HEADER METAL BINDING PROTEIN 24-JAN-17 5UL4 TITLE STRUCTURE OF COBALAMIN-DEPENDENT S-ADENOSYLMETHIONINE RADICAL ENZYME TITLE 2 OXSB WITH AQUA-COBALAMIN AND S-ADENOSYLMETHIONINE BOUND COMPND MOL_ID: 1; COMPND 2 MOLECULE: OXSB PROTEIN; COMPND 3 CHAIN: A; COMPND 4 ENGINEERED: YES SOURCE MOL_ID: 1; SOURCE 2 ORGANISM_SCIENTIFIC: BACILLUS MEGATERIUM; SOURCE 3 ORGANISM_TAXID: 1404; SOURCE 4 GENE: OXSB; SOURCE 5 EXPRESSION_SYSTEM: ESCHERICHIA COLI; SOURCE 6 EXPRESSION_SYSTEM_TAXID: 562 KEYWDS METALLOPROTEIN, COBALAMIN, RADICAL SAM, S-ADENOSYLMETHIONINE, KEYWDS 2 OXETANOCIN, METAL BINDING PROTEIN EXPDTA X-RAY DIFFRACTION AUTHOR J.BRIDWELL-RABB,C.L.DRENNAN REVDAT 4 01-JAN-20 5UL4 1 REMARK REVDAT 3 27-SEP-17 5UL4 1 REMARK REVDAT 2 03-MAY-17 5UL4 1 JRNL REVDAT 1 19-APR-17 5UL4 0 JRNL AUTH J.BRIDWELL-RABB,A.ZHONG,H.G.SUN,C.L.DRENNAN,H.W.LIU JRNL TITL A B12-DEPENDENT RADICAL SAM ENZYME INVOLVED IN OXETANOCIN A JRNL TITL 2 BIOSYNTHESIS. JRNL REF NATURE V. 544 322 2017 JRNL REFN ESSN 1476-4687 JRNL PMID 28346939 JRNL DOI 10.1038/NATURE21689 REMARK 2 REMARK 2 RESOLUTION. 1.85 ANGSTROMS. REMARK 3 REMARK 3 REFINEMENT. REMARK 3 PROGRAM : PHENIX (1.11.1_2575: ???) 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) : 1.85 REMARK 3 RESOLUTION RANGE LOW (ANGSTROMS) : 44.84 REMARK 3 MIN(FOBS/SIGMA_FOBS) : 1.340 REMARK 3 COMPLETENESS FOR RANGE (%) : 99.3 REMARK 3 NUMBER OF REFLECTIONS : 92300 REMARK 3 REMARK 3 FIT TO DATA USED IN REFINEMENT. REMARK 3 R VALUE (WORKING + TEST SET) : 0.195 REMARK 3 R VALUE (WORKING SET) : 0.192 REMARK 3 FREE R VALUE : 0.231 REMARK 3 FREE R VALUE TEST SET SIZE (%) : 7.420 REMARK 3 FREE R VALUE TEST SET COUNT : 6845 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 44.8573 - 5.7445 0.97 3007 238 0.1689 0.1846 REMARK 3 2 5.7445 - 4.5610 0.99 2927 233 0.1579 0.2027 REMARK 3 3 4.5610 - 3.9849 0.98 2884 222 0.1494 0.1789 REMARK 3 4 3.9849 - 3.6207 0.99 2897 231 0.1655 0.1894 REMARK 3 5 3.6207 - 3.3613 0.99 2872 250 0.1877 0.2234 REMARK 3 6 3.3613 - 3.1632 0.99 2853 220 0.1960 0.2421 REMARK 3 7 3.1632 - 3.0048 0.99 2859 226 0.2058 0.2535 REMARK 3 8 3.0048 - 2.8740 0.99 2869 225 0.2068 0.2538 REMARK 3 9 2.8740 - 2.7634 1.00 2856 233 0.2053 0.2485 REMARK 3 10 2.7634 - 2.6680 1.00 2848 236 0.2027 0.2708 REMARK 3 11 2.6680 - 2.5846 1.00 2842 226 0.2090 0.2442 REMARK 3 12 2.5846 - 2.5108 1.00 2863 224 0.2091 0.2664 REMARK 3 13 2.5108 - 2.4447 0.99 2832 224 0.1984 0.2403 REMARK 3 14 2.4447 - 2.3850 0.99 2815 228 0.2059 0.2703 REMARK 3 15 2.3850 - 2.3308 0.99 2837 228 0.2111 0.2501 REMARK 3 16 2.3308 - 2.2812 0.99 2825 226 0.2026 0.2399 REMARK 3 17 2.2812 - 2.2356 0.99 2839 228 0.2160 0.2650 REMARK 3 18 2.2356 - 2.1934 1.00 2843 229 0.2243 0.2735 REMARK 3 19 2.1934 - 2.1542 0.99 2821 226 0.2264 0.2658 REMARK 