HEADER TRANSFERASE 11-AUG-00 1GCX OBSLTE 17-AUG-04 1GCX 1WNS TITLE CRYSTAL STRUCTURE OF FAMILY B DNA POLYMERASE FROM TITLE 2 HYPERTHERMOPHILIC ARCHAEON PYROCOCCUS KODAKARAENSIS KOD1 COMPND MOL_ID: 1; COMPND 2 MOLECULE: DNA POLYMERASE; COMPND 3 CHAIN: A; COMPND 4 EC: 2.7.7.7; COMPND 5 ENGINEERED: YES SOURCE MOL_ID: 1; SOURCE 2 ORGANISM_SCIENTIFIC: PYROCOCCUS KODAKARAENSIS; SOURCE 3 ORGANISM_COMMON: ARCHAEA; SOURCE 4 STRAIN: KOD1; SOURCE 5 EXPRESSION_SYSTEM: ESCHERICHIA COLI; SOURCE 6 EXPRESSION_SYSTEM_COMMON: BACTERIA; SOURCE 7 EXPRESSION_SYSTEM_VECTOR_TYPE: PLASMID; SOURCE 8 EXPRESSION_SYSTEM_PLASMID: PET-8C KEYWDS TRANSFERASE EXPDTA X-RAY DIFFRACTION AUTHOR H.HASHIMOTO,T.INOUE,Y.KAI,S.FUJIWARA,M.TAKAGI,M.NISHIOKA, AUTHOR 2 T.IMANAKA REVDAT 3 17-AUG-04 1GCX 1 OBSLTE REVDAT 2 28-JAN-03 1GCX 1 REMARK REVDAT 1 28-FEB-01 1GCX 0 JRNL AUTH H.HASHIMOTO,M.NISHIOKA,S.FUJIWARA,M.TAKAGI, JRNL AUTH 2 T.IMANAKA,T.INOUE,Y.KAI JRNL TITL CRYSTAL STRUCTURE OF DNA POLYMERASE FROM JRNL TITL 2 HYPERTHERMOPHILIC ARCHAEON PYROCOCCUS JRNL TITL 3 KODAKARAENSIS KOD1. JRNL REF J.MOL.BIOL. V. 306 469 2001 JRNL REFN ASTM JMOBAK UK ISSN 0022-2836 REMARK 1 REMARK 2 REMARK 2 RESOLUTION. 3.00 ANGSTROMS. REMARK 3 REMARK 3 REFINEMENT. REMARK 3 PROGRAM : CNS 1.0 REMARK 3 AUTHORS : BRUNGER,ADAMS,CLORE,DELANO,GROS,GROSSE- REMARK 3 : KUNSTLEVE,JIANG,KUSZEWSKI,NILGES, PANNU, REMARK 3 : READ,RICE,SIMONSON,WARREN REMARK 3 REMARK 3 REFINEMENT TARGET : NULL REMARK 3 REMARK 3 DATA USED IN REFINEMENT. REMARK 3 RESOLUTION RANGE HIGH (ANGSTROMS) : 3.00 REMARK 3 RESOLUTION RANGE LOW (ANGSTROMS) : 35.24 REMARK 3 DATA CUTOFF (SIGMA(F)) : 0.000 REMARK 3 DATA CUTOFF HIGH (ABS(F)) : 156351.750 REMARK 3 DATA CUTOFF LOW (ABS(F)) : 0.0000 REMARK 3 COMPLETENESS (WORKING+TEST) (%) : 89.2 REMARK 3 NUMBER OF REFLECTIONS : 16749 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) : 0.231 REMARK 3 FREE R VALUE : 0.313 REMARK 3 FREE R VALUE TEST SET SIZE (%) : 9.700 REMARK 3 FREE R VALUE TEST SET COUNT : 1631 REMARK 3 ESTIMATED ERROR OF FREE R VALUE : 0.008 REMARK 3 REMARK 3 FIT IN THE HIGHEST RESOLUTION BIN. REMARK 3 TOTAL NUMBER OF BINS USED : 6 REMARK 3 BIN RESOLUTION RANGE HIGH (A) : 3.00 REMARK 3 BIN RESOLUTION RANGE LOW (A) : 3.19 REMARK 3 BIN COMPLETENESS (WORKING+TEST) (%) : 84.70 REMARK 3 REFLECTIONS IN BIN (WORKING SET) : 2336 REMARK 3 BIN R VALUE (WORKING SET) : 0.3330 REMARK 3 BIN FREE R VALUE : 0.4190 REMARK 3 BIN FREE R