HEADER TRANSFERASE/DNA 11-AUG-21 7RSS TITLE KOD-RI INCORPORATING DNA, N+2 COMPND MOL_ID: 1; COMPND 2 MOLECULE: DNA POLYMERASE; COMPND 3 CHAIN: A; COMPND 4 SYNONYM: KOD-RI; COMPND 5 EC: 2.7.7.7; COMPND 6 ENGINEERED: YES; COMPND 7 MOL_ID: 2; COMPND 8 MOLECULE: TEMPLATE; COMPND 9 CHAIN: T; COMPND 10 ENGINEERED: YES; COMPND 11 MOL_ID: 3; COMPND 12 MOLECULE: PRIMER; COMPND 13 CHAIN: P; COMPND 14 ENGINEERED: YES SOURCE MOL_ID: 1; SOURCE 2 ORGANISM_SCIENTIFIC: THERMOCOCCUS KODAKARENSIS; SOURCE 3 ORGANISM_TAXID: 311400; SOURCE 4 EXPRESSION_SYSTEM: ESCHERICHIA COLI; SOURCE 5 EXPRESSION_SYSTEM_TAXID: 562; SOURCE 6 MOL_ID: 2; SOURCE 7 SYNTHETIC: YES; SOURCE 8 ORGANISM_SCIENTIFIC: SYNTHETIC CONSTRUCT; SOURCE 9 ORGANISM_TAXID: 32630; SOURCE 10 MOL_ID: 3; SOURCE 11 SYNTHETIC: YES; SOURCE 12 ORGANISM_SCIENTIFIC: SYNTHETIC CONSTRUCT; SOURCE 13 ORGANISM_TAXID: 32630 KEYWDS POLYMERASE, TRANSFERASE, TRANSFERASE-DNA COMPLEX EXPDTA X-RAY DIFFRACTION AUTHOR M.HAJJAR,N.CHIM,J.C.CHAPUT REVDAT 4 18-OCT-23 7RSS 1 REMARK REVDAT 3 05-OCT-22 7RSS 1 JRNL REVDAT 2 28-SEP-22 7RSS 1 JRNL REVDAT 1 24-AUG-22 7RSS 0 JRNL AUTH M.HAJJAR,N.CHIM,C.LIU,P.HERDEWIJN,J.C.CHAPUT JRNL TITL CRYSTALLOGRAPHIC ANALYSIS OF ENGINEERED POLYMERASES JRNL TITL 2 SYNTHESIZING PHOSPHONOMETHYLTHREOSYL NUCLEIC ACID. JRNL REF NUCLEIC ACIDS RES. V. 50 9663 2022 JRNL REFN ESSN 1362-4962 JRNL PMID 36124684 JRNL DOI 10.1093/NAR/GKAC792 REMARK 2 REMARK 2 RESOLUTION. 2.71 ANGSTROMS. REMARK 3 REMARK 3 REFINEMENT. REMARK 3 PROGRAM : PHENIX 1.13_2998 REMARK 3 AUTHORS : PAUL ADAMS,PAVEL AFONINE,VINCENT CHEN,IAN REMARK 3 : DAVIS,KRESHNA GOPAL,RALF GROSSE-KUNSTLEVE, REMARK 3 : LI-WEI HUNG,ROBERT IMMORMINO,TOM IOERGER, REMARK 3 : AIRLIE MCCOY,ERIK MCKEE,NIGEL MORIARTY, REMARK 3 : REETAL PAI,RANDY READ,JANE RICHARDSON, REMARK 3 : DAVID RICHARDSON,TOD ROMO,JIM SACCHETTINI, REMARK 3 : NICHOLAS SAUTER,JACOB SMITH,LAURENT REMARK 3 : STORONI,TOM TERWILLIGER,PETER ZWART REMARK 3 REMARK 3 REFINEMENT TARGET : ML REMARK 3 REMARK 3 DATA USED IN REFINEMENT. REMARK 3 RESOLUTION RANGE HIGH (ANGSTROMS) : 2.71 REMARK 3 RESOLUTION RANGE LOW (ANGSTROMS) : 62.09 REMARK 3 MIN(FOBS/SIGMA_FOBS) : 1.340 REMARK 3 COMPLETENESS FOR RANGE (%) : 99.4 REMARK 3 NUMBER OF REFLECTIONS : 30732 REMARK 3 REMARK 3 FIT TO DATA USED IN REFINEMENT. REMARK 3 R VALUE (WORKING + TEST SET) : 0.164 REMARK 3 R VALUE (WORKING SET) : 0.159 REMARK 3 FREE R VALUE : 0.225 REMARK 3 FREE