HEADER ELECTRON TRANSPORT 04-APR-12 4EHT TITLE ACTIVATOR OF THE 2-HYDROXYISOCAPROYL-COA DEHYDRATASE FROM CLOSTRIDIUM TITLE 2 DIFFICILE WITH BOUND ADP COMPND MOL_ID: 1; COMPND 2 MOLECULE: ACTIVATOR OF 2-HYDROXYISOCAPROYL-COA DEHYDRATASE; COMPND 3 CHAIN: A, B; COMPND 4 ENGINEERED: YES SOURCE MOL_ID: 1; SOURCE 2 ORGANISM_SCIENTIFIC: CLOSTRIDIUM DIFFICILE; SOURCE 3 ORGANISM_TAXID: 1496; SOURCE 4 GENE: HADI; SOURCE 5 EXPRESSION_SYSTEM: ESCHERICHIA COLI; SOURCE 6 EXPRESSION_SYSTEM_TAXID: 469008; SOURCE 7 EXPRESSION_SYSTEM_STRAIN: BL21(DE3) CODONPLUS-RIL; SOURCE 8 EXPRESSION_SYSTEM_VECTOR_TYPE: PLASMID KEYWDS ACTIN FOLD, ATPASE, ELECTRON TRANSFER, ATP/ADP BINDING, 2- KEYWDS 2 HYDROXYISOCAPROYL-COA DEHYDRATASE BINDING, ELECTRON TRANSPORT EXPDTA X-RAY DIFFRACTION AUTHOR S.H.KNAUER,H.DOBBEK REVDAT 3 13-SEP-23 4EHT 1 REMARK SEQADV LINK REVDAT 2 05-SEP-12 4EHT 1 JRNL REVDAT 1 08-AUG-12 4EHT 0 JRNL AUTH S.H.KNAUER,W.BUCKEL,H.DOBBEK JRNL TITL ON THE ATP-DEPENDENT ACTIVATION OF THE RADICAL ENZYME JRNL TITL 2 (R)-2-HYDROXYISOCAPROYL-COA DEHYDRATASE. JRNL REF BIOCHEMISTRY V. 51 6609 2012 JRNL REFN ISSN 0006-2960 JRNL PMID 22827463 JRNL DOI 10.1021/BI300571Z REMARK 2 REMARK 2 RESOLUTION. 1.95 ANGSTROMS. REMARK 3 REMARK 3 REFINEMENT. REMARK 3 PROGRAM : PHENIX (PHENIX.REFINE: 1.6.1_357) 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) : 1.95 REMARK 3 RESOLUTION RANGE LOW (ANGSTROMS) : 19.70 REMARK 3 MIN(FOBS/SIGMA_FOBS) : 1.990 REMARK 3 COMPLETENESS FOR RANGE (%) : 99.6 REMARK 3 NUMBER OF REFLECTIONS : 44923 REMARK 3 REMARK 3 FIT TO DATA USED IN REFINEMENT. REMARK 3 R VALUE (WORKING + TEST SET) : 0.177 REMARK 3 R VALUE (WORKING SET) : 0.176 REMARK 3 FREE R VALUE : 0.205 REMARK 3 FREE R VALUE TEST SET SIZE (%) : 4.780 REMARK 3 FREE R VALUE TEST SET COUNT : 2145 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 19.7007 - 4.1890 0.99 4312 218 0.1505 0.1695 REMARK 3 2 4.1890 - 3.3302 1.00 4288 215 0.1600 0.1688 REMARK 3 3 3.3302 - 2.9107 1.00 4304 215 0.1873 0.2297 REMARK 3 4 2.9107 - 2.6453 1.00 4259 210 0.1865 0.2211 REMARK 3 5 2.6453 - 2.4561 1.00 4285 210 0.1675 0.2335 REMARK 3 6 2.4561 - 2.3115 1.00 4324 214 0.1670 0.2091 REMARK 3 7 2.3115 - 2.1959 0.99 4236 203 0.1844 0.2406 REMARK 3 8 2.1959 - 2.1004 1.00 4262 217 0.1845 0.2063 REMARK 3 9 2.1004 - 2.0196 0.99 4233 221 0.2246 0.2556 REMARK 3 10 2.0196 - 1.9500 1.00 4258 222 0.2347 0.2879 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 : 0.41 REMARK 3 B_SOL : 62.27 REMARK 3 REMARK 3 ERROR