HEADER NUCLEOTIDYLTRANSFERASE 23-SEP-93 1KFD TITLE CRYSTAL STRUCTURES OF THE KLENOW FRAGMENT OF DNA POLYMERASE I TITLE 2 COMPLEXED WITH DEOXYNUCLEOSIDE TRIPHOSPHATE AND PYROPHOSPHATE COMPND MOL_ID: 1; COMPND 2 MOLECULE: DNA POLYMERASE I KLENOW FRAGMENT; COMPND 3 CHAIN: A; COMPND 4 EC: 2.7.7.7; COMPND 5 ENGINEERED: YES SOURCE MOL_ID: 1; SOURCE 2 ORGANISM_SCIENTIFIC: ESCHERICHIA COLI; SOURCE 3 ORGANISM_TAXID: 562 KEYWDS NUCLEOTIDYLTRANSFERASE EXPDTA X-RAY DIFFRACTION AUTHOR L.S.BEESE,J.M.FRIEDMAN,T.A.STEITZ REVDAT 3 07-FEB-24 1KFD 1 REMARK REVDAT 2 24-FEB-09 1KFD 1 VERSN REVDAT 1 22-JUN-94 1KFD 0 JRNL AUTH L.S.BEESE,J.M.FRIEDMAN,T.A.STEITZ JRNL TITL CRYSTAL STRUCTURES OF THE KLENOW FRAGMENT OF DNA POLYMERASE JRNL TITL 2 I COMPLEXED WITH DEOXYNUCLEOSIDE TRIPHOSPHATE AND JRNL TITL 3 PYROPHOSPHATE. JRNL REF BIOCHEMISTRY V. 32 14095 1993 JRNL REFN ISSN 0006-2960 JRNL PMID 8260491 JRNL DOI 10.1021/BI00214A004 REMARK 1 REMARK 1 REFERENCE 1 REMARK 1 AUTH L.S.BEESE,V.DERBYSHIRE,T.A.STEITZ REMARK 1 TITL STRUCTURE OF DNA POLYMERASE I KLENOW FRAGMENT BOUND TO REMARK 1 TITL 2 DUPLEX DNA REMARK 1 REF SCIENCE V. 260 352 1993 REMARK 1 REFN ISSN 0036-8075 REMARK 1 REFERENCE 2 REMARK 1 AUTH L.S.BEESE,T.A.STEITZ REMARK 1 TITL STRUCTURAL BASIS FOR THE 3'-5' EXONUCLEASE ACTIVITY OF E. REMARK 1 TITL 2 COLI DNA POLYMERASE F: A TWO METAL ION MECHANISM REMARK 1 REF EMBO J. V. 10 25 1991 REMARK 1 REFN ISSN 0261-4189 REMARK 1 REFERENCE 3 REMARK 1 AUTH P.S.FREEMONT,J.M.FRIEDMAN,L.S.BEESE,T.A.STEITZ REMARK 1 TITL CO-CRYSTAL STRUCTURE OF AN EDITING COMPLEX OF KLENOW REMARK 1 TITL 2 FRAGMENT WITH DNA REMARK 1 REF PROC.NATL.ACAD.SCI.USA V. 85 8924 1988 REMARK 1 REFN ISSN 0027-8424 REMARK 1 REFERENCE 4 REMARK 1 AUTH D.L.OLLIS,P.BRICK,R.HAMLIN,N.G.XUONG,T.A.STEITZ REMARK 1 TITL STRUCTURE OF LARGE FRAGMENT OF ESCHERICHIA COLI DNA REMARK 1 TITL 2 POLYMERASE I COMPLEXED WITH DTMP REMARK 1 REF NATURE V. 313 762 1985 REMARK 1 REFN ISSN 0028-0836 REMARK 2 REMARK 2 RESOLUTION. 3.90 ANGSTROMS. REMARK 3 REMARK 3 REFINEMENT. REMARK 3 PROGRAM : NULL REMARK 3 AUTHORS : NULL REMARK 3 REMARK 3 DATA USED IN REFINEMENT. REMARK 3 RESOLUTION RANGE HIGH (ANGSTROMS) : 3.90 REMARK 3 RESOLUTION RANGE LOW (ANGSTROMS) : NULL REMARK 3 DATA CUTOFF (SIGMA(F)) : NULL REMARK 3 DATA CUTOFF HIGH (ABS(F)) : NULL REMARK 3 DATA CUTOFF LOW (ABS(F)) : NULL REMARK 