HEADER METAL BINDING PROTEIN 02-MAR-17 5V1T TITLE CRYSTAL STRUCTURE OF STREPTOCOCCUS SUIS SUIB BOUND TO PRECURSOR TITLE 2 PEPTIDE SUIA COMPND MOL_ID: 1; COMPND 2 MOLECULE: RADICAL SAM; COMPND 3 CHAIN: A; COMPND 4 ENGINEERED: YES; COMPND 5 MOL_ID: 2; COMPND 6 MOLECULE: SUIA 22MER; COMPND 7 CHAIN: B; COMPND 8 FRAGMENT: UNP RESIDUES 1-22; COMPND 9 ENGINEERED: YES SOURCE MOL_ID: 1; SOURCE 2 ORGANISM_SCIENTIFIC: STREPTOCOCCUS SUIS; SOURCE 3 ORGANISM_TAXID: 1307; SOURCE 4 GENE: ERS132399_01508; SOURCE 5 EXPRESSION_SYSTEM: ESCHERICHIA COLI; SOURCE 6 EXPRESSION_SYSTEM_TAXID: 562; SOURCE 7 MOL_ID: 2; SOURCE 8 SYNTHETIC: YES; SOURCE 9 ORGANISM_SCIENTIFIC: STREPTOCOCCUS SUIS; SOURCE 10 ORGANISM_TAXID: 1307 KEYWDS RADICAL SAM ENZYME, LYS-TRP CROSSLINK, STREPTOCOCCUS SUIS, KEYWDS 2 METALLOENZYME, SPASM DOMAIN, RRE DOMAIN, METAL BINDING PROTEIN EXPDTA X-RAY DIFFRACTION AUTHOR K.M.DAVIS,J.P.BACIK,N.ANDO REVDAT 4 04-OCT-23 5V1T 1 REMARK REVDAT 3 11-OCT-17 5V1T 1 JRNL REVDAT 2 27-SEP-17 5V1T 1 JRNL REMARK REVDAT 1 30-AUG-17 5V1T 0 JRNL AUTH K.M.DAVIS,K.R.SCHRAMMA,W.A.HANSEN,J.P.BACIK,S.D.KHARE, JRNL AUTH 2 M.R.SEYEDSAYAMDOST,N.ANDO JRNL TITL STRUCTURES OF THE PEPTIDE-MODIFYING RADICAL SAM ENZYME SUIB JRNL TITL 2 ELUCIDATE THE BASIS OF SUBSTRATE RECOGNITION. JRNL REF PROC. NATL. ACAD. SCI. V. 114 10420 2017 JRNL REF 2 U.S.A. JRNL REFN ESSN 1091-6490 JRNL PMID 28893989 JRNL DOI 10.1073/PNAS.1703663114 REMARK 2 REMARK 2 RESOLUTION. 2.10 ANGSTROMS. REMARK 3 REMARK 3 REFINEMENT. REMARK 3 PROGRAM : PHENIX (1.10.1_2155: ???) 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 : NULL REMARK 3 REMARK 3 DATA USED IN REFINEMENT. REMARK 3 RESOLUTION RANGE HIGH (ANGSTROMS) : 2.10 REMARK 3 RESOLUTION RANGE LOW (ANGSTROMS) : 29.24 REMARK 3 MIN(FOBS/SIGMA_FOBS) : 1.340 REMARK 3 COMPLETENESS FOR RANGE (%) : 99.2 REMARK 3 NUMBER OF REFLECTIONS : 25862 REMARK 3 REMARK 3 FIT TO DATA USED IN REFINEMENT. REMARK 3 R VALUE (WORKING + TEST SET) : 0.193 REMARK 3 R VALUE (WORKING SET) : 0.189 REMARK 3 FREE R VALUE : 0.223 REMARK 3 FREE R VALUE TEST SET SIZE (%) : 10.020 REMARK 3 FREE R VALUE TEST SET COUNT : 2591 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 29.2380 - 5.5914 0.98 1330 148 0.1684 0.1688 REMARK 3 2 5.5914 - 4.4431 0.99 1257 140 0.1456 0.1827 REMARK 3 3 4.4431 - 3.8829 0.99 1238 138 0.1497 0.1831 REMARK 3 4 3.8829 - 3.5285 0.99 1231 136 0.1631 0.1816 REMARK 3 5 3.5285 - 3.2760 0.99 1231 137 0.1812 0.2101 REMARK 3 6 3.2760 - 3.0830 0.99 1232 138 0.1989 