HEADER HYDROLASE 25-SEP-15 5ARL TITLE CRYSTAL STRUCTURE OF PORCINE RNASE 4 D80A MUTANT IN COMPLEX WITH DCMP COMPND MOL_ID: 1; COMPND 2 MOLECULE: RIBONUCLEASE 4; COMPND 3 CHAIN: A, B, C, D; COMPND 4 FRAGMENT: UNP RESIDUES 29-147; COMPND 5 SYNONYM: RNASE 4, RIBONUCLEASE PL3; COMPND 6 EC: 3.1.27.-; COMPND 7 ENGINEERED: YES; COMPND 8 MUTATION: YES SOURCE MOL_ID: 1; SOURCE 2 ORGANISM_SCIENTIFIC: SUS SCROFA; SOURCE 3 ORGANISM_COMMON: PIG; SOURCE 4 ORGANISM_TAXID: 9823; SOURCE 5 EXPRESSION_SYSTEM: ESCHERICHIA COLI; SOURCE 6 EXPRESSION_SYSTEM_TAXID: 562 KEYWDS RIBONUCLEASE 4, HYDROLASE, RNA DEGRADATION EXPDTA X-RAY DIFFRACTION AUTHOR S.LIANG,K.R.ACHARYA REVDAT 4 13-NOV-24 5ARL 1 REMARK REVDAT 3 10-JAN-24 5ARL 1 REMARK REVDAT 2 23-MAR-16 5ARL 1 JRNL REVDAT 1 20-JAN-16 5ARL 0 JRNL AUTH S.LIANG,K.R.ACHARYA JRNL TITL STRUCTURAL BASIS OF SUBSTRATE SPECIFICITY IN PORCINE RNASE JRNL TITL 2 4. JRNL REF FEBS J. V. 283 912 2016 JRNL REFN ISSN 1742-464X JRNL PMID 26748441 JRNL DOI 10.1111/FEBS.13646 REMARK 2 REMARK 2 RESOLUTION. 2.61 ANGSTROMS. REMARK 3 REMARK 3 REFINEMENT. REMARK 3 PROGRAM : REFMAC 5.8.0073 REMARK 3 AUTHORS : MURSHUDOV,SKUBAK,LEBEDEV,PANNU,STEINER, REMARK 3 : NICHOLLS,WINN,LONG,VAGIN REMARK 3 REMARK 3 REFINEMENT TARGET : MAXIMUM LIKELIHOOD REMARK 3 REMARK 3 DATA USED IN REFINEMENT. REMARK 3 RESOLUTION RANGE HIGH (ANGSTROMS) : 2.61 REMARK 3 RESOLUTION RANGE LOW (ANGSTROMS) : 68.94 REMARK 3 DATA CUTOFF (SIGMA(F)) : NULL REMARK 3 COMPLETENESS FOR RANGE (%) : 90.8 REMARK 3 NUMBER OF REFLECTIONS : 13322 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 + TEST SET) : 0.255 REMARK 3 R VALUE (WORKING SET) : 0.252 REMARK 3 FREE R VALUE : 0.300 REMARK 3 FREE R VALUE TEST SET SIZE (%) : 5.100 REMARK 3 FREE R VALUE TEST SET COUNT : 723 REMARK 3 REMARK 3 FIT IN THE HIGHEST RESOLUTION BIN. REMARK 3 TOTAL NUMBER OF BINS USED : 20 REMARK 3 BIN RESOLUTION RANGE HIGH (A) : 2.61 REMARK 3 BIN RESOLUTION RANGE LOW (A) : 2.67 REMARK 3 REFLECTION IN BIN (WORKING SET) : 621 REMARK 3 BIN COMPLETENESS (WORKING+TEST) (%) : 59.86 REMARK 3 BIN R VALUE (WORKING SET) : 0.3940 REMARK 3 BIN FREE R VALUE SET COUNT : 41 REMARK 3 BIN FREE R VALUE : 0.4480 REMARK 3 REMARK 3 NUMBER OF NON-HYDROGEN ATOMS USED IN REFINEMENT. REMARK 3 PROTEIN ATOMS : 3864 REMARK 3 NUCLEIC ACID ATOMS : 0 REMARK 3 HETEROGEN ATOMS : 80 REMARK 3 SOLVENT ATOMS : 0 REMARK 3 REMARK 3 B VALUES. REMARK 3 FROM WILSON PLOT (A**2) : NULL REMARK 3 MEAN B VALUE (OVERALL, A**2) : 46.11 REMARK 3 OVERALL ANISOTROPIC B VALUE. REMARK 3 B11 (A**2) : -2.89000 REMARK 3 B22 (A**2) : 0.48000 REMARK 3 B33 (A**2) : 0.07000 REMARK 3 B12 (A**2) : -2.15000 REMARK 3 B13 (A**2) : -2.18000 REMARK 3 B23 (A**2) : 4.00000 REMARK 3 REMARK 3 ESTIMATED