HEADER OXIDOREDUCTASE 28-OCT-05 2EUD TITLE STRUCTURES OF YEAST RIBONUCLEOTIDE REDUCTASE I COMPLEXED WITH LIGANDS TITLE 2 AND SUBUNIT PEPTIDES COMPND MOL_ID: 1; COMPND 2 MOLECULE: RIBONUCLEOSIDE-DIPHOSPHATE REDUCTASE LARGE CHAIN 1; COMPND 3 CHAIN: A; COMPND 4 SYNONYM: RIBONUCLEOTIDE REDUCTASE; COMPND 5 EC: 1.17.4.1; COMPND 6 ENGINEERED: YES SOURCE MOL_ID: 1; SOURCE 2 ORGANISM_SCIENTIFIC: SACCHAROMYCES CEREVISIAE; SOURCE 3 ORGANISM_COMMON: BAKER'S YEAST; SOURCE 4 ORGANISM_TAXID: 4932; SOURCE 5 GENE: RNR1; SOURCE 6 EXPRESSION_SYSTEM: ESCHERICHIA COLI; SOURCE 7 EXPRESSION_SYSTEM_TAXID: 562; SOURCE 8 EXPRESSION_SYSTEM_STRAIN: BL21(DE3)PLYS; SOURCE 9 EXPRESSION_SYSTEM_VECTOR_TYPE: PLASMID; SOURCE 10 EXPRESSION_SYSTEM_PLASMID: PWJ751-2 KEYWDS RIBONUCLEOTIDE REDUCTASE, LIGAND INTERACTION, SUBUNIT ASSEMBLY, KEYWDS 2 OXIDOREDUCTASE EXPDTA X-RAY DIFFRACTION AUTHOR C.DEALWIS,H.XU,C.FABER,T.UCHIKI,J.W.FAIRMAN,J.RACCA REVDAT 4 17-FEB-16 2EUD 1 AUTHOR VERSN REVDAT 3 24-FEB-09 2EUD 1 VERSN REVDAT 2 04-APR-06 2EUD 1 JRNL REVDAT 1 07-MAR-06 2EUD 0 JRNL AUTH H.XU,C.FABER,T.UCHIKI,J.RACCA,C.DEALWIS JRNL TITL STRUCTURES OF EUKARYOTIC RIBONUCLEOTIDE REDUCTASE I DEFINE JRNL TITL 2 GEMCITABINE DIPHOSPHATE BINDING AND SUBUNIT ASSEMBLY. JRNL REF PROC.NATL.ACAD.SCI.USA V. 103 4028 2006 JRNL REFN ISSN 0027-8424 JRNL PMID 16537480 JRNL DOI 10.1073/PNAS.0600440103 REMARK 2 REMARK 2 RESOLUTION. 2.30 ANGSTROMS. REMARK 3 REMARK 3 REFINEMENT. REMARK 3 PROGRAM : CNS 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) : 2.30 REMARK 3 RESOLUTION RANGE LOW (ANGSTROMS) : 50.00 REMARK 3 DATA CUTOFF (SIGMA(F)) : 0.000 REMARK 3 DATA CUTOFF HIGH (ABS(F)) : NULL REMARK 3 DATA CUTOFF LOW (ABS(F)) : NULL REMARK 3 COMPLETENESS (WORKING+TEST) (%) : 93.9 REMARK 3 NUMBER OF REFLECTIONS : 34451 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) : 0.204 REMARK 3 FREE R VALUE : 0.240 REMARK 3 FREE R VALUE TEST SET SIZE (%) : NULL REMARK 3 FREE R VALUE TEST SET COUNT : 3414 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 : 5181 REMARK 3 NUCLEIC ACID ATOMS : 0 REMARK 3 HETEROGEN ATOMS : 58 REMARK 3 SOLVENT ATOMS : 207 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 BULK SOLVENT MODELING. REMARK 3 METHOD USED : NULL REMARK 3 KSOL : NULL REMARK 3 BSOL : 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 2EUD COMPLIES WITH FORMAT V. 3.30, 13-JUL-11 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY RCSB ON 28-NOV-05. REMARK 100 THE RCSB ID CODE IS RCSB035103. REMARK 200 REMARK 200 EXPERIMENTAL DETAILS REMARK 200 EXPERIMENT TYPE : X-RAY DIFFRACTION REMARK 200 DATE OF DATA COLLECTION : 01-AUG-05 REMARK 200 TEMPERATURE (KELVIN) : 100 REMARK 200 PH : 6.5 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 RUH3R REMARK 200 MONOCHROMATIC OR LAUE (M/L) : M REMARK 200 WAVELENGTH OR RANGE (A) : 1.5418 REMARK 200 MONOCHROMATOR : NULL REMARK 200 OPTICS : NULL REMARK 200 REMARK 200 DETECTOR TYPE : IMAGE PLATE REMARK 200 DETECTOR MANUFACTURER : RIGAKU RAXIS IV REMARK 200 INTENSITY-INTEGRATION SOFTWARE : HKL-2000 REMARK 200 DATA SCALING SOFTWARE : SCALEPACK REMARK 200 REMARK 200 NUMBER OF UNIQUE REFLECTIONS : 35816 REMARK 200 RESOLUTION RANGE HIGH (A) : 2.300 REMARK 200 RESOLUTION RANGE LOW (A) : 50.000 REMARK 200 REJECTION CRITERIA (SIGMA(I)) : -3.000 REMARK 200 REMARK 200 OVERALL. REMARK 200 COMPLETENESS FOR RANGE (%) : 97.5 REMARK 200 DATA REDUNDANCY : 4.500 REMARK 200 R MERGE (I) : NULL REMARK 200 R SYM (I) : 0.09100 REMARK 200 FOR THE DATA SET : 17.6000 REMARK 200 REMARK 200 IN THE HIGHEST RESOLUTION SHELL. REMARK 200 HIGHEST RESOLUTION SHELL, RANGE HIGH (A) : 2.30 REMARK 200 HIGHEST RESOLUTION SHELL, RANGE LOW (A) : 2.38 REMARK 200 COMPLETENESS FOR SHELL (%) : 87.4 REMARK 200 DATA REDUNDANCY IN SHELL : 3.20 REMARK 200 R MERGE FOR SHELL (I) : NULL REMARK 200 R SYM FOR SHELL (I) : 0.36800 REMARK 200 FOR SHELL : 2.600 REMARK 200 REMARK 200 DIFFRACTION PROTOCOL: SINGLE WAVELENGTH REMARK 200 METHOD USED TO DETERMINE THE STRUCTURE: MOLECULAR REPLACEMENT REMARK 200 SOFTWARE USED: CNS REMARK 200 STARTING MODEL: NULL REMARK 200 REMARK 200 REMARK: NULL REMARK 280 REMARK 280 CRYSTAL REMARK 280 SOLVENT CONTENT, VS (%): 39.20 REMARK 280 MATTHEWS COEFFICIENT, VM (ANGSTROMS**3/DA): 2.02 REMARK 280 REMARK 280 CRYSTALLIZATION CONDITIONS: 0.1 M SODIUM ACETATE, 20-25% PEG3350, REMARK 280 0.2 M AMMONIUM SULFATE, PH 6.5, EVAPORATION, TEMPERATURE 298K REMARK 290 REMARK 290 CRYSTALLOGRAPHIC SYMMETRY REMARK 290 SYMMETRY OPERATORS FOR SPACE GROUP: P 21 21 2 REMARK 290 REMARK 290 SYMOP SYMMETRY REMARK 290 NNNMMM OPERATOR REMARK 290 1555 X,Y,Z REMARK 290 2555 -X,-Y,Z REMARK 290 3555 -X+1/2,Y+1/2,-Z 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 0.00000 REMARK 290 SMTRY2 2 0.000000 -1.000000 0.000000 0.00000 REMARK 290 SMTRY3 2 0.000000 0.000000 1.000000 0.00000 REMARK 290 SMTRY1 3 -1.000000 0.000000 0.000000 53.78900 REMARK 290 SMTRY2 3 0.000000 1.000000 0.000000 58.60800 REMARK 290 SMTRY3 3 0.000000 0.000000 -1.000000 0.00000 REMARK 290 SMTRY1 4 1.000000 0.000000 0.000000 53.78900 REMARK 290 SMTRY2 4 0.000000 -1.000000 0.000000 58.60800 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 300 REMARK: THE SECOND PART OF THE BIOLOGICAL ASSEMBLY (ACTIVE DIMMER REMARK 300 FORM) IS GENERATED BY THE TWO FOLD AXIS: -X, -Y+1, Z. 