0.2450 REMARK 3 7 3.0830 - 2.9288 1.00 1222 136 0.2108 0.2659 REMARK 3 8 2.9288 - 2.8014 1.00 1227 136 0.2078 0.2073 REMARK 3 9 2.8014 - 2.6936 0.99 1220 137 0.2020 0.2621 REMARK 3 10 2.6936 - 2.6008 1.00 1230 135 0.2099 0.2658 REMARK 3 11 2.6008 - 2.5195 1.00 1235 126 0.2157 0.2901 REMARK 3 12 2.5195 - 2.4475 1.00 1203 139 0.2176 0.2579 REMARK 3 13 2.4475 - 2.3831 1.00 1190 147 0.2190 0.2630 REMARK 3 14 2.3831 - 2.3250 1.00 1240 128 0.2114 0.2696 REMARK 3 15 2.3250 - 2.2721 1.00 1204 140 0.2237 0.2486 REMARK 3 16 2.2721 - 2.2238 1.00 1228 133 0.2237 0.2460 REMARK 3 17 2.2238 - 2.1793 1.00 1188 146 0.2396 0.3064 REMARK 3 18 2.1793 - 2.1382 1.00 1213 142 0.2598 0.2919 REMARK 3 19 2.1382 - 2.1000 0.95 1152 109 0.2817 0.3074 REMARK 3 REMARK 3 BULK SOLVENT MODELLING. REMARK 3 METHOD USED : NULL 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) : 0.220 REMARK 3 PHASE ERROR (DEGREES, MAXIMUM-LIKELIHOOD BASED) : 22.050 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 : 0.006 3766 REMARK 3 ANGLE : 0.942 5106 REMARK 3 CHIRALITY : 0.042 580 REMARK 3 PLANARITY : 0.002 638 REMARK 3 DIHEDRAL : 18.061 1436 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 5V1T COMPLIES WITH FORMAT V. 3.30, 13-JUL-11 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY RCSB ON 07-MAR-17. REMARK 100 THE DEPOSITION ID IS D_1000224823. REMARK 200 REMARK 200 EXPERIMENTAL DETAILS REMARK 200 EXPERIMENT TYPE : X-RAY DIFFRACTION REMARK 200 DATE OF DATA COLLECTION : 20-JUL-15 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) : 1.0332 REMARK 200 MONOCHROMATOR : NULL REMARK 200 OPTICS : NULL REMARK 200 REMARK 200 DETECTOR TYPE : IMAGE PLATE REMARK 200 DETECTOR MANUFACTURER : MAR SCANNER 300 MM PLATE REMARK 200 INTENSITY-INTEGRATION SOFTWARE : XDS REMARK 200 DATA SCALING SOFTWARE : XDS REMARK 200 REMARK 200 NUMBER OF UNIQUE REFLECTIONS : 25903 REMARK 200 RESOLUTION RANGE HIGH (A) : 2.100 REMARK 200 RESOLUTION RANGE LOW (A) : 29.240 REMARK 200 REJECTION CRITERIA (SIGMA(I)) : NULL REMARK 200 REMARK 200 OVERALL. REMARK 200 COMPLETENESS FOR RANGE (%) : 99.3 REMARK 200 DATA REDUNDANCY : 3.400 REMARK 200 R MERGE (I) : 0.12300 REMARK 200 R SYM (I) : NULL REMARK 200 <I/SIGMA(I)> FOR THE DATA SET : 9.3000 REMARK 200 REMARK 200 IN THE HIGHEST RESOLUTION SHELL. REMARK 200 HIGHEST RESOLUTION SHELL, RANGE HIGH (A) : 2.10 REMARK 200 HIGHEST RESOLUTION SHELL, RANGE LOW (A) : 2.16 REMARK 200 COMPLETENESS FOR SHELL (%) : 97.1 REMARK 200 DATA REDUNDANCY IN SHELL : 3.40 