VALUE TEST SET SIZE (%) : 9.70 REMARK 3 BIN FREE R VALUE TEST SET COUNT : 252 REMARK 3 ESTIMATED ERROR OF BIN FREE R VALUE : 0.026 REMARK 3 REMARK 3 NUMBER OF NON-HYDROGEN ATOMS USED IN REFINEMENT. REMARK 3 PROTEIN ATOMS : 5703 REMARK 3 NUCLEIC ACID ATOMS : 0 REMARK 3 HETEROGEN ATOMS : 0 REMARK 3 SOLVENT ATOMS : 0 REMARK 3 REMARK 3 B VALUES. REMARK 3 FROM WILSON PLOT (A**2) : 20.30 REMARK 3 MEAN B VALUE (OVERALL, A**2) : 55.70 REMARK 3 OVERALL ANISOTROPIC B VALUE. REMARK 3 B11 (A**2) : 24.20000 REMARK 3 B22 (A**2) : 1.85000 REMARK 3 B33 (A**2) : -26.05000 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 COORDINATE ERROR. REMARK 3 ESD FROM LUZZATI PLOT (A) : 0.37 REMARK 3 ESD FROM SIGMAA (A) : 0.56 REMARK 3 LOW RESOLUTION CUTOFF (A) : 5.00 REMARK 3 REMARK 3 CROSS-VALIDATED ESTIMATED COORDINATE ERROR. REMARK 3 ESD FROM C-V LUZZATI PLOT (A) : 0.53 REMARK 3 ESD FROM C-V SIGMAA (A) : 0.74 REMARK 3 REMARK 3 RMS DEVIATIONS FROM IDEAL VALUES. REMARK 3 BOND LENGTHS (A) : 0.007 REMARK 3 BOND ANGLES (DEGREES) : 1.10 REMARK 3 DIHEDRAL ANGLES (DEGREES) : 23.30 REMARK 3 IMPROPER ANGLES (DEGREES) : 0.74 REMARK 3 REMARK 3 ISOTROPIC THERMAL MODEL : RESTRAINED REMARK 3 REMARK 3 ISOTROPIC THERMAL FACTOR RESTRAINTS. RMS SIGMA REMARK 3 MAIN-CHAIN BOND (A**2) : 1.290 ; 1.500 REMARK 3 MAIN-CHAIN ANGLE (A**2) : 2.270 ; 2.000 REMARK 3 SIDE-CHAIN BOND (A**2) : 1.620 ; 2.000 REMARK 3 SIDE-CHAIN ANGLE (A**2) : 2.610 ; 2.500 REMARK 3 REMARK 3 BULK SOLVENT MODELING. REMARK 3 METHOD USED : FLAT MODEL REMARK 3 KSOL : 0.28 REMARK 3 BSOL : 28.34 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 : PROTEIN_REP.PA REMARK 3 PARAMETER FILE 2 : NULL REMARK 3 TOPOLOGY FILE 1 : PROTEIN.TOP REMARK 3 TOPOLOGY FILE 2 : NULL REMARK 3 REMARK 3 OTHER REFINEMENT REMARKS: NULL REMARK 4 REMARK 4 1GCX COMPLIES WITH FORMAT V. 2.3, 09-JULY-1998 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY PDBJ ON 30-AUG-2000. REMARK 100 THE RCSB ID CODE IS RCSB005040. REMARK 200 REMARK 200 EXPERIMENTAL DETAILS REMARK 200 EXPERIMENT TYPE : X-RAY DIFFRACTION REMARK 200 DATE OF DATA COLLECTION : 26-FEB-1999 REMARK 200 TEMPERATURE (KELVIN) : 100.0 REMARK 200 PH : 5.50 REMARK 200 NUMBER OF CRYSTALS USED : NULL REMARK 200 REMARK 200 SYNCHROTRON (Y/N) : Y REMARK 200 RADIATION SOURCE : PHOTON FACTORY REMARK 200 BEAMLINE : 18B REMARK 200 X-RAY GENERATOR MODEL : NULL REMARK 200 MONOCHROMATIC OR LAUE (M/L) : M REMARK 200 WAVELENGTH OR