R VALUE TEST SET SIZE (%) : 6.510 REMARK 3 FREE R VALUE TEST SET COUNT : 2000 REMARK 3 REMARK 3 FIT TO DATA USED IN REFINEMENT (IN BINS). REMARK 3 BIN RESOLUTION RANGE COMPL. NWORK NFREE RWORK RFREE REMARK 3 1 62.0870 - 6.5291 0.98 2189 154 0.1565 0.2127 REMARK 3 2 6.5291 - 5.1832 1.00 2122 147 0.1617 0.1978 REMARK 3 3 5.1832 - 4.5282 0.98 2053 143 0.1260 0.1857 REMARK 3 4 4.5282 - 4.1143 0.99 2049 142 0.1323 0.1811 REMARK 3 5 4.1143 - 3.8195 1.00 2058 143 0.1470 0.2201 REMARK 3 6 3.8195 - 3.5943 1.00 2053 143 0.1638 0.2364 REMARK 3 7 3.5943 - 3.4143 1.00 2032 142 0.1697 0.2588 REMARK 3 8 3.4143 - 3.2657 0.99 2025 140 0.1793 0.2421 REMARK 3 9 3.2657 - 3.1400 1.00 2030 142 0.1749 0.2522 REMARK 3 10 3.1400 - 3.0316 1.00 2022 140 0.1918 0.2661 REMARK 3 11 3.0316 - 2.9368 0.99 2037 143 0.1926 0.2678 REMARK 3 12 2.9368 - 2.8529 1.00 2018 140 0.1845 0.2882 REMARK 3 13 2.8529 - 2.7778 1.00 2011 140 0.1869 0.2689 REMARK 3 14 2.7778 - 2.7100 1.00 2033 141 0.1849 0.2490 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) : 0.280 REMARK 3 PHASE ERROR (DEGREES, MAXIMUM-LIKELIHOOD BASED) : 21.830 REMARK 3 REMARK 3 B VALUES. REMARK 3 FROM WILSON PLOT (A**2) : 47.10 REMARK 3 MEAN B VALUE (OVERALL, A**2) : 52.34 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 : 0.008 7007 REMARK 3 ANGLE : 0.938 9571 REMARK 3 CHIRALITY : 0.053 1028 REMARK 3 PLANARITY : 0.006 1128 REMARK 3 DIHEDRAL : 9.631 5734 REMARK 3 REMARK 3 TLS DETAILS REMARK 3 NUMBER OF TLS GROUPS : 6 REMARK 3 TLS GROUP : 1 REMARK 3 SELECTION: CHAIN 'A' AND (RESID 1 THROUGH 225 ) REMARK 3 ORIGIN FOR THE GROUP (A): 72.9010 126.4452 184.9130 REMARK 3 T TENSOR REMARK 3 T11: 0.2323 T22: 0.2227 REMARK 3 T33: 0.3362 T12: -0.0543 REMARK 3 T13: 0.0115 T23: 0.0255 REMARK 3 L TENSOR REMARK 3 L11: 3.1250 L22: 2.2348 REMARK 3 L33: 0.9268 L12: -1.2556 REMARK 3 L13: -0.7024 L23: 0.2029 REMARK 3 S TENSOR REMARK 3 S11: 0.0469 S12: 0.0885 S13: -0.1741 REMARK 3 S21: 0.0376 S22: -0.0105 S23: 0.4653 REMARK 3 S31: 0.0264 S32: -0.1183 S33: -0.0246 REMARK 3 TLS GROUP : 2 REMARK 3 SELECTION: CHAIN 'A' AND (RESID 226 THROUGH 304 ) REMARK 3 ORIGIN FOR THE GROUP (A): 89.0164 122.1303 173.2898 REMARK 3 T TENSOR REMARK 3 T11: 0.2082 T22: 0.3231 REMARK 3 T33: 0.2179 T12: 0.0134 REMARK 3 T13: -0.0789 T23: -0.0132 REMARK 3 L TENSOR REMARK 3 L11: 2.1407 L22: 5.4605 REMARK 3 L33: 2.9780 L12: -0.5997 REMARK 3 L13: -0.6746 L23: 0.3675 REMARK 3 S TENSOR