HEADER TRANSFERASE/DNA 28-JUL-15 5CWR TITLE CRYSTAL STRUCTURE OF HUMAN DNA POLYMERASE LAMBDA L431A MUTANT IN TITLE 2 COMPLEX WITH A ONE NUCLEOTIDE DNA GAP AND DCTP COMPND MOL_ID: 1; COMPND 2 MOLECULE: DNA POLYMERASE LAMBDA; COMPND 3 CHAIN: A, B; COMPND 4 FRAGMENT: UNP RESIDUES 250-575; COMPND 5 SYNONYM: POL LAMBDA,DNA POLYMERASE BETA-2,POL BETA2,DNA POLYMERASE COMPND 6 KAPPA; COMPND 7 EC: 2.7.7.7; COMPND 8 ENGINEERED: YES; COMPND 9 MUTATION: YES; COMPND 10 MOL_ID: 2; COMPND 11 MOLECULE: DNA (5'-D(*CP*GP*GP*CP*GP*GP*TP*AP*CP*TP*G)-3'); COMPND 12 CHAIN: T, F; COMPND 13 ENGINEERED: YES; COMPND 14 OTHER_DETAILS: CGGCGGTACTG; COMPND 15 MOL_ID: 3; COMPND 16 MOLECULE: DNA (5'-D(*CP*AP*GP*TP*AP*C)-3'); COMPND 17 CHAIN: P, E; COMPND 18 ENGINEERED: YES; COMPND 19 MOL_ID: 4; COMPND 20 MOLECULE: DNA (5'-D(P*GP*CP*CP*G)-3'); COMPND 21 CHAIN: D, C; COMPND 22 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; SOURCE 7 EXPRESSION_SYSTEM_TAXID: 562; SOURCE 8 MOL_ID: 2; SOURCE 9 SYNTHETIC: YES; SOURCE 10 ORGANISM_SCIENTIFIC: SYNTHETIC CONSTRUCT; SOURCE 11 ORGANISM_TAXID: 32630; SOURCE 12 MOL_ID: 3; SOURCE 13 SYNTHETIC: YES; SOURCE 14 ORGANISM_SCIENTIFIC: SYNTHETIC CONSTRUCT; SOURCE 15 ORGANISM_TAXID: 32630; SOURCE 16 MOL_ID: 4; SOURCE 17 SYNTHETIC: YES; SOURCE 18 ORGANISM_SCIENTIFIC: SYNTHETIC CONSTRUCT; SOURCE 19 ORGANISM_TAXID: 32630 KEYWDS POLYMERASE LAMBDA, TRANSFERASE, TRANSFERASE-DNA COMPLEX EXPDTA X-RAY DIFFRACTION AUTHOR M.S.LIU,M.D.TSAI REVDAT 3 08-NOV-23 5CWR 1 REMARK LINK REVDAT 2 09-MAR-16 5CWR 1 JRNL REVDAT 1 24-FEB-16 5CWR 0 JRNL AUTH M.S.LIU,H.Y.TSAI,X.X.LIU,M.C.HO,W.J.WU,M.D.TSAI JRNL TITL STRUCTURAL MECHANISM FOR THE FIDELITY MODULATION OF DNA JRNL TITL 2 POLYMERASE LAMBDA JRNL REF J.AM.CHEM.SOC. V. 138 2389 2016 JRNL REFN ESSN 1520-5126 JRNL PMID 26836966 JRNL DOI 10.1021/JACS.5B13368 REMARK 2 REMARK 2 RESOLUTION. 2.50 ANGSTROMS. REMARK 3 REMARK 3 REFINEMENT. REMARK 3 PROGRAM : PHENIX 1.9_1692 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) : 2.50 REMARK 3 RESOLUTION RANGE LOW (ANGSTROMS) : 28.12 REMARK 3 MIN(FOBS/SIGMA_FOBS) : 1.360 REMARK 3 COMPLETENESS FOR RANGE (%) : 98.7 REMARK 3 NUMBER OF REFLECTIONS : 41640 REMARK 3 REMARK 3 FIT TO DATA USED IN REFINEMENT. REMARK 3 R VALUE (WORKING + TEST SET) : 0.204 REMARK 3 R VALUE (WORKING SET) : 0.202 REMARK 3 FREE R VALUE : 0.234 REMARK 3 FREE R VALUE TEST SET SIZE (%) : 4.770 REMARK 3 FREE R VALUE TEST