RANGE (A) : 1.00 REMARK 200 MONOCHROMATOR : NULL REMARK 200 OPTICS : NULL REMARK 200 REMARK 200 DETECTOR TYPE : IMAGE PLATE REMARK 200 DETECTOR MANUFACTURER : WEISSENBERG REMARK 200 INTENSITY-INTEGRATION SOFTWARE : NULL REMARK 200 DATA SCALING SOFTWARE : NULL REMARK 200 REMARK 200 NUMBER OF UNIQUE REFLECTIONS : 20298 REMARK 200 RESOLUTION RANGE HIGH (A) : 2.800 REMARK 200 RESOLUTION RANGE LOW (A) : 40.000 REMARK 200 REJECTION CRITERIA (SIGMA(I)) : 1.000 REMARK 200 REMARK 200 OVERALL. REMARK 200 COMPLETENESS FOR RANGE (%) : 88.1 REMARK 200 DATA REDUNDANCY : NULL REMARK 200 R MERGE (I) : 0.08400 REMARK 200 R SYM (I) : NULL REMARK 200 <I/SIGMA(I)> FOR THE DATA SET : 8.7000 REMARK 200 REMARK 200 IN THE HIGHEST RESOLUTION SHELL. REMARK 200 HIGHEST RESOLUTION SHELL, RANGE HIGH (A) : 2.80 REMARK 200 HIGHEST RESOLUTION SHELL, RANGE LOW (A) : 2.90 REMARK 200 COMPLETENESS FOR SHELL (%) : 83.7 REMARK 200 DATA REDUNDANCY IN SHELL : NULL REMARK 200 R MERGE FOR SHELL (I) : 0.34500 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: 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 (%): 51.01 REMARK 280 MATTHEWS COEFFICIENT, VM (ANGSTROMS**3/DA): 2.51 REMARK 280 REMARK 280 CRYSTALLIZATION CONDITIONS: MPD, PH 5.50, VAPOR DIFFUSION, REMARK 280 HANGING DROP, TEMPERATURE 293K 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 1/2-X,-Y,1/2+Z REMARK 290 3555 -X,1/2+Y,1/2-Z REMARK 290 4555 1/2+X,1/2-Y,-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 36.32000 REMARK 290 SMTRY2 2 0.000000 -1.000000 0.000000 0.00000 REMARK 290 SMTRY3 2 0.000000 0.000000 1.000000 55.96500 REMARK 290 SMTRY1 3 -1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY2 3 0.000000 1.000000 0.000000 55.69000 REMARK 290 SMTRY3 3 0.000000 0.000000 -1.000000 55.96500 REMARK 290 SMTRY1 4 1.000000 0.000000 0.000000 36.32000 REMARK 290 SMTRY2 4 0.000000 -1.000000 0.000000 55.69000 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 THIS ENTRY CONTAINS THE CRYSTALLOGRAPHIC ASYMMETRIC UNIT REMARK 300 WHICH CONSISTS OF 1 CHAIN(S). SEE REMARK 350 FOR REMARK 300 INFORMATION ON GENERATING THE BIOLOGICAL MOLECULE(S). REMARK 350 REMARK 350 GENERATING THE BIOMOLECULE 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 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 THR A 667 REMARK 465 ARG A 668 REMARK 465 ASP A 669 REMARK 465 LEU A 670 REMARK 465 LYS A 671 REMARK 465 ASP A 672 REMARK 465 TYR A 673 REMARK 465 LYS