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 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 350 BIOMT1 2 -1.000000 0.000000 0.000000 0.00000 REMARK 350 BIOMT2 2 0.000000 -1.000000 0.000000 117.21600 REMARK 350 BIOMT3 2 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 TYR A 2 REMARK 465 VAL A 3 REMARK 465 TYR A 4 REMARK 465 LYS A 5 REMARK 465 ARG A 6 REMARK 465 ASP A 7 REMARK 465 GLY A 8 REMARK 465 ARG A 9 REMARK 465 LYS A 10 REMARK 465 GLU A 11 REMARK 465 PRO A 12 REMARK 465 VAL A 13 REMARK 465 GLN A 14 REMARK 465 PHE A 15 REMARK 465 ASP A 16 REMARK 465 LYS A 17 REMARK 465 ILE A 18 REMARK 465 THR A 19 REMARK 465 ALA A 20 REMARK 465 ARG A 21 REMARK 465 ILE A 22 REMARK 465 SER A 23 REMARK 465 ARG A 24 REMARK 465 LEU A 25 REMARK 465 CYS A 26 REMARK 465 TYR A 27 REMARK 465 GLY A 28 REMARK 465 LEU A 29 REMARK 465 ASP A 30 REMARK 465 PRO A 31 REMARK 465 LYS A 32 REMARK 465 HIS A 33 REMARK 465 ILE A 34 REMARK 465 ASP A 35 REMARK 465 ALA A 36 REMARK 465 VAL A 37 REMARK 465 LYS A 38 REMARK 465 VAL A 39 REMARK 465 THR A 40 REMARK 465 GLN A 41 REMARK 465 ARG A 42 REMARK 465 ILE A 43 REMARK 465 ILE A 44 REMARK 465 SER A 45 REMARK 465 GLY A 46 REMARK 465 VAL A 47 REMARK 465 TYR A 48 REMARK 465 GLU A 49 REMARK 465 GLY A 50 REMARK 465 VAL A 51 REMARK 465 THR A 52 REMARK 465 THR A 53 REMARK 465 ILE A 54 REMARK 465 GLU A 55 REMARK 465 LEU A 56 REMARK 465 ASP A 57 REMARK 465 ASN A 58 REMARK 465 LEU A 59 REMARK 465 ALA A 60 REMARK 465 ALA A 61 REMARK 465 GLU A 62 REMARK 465 THR A 63 REMARK 465 CYS A 64 REMARK 465 ALA A 65 REMARK 465 TYR A 66 REMARK 465 MET A 67 REMARK 465 THR A 68 REMARK 465 THR A 69 REMARK 465 VAL A 70 REMARK 465 HIS A 71 REMARK 465 PRO A 72 REMARK 465 ASP A 73 REMARK 465 TYR A 74 REMARK 465 ALA A 75 REMARK 465 THR A 76 REMARK 465 LEU A 77 REMARK 465 ALA A 78 REMARK 465 ALA A 79 REMARK 465 ARG A 80 REMARK 465 ILE A 81 REMARK 465 ALA A 82 REMARK 465 ILE A 83 REMARK 465 SER A 84 REMARK 465 ASN A 85 REMARK 465 LEU A 86 REMARK 465 HIS A 87 REMARK 465 LYS A 88 REMARK 465 GLN A 89 REMARK 465 TYR A 629 REMARK 465 SER A 630 REMARK 465 ARG A 631 REMARK 465 ARG A 632 REMARK 465 VAL A 633 REMARK 465 LEU A 634 REMARK 465 SER A 635 REMARK 465 GLY A 636 REMARK 465 GLU A 637 REMARK 465 ALA A 747 REMARK 465 ALA A 748 REMARK 465 SER A 749 REMARK 465 ALA A 750 REMARK 465 ALA A 751 REMARK 465 ILE A 752 REMARK 465 GLN A 753 REMARK 465 PHE A 754 REMARK 465 THR A 755 REMARK 465 ILE A 756 REMARK 465 ASP A 757 REMARK 465 GLN A 758 REMARK 465 LYS A 759 REMARK 465 ILE A 760 REMARK 