HEADER DNA BINDING PROTEIN/DNA 19-OCT-06 2NL8 TITLE THE ORIGIN BINDING DOMAIN OF THE SV40 LARGE T ANTIGEN BOUND NON TITLE 2 SPECIFICALLY TO A 17 BP PALINDROME DNA (SITES 1 AND 3) COMPND MOL_ID: 1; COMPND 2 MOLECULE: 18-NT PEN ELEMENT OF THE SV40 DNA ORIGIN; COMPND 3 CHAIN: W; COMPND 4 ENGINEERED: YES; COMPND 5 OTHER_DETAILS: P2 PENTAMER REPLACED WITH ATCAT; COMPND 6 MOL_ID: 2; COMPND 7 MOLECULE: LARGE T ANTIGEN; COMPND 8 CHAIN: A; COMPND 9 FRAGMENT: ORIGIN BINDING DOMAIN (RESIDUES 131-259); COMPND 10 ENGINEERED: YES; COMPND 11 MUTATION: YES SOURCE MOL_ID: 1; SOURCE 2 SYNTHETIC: YES; SOURCE 3 MOL_ID: 2; SOURCE 4 ORGANISM_SCIENTIFIC: SIMIAN VIRUS 40; SOURCE 5 ORGANISM_TAXID: 10633; SOURCE 6 STRAIN: 776; SOURCE 7 GENE: LARGE T ANTIGEN; SOURCE 8 EXPRESSION_SYSTEM: ESCHERICHIA COLI BL21(DE3); SOURCE 9 EXPRESSION_SYSTEM_TAXID: 469008; SOURCE 10 EXPRESSION_SYSTEM_STRAIN: BL21(DE3); SOURCE 11 EXPRESSION_SYSTEM_VECTOR_TYPE: PLASMID; SOURCE 12 EXPRESSION_SYSTEM_PLASMID: PET15B KEYWDS DNA BINDING PROTEIN, DNA BINDING PROTEIN-DNA COMPLEX EXPDTA X-RAY DIFFRACTION AUTHOR D.MARTYNOWSKI,E.BOCHKAREVA,A.BOCHKAREV REVDAT 6 03-APR-24 2NL8 1 REMARK REVDAT 5 27-DEC-23 2NL8 1 REMARK REVDAT 4 20-OCT-21 2NL8 1 SEQADV REVDAT 3 24-FEB-09 2NL8 1 VERSN REVDAT 2 13-FEB-07 2NL8 1 JRNL REVDAT 1 12-DEC-06 2NL8 0 JRNL AUTH E.BOCHKAREVA,D.MARTYNOWSKI,A.SEITOVA,A.BOCHKAREV JRNL TITL STRUCTURE OF THE ORIGIN-BINDING DOMAIN OF SIMIAN VIRUS 40 JRNL TITL 2 LARGE T ANTIGEN BOUND TO DNA JRNL REF EMBO J. V. 25 5961 2006 JRNL REFN ISSN 0261-4189 JRNL PMID 17139255 JRNL DOI 10.1038/SJ.EMBOJ.7601452 REMARK 2 REMARK 2 RESOLUTION. 2.30 ANGSTROMS. REMARK 3 REMARK 3 REFINEMENT. REMARK 3 PROGRAM : REFMAC 5.2 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) : 2.30 REMARK 3 RESOLUTION RANGE LOW (ANGSTROMS) : 19.92 REMARK 3 DATA CUTOFF (SIGMA(F)) : 0.000 REMARK 3 COMPLETENESS FOR RANGE (%) : 94.6 REMARK 3 NUMBER OF REFLECTIONS : 10057 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) : 0.240 REMARK 3 R VALUE (WORKING SET) : 0.237 REMARK 3 FREE R VALUE : 0.299 REMARK 3 FREE R VALUE TEST SET SIZE (%) : 4.900 REMARK 3 FREE R VALUE TEST SET COUNT : 518 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) : 2.30 REMARK 3 BIN RESOLUTION RANGE LOW (A) : 2.36 REMARK 3 REFLECTION IN BIN (WORKING SET) : 673 REMARK 3 BIN COMPLETENESS (WORKING+TEST) (%) : 92.16 REMARK 3 BIN R VALUE (WORKING SET) : 0.3280 REMARK 3 BIN FREE R VALUE SET COUNT : 32 REMARK 3 BIN FREE R VALUE : 0.5610 REMARK 3 REMARK 3 NUMBER OF NON-HYDROGEN ATOMS USED IN