41467-022-30141-W REMARK 2 REMARK 2 RESOLUTION. 1.92 ANGSTROMS. REMARK 3 REMARK 3 REFINEMENT. REMARK 3 PROGRAM : PHENIX V1.15.2-3472 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) : 1.92 REMARK 3 RESOLUTION RANGE LOW (ANGSTROMS) : 41.57 REMARK 3 MIN(FOBS/SIGMA_FOBS) : 1.340 REMARK 3 COMPLETENESS FOR RANGE (%) : 99.4 REMARK 3 NUMBER OF REFLECTIONS : 38236 REMARK 3 REMARK 3 FIT TO DATA USED IN REFINEMENT. REMARK 3 R VALUE (WORKING + TEST SET) : 0.194 REMARK 3 R VALUE (WORKING SET) : 0.192 REMARK 3 FREE R VALUE : 0.228 REMARK 3 FREE R VALUE TEST SET SIZE (%) : 4.910 REMARK 3 FREE R VALUE TEST SET COUNT : 1878 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 41.5710 - 4.5207 1.00 3025 154 0.1990 0.2135 REMARK 3 2 4.5207 - 3.5888 1.00 2866 151 0.1648 0.2152 REMARK 3 3 3.5888 - 3.1353 1.00 2836 139 0.1815 0.2051 REMARK 3 4 3.1353 - 2.8488 1.00 2816 149 0.1980 0.2445 REMARK 3 5 2.8488 - 2.6446 1.00 2817 148 0.1905 0.2434 REMARK 3 6 2.6446 - 2.4887 1.00 2800 140 0.1910 0.2312 REMARK 3 7 2.4887 - 2.3641 1.00 2783 141 0.1877 0.2349 REMARK 3 8 2.3641 - 2.2612 1.00 2768 149 0.1962 0.2409 REMARK 3 9 2.2612 - 2.1741 1.00 2789 142 0.2103 0.2656 REMARK 3 10 2.1741 - 2.0991 1.00 2766 146 0.2086 0.2115 REMARK 3 11 2.0991 - 2.0335 1.00 2772 134 0.2226 0.2606 REMARK 3 12 2.0335 - 1.9754 1.00 2777 149 0.2484 0.2828 REMARK 3 13 1.9754 - 1.9234 0.93 2543 136 0.2825 0.3096 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) : 0.210 REMARK 3 PHASE ERROR (DEGREES, MAXIMUM-LIKELIHOOD BASED) : 23.590 REMARK 3 REMARK 3 B VALUES. REMARK 3 FROM WILSON PLOT (A**2) : NULL REMARK 3 MEAN B VALUE (OVERALL, A**2) : 46.83 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 : NULL NULL REMARK 3 ANGLE : NULL NULL REMARK 3 CHIRALITY : NULL NULL REMARK 3 PLANARITY : NULL NULL REMARK 3 DIHEDRAL : NULL NULL REMARK 3 REMARK 3 TLS DETAILS REMARK 3 NUMBER OF TLS GROUPS : 5 REMARK 3 TLS GROUP : 1 REMARK 3 SELECTION: (CHAIN 'A' AND RESID 251 THROUGH 575) REMARK 3 ORIGIN FOR THE GROUP (A): -13.5579 -11.3059 15.6806 REMARK 3 T TENSOR REMARK 3 T11: 0.2646 T22: 0.3287 REMARK 3 T33: 0.2949 T12: 0.0280 REMARK 3 T13: -0.0366 T23: -0.0301 REMARK 3 L TENSOR REMARK 3 L11: 1.9116 L22: 1.4322 REMARK 3 L33: 1.4687 L12: 0.1552 REMARK 3 L13: -0.7512 L23: 0.2969 REMARK 3 S TENSOR REMARK 3 S11: 0.0667 