REMARK 3 S11: 0.1591 S12: 0.3353 S13: -0.1140 REMARK 3 S21: -0.3937 S22: -0.0193 S23: 0.0772 REMARK 3 S31: -0.0559 S32: -0.0574 S33: -0.1720 REMARK 3 TLS GROUP : 3 REMARK 3 SELECTION: CHAIN 'A' AND (RESID 305 THROUGH 552 ) REMARK 3 ORIGIN FOR THE GROUP (A): 82.8404 152.9248 175.4492 REMARK 3 T TENSOR REMARK 3 T11: 0.2617 T22: 0.2675 REMARK 3 T33: 0.2625 T12: 0.0058 REMARK 3 T13: 0.0583 T23: -0.0312 REMARK 3 L TENSOR REMARK 3 L11: 0.4754 L22: 1.7296 REMARK 3 L33: 0.7195 L12: 0.4149 REMARK 3 L13: -0.0759 L23: -0.3099 REMARK 3 S TENSOR REMARK 3 S11: 0.0622 S12: 0.0659 S13: 0.1018 REMARK 3 S21: -0.0548 S22: 0.0160 S23: 0.0962 REMARK 3 S31: -0.1492 S32: 0.0398 S33: -0.0747 REMARK 3 TLS GROUP : 4 REMARK 3 SELECTION: CHAIN 'A' AND (RESID 553 THROUGH 756 ) REMARK 3 ORIGIN FOR THE GROUP (A): 98.2837 143.9540 153.5800 REMARK 3 T TENSOR REMARK 3 T11: 0.5018 T22: 0.4226 REMARK 3 T33: 0.3568 T12: 0.0672 REMARK 3 T13: 0.0850 T23: -0.0273 REMARK 3 L TENSOR REMARK 3 L11: 1.3362 L22: 3.8809 REMARK 3 L33: 2.0945 L12: 0.5424 REMARK 3 L13: -0.3018 L23: 0.6473 REMARK 3 S TENSOR REMARK 3 S11: -0.2296 S12: 0.1345 S13: -0.3270 REMARK 3 S21: -0.5495 S22: 0.2125 S23: -0.4727 REMARK 3 S31: 0.2560 S32: 0.2751 S33: 0.0102 REMARK 3 TLS GROUP : 5 REMARK 3 SELECTION: CHAIN 'T' AND (RESID 2 THROUGH 16 ) REMARK 3 ORIGIN FOR THE GROUP (A): 81.1643 145.0346 149.2596 REMARK 3 T TENSOR REMARK 3 T11: 0.7444 T22: 0.4715 REMARK 3 T33: 0.4138 T12: 0.0278 REMARK 3 T13: -0.0876 T23: 0.0367 REMARK 3 L TENSOR REMARK 3 L11: 1.1907 L22: 1.8848 REMARK 3 L33: 6.8019 L12: -0.6923 REMARK 3 L13: -0.6665 L23: 2.0066 REMARK 3 S TENSOR REMARK 3 S11: 0.0189 S12: 0.3439 S13: -0.1863 REMARK 3 S21: -0.4833 S22: 0.1830 S23: 0.7719 REMARK 3 S31: 0.5768 S32: -0.2190 S33: -0.2429 REMARK 3 TLS GROUP : 6 REMARK 3 SELECTION: CHAIN 'P' AND (RESID 1 THROUGH 13 ) REMARK 3 ORIGIN FOR THE GROUP (A): 83.5047 145.1699 146.3692 REMARK 3 T TENSOR REMARK 3 T11: 1.0744 T22: 0.6734 REMARK 3 T33: 0.4222 T12: 0.0086 REMARK 3 T13: -0.0687 T23: -0.0431 REMARK 3 L TENSOR REMARK 3 L11: 3.4861 L22: 0.8770 REMARK 3 L33: 5.8168 L12: -0.9761 REMARK 3 L13: -1.6339 L23: -1.2686 REMARK 3 S TENSOR REMARK 3 S11: 0.0743 S12: 1.0222 S13: -0.3598 REMARK 3 S21: -1.1929 S22: 0.5297 S23: 0.4016 REMARK 3 S31: -0.9151 S32: -0.4153 S33: -0.4920 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 7RSS COMPLIES WITH FORMAT V. 3.30, 13-JUL-11 