HEADER LYASE 25-JUL-10 3O3O TITLE (R)-2-HYDROXYISOCAPROYL-COA DEHYDRATASE IN COMPLEX WITH (R)-2- TITLE 2 HYDROXYISOCAPROATE COMPND MOL_ID: 1; COMPND 2 MOLECULE: ALPHA-SUBUNIT 2-HYDROXYISOCAPROYL-COA DEHYDRATASE; COMPND 3 CHAIN: A; COMPND 4 ENGINEERED: YES; COMPND 5 MOL_ID: 2; COMPND 6 MOLECULE: BETA-SUBUNIT 2-HYDROXYACYL-COA DEHYDRATASE; COMPND 7 CHAIN: B; COMPND 8 ENGINEERED: YES SOURCE MOL_ID: 1; SOURCE 2 ORGANISM_SCIENTIFIC: CLOSTRIDIUM DIFFICILE; SOURCE 3 ORGANISM_TAXID: 1496; SOURCE 4 GENE: HADB; SOURCE 5 EXPRESSION_SYSTEM: ESCHERICHIA COLI; SOURCE 6 EXPRESSION_SYSTEM_TAXID: 469008; SOURCE 7 EXPRESSION_SYSTEM_STRAIN: BL21 (DE3) CODOPLUS-RIL; SOURCE 8 EXPRESSION_SYSTEM_VECTOR_TYPE: PASK; SOURCE 9 EXPRESSION_SYSTEM_PLASMID: PASK-IBA 3; SOURCE 10 MOL_ID: 2; SOURCE 11 ORGANISM_SCIENTIFIC: CLOSTRIDIUM DIFFICILE; SOURCE 12 ORGANISM_TAXID: 1496; SOURCE 13 GENE: HADC; SOURCE 14 EXPRESSION_SYSTEM: ESCHERICHIA COLI; SOURCE 15 EXPRESSION_SYSTEM_TAXID: 469008; SOURCE 16 EXPRESSION_SYSTEM_STRAIN: BL21 (DE3) CODONPLUS-RIL; SOURCE 17 EXPRESSION_SYSTEM_VECTOR_TYPE: PASK; SOURCE 18 EXPRESSION_SYSTEM_PLASMID: PASK-IBA 3 KEYWDS ATYPICAL DEHYDRATASE, LYASE EXPDTA X-RAY DIFFRACTION AUTHOR S.H.KNAUER,W.BUCKEL,H.DOBBEK REVDAT 3 06-SEP-23 3O3O 1 REMARK SEQADV LINK REVDAT 2 06-APR-11 3O3O 1 JRNL REVDAT 1 16-MAR-11 3O3O 0 JRNL AUTH S.H.KNAUER,W.BUCKEL,H.DOBBEK JRNL TITL STRUCTURAL BASIS FOR REDUCTIVE RADICAL FORMATION AND JRNL TITL 2 ELECTRON RECYCLING IN (R)-2-HYDROXYISOCAPROYL-COA JRNL TITL 3 DEHYDRATASE. JRNL REF J.AM.CHEM.SOC. V. 133 4342 2011 JRNL REFN ISSN 0002-7863 JRNL PMID 21366233 JRNL DOI 10.1021/JA1076537 REMARK 2 REMARK 2 RESOLUTION. 2.00 ANGSTROMS. REMARK 3 REMARK 3 REFINEMENT. REMARK 3 PROGRAM : PHENIX (PHENIX.REFINE: 1.5_2) 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) : 2.00 REMARK 3 RESOLUTION RANGE LOW (ANGSTROMS) : 29.07 REMARK 3 MIN(FOBS/SIGMA_FOBS) : 1.990 REMARK 3 COMPLETENESS FOR RANGE (%) : 96.1 REMARK 3 NUMBER OF REFLECTIONS : 55133 REMARK 3 REMARK 3 FIT TO DATA USED IN REFINEMENT. REMARK 3 R VALUE (WORKING + TEST SET) : 0.206 REMARK 3 R VALUE (WORKING SET) : 0.204 REMARK 3 FREE R VALUE : 0.257 REMARK 3 FREE R VALUE TEST SET SIZE (%) : 5.000 REMARK 3 FREE R VALUE TEST SET COUNT : 2758 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 29.0749 - 4.3047 0.96 5511 291 0.1876 0.2133 REMARK 3 2 4.3047 - 3.4185 0.96 5306 279 0.1734 0.2095 REMARK 3 3 3.4185 - 2.9869 0.97 5319 280 0.2045 0.2598 REMARK 3 4 2.9869 - 2.7140 0.97 5296 279 0.2062 0.2646 REMARK 