SET COUNT : 1985 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 28.1250 - 6.0071 0.96 2951 145 0.1733 0.1853 REMARK 3 2 6.0071 - 4.7756 0.99 2906 142 0.1973 0.2119 REMARK 3 3 4.7756 - 4.1742 1.00 2904 141 0.1739 0.2074 REMARK 3 4 4.1742 - 3.7935 1.00 2886 142 0.1800 0.2194 REMARK 3 5 3.7935 - 3.5222 1.00 2837 149 0.1995 0.2149 REMARK 3 6 3.5222 - 3.3149 1.00 2851 137 0.2048 0.2234 REMARK 3 7 3.3149 - 3.1491 1.00 2859 159 0.2142 0.2544 REMARK 3 8 3.1491 - 3.0122 1.00 2818 136 0.2259 0.2347 REMARK 3 9 3.0122 - 2.8963 1.00 2839 146 0.2246 0.2890 REMARK 3 10 2.8963 - 2.7965 1.00 2842 135 0.2267 0.2756 REMARK 3 11 2.7965 - 2.7091 1.00 2814 150 0.2271 0.3141 REMARK 3 12 2.7091 - 2.6317 0.99 2800 139 0.2379 0.2778 REMARK 3 13 2.6317 - 2.5625 0.97 2724 134 0.2385 0.2915 REMARK 3 14 2.5625 - 2.5000 0.92 2624 130 0.2260 0.2606 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) : 24.860 REMARK 3 REMARK 3 B VALUES. REMARK 3 FROM WILSON PLOT (A**2) : 29.40 REMARK 3 MEAN B VALUE (OVERALL, A**2) : NULL 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 : 0.004 6188 REMARK 3 ANGLE : 0.738 8539 REMARK 3 CHIRALITY : 0.028 936 REMARK 3 PLANARITY : 0.004 948 REMARK 3 DIHEDRAL : 18.566 2357 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 5CWR COMPLIES WITH FORMAT V. 3.30, 13-JUL-11 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY PDBJ ON 03-AUG-15. REMARK 100 THE DEPOSITION ID IS D_1000212185. REMARK 200 REMARK 200 EXPERIMENTAL DETAILS REMARK 200 EXPERIMENT TYPE : X-RAY DIFFRACTION REMARK 200 DATE OF DATA COLLECTION : 27-SEP-14 REMARK 200 TEMPERATURE (KELVIN) : 95 REMARK 200 PH : 7.5 REMARK 200 NUMBER OF CRYSTALS USED : 1 REMARK 200 REMARK 200 SYNCHROTRON (Y/N) : Y REMARK 200 RADIATION SOURCE : NSRRC REMARK 200 BEAMLINE : BL13B1 REMARK 200 X-RAY GENERATOR MODEL : NULL REMARK 200 MONOCHROMATIC OR LAUE (M/L) : M REMARK 200 WAVELENGTH OR RANGE (A) : 1.00000 REMARK 200 MONOCHROMATOR : NULL REMARK 200 OPTICS : NULL REMARK 200 REMARK 200 DETECTOR TYPE : CCD REMARK 200 DETECTOR MANUFACTURER : RAYONIX MX300HE REMARK 200 INTENSITY-INTEGRATION SOFTWARE : HKL-2000 REMARK 200 DATA SCALING SOFTWARE : HKL-2000 REMARK 200 REMARK 200 NUMBER OF UNIQUE REFLECTIONS : 41766 REMARK 200 RESOLUTION RANGE HIGH (A) : 2.500 REMARK 200 RESOLUTION RANGE LOW (A) : 30.000 REMARK 200 REJECTION CRITERIA (SIGMA(I)) : NULL REMARK 200 REMARK 200 OVERALL. REMARK 200 COMPLETENESS FOR RANGE (%) : 98.7 REMARK 200 DATA REDUNDANCY : 5.500 REMARK 200 R MERGE (I) : 0.09100 REMARK 200 R SYM (I) : NULL REMARK 200 FOR THE DATA SET : 9.1000 REMARK 200 REMARK 200 IN THE HIGHEST RESOLUTION SHELL. REMARK 200 HIGHEST RESOLUTION SHELL, RANGE HIGH (A) : 2.50 REMARK 200 HIGHEST RESOLUTION SHELL, RANGE LOW (A) : 2.59 REMARK 200 COMPLETENESS FOR SHELL (%) : 92.8 REMARK 200 DATA REDUNDANCY IN SHELL : 5.20 REMARK 200 R MERGE FOR SHELL (I) : 0.32000 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: PHENIX REMARK 200 STARTING MODEL: 3MGI REMARK 200 REMARK 200 REMARK: NULL REMARK 280 REMARK 280 CRYSTAL REMARK 280 SOLVENT CONTENT, VS (%): 69.58 REMARK 280 MATTHEWS COEFFICIENT, VM (ANGSTROMS**3/DA): 3.48 REMARK 280 REMARK 280 CRYSTALLIZATION CONDITIONS: 0.15 M POTASSIUM BROMIDE, 30% REMARK 280 POLYETHYLENE GLYCOL MONOMETHYL ETHER 2000, PH 7.5, VAPOR REMARK 280 DIFFUSION, HANGING DROP, TEMPERATURE 277K REMARK 290 REMARK 290 CRYSTALLOGRAPHIC SYMMETRY REMARK 290 SYMMETRY OPERATORS FOR SPACE GROUP: P 21 21 2 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+1/2,Y+1/2,-Z 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 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 46.50150 REMARK 290 SMTRY2 3 0.000000 1.000000 0.000000 74.35600 REMARK 290 SMTRY3 3 0.000000 0.000000 -1.000000 0.00000 REMARK 290 SMTRY1 4 1.000000 0.000000 0.000000 46.50150 REMARK 290 SMTRY2 4 0.000000 -1.000000 0.000000 74.35600 REMARK 290 SMTRY3 4 0.000000 0.000000 -1.000000 0.00000 REMARK 290 REMARK 290 REMARK: NULL REMARK 300 REMARK 300 BIOMOLECULE: 1, 2 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: 4990 ANGSTROM**2 REMARK 350 SURFACE AREA OF THE COMPLEX: 17900 ANGSTROM**2 REMARK 350 CHANGE IN SOLVENT FREE ENERGY: -48.0 KCAL/MOL REMARK 350 APPLY THE FOLLOWING TO CHAINS: A, T, P, D REMARK 350 BIOMT1 1 1.000000 0.000000 0.000000 0.00000 REMARK 350 BIOMT2 1 0.000000 1.000000 0.000000 0.00000 REMARK 350 BIOMT3 1 0.000000 0.000000 1.000000 0.00000 REMARK 350 REMARK 350 BIOMOLECULE: 2 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: 4950 ANGSTROM**2 REMARK 350 SURFACE AREA OF THE COMPLEX: 17780 ANGSTROM**2 REMARK 350 CHANGE IN SOLVENT FREE ENERGY: -48.0 KCAL/MOL REMARK 350 APPLY THE FOLLOWING TO CHAINS: B, F, E, C 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 GLN A 469 REMARK 465 GLU B 465 REMARK 465 GLU B 466 REMARK 465 ASN B 467 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 