HEADER STRUCTURAL PROTEIN, IMMUNE SYSTEM 02-DEC-14 4X42 TITLE CRYSTAL STRUCTURE OF DEN4 ED3 MUTANT WITH EPITOPE TWO RESIDUES TITLE 2 SUBSTITUTED FROM DEN3 ED3 COMPND MOL_ID: 1; COMPND 2 MOLECULE: ENVELOPE PROTEIN E; COMPND 3 CHAIN: A, B, C, D, E, F; COMPND 4 FRAGMENT: DOMAIN III (ED3), UNP RESIDUES 575-679; COMPND 5 ENGINEERED: YES; COMPND 6 MUTATION: YES SOURCE MOL_ID: 1; SOURCE 2 ORGANISM_SCIENTIFIC: DENGUE VIRUS TYPE 4; SOURCE 3 ORGANISM_COMMON: DENV-4; SOURCE 4 ORGANISM_TAXID: 408871; SOURCE 5 STRAIN: DOMINICA/814669/1981; SOURCE 6 EXPRESSION_SYSTEM: ESCHERICHIA COLI; SOURCE 7 EXPRESSION_SYSTEM_TAXID: 562; SOURCE 8 EXPRESSION_SYSTEM_STRAIN: JM109 (DE3 PLYSS); SOURCE 9 EXPRESSION_SYSTEM_VECTOR_TYPE: PLASMID; SOURCE 10 EXPRESSION_SYSTEM_PLASMID: PET15B KEYWDS SERO-SPECIFICITY, EPITOPE GRAFT MUTANTS, ELISA, STRUCTURAL PROTEIN, KEYWDS 2 IMMUNE SYSTEM EXPDTA X-RAY DIFFRACTION AUTHOR M.R.KULKARNI,M.M.ISLAM,N.NUMOTO,M.M.ELAHI,N.ITO,Y.KURODA REVDAT 3 08-NOV-23 4X42 1 REMARK REVDAT 2 05-FEB-20 4X42 1 REMARK REVDAT 1 09-SEP-15 4X42 0 JRNL AUTH M.R.KULKARNI,M.M.ISLAM,N.NUMOTO,M.ELAHI,M.R.MAHIB,N.ITO, JRNL AUTH 2 Y.KURODA JRNL TITL STRUCTURAL AND BIOPHYSICAL ANALYSIS OF SERO-SPECIFIC IMMUNE JRNL TITL 2 RESPONSES USING EPITOPE GRAFTED DENGUE ED3 MUTANTS. JRNL REF BIOCHIM.BIOPHYS.ACTA V.1854 1438 2015 JRNL REFN ISSN 0006-3002 JRNL PMID 26160751 JRNL DOI 10.1016/J.BBAPAP.2015.07.004 REMARK 2 REMARK 2 RESOLUTION. 2.78 ANGSTROMS. REMARK 3 REMARK 3 REFINEMENT. REMARK 3 PROGRAM : REFMAC 5.7.0029 REMARK 3 AUTHORS : MURSHUDOV,SKUBAK,LEBEDEV,PANNU,STEINER, REMARK 3 : NICHOLLS,WINN,LONG,VAGIN REMARK 3 REMARK 3 REFINEMENT TARGET : MAXIMUM LIKELIHOOD REMARK 3 REMARK 3 DATA USED IN REFINEMENT. REMARK 3 RESOLUTION RANGE HIGH (ANGSTROMS) : 2.78 REMARK 3 RESOLUTION RANGE LOW (ANGSTROMS) : 40.03 REMARK 3 DATA CUTOFF (SIGMA(F)) : NULL REMARK 3 COMPLETENESS FOR RANGE (%) : 99.8 REMARK 3 NUMBER OF REFLECTIONS : 18330 REMARK 3 REMARK 3 FIT TO DATA USED IN REFINEMENT. REMARK 3 CROSS-VALIDATION METHOD : THROUGHOUT REMARK 3 FREE R VALUE TEST SET SELECTION : RANDOM REMARK 3 R VALUE (WORKING + TEST SET) : 0.236 REMARK 3 R VALUE (WORKING SET) : 0.234 REMARK 3 FREE R VALUE : 0.273 REMARK 3 FREE R VALUE TEST SET SIZE (%) : 4.900 REMARK 3 FREE R VALUE TEST SET COUNT : 938 REMARK 3 REMARK 3 FIT IN THE HIGHEST RESOLUTION BIN. REMARK 3 TOTAL NUMBER OF BINS USED : 20 REMARK 3 BIN RESOLUTION RANGE HIGH (A) : 2.78 REMARK 3 BIN RESOLUTION RANGE LOW (A) : 2.85 REMARK 3 REFLECTION IN BIN (WORKING SET) : 1318 REMARK 3 BIN COMPLETENESS (WORKING+TEST) (%) : 97.75 REMARK 3 BIN R VALUE (WORKING SET) : 0.3400 REMARK 3 BIN FREE R VALUE SET COUNT : 70 REMARK 3 BIN FREE R VALUE : 0.4400 REMARK 3 REMARK 3 NUMBER OF NON-HYDROGEN ATOMS USED IN REFINEMENT. REMARK 3 PROTEIN ATOMS : 4544 REMARK 3 NUCLEIC ACID ATOMS : 0 REMARK 3 HETEROGEN ATOMS : 20 REMARK 3 SOLVENT ATOMS : 11 REMARK 3 REMARK 3 B VALUES. REMARK 3 FROM WILSON PLOT (A**2) : NULL REMARK 3 MEAN B VALUE (OVERALL, A**2) : 53.64 REMARK 3 OVERALL ANISOTROPIC