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY RCSB ON 19-AUG-21. REMARK 100 THE DEPOSITION ID IS D_1000258920. REMARK 200 REMARK 200 EXPERIMENTAL DETAILS REMARK 200 EXPERIMENT TYPE : X-RAY DIFFRACTION REMARK 200 DATE OF DATA COLLECTION : 21-JUL-21 REMARK 200 TEMPERATURE (KELVIN) : 100 REMARK 200 PH : NULL REMARK 200 NUMBER OF CRYSTALS USED : 1 REMARK 200 REMARK 200 SYNCHROTRON (Y/N) : Y REMARK 200 RADIATION SOURCE : SSRL REMARK 200 BEAMLINE : BL12-1 REMARK 200 X-RAY GENERATOR MODEL : NULL REMARK 200 MONOCHROMATIC OR LAUE (M/L) : M REMARK 200 WAVELENGTH OR RANGE (A) : 1 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 : MOSFLM REMARK 200 DATA SCALING SOFTWARE : AIMLESS REMARK 200 REMARK 200 NUMBER OF UNIQUE REFLECTIONS : 30746 REMARK 200 RESOLUTION RANGE HIGH (A) : 2.710 REMARK 200 RESOLUTION RANGE LOW (A) : 57.030 REMARK 200 REJECTION CRITERIA (SIGMA(I)) : NULL REMARK 200 REMARK 200 OVERALL. REMARK 200 COMPLETENESS FOR RANGE (%) : 99.4 REMARK 200 DATA REDUNDANCY : 2.000 REMARK 200 R MERGE (I) : 0.02637 REMARK 200 R SYM (I) : NULL REMARK 200 FOR THE DATA SET : 13.1400 REMARK 200 REMARK 200 IN THE HIGHEST RESOLUTION SHELL. REMARK 200 HIGHEST RESOLUTION SHELL, RANGE HIGH (A) : 2.71 REMARK 200 HIGHEST RESOLUTION SHELL, RANGE LOW (A) : 2.81 REMARK 200 COMPLETENESS FOR SHELL (%) : 99.8 REMARK 200 DATA REDUNDANCY IN SHELL : 2.00 REMARK 200 R MERGE FOR SHELL (I) : 0.13680 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: PHASER REMARK 200 STARTING MODEL: 5VU9 REMARK 200 REMARK 200 REMARK: NULL REMARK 280 REMARK 280 CRYSTAL REMARK 280 SOLVENT CONTENT, VS (%): 56.00 REMARK 280 MATTHEWS COEFFICIENT, VM (ANGSTROMS**3/DA): 2.80 REMARK 280 REMARK 280 CRYSTALLIZATION CONDITIONS: SODIUM ACETATE, SODIUM CITRATE, PEG REMARK 280 4000, VAPOR DIFFUSION, HANGING DROP, TEMPERATURE 298K REMARK 290 REMARK 290 CRYSTALLOGRAPHIC SYMMETRY REMARK 290 SYMMETRY OPERATORS FOR SPACE GROUP: P 2 21 21 REMARK 290 REMARK 290 SYMOP SYMMETRY REMARK 290 NNNMMM OPERATOR REMARK 290 1555 X,Y,Z REMARK 290 2555 X,-Y,-Z REMARK 290 3555 -X,Y+1/2,-Z+1/2 REMARK 290 4555 -X,-Y+1/2,Z+1/2 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 0.00000 REMARK 290 SMTRY3 2 0.000000 0.000000 -1.000000 0.00000 REMARK 290 SMTRY1 3 -1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY2 3 0.000000 1.000000 0.000000 56.00000 REMARK 290 SMTRY3 3 0.000000 0.000000 -1.000000 74.59850 REMARK 290 SMTRY1 4 -1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY2 4 0.000000 -1.000000 0.000000 56.00000 REMARK 290 SMTRY3 4 0.000000 0.000000 1.000000 74.59850 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: TRIMERIC REMARK 350 SOFTWARE DETERMINED QUATERNARY STRUCTURE: TRIMERIC REMARK 350 SOFTWARE USED: PISA REMARK 350 TOTAL BURIED SURFACE AREA: 4900 ANGSTROM**2 REMARK 350 SURFACE AREA OF THE COMPLEX: 37080 ANGSTROM**2 REMARK 350 CHANGE IN SOLVENT FREE ENERGY: -24.0 KCAL/MOL REMARK 350 APPLY THE FOLLOWING TO CHAINS: A, T, P 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 TYR A 757 REMARK 465 GLN A 758 REMARK 465 LYS A 759 REMARK 465 THR A 760 REMARK 465 ARG A 761 REMARK 465 GLN A 762 REMARK 465 VAL A 763 REMARK 465 GLY A 764 REMARK 465 LEU A 765 REMARK 465 SER A 766 REMARK 465 ALA A 767 REMARK 465 TRP A 768 REMARK 465 LEU A 769 REMARK 465 LYS A 770 REMARK 465 PRO A 771 REMARK 465 LYS A 772 REMARK 465 GLY A 773 REMARK 465 THR A 774 REMARK 465 DA T 1 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 DA T 2 OP1 REMARK 470 DG T 16 OP1 REMARK 500 REMARK 500 GEOMETRY AND STEREOCHEMISTRY REMARK 500 SUBTOPIC: CLOSE CONTACTS IN SAME ASYMMETRIC UNIT REMARK 500 REMARK 500 THE FOLLOWING ATOMS ARE IN CLOSE CONTACT. REMARK 500 REMARK 500 ATM1 RES C SSEQI ATM2 RES C SSEQI DISTANCE REMARK 500 O HIS A 103 O HOH A 801 2.14 REMARK 500 REMARK 500 REMARK: NULL 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 DA P 12 O3' DA P 12 C3' -0.036 REMARK 500 DA P 13 O3' DA P 13 C3' -0.053 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 P 11 O4' - C1' - N9 ANGL. DEV. = 2.2 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 HIS A 59 81.10 16.40 REMARK 500 ASP A 113 38.38 -142.08 REMARK 500 ASP A 164 -155.63 -144.66 REMARK 500 ASN A 210 31.29 71.61 REMARK 500 PHE A 214 -66.68 -125.36 REMARK 500 MET A 244 63.93 -105.67 REMARK 500 ARG A 247 -160.95 -107.19 REMARK 500 SER A 345 -7.54 -59.52 REMARK 500 ASN A 399 76.23 54.32 REMARK 500 SER A 407 73.17 43.53 REMARK 500 GLN A 436 -58.73 62.20 REMARK 500 TRP A 504 33.79 -99.53 REMARK 500 THR A 541 -70.20 68.04 REMARK 500 ILE A 693 78.60 -113.99 REMARK 500 PRO A 722 20.95 -68.67 REMARK 500 REMARK 500 REMARK: NULL DBREF 7RSS A 1 774 UNP D0VWU9 D0VWU9_THEKO 1 774 DBREF 7RSS T 1 16 PDB 7RSS 7RSS 1 16 DBREF 7RSS P 1 13 PDB 7RSS 7RSS 1 13 SEQADV 7RSS ALA A 141 UNP D0VWU9 ASP 141 CONFLICT SEQADV 7RSS ALA A 143 UNP D0VWU9 GLU 143 CONFLICT SEQADV 7RSS HIS A 147 