ARG A 438 CG CD NE CZ NH1 NH2 REMARK 470 GLU A 466 CG CD OE1 OE2 REMARK 470 GLN A 470 CG CD OE1 NE2 REMARK 470 LYS B 307 CG CD CE NZ REMARK 470 GLU B 390 CG CD OE1 OE2 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 OP2 DA F 8 O HOH F 101 2.06 REMARK 500 OD2 ASP A 459 O HOH A 701 2.16 REMARK 500 O HOH P 109 O HOH P 110 2.17 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 DC T 9 O3' DT T 10 P -0.083 REMARK 500 DG F 6 O3' DT F 7 P -0.073 REMARK 500 DG D 1 P DG D 1 OP3 -0.130 REMARK 500 DG C 1 P DG C 1 OP3 -0.129 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 D 1 OP1 - P - OP2 ANGL. DEV. = -11.7 DEGREES REMARK 500 DG C 1 OP1 - P - OP2 ANGL. DEV. = -12.4 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 CYS A 415 -144.49 -110.45 REMARK 500 CYS B 415 -143.69 -113.44 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 CA A 602 CA REMARK 620 N RES CSSEQI ATOM REMARK 620 1 ASP A 427 OD1 REMARK 620 2 ASP A 427 OD2 45.6 REMARK 620 3 ASP A 429 OD1 85.8 98.8 REMARK 620 4 ASP A 490 OD1 117.3 73.5 91.2 REMARK 620 5 DCP A 601 O1A 58.8 102.6 89.3 176.1 REMARK 620 6 HOH A 733 O 77.2 73.9 161.8 102.2 76.5 REMARK 620 7 DC P 6 O3' 167.0 144.8 84.4 71.4 112.5 111.3 REMARK 620 N 1 2 3 4 5 6 REMARK 620 REMARK 620 COORDINATION ANGLES FOR: M RES CSSEQI METAL REMARK 620 CA A 603 CA REMARK 620 N RES CSSEQI ATOM REMARK 620 1 ASP A 427 O REMARK 620 2 ASP A 427 OD1 68.0 REMARK 620 3 ASP A 429 OD2 91.8 96.4 REMARK 620 4 DCP A 601 O1A 140.9 74.7 80.7 REMARK 620 5 DCP A 601 O2B 150.1 141.8 87.4 68.4 REMARK 620 6 DCP A 601 O2G 115.1 85.0 151.1 71.8 74.5 REMARK 620 7 HOH A 716 O 63.2 130.7 92.1 154.5 87.0 108.9 REMARK 620 N 1 2 3 4 5 6 REMARK 620 REMARK 620 COORDINATION ANGLES FOR: M RES CSSEQI METAL REMARK 620 CA B 602 CA REMARK 620 N RES CSSEQI ATOM REMARK 620 1 ASP B 427 OD2 REMARK 620 2 ASP B 429 OD1 92.5 REMARK 620 3 ASP B 490 OD2 79.0 86.8 REMARK 620 4 DCP B 601 O2A 97.5 96.4 175.4 REMARK 620 5 DC E 6 O3' 150.7 94.7 73.2 109.8 REMARK 620 N 1 2 3 4 REMARK 620 REMARK 620 COORDINATION ANGLES FOR: M RES CSSEQI METAL REMARK 620 CA B 603 CA REMARK 620 N RES CSSEQI ATOM REMARK 620 1 ASP B 427 O REMARK 620 2 ASP B 427 OD1 65.1 REMARK 620 3 ASP B 429 OD2 97.9 104.5 REMARK 620 4 DCP B 601 O2A 141.8 77.1 86.1 REMARK 620 5 DCP B 601 O1B 144.7 143.6 92.5 72.2 REMARK 620 6 DCP B 601 O2G 103.1 76.4 157.0 71.6 75.7 REMARK 620 7 HOH B 717 O 58.0 121.1 97.3 159.5 87.4 