3 5 2.7140 - 2.5196 0.98 5289 278 0.1911 0.2755 REMARK 3 6 2.5196 - 2.3711 0.98 5306 279 0.1980 0.2745 REMARK 3 7 2.3711 - 2.2524 0.98 5246 276 0.2316 0.3131 REMARK 3 8 2.2524 - 2.1544 0.98 5335 281 0.2246 0.2892 REMARK 3 9 2.1544 - 2.0715 0.95 5092 268 0.2549 0.3204 REMARK 3 10 2.0715 - 2.0000 0.87 4675 247 0.2428 0.3173 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 : 0.33 REMARK 3 B_SOL : 82.24 REMARK 3 REMARK 3 ERROR ESTIMATES. REMARK 3 COORDINATE ERROR (MAXIMUM-LIKELIHOOD BASED) : 0.280 REMARK 3 PHASE ERROR (DEGREES, MAXIMUM-LIKELIHOOD BASED) : 26.290 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) : 10.88870 REMARK 3 B22 (A**2) : -8.82650 REMARK 3 B33 (A**2) : -2.06220 REMARK 3 B12 (A**2) : 0.00000 REMARK 3 B13 (A**2) : 0.00000 REMARK 3 B23 (A**2) : 0.00000 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 : 0.010 6309 REMARK 3 ANGLE : 1.347 8605 REMARK 3 CHIRALITY : 0.076 931 REMARK 3 PLANARITY : 0.004 1097 REMARK 3 DIHEDRAL : 13.436 2426 REMARK 3 REMARK 3 TLS DETAILS REMARK 3 NUMBER OF TLS GROUPS : 2 REMARK 3 TLS GROUP : 1 REMARK 3 SELECTION: CHAIN A REMARK 3 ORIGIN FOR THE GROUP (A): -17.2416 -23.2723 23.4421 REMARK 3 T TENSOR REMARK 3 T11: 0.1199 T22: 0.0488 REMARK 3 T33: 0.0595 T12: 0.0163 REMARK 3 T13: 0.0107 T23: 0.0057 REMARK 3 L TENSOR REMARK 3 L11: 0.2610 L22: 0.3112 REMARK 3 L33: 0.6516 L12: -0.1738 REMARK 3 L13: -0.0537 L23: 0.0983 REMARK 3 S TENSOR REMARK 3 S11: -0.0328 S12: -0.0237 S13: -0.0358 REMARK 3 S21: 0.0294 S22: 0.0226 S23: -0.0207 REMARK 3 S31: 0.2106 S32: 0.0388 S33: -0.0000 REMARK 3 TLS GROUP : 2 REMARK 3 SELECTION: CHAIN B REMARK 3 ORIGIN FOR THE GROUP (A): -28.5575 6.8023 6.0718 REMARK 3 T TENSOR REMARK 3 T11: 0.0815 T22: 0.0832 REMARK 3 T33: 0.0877 T12: 0.0303 REMARK 3 T13: 0.0083 T23: 0.0137 REMARK 3 L TENSOR REMARK 3 L11: 0.1240 L22: 0.4048 REMARK 3 L33: 0.5593 L12: -0.0226 REMARK 3 L13: -0.0701 L23: 0.0997 REMARK 3 S TENSOR REMARK 3 S11: 0.0155 S12: 0.0043 S13: 0.0567 REMARK 3 S21: -0.0681 S22: -0.0036 S23: 0.0212 REMARK 3 S31: -0.1812 S32: -0.0794 S33: 0.0000 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 3O3O COMPLIES WITH FORMAT V. 3.30, 13-JUL-11 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY RCSB ON 30-JUL-10. REMARK 100 THE DEPOSITION ID IS D_1000060624. REMARK 200 REMARK 200 EXPERIMENTAL DETAILS REMARK 200 EXPERIMENT TYPE : X-RAY DIFFRACTION REMARK 200 DATE OF DATA COLLECTION : 24-JUL-08 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 : BESSY REMARK 200 BEAMLINE : 14.2 REMARK 200 