HEADER RNA BINDING PROTEIN/RNA/DNA 21-MAR-25 9NVU TITLE ENGINEERED ORUFISCB-OMEGARNA-TARGET DNA COMPLEX COMPND MOL_ID: 1; COMPND 2 MOLECULE: NTS; COMPND 3 CHAIN: N; COMPND 4 ENGINEERED: YES; COMPND 5 MOL_ID: 2; COMPND 6 MOLECULE: ORUFISCB-REC-SWAP 49; COMPND 7 CHAIN: P; COMPND 8 ENGINEERED: YES; COMPND 9 MOL_ID: 3; COMPND 10 MOLECULE: DNA TS; COMPND 11 CHAIN: T; COMPND 12 ENGINEERED: YES; COMPND 13 MOL_ID: 4; COMPND 14 MOLECULE: RNA (162-MER); COMPND 15 CHAIN: W; COMPND 16 ENGINEERED: YES SOURCE MOL_ID: 1; SOURCE 2 ORGANISM_SCIENTIFIC: SYNTHETIC CONSTRUCT; SOURCE 3 ORGANISM_TAXID: 32630; SOURCE 4 EXPRESSION_SYSTEM: SYNTHETIC CONSTRUCT; SOURCE 5 EXPRESSION_SYSTEM_TAXID: 32630; SOURCE 6 MOL_ID: 2; SOURCE 7 ORGANISM_SCIENTIFIC: METAGENOME; SOURCE 8 ORGANISM_TAXID: 256318; SOURCE 9 EXPRESSION_SYSTEM: ESCHERICHIA COLI; SOURCE 10 EXPRESSION_SYSTEM_TAXID: 562; SOURCE 11 MOL_ID: 3; SOURCE 12 ORGANISM_SCIENTIFIC: SYNTHETIC CONSTRUCT; SOURCE 13 ORGANISM_TAXID: 32630; SOURCE 14 EXPRESSION_SYSTEM: SYNTHETIC CONSTRUCT; SOURCE 15 EXPRESSION_SYSTEM_TAXID: 32630; SOURCE 16 MOL_ID: 4; SOURCE 17 ORGANISM_SCIENTIFIC: METAGENOME; SOURCE 18 ORGANISM_TAXID: 256318; SOURCE 19 EXPRESSION_SYSTEM: ESCHERICHIA COLI; SOURCE 20 EXPRESSION_SYSTEM_TAXID: 562 KEYWDS GENE EDITING, ISCB, OMEGA, RNA-GUIDED NUCLEASE, RNA BINDING PROTEIN- KEYWDS 2 RNA-DNA COMPLEX EXPDTA ELECTRON MICROSCOPY AUTHOR P.XU,S.ZHU,F.ZHANG REVDAT 1 21-MAY-25 9NVU 0 JRNL AUTH S.KANNAN,H.ALTAE-TRAN,S.ZHU,P.XU,D.STREBINGER,R.OSHIRO, JRNL AUTH 2 G.FAURE,L.MOELLER,J.PHAM,K.S.MEARS,H.M.NI,R.K.MACRAE,F.ZHANG JRNL TITL EVOLUTION-GUIDED PROTEIN DESIGN OF ISCB FOR PERSISTENT JRNL TITL 2 EPIGENOME EDITING IN VIVO. JRNL REF NAT.BIOTECHNOL. 2025 JRNL REFN ISSN 1087-0156 JRNL PMID 40335752 JRNL DOI 10.1038/S41587-025-02655-3 REMARK 2 REMARK 2 RESOLUTION. 2.71 ANGSTROMS. REMARK 3 REMARK 3 REFINEMENT. REMARK 3 SOFTWARE PACKAGES : NULL REMARK 3 RECONSTRUCTION SCHEMA : NULL REMARK 3 REMARK 3 EM MAP-MODEL FITTING AND REFINEMENT REMARK 3 PDB ENTRY : NULL REMARK 3 REFINEMENT SPACE : NULL REMARK 3 REFINEMENT PROTOCOL : NULL REMARK 3 REFINEMENT TARGET : NULL REMARK 3 OVERALL ANISOTROPIC B VALUE : NULL REMARK 3 REMARK 3 FITTING PROCEDURE : NULL REMARK 3 REMARK 3 EM IMAGE RECONSTRUCTION STATISTICS REMARK 3 NOMINAL PIXEL SIZE (ANGSTROMS) : NULL REMARK 3 ACTUAL PIXEL SIZE (ANGSTROMS) : NULL REMARK 3 EFFECTIVE RESOLUTION (ANGSTROMS) : 2.710 REMARK 3 NUMBER OF PARTICLES : 68817 REMARK 3 CTF CORRECTION METHOD : PHASE FLIPPING AND AMPLITUDE REMARK 3 CORRECTION REMARK 3 REMARK 3 EM RECONSTRUCTION MAGNIFICATION CALIBRATION: NULL REMARK 3 REMARK 3 OTHER DETAILS: NULL REMARK 4 REMARK 4 9NVU COMPLIES WITH FORMAT V. 3.30, 13-JUL-11 