UNP D0VWU9 GLU 147 CONFLICT SEQADV 7RSS ARG A 485 UNP D0VWU9 ALA 485 CONFLICT SEQADV 7RSS LYS A 584 UNP D0VWU9 GLU 584 CONFLICT SEQADV 7RSS ILE A 664 UNP D0VWU9 GLU 664 CONFLICT SEQRES 1 A 774 MET ILE LEU ASP THR ASP TYR ILE THR GLU ASP GLY LYS SEQRES 2 A 774 PRO VAL ILE ARG ILE PHE LYS LYS GLU ASN GLY GLU PHE SEQRES 3 A 774 LYS ILE GLU TYR ASP ARG THR PHE GLU PRO TYR PHE TYR SEQRES 4 A 774 ALA LEU LEU LYS ASP ASP SER ALA ILE GLU GLU VAL LYS SEQRES 5 A 774 LYS ILE THR ALA GLU ARG HIS GLY THR VAL VAL THR VAL SEQRES 6 A 774 LYS ARG VAL GLU LYS VAL GLN LYS LYS PHE LEU GLY ARG SEQRES 7 A 774 PRO VAL GLU VAL TRP LYS LEU TYR PHE THR HIS PRO GLN SEQRES 8 A 774 ASP VAL PRO ALA ILE ARG ASP LYS ILE ARG GLU HIS PRO SEQRES 9 A 774 ALA VAL ILE ASP ILE TYR GLU TYR ASP ILE PRO PHE ALA SEQRES 10 A 774 LYS ARG TYR LEU ILE ASP LYS GLY LEU VAL PRO MET GLU SEQRES 11 A 774 GLY ASP GLU GLU LEU LYS MET LEU ALA PHE ALA ILE ALA SEQRES 12 A 774 THR LEU TYR HIS GLU GLY GLU GLU PHE ALA GLU GLY PRO SEQRES 13 A 774 ILE LEU MET ILE SER TYR ALA ASP GLU GLU GLY ALA ARG SEQRES 14 A 774 VAL ILE THR TRP LYS ASN VAL ASP LEU PRO TYR VAL ASP SEQRES 15 A 774 VAL VAL SER THR GLU ARG GLU MET ILE LYS ARG PHE LEU SEQRES 16 A 774 ARG VAL VAL LYS GLU LYS ASP PRO ASP VAL LEU ILE THR SEQRES 17 A 774 TYR ASN GLY ASP ASN PHE ASP PHE ALA TYR LEU LYS LYS SEQRES 18 A 774 ARG CYS GLU LYS LEU GLY ILE ASN PHE ALA LEU GLY ARG SEQRES 19 A 774 ASP GLY SER GLU PRO LYS ILE GLN ARG MET GLY ASP ARG SEQRES 20 A 774 PHE ALA VAL GLU VAL LYS GLY ARG ILE HIS PHE ASP LEU SEQRES 21 A 774 TYR PRO VAL ILE ARG ARG THR ILE ASN LEU PRO THR TYR SEQRES 22 A 774 THR LEU GLU ALA VAL TYR GLU ALA VAL PHE GLY GLN PRO SEQRES 23 A 774 LYS GLU LYS VAL TYR ALA GLU GLU ILE THR THR ALA TRP SEQRES 24 A 774 GLU THR GLY GLU ASN LEU GLU ARG VAL ALA ARG TYR SER SEQRES 25 A 774 MET GLU ASP ALA LYS VAL THR TYR GLU LEU GLY LYS GLU SEQRES 26 A 774 PHE LEU PRO MET GLU ALA GLN LEU SER ARG LEU ILE GLY SEQRES 27 A 774 GLN SER LEU TRP ASP VAL SER ARG SER SER THR GLY ASN SEQRES 28 A 774 LEU VAL GLU TRP PHE LEU LEU ARG LYS ALA TYR GLU ARG SEQRES 29 A 774 ASN GLU LEU ALA PRO ASN LYS PRO ASP GLU LYS GLU LEU SEQRES 30 A 774 ALA ARG ARG ARG GLN SER TYR GLU GLY GLY TYR VAL LYS SEQRES 31 A 774 GLU PRO GLU ARG GLY LEU TRP GLU ASN ILE VAL TYR LEU SEQRES 32 A 774 ASP PHE ARG SER LEU TYR PRO SER ILE ILE ILE THR HIS SEQRES 33 A 774 ASN VAL SER PRO ASP THR LEU ASN ARG GLU GLY