REFINEMENT. REMARK 3 PROTEIN ATOMS : 961 REMARK 3 NUCLEIC ACID ATOMS : 363 REMARK 3 HETEROGEN ATOMS : 0 REMARK 3 SOLVENT ATOMS : 82 REMARK 3 REMARK 3 B VALUES. REMARK 3 FROM WILSON PLOT (A**2) : NULL REMARK 3 MEAN B VALUE (OVERALL, A**2) : 43.14 REMARK 3 OVERALL ANISOTROPIC B VALUE. REMARK 3 B11 (A**2) : 0.14000 REMARK 3 B22 (A**2) : 0.14000 REMARK 3 B33 (A**2) : -0.28000 REMARK 3 B12 (A**2) : 0.00000 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): 0.318 REMARK 3 ESU BASED ON FREE R VALUE (A): 0.269 REMARK 3 ESU BASED ON MAXIMUM LIKELIHOOD (A): 0.210 REMARK 3 ESU FOR B VALUES BASED ON MAXIMUM LIKELIHOOD (A**2): 8.599 REMARK 3 REMARK 3 CORRELATION COEFFICIENTS. REMARK 3 CORRELATION COEFFICIENT FO-FC : 0.935 REMARK 3 CORRELATION COEFFICIENT FO-FC FREE : 0.910 REMARK 3 REMARK 3 RMS DEVIATIONS FROM IDEAL VALUES COUNT RMS WEIGHT REMARK 3 BOND LENGTHS REFINED ATOMS (A): 1393 ; 0.018 ; 0.022 REMARK 3 BOND LENGTHS OTHERS (A): NULL ; NULL ; NULL REMARK 3 BOND ANGLES REFINED ATOMS (DEGREES): 1958 ; 2.191 ; 2.286 REMARK 3 BOND ANGLES OTHERS (DEGREES): NULL ; NULL ; NULL REMARK 3 TORSION ANGLES, PERIOD 1 (DEGREES): 116 ; 7.687 ; 5.000 REMARK 3 TORSION ANGLES, PERIOD 2 (DEGREES): 45 ;30.013 ;22.889 REMARK 3 TORSION ANGLES, PERIOD 3 (DEGREES): 172 ;19.284 ;15.000 REMARK 3 TORSION ANGLES, PERIOD 4 (DEGREES): 5 ;18.005 ;15.000 REMARK 3 CHIRAL-CENTER RESTRAINTS (A**3): 219 ; 0.120 ; 0.200 REMARK 3 GENERAL PLANES REFINED ATOMS (A): 923 ; 0.009 ; 0.020 REMARK 3 GENERAL PLANES OTHERS (A): NULL ; NULL ; NULL REMARK 3 NON-BONDED CONTACTS REFINED ATOMS (A): 554 ; 0.252 ; 0.200 REMARK 3 NON-BONDED CONTACTS OTHERS (A): NULL ; NULL ; NULL REMARK 3 NON-BONDED TORSION REFINED ATOMS (A): 900 ; 0.315 ; 0.200 REMARK 3 NON-BONDED TORSION OTHERS (A): NULL ; NULL ; NULL REMARK 3 H-BOND (X...Y) REFINED ATOMS (A): 78 ; 0.185 ; 0.200 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): 34 ; 0.325 ; 0.200 REMARK 3 SYMMETRY VDW OTHERS (A): NULL ; NULL ; NULL REMARK 3 SYMMETRY H-BOND REFINED ATOMS (A): 20 ; 0.220 ; 0.200 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): 603 ; 1.015 ; 1.500 REMARK 3 MAIN-CHAIN BOND OTHER ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 MAIN-CHAIN ANGLE REFINED ATOMS (A**2): 956 ; 1.788 ; 2.000 REMARK 3 MAIN-CHAIN ANGLE OTHER ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 SIDE-CHAIN BOND REFINED ATOMS (A**2): 1016 ; 2.563 ; 3.000 REMARK 3 SIDE-CHAIN BOND OTHER ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 SIDE-CHAIN ANGLE REFINED ATOMS (A**2): 1002 ; 3.853 ; 4.500 