465 ALA A 761 REMARK 465 ASP A 762 REMARK 465 GLN A 763 REMARK 465 ALA A 764 REMARK 465 THR A 765 REMARK 465 GLU A 766 REMARK 465 ASN A 767 REMARK 465 VAL A 768 REMARK 465 ALA A 769 REMARK 465 ASP A 770 REMARK 465 ILE A 771 REMARK 465 SER A 772 REMARK 465 ASN A 773 REMARK 465 LEU A 774 REMARK 465 LYS A 775 REMARK 465 ARG A 776 REMARK 465 PRO A 777 REMARK 465 SER A 778 REMARK 465 TYR A 779 REMARK 465 MET A 780 REMARK 465 PRO A 781 REMARK 465 SER A 782 REMARK 465 SER A 783 REMARK 465 ALA A 784 REMARK 465 SER A 785 REMARK 465 TYR A 786 REMARK 465 ALA A 787 REMARK 465 ALA A 788 REMARK 465 SER A 789 REMARK 465 ASP A 790 REMARK 465 PHE A 791 REMARK 465 VAL A 792 REMARK 465 PRO A 793 REMARK 465 ALA A 794 REMARK 465 ALA A 795 REMARK 465 VAL A 796 REMARK 465 THR A 797 REMARK 465 ALA A 798 REMARK 465 ASN A 799 REMARK 465 ALA A 800 REMARK 465 THR A 801 REMARK 465 ILE A 802 REMARK 465 PRO A 803 REMARK 465 SER A 804 REMARK 465 LEU A 805 REMARK 465 ASP A 806 REMARK 465 SER A 807 REMARK 465 SER A 808 REMARK 465 SER A 809 REMARK 465 GLU A 810 REMARK 465 ALA A 811 REMARK 465 SER A 812 REMARK 465 ARG A 813 REMARK 465 GLU A 814 REMARK 465 ALA A 815 REMARK 465 SER A 816 REMARK 465 PRO A 817 REMARK 465 ALA A 818 REMARK 465 PRO A 819 REMARK 465 THR A 820 REMARK 465 GLY A 821 REMARK 465 SER A 822 REMARK 465 HIS A 823 REMARK 465 SER A 824 REMARK 465 LEU A 825 REMARK 465 THR A 826 REMARK 465 LYS A 827 REMARK 465 GLY A 828 REMARK 465 MET A 829 REMARK 465 ALA A 830 REMARK 465 GLU A 831 REMARK 465 LEU A 832 REMARK 465 ASN A 833 REMARK 465 VAL A 834 REMARK 465 GLN A 835 REMARK 465 GLU A 836 REMARK 465 SER A 837 REMARK 465 LYS A 838 REMARK 465 VAL A 839 REMARK 465 GLU A 840 REMARK 465 VAL A 841 REMARK 465 PRO A 842 REMARK 465 GLU A 843 REMARK 465 VAL A 844 REMARK 465 PRO A 845 REMARK 465 ALA A 846 REMARK 465 PRO A 847 REMARK 465 THR A 848 REMARK 465 LYS A 849 REMARK 465 ASN A 850 REMARK 465 GLU A 851 REMARK 465 GLU A 852 REMARK 465 LYS A 853 REMARK 465 ALA A 854 REMARK 465 ALA A 855 REMARK 465 PRO A 856 REMARK 465 ILE A 857 REMARK 465 VAL A 858 REMARK 465 ASP A 859 REMARK 465 ASP A 860 REMARK 465 GLU A 861 REMARK 465 GLU A 862 REMARK 465 THR A 863 REMARK 465 GLU A 864 REMARK 465 PHE A 865 REMARK 465 ASP A 866 REMARK 465 ILE A 867 REMARK 465 TYR A 868 REMARK 465 ASN A 869 REMARK 465 SER A 870 REMARK 465 LYS A 871 REMARK 465 VAL A 872 REMARK 465 ILE A 873 REMARK 465 ALA A 874 REMARK 465 CYS A 875 REMARK 465 ALA A 876 REMARK 465 ILE A 877 REMARK 465 ASP A 878 REMARK 465 ASN A 879 REMARK 465 PRO A 880 REMARK 465 GLU A 881 REMARK 465 ALA A 882 REMARK 465 CYS A 883 REMARK 465 GLU A 