HEADER TRANSFERASE/RNA 20-APR-21 7MJV TITLE MIAB IN THE COMPLEX WITH S-ADENOSYLMETHIONINE AND RNA COMPND MOL_ID: 1; COMPND 2 MOLECULE: TRNA-2-METHYLTHIO-N(6)-DIMETHYLALLYLADENOSINE SYNTHASE; COMPND 3 CHAIN: A; COMPND 4 SYNONYM: (DIMETHYLALLYL)ADENOSINE TRNA METHYLTHIOTRANSFERASE MIAB, COMPND 5 TRNA-I(6)A37 METHYLTHIOTRANSFERASE; COMPND 6 EC: 2.8.4.3; COMPND 7 ENGINEERED: YES; COMPND 8 MOL_ID: 2; COMPND 9 MOLECULE: RNA (5'-R(P*AP*GP*GP*AP*CP*UP*GP*AP*AP*(ZJS) COMPND 10 P*AP*UP*CP*CP*U)-3'); COMPND 11 CHAIN: E; COMPND 12 ENGINEERED: YES SOURCE MOL_ID: 1; SOURCE 2 ORGANISM_SCIENTIFIC: BACTEROIDES UNIFORMIS; SOURCE 3 ORGANISM_TAXID: 820; SOURCE 4 GENE: MIAB_2, MIAB, DW795_02470, DW831_10175, DWW14_18715, SOURCE 5 DWX44_14905, DXC07_08890, DXC80_15965, DXD90_15595, ERS417307_03809, SOURCE 6 GAP41_19630, GAP48_15545, GAP55_16410, GAQ44_15640; SOURCE 7 EXPRESSION_SYSTEM: ESCHERICHIA COLI; SOURCE 8 EXPRESSION_SYSTEM_TAXID: 562; SOURCE 9 MOL_ID: 2; SOURCE 10 SYNTHETIC: YES; SOURCE 11 ORGANISM_SCIENTIFIC: BACTEROIDES UNIFORMIS; SOURCE 12 ORGANISM_TAXID: 820 KEYWDS TRNA-2-METHYLTHIO-N(6)-DIMETHYLALLYLADENOSINE SYNTHASE, TRANSFERASE, KEYWDS 2 TRANSFERASE-RNA COMPLEX EXPDTA X-RAY DIFFRACTION AUTHOR O.A.ESAKOVA,T.L.GROVE,N.H.YENNAWAR,A.J.ARCINAS,B.WANG,C.KREBS, AUTHOR 2 S.C.ALMO,S.J.BOOKER REVDAT 4 18-OCT-23 7MJV 1 REMARK REVDAT 3 06-OCT-21 7MJV 1 JRNL REVDAT 2 29-SEP-21 7MJV 1 JRNL REVDAT 1 15-SEP-21 7MJV 0 JRNL AUTH O.A.ESAKOVA,T.L.GROVE,N.H.YENNAWAR,A.J.ARCINAS,B.WANG, JRNL AUTH 2 C.KREBS,S.C.ALMO,S.J.BOOKER JRNL TITL STRUCTURAL BASIS FOR TRNA METHYLTHIOLATION BY THE RADICAL JRNL TITL 2 SAM ENZYME MIAB. JRNL REF NATURE V. 597 566 2021 JRNL REFN ESSN 1476-4687 JRNL PMID 34526715 JRNL DOI 10.1038/S41586-021-03904-6 REMARK 2 REMARK 2 RESOLUTION. 2.24 ANGSTROMS. REMARK 3 REMARK 3 REFINEMENT. REMARK 3 PROGRAM : PHENIX 1.19.2_4158 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) : 2.24 REMARK 3 RESOLUTION RANGE LOW (ANGSTROMS) : 45.51 REMARK 3 MIN(FOBS/SIGMA_FOBS) : 1.350 REMARK 3 COMPLETENESS FOR RANGE (%) : 92.7 REMARK 3 NUMBER OF REFLECTIONS : 22293 REMARK 3 REMARK 3 FIT TO DATA USED IN REFINEMENT. REMARK 3 R VALUE (WORKING + TEST SET) : 0.246 REMARK 3 R VALUE (WORKING SET) : 0.243 REMARK 3 FREE R VALUE : 0.273 REMARK 3 FREE R VALUE TEST SET SIZE (%) : 8.960 REMARK 3 FREE R VALUE TEST SET COUNT : 1997 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 45.5100 - 5.4000 