OVERALL COORDINATE ERROR. REMARK 3 ESU BASED ON R VALUE (A): NULL REMARK 3 ESU BASED ON FREE R VALUE (A): 0.446 REMARK 3 ESU BASED ON MAXIMUM LIKELIHOOD (A): 0.380 REMARK 3 ESU FOR B VALUES BASED ON MAXIMUM LIKELIHOOD (A**2): 18.543 REMARK 3 REMARK 3 CORRELATION COEFFICIENTS. REMARK 3 CORRELATION COEFFICIENT FO-FC : 0.900 REMARK 3 CORRELATION COEFFICIENT FO-FC FREE : 0.848 REMARK 3 REMARK 3 RMS DEVIATIONS FROM IDEAL VALUES COUNT RMS WEIGHT REMARK 3 BOND LENGTHS REFINED ATOMS (A): 4036 ; 0.011 ; 0.019 REMARK 3 BOND LENGTHS OTHERS (A): 3710 ; 0.006 ; 0.020 REMARK 3 BOND ANGLES REFINED ATOMS (DEGREES): 5436 ; 1.514 ; 1.931 REMARK 3 BOND ANGLES OTHERS (DEGREES): 8478 ; 1.136 ; 3.000 REMARK 3 TORSION ANGLES, PERIOD 1 (DEGREES): 478 ; 7.082 ; 5.000 REMARK 3 TORSION ANGLES, PERIOD 2 (DEGREES): 212 ;33.156 ;22.453 REMARK 3 TORSION ANGLES, PERIOD 3 (DEGREES): 702 ;15.541 ;15.000 REMARK 3 TORSION ANGLES, PERIOD 4 (DEGREES): 52 ;13.320 ;15.000 REMARK 3 CHIRAL-CENTER RESTRAINTS (A**3): 562 ; 0.078 ; 0.200 REMARK 3 GENERAL PLANES REFINED ATOMS (A): 4570 ; 0.007 ; 0.020 REMARK 3 GENERAL PLANES OTHERS (A): 1062 ; 0.005 ; 0.020 REMARK 3 NON-BONDED CONTACTS REFINED ATOMS (A): NULL ; NULL ; NULL REMARK 3 NON-BONDED CONTACTS OTHERS (A): NULL ; NULL ; NULL REMARK 3 NON-BONDED TORSION REFINED ATOMS (A): NULL ; NULL ; NULL REMARK 3 NON-BONDED TORSION OTHERS (A): NULL ; NULL ; NULL REMARK 3 H-BOND (X...Y) REFINED ATOMS (A): NULL ; NULL ; NULL REMARK 3 H-BOND (X...Y) OTHERS (A): NULL ; NULL ; NULL REMARK 3 POTENTIAL METAL-ION REFINED ATOMS (A): NULL ; NULL ; NULL REMARK 3 POTENTIAL METAL-ION OTHERS (A): NULL ; NULL ; NULL REMARK 3 SYMMETRY VDW REFINED ATOMS (A): NULL ; NULL ; NULL REMARK 3 SYMMETRY VDW OTHERS (A): NULL ; NULL ; NULL REMARK 3 SYMMETRY H-BOND REFINED ATOMS (A): NULL ; NULL ; NULL REMARK 3 SYMMETRY H-BOND OTHERS (A): NULL ; NULL ; NULL REMARK 3 SYMMETRY METAL-ION REFINED ATOMS (A): NULL ; NULL ; NULL REMARK 3 SYMMETRY METAL-ION OTHERS (A): NULL ; NULL ; NULL REMARK 3 REMARK 3 ISOTROPIC THERMAL FACTOR RESTRAINTS. COUNT RMS WEIGHT REMARK 3 MAIN-CHAIN BOND REFINED ATOMS (A**2): 1924 ; 3.669 ; 4.388 REMARK 3 MAIN-CHAIN BOND OTHER ATOMS (A**2): 1923 ; 3.669 ; 4.388 REMARK 3 MAIN-CHAIN ANGLE REFINED ATOMS (A**2): 2398 ; 5.823 ; 6.572 REMARK 3 MAIN-CHAIN ANGLE OTHER ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 SIDE-CHAIN BOND REFINED ATOMS (A**2): 2112 ; 4.116 ; 4.764 REMARK 3 SIDE-CHAIN BOND OTHER ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 SIDE-CHAIN ANGLE REFINED ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 SIDE-CHAIN ANGLE OTHER ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 LONG RANGE B REFINED ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 