REMARK 200 R MERGE FOR SHELL (I) : 0.79900 REMARK 200 R SYM FOR SHELL (I) : NULL REMARK 200 <I/SIGMA(I)> FOR SHELL : 1.900 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: 5V1Q REMARK 200 REMARK 200 REMARK: NULL REMARK 280 REMARK 280 CRYSTAL REMARK 280 SOLVENT CONTENT, VS (%): 37.04 REMARK 280 MATTHEWS COEFFICIENT, VM (ANGSTROMS**3/DA): 1.95 REMARK 280 REMARK 280 CRYSTALLIZATION CONDITIONS: A SOLUTION CONTAINING 23 MG/ML OF HIS6 REMARK 280 -TAGGED SUIB IN STORAGE BUFFER [100 MM HEPES, PH 7.5, 300 MM KCL, REMARK 280 5 MM DTT, 10% (V/V) GLYCEROL] WAS MIXED WITH A STOCK SOLUTION REMARK 280 OF SUIA IN STORAGE BUFFER LACKING DTT, YIELDING A FINAL SUIA REMARK 280 CONCENTRATION OF 1.9 MM. THE RESULTANT SOLUTION WAS INCUBATED REMARK 280 FOR 10 MIN AFTER WHICH IT WAS COMBINED 1:1 WITH PRECIPITANT REMARK 280 SOLUTION TO FORM A 4 UL DROP. CRYSTALS APPEARED WITHIN 2 DAYS REMARK 280 AND WERE FULLY GROWN WITHIN A WEEK. THE PRECIPITANT SOLUTION WAS REMARK 280 GENERATED BY COMBINING 100 MM BIS-TRIS, PH 6.0, 200 MM LI2SO4, REMARK 280 27% (W/V) PEG 3350 WITH 210 MM SAM IN WATER TO YIELD A FINAL SAM REMARK 280 CONCENTRATION OF 10.5 MM., VAPOR DIFFUSION, SITTING DROP, REMARK 280 TEMPERATURE 285K REMARK 290 REMARK 290 CRYSTALLOGRAPHIC SYMMETRY REMARK 290 SYMMETRY OPERATORS FOR SPACE GROUP: P 21 21 2 REMARK 290 REMARK 290 SYMOP SYMMETRY REMARK 290 NNNMMM OPERATOR REMARK 290 1555 X,Y,Z REMARK 290 2555 -X,-Y,Z REMARK 290 3555 -X+1/2,Y+1/2,-Z 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 0.00000 REMARK 290 SMTRY2 2 0.000000 -1.000000 0.000000 0.00000 REMARK 290 SMTRY3 2 0.000000 0.000000 1.000000 0.00000 REMARK 290 SMTRY1 3 -1.000000 0.000000 0.000000 34.68500 REMARK 290 SMTRY2 3 0.000000 1.000000 0.000000 57.52000 REMARK 290 SMTRY3 3 0.000000 0.000000 -1.000000 0.00000 REMARK 290 SMTRY1 4 1.000000 0.000000 0.000000 34.68500 REMARK 290 SMTRY2 4 0.000000 -1.000000 0.000000 57.52000 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: 2680 ANGSTROM**2 REMARK 350 SURFACE AREA OF THE COMPLEX: 19920 ANGSTROM**2 REMARK 350 CHANGE IN SOLVENT FREE ENERGY: -80.0 KCAL/MOL REMARK 350 APPLY THE FOLLOWING TO CHAINS: A, 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 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 -19 REMARK 465 GLY A -18 REMARK 465 SER A -17 REMARK 465 SER A -16 REMARK 465 HIS A -15 REMARK 465 HIS A -14 REMARK 465 HIS A -13 REMARK 465 HIS A -12 REMARK 465 HIS A -11 REMARK 465 HIS A -10 REMARK 465 SER A -9 REMARK 465 SER A -8 