101.7 REMARK 620 N 1 2 3 4 5 6 REMARK 800 REMARK 800 SITE REMARK 800 SITE_IDENTIFIER: AC1 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue DCP A 601 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC2 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue CA A 602 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC3 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue CA A 603 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC4 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue DCP B 601 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC5 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue CA B 602 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC6 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue CA B 603 REMARK 900 REMARK 900 RELATED ENTRIES REMARK 900 RELATED ID: 5CB1 RELATED DB: PDB REMARK 900 5CB1 CONTAINS THE SAME PROTEIN- APOENZYME DBREF 5CWR A 250 575 UNP Q9UGP5 DPOLL_HUMAN 250 575 DBREF 5CWR T 1 11 PDB 5CWR 5CWR 1 11 DBREF 5CWR P 1 6 PDB 5CWR 5CWR 1 6 DBREF 5CWR B 250 575 UNP Q9UGP5 DPOLL_HUMAN 250 575 DBREF 5CWR F 1 11 PDB 5CWR 5CWR 1 11 DBREF 5CWR E 1 6 PDB 5CWR 5CWR 1 6 DBREF 5CWR D 1 4 PDB 5CWR 5CWR 1 4 DBREF 5CWR C 1 4 PDB 5CWR 5CWR 1 4 SEQADV 5CWR ALA A 431 UNP Q9UGP5 LEU 431 ENGINEERED MUTATION SEQADV 5CWR ALA B 431 UNP Q9UGP5 LEU 431 ENGINEERED MUTATION SEQRES 1 A 326 THR ASN HIS ASN LEU HIS ILE THR GLU LYS LEU GLU VAL SEQRES 2 A 326 LEU ALA LYS ALA TYR SER VAL GLN GLY ASP LYS TRP ARG SEQRES 3 A 326 ALA LEU GLY TYR ALA LYS ALA ILE ASN ALA LEU LYS SER SEQRES 4 A 326 PHE HIS LYS PRO VAL THR SER TYR GLN GLU ALA CYS SER SEQRES 5 A 326 ILE PRO GLY ILE GLY LYS ARG MET ALA GLU LYS ILE ILE SEQRES 6 A 326 GLU ILE LEU GLU SER GLY HIS LEU ARG LYS LEU ASP HIS SEQRES 7 A 326 ILE SER GLU SER VAL PRO VAL LEU GLU LEU PHE SER ASN SEQRES 8 A 326 ILE TRP GLY ALA GLY THR LYS THR ALA GLN MET TRP TYR SEQRES 9 A 326 GLN GLN GLY PHE ARG SER LEU GLU ASP ILE ARG SER GLN SEQRES 10 A 326 ALA SER LEU THR THR GLN GLN ALA ILE GLY LEU LYS HIS SEQRES 11 A 326 TYR SER ASP PHE LEU GLU ARG MET PRO ARG GLU GLU ALA SEQRES 12 A 326 THR GLU ILE GLU GLN THR VAL GLN LYS ALA ALA GLN ALA SEQRES 13 A 326 PHE ASN SER GLY LEU LEU CYS VAL ALA CYS GLY SER TYR SEQRES 14 A 326 ARG ARG GLY LYS ALA THR CYS GLY ASP VAL ASP VAL ALA SEQRES 15 A 326 ILE THR HIS PRO ASP GLY ARG SER HIS ARG GLY ILE PHE SEQRES 16 A 326 SER ARG LEU LEU ASP SER LEU ARG GLN GLU