884 REMARK 465 MET A 885 REMARK 465 CYS A 886 REMARK 465 SER A 887 REMARK 465 GLY A 888 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 PRO A 674 C - N - CA ANGL. DEV. = 9.6 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 ASN A 127 27.68 -144.19 REMARK 500 LYS A 196 36.68 70.40 REMARK 500 LYS A 212 79.39 -112.44 REMARK 500 THR A 244 -168.42 -113.69 REMARK 500 GLN A 288 33.92 -68.35 REMARK 500 PRO A 294 -117.34 -7.95 REMARK 500 PRO A 303 -1.16 -58.27 REMARK 500 HIS A 318 12.65 -145.28 REMARK 500 LYS A 320 23.22 -74.92 REMARK 500 GLU A 321 -59.46 68.48 REMARK 500 ALA A 356 66.82 -156.10 REMARK 500 SER A 425 -156.21 -120.82 REMARK 500 SER A 457 6.38 44.48 REMARK 500 GLU A 458 -79.18 -114.06 REMARK 500 ASP A 459 -14.77 -150.46 REMARK 500 LYS A 461 -60.44 65.76 REMARK 500 THR A 602 -22.17 -140.98 REMARK 500 ALA A 604 76.19 -171.73 REMARK 500 CYS A 620 -117.57 28.26 REMARK 500 ASN A 642 122.42 -38.25 REMARK 500 ILE A 654 -9.85 -52.08 REMARK 500 ASP A 656 -106.71 -114.09 REMARK 500 MET A 659 -61.32 -106.66 REMARK 500 PRO A 674 -73.73 -38.14 REMARK 500 ASN A 675 53.23 -94.13 REMARK 500 GLN A 708 -117.97 -107.05 REMARK 500 SER A 711 78.87 -58.58 REMARK 500 TYR A 741 -109.92 -94.86 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 FOR AMINO ACIDS AND C1'--O4'--N1(N9)--C2' FOR REMARK 500 NUCLEIC ACIDS OR EQUIVALENT ANGLE 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: (10X,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 ASN A 207 23.7 L L OUTSIDE RANGE REMARK 500 REMARK 500 REMARK: NULL REMARK 620 REMARK 620 METAL COORDINATION REMARK 620 (M=MODEL NUMBER; RES=RESIDUE NAME; C=CHAIN IDENTIFIER; REMARK 620 SSEQ=SEQUENCE NUMBER; I=INSERTION CODE): REMARK 620 REMARK 620 COORDINATION ANGLES FOR: M RES CSSEQI METAL REMARK 620 MG A 889 MG REMARK 620 N RES CSSEQI ATOM REMARK 620 1 ANP A 890 O2G REMARK 620 2 ANP A 890 O3A 62.3 REMARK 620 3 ANP A 890 O2A 100.0 54.3 REMARK 620 N 1 2 REMARK 800 REMARK 800 SITE REMARK 800 SITE_IDENTIFIER: AC1 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE MG A 889 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC2 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE ANP A 890 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC3 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE GCQ A 891 DBREF 2EUD A 1 888 UNP P21524 RIR1_YEAST 1 888 SEQRES 1 A 888 MET TYR VAL TYR LYS ARG ASP GLY ARG LYS GLU PRO VAL SEQRES 2 A 888 GLN PHE ASP LYS ILE THR ALA ARG ILE SER ARG LEU CYS SEQRES 3 A 888 TYR GLY LEU ASP PRO LYS HIS ILE ASP ALA VAL LYS VAL SEQRES 4 A 888 THR GLN ARG ILE ILE SER GLY VAL TYR GLU GLY VAL