LONG RANGE B OTHER ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 REMARK 3 ANISOTROPIC THERMAL FACTOR RESTRAINTS. COUNT RMS WEIGHT REMARK 3 RIGID-BOND RESTRAINTS (A**2): NULL ; NULL ; NULL REMARK 3 SPHERICITY; FREE ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 SPHERICITY; BONDED ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 REMARK 3 NCS RESTRAINTS STATISTICS REMARK 3 NUMBER OF DIFFERENT NCS GROUPS : NULL REMARK 3 REMARK 3 TLS DETAILS REMARK 3 NUMBER OF TLS GROUPS : NULL REMARK 3 REMARK 3 BULK SOLVENT MODELLING. REMARK 3 METHOD USED : MASK REMARK 3 PARAMETERS FOR MASK CALCULATION REMARK 3 VDW PROBE RADIUS : 1.20 REMARK 3 ION PROBE RADIUS : 0.80 REMARK 3 SHRINKAGE RADIUS : 0.80 REMARK 3 REMARK 3 OTHER REFINEMENT REMARKS: HYDROGENS HAVE BEEN ADDED IN THE RIDING REMARK 3 POSITIONS. U VALUES REFINED INDIVIDUALLY REMARK 4 REMARK 4 5ARL COMPLIES WITH FORMAT V. 3.30, 13-JUL-11 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY PDBE ON 25-SEP-15. REMARK 100 THE DEPOSITION ID IS D_1290065170. REMARK 200 REMARK 200 EXPERIMENTAL DETAILS REMARK 200 EXPERIMENT TYPE : X-RAY DIFFRACTION REMARK 200 DATE OF DATA COLLECTION : 02-AUG-14 REMARK 200 TEMPERATURE (KELVIN) : 100 REMARK 200 PH : 5.6 REMARK 200 NUMBER OF CRYSTALS USED : 1 REMARK 200 REMARK 200 SYNCHROTRON (Y/N) : Y REMARK 200 RADIATION SOURCE : DIAMOND REMARK 200 BEAMLINE : I02 REMARK 200 X-RAY GENERATOR MODEL : NULL REMARK 200 MONOCHROMATIC OR LAUE (M/L) : M REMARK 200 WAVELENGTH OR RANGE (A) : 0.9795 REMARK 200 MONOCHROMATOR : NULL REMARK 200 OPTICS : NULL REMARK 200 REMARK 200 DETECTOR TYPE : PIXEL REMARK 200 DETECTOR MANUFACTURER : DECTRIS PILATUS 6M REMARK 200 INTENSITY-INTEGRATION SOFTWARE : XDS REMARK 200 DATA SCALING SOFTWARE : AIMLESS REMARK 200 REMARK 200 NUMBER OF UNIQUE REFLECTIONS : 14168 REMARK 200 RESOLUTION RANGE HIGH (A) : 2.600 REMARK 200 RESOLUTION RANGE LOW (A) : 29.500 REMARK 200 REJECTION CRITERIA (SIGMA(I)) : 6.000 REMARK 200 REMARK 200 OVERALL. REMARK 200 COMPLETENESS FOR RANGE (%) : 91.5 REMARK 200 DATA REDUNDANCY : 3.100 REMARK 200 R MERGE (I) : 0.10000 REMARK 200 R SYM (I) : NULL REMARK 200 <I/SIGMA(I)> FOR THE DATA SET : 27.0000 REMARK 200 REMARK 200 IN THE HIGHEST RESOLUTION SHELL. REMARK 200 HIGHEST RESOLUTION SHELL, RANGE HIGH (A) : 2.60 REMARK 200 HIGHEST RESOLUTION SHELL, RANGE LOW (A) : 2.72 REMARK 200 COMPLETENESS FOR SHELL (%) : 65.6 REMARK 200 DATA REDUNDANCY IN SHELL : 3.00 REMARK 200 R MERGE FOR SHELL (I) : 0.41000 REMARK 200 R SYM FOR SHELL (I) : NULL REMARK 200 <I/SIGMA(I)> FOR SHELL : 10.70 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: PDB ENTRY 5ARJ REMARK 200 REMARK 200 REMARK: NONE REMARK 280 REMARK 280 CRYSTAL REMARK 280 SOLVENT