REMARK 465 GLY A -7 REMARK 465 LEU A -6 REMARK 465 VAL A -5 REMARK 465 PRO A -4 REMARK 465 ARG A -3 REMARK 465 GLY A -2 REMARK 465 SER A -1 REMARK 465 HIS A 0 REMARK 465 MET B 1 REMARK 465 ALA B 15 REMARK 465 LYS B 16 REMARK 465 GLY B 17 REMARK 465 ASP B 18 REMARK 465 GLY B 19 REMARK 465 TRP B 20 REMARK 465 HIS B 21 REMARK 465 VAL B 22 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 MET A 1 CG SD CE REMARK 470 ASN A 75 CG OD1 ND2 REMARK 470 LYS A 120 CG CD CE NZ REMARK 470 GLU A 130 CG CD OE1 OE2 REMARK 470 ARG A 132 CG CD NE CZ NH1 NH2 REMARK 470 LYS A 138 CG CD CE NZ REMARK 470 ARG A 142 CG CD NE CZ NH1 NH2 REMARK 470 GLU A 256 CG CD OE1 OE2 REMARK 470 LYS A 288 CG CD CE NZ REMARK 470 ARG A 298 CG CD NE CZ NH1 NH2 REMARK 470 LYS B 3 CG CD CE NZ REMARK 470 GLU B 4 CG CD OE1 OE2 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 HOH A 915 O HOH A 919 1.97 REMARK 500 O HOH A 738 O HOH A 860 2.11 REMARK 500 O HOH A 946 O HOH B 105 2.19 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 PHE A 53 32.74 -97.47 REMARK 500 LEU A 158 -145.99 -122.46 REMARK 500 THR A 251 -68.07 -102.01 REMARK 500 LYS A 252 25.85 -146.47 REMARK 500 ASN A 315 81.90 -69.75 REMARK 500 CYS A 415 -54.00 -127.99 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 SF4 A 601 FE3 REMARK 620 N RES CSSEQI ATOM REMARK 620 1 CYS A 117 SG REMARK 620 2 SF4 A 601 S1 124.7 REMARK 620 3 SF4 A 601 S2 111.3 100.8 REMARK 620 4 SF4 A 601 S4 105.3 105.2 108.7 REMARK 620 N 1 2 3 REMARK 620 REMARK 620 COORDINATION ANGLES FOR: M RES CSSEQI METAL REMARK 620 SF4 A 601 FE2 REMARK 620 N RES CSSEQI ATOM REMARK 620 1 CYS A 121 SG REMARK 620 2 SF4 A 601 S1 108.1 REMARK 620 3 SF4 A 601 S3 114.7 104.4 REMARK 620 4 SF4 A 601 S4 120.2 105.7 102.4 REMARK 620 N 1 2 3 REMARK 620 REMARK 620 COORDINATION ANGLES FOR: M RES CSSEQI METAL REMARK 620 SF4 A 601 FE4 REMARK 620 N RES CSSEQI ATOM REMARK 620 1 CYS A 124 SG REMARK 620 2 SF4 A 601 S1 106.0 REMARK 620 3 SF4 A 601 S2 120.4 101.8 REMARK 620 4 SF4 A 601 S3 115.2 104.4 107.1 REMARK 620 N 1 2 3 REMARK 620 REMARK 620 COORDINATION ANGLES FOR: M RES CSSEQI METAL REMARK 620 SF4 A 603 FE1 REMARK 620 N RES CSSEQI ATOM REMARK 620 1 CYS A 321 SG REMARK 620 2 SF4 A 603 S2 119.6 REMARK 620 3 SF4 A 603 S3 115.0 104.9 REMARK 620 4 SF4 A 603 S4 106.3 105.4 104.3 REMARK 620 N 1 2 3 REMARK 620 REMARK 620 COORDINATION ANGLES FOR: M RES CSSEQI METAL REMARK 620 SF4 A 603 FE3 REMARK 620 N RES CSSEQI ATOM REMARK 620 1 CYS A 347 SG REMARK 620 2 SF4 A 603 S1 