S12: -0.2262 S13: 0.0332 REMARK 3 S21: 0.2083 S22: 0.0443 S23: -0.0955 REMARK 3 S31: 0.0093 S32: 0.0976 S33: 0.0021 REMARK 3 TLS GROUP : 2 REMARK 3 SELECTION: (CHAIN 'T' AND RESID 1 THROUGH 5) REMARK 3 ORIGIN FOR THE GROUP (A): -27.2183 -22.6616 26.4347 REMARK 3 T TENSOR REMARK 3 T11: 0.4911 T22: 0.3792 REMARK 3 T33: 0.3171 T12: -0.0481 REMARK 3 T13: 0.0338 T23: 0.0747 REMARK 3 L TENSOR REMARK 3 L11: 0.0546 L22: 0.0493 REMARK 3 L33: 0.0501 L12: -0.0199 REMARK 3 L13: 0.0025 L23: 0.0208 REMARK 3 S TENSOR REMARK 3 S11: -0.0344 S12: -0.3706 S13: -0.1280 REMARK 3 S21: -0.2400 S22: 0.0800 S23: 0.4560 REMARK 3 S31: 0.1673 S32: -0.0104 S33: -0.0006 REMARK 3 TLS GROUP : 3 REMARK 3 SELECTION: (CHAIN 'T' AND RESID 6 THROUGH 11) REMARK 3 ORIGIN FOR THE GROUP (A): -27.6087 -7.9261 11.9694 REMARK 3 T TENSOR REMARK 3 T11: 0.4612 T22: 0.4749 REMARK 3 T33: 0.3702 T12: 0.1312 REMARK 3 T13: 0.0852 T23: -0.0223 REMARK 3 L TENSOR REMARK 3 L11: 0.3201 L22: 0.1148 REMARK 3 L33: 0.1671 L12: 0.0394 REMARK 3 L13: -0.2008 L23: -0.0921 REMARK 3 S TENSOR REMARK 3 S11: 0.2257 S12: -0.5209 S13: -0.0405 REMARK 3 S21: 0.2369 S22: 0.6635 S23: 0.5549 REMARK 3 S31: -0.9705 S32: -0.3278 S33: 0.2222 REMARK 3 TLS GROUP : 4 REMARK 3 SELECTION: (CHAIN 'P' AND RESID 1 THROUGH 7) REMARK 3 ORIGIN FOR THE GROUP (A): -23.1297 -13.3531 10.2463 REMARK 3 T TENSOR REMARK 3 T11: 0.2882 T22: 0.3466 REMARK 3 T33: 0.2534 T12: 0.0153 REMARK 3 T13: 0.0011 T23: -0.0419 REMARK 3 L TENSOR REMARK 3 L11: 0.0399 L22: 0.0475 REMARK 3 L33: 0.0516 L12: -0.0068 REMARK 3 L13: -0.0039 L23: 0.0494 REMARK 3 S TENSOR REMARK 3 S11: 0.1466 S12: -0.2116 S13: -0.0596 REMARK 3 S21: 0.2059 S22: -0.0488 S23: -0.1106 REMARK 3 S31: -0.0597 S32: -0.3043 S33: 0.0001 REMARK 3 TLS GROUP : 5 REMARK 3 SELECTION: (CHAIN 'D' AND RESID 1 THROUGH 4) REMARK 3 ORIGIN FOR THE GROUP (A): -19.7009 -28.1004 29.9540 REMARK 3 T TENSOR REMARK 3 T11: 0.5879 T22: 0.5906 REMARK 3 T33: 0.3971 T12: -0.0100 REMARK 3 T13: 0.0351 T23: 0.0921 REMARK 3 L TENSOR REMARK 3 L11: 0.1383 L22: 0.1309 REMARK 3 L33: 0.1349 L12: 0.1334 REMARK 3 L13: 0.0115 L23: 0.0288 REMARK 3 S TENSOR REMARK 3 S11: 0.4366 S12: -0.1484 S13: -0.3340 REMARK 3 S21: 0.1704 S22: 0.1305 S23: -0.1472 REMARK 3 S31: 0.2872 S32: 0.1075 S33: 0.0279 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 