HEADER TRANSFERASE/RNA 20-APR-21 7MJY TITLE MIAB IN THE COMPLEX WITH S-ADENOSYL-L-HOMOCYSTEINE 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*UP*AP*UP*UP*C)-3'); COMPND 10 CHAIN: M; COMPND 11 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 7MJY 1 REMARK REVDAT 3 06-OCT-21 7MJY 1 JRNL REVDAT 2 29-SEP-21 7MJY 1 JRNL REVDAT 1 15-SEP-21 7MJY 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. 1.86 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) : 1.86 REMARK 3 RESOLUTION RANGE LOW (ANGSTROMS) : 48.37 REMARK 3 MIN(FOBS/SIGMA_FOBS) : 1.340 REMARK 3 COMPLETENESS FOR RANGE (%) : 99.7 REMARK 3 NUMBER OF REFLECTIONS : 40568 REMARK 3 REMARK 3 FIT TO DATA USED IN REFINEMENT. REMARK 3 R VALUE (WORKING + TEST SET) : 0.176 REMARK 3 R VALUE (WORKING SET) : 0.174 REMARK 3 FREE R VALUE : 0.209 REMARK 3 FREE R VALUE TEST SET SIZE (%) : 4.930 REMARK 3 FREE R VALUE TEST SET COUNT : 2000 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 48.3700 - 4.4800 1.00 2952 154 0.1909 0.2227 REMARK 3 2 4.4800 - 3.5600 1.00 2825 146 0.1552 0.1762 REMARK 3 3 3.5600 - 3.1100 1.00 2784 144 0.1665 0.1862 REMARK 3 4 3.1100 - 2.8200 1.00 2783 144 0.1705 0.1993 REMARK 3 5 2.8200 - 2.6200 1.00 2766 144 0.1602 0.1928 REMARK 3 6 2.6200 - 2.4700 1.00 2743 143 0.1613 0.2057 REMARK 3 7 2.4700 - 2.3400 1.00 2724 140 0.1583 0.2057 REMARK 3 8 2.3400 - 2.2400 1.00 2748 143 0.1559 0.2056 REMARK 3 9 2.2400 - 2.1600 1.00 2731 142 0.1615 0.2087 REMARK 3 10 2.1600 - 2.0800 1.00 2745 142 0.1736 0.2030 REMARK 3 11 2.0800 - 2.0200 1.00 2721 141 0.1829 0.2151 REMARK 3 12 2.0200 - 1.9600 1.00 2741 142 0.1888 0.2584 REMARK 3 13 1.9600 - 1.9100 1.00 2706 141 0.2369 0.2985 REMARK 3 14 1.9100 - 1.8600 0.96 2599 134 0.2834 0.3388 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) : 0.190 REMARK 3 PHASE ERROR (DEGREES, MAXIMUM-LIKELIHOOD BASED) : 19.420 REMARK 3 REMARK 3 B VALUES. REMARK 3 FROM WILSON PLOT (A**2) : 19.33 REMARK 3 MEAN B VALUE (OVERALL, A**2) : 27.19 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 : 0.006 3903 REMARK 3 ANGLE : 1.292 5272 REMARK 3 CHIRALITY : 0.059 595 REMARK 3 PLANARITY : 0.009 665 REMARK 3 DIHEDRAL : 27.176 1568 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 : NULL REMARK 3 REMARK 3 OTHER REFINEMENT REMARKS: NULL REMARK 4 REMARK 4 7MJY COMPLIES WITH FORMAT V. 3.30, 13-JUL-11 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY RCSB ON 03-MAY-21. REMARK 100 THE DEPOSITION ID IS D_1000256281. 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 EIGER X 16M REMARK 200 INTENSITY-INTEGRATION SOFTWARE : HKL-2000 REMARK 200 DATA SCALING SOFTWARE : HKL-2000 REMARK 200 REMARK 200 NUMBER OF UNIQUE REFLECTIONS : 40640 REMARK 200 RESOLUTION RANGE HIGH (A) : 1.860 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 (%) : 100.0 REMARK 200 DATA REDUNDANCY : 7.500 REMARK 200 R MERGE (I) : 0.15200 REMARK 200 R SYM (I) : NULL REMARK 200 <I/SIGMA(I)> FOR THE DATA SET : 4.8000 REMARK 200 REMARK 200 IN THE HIGHEST RESOLUTION SHELL. REMARK 200 HIGHEST RESOLUTION SHELL, RANGE HIGH (A) : 1.86 REMARK 200 HIGHEST RESOLUTION SHELL, RANGE LOW (A) : 1.89 REMARK 200 