113.0 REMARK 620 3 SF4 A 603 S2 114.2 100.1 REMARK 620 4 SF4 A 603 S4 119.0 103.7 104.6 REMARK 620 N 1 2 3 REMARK 620 REMARK 620 COORDINATION ANGLES FOR: M RES CSSEQI METAL REMARK 620 SF4 A 603 FE2 REMARK 620 N RES CSSEQI ATOM REMARK 620 1 CYS A 365 SG REMARK 620 2 SF4 A 603 S1 125.1 REMARK 620 3 SF4 A 603 S3 107.2 102.8 REMARK 620 4 SF4 A 603 S4 111.9 103.1 104.9 REMARK 620 N 1 2 3 REMARK 620 REMARK 620 COORDINATION ANGLES FOR: M RES CSSEQI METAL REMARK 620 SF4 A 602 FE4 REMARK 620 N RES CSSEQI ATOM REMARK 620 1 CYS A 406 SG REMARK 620 2 SF4 A 602 S1 109.0 REMARK 620 3 SF4 A 602 S2 117.3 100.3 REMARK 620 4 SF4 A 602 S3 120.3 102.8 104.5 REMARK 620 N 1 2 3 REMARK 620 REMARK 620 COORDINATION ANGLES FOR: M RES CSSEQI METAL REMARK 620 SF4 A 602 FE3 REMARK 620 N RES CSSEQI ATOM REMARK 620 1 CYS A 409 SG REMARK 620 2 SF4 A 602 S1 118.2 REMARK 620 3 SF4 A 602 S2 110.8 100.1 REMARK 620 4 SF4 A 602 S4 116.2 106.0 103.4 REMARK 620 N 1 2 3 REMARK 620 REMARK 620 COORDINATION ANGLES FOR: M RES CSSEQI METAL REMARK 620 SF4 A 602 FE2 REMARK 620 N RES CSSEQI ATOM REMARK 620 1 CYS A 415 SG REMARK 620 2 SF4 A 602 S1 117.4 REMARK 620 3 SF4 A 602 S3 104.9 104.6 REMARK 620 4 SF4 A 602 S4 118.2 106.4 103.4 REMARK 620 N 1 2 3 REMARK 620 REMARK 620 COORDINATION ANGLES FOR: M RES CSSEQI METAL REMARK 620 SF4 A 603 FE4 REMARK 620 N RES CSSEQI ATOM REMARK 620 1 CYS A 419 SG REMARK 620 2 SF4 A 603 S1 118.8 REMARK 620 3 SF4 A 603 S2 110.9 101.6 REMARK 620 4 SF4 A 603 S3 116.2 102.6 104.9 REMARK 620 N 1 2 3 REMARK 620 REMARK 620 COORDINATION ANGLES FOR: M RES CSSEQI METAL REMARK 620 SF4 A 602 FE1 REMARK 620 N RES CSSEQI ATOM REMARK 620 1 CYS A 437 SG REMARK 620 2 SF4 A 602 S2 121.8 REMARK 620 3 SF4 A 602 S3 100.9 106.3 REMARK 620 4 SF4 A 602 S4 119.0 103.0 103.8 REMARK 620 N 1 2 3 REMARK 620 REMARK 620 COORDINATION ANGLES FOR: M RES CSSEQI METAL REMARK 620 SF4 A 601 FE1 REMARK 620 N RES CSSEQI ATOM REMARK 620 1 MET A 604 N REMARK 620 2 SF4 A 601 S2 84.8 REMARK 620 3 SF4 A 601 S3 169.7 102.7 REMARK 620 4 SF4 A 601 S4 87.9 103.2 97.1 REMARK 620 5 MET A 604 O 70.2 153.5 101.2 85.0 REMARK 620 6 MET A 604 SD 79.6 92.6 92.9 159.0 74.9 REMARK 620 N 1 2 3 4 5 REMARK 800 REMARK 800 SITE REMARK 800 SITE_IDENTIFIER: AC1 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue SF4 A 601 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC2 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue SF4 A 602 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC3 