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY RCSB ON 25-MAR-25. REMARK 100 THE DEPOSITION ID IS D_1000294333. REMARK 245 REMARK 245 EXPERIMENTAL DETAILS REMARK 245 RECONSTRUCTION METHOD : SINGLE PARTICLE REMARK 245 SPECIMEN TYPE : NULL REMARK 245 REMARK 245 ELECTRON MICROSCOPE SAMPLE REMARK 245 SAMPLE TYPE : PARTICLE REMARK 245 PARTICLE TYPE : POINT REMARK 245 NAME OF SAMPLE : ENGINEERED ORUFISCB-OMEGARNA REMARK 245 -TARGET DNA COMPLEX REMARK 245 SAMPLE CONCENTRATION (MG ML-1) : NULL REMARK 245 SAMPLE SUPPORT DETAILS : NULL REMARK 245 SAMPLE VITRIFICATION DETAILS : NULL REMARK 245 SAMPLE BUFFER : NULL REMARK 245 PH : 7.50 REMARK 245 SAMPLE DETAILS : NULL REMARK 245 REMARK 245 DATA ACQUISITION REMARK 245 DATE OF EXPERIMENT : NULL REMARK 245 NUMBER OF MICROGRAPHS-IMAGES : NULL REMARK 245 TEMPERATURE (KELVIN) : NULL REMARK 245 MICROSCOPE MODEL : TFS KRIOS REMARK 245 DETECTOR TYPE : GATAN K3 (6K X 4K) REMARK 245 MINIMUM DEFOCUS (NM) : 800.00 REMARK 245 MAXIMUM DEFOCUS (NM) : 2200.00 REMARK 245 MINIMUM TILT ANGLE (DEGREES) : NULL REMARK 245 MAXIMUM TILT ANGLE (DEGREES) : NULL REMARK 245 NOMINAL CS : NULL REMARK 245 IMAGING MODE : OTHER REMARK 245 ELECTRON DOSE (ELECTRONS NM**-2) : 4882.00 REMARK 245 ILLUMINATION MODE : OTHER REMARK 245 NOMINAL MAGNIFICATION : NULL REMARK 245 CALIBRATED MAGNIFICATION : NULL REMARK 245 SOURCE : FIELD EMISSION GUN REMARK 245 ACCELERATION VOLTAGE (KV) : 300 REMARK 245 IMAGING DETAILS : NULL REMARK 247 REMARK 247 ELECTRON MICROSCOPY REMARK 247 THE COORDINATES IN THIS ENTRY WERE GENERATED FROM ELECTRON REMARK 247 MICROSCOPY DATA. PROTEIN DATA BANK CONVENTIONS REQUIRE REMARK 247 THAT CRYST1 AND SCALE RECORDS BE INCLUDED, BUT THE VALUES REMARK 247 ON THESE RECORDS ARE MEANINGLESS EXCEPT FOR THE CALCULATION REMARK 247 OF THE STRUCTURE FACTORS. 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: TETRAMERIC REMARK 350 SOFTWARE DETERMINED QUATERNARY STRUCTURE: TETRAMERIC REMARK 350 SOFTWARE USED: PISA REMARK 350 APPLY THE FOLLOWING TO CHAINS: N, P, T, W 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 DA N -13 REMARK 465 DA N -12 REMARK 465 U W 17 REMARK 465 G W 18 REMARK 465 A W 19 REMARK 465 A W 20 REMARK 465 G W 21 REMARK 465 U W 22 REMARK 465 C W 23 REMARK 465 A W 24 REMARK 465 U W 25 REMARK 465 G W 26 REMARK 465 G W 27 REMARK 465 G W 28 REMARK 465 C W 29 REMARK 465 U W 30 REMARK 465 U W 31 REMARK 465 G W 32 REMARK 465 C W 33 REMARK 465 A W 34 REMARK 465 G W 35 REMARK 465 A W 36 REMARK 465 U W 37 REMARK 465 G W 38 REMARK 465 C W 39 REMARK 465 A W 40 REMARK 465 G W 41 REMARK 465 G W 42 REMARK 465 U W 43 REMARK 465 C W 44 REMARK 465 C W 45 REMARK 465 U W 46 REMARK 465 G W 47 REMARK 465 A W 48 REMARK 465 U W 49 REMARK 465 G