ESTIMATES. REMARK 3 COORDINATE ERROR (MAXIMUM-LIKELIHOOD BASED) : 0.230 REMARK 3 PHASE ERROR (DEGREES, MAXIMUM-LIKELIHOOD BASED) : 22.910 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) : 4.32130 REMARK 3 B22 (A**2) : -4.77050 REMARK 3 B33 (A**2) : 0.44930 REMARK 3 B12 (A**2) : 0.00000 REMARK 3 B13 (A**2) : 11.01210 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 : 0.009 4094 REMARK 3 ANGLE : 1.362 5541 REMARK 3 CHIRALITY : 0.072 662 REMARK 3 PLANARITY : 0.004 707 REMARK 3 DIHEDRAL : 14.592 1528 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): 18.2457 61.0196 13.5993 REMARK 3 T TENSOR REMARK 3 T11: 0.1356 T22: 0.1193 REMARK 3 T33: 0.1479 T12: -0.0313 REMARK 3 T13: 0.0012 T23: -0.0416 REMARK 3 L TENSOR REMARK 3 L11: 0.7425 L22: 1.5942 REMARK 3 L33: 1.4026 L12: -0.1635 REMARK 3 L13: -0.3333 L23: -0.6947 REMARK 3 S TENSOR REMARK 3 S11: 0.0040 S12: 0.0881 S13: -0.1670 REMARK 3 S21: -0.1511 S22: -0.0141 S23: 0.1521 REMARK 3 S31: 0.1957 S32: -0.1694 S33: 0.0126 REMARK 3 TLS GROUP : 2 REMARK 3 SELECTION: CHAIN B REMARK 3 ORIGIN FOR THE GROUP (A): 7.1022 101.3478 21.1058 REMARK 3 T TENSOR REMARK 3 T11: 0.2641 T22: 0.1596 REMARK 3 T33: 0.3550 T12: 0.0547 REMARK 3 T13: -0.0513 T23: 0.0586 REMARK 3 L TENSOR REMARK 3 L11: 2.8601 L22: 0.4803 REMARK 3 L33: 1.4260 L12: 0.2272 REMARK 3 L13: 0.5717 L23: 0.5529 REMARK 3 S TENSOR REMARK 3 S11: -0.1811 S12: 0.2475 S13: 0.6660 REMARK 3 S21: -0.0798 S22: -0.0412 S23: 0.3235 REMARK 3 S31: -0.3892 S32: -0.0734 S33: 0.2080 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 4EHT COMPLIES WITH FORMAT V. 3.30, 13-JUL-11 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY RCSB ON 06-APR-12. REMARK 100 THE DEPOSITION ID IS D_1000071635. REMARK 200 REMARK 200 EXPERIMENTAL DETAILS REMARK 200 EXPERIMENT TYPE : X-RAY DIFFRACTION REMARK 200 DATE OF DATA COLLECTION : 26-AUG-08 REMARK 200 TEMPERATURE (KELVIN) : 100 REMARK 200 PH : 8.5 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 SI(111) REMARK 200 OPTICS : NULL 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 : 44923 REMARK 200 RESOLUTION RANGE HIGH (A) : 1.950 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 (%) : 99.4 REMARK 200 DATA REDUNDANCY : 3.800 REMARK 200 R MERGE (I) : NULL REMARK 200 R SYM (I) : 0.04800 REMARK 200 FOR THE DATA SET : NULL REMARK 200 REMARK 200 IN THE HIGHEST RESOLUTION SHELL. REMARK 200 HIGHEST RESOLUTION SHELL, RANGE HIGH (A) : 1.95 REMARK 200 HIGHEST RESOLUTION SHELL, RANGE LOW (A) : 2.00 REMARK 200 COMPLETENESS