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue SF4 A 603 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC4 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue MET A 604 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC5 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue SAM A 605 REMARK 900 REMARK 900 RELATED ENTRIES REMARK 900 RELATED ID: 5V1S RELATED DB: PDB REMARK 900 RELATED ID: 5V1Q RELATED DB: PDB DBREF1 5V1T A 1 439 UNP A0A0Z8EWX1_STRSU DBREF2 5V1T A A0A0Z8EWX1 1 439 DBREF 5V1T B 1 22 PDB 5V1T 5V1T 1 22 SEQADV 5V1T MET A -19 UNP A0A0Z8EWX EXPRESSION TAG SEQADV 5V1T GLY A -18 UNP A0A0Z8EWX EXPRESSION TAG SEQADV 5V1T SER A -17 UNP A0A0Z8EWX EXPRESSION TAG SEQADV 5V1T SER A -16 UNP A0A0Z8EWX EXPRESSION TAG SEQADV 5V1T HIS A -15 UNP A0A0Z8EWX EXPRESSION TAG SEQADV 5V1T HIS A -14 UNP A0A0Z8EWX EXPRESSION TAG SEQADV 5V1T HIS A -13 UNP A0A0Z8EWX EXPRESSION TAG SEQADV 5V1T HIS A -12 UNP A0A0Z8EWX EXPRESSION TAG SEQADV 5V1T HIS A -11 UNP A0A0Z8EWX EXPRESSION TAG SEQADV 5V1T HIS A -10 UNP A0A0Z8EWX EXPRESSION TAG SEQADV 5V1T SER A -9 UNP A0A0Z8EWX EXPRESSION TAG SEQADV 5V1T SER A -8 UNP A0A0Z8EWX EXPRESSION TAG SEQADV 5V1T GLY A -7 UNP A0A0Z8EWX EXPRESSION TAG SEQADV 5V1T LEU A -6 UNP A0A0Z8EWX EXPRESSION TAG SEQADV 5V1T VAL A -5 UNP A0A0Z8EWX EXPRESSION TAG SEQADV 5V1T PRO A -4 UNP A0A0Z8EWX EXPRESSION TAG SEQADV 5V1T ARG A -3 UNP A0A0Z8EWX EXPRESSION TAG SEQADV 5V1T GLY A -2 UNP A0A0Z8EWX EXPRESSION TAG SEQADV 5V1T SER A -1 UNP A0A0Z8EWX EXPRESSION TAG SEQADV 5V1T HIS A 0 UNP A0A0Z8EWX EXPRESSION TAG SEQRES 1 A 459 MET GLY SER SER HIS HIS HIS HIS HIS HIS SER SER GLY SEQRES 2 A 459 LEU VAL PRO ARG GLY SER HIS MET ARG THR ILE SER GLU SEQRES 3 A 459 ASP ILE LEU PHE ARG LEU GLU LYS PHE GLY GLY ILE LEU SEQRES 4 A 459 ILE ASN LYS THR ASN PHE GLU ARG ILE GLU LEU ASP GLU SEQRES 5 A 459 THR GLU ALA PHE PHE LEU TYR LEU VAL GLN ASN HIS GLY SEQRES 6 A 459 ILE GLU ILE ALA THR SER PHE PHE LYS LYS GLU ILE GLU SEQRES 7 A 459 MET GLY LYS LEU GLU ARG ALA LEU SER LEU ASN ILE TYR SEQRES 8 A 459 SER ASP ASN ASN ILE GLU ASP SER LEU ASN ASN PRO TYR SEQRES 9 A 459 GLU THR LEU GLN ASN ALA ARG LYS HIS VAL ALA LYS LEU SEQRES 10 A 459 LYS LYS HIS ASN ILE LEU SER PHE PRO LEU GLU LEU VAL SEQRES 11 A 459 ILE TYR PRO SER MET TYR CYS ASP LEU LYS CYS GLY PHE SEQRES 12 A 459 CYS PHE LEU ALA ASN ARG GLU ASP ARG ASN ALA LYS PRO SEQRES 13 A 459 ALA LYS ASP TRP GLU ARG ILE LEU ARG GLN ALA LYS ASP SEQRES 14 A 459 ASN GLY VAL LEU SER VAL SER ILE LEU GLY