HEADER OXIDOREDUCTASE 04-JUL-01 1H77 OBSLTE 27-MAR-03 1H77 1HK8 TITLE STRUCTURAL BASIS FOR ALLOSTERIC SUBSTRATE SPECIFICITY TITLE 2 REGULATION IN CLASS III RIBONUCLEOTIDE REDUCTASES: NRDD IN TITLE 3 COMPLEX WITH DGTP COMPND MOL_ID: 1; COMPND 2 MOLECULE: ANAEROBIC RIBONUCLEOTIDE-TRIPHOSPHATE REDUCTASE COMPND 3 LARGE CHAIN; COMPND 4 CHAIN: A; COMPND 5 FRAGMENT: ACTIVE SITE SUBUNIT, RESIDUES 1-605; COMPND 6 SYNONYM: ANAEROBIC NTP REDUCTASE; COMPND 7 EC: 1.17.4.2; COMPND 8 ENGINEERED: YES; COMPND 9 MUTATION: YES; COMPND 10 OTHER_DETAILS: SEQUENCE DETERMINATION: YOUNG,P., OHMAN,M., COMPND 11 XU,M.Q. SOURCE MOL_ID: 1; SOURCE 2 ORGANISM_SCIENTIFIC: BACTERIOPHAGE T4; SOURCE 3 STRAIN: JM109(DE3); SOURCE 4 EXPRESSION_SYSTEM: ESCHERICHIA COLI; SOURCE 5 EXPRESSION_SYSTEM_STRAIN: JM109(DE3); SOURCE 6 EXPRESSION_SYSTEM_PLASMID: PET29T4NRDD(G580A) KEYWDS OXIDOREDUCTASE, REDUCTASE, ALLOSTERIC REGULATION, SUBSTRATE KEYWDS 2 SPECIFICITY EXPDTA X-RAY DIFFRACTION AUTHOR K.-M.LARSSON,J.ANDERSSON,B.-M.SJOEBERG,P.NORDLUND,D.T.LOGAN REVDAT 2 01-APR-03 1H77 1 JRNL REVDAT 1 27-MAR-02 1H77 0 JRNL AUTH K.M.LARSSON,J.ANDERSSON,B.M.SJOBERG,P.NORDLUND, JRNL AUTH 2 D.T.LOGAN JRNL TITL STRUCTURAL BASIS FOR ALLOSTERIC SUBSTRATE JRNL TITL 2 SPECIFICITY REGULATION IN ANAEROBIC RIBONUCLEOTIDE JRNL TITL 3 REDUCTASES. JRNL REF STRUCTURE V. 9 739 2001 JRNL REFN ASTM STRUE6 UK ISSN 0969-2126 REMARK 1 REMARK 2 REMARK 2 RESOLUTION. 2.43 ANGSTROMS. REMARK 3 REMARK 3 REFINEMENT. REMARK 3 PROGRAM : CNS 1.1 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) : 2.43 REMARK 3 RESOLUTION RANGE LOW (ANGSTROMS) : 37.85 REMARK 3 DATA CUTOFF (SIGMA(F)) : 0.000 REMARK 3 DATA CUTOFF HIGH (ABS(F)) : 2091621.700 REMARK 3 DATA CUTOFF LOW (ABS(F)) : 0.0000 REMARK 3 COMPLETENESS (WORKING+TEST) (%) : 95.3 REMARK 3 NUMBER OF REFLECTIONS : 44340 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) : 0.217 REMARK 3 FREE R VALUE : 0.252 REMARK 3 FREE R VALUE TEST SET SIZE (%) : 8.400 REMARK 3 FREE R VALUE TEST SET COUNT : 3734 REMARK 3 ESTIMATED ERROR OF FREE R VALUE : 0.004 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) : 2.40 REMARK 3 BIN RESOLUTION RANGE LOW (A) : 2.55 REMARK 3 BIN COMPLETENESS (WORKING+TEST) (%) : 75.40 REMARK 3 REFLECTIONS IN BIN (WORKING SET) : 5416 REMARK 3 BIN R VALUE (WORKING SET) : 0.3070 REMARK 3 BIN FREE R VALUE : 0.3580 REMARK 3 BIN FREE R VALUE TEST SET SIZE (%) : 8.40 REMARK 3 BIN FREE R VALUE TEST SET COUNT : 495 REMARK 3 ESTIMATED ERROR OF BIN FREE R VALUE : 0.016 REMARK 3 REMARK 3 NUMBER OF NON-HYDROGEN ATOMS USED IN REFINEMENT. REMARK 3 PROTEIN ATOMS : 4411 REMARK 