W 50 REMARK 465 G W 51 REMARK 465 A W 52 REMARK 465 A W 53 REMARK 465 U W 159 REMARK 465 G W 160 REMARK 465 C W 161 REMARK 465 G W 162 REMARK 465 G W 163 REMARK 465 U W 164 REMARK 465 U W 165 REMARK 465 U W 166 REMARK 465 U W 167 REMARK 465 C W 168 REMARK 465 C W 169 REMARK 465 G W 170 REMARK 465 C W 171 REMARK 465 U W 172 REMARK 465 U W 192 REMARK 465 A W 193 REMARK 465 A W 194 REMARK 465 G W 195 REMARK 465 G W 196 REMARK 465 A W 197 REMARK 465 G W 198 REMARK 465 U W 199 REMARK 465 U W 200 REMARK 465 A W 201 REMARK 465 U W 202 REMARK 465 U W 203 REMARK 465 A W 204 REMARK 465 G W 205 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 HG SER P 511 OD2 ASP P 514 1.57 REMARK 500 OE2 GLU P 77 HG1 THR P 466 1.59 REMARK 500 O THR P 486 HG SER P 540 1.59 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 DA N -11 O4' - C1' - N9 ANGL. DEV. = 3.1 DEGREES REMARK 500 DA N -11 C4 - C5 - C6 ANGL. DEV. = -3.5 DEGREES REMARK 500 DA N -11 C5 - C6 - N1 ANGL. DEV. = 3.6 DEGREES REMARK 500 DA N -11 N1 - C6 - N6 ANGL. DEV. = -5.4 DEGREES REMARK 500 DA N -10 C4 - C5 - C6 ANGL. DEV. = -3.2 DEGREES REMARK 500 DA N -10 C5 - C6 - N1 ANGL. DEV. = 3.6 DEGREES REMARK 500 DA N -10 N1 - C6 - N6 ANGL. DEV. = -6.0 DEGREES REMARK 500 DT N -9 C6 - C5 - C7 ANGL. DEV. = -3.8 DEGREES REMARK 500 DA N -7 C4 - C5 - C6 ANGL. DEV. = -3.1 DEGREES REMARK 500 DA N -7 C5 - C6 - N1 ANGL. DEV. = 3.7 DEGREES REMARK 500 DA N -7 N1 - C6 - N6 ANGL. DEV. = -5.4 DEGREES REMARK 500 DC N -6 O4' - C1' - N1 ANGL. DEV. = 2.9 DEGREES REMARK 500 DC N -6 N3 - C2 - O2 ANGL. DEV. = -4.8 DEGREES REMARK 500 DT N -5 N3 - C2 - O2 ANGL. DEV. = -4.2 DEGREES REMARK 500 DT N -5 C3' - O3' - P ANGL. DEV. = 7.7 DEGREES REMARK 500 DT N -4 N3 - C2 - O2 ANGL. DEV. = -5.1 DEGREES REMARK 500 DC N -3 N3 - C2 - O2 ANGL. DEV. = -4.3 DEGREES REMARK 500 DT N -2 O4' - C1' - N1 ANGL. DEV. = 2.8 DEGREES REMARK 500 DT N -2 C6 - C5 - C7 ANGL. DEV. = -3.6 DEGREES REMARK 500 DC N -1 N3 - C2 - O2 ANGL. DEV. = -4.5 DEGREES REMARK 500 DA N 0 C5 - C6 - N1 ANGL. DEV. = 3.2 DEGREES REMARK 500 DA N 0 N1 - C6 - N6 ANGL. DEV. = -5.1 DEGREES REMARK 500 DT N 1 C6 - C5 - C7 ANGL. DEV. = -4.0 DEGREES REMARK 500 DA N 2 C4 - C5 - C6 ANGL. DEV. = -3.3 DEGREES REMARK 500 DA N 2 C5 - C6 - N1 ANGL. DEV. = 3.7 DEGREES REMARK 500 DA N 2 N1 - C6 - N6 ANGL. DEV. = -5.0 DEGREES REMARK 500 DA N 3 O4' - C1' - N9 ANGL. DEV. = 3.4 DEGREES REMARK 500 DA N 3 C5 - C6 - N1 ANGL. DEV. = 3.6 DEGREES REMARK 500 DA N 3 N1 - C6 - N6 ANGL. DEV. = -4.6 DEGREES REMARK 500 DA N 4 C4 - C5 - C6 ANGL. DEV. = -3.2 DEGREES REMARK 500 DA N 4 C5 - C6 - N1 ANGL. DEV. = 3.6 DEGREES REMARK 500 DA N 4 N1 - C6 - N6 ANGL. DEV. = -4.7 DEGREES REMARK 500 DA N 5 C4 - C5 - C6 ANGL. DEV. = -3.2 