10 20 30 40 50 60 70 80 2PVI - Header ----|----|----|----|----|----|----|----|----|----|----|----|----|----|----|----| Asymmetric UnitHEADER HYDROLASE/DNA 01-NOV-98 2PVI
TITLE PVUII ENDONUCLEASE COMPLEXED TO AN IODINATED COGNATE DNA
COMPND MOL_ID: 1; COMPND 2 MOLECULE: DNA (5'-D(*TP*GP*AP*CP*CP*AP*GP*(C38) COMPND 3 P*TP*GP*GP*TP*C)-3'); COMPND 4 CHAIN: C, D; COMPND 5 ENGINEERED: YES; COMPND 6 MOL_ID: 2; COMPND 7 MOLECULE: TYPE II RESTRICTION ENZYME PVUII; COMPND 8 CHAIN: A, B; COMPND 9 SYNONYM: ENDONUCLEASE PVUII, R.PVUII; COMPND 10 EC: 3.1.21.4; COMPND 11 ENGINEERED: YES
SOURCE MOL_ID: 1; SOURCE 2 SYNTHETIC: YES; SOURCE 3 MOL_ID: 2; SOURCE 4 ORGANISM_SCIENTIFIC: PROTEUS VULGARIS; SOURCE 5 ORGANISM_TAXID: 585; SOURCE 6 EXPRESSION_SYSTEM: ESCHERICHIA COLI; SOURCE 7 EXPRESSION_SYSTEM_TAXID: 562; SOURCE 8 EXPRESSION_SYSTEM_STRAIN: PR653; SOURCE 9 EXPRESSION_SYSTEM_PLASMID: PPR594
KEYWDS COMPLEX (RESTRICTION ENDONUCLEASE/DNA), HYDROLASE/DNA KEYWDS 2 COMPLEX
EXPDTA X-RAY DIFFRACTION
AUTHOR J.HORTON,X.CHENG
REVDAT 5 15-SEP-09 2PVI 1 HET HETATM REVDAT 4 24-FEB-09 2PVI 1 VERSN REVDAT 3 03-MAY-00 2PVI 4 SITE REVDAT 2 12-JAN-00 2PVI 4 HEADER COMPND REMARK JRNL REVDAT 2 2 4 ATOM SOURCE SEQRES REVDAT 1 20-DEC-99 2PVI 0
JRNL AUTH J.R.HORTON,J.BONVENTRE,X.CHENG JRNL TITL HOW IS MODIFICATION OF THE DNA SUBSTRATE RECOGNIZED JRNL TITL 2 BY THE PVUII RESTRICTION ENDONUCLEASE? JRNL REF J.BIOL.CHEM. V. 379 451 1998 JRNL REFN ISSN 0021-9258 JRNL PMID 9628337
REMARK 1 REMARK 1 REFERENCE 1 REMARK 1 AUTH K.BALENDIRAN,J.BONVENTRE,R.KNOTT,W.JACK,J.BENNER, REMARK 1 AUTH 2 I.SCHILDKRAUT,J.E.ANDERSON REMARK 1 TITL EXPRESSION, PURIFICATION, AND CRYSTALLIZATION OF REMARK 1 TITL 2 RESTRICTION ENDONUCLEASE PVUII WITH DNA CONTAINING REMARK 1 TITL 3 ITS RECOGNITION SITE REMARK 1 REF PROTEINS V. 19 77 1994 REMARK 1 REFN ISSN 0887-3585 REMARK 1 REFERENCE 2 REMARK 1 AUTH X.CHENG,K.BALENDIRAN,I.SCHILDKRAUT,J.E.ANDERSON REMARK 1 TITL STRUCTURE OF PVUII ENDONUCLEASE WITH COGNATE DNA REMARK 1 REF EMBO J. V. 13 3927 1994 REMARK 1 REFN ISSN 0261-4189
REMARK 2 REMARK 2 RESOLUTION. 1.76 ANGSTROMS.