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 NUMBER OF DIFFERENT NCS GROUPS : NULL REMARK 3 REMARK 3 TLS DETAILS REMARK 3 NUMBER OF TLS GROUPS : NULL REMARK 3 REMARK 3 BULK SOLVENT MODELLING. REMARK 3 METHOD USED : MASK REMARK 3 PARAMETERS FOR MASK CALCULATION REMARK 3 VDW PROBE RADIUS : 1.40 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 2NL8 COMPLIES WITH FORMAT V. 3.30, 13-JUL-11 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY RCSB ON 24-OCT-06. REMARK 100 THE DEPOSITION ID IS D_1000040000. REMARK 200 REMARK 200 EXPERIMENTAL DETAILS REMARK 200 EXPERIMENT TYPE : X-RAY DIFFRACTION REMARK 200 DATE OF DATA COLLECTION : 26-MAY-04 REMARK 200 TEMPERATURE (KELVIN) : 100 REMARK 200 PH : 7.5 REMARK 200 NUMBER OF CRYSTALS USED : 1 REMARK 200 REMARK 200 SYNCHROTRON (Y/N) : N REMARK 200 RADIATION SOURCE : ROTATING ANODE REMARK 200 BEAMLINE : NULL REMARK 200 X-RAY GENERATOR MODEL : RIGAKU REMARK 200 MONOCHROMATIC OR LAUE (M/L) : M REMARK 200 WAVELENGTH OR RANGE (A) : 1.5418 REMARK 200 MONOCHROMATOR : RIGAKU/MSC GREEN OPTICS REMARK 200 OPTICS : MIRRORS REMARK 200 REMARK 200 DETECTOR TYPE : IMAGE PLATE REMARK 200 DETECTOR MANUFACTURER : RIGAKU RAXIS IV REMARK 200 INTENSITY-INTEGRATION SOFTWARE : DENZO REMARK 200 DATA SCALING SOFTWARE : SCALEPACK REMARK 200 REMARK 200 NUMBER OF UNIQUE REFLECTIONS : 11307 REMARK 200 RESOLUTION RANGE HIGH (A) : 2.250 REMARK 200 RESOLUTION RANGE LOW (A) : 20.000 REMARK 200 REJECTION CRITERIA (SIGMA(I)) : -3.000 REMARK 200 REMARK 200 OVERALL. REMARK 200 COMPLETENESS FOR RANGE (%) : 94.0 REMARK 200 DATA REDUNDANCY : 3.600 REMARK 200 R MERGE (I) : NULL REMARK 200 R SYM (I) : 0.04400 REMARK 200 FOR THE DATA SET : 18.1000 REMARK 200 REMARK 200 IN THE HIGHEST RESOLUTION SHELL. REMARK 200 HIGHEST RESOLUTION SHELL, RANGE HIGH (A) : 2.25 REMARK 200 HIGHEST RESOLUTION SHELL, RANGE LOW (A) : 2.33 REMARK 200 COMPLETENESS FOR SHELL (%) : 93.0 REMARK 200 DATA REDUNDANCY IN SHELL : NULL REMARK 200 R MERGE FOR SHELL (I) : NULL REMARK 200 R SYM FOR SHELL (I) : 0.43900 REMARK 200 FOR SHELL : 2.100 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: 1IPR REMARK 200 REMARK 200 REMARK: NULL REMARK 280 REMARK 280 CRYSTAL REMARK 280 SOLVENT CONTENT, VS (%): 54.76 REMARK 280 MATTHEWS COEFFICIENT, VM (ANGSTROMS**3/DA): 2.72 REMARK 280 REMARK 280 CRYSTALLIZATION CONDITIONS: 20 MM NAACETATE, 20% PEG 3000 + 4% PEG REMARK 280 600, PH 7.5, VAPOR DIFFUSION, HANGING DROP, TEMPERATURE 297K REMARK 290 REMARK 290 CRYSTALLOGRAPHIC SYMMETRY REMARK 290 SYMMETRY OPERATORS FOR SPACE