A 674 REMARK 465 ALA A 675 REMARK 465 THR A 676 REMARK 465 GLY A 677 REMARK 465 ARG A 689 REMARK 465 GLY A 690 REMARK 465 VAL A 691 REMARK 465 LYS A 692 REMARK 465 ILE A 693 REMARK 465 ARG A 694 REMARK 465 PRO A 695 REMARK 465 GLY A 696 REMARK 465 LYS A 705 REMARK 465 GLY A 706 REMARK 465 SER A 707 REMARK 465 GLY A 708 REMARK 465 ARG A 709 REMARK 465 ILE A 710 REMARK 465 GLY A 711 REMARK 465 ASP A 712 REMARK 465 ALA A 747 REMARK 465 PHE A 748 REMARK 465 LYS A 759 REMARK 465 THR A 760 REMARK 465 ARG A 761 REMARK 465 GLN A 762 REMARK 465 VAL A 763 REMARK 465 GLY A 764 REMARK 465 LEU A 765 REMARK 465 SER A 766 REMARK 465 ALA A 767 REMARK 465 TRP A 768 REMARK 465 LEU A 769 REMARK 465 LYS A 770 REMARK 465 PRO A 771 REMARK 465 LYS A 772 REMARK 465 GLY A 773 REMARK 465 THR A 774 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 ASN A 23 CG OD1 ND2 REMARK 470 LYS A 136 CG CD CE NZ REMARK 470 GLU A 151 CG CD OE1 OE2 REMARK 470 VAL A 389 CG1 CG2 REMARK 470 LYS A 390 CG CD CE NZ REMARK 470 LEU A 396 CG CD1 CD2 REMARK 470 LYS A 464 CG CD CE NZ REMARK 470 LYS A 465 CG CD CE NZ REMARK 470 LYS A 558 CG CD CE NZ REMARK 470 LYS A 559 CG CD CE NZ REMARK 470 LYS A 584 CG CD CE NZ REMARK 470 LYS A 591 CG CD CE NZ REMARK 470 LYS A 593 CG CD CE NZ REMARK 470 ILE A 603 CG1 CG2 CD1 REMARK 470 THR A 604 OG1 CG2 REMARK 470 THR A 605 OG1 CG2 REMARK 470 GLU A 609 CG CD OE1 OE2 REMARK 470 ILE A 610 CG1 CG2 CD1 REMARK 470 VAL A 611 CG1 CG2 REMARK 470 ARG A 612 CG CD NE CZ NH1 NH2 REMARK 470 ARG A 613 CG CD NE CZ NH1 NH2 REMARK 470 ASP A 614 CG OD1 OD2 REMARK 470 TRP A 615 CG CD1 CD2 NE1 CE2 CE3 CZ2 REMARK 470 TRP A 615 CZ3 CH2 REMARK 470 SER A 616 OG REMARK 470 GLU A 617 CG CD OE1 OE2 REMARK 470 ILE A 618 CG1 CG2 CD1 REMARK 470 LYS A 620 CG CD CE NZ REMARK 470 GLU A 621 CG CD OE1 OE2 REMARK 470 LEU A 627 CG CD1 CD2 REMARK 470 LEU A 631 CG CD1 CD2 REMARK 470 LYS A 644 CG CD CE NZ REMARK 470 VAL A 646 CG1 CG2 REMARK 470 LYS A 649 CG CD CE NZ REMARK 470 LEU A 650 CG CD1 CD2 REMARK 470 LYS A 652 CG CD CE NZ REMARK 470 LYS A 659 CG CD CE NZ REMARK 470 LEU A 660 CG CD1 CD2 REMARK 470 VAL A 661 CG1 CG2 REMARK 470 HIS A 663 CG ND1 CD2 CE1 NE2 REMARK 470 GLU A 664 CG CD OE1 OE2 REMARK 470 GLN A 665 CG CD OE1 NE2 REMARK 470 ILE A 666 CG1 CG2 CD1 REMARK 470 HIS A 679 CG ND1 CD2 CE1 NE2 REMARK 470 VAL A 680 CG1 CG2 REMARK 470 LYS A 684 CG CD CE NZ REMARK 470 ARG A 685 CG CD NE CZ NH1 NH2 REMARK 470 LEU A 686 CG