REMARK 3 REMARK 3 REFINEMENT. REMARK 3 PROGRAM : X-PLOR 3.851 REMARK 3 AUTHORS : BRUNGER REMARK 3 REMARK 3 DATA USED IN REFINEMENT. REMARK 3 RESOLUTION RANGE HIGH (ANGSTROMS) : 1.76 REMARK 3 RESOLUTION RANGE LOW (ANGSTROMS) : 19.50 REMARK 3 DATA CUTOFF (SIGMA(F)) : 0.000 REMARK 3 DATA CUTOFF HIGH (ABS(F)) : 100000.000 REMARK 3 DATA CUTOFF LOW (ABS(F)) : 0.1000 REMARK 3 COMPLETENESS (WORKING+TEST) (%) : 77.3 REMARK 3 NUMBER OF REFLECTIONS : 115233 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 SET) : 0.188 REMARK 3 FREE R VALUE : 0.255 REMARK 3 FREE R VALUE TEST SET SIZE (%) : 10.000 REMARK 3 FREE R VALUE TEST SET COUNT : 2929 REMARK 3 ESTIMATED ERROR OF FREE R VALUE : NULL REMARK 3 REMARK 3 FIT IN THE HIGHEST RESOLUTION BIN. REMARK 3 TOTAL NUMBER OF BINS USED : 8 REMARK 3 BIN RESOLUTION RANGE HIGH (A) : 1.76 REMARK 3 BIN RESOLUTION RANGE LOW (A) : 1.84 REMARK 3 BIN COMPLETENESS (WORKING+TEST) (%) : 23.70 REMARK 3 REFLECTIONS IN BIN (WORKING SET) : NULL REMARK 3 BIN R VALUE (WORKING SET) : 0.2980 REMARK 3 BIN FREE R VALUE : 0.3130 REMARK 3 BIN FREE R VALUE TEST SET SIZE (%) : NULL REMARK 3 BIN FREE R VALUE TEST SET COUNT : NULL REMARK 3 ESTIMATED ERROR OF BIN FREE R VALUE : NULL REMARK 3 REMARK 3 NUMBER OF NON-HYDROGEN ATOMS USED IN REFINEMENT. REMARK 3 PROTEIN ATOMS : 2593 REMARK 3 NUCLEIC ACID ATOMS : 528 REMARK 3 HETEROGEN ATOMS : 2 REMARK 3 SOLVENT ATOMS : 166 REMARK 3 REMARK 3 B VALUES. REMARK 3 FROM WILSON PLOT (A**2) : NULL 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 ESTIMATED COORDINATE ERROR. REMARK 3 ESD FROM LUZZATI PLOT (A) : NULL REMARK 3 ESD FROM SIGMAA (A) : NULL REMARK 3 LOW RESOLUTION CUTOFF (A) : NULL REMARK 3 REMARK 3 CROSS-VALIDATED ESTIMATED COORDINATE ERROR. REMARK 3 ESD FROM C-V LUZZATI PLOT (A) : NULL REMARK 3 ESD FROM C-V SIGMAA (A) : NULL REMARK 3 REMARK 3 RMS DEVIATIONS FROM IDEAL VALUES. REMARK 3 BOND LENGTHS (A) : 0.008 REMARK 3 BOND ANGLES (DEGREES) : 1.40 REMARK 3 DIHEDRAL ANGLES (DEGREES) : NULL REMARK 3 IMPROPER ANGLES (DEGREES) : NULL REMARK 3 REMARK 3 ISOTROPIC THERMAL MODEL : NULL REMARK 3 REMARK 3 ISOTROPIC THERMAL FACTOR RESTRAINTS. RMS SIGMA REMARK 3 MAIN-CHAIN BOND (A**2) : NULL ; NULL REMARK 3 MAIN-CHAIN ANGLE (A**2) : NULL ; NULL REMARK 3 SIDE-CHAIN BOND (A**2) : NULL ; NULL REMARK 3 SIDE-CHAIN ANGLE (A**2) : NULL ; NULL REMARK 3 REMARK 3 NCS MODEL : NULL REMARK 3 REMARK 3 NCS RESTRAINTS. RMS SIGMA/WEIGHT REMARK 3 GROUP 1 POSITIONAL (A) : NULL ; NULL REMARK 3 GROUP 1 B-FACTOR (A**2) : NULL ; NULL REMARK 3 REMARK 3 PARAMETER FILE 1 : PARHCSDX.PRO REMARK 3 PARAMETER FILE 2 : PARRAM11.DNA REMARK 3 PARAMETER FILE 3 : NULL REMARK 3 TOPOLOGY FILE 1 : TOPHCSDX.PRO REMARK 3 TOPOLOGY FILE 2 : TOPH11.DNA REMARK 3 TOPOLOGY FILE 3 : NULL REMARK 3 REMARK 3 OTHER REFINEMENT REMARKS: TWO CONFORMATIONS EXIST FOR HIS A84 REMARK 3 AND HIS B84.