GROUP: P 43 21 2 REMARK 290 REMARK 290 SYMOP SYMMETRY REMARK 290 NNNMMM OPERATOR REMARK 290 1555 X,Y,Z REMARK 290 2555 -X,-Y,Z+1/2 REMARK 290 3555 -Y+1/2,X+1/2,Z+3/4 REMARK 290 4555 Y+1/2,-X+1/2,Z+1/4 REMARK 290 5555 -X+1/2,Y+1/2,-Z+3/4 REMARK 290 6555 X+1/2,-Y+1/2,-Z+1/4 REMARK 290 7555 Y,X,-Z REMARK 290 8555 -Y,-X,-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 119.15400 REMARK 290 SMTRY1 3 0.000000 -1.000000 0.000000 21.93500 REMARK 290 SMTRY2 3 1.000000 0.000000 0.000000 21.93500 REMARK 290 SMTRY3 3 0.000000 0.000000 1.000000 178.73100 REMARK 290 SMTRY1 4 0.000000 1.000000 0.000000 21.93500 REMARK 290 SMTRY2 4 -1.000000 0.000000 0.000000 21.93500 REMARK 290 SMTRY3 4 0.000000 0.000000 1.000000 59.57700 REMARK 290 SMTRY1 5 -1.000000 0.000000 0.000000 21.93500 REMARK 290 SMTRY2 5 0.000000 1.000000 0.000000 21.93500 REMARK 290 SMTRY3 5 0.000000 0.000000 -1.000000 178.73100 REMARK 290 SMTRY1 6 1.000000 0.000000 0.000000 21.93500 REMARK 290 SMTRY2 6 0.000000 -1.000000 0.000000 21.93500 REMARK 290 SMTRY3 6 0.000000 0.000000 -1.000000 59.57700 REMARK 290 SMTRY1 7 0.000000 1.000000 0.000000 0.00000 REMARK 290 SMTRY2 7 1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY3 7 0.000000 0.000000 -1.000000 0.00000 REMARK 290 SMTRY1 8 0.000000 -1.000000 0.000000 0.00000 REMARK 290 SMTRY2 8 -1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY3 8 0.000000 0.000000 -1.000000 119.15400 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 APPLY THE FOLLOWING TO CHAINS: W, A 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 BIOMT1 2 0.000000 -1.000000 0.000000 43.87000 REMARK 350 BIOMT2 2 -1.000000 0.000000 0.000000 43.87000 REMARK 350 BIOMT3 2 0.000000 0.000000 -1.000000 119.15400 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 127 REMARK 465 SER A 128 REMARK 465 HIS A 129 REMARK 465 MET A 130 REMARK 465 LYS A 131 REMARK 465 VAL A 132 REMARK 465 GLY A 250 REMARK 465 GLY A 251 REMARK 465 LEU A 252 REMARK 465 LYS A 253 REMARK 465 GLU A 254 REMARK 465 HIS A 255 REMARK 465 ASP A 256 REMARK 465 PHE A 257 REMARK 465 ASN A 258 REMARK 465 PRO A 259 REMARK 500 REMARK 500 GEOMETRY AND STEREOCHEMISTRY REMARK 500 SUBTOPIC: CLOSE CONTACTS REMARK 500 REMARK 500 THE FOLLOWING ATOMS THAT ARE RELATED BY CRYSTALLOGRAPHIC REMARK 500 SYMMETRY ARE IN CLOSE CONTACT. AN ATOM LOCATED WITHIN 0.15 REMARK 500 ANGSTROMS OF A SYMMETRY RELATED ATOM IS ASSUMED TO BE ON A REMARK 500 SPECIAL POSITION AND IS, THEREFORE, LISTED IN REMARK 375 REMARK 500 INSTEAD OF REMARK 500. ATOMS WITH NON-BLANK ALTERNATE REMARK 