CD1 CD2 REMARK 470 THR A 697 OG1 CG2 REMARK 470 VAL A 698 CG1 CG2 REMARK 470 ILE A 699 CG1 CG2 CD1 REMARK 470 SER A 700 OG REMARK 470 ILE A 702 CG1 CG2 CD1 REMARK 470 VAL A 703 CG1 CG2 REMARK 470 LEU A 704 CG CD1 CD2 REMARK 470 ARG A 713 CG CD NE CZ NH1 NH2 REMARK 470 ILE A 715 CG1 CG2 CD1 REMARK 470 PRO A 716 CG CD REMARK 470 ASP A 718 CG OD1 OD2 REMARK 470 GLU A 719 CG CD OE1 OE2 REMARK 470 PHE A 720 CG CD1 CD2 CE1 CE2 CZ REMARK 470 ASP A 721 CG OD1 OD2 REMARK 470 PRO A 722 CG CD REMARK 470 THR A 723 OG1 CG2 REMARK 470 LYS A 724 CG CD CE NZ REMARK 470 HIS A 725 CG ND1 CD2 CE1 NE2 REMARK 470 TYR A 727 CG CD1 CD2 CE1 CE2 CZ OH REMARK 470 ASP A 728 CG OD1 OD2 REMARK 470 GLU A 730 CG CD OE1 OE2 REMARK 470 TYR A 731 CG CD1 CD2 CE1 CE2 CZ OH REMARK 470 TYR A 732 CG CD1 CD2 CE1 CE2 CZ OH REMARK 470 ILE A 733 CG1 CG2 CD1 REMARK 470 GLU A 734 CG CD OE1 OE2 REMARK 470 ASN A 735 CG OD1 ND2 REMARK 470 LEU A 738 CG CD1 CD2 REMARK 470 VAL A 741 CG1 CG2 REMARK 470 GLU A 742 CG CD OE1 OE2 REMARK 470 ARG A 743 CG CD NE CZ NH1 NH2 REMARK 470 ILE A 744 CG1 CG2 CD1 REMARK 470 ARG A 751 CG CD NE CZ NH1 NH2 REMARK 470 LYS A 752 CG CD CE NZ REMARK 470 GLU A 753 CG CD OE1 OE2 REMARK 470 ASP A 754 CG OD1 OD2 REMARK 470 LEU A 755 CG CD1 CD2 REMARK 470 TYR A 757 CG CD1 CD2 CE1 CE2 CZ OH REMARK 470 GLN A 758 CG CD OE1 NE2 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),F6.3) REMARK 500 REMARK 500 EXPECTED VALUES: ENGH AND HUBER, 1991 REMARK 500 REMARK 500 M RES CSSEQI ATM1 RES CSSEQI ATM2 DEVIATION REMARK 500 MET A 1 SD MET A 1 CE -0.056 REMARK 500 PRO A 115 CB PRO A 115 CG -0.048 REMARK 500 MET A 329 SD MET A 329 CE 0.059 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: ENGH AND HUBER, 1991 REMARK 500 REMARK 500 M RES CSSEQI ATM1 ATM2 ATM3 REMARK 500 ASP A 6 N - CA - C ANGL. DEV. = -7.1 DEGREES REMARK 500 ILE A 54 N - CA - C ANGL. DEV. = -7.3 DEGREES REMARK 500 MET A 129 N - CA - C ANGL. DEV. = 7.1 DEGREES REMARK 500 LYS A 174 N - CA - C ANGL. DEV. = -7.9 DEGREES REMARK 500 LEU A 206 N - CA - C ANGL. DEV. = -8.8 DEGREES REMARK 500 LEU A 327 CA - CB - CG ANGL. DEV. = -7.4 DEGREES REMARK 500 ASP A 432 N - CA - C ANGL. DEV. = -8.2 DEGREES REMARK 500 GLY A 438 N - CA - C ANGL. DEV. = 10.0 DEGREES REMARK 500 ALA A 502 N - CA - C ANGL. DEV. = 7.0 DEGREES REMARK 500 PRO A 716 N - CA - CB ANGL. DEV. = 7.1 DEGREES REMARK 500 ASP A 718 N - CA - C ANGL. DEV. = -6.9 DEGREES REMARK 500 PRO A 722 N - CA - CB ANGL. DEV. = 7.0 DEGREES 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 M RES CSSEQI PSI PHI REMARK 500 ASP A 164 161.67 75.09 REMARK 500 GLN A 436 -70.59 57.18 REMARK 500 THR A 590 143.76 70.12 REMARK 500 THR A 604 -99.03 37.50 REMARK 500 SER A 616 -100.61 47.17 REMARK 900 REMARK 900 RELATED ENTRIES REMARK 900 RELATED ID: 1TGO RELATED DB: PDB REMARK 900 1TGO CONTAINS B DNA POLYMERASE FROM THERMOCOCCUS REMARK 900 GORGONARIUS. REMARK 900 RELATED ID: 1QQC RELATED DB: PDB REMARK 900 1QQC CONTAINS AN ARCHAEBACTERIAL DNA POLYMERASE FROM REMARK 900 DESULFUROCOCCUS TOK. REMARK 900 RELATED ID: 1QHC RELATED DB: PDB REMARK 900 1QHC CONTAINS RIBONUCLEASE A IN COMPLEX WITH 5'- PHOSPHO-2' REMARK 900 -DEOXYURIDINE-3'-PYROPHOSPHATE ADENOSINE-3'-PHOSPHATE. DBREF 1GCX A 1 406 GB 6706000 BAA06142 1 406 DBREF 1GCX A 407 491 GB 6706000 BAA06142 767 851 DBREF 1GCX A 492 774 GB 6706000 BAA06142 1389 1671 SEQRES 1 A 774 MET ILE LEU ASP THR ASP TYR ILE THR GLU ASP GLY LYS SEQRES 2 A 774 PRO VAL ILE ARG ILE PHE LYS LYS GLU ASN GLY GLU PHE SEQRES 3 A 774 LYS ILE GLU TYR ASP ARG THR PHE GLU PRO TYR PHE TYR SEQRES 4 A 774 ALA LEU LEU LYS ASP ASP SER ALA ILE GLU GLU VAL LYS SEQRES 5 A 774 LYS ILE THR ALA GLU ARG HIS GLY THR VAL VAL THR VAL SEQRES 6 A 774 LYS ARG VAL GLU LYS VAL GLN LYS LYS PHE LEU GLY ARG SEQRES 7 A 774 PRO VAL GLU VAL TRP LYS LEU TYR PHE THR HIS PRO GLN SEQRES 8 A 774 ASP VAL PRO ALA ILE ARG ASP LYS ILE ARG GLU HIS PRO SEQRES 9 A 774 ALA VAL ILE ASP ILE TYR GLU TYR ASP ILE PRO PHE ALA SEQRES 10 A 774 LYS ARG TYR LEU ILE ASP LYS GLY LEU VAL PRO MET GLU SEQRES 11 A 774 GLY ASP GLU GLU LEU LYS MET LEU ALA PHE ASP ILE GLU SEQRES 12 A 774 THR LEU TYR HIS GLU GLY GLU GLU PHE ALA GLU GLY PRO SEQRES 13 A 774 ILE LEU MET ILE SER TYR ALA ASP GLU GLU GLY ALA ARG SEQRES 14 A 774 VAL ILE THR TRP LYS ASN VAL ASP LEU PRO TYR VAL ASP SEQRES 15 A 774 VAL VAL SER THR GLU ARG GLU MET ILE LYS ARG PHE LEU SEQRES 16 A 774 ARG VAL VAL LYS GLU LYS ASP PRO ASP VAL LEU ILE THR SEQRES 17 A 774 TYR ASN GLY ASP ASN PHE ASP PHE ALA TYR LEU LYS LYS SEQRES 18 A 774 ARG CYS GLU LYS LEU GLY ILE ASN PHE ALA LEU GLY ARG SEQRES 19 A 774 ASP GLY SER GLU PRO LYS ILE GLN ARG MET GLY ASP ARG SEQRES 20 A 774 PHE ALA VAL GLU VAL LYS GLY ARG ILE HIS PHE ASP LEU SEQRES 21 A 774 TYR PRO VAL ILE ARG ARG THR ILE ASN LEU PRO THR TYR SEQRES 22 A 774 THR LEU GLU ALA VAL TYR GLU ALA VAL PHE GLY GLN PRO SEQRES 23 A 774 LYS