REMARK 4 REMARK 4 2PVI COMPLIES WITH FORMAT V. 3.15, 01-DEC-08
REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY RCSB ON 02-NOV-98. REMARK 100 THE RCSB ID CODE IS RCSB000003.
REMARK 200 REMARK 200 EXPERIMENTAL DETAILS REMARK 200 EXPERIMENT TYPE : X-RAY DIFFRACTION REMARK 200 DATE OF DATA COLLECTION : NULL REMARK 200 TEMPERATURE (KELVIN) : 289 REMARK 200 PH : 4.5 REMARK 200 NUMBER OF CRYSTALS USED : 1 REMARK 200 REMARK 200 SYNCHROTRON (Y/N) : Y REMARK 200 RADIATION SOURCE : NSLS REMARK 200 BEAMLINE : X12C REMARK 200 X-RAY GENERATOR MODEL : NULL REMARK 200 MONOCHROMATIC OR LAUE (M/L) : M REMARK 200 WAVELENGTH OR RANGE (A) : NULL REMARK 200 MONOCHROMATOR : SI (111) REMARK 200 OPTICS : COLLIMATOR REMARK 200 REMARK 200 DETECTOR TYPE : IMAGE PLATE REMARK 200 DETECTOR MANUFACTURER : MARRESEARCH REMARK 200 INTENSITY-INTEGRATION SOFTWARE : DENZO REMARK 200 DATA SCALING SOFTWARE : SCALEPACK REMARK 200 REMARK 200 NUMBER OF UNIQUE REFLECTIONS : NULL REMARK 200 RESOLUTION RANGE HIGH (A) : 1.760 REMARK 200 RESOLUTION RANGE LOW (A) : 19.500 REMARK 200 REJECTION CRITERIA (SIGMA(I)) : 0.000 REMARK 200 REMARK 200 OVERALL. REMARK 200 COMPLETENESS FOR RANGE (%) : 77.3 REMARK 200 DATA REDUNDANCY : 3.800 REMARK 200 R MERGE (I) : 0.05400 REMARK 200 R SYM (I) : NULL REMARK 200 <I/SIGMA(I)> FOR THE DATA SET : 14.1000 REMARK 200 REMARK 200 IN THE HIGHEST RESOLUTION SHELL. REMARK 200 HIGHEST RESOLUTION SHELL, RANGE HIGH (A) : 1.76 REMARK 200 HIGHEST RESOLUTION SHELL, RANGE LOW (A) : 1.84 REMARK 200 COMPLETENESS FOR SHELL (%) : 23.7 REMARK 200 DATA REDUNDANCY IN SHELL : NULL REMARK 200 R MERGE FOR SHELL (I) : NULL REMARK 200 R SYM FOR SHELL (I) : NULL REMARK 200 <I/SIGMA(I)> 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: X-PLOR REMARK 200 STARTING MODEL: 1PVI REMARK 200 REMARK 200 REMARK: NULL
REMARK 280 REMARK 280 CRYSTAL REMARK 280 SOLVENT CONTENT, VS (%): 54.00 REMARK 280 MATTHEWS COEFFICIENT, VM (ANGSTROMS**3/DA): 2.71 REMARK 280 REMARK 280 CRYSTALLIZATION CONDITIONS: PH 4.5, VAPOR DIFFUSION, HANGING REMARK 280 DROP
REMARK 290 REMARK 290 CRYSTALLOGRAPHIC SYMMETRY REMARK 290 SYMMETRY OPERATORS FOR SPACE GROUP: P 21 21 21 REMARK 290 REMARK 290 SYMOP SYMMETRY REMARK 290 NNNMMM OPERATOR REMARK 290 1555 X,Y,Z REMARK 290 2555 -X+1/2,-Y,Z+1/2 REMARK 290 3555 -X,Y+1/2,-Z+1/2 REMARK 290 4555 X+1/2,-Y+1/2,-Z REMARK 290 REMARK 290 WHERE NNN -> OPERATOR NUMBER REMARK 290 MMM -> TRANSLATION VECTOR REMARK 290 REMARK 