3 NUCLEIC ACID ATOMS : 0 REMARK 3 HETEROGEN ATOMS : 64 REMARK 3 SOLVENT ATOMS : 167 REMARK 3 REMARK 3 B VALUES. REMARK 3 FROM WILSON PLOT (A**2) : 39.90 REMARK 3 MEAN B VALUE (OVERALL, A**2) : 44.90 REMARK 3 OVERALL ANISOTROPIC B VALUE. REMARK 3 B11 (A**2) : -0.24000 REMARK 3 B22 (A**2) : -0.24000 REMARK 3 B33 (A**2) : 0.47000 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) : 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) : 0.37 REMARK 3 ESD FROM C-V SIGMAA (A) : 0.38 REMARK 3 REMARK 3 RMS DEVIATIONS FROM IDEAL VALUES. REMARK 3 BOND LENGTHS (A) : 0.009 REMARK 3 BOND ANGLES (DEGREES) : 1.50 REMARK 3 DIHEDRAL ANGLES (DEGREES) : 22.60 REMARK 3 IMPROPER ANGLES (DEGREES) : 0.85 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) : 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 : FLAT MODEL REMARK 3 KSOL : 0.35 REMARK 3 BSOL : 45.44 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.PARAM REMARK 3 PARAMETER FILE 2 : DGTP_PRDRG.PARAM REMARK 3 PARAMETER FILE 3 : WATER.PARAM REMARK 3 PARAMETER FILE 4 : DTT.PARAM REMARK 3 PARAMETER FILE 5 : ION.PARAM REMARK 3 PARAMETER FILE 6 : NULL REMARK 3 TOPOLOGY FILE 1 : PROTEIN.TOP REMARK 3 TOPOLOGY FILE 2 : DGTP_PRDRG.TOP REMARK 3 TOPOLOGY FILE 3 : WATER.TOP REMARK 3 TOPOLOGY FILE 4 : ION.TOP REMARK 3 TOPOLOGY FILE 5 : NULL REMARK 3 TOPOLOGY FILE 6 : NULL REMARK 3 REMARK 3 OTHER REFINEMENT REMARKS: RESIDUES 1-25, 587-605 ARE NOT SEEN REMARK 3 IN THE DENSITY. THE C-TERMINAL DOMAIN BETWEEN RESIDUES 545 AND REMARK 3 575 IS NOT COMPLETELY REFINED REMARK 4 REMARK 4 1H77 COMPLIES WITH FORMAT V. 2.3, 09-JULY-1998 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY EBI ON 26-MAR-2002. REMARK 100 THE EBI ID CODE IS EBI-8251. REMARK 200 REMARK 200 EXPERIMENTAL DETAILS REMARK 200 EXPERIMENT TYPE : X-RAY DIFFRACTION REMARK 200 DATE OF DATA COLLECTION : 15-MAY-1999 REMARK 200 TEMPERATURE (KELVIN) : 100.0 REMARK 200 PH : 7.50 REMARK 200 NUMBER OF CRYSTALS USED : 1 REMARK 200 REMARK 200 SYNCHROTRON (Y/N) : Y REMARK 200 RADIATION SOURCE : MAX-LAB REMARK 200 BEAMLINE : I711 BEAMLINE I711 REMARK 200 X-RAY GENERATOR MODEL : NULL REMARK 200 MONOCHROMATIC OR LAUE (M/L) : M REMARK 200 WAVELENGTH OR RANGE (A) : 1.043 REMARK 200 MONOCHROMATOR : SI(111) REMARK 200 OPTICS : BENT MIRROR REMARK 200 REMARK 200 DETECTOR TYPE : MAR345 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 : 44361 REMARK 200 RESOLUTION RANGE HIGH (A) : 2.430 REMARK 200 RESOLUTION RANGE LOW (A) : 37.800 REMARK 200 REJECTION CRITERIA (SIGMA(I)) : 0.000 REMARK 200 REMARK 200 OVERALL. REMARK 200 COMPLETENESS FOR RANGE (%) : 95.6 REMARK 