1.00 1687 166 0.2249 0.2457 REMARK 3 2 5.3900 - 4.2800 1.00 1594 156 0.2047 0.2613 REMARK 3 3 4.2800 - 3.7400 1.00 1585 156 0.2166 0.2166 REMARK 3 4 3.7400 - 3.4000 1.00 1553 152 0.2386 0.2724 REMARK 3 5 3.4000 - 3.1600 1.00 1562 154 0.2483 0.2651 REMARK 3 6 3.1600 - 2.9700 0.99 1547 152 0.2607 0.2834 REMARK 3 7 2.9700 - 2.8200 0.99 1542 152 0.2759 0.2960 REMARK 3 8 2.8200 - 2.7000 0.99 1528 150 0.2758 0.3251 REMARK 3 9 2.7000 - 2.6000 0.99 1537 153 0.2688 0.2688 REMARK 3 10 2.6000 - 2.5100 0.96 1472 143 0.2817 0.3546 REMARK 3 11 2.5100 - 2.4300 0.91 1414 141 0.2804 0.3596 REMARK 3 12 2.4300 - 2.3600 0.83 1252 123 0.2930 0.3160 REMARK 3 13 2.3600 - 2.3000 0.74 1150 114 0.2851 0.3242 REMARK 3 14 2.3000 - 2.2400 0.57 873 85 0.2997 0.3881 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) : 0.200 REMARK 3 PHASE ERROR (DEGREES, MAXIMUM-LIKELIHOOD BASED) : 33.060 REMARK 3 REMARK 3 B VALUES. REMARK 3 FROM WILSON PLOT (A**2) : 31.73 REMARK 3 MEAN B VALUE (OVERALL, A**2) : 59.76 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 : 0.008 3957 REMARK 3 ANGLE : 1.887 5425 REMARK 3 CHIRALITY : 0.074 625 REMARK 3 PLANARITY : 0.024 643 REMARK 3 DIHEDRAL : 23.406 683 REMARK 3 REMARK 3 TLS DETAILS REMARK 3 NUMBER OF TLS GROUPS : 1 REMARK 3 TLS GROUP : 1 REMARK 3 SELECTION: ALL REMARK 3 ORIGIN FOR THE GROUP (A): 24.0822 2.7182 119.7102 REMARK 3 T TENSOR REMARK 3 T11: 0.2867 T22: 0.4291 REMARK 3 T33: 0.6558 T12: 0.0226 REMARK 3 T13: 0.0187 T23: -0.0804 REMARK 3 L TENSOR REMARK 3 L11: 2.8837 L22: 2.1949 REMARK 3 L33: 1.3006 L12: 0.4819 REMARK 3 L13: -0.4005 L23: 0.6549 REMARK 3 S TENSOR REMARK 3 S11: -0.0060 S12: 0.6672 S13: -0.0001 REMARK 3 S21: -0.4201 S22: 0.0395 S23: -0.1115 REMARK 3 S31: -0.1497 S32: -0.0283 S33: -0.0268 REMARK 3 REMARK 3 NCS DETAILS REMARK 3 NUMBER OF NCS GROUPS : NULL REMARK 3 REMARK 3 OTHER REFINEMENT REMARKS: NULL REMARK 4 REMARK 4 7MJV COMPLIES WITH FORMAT V. 3.30, 13-JUL-11 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY RCSB ON 30-APR-21. REMARK 100 THE DEPOSITION ID IS D_1000256275. REMARK 200 REMARK 200 EXPERIMENTAL DETAILS REMARK 200 EXPERIMENT TYPE : X-RAY DIFFRACTION REMARK 200 DATE OF DATA COLLECTION : 24-JUL-18 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 : APS REMARK 200 BEAMLINE : 23-ID-B REMARK 200 X-RAY GENERATOR MODEL : NULL REMARK 200 MONOCHROMATIC OR LAUE (M/L) : M REMARK 200 WAVELENGTH OR RANGE (A) : 1.0033 