HEADER HYDROLASE(ENDORIBONUCLEASE) 21-OCT-91 1RND TITLE NEWLY OBSERVED BINDING MODE IN PANCREATIC RIBONUCLEASE COMPND MOL_ID: 1; COMPND 2 MOLECULE: RIBONUCLEASE A; COMPND 3 CHAIN: A; COMPND 4 EC: 3.1.27.5; COMPND 5 ENGINEERED: YES SOURCE MOL_ID: 1; SOURCE 2 ORGANISM_SCIENTIFIC: BOS TAURUS; SOURCE 3 ORGANISM_COMMON: CATTLE; SOURCE 4 ORGANISM_TAXID: 9913; SOURCE 5 ORGAN: PANCREAS KEYWDS HYDROLASE(ENDORIBONUCLEASE) EXPDTA X-RAY DIFFRACTION AUTHOR C.F.AGUILAR,P.J.THOMAS,A.MILLS,D.S.MOSS,R.A.PALMER REVDAT 5 16-OCT-24 1RND 1 REMARK REVDAT 4 29-NOV-17 1RND 1 HELIX REVDAT 3 13-JUL-11 1RND 1 VERSN REVDAT 2 24-FEB-09 1RND 1 VERSN REVDAT 1 31-JAN-94 1RND 0 JRNL AUTH C.F.AGUILAR,P.J.THOMAS,A.MILLS,D.S.MOSS,R.A.PALMER JRNL TITL NEWLY OBSERVED BINDING MODE IN PANCREATIC RIBONUCLEASE. JRNL REF J.MOL.BIOL. V. 224 265 1992 JRNL REFN ISSN 0022-2836 JRNL PMID 1548704 JRNL DOI 10.1016/0022-2836(92)90589-C REMARK 1 REMARK 1 REFERENCE 1 REMARK 1 AUTH C.F.AGUILAR,P.J.THOMAS,D.S.MOSS,A.MILLS,R.A.PALMER REMARK 1 TITL NOVEL NON-PRODUCTIVELY BOUND RIBONUCLEASE INHIBITOR REMARK 1 TITL 2 COMPLEXES-HIGH RESOLUTION X-RAY REFINEMENT STUDIES ON THE REMARK 1 TITL 3 BINDING OF RNASE-A TO CYTIDYLYL-2',5'-GUANOSINE (2',5'CPG) REMARK 1 TITL 4 AND DEOXYCYTIDYLYL-3',5'-GUANOSINE (3',5'DCPDG) REMARK 1 REF BIOCHIM.BIOPHYS.ACTA V.1118 6 1991 REMARK 1 REFN ISSN 0006-3002 REMARK 1 REFERENCE 2 REMARK 1 AUTH B.HOWLIN,G.W.HARRIS,D.S.MOSS,R.A.PALMER REMARK 1 TITL X-RAY REFINEMENT STUDY ON THE BINDING OF CYTIDYLIC ACID REMARK 1 TITL 2 (2'-CMP) TO RIBONUCLEASE-A REMARK 1 REF J.MOL.BIOL. V. 196 159 1987 REMARK 1 REFN ISSN 0022-2836 REMARK 1 REFERENCE 3 REMARK 1 AUTH R.A.PALMER,D.S.MOSS,I.HANEEF,N.BORKAKOTI REMARK 1 TITL AN X-RAY REFINEMENT STUDY ON THE BINDING OF RIBONUCLEASE-A REMARK 1 TITL 2 TO CYTIDINE-N(3)-OXIDE 2'-PHOSPHATE REMARK 1 REF BIOCHIM.BIOPHYS.ACTA V. 785 81 1984 REMARK 1 REFN ISSN 0006-3002 REMARK 1 REFERENCE 4 REMARK 1 AUTH N.BORKAKOTI,D.S.MOSS,M.J.STANFORD,R.A.PALMER REMARK 1 TITL THE REFINED STRUCTURE OF RIBONUCLEASE-A AT 1.45 ANGSTROMS REMARK 1 TITL 2 RESOLUTION REMARK 1 REF J.CRYSTALLOGR.SPECTROSC.RES. V. 14 467 1984 REMARK 1 REFN ISSN 0277-8068 REMARK 2 REMARK 2 RESOLUTION. 