GLY GLU PRO SEQRES 15 A 459 THR ARG TYR PHE ASP ILE ASP ASN LEU LEU ILE ALA CYS SEQRES 16 A 459 GLU GLU LEU LYS ILE LYS THR THR ILE THR THR ASN ALA SEQRES 17 A 459 GLN LEU ILE LYS LYS SER THR VAL GLU ILE LEU ALA LYS SEQRES 18 A 459 SER LYS TYR ILE THR PRO VAL LEU SER LEU GLN THR LEU SEQRES 19 A 459 ASP SER LYS LEU ASN PHE GLU LEU MET GLY VAL ARG PRO SEQRES 20 A 459 ASP ARG GLN ILE LYS LEU ALA LYS TYR PHE ASN GLU VAL SEQRES 21 A 459 GLY LYS LYS CYS ARG ILE ASN ALA VAL TYR THR LYS GLN SEQRES 22 A 459 SER TYR GLU GLN ILE ILE GLU LEU VAL ASP PHE CYS ILE SEQRES 23 A 459 GLU ASN LYS ILE ASP ARG PHE SER VAL ALA ASN TYR SER SEQRES 24 A 459 GLU VAL THR GLY TYR THR LYS ILE LYS LYS LYS TYR ASP SEQRES 25 A 459 LEU ALA ASP LEU ARG ARG LEU ASN GLU TYR VAL THR ASP SEQRES 26 A 459 TYR ILE THR GLN ARG GLU ALA ASN LEU ASN PHE ALA THR SEQRES 27 A 459 GLU GLY CYS HIS LEU PHE THR ALA TYR PRO GLU LEU ILE SEQRES 28 A 459 ASN ASN SER ILE GLU PHE SER GLU PHE ASP GLU MET TYR SEQRES 29 A 459 TYR GLY CYS ARG ALA LYS TYR THR LYS MET GLU ILE MET SEQRES 30 A 459 SER ASN GLY ASP ILE LEU PRO CYS ILE ALA PHE LEU GLY SEQRES 31 A 459 VAL ASN GLN THR LYS GLN ASN ALA PHE GLU LYS ASP LEU SEQRES 32 A 459 LEU ASP VAL TRP TYR ASP ASP PRO LEU TYR GLY GLY ILE SEQRES 33 A 459 ARG SER PHE ARG THR LYS ASN SER LYS CYS LEU SER CYS SEQRES 34 A 459 GLY LEU LEU LYS ILE CYS GLU GLY GLY CYS TYR VAL ASN SEQRES 35 A 459 LEU ILE LYS GLU LYS SER PRO GLU TYR PHE ARG ASP SER SEQRES 36 A 459 VAL CYS GLN LEU SEQRES 1 B 22 MET SER LYS GLU LEU GLU LYS VAL LEU GLU SER SER ALA SEQRES 2 B 22 MET ALA LYS GLY ASP GLY TRP HIS VAL HET SF4 A 601 8 HET SF4 A 602 8 HET SF4 A 603 8 HET MET A 604 9 HET SAM A 605 27 HETNAM SF4 IRON/SULFUR CLUSTER HETNAM MET METHIONINE HETNAM SAM S-ADENOSYLMETHIONINE FORMUL 3 SF4 3(FE4 S4) FORMUL 6 MET C5 H11 N O2 S FORMUL 7 SAM C15 H22 N6 O5 S FORMUL 8 HOH *283(H2 O) HELIX 1 AA1 ASP A 31 GLY A 45 1 15 HELIX 2 AA2 GLY A 45 PHE A 53 1 9 HELIX 3 AA3 PHE A 53 MET A 59 1 7 HELIX 4 AA4 LEU A 62 LEU A 68 1 7 HELIX 5 AA5 ASN A 82 ASN A 101 1 20 HELIX 6 AA6 PRO A 136 ASN A 150 1 15 HELIX 7 AA7 ASP A 167 LEU A 178 1 12 HELIX 8 AA8 LYS A 192 SER A 202 1 11 HELIX 9 AA9 ASP A 215 GLY A 224 1 10 HELIX 10 AB1 PRO A 227 VAL A 240 1 14 HELIX 11 AB2 SER A 254 ASN A 268 1 15 HELIX 12 AB3 ASP A 292 ARG A 310 1 19 HELIX 13 AB4 HIS A 322 ILE A 331 5 10 HELIX 14 AB5 PHE A 340 TYR A 345 1 6 HELIX 15 AB6 CYS A 365 VAL A 371 5 7 HELIX 16 AB7 ASP A 382 ASP A 390 1 9 HELIX 17 AB8 ASP A 390 PHE A 399 1 