REMARK 200 MONOCHROMATOR : NULL REMARK 200 OPTICS : NULL REMARK 200 REMARK 200 DETECTOR TYPE : PIXEL REMARK 200 DETECTOR MANUFACTURER : DECTRIS EIGER2 X 16M REMARK 200 INTENSITY-INTEGRATION SOFTWARE : HKL-2000 REMARK 200 DATA SCALING SOFTWARE : HKL-2000 REMARK 200 REMARK 200 NUMBER OF UNIQUE REFLECTIONS : 22398 REMARK 200 RESOLUTION RANGE HIGH (A) : 2.240 REMARK 200 RESOLUTION RANGE LOW (A) : 50.000 REMARK 200 REJECTION CRITERIA (SIGMA(I)) : NULL REMARK 200 REMARK 200 OVERALL. REMARK 200 COMPLETENESS FOR RANGE (%) : 93.7 REMARK 200 DATA REDUNDANCY : 7.300 REMARK 200 R MERGE (I) : 0.15300 REMARK 200 R SYM (I) : NULL REMARK 200 <I/SIGMA(I)> FOR THE DATA SET : 7.6000 REMARK 200 REMARK 200 IN THE HIGHEST RESOLUTION SHELL. REMARK 200 HIGHEST RESOLUTION SHELL, RANGE HIGH (A) : 2.25 REMARK 200 HIGHEST RESOLUTION SHELL, RANGE LOW (A) : 2.33 REMARK 200 COMPLETENESS FOR SHELL (%) : 68.4 REMARK 200 DATA REDUNDANCY IN SHELL : 4.00 REMARK 200 R MERGE FOR SHELL (I) : 0.54300 REMARK 200 R SYM FOR SHELL (I) : NULL REMARK 200 <I/SIGMA(I)> 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: PHENIX REMARK 200 STARTING MODEL: 2QGQ REMARK 200 REMARK 200 REMARK: NULL REMARK 280 REMARK 280 CRYSTAL REMARK 280 SOLVENT CONTENT, VS (%): 42.29 REMARK 280 MATTHEWS COEFFICIENT, VM (ANGSTROMS**3/DA): 2.13 REMARK 280 REMARK 280 CRYSTALLIZATION CONDITIONS: 100 MM NA-CACODYLATE, PH 5.5, 13% PEG REMARK 280 4000 AND 3% (+/-)-2-METHYL-2,4-PENTANEDIOL, VAPOR DIFFUSION, REMARK 280 HANGING DROP, TEMPERATURE 298K 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 27.07750 REMARK 290 SMTRY2 2 0.000000 -1.000000 0.000000 0.00000 REMARK 290 SMTRY3 2 0.000000 0.000000 1.000000 54.87550 REMARK 290 SMTRY1 3 -1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY2 3 0.000000 1.000000 0.000000 40.72100 REMARK 290 SMTRY3 3 0.000000 0.000000 -1.000000 54.87550 REMARK 290 SMTRY1 4 1.000000 0.000000 0.000000 27.07750 REMARK 290 SMTRY2 4 0.000000 -1.000000 0.000000 40.72100 REMARK 290 SMTRY3 4 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: DIMERIC REMARK 350 SOFTWARE DETERMINED QUATERNARY STRUCTURE: DIMERIC REMARK 350 SOFTWARE USED: PISA REMARK 350 TOTAL BURIED SURFACE AREA: 3700 ANGSTROM**2 REMARK 350 SURFACE AREA OF THE COMPLEX: 19880 ANGSTROM**2 REMARK 350 CHANGE IN SOLVENT FREE ENERGY: -74.0 KCAL/MOL REMARK 350 APPLY THE FOLLOWING TO CHAINS: A, E 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 