3 COMPLETENESS (WORKING+TEST) (%) : NULL REMARK 3 NUMBER OF REFLECTIONS : NULL REMARK 3 REMARK 3 FIT TO DATA USED IN REFINEMENT. REMARK 3 CROSS-VALIDATION METHOD : NULL REMARK 3 FREE R VALUE TEST SET SELECTION : NULL REMARK 3 R VALUE (WORKING SET) : NULL REMARK 3 FREE R VALUE : NULL REMARK 3 FREE R VALUE TEST SET SIZE (%) : NULL REMARK 3 FREE R VALUE TEST SET COUNT : NULL 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 : NULL REMARK 3 BIN RESOLUTION RANGE HIGH (A) : NULL REMARK 3 BIN RESOLUTION RANGE LOW (A) : NULL REMARK 3 BIN COMPLETENESS (WORKING+TEST) (%) : NULL REMARK 3 REFLECTIONS IN BIN (WORKING SET) : NULL REMARK 3 BIN R VALUE (WORKING SET) : NULL REMARK 3 BIN FREE R VALUE : NULL 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 : 4451 REMARK 3 NUCLEIC ACID ATOMS : 0 REMARK 3 HETEROGEN ATOMS : 28 REMARK 3 SOLVENT ATOMS : 0 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) : NULL REMARK 3 BOND ANGLES (DEGREES) : NULL 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 : NULL REMARK 3 TOPOLOGY FILE 1 : NULL REMARK 3 REMARK 3 OTHER REFINEMENT REMARKS: NULL REMARK 4 REMARK 4 1KFD COMPLIES WITH FORMAT V. 3.30, 13-JUL-11 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY BNL. REMARK 100 THE DEPOSITION ID IS D_1000174422. REMARK 200 REMARK 200 EXPERIMENTAL DETAILS REMARK 200 EXPERIMENT TYPE : X-RAY DIFFRACTION REMARK 200 DATE OF DATA COLLECTION : NULL REMARK 200 TEMPERATURE (KELVIN) : NULL REMARK 200 PH : NULL REMARK 200 NUMBER OF CRYSTALS USED : NULL REMARK 200 REMARK 200 SYNCHROTRON (Y/N) : NULL REMARK 200 RADIATION SOURCE : NULL REMARK 200 BEAMLINE : NULL REMARK 200 X-RAY GENERATOR MODEL : NULL REMARK 200 MONOCHROMATIC OR LAUE (M/L) : NULL REMARK 200 WAVELENGTH OR RANGE (A) : NULL REMARK 200 MONOCHROMATOR : NULL REMARK 200 OPTICS : NULL REMARK 200 REMARK 200 DETECTOR TYPE : NULL REMARK 200 DETECTOR MANUFACTURER : NULL REMARK 200 INTENSITY-INTEGRATION SOFTWARE : NULL REMARK 200 DATA SCALING SOFTWARE : NULL REMARK 200 REMARK 200 NUMBER OF UNIQUE REFLECTIONS : NULL REMARK 200 RESOLUTION RANGE HIGH (A) : NULL REMARK 200 RESOLUTION RANGE LOW (A) : NULL REMARK 200 REJECTION CRITERIA (SIGMA(I)) : NULL REMARK 200 REMARK 200 OVERALL. REMARK 200 COMPLETENESS FOR RANGE (%) : NULL REMARK 200 DATA REDUNDANCY : NULL REMARK 200 R MERGE (I) : NULL REMARK 200 R SYM (I) : NULL REMARK 