7M4H COMPLIES WITH FORMAT V. 3.30, 13-JUL-11 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY RCSB ON 22-MAR-21. REMARK 100 THE DEPOSITION ID IS D_1001310102. REMARK 200 REMARK 200 EXPERIMENTAL DETAILS REMARK 200 EXPERIMENT TYPE : X-RAY DIFFRACTION REMARK 200 DATE OF DATA COLLECTION : 03-AUG-17 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-ID REMARK 200 X-RAY GENERATOR MODEL : NULL REMARK 200 MONOCHROMATIC OR LAUE (M/L) : M REMARK 200 WAVELENGTH OR RANGE (A) : 1.00 REMARK 200 MONOCHROMATOR : NULL REMARK 200 OPTICS : NULL REMARK 200 REMARK 200 DETECTOR TYPE : PIXEL REMARK 200 DETECTOR MANUFACTURER : DECTRIS EIGER X 16M REMARK 200 INTENSITY-INTEGRATION SOFTWARE : HKL-2000 REMARK 200 DATA SCALING SOFTWARE : HKL-2000 REMARK 200 REMARK 200 NUMBER OF UNIQUE REFLECTIONS : 38316 REMARK 200 RESOLUTION RANGE HIGH (A) : 1.923 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 : 5.800 REMARK 200 R MERGE (I) : 0.08500 REMARK 200 R SYM (I) : NULL REMARK 200 FOR THE DATA SET : 8.7000 REMARK 200 REMARK 200 IN THE HIGHEST RESOLUTION SHELL. REMARK 200 HIGHEST RESOLUTION SHELL, RANGE HIGH (A) : 1.93 REMARK 200 HIGHEST RESOLUTION SHELL, RANGE LOW (A) : 1.96 REMARK 200 COMPLETENESS FOR SHELL (%) : 99.7 REMARK 200 DATA REDUNDANCY IN SHELL : 4.90 REMARK 200 R MERGE FOR SHELL (I) : 0.93800 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: HKL-3000 REMARK 200 STARTING MODEL: 3UPQ REMARK 200 REMARK 200 REMARK: NULL REMARK 280 REMARK 280 CRYSTAL REMARK 280 SOLVENT CONTENT, VS (%): 56.79 REMARK 280 MATTHEWS COEFFICIENT, VM (ANGSTROMS**3/DA): 2.85 REMARK 280 REMARK 280 CRYSTALLIZATION CONDITIONS: 80-95MM BICINE PH 8.3, 0.3M NA-K REMARK 280 TARTRATE, 18-22.5% POLYPURE PEG, PH 7.5, VAPOR DIFFUSION, REMARK 280 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 27.90700 REMARK 290 SMTRY2 2 0.000000 -1.000000 0.000000 0.00000 REMARK 290 SMTRY3 2 0.000000 0.000000 1.000000 71.02850 REMARK 290 SMTRY1 3 -1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY2 3 0.000000 1.000000 0.000000 31.14950 REMARK 290 SMTRY3 3 0.000000 0.000000 -1.000000 71.02850 REMARK 290 SMTRY1 4 1.000000 0.000000 0.000000 27.90700 REMARK 290 SMTRY2 4 0.000000 -1.000000 0.000000 31.14950 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: 6400 ANGSTROM**2 REMARK 350 SURFACE AREA OF THE COMPLEX: 