CONTENT, VS (%): 41.79 REMARK 280 MATTHEWS COEFFICIENT, VM (ANGSTROMS**3/DA): 2.11 REMARK 280 REMARK 280 CRYSTALLIZATION CONDITIONS: 0.1 M SODIUM CITRATE PH 5.6, 20 % REMARK 280 (V/V) 2-PROPANOL, 20 % (W/V) PEG 4000 REMARK 290 REMARK 290 CRYSTALLOGRAPHIC SYMMETRY REMARK 290 SYMMETRY OPERATORS FOR SPACE GROUP: P 1 REMARK 290 REMARK 290 SYMOP SYMMETRY REMARK 290 NNNMMM OPERATOR REMARK 290 1555 X,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 REMARK 290 REMARK: NULL REMARK 300 REMARK 300 BIOMOLECULE: 1, 2, 3, 4 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 SOFTWARE DETERMINED QUATERNARY STRUCTURE: MONOMERIC REMARK 350 SOFTWARE USED: PISA 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 SOFTWARE DETERMINED QUATERNARY STRUCTURE: MONOMERIC REMARK 350 SOFTWARE USED: PISA 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 AUTHOR DETERMINED BIOLOGICAL UNIT: MONOMERIC REMARK 350 SOFTWARE DETERMINED QUATERNARY STRUCTURE: MONOMERIC REMARK 350 SOFTWARE USED: PISA REMARK 350 APPLY THE FOLLOWING TO CHAINS: C 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: 4 REMARK 350 AUTHOR DETERMINED BIOLOGICAL UNIT: MONOMERIC REMARK 350 SOFTWARE DETERMINED QUATERNARY STRUCTURE: MONOMERIC REMARK 350 SOFTWARE USED: PISA REMARK 350 APPLY THE FOLLOWING TO CHAINS: D 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 MET A -14 REMARK 465 ALA A -13 REMARK 465 HIS A -12 REMARK 465 HIS A -11 REMARK 465 HIS A -10 REMARK 465 HIS A -9 REMARK 465 HIS A -8 REMARK 465 HIS A -7 REMARK 465 VAL A -6 REMARK 465 ASP A -5 REMARK 465 ASP A -4 REMARK 465 ASP A -3 REMARK 465 ASP A -2 REMARK 465 MET B -14 REMARK 465 ALA B -13 REMARK 465 HIS B -12 REMARK 465 HIS B -11 REMARK 465 HIS B -10 REMARK 465 HIS B -9 REMARK 465 HIS B -8 REMARK 465 HIS B -7 REMARK 465 VAL B -6 REMARK 465 ASP B -5 REMARK 465 ASP B -4 REMARK 465 ASP B -3 REMARK 465 ASP B -2 REMARK 465 MET C -14 REMARK 465 ALA C -13 REMARK 465 HIS C -12 REMARK 465 HIS C -11 REMARK 465 HIS C -10 REMARK 465 HIS C -9 REMARK 465 HIS C -8 REMARK 465 HIS C -7 REMARK 465 VAL C -6 REMARK 465 ASP C -5 REMARK 465 ASP C -4 REMARK 465 ASP C -3 REMARK 465 ASP C -2 REMARK 465 LYS C -1 REMARK 465 MET D -14 REMARK 465 ALA D -13 REMARK 465 HIS D -12 REMARK 465 HIS D -11 REMARK 465 HIS D -10 REMARK 465 HIS D -9 REMARK 465 HIS D -8 REMARK 465 HIS D -7 REMARK 465 VAL D -6 REMARK 465 ASP D -5 REMARK 465 ASP D -4 REMARK 465 ASP D -3 REMARK 465 ASP D -2 REMARK 465 LYS D -1 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 MET A 0 CG SD CE REMARK 470 LYS B -1 CG CD CE NZ REMARK 470 MET B 0 CG SD CE 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 THR A 18 -31.79 -139.96 REMARK 500 LYS A 33 36.73 70.08 REMARK 500 THR A 35 21.07 -140.32 REMARK 