THR SEQRES 5 A 888 THR ILE GLU LEU ASP ASN LEU ALA ALA GLU THR CYS ALA SEQRES 6 A 888 TYR MET THR THR VAL HIS PRO ASP TYR ALA THR LEU ALA SEQRES 7 A 888 ALA ARG ILE ALA ILE SER ASN LEU HIS LYS GLN THR THR SEQRES 8 A 888 LYS GLN PHE SER LYS VAL VAL GLU ASP LEU TYR ARG TYR SEQRES 9 A 888 VAL ASN ALA ALA THR GLY LYS PRO ALA PRO MET ILE SER SEQRES 10 A 888 ASP ASP VAL TYR ASN ILE VAL MET GLU ASN LYS ASP LYS SEQRES 11 A 888 LEU ASN SER ALA ILE VAL TYR ASP ARG ASP PHE GLN TYR SEQRES 12 A 888 SER TYR PHE GLY PHE LYS THR LEU GLU ARG SER TYR LEU SEQRES 13 A 888 LEU ARG ILE ASN GLY GLN VAL ALA GLU ARG PRO GLN HIS SEQRES 14 A 888 LEU ILE MET ARG VAL ALA LEU GLY ILE HIS GLY ARG ASP SEQRES 15 A 888 ILE GLU ALA ALA LEU GLU THR TYR ASN LEU MET SER LEU SEQRES 16 A 888 LYS TYR PHE THR HIS ALA SER PRO THR LEU PHE ASN ALA SEQRES 17 A 888 GLY THR PRO LYS PRO GLN MET SER SER CYS PHE LEU VAL SEQRES 18 A 888 ALA MET LYS GLU ASP SER ILE GLU GLY ILE TYR ASP THR SEQRES 19 A 888 LEU LYS GLU CYS ALA LEU ILE SER LYS THR ALA GLY GLY SEQRES 20 A 888 ILE GLY LEU HIS ILE HIS ASN ILE ARG SER THR GLY SER SEQRES 21 A 888 TYR ILE ALA GLY THR ASN GLY THR SER ASN GLY LEU ILE SEQRES 22 A 888 PRO MET ILE ARG VAL PHE ASN ASN THR ALA ARG TYR VAL SEQRES 23 A 888 ASP GLN GLY GLY ASN LYS ARG PRO GLY ALA PHE ALA LEU SEQRES 24 A 888 TYR LEU GLU PRO TRP HIS ALA ASP ILE PHE ASP PHE ILE SEQRES 25 A 888 ASP ILE ARG LYS ASN HIS GLY LYS GLU GLU ILE ARG ALA SEQRES 26 A 888 ARG ASP LEU PHE PRO ALA LEU TRP ILE PRO ASP LEU PHE SEQRES 27 A 888 MET LYS ARG VAL GLU GLU ASN GLY THR TRP THR LEU PHE SEQRES 28 A 888 SER PRO THR SER ALA PRO GLY LEU SER ASP CYS TYR GLY SEQRES 29 A 888 ASP GLU PHE GLU ALA LEU TYR THR ARG TYR GLU LYS GLU SEQRES 30 A 888 GLY ARG GLY LYS THR ILE LYS ALA GLN LYS LEU TRP TYR SEQRES 31 A 888 SER ILE LEU GLU ALA GLN THR GLU THR GLY THR PRO PHE SEQRES 32 A 888 VAL VAL TYR LYS ASP ALA CYS ASN ARG LYS SER ASN GLN SEQRES 33 A 888 LYS ASN LEU GLY VAL ILE LYS SER SER ASN LEU CYS CYS SEQRES 34 A 888 GLU ILE VAL GLU TYR SER ALA PRO ASP GLU THR ALA VAL SEQRES 35 A 888 CYS ASN LEU ALA SER VAL ALA LEU PRO ALA PHE ILE GLU SEQRES 36 A 888 THR SER GLU ASP GLY LYS THR SER THR TYR ASN PHE LYS SEQRES 37 A 888 LYS LEU HIS GLU ILE ALA LYS VAL VAL THR ARG ASN LEU SEQRES 38 A 888 ASN ARG VAL ILE ASP ARG ASN TYR TYR PRO VAL GLU GLU SEQRES 39 A 888 ALA ARG LYS SER ASN MET ARG HIS ARG PRO ILE ALA LEU SEQRES 40 A 888 GLY VAL GLN GLY LEU ALA ASP THR PHE MET LEU LEU ARG SEQRES 41 A 888 LEU PRO PHE ASP SER GLU GLU ALA ARG LEU LEU ASN ILE SEQRES 42 A 888 GLN ILE PHE GLU THR ILE TYR HIS ALA SER MET GLU ALA SEQRES 43 