HEADER HYDROLASE/DNA 24-JUN-13 4LD0 TITLE T. THERMOPHILUS RUVC IN COMPLEX WITH HOLLIDAY JUNCTION SUBSTRATE CAVEAT 4LD0 HIGH COVALENT GEOMETRY DEVIATION OBSERVED IN SOME OF THE CAVEAT 2 4LD0 RESIDUES COMPND MOL_ID: 1; COMPND 2 MOLECULE: CROSSOVER JUNCTION ENDODEOXYRIBONUCLEASE RUVC; COMPND 3 CHAIN: A, B; COMPND 4 FRAGMENT: RUVC; COMPND 5 SYNONYM: HOLLIDAY JUNCTION NUCLEASE RUVC, HOLLIDAY JUNCTION RESOLVASE COMPND 6 RUVC; COMPND 7 EC: 3.1.22.4; COMPND 8 ENGINEERED: YES; COMPND 9 MUTATION: YES; COMPND 10 MOL_ID: 2; COMPND 11 MOLECULE: DNA 31-MER; COMPND 12 CHAIN: C; COMPND 13 ENGINEERED: YES; COMPND 14 MOL_ID: 3; COMPND 15 MOLECULE: DNA 13-MER; COMPND 16 CHAIN: D; COMPND 17 ENGINEERED: YES; COMPND 18 MOL_ID: 4; COMPND 19 MOLECULE: DNA 11-MER; COMPND 20 CHAIN: F; COMPND 21 ENGINEERED: YES SOURCE MOL_ID: 1; SOURCE 2 ORGANISM_SCIENTIFIC: THERMUS THERMOPHILUS; SOURCE 3 ORGANISM_TAXID: 300852; SOURCE 4 STRAIN: HB8 / ATCC 27634 / DSM 579; SOURCE 5 GENE: RUVC, TTHA1090; SOURCE 6 EXPRESSION_SYSTEM: ESCHERICHIA COLI; SOURCE 7 EXPRESSION_SYSTEM_TAXID: 562; SOURCE 8 MOL_ID: 2; SOURCE 9 SYNTHETIC: YES; SOURCE 10 OTHER_DETAILS: SYNTHETIC DNA; SOURCE 11 MOL_ID: 3; SOURCE 12 SYNTHETIC: YES; SOURCE 13 OTHER_DETAILS: SYNTHETIC DNA; SOURCE 14 MOL_ID: 4; SOURCE 15 SYNTHETIC: YES; SOURCE 16 OTHER_DETAILS: SYNTHETIC DNA KEYWDS RNASE H FOLD, NUCLEASE, DNA, HYDROLASE-DNA COMPLEX EXPDTA X-RAY DIFFRACTION AUTHOR K.M.GORECKA,W.KOMOROWSKA,M.NOWOTNY REVDAT 5 28-FEB-24 4LD0 1 SEQADV REVDAT 4 15-NOV-17 4LD0 1 REMARK REVDAT 3 04-DEC-13 4LD0 1 JRNL REVDAT 2 18-SEP-13 4LD0 1 JRNL REVDAT 1 04-SEP-13 4LD0 0 JRNL AUTH K.M.GORECKA,W.KOMOROWSKA,M.NOWOTNY JRNL TITL CRYSTAL STRUCTURE OF RUVC RESOLVASE IN COMPLEX WITH HOLLIDAY JRNL TITL 2 JUNCTION SUBSTRATE. JRNL REF NUCLEIC ACIDS RES. V. 41 9945 2013 JRNL REFN ISSN 0305-1048 JRNL PMID 23980027 JRNL DOI 10.1093/NAR/GKT769 REMARK 2 REMARK 2 RESOLUTION. 3.75 ANGSTROMS. REMARK 3 REMARK 3 REFINEMENT. REMARK 3 PROGRAM : PHENIX (PHENIX.REFINE: 1.8.2_1309) REMARK 3 AUTHORS : PAUL ADAMS,PAVEL AFONINE,VINCENT CHEN,IAN REMARK 3 : DAVIS,KRESHNA GOPAL,RALF GROSSE-KUNSTLEVE, REMARK 3 : LI-WEI HUNG,ROBERT IMMORMINO,TOM IOERGER, REMARK 3 : AIRLIE MCCOY,ERIK MCKEE,NIGEL MORIARTY, REMARK 3 : REETAL PAI,RANDY READ,JANE