GLY PHE LEU SEQRES 17 A 326 THR ASP ASP LEU VAL SER GLN GLU GLU ASN GLY GLN GLN SEQRES 18 A 326 GLN LYS TYR LEU GLY VAL CYS ARG LEU PRO GLY PRO GLY SEQRES 19 A 326 ARG ARG HIS ARG ARG LEU ASP ILE ILE VAL VAL PRO TYR SEQRES 20 A 326 SER GLU PHE ALA CYS ALA LEU LEU TYR PHE THR GLY SER SEQRES 21 A 326 ALA HIS PHE ASN ARG SER MET ARG ALA LEU ALA LYS THR SEQRES 22 A 326 LYS GLY MET SER LEU SER GLU HIS ALA LEU SER THR ALA SEQRES 23 A 326 VAL VAL ARG ASN THR HIS GLY CYS LYS VAL GLY PRO GLY SEQRES 24 A 326 ARG VAL LEU PRO THR PRO THR GLU LYS ASP VAL PHE ARG SEQRES 25 A 326 LEU LEU GLY LEU PRO TYR ARG GLU PRO ALA GLU ARG ASP SEQRES 26 A 326 TRP SEQRES 1 T 11 DC DG DG DC DG DG DT DA DC DT DG SEQRES 1 P 6 DC DA DG DT DA DC SEQRES 1 B 326 THR ASN HIS ASN LEU HIS ILE THR GLU LYS LEU GLU VAL SEQRES 2 B 326 LEU ALA LYS ALA TYR SER VAL GLN GLY ASP LYS TRP ARG SEQRES 3 B 326 ALA LEU GLY TYR ALA LYS ALA ILE ASN ALA LEU LYS SER SEQRES 4 B 326 PHE HIS LYS PRO VAL THR SER TYR GLN GLU ALA CYS SER SEQRES 5 B 326 ILE PRO GLY ILE GLY LYS ARG MET ALA GLU LYS ILE ILE SEQRES 6 B 326 GLU ILE LEU GLU SER GLY HIS LEU ARG LYS LEU ASP HIS SEQRES 7 B 326 ILE SER GLU SER VAL PRO VAL LEU GLU LEU PHE SER ASN SEQRES 8 B 326 ILE TRP GLY ALA GLY THR LYS THR ALA GLN MET TRP TYR SEQRES 9 B 326 GLN GLN GLY PHE ARG SER LEU GLU ASP ILE ARG SER GLN SEQRES 10 B 326 ALA SER LEU THR THR GLN GLN ALA ILE GLY LEU LYS HIS SEQRES 11 B 326 TYR SER ASP PHE LEU GLU ARG MET PRO ARG GLU GLU ALA SEQRES 12 B 326 THR GLU ILE GLU GLN THR VAL GLN LYS ALA ALA GLN ALA SEQRES 13 B 326 PHE ASN SER GLY LEU LEU CYS VAL ALA CYS GLY SER TYR SEQRES 14 B 326 ARG ARG GLY LYS ALA THR CYS GLY ASP VAL ASP VAL ALA SEQRES 15 B 326 ILE THR HIS PRO ASP GLY ARG SER HIS ARG GLY ILE PHE SEQRES 16 B 326 SER ARG LEU LEU ASP SER LEU ARG GLN GLU GLY PHE LEU SEQRES 17 B 326 THR ASP ASP LEU VAL SER GLN GLU GLU ASN GLY GLN GLN SEQRES 18 B 326 GLN LYS TYR LEU GLY VAL CYS ARG LEU PRO GLY PRO GLY SEQRES 19 B 326 ARG ARG HIS ARG ARG LEU ASP ILE ILE VAL VAL PRO TYR SEQRES 20 B 326 SER GLU PHE ALA CYS ALA LEU LEU TYR PHE THR GLY SER SEQRES 21 B 326 ALA HIS PHE ASN ARG SER MET ARG ALA LEU ALA LYS THR SEQRES 22 B 326 LYS GLY MET SER LEU SER GLU HIS ALA LEU SER THR ALA SEQRES 23 B 326 VAL VAL ARG ASN THR HIS GLY CYS LYS VAL GLY PRO GLY SEQRES 24 B 326 ARG VAL LEU PRO THR PRO THR GLU LYS ASP VAL PHE ARG SEQRES 25 B 326 LEU LEU GLY LEU PRO TYR ARG GLU PRO ALA