1.50 ANGSTROMS. REMARK 3 REMARK 3 REFINEMENT. REMARK 3 PROGRAM : RESTRAIN REMARK 3 AUTHORS : MOSS,DRIESSEN,HANEEF,HOWLIN,HARRIS REMARK 3 REMARK 3 DATA USED IN REFINEMENT. REMARK 3 RESOLUTION RANGE HIGH (ANGSTROMS) : 1.50 REMARK 3 RESOLUTION RANGE LOW (ANGSTROMS) : NULL REMARK 3 DATA CUTOFF (SIGMA(F)) : NULL REMARK 3 COMPLETENESS FOR RANGE (%) : NULL REMARK 3 NUMBER OF REFLECTIONS : 16347 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 + TEST SET) : 0.190 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 REMARK 3 FIT/AGREEMENT OF MODEL WITH ALL DATA. REMARK 3 R VALUE (WORKING + TEST SET, NO CUTOFF) : NULL REMARK 3 R VALUE (WORKING SET, NO CUTOFF) : NULL REMARK 3 FREE R VALUE (NO CUTOFF) : NULL REMARK 3 FREE R VALUE TEST SET SIZE (%, NO CUTOFF) : NULL REMARK 3 FREE R VALUE TEST SET COUNT (NO CUTOFF) : NULL REMARK 3 TOTAL NUMBER OF REFLECTIONS (NO CUTOFF) : NULL REMARK 3 REMARK 3 NUMBER OF NON-HYDROGEN ATOMS USED IN REFINEMENT. REMARK 3 PROTEIN ATOMS : 934 REMARK 3 NUCLEIC ACID ATOMS : 0 REMARK 3 HETEROGEN ATOMS : 28 REMARK 3 SOLVENT ATOMS : 96 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 RMS DEVIATIONS FROM IDEAL VALUES. REMARK 3 DISTANCE RESTRAINTS. RMS SIGMA REMARK 3 BOND LENGTH (A) : 0.023 ; NULL REMARK 3 ANGLE DISTANCE (A) : NULL ; NULL REMARK 3 INTRAPLANAR 1-4 DISTANCE (A) : NULL ; NULL REMARK 3 H-BOND OR METAL COORDINATION (A) : NULL ; NULL REMARK 3 REMARK 3 PLANE RESTRAINT (A) : NULL ; NULL REMARK 3 CHIRAL-CENTER RESTRAINT (A**3) : NULL ; NULL REMARK 3 REMARK 3 NON-BONDED CONTACT RESTRAINTS. REMARK 3 SINGLE TORSION (A) : NULL ; NULL REMARK 3 MULTIPLE TORSION (A) : NULL ; NULL REMARK 3 H-BOND (X...Y) (A) : NULL ; NULL REMARK 3 H-BOND (X-H...Y) (A) : NULL ; NULL REMARK 3 REMARK 3 CONFORMATIONAL TORSION ANGLE RESTRAINTS. REMARK 3 SPECIFIED (DEGREES) : NULL ; NULL REMARK 3 PLANAR (DEGREES) : NULL ; NULL REMARK 3 STAGGERED (DEGREES) : NULL ; NULL REMARK 3 TRANSVERSE (DEGREES) : NULL ; 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 OTHER REFINEMENT REMARKS: REMARK 3 THE INHIBITOR AND SULFATE ANION WERE REFINED USING GROUP REMARK 3 OCCUPANCIES. REMARK 4 REMARK 4 1RND 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_1000176134. 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 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 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 (%): 43.28 REMARK 280 MATTHEWS COEFFICIENT, VM (ANGSTROMS**3/DA): 2.17 REMARK 280 REMARK 280 CRYSTALLIZATION CONDITIONS: NULL REMARK 290 REMARK 290 CRYSTALLOGRAPHIC SYMMETRY REMARK 290 SYMMETRY OPERATORS FOR SPACE GROUP: P 1 21 1 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 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 19.09500 REMARK 290 SMTRY3 2 0.000000 0.000000 -1.000000 0.00000 REMARK 290 REMARK 290 REMARK: NULL REMARK 300 REMARK 300 BIOMOLECULE: 1 REMARK 300 SEE REMARK 350 FOR THE AUTHOR PROVIDED AND/OR PROGRAM REMARK 300 GENERATED ASSEMBLY