3 20 2.1542 - 2.1177 1.00 2833 227 0.2344 0.2754 REMARK 3 21 2.1177 - 2.0835 1.00 2845 228 0.2265 0.2866 REMARK 3 22 2.0835 - 2.0515 0.99 2830 226 0.2447 0.3040 REMARK 3 23 2.0515 - 2.0213 0.99 2815 226 0.2478 0.3104 REMARK 3 24 2.0213 - 1.9928 0.99 2814 225 0.2567 0.2956 REMARK 3 25 1.9928 - 1.9659 1.00 2814 226 0.2571 0.2838 REMARK 3 26 1.9659 - 1.9404 1.00 2836 228 0.2667 0.3277 REMARK 3 27 1.9404 - 1.9161 1.00 2820 227 0.2737 0.3168 REMARK 3 28 1.9161 - 1.8930 1.00 2854 230 0.2907 0.3539 REMARK 3 29 1.8930 - 1.8710 0.99 2800 225 0.3165 0.3348 REMARK 3 30 1.8710 - 1.8500 0.99 2805 224 0.3242 0.3646 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) : 0.250 REMARK 3 PHASE ERROR (DEGREES, MAXIMUM-LIKELIHOOD BASED) : 26.670 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 : 0.009 6477 REMARK 3 ANGLE : 1.214 8758 REMARK 3 CHIRALITY : 0.058 951 REMARK 3 PLANARITY : 0.006 1128 REMARK 3 DIHEDRAL : 16.867 3965 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 5UL4 COMPLIES WITH FORMAT V. 3.30, 13-JUL-11 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY RCSB ON 01-FEB-17. REMARK 100 THE DEPOSITION ID IS D_1000226059. REMARK 200 REMARK 200 EXPERIMENTAL DETAILS REMARK 200 EXPERIMENT TYPE : X-RAY DIFFRACTION REMARK 200 DATE OF DATA COLLECTION : 22-NOV-14 REMARK 200 TEMPERATURE (KELVIN) : 100 REMARK 200 PH : 6.5 REMARK 200 NUMBER OF CRYSTALS USED : 1 REMARK 200 REMARK 200 SYNCHROTRON (Y/N) : Y REMARK 200 RADIATION SOURCE : APS REMARK 200 BEAMLINE : 24-ID-C REMARK 200 X-RAY GENERATOR MODEL : NULL REMARK 200 MONOCHROMATIC OR LAUE (M/L) : M REMARK 200 WAVELENGTH OR RANGE (A) : 0.9791 REMARK 200 MONOCHROMATOR : NULL REMARK 200 OPTICS : NULL REMARK 200 REMARK 200 DETECTOR TYPE : PIXEL REMARK 200 DETECTOR MANUFACTURER : DECTRIS PILATUS 6M REMARK 200 INTENSITY-INTEGRATION SOFTWARE : HKL-2000 REMARK 200 DATA SCALING SOFTWARE : HKL-2000 REMARK 200 REMARK 200 NUMBER OF UNIQUE REFLECTIONS : 93159 REMARK 200 RESOLUTION RANGE HIGH (A) : 1.850 REMARK 200 RESOLUTION RANGE LOW (A) : 44.844 REMARK 200 REJECTION CRITERIA (SIGMA(I)) : NULL REMARK 200 REMARK 200 OVERALL. REMARK 200 COMPLETENESS FOR RANGE (%) : 99.2 REMARK 200 DATA REDUNDANCY : 3.700 REMARK 200 R MERGE (I) : 0.05200 REMARK 200 R SYM (I) : NULL REMARK 200 FOR THE DATA SET : 23.1000 REMARK 200 REMARK 200 IN THE HIGHEST RESOLUTION SHELL. REMARK 200 HIGHEST RESOLUTION SHELL, RANGE HIGH (A) : 1.85 REMARK 200 HIGHEST RESOLUTION SHELL, RANGE LOW (A) : 1.92 REMARK 200 COMPLETENESS FOR SHELL (%) : 99.2 REMARK 200 DATA REDUNDANCY IN SHELL : 3.70 REMARK 200 R MERGE FOR SHELL (I) : 0.59000 REMARK 200 R SYM FOR SHELL (I) : NULL REMARK 200 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: OXSB WITH AQUA-COBALAMIN BOUND REMARK 200 REMARK 200 REMARK: NULL REMARK 