HEADER LYASE 17-JUN-13 4L8O TITLE CRYSTAL STRUCTURE OF A BILE-ACID 7-ALPHA DEHYDRATASE (CLOHYLEM_06634) TITLE 2 FROM CLOSTRIDIUM HYLEMONAE DSM 15053 AT 2.20 A RESOLUTION COMPND MOL_ID: 1; COMPND 2 MOLECULE: BILE ACID 7A-DEHYDRATASE, BAIE; COMPND 3 CHAIN: A; COMPND 4 EC: 4.2.1.106; COMPND 5 ENGINEERED: YES SOURCE MOL_ID: 1; SOURCE 2 ORGANISM_SCIENTIFIC: CLOSTRIDIUM HYLEMONAE DSM 15053; SOURCE 3 ORGANISM_TAXID: 553973; SOURCE 4 GENE: BAIE, CLOHYLEM_06634; SOURCE 5 EXPRESSION_SYSTEM: ESCHERICHIA COLI; SOURCE 6 EXPRESSION_SYSTEM_TAXID: 562; SOURCE 7 EXPRESSION_SYSTEM_STRAIN: PB1; SOURCE 8 EXPRESSION_SYSTEM_VECTOR_TYPE: PLASMID; SOURCE 9 EXPRESSION_SYSTEM_PLASMID: SPEEDET KEYWDS SNOAL-LIKE DOMAIN, PF13577 FAMILY PROTEIN, STRUCTURAL GENOMICS, JOINT KEYWDS 2 CENTER FOR STRUCTURAL GENOMICS, JCSG, PROTEIN STRUCTURE INITIATIVE, KEYWDS 3 PSI-BIOLOGY, LYASE EXPDTA X-RAY DIFFRACTION AUTHOR JOINT CENTER FOR STRUCTURAL GENOMICS (JCSG) REVDAT 4 20-SEP-23 4L8O 1 REMARK REVDAT 3 01-FEB-23 4L8O 1 REMARK SEQADV LINK REVDAT 2 15-NOV-17 4L8O 1 REMARK REVDAT 1 21-AUG-13 4L8O 0 JRNL AUTH JOINT CENTER FOR STRUCTURAL GENOMICS (JCSG) JRNL TITL CRYSTAL STRUCTURE OF A BILE-ACID 7-ALPHA DEHYDRATASE JRNL TITL 2 (CLOHYLEM_06634) FROM CLOSTRIDIUM HYLEMONAE DSM 15053 AT JRNL TITL 3 2.20 A RESOLUTION JRNL REF TO BE PUBLISHED JRNL REFN REMARK 2 REMARK 2 RESOLUTION. 2.20 ANGSTROMS. REMARK 3 REMARK 3 REFINEMENT. REMARK 3 PROGRAM : REFMAC 5.7.0032 REMARK 3 AUTHORS : MURSHUDOV,SKUBAK,LEBEDEV,PANNU,STEINER, REMARK 3 : NICHOLLS,WINN,LONG,VAGIN REMARK 3 REMARK 3 REFINEMENT TARGET : MAXIMUM LIKELIHOOD REMARK 3 REMARK 3 DATA USED IN REFINEMENT. REMARK 3 RESOLUTION RANGE HIGH (ANGSTROMS) : 2.20 REMARK 3 RESOLUTION RANGE LOW (ANGSTROMS) : 28.58 REMARK 3 DATA CUTOFF (SIGMA(F)) : 0.000 REMARK 3 COMPLETENESS FOR RANGE (%) : 94.7 REMARK 3 NUMBER OF REFLECTIONS : 11786 REMARK 3 REMARK 3 FIT TO DATA USED IN REFINEMENT. REMARK 3 CROSS-VALIDATION METHOD : THROUGHOUT REMARK 3 FREE R VALUE TEST SET SELECTION : RANDOM REMARK 3 R VALUE (WORKING + TEST SET) : 0.196 REMARK 3 R VALUE (WORKING SET) : 0.194 REMARK 3 FREE R VALUE : 0.225 REMARK 3 FREE R VALUE TEST SET SIZE (%) : 4.800 REMARK 3 FREE R VALUE TEST SET COUNT : 568 REMARK 3 REMARK 3 FIT IN THE HIGHEST RESOLUTION BIN. REMARK 3 TOTAL NUMBER OF BINS USED : 20 REMARK 3 BIN RESOLUTION RANGE HIGH (A) : 2.20 REMARK 3 BIN RESOLUTION RANGE LOW (A) : 2.26 REMARK 3 REFLECTION IN BIN (WORKING SET) : 515 REMARK 3 BIN COMPLETENESS (WORKING+TEST) (%) : 61.77 REMARK 