FOR SHELL (%) : 99.7 REMARK 200 DATA REDUNDANCY IN SHELL : 3.80 REMARK 200 R MERGE FOR SHELL (I) : NULL REMARK 200 R SYM FOR SHELL (I) : 0.50100 REMARK 200 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: PHASER REMARK 200 STARTING MODEL: PDB ENTRY 1HUX REMARK 200 REMARK 200 REMARK: NULL REMARK 280 REMARK 280 CRYSTAL REMARK 280 SOLVENT CONTENT, VS (%): 53.92 REMARK 280 MATTHEWS COEFFICIENT, VM (ANGSTROMS**3/DA): 2.67 REMARK 280 REMARK 280 CRYSTALLIZATION CONDITIONS: 25 MG/ML PROTEIN IN 50 MM MOPS, PH REMARK 280 7.2, 0.3 M SODIUM CHLORIDE, 1 MM ADP, 10 MM MAGNESIUM CHLORIDE, REMARK 280 2.5 MM D-DESTHIOBIOTIN, 2 MM DTT, 10 MM SODIUM DITHIONITE, REMARK 280 RESERVOIR: 4 M AMMONIUM ACETATE, 0.1 M TRIS/HCL, PH 8.5 (DROP: 2 REMARK 280 UL + 2 UL), VAPOR DIFFUSION, HANGING DROP, TEMPERATURE 289K REMARK 290 REMARK 290 CRYSTALLOGRAPHIC SYMMETRY REMARK 290 SYMMETRY OPERATORS FOR SPACE GROUP: C 1 2 1 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 33.07700 REMARK 290 SMTRY2 3 0.000000 1.000000 0.000000 80.50250 REMARK 290 SMTRY3 3 0.000000 0.000000 1.000000 0.00000 REMARK 290 SMTRY1 4 -1.000000 0.000000 0.000000 33.07700 REMARK 290 SMTRY2 4 0.000000 1.000000 0.000000 80.50250 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: 4290 ANGSTROM**2 REMARK 350 SURFACE AREA OF THE COMPLEX: 23040 ANGSTROM**2 REMARK 350 CHANGE IN SOLVENT FREE ENERGY: -90.0 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 375 REMARK 375 SPECIAL POSITION REMARK 375 THE FOLLOWING ATOMS ARE FOUND TO BE WITHIN 0.15 ANGSTROMS REMARK 375 OF A SYMMETRY RELATED ATOM AND ARE ASSUMED TO BE ON SPECIAL REMARK 375 POSITIONS. REMARK 375 REMARK 375 ATOM RES CSSEQI REMARK 375 HOH A 409 LIES ON A SPECIAL POSITION. REMARK 375 HOH A 417 LIES ON A SPECIAL POSITION. 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 TRP A 269 REMARK 465 SER A 270 REMARK 465 HIS A 271 REMARK 465 PRO A 272 REMARK 465 GLN A 273 REMARK 465 PHE A 274 REMARK 465 GLU A 275 REMARK 465 LYS A 276 REMARK 465 LYS B 261 REMARK 465 GLU B 262 REMARK 465 VAL B 263 REMARK 465 LYS B 264 REMARK 465 ASN B 265 REMARK 465 ILE B 266 REMARK 465 SER B 267 REMARK 465 ALA B 268 REMARK 465 TRP B 269 REMARK 465 SER B 270 REMARK 465 HIS B 271 REMARK 465 PRO B 272 REMARK 465 GLN B 273 REMARK 465 PHE B 274 REMARK 465 GLU B 275 REMARK 465 LYS B 276 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 OD1 ASN B 122 O HOH B 477 2.09 REMARK 500 OD1 ASN A 122 O HOH A 571 2.11 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 