X-RAY GENERATOR MODEL : NULL REMARK 200 MONOCHROMATIC OR LAUE (M/L) : M REMARK 200 WAVELENGTH OR RANGE (A) : 0.91841 REMARK 200 MONOCHROMATOR : DOUBLE CRYSTAL REMARK 200 OPTICS : DOUBLE CRYSTAL MONOCHROMATOR REMARK 200 WITH 2 SETS OF MIRRORS REMARK 200 REMARK 200 DETECTOR TYPE : CCD REMARK 200 DETECTOR MANUFACTURER : RAYONIX MX-225 REMARK 200 INTENSITY-INTEGRATION SOFTWARE : XDS REMARK 200 DATA SCALING SOFTWARE : XDS REMARK 200 REMARK 200 NUMBER OF UNIQUE REFLECTIONS : 55143 REMARK 200 RESOLUTION RANGE HIGH (A) : 1.994 REMARK 200 RESOLUTION RANGE LOW (A) : 30.000 REMARK 200 REJECTION CRITERIA (SIGMA(I)) : -3.000 REMARK 200 REMARK 200 OVERALL. REMARK 200 COMPLETENESS FOR RANGE (%) : 96.0 REMARK 200 DATA REDUNDANCY : 3.600 REMARK 200 R MERGE (I) : NULL REMARK 200 R SYM (I) : 0.09000 REMARK 200 FOR THE DATA SET : 9.2500 REMARK 200 REMARK 200 IN THE HIGHEST RESOLUTION SHELL. REMARK 200 HIGHEST RESOLUTION SHELL, RANGE HIGH (A) : 1.99 REMARK 200 HIGHEST RESOLUTION SHELL, RANGE LOW (A) : 2.10 REMARK 200 COMPLETENESS FOR SHELL (%) : 88.9 REMARK 200 DATA REDUNDANCY IN SHELL : 2.40 REMARK 200 R MERGE FOR SHELL (I) : NULL REMARK 200 R SYM FOR SHELL (I) : 0.27700 REMARK 200 FOR SHELL : 3.040 REMARK 200 REMARK 200 DIFFRACTION PROTOCOL: SINGLE WAVELENGTH REMARK 200 METHOD USED TO DETERMINE THE STRUCTURE: MOLECULAR REPLACEMENT REMARK 200 SOFTWARE USED: PHASER REMARK 200 STARTING MODEL: PDB ENTRY 3O3M REMARK 200 REMARK 200 REMARK: NULL REMARK 280 REMARK 280 CRYSTAL REMARK 280 SOLVENT CONTENT, VS (%): 46.85 REMARK 280 MATTHEWS COEFFICIENT, VM (ANGSTROMS**3/DA): 2.31 REMARK 280 REMARK 280 CRYSTALLIZATION CONDITIONS: THE DEHYDRATASE WAS COCRYSTALLIZED BY REMARK 280 INCUBATION WITH 5 MM (R)-2-HYDROXYISOCAPROATE 10 MINUTES PRIOR REMARK 280 TO CRYSTALLIZATION. RESERVOIR SOLUTION: 23 % PEG 3350, 0.1M BIS- REMARK 280 TRIS, PH 6.5, VAPOR DIFFUSION, HANGING DROP, TEMPERATURE 290K 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 32.65450 REMARK 290 SMTRY2 2 0.000000 -1.000000 0.000000 0.00000 REMARK 290 SMTRY3 2 0.000000 0.000000 1.000000 74.75400 REMARK 290 SMTRY1 3 -1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY2 3 0.000000 1.000000 0.000000 42.79200 REMARK 290 SMTRY3 3 0.000000 0.000000 -1.000000 74.75400 REMARK 290 SMTRY1 4 1.000000 0.000000 0.000000 32.65450 REMARK 290 SMTRY2 4 0.000000 -1.000000 0.000000 42.79200 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: 5300 ANGSTROM**2 REMARK 350 SURFACE AREA OF THE COMPLEX: 30450 ANGSTROM**2 REMARK 350 CHANGE IN SOLVENT FREE