1 REMARK 465 GLU A 2 REMARK 465 LYS A 3 REMARK 465 VAL A 4 REMARK 465 THR A 5 REMARK 465 GLY A 6 REMARK 465 ALA A 7 REMARK 465 ASP A 8 REMARK 465 PHE A 9 REMARK 465 LYS A 10 REMARK 465 SER A 11 REMARK 465 ALA A 12 REMARK 465 THR A 13 REMARK 465 A E 27 REMARK 465 U E 43 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 A 327 O HOH A 601 2.15 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 88 NE - CZ - NH2 ANGL. DEV. = -3.3 DEGREES REMARK 500 ARG A 184 CG - CD - NE ANGL. DEV. = -18.0 DEGREES REMARK 500 A E 35 O5' - P - OP1 ANGL. DEV. = -8.5 DEGREES REMARK 500 A E 35 O5' - P - OP2 ANGL. DEV. = 12.3 DEGREES REMARK 500 A E 35 O4' - C1' - N9 ANGL. DEV. = -5.4 DEGREES REMARK 500 A E 35 C2 - N3 - C4 ANGL. DEV. = -3.8 DEGREES REMARK 500 A E 35 N3 - C4 - C5 ANGL. DEV. = 4.4 DEGREES REMARK 500 A E 35 C8 - N9 - C1' ANGL. DEV. = -15.9 DEGREES REMARK 500 A E 35 C4 - N9 - C1' ANGL. DEV. = 13.8 DEGREES REMARK 500 A E 35 C3' - O3' - P ANGL. DEV. = -9.7 DEGREES REMARK 500 A E 36 O3' - P - OP2 ANGL. DEV. = 9.9 DEGREES REMARK 500 A E 36 O5' - P - OP2 ANGL. DEV. = -7.1 DEGREES REMARK 500 A E 38 O4' - C1' - N9 ANGL. DEV. = 6.4 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 17 71.70 -119.10 REMARK 500 PHE A 80 29.82 -143.13 REMARK 500 LYS A 87 -138.10 53.04 REMARK 500 ARG A 88 40.94 -141.56 REMARK 500 LYS A 103 -126.12 62.24 REMARK 500 LYS A 136 98.79 53.74 REMARK 500 GLN A 281 -52.87 76.09 REMARK 500 LYS A 294 -21.43 80.01 REMARK 500 HIS A 325 125.89 -32.65 REMARK 500 SER A 326 -0.61 75.13 REMARK 500 ASP A 413 2.91 -67.15 REMARK 500 ASN A 422 13.77 85.27 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 88 0.25 SIDE CHAIN REMARK 500 ARG A 247 0.19 SIDE CHAIN 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 F3S A 501 FE3 REMARK 620 N RES CSSEQI ATOM REMARK 620 1 CYS A 27 SG REMARK 620 2 F3S A 501 S1 113.0 REMARK 620 3 F3S A 501 S3 120.2 104.2 REMARK 620 4 F3S A 501 S4 109.4 108.8 100.2 REMARK 620 N 1 2 3 REMARK 620 REMARK 620 COORDINATION ANGLES FOR: M RES CSSEQI METAL REMARK 620 F3S A 501 FE4 REMARK 620 N RES CSSEQI ATOM REMARK 620 1 CYS A 63 SG REMARK 620 2 F3S A 501 S2 117.9 REMARK 620 3 F3S A 501 S3 109.0 113.2 REMARK 620 4 F3S A 501 S4 106.5 112.2 95.7 REMARK 620 N 1 2 3 REMARK 620 REMARK 620 COORDINATION ANGLES FOR: M RES CSSEQI METAL REMARK 620 F3S A 501 FE1 REMARK 620 N RES CSSEQI ATOM REMARK 620 1 CYS A 97 SG REMARK 620 2 F3S A 501 S1 108.7 REMARK 