500 HIS A 37 -64.25 -96.48 REMARK 500 HIS A 47 75.06 -104.26 REMARK 500 HIS A 116 129.37 -174.00 REMARK 500 THR B 18 -32.30 -141.00 REMARK 500 LYS B 33 36.15 71.09 REMARK 500 THR B 35 21.61 -142.65 REMARK 500 HIS B 37 -63.64 -97.04 REMARK 500 HIS B 47 74.45 -103.81 REMARK 500 HIS B 116 129.44 -174.33 REMARK 500 THR C 18 -31.55 -140.22 REMARK 500 THR C 35 20.20 -140.25 REMARK 500 HIS C 37 -63.32 -97.84 REMARK 500 HIS C 47 75.75 -102.65 REMARK 500 HIS C 116 126.24 -175.77 REMARK 500 THR D 18 -31.23 -139.27 REMARK 500 LYS D 33 36.27 70.93 REMARK 500 HIS D 37 -64.04 -95.54 REMARK 500 HIS D 47 76.02 -103.48 REMARK 500 HIS D 116 130.15 -171.94 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 DCM A 1120 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC2 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE DCM B 1120 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC3 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE DCM C 1120 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC4 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE DCM D 1120 REMARK 900 REMARK 900 RELATED ENTRIES REMARK 900 RELATED ID: 5AR6 RELATED DB: PDB REMARK 900 CRYSTAL STRUCTURE OF PORCINE RNASE 4 REMARK 900 RELATED ID: 5ARJ RELATED DB: PDB REMARK 900 CRYSTAL STRUCTURE OF PORCINE RNASE 4 D80A MUTANT REMARK 900 RELATED ID: 5ARK RELATED DB: PDB REMARK 900 CRYSTAL STRUCTURE OF PORCINE RNASE 4 IN COMPLEX WITH DUMP REMARK 999 REMARK 999 SEQUENCE REMARK 999 THE FIRST TWO ALA ARE FROM THE N-TERMINAL TAG. DUE TO THE REMARK 999 LACK OF SIDE CHAIN ELECTRON DENSITY, THE RESIDUES ARE REMARK 999 SHOWN AS ALA. REMARK 999 THE FIRST MET IS FROM THE N-TERMINAL TAG. DBREF 5ARL A 1 119 UNP P15468 RNAS4_PIG 29 147 DBREF 5ARL B 1 119 UNP P15468 RNAS4_PIG 29 147 DBREF 5ARL C 1 119 UNP P15468 RNAS4_PIG 29 147 DBREF 5ARL D 1 119 UNP P15468 RNAS4_PIG 29 147 SEQADV 5ARL MET A -14 UNP P15468 EXPRESSION TAG SEQADV 5ARL ALA A -13 UNP P15468 EXPRESSION TAG SEQADV 5ARL HIS A -12 UNP P15468 EXPRESSION TAG SEQADV 5ARL HIS A -11 UNP P15468 EXPRESSION TAG SEQADV 5ARL HIS A -10 UNP P15468 EXPRESSION TAG SEQADV 5ARL HIS A -9 UNP P15468 EXPRESSION TAG SEQADV 5ARL HIS A -8 UNP P15468 EXPRESSION TAG SEQADV 5ARL HIS A -7 UNP P15468 EXPRESSION TAG SEQADV 5ARL VAL A -6 UNP P15468 EXPRESSION TAG SEQADV 5ARL ASP A -5 UNP P15468 EXPRESSION TAG SEQADV 5ARL ASP A -4 UNP P15468 EXPRESSION TAG SEQADV 5ARL ASP A -3 UNP P15468 EXPRESSION TAG SEQADV 5ARL ASP A -2 UNP P15468 EXPRESSION TAG SEQADV 5ARL LYS A -1 UNP P15468 EXPRESSION TAG SEQADV 5ARL MET A 0 UNP P15468 EXPRESSION TAG SEQADV 5ARL ALA A 80 UNP P15468 ASP 108 ENGINEERED MUTATION SEQADV 5ARL MET B -14 UNP P15468 EXPRESSION TAG SEQADV 5ARL ALA B -13 UNP P15468 