GLU LYS VAL TYR ALA GLU GLU ILE THR THR ALA TRP SEQRES 24 A 774 GLU THR GLY GLU ASN LEU GLU ARG VAL ALA ARG TYR SER SEQRES 25 A 774 MET GLU ASP ALA LYS VAL THR TYR GLU LEU GLY LYS GLU SEQRES 26 A 774 PHE LEU PRO MET GLU ALA GLN LEU SER ARG LEU ILE GLY SEQRES 27 A 774 GLN SER LEU TRP ASP VAL SER ARG SER SER THR GLY ASN SEQRES 28 A 774 LEU VAL GLU TRP PHE LEU LEU ARG LYS ALA TYR GLU ARG SEQRES 29 A 774 ASN GLU LEU ALA PRO ASN LYS PRO ASP GLU LYS GLU LEU SEQRES 30 A 774 ALA ARG ARG ARG GLN SER TYR GLU GLY GLY TYR VAL LYS SEQRES 31 A 774 GLU PRO GLU ARG GLY LEU TRP GLU ASN ILE VAL TYR LEU SEQRES 32 A 774 ASP PHE ARG SER LEU TYR PRO SER ILE ILE ILE THR HIS SEQRES 33 A 774 ASN VAL SER PRO ASP THR LEU ASN ARG GLU GLY CYS LYS SEQRES 34 A 774 GLU TYR ASP VAL ALA PRO GLN VAL GLY HIS ARG PHE CYS SEQRES 35 A 774 LYS ASP PHE PRO GLY PHE ILE PRO SER LEU LEU GLY ASP SEQRES 36 A 774 LEU LEU GLU GLU ARG GLN LYS ILE LYS LYS LYS MET LYS SEQRES 37 A 774 ALA THR ILE ASP PRO ILE GLU ARG LYS LEU LEU ASP TYR SEQRES 38 A 774 ARG GLN ARG ALA ILE LYS ILE LEU ALA ASN SER TYR TYR SEQRES 39 A 774 GLY TYR TYR GLY TYR ALA ARG ALA ARG TRP TYR CYS LYS SEQRES 40 A 774 GLU CYS ALA GLU SER VAL THR ALA TRP GLY ARG GLU TYR SEQRES 41 A 774 ILE THR MET THR ILE LYS GLU ILE GLU GLU LYS TYR GLY SEQRES 42 A 774 PHE LYS VAL ILE TYR SER ASP THR ASP GLY PHE PHE ALA SEQRES 43 A 774 THR ILE PRO GLY ALA ASP ALA GLU THR VAL LYS LYS LYS SEQRES 44 A 774 ALA MET GLU PHE LEU LYS TYR ILE ASN ALA LYS LEU PRO SEQRES 45 A 774 GLY ALA LEU GLU LEU GLU TYR GLU GLY PHE TYR LYS ARG SEQRES 46 A 774 GLY PHE PHE VAL THR LYS LYS LYS TYR ALA VAL ILE ASP SEQRES 47 A 774 GLU GLU GLY LYS ILE THR THR ARG GLY LEU GLU ILE VAL SEQRES 48 A 774 ARG ARG ASP TRP SER GLU ILE ALA LYS GLU THR GLN ALA SEQRES 49 A 774 ARG VAL LEU GLU ALA LEU LEU LYS ASP GLY ASP VAL GLU SEQRES 50 A 774 LYS ALA VAL ARG ILE VAL LYS GLU VAL THR GLU LYS LEU SEQRES 51 A 774 SER LYS TYR GLU VAL PRO PRO GLU LYS LEU VAL ILE HIS SEQRES 52 A 774 GLU GLN ILE THR ARG ASP LEU LYS ASP TYR LYS ALA THR SEQRES 53 A 774 GLY PRO HIS VAL ALA VAL ALA LYS ARG LEU ALA ALA ARG SEQRES 54 A 774 GLY VAL LYS ILE ARG PRO GLY THR VAL ILE SER TYR ILE SEQRES 55 A 774 VAL LEU LYS GLY SER GLY ARG ILE GLY ASP ARG ALA ILE SEQRES 56 A 774 PRO PHE ASP GLU PHE ASP PRO THR LYS HIS LYS TYR ASP SEQRES 57 A 774 ALA GLU TYR TYR ILE GLU ASN GLN VAL LEU PRO ALA VAL SEQRES 58 A 774 GLU ARG ILE LEU ARG ALA PHE GLY TYR ARG