290 CRYSTALLOGRAPHIC SYMMETRY TRANSFORMATIONS REMARK 290 THE FOLLOWING TRANSFORMATIONS OPERATE ON THE ATOM/HETATM REMARK 290 RECORDS IN THIS ENTRY TO PRODUCE CRYSTALLOGRAPHICALLY REMARK 290 RELATED MOLECULES. REMARK 290 SMTRY1 1 1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY2 1 0.000000 1.000000 0.000000 0.00000 REMARK 290 SMTRY3 1 0.000000 0.000000 1.000000 0.00000 REMARK 290 SMTRY1 2 -1.000000 0.000000 0.000000 47.90000 REMARK 290 SMTRY2 2 0.000000 -1.000000 0.000000 0.00000 REMARK 290 SMTRY3 2 0.000000 0.000000 1.000000 24.25000 REMARK 290 SMTRY1 3 -1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY2 3 0.000000 1.000000 0.000000 43.15000 REMARK 290 SMTRY3 3 0.000000 0.000000 -1.000000 24.25000 REMARK 290 SMTRY1 4 1.000000 0.000000 0.000000 47.90000 REMARK 290 SMTRY2 4 0.000000 -1.000000 0.000000 43.15000 REMARK 290 SMTRY3 4 0.000000 0.000000 -1.000000 0.00000 REMARK 290 REMARK 290 REMARK: NULL
REMARK 300 REMARK 300 BIOMOLECULE: 1 REMARK 300 SEE REMARK 350 FOR THE AUTHOR PROVIDED AND/OR PROGRAM REMARK 300 GENERATED ASSEMBLY INFORMATION FOR THE STRUCTURE IN REMARK 300 THIS ENTRY. THE REMARK MAY ALSO PROVIDE INFORMATION ON REMARK 300 BURIED SURFACE AREA.
REMARK 350 REMARK 350 COORDINATES FOR A COMPLETE MULTIMER REPRESENTING THE KNOWN REMARK 350 BIOLOGICALLY SIGNIFICANT OLIGOMERIZATION STATE OF THE REMARK 350 MOLECULE CAN BE GENERATED BY APPLYING BIOMT TRANSFORMATIONS REMARK 350 GIVEN BELOW. BOTH NON-CRYSTALLOGRAPHIC AND REMARK 350 CRYSTALLOGRAPHIC OPERATIONS ARE GIVEN. REMARK 350 REMARK 350 BIOMOLECULE: 1 REMARK 350 AUTHOR DETERMINED BIOLOGICAL UNIT: TETRAMERIC REMARK 350 APPLY THE FOLLOWING TO CHAINS: C, D, 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 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 MET A 1 REMARK 465 MET B 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 HIS B 85 CG ND1 CD2 CE1 NE2
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 OD2 ASP A 119 O HOH A 162 2.02 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 DT C 2 C5' DT C 2 C4' 0.061 REMARK 500 DT C 2 C5 DT C 2 C7 0.044 REMARK 500 DG C 8 C5' DG C 8 C4' 0.068 REMARK 500 DT D 2 C5' DT D 2 C4' 0.049 REMARK 500 DT D 2 C5 DT D 2 C7 0.047 REMARK 500 DG D 3 C5' DG D 3 C4' 0.067 REMARK 500 DT D 10 C5 DT D 10 C7 0.052 REMARK 500 DC D 14 P DC D 14 O5' 0.063 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 DT C 2 O4' - C4' - C3' ANGL. DEV. = -6.3 DEGREES REMARK 500 DG C 3 