GLU A 22 -41.22 -138.26 REMARK 500 SER A 31 38.97 -76.57 REMARK 500 THR A 36 -163.43 -121.83 REMARK 500 TYR A 65 97.35 -66.59 REMARK 500 ASN A 69 -0.73 82.08 REMARK 500 GLU B 22 -14.00 -157.70 REMARK 500 ALA B 26 143.33 -170.64 REMARK 500 SER B 31 31.25 -77.65 REMARK 500 THR B 36 -161.29 -123.66 REMARK 500 GLU B 178 35.06 -99.70 REMARK 500 SER B 259 57.44 -95.00 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 301 FE2 REMARK 620 N RES CSSEQI ATOM REMARK 620 1 CYS A 125 SG REMARK 620 2 SF4 A 301 S1 108.8 REMARK 620 3 SF4 A 301 S3 111.9 104.9 REMARK 620 4 SF4 A 301 S4 132.4 96.6 98.9 REMARK 620 N 1 2 3 REMARK 620 REMARK 620 COORDINATION ANGLES FOR: M RES CSSEQI METAL REMARK 620 SF4 A 301 FE3 REMARK 620 N RES CSSEQI ATOM REMARK 620 1 CYS A 164 SG REMARK 620 2 SF4 A 301 S1 133.1 REMARK 620 3 SF4 A 301 S2 110.3 103.1 REMARK 620 4 SF4 A 301 S4 106.9 97.1 101.6 REMARK 620 N 1 2 3 REMARK 620 REMARK 620 COORDINATION ANGLES FOR: M RES CSSEQI METAL REMARK 620 SF4 A 301 FE1 REMARK 620 N RES CSSEQI ATOM REMARK 620 1 CYS B 125 SG REMARK 620 2 SF4 A 301 S2 109.8 REMARK 620 3 SF4 A 301 S3 131.1 98.1 REMARK 620 4 SF4 A 301 S4 113.9 100.8 98.5 REMARK 620 N 1 2 3 REMARK 620 REMARK 620 COORDINATION ANGLES FOR: M RES CSSEQI METAL REMARK 620 SF4 A 301 FE4 REMARK 620 N RES CSSEQI ATOM REMARK 620 1 CYS B 164 SG REMARK 620 2 SF4 A 301 S1 109.4 REMARK 620 3 SF4 A 301 S2 133.5 102.1 REMARK 620 4 SF4 A 301 S3 107.6 104.4 96.2 REMARK 620 N 1 2 3 REMARK 620 REMARK 620 COORDINATION ANGLES FOR: M RES CSSEQI METAL REMARK 620 MG A 303 MG REMARK 620 N RES CSSEQI ATOM REMARK 620 1 ADP A 302 O3B REMARK 620 2 HOH A 462 O 175.6 REMARK 620 3 HOH A 463 O 84.8 91.0 REMARK 620 4 HOH A 465 O 93.1 88.7 93.3 REMARK 620 5 HOH A 521 O 92.1 92.2 174.4 82.2 REMARK 620 6 HOH A 522 O 87.5 91.3 93.8 172.9 90.7 REMARK 620 N 1 2 3 4 5 REMARK 620 REMARK 620 COORDINATION ANGLES FOR: M RES CSSEQI METAL REMARK 620 MG B 302 MG REMARK 620 N RES CSSEQI ATOM REMARK 620 1 ADP B 301 O3B REMARK 620 2 HOH B 429 O 91.1 REMARK 620 3 HOH B 430 O 83.0 85.7 REMARK 620 4 HOH B 473 O 172.6 94.9 93.2 REMARK 620 5 HOH B 474 O 93.6 90.9 175.1 90.6 REMARK 620 6 HOH B 475 O 82.3 170.9 87.3 91.2 95.8 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 301 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC2 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE ADP A 302 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC3 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE MG A 303 