HEADER HYDROLASE 26-JAN-10 3LJD TITLE THE X-RAY STRUCTURE OF ZEBRAFISH RNASE1 FROM A NEW CRYSTAL FORM AT PH TITLE 2 4.5 COMPND MOL_ID: 1; COMPND 2 MOLECULE: ZEBRAFISH RNASE1; COMPND 3 CHAIN: A, B; COMPND 4 ENGINEERED: YES SOURCE MOL_ID: 1; SOURCE 2 ORGANISM_SCIENTIFIC: DANIO RERIO; SOURCE 3 ORGANISM_COMMON: ZEBRAFISH; SOURCE 4 ORGANISM_TAXID: 7955; SOURCE 5 EXPRESSION_SYSTEM: ESCHERICHIA COLI; SOURCE 6 EXPRESSION_SYSTEM_TAXID: 562 KEYWDS ANGIOGENINS, FISH RNASES, HYDROLASE EXPDTA X-RAY DIFFRACTION AUTHOR I.RUSSO KRAUSS,A.MERLINO,L.MAZZARELLA,F.SICA REVDAT 4 06-SEP-23 3LJD 1 REMARK DBREF REVDAT 3 24-JAN-18 3LJD 1 JRNL REVDAT 2 05-JAN-11 3LJD 1 JRNL REVDAT 1 08-DEC-10 3LJD 0 JRNL AUTH E.PIZZO,A.MERLINO,M.TURANO,I.RUSSO KRAUSS,F.COSCIA, JRNL AUTH 2 A.ZANFARDINO,M.VARCAMONTI,A.FURIA,C.GIANCOLA,L.MAZZARELLA, JRNL AUTH 3 F.SICA,G.D'ALESSIO JRNL TITL A NEW RNASE SHEDS LIGHT ON THE RNASE/ANGIOGENIN SUBFAMILY JRNL TITL 2 FROM ZEBRAFISH. JRNL REF BIOCHEM.J. V. 433 345 2010 JRNL REFN ISSN 0264-6021 JRNL PMID 21050179 JRNL DOI 10.1042/BJ20100892 REMARK 1 REMARK 1 REFERENCE 1 REMARK 1 AUTH E.PIZZO,P.BUONANNO,A.DI MARO,S.PONTICELLI,S.DE FALCO, REMARK 1 AUTH 2 N.QUARTO,M.V.CUBELLIS,G.D'ALESSIO REMARK 1 TITL RIBONUCLEASES AND ANGIOGENINS FROM FISH REMARK 1 REF J.BIOL.CHEM. V. 281 27454 2006 REMARK 1 REFN ISSN 0021-9258 REMARK 2 REMARK 2 RESOLUTION. 1.38 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 : ENGH & HUBER REMARK 3 REMARK 3 DATA USED IN REFINEMENT. REMARK 3 RESOLUTION RANGE HIGH (ANGSTROMS) : 1.38 REMARK 3 RESOLUTION RANGE LOW (ANGSTROMS) : 30.00 REMARK 3 DATA CUTOFF (SIGMA(F)) : 2.000 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 : 36128 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) : 0.148 REMARK 3 FREE R VALUE : 0.182 REMARK 3 FREE R VALUE TEST SET SIZE (%) : NULL REMARK 3 FREE R VALUE TEST SET COUNT : 4052 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 : 2000 REMARK 3 NUCLEIC ACID ATOMS : 0 REMARK 3 HETEROGEN ATOMS : 44 REMARK 3 SOLVENT ATOMS : 409 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 : ISOTROPIC 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 3LJD COMPLIES WITH FORMAT V. 3.30, 13-JUL-11 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY RCSB ON 07-FEB-10. REMARK 100 THE DEPOSITION ID IS D_1000057349. REMARK 200 REMARK 200 EXPERIMENTAL DETAILS REMARK 200 EXPERIMENT TYPE : X-RAY DIFFRACTION REMARK 200 DATE OF DATA COLLECTION : 16-NOV-08 REMARK 200 TEMPERATURE (KELVIN) : 100 REMARK 200 PH : 4.5 REMARK 200 NUMBER OF CRYSTALS USED : 1 REMARK 200 REMARK 200 SYNCHROTRON (Y/N) : Y REMARK 200 RADIATION SOURCE : ELETTRA REMARK 200 BEAMLINE : 5.2R REMARK 200 X-RAY GENERATOR MODEL : NULL REMARK 200 MONOCHROMATIC OR LAUE (M/L) : M REMARK 200 WAVELENGTH OR RANGE (A) : 1.000 REMARK 200 MONOCHROMATOR : GRAPHITE REMARK 200 OPTICS : MIRRORS REMARK 200 REMARK 200 DETECTOR TYPE : CCD REMARK 200 DETECTOR MANUFACTURER : MAR CCD 165 MM REMARK 200 INTENSITY-INTEGRATION SOFTWARE : HKL-2000 REMARK 200 DATA SCALING SOFTWARE : HKL-2000 REMARK 