200 DATA REDUNDANCY : 3.700 REMARK 200 R MERGE (I) : 0.09600 REMARK 200 R SYM (I) : NULL REMARK 200 FOR THE DATA SET : 15.3000 REMARK 200 REMARK 200 IN THE HIGHEST RESOLUTION SHELL. REMARK 200 HIGHEST RESOLUTION SHELL, RANGE HIGH (A) : 2.43 REMARK 200 HIGHEST RESOLUTION SHELL, RANGE LOW (A) : 2.49 REMARK 200 COMPLETENESS FOR SHELL (%) : 94.1 REMARK 200 DATA REDUNDANCY IN SHELL : NULL REMARK 200 R MERGE FOR SHELL (I) : 0.27400 REMARK 200 R SYM FOR SHELL (I) : NULL REMARK 200 FOR SHELL : 3.800 REMARK 200 REMARK 200 DIFFRACTION PROTOCOL: SINGLE WAVELENGTH REMARK 200 METHOD USED TO DETERMINE THE STRUCTURE: OTHER REMARK 200 SOFTWARE USED: CNS REMARK 200 STARTING MODEL: 1B8B.PDB REMARK 200 REMARK 200 REMARK: NULL REMARK 280 REMARK 280 CRYSTAL REMARK 280 SOLVENT CONTENT, VS (%): 71.66 REMARK 280 MATTHEWS COEFFICIENT, VM (ANGSTROMS**3/DA): 4.34 REMARK 280 REMARK 280 CRYSTALLIZATION CONDITIONS: PH 7.50 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,1/2+Z REMARK 290 3555 1/2-Y,1/2+X,3/4+Z REMARK 290 4555 1/2+Y,1/2-X,1/4+Z REMARK 290 5555 1/2-X,1/2+Y,3/4-Z REMARK 290 6555 1/2+X,1/2-Y,1/4-Z REMARK 290 7555 Y,X,-Z REMARK 290 8555 -Y,-X,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 122.93800 REMARK 290 SMTRY1 3 0.000000 -1.000000 0.000000 49.01400 REMARK 290 SMTRY2 3 1.000000 0.000000 0.000000 49.01400 REMARK 290 SMTRY3 3 0.000000 0.000000 1.000000 184.40700 REMARK 290 SMTRY1 4 0.000000 1.000000 0.000000 49.01400 REMARK 290 SMTRY2 4 -1.000000 0.000000 0.000000 49.01400 REMARK 290 SMTRY3 4 0.000000 0.000000 1.000000 61.46900 REMARK 290 SMTRY1 5 -1.000000 0.000000 0.000000 49.01400 REMARK 290 SMTRY2 5 0.000000 1.000000 0.000000 49.01400 REMARK 290 SMTRY3 5 0.000000 0.000000 -1.000000 184.40700 REMARK 290 SMTRY1 6 1.000000 0.000000 0.000000 49.01400 REMARK 290 SMTRY2 6 0.000000 -1.000000 0.000000 49.01400 REMARK 290 SMTRY3 6 0.000000 0.000000 -1.000000 61.46900 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 122.93800 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 350 BIOMT1 2 0.000000 -1.000000 0.000000 98.02800 REMARK 350 BIOMT2 2 -1.000000 0.000000 0.000000 98.02800 REMARK 350 BIOMT3 2 0.000000 0.000000 -1.000000 122.93800 REMARK 350 APPLY THE FOLLOWING TO CHAINS: Z REMARK 350 BIOMT1 3 1.000000 0.000000 0.000000 0.00000 REMARK 350 BIOMT2 3 0.000000 1.000000 0.000000 0.00000 REMARK 350 BIOMT3 3 0.000000 0.000000 1.000000 0.00000 REMARK 375 REMARK 375 SPECIAL POSITION REMARK 375 THE FOLLOWING ATOMS ARE FOUND TO BE WITHIN 0.15 ANGSTROMS REMARK 375 OF A SYMMETRY RELATED ATOM AND ARE ASSUMED TO BE ON SPECIAL REMARK 375 POSITIONS. REMARK 375 REMARK 375 ATOM RES CSSEQI REMARK 375 HOH Z 4 LIES ON A SPECIAL POSITION. 