200 <I/SIGMA(I)> FOR THE DATA SET : NULL REMARK 200 REMARK 200 IN THE HIGHEST RESOLUTION SHELL. REMARK 200 HIGHEST RESOLUTION SHELL, RANGE HIGH (A) : NULL REMARK 200 HIGHEST RESOLUTION SHELL, RANGE LOW (A) : NULL REMARK 200 COMPLETENESS FOR SHELL (%) : NULL 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: NULL REMARK 200 METHOD USED TO DETERMINE THE STRUCTURE: NULL REMARK 200 SOFTWARE USED: NULL REMARK 200 STARTING MODEL: NULL REMARK 200 REMARK 200 REMARK: NULL REMARK 280 REMARK 280 CRYSTAL REMARK 280 SOLVENT CONTENT, VS (%): 64.14 REMARK 280 MATTHEWS COEFFICIENT, VM (ANGSTROMS**3/DA): 3.43 REMARK 280 REMARK 280 CRYSTALLIZATION CONDITIONS: NULL REMARK 290 REMARK 290 CRYSTALLOGRAPHIC SYMMETRY REMARK 290 SYMMETRY OPERATORS FOR SPACE GROUP: P 43 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,X,Z+3/4 REMARK 290 4555 Y,-X,Z+1/4 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 43.00000 REMARK 290 SMTRY1 3 0.000000 -1.000000 0.000000 0.00000 REMARK 290 SMTRY2 3 1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY3 3 0.000000 0.000000 1.000000 64.50000 REMARK 290 SMTRY1 4 0.000000 1.000000 0.000000 0.00000 REMARK 290 SMTRY2 4 -1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY3 4 0.000000 0.000000 1.000000 21.50000 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: MONOMERIC REMARK 350 APPLY THE FOLLOWING TO CHAINS: 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 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 575 REMARK 465 GLU A 576 REMARK 465 GLU A 577 REMARK 465 PHE A 578 REMARK 465 ASN A 579 REMARK 465 LEU A 580 REMARK 465 SER A 581 REMARK 465 SER A 582 REMARK 465 THR A 583 REMARK 465 LYS A 584 REMARK 465 GLN A 585 REMARK 465 LEU A 586 REMARK 465 GLN A 587 REMARK 465 THR A 588 REMARK 465 ILE A 589 REMARK 465 LEU A 590 REMARK 465 PHE A 591 REMARK 465 GLU A 592 REMARK 465 LYS A 593 REMARK 465 GLN A 594 REMARK 465 GLY A 595 REMARK 465 ILE A 596 REMARK 465 LYS A 597 REMARK 465 PRO A 598 REMARK 465 LEU A 599 REMARK 465 LYS A 600 REMARK 465 LYS A 601 REMARK 465 THR A 602 REMARK 465 PRO A 603 REMARK 465 GLY A 604 REMARK 465 GLY A 605 REMARK 465 ALA A 606 REMARK 465 PRO A 607 REMARK 465 SER A 608 REMARK 465 THR A 609 REMARK 465 SER A 610 REMARK 465 GLU A 611 REMARK 465 GLU A 612 REMARK 465 VAL A 613 REMARK 465 LEU A 614 REMARK 465 GLU A 615 REMARK 465 GLU A 616 