280 REMARK 280 CRYSTAL REMARK 280 SOLVENT CONTENT, VS (%): 60.54 REMARK 280 MATTHEWS COEFFICIENT, VM (ANGSTROMS**3/DA): 3.12 REMARK 280 REMARK 280 CRYSTALLIZATION CONDITIONS: 0.1 M MES (6.5), 6% W/V PEG 3350, 20 REMARK 280 -24% V/V ETHYLENE GLYCOL, VAPOR DIFFUSION, SITTING 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 44.68000 REMARK 290 SMTRY2 2 0.000000 -1.000000 0.000000 0.00000 REMARK 290 SMTRY3 2 0.000000 0.000000 1.000000 60.72000 REMARK 290 SMTRY1 3 -1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY2 3 0.000000 1.000000 0.000000 49.80000 REMARK 290 SMTRY3 3 0.000000 0.000000 -1.000000 60.72000 REMARK 290 SMTRY1 4 1.000000 0.000000 0.000000 44.68000 REMARK 290 SMTRY2 4 0.000000 -1.000000 0.000000 49.80000 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: MONOMERIC REMARK 350 SOFTWARE DETERMINED QUATERNARY STRUCTURE: MONOMERIC REMARK 350 SOFTWARE USED: PISA REMARK 350 APPLY THE FOLLOWING TO CHAINS: A 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 GLN A 2 REMARK 465 THR A 3 REMARK 465 TYR A 4 REMARK 465 ASN A 673 REMARK 465 SER A 674 REMARK 465 LYS A 675 REMARK 465 ILE A 676 REMARK 465 ILE A 738 REMARK 465 ASN A 739 REMARK 465 ALA A 740 REMARK 465 TYR A 741 REMARK 465 GLU A 742 REMARK 465 LEU A 743 REMARK 465 ASN A 744 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 1268 O HOH A 1367 2.10 REMARK 500 O ARG A 230 O HOH A 901 2.15 REMARK 500 O HOH A 1222 O HOH A 1236 2.15 REMARK 500 OE1 GLU A 374 O HOH A 902 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 O HOH A 1180 O HOH A 1351 3555 2.15 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 45 145.46 178.06 REMARK 500 THR A 56 -108.56 34.16 REMARK 500 SER A 68 10.12 -152.03 REMARK 500 CYS A 108 79.44 -109.55 REMARK 500 ASN A 217 -176.56 76.27 REMARK 500 LYS A 239 -123.86 -136.32 REMARK 500 THR A 289 129.22 -37.00 REMARK 500 THR A 289 128.87 -37.00 REMARK 500 TYR A 315 -65.62 -92.36 REMARK 500 LEU A 327 164.95 82.54 REMARK 500 ASP A 429 -87.69 -113.59 REMARK 500 GLU A 436 -33.90 70.64 REMARK 500 SER A 649 79.51 -155.77 REMARK 500 MET A 667 30.92 -163.00 REMARK 500 ASN A 734 75.66 -109.34 REMARK 500 TRP A 735 46.59 -81.40 REMARK 500 REMARK 500 REMARK: NULL REMARK 500 REMARK 500 GEOMETRY AND STEREOCHEMISTRY REMARK 500 SUBTOPIC: NON-CIS, NON-TRANS REMARK 500 REMARK 500 THE FOLLOWING PEPTIDE BONDS DEVIATE SIGNIFICANTLY FROM BOTH REMARK 500 CIS AND TRANS CONFORMATION. CIS BONDS, IF ANY, ARE LISTED REMARK 500 ON CISPEP RECORDS. TRANS IS DEFINED AS 180 +/- 30 AND REMARK 500 CIS IS DEFINED AS 0 +/- 30 DEGREES. REMARK 500 MODEL OMEGA REMARK 500 GLU A 65 ASP A 66 145.29 REMARK 500 REMARK 500 REMARK: NULL REMARK 525 REMARK 525 SOLVENT REMARK 525 REMARK 525 THE SOLVENT MOLECULES HAVE CHAIN IDENTIFIERS THAT REMARK 525 INDICATE