DEGREES REMARK 500 DA N 5 C5 - C6 - N1 ANGL. DEV. = 3.4 DEGREES REMARK 500 DA N 5 N1 - C6 - N6 ANGL. DEV. = -4.5 DEGREES REMARK 500 DC N 8 O4' - C1' - N1 ANGL. DEV. = 1.9 DEGREES REMARK 500 DC N 8 N3 - C2 - O2 ANGL. DEV. = -5.1 DEGREES REMARK 500 DC N 9 N3 - C2 - O2 ANGL. DEV. = -4.3 DEGREES REMARK 500 DC N 10 N3 - C2 - O2 ANGL. DEV. = -5.1 DEGREES REMARK 500 DG N 12 O4' - C1' - N9 ANGL. DEV. = 3.0 DEGREES REMARK 500 DT N 14 O4' - C1' - N1 ANGL. DEV. = 2.6 DEGREES REMARK 500 DT N 14 C6 - C5 - C7 ANGL. DEV. = -3.8 DEGREES REMARK 500 DA N 15 O4' - C1' - N9 ANGL. DEV. = 3.5 DEGREES REMARK 500 DA N 15 C4 - C5 - C6 ANGL. DEV. = -3.4 DEGREES REMARK 500 DA N 15 C5 - C6 - N1 ANGL. DEV. = 3.6 DEGREES REMARK 500 DA N 15 N1 - C6 - N6 ANGL. DEV. = -5.4 DEGREES REMARK 500 ARG P 50 NE - CZ - NH2 ANGL. DEV. = 3.3 DEGREES REMARK 500 ARG P 63 NE - CZ - NH2 ANGL. DEV. = 3.5 DEGREES REMARK 500 ARG P 80 NE - CZ - NH1 ANGL. DEV. = -4.6 DEGREES REMARK 500 ARG P 80 NE - CZ - NH2 ANGL. DEV. = 5.8 DEGREES REMARK 500 REMARK 500 THIS ENTRY HAS 289 ANGLE DEVIATIONS. 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 P 125 21.05 49.47 REMARK 500 ALA P 139 47.44 -76.99 REMARK 500 LYS P 141 -89.71 -111.51 REMARK 500 ASN P 145 177.24 178.87 REMARK 500 ASN P 152 -82.28 -112.00 REMARK 500 ARG P 153 71.55 40.18 REMARK 500 LEU P 155 -49.80 -141.53 REMARK 500 LYS P 159 -8.68 -59.72 REMARK 500 CYS P 161 -38.04 -143.83 REMARK 500 VAL P 171 36.20 -94.06 REMARK 500 THR P 257 -35.52 -138.63 REMARK 500 CYS P 342 -13.23 -143.96 REMARK 500 LYS P 344 -62.35 -131.92 REMARK 500 GLU P 465 -50.10 -124.55 REMARK 500 GLU P 581 -138.91 53.62 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 DC N -6 0.08 SIDE CHAIN REMARK 500 DT N -4 0.14 SIDE CHAIN REMARK 500 DA N 3 0.07 SIDE CHAIN REMARK 500 DT N 7 0.07 SIDE CHAIN REMARK 500 DC N 9 0.09 SIDE CHAIN REMARK 500 ARG P 23 0.08 SIDE CHAIN REMARK 500 ARG P 168 0.12 SIDE CHAIN REMARK 500 ARG P 264 0.12 SIDE CHAIN REMARK 500 HIS P 445 0.09 SIDE CHAIN REMARK 500 ARG P 501 0.09 SIDE CHAIN REMARK 500 TYR P 574 0.09 SIDE CHAIN REMARK 500 DC T -12 0.07 SIDE CHAIN REMARK 500 DC T -11 0.06 SIDE CHAIN REMARK 500 DG T -10 0.11 SIDE CHAIN REMARK 500 DT T -4 0.10 SIDE CHAIN REMARK 500 DT T -2 0.06 SIDE CHAIN REMARK 500 DT T 0 0.08 SIDE CHAIN REMARK 500 DG T 1 0.09 SIDE CHAIN REMARK 500 DG T 3 0.06 SIDE CHAIN REMARK 500 DA T 5 0.06 SIDE CHAIN REMARK 500 DA T 17 0.11 SIDE CHAIN REMARK 500 DG T 18 0.09 SIDE CHAIN REMARK 500 DG T 19 0.06 SIDE CHAIN REMARK 500 DC T 21 0.07 SIDE CHAIN REMARK 500 DA T 22 0.06 SIDE CHAIN REMARK 500 G W -19 0.07 SIDE CHAIN REMARK 500 C W -17 0.07 SIDE CHAIN REMARK 500 A W -11 0.11 SIDE CHAIN REMARK 500 U W -8 0.06 SIDE CHAIN REMARK 