ENERGY: -72.0 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 1 REMARK 465 SER A 2 REMARK 465 GLU A 3 REMARK 465 LYS A 4 REMARK 465 LYS A 5 REMARK 465 ARG A 405 REMARK 465 GLY A 406 REMARK 465 GLU A 407 REMARK 465 ILE A 408 REMARK 465 SER B 376 REMARK 465 ALA B 377 REMARK 465 TRP B 378 REMARK 465 SER B 379 REMARK 465 HIS B 380 REMARK 465 PRO B 381 REMARK 465 GLN B 382 REMARK 465 PHE B 383 REMARK 465 GLU B 384 REMARK 465 LYS B 385 REMARK 480 REMARK 480 ZERO OCCUPANCY ATOM REMARK 480 THE FOLLOWING RESIDUES HAVE ATOMS MODELED WITH ZERO REMARK 480 OCCUPANCY. THE LOCATION AND PROPERTIES OF THESE ATOMS REMARK 480 MAY NOT BE RELIABLE. (M=MODEL NUMBER; RES=RESIDUE NAME; REMARK 480 C=CHAIN IDENTIFIER; SSEQ=SEQUENCE NUMBER; I=INSERTION CODE): REMARK 480 M RES C SSEQI ATOMS REMARK 480 LYS A 246 CD CE NZ REMARK 480 GLU B 10 CD OE1 OE2 REMARK 480 GLU B 59 CD OE1 OE2 REMARK 480 LYS B 242 CE NZ 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 GLU A 28 -150.88 -73.55 REMARK 500 PRO A 40 74.33 -65.98 REMARK 500 LEU A 102 90.36 -165.09 REMARK 500 ASN A 114 34.62 -94.35 REMARK 500 LEU A 296 75.10 39.01 REMARK 500 ASN A 301 7.95 80.59 REMARK 500 PRO B 35 161.98 -44.29 REMARK 500 VAL B 36 -104.02 57.05 REMARK 500 ASP B 61 -73.63 -149.00 REMARK 500 ALA B 239 73.04 -153.10 REMARK 500 GLU B 263 -106.89 -113.47 REMARK 500 ASP B 296 98.09 -162.09 REMARK 500 LYS B 299 70.51 43.92 REMARK 500 THR B 355 -107.62 -22.19 REMARK 500 GLN B 356 -49.20 121.87 REMARK 500 ASN B 358 30.01 -143.24 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 409 FE2 REMARK 620 N RES CSSEQI ATOM REMARK 620 1 CYS A 84 SG REMARK 620 2 SF4 A 409 S1 116.0 REMARK 620 3 SF4 A 409 S3 115.8 104.5 REMARK 620 4 SF4 A 409 S4 110.1 106.4 102.8 REMARK 620 N 1 2 3 REMARK 620 REMARK 620 COORDINATION ANGLES FOR: M RES CSSEQI METAL REMARK 620 SF4 A 409 FE4 REMARK 620 N RES CSSEQI ATOM REMARK 620 1 CYS A 117 SG REMARK 620 2 SF4 A 409 S1 114.4 REMARK 620 3 SF4 A 409 S2 110.9 104.8 REMARK 620 4 SF4 A 409 S3 115.2 104.3 106.3 REMARK 620 N 1 2 3 REMARK 620 REMARK 620 COORDINATION ANGLES FOR: M RES CSSEQI METAL REMARK 620 SF4 A 409 FE1 REMARK 620 N RES CSSEQI ATOM REMARK 620 1 CYS A 346 SG REMARK 620 2 SF4 A 409 S2 108.1 REMARK 620 3 SF4 A 409 S3 117.6 106.3 REMARK 620 4 SF4 A 409 S4 116.8 105.3 101.8 REMARK 620 N 1 2 3 REMARK 620 REMARK 620 COORDINATION ANGLES FOR: M RES CSSEQI METAL REMARK 620 SF4 A 409 FE3 REMARK 620 N RES CSSEQI ATOM REMARK 620 1 2RH A 410 O1 REMARK 620 2 SF4 A 409 S1 121.6 REMARK 620 3 SF4 A 409 S2 110.2 