B VALUE. REMARK 3 B11 (A**2) : 0.10000 REMARK 3 B22 (A**2) : 0.10000 REMARK 3 B33 (A**2) : -0.32000 REMARK 3 B12 (A**2) : 0.10000 REMARK 3 B13 (A**2) : 0.00000 REMARK 3 B23 (A**2) : 0.00000 REMARK 3 REMARK 3 ESTIMATED OVERALL COORDINATE ERROR. REMARK 3 ESU BASED ON R VALUE (A): 8.166 REMARK 3 ESU BASED ON FREE R VALUE (A): 0.385 REMARK 3 ESU BASED ON MAXIMUM LIKELIHOOD (A): 0.331 REMARK 3 ESU FOR B VALUES BASED ON MAXIMUM LIKELIHOOD (A**2): 17.514 REMARK 3 REMARK 3 CORRELATION COEFFICIENTS. REMARK 3 CORRELATION COEFFICIENT FO-FC : 0.914 REMARK 3 CORRELATION COEFFICIENT FO-FC FREE : 0.889 REMARK 3 REMARK 3 RMS DEVIATIONS FROM IDEAL VALUES COUNT RMS WEIGHT REMARK 3 BOND LENGTHS REFINED ATOMS (A): 4644 ; 0.012 ; 0.019 REMARK 3 BOND LENGTHS OTHERS (A): 4534 ; 0.007 ; 0.020 REMARK 3 BOND ANGLES REFINED ATOMS (DEGREES): 6273 ; 1.512 ; 1.975 REMARK 3 BOND ANGLES OTHERS (DEGREES): 10506 ; 1.538 ; 3.002 REMARK 3 TORSION ANGLES, PERIOD 1 (DEGREES): 588 ; 6.239 ; 5.000 REMARK 3 TORSION ANGLES, PERIOD 2 (DEGREES): 174 ;37.215 ;25.172 REMARK 3 TORSION ANGLES, PERIOD 3 (DEGREES): 853 ;15.312 ;15.000 REMARK 3 TORSION ANGLES, PERIOD 4 (DEGREES): 18 ;21.886 ;15.000 REMARK 3 CHIRAL-CENTER RESTRAINTS (A**3): 719 ; 0.072 ; 0.200 REMARK 3 GENERAL PLANES REFINED ATOMS (A): 5106 ; 0.009 ; 0.021 REMARK 3 GENERAL PLANES OTHERS (A): 924 ; 0.007 ; 0.020 REMARK 3 NON-BONDED CONTACTS REFINED ATOMS (A): NULL ; NULL ; NULL REMARK 3 NON-BONDED CONTACTS OTHERS (A): NULL ; NULL ; NULL REMARK 3 NON-BONDED TORSION REFINED ATOMS (A): NULL ; NULL ; NULL REMARK 3 NON-BONDED TORSION OTHERS (A): NULL ; NULL ; NULL REMARK 3 H-BOND (X...Y) REFINED ATOMS (A): NULL ; NULL ; NULL REMARK 3 H-BOND (X...Y) OTHERS (A): NULL ; NULL ; NULL REMARK 3 POTENTIAL METAL-ION REFINED ATOMS (A): NULL ; NULL ; NULL REMARK 3 POTENTIAL METAL-ION OTHERS (A): NULL ; NULL ; NULL REMARK 3 SYMMETRY VDW REFINED ATOMS (A): NULL ; NULL ; NULL REMARK 3 SYMMETRY VDW OTHERS (A): NULL ; NULL ; NULL REMARK 3 SYMMETRY H-BOND REFINED ATOMS (A): NULL ; NULL ; NULL REMARK 3 SYMMETRY H-BOND OTHERS (A): NULL ; NULL ; NULL REMARK 3 SYMMETRY METAL-ION REFINED ATOMS (A): NULL ; NULL ; NULL REMARK 3 SYMMETRY METAL-ION OTHERS (A): NULL ; NULL ; NULL REMARK 3 REMARK 3 ISOTROPIC THERMAL FACTOR RESTRAINTS. COUNT RMS WEIGHT REMARK 3 MAIN-CHAIN BOND REFINED ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 MAIN-CHAIN BOND OTHER ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 MAIN-CHAIN ANGLE REFINED ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 MAIN-CHAIN ANGLE OTHER ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 SIDE-CHAIN BOND REFINED ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 SIDE-CHAIN BOND OTHER ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 SIDE-CHAIN ANGLE REFINED ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 SIDE-CHAIN ANGLE OTHER ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 LONG RANGE B REFINED ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 LONG RANGE B OTHER ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 REMARK 3 ANISOTROPIC THERMAL FACTOR RESTRAINTS. COUNT RMS WEIGHT REMARK 3 RIGID-BOND RESTRAINTS (A**2): NULL ; NULL ; NULL REMARK 3 SPHERICITY; FREE ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 SPHERICITY; BONDED ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 REMARK 3 NCS RESTRAINTS STATISTICS REMARK 3 NCS TYPE: LOCAL REMARK 3 NUMBER OF DIFFERENT NCS PAIRS : 15 REMARK 3 GROUP CHAIN1 RANGE CHAIN2 RANGE COUNT RMS WEIGHT REMARK 3 1 A 577 672 B 577 672 5314 0.12 0.05 REMARK 3 2 A 577 674 D 577 674 5473 0.11 0.05 REMARK 3 3 A 577 672 C 577 672 5267 0.12 0.05 REMARK 3 4 A 578 672 E 578 672 5320 0.11 0.05 REMARK 3 5 A 577 672 F 577 672 5347 0.14 0.05 REMARK 3 6 B 574 672 D 574 672 5426 0.10 0.05 REMARK 3 7 B 577 672 C 577 672 5342 0.10 0.05 REMARK 3 8 B 578 672 E 578 672 5320 0.10 0.05 REMARK 3 9 B 574 673 F 574 673 5417 0.12 0.05 REMARK 3 10 D 577 672 C 577 672 5239 0.12 0.05 REMARK 3 11 D 578 672 E 578 672 5306 0.10 0.05 REMARK 3 12 D 574 672 F 574 672 5369 0.13 0.05 REMARK 3 13 C 578 672 E 578 672 5146 0.12 0.05 REMARK 3 14 C 577 672 F 577 672 5146 0.14 0.05 REMARK 3 15 E 578 672 F 578 672 5346 0.10 0.05 REMARK 3 REMARK 3 TLS DETAILS REMARK 3 NUMBER OF TLS GROUPS : NULL REMARK 3 REMARK 3 BULK SOLVENT MODELLING. REMARK 3 METHOD USED : BABINET MODEL WITH MASK REMARK 3 PARAMETERS FOR MASK CALCULATION REMARK 3 VDW PROBE RADIUS : 1.20 REMARK 3 ION PROBE RADIUS : 0.80 REMARK 3 SHRINKAGE RADIUS : 0.80 REMARK 3 REMARK 3 OTHER REFINEMENT REMARKS: HYDROGENS HAVE BEEN ADDED IN THE RIDING REMARK 3 POSITIONS REMARK 4 REMARK 4 4X42 COMPLIES WITH FORMAT V. 3.30, 13-JUL-11 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY PDBJ ON 03-DEC-14. REMARK 100 THE DEPOSITION ID IS D_1000205049. REMARK 200 REMARK 200 EXPERIMENTAL DETAILS REMARK 200 EXPERIMENT TYPE : X-RAY DIFFRACTION REMARK 200 DATE OF DATA COLLECTION : 07-FEB-14 REMARK 200 TEMPERATURE (KELVIN) : 95 REMARK 200 PH : 8.5 REMARK 200 NUMBER OF CRYSTALS USED : 1 REMARK 200 REMARK 200 SYNCHROTRON (Y/N) : Y REMARK 200 RADIATION SOURCE : PHOTON FACTORY REMARK 200 BEAMLINE : BL-17A REMARK 200 X-RAY GENERATOR MODEL : NULL REMARK 200 MONOCHROMATIC OR LAUE (M/L) : M REMARK 200 WAVELENGTH OR RANGE (A) : 0.9800 REMARK 200 MONOCHROMATOR : NULL REMARK 200 OPTICS : NULL REMARK 200 REMARK 200 DETECTOR TYPE : CCD REMARK 200 DETECTOR MANUFACTURER : ADSC QUANTUM 270 REMARK 200 INTENSITY-INTEGRATION SOFTWARE : NULL REMARK 200 DATA SCALING SOFTWARE : NULL REMARK 200 REMARK 200 NUMBER OF UNIQUE REFLECTIONS : 19294 REMARK 200 RESOLUTION RANGE HIGH (A) : 2.780 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 : 13.60 REMARK 200 R MERGE (I) : 0.13500 REMARK 200 R SYM (I) : NULL REMARK 200 FOR THE DATA SET : 37.8000 REMARK 200 REMARK 200 IN THE HIGHEST RESOLUTION SHELL. REMARK 200 HIGHEST RESOLUTION SHELL, RANGE HIGH (A) : 2.78 REMARK 200 HIGHEST RESOLUTION SHELL, RANGE LOW (A) : 2.83 REMARK 200 COMPLETENESS FOR SHELL (%) : 100.0 REMARK 200 DATA REDUNDANCY IN SHELL : 12.90 