THE POLYMER CHAIN WITH WHICH THEY ARE MOST REMARK 525 CLOSELY ASSOCIATED. THE REMARK LISTS ALL THE SOLVENT REMARK 525 MOLECULES WHICH ARE MORE THAN 5A AWAY FROM THE REMARK 525 NEAREST POLYMER CHAIN (M = MODEL NUMBER; REMARK 525 RES=RESIDUE NAME; C=CHAIN IDENTIFIER; SSEQ=SEQUENCE REMARK 525 NUMBER; I=INSERTION CODE): REMARK 525 REMARK 525 M RES CSSEQI REMARK 525 HOH A1425 DISTANCE = 6.04 ANGSTROMS 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 801 FE4 REMARK 620 N RES CSSEQI ATOM REMARK 620 1 CYS A 313 SG REMARK 620 2 SF4 A 801 S1 124.2 REMARK 620 3 SF4 A 801 S2 110.8 104.7 REMARK 620 4 SF4 A 801 S3 107.0 103.6 104.9 REMARK 620 N 1 2 3 REMARK 620 REMARK 620 COORDINATION ANGLES FOR: M RES CSSEQI METAL REMARK 620 SF4 A 801 FE2 REMARK 620 N RES CSSEQI ATOM REMARK 620 1 CYS A 318 SG REMARK 620 2 SF4 A 801 S1 109.6 REMARK 620 3 SF4 A 801 S3 118.2 104.0 REMARK 620 4 SF4 A 801 S4 112.0 106.5 105.7 REMARK 620 N 1 2 3 REMARK 620 REMARK 620 COORDINATION ANGLES FOR: M RES CSSEQI METAL REMARK 620 SF4 A 801 FE3 REMARK 620 N RES CSSEQI ATOM REMARK 620 1 CYS A 321 SG REMARK 620 2 SF4 A 801 S1 109.5 REMARK 620 3 SF4 A 801 S2 121.5 105.2 REMARK 620 4 SF4 A 801 S4 110.9 104.7 103.6 REMARK 620 N 1 2 3 REMARK 620 REMARK 620 COORDINATION ANGLES FOR: M RES CSSEQI METAL REMARK 620 SF4 A 801 FE1 REMARK 620 N RES CSSEQI ATOM REMARK 620 1 SAM A 803 N REMARK 620 2 SF4 A 801 S2 94.0 REMARK 620 3 SF4 A 801 S3 86.5 103.0 REMARK 620 4 SF4 A 801 S4 158.9 101.8 103.2 REMARK 620 5 SAM A 803 O 75.4 169.4 77.7 88.3 REMARK 620 6 SAM A 803 N 74.2 73.1 159.8 96.9 102.5 REMARK 620 7 SAM A 803 O 40.5 127.0 99.8 118.6 43.2 69.4 REMARK 620 N 1 2 3 4 5 6 REMARK 620 REMARK 620 COORDINATION ANGLES FOR: M RES CSSEQI METAL REMARK 620 B12 A 802 CO REMARK 620 N RES CSSEQI ATOM REMARK 620 1 HOH A1306 O REMARK 620 2 B12 A 802 N21 88.4 REMARK 620 3 B12 A 802 N22 90.0 89.4 REMARK 620 4 B12 A 802 N23 101.0 169.0 96.1 REMARK 620 5 B12 A 802 N24 89.2 84.4 173.8 90.1 REMARK 620 6 HOH A1017 O 169.0 97.3 80.7 74.3 100.7 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 801 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC2 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue B12 A 802 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC3 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue SAM A 803 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC4 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue MES A 804 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC5 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue EDO A 805 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC6 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue EDO A 806 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC7 