104.1 REMARK 620 4 SF4 A 409 S4 107.7 106.4 105.8 REMARK 620 N 1 2 3 REMARK 620 REMARK 620 COORDINATION ANGLES FOR: M RES CSSEQI METAL REMARK 620 SF4 B 386 FE3 REMARK 620 N RES CSSEQI ATOM REMARK 620 1 CYS B 72 SG REMARK 620 2 SF4 B 386 S1 105.4 REMARK 620 3 SF4 B 386 S2 114.7 106.7 REMARK 620 4 SF4 B 386 S4 113.5 107.5 108.7 REMARK 620 N 1 2 3 REMARK 620 REMARK 620 COORDINATION ANGLES FOR: M RES CSSEQI METAL REMARK 620 SF4 B 386 FE4 REMARK 620 N RES CSSEQI ATOM REMARK 620 1 CYS B 99 SG REMARK 620 2 SF4 B 386 S1 116.6 REMARK 620 3 SF4 B 386 S2 94.8 106.8 REMARK 620 4 SF4 B 386 S3 120.8 108.0 107.9 REMARK 620 N 1 2 3 REMARK 620 REMARK 620 COORDINATION ANGLES FOR: M RES CSSEQI METAL REMARK 620 SF4 B 386 FE2 REMARK 620 N RES CSSEQI ATOM REMARK 620 1 CYS B 325 SG REMARK 620 2 SF4 B 386 S1 121.7 REMARK 620 3 SF4 B 386 S3 112.6 109.4 REMARK 620 4 SF4 B 386 S4 103.9 108.6 97.5 REMARK 620 N 1 2 3 REMARK 620 REMARK 620 COORDINATION ANGLES FOR: M RES CSSEQI METAL REMARK 620 SF4 B 386 FE1 REMARK 620 N RES CSSEQI ATOM REMARK 620 1 H2S B 387 S REMARK 620 2 SF4 B 386 S2 114.0 REMARK 620 3 SF4 B 386 S3 118.0 108.1 REMARK 620 4 SF4 B 386 S4 108.2 110.5 96.6 REMARK 620 N 1 2 3 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 409 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC2 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE 2RH A 410 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC3 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE SF4 B 386 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC4 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE H2S B 387 REMARK 900 REMARK 900 RELATED ENTRIES REMARK 900 RELATED ID: 3O3M RELATED DB: PDB REMARK 900 (R)-2-HYDROXYISOCAPROYL-COA DEHYDRATASE REMARK 900 RELATED ID: 3O3N RELATED DB: PDB REMARK 900 (R)-2-HYDROXYISOCAPROYL-COA DEHYDRATASE IN COMPLEX WITH ITS REMARK 900 SUBSTRATE (R)-2-HYDROXYISOCAPROYL-COA DBREF 3O3O A 1 408 UNP Q5U924 Q5U924_CLODI 1 408 DBREF 3O3O B 1 375 UNP Q5U923 Q5U923_CLODI 1 375 SEQADV 3O3O SER B 376 UNP Q5U923 EXPRESSION TAG SEQADV 3O3O ALA B 377 UNP Q5U923 EXPRESSION TAG SEQADV 3O3O TRP B 378 UNP Q5U923 EXPRESSION TAG SEQADV 3O3O SER B 379 UNP Q5U923 EXPRESSION TAG SEQADV 3O3O HIS B 380 UNP Q5U923 EXPRESSION TAG SEQADV 3O3O PRO B 381 UNP Q5U923 EXPRESSION TAG SEQADV 3O3O GLN B 382 UNP Q5U923 EXPRESSION TAG SEQADV 3O3O PHE B 383 UNP Q5U923 EXPRESSION TAG SEQADV 3O3O GLU B 384 UNP Q5U923 EXPRESSION TAG SEQADV 3O3O LYS B 385 UNP Q5U923 EXPRESSION TAG SEQRES 1 A 408 MET SER GLU LYS