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC4 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE ACT A 304 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC5 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE ACT A 305 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC6 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE CL A 306 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC7 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE CL A 307 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC8 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE ADP B 301 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC9 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE MG B 302 REMARK 800 REMARK 800 SITE_IDENTIFIER: BC1 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE ACT B 303 REMARK 800 REMARK 800 SITE_IDENTIFIER: BC2 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE NH4 B 304 REMARK 900 REMARK 900 RELATED ENTRIES REMARK 900 RELATED ID: 4EHU RELATED DB: PDB REMARK 900 ACTIVATOR OF THE 2-HYDROXYISOCAPROYL-COA DEHYDRATASE FROM REMARK 900 CLOSTRIDIUM DIFFICILE WITH BOUND ADPNP REMARK 900 RELATED ID: 4EIA RELATED DB: PDB REMARK 900 ACTIVATOR OF THE 2-HYDROXYISOCAPROYL-COA DEHYDRATASE FROM REMARK 900 CLOSTRIDIUM DIFFICILE WITHOUT NUCLEOTIDE DBREF 4EHT A 1 266 UNP Q5U925 Q5U925_CLODI 1 266 DBREF 4EHT B 1 266 UNP Q5U925 Q5U925_CLODI 1 266 SEQADV 4EHT SER A 267 UNP Q5U925 EXPRESSION TAG SEQADV 4EHT ALA A 268 UNP Q5U925 EXPRESSION TAG SEQADV 4EHT TRP A 269 UNP Q5U925 EXPRESSION TAG SEQADV 4EHT SER A 270 UNP Q5U925 EXPRESSION TAG SEQADV 4EHT HIS A 271 UNP Q5U925 EXPRESSION TAG SEQADV 4EHT PRO A 272 UNP Q5U925 EXPRESSION TAG SEQADV 4EHT GLN A 273 UNP Q5U925 EXPRESSION TAG SEQADV 4EHT PHE A 274 UNP Q5U925 EXPRESSION TAG SEQADV 4EHT GLU A 275 UNP Q5U925 EXPRESSION TAG SEQADV 4EHT LYS A 276 UNP Q5U925 EXPRESSION TAG SEQADV 4EHT SER B 267 UNP Q5U925 EXPRESSION TAG SEQADV 4EHT ALA B 268 UNP Q5U925 EXPRESSION TAG SEQADV 4EHT TRP B 269 UNP Q5U925 EXPRESSION TAG SEQADV 4EHT SER B 270 UNP Q5U925 EXPRESSION TAG SEQADV 4EHT HIS B 271 UNP Q5U925 EXPRESSION TAG SEQADV 4EHT PRO B 272 UNP Q5U925 EXPRESSION TAG SEQADV 4EHT GLN B 273 UNP Q5U925 EXPRESSION TAG SEQADV 4EHT PHE B 274 UNP Q5U925 EXPRESSION TAG SEQADV 4EHT GLU B 275 UNP Q5U925 EXPRESSION TAG SEQADV 4EHT LYS B 276 UNP Q5U925 EXPRESSION TAG SEQRES 1 A 276 MET TYR THR MET GLY LEU ASP ILE GLY SER THR ALA SER SEQRES 2 A 276 LYS GLY VAL ILE LEU LYS ASN GLY GLU ASP ILE VAL ALA