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 THR A 2 REMARK 465 ILE A 3 REMARK 465 GLU A 4 REMARK 465 LYS A 5 REMARK 465 GLU A 6 REMARK 465 ILE A 7 REMARK 465 GLU A 8 REMARK 465 GLY A 9 REMARK 465 LEU A 10 REMARK 465 ILE A 11 REMARK 465 HIS A 12 REMARK 465 LYS A 13 REMARK 465 THR A 14 REMARK 465 ASN A 15 REMARK 465 LYS A 16 REMARK 465 ASP A 17 REMARK 465 LEU A 18 REMARK 465 LEU A 19 REMARK 465 ASN A 20 REMARK 465 GLU A 21 REMARK 465 ASN A 22 REMARK 465 ALA A 23 REMARK 465 ASN A 24 REMARK 465 LYS A 25 REMARK 465 GLU A 587 REMARK 465 ARG A 588 REMARK 465 GLY A 589 REMARK 465 PHE A 590 REMARK 465 ASN A 591 REMARK 465 LEU A 592 REMARK 465 GLY A 593 REMARK 465 LYS A 594 REMARK 465 ASN A 595 REMARK 465 LYS A 596 REMARK 465 GLU A 597 REMARK 465 ILE A 598 REMARK 465 MET A 599 REMARK 465 HIS A 600 REMARK 465 ARG A 601 REMARK 465 VAL A 602 REMARK 465 LYS A 603 REMARK 465 HIS A 604 REMARK 465 GLN A 605 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 87 SD MET A 87 CE -0.085 REMARK 500 MET A 236 SD MET A 236 CE -0.078 REMARK 500 MET A 288 SD MET A 288 CE 0.080 REMARK 500 MET A 423 SD MET A 423 CE -0.160 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 PRO A 72 C - N - CA ANGL. DEV. = 9.5 DEGREES REMARK 500 THR A 77 N - CA - C ANGL. DEV. = -9.6 DEGREES REMARK 500 LEU A 81 N - CA - C ANGL. DEV. =-10.3 DEGREES REMARK 500 ASN A 90 N - CA - C ANGL. DEV. =-10.2 DEGREES REMARK 500 GLN A 176 N - CA - C ANGL. DEV. = -8.9 DEGREES REMARK 500 THR A 192 N - CA - C ANGL. DEV. =-10.2 DEGREES REMARK 500 PHE A 194 N - CA - C ANGL. DEV. = -8.7 DEGREES REMARK 500 LYS A 233 N - CA - C ANGL. DEV. = -9.5 DEGREES REMARK 500 ASN A 243 N - CA - C ANGL. DEV. = 9.7 DEGREES REMARK 500 ASP A 268 N - CA - C ANGL. DEV. =-11.4 DEGREES REMARK 500 SER A 295 N - CA - C ANGL. DEV. = -8.9 DEGREES REMARK 500 VAL A 315 N - CA - C ANGL. DEV. =-10.8 DEGREES REMARK 500 ILE A 328 N - CA - C ANGL. DEV. =-10.5 DEGREES REMARK 500 TYR A 371 N - CA - C ANGL. DEV. = 9.4 DEGREES REMARK 500 GLU A 373 N - CA - C ANGL. DEV. = 9.5 DEGREES REMARK 500 GLY A 374 N - CA - C ANGL. DEV. = 12.3 DEGREES REMARK 500 SER A 398 N - CA - C ANGL. DEV. = 11.2 DEGREES REMARK 500 LEU A 399 N - CA - C ANGL. DEV. = -9.9 DEGREES REMARK 500 HIS A 530 N - CA - C ANGL. DEV. = 9.2 DEGREES REMARK 500 ARG A 577 N - CA - C ANGL. DEV. = -9.1 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 MET A 265 -63.70 73.23 REMARK 500 SER A 475 -103.21 31.14 REMARK 600 REMARK 600 HETEROGEN REMARK 600 REMARK 600 FOR METAL ATOM FE FE2 A1589 THE