RICHARDSON, REMARK 3 : DAVID RICHARDSON,TOD ROMO,JIM SACCHETTINI, REMARK 3 : NICHOLAS SAUTER,JACOB SMITH,LAURENT REMARK 3 : STORONI,TOM TERWILLIGER,PETER ZWART REMARK 3 REMARK 3 REFINEMENT TARGET : ML REMARK 3 REMARK 3 DATA USED IN REFINEMENT. REMARK 3 RESOLUTION RANGE HIGH (ANGSTROMS) : 3.75 REMARK 3 RESOLUTION RANGE LOW (ANGSTROMS) : 46.05 REMARK 3 MIN(FOBS/SIGMA_FOBS) : 2.020 REMARK 3 COMPLETENESS FOR RANGE (%) : 99.8 REMARK 3 NUMBER OF REFLECTIONS : 9255 REMARK 3 REMARK 3 FIT TO DATA USED IN REFINEMENT. REMARK 3 R VALUE (WORKING + TEST SET) : 0.270 REMARK 3 R VALUE (WORKING SET) : 0.267 REMARK 3 FREE R VALUE : 0.329 REMARK 3 FREE R VALUE TEST SET SIZE (%) : 5.010 REMARK 3 FREE R VALUE TEST SET COUNT : 464 REMARK 3 REMARK 3 FIT TO DATA USED IN REFINEMENT (IN BINS). REMARK 3 BIN RESOLUTION RANGE COMPL. NWORK NFREE RWORK RFREE REMARK 3 1 46.0569 - 5.4078 1.00 3010 159 0.2496 0.3192 REMARK 3 2 5.4078 - 4.2933 1.00 2910 154 0.3020 0.3600 REMARK 3 3 4.2933 - 3.7509 1.00 2871 151 0.2752 0.3205 REMARK 3 REMARK 3 BULK SOLVENT MODELLING. REMARK 3 METHOD USED : FLAT BULK SOLVENT MODEL REMARK 3 SOLVENT RADIUS : 1.11 REMARK 3 SHRINKAGE RADIUS : 0.90 REMARK 3 K_SOL : NULL REMARK 3 B_SOL : NULL REMARK 3 REMARK 3 ERROR ESTIMATES. REMARK 3 COORDINATE ERROR (MAXIMUM-LIKELIHOOD BASED) : 0.550 REMARK 3 PHASE ERROR (DEGREES, MAXIMUM-LIKELIHOOD BASED) : 38.220 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 TWINNING INFORMATION. REMARK 3 FRACTION: NULL REMARK 3 OPERATOR: NULL REMARK 3 REMARK 3 DEVIATIONS FROM IDEAL VALUES. REMARK 3 RMSD COUNT REMARK 3 BOND : 0.017 3586 REMARK 3 ANGLE : 1.952 5026 REMARK 3 CHIRALITY : 0.089 584 REMARK 3 PLANARITY : 0.010 457 REMARK 3 DIHEDRAL : 25.306 1333 REMARK 3 REMARK 3 TLS DETAILS REMARK 3 NUMBER OF TLS GROUPS : NULL REMARK 3 REMARK 3 NCS DETAILS REMARK 3 NUMBER OF NCS GROUPS : 2 REMARK 3 NCS GROUP : 1 REMARK 3 NCS OPERATOR : 1 REMARK 3 REFERENCE SELECTION: CHAIN 'A' AND (RESSEQ 11:20 OR RESSEQ REMARK 3 28:71 OR RESSEQ 80:115 OR RESSEQ 123:136 REMARK 3 OR RESSEQ 140:160 ) AND (NOT ELEMENT H) REMARK 3 AND (NOT ELEMENT D) REMARK 3 SELECTION : CHAIN 'B' AND (RESSEQ 11:20 OR RESSEQ REMARK 3 28:71 OR RESSEQ 80:115 OR RESSEQ 123:136 REMARK 3 OR RESSEQ 140:160 ) AND (NOT ELEMENT H) REMARK 3 AND (NOT ELEMENT D) REMARK 3 ATOM PAIRS NUMBER : 874 REMARK 3 RMSD : 0.095 REMARK 3 NCS GROUP : 2 REMARK 3 NCS OPERATOR : 1 REMARK 3 REFERENCE SELECTION: CHAIN 'A' AND (RESSEQ 1:20 OR RESSEQ REMARK 3 26:115 OR RESSEQ 122:165 ) REMARK 3 SELECTION : CHAIN 'B' AND (RESSEQ 1:20 OR RESSEQ REMARK 3 26:115 OR RESSEQ 122:165 ) REMARK 3 ATOM PAIRS NUMBER : 1054 REMARK 3 RMSD : 0.095 REMARK 3 REMARK 3 OTHER REFINEMENT REMARKS: NULL REMARK 4 REMARK 4 4LD0 COMPLIES WITH FORMAT V. 3.30, 13-JUL-11 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY RCSB ON 25-JUL-13. REMARK 100 THE DEPOSITION ID IS D_1000080475. REMARK 200 REMARK 200 EXPERIMENTAL DETAILS REMARK 200 EXPERIMENT TYPE : X-RAY DIFFRACTION REMARK 200 DATE OF DATA COLLECTION : 24-SEP-09 REMARK 200 TEMPERATURE (KELVIN) : 100 REMARK 200 PH : NULL REMARK 200 NUMBER OF CRYSTALS USED : 1 REMARK 200 REMARK 200 SYNCHROTRON (Y/N) : Y REMARK 200 RADIATION SOURCE : ESRF REMARK 200 BEAMLINE : ID23-2 REMARK 200 X-RAY GENERATOR MODEL : NULL REMARK 200 MONOCHROMATIC OR LAUE (M/L) : M REMARK 200 WAVELENGTH OR RANGE (A) : 0.873 REMARK 200 MONOCHROMATOR : HORIZONTALLY SIDE DIFFRACTING REMARK 200 SILICON 111 CRYSTAL REMARK 200 OPTICS : NULL REMARK 200 REMARK 200 DETECTOR TYPE : CCD REMARK 200 DETECTOR MANUFACTURER : MARMOSAIC 225 MM CCD REMARK 200 INTENSITY-INTEGRATION SOFTWARE : XDS REMARK 200 DATA SCALING SOFTWARE : XDS REMARK 200 REMARK 200 NUMBER OF UNIQUE REFLECTIONS : 9622 REMARK 200 RESOLUTION RANGE HIGH (A) : 3.700 REMARK 200 RESOLUTION RANGE LOW (A) : 50.000 REMARK 200 REJECTION CRITERIA (SIGMA(I)) : 2.200 REMARK 200 REMARK 200 OVERALL. REMARK 200 COMPLETENESS FOR RANGE (%) : 99.5 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) : 3.70 REMARK 200 HIGHEST RESOLUTION SHELL, RANGE LOW (A) : 3.96 REMARK 200 COMPLETENESS FOR SHELL (%) : 97.7 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: NULL REMARK 200 REMARK 200 REMARK: NULL REMARK 280 REMARK 280 CRYSTAL REMARK 280 SOLVENT CONTENT, VS (%): 69.92 REMARK 280 MATTHEWS COEFFICIENT, VM (ANGSTROMS**3/DA): 4.09 REMARK 280 REMARK 280 CRYSTALLIZATION CONDITIONS: 0.3-0.5 M AMMONIUM PHOSPHATE, VAPOR REMARK 280 DIFFUSION, SITTING DROP, TEMPERATURE 291K REMARK 290 REMARK 290 CRYSTALLOGRAPHIC SYMMETRY REMARK 290 SYMMETRY OPERATORS FOR SPACE GROUP: P 32 2 1 REMARK 290 REMARK 290 SYMOP SYMMETRY REMARK 290 NNNMMM OPERATOR REMARK 290 1555 X,Y,Z REMARK 290 2555 -Y,X-Y,Z+2/3 REMARK 290 3555 -X+Y,-X,Z+1/3 REMARK 290 4555 Y,X,-Z REMARK 290 5555 X-Y,-Y,-Z+1/3 REMARK 290 6555 -X,-X+Y,-Z+2/3 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 -0.500000 -0.866025 0.000000 0.00000 REMARK 290 SMTRY2 2 0.866025 -0.500000 0.000000 0.00000 REMARK 290 SMTRY3 2 0.000000 0.000000 1.000000 88.43533 REMARK 290 SMTRY1 3 -0.500000 0.866025 0.000000 0.00000 REMARK 290 SMTRY2 3 -0.866025 -0.500000 0.000000 0.00000 REMARK 290 SMTRY3 3 0.000000 0.000000 1.000000 44.21767 REMARK 290 SMTRY1 4 -0.500000 0.866025 0.000000 0.00000 REMARK 290 SMTRY2 4 0.866025 0.500000 0.000000 0.00000 REMARK 290 SMTRY3 4 0.000000 0.000000 -1.000000 0.00000 REMARK 290 SMTRY1 5 1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY2 5 0.000000 -1.000000 0.000000 0.00000 REMARK 290 SMTRY3 5 0.000000 0.000000 -1.000000 44.21767 REMARK 290 SMTRY1 6 -0.500000 -0.866025 0.000000 0.00000 REMARK 290 SMTRY2 6 -0.866025 0.500000 0.000000 0.00000 REMARK 290 SMTRY3 6 0.000000 0.000000 -1.000000 88.43533 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: PENTAMERIC REMARK 350 SOFTWARE DETERMINED QUATERNARY STRUCTURE: PENTAMERIC REMARK 350 SOFTWARE USED: PISA REMARK 350 TOTAL BURIED SURFACE AREA: 7160 ANGSTROM**2 REMARK 350 SURFACE AREA OF THE COMPLEX: 22740 ANGSTROM**2 REMARK 350 CHANGE IN SOLVENT FREE ENERGY: -62.0 KCAL/MOL REMARK 350 APPLY THE FOLLOWING TO CHAINS: A, B, C, D, F 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 GLY A -2 REMARK 465 PRO A -1 REMARK 465 HIS A 0 REMARK 465 GLY A 22 REMARK 465 LYS A 23 REMARK 465 GLY A 116 REMARK 465 HIS A 117 REMARK 465 GLY A 118 REMARK 465 HIS A 119 REMARK 465 ALA A 120 REMARK 465 ALA A 121 REMARK 465 GLY B -2 REMARK 465 PRO B -1 REMARK 465 GLU B 21 REMARK 465 GLY B 22 REMARK 465 LYS B 23 REMARK 465 GLY B 24 REMARK 465 ALA B 25 REMARK 465 GLY B 116 REMARK 465 HIS B 117 REMARK 465 GLY B 118 REMARK 465 HIS B 119 REMARK 465 ALA B 120 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 VAL A 55 CG1 CG2 REMARK 470 ARG A 63 CZ NH1 NH2 REMARK 470 GLU A 71 CG CD OE1 OE2 REMARK 470 PHE A 73 CG CD1 CD2 CE1 CE2 CZ REMARK 470 PHE A 74 CG CD1 CD2 CE1 