16640 ANGSTROM**2 REMARK 350 CHANGE IN SOLVENT FREE ENERGY: -74.0 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 ALA A 242 REMARK 465 GLN A 243 REMARK 465 PRO A 244 REMARK 465 SER A 245 REMARK 465 SER A 246 REMARK 465 GLN A 247 REMARK 465 LYS A 248 REMARK 465 ALA A 249 REMARK 465 THR A 250 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 ASN A 251 OD1 ND2 REMARK 470 HIS A 252 CG ND1 CD2 CE1 NE2 REMARK 470 LEU A 254 CD1 CD2 REMARK 470 ILE A 256 CG1 CG2 CD1 REMARK 470 GLU A 258 CG CD OE1 OE2 REMARK 470 LYS A 259 CG CD CE NZ REMARK 470 GLU A 261 CD OE1 OE2 REMARK 470 LYS A 265 CD CE NZ REMARK 470 LYS A 281 NZ REMARK 470 LYS A 287 CG CD CE NZ REMARK 470 LYS A 291 CD CE NZ REMARK 470 VAL A 293 CG1 CG2 REMARK 470 GLN A 297 CG CD OE1 NE2 REMARK 470 ILE A 302 CD1 REMARK 470 LYS A 307 CG CD CE NZ REMARK 470 ARG A 308 CD NE CZ NH1 NH2 REMARK 470 ILE A 313 CD1 REMARK 470 ILE A 314 CD1 REMARK 470 ILE A 316 CD1 REMARK 470 LEU A 317 CD1 CD2 REMARK 470 SER A 319 OG REMARK 470 ARG A 323 CG CD NE CZ NH1 NH2 REMARK 470 LYS A 324 CG CD CE NZ REMARK 470 GLN A 397 OE1 NE2 REMARK 470 LYS A 401 CG CD CE NZ REMARK 470 PHE A 406 CE1 CE2 CZ REMARK 470 LEU A 411 CG CD1 CD2 REMARK 470 LYS A 422 CE NZ REMARK 470 ARG A 438 CG CD NE CZ NH1 NH2 REMARK 470 SER A 439 OG REMARK 470 ARG A 441 CG CD NE CZ NH1 NH2 REMARK 470 ILE A 443 CD1 REMARK 470 SER A 445 OG REMARK 470 ARG A 446 CG CD NE CZ NH1 NH2 REMARK 470 ASP A 449 OD1 OD2 REMARK 470 GLN A 453 CG CD OE1 NE2 REMARK 470 GLU A 454 CG CD OE1 OE2 REMARK 470 LYS A 463 CE NZ REMARK 470 GLU A 470 CG CD OE1 OE2 REMARK 470 ARG A 485 CD NE CZ NH1 NH2 REMARK 470 ILE A 492 CD1 REMARK 470 VAL A 537 CG1 CG2 REMARK 470 ARG A 538 NE CZ NH1 NH2 REMARK 470 THR A 540 OG1 CG2 REMARK 470 HIS A 541 CG ND1 CD2 CE1 NE2 REMARK 470 LYS A 544 CG CD CE NZ REMARK 470 VAL A 545 CG1 CG2 REMARK 470 LYS A 557 CD CE NZ REMARK 470 GLU A 572 CD OE1 OE2 REMARK 500 REMARK 500 GEOMETRY AND STEREOCHEMISTRY REMARK 500 SUBTOPIC: COVALENT BOND LENGTHS REMARK 500 REMARK 500 THE STEREOCHEMICAL PARAMETERS OF THE FOLLOWING RESIDUES REMARK 500 HAVE VALUES WHICH DEVIATE FROM EXPECTED VALUES BY MORE REMARK 500 THAN 6*RMSD (M=MODEL NUMBER; RES=RESIDUE NAME; C=CHAIN REMARK 500 IDENTIFIER; SSEQ=SEQUENCE NUMBER; I=INSERTION CODE). REMARK 500 REMARK 500 STANDARD TABLE: REMARK 