500 LOCATION INDICATORS ARE NOT INCLUDED IN THE CALCULATIONS. REMARK 500 REMARK 500 DISTANCE CUTOFF: REMARK 500 2.2 ANGSTROMS FOR CONTACTS NOT INVOLVING HYDROGEN ATOMS REMARK 500 1.6 ANGSTROMS FOR CONTACTS INVOLVING HYDROGEN ATOMS REMARK 500 REMARK 500 ATM1 RES C SSEQI ATM2 RES C SSEQI SSYMOP DISTANCE REMARK 500 C7 DT W 21 OG SER A 152 8665 2.01 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 DG W 11 O3' DG W 11 C3' -0.046 REMARK 500 DA W 12 O3' DA W 12 C3' -0.040 REMARK 500 DG W 14 O3' DG W 14 C3' -0.058 REMARK 500 DC W 15 O3' DC W 15 C3' -0.048 REMARK 500 DC W 19 O3' DC W 19 C3' -0.038 REMARK 500 DT W 21 C1' DT W 21 N1 0.094 REMARK 500 DT W 26 O3' DT W 26 C3' -0.043 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 W 11 C3' - C2' - C1' ANGL. DEV. = -8.1 DEGREES REMARK 500 DA W 12 O4' - C1' - N9 ANGL. DEV. = -4.2 DEGREES REMARK 500 DG W 13 O4' - C1' - C2' ANGL. DEV. = -5.2 DEGREES REMARK 500 DG W 14 P - O5' - C5' ANGL. DEV. = 14.9 DEGREES REMARK 500 DG W 14 O4' - C4' - C3' ANGL. DEV. = -2.5 DEGREES REMARK 500 DG W 14 O4' - C1' - N9 ANGL. DEV. = 3.0 DEGREES REMARK 500 DC W 15 O4' - C4' - C3' ANGL. DEV. = -2.6 DEGREES REMARK 500 DC W 15 O4' - C1' - N1 ANGL. DEV. = 2.7 DEGREES REMARK 500 DC W 15 N3 - C4 - N4 ANGL. DEV. = -4.8 DEGREES REMARK 500 DC W 16 O4' - C1' - N1 ANGL. DEV. = 3.2 DEGREES REMARK 500 DA W 17 O4' - C4' - C3' ANGL. DEV. = -2.9 DEGREES REMARK 500 DA W 17 C5 - N7 - C8 ANGL. DEV. = -3.3 DEGREES REMARK 500 DC W 19 O4' - C1' - C2' ANGL. DEV. = -6.0 DEGREES REMARK 500 DC W 19 O4' - C1' - N1 ANGL. DEV. = 3.2 DEGREES REMARK 500 DC W 19 N1 - C2 - O2 ANGL. DEV. = 3.8 DEGREES REMARK 500 DC W 19 N3 - C2 - O2 ANGL. DEV. = -4.4 DEGREES REMARK 500 DA W 20 N1 - C2 - N3 ANGL. DEV. = -4.4 DEGREES REMARK 500 DA W 20 C2 - N3 - C4 ANGL. DEV. = 3.3 DEGREES REMARK 500 DT W 21 O4' - C4' - C3' ANGL. DEV. = -2.7 DEGREES REMARK 500 DT W 21 O4' - C1' - C2' ANGL. DEV. = -8.6 DEGREES REMARK 500 DT W 21 N1 - C2 - N3 ANGL. DEV. = 6.1 DEGREES REMARK 500 DT W 21 C2 - N3 - C4 ANGL. DEV. = -7.2 DEGREES REMARK 500 DT W 21 C4 - C5 - C6 ANGL. DEV. = 6.3 DEGREES REMARK 500 DT W 21 C5 - C6 - N1 ANGL. DEV. = -5.1 DEGREES REMARK 500 DT W 21 N3 - C2 - O2 ANGL. DEV. = -6.6 DEGREES REMARK 500 DT W 21 C6 - C5 - C7 ANGL. DEV. = -3.9 DEGREES REMARK 500 DG W 22 C3' - C2' - C1' ANGL. DEV. = -5.2 DEGREES REMARK 500 DG W 22 O4' - C1' - N9 ANGL. DEV. = 6.0 DEGREES REMARK 500 DG W 23 O4' - C1' - N9 ANGL. DEV. = 4.6 DEGREES REMARK 500 DC W 24 O4' - C1' - C2' ANGL. DEV. = -5.1 DEGREES REMARK 500 DC W 24 O4' - C1' - N1 