500 A W 4 0.08 SIDE CHAIN REMARK 500 A W 15 0.08 SIDE CHAIN REMARK 500 C W 16 0.07 SIDE CHAIN REMARK 500 A W 56 0.06 SIDE CHAIN REMARK 500 G W 60 0.06 SIDE CHAIN REMARK 500 U W 61 0.07 SIDE CHAIN REMARK 500 A W 67 0.07 SIDE CHAIN REMARK 500 C W 69 0.10 SIDE CHAIN REMARK 500 A W 72 0.07 SIDE CHAIN REMARK 500 G W 73 0.06 SIDE CHAIN REMARK 500 G W 76 0.11 SIDE CHAIN REMARK 500 G W 83 0.07 SIDE CHAIN REMARK 500 U W 84 0.16 SIDE CHAIN REMARK 500 G W 93 0.06 SIDE CHAIN REMARK 500 C W 104 0.08 SIDE CHAIN REMARK 500 C W 116 0.11 SIDE CHAIN REMARK 500 U W 117 0.13 SIDE CHAIN REMARK 500 G W 125 0.07 SIDE CHAIN REMARK 500 A W 144 0.07 SIDE CHAIN REMARK 500 C W 146 0.09 SIDE CHAIN REMARK 500 A W 150 0.08 SIDE CHAIN REMARK 500 REMARK 500 THIS ENTRY HAS 53 PLANE DEVIATIONS. REMARK 500 REMARK 500 REMARK: NULL REMARK 620 REMARK 620 METAL COORDINATION REMARK 620 (M=MODEL NUMBER; RES=RESIDUE NAME; C=CHAIN IDENTIFIER; REMARK 620 SSEQ=SEQUENCE NUMBER; I=INSERTION CODE): REMARK 620 REMARK 620 COORDINATION ANGLES FOR: M RES CSSEQI METAL REMARK 620 MG P 701 MG REMARK 620 N RES CSSEQI ATOM REMARK 620 1 DT N -5 OP2 REMARK 620 2 ASP P 60 OD2 128.5 REMARK 620 3 HIS P 445 NE2 115.4 115.5 REMARK 620 N 1 2 REMARK 620 REMARK 620 COORDINATION ANGLES FOR: M RES CSSEQI METAL REMARK 620 MG P 702 MG REMARK 620 N RES CSSEQI ATOM REMARK 620 1 DT N -5 OP1 REMARK 620 2 ASP P 60 OD1 106.9 REMARK 620 3 GLU P 295 OE1 126.8 123.9 REMARK 620 N 1 2 REMARK 620 REMARK 620 COORDINATION ANGLES FOR: M RES CSSEQI METAL REMARK 620 ZN P 704 ZN REMARK 620 N RES CSSEQI ATOM REMARK 620 1 CYS P 158 SG REMARK 620 2 CYS P 161 SG 86.4 REMARK 620 3 CYS P 245 SG 88.7 129.6 REMARK 620 4 HIS P 248 ND1 132.3 108.4 111.5 REMARK 620 N 1 2 3 REMARK 620 REMARK 620 COORDINATION ANGLES FOR: M RES CSSEQI METAL REMARK 620 ZN P 703 ZN REMARK 620 N RES CSSEQI ATOM REMARK 620 1 CYS P 342 SG REMARK 620 2 CYS P 371 SG 128.1 REMARK 620 3 CYS P 374 SG 141.5 87.4 REMARK 620 N 1 2 REMARK 620 REMARK 620 COORDINATION ANGLES FOR: M RES CSSEQI METAL REMARK 620 MG T 101 MG REMARK 620 N RES CSSEQI ATOM REMARK 620 1 HIS P 375 NE2 REMARK 620 2 DG T 3 O3' 109.8 REMARK 620 3 DA T 4 OP1 128.0 72.7 REMARK 620 N 1 2 REMARK 900 REMARK 900 RELATED ENTRIES REMARK 900 RELATED ID: EMD-49856 RELATED DB: EMDB REMARK 900 ENGINEERED ORUFISCB-OMEGARNA-TARGET DNA COMPLEX DBREF 9NVU N -13 15 PDB 9NVU 9NVU -13 15 DBREF 9NVU P 1 603 PDB 9NVU 9NVU 1 603 DBREF 9NVU T -15 23 PDB 9NVU 9NVU -15 23 DBREF 9NVU W -21 205 PDB 9NVU 9NVU -21 205 SEQRES 1 N 29 DA DA DA DA DT DG DA DC DT DT DC DT DC SEQRES 2 N 29 DA DT DA DA DA DA DT DT DC DC DC DG DG SEQRES 3 N 29 DG DT DA SEQRES 1 P 603 ARG TYR VAL TYR VAL LEU ASP VAL ASP GLY LYS PRO LEU SEQRES 2 P 603 MET PRO THR