200 REMARK 200 NUMBER OF UNIQUE REFLECTIONS : 41877 REMARK 200 RESOLUTION RANGE HIGH (A) : 1.380 REMARK 200 RESOLUTION RANGE LOW (A) : 30.000 REMARK 200 REJECTION CRITERIA (SIGMA(I)) : 0.000 REMARK 200 REMARK 200 OVERALL. REMARK 200 COMPLETENESS FOR RANGE (%) : 89.7 REMARK 200 DATA REDUNDANCY : 3.200 REMARK 200 R MERGE (I) : 0.04900 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: SINGLE WAVELENGTH REMARK 200 METHOD USED TO DETERMINE THE STRUCTURE: MOLECULAR REPLACEMENT REMARK 200 SOFTWARE USED: PHASER REMARK 200 STARTING MODEL: 1AGI REMARK 200 REMARK 200 REMARK: NULL REMARK 280 REMARK 280 CRYSTAL REMARK 280 SOLVENT CONTENT, VS (%): 36.52 REMARK 280 MATTHEWS COEFFICIENT, VM (ANGSTROMS**3/DA): 1.94 REMARK 280 REMARK 280 CRYSTALLIZATION CONDITIONS: DROPS WERE PREPARED BY MIXING EQUAL REMARK 280 VOLUMES OF PROTEIN SOLUTION (15 MG/ML) AND RESERVOIR SOLUTION REMARK 280 (2M AMMONIUM SULPHATE AND 0.1M SODIUM ACETATE), PH 4.5, VAPOR REMARK 280 DIFFUSION, 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 -X+1/2,-Y,Z+1/2 REMARK 290 3555 -X,Y+1/2,-Z+1/2 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 20.66950 REMARK 290 SMTRY2 2 0.000000 -1.000000 0.000000 0.00000 REMARK 290 SMTRY3 2 0.000000 0.000000 1.000000 54.95650 REMARK 290 SMTRY1 3 -1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY2 3 0.000000 1.000000 0.000000 24.48550 REMARK 290 SMTRY3 3 0.000000 0.000000 -1.000000 54.95650 REMARK 290 SMTRY1 4 1.000000 0.000000 0.000000 20.66950 REMARK 290 SMTRY2 4 0.000000 -1.000000 0.000000 24.48550 REMARK 290 SMTRY3 4 0.000000 0.000000 -1.000000 0.00000 REMARK 290 REMARK 290 REMARK: NULL REMARK 300 REMARK 300 BIOMOLECULE: 1, 2, 3 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 350 REMARK 350 BIOMOLECULE: 2 REMARK 350 AUTHOR DETERMINED BIOLOGICAL UNIT: MONOMERIC REMARK 350 APPLY THE FOLLOWING TO CHAINS: B 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 REMARK 350 BIOMOLECULE: 3 REMARK 350 SOFTWARE DETERMINED QUATERNARY STRUCTURE: DIMERIC REMARK 350 SOFTWARE USED: PISA REMARK 350 TOTAL BURIED SURFACE AREA: 1330 ANGSTROM**2 REMARK 350 SURFACE AREA OF THE COMPLEX: 13160 ANGSTROM**2 REMARK 350 CHANGE IN SOLVENT FREE ENERGY: -6.0 KCAL/MOL 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 APPLY THE FOLLOWING TO CHAINS: B REMARK 350 BIOMT1 2 -1.000000 0.000000 0.000000 62.00850 REMARK 350 BIOMT2 2 0.000000 -1.000000 0.000000 0.00000 REMARK 350 BIOMT3 2 0.000000 0.000000 1.000000 -54.95650 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 MET B 3 CB CG SD CE 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 B 7 O HOH B 3178 2.19 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 O HOH A 3223 O HOH B 3339 3746 2.18 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 ARG A 25 NE - CZ - NH1 ANGL. DEV. = 5.3 DEGREES REMARK 500 ARG A 35 NE - CZ - NH1 ANGL. DEV. = 4.2 DEGREES REMARK 500 ARG A 35 NE - CZ - NH2 ANGL. DEV. = -7.2 DEGREES REMARK 500 ASP A 43 CB - CG - OD1 ANGL. DEV. = 5.4 DEGREES REMARK 500 ARG A 103 NE - CZ - NH2 ANGL. DEV. = -4.3 