COORDINATION ANGLES ARE: REMARK 600 1 CYS 546A SG REMARK 600 2 CYS 564A SG 135.0 REMARK 600 3 CYS 561A SG 118.7 89.4 REMARK 600 1 2 REMARK 600 REMARK 600 FOR METAL ATOM MN MN A1590 THE COORDINATION ANGLES ARE: REMARK 600 1 DGT 1587A O2B REMARK 600 2 DGT 1587A O1G 73.4 REMARK 600 3 DGT 1587A O1A 97.3 100.5 REMARK 600 1 2 REMARK 800 REMARK 800 SITE REMARK 800 SITE_IDENTIFIER: DG1 REMARK 800 SITE_DESCRIPTION: DGT BINDING SITE FOR CHAIN A REMARK 800 REMARK 800 SITE_IDENTIFIER: DG2 REMARK 800 SITE_DESCRIPTION: DGT BINDING SITE FOR CHAIN A REMARK 800 REMARK 800 SITE_IDENTIFIER: FE2 REMARK 800 SITE_DESCRIPTION: FE2 BINDING SITE FOR CHAIN A REMARK 800 REMARK 800 SITE_IDENTIFIER: MN REMARK 800 SITE_DESCRIPTION: MN BINDING SITE FOR CHAIN A REMARK 900 REMARK 900 RELATED ENTRIES REMARK 900 RELATED ID: 1H78 RELATED DB: PDB REMARK 900 STRUCTURAL BASIS FOR ALLOSTERIC SUBSTRATE REMARK 900 SPECIFICITY REGULATION IN CLASS III REMARK 900 RIBONUCLEOTIDE REDUCTASES: NRDD IN COMPLEX REMARK 900 WITH DCTP. REMARK 900 RELATED ID: 1H79 RELATED DB: PDB REMARK 900 STRUCTURAL BASIS FOR ALLOSTERIC SUBSTRATE REMARK 900 SPECIFICITY REGULATION IN CLASS III REMARK 900 RIBONUCLEOTIDE REDUCTASES: NRDD IN COMPLEX REMARK 900 WITH DTTP REMARK 900 RELATED ID: 1H7A RELATED DB: PDB REMARK 900 STRUCTURAL BASIS FOR ALLOSTERIC SUBSTRATE REMARK 900 SPECIFICITY REGULATION IN CLASS III REMARK 900 RIBONUCLEOTIDE REDUCTASES: NRDD IN COMPLEX REMARK 900 WITH DATP. REMARK 900 RELATED ID: 1H7B RELATED DB: PDB REMARK 900 STRUCTURAL BASIS FOR ALLOSTERIC SUBSTRATE REMARK 900 SPECIFICITY REGULATION IN CLASS III REMARK 900 RIBONUCLEOTIDE REDUCTASES: NATIVE NRDD DBREF 1H77 A 1 605 UNP P07071 P07071 1 605 SEQADV 1H77 ALA A 580 UNP P07071 GLY 580 ENGINEERED MUTATION SEQRES 1 A 605 MET THR ILE GLU LYS GLU ILE GLU GLY LEU ILE HIS LYS SEQRES 2 A 605 THR ASN LYS ASP LEU LEU ASN GLU ASN ALA ASN LYS ASP SEQRES 3 A 605 SER ARG VAL PHE PRO THR GLN ARG ASP LEU MET ALA GLY SEQRES 4 A 605 ILE VAL SER LYS HIS ILE ALA LYS ASN MET VAL PRO SER SEQRES 5 A 605 PHE ILE MET LYS ALA HIS GLU SER GLY ILE ILE HIS VAL SEQRES 6 A 605 HIS ASP ILE ASP TYR SER PRO ALA LEU PRO PHE THR ASN SEQRES 7 A 605 CYS CYS LEU VAL ASP LEU LYS GLY MET LEU GLU ASN GLY SEQRES 8 A 605 PHE LYS LEU GLY ASN ALA GLN ILE GLU THR PRO LYS SER SEQRES 9 A 605 ILE GLY VAL ALA THR ALA ILE MET ALA GLN ILE THR ALA SEQRES 10 A 605 GLN VAL ALA SER HIS GLN TYR GLY GLY THR THR PHE ALA SEQRES 11 A 605 ASN VAL ASP LYS VAL LEU SER PRO TYR VAL LYS ARG THR SEQRES 12 A 605 TYR ALA LYS HIS ILE GLU ASP ALA GLU LYS TRP GLN ILE SEQRES 13 A 605 ALA ASP ALA LEU ASN TYR ALA GLN SER LYS