3 BIN R VALUE (WORKING SET) : 0.5310 REMARK 3 BIN FREE R VALUE SET COUNT : 28 REMARK 3 BIN FREE R VALUE : 0.5040 REMARK 3 REMARK 3 NUMBER OF NON-HYDROGEN ATOMS USED IN REFINEMENT. REMARK 3 PROTEIN ATOMS : 1335 REMARK 3 NUCLEIC ACID ATOMS : 0 REMARK 3 HETEROGEN ATOMS : 23 REMARK 3 SOLVENT ATOMS : 70 REMARK 3 REMARK 3 B VALUES. REMARK 3 FROM WILSON PLOT (A**2) : 39.36 REMARK 3 MEAN B VALUE (OVERALL, A**2) : 35.16 REMARK 3 OVERALL ANISOTROPIC B VALUE. REMARK 3 B11 (A**2) : 0.11000 REMARK 3 B22 (A**2) : 0.11000 REMARK 3 B33 (A**2) : -0.34000 REMARK 3 B12 (A**2) : 0.11000 REMARK 3 B13 (A**2) : 0.00000 REMARK 3 B23 (A**2) : 0.00000 REMARK 3 REMARK 3 ESTIMATED OVERALL COORDINATE ERROR. REMARK 3 ESU BASED ON R VALUE (A): 0.229 REMARK 3 ESU BASED ON FREE R VALUE (A): 0.184 REMARK 3 ESU BASED ON MAXIMUM LIKELIHOOD (A): 0.125 REMARK 3 ESU FOR B VALUES BASED ON MAXIMUM LIKELIHOOD (A**2): 9.914 REMARK 3 REMARK 3 CORRELATION COEFFICIENTS. REMARK 3 CORRELATION COEFFICIENT FO-FC : 0.942 REMARK 3 CORRELATION COEFFICIENT FO-FC FREE : 0.932 REMARK 3 REMARK 3 RMS DEVIATIONS FROM IDEAL VALUES COUNT RMS WEIGHT REMARK 3 BOND LENGTHS REFINED ATOMS (A): 1409 ; 0.013 ; 0.022 REMARK 3 BOND LENGTHS OTHERS (A): 1319 ; 0.002 ; 0.020 REMARK 3 BOND ANGLES REFINED ATOMS (DEGREES): 1894 ; 1.319 ; 1.969 REMARK 3 BOND ANGLES OTHERS (DEGREES): 3063 ; 0.849 ; 3.000 REMARK 3 TORSION ANGLES, PERIOD 1 (DEGREES): 170 ; 6.472 ; 5.000 REMARK 3 TORSION ANGLES, PERIOD 2 (DEGREES): 64 ;34.979 ;24.688 REMARK 3 TORSION ANGLES, PERIOD 3 (DEGREES): 265 ;13.712 ;15.000 REMARK 3 TORSION ANGLES, PERIOD 4 (DEGREES): 5 ;15.092 ;15.000 REMARK 3 CHIRAL-CENTER RESTRAINTS (A**3): 201 ; 0.079 ; 0.200 REMARK 3 GENERAL PLANES REFINED ATOMS (A): 1540 ; 0.005 ; 0.020 REMARK 3 GENERAL PLANES OTHERS (A): 300 ; 0.001 ; 0.020 REMARK 3 NON-BONDED CONTACTS REFINED ATOMS (A): NULL ; NULL ; NULL REMARK 3 NON-BONDED CONTACTS OTHERS (A): NULL ; NULL ; NULL REMARK 3 NON-BONDED TORSION REFINED ATOMS (A): NULL ; NULL ; NULL REMARK 3 NON-BONDED TORSION OTHERS (A): NULL ; NULL ; NULL REMARK 3 H-BOND (X...Y) REFINED ATOMS (A): NULL ; NULL ; NULL REMARK 3 H-BOND (X...Y) OTHERS (A): NULL ; NULL ; NULL REMARK 3 POTENTIAL METAL-ION REFINED ATOMS (A): NULL ; NULL ; NULL REMARK 3 POTENTIAL METAL-ION OTHERS (A): NULL ; NULL ; NULL REMARK 3 SYMMETRY VDW REFINED ATOMS (A): NULL ; NULL ; NULL REMARK 3 SYMMETRY VDW OTHERS (A): NULL ; NULL ; NULL REMARK 3 SYMMETRY H-BOND REFINED ATOMS (A): NULL ; NULL ; NULL REMARK 3 SYMMETRY H-BOND OTHERS (A): NULL ; NULL ; NULL REMARK 3 SYMMETRY METAL-ION REFINED ATOMS (A): NULL ; NULL ; NULL REMARK 3 SYMMETRY METAL-ION OTHERS (A): NULL ; NULL ; NULL REMARK 3 REMARK 3 ISOTROPIC THERMAL FACTOR RESTRAINTS. COUNT RMS WEIGHT REMARK 3 MAIN-CHAIN BOND REFINED ATOMS (A**2): 667 ; 2.454 ; 3.548 REMARK 3 MAIN-CHAIN BOND OTHER ATOMS (A**2): 667 ; 2.404 ; 3.550 REMARK 3 MAIN-CHAIN ANGLE REFINED ATOMS (A**2): 835 ; 3.882 ; 6.581 REMARK 3 MAIN-CHAIN ANGLE OTHER ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 SIDE-CHAIN BOND REFINED ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 SIDE-CHAIN BOND OTHER ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 SIDE-CHAIN ANGLE REFINED ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 SIDE-CHAIN ANGLE OTHER ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 LONG RANGE B REFINED ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 LONG RANGE B OTHER ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 REMARK 3 ANISOTROPIC THERMAL FACTOR RESTRAINTS. COUNT RMS WEIGHT REMARK 3 RIGID-BOND RESTRAINTS (A**2): NULL ; NULL ; NULL REMARK 3 SPHERICITY; FREE ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 SPHERICITY; BONDED ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 REMARK 3 NCS RESTRAINTS STATISTICS REMARK 3 NUMBER OF DIFFERENT NCS GROUPS : NULL REMARK 3 REMARK 3 TLS DETAILS REMARK 3 NUMBER OF TLS GROUPS : 1 REMARK 3 REMARK 3 TLS GROUP : 1 REMARK 3 NUMBER OF COMPONENTS GROUP : 1 REMARK 3 COMPONENTS C SSSEQI TO C SSSEQI REMARK 3 RESIDUE RANGE : A 1 A 168 REMARK 3 ORIGIN FOR THE GROUP (A): 6.7007 11.3469 42.0699 REMARK 3 T TENSOR REMARK 3 T11: 0.0535 T22: 0.0320 REMARK 3 T33: 0.0918 T12: -0.0167 REMARK 3 T13: -0.0021 T23: -0.0008 REMARK 3 L TENSOR REMARK 3 L11: 1.5941 L22: 1.7673 REMARK 3 L33: 1.4446 L12: 0.0734 REMARK 3 L13: 0.0094 L23: -0.2136 REMARK 3 S TENSOR REMARK 3 S11: -0.0475 S12: 0.0603 S13: 0.1400 REMARK 3 S21: -0.1123 S22: -0.0122 S23: -0.1014 REMARK 3 S31: -0.0850 S32: 0.0806 S33: 0.0597 REMARK 3 REMARK 3 BULK SOLVENT MODELLING. REMARK 3 METHOD USED : BABINET MODEL WITH MASK REMARK 3 PARAMETERS FOR MASK CALCULATION REMARK 3 VDW PROBE RADIUS : 1.20 REMARK 3 ION PROBE RADIUS : 0.80 REMARK 3 SHRINKAGE RADIUS : 0.80 REMARK 3 REMARK 3 OTHER REFINEMENT REMARKS: 1. HYDROGENS HAVE BEEN ADDED IN THE REMARK 3 RIDING POSITIONS. 2. ATOM RECORDS CONTAIN SUM OF TLS AND REMARK 3 RESIDUAL B FACTORS. 3. ANISOU RECORDS CONTAIN SUM OF TLS AND REMARK 3 RESIDUAL U FACTORS. 