O4' - C1' - C2' ANGL. DEV. = -5.2 DEGREES REMARK 500 DA C 4 O4' - C1' - C2' ANGL. DEV. = -7.1 DEGREES REMARK 500 DA C 4 O4' - C1' - N9 ANGL. DEV. = 5.2 DEGREES REMARK 500 DA C 4 O3' - P - O5' ANGL. DEV. = -11.7 DEGREES REMARK 500 DC C 5 C4' - C3' - C2' ANGL. DEV. = -9.3 DEGREES REMARK 500 DC C 5 O4' - C1' - N1 ANGL. DEV. = 4.7 DEGREES REMARK 500 DA C 4 C3' - O3' - P ANGL. DEV. = 8.1 DEGREES REMARK 500 DC C 6 O4' - C1' - N1 ANGL. DEV. = 3.3 DEGREES REMARK 500 DA C 7 C4' - C3' - C2' ANGL. DEV. = -6.2 DEGREES REMARK 500 DA C 7 O4' - C1' - N9 ANGL. DEV. = 3.2 DEGREES REMARK 500 DG C 11 O4' - C1' - C2' ANGL. DEV. = -5.0 DEGREES REMARK 500 DG C 11 O4' - C1' - N9 ANGL. DEV. = 2.4 DEGREES REMARK 500 DT C 10 C3' - O3' - P ANGL. DEV. = 7.5 DEGREES REMARK 500 DT C 13 O4' - C4' - C3' ANGL. DEV. = -5.6 DEGREES REMARK 500 DT C 13 C4 - C5 - C6 ANGL. DEV. = 4.1 DEGREES REMARK 500 DG C 12 C3' - O3' - P ANGL. DEV. = 8.1 DEGREES REMARK 500 DC C 14 O4' - C1' - N1 ANGL. DEV. = 5.4 DEGREES REMARK 500 DC C 14 N3 - C4 - C5 ANGL. DEV. = 2.6 DEGREES REMARK 500 DC C 14 N1 - C2 - O2 ANGL. DEV. = 4.6 DEGREES REMARK 500 DC C 14 N3 - C2 - O2 ANGL. DEV. = -4.9 DEGREES REMARK 500 DT C 13 C3' - O3' - P ANGL. DEV. = 14.1 DEGREES REMARK 500 DT D 2 O4' - C4' - C3' ANGL. DEV. = -5.6 DEGREES REMARK 500 DT D 2 O4' - C1' - C2' ANGL. DEV. = -5.1 DEGREES REMARK 500 DT D 2 N3 - C2 - O2 ANGL. DEV. = -4.6 DEGREES REMARK 500 DT D 2 C6 - C5 - C7 ANGL. DEV. = -4.0 DEGREES REMARK 500 DG D 8 N1 - C6 - O6 ANGL. DEV. = -4.1 DEGREES REMARK 500 DT D 10 O4' - C1' - N1 ANGL. DEV. = 2.5 DEGREES REMARK 500 DG D 11 O4' - C1' - N9 ANGL. DEV. = 4.7 DEGREES REMARK 500 DG D 12 O4' - C1' - N9 ANGL. DEV. = 2.9 DEGREES REMARK 500 DC D 14 C4' - C3' - C2' ANGL. DEV. = -4.8 DEGREES REMARK 500 DC D 14 N1 - C2 - O2 ANGL. DEV. = 4.0 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 THR A 82 -78.05 -124.99 REMARK 500 ASP A 134 5.33 -67.12 REMARK 500 HIS A 136 35.83 73.12 REMARK 500 THR B 82 -81.67 -127.80 REMARK 500 ASP B 134 -5.30 -55.19 REMARK 500 REMARK 500 REMARK: NULL REMARK 500 REMARK 500 GEOMETRY AND STEREOCHEMISTRY REMARK 500 SUBTOPIC: PLANAR GROUPS REMARK 500 REMARK 500 PLANAR GROUPS IN THE FOLLOWING RESIDUES HAVE A TOTAL REMARK 500 RMS DISTANCE OF ALL ATOMS FROM THE BEST-FIT PLANE REMARK 500 BY MORE THAN AN EXPECTED VALUE OF 6*RMSD, WITH AN REMARK 500 RMSD 0.02 ANGSTROMS, OR AT LEAST ONE ATOM HAS REMARK 500 AN RMSD GREATER THAN THIS VALUE REMARK 500 (M=MODEL