620 3 F3S A 501 S2 106.8 111.4 REMARK 620 4 F3S A 501 S3 120.3 98.0 111.4 REMARK 620 N 1 2 3 REMARK 620 REMARK 620 COORDINATION ANGLES FOR: M RES CSSEQI METAL REMARK 620 SF4 A 502 FE4 REMARK 620 N RES CSSEQI ATOM REMARK 620 1 CYS A 171 SG REMARK 620 2 SF4 A 502 S1 120.8 REMARK 620 3 SF4 A 502 S2 114.8 103.5 REMARK 620 4 SF4 A 502 S3 107.2 104.3 104.7 REMARK 620 N 1 2 3 REMARK 620 REMARK 620 COORDINATION ANGLES FOR: M RES CSSEQI METAL REMARK 620 SF4 A 502 FE1 REMARK 620 N RES CSSEQI ATOM REMARK 620 1 CYS A 175 SG REMARK 620 2 SF4 A 502 S2 106.7 REMARK 620 3 SF4 A 502 S3 126.3 103.9 REMARK 620 4 SF4 A 502 S4 108.7 105.3 104.1 REMARK 620 N 1 2 3 REMARK 620 REMARK 620 COORDINATION ANGLES FOR: M RES CSSEQI METAL REMARK 620 SF4 A 502 FE3 REMARK 620 N RES CSSEQI ATOM REMARK 620 1 CYS A 178 SG REMARK 620 2 SF4 A 502 S1 114.2 REMARK 620 3 SF4 A 502 S2 116.4 104.3 REMARK 620 4 SF4 A 502 S4 111.8 103.7 105.1 REMARK 620 N 1 2 3 REMARK 620 REMARK 620 COORDINATION ANGLES FOR: M RES CSSEQI METAL REMARK 620 MG A 504 MG REMARK 620 N RES CSSEQI ATOM REMARK 620 1 ILE A 266 O REMARK 620 2 MET A 269 O 96.9 REMARK 620 3 VAL A 272 O 112.5 101.8 REMARK 620 4 HOH A 617 O 73.5 79.0 173.7 REMARK 620 N 1 2 3 REMARK 620 REMARK 620 COORDINATION ANGLES FOR: M RES CSSEQI METAL REMARK 620 SF4 A 502 FE2 REMARK 620 N RES CSSEQI ATOM REMARK 620 1 SAM A 503 OXT REMARK 620 2 SF4 A 502 S1 162.7 REMARK 620 3 SF4 A 502 S3 87.2 103.8 REMARK 620 4 SF4 A 502 S4 86.0 103.8 104.0 REMARK 620 N 1 2 3 DBREF1 7MJV A 1 457 UNP A0A174NUT3_BACUN DBREF2 7MJV A A0A174NUT3 1 457 DBREF 7MJV E 27 43 PDB 7MJV 7MJV 27 43 SEQRES 1 A 457 MET GLU LYS VAL THR GLY ALA ASP PHE LYS SER ALA THR SEQRES 2 A 457 ALA ASP ASP ASN LYS LYS LEU PHE ILE GLU THR TYR GLY SEQRES 3 A 457 CYS GLN MET ASN VAL ALA ASP SER GLU VAL ILE ALA SER SEQRES 4 A 457 VAL MET GLN MET ALA GLY TYR SER VAL ALA ASP THR LEU SEQRES 5 A 457 GLU GLU ALA ASP ALA VAL PHE MET ASN THR CYS SER ILE SEQRES 6 A 457 ARG ASP ASN ALA GLU GLN LYS ILE LEU ASN ARG LEU GLU SEQRES 7 A 457 PHE PHE HIS SER LEU LYS LYS LYS LYS ARG GLY LEU ILE SEQRES 8 A 457 VAL GLY VAL LEU GLY CYS MET ALA GLU ARG VAL LYS ASP SEQRES 9 A 457 ASP LEU ILE THR ASN HIS HIS VAL ASP LEU VAL VAL GLY SEQRES 10 A 457 PRO ASP ALA TYR LEU THR LEU PRO GLU LEU ILE ALA SER SEQRES 11 A 457 VAL GLU ALA GLY GLU LYS ALA MET ASN VAL GLU LEU SER SEQRES 12 A 457 THR THR GLU THR TYR ARG ASP VAL ILE PRO SER ARG ILE SEQRES 