SEQRES 3 A 276 SER GLU THR ILE SER SER GLY THR GLY THR THR GLY PRO SEQRES 4 A 276 SER ARG VAL LEU GLU LYS LEU TYR GLY LYS THR GLY LEU SEQRES 5 A 276 ALA ARG GLU ASP ILE LYS LYS VAL VAL VAL THR GLY TYR SEQRES 6 A 276 GLY ARG MET ASN TYR SER ASP ALA ASP LYS GLN ILE SER SEQRES 7 A 276 GLU LEU SER CYS HIS ALA ARG GLY VAL ASN PHE ILE ILE SEQRES 8 A 276 PRO GLU THR ARG THR ILE ILE ASP ILE GLY GLY GLN ASP SEQRES 9 A 276 ALA LYS VAL LEU LYS LEU ASP ASN ASN GLY ARG LEU LEU SEQRES 10 A 276 ASN PHE LEU MET ASN ASP LYS CYS ALA ALA GLY THR GLY SEQRES 11 A 276 ARG PHE LEU ASP VAL MET ALA LYS ILE ILE GLU VAL ASP SEQRES 12 A 276 VAL SER GLU LEU GLY SER ILE SER MET ASN SER GLN ASN SEQRES 13 A 276 GLU VAL SER ILE SER SER THR CYS THR VAL PHE ALA GLU SEQRES 14 A 276 SER GLU VAL ILE SER HIS LEU SER GLU ASN ALA LYS ILE SEQRES 15 A 276 GLU ASP ILE VAL ALA GLY ILE HIS THR SER VAL ALA LYS SEQRES 16 A 276 ARG VAL SER SER LEU VAL LYS ARG ILE GLY VAL GLN ARG SEQRES 17 A 276 ASN VAL VAL MET VAL GLY GLY VAL ALA ARG ASN SER GLY SEQRES 18 A 276 ILE VAL ARG ALA MET ALA ARG GLU ILE ASN THR GLU ILE SEQRES 19 A 276 ILE VAL PRO ASP ILE PRO GLN LEU THR GLY ALA LEU GLY SEQRES 20 A 276 ALA ALA LEU TYR ALA PHE ASP GLU ALA LYS GLU SER GLN SEQRES 21 A 276 LYS GLU VAL LYS ASN ILE SER ALA TRP SER HIS PRO GLN SEQRES 22 A 276 PHE GLU LYS SEQRES 1 B 276 MET TYR THR MET GLY LEU ASP ILE GLY SER THR ALA SER SEQRES 2 B 276 LYS GLY VAL ILE LEU LYS ASN GLY GLU ASP ILE VAL ALA SEQRES 3 B 276 SER GLU THR ILE SER SER GLY THR GLY THR THR GLY PRO SEQRES 4 B 276 SER ARG VAL LEU GLU LYS LEU TYR GLY LYS THR GLY LEU SEQRES 5 B 276 ALA ARG GLU ASP ILE LYS LYS VAL VAL VAL THR GLY TYR SEQRES 6 B 276 GLY ARG MET ASN TYR SER ASP ALA ASP LYS GLN ILE SER SEQRES 7 B 276 GLU LEU SER CYS HIS ALA ARG GLY VAL ASN PHE ILE ILE SEQRES 8 B 276 PRO GLU THR ARG THR ILE ILE ASP ILE GLY GLY GLN ASP SEQRES 9 B 276 ALA LYS VAL LEU LYS LEU ASP ASN ASN GLY ARG LEU LEU SEQRES 10 B 276 ASN PHE LEU MET ASN ASP LYS CYS ALA ALA GLY THR GLY SEQRES 11 B 276 ARG PHE LEU ASP VAL MET ALA LYS ILE ILE GLU VAL ASP SEQRES 12 B 276 VAL SER GLU LEU GLY SER ILE SER MET ASN SER GLN ASN SEQRES 13 B 276 GLU VAL SER ILE SER SER THR CYS THR VAL PHE ALA GLU SEQRES 14 B 276 SER GLU VAL ILE SER HIS LEU SER GLU ASN ALA LYS ILE SEQRES 15 B 276 GLU ASP ILE VAL ALA GLY ILE HIS THR SER VAL ALA LYS SEQRES 16 B 276 ARG VAL SER SER LEU VAL LYS ARG ILE GLY VAL GLN ARG SEQRES 17 B 276 ASN VAL VAL MET VAL GLY GLY VAL ALA ARG ASN SER GLY SEQRES 18 B 276 ILE VAL