CYS LYS SEQRES 34 A 774 GLU TYR ASP VAL ALA PRO GLN VAL GLY HIS ARG PHE CYS SEQRES 35 A 774 LYS ASP PHE PRO GLY PHE ILE PRO SER LEU LEU GLY ASP SEQRES 36 A 774 LEU LEU GLU GLU ARG GLN LYS ILE LYS LYS LYS MET LYS SEQRES 37 A 774 ALA THR ILE ASP PRO ILE GLU ARG LYS LEU LEU ASP TYR SEQRES 38 A 774 ARG GLN ARG ARG ILE LYS ILE LEU ALA ASN SER TYR TYR SEQRES 39 A 774 GLY TYR TYR GLY TYR ALA ARG ALA ARG TRP TYR CYS LYS SEQRES 40 A 774 GLU CYS ALA GLU SER VAL THR ALA TRP GLY ARG GLU TYR SEQRES 41 A 774 ILE THR MET THR ILE LYS GLU ILE GLU GLU LYS TYR GLY SEQRES 42 A 774 PHE LYS VAL ILE TYR SER ASP THR ASP GLY PHE PHE ALA SEQRES 43 A 774 THR ILE PRO GLY ALA ASP ALA GLU THR VAL LYS LYS LYS SEQRES 44 A 774 ALA MET GLU PHE LEU LYS TYR ILE ASN ALA LYS LEU PRO SEQRES 45 A 774 GLY ALA LEU GLU LEU GLU TYR GLU GLY PHE TYR LYS ARG SEQRES 46 A 774 GLY PHE PHE VAL THR LYS LYS LYS TYR ALA VAL ILE ASP SEQRES 47 A 774 GLU GLU GLY LYS ILE THR THR ARG GLY LEU GLU ILE VAL SEQRES 48 A 774 ARG ARG ASP TRP SER GLU ILE ALA LYS GLU THR GLN ALA SEQRES 49 A 774 ARG VAL LEU GLU ALA LEU LEU LYS ASP GLY ASP VAL GLU SEQRES 50 A 774 LYS ALA VAL ARG ILE VAL LYS GLU VAL THR GLU LYS LEU SEQRES 51 A 774 SER LYS TYR GLU VAL PRO PRO GLU LYS LEU VAL ILE HIS SEQRES 52 A 774 ILE GLN ILE THR ARG ASP LEU LYS ASP TYR LYS ALA THR SEQRES 53 A 774 GLY PRO HIS VAL ALA VAL ALA LYS ARG LEU ALA ALA ARG SEQRES 54 A 774 GLY VAL LYS ILE ARG PRO GLY THR VAL ILE SER TYR ILE SEQRES 55 A 774 VAL LEU LYS GLY SER GLY ARG ILE GLY ASP ARG ALA ILE SEQRES 56 A 774 PRO PHE ASP GLU PHE ASP PRO THR LYS HIS LYS TYR ASP SEQRES 57 A 774 ALA GLU TYR TYR ILE GLU ASN GLN VAL LEU PRO ALA VAL SEQRES 58 A 774 GLU ARG ILE LEU ARG ALA PHE GLY TYR ARG LYS GLU ASP SEQRES 59 A 774 LEU ARG TYR GLN LYS THR ARG GLN VAL GLY LEU SER ALA SEQRES 60 A 774 TRP LEU LYS PRO LYS GLY THR SEQRES 1 T 16 DA DA DA DT DT DC DG DC DA DG DT DT DC SEQRES 2 T 16 DG DC DG SEQRES 1 P 13 DC DG DC DG DA DA DC DT DG DC DG DA DA FORMUL 4 HOH *85(H2 O) HELIX 1 AA1 SER A 46 LYS A 53 1 8 HELIX 2 AA2 GLN A 91 GLU A 102 1 12 HELIX 3 AA3 PRO A 115 LYS A 124 1 10 HELIX 4 AA4 THR A 186 ASP A 202 1 17 HELIX 5 AA5 PHE A 214 LEU A 226 1 13 HELIX 6 AA6 LEU A 260 ILE A 268 1 9 HELIX 7 AA7 THR A 274 GLY A 284 1 11 HELIX 8 AA8 TYR A 291 GLY A 302 1 12 HELIX 9 AA9 ASN A 304 GLY A 338 1 35 HELIX 10 AB1 SER A 340 SER A 345 1 6 HELIX 11 AB2 SER A 348 ARG A 364 1 17 HELIX 12 AB3 ASP A 373 ARG A 