EXPRESSION TAG SEQADV 5ARL HIS B -12 UNP P15468 EXPRESSION TAG SEQADV 5ARL HIS B -11 UNP P15468 EXPRESSION TAG SEQADV 5ARL HIS B -10 UNP P15468 EXPRESSION TAG SEQADV 5ARL HIS B -9 UNP P15468 EXPRESSION TAG SEQADV 5ARL HIS B -8 UNP P15468 EXPRESSION TAG SEQADV 5ARL HIS B -7 UNP P15468 EXPRESSION TAG SEQADV 5ARL VAL B -6 UNP P15468 EXPRESSION TAG SEQADV 5ARL ASP B -5 UNP P15468 EXPRESSION TAG SEQADV 5ARL ASP B -4 UNP P15468 EXPRESSION TAG SEQADV 5ARL ASP B -3 UNP P15468 EXPRESSION TAG SEQADV 5ARL ASP B -2 UNP P15468 EXPRESSION TAG SEQADV 5ARL LYS B -1 UNP P15468 EXPRESSION TAG SEQADV 5ARL MET B 0 UNP P15468 EXPRESSION TAG SEQADV 5ARL ALA B 80 UNP P15468 ASP 108 ENGINEERED MUTATION SEQADV 5ARL MET C -14 UNP P15468 EXPRESSION TAG SEQADV 5ARL ALA C -13 UNP P15468 EXPRESSION TAG SEQADV 5ARL HIS C -12 UNP P15468 EXPRESSION TAG SEQADV 5ARL HIS C -11 UNP P15468 EXPRESSION TAG SEQADV 5ARL HIS C -10 UNP P15468 EXPRESSION TAG SEQADV 5ARL HIS C -9 UNP P15468 EXPRESSION TAG SEQADV 5ARL HIS C -8 UNP P15468 EXPRESSION TAG SEQADV 5ARL HIS C -7 UNP P15468 EXPRESSION TAG SEQADV 5ARL VAL C -6 UNP P15468 EXPRESSION TAG SEQADV 5ARL ASP C -5 UNP P15468 EXPRESSION TAG SEQADV 5ARL ASP C -4 UNP P15468 EXPRESSION TAG SEQADV 5ARL ASP C -3 UNP P15468 EXPRESSION TAG SEQADV 5ARL ASP C -2 UNP P15468 EXPRESSION TAG SEQADV 5ARL LYS C -1 UNP P15468 EXPRESSION TAG SEQADV 5ARL MET C 0 UNP P15468 EXPRESSION TAG SEQADV 5ARL ALA C 80 UNP P15468 ASP 108 ENGINEERED MUTATION SEQADV 5ARL MET D -14 UNP P15468 EXPRESSION TAG SEQADV 5ARL ALA D -13 UNP P15468 EXPRESSION TAG SEQADV 5ARL HIS D -12 UNP P15468 EXPRESSION TAG SEQADV 5ARL HIS D -11 UNP P15468 EXPRESSION TAG SEQADV 5ARL HIS D -10 UNP P15468 EXPRESSION TAG SEQADV 5ARL HIS D -9 UNP P15468 EXPRESSION TAG SEQADV 5ARL HIS D -8 UNP P15468 EXPRESSION TAG SEQADV 5ARL HIS D -7 UNP P15468 EXPRESSION TAG SEQADV 5ARL VAL D -6 UNP P15468 EXPRESSION TAG SEQADV 5ARL ASP D -5 UNP P15468 EXPRESSION TAG SEQADV 5ARL ASP D -4 UNP P15468 EXPRESSION TAG SEQADV 5ARL ASP D -3 UNP P15468 EXPRESSION TAG SEQADV 5ARL ASP D -2 UNP P15468 EXPRESSION TAG SEQADV 5ARL LYS D -1 UNP P15468 EXPRESSION TAG SEQADV 5ARL MET D 0 UNP P15468 EXPRESSION TAG SEQADV 5ARL ALA D 80 UNP P15468 ASP 108 ENGINEERED MUTATION SEQRES 1 A 134 MET ALA HIS HIS HIS HIS HIS HIS VAL ASP ASP ASP ASP SEQRES 2 A 134 LYS MET GLN ASP ARG MET TYR GLN ARG PHE LEU ARG GLN SEQRES 3 A 134 HIS VAL ASP PRO ASP ALA THR GLY GLY ASN ASP ALA TYR SEQRES 4 A 134 CYS ASN LEU MET MET GLN ARG ARG LYS MET THR SER HIS SEQRES 5 A 134 TYR CYS LYS ARG PHE ASN THR PHE ILE HIS GLU ASP ILE SEQRES 6 A 134 TRP ASN ILE ARG SER ILE CYS SER THR SER ASN ILE GLN SEQRES 7 A 134 CYS LYS ASN GLY GLN MET ASN CYS HIS GLU GLY VAL VAL SEQRES 8 A 