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue EDO A 807 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC8 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue EDO A 808 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC9 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue EDO A 809 REMARK 800 REMARK 800 SITE_IDENTIFIER: AD1 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue EDO A 810 REMARK 800 REMARK 800 SITE_IDENTIFIER: AD2 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue EDO A 811 REMARK 800 REMARK 800 SITE_IDENTIFIER: AD3 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue EDO A 812 REMARK 800 REMARK 800 SITE_IDENTIFIER: AD4 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue EDO A 813 REMARK 800 REMARK 800 SITE_IDENTIFIER: AD5 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue EDO A 814 REMARK 800 REMARK 800 SITE_IDENTIFIER: AD6 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue EDO A 815 REMARK 800 REMARK 800 SITE_IDENTIFIER: AD7 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue EDO A 816 REMARK 800 REMARK 800 SITE_IDENTIFIER: AD8 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue EDO A 817 REMARK 800 REMARK 800 SITE_IDENTIFIER: AD9 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue EDO A 818 REMARK 800 REMARK 800 SITE_IDENTIFIER: AE1 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue EDO A 819 REMARK 900 REMARK 900 RELATED ENTRIES REMARK 900 RELATED ID: 5UL2 RELATED DB: PDB REMARK 900 D_1000226058 D_1000226054 REMARK 900 RELATED ID: 5UL3 RELATED DB: PDB DBREF 5UL4 A 1 744 UNP O24770 O24770_BACME 1 744 SEQRES 1 A 744 MET GLN THR TYR LEU SER THR LYS SER ILE GLU TYR TYR SEQRES 2 A 744 LEU LYS GLU LEU LYS GLU ILE PHE SER GLN ILE TRP LEU SEQRES 3 A 744 LYS PRO SER GLU ILE GLU LYS ARG CYS GLU GLU LEU PHE SEQRES 4 A 744 LYS ARG SER LYS GLU PHE ASP TYR LYS ARG ILE LEU VAL SEQRES 5 A 744 SER GLY GLU THR ASP ASN THR THR LEU TYR VAL ILE GLU SEQRES 6 A 744 ASP SER SER LYS ILE HIS VAL PHE SER PRO ASN ARG ASP SEQRES 7 A 744 LEU ARG GLU ASN PRO LEU LEU MET ARG TRP HIS PRO SER SEQRES 8 A 744 TRP TYR GLU ILE GLU SER LYS GLU ILE TYR TYR LYS CYS SEQRES 9 A 744 PHE LEU SER CYS GLU GLU LEU TYR GLU HIS LEU GLU LEU SEQRES 10 A 744 PRO THR VAL THR LEU VAL ASN LEU CYS VAL ILE GLU ASN SEQRES 11 A 744 PHE PRO ILE PRO ARG LEU ASN LEU SER THR GLY THR LEU SEQRES 12 A 744 SER SER TYR LEU ARG LYS GLU GLN LEU ALA LYS VAL GLU SEQRES 13 A 744 LEU ILE ASP MET GLN VAL GLY THR THR ILE ASN GLN ILE SEQRES 14 A 744 ILE LYS ASN LEU LEU ASP SER GLN PRO ASP ILE ILE GLY SEQRES 15 A 744 LEU SER VAL ASN PHE GLY GLN LYS LYS LEU ALA PHE GLU SEQRES 16 A 744 ILE LEU ASP LEU ILE TYR SER HIS ILE GLU ASN GLY ASP SEQRES 17 A 744 LEU SER SER ILE ILE THR VAL GLY ASN VAL ILE PRO SER SEQRES 18 A 744 PHE