CE2 CZ REMARK 470 ARG A 76 CG CD NE CZ NH1 NH2 REMARK 470 GLN A 77 CG CD OE1 NE2 REMARK 470 LEU A 88 CG CD1 CD2 REMARK 470 VAL A 110 CG1 CG2 REMARK 470 LYS A 122 CG CD CE NZ REMARK 470 ARG A 159 CG CD NE CZ NH1 NH2 REMARK 470 LEU A 166 CG CD1 CD2 REMARK 470 HIS B 0 CG ND1 CD2 CE1 NE2 REMARK 470 VAL B 3 CG1 CG2 REMARK 470 LEU B 15 CG CD1 CD2 REMARK 470 VAL B 18 CG1 CG2 REMARK 470 LEU B 26 CG CD1 CD2 REMARK 470 VAL B 35 CG1 CG2 REMARK 470 LEU B 59 CG CD1 CD2 REMARK 470 ARG B 61 CG CD NE CZ NH1 NH2 REMARK 470 ARG B 63 CG CD NE CZ NH1 NH2 REMARK 470 GLU B 65 CG CD OE1 OE2 REMARK 470 GLU B 71 CG CD OE1 OE2 REMARK 470 GLN B 72 CG CD OE1 NE2 REMARK 470 PHE B 74 CG CD1 CD2 CE1 CE2 CZ REMARK 470 TYR B 75 CG CD1 CD2 CE1 CE2 CZ OH REMARK 470 ARG B 76 CG CD NE CZ NH1 NH2 REMARK 470 ASN B 78 CG OD1 ND2 REMARK 470 TYR B 82 CG CD1 CD2 CE1 CE2 CZ OH REMARK 470 TRP B 86 CG CD1 CD2 NE1 CE2 CE3 CZ2 REMARK 470 TRP B 86 CZ3 CH2 REMARK 470 GLU B 123 CG CD OE1 OE2 REMARK 470 LEU B 127 CG CD1 CD2 REMARK 470 VAL B 129 CG1 CG2 REMARK 470 LEU B 144 CG CD1 CD2 REMARK 470 LEU B 148 CG CD1 CD2 REMARK 470 LEU B 152 CG CD1 CD2 REMARK 470 ARG B 159 CG CD NE CZ NH1 NH2 REMARK 470 LEU B 166 CG CD1 CD2 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 N3 DC D 12 O6 DG F 22 2.18 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 NH1 ARG A 61 OP1 DG C 20 4655 2.16 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 LYS A 37 CD - CE - NZ ANGL. DEV. = 31.1 DEGREES REMARK 500 LYS A 45 CD - CE - NZ ANGL. DEV. = 33.8 DEGREES REMARK 500 ARG A 54 CG - CD - NE ANGL. DEV. = 14.4 DEGREES REMARK 500 MET A 128 CG - SD - CE ANGL. DEV. = 35.7 DEGREES REMARK 500 LYS B 37 CD - CE - NZ ANGL. DEV. = 28.7 DEGREES REMARK 500 LYS B 45 CD - CE - NZ ANGL. DEV. = 35.7 DEGREES REMARK 500 VAL B 48 CG1 - CB - CG2 ANGL. DEV. = 11.2 DEGREES REMARK 500 MET B 128 CG - SD - CE ANGL. DEV. = 35.1 DEGREES REMARK 500 DG C 12 O4' - C1' - N9 ANGL. DEV. = 4.6 DEGREES REMARK 500 DA C 13 O4' - C1' - N9 ANGL. DEV. = 3.7 DEGREES REMARK 500 DC C 14 O4' - C1' - N1 ANGL. DEV. = 4.5 DEGREES REMARK 500 DC C 15 O4' - C4' - C3' ANGL. DEV. = -5.0 DEGREES REMARK 500 DC C 15 O4' - C1' - N1 ANGL. DEV. = 4.4 DEGREES REMARK 500 DA C 23 O4' - C1' - N9 ANGL. DEV. = 2.1 DEGREES REMARK 500 DA C 24 