CYS ARG PHE GLY LYS VAL ARG ARG MET LEU SEQRES 3 P 603 LYS SER GLY GLN ALA LYS ALA VAL ASP THR LEU PRO PHE SEQRES 4 P 603 THR ILE GLN LEU THR TYR LYS PRO ARG THR ARG ILE LEU SEQRES 5 P 603 GLN PRO VAL THR LEU GLY GLN ASP PRO GLY ARG THR ASN SEQRES 6 P 603 ILE GLY MET ALA ALA VAL ARG PHE ASP GLY LYS GLU LEU SEQRES 7 P 603 GLY ARG PHE HIS CYS ILE THR ARG ASN LYS GLU ILE PRO SEQRES 8 P 603 LYS LEU MET ALA ASP ARG MET ALA ALA ARG LYS ALA SER SEQRES 9 P 603 ARG ARG GLY GLU ARG LEU ALA ARG LYS ARG LEU ALA ARG SEQRES 10 P 603 LYS LEU HIS THR THR ALA LYS HIS LEU ASN GLY ARG ILE SEQRES 11 P 603 LEU PRO GLY CYS SER GLU PRO ILE ALA VAL LYS ASP ILE SEQRES 12 P 603 ILE ASN THR GLU SER ARG PHE ASN ASN ARG ILE LEU THR SEQRES 13 P 603 LYS CYS LYS VAL CYS GLY LYS ASN THR PRO LEU ARG ARG SEQRES 14 P 603 ASN VAL ARG GLU LEU LEU LEU GLU ASN ILE VAL ARG PHE SEQRES 15 P 603 LEU PRO LEU GLU SER GLU LEU LYS GLU THR LEU LYS ARG SEQRES 16 P 603 THR ILE LEU GLU GLY GLN GLN GLY ASN ILE ASN LYS LEU SEQRES 17 P 603 PHE ARG LYS LEU ARG LYS VAL TYR LYS ILE THR LEU ASN SEQRES 18 P 603 GLN LYS ASP TRP PRO GLY LYS ASN LEU THR ASP ILE ALA SEQRES 19 P 603 LYS ASN LYS LEU PRO GLY ARG LEU PRO PHE CYS LYS GLU SEQRES 20 P 603 HIS PHE ALA GLU ASN GLU LYS PHE THR THR ILE GLU LYS SEQRES 21 P 603 SER THR PHE ARG LEU THR PRO THR ALA THR GLN LEU LEU SEQRES 22 P 603 ARG THR HIS ILE ASN LEU PHE ARG LYS LEU SER GLY ILE SEQRES 23 P 603 LEU PRO VAL THR ASP VAL ALA VAL GLU LEU ASN LYS PHE SEQRES 24 P 603 ALA PHE MET GLN LEU ASP ASN PRO GLU MET LYS LYS ARG SEQRES 25 P 603 GLU ILE ASP PHE CYS HIS GLY PRO LEU CYS GLY THR GLY SEQRES 26 P 603 GLY LEU GLU ALA ALA VAL LYS GLU GLN GLN ASP GLY LYS SEQRES 27 P 603 CYS LEU LEU CYS GLY LYS GLU SER ILE GLY HIS TYR HIS SEQRES 28 P 603 HIS ILE VAL PRO ARG SER ARG ARG GLY SER ASN THR ILE SEQRES 29 P 603 ALA ASN ILE ALA GLY LEU CYS PRO LYS CYS HIS GLU LEU SEQRES 30 P 603 VAL HIS LYS ASP ALA ASP THR ALA GLU SER LEU THR GLU SEQRES 31 P 603 MET LYS THR GLY LEU MET LYS LYS TYR GLY GLY THR SER SEQRES 32 P 603 VAL LEU ASN GLN ILE ILE PRO LYS LEU VAL GLU THR LEU SEQRES 33 P 603 ALA ASP LEU PHE PRO GLY HIS PHE HIS VAL THR ASN GLY SEQRES 34 P 603 TRP ASN THR LYS GLU PHE ARG GLU LYS HIS HIS LEU GLU SEQRES 35 P 603 LYS ASP HIS ASP VAL ASP ALA TYR CYS ILE ALA CYS SER SEQRES 36 P 603 HIS LEU LYS PRO GLU GLU THR LEU VAL GLU THR GLU PRO SEQRES 37 P 603 PHE GLU ILE LEU GLN PHE ARG LYS HIS ASN ARG ALA ILE SEQRES 38 P 603 ILE HIS HIS GLN THR GLU ARG THR TYR LYS LEU ASP GLY SEQRES 39 P 603 VAL THR VAL ALA LYS ASN ARG LYS LYS ARG MET GLU GLN SEQRES 40 P 603 LYS THR ASP SER LEU GLU ASP TRP TYR VAL ASP MET ALA SEQRES 41 P 603 LYS GLU HIS GLY LYS THR GLN ALA ASP ALA MET ARG SER SEQRES 42 