INFORMATION FOR THE STRUCTURE IN REMARK 300 THIS ENTRY. THE REMARK MAY ALSO PROVIDE INFORMATION ON REMARK 300 BURIED SURFACE AREA. REMARK 350 REMARK 350 COORDINATES FOR A COMPLETE MULTIMER REPRESENTING THE KNOWN REMARK 350 BIOLOGICALLY SIGNIFICANT OLIGOMERIZATION STATE OF THE REMARK 350 MOLECULE CAN BE GENERATED BY APPLYING BIOMT TRANSFORMATIONS REMARK 350 GIVEN BELOW. BOTH NON-CRYSTALLOGRAPHIC AND REMARK 350 CRYSTALLOGRAPHIC OPERATIONS ARE GIVEN. REMARK 350 REMARK 350 BIOMOLECULE: 1 REMARK 350 AUTHOR DETERMINED BIOLOGICAL UNIT: 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 400 REMARK 400 COMPOUND REMARK 400 THE MOST INTERESTING FEATURE IN THIS STRUCTURE IS THE MODE REMARK 400 OF BINDING OF THE DCPDG INHIBITOR TO THE ENZYME. REMARK 400 REMARK 400 THE ACTIVE SITE OF THE ENZYME WAS LABELLED B1, P1, B2 REMARK 400 (FOLLOWING F.M.RICHARDS AND H.W.WYCKOFF (1973) IN "ATLAS OF REMARK 400 MOLECULAR STRUCTURES IN BIOLOGY - I: RIBONUCLEASE-S" D.C. REMARK 400 PHILLIPS AND F.M.RICHARDS (EDS.) CLARENDON, OXFORD) WHERE REMARK 400 P1 IS THE SITE AT WHICH THE PHOSPHODIESTER BOND IS CLEAVED REMARK 400 AND IS OCCUPIED BY THE INORGANIC PHOSPHATE (OR SULFATE) REMARK 400 IN THE NATIVE STRUCTURE. B1 IS THE SITE AT WHICH BASE REMARK 400 IDENTIFICATION IS MADE THROUGH THR 45, BEING A SPECIFIC REMARK 400 BINDING PLACE FOR PYRIMIDINE BASES. B2 IS THE SECOND REMARK 400 BINDING PLACE FOR EITHER PURINE OR PYRIMIDINES. REMARK 400 REMARK 400 IN THIS STRUCTURE THE GUANINE BASE OF DCPDG BINDS TO THR REMARK 400 45 IN THE B1 SITE AND THE PHOSPHATE/SULFATE IN P1 (WHICH REMARK 400 IS NOT DISPLACED BY THE INHIBITOR), WITH THE CPG MOLECULE REMARK 400 PROTRUDING 'BACKWARDS' AWAY FROM THE ACTIVE SITE TOWARD REMARK 400 THE OUTSIDE OF THE RIBONUCLEASE MOLECULAR SURFACE. 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 LYS A 1 CG CD CE NZ REMARK 470 SER A 21 OG REMARK 470 LYS A 31 CG CD CE NZ REMARK 470 LYS A 37 CG CD CE NZ REMARK 470 LYS A 66 CG CD CE NZ 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 GLU A 86 CD GLU A 86 OE2 -0.069 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 GLU A 2 N - CA - CB ANGL. DEV. = -12.2 DEGREES REMARK 500 ARG A 10 CD - NE - CZ ANGL. DEV. = 8.8 DEGREES REMARK 500 ARG A 10 NE - CZ - NH1 ANGL. DEV. = -4.0 DEGREES REMARK 500 ARG A 10 NE - CZ - NH2 ANGL. DEV. = 5.8 DEGREES REMARK 500 SER A 15 N - CA - CB ANGL. DEV. = -9.6 DEGREES REMARK 500 SER A 16 CB - CA - C ANGL. DEV. = 13.6 DEGREES REMARK 500 THR A 17 O - C - N ANGL. DEV. = -10.5 DEGREES REMARK 500 SER A 18 N - CA - CB ANGL. DEV. = -11.6 DEGREES REMARK 