REMARK 200 R MERGE FOR SHELL (I) : 0.87200 REMARK 200 R SYM FOR SHELL (I) : NULL REMARK 200 FOR SHELL : 5.000 REMARK 200 REMARK 200 DIFFRACTION PROTOCOL: SINGLE WAVELENGTH REMARK 200 METHOD USED TO DETERMINE THE STRUCTURE: MOLECULAR REPLACEMENT REMARK 200 SOFTWARE USED: MOLREP REMARK 200 STARTING MODEL: 3WE1 REMARK 200 REMARK 200 REMARK: NULL REMARK 280 REMARK 280 CRYSTAL REMARK 280 SOLVENT CONTENT, VS (%): 55.93 REMARK 280 MATTHEWS COEFFICIENT, VM (ANGSTROMS**3/DA): 2.79 REMARK 280 REMARK 280 CRYSTALLIZATION CONDITIONS: PEG 3350, AMMONIUM SULPHATE, TRIS-HCL, REMARK 280 DIOXANE, PH 8.5, VAPOR DIFFUSION, SITTING DROP, TEMPERATURE 277K REMARK 290 REMARK 290 CRYSTALLOGRAPHIC SYMMETRY REMARK 290 SYMMETRY OPERATORS FOR SPACE GROUP: P 65 REMARK 290 REMARK 290 SYMOP SYMMETRY REMARK 290 NNNMMM OPERATOR REMARK 290 1555 X,Y,Z REMARK 290 2555 -Y,X-Y,Z+2/3 REMARK 290 3555 -X+Y,-X,Z+1/3 REMARK 290 4555 -X,-Y,Z+1/2 REMARK 290 5555 Y,-X+Y,Z+1/6 REMARK 290 6555 X-Y,X,Z+5/6 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 -0.500000 -0.866025 0.000000 0.00000 REMARK 290 SMTRY2 2 0.866025 -0.500000 0.000000 0.00000 REMARK 290 SMTRY3 2 0.000000 0.000000 1.000000 57.42133 REMARK 290 SMTRY1 3 -0.500000 0.866025 0.000000 0.00000 REMARK 290 SMTRY2 3 -0.866025 -0.500000 0.000000 0.00000 REMARK 290 SMTRY3 3 0.000000 0.000000 1.000000 28.71067 REMARK 290 SMTRY1 4 -1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY2 4 0.000000 -1.000000 0.000000 0.00000 REMARK 290 SMTRY3 4 0.000000 0.000000 1.000000 43.06600 REMARK 290 SMTRY1 5 0.500000 0.866025 0.000000 0.00000 REMARK 290 SMTRY2 5 -0.866025 0.500000 0.000000 0.00000 REMARK 290 SMTRY3 5 0.000000 0.000000 1.000000 14.35533 REMARK 290 SMTRY1 6 0.500000 -0.866025 0.000000 0.00000 REMARK 290 SMTRY2 6 0.866025 0.500000 0.000000 0.00000 REMARK 290 SMTRY3 6 0.000000 0.000000 1.000000 71.77667 REMARK 290 REMARK 290 REMARK: NULL REMARK 300 REMARK 300 BIOMOLECULE: 1, 2, 3, 4 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: DIMERIC REMARK 350 SOFTWARE DETERMINED QUATERNARY STRUCTURE: DIMERIC REMARK 350 SOFTWARE USED: PISA REMARK 350 TOTAL BURIED SURFACE AREA: 1760 ANGSTROM**2 REMARK 350 SURFACE AREA OF THE COMPLEX: 11280 ANGSTROM**2 REMARK 350 CHANGE IN SOLVENT FREE ENERGY: -44.0 KCAL/MOL REMARK 350 APPLY THE FOLLOWING TO CHAINS: A, B 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: DIMERIC REMARK 350 SOFTWARE DETERMINED QUATERNARY STRUCTURE: DIMERIC REMARK 350 SOFTWARE USED: PISA REMARK 350 TOTAL BURIED SURFACE AREA: 1450 ANGSTROM**2 REMARK 350 SURFACE AREA OF THE COMPLEX: 11270 ANGSTROM**2 REMARK 350 CHANGE IN SOLVENT FREE ENERGY: -15.0 KCAL/MOL REMARK 350 APPLY THE FOLLOWING TO CHAINS: C, 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: 3 REMARK 350 AUTHOR DETERMINED BIOLOGICAL UNIT: MONOMERIC REMARK 350 SOFTWARE DETERMINED QUATERNARY STRUCTURE: MONOMERIC REMARK 350 SOFTWARE USED: PISA REMARK 350 TOTAL BURIED SURFACE AREA: 0 ANGSTROM**2 REMARK 350 SURFACE AREA OF THE COMPLEX: 5970 ANGSTROM**2 REMARK 350 CHANGE IN