13 A 457 CYS GLY ASN HIS ILE SER GLY PHE VAL SER ILE MET ARG SEQRES 14 A 457 GLY CYS ASN ASN PHE CYS THR TYR CYS ILE VAL PRO TYR SEQRES 15 A 457 THR ARG GLY ARG GLU ARG SER ARG ASP VAL GLU SER ILE SEQRES 16 A 457 LEU ASN GLU VAL ALA ASP LEU VAL ALA LYS GLY TYR LYS SEQRES 17 A 457 GLU VAL THR LEU LEU GLY GLN ASN VAL ASN SER TYR ARG SEQRES 18 A 457 PHE GLU LYS PRO ASP GLY GLU THR ILE THR PHE PRO MET SEQRES 19 A 457 LEU LEU ARG THR VAL ALA GLU ALA ALA PRO GLY VAL ARG SEQRES 20 A 457 ILE ARG PHE THR THR SER HIS PRO LYS ASP MET SER ASP SEQRES 21 A 457 GLU THR LEU GLN VAL ILE ALA ASP MET PRO ASN VAL CYS SEQRES 22 A 457 LYS HIS ILE HIS LEU PRO VAL GLN SER GLY SER SER ARG SEQRES 23 A 457 ILE LEU LYS LEU MET ASN ARG LYS TYR ASP ARG GLU TRP SEQRES 24 A 457 TYR MET ASP ARG VAL ALA ALA ILE ARG ARG ILE ILE PRO SEQRES 25 A 457 ASP CYS GLY LEU SER THR ASP ILE PHE SER GLY PHE HIS SEQRES 26 A 457 SER GLU THR GLU GLU ASP HIS GLN LEU SER LEU SER LEU SEQRES 27 A 457 MET GLU GLU CYS GLY TYR ASP SER ALA PHE MET PHE LYS SEQRES 28 A 457 TYR SER GLU ARG PRO GLY THR HIS ALA SER LYS HIS LEU SEQRES 29 A 457 PRO ASP ASP VAL PRO GLU GLU VAL LYS ILE ARG ARG LEU SEQRES 30 A 457 ASN GLU ILE ILE ALA LEU GLN ASN ARG LEU SER ALA GLU SEQRES 31 A 457 ALA ASN ALA ARG CYS VAL GLY LYS THR TYR GLU VAL LEU SEQRES 32 A 457 VAL GLU GLY VAL SER LYS ARG SER ARG ASP GLN LEU PHE SEQRES 33 A 457 GLY ARG THR GLU GLN ASN ARG VAL VAL VAL PHE ASP ARG SEQRES 34 A 457 GLY THR HIS ARG VAL GLY ASP PHE VAL MET VAL LYS VAL SEQRES 35 A 457 THR GLU SER SER SER ALA THR LEU LYS GLY GLU GLU VAL SEQRES 36 A 457 ALA GLY SEQRES 1 E 17 A A G G A C U G A A ZJS A U SEQRES 2 E 17 C C U U HET ZJS E 37 27 HET F3S A 501 7 HET SF4 A 502 8 HET SAM A 503 27 HET MG A 504 1 HET MG A 505 1 HETNAM ZJS N-(3-METHYLBUT-2-EN-1-YL)ADENOSINE 5'-(DIHYDROGEN HETNAM 2 ZJS PHOSPHATE) HETNAM F3S FE3-S4 CLUSTER HETNAM SF4 IRON/SULFUR CLUSTER HETNAM SAM S-ADENOSYLMETHIONINE HETNAM MG MAGNESIUM ION FORMUL 2 ZJS C15 H22 N5 O7 P FORMUL 3 F3S FE3 S4 FORMUL 4 SF4 FE4 S4 FORMUL 5 SAM C15 H22 N6 O5 S FORMUL 6 MG 2(MG 2+) FORMUL 8 HOH *37(H2 O) HELIX 1 AA1 CYS A 27 MET A 43 1 17 HELIX 2 AA2 ARG A 66 PHE A 79 1 14 HELIX 3 AA3 PHE A 80 LYS A 85 1 6 HELIX 4 AA4 CYS A 97 LYS A 103 1 7 HELIX 5 AA5 ASP A 104 HIS A 110 1 7 HELIX 6 AA6 ALA A 120 LEU A 122 5 3 HELIX 7 AA7 THR A 123 GLU A 132 1 10 HELIX 8 AA8 ILE A 179 GLY A 185 1 7 HELIX 9 AA9 ASP A 191 LYS A 205 1 15 