500 ASN A 24 CB - CG - OD1 ANGL. DEV. = -15.1 DEGREES REMARK 500 TYR A 25 CB - CG - CD2 ANGL. DEV. = -4.3 DEGREES REMARK 500 ARG A 39 CG - CD - NE ANGL. DEV. = -12.8 DEGREES REMARK 500 ARG A 39 CD - NE - CZ ANGL. DEV. = -12.4 DEGREES REMARK 500 ARG A 39 NH1 - CZ - NH2 ANGL. DEV. = 7.5 DEGREES REMARK 500 ARG A 39 NE - CZ - NH2 ANGL. DEV. = -8.8 DEGREES REMARK 500 GLU A 49 OE1 - CD - OE2 ANGL. DEV. = -9.1 DEGREES REMARK 500 LEU A 51 CB - CG - CD1 ANGL. DEV. = 15.8 DEGREES REMARK 500 ALA A 56 N - CA - CB ANGL. DEV. = 9.0 DEGREES REMARK 500 TYR A 73 CB - CG - CD2 ANGL. DEV. = -4.9 DEGREES REMARK 500 TYR A 76 CB - CG - CD2 ANGL. DEV. = -5.0 DEGREES REMARK 500 TYR A 76 CG - CD2 - CE2 ANGL. DEV. = -6.6 DEGREES REMARK 500 ASP A 83 CB - CG - OD1 ANGL. DEV. = -7.3 DEGREES REMARK 500 ARG A 85 CD - NE - CZ ANGL. DEV. = 10.0 DEGREES REMARK 500 ARG A 85 NE - CZ - NH1 ANGL. DEV. = 7.3 DEGREES REMARK 500 ARG A 85 NE - CZ - NH2 ANGL. DEV. = -3.7 DEGREES REMARK 500 GLU A 86 OE1 - CD - OE2 ANGL. DEV. = 8.8 DEGREES REMARK 500 TYR A 92 CB - CG - CD2 ANGL. DEV. = -4.5 DEGREES REMARK 500 TYR A 97 CB - CG - CD2 ANGL. DEV. = -5.3 DEGREES REMARK 500 ASN A 113 N - CA - CB ANGL. DEV. = 16.2 DEGREES REMARK 500 VAL A 116 CA - CB - CG2 ANGL. DEV. = 9.1 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 HIS A 48 60.15 -102.75 REMARK 500 GLN A 60 -143.49 -109.48 REMARK 500 ASN A 71 30.52 -92.42 REMARK 500 REMARK 500 REMARK: NULL REMARK 500 REMARK 500 GEOMETRY AND STEREOCHEMISTRY REMARK 500 SUBTOPIC: PLANAR GROUPS REMARK 500 REMARK 500 PLANAR GROUPS IN THE FOLLOWING RESIDUES HAVE A TOTAL REMARK 500 RMS DISTANCE OF ALL ATOMS FROM THE BEST-FIT PLANE REMARK 500 BY MORE THAN AN EXPECTED VALUE OF 6*RMSD, WITH AN REMARK 500 RMSD 0.02 ANGSTROMS, OR AT LEAST ONE ATOM HAS REMARK 500 AN RMSD GREATER THAN THIS VALUE REMARK 500 (M=MODEL NUMBER; RES=RESIDUE NAME; C=CHAIN IDENTIFIER; REMARK 500 SSEQ=SEQUENCE NUMBER; I=INSERTION CODE). REMARK 500 REMARK 500 M RES CSSEQI RMS TYPE REMARK 500 ARG A 85 0.09 SIDE CHAIN REMARK 500 REMARK 500 REMARK: NULL REMARK 600 REMARK 600 HETEROGEN REMARK 600 REMARK 600 THE ATOMIC COORDINATES FOR THE DEOXYCYTIDINE PART OF DCPDG REMARK 600 ARE NOT INCLUDED IN THIS DATA SET BECAUSE THE ELECTRON REMARK 600 DENSITY FOR THIS PART OF THE MOLECULE WAS NOT WELL DEFINED REMARK 600 DUE TO LACK OF INTERACTIONS. REMARK 800 REMARK 800 SITE REMARK 800 SITE_IDENTIFIER: P1 REMARK 800 EVIDENCE_CODE: UNKNOWN REMARK 800 SITE_DESCRIPTION: NULL REMARK 800 REMARK 800 SITE_IDENTIFIER: B1 REMARK 800 EVIDENCE_CODE: UNKNOWN REMARK 800 SITE_DESCRIPTION: NULL REMARK 800 REMARK 800 SITE_IDENTIFIER: B2 REMARK 800 EVIDENCE_CODE: UNKNOWN REMARK 800 SITE_DESCRIPTION: NULL REMARK 800 REMARK 800 SITE_IDENTIFIER: AC1 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE SO4 A 125 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC2 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE DGP A 126 DBREF 1RND A 1 124 UNP P61823 RNAS1_BOVIN 27 150 SEQRES 1 A 124 LYS GLU THR ALA ALA ALA LYS PHE GLU ARG GLN HIS MET SEQRES 2 A 124 ASP SER SER THR SER ALA ALA SER SER SER ASN TYR CYS SEQRES 3 A 124 ASN GLN MET MET LYS SER ARG ASN LEU THR LYS ASP ARG SEQRES 4 A 124 CYS LYS PRO VAL ASN THR PHE VAL HIS GLU SER LEU ALA SEQRES 5 A 124 ASP VAL GLN ALA VAL CYS SER GLN LYS ASN VAL ALA CYS SEQRES 6 A 124 LYS ASN GLY GLN THR ASN CYS TYR GLN SER TYR SER THR SEQRES 7 A 124 MET SER ILE THR ASP CYS ARG GLU THR GLY SER SER LYS SEQRES 8 A 124 TYR PRO ASN CYS ALA TYR LYS THR THR GLN ALA ASN LYS SEQRES 9 A 124 HIS ILE ILE VAL ALA CYS GLU GLY ASN PRO TYR VAL PRO SEQRES 10 A 124 VAL HIS PHE ASP ALA SER VAL HET SO4 A 125 5 HET DGP A 126 23 HETNAM SO4 SULFATE ION HETNAM DGP 2'-DEOXYGUANOSINE-5'-MONOPHOSPHATE FORMUL 2 SO4 O4 S 2- FORMUL 3 DGP C10 H14 N5 O7 P FORMUL 4 HOH *96(H2 O) HELIX 1 H1 THR A 3 MET A 13 1 11 HELIX 2 H2 ASN A 24 ARG A 33 1 10 HELIX 3 H3 SER A 50 ALA A 56 1 7 HELIX 4 H4 VAL A 57 GLN A 60 5SINGLE TURN OF 3/10 4 SHEET 1 S1 3 VAL A 43 VAL A 47 0 SHEET 2 S1 3 MET A 79 GLU A 86 -1 N THR A 82 O PHE A 46 SHEET 3 S1 3 TYR A 97 LYS A 104 -1 N ALA A 102 O ILE A 81 SHEET 1 S2 4 LYS A 61 VAL A 63 0 SHEET 2 S2 4 CYS A 72 GLN A 74 -1 N GLN A 74 O LYS A 61 SHEET 3 S2 4 LYS A 104 GLU A 111 -1 N VAL A 108 O TYR A 73 SHEET 4 S2 4 VAL A 116 VAL A 124 -1 O VAL A 116 N GLU A 111 SSBOND 1 CYS A 26 CYS A 84 1555 1555 2.07 SSBOND 2 CYS A 40 CYS A 95 1555 1555 2.03 SSBOND 3 CYS A 58 CYS A 110 1555 1555 2.01 SSBOND 4 CYS A 65 CYS A 72 1555 1555 2.01 CISPEP 1 TYR A 92 PRO A 93 0 7.80 CISPEP 2 ASN A 113 PRO A 114 0 6.61 SITE 1 P1 4 HIS A 12 HIS A 119 LYS A 41 GLN A 11 SITE 1 B1 2 THR A 45 PHE A 120 SITE 1 B2 3 GLN A 69 ASN A 71 GLU A 111 SITE 1 AC1 8 GLN A 11 HIS A 12 LYS A 41 HIS A 119 SITE 2 AC1 8 PHE A 120 DGP A 126 HOH A 172 HOH A 181 SITE 1 AC2 10 HIS A 12 ASN A 44 THR A 45 ARG A 85 SITE 2 AC2 10 PHE A 120 ASP A 121 SO4 A 125 HOH A 212 SITE 3 AC2 10 HOH A 213 HOH A 216 CRYST1 30.340 38.190 53.370 90.00 105.90 90.00 P 1 21 1 2 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 0.032960 0.000000 0.009389 0.00000 SCALE2 0.000000 0.026185 0.000000 0.00000 SCALE3 0.000000 0.000000 0.019482 0.00000