500 FORMAT: (10X,I3,1X,2(A3,1X,A1,I4,A1,1X,A4,3X),1X,F6.3) REMARK 500 REMARK 500 EXPECTED VALUES PROTEIN: ENGH AND HUBER, 1999 REMARK 500 EXPECTED VALUES NUCLEIC ACID: CLOWNEY ET AL 1996 REMARK 500 REMARK 500 M RES CSSEQI ATM1 RES CSSEQI ATM2 DEVIATION REMARK 500 DG D 1 P DG D 1 OP3 -0.128 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 DG T 2 O4' - C1' - N9 ANGL. DEV. = 3.9 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 GLU A 318 -64.15 64.67 REMARK 500 GLU A 318 -45.93 66.13 REMARK 500 CYS A 415 -135.95 -107.60 REMARK 500 ARG A 438 -36.53 -142.63 REMARK 500 THR A 540 56.18 -157.31 REMARK 500 HIS A 541 -12.02 85.98 REMARK 500 ALA A 543 78.39 -69.88 REMARK 500 VAL A 545 -168.22 78.81 REMARK 500 REMARK 500 REMARK: NULL REMARK 525 REMARK 525 SOLVENT REMARK 525 REMARK 525 THE SOLVENT MOLECULES HAVE CHAIN IDENTIFIERS THAT REMARK 525 INDICATE THE POLYMER CHAIN WITH WHICH THEY ARE MOST REMARK 525 CLOSELY ASSOCIATED. THE REMARK LISTS ALL THE SOLVENT REMARK 525 MOLECULES WHICH ARE MORE THAN 5A AWAY FROM THE REMARK 525 NEAREST POLYMER CHAIN (M = MODEL NUMBER; REMARK 525 RES=RESIDUE NAME; C=CHAIN IDENTIFIER; SSEQ=SEQUENCE REMARK 525 NUMBER; I=INSERTION CODE): REMARK 525 REMARK 525 M RES CSSEQI REMARK 525 HOH A 864 DISTANCE = 5.93 ANGSTROMS 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 605 NA REMARK 620 N RES CSSEQI ATOM REMARK 620 1 CYS A 300 O REMARK 620 2 ILE A 302 O 86.6 REMARK 620 3 ILE A 305 O 89.1 81.4 REMARK 620 4 DC D 3 OP1 176.2 94.6 94.6 REMARK 620 5 HOH D 107 O 77.7 157.6 82.5 102.2 REMARK 620 N 1 2 3 4 REMARK 620 REMARK 620 COORDINATION ANGLES FOR: M RES CSSEQI METAL REMARK 620 NA A 604 NA REMARK 620 N RES CSSEQI ATOM REMARK 620 1 SER A 339 O REMARK 620 2 ILE A 341 O 95.8 REMARK 620 3 ALA A 344 O 89.1 84.1 REMARK 620 4 HOH A 703 O 88.4 96.7 177.5 REMARK 620 5 DA P 5 OP1 165.7 98.5 92.9 89.4 REMARK 620 6 HOH P 115 O 76.5 167.5 86.0 92.9 89.6 REMARK 620 N 1 2 3 4 5 REMARK 620 REMARK 620 COORDINATION ANGLES FOR: M RES CSSEQI METAL REMARK 620 MN A 603 MN REMARK 620 N RES CSSEQI ATOM REMARK 620 1 ASP A 382 OD2 REMARK 620 2 HIS A 486 ND1 98.0 REMARK 620 3 HOH A 751 O 110.6 87.4 REMARK 620 4 HOH A 759 O 85.0 175.9 88.9 REMARK 620 5 HOH A 805 O 85.6 95.4 163.0 87.6 REMARK 620 6 HOH A 834 O 165.5 89.4 82.1 88.3 81.2 REMARK 620 N 1 2 3 4 5 