GLU ARG ASP SEQRES 26 B 326 TRP SEQRES 1 F 11 DC DG DG DC DG DG DT DA DC DT DG SEQRES 1 E 6 DC DA DG DT DA DC SEQRES 1 D 4 DG DC DC DG SEQRES 1 C 4 DG DC DC DG HET DCP A 601 28 HET CA A 602 1 HET CA A 603 1 HET DCP B 601 28 HET CA B 602 1 HET CA B 603 1 HETNAM DCP 2'-DEOXYCYTIDINE-5'-TRIPHOSPHATE HETNAM CA CALCIUM ION FORMUL 9 DCP 2(C9 H16 N3 O13 P3) FORMUL 10 CA 4(CA 2+) FORMUL 15 HOH *307(H2 O) HELIX 1 AA1 ASN A 253 GLN A 270 1 18 HELIX 2 AA2 ASP A 272 SER A 288 1 17 HELIX 3 AA3 SER A 295 SER A 301 1 7 HELIX 4 AA4 GLY A 306 GLY A 320 1 15 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 GLN A 355 1 11 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 ALA A 405 1 17 HELIX 12 AB3 CYS A 415 ARG A 420 1 6 HELIX 13 AB4 GLY A 442 GLU A 454 1 13 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 ARG A 573 5 5 HELIX 19 AC1 ASN B 253 GLY B 271 1 19 HELIX 20 AC2 ASP B 272 PHE B 289 1 18 HELIX 21 AC3 SER B 295 SER B 301 1 7 HELIX 22 AC4 GLY B 306 GLY B 320 1 15 HELIX 23 AC5 LEU B 322 ILE B 328 5 7 HELIX 24 AC6 SER B 331 ASN B 340 1 10 HELIX 25 AC7 GLY B 345 GLN B 355 1 11 HELIX 26 AC8 SER B 359 ALA B 367 1 9 HELIX 27 AC9 THR B 370 HIS B 379 1 10 HELIX 28 AD1 HIS B 379 GLU B 385 1 7 HELIX 29 AD2 ARG B 389 ALA B 405 1 17 HELIX 30 AD3 CYS B 415 ARG B 420 1 6 HELIX 31 AD4 GLY B 442 GLU B 454 1 13 HELIX 32 AD5 PRO B 495 GLY B 508 1 14 HELIX 33 AD6 SER B 509 LYS B 523 1 15 HELIX 34 AD7 THR B 555 LEU B 563 1 9 HELIX 35 AD8 GLU B 569 ASP B 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 VAL A 428 THR A 433 -1 O ALA 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 VAL A 462 -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 VAL A 550 LEU A 551 -1 O LEU A 551 N LEU A 532 SHEET 1 AA4 2 VAL A 537 ARG A 538 0 SHEET 2 AA4 2 LYS A 544 GLY A 546 -1 O VAL A 545 N VAL A 537 SHEET 1 AA5 2 MET B 387 PRO B 388 0 SHEET 2 AA5 2 THR B 424 CYS B 425 -1 O CYS B 425 N MET B 387 SHEET 1 AA6 5 LEU B 411 ALA B 414 0 SHEET 2 AA6 5 VAL B 428 THR B 433 -1 O ALA B 431 N VAL B 413 SHEET 3 AA6 5 ARG B 487 VAL B 493 1 O ASP B 490 N VAL B 430 SHEET 4 AA6 5 GLN B 471 CYS B 477 -1 N CYS B 477 O ARG B 487 SHEET 5 AA6 5 LEU B 457 VAL B 462 -1 N THR B 458 O VAL B 476 SHEET 1 AA7 3 MET B 525 LEU B 527 0 SHEET 2 AA7 3 LEU B 532 THR B 534 -1 O SER B 533 N SER B 526 SHEET 3 AA7 3 VAL B 550 LEU B 551 -1 O LEU B 551 N LEU B 532 SHEET 1 AA8 2 VAL B 537 ARG B 538 0 SHEET 2 AA8 2 LYS B 544 GLY B 