DEGREES REMARK 500 ARG B 35 NE - CZ - NH1 ANGL. DEV. = -3.9 DEGREES REMARK 500 ARG B 58 NE - CZ - NH1 ANGL. DEV. = 3.0 DEGREES REMARK 500 ARG B 103 NE - CZ - NH2 ANGL. DEV. = -3.2 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 34 -104.73 -133.36 REMARK 500 ASN A 44 14.78 -151.82 REMARK 500 ASN B 34 -104.00 -134.69 REMARK 500 PRO B 95 33.96 -94.76 REMARK 500 REMARK 500 REMARK: NULL REMARK 800 REMARK 800 SITE REMARK 800 SITE_IDENTIFIER: AC1 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE SO4 A 3000 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC2 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE SO4 A 3001 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC3 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE SO4 A 3002 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC4 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE SO4 A 3006 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC5 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE ACT B 5000 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC6 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE SO4 B 3003 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC7 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE SO4 B 3004 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC8 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE SO4 B 3005 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC9 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE SO4 B 3007 REMARK 900 REMARK 900 RELATED ENTRIES REMARK 900 RELATED ID: 2VQ8 RELATED DB: PDB REMARK 900 THE X-RAY STRUCTURE OF ZEBRAFISH RNASE 1 REMARK 900 RELATED ID: 2VQ9 RELATED DB: PDB REMARK 900 THE X-RAY STRUCTURE OF ZEBRAFISH RNASE 3 REMARK 900 RELATED ID: 3LJE RELATED DB: PDB REMARK 900 THE X-RAY STRUCTURE OF ZEBRAFISH RNASE5 REMARK 900 RELATED ID: 3LN8 RELATED DB: PDB REMARK 900 THE X-RAY STRUCTURE OF ZF-RNASE-1 FROM A NEW CRYSTAL FORM AT PH 7.3 DBREF 3LJD A 3 128 PDB 3LJD 3LJD 3 128 DBREF 3LJD B 3 128 PDB 3LJD 3LJD 3 128 SEQRES 1 A 126 MET HIS VAL LYS GLU ARG TYR LYS ASN PHE LEU ASN GLN SEQRES 2 A 126 HIS VAL GLY PRO ASP MET SER VAL GLN ARG CYS ASN SER SEQRES 3 A 126 GLU ILE GLY PRO ASN ASN ARG LYS ILE THR LEU SER GLY SEQRES 4 A 126 THR ASP ASN GLY CYS LYS PRO VAL ASN THR PHE ILE LEU SEQRES 5 A 126 ALA ASN LYS ARG LEU ILE LYS THR VAL CYS GLY ARG ALA SEQRES 6 A 126 GLY SER PRO GLN GLY ASN MET VAL ARG SER ASN GLN PRO SEQRES 7 A 126 PHE PRO VAL VAL LYS CYS VAL LEU ASN ASN GLY GLU ARG SEQRES 8 A 126 HIS PRO TYR CYS GLU TYR ARG GLY THR ARG SER THR ARG SEQRES 9 A 126 TYR ILE VAL LEU LYS CYS GLU GLU GLY TRP PRO VAL HIS SEQRES 10 A 126 TYR HIS GLU ASP GLU VAL ASN VAL GLY SEQRES 1 B 126 MET HIS VAL LYS GLU ARG TYR LYS ASN PHE LEU ASN GLN SEQRES 2 B 126 HIS VAL GLY PRO ASP MET SER VAL GLN ARG CYS ASN SER SEQRES 3 B 126 GLU ILE GLY PRO ASN ASN ARG LYS ILE THR LEU SER GLY SEQRES 4 B 126 THR ASP ASN GLY CYS LYS PRO VAL ASN THR PHE ILE LEU SEQRES 5 B 126 ALA ASN LYS ARG LEU ILE LYS THR VAL CYS GLY ARG ALA SEQRES 6 B 126 