COMPLETENESS FOR SHELL (%) : 99.6 REMARK 200 DATA REDUNDANCY IN SHELL : 5.10 REMARK 200 R MERGE FOR SHELL (I) : 0.91800 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 (%): 42.48 REMARK 280 MATTHEWS COEFFICIENT, VM (ANGSTROMS**3/DA): 2.14 REMARK 280 REMARK 280 CRYSTALLIZATION CONDITIONS: 100 MM SODIUM CACODYLATE, PH 5.5, 13% REMARK 280 PEG 4000, AND 3% 1,6-HEXANEDIOL, VAPOR DIFFUSION, HANGING DROP, REMARK 280 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 26.91700 REMARK 290 SMTRY2 2 0.000000 -1.000000 0.000000 0.00000 REMARK 290 SMTRY3 2 0.000000 0.000000 1.000000 55.06850 REMARK 290 SMTRY1 3 -1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY2 3 0.000000 1.000000 0.000000 39.99100 REMARK 290 SMTRY3 3 0.000000 0.000000 -1.000000 55.06850 REMARK 290 SMTRY1 4 1.000000 0.000000 0.000000 26.91700 REMARK 290 SMTRY2 4 0.000000 -1.000000 0.000000 39.99100 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 APPLY THE FOLLOWING TO CHAINS: A, M 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 G M 29 REMARK 465 G M 30 REMARK 465 A M 31 REMARK 465 C M 32 REMARK 465 G M 34 REMARK 465 A M 35 REMARK 465 U M 36 REMARK 465 C M 41 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 A M 37 N9 C8 N7 C5 C6 N6 N1 REMARK 470 A M 37 C2 N3 C4 REMARK 470 A M 38 N9 C8 N7 C5 C6 N6 N1 REMARK 470 A M 38 C2 N3 C4 REMARK 470 U M 39 N1 C2 O2 N3 C4 O4 C5 REMARK 470 U M 39 C6 REMARK 470 C M 40 N1 C2 O2 N3 C4 N4 C5 REMARK 470 C M 40 C6 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 O MET A 349 O2' A M 38 2.08 REMARK 500 O HOH A 873 O HOH A 881 2.08 REMARK 500 O HOH A 866 O HOH A 871 2.14 REMARK 500 O HOH A 799 O HOH A 859 2.17 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 U M 33 C6 - N1 - C2 ANGL. DEV. = -3.7 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 LYS A 103 -135.94 58.32 REMARK 500 GLN A 281 -53.31 69.89 REMARK 500 LYS A 294 -45.67 74.14 REMARK 500 ASP A 366 95.47 -56.46 REMARK 500 ASP A 413 35.92 -99.95 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 611 FE4 REMARK 620 N RES CSSEQI ATOM REMARK 620 1 CYS A 27 SG REMARK 620 2 F3S A 611 S2 109.1 REMARK 620 3 F3S A 611 S3 120.8 99.0 REMARK 620 4 F3S A 611 S4 112.9 117.3 97.2 REMARK 620 N 1 2 3 REMARK 620 REMARK 620 COORDINATION ANGLES FOR: M RES CSSEQI METAL REMARK 620 F3S A 611 FE1 REMARK 620 N RES CSSEQI ATOM REMARK 620 1 CYS A 63 SG REMARK 620 2 F3S A 611 S1 110.6 REMARK 620 3 F3S A 611 S2 113.4 118.2 REMARK 620 4 F3S A 611 S3 113.0 100.6 100.0 REMARK 620 N 1 2 3 REMARK 620 REMARK 620 COORDINATION ANGLES FOR: M RES CSSEQI METAL REMARK 620 F3S A 611 FE3 REMARK 620 N RES CSSEQI ATOM REMARK 620 1 CYS A 97 SG REMARK 620 2 F3S A 611 S1 107.2 REMARK 620 3 F3S A 611 S3 119.0 100.6 REMARK 620 4 F3S A 611 S4 112.9 120.1 96.9 REMARK 620 N 1 2 3 REMARK 620 REMARK 620 COORDINATION ANGLES FOR: M RES CSSEQI METAL REMARK 620 SF4 A 612 FE4 REMARK 620 N RES CSSEQI ATOM REMARK 620 1 CYS A 171 SG REMARK 620 2 SF4 A 612 S1 119.3 REMARK 620 3 SF4 A 612 S2 117.4 102.9 REMARK 620 4 SF4 A 612 S3 105.8 105.0 104.9 REMARK 620 N 1 2 3 REMARK 620 REMARK 620 COORDINATION ANGLES FOR: M RES CSSEQI METAL REMARK 620 