HELIX 10 AB1 ASN A 216 SER A 219 5 4 HELIX 11 AB2 PHE A 232 ALA A 243 1 12 HELIX 12 AB3 HIS A 254 MET A 258 5 5 HELIX 13 AB4 SER A 259 MET A 269 1 11 HELIX 14 AB5 SER A 284 ASN A 292 1 9 HELIX 15 AB6 ASP A 296 ILE A 311 1 16 HELIX 16 AB7 THR A 328 GLY A 343 1 16 HELIX 17 AB8 THR A 358 LEU A 364 1 7 HELIX 18 AB9 PRO A 369 ARG A 394 1 26 SHEET 1 AA1 6 TYR A 46 VAL A 48 0 SHEET 2 AA1 6 LYS A 18 THR A 24 1 N LYS A 18 O SER A 47 SHEET 3 AA1 6 ALA A 57 THR A 62 1 O ALA A 57 N PHE A 21 SHEET 4 AA1 6 ILE A 91 GLY A 96 1 O LEU A 95 N MET A 60 SHEET 5 AA1 6 LEU A 114 VAL A 116 1 O LEU A 114 N VAL A 94 SHEET 6 AA1 6 ALA A 137 ASN A 139 1 O ASN A 139 N VAL A 115 SHEET 1 AA2 3 SER A 162 SER A 166 0 SHEET 2 AA2 3 GLU A 209 LEU A 213 1 O GLU A 209 N GLY A 163 SHEET 3 AA2 3 ARG A 247 THR A 251 1 O ARG A 249 N VAL A 210 SHEET 1 AA3 2 MET A 168 ARG A 169 0 SHEET 2 AA3 2 ARG A 188 SER A 189 -1 O ARG A 188 N ARG A 169 SHEET 1 AA4 2 ARG A 221 GLU A 223 0 SHEET 2 AA4 2 THR A 229 THR A 231 -1 O ILE A 230 N PHE A 222 SHEET 1 AA5 3 HIS A 275 HIS A 277 0 SHEET 2 AA5 3 GLY A 315 SER A 322 1 O GLY A 315 N ILE A 276 SHEET 3 AA5 3 SER A 346 LYS A 351 1 O PHE A 348 N THR A 318 SHEET 1 AA6 6 THR A 399 VAL A 407 0 SHEET 2 AA6 6 GLN A 414 ARG A 418 -1 O PHE A 416 N GLY A 406 SHEET 3 AA6 6 VAL A 424 ASP A 428 -1 O VAL A 425 N GLY A 417 SHEET 4 AA6 6 LEU A 450 VAL A 455 1 O LEU A 450 N VAL A 424 SHEET 5 AA6 6 PHE A 437 SER A 445 -1 N MET A 439 O VAL A 455 SHEET 6 AA6 6 THR A 399 VAL A 407 -1 N VAL A 402 O VAL A 438 LINK O3' A E 36 P ZJS E 37 1555 1555 1.61 LINK O3' ZJS E 37 P A E 38 1555 1555 1.60 LINK SG CYS A 27 FE3 F3S A 501 1555 1555 2.20 LINK SG CYS A 63 FE4 F3S A 501 1555 1555 2.22 LINK SG CYS A 97 FE1 F3S A 501 1555 1555 2.17 LINK SG CYS A 171 FE4 SF4 A 502 1555 1555 2.25 LINK SG CYS A 175 FE1 SF4 A 502 1555 1555 2.38 LINK SG CYS A 178 FE3 SF4 A 502 1555 1555 2.31 LINK O ILE A 266 MG MG A 504 1555 1555 2.26 LINK O MET A 269 MG MG A 504 1555 1555 2.32 LINK O VAL A 272 MG MG A 504 1555 1555 2.29 LINK FE2 SF4 A 502 OXT SAM A 503 1555 1555 2.47 LINK MG MG A 504 O HOH A 617 1555 1555 2.32 LINK MG MG A 505 O HOH A 603 1555 1555 2.41 CISPEP 1 THR A 251 THR A 252 0 -0.40 CRYST1 54.155 81.442 109.751 90.00 90.00 90.00 P 21 21 21 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 0.018466 0.000000 0.000000 0.00000 SCALE2 0.000000 0.012279 0.000000 0.00000 SCALE3 0.000000 0.000000 0.009112 0.00000