REMARK 620 REMARK 620 COORDINATION ANGLES FOR: M RES CSSEQI METAL REMARK 620 MN A 601 MN REMARK 620 N RES CSSEQI ATOM REMARK 620 1 ASP A 427 OD2 REMARK 620 2 ASP A 429 OD1 104.0 REMARK 620 3 ASP A 490 OD2 97.7 93.0 REMARK 620 4 DCP A 609 O1A 91.9 89.9 168.9 REMARK 620 5 DC P 6 O3' 162.6 93.3 83.6 85.6 REMARK 620 6 DC P 6 O3' 147.3 103.3 98.6 70.4 18.6 REMARK 620 7 DC P 7 OP1 98.4 85.3 163.7 7.2 80.4 66.3 REMARK 620 8 HOH P 109 O 73.6 166.5 100.4 77.0 89.0 75.6 82.0 REMARK 620 N 1 2 3 4 5 6 7 REMARK 620 REMARK 620 COORDINATION ANGLES FOR: M RES CSSEQI METAL REMARK 620 MN A 602 MN REMARK 620 N RES CSSEQI ATOM REMARK 620 1 ASP A 427 OD1 REMARK 620 2 ASP A 429 OD2 99.1 REMARK 620 3 PPV A 608 O11 156.6 94.6 REMARK 620 4 PPV A 608 O22 87.7 173.2 79.1 REMARK 620 5 DCP A 609 O1A 105.4 95.9 91.9 82.0 REMARK 620 6 DCP A 609 O1B 161.3 94.7 6.4 78.7 85.4 REMARK 620 7 DCP A 609 O1G 84.4 176.1 81.5 4.0 85.0 81.5 REMARK 620 8 HOH A 729 O 80.2 92.1 80.4 89.3 169.3 86.9 86.6 REMARK 620 9 DC P 7 OP1 103.6 85.3 96.3 92.9 11.1 89.9 95.7 175.7 REMARK 620 N 1 2 3 4 5 6 7 8 DBREF 7M4H A 242 575 UNP Q9UGP5 DPOLL_HUMAN 242 575 DBREF 7M4H T 1 11 PDB 7M4H 7M4H 1 11 DBREF 7M4H P 1 7 PDB 7M4H 7M4H 1 7 DBREF 7M4H D 1 4 PDB 7M4H 7M4H 1 4 SEQADV 7M4H LYS A 463 UNP Q9UGP5 SER 463 CONFLICT SEQADV 7M4H GLY A 464 UNP Q9UGP5 GLN 464 CONFLICT SEQADV 7M4H A UNP Q9UGP5 GLU 466 DELETION SEQADV 7M4H A UNP Q9UGP5 ASN 467 DELETION SEQADV 7M4H A UNP Q9UGP5 GLY 468 DELETION SEQADV 7M4H A UNP Q9UGP5 GLN 469 DELETION SEQADV 7M4H A UNP Q9UGP5 GLN 470 DELETION SEQADV 7M4H THR A 471 UNP Q9UGP5 GLN 471 CONFLICT SEQADV 7M4H ALA A 543 UNP Q9UGP5 CYS 543 ENGINEERED MUTATION SEQRES 1 A 329 ALA GLN PRO SER SER GLN LYS ALA THR ASN HIS ASN LEU SEQRES 2 A 329 HIS ILE THR GLU LYS LEU GLU VAL LEU ALA LYS ALA TYR SEQRES 3 A 329 SER VAL GLN GLY ASP LYS TRP ARG ALA LEU GLY TYR ALA SEQRES 4 A 329 LYS ALA ILE ASN ALA LEU LYS SER PHE HIS LYS PRO VAL SEQRES 5 A 329 THR SER TYR GLN GLU ALA CYS SER ILE PRO GLY ILE GLY SEQRES 6 A 329 LYS ARG MET ALA GLU LYS ILE ILE GLU ILE LEU GLU SER SEQRES 7 A 329 GLY HIS LEU ARG LYS LEU ASP HIS ILE SER GLU SER VAL SEQRES 8 A 329 PRO VAL LEU GLU LEU PHE SER ASN ILE TRP GLY ALA GLY SEQRES 9 A 329 THR LYS THR ALA GLN MET TRP TYR GLN GLN GLY PHE ARG SEQRES 10 A 329 SER LEU GLU ASP ILE ARG SER GLN