134 LYS VAL THR ALA CYS ARG GLU THR GLY SER SER ARG ALA SEQRES 9 A 134 PRO ASN CYS ARG TYR ARG ALA MET ALA SER THR ARG ARG SEQRES 10 A 134 VAL VAL ILE ALA CYS GLU GLY ASN PRO GLU VAL PRO VAL SEQRES 11 A 134 HIS PHE ASP LYS SEQRES 1 B 134 MET ALA HIS HIS HIS HIS HIS HIS VAL ASP ASP ASP ASP SEQRES 2 B 134 LYS MET GLN ASP ARG MET TYR GLN ARG PHE LEU ARG GLN SEQRES 3 B 134 HIS VAL ASP PRO ASP ALA THR GLY GLY ASN ASP ALA TYR SEQRES 4 B 134 CYS ASN LEU MET MET GLN ARG ARG LYS MET THR SER HIS SEQRES 5 B 134 TYR CYS LYS ARG PHE ASN THR PHE ILE HIS GLU ASP ILE SEQRES 6 B 134 TRP ASN ILE ARG SER ILE CYS SER THR SER ASN ILE GLN SEQRES 7 B 134 CYS LYS ASN GLY GLN MET ASN CYS HIS GLU GLY VAL VAL SEQRES 8 B 134 LYS VAL THR ALA CYS ARG GLU THR GLY SER SER ARG ALA SEQRES 9 B 134 PRO ASN CYS ARG TYR ARG ALA MET ALA SER THR ARG ARG SEQRES 10 B 134 VAL VAL ILE ALA CYS GLU GLY ASN PRO GLU VAL PRO VAL SEQRES 11 B 134 HIS PHE ASP LYS SEQRES 1 C 134 MET ALA HIS HIS HIS HIS HIS HIS VAL ASP ASP ASP ASP SEQRES 2 C 134 LYS MET GLN ASP ARG MET TYR GLN ARG PHE LEU ARG GLN SEQRES 3 C 134 HIS VAL ASP PRO ASP ALA THR GLY GLY ASN ASP ALA TYR SEQRES 4 C 134 CYS ASN LEU MET MET GLN ARG ARG LYS MET THR SER HIS SEQRES 5 C 134 TYR CYS LYS ARG PHE ASN THR PHE ILE HIS GLU ASP ILE SEQRES 6 C 134 TRP ASN ILE ARG SER ILE CYS SER THR SER ASN ILE GLN SEQRES 7 C 134 CYS LYS ASN GLY GLN MET ASN CYS HIS GLU GLY VAL VAL SEQRES 8 C 134 LYS VAL THR ALA CYS ARG GLU THR GLY SER SER ARG ALA SEQRES 9 C 134 PRO ASN CYS ARG TYR ARG ALA MET ALA SER THR ARG ARG SEQRES 10 C 134 VAL VAL ILE ALA CYS GLU GLY ASN PRO GLU VAL PRO VAL SEQRES 11 C 134 HIS PHE ASP LYS SEQRES 1 D 134 MET ALA HIS HIS HIS HIS HIS HIS VAL ASP ASP ASP ASP SEQRES 2 D 134 LYS MET GLN ASP ARG MET TYR GLN ARG PHE LEU ARG GLN SEQRES 3 D 134 HIS VAL ASP PRO ASP ALA THR GLY GLY ASN ASP ALA TYR SEQRES 4 D 134 CYS ASN LEU MET MET GLN ARG ARG LYS MET THR SER HIS SEQRES 5 D 134 TYR CYS LYS ARG PHE ASN THR PHE ILE HIS GLU ASP ILE SEQRES 6 D 134 TRP ASN ILE ARG SER ILE CYS SER THR SER ASN ILE GLN SEQRES 7 D 134 CYS LYS ASN GLY GLN MET ASN CYS HIS GLU GLY VAL VAL SEQRES 8 D 134 LYS VAL THR ALA CYS ARG GLU THR GLY SER SER ARG ALA SEQRES 9 D 134 PRO ASN CYS ARG TYR ARG ALA MET ALA SER THR ARG ARG SEQRES 10 D 134 VAL VAL ILE ALA CYS GLU GLY ASN PRO GLU VAL PRO VAL SEQRES 11 D 134 HIS PHE ASP LYS HET DCM A1120 20 HET DCM B1120 20 HET DCM C1120 20 HET DCM D1120 20 HETNAM DCM 2'-DEOXYCYTIDINE-5'-MONOPHOSPHATE FORMUL 5 DCM 4(C9 H14 N3 O7 P) HELIX 1 1 MET A 0 VAL A 13 1 14 HELIX 2 2 ASN A 21 ARG A 32 1 12 HELIX 3 3 ASP A 49 SER A 55 1 7 HELIX 4 4 ILE A 56 THR A 59 5 4 HELIX 5 5 LYS B -1 VAL B 13 1 15 HELIX 6 6 ASN B 21 ARG B 32 1 12 HELIX 7 7 ASP B 49 SER B 55 1 7 HELIX 