O4' - C1' - N9 ANGL. DEV. = 2.5 DEGREES REMARK 500 DT C 25 O4' - C1' - N1 ANGL. DEV. = 2.8 DEGREES REMARK 500 DC D 3 O4' - C1' - N1 ANGL. DEV. = 2.6 DEGREES REMARK 500 DC D 6 O4' - C1' - N1 ANGL. DEV. = 1.9 DEGREES REMARK 500 DA D 9 O4' - C1' - N9 ANGL. DEV. = 2.7 DEGREES REMARK 500 DG F 22 C3' - C2' - C1' ANGL. DEV. = -5.8 DEGREES REMARK 500 DG F 29 C3' - C2' - C1' ANGL. DEV. = -5.9 DEGREES REMARK 500 DG F 29 O4' - C1' - N9 ANGL. DEV. = 2.5 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 78 -34.85 -29.89 REMARK 500 THR A 162 66.56 -106.06 REMARK 500 PRO A 165 -175.46 -65.06 REMARK 500 ASN B 78 -34.10 -31.15 REMARK 500 THR B 162 66.48 -106.55 REMARK 500 PRO B 165 -153.61 -68.64 REMARK 500 REMARK 500 REMARK: NULL DBREF 4LD0 A 1 166 UNP Q5SJC4 RUVC_THET8 1 166 DBREF 4LD0 B 1 166 UNP Q5SJC4 RUVC_THET8 1 166 DBREF 4LD0 C 1 31 PDB 4LD0 4LD0 1 31 DBREF 4LD0 D 1 13 PDB 4LD0 4LD0 1 13 DBREF 4LD0 F 22 32 PDB 4LD0 4LD0 22 32 SEQADV 4LD0 GLY A -2 UNP Q5SJC4 EXPRESSION TAG SEQADV 4LD0 PRO A -1 UNP Q5SJC4 EXPRESSION TAG SEQADV 4LD0 HIS A 0 UNP Q5SJC4 EXPRESSION TAG SEQADV 4LD0 GLN A 70 UNP Q5SJC4 GLU 70 ENGINEERED MUTATION SEQADV 4LD0 GLY B -2 UNP Q5SJC4 EXPRESSION TAG SEQADV 4LD0 PRO B -1 UNP Q5SJC4 EXPRESSION TAG SEQADV 4LD0 HIS B 0 UNP Q5SJC4 EXPRESSION TAG SEQADV 4LD0 GLN B 70 UNP Q5SJC4 GLU 70 ENGINEERED MUTATION SEQRES 1 A 169 GLY PRO HIS MET VAL VAL ALA GLY ILE ASP PRO GLY ILE SEQRES 2 A 169 THR HIS LEU GLY LEU GLY VAL VAL ALA VAL GLU GLY LYS SEQRES 3 A 169 GLY ALA LEU LYS ALA ARG LEU LEU HIS GLY GLU VAL VAL SEQRES 4 A 169 LYS THR SER PRO GLN GLU PRO ALA LYS GLU ARG VAL GLY SEQRES 5 A 169 ARG ILE HIS ALA ARG VAL LEU GLU VAL LEU HIS ARG PHE SEQRES 6 A 169 ARG PRO GLU ALA VAL ALA VAL GLN GLU GLN PHE PHE TYR SEQRES 7 A 169 ARG GLN ASN GLU LEU ALA TYR LYS VAL GLY TRP ALA LEU SEQRES 8 A 169 GLY ALA VAL LEU VAL ALA ALA PHE GLU ALA GLY VAL PRO SEQRES 9 A 169 VAL TYR ALA TYR GLY PRO MET GLN VAL LYS GLN ALA LEU SEQRES 10 A 169 ALA GLY HIS GLY HIS ALA ALA LYS GLU GLU VAL ALA LEU SEQRES 11 A 169 MET VAL ARG GLY ILE LEU GLY LEU LYS GLU ALA PRO ARG SEQRES 12 A 169 PRO SER HIS LEU ALA ASP ALA LEU ALA ILE ALA LEU THR SEQRES 13 A 169 HIS ALA PHE TYR ALA ARG MET GLY THR ALA LYS PRO LEU SEQRES 1 B 169 GLY PRO HIS MET VAL VAL ALA