10 HELIX 18 AB9 ASN A 403 SER A 408 1 6 HELIX 19 AC1 LEU A 411 GLU A 416 1 6 HELIX 20 AC2 CYS A 419 ILE A 424 1 6 HELIX 21 AC3 LYS B 3 SER B 12 1 10 SHEET 1 AA1 2 THR A 3 ILE A 4 0 SHEET 2 AA1 2 TYR A 71 SER A 72 -1 O SER A 72 N THR A 3 SHEET 1 AA2 3 ILE A 8 GLU A 13 0 SHEET 2 AA2 3 GLY A 16 ASN A 21 -1 O ILE A 18 N ARG A 11 SHEET 3 AA2 3 ARG A 27 LEU A 30 -1 O LEU A 30 N GLY A 17 SHEET 1 AA3 9 PHE A 316 GLU A 319 0 SHEET 2 AA3 9 ARG A 272 ASN A 277 1 N ASN A 277 O GLU A 319 SHEET 3 AA3 9 ARG A 245 TYR A 250 1 N ALA A 248 O ALA A 276 SHEET 4 AA3 9 ILE A 205 SER A 210 1 N LEU A 209 O ARG A 245 SHEET 5 AA3 9 THR A 182 THR A 186 1 N ILE A 184 O VAL A 208 SHEET 6 AA3 9 SER A 154 ILE A 157 1 N ILE A 157 O THR A 183 SHEET 7 AA3 9 GLU A 108 ILE A 111 1 N LEU A 109 O SER A 156 SHEET 8 AA3 9 LYS A 353 ILE A 356 1 O ILE A 356 N VAL A 110 SHEET 9 AA3 9 ILE A 362 LEU A 363 -1 O LEU A 363 N GLU A 355 LINK SG CYS A 117 FE3 SF4 A 601 1555 1555 2.27 LINK SG CYS A 121 FE2 SF4 A 601 1555 1555 2.29 LINK SG CYS A 124 FE4 SF4 A 601 1555 1555 2.30 LINK SG CYS A 321 FE1 SF4 A 603 1555 1555 2.31 LINK SG CYS A 347 FE3 SF4 A 603 1555 1555 2.31 LINK SG CYS A 365 FE2 SF4 A 603 1555 1555 2.32 LINK SG CYS A 406 FE4 SF4 A 602 1555 1555 2.28 LINK SG CYS A 409 FE3 SF4 A 602 1555 1555 2.29 LINK SG CYS A 415 FE2 SF4 A 602 1555 1555 2.28 LINK SG CYS A 419 FE4 SF4 A 603 1555 1555 2.32 LINK SG CYS A 437 FE1 SF4 A 602 1555 1555 2.29 LINK FE1 SF4 A 601 N MET A 604 1555 1555 2.60 LINK FE1 SF4 A 601 O MET A 604 1555 1555 2.21 LINK FE1 SF4 A 601 SD MET A 604 1555 1555 2.50 CISPEP 1 GLY A 159 GLY A 160 0 5.26 SITE 1 AC1 8 CYS A 117 CYS A 121 CYS A 124 ARG A 129 SITE 2 AC1 8 GLY A 160 ASN A 187 MET A 604 HOH A 787 SITE 1 AC2 7 THR A 325 CYS A 406 CYS A 409 CYS A 415 SITE 2 AC2 7 GLY A 417 CYS A 437 LEU A 439 SITE 1 AC3 7 CYS A 321 HIS A 322 CYS A 347 LYS A 353 SITE 2 AC3 7 CYS A 365 CYS A 419 MET B 14 SITE 1 AC4 10 PHE A 125 GLY A 159 GLY A 160 GLU A 161 SITE 2 AC4 10 THR A 185 THR A 186 ASN A 187 SER A 210 SITE 3 AC4 10 SF4 A 601 HOH A 787 SITE 1 AC5 16 PHE A 123 CYS A 124 PHE A 125 THR A 185 SITE 2 AC5 16 SER A 210 ASN A 247 VAL A 249 ARG A 272 SITE 3 AC5 16 ASN A 277 SER A 279 THR A 285 GLU A 319 SITE 4 AC5 16 HOH A 748 HOH A 787 HOH A 866 MET B 14 CRYST1 69.370 115.040 54.330 90.00 90.00 90.00 P 21 21 2 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 0.014415 0.000000 0.000000 0.00000 SCALE2 0.000000 0.008693 0.000000 0.00000 SCALE3 0.000000 0.000000 0.018406 0.00000