8 8 ILE B 56 THR B 59 5 4 HELIX 9 9 MET C 0 VAL C 13 1 14 HELIX 10 10 ASN C 21 ARG C 32 1 12 HELIX 11 11 ASP C 49 SER C 55 1 7 HELIX 12 12 ILE C 56 THR C 59 5 4 HELIX 13 13 MET D 0 VAL D 13 1 14 HELIX 14 14 ASN D 21 ARG D 32 1 12 HELIX 15 15 ASP D 49 SER D 55 1 7 HELIX 16 16 ILE D 56 THR D 59 5 4 SHEET 1 AA 4 PHE A 42 ILE A 46 0 SHEET 2 AA 4 CYS A 71 GLU A 83 -1 O THR A 79 N PHE A 45 SHEET 3 AA 4 TYR A 94 GLU A 108 -1 O ARG A 95 N ARG A 82 SHEET 4 AA 4 VAL A 113 PHE A 117 -1 O VAL A 113 N GLU A 108 SHEET 1 BA 4 PHE B 42 ILE B 46 0 SHEET 2 BA 4 CYS B 71 GLU B 83 -1 O THR B 79 N PHE B 45 SHEET 3 BA 4 TYR B 94 GLU B 108 -1 O ARG B 95 N ARG B 82 SHEET 4 BA 4 VAL B 113 PHE B 117 -1 O VAL B 113 N GLU B 108 SHEET 1 CA 4 PHE C 42 ILE C 46 0 SHEET 2 CA 4 CYS C 71 GLU C 83 -1 O THR C 79 N PHE C 45 SHEET 3 CA 4 TYR C 94 GLU C 108 -1 O ARG C 95 N ARG C 82 SHEET 4 CA 4 VAL C 113 PHE C 117 -1 O VAL C 113 N GLU C 108 SHEET 1 DA 4 PHE D 42 ILE D 46 0 SHEET 2 DA 4 CYS D 71 GLU D 83 -1 O THR D 79 N PHE D 45 SHEET 3 DA 4 TYR D 94 GLU D 108 -1 O ARG D 95 N ARG D 82 SHEET 4 DA 4 VAL D 113 PHE D 117 -1 O VAL D 113 N GLU D 108 SSBOND 1 CYS A 25 CYS A 81 1555 1555 2.06 SSBOND 2 CYS A 39 CYS A 92 1555 1555 2.02 SSBOND 3 CYS A 57 CYS A 107 1555 1555 2.03 SSBOND 4 CYS A 64 CYS A 71 1555 1555 2.05 SSBOND 5 CYS B 25 CYS B 81 1555 1555 2.09 SSBOND 6 CYS B 39 CYS B 92 1555 1555 2.02 SSBOND 7 CYS B 57 CYS B 107 1555 1555 2.04 SSBOND 8 CYS B 64 CYS B 71 1555 1555 2.06 SSBOND 9 CYS C 25 CYS C 81 1555 1555 2.06 SSBOND 10 CYS C 39 CYS C 92 1555 1555 2.01 SSBOND 11 CYS C 57 CYS C 107 1555 1555 2.03 SSBOND 12 CYS C 64 CYS C 71 1555 1555 2.02 SSBOND 13 CYS D 25 CYS D 81 1555 1555 2.07 SSBOND 14 CYS D 39 CYS D 92 1555 1555 2.02 SSBOND 15 CYS D 57 CYS D 107 1555 1555 2.05 SSBOND 16 CYS D 64 CYS D 71 1555 1555 2.05 CISPEP 1 ALA A 89 PRO A 90 0 3.03 CISPEP 2 ASN A 110 PRO A 111 0 -6.03 CISPEP 3 ALA B 89 PRO B 90 0 1.39 CISPEP 4 ASN B 110 PRO B 111 0 -1.29 CISPEP 5 ALA C 89 PRO C 90 0 1.97 CISPEP 6 ASN C 110 PRO C 111 0 -4.53 CISPEP 7 ALA D 89 PRO D 90 0 2.29 CISPEP 8 ASN D 110 PRO D 111 0 -4.23 SITE 1 AC1 7 HIS A 12 LYS A 40 PHE A 42 ASN A 43 SITE 2 AC1 7 THR A 44 HIS A 116 PHE A 117 SITE 1 AC2 8 GLN B 11 HIS B 12 LYS B 40 ASN B 43 SITE 2 AC2 8 THR B 44 HIS B 116 LYS B 119 LYS C 33 SITE 1 AC3 6 HIS C 12 PHE C 42 ASN C 43 THR C 44 SITE 2 AC3 6 PHE C 117 LYS C 119 SITE 1 AC4 9 GLN D 11 HIS D 12 LYS D 40 PHE D 42 SITE 2 AC4 9 ASN D 43 THR D 44 HIS D 116 PHE D 117 SITE 3 AC4 9 LYS D 119 CRYST1 30.962 62.515 70.216 89.78 79.21 78.90 P 1 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 0.032298 -0.006337 -0.006371 0.00000 SCALE2 0.000000 0.016301 0.000545 0.00000 SCALE3 0.000000 0.000000 0.014506 0.00000