THR GLU LYS SEQRES 14 A 605 ASP VAL TYR ASP ALA PHE GLN ALA TYR GLU TYR GLU VAL SEQRES 15 A 605 ASN THR LEU PHE SER SER ASN GLY GLN THR PRO PHE VAL SEQRES 16 A 605 THR ILE THR PHE GLY THR GLY THR ASP TRP THR GLU ARG SEQRES 17 A 605 MET ILE GLN LYS ALA ILE LEU LYS ASN ARG ILE LYS GLY SEQRES 18 A 605 LEU GLY ARG ASP GLY ILE THR PRO ILE PHE PRO LYS LEU SEQRES 19 A 605 VAL MET PHE VAL GLU GLU GLY VAL ASN LEU TYR LYS ASP SEQRES 20 A 605 ASP PRO ASN TYR ASP ILE LYS GLN LEU ALA LEU GLU CYS SEQRES 21 A 605 ALA SER LYS ARG MET TYR PRO ASP ILE ILE SER ALA LYS SEQRES 22 A 605 ASN ASN LYS ALA ILE THR GLY SER SER VAL PRO VAL SER SEQRES 23 A 605 PRO MET GLY CYS ARG SER PHE LEU SER VAL TRP LYS ASP SEQRES 24 A 605 SER THR GLY ASN GLU ILE LEU ASP GLY ARG ASN ASN LEU SEQRES 25 A 605 GLY VAL VAL THR LEU ASN LEU PRO ARG ILE ALA LEU ASP SEQRES 26 A 605 SER TYR ILE GLY THR GLN PHE ASN GLU GLN LYS PHE VAL SEQRES 27 A 605 GLU LEU PHE ASN GLU ARG MET ASP LEU CYS PHE GLU ALA SEQRES 28 A 605 LEU MET CYS ARG ILE SER SER LEU LYS GLY VAL LYS ALA SEQRES 29 A 605 THR VAL ALA PRO ILE LEU TYR GLN GLU GLY ALA PHE GLY SEQRES 30 A 605 VAL ARG LEU LYS PRO ASP ASP ASP ILE ILE GLU LEU PHE SEQRES 31 A 605 LYS ASN GLY ARG SER SER VAL SER LEU GLY TYR ILE GLY SEQRES 32 A 605 ILE HIS GLU LEU ASN ILE LEU VAL GLY ARG ASP ILE GLY SEQRES 33 A 605 ARG GLU ILE LEU THR LYS MET ASN ALA HIS LEU LYS GLN SEQRES 34 A 605 TRP THR GLU ARG THR GLY PHE ALA PHE SER LEU TYR SER SEQRES 35 A 605 THR PRO ALA GLU ASN LEU CYS TYR ARG PHE CYS LYS LEU SEQRES 36 A 605 ASP THR GLU LYS TYR GLY SER VAL LYS ASP VAL THR ASP SEQRES 37 A 605 LYS GLY TRP TYR THR ASN SER PHE HIS VAL SER VAL GLU SEQRES 38 A 605 GLU ASN ILE THR PRO PHE GLU LYS ILE SER ARG GLU ALA SEQRES 39 A 605 PRO TYR HIS PHE ILE ALA THR GLY GLY HIS ILE SER TYR SEQRES 40 A 605 VAL GLU LEU PRO ASP MET LYS ASN ASN LEU LYS GLY LEU SEQRES 41 A 605 GLU ALA VAL TRP ASP TYR ALA ALA GLN HIS LEU ASP TYR SEQRES 42 A 605 PHE GLY VAL ASN MET PRO VAL ASP LYS CYS PHE THR CYS SEQRES 43 A 605 GLY SER THR HIS GLU MET THR PRO THR GLU ASN GLY PHE SEQRES 44 A 605 VAL CYS SER ILE CYS GLY GLU THR ASP PRO LYS LYS MET SEQRES 45 A 605 ASN THR ILE ARG ARG THR CYS ALA TYR LEU GLY ASN PRO SEQRES 46 A 605 ASN GLU ARG GLY PHE ASN LEU GLY LYS ASN LYS GLU ILE SEQRES 47 A 605 MET HIS ARG VAL LYS HIS GLN HET FE2 A1589 1 HET MN A1590 1 HET DGT A1587 31 HET DGT A1588 31 HETNAM FE2 FE (II) ION HETNAM MN MANGANESE (II) ION HETNAM DGT 2'-DEOXYGUANOSINE-5'-TRIPHOSPHATE FORMUL 2 FE2 FE 2+ FORMUL 3 MN MN 2+ FORMUL 4 DGT 2(C10 H16 N5 O13 P3) FORMUL 6 HOH *167(H2 O1) HELIX 1 1 VAL A 29 VAL A 50 1 22 