LYS GLU ALA ARG VAL VAL ILE ASN ASP SEQRES 2 A 408 LEU LEU ALA GLU GLN TYR ALA ASN ALA PHE LYS ALA LYS SEQRES 3 A 408 GLU GLU GLY ARG PRO VAL GLY TRP SER THR SER VAL PHE SEQRES 4 A 408 PRO GLN GLU LEU ALA GLU VAL PHE ASP LEU ASN VAL LEU SEQRES 5 A 408 TYR PRO GLU ASN GLN ALA ALA GLY VAL ALA ALA LYS LYS SEQRES 6 A 408 GLY SER LEU GLU LEU CYS GLU ILE ALA GLU SER LYS GLY SEQRES 7 A 408 TYR SER ILE ASP LEU CYS ALA TYR ALA ARG THR ASN PHE SEQRES 8 A 408 GLY LEU LEU GLU ASN GLY GLY CYS GLU ALA LEU ASP MET SEQRES 9 A 408 PRO ALA PRO ASP PHE LEU LEU CYS CYS ASN ASN ILE CYS SEQRES 10 A 408 ASN GLN VAL ILE LYS TRP TYR GLU ASN ILE SER ARG GLU SEQRES 11 A 408 LEU ASP ILE PRO LEU ILE MET ILE ASP THR THR PHE ASN SEQRES 12 A 408 ASN GLU ASP GLU VAL THR GLN SER ARG ILE ASP TYR ILE SEQRES 13 A 408 LYS ALA GLN PHE GLU GLU ALA ILE LYS GLN LEU GLU ILE SEQRES 14 A 408 ILE SER GLY LYS LYS PHE ASP PRO LYS LYS PHE GLU GLU SEQRES 15 A 408 VAL MET LYS ILE SER ALA GLU ASN GLY ARG LEU TRP LYS SEQRES 16 A 408 TYR SER MET SER LEU PRO ALA ASP SER SER PRO SER PRO SEQRES 17 A 408 MET ASN GLY PHE ASP LEU PHE THR TYR MET ALA VAL ILE SEQRES 18 A 408 VAL CYS ALA ARG GLY LYS LYS GLU THR THR GLU ALA PHE SEQRES 19 A 408 LYS LEU LEU ILE GLU GLU LEU GLU ASP ASN MET LYS THR SEQRES 20 A 408 GLY LYS SER SER PHE ARG GLY GLU GLU LYS TYR ARG ILE SEQRES 21 A 408 MET MET GLU GLY ILE PRO CYS TRP PRO TYR ILE GLY TYR SEQRES 22 A 408 LYS MET LYS THR LEU ALA LYS PHE GLY VAL ASN MET THR SEQRES 23 A 408 GLY SER VAL TYR PRO HIS ALA TRP ALA LEU GLN TYR GLU SEQRES 24 A 408 VAL ASN ASP LEU ASP GLY MET ALA VAL ALA TYR SER THR SEQRES 25 A 408 MET PHE ASN ASN VAL ASN LEU ASP ARG MET THR LYS TYR SEQRES 26 A 408 ARG VAL ASP SER LEU VAL GLU GLY LYS CYS ASP GLY ALA SEQRES 27 A 408 PHE TYR HIS MET ASN ARG SER CYS LYS LEU MET SER LEU SEQRES 28 A 408 ILE GLN TYR GLU MET GLN ARG ARG ALA ALA GLU GLU THR SEQRES 29 A 408 GLY LEU PRO TYR ALA GLY PHE ASP GLY ASP GLN ALA ASP SEQRES 30 A 408 PRO ARG ALA PHE THR ASN ALA GLN PHE GLU THR ARG ILE SEQRES 31 A 408 GLN GLY LEU VAL GLU VAL MET GLU GLU ARG LYS LYS LEU SEQRES 32 A 408 ASN ARG GLY GLU ILE SEQRES 1 B 385 MET GLU ALA ILE LEU SER LYS MET LYS GLU VAL VAL GLU SEQRES 2 B 385 ASN PRO ASN ALA ALA VAL LYS LYS TYR LYS SER GLU THR SEQRES 3 B 385 GLY LYS LYS ALA ILE GLY CYS PHE PRO VAL TYR CYS PRO SEQRES 4 B 385 GLU GLU ILE ILE HIS ALA ALA GLY MET LEU PRO VAL GLY SEQRES 5 B 385 ILE TRP GLY GLY GLN THR GLU LEU ASP LEU ALA LYS GLN SEQRES 6 B 385 TYR PHE PRO ALA PHE ALA CYS SER ILE MET GLN SER CYS SEQRES 