SER PRO GLU GLN PHE PHE GLU ARG TYR PRO SER LEU SEQRES 19 A 744 LEU ILE CYS ASP LYS GLU GLY GLU TYR THR LEU ARG ASP SEQRES 20 A 744 LEU ILE LYS MET LEU LYS LYS GLU LEU LYS LEU ASP GLU SEQRES 21 A 744 VAL ASN GLY ILE SER TYR VAL ASP GLU SER GLY GLU VAL SEQRES 22 A 744 LYS HIS ASN VAL ALA GLU THR VAL ASN PHE LYS GLU GLU SEQRES 23 A 744 VAL PRO THR PRO SER LEU ASP ILE LEU GLY GLU ILE SER SEQRES 24 A 744 LYS PHE ARG GLY ALA LEU THR LEU GLU THR SER ARG GLY SEQRES 25 A 744 CYS ASP TYR SER ARG CYS THR PHE CYS PRO ARG ASP HIS SEQRES 26 A 744 LYS LEU ARG SER TRP ARG PRO LEU SER VAL GLU GLN THR SEQRES 27 A 744 LEU LYS GLN LEU ASP ASP ILE LEU ARG ALA GLY LYS HIS SEQRES 28 A 744 PHE ASN ILE LYS PRO HIS ILE TYR MET ALA ASP GLU GLU SEQRES 29 A 744 PHE ILE GLY GLU LEU PRO ASN GLY THR GLU ALA GLN ARG SEQRES 30 A 744 ILE ILE ASP ILE CYS GLU GLY LEU LEU LYS ARG GLU GLU SEQRES 31 A 744 LYS ILE LYS PHE ASP PHE ALA ALA ARG ALA ASP SER VAL SEQRES 32 A 744 TYR GLU PRO LYS ARG THR LYS GLU TRP ASN VAL GLU ARG SEQRES 33 A 744 LEU LYS MET TRP HIS TYR CYS ALA LEU ALA GLY ALA ASP SEQRES 34 A 744 ARG ILE PHE ILE GLY VAL GLU SER GLY SER ASN GLN GLN SEQRES 35 A 744 LEU LYS ARG TYR GLY LYS GLY THR THR SER GLU GLN ASN SEQRES 36 A 744 ILE ILE ALA LEU ARG LEU VAL SER ALA LEU GLY ILE ASN SEQRES 37 A 744 LEU ARG ILE GLY PHE ILE MET PHE ASP GLN LEU MET LYS SEQRES 38 A 744 GLY LEU ASP ASN LEU LYS GLU ASN LEU ASP PHE LEU GLU SEQRES 39 A 744 ARG THR ASP ALA LEU MET LYS PRO ILE ASP ILE GLY ASP SEQRES 40 A 744 MET THR TYR GLU GLU LEU TYR ASP LYS LEU LEU ASN ASP SEQRES 41 A 744 LYS GLU PHE ILE GLU LYS HIS LYS THR GLY LYS PRO VAL SEQRES 42 A 744 TYR THR ILE VAL SER TYR MET LEU ALA SER MET GLU ILE SEQRES 43 A 744 LEU MET ASN THR PRO TYR SER ARG MET VAL GLN LEU THR SEQRES 44 A 744 GLU ARG LYS GLU GLU VAL ASN LEU ILE MET ASN ASP GLY SEQRES 45 A 744 LYS PRO ASP MET ASN MET GLY ARG TYR ALA THR SER PHE SEQRES 46 A 744 VAL ASP LYS THR ASN GLY ASN LEU SER GLU ALA CYS GLN SEQRES 47 A 744 MET TRP ILE ASP SER ASN PHE GLY VAL MET TYR THR ILE SEQRES 48 A 744 LYS SER LEU HIS LYS VAL ALA ASN PRO ARG GLU LYS LYS SEQRES 49 A 744 LYS LEU TYR SER TYR MET GLU THR HIS ARG GLU ILE SER SEQRES 50 A 744 HIS PHE LEU LEU LYS TYR LEU VAL TYR ASN LEU SER PRO SEQRES 51 A 744 ASP LYS GLU SER GLN ILE ILE LEU SER ASP PHE LEU ARG SEQRES 52 A 744 MET HIS SER MET GLU HIS ILE LEU ASP ASN SER LYS ILE SEQRES 53 A 744 ASN VAL GLY ASP GLY SER LYS GLU ASN ILE LEU ASN VAL SEQRES 54 A 744 MET THR ASN TRP GLN LEU ILE MET GLU LYS LEU LEU ARG SEQRES 55 A 744 ASP VAL GLU ALA ASP LEU ASN LYS GLY ILE ILE THR ASP SEQRES 56 A 744 SER GLU ASP HIS ARG LEU HIS ASN THR LEU LYS ARG TRP SEQRES 57 A 744 PHE SER ASP MET GLY ASN TRP SER LEU ILE ASN ALA TYR SEQRES 58 A 744 GLU LEU ASN HET SF4 A 801 8 HET B12 A 