P 603 ARG LEU THR VAL ILE LYS SER THR ARG TYR TYR ASN THR SEQRES 43 P 603 PRO GLY ARG MET MET PRO GLY THR VAL PHE LEU TYR GLU SEQRES 44 P 603 GLY LYS ARG TYR VAL MET THR GLY GLN ILE THR ASN GLY SEQRES 45 P 603 LYS TYR TYR ARG ALA TYR GLY GLN GLU LYS ARG ASN PHE SEQRES 46 P 603 PRO ALA VAL LYS VAL ARG ILE LEU THR LYS ASN THR GLY SEQRES 47 P 603 LEU VAL PHE VAL ALA SEQRES 1 T 39 DT DA DC DC DC DG DG DG DA DA DT DT DT SEQRES 2 T 39 DT DA DT DG DA DG DA DA DG DT DC DA DT SEQRES 3 T 39 DT DT DA DA DT DA DA DG DG DC DC DA DC SEQRES 1 W 227 G G G C C U U A U U A A A SEQRES 2 W 227 U G A C U U C U C G U C A SEQRES 3 W 227 A U A A C C C A U G A C U SEQRES 4 W 227 G A A G U C A U G G G C U SEQRES 5 W 227 U G C A G A U G C A G G U SEQRES 6 W 227 C C U G A U G G A A G A A SEQRES 7 W 227 A G G G U U A C U G A G C SEQRES 8 W 227 A G A G C A G U G A C A U SEQRES 9 W 227 G U C A U U C G C C G C G SEQRES 10 W 227 G G G U G A U U C C A A G SEQRES 11 W 227 C U C C G C G C U C C G G SEQRES 12 W 227 C U A G A C A U G C C C A SEQRES 13 W 227 U G C U U U G G A A A C U SEQRES 14 W 227 U U A A C G G U A U G U G SEQRES 15 W 227 C G G U U U U C C G C U U SEQRES 16 W 227 A U A C C G G C U U A C A SEQRES 17 W 227 A C A A A U A A G G A G U SEQRES 18 W 227 U A U U A G HET MG P 701 1 HET MG P 702 1 HET ZN P 703 1 HET ZN P 704 1 HET MG T 101 1 HET MG W 301 1 HETNAM MG MAGNESIUM ION HETNAM ZN ZINC ION FORMUL 5 MG 4(MG 2+) FORMUL 7 ZN 2(ZN 2+) HELIX 1 AA1 ARG P 18 SER P 28 1 11 HELIX 2 AA2 ARG P 86 LYS P 88 5 3 HELIX 3 AA3 GLU P 89 HIS P 120 1 32 HELIX 4 AA4 VAL P 171 ARG P 181 1 11 HELIX 5 AA5 GLU P 186 GLY P 200 1 15 HELIX 6 AA6 GLN P 201 LYS P 217 1 17 HELIX 7 AA7 PRO P 226 ILE P 233 1 8 HELIX 8 AA8 CYS P 245 ALA P 250 1 6 HELIX 9 AA9 GLU P 253 THR P 257 5 5 HELIX 10 AB1 THR P 266 SER P 284 1 19 HELIX 11 AB2 ALA P 300 ASP P 305 1 6 HELIX 12 AB3 LYS P 310 ILE P 314 5 5 HELIX 13 AB4 GLY P 326 GLN P 335 1 10 HELIX 14 AB5 PRO P 355 ARG P 359 5 5 HELIX 15 AB6 THR P 363 ALA P 365 5 3 HELIX 16 AB7 CYS P 371 ASP P 381 1 11 HELIX 17 AB8 ASP P 381 LYS P 392 1 12 HELIX 18 AB9 TYR P 399 PHE P 420 1 22 HELIX 19 AC1 GLY P 429 HIS P 439 1 11 HELIX 20 AC2 ASP P 444 CYS P 454 1 11 HELIX 21 AC3 SER P 511 GLY P 524 1 14 HELIX 22 AC4 GLY P 524 SER P 533 1 10 SHEET 1 AA1 3 TYR P 4 LEU P 6 0 SHEET 2 AA1 3 THR P 40 LEU P 43 1 O LEU P 43 N LEU P 6 SHEET 3 AA1 3 ALA P 31 ASP P 35 -1 N ASP P 35 O THR P 40 SHEET 1 AA2 7 PHE P 424 ASN P 428 0 SHEET 2 AA2 7 VAL P 289 LEU P 296 1 N LEU P 296 O THR P 427 SHEET 3 AA2 7 VAL P 55 ASP P 60 1 N LEU P 57 O ASP P 291 SHEET 4 AA2 7 ASN P 65 ARG P 72 -1 O VAL P 71 N THR P 56 SHEET 5 AA2 7 GLU P 77 ILE P 84 -1 O CYS P 83 N ILE P 66 SHEET 6 AA2 7 PHE P 469 GLN P 473 1 