ARG ALA MET ALA ARG GLU ILE ASN THR GLU ILE SEQRES 19 B 276 ILE VAL PRO ASP ILE PRO GLN LEU THR GLY ALA LEU GLY SEQRES 20 B 276 ALA ALA LEU TYR ALA PHE ASP GLU ALA LYS GLU SER GLN SEQRES 21 B 276 LYS GLU VAL LYS ASN ILE SER ALA TRP SER HIS PRO GLN SEQRES 22 B 276 PHE GLU LYS HET SF4 A 301 8 HET ADP A 302 27 HET MG A 303 1 HET ACT A 304 7 HET ACT A 305 7 HET CL A 306 1 HET CL A 307 1 HET ADP B 301 27 HET MG B 302 1 HET ACT B 303 7 HET NH4 B 304 5 HETNAM SF4 IRON/SULFUR CLUSTER HETNAM ADP ADENOSINE-5'-DIPHOSPHATE HETNAM MG MAGNESIUM ION HETNAM ACT ACETATE ION HETNAM CL CHLORIDE ION HETNAM NH4 AMMONIUM ION FORMUL 3 SF4 FE4 S4 FORMUL 4 ADP 2(C10 H15 N5 O10 P2) FORMUL 5 MG 2(MG 2+) FORMUL 6 ACT 3(C2 H3 O2 1-) FORMUL 8 CL 2(CL 1-) FORMUL 13 NH4 H4 N 1+ FORMUL 14 HOH *271(H2 O) HELIX 1 1 THR A 37 GLY A 51 1 15 HELIX 2 2 ALA A 53 GLU A 55 5 3 HELIX 3 3 SER A 78 ILE A 91 1 14 HELIX 4 4 THR A 129 GLU A 141 1 13 HELIX 5 5 ASP A 143 SER A 145 5 3 HELIX 6 6 GLU A 146 MET A 152 1 7 HELIX 7 7 CYS A 164 GLU A 178 1 15 HELIX 8 8 LYS A 181 GLY A 205 1 25 HELIX 9 9 GLY A 214 ARG A 218 5 5 HELIX 10 10 ASN A 219 ASN A 231 1 13 HELIX 11 11 ILE A 239 GLN A 241 5 3 HELIX 12 12 LEU A 242 LYS A 261 1 20 HELIX 13 13 THR B 37 GLY B 51 1 15 HELIX 14 14 ALA B 53 ILE B 57 5 5 HELIX 15 15 SER B 78 ILE B 91 1 14 HELIX 16 16 THR B 129 GLU B 141 1 13 HELIX 17 17 ASP B 143 SER B 145 5 3 HELIX 18 18 GLU B 146 MET B 152 1 7 HELIX 19 19 CYS B 164 GLU B 178 1 15 HELIX 20 20 LYS B 181 GLY B 205 1 25 HELIX 21 21 GLY B 214 ARG B 218 5 5 HELIX 22 22 ASN B 219 ASN B 231 1 13 HELIX 23 23 ILE B 239 GLN B 241 5 3 HELIX 24 24 LEU B 242 SER B 259 1 18 SHEET 1 A 5 ASP A 23 ILE A 30 0 SHEET 2 A 5 SER A 13 LYS A 19 -1 N LYS A 19 O ASP A 23 SHEET 3 A 5 TYR A 2 ILE A 8 -1 N ASP A 7 O LYS A 14 SHEET 4 A 5 ILE A 57 THR A 63 1 O THR A 63 N LEU A 6 SHEET 5 A 5 LYS A 75 GLN A 76 1 O LYS A 75 N VAL A 62 SHEET 1 B 4 LEU A 116 ASN A 122 0 SHEET 2 B 4 ALA A 105 LEU A 110 -1 N LYS A 109 O LEU A 117 SHEET 3 B 4 THR A 96 ILE A 100 -1 N ILE A 97 O LEU A 108 SHEET 4 B 4 VAL A 210 VAL A 213 1 O VAL A 213 N ILE A 98 SHEET 1 C 5 ASP B 23 ILE B 30 0 SHEET 2 C 5 SER B 13 LYS B 19 -1 N ILE B 17 O ALA B 26 SHEET 3 C 5 TYR B 2 ILE B 8 -1 N ASP B 7 O LYS B 14 SHEET 4 C 5 LYS B 59 THR B 63 1 O THR B 63 N LEU B 6 SHEET 5 C 5 LYS B 75 GLN B 76 1 O LYS B 75 N VAL B 62 SHEET 1 D 4 LEU B 116 ASN B 122 0 SHEET 2 D 4 ALA B 105 LEU B 110 -1 N LYS B 109 O LEU B 117 SHEET 3 D 4 THR B 96 ILE B 100 -1 N ILE B 97 O LEU B 108 SHEET 