380 1 8 HELIX 13 AB4 SER A 407 ASN A 417 1 11 HELIX 14 AB5 GLY A 447 THR A 470 1 24 HELIX 15 AB6 ASP A 472 ASN A 491 1 20 HELIX 16 AB7 SER A 492 GLY A 498 1 7 HELIX 17 AB8 CYS A 506 GLY A 533 1 28 HELIX 18 AB9 ASP A 552 ALA A 569 1 18 HELIX 19 AC1 LEU A 608 ARG A 612 5 5 HELIX 20 AC2 SER A 616 GLY A 634 1 19 HELIX 21 AC3 ASP A 635 LYS A 652 1 18 HELIX 22 AC4 PRO A 656 VAL A 661 5 6 HELIX 23 AC5 ASP A 669 TYR A 673 5 5 HELIX 24 AC6 GLY A 677 ALA A 688 1 12 HELIX 25 AC7 ARG A 709 ARG A 713 1 5 HELIX 26 AC8 ASP A 718 PHE A 720 5 3 HELIX 27 AC9 ASP A 728 ASN A 735 1 8 HELIX 28 AD1 GLN A 736 ARG A 746 1 11 HELIX 29 AD2 ARG A 751 LEU A 755 5 5 SHEET 1 AA1 3 ILE A 2 GLU A 10 0 SHEET 2 AA1 3 LYS A 13 GLU A 22 -1 O PHE A 19 N LEU A 3 SHEET 3 AA1 3 GLU A 25 ASP A 31 -1 O GLU A 29 N ILE A 18 SHEET 1 AA2 4 ARG A 67 PHE A 75 0 SHEET 2 AA2 4 ARG A 78 TYR A 86 -1 O TYR A 86 N ARG A 67 SHEET 3 AA2 4 TYR A 37 LEU A 42 -1 N PHE A 38 O LEU A 85 SHEET 4 AA2 4 VAL A 106 TYR A 110 -1 O TYR A 110 N TYR A 39 SHEET 1 AA3 2 ALA A 56 ARG A 58 0 SHEET 2 AA3 2 THR A 61 VAL A 63 -1 O THR A 61 N ARG A 58 SHEET 1 AA4 6 VAL A 181 VAL A 183 0 SHEET 2 AA4 6 GLY A 167 THR A 172 1 N VAL A 170 O ASP A 182 SHEET 3 AA4 6 ILE A 157 ASP A 164 -1 N ILE A 160 O ILE A 171 SHEET 4 AA4 6 MET A 137 THR A 144 -1 N ALA A 141 O SER A 161 SHEET 5 AA4 6 VAL A 205 THR A 208 1 O VAL A 205 N LEU A 138 SHEET 6 AA4 6 ILE A 256 ASP A 259 1 O PHE A 258 N LEU A 206 SHEET 1 AA5 2 LYS A 240 MET A 244 0 SHEET 2 AA5 2 ARG A 247 GLU A 251 -1 O ALA A 249 N GLN A 242 SHEET 1 AA6 7 VAL A 389 LYS A 390 0 SHEET 2 AA6 7 LYS A 535 ASP A 540 -1 O SER A 539 N LYS A 390 SHEET 3 AA6 7 GLY A 543 THR A 547 -1 O THR A 547 N LYS A 535 SHEET 4 AA6 7 GLY A 395 PHE A 405 -1 N LEU A 403 O PHE A 544 SHEET 5 AA6 7 LEU A 577 THR A 590 -1 O GLU A 578 N ASP A 404 SHEET 6 AA6 7 LYS A 593 ASP A 598 -1 O ALA A 595 N PHE A 587 SHEET 7 AA6 7 ILE A 603 ARG A 606 -1 O THR A 604 N VAL A 596 SHEET 1 AA7 2 TYR A 431 VAL A 433 0 SHEET 2 AA7 2 ARG A 440 CYS A 442 -1 O PHE A 441 N ASP A 432 SHEET 1 AA8 3 ILE A 662 GLN A 665 0 SHEET 2 AA8 3 VAL A 698 VAL A 703 -1 O TYR A 701 N ILE A 662 SHEET 3 AA8 3 ALA A 714 PRO A 716 -1 O ILE A 715 N ILE A 702 CRYST1 66.259 112.000 149.197 90.00 90.00 90.00 P 2 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 0.015092 0.000000 0.000000 0.00000 SCALE2 0.000000 0.008929 0.000000 0.00000 SCALE3 0.000000 0.000000 0.006703 0.00000