SF4 A 612 FE1 REMARK 620 N RES CSSEQI ATOM REMARK 620 1 CYS A 175 SG REMARK 620 2 SF4 A 612 S2 109.2 REMARK 620 3 SF4 A 612 S3 119.4 106.0 REMARK 620 4 SF4 A 612 S4 111.1 106.2 104.0 REMARK 620 N 1 2 3 REMARK 620 REMARK 620 COORDINATION ANGLES FOR: M RES CSSEQI METAL REMARK 620 SF4 A 612 FE3 REMARK 620 N RES CSSEQI ATOM REMARK 620 1 CYS A 178 SG REMARK 620 2 SF4 A 612 S1 120.4 REMARK 620 3 SF4 A 612 S2 112.9 102.7 REMARK 620 4 SF4 A 612 S4 108.6 104.5 106.7 REMARK 620 N 1 2 3 REMARK 620 REMARK 620 COORDINATION ANGLES FOR: M RES CSSEQI METAL REMARK 620 SF4 A 612 FE2 REMARK 620 N RES CSSEQI ATOM REMARK 620 1 SAH A 613 N REMARK 620 2 SF4 A 612 S1 88.2 REMARK 620 3 SF4 A 612 S3 120.2 102.9 REMARK 620 4 SF4 A 612 S4 130.5 103.1 104.1 REMARK 620 5 SAH A 613 O 71.7 159.9 88.3 90.0 REMARK 620 N 1 2 3 4 DBREF1 7MJY A 1 457 UNP A0A174NUT3_BACUN DBREF2 7MJY A A0A174NUT3 1 457 DBREF 7MJY M 29 41 PDB 7MJY 7MJY 29 41 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 M 13 G G A C U G A U A A U C C HET PGE A 601 10 HET PGE A 602 10 HET PGE A 603 10 HET PEG A 604 7 HET PEG A 605 7 HET PEG A 606 7 HET PEG A 607 7 HET PEG A 608 7 HET PEG A 609 7 HET PEG A 610 7 HET F3S A 611 7 HET SF4 A 612 8 HET SAH A 613 26 HET CL A 614 1 HETNAM PGE TRIETHYLENE GLYCOL HETNAM PEG DI(HYDROXYETHYL)ETHER HETNAM F3S FE3-S4 CLUSTER HETNAM SF4 IRON/SULFUR CLUSTER HETNAM SAH S-ADENOSYL-L-HOMOCYSTEINE HETNAM CL CHLORIDE ION FORMUL 3 PGE 3(C6 H14 O4) FORMUL 6 PEG 7(C4 H10 O3) FORMUL 13 F3S FE3 S4 FORMUL 14 SF4 FE4 S4 FORMUL 15 SAH C14 H20 N6 O5 S FORMUL 16 CL CL 1- FORMUL 17 HOH *186(H2 O) HELIX 1 AA1 CYS A 27 ALA A 44 1 18 HELIX 2 AA2 THR A 51 ALA A 55 5 5 HELIX 3 AA3 ARG A 66 LYS A 87 1 22 HELIX 4 AA4 CYS A 97 LYS A 103 1 7 HELIX 5 AA5 ASP A 104 HIS A 111 1 8 HELIX 6 AA6 ALA A 120 LEU A 122 5 3 HELIX 7 AA7 THR A 123 ALA A 133 1 11 HELIX 8 AA8 ILE A 179 ARG A 184 1 6 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 MET A 291 1 8 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 CYS A 395 1 27 SHEET 1 AA1 6 TYR A 46 VAL A 48 0 SHEET 2 AA1 6 LYS A 18 THR A 24 1 N LEU A 20 O SER A 47 SHEET 3 AA1 6 ALA A 57 THR A 62 1 O ASN A 61 N GLU A 23 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 247 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 THR A 419 -1 O PHE A 416 N GLU A 405 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 GLU A 454 1 O LEU A 450 N VAL A 424 SHEET 5 AA6 6 PHE A 437 GLU A 444 -1 N LYS A 441 O GLU A 453 SHEET 6 AA6 6 THR A 399 VAL A 407 -1 N VAL A 402 O VAL A 438 LINK SG CYS A 27 FE4 F3S A 611 1555 1555 2.32 LINK SG CYS A 63 FE1 F3S A 611 1555 1555 2.26 LINK SG CYS A 97 FE3 F3S A 611 1555 1555 2.31 LINK SG CYS A 171 FE4 SF4 A 612 1555 1555 2.25 LINK SG CYS A 175 FE1 SF4 A 612 1555 1555 2.30 LINK SG CYS A 178 FE3 SF4 A 612 1555 1555 2.28 LINK FE2 SF4 A 612 N SAH A 613 1555 1555 2.39 LINK FE2 SF4 A 612 O SAH A 613 1555 1555 2.45 CISPEP 1 THR A 251 THR A 252 0 7.91 CRYST1 53.834 79.982 110.137 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 0.018576 0.000000 0.000000 0.00000 SCALE2 0.000000 0.012503 0.000000 0.00000 SCALE3 0.000000 0.000000 0.009080 0.00000