SOLVENT FREE ENERGY: 0.0 KCAL/MOL REMARK 350 APPLY THE FOLLOWING TO CHAINS: E 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: 4 REMARK 350 AUTHOR DETERMINED BIOLOGICAL UNIT: MONOMERIC REMARK 350 SOFTWARE DETERMINED QUATERNARY STRUCTURE: MONOMERIC REMARK 350 SOFTWARE USED: PISA REMARK 350 TOTAL BURIED SURFACE AREA: 0 ANGSTROM**2 REMARK 350 SURFACE AREA OF THE COMPLEX: 6400 ANGSTROM**2 REMARK 350 CHANGE IN SOLVENT FREE ENERGY: 0.0 KCAL/MOL REMARK 350 APPLY THE FOLLOWING TO CHAINS: F 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 GLY A 573 REMARK 465 SER A 574 REMARK 465 GLY A 575 REMARK 465 MET A 576 REMARK 465 SER A 676 REMARK 465 ILE A 677 REMARK 465 GLY A 678 REMARK 465 LYS A 679 REMARK 465 GLY B 573 REMARK 465 GLY B 674 REMARK 465 SER B 675 REMARK 465 SER B 676 REMARK 465 ILE B 677 REMARK 465 GLY B 678 REMARK 465 LYS B 679 REMARK 465 GLY C 573 REMARK 465 SER C 574 REMARK 465 GLY C 575 REMARK 465 MET C 576 REMARK 465 GLY C 674 REMARK 465 SER C 675 REMARK 465 SER C 676 REMARK 465 ILE C 677 REMARK 465 GLY C 678 REMARK 465 LYS C 679 REMARK 465 GLY D 573 REMARK 465 SER D 676 REMARK 465 ILE D 677 REMARK 465 GLY D 678 REMARK 465 LYS D 679 REMARK 465 GLY E 573 REMARK 465 SER E 574 REMARK 465 GLY E 575 REMARK 465 MET E 576 REMARK 465 SER E 577 REMARK 465 GLY E 674 REMARK 465 SER E 675 REMARK 465 SER E 676 REMARK 465 ILE E 677 REMARK 465 GLY E 678 REMARK 465 LYS E 679 REMARK 465 GLY F 573 REMARK 465 GLY F 674 REMARK 465 SER F 675 REMARK 465 SER F 676 REMARK 465 ILE F 677 REMARK 465 GLY F 678 REMARK 465 LYS F 679 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 B 649 79.65 -116.81 REMARK 500 GLU D 649 78.63 -117.04 REMARK 500 REMARK 500 REMARK: NULL REMARK 500 REMARK 500 GEOMETRY AND STEREOCHEMISTRY REMARK 500 SUBTOPIC: NON-CIS, NON-TRANS REMARK 500 REMARK 500 THE FOLLOWING PEPTIDE BONDS DEVIATE SIGNIFICANTLY FROM BOTH REMARK 500 CIS AND TRANS CONFORMATION. CIS BONDS, IF ANY, ARE LISTED REMARK 500 ON CISPEP RECORDS. TRANS IS DEFINED AS 180 +/- 30 AND REMARK 500 CIS IS DEFINED AS 0 +/- 30 DEGREES. REMARK 500 MODEL OMEGA REMARK 500 SER D 633 THR D 634 -149.96 REMARK 500 SER F 633 THR F 634 -143.77 REMARK 500 REMARK 500 REMARK: NULL REMARK 800 REMARK 800 SITE REMARK 800 SITE_IDENTIFIER: AC1 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue SO4 A 701 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC2 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue SO4 A 702 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC3 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue SO4 B 701 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC4 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue SO4 C 701 REMARK 900 REMARK 900 RELATED ENTRIES REMARK 900 RELATED ID: 3WE1 RELATED DB: PDB DBREF 4X42 A 575 679 UNP P09866 POLG_DEN4D 575 679 DBREF 4X42 B 575 679 UNP P09866 POLG_DEN4D 575 679 DBREF 4X42 C 575 679 UNP P09866 POLG_DEN4D 575 679 DBREF 4X42 D 575 679 UNP P09866 POLG_DEN4D 575 679 DBREF 4X42 E 575 679 UNP P09866 POLG_DEN4D 575 679 