NUMBER; RES=RESIDUE NAME; C=CHAIN IDENTIFIER; REMARK 500 SSEQ=SEQUENCE NUMBER; I=INSERTION CODE). REMARK 500 REMARK 500 M RES CSSEQI RMS TYPE REMARK 500 DT C 2 0.07 SIDE_CHAIN REMARK 500 REMARK 500 REMARK: NULL REMARK 500 REMARK 500 GEOMETRY AND STEREOCHEMISTRY REMARK 500 SUBTOPIC: CHIRAL CENTERS REMARK 500 REMARK 500 UNEXPECTED CONFIGURATION OF THE FOLLOWING CHIRAL REMARK 500 CENTER(S) USING IMPROPER CA--C--CB--N CHIRALITY REMARK 500 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: (11X,I3,1X,A3,1X,A1,I4,A1,6X,F5.1,6X,A1,10X,A1,3X,A16) REMARK 500 REMARK 500 M RES CSSEQI IMPROPER EXPECTED FOUND DETAILS REMARK 500 TRP A 13 24.5 L L OUTSIDE RANGE REMARK 500 TRP B 13 24.6 L L OUTSIDE RANGE REMARK 500 REMARK 500 REMARK: NULL
REMARK 800 REMARK 800 SITE REMARK 800 SITE_IDENTIFIER: CAA REMARK 800 EVIDENCE_CODE: AUTHOR REMARK 800 SITE_DESCRIPTION: CATALYTIC RESIDUES REMARK 800 SITE_IDENTIFIER: CAB REMARK 800 EVIDENCE_CODE: AUTHOR REMARK 800 SITE_DESCRIPTION: CATALYTIC RESIDUES
DBREF 2PVI A 1 157 UNP P23657 T2P2_PROVU 1 157 DBREF 2PVI B 1 157 UNP P23657 T2P2_PROVU 1 157 DBREF 2PVI C 2 14 PDB 2PVI 2PVI 2 14 DBREF 2PVI D 2 14 PDB 2PVI 2PVI 2 14
SEQADV 2PVI ALA A 55 UNP P23657 GLU 55 ENGINEERED SEQADV 2PVI ALA A 94 UNP P23657 TYR 94 ENGINEERED SEQADV 2PVI ALA B 55 UNP P23657 GLU 55 ENGINEERED SEQADV 2PVI ALA B 94 UNP P23657 TYR 94 ENGINEERED
SEQRES 1 C 13 DT DG DA DC DC DA DG C38 DT DG DG DT DC SEQRES 1 D 13 DT DG DA DC DC DA DG C38 DT DG DG DT DC SEQRES 1 A 157 MET SER HIS PRO ASP LEU ASN LYS LEU LEU GLU LEU TRP SEQRES 2 A 157 PRO HIS ILE GLN GLU TYR GLN ASP LEU ALA LEU LYS HIS SEQRES 3 A 157 GLY ILE ASN ASP ILE PHE GLN ASP ASN GLY GLY LYS LEU SEQRES 4 A 157 LEU GLN VAL LEU LEU ILE THR GLY LEU THR VAL LEU PRO SEQRES 5 A 157 GLY ARG ALA GLY ASN ASP ALA VAL ASP ASN ALA GLY GLN SEQRES 6 A 157 GLU TYR GLU LEU LYS SER ILE ASN ILE ASP LEU THR LYS SEQRES 7 A 157 GLY PHE SER THR HIS HIS HIS MET ASN PRO VAL ILE ILE SEQRES 8 A 157 ALA LYS ALA ARG GLN VAL PRO TRP ILE PHE ALA ILE TYR SEQRES 9 A 157 ARG GLY ILE ALA ILE GLU ALA ILE TYR ARG LEU GLU PRO SEQRES 10 A 157 LYS ASP LEU GLU PHE TYR TYR ASP LYS TRP GLU ARG LYS SEQRES 11 A 157 TRP TYR SER ASP GLY HIS LYS ASP ILE ASN ASN PRO LYS SEQRES 12 A 157 ILE PRO VAL LYS TYR VAL MET GLU HIS GLY THR LYS ILE SEQRES 13 A 157 TYR SEQRES 1 B 157 MET SER HIS PRO ASP LEU ASN LYS LEU LEU GLU LEU TRP SEQRES 2 B 157 PRO HIS ILE GLN GLU TYR GLN ASP LEU ALA LEU LYS HIS SEQRES 3 B 