7 B 385 LEU GLU TYR GLY LEU LYS GLY ALA TYR ASP GLU LEU SER SEQRES 8 B 385 GLY VAL ILE ILE PRO GLY MET CYS ASP THR LEU ILE CYS SEQRES 9 B 385 LEU GLY GLN ASN TRP LYS SER ALA VAL PRO HIS ILE LYS SEQRES 10 B 385 TYR ILE SER LEU VAL HIS PRO GLN ASN ARG LYS LEU GLU SEQRES 11 B 385 ALA GLY VAL LYS TYR LEU ILE SER GLU TYR LYS GLY VAL SEQRES 12 B 385 LYS ARG GLU LEU GLU GLU ILE CYS GLY TYR GLU ILE GLU SEQRES 13 B 385 GLU ALA LYS ILE HIS GLU SER ILE GLU VAL TYR ASN GLU SEQRES 14 B 385 HIS ARG LYS THR MET ARG ASP PHE VAL GLU VAL ALA TYR SEQRES 15 B 385 LYS HIS SER ASN THR ILE LYS PRO SER ILE ARG SER LEU SEQRES 16 B 385 VAL ILE LYS SER GLY PHE PHE MET ARG LYS GLU GLU HIS SEQRES 17 B 385 THR GLU LEU VAL LYS ASP LEU ILE ALA LYS LEU ASN ALA SEQRES 18 B 385 MET PRO GLU GLU VAL CYS SER GLY LYS LYS VAL LEU LEU SEQRES 19 B 385 THR GLY ILE LEU ALA ASP SER LYS ASP ILE LEU ASP ILE SEQRES 20 B 385 LEU GLU ASP ASN ASN ILE SER VAL VAL ALA ASP ASP LEU SEQRES 21 B 385 ALA GLN GLU THR ARG GLN PHE ARG THR ASP VAL PRO ALA SEQRES 22 B 385 GLY ASP ASP ALA LEU GLU ARG LEU ALA ARG GLN TRP SER SEQRES 23 B 385 ASN ILE GLU GLY CYS SER LEU ALA TYR ASP PRO LYS LYS SEQRES 24 B 385 LYS ARG GLY SER LEU ILE VAL ASP GLU VAL LYS LYS LYS SEQRES 25 B 385 ASP ILE ASP GLY VAL ILE PHE CYS MET MET LYS PHE CYS SEQRES 26 B 385 ASP PRO GLU GLU TYR ASP TYR PRO LEU VAL ARG LYS ASP SEQRES 27 B 385 ILE GLU ASP SER GLY ILE PRO THR LEU TYR VAL GLU ILE SEQRES 28 B 385 ASP GLN GLN THR GLN ASN ASN GLU GLN ALA ARG THR ARG SEQRES 29 B 385 ILE GLN THR PHE ALA GLU MET MET SER LEU ALA SER ALA SEQRES 30 B 385 TRP SER HIS PRO GLN PHE GLU LYS HET SF4 A 409 8 HET 2RH A 410 9 HET SF4 B 386 8 HET H2S B 387 1 HETNAM SF4 IRON/SULFUR CLUSTER HETNAM 2RH (2R)-2-HYDROXY-4-METHYLPENTANOIC ACID HETNAM H2S HYDROSULFURIC ACID HETSYN 2RH (R)-2-HYDROXYISOCAPROATE HETSYN H2S HYDROGEN SULFIDE FORMUL 3 SF4 2(FE4 S4) FORMUL 4 2RH C6 H12 O3 FORMUL 6 H2S H2 S FORMUL 7 HOH *766(H2 O) HELIX 1 1 GLU A 6 GLU A 28 1 23 HELIX 2 2 GLN A 41 VAL A 46 1 6 HELIX 3 3 TYR A 53 LYS A 64 1 12 HELIX 4 4 GLY A 66 LYS A 77 1 12 HELIX 5 5 CYS A 84 GLY A 97 1 14 HELIX 6 6 ASN A 118 ASP A 132 1 15 HELIX 7 7 THR A 149 GLY A 172 1 24 HELIX 8 8 ASP A 176 MET A 198 1 23 HELIX 9 9 SER A 199 SER A 204 5 6 HELIX 10 10 ASN A 210 PHE A 212 5 3 HELIX 11 11 ASP A 213 ALA A 224 1 12 HELIX 12 12 LYS A 227 GLY A 248 1 22 HELIX 13 13 CYS A 267 PRO A 269 5 3 HELIX 14 14 TYR A 270 GLY A 282 1 13 HELIX 15 15 VAL A 289 ALA A 293 5 5 HELIX 16 16 ASP A 302 THR A 312 1 11 HELIX 17 17 MET A 313 