A 888 SER CYS GLU LEU ALA GLN LYS ASP GLY PRO TYR GLU THR SEQRES 44 A 888 PHE GLN GLY SER PRO ALA SER GLN GLY ILE LEU GLN PHE SEQRES 45 A 888 ASP MET TRP ASP GLN LYS PRO TYR GLY MET TRP ASP TRP SEQRES 46 A 888 ASP THR LEU ARG LYS ASP ILE MET LYS HIS GLY VAL ARG SEQRES 47 A 888 ASN SER LEU THR MET ALA PRO MET PRO THR ALA SER THR SEQRES 48 A 888 SER GLN ILE LEU GLY TYR ASN GLU CYS PHE GLU PRO VAL SEQRES 49 A 888 THR SER ASN MET TYR SER ARG ARG VAL LEU SER GLY GLU SEQRES 50 A 888 PHE GLN VAL VAL ASN PRO TYR LEU LEU ARG ASP LEU VAL SEQRES 51 A 888 ASP LEU GLY ILE TRP ASP GLU GLY MET LYS GLN TYR LEU SEQRES 52 A 888 ILE THR GLN ASN GLY SER ILE GLN GLY LEU PRO ASN VAL SEQRES 53 A 888 PRO GLN GLU LEU LYS ASP LEU TYR LYS THR VAL TRP GLU SEQRES 54 A 888 ILE SER GLN LYS THR ILE ILE ASN MET ALA ALA ASP ARG SEQRES 55 A 888 SER VAL TYR ILE ASP GLN SER HIS SER LEU ASN LEU PHE SEQRES 56 A 888 LEU ARG ALA PRO THR MET GLY LYS LEU THR SER MET HIS SEQRES 57 A 888 PHE TYR GLY TRP LYS LYS GLY LEU LYS THR GLY MET TYR SEQRES 58 A 888 TYR LEU ARG THR GLN ALA ALA SER ALA ALA ILE GLN PHE SEQRES 59 A 888 THR ILE ASP GLN LYS ILE ALA ASP GLN ALA THR GLU ASN SEQRES 60 A 888 VAL ALA ASP ILE SER ASN LEU LYS ARG PRO SER TYR MET SEQRES 61 A 888 PRO SER SER ALA SER TYR ALA ALA SER ASP PHE VAL PRO SEQRES 62 A 888 ALA ALA VAL THR ALA ASN ALA THR ILE PRO SER LEU ASP SEQRES 63 A 888 SER SER SER GLU ALA SER ARG GLU ALA SER PRO ALA PRO SEQRES 64 A 888 THR GLY SER HIS SER LEU THR LYS GLY MET ALA GLU LEU SEQRES 65 A 888 ASN VAL GLN GLU SER LYS VAL GLU VAL PRO GLU VAL PRO SEQRES 66 A 888 ALA PRO THR LYS ASN GLU GLU LYS ALA ALA PRO ILE VAL SEQRES 67 A 888 ASP ASP GLU GLU THR GLU PHE ASP ILE TYR ASN SER LYS SEQRES 68 A 888 VAL ILE ALA CYS ALA ILE ASP ASN PRO GLU ALA CYS GLU SEQRES 69 A 888 MET CYS SER GLY HET MG A 889 1 HET ANP A 890 31 HET GCQ A 891 26 HETNAM MG MAGNESIUM ION HETNAM ANP PHOSPHOAMINOPHOSPHONIC ACID-ADENYLATE ESTER HETNAM GCQ GEMCITABINE DIPHOSPHATE HETSYN GCQ ((2R,3R,5R)-5-(4-AMINO-2-OXOPYRIMIDIN-1(2H)-YL)-4,4- HETSYN 2 GCQ DIFLUORO-3-HYDROXYTETRAHYDROFURAN-2-YL)METHYL HETSYN 3 GCQ TRIHYDROGEN DIPHOSPHATE FORMUL 2 MG MG 2+ FORMUL 3 ANP C10 H17 N6 O12 P3 FORMUL 4 GCQ C9 H13 F2 N3 O10 P2 FORMUL 5 HOH *207(H2 O) HELIX 1 1 GLN A 93 TYR A 104 1 12 HELIX 2 2 SER A 117 GLU A 126 1 10 HELIX 3 3 ASN A 127 SER A 133 1 7 HELIX 4 4 VAL A 136 GLN A 142 5 7 HELIX 5 5 SER A 144 TYR A 155 1 12 HELIX 6 6 ARG A 166 GLY A 180 1 15 HELIX 7 7 ASP A 182 LEU A 195 1 14 HELIX 8 8 ALA A 201 ALA A 208 1 8 HELIX 9 9 SER A 227 LYS A 243 1 17 HELIX 10 10 GLY A 271 VAL A 286 1 16 HELIX 11 11 ASP A 307 ILE A 