DBREF 4X42 F 575 679 UNP P09866 POLG_DEN4D 575 679 SEQADV 4X42 GLY A 573 UNP P09866 EXPRESSION TAG SEQADV 4X42 SER A 574 UNP P09866 EXPRESSION TAG SEQADV 4X42 ASP A 663 UNP P09866 ASN 663 ENGINEERED MUTATION SEQADV 4X42 LYS A 664 UNP P09866 SER 664 ENGINEERED MUTATION SEQADV 4X42 LYS A 667 UNP P09866 THR 667 ENGINEERED MUTATION SEQADV 4X42 ASN A 669 UNP P09866 HIS 669 ENGINEERED MUTATION SEQADV 4X42 GLY B 573 UNP P09866 EXPRESSION TAG SEQADV 4X42 SER B 574 UNP P09866 EXPRESSION TAG SEQADV 4X42 ASP B 663 UNP P09866 ASN 663 ENGINEERED MUTATION SEQADV 4X42 LYS B 664 UNP P09866 SER 664 ENGINEERED MUTATION SEQADV 4X42 LYS B 667 UNP P09866 THR 667 ENGINEERED MUTATION SEQADV 4X42 ASN B 669 UNP P09866 HIS 669 ENGINEERED MUTATION SEQADV 4X42 GLY C 573 UNP P09866 EXPRESSION TAG SEQADV 4X42 SER C 574 UNP P09866 EXPRESSION TAG SEQADV 4X42 ASP C 663 UNP P09866 ASN 663 ENGINEERED MUTATION SEQADV 4X42 LYS C 664 UNP P09866 SER 664 ENGINEERED MUTATION SEQADV 4X42 LYS C 667 UNP P09866 THR 667 ENGINEERED MUTATION SEQADV 4X42 ASN C 669 UNP P09866 HIS 669 ENGINEERED MUTATION SEQADV 4X42 GLY D 573 UNP P09866 EXPRESSION TAG SEQADV 4X42 SER D 574 UNP P09866 EXPRESSION TAG SEQADV 4X42 ASP D 663 UNP P09866 ASN 663 ENGINEERED MUTATION SEQADV 4X42 LYS D 664 UNP P09866 SER 664 ENGINEERED MUTATION SEQADV 4X42 LYS D 667 UNP P09866 THR 667 ENGINEERED MUTATION SEQADV 4X42 ASN D 669 UNP P09866 HIS 669 ENGINEERED MUTATION SEQADV 4X42 GLY E 573 UNP P09866 EXPRESSION TAG SEQADV 4X42 SER E 574 UNP P09866 EXPRESSION TAG SEQADV 4X42 ASP E 663 UNP P09866 ASN 663 ENGINEERED MUTATION SEQADV 4X42 LYS E 664 UNP P09866 SER 664 ENGINEERED MUTATION SEQADV 4X42 LYS E 667 UNP P09866 THR 667 ENGINEERED MUTATION SEQADV 4X42 ASN E 669 UNP P09866 HIS 669 ENGINEERED MUTATION SEQADV 4X42 GLY F 573 UNP P09866 EXPRESSION TAG SEQADV 4X42 SER F 574 UNP P09866 EXPRESSION TAG SEQADV 4X42 ASP F 663 UNP P09866 ASN 663 ENGINEERED MUTATION SEQADV 4X42 LYS F 664 UNP P09866 SER 664 ENGINEERED MUTATION SEQADV 4X42 LYS F 667 UNP P09866 THR 667 ENGINEERED MUTATION SEQADV 4X42 ASN F 669 UNP P09866 HIS 669 ENGINEERED MUTATION SEQRES 1 A 107 GLY SER GLY MET SER TYR THR MET CYS SER GLY LYS PHE SEQRES 2 A 107 SER ILE ASP LYS GLU MET ALA GLU THR GLN HIS GLY THR SEQRES 3 A 107 THR VAL VAL LYS VAL LYS TYR GLU GLY ALA GLY ALA PRO SEQRES 4 A 107 CYS LYS VAL PRO ILE GLU ILE ARG ASP VAL ASN LYS GLU SEQRES 5 A 107 LYS VAL VAL GLY ARG ILE ILE SER SER THR PRO LEU ALA SEQRES 6 A 107 GLU ASN THR ASN SER VAL THR ASN ILE GLU LEU GLU PRO SEQRES 7 A 107 PRO PHE GLY ASP SER TYR ILE VAL ILE GLY VAL GLY ASP SEQRES 8 A 107 LYS ALA LEU LYS LEU ASN TRP PHE ARG LYS GLY SER SER SEQRES 9 A 107 ILE GLY LYS SEQRES 1 B 107 GLY SER GLY MET SER TYR THR MET CYS SER GLY LYS PHE SEQRES 2 B 107 SER ILE ASP LYS GLU MET ALA GLU THR GLN HIS GLY THR SEQRES 3 B 107 THR VAL VAL LYS VAL LYS TYR GLU GLY ALA GLY ALA PRO SEQRES 4 B 107 CYS LYS VAL PRO ILE GLU ILE ARG ASP VAL ASN LYS GLU SEQRES 5 B 107 LYS VAL VAL GLY ARG ILE ILE SER SER THR PRO LEU ALA SEQRES 6 B 107 GLU