LYS GLU ASP SEQRES 59 A 774 LEU ARG TYR GLN LYS THR ARG GLN VAL GLY LEU SER ALA SEQRES 60 A 774 TRP LEU LYS PRO LYS GLY THR HELIX 1 1 ALA A 47 LYS A 52 1 6 HELIX 2 2 HIS A 89 ALA A 95 5 7 HELIX 3 3 ILE A 96 GLU A 102 1 7 HELIX 4 4 PRO A 115 LYS A 124 1 10 HELIX 5 5 THR A 186 ASP A 202 1 17 HELIX 6 6 PHE A 214 LEU A 226 1 13 HELIX 7 7 LEU A 260 ILE A 268 1 9 HELIX 8 8 THR A 274 GLY A 284 1 11 HELIX 9 9 TYR A 291 THR A 301 1 11 HELIX 10 10 ASN A 304 GLY A 338 1 35 HELIX 11 11 SER A 340 SER A 345 1 6 HELIX 12 12 SER A 348 ARG A 364 1 17 HELIX 13 13 ASP A 373 ARG A 381 1 9 HELIX 14 14 SER A 407 HIS A 416 1 10 HELIX 15 15 GLY A 447 MET A 467 1 21 HELIX 16 16 ASP A 472 ASN A 491 1 20 HELIX 17 17 SER A 492 GLY A 498 1 7 HELIX 18 18 CYS A 506 GLU A 530 1 25 HELIX 19 19 GLU A 554 LYS A 570 1 17 HELIX 20 20 LYS A 620 LYS A 632 1 13 HELIX 21 21 ASP A 635 THR A 647 1 13 HELIX 22 22 PRO A 656 VAL A 661 5 6 HELIX 23 23 VAL A 741 LEU A 745 5 5 HELIX 24 24 ARG A 751 TYR A 757 1 7 SHEET 1 A 3 ILE A 2 GLU A 10 0 SHEET 2 A 3 LYS A 13 LYS A 20 -1 O LYS A 13 N GLU A 10 SHEET 3 A 3 LYS A 27 ASP A 31 -1 O LYS A 27 N LYS A 20 SHEET 1 B 4 VAL A 68 LYS A 74 0 SHEET 2 B 4 PRO A 79 TYR A 86 -1 O VAL A 80 N LYS A 73 SHEET 3 B 4 TYR A 37 LEU A 42 -1 O PHE A 38 N LEU A 85 SHEET 4 B 4 VAL A 106 TYR A 110 -1 N ILE A 107 O LEU A 41 SHEET 1 C 2 ALA A 56 ARG A 58 0 SHEET 2 C 2 THR A 61 VAL A 63 -1 O THR A 61 N ARG A 58 SHEET 1 D 6 VAL A 181 VAL A 183 0 SHEET 2 D 6 ARG A 169 THR A 172 1 O VAL A 170 N ASP A 182 SHEET 3 D 6 ILE A 157 TYR A 162 -1 N ILE A 160 O ILE A 171 SHEET 4 D 6 MET A 137 THR A 144 -1 N ASP A 141 O SER A 161 SHEET 5 D 6 VAL A 205 THR A 208 1 O VAL A 205 N LEU A 138 SHEET 6 D 6 ILE A 256 ASP A 259 1 O ILE A 256 N LEU A 206 SHEET 1 E 2 LYS A 240 MET A 244 0 SHEET 2 E 2 ARG A 247 GLU A 251 -1 O ARG A 247 N MET A 244 SHEET 1 F 4 TYR A 538 ASP A 540 0 SHEET 2 F 4 GLY A 543 ALA A 546 -1 O GLY A 543 N ASP A 540 SHEET 3 F 4 GLY A 395 PHE A 405 -1 N VAL A 401 O ALA A 546 SHEET 4 F 4 LEU A 577 PHE A 588 -1 N GLU A 578 O ASP A 404 SHEET 1 G 2 TYR A 431 VAL A 433 0 SHEET 2 G 2 ARG A 440 CYS A 442 -1 N PHE A 441 O ASP A 432 SSBOND 1 CYS A 428 CYS A 442 SSBOND 2 CYS A 506 CYS A 509 CRYST1 72.640 111.380 111.930 90.00 90.00 90.00 P 21 21 21 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 0.013767 0.000000 0.000000 0.00000 SCALE2 0.000000 0.008978 0.000000 0.00000 SCALE3 0.000000 0.000000 0.008934 0.00000