ALA SER LEU THR THR SEQRES 11 A 329 GLN GLN ALA ILE GLY LEU LYS HIS TYR SER ASP PHE LEU SEQRES 12 A 329 GLU ARG MET PRO ARG GLU GLU ALA THR GLU ILE GLU GLN SEQRES 13 A 329 THR VAL GLN LYS ALA ALA GLN ALA PHE ASN SER GLY LEU SEQRES 14 A 329 LEU CYS VAL ALA CYS GLY SER TYR ARG ARG GLY LYS ALA SEQRES 15 A 329 THR CYS GLY ASP VAL ASP VAL LEU ILE THR HIS PRO ASP SEQRES 16 A 329 GLY ARG SER HIS ARG GLY ILE PHE SER ARG LEU LEU ASP SEQRES 17 A 329 SER LEU ARG GLN GLU GLY PHE LEU THR ASP ASP LEU VAL SEQRES 18 A 329 LYS GLY GLU THR LYS TYR LEU GLY VAL CYS ARG LEU PRO SEQRES 19 A 329 GLY PRO GLY ARG ARG HIS ARG ARG LEU ASP ILE ILE VAL SEQRES 20 A 329 VAL PRO TYR SER GLU PHE ALA CYS ALA LEU LEU TYR PHE SEQRES 21 A 329 THR GLY SER ALA HIS PHE ASN ARG SER MET ARG ALA LEU SEQRES 22 A 329 ALA LYS THR LYS GLY MET SER LEU SER GLU HIS ALA LEU SEQRES 23 A 329 SER THR ALA VAL VAL ARG ASN THR HIS GLY ALA LYS VAL SEQRES 24 A 329 GLY PRO GLY ARG VAL LEU PRO THR PRO THR GLU LYS ASP SEQRES 25 A 329 VAL PHE ARG LEU LEU GLY LEU PRO TYR ARG GLU PRO ALA SEQRES 26 A 329 GLU ARG ASP TRP SEQRES 1 T 11 DC DG DG DC DA DG DT DA DC DT DG SEQRES 1 P 7 DC DA DG DT DA DC DC SEQRES 1 D 4 DG DC DC DG HET MN A 601 1 HET MN A 602 1 HET MN A 603 1 HET NA A 604 1 HET NA A 605 1 HET EDO A 606 4 HET EDO A 607 4 HET PPV A 608 9 HET DCP A 609 28 HETNAM MN MANGANESE (II) ION HETNAM NA SODIUM ION HETNAM EDO 1,2-ETHANEDIOL HETNAM PPV PYROPHOSPHATE HETNAM DCP 2'-DEOXYCYTIDINE-5'-TRIPHOSPHATE HETSYN EDO ETHYLENE GLYCOL FORMUL 5 MN 3(MN 2+) FORMUL 8 NA 2(NA 1+) FORMUL 10 EDO 2(C2 H6 O2) FORMUL 12 PPV H4 O7 P2 FORMUL 13 DCP C9 H16 N3 O13 P3 FORMUL 14 HOH *235(H2 O) HELIX 1 AA1 ASN A 253 GLN A 270 1 18 HELIX 2 AA2 ASP A 272 PHE A 289 1 18 HELIX 3 AA3 SER A 295 ILE A 302 1 8 HELIX 4 AA4 GLY A 306 LEU A 317 1 12 HELIX 5 AA5 LEU A 322 ILE A 328 5 7 HELIX 6 AA6 SER A 331 ASN A 340 1 10 HELIX 7 AA7 GLY A 345 GLY A 356 1 12 HELIX 8 AA8 SER A 359 ALA A 367 1 9 HELIX 9 AA9 THR A 370 HIS A 379 1 10 HELIX 10 AB1 HIS A 379 GLU A 385 1 7 HELIX 11 AB2 ARG A 389 ASN A 407 1 19 HELIX 12 AB3 CYS A 415 ARG A 420 1 6 HELIX 13 AB4 ILE A 443 GLU A 454 1 12 HELIX 14 AB5 PRO A 495 SER A 497 5 3 HELIX 15 AB6 GLU A 498 GLY A 508 1 11 HELIX 16 AB7 SER A 509 LYS A 523 1 15 HELIX 17 AB8 THR A 555 LEU A 563 1 9 HELIX 18 AB9 GLU A 569 ASP A 574 