ASN THR ASN SER VAL THR ASN ILE GLU LEU GLU PRO SEQRES 7 B 107 PRO PHE GLY ASP SER TYR ILE VAL ILE GLY VAL GLY ASP SEQRES 8 B 107 LYS ALA LEU LYS LEU ASN TRP PHE ARG LYS GLY SER SER SEQRES 9 B 107 ILE GLY LYS SEQRES 1 C 107 GLY SER GLY MET SER TYR THR MET CYS SER GLY LYS PHE SEQRES 2 C 107 SER ILE ASP LYS GLU MET ALA GLU THR GLN HIS GLY THR SEQRES 3 C 107 THR VAL VAL LYS VAL LYS TYR GLU GLY ALA GLY ALA PRO SEQRES 4 C 107 CYS LYS VAL PRO ILE GLU ILE ARG ASP VAL ASN LYS GLU SEQRES 5 C 107 LYS VAL VAL GLY ARG ILE ILE SER SER THR PRO LEU ALA SEQRES 6 C 107 GLU ASN THR ASN SER VAL THR ASN ILE GLU LEU GLU PRO SEQRES 7 C 107 PRO PHE GLY ASP SER TYR ILE VAL ILE GLY VAL GLY ASP SEQRES 8 C 107 LYS ALA LEU LYS LEU ASN TRP PHE ARG LYS GLY SER SER SEQRES 9 C 107 ILE GLY LYS SEQRES 1 D 107 GLY SER GLY MET SER TYR THR MET CYS SER GLY LYS PHE SEQRES 2 D 107 SER ILE ASP LYS GLU MET ALA GLU THR GLN HIS GLY THR SEQRES 3 D 107 THR VAL VAL LYS VAL LYS TYR GLU GLY ALA GLY ALA PRO SEQRES 4 D 107 CYS LYS VAL PRO ILE GLU ILE ARG ASP VAL ASN LYS GLU SEQRES 5 D 107 LYS VAL VAL GLY ARG ILE ILE SER SER THR PRO LEU ALA SEQRES 6 D 107 GLU ASN THR ASN SER VAL THR ASN ILE GLU LEU GLU PRO SEQRES 7 D 107 PRO PHE GLY ASP SER TYR ILE VAL ILE GLY VAL GLY ASP SEQRES 8 D 107 LYS ALA LEU LYS LEU ASN TRP PHE ARG LYS GLY SER SER SEQRES 9 D 107 ILE GLY LYS SEQRES 1 E 107 GLY SER GLY MET SER TYR THR MET CYS SER GLY LYS PHE SEQRES 2 E 107 SER ILE ASP LYS GLU MET ALA GLU THR GLN HIS GLY THR SEQRES 3 E 107 THR VAL VAL LYS VAL LYS TYR GLU GLY ALA GLY ALA PRO SEQRES 4 E 107 CYS LYS VAL PRO ILE GLU ILE ARG ASP VAL ASN LYS GLU SEQRES 5 E 107 LYS VAL VAL GLY ARG ILE ILE SER SER THR PRO LEU ALA SEQRES 6 E 107 GLU ASN THR ASN SER VAL THR ASN ILE GLU LEU GLU PRO SEQRES 7 E 107 PRO PHE GLY ASP SER TYR ILE VAL ILE GLY VAL GLY ASP SEQRES 8 E 107 LYS ALA LEU LYS LEU ASN TRP PHE ARG LYS GLY SER SER SEQRES 9 E 107 ILE GLY LYS SEQRES 1 F 107 GLY SER GLY MET SER TYR THR MET CYS SER GLY LYS PHE SEQRES 2 F 107 SER ILE ASP LYS GLU MET ALA GLU THR GLN HIS GLY THR SEQRES 3 F 107 THR VAL VAL LYS VAL LYS TYR GLU GLY ALA GLY ALA PRO SEQRES 4 F 107 CYS LYS VAL PRO ILE GLU ILE ARG ASP VAL ASN LYS GLU SEQRES 5 F 107 LYS VAL VAL GLY ARG ILE ILE SER SER THR PRO LEU ALA SEQRES 6 F 107 GLU ASN THR ASN SER VAL THR ASN ILE GLU LEU GLU PRO SEQRES 7 F 107 PRO PHE GLY ASP SER TYR ILE VAL ILE GLY VAL GLY ASP SEQRES 8 F 107 LYS ALA LEU LYS LEU ASN TRP PHE ARG LYS GLY SER SER SEQRES 9 F 107 ILE GLY LYS HET SO4 A 701 5 HET SO4 A 702 5 HET SO4 B 701 5 HET SO4 C 701 5 HETNAM SO4 SULFATE ION FORMUL 7 SO4 4(O4 S 2-) FORMUL 11 HOH *11(H2 O) SHEET 1 AA1 3 PHE A 585 GLU A 593 0 SHEET 2 AA1 3 THR A 599 TYR A 605 -1 O LYS A 604 N SER A 586 SHEET 3 AA1 3 VAL A 643 LEU A 648 -1 O THR A 644 N VAL A 603 SHEET 1 AA2 2 CYS A 612 LYS A 613 0 SHEET 2 AA2 2 LEU A 636 ALA A 637 -1 O ALA A 637 N CYS A 612 SHEET 1 AA3 3 ILE A 616 ARG A 619 0 SHEET 2 AA3 3 GLY A 653 ILE A 659 -1 O TYR A 656 N ARG A 619 SHEET 3 AA3 3 LEU A 666 ARG A 672 -1 O TRP A 670 N SER A 655 