REMARK 465 LEU A 617 REMARK 465 ALA A 618 REMARK 465 LEU A 619 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 OE1 GLU A 710 OE1 GLN A 849 1.48 REMARK 500 REMARK 500 REMARK: NULL 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 OE1 GLU A 572 OE1 GLU A 905 2655 2.03 REMARK 500 NH1 ARG A 688 NE ARG A 719 2655 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 HIS A 387 NE2 HIS A 387 CD2 -0.079 REMARK 500 HIS A 456 NE2 HIS A 456 CD2 -0.077 REMARK 500 HIS A 509 NE2 HIS A 509 CD2 -0.068 REMARK 500 HIS A 555 NE2 HIS A 555 CD2 -0.073 REMARK 500 HIS A 571 NE2 HIS A 571 CD2 -0.067 REMARK 500 HIS A 656 NE2 HIS A 656 CD2 -0.069 REMARK 500 HIS A 716 NE2 HIS A 716 CD2 -0.072 REMARK 500 HIS A 734 NE2 HIS A 734 CD2 -0.073 REMARK 500 HIS A 881 NE2 HIS A 881 CD2 -0.067 REMARK 500 HIS A 889 NE2 HIS A 889 CD2 -0.078 REMARK 500 HIS A 901 NE2 HIS A 901 CD2 -0.067 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 TRP A 342 CD1 - CG - CD2 ANGL. DEV. = 6.3 DEGREES REMARK 500 TRP A 342 CE2 - CD2 - CG ANGL. DEV. = -5.3 DEGREES REMARK 500 LYS A 345 CA - CB - CG ANGL. DEV. = 13.5 DEGREES REMARK 500 LEU A 371 CA - CB - CG ANGL. DEV. = 14.1 DEGREES REMARK 500 ARG A 398 NE - CZ - NH1 ANGL. DEV. = 3.1 DEGREES REMARK 500 MET A 443 CG - SD - CE ANGL. DEV. = -11.7 DEGREES REMARK 500 TRP A 465 CD1 - CG - CD2 ANGL. DEV. = 7.1 DEGREES REMARK 500 TRP A 465 CE2 - CD2 - CG ANGL. DEV. = -5.8 DEGREES REMARK 500 TYR A 497 CB - CG - CD2 ANGL. DEV. = -4.0 DEGREES REMARK 500 TRP A 513 CD1 - CG - CD2 ANGL. DEV. = 6.2 DEGREES REMARK 500 TRP A 513 CB - CG - CD1 ANGL. DEV. = -9.2 DEGREES REMARK 500 TRP A 513 CE2 - CD2 - CG ANGL. DEV. = -6.0 DEGREES REMARK 500 TRP A 513 CG - CD2 - CE3 ANGL. DEV. = 5.8 DEGREES REMARK 500 MET A 531 CG - SD - CE ANGL. DEV. = -15.1 DEGREES REMARK 500 ARG A 539 NE - CZ - NH1 ANGL. DEV. = 3.6 DEGREES REMARK 500 ARG A 539 NE - CZ - NH2 ANGL. DEV. = -3.3 DEGREES REMARK 500 ARG A 542 NE - CZ - NH1 ANGL. DEV. = 3.0 DEGREES REMARK 500 ARG A 562 NE - CZ - NH2 ANGL. DEV. = -3.8 DEGREES REMARK 500 ARG A 654 NE - CZ - NH1 ANGL. DEV. = 5.4 DEGREES REMARK 500 ARG A 654 NE - CZ - NH2 ANGL. DEV. = -5.6 DEGREES REMARK 500 ARG A 668 NE - CZ - NH1 ANGL. DEV. = 3.7 DEGREES REMARK 500 ARG A 687 NE - CZ - NH1 ANGL. DEV. = 3.5 DEGREES REMARK 500 ARG A 719 NE - CZ - NH1 ANGL. DEV. = 3.1 DEGREES REMARK 500 ARG A 836 NE - CZ - NH1 ANGL. DEV. = 3.3 DEGREES REMARK 500 TRP A 866 CD1 - CG - CD2 ANGL. DEV. = 6.9 DEGREES REMARK 500 TRP A 866 CE2 - CD2 - CG ANGL. DEV. = -5.6 DEGREES REMARK 500 MET A 878 CA - CB - CG ANGL. DEV. = 10.2 DEGREES REMARK 500 TRP A 924 CD1 - CG - CD2 ANGL. DEV. = 5.9 DEGREES REMARK 500 TRP A 924 CE2 - CD2 - CG ANGL. DEV. = -5.4 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 ILE A 325 142.52 -176.13 REMARK 500 SER A 326 -157.38 -166.96 REMARK 500 SER A 360 148.74 -172.45 REMARK 500 PRO A 377 109.77 -52.68 REMARK 500 ALA A 386 39.33 -146.10 REMARK 500 ASN A 450 100.28 -167.34 REMARK 500 ASN A 482 69.47 -107.10 REMARK 500 ILE A 529 -60.55 -126.41 REMARK 500 PRO A 624 39.44 -80.37 REMARK 500 LYS A 625 -58.49 -132.99 REMARK 500 TYR A 640 -51.05 -130.40 REMARK 500 ASP A 673 -105.59 62.03 REMARK 500 PRO A 680 105.44 -58.09 REMARK 500 ASN A 683 142.94 -171.15 REMARK 500 SER A 707 -126.23 -53.84 REMARK 500 SER A 769 97.20 -57.17 REMARK 500 ALA A 770 -49.60 9.04 REMARK 500 ASN A 778 64.59 -60.78 REMARK 500 ILE A 779 -35.35 -157.88 REMARK 500 ARG A 781 -118.92 -131.49 REMARK 500 LYS A 782 1.37 -66.18 REMARK 500 ASN A 832 68.01 12.43 REMARK 500 ALA A 834 -71.89 37.06 REMARK 500 HIS A 881 -113.38 49.94 REMARK 500 THR A 908 -132.11 -130.39 REMARK 500 REMARK 500 REMARK: NULL REMARK 610 REMARK 610 MISSING HETEROATOM REMARK 610 THE FOLLOWING RESIDUES HAVE MISSING ATOMS (M=MODEL NUMBER; REMARK 610 RES=RESIDUE NAME; C=CHAIN IDENTIFIER; SSEQ=SEQUENCE NUMBER; REMARK 610 I=INSERTION CODE): REMARK 610 M RES C SSEQI REMARK 610 CTP A 1 REMARK 800 REMARK 800 SITE REMARK 800 SITE_IDENTIFIER: AC1 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE CTP A 1 DBREF 1KFD A 324 928 UNP P00582 DPO1_ECOLI 324 928 SEQRES 1 A 605 VAL ILE SER TYR ASP ASN TYR VAL THR ILE LEU ASP GLU SEQRES 2 A 605 GLU THR LEU LYS ALA TRP ILE ALA LYS LEU GLU LYS ALA SEQRES 3 A 605 PRO VAL PHE ALA PHE ASP THR GLU THR ASP SER LEU ASP SEQRES 4 A 605 ASN ILE SER ALA ASN LEU VAL GLY LEU SER PHE ALA ILE SEQRES 5 A 605 GLU PRO GLY VAL ALA ALA TYR ILE PRO VAL ALA HIS ASP SEQRES 6 A 605 TYR LEU ASP ALA PRO ASP GLN ILE SER ARG GLU ARG ALA SEQRES 7 A 605 LEU GLU LEU LEU LYS PRO LEU LEU GLU ASP GLU LYS ALA SEQRES 8 A 605 LEU LYS VAL GLY GLN ASN LEU LYS TYR ASP ARG GLY ILE SEQRES 9 A 605 LEU ALA ASN TYR GLY ILE GLU LEU ARG GLY ILE ALA PHE SEQRES 10 A 