HELIX 2 2 PRO A 51 SER A 60 1 10 HELIX 3 3 ASP A 83 ASN A 90 1 8 HELIX 4 4 SER A 104 SER A 121 1 18 HELIX 5 5 ASN A 131 LEU A 136 1 6 HELIX 6 6 LEU A 136 TRP A 154 1 19 HELIX 7 7 ASP A 158 VAL A 182 1 25 HELIX 8 8 ASP A 204 GLY A 221 1 18 HELIX 9 9 ASN A 250 MET A 265 1 16 HELIX 10 10 ALA A 272 GLY A 280 1 9 HELIX 11 11 LEU A 319 ASP A 325 1 7 HELIX 12 12 ASN A 333 SER A 358 1 26 HELIX 13 13 ALA A 364 VAL A 366 5 3 HELIX 14 14 ALA A 367 GLN A 372 1 6 HELIX 15 15 ILE A 386 LYS A 391 1 6 HELIX 16 16 GLY A 403 GLY A 412 1 10 HELIX 17 17 ILE A 415 GLY A 435 1 21 HELIX 18 18 ASN A 447 GLY A 461 1 15 HELIX 19 19 THR A 485 PHE A 498 1 14 HELIX 20 20 ASN A 516 LEU A 531 1 16 HELIX 21 21 ASP A 568 LYS A 570 5 3 SHEET 1 AA 4 ILE A 63 VAL A 65 0 SHEET 2 AA 4 ASN A 311 ASN A 318 -1 O THR A 316 N HIS A 64 SHEET 3 AA 4 SER A 396 ILE A 402 1 O SER A 396 N LEU A 312 SHEET 4 AA 4 ALA A 437 SER A 442 1 O ALA A 437 N VAL A 397 SHEET 1 AB 7 CYS A 80 LEU A 81 0 SHEET 2 AB 7 THR A 127 PHE A 129 1 N THR A 128 O CYS A 80 SHEET 3 AB 7 VAL A 195 PHE A 199 1 O THR A 196 N PHE A 129 SHEET 4 AB 7 LYS A 233 VAL A 238 1 O LYS A 233 N ILE A 197 SHEET 5 AB 7 ASP A 268 SER A 271 1 O ASP A 268 N MET A 236 SHEET 6 AB 7 TYR A 533 ASN A 537 -1 O PHE A 534 N ILE A 269 SHEET 7 AB 7 SER A 506 GLU A 509 1 O SER A 506 N GLY A 535 SHEET 1 AC 2 PHE A 92 LEU A 94 0 SHEET 2 AC 2 ALA A 97 ILE A 99 -1 O ALA A 97 N LEU A 94 SHEET 1 AD 2 TYR A 327 ILE A 328 0 SHEET 2 AD 2 GLN A 331 PHE A 332 -1 O GLN A 331 N ILE A 328 SHEET 1 AE 2 VAL A 540 CYS A 543 0 SHEET 2 AE 2 MET A 572 ILE A 575 -1 O ASN A 573 N LYS A 542 SHEET 1 AF 2 THR A 553 THR A 555 0 SHEET 2 AF 2 GLY A 558 VAL A 560 -1 O GLY A 558 N THR A 555 LINK FE FE2 A1589 SG CYS A 546 LINK FE FE2 A1589 SG CYS A 564 LINK FE FE2 A1589 SG CYS A 561 LINK MN MN A1590 O1G DGT A1587 LINK MN MN A1590 O1A DGT A1587 LINK MN MN A1590 O2B DGT A1587 CISPEP 1 SER A 71 PRO A 72 0 0.43 CISPEP 2 PHE A 231 PRO A 232 0 -0.03 CISPEP 3 TYR A 266 PRO A 267 0 1.00 SITE 1 DG1 16 ILE A 99 GLU A 100 LYS A 103 ILE A 111 SITE 2 DG1 16 GLN A 114 LYS A 146 LYS A 169 ASP A 173 SITE 3 DG1 16 GLN A 176 ALA A 177 TYR A 180 GLU A 181 SITE 4 DG1 16 HOH Z 49 HOH Z 162 HOH Z 163 HOH Z 164 SITE 1 DG2 9 HIS A 64 HIS A 66 ASP A 67 GLU A 446 SITE 2 DG2 9 ASN A 447 LEU A 448 ARG A 451 HOH Z 165 SITE 3 DG2 9 HOH Z 167 SITE 1 FE2 4 CYS A 543 CYS A 546 CYS A 561 CYS A 564 SITE 1 MN 1 HOH Z 27 CRYST1 98.028 98.028 245.876 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 0.010201 0.000000 0.000000 0.00000 SCALE2 0.000000 0.010201 0.000000 0.00000 SCALE3 0.000000 0.000000 0.004067 0.00000