312 1 6 HELIX 12 12 PRO A 335 GLU A 344 1 10 HELIX 13 13 SER A 352 ALA A 356 5 5 HELIX 14 14 GLY A 358 CYS A 362 5 5 HELIX 15 15 TYR A 363 GLU A 377 1 15 HELIX 16 16 ALA A 385 GLY A 400 1 16 HELIX 17 17 LYS A 407 LYS A 413 1 7 HELIX 18 18 ASN A 466 ASN A 488 1 23 HELIX 19 19 VAL A 492 ARG A 503 1 12 HELIX 20 20 GLY A 511 LEU A 519 1 9 HELIX 21 21 SER A 525 GLY A 555 1 31 HELIX 22 22 SER A 563 GLY A 568 5 6 HELIX 23 23 LEU A 570 ASP A 576 5 7 HELIX 24 24 ASP A 584 GLY A 596 1 13 HELIX 25 25 SER A 610 GLY A 616 1 7 HELIX 26 26 ASN A 642 ASP A 651 1 10 HELIX 27 27 MET A 659 GLN A 666 1 8 HELIX 28 28 PRO A 677 TYR A 684 1 8 HELIX 29 29 SER A 691 VAL A 704 1 14 HELIX 30 30 THR A 720 LYS A 734 1 15 SHEET 1 A 2 ARG A 158 ILE A 159 0 SHEET 2 A 2 GLN A 162 VAL A 163 -1 O GLN A 162 N ILE A 159 SHEET 1 B 3 PHE A 198 HIS A 200 0 SHEET 2 B 3 LEU A 445 ALA A 449 -1 O SER A 447 N THR A 199 SHEET 3 B 3 ALA A 506 GLN A 510 1 O GLY A 508 N VAL A 448 SHEET 1 C 7 ALA A 441 VAL A 442 0 SHEET 2 C 7 CYS A 218 ALA A 222 -1 N LEU A 220 O ALA A 441 SHEET 3 C 7 GLY A 247 HIS A 251 1 O GLY A 249 N VAL A 221 SHEET 4 C 7 PHE A 297 LEU A 301 1 O TYR A 300 N LEU A 250 SHEET 5 C 7 LEU A 328 ILE A 334 1 O PHE A 329 N LEU A 299 SHEET 6 C 7 PHE A 403 TYR A 406 1 O PHE A 403 N LEU A 332 SHEET 7 C 7 THR A 738 MET A 740 -1 O MET A 740 N VAL A 404 SHEET 1 D 2 THR A 347 LEU A 350 0 SHEET 2 D 2 LYS A 381 LYS A 384 -1 O LYS A 381 N LEU A 350 SHEET 1 E 2 ILE A 454 GLU A 455 0 SHEET 2 E 2 THR A 464 TYR A 465 -1 O THR A 464 N GLU A 455 SHEET 1 F 2 LEU A 714 LEU A 716 0 SHEET 2 F 2 LEU A 743 THR A 745 1 O ARG A 744 N LEU A 714 LINK MG MG A 889 O2G ANP A 890 1555 1555 2.63 LINK MG MG A 889 O3A ANP A 890 1555 1555 2.56 LINK MG MG A 889 O2A ANP A 890 1555 1555 2.71 CISPEP 1 THR A 401 PRO A 402 0 0.24 SITE 1 AC1 1 ANP A 890 SITE 1 AC2 19 ASP A 226 SER A 227 ILE A 228 ILE A 231 SITE 2 AC2 19 LYS A 243 ARG A 256 ILE A 262 ALA A 263 SITE 3 AC2 19 TYR A 285 VAL A 286 ASP A 287 GLN A 288 SITE 4 AC2 19 GLY A 289 MG A 889 HOH A 916 HOH A 927 SITE 5 AC2 19 HOH A 935 HOH A 958 HOH A1091 SITE 1 AC3 19 ALA A 201 SER A 202 PHE A 206 SER A 217 SITE 2 AC3 19 CYS A 218 GLY A 246 GLY A 247 ARG A 293 SITE 3 AC3 19 LEU A 427 CYS A 428 MET A 606 PRO A 607 SITE 4 AC3 19 THR A 608 ALA A 609 SER A 610 THR A 611 SITE 5 AC3 19 HOH A1024 HOH A1060 HOH A1089 CRYST1 107.578 117.216 63.990 90.00 90.00 90.00 P 21 21 2 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 0.009296 0.000000 0.000000 0.00000 SCALE2 0.000000 0.008531 0.000000 0.00000 SCALE3 0.000000 0.000000 0.015627 0.00000 MASTER 567 0 3 30 18 0 11 6 0 0 0 69 END