ANGL. DEV. = 6.7 DEGREES REMARK 500 DC W 25 O4' - C1' - N1 ANGL. DEV. = 7.6 DEGREES REMARK 500 DC W 25 N1 - C2 - O2 ANGL. DEV. = 4.4 DEGREES REMARK 500 DT W 26 O5' - C5' - C4' ANGL. DEV. = -6.8 DEGREES REMARK 500 LEU A 156 CA - CB - CG ANGL. DEV. = 23.0 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 PRO A 135 150.65 -49.85 REMARK 500 ALA A 157 12.77 -141.31 REMARK 500 TYR A 190 -118.73 52.78 REMARK 500 ARG A 238 -79.49 -75.73 REMARK 500 ASP A 239 130.20 162.04 REMARK 500 PRO A 240 42.85 -68.86 REMARK 500 SER A 247 0.29 -65.82 REMARK 500 REMARK 500 REMARK: NULL REMARK 900 REMARK 900 RELATED ENTRIES REMARK 900 RELATED ID: 2IPR RELATED DB: PDB REMARK 900 RELATED ID: 2ITJ RELATED DB: PDB REMARK 900 RELATED ID: 2ITL RELATED DB: PDB DBREF 2NL8 A 131 259 UNP P03070 TALA_SV40 131 259 DBREF 2NL8 W 10 27 PDB 2NL8 2NL8 10 27 SEQADV 2NL8 GLY A 127 UNP P03070 CLONING ARTIFACT SEQADV 2NL8 SER A 128 UNP P03070 CLONING ARTIFACT SEQADV 2NL8 HIS A 129 UNP P03070 CLONING ARTIFACT SEQADV 2NL8 MET A 130 UNP P03070 CLONING ARTIFACT SEQADV 2NL8 SER A 216 UNP P03070 CYS 216 ENGINEERED MUTATION SEQRES 1 W 18 DC DG DA DG DG DC DC DA DT DC DA DT DG SEQRES 2 W 18 DG DC DC DT DC SEQRES 1 A 133 GLY SER HIS MET LYS VAL GLU ASP PRO LYS ASP PHE PRO SEQRES 2 A 133 SER GLU LEU LEU SER PHE LEU SER HIS ALA VAL PHE SER SEQRES 3 A 133 ASN ARG THR LEU ALA CYS PHE ALA ILE TYR THR THR LYS SEQRES 4 A 133 GLU LYS ALA ALA LEU LEU TYR LYS LYS ILE MET GLU LYS SEQRES 5 A 133 TYR SER VAL THR PHE ILE SER ARG HIS ASN SER TYR ASN SEQRES 6 A 133 HIS ASN ILE LEU PHE PHE LEU THR PRO HIS ARG HIS ARG SEQRES 7 A 133 VAL SER ALA ILE ASN ASN TYR ALA GLN LYS LEU SER THR SEQRES 8 A 133 PHE SER PHE LEU ILE CYS LYS GLY VAL ASN LYS GLU TYR SEQRES 9 A 133 LEU MET TYR SER ALA LEU THR ARG ASP PRO PHE SER VAL SEQRES 10 A 133 ILE GLU GLU SER LEU PRO GLY GLY LEU LYS GLU HIS ASP SEQRES 11 A 133 PHE ASN PRO FORMUL 3 HOH *82(H2 O) HELIX 1 1 THR A 164 TYR A 179 1 16 HELIX 2 2 ARG A 204 GLN A 213 1 10 HELIX 3 3 LYS A 228 ASP A 239 1 12 SHEET 1 A 5 LEU A 221 GLY A 225 0 SHEET 2 A 5 LEU A 156 THR A 163 -1 N ALA A 160 O LYS A 224 SHEET 3 A 5 HIS A 192 HIS A 203 -1 O HIS A 203 N LEU A 156 SHEET 4 A 5 PHE A 183 SER A 189 -1 N SER A 185 O PHE A 196 SHEET 5 A 5 PHE A 241 GLU A 246 -1 O GLU A 245 N ARG A 186 CISPEP 1 ASP A 239 PRO A 240 0 8.15 CRYST1 43.870 43.870 238.308 90.00 90.00 90.00 P 43 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 0.022795 0.000000 0.000000 0.00000 SCALE2 0.000000 0.022795 0.000000 0.00000 SCALE3 0.000000 0.000000 0.004196 0.00000