802 91 HET SAM A 803 54 HET MES A 804 12 HET EDO A 805 4 HET EDO A 806 4 HET EDO A 807 4 HET EDO A 808 4 HET EDO A 809 4 HET EDO A 810 4 HET EDO A 811 4 HET EDO A 812 4 HET EDO A 813 4 HET EDO A 814 4 HET EDO A 815 4 HET EDO A 816 4 HET EDO A 817 4 HET EDO A 818 4 HET EDO A 819 4 HETNAM SF4 IRON/SULFUR CLUSTER HETNAM B12 COBALAMIN HETNAM SAM S-ADENOSYLMETHIONINE HETNAM MES 2-(N-MORPHOLINO)-ETHANESULFONIC ACID HETNAM EDO 1,2-ETHANEDIOL HETSYN EDO ETHYLENE GLYCOL FORMUL 2 SF4 FE4 S4 FORMUL 3 B12 C62 H89 CO N13 O14 P 2+ FORMUL 4 SAM C15 H22 N6 O5 S FORMUL 5 MES C6 H13 N O4 S FORMUL 6 EDO 15(C2 H6 O2) FORMUL 21 HOH *525(H2 O) HELIX 1 AA1 SER A 6 SER A 22 1 17 HELIX 2 AA2 LYS A 27 LYS A 43 1 17 HELIX 3 AA3 GLU A 55 THR A 59 5 5 HELIX 4 AA4 ASP A 78 GLU A 81 5 4 HELIX 5 AA5 ASN A 82 HIS A 89 1 8 HELIX 6 AA6 CYS A 108 GLU A 116 1 9 HELIX 7 AA7 ASN A 137 GLU A 150 1 14 HELIX 8 AA8 GLN A 161 GLY A 163 5 3 HELIX 9 AA9 THR A 165 GLN A 177 1 13 HELIX 10 AB1 GLN A 189 ASN A 206 1 18 HELIX 11 AB2 ASN A 217 SER A 223 1 7 HELIX 12 AB3 SER A 223 TYR A 231 1 9 HELIX 13 AB4 GLY A 241 LYS A 253 1 13 HELIX 14 AB5 LYS A 257 VAL A 261 5 5 HELIX 15 AB6 ASN A 282 VAL A 287 1 6 HELIX 16 AB7 ILE A 294 PHE A 301 1 8 HELIX 17 AB8 SER A 334 PHE A 352 1 19 HELIX 18 AB9 THR A 373 LYS A 387 1 15 HELIX 19 AC1 ARG A 399 VAL A 403 5 5 HELIX 20 AC2 THR A 409 ALA A 426 1 18 HELIX 21 AC3 SER A 439 TYR A 446 1 8 HELIX 22 AC4 THR A 451 LEU A 465 1 15 HELIX 23 AC5 LEU A 483 GLU A 494 1 12 HELIX 24 AC6 THR A 509 ASP A 520 1 12 HELIX 25 AC7 ASP A 520 LYS A 528 1 9 HELIX 26 AC8 PRO A 532 VAL A 537 5 6 HELIX 27 AC9 THR A 550 GLU A 563 1 14 HELIX 28 AD1 MET A 569 LYS A 573 5 5 HELIX 29 AD2 ASP A 587 VAL A 617 1 31 HELIX 30 AD3 ASN A 619 SER A 649 1 31 HELIX 31 AD4 ASP A 651 HIS A 665 1 15 HELIX 32 AD5 SER A 682 LYS A 710 1 29 HELIX 33 AD6 HIS A 719 ASP A 731 1 13 SHEET 1 AA1 4 ARG A 49 SER A 53 0 SHEET 2 AA1 4 THR A 60 ASP A 66 -1 O ILE A 64 N ARG A 49 SHEET 3 AA1 4 LYS A 69 PHE A 73 -1 O HIS A 71 N VAL A 63 SHEET 4 AA1 4 TYR A 102 LEU A 106 -1 O PHE A 105 N ILE A 70 SHEET 1 AA2 7 LYS A 154 ASP A 159 0 SHEET 2 AA2 7 THR A 119 ASN A 124 1 N VAL A 120 O GLU A 156 SHEET 3 AA2 7 ILE A 180 SER A 184 1 O GLY A 182 N VAL A 123 SHEET 4 AA2 7 ILE A 212 GLY A 216 1 O ILE A 212 N ILE A 181 SHEET 5 AA2 7 LEU A 235 CYS A 237 1 O CYS A 237 N VAL A 215 SHEET 6 AA2 7 ILE A 264 VAL A 267 -1 O SER A 265 N ILE A 236 SHEET 7 AA2 7 VAL A 273 HIS A 275 -1 O LYS A 274 N TYR A 266 SHEET 1 AA3 5 LEU A 305 LEU A 307 0 SHEET 2 AA3 5 HIS A 357 MET A 360 1 O TYR A 359 N LEU A 305 SHEET 3 AA3 5 LYS A 393 ALA A 398 1 O ASP A 395 N MET A 360 SHEET 4 AA3 5 ALA A 428 GLU A 436 1 O ASP A 429 N PHE A 394 SHEET 5 AA3 5 ASN A 468 PHE A 473 1 O GLY A 472 N GLU A 436 SHEET 1 AA4 2 SER A 310 