SHEET 1 AA4 3 PHE B 585 GLU B 593 0 SHEET 2 AA4 3 THR B 599 TYR B 605 -1 O LYS B 604 N SER B 586 SHEET 3 AA4 3 VAL B 643 LEU B 648 -1 O THR B 644 N VAL B 603 SHEET 1 AA5 2 CYS B 612 LYS B 613 0 SHEET 2 AA5 2 LEU B 636 ALA B 637 -1 O ALA B 637 N CYS B 612 SHEET 1 AA6 3 ILE B 616 ARG B 619 0 SHEET 2 AA6 3 GLY B 653 ILE B 659 -1 O TYR B 656 N ARG B 619 SHEET 3 AA6 3 LEU B 666 ARG B 672 -1 O LEU B 668 N ILE B 657 SHEET 1 AA7 3 PHE C 585 GLU C 593 0 SHEET 2 AA7 3 THR C 599 TYR C 605 -1 O LYS C 604 N SER C 586 SHEET 3 AA7 3 VAL C 643 LEU C 648 -1 O THR C 644 N VAL C 603 SHEET 1 AA8 2 CYS C 612 LYS C 613 0 SHEET 2 AA8 2 LEU C 636 ALA C 637 -1 O ALA C 637 N CYS C 612 SHEET 1 AA9 3 ILE C 616 ARG C 619 0 SHEET 2 AA9 3 GLY C 653 ILE C 659 -1 O TYR C 656 N ARG C 619 SHEET 3 AA9 3 LEU C 666 ARG C 672 -1 O LEU C 668 N ILE C 657 SHEET 1 AB1 4 GLY D 575 MET D 576 0 SHEET 2 AB1 4 LEU E 666 ARG E 672 -1 O PHE E 671 N GLY D 575 SHEET 3 AB1 4 GLY E 653 ILE E 659 -1 N ILE E 657 O LEU E 668 SHEET 4 AB1 4 ILE E 616 ARG E 619 -1 N ARG E 619 O TYR E 656 SHEET 1 AB2 3 PHE D 585 GLU D 593 0 SHEET 2 AB2 3 THR D 599 TYR D 605 -1 O LYS D 604 N SER D 586 SHEET 3 AB2 3 VAL D 643 LEU D 648 -1 O THR D 644 N VAL D 603 SHEET 1 AB3 2 CYS D 612 LYS D 613 0 SHEET 2 AB3 2 LEU D 636 ALA D 637 -1 O ALA D 637 N CYS D 612 SHEET 1 AB4 3 ILE D 616 ARG D 619 0 SHEET 2 AB4 3 GLY D 653 ILE D 659 -1 O TYR D 656 N ARG D 619 SHEET 3 AB4 3 LEU D 666 ARG D 672 -1 O LEU D 668 N ILE D 657 SHEET 1 AB5 3 PHE E 585 GLU E 593 0 SHEET 2 AB5 3 THR E 599 TYR E 605 -1 O LYS E 604 N SER E 586 SHEET 3 AB5 3 VAL E 643 LEU E 648 -1 O THR E 644 N VAL E 603 SHEET 1 AB6 2 CYS E 612 LYS E 613 0 SHEET 2 AB6 2 LEU E 636 ALA E 637 -1 O ALA E 637 N CYS E 612 SHEET 1 AB7 3 PHE F 585 GLU F 593 0 SHEET 2 AB7 3 THR F 599 TYR F 605 -1 O LYS F 604 N SER F 586 SHEET 3 AB7 3 VAL F 643 LEU F 648 -1 O THR F 644 N VAL F 603 SHEET 1 AB8 2 CYS F 612 LYS F 613 0 SHEET 2 AB8 2 LEU F 636 ALA F 637 -1 O ALA F 637 N CYS F 612 SHEET 1 AB9 3 ILE F 616 ARG F 619 0 SHEET 2 AB9 3 GLY F 653 ILE F 659 -1 O TYR F 656 N ARG F 619 SHEET 3 AB9 3 LEU F 666 ARG F 672 -1 O LEU F 668 N ILE F 657 SSBOND 1 CYS A 581 CYS A 612 1555 1555 2.05 SSBOND 2 CYS B 581 CYS B 612 1555 1555 2.06 SSBOND 3 CYS C 581 CYS C 612 1555 1555 2.05 SSBOND 4 CYS D 581 CYS D 612 1555 1555 2.06 SSBOND 5 CYS E 581 CYS E 612 1555 1555 2.08 SSBOND 6 CYS F 581 CYS F 612 1555 1555 2.08 CISPEP 1 ALA A 610 PRO A 611 0 3.51 CISPEP 2 ALA B 610 PRO B 611 0 4.21 CISPEP 3 ALA C 610 PRO C 611 0 2.88 CISPEP 4 ALA D 610 PRO D 611 0 5.02 CISPEP 5 ALA E 610 PRO E 611 0 1.55 CISPEP 6 ALA F 610 PRO F 611 0 -1.64 SITE 1 AC1 3 ARG A 619 LYS B 613 THR B 634 SITE 1 AC2 2 GLY A 628 ILE A 630 SITE 1 AC3 3 GLY B 628 ARG B 629 ILE B 630 SITE 1 AC4 4 VAL C 627 GLY C 628 ARG C 629 ILE C 630 CRYST1 124.585 124.585 86.132 90.00 90.00 120.00 P 65 36 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 0.008027 0.004634 0.000000 0.00000 SCALE2 0.000000 0.009268 0.000000 0.00000 SCALE3 0.000000 0.000000 0.011610 0.00000