4. WATERS WERE EXCLUDED FROM AUTOMATIC TLS REMARK 3 ASSIGNMENT. 5. COBALT (CO+2) IS MODELED BASED ON A PEAK IN THE REMARK 3 ANOMALOUS DIFFERENCE FOURIER AND ITS PRESCIENCE IN THE REMARK 3 CRYSTALLIZATION CONDITIONS. 6. THE MODELED ETHYLENE GLYCOL (EDO), REMARK 3 SULFATE (SO4) AND SODIUM IONS (NA) ARE PRESENT IN CRYO / REMARK 3 CRYSTALLIZATION / PROTEIN BUFFER SOLUTIONS. 7. RESIDUES IN THE REMARK 3 LOOP FROM 55-57 ALONG WITH PART OF THE NEIGHBORING RESIDUES 54 REMARK 3 AND 58 HAVE BEEN LEFT UNMODELED. THIS LOOP IS NEAR A REMARK 3 CRYSTALLOGRAPHIC 3-FOLD AXIS AND IT WAS DIFFICULT TO BUILD THE REMARK 3 MULTIPLE CONFORMATIONS REQUIRED TO FIT THE DENSITY AND AVOID A REMARK 3 SYMMETRY CLASH. 8. THE SCATTERING FACTORS FOR SODIUM, SULFUR, REMARK 3 AND COBALT ATOMS WERE ADJUSTED BY REFMAC 5.7.0032 TO ACCOUNT FOR REMARK 3 ANOMALOUS DISPERSION BASED ON THE WAVELENGTH 1.000 A (NA F'=0.06, REMARK 3 S F'=0.18, CO F'=0.15). THE CROMER MANN VALUES LISTED IN THE REMARK 3 CIF VERSION OF THE FILE INCLUDE THIS CORRECTION. REMARK 4 REMARK 4 4L8O COMPLIES WITH FORMAT V. 3.30, 13-JUL-11 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY RCSB ON 19-JUN-13. REMARK 100 THE DEPOSITION ID IS D_1000080320. REMARK 200 REMARK 200 EXPERIMENTAL DETAILS REMARK 200 EXPERIMENT TYPE : X-RAY DIFFRACTION REMARK 200 DATE OF DATA COLLECTION : 19-SEP-12 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 : ALS REMARK 200 BEAMLINE : 8.2.2 REMARK 200 X-RAY GENERATOR MODEL : NULL REMARK 200 MONOCHROMATIC OR LAUE (M/L) : M REMARK 200 WAVELENGTH OR RANGE (A) : 0.999941 REMARK 200 MONOCHROMATOR : DOUBLE CRYSTAL SI(111) REMARK 200 OPTICS : KOHZU: DOUBLE CRYSTAL SI(111) REMARK 200 REMARK 200 DETECTOR TYPE : CCD REMARK 200 DETECTOR MANUFACTURER : ADSC QUANTUM 315 REMARK 200 INTENSITY-INTEGRATION SOFTWARE : XDS REMARK 200 DATA SCALING SOFTWARE : XSCALE MARCH 15, 2012 REMARK 200 REMARK 200 NUMBER OF UNIQUE REFLECTIONS : 12340 REMARK 200 RESOLUTION RANGE HIGH (A) : 2.200 REMARK 200 RESOLUTION RANGE LOW (A) : 28.575 REMARK 200 REJECTION CRITERIA (SIGMA(I)) : -3.000 REMARK 200 REMARK 200 OVERALL. REMARK 200 COMPLETENESS FOR RANGE (%) : 98.5 REMARK 200 DATA REDUNDANCY : NULL REMARK 200 R MERGE (I) : 0.08600 REMARK 200 R SYM (I) : NULL REMARK 200 FOR THE DATA SET : 12.8800 REMARK 200 REMARK 200 IN THE HIGHEST RESOLUTION SHELL. REMARK 200 HIGHEST RESOLUTION SHELL, RANGE HIGH (A) : 2.20 REMARK 200 HIGHEST RESOLUTION SHELL, RANGE LOW (A) : 2.28 REMARK 200 COMPLETENESS FOR SHELL (%) : 94.1 REMARK 200 DATA REDUNDANCY IN SHELL : 