ARG A 311 0 SHEET 2 AA4 2 ARG A 331 PRO A 332 -1 O ARG A 331 N ARG A 311 SHEET 1 AA5 2 ILE A 546 LEU A 547 0 SHEET 2 AA5 2 ARG A 580 TYR A 581 -1 O TYR A 581 N ILE A 546 LINK SG CYS A 313 FE4 SF4 A 801 1555 1555 2.25 LINK SG CYS A 318 FE2 SF4 A 801 1555 1555 2.28 LINK SG CYS A 321 FE3 SF4 A 801 1555 1555 2.20 LINK FE1 SF4 A 801 N BSAM A 803 1555 1555 2.26 LINK FE1 SF4 A 801 O BSAM A 803 1555 1555 2.17 LINK FE1 SF4 A 801 N ASAM A 803 1555 1555 2.20 LINK FE1 SF4 A 801 O ASAM A 803 1555 1555 2.20 LINK CO B12 A 802 O HOH A1306 1555 1555 2.76 LINK CO B12 A 802 O HOH A1017 1555 1555 2.47 SITE 1 AC1 6 CYS A 313 SER A 316 CYS A 318 CYS A 321 SITE 2 AC1 6 ARG A 399 SAM A 803 SITE 1 AC2 36 PHE A 131 ARG A 135 SER A 139 GLY A 182 SITE 2 AC2 36 LEU A 183 SER A 184 PHE A 187 GLY A 216 SITE 3 AC2 36 ASN A 217 CYS A 237 LYS A 239 GLU A 240 SITE 4 AC2 36 GLY A 241 GLU A 242 GLU A 308 ARG A 311 SITE 5 AC2 36 CYS A 321 PRO A 322 HIS A 325 LYS A 326 SITE 6 AC2 36 ALA A 361 GLU A 363 SAM A 803 EDO A 819 SITE 7 AC2 36 HOH A 912 HOH A 974 HOH A1008 HOH A1017 SITE 8 AC2 36 HOH A1053 HOH A1065 HOH A1084 HOH A1101 SITE 9 AC2 36 HOH A1146 HOH A1178 HOH A1269 HOH A1306 SITE 1 AC3 27 PHE A 320 GLU A 363 ALA A 397 ALA A 398 SITE 2 AC3 27 ARG A 399 PHE A 432 GLY A 434 GLU A 436 SITE 3 AC3 27 LYS A 448 GLY A 472 PHE A 473 ILE A 474 SITE 4 AC3 27 SER A 543 MET A 544 GLU A 545 SF4 A 801 SITE 5 AC3 27 B12 A 802 HOH A 906 HOH A 912 HOH A 924 SITE 6 AC3 27 HOH A 952 HOH A 986 HOH A1033 HOH A1082 SITE 7 AC3 27 HOH A1101 HOH A1241 HOH A1379 SITE 1 AC4 12 TRP A 88 HIS A 89 SER A 107 CYS A 108 SITE 2 AC4 12 ASP A 314 ARG A 317 GLU A 368 LEU A 369 SITE 3 AC4 12 PRO A 370 EDO A 806 HOH A 905 HOH A1035 SITE 1 AC5 3 LEU A 14 LYS A 18 PRO A 75 SITE 1 AC6 2 TRP A 92 MES A 804 SITE 1 AC7 4 THR A 280 LEU A 327 ARG A 328 SER A 329 SITE 1 AC8 5 TYR A 627 MET A 630 ARG A 634 HOH A 963 SITE 2 AC8 5 HOH A1048 SITE 1 AC9 4 ARG A 430 LEU A 469 ARG A 470 HOH A1012 SITE 1 AD1 4 ASN A 468 LEU A 469 HOH A 994 HOH A1003 SITE 1 AD2 4 GLU A 285 SER A 334 GLN A 337 HOH A1051 SITE 1 AD3 8 SER A 538 TYR A 539 MET A 540 ARG A 634 SITE 2 AD3 8 HOH A 930 HOH A 943 HOH A1107 HOH A1120 SITE 1 AD4 1 HIS A 351 SITE 1 AD5 6 LEU A 493 TYR A 534 MET A 540 LEU A 541 SITE 2 AD5 6 HIS A 638 HOH A 981 SITE 1 AD6 4 GLU A 116 LYS A 625 SER A 628 HOH A 971 SITE 1 AD7 5 ARG A 135 TYR A 359 HOH A 907 HOH A1089 SITE 2 AD7 5 HOH A1100 SITE 1 AD8 2 LYS A 393 ALA A 424 SITE 1 AD9 4 HIS A 114 LYS A 253 GLU A 255 HOH A1169 SITE 1 AE1 2 TYR A 539 B12 A 802 CRYST1 89.360 99.600 121.440 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 0.011191 0.000000 0.000000 0.00000 SCALE2 0.000000 0.010040 0.000000 0.00000 SCALE3 0.000000 0.000000 0.008235 0.00000 MASTER 467 0 19 33 20 0 40 6 0 0 0 58 END