157 GLY ILE ASN ASP ILE PHE GLN ASP ASN GLY GLY LYS LEU SEQRES 4 B 157 LEU GLN VAL LEU LEU ILE THR GLY LEU THR VAL LEU PRO SEQRES 5 B 157 GLY ARG ALA GLY ASN ASP ALA VAL ASP ASN ALA GLY GLN SEQRES 6 B 157 GLU TYR GLU LEU LYS SER ILE ASN ILE ASP LEU THR LYS SEQRES 7 B 157 GLY PHE SER THR HIS HIS HIS MET ASN PRO VAL ILE ILE SEQRES 8 B 157 ALA LYS ALA ARG GLN VAL PRO TRP ILE PHE ALA ILE TYR SEQRES 9 B 157 ARG GLY ILE ALA ILE GLU ALA ILE TYR ARG LEU GLU PRO SEQRES 10 B 157 LYS ASP LEU GLU PHE TYR TYR ASP LYS TRP GLU ARG LYS SEQRES 11 B 157 TRP TYR SER ASP GLY HIS LYS ASP ILE ASN ASN PRO LYS SEQRES 12 B 157 ILE PRO VAL LYS TYR VAL MET GLU HIS GLY THR LYS ILE SEQRES 13 B 157 TYR
MODRES 2PVI C38 C 9 DC MODRES 2PVI C38 D 9 DC
HET C38 C 9 20 HET C38 D 9 20
HETNAM C38 5-IODO-2'-DEOXY-CYTIDINE-5'-MONOPHOSPHATE
FORMUL 1 C38 2(C9 H13 I N3 O7 P) FORMUL 5 HOH *166(H2 O)
HELIX 1 1 PRO A 4 HIS A 26 5 23 HELIX 2 2 GLY A 36 THR A 46 1 11 HELIX 3 3 PRO A 88 ARG A 95 1 8 HELIX 4 4 PRO A 117 TYR A 132 1 16 HELIX 5 5 VAL A 146 HIS A 152 1 7 HELIX 6 6 PRO B 4 HIS B 26 5 23 HELIX 7 7 GLY B 36 THR B 46 1 11 HELIX 8 8 PRO B 88 LYS B 93 1 6 HELIX 9 9 PRO B 117 ASP B 134 1 18 HELIX 10 10 VAL B 146 MET B 150 1 5
SHEET 1 A 5 ASP A 58 VAL A 60 0 SHEET 2 A 5 GLU A 66 ASN A 73 -1 N TYR A 67 O ALA A 59 SHEET 3 A 5 TRP A 99 ARG A 105 1 N ILE A 100 O GLU A 68 SHEET 4 A 5 ALA A 108 LEU A 115 -1 O ALA A 108 N ARG A 105 SHEET 5 A 5 THR A 154 LYS A 155 -1 N THR A 154 O ARG A 114 SHEET 1 B 2 GLY A 79 PHE A 80 0 SHEET 2 B 2 ILE A 144 PRO A 145 -1 O ILE A 144 N PHE A 80 SHEET 1 C 6 THR B 49 VAL B 50 0 SHEET 2 C 6 ASP B 58 VAL B 60 -1 N VAL B 60 O THR B 49 SHEET 3 C 6 GLU B 66 ASN B 73 -1 N TYR B 67 O ALA B 59 SHEET 4 C 6 TRP B 99 ARG B 105 1 N ILE B 100 O GLU B 68 SHEET 5 C 6 ALA B 108 LEU B 115 -1 O ALA B 108 N ARG B 105 SHEET 6 C 6 THR B 154 LYS B 155 -1 N THR B 154 O ARG B 114 SHEET 1 D 2 GLY B 79 PHE B 80 0 SHEET 2 D 2 ILE B 144 PRO B 145 -1 O ILE B 144 N PHE B 80
LINK O3' DG C 8 P C38 C 9 1555 1555 1.60 LINK O3' C38 C 9 P DT C 10 1555 1555 1.59 LINK O3' DG D 8 P C38 D 9 1555 1555 1.58 LINK O3' C38 D 9 P DT D 10 1555 1555 1.61
SITE 1 CAA 3 ASP A 58 GLU A 68 LYS A 70 SITE 1 CAB 3 ASP B 58 GLU B 68 LYS B 70
CRYST1 95.800 86.300 48.500 90.00 90.00 90.00 P 21 21 21 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 0.010438 0.000000 0.000000 0.00000
SCALE2 0.000000 0.011587 0.000000 0.00000
SCALE3 0.000000 0.000000 0.020618 0.00000