O PHE P 469 N ARG P 80 SHEET 7 AA2 7 LEU P 599 VAL P 602 -1 O VAL P 600 N LEU P 472 SHEET 1 AA3 2 HIS P 349 HIS P 352 0 SHEET 2 AA3 2 ILE P 367 LEU P 370 -1 O LEU P 370 N HIS P 349 SHEET 1 AA4 2 ILE P 482 GLN P 485 0 SHEET 2 AA4 2 ARG P 542 TYR P 544 -1 O TYR P 543 N HIS P 484 SHEET 1 AA5 3 VAL P 495 ALA P 498 0 SHEET 2 AA5 3 THR P 489 LEU P 492 -1 N TYR P 490 O ALA P 498 SHEET 3 AA5 3 THR P 536 ILE P 538 -1 O THR P 536 N LYS P 491 SHEET 1 AA6 5 PHE P 585 PRO P 586 0 SHEET 2 AA6 5 TYR P 574 ALA P 577 -1 N TYR P 575 O PHE P 585 SHEET 3 AA6 5 LYS P 561 ILE P 569 -1 N GLY P 567 O ARG P 576 SHEET 4 AA6 5 VAL P 555 TYR P 558 -1 N PHE P 556 O TYR P 563 SHEET 5 AA6 5 VAL P 590 THR P 594 -1 O ARG P 591 N LEU P 557 LINK OP2 DT N -5 MG MG P 701 1555 1555 1.94 LINK OP1 DT N -5 MG MG P 702 1555 1555 1.84 LINK OD2 ASP P 60 MG MG P 701 1555 1555 1.99 LINK OD1 ASP P 60 MG MG P 702 1555 1555 1.84 LINK SG CYS P 158 ZN ZN P 704 1555 1555 2.97 LINK SG CYS P 161 ZN ZN P 704 1555 1555 2.11 LINK SG CYS P 245 ZN ZN P 704 1555 1555 2.16 LINK ND1 HIS P 248 ZN ZN P 704 1555 1555 1.81 LINK OE1 GLU P 295 MG MG P 702 1555 1555 1.85 LINK SG CYS P 342 ZN ZN P 703 1555 1555 2.09 LINK SG CYS P 371 ZN ZN P 703 1555 1555 2.92 LINK SG CYS P 374 ZN ZN P 703 1555 1555 2.02 LINK NE2 HIS P 375 MG MG T 101 1555 1555 2.04 LINK NE2 HIS P 445 MG MG P 701 1555 1555 2.23 LINK O3' DG T 3 MG MG T 101 1555 1555 2.13 LINK OP1 DA T 4 MG MG T 101 1555 1555 1.85 LINK OP1 A W 67 MG MG W 301 1555 1555 1.89 CISPEP 1 LEU P 37 PRO P 38 0 -1.16 CISPEP 2 TRP P 225 PRO P 226 0 1.49 CRYST1 1.000 1.000 1.000 90.00 90.00 90.00 P 1 1 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 1.000000 0.000000 0.000000 0.00000 SCALE2 0.000000 1.000000 0.000000 0.00000 SCALE3 0.000000 0.000000 1.000000 0.00000 TER 858 DA N 15 TER 10737 ALA P 603 TER 11981 DC T 23 TER 17168 A W 191 HETATM17169 MG MG P 701 114.740 104.089 101.410 1.00 30.00 MG HETATM17170 MG MG P 702 115.671 104.422 97.417 1.00 30.00 MG HETATM17171 ZN ZN P 703 94.698 144.528 112.854 1.00 30.00 ZN HETATM17172 ZN ZN P 704 132.864 133.548 77.114 1.00 30.00 ZN HETATM17173 MG MG T 101 105.652 136.773 112.262 1.00 30.00 MG HETATM17174 MG MG W 301 132.733 150.249 124.490 1.00 7.41 MG CONECT 19317170 CONECT 19417169 CONECT 185317170 CONECT 185417169 CONECT 346017172 CONECT 350917172 CONECT 496017172 CONECT 500917172 CONECT 578217170 CONECT 650417171 CONECT 694417171 CONECT 699117171 CONECT 700617173 CONECT 812617169 CONECT1132017173 CONECT1134617173 CONECT1361317174 CONECT17169 194 1854 8126 CONECT17170 193 1853 5782 CONECT17171 6504 6944 6991 CONECT17172 3460 3509 4960 5009 CONECT17173 70061132011346 CONECT1717413613 MASTER 400 0 6 22 22 0 0 6 9655 4 23 71 END