4 D 4 VAL B 210 VAL B 213 1 O VAL B 211 N ILE B 98 LINK SG CYS A 125 FE2 SF4 A 301 1555 1555 2.27 LINK SG CYS A 164 FE3 SF4 A 301 1555 1555 2.24 LINK FE1 SF4 A 301 SG CYS B 125 1555 1555 2.27 LINK FE4 SF4 A 301 SG CYS B 164 1555 1555 2.26 LINK O3B ADP A 302 MG MG A 303 1555 1555 2.15 LINK MG MG A 303 O HOH A 462 1555 1555 2.21 LINK MG MG A 303 O HOH A 463 1555 1555 2.30 LINK MG MG A 303 O HOH A 465 1555 1555 2.22 LINK MG MG A 303 O HOH A 521 1555 1555 2.21 LINK MG MG A 303 O HOH A 522 1555 1555 2.21 LINK O3B ADP B 301 MG MG B 302 1555 1555 2.19 LINK MG MG B 302 O HOH B 429 1555 1555 2.29 LINK MG MG B 302 O HOH B 430 1555 1555 2.28 LINK MG MG B 302 O HOH B 473 1555 1555 2.22 LINK MG MG B 302 O HOH B 474 1555 1555 2.23 LINK MG MG B 302 O HOH B 475 1555 1555 2.20 CISPEP 1 THR A 34 GLY A 35 0 -5.13 CISPEP 2 SER A 71 ASP A 72 0 -2.59 CISPEP 3 ARG A 208 ASN A 209 0 -2.91 CISPEP 4 SER B 71 ASP B 72 0 5.24 CISPEP 5 ARG B 208 ASN B 209 0 -3.77 SITE 1 AC1 6 CYS A 125 CYS A 164 THR A 165 CYS B 125 SITE 2 AC1 6 CYS B 164 THR B 165 SITE 1 AC2 28 GLY A 9 SER A 10 THR A 11 ALA A 12 SITE 2 AC2 28 LYS A 14 GLY A 101 GLY A 102 GLY A 130 SITE 3 AC2 28 ASP A 134 VAL A 144 SER A 145 GLY A 214 SITE 4 AC2 28 GLY A 215 VAL A 216 ARG A 218 GLN A 241 SITE 5 AC2 28 MG A 303 CL A 307 HOH A 423 HOH A 429 SITE 6 AC2 28 HOH A 442 HOH A 449 HOH A 463 HOH A 466 SITE 7 AC2 28 HOH A 476 HOH A 505 HOH A 509 HOH A 522 SITE 1 AC3 6 ADP A 302 HOH A 462 HOH A 463 HOH A 465 SITE 2 AC3 6 HOH A 521 HOH A 522 SITE 1 AC4 4 SER A 151 ARG A 224 HOH A 433 HOH A 479 SITE 1 AC5 5 SER A 81 GLY A 114 ARG A 115 LEU A 116 SITE 2 AC5 5 HOH A 483 SITE 1 AC6 4 ILE A 239 PRO A 240 GLN A 241 HOH A 428 SITE 1 AC7 4 ALA A 12 SER A 31 GLN A 241 ADP A 302 SITE 1 AC8 25 GLY B 9 SER B 10 THR B 11 ALA B 12 SITE 2 AC8 25 LYS B 14 GLY B 101 GLY B 102 GLY B 130 SITE 3 AC8 25 ASP B 134 SER B 145 GLY B 214 GLY B 215 SITE 4 AC8 25 VAL B 216 ARG B 218 GLN B 241 MG B 302 SITE 5 AC8 25 NH4 B 304 HOH B 414 HOH B 430 HOH B 431 SITE 6 AC8 25 HOH B 432 HOH B 440 HOH B 441 HOH B 442 SITE 7 AC8 25 HOH B 475 SITE 1 AC9 6 ADP B 301 HOH B 429 HOH B 430 HOH B 473 SITE 2 AC9 6 HOH B 474 HOH B 475 SITE 1 BC1 4 ILE B 239 PRO B 240 GLN B 241 LEU B 242 SITE 1 BC2 4 ALA B 12 SER B 31 GLN B 241 ADP B 301 CRYST1 66.154 161.005 63.576 90.00 110.75 90.00 C 1 2 1 8 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 0.015116 0.000000 0.005726 0.00000 SCALE2 0.000000 0.006211 0.000000 0.00000 SCALE3 0.000000 0.000000 0.016820 0.00000