GLY SER PRO GLN GLY ASN MET VAL ARG SER ASN GLN PRO SEQRES 7 B 126 PHE PRO VAL VAL LYS CYS VAL LEU ASN ASN GLY GLU ARG SEQRES 8 B 126 HIS PRO TYR CYS GLU TYR ARG GLY THR ARG SER THR ARG SEQRES 9 B 126 TYR ILE VAL LEU LYS CYS GLU GLU GLY TRP PRO VAL HIS SEQRES 10 B 126 TYR HIS GLU ASP GLU VAL ASN VAL GLY HET SO4 A3000 5 HET SO4 A3001 5 HET SO4 A3002 5 HET SO4 A3006 5 HET ACT B5000 4 HET SO4 B3003 5 HET SO4 B3004 5 HET SO4 B3005 5 HET SO4 B3007 5 HETNAM SO4 SULFATE ION HETNAM ACT ACETATE ION FORMUL 3 SO4 8(O4 S 2-) FORMUL 7 ACT C2 H3 O2 1- FORMUL 12 HOH *409(H2 O) HELIX 1 1 HIS A 4 VAL A 17 1 14 HELIX 2 2 SER A 22 GLN A 24 5 3 HELIX 3 3 ARG A 25 GLY A 31 1 7 HELIX 4 4 ASN A 56 THR A 62 1 7 HELIX 5 5 VAL A 63 GLY A 65 5 3 HELIX 6 6 HIS B 4 VAL B 17 1 14 HELIX 7 7 SER B 22 GLN B 24 5 3 HELIX 8 8 ARG B 25 GLY B 31 1 7 HELIX 9 9 ASN B 56 THR B 62 1 7 HELIX 10 10 VAL B 63 GLY B 65 5 3 SHEET 1 A 3 VAL A 49 ILE A 53 0 SHEET 2 A 3 PHE A 81 ASN A 90 -1 O VAL A 84 N PHE A 52 SHEET 3 A 3 GLU A 98 ARG A 106 -1 O ARG A 106 N PHE A 81 SHEET 1 B 4 GLY A 68 GLN A 71 0 SHEET 2 B 4 MET A 74 SER A 77 -1 O ARG A 76 N SER A 69 SHEET 3 B 4 VAL A 109 GLU A 113 -1 O LEU A 110 N VAL A 75 SHEET 4 B 4 TRP A 116 TYR A 120 -1 O VAL A 118 N LYS A 111 SHEET 1 C 3 VAL B 49 ILE B 53 0 SHEET 2 C 3 PHE B 81 ASN B 90 -1 O VAL B 84 N PHE B 52 SHEET 3 C 3 GLU B 98 ARG B 106 -1 O GLU B 98 N ASN B 89 SHEET 1 D 4 GLY B 68 GLN B 71 0 SHEET 2 D 4 MET B 74 SER B 77 -1 O ARG B 76 N SER B 69 SHEET 3 D 4 VAL B 109 GLU B 113 -1 O LEU B 110 N VAL B 75 SHEET 4 D 4 TRP B 116 TYR B 120 -1 O VAL B 118 N LYS B 111 SSBOND 1 CYS A 26 CYS A 86 1555 1555 2.08 SSBOND 2 CYS A 46 CYS A 97 1555 1555 2.03 SSBOND 3 CYS A 64 CYS A 112 1555 1555 2.03 SSBOND 4 CYS B 26 CYS B 86 1555 1555 2.10 SSBOND 5 CYS B 46 CYS B 97 1555 1555 2.05 SSBOND 6 CYS B 64 CYS B 112 1555 1555 2.05 CISPEP 1 HIS A 94 PRO A 95 0 1.17 CISPEP 2 HIS B 94 PRO B 95 0 1.62 SITE 1 AC1 4 MET A 74 HIS A 119 HIS A 121 HOH A3063 SITE 1 AC2 7 ARG A 106 TYR A 107 HOH A3114 HOH A3145 SITE 2 AC2 7 HOH A5022 ARG B 66 HOH B3173 SITE 1 AC3 10 GLY A 18 PRO A 19 ASP A 20 MET A 21 SITE 2 AC3 10 ARG A 25 GLU A 29 ARG A 35 ARG A 66 SITE 3 AC3 10 HOH A3211 HOH A3270 SITE 1 AC4 6 ASN A 73 LYS A 111 HOH A3236 HOH A3259 SITE 2 AC4 6 HOH A5030 HOH A5085 SITE 1 AC5 8 GLY B 18 PRO B 19 ASP B 20 MET B 21 SITE 2 AC5 8 ARG B 25 GLU B 29 ARG B 35 HOH B3222 SITE 1 AC6 8 ASN A 27 GLU A 98 HOH A3022 HOH A3069 SITE 2 AC6 8 ARG B 106 TYR B 107 HOH B3066 HOH B3072 SITE 1 AC7 10 MET A 3 ASN A 126 LYS B 6 ASP B 43 SITE 2 AC7 10 ASN B 44 ARG B 93 HOH B3116 HOH B3178 SITE 3 AC7 10 HOH B3261 HOH B5037 SITE 1 AC8 7 LYS A 10 ARG B 100 HOH B3028 HOH B3123 SITE 2 AC8 7 HOH B3244 HOH B3265 HOH B3301 SITE 1 AC9 6 ASP A 123 GLU A 124 GLU B 114 HOH B3100 SITE 2 AC9 6 HOH B3209 HOH B3268 CRYST1 41.339 48.971 109.913 90.00 90.00 90.00 P 21 21 21 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 0.024190 0.000000 0.000000 0.00000 SCALE2 0.000000 0.020420 0.000000 0.00000 SCALE3 0.000000 0.000000 0.009098 0.00000