605 ASP THR MET LEU GLU SER TYR ILE LEU ASN SER VAL ALA SEQRES 11 A 605 GLY ARG HIS ASP MET ASP SER LEU ALA GLU ARG TRP LEU SEQRES 12 A 605 LYS HIS LYS THR ILE THR PHE GLU GLU ILE ALA GLY LYS SEQRES 13 A 605 GLY LYS ASN GLN LEU THR PHE ASN GLN ILE ALA LEU GLU SEQRES 14 A 605 GLU ALA GLY ARG TYR ALA ALA GLU ASP ALA ASP VAL THR SEQRES 15 A 605 LEU GLN LEU HIS LEU LYS MET TRP PRO ASP LEU GLN LYS SEQRES 16 A 605 HIS LYS GLY PRO LEU ASN VAL PHE GLU ASN ILE GLU MET SEQRES 17 A 605 PRO LEU VAL PRO VAL LEU SER ARG ILE GLU ARG ASN GLY SEQRES 18 A 605 VAL LYS ILE ASP PRO LYS VAL LEU HIS ASN HIS SER GLU SEQRES 19 A 605 GLU LEU THR LEU ARG LEU ALA GLU LEU GLU LYS LYS ALA SEQRES 20 A 605 HIS GLU ILE ALA GLY GLU GLU PHE ASN LEU SER SER THR SEQRES 21 A 605 LYS GLN LEU GLN THR ILE LEU PHE GLU LYS GLN GLY ILE SEQRES 22 A 605 LYS PRO LEU LYS LYS THR PRO GLY GLY ALA PRO SER THR SEQRES 23 A 605 SER GLU GLU VAL LEU GLU GLU LEU ALA LEU ASP TYR PRO SEQRES 24 A 605 LEU PRO LYS VAL ILE LEU GLU TYR ARG GLY LEU ALA LYS SEQRES 25 A 605 LEU LYS SER THR TYR THR ASP LYS LEU PRO LEU MET ILE SEQRES 26 A 605 ASN PRO LYS THR GLY ARG VAL HIS THR SER TYR HIS GLN SEQRES 27 A 605 ALA VAL THR ALA THR GLY ARG LEU SER SER THR ASP PRO SEQRES 28 A 605 ASN LEU GLN ASN ILE PRO VAL ARG ASN GLU GLU GLY ARG SEQRES 29 A 605 ARG ILE ARG GLN ALA PHE ILE ALA PRO GLU ASP TYR VAL SEQRES 30 A 605 ILE VAL SER ALA ASP TYR SER GLN ILE GLU LEU ARG ILE SEQRES 31 A 605 MET ALA HIS LEU SER ARG ASP LYS GLY LEU LEU THR ALA SEQRES 32 A 605 PHE ALA GLU GLY LYS ASP ILE HIS ARG ALA THR ALA ALA SEQRES 33 A 605 GLU VAL PHE GLY LEU PRO LEU GLU THR VAL THR SER GLU SEQRES 34 A 605 GLN ARG ARG SER ALA LYS ALA ILE ASN PHE GLY LEU ILE SEQRES 35 A 605 TYR GLY MET SER ALA PHE GLY LEU ALA ARG GLN LEU ASN SEQRES 36 A 605 ILE PRO ARG LYS GLU ALA GLN LYS TYR MET ASP LEU TYR SEQRES 37 A 605 PHE GLU ARG TYR PRO GLY VAL LEU GLU TYR MET GLU ARG SEQRES 38 A 605 THR ARG ALA GLN ALA LYS GLU GLN GLY TYR VAL GLU THR SEQRES 39 A 605 LEU ASP GLY ARG ARG LEU TYR LEU PRO ASP ILE LYS SER SEQRES 40 A 605 SER ASN GLY ALA ARG ARG ALA ALA ALA GLU ARG ALA ALA SEQRES 41 A 605 ILE ASN ALA PRO MET GLN GLY THR ALA ALA ASP ILE ILE SEQRES 42 A 605 LYS ARG ALA MET ILE ALA VAL ASP ALA TRP LEU GLN ALA SEQRES 43 A 605 GLU GLN PRO ARG VAL ARG MET ILE MET GLN VAL HIS ASP SEQRES 44 A 605 GLU LEU VAL PHE GLU