546 -1 O VAL B 545 N VAL B 537 SSBOND 1 CYS A 543 CYS B 543 1555 1555 2.03 LINK OD1 ASP A 427 CA CA A 602 1555 1555 3.01 LINK OD2 ASP A 427 CA CA A 602 1555 1555 2.48 LINK O ASP A 427 CA CA A 603 1555 1555 2.81 LINK OD1 ASP A 427 CA CA A 603 1555 1555 2.21 LINK OD1 ASP A 429 CA CA A 602 1555 1555 2.49 LINK OD2 ASP A 429 CA CA A 603 1555 1555 2.36 LINK OD1 ASP A 490 CA CA A 602 1555 1555 2.52 LINK O1A DCP A 601 CA CA A 602 1555 1555 2.65 LINK O1A DCP A 601 CA CA A 603 1555 1555 2.39 LINK O2B DCP A 601 CA CA A 603 1555 1555 2.40 LINK O2G DCP A 601 CA CA A 603 1555 1555 2.54 LINK CA CA A 602 O HOH A 733 1555 1555 2.65 LINK CA CA A 602 O3' DC P 6 1555 1555 2.88 LINK CA CA A 603 O HOH A 716 1555 1555 2.54 LINK OD2 ASP B 427 CA CA B 602 1555 1555 2.47 LINK O ASP B 427 CA CA B 603 1555 1555 2.99 LINK OD1 ASP B 427 CA CA B 603 1555 1555 2.25 LINK OD1 ASP B 429 CA CA B 602 1555 1555 2.52 LINK OD2 ASP B 429 CA CA B 603 1555 1555 2.35 LINK OD2 ASP B 490 CA CA B 602 1555 1555 2.51 LINK O2A DCP B 601 CA CA B 602 1555 1555 2.79 LINK O2A DCP B 601 CA CA B 603 1555 1555 2.37 LINK O1B DCP B 601 CA CA B 603 1555 1555 2.39 LINK O2G DCP B 601 CA CA B 603 1555 1555 2.48 LINK CA CA B 602 O3' DC E 6 1555 1555 2.68 LINK CA CA B 603 O HOH B 717 1555 1555 2.58 CISPEP 1 GLY A 508 SER A 509 0 0.46 CISPEP 2 GLY B 508 SER B 509 0 0.24 SITE 1 AC1 22 ARG A 386 GLY A 416 SER A 417 ARG A 420 SITE 2 AC1 22 GLY A 426 ASP A 427 ASP A 429 TYR A 505 SITE 3 AC1 22 PHE A 506 THR A 507 GLY A 508 ALA A 510 SITE 4 AC1 22 ASN A 513 CA A 602 CA A 603 HOH A 733 SITE 5 AC1 22 HOH A 740 HOH A 745 HOH A 790 HOH A 792 SITE 6 AC1 22 DC P 6 DG T 5 SITE 1 AC2 6 ASP A 427 ASP A 429 ASP A 490 DCP A 601 SITE 2 AC2 6 HOH A 733 DC P 6 SITE 1 AC3 4 ASP A 427 ASP A 429 DCP A 601 HOH A 716 SITE 1 AC4 21 ARG B 386 GLY B 416 SER B 417 ARG B 420 SITE 2 AC4 21 GLY B 426 ASP B 427 ASP B 429 TYR B 505 SITE 3 AC4 21 PHE B 506 THR B 507 GLY B 508 ALA B 510 SITE 4 AC4 21 ASN B 513 CA B 602 CA B 603 HOH B 724 SITE 5 AC4 21 HOH B 736 HOH B 777 HOH B 778 DC E 6 SITE 6 AC4 21 DG F 5 SITE 1 AC5 5 ASP B 427 ASP B 429 ASP B 490 DCP B 601 SITE 2 AC5 5 DC E 6 SITE 1 AC6 4 ASP B 427 ASP B 429 DCP B 601 HOH B 717 CRYST1 93.003 148.712 86.414 90.00 90.00 90.00 P 21 21 2 8 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 0.010752 0.000000 0.000000 0.00000 SCALE2 0.000000 0.006724 0.000000 0.00000 SCALE3 0.000000 0.000000 0.011572 0.00000