GLY ILE ASP PRO GLY ILE SEQRES 2 B 169 THR HIS LEU GLY LEU GLY VAL VAL ALA VAL GLU GLY LYS SEQRES 3 B 169 GLY ALA LEU LYS ALA ARG LEU LEU HIS GLY GLU VAL VAL SEQRES 4 B 169 LYS THR SER PRO GLN GLU PRO ALA LYS GLU ARG VAL GLY SEQRES 5 B 169 ARG ILE HIS ALA ARG VAL LEU GLU VAL LEU HIS ARG PHE SEQRES 6 B 169 ARG PRO GLU ALA VAL ALA VAL GLN GLU GLN PHE PHE TYR SEQRES 7 B 169 ARG GLN ASN GLU LEU ALA TYR LYS VAL GLY TRP ALA LEU SEQRES 8 B 169 GLY ALA VAL LEU VAL ALA ALA PHE GLU ALA GLY VAL PRO SEQRES 9 B 169 VAL TYR ALA TYR GLY PRO MET GLN VAL LYS GLN ALA LEU SEQRES 10 B 169 ALA GLY HIS GLY HIS ALA ALA LYS GLU GLU VAL ALA LEU SEQRES 11 B 169 MET VAL ARG GLY ILE LEU GLY LEU LYS GLU ALA PRO ARG SEQRES 12 B 169 PRO SER HIS LEU ALA ASP ALA LEU ALA ILE ALA LEU THR SEQRES 13 B 169 HIS ALA PHE TYR ALA ARG MET GLY THR ALA LYS PRO LEU SEQRES 1 C 31 DC DA DA DT DC DG DG DC DT DT DT DG DA SEQRES 2 C 31 DC DC DT DT DT DG DG DT DC DA DA DT DC SEQRES 3 C 31 DG DG DC DA DG SEQRES 1 D 13 DA DT DC DT DG DC DC DG DA DT DT DC DT SEQRES 1 F 11 DG DA DA DA DG DC DC DG DA DT DT HELIX 1 1 PRO A 43 ARG A 63 1 21 HELIX 2 2 GLN A 77 GLY A 99 1 23 HELIX 3 3 GLY A 106 ALA A 115 1 10 HELIX 4 4 GLU A 123 LEU A 133 1 11 HELIX 5 5 PRO A 141 MET A 160 1 20 HELIX 6 6 PRO B 43 ARG B 63 1 21 HELIX 7 7 GLN B 77 GLY B 99 1 23 HELIX 8 8 GLY B 106 ALA B 115 1 10 HELIX 9 9 LYS B 122 LEU B 133 1 12 HELIX 10 10 PRO B 141 MET B 160 1 20 SHEET 1 A 5 ALA A 28 LYS A 37 0 SHEET 2 A 5 HIS A 12 VAL A 20 -1 N LEU A 15 O GLU A 34 SHEET 3 A 5 VAL A 2 ASP A 7 -1 N VAL A 3 O VAL A 18 SHEET 4 A 5 ALA A 66 GLN A 70 1 O ALA A 68 N ALA A 4 SHEET 5 A 5 VAL A 102 TYR A 105 1 O TYR A 103 N VAL A 67 SHEET 1 B 5 ARG B 29 LYS B 37 0 SHEET 2 B 5 HIS B 12 VAL B 20 -1 N VAL B 17 O LEU B 31 SHEET 3 B 5 MET B 1 ASP B 7 -1 N MET B 1 O VAL B 20 SHEET 4 B 5 ALA B 66 GLN B 70 1 O ALA B 68 N ALA B 4 SHEET 5 B 5 VAL B 102 TYR B 105 1 O TYR B 103 N VAL B 67 CISPEP 1 GLY A 24 ALA A 25 0 0.99 CISPEP 2 ARG A 140 PRO A 141 0 -5.58 CISPEP 3 ARG B 140 PRO B 141 0 -4.83 CRYST1 106.356 106.356 132.653 90.00 90.00 120.00 P 32 2 1 12 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 0.009402 0.005428 0.000000 0.00000 SCALE2 0.000000 0.010857 0.000000 0.00000 SCALE3 0.000000 0.000000 0.007538 0.00000