VAL HIS LYS ASP ASP VAL ASP ALA SEQRES 45 A 605 VAL ALA LYS GLN ILE HIS GLN LEU MET GLU ASN CYS THR SEQRES 46 A 605 ARG LEU ASP VAL PRO LEU LEU VAL GLU VAL GLY SER GLY SEQRES 47 A 605 GLU ASN TRP ASP GLN ALA HIS HET CTP A 1 28 HETNAM CTP CYTIDINE-5'-TRIPHOSPHATE FORMUL 2 CTP C9 H16 N3 O14 P3 HELIX 1 1 ASP A 335 ALA A 349 1 15 HELIX 2 2 SER A 397 GLU A 410 1 14 HELIX 3 3 ASN A 420 ASN A 430 1 11 HELIX 4 4 THR A 442 ASN A 450 1 9 HELIX 5 5 ASP A 457 LYS A 467 1 11 HELIX 6 6 THR A 472 GLY A 478 1 7 HELIX 7 7 THR A 485 ILE A 489 5 5 HELIX 8 8 ALA A 490 LYS A 518 1 29 HELIX 9 9 HIS A 519 ILE A 529 1 11 HELIX 10 10 ILE A 529 GLY A 544 1 16 HELIX 11 11 ASP A 548 ILE A 573 1 26 HELIX 12 12 PRO A 622 TYR A 640 1 19 HELIX 13 13 LYS A 643 ILE A 648 5 6 HELIX 14 14 ASN A 675 ILE A 679 5 5 HELIX 15 15 ASN A 683 GLN A 691 1 9 HELIX 16 16 GLN A 708 SER A 718 1 11 HELIX 17 17 ASP A 720 GLU A 729 1 10 HELIX 18 18 ASP A 732 GLY A 743 1 12 HELIX 19 19 PRO A 745 VAL A 749 5 5 HELIX 20 20 THR A 750 TYR A 766 1 17 HELIX 21 21 ALA A 770 LEU A 777 1 8 HELIX 22 22 ARG A 781 TYR A 795 1 15 HELIX 23 23 TYR A 795 GLY A 813 1 19 HELIX 24 24 ARG A 836 GLN A 871 1 36 HELIX 25 25 ASP A 892 CYS A 907 1 16 HELIX 26 26 ASN A 923 HIS A 928 1 6 SHEET 1 A 6 VAL A 331 THR A 332 0 SHEET 2 A 6 VAL A 379 PRO A 384 1 O ALA A 380 N VAL A 331 SHEET 3 A 6 LEU A 368 GLU A 376 -1 O LEU A 371 N ILE A 383 SHEET 4 A 6 VAL A 351 THR A 358 -1 N ALA A 353 O ALA A 374 SHEET 5 A 6 LEU A 415 GLY A 418 1 O LEU A 415 N PHE A 352 SHEET 6 A 6 ILE A 438 ASP A 441 1 N ALA A 439 O LYS A 416 SHEET 1 B 2 SER A 658 HIS A 660 0 SHEET 2 B 2 SER A 670 THR A 672 -1 O SER A 670 N HIS A 660 SHEET 1 C 4 VAL A 874 VAL A 880 0 SHEET 2 C 4 GLU A 883 HIS A 889 -1 N GLU A 883 O VAL A 880 SHEET 3 C 4 TYR A 699 TYR A 706 -1 N VAL A 700 O VAL A 888 SHEET 4 C 4 VAL A 916 GLY A 921 -1 O GLU A 917 N ASP A 705 SHEET 1 D 2 TYR A 814 GLU A 816 0 SHEET 2 D 2 ARG A 822 TYR A 824 -1 O LEU A 823 N VAL A 815 SITE 1 AC1 5 VAL A 681 ARG A 682 GLN A 708 PHE A 762 SITE 2 AC1 5 HIS A 881 CRYST1 104.300 104.300 86.000 90.00 90.00 90.00 P 43 4 ORIGX1 1.000000 0.000000 0.000000 0.00000 ORIGX2 0.000000 1.000000 0.000000 0.00000 ORIGX3 0.000000 0.000000 1.000000 0.00000 SCALE1 0.009588 0.000000 0.000000 0.00000 SCALE2 0.000000 0.009588 0.000000 0.00000 SCALE3 0.000000 0.000000 0.011628 0.00000