VAL A 317 5 5 HELIX 18 18 ASN A 318 GLY A 333 1 16 HELIX 19 19 CYS A 346 LEU A 351 1 6 HELIX 20 20 ILE A 352 GLY A 365 1 14 HELIX 21 21 ASP A 377 PHE A 381 5 5 HELIX 22 22 THR A 382 LYS A 402 1 21 HELIX 23 23 MET B 1 ASN B 14 1 14 HELIX 24 24 ASN B 14 GLY B 27 1 14 HELIX 25 25 PRO B 39 ALA B 46 1 8 HELIX 26 26 ASP B 61 TYR B 66 5 6 HELIX 27 27 CYS B 72 GLY B 85 1 14 HELIX 28 28 CYS B 99 VAL B 113 1 15 HELIX 29 29 LEU B 129 GLY B 152 1 24 HELIX 30 30 GLU B 156 HIS B 184 1 29 HELIX 31 31 LYS B 189 SER B 199 1 11 HELIX 32 32 GLY B 200 PHE B 202 5 3 HELIX 33 33 ARG B 204 ALA B 221 1 18 HELIX 34 34 SER B 241 ASN B 251 1 11 HELIX 35 35 GLU B 263 ARG B 268 1 6 HELIX 36 36 ASP B 276 ILE B 288 1 13 HELIX 37 37 LYS B 300 LYS B 312 1 13 HELIX 38 38 CYS B 325 SER B 342 1 18 HELIX 39 39 ASN B 358 ALA B 375 1 18 SHEET 1 A 4 ASN A 50 LEU A 52 0 SHEET 2 A 4 VAL A 32 SER A 35 1 N GLY A 33 O LEU A 52 SHEET 3 A 4 PHE A 109 CYS A 113 1 O LEU A 111 N TRP A 34 SHEET 4 A 4 LEU A 135 ILE A 138 1 O ILE A 136 N CYS A 112 SHEET 1 B 4 VAL A 283 GLY A 287 0 SHEET 2 B 4 TYR A 258 GLU A 263 1 N TYR A 258 O ASN A 284 SHEET 3 B 4 GLY A 337 ASN A 343 1 O PHE A 339 N MET A 261 SHEET 4 B 4 TYR A 368 GLY A 373 1 O PHE A 371 N MET A 342 SHEET 1 C 4 LEU B 49 GLY B 52 0 SHEET 2 C 4 ALA B 30 CYS B 33 1 N CYS B 33 O VAL B 51 SHEET 3 C 4 VAL B 93 PRO B 96 1 O ILE B 94 N GLY B 32 SHEET 4 C 4 TYR B 118 LEU B 121 1 O ILE B 119 N VAL B 93 SHEET 1 D 4 ILE B 253 LEU B 260 0 SHEET 2 D 4 LYS B 230 GLY B 236 1 N LYS B 230 O SER B 254 SHEET 3 D 4 GLY B 316 MET B 322 1 O CYS B 320 N THR B 235 SHEET 4 D 4 THR B 346 ILE B 351 1 O LEU B 347 N PHE B 319 LINK SG CYS A 84 FE2 SF4 A 409 1555 1555 2.51 LINK SG CYS A 117 FE4 SF4 A 409 1555 1555 2.36 LINK SG CYS A 346 FE1 SF4 A 409 1555 1555 2.60 LINK FE3 SF4 A 409 O1 2RH A 410 1555 1555 2.51 LINK SG CYS B 72 FE3 SF4 B 386 1555 1555 2.45 LINK SG CYS B 99 FE4 SF4 B 386 1555 1555 2.55 LINK SG CYS B 325 FE2 SF4 B 386 1555 1555 2.49 LINK FE1 SF4 B 386 S H2S B 387 1555 1555 2.28 CISPEP 1 SER A 205 PRO A 206 0 1.61 SITE 1 AC1 5 CYS A 84 ILE A 116 CYS A 117 CYS A 346 SITE 2 AC1 5 2RH A 410 SITE 1 AC2 7 GLU A 55 TYR A 86 ILE A 265 TRP A 294 SITE 2 AC2 7 MET A 313 ASN A 315 SF4 A 409 SITE 1 AC3 5 CYS B 72 CYS B 99 LEU B 102 CYS B 325 SITE 2 AC3 5 H2S B 387 SITE 1 AC4 2 PRO B 35 SF4 B 386 CRYST1 65.309 85.584 149.508 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 0.015312 0.000000 0.000000 0.00000 SCALE2 0.000000 0.011684 0.000000 0.00000 SCALE3 0.000000 0.000000 0.006709 0.00000