5 6 SHEET 1 AA1 2 MET A 387 PRO A 388 0 SHEET 2 AA1 2 THR A 424 CYS A 425 -1 O CYS A 425 N MET A 387 SHEET 1 AA2 5 LEU A 411 ALA A 414 0 SHEET 2 AA2 5 ASP A 427 THR A 433 -1 O LEU A 431 N VAL A 413 SHEET 3 AA2 5 ARG A 487 VAL A 493 1 O ASP A 490 N VAL A 430 SHEET 4 AA2 5 LYS A 472 CYS A 477 -1 N CYS A 477 O ARG A 487 SHEET 5 AA2 5 LEU A 457 LYS A 463 -1 N VAL A 462 O LEU A 474 SHEET 1 AA3 3 MET A 525 LEU A 527 0 SHEET 2 AA3 3 LEU A 532 THR A 534 -1 O SER A 533 N SER A 526 SHEET 3 AA3 3 ARG A 549 VAL A 550 -1 O ARG A 549 N THR A 534 LINK O CYS A 300 NA NA A 605 1555 1555 2.81 LINK O ILE A 302 NA NA A 605 1555 1555 2.42 LINK O ILE A 305 NA NA A 605 1555 1555 2.76 LINK O SER A 339 NA NA A 604 1555 1555 2.35 LINK O ILE A 341 NA NA A 604 1555 1555 2.45 LINK O ALA A 344 NA NA A 604 1555 1555 2.31 LINK OD2 ASP A 382 MN MN A 603 1555 1555 2.09 LINK OD2 ASP A 427 MN MN A 601 1555 1555 2.12 LINK OD1 ASP A 427 MN MN A 602 1555 1555 2.03 LINK OD1 ASP A 429 MN MN A 601 1555 1555 2.11 LINK OD2 ASP A 429 MN MN A 602 1555 1555 2.02 LINK ND1 HIS A 486 MN MN A 603 1555 1555 2.37 LINK OD2 ASP A 490 MN MN A 601 1555 1555 2.24 LINK MN MN A 601 O1AADCP A 609 1555 1555 2.59 LINK MN MN A 601 O3'A DC P 6 1555 1555 2.41 LINK MN MN A 601 O3'B DC P 6 1555 1555 2.30 LINK MN MN A 601 OP1B DC P 7 1555 1555 2.29 LINK MN MN A 601 O HOH P 109 1555 1555 2.26 LINK MN MN A 602 O11BPPV A 608 1555 1555 2.39 LINK MN MN A 602 O22BPPV A 608 1555 1555 2.30 LINK MN MN A 602 O1AADCP A 609 1555 1555 2.02 LINK MN MN A 602 O1BADCP A 609 1555 1555 2.11 LINK MN MN A 602 O1GADCP A 609 1555 1555 2.29 LINK MN MN A 602 O HOH A 729 1555 1555 2.36 LINK MN MN A 602 OP1B DC P 7 1555 1555 2.15 LINK MN MN A 603 O HOH A 751 1555 1555 2.64 LINK MN MN A 603 O HOH A 759 1555 1555 2.42 LINK MN MN A 603 O HOH A 805 1555 1555 2.27 LINK MN MN A 603 O AHOH A 834 1555 1555 2.52 LINK NA NA A 604 O HOH A 703 1555 1555 2.47 LINK NA NA A 604 OP1 DA P 5 1555 1555 2.39 LINK NA NA A 604 O HOH P 115 1555 1555 2.73 LINK NA NA A 605 OP1 DC D 3 1555 1555 2.87 LINK NA NA A 605 O HOH D 107 1555 1555 2.21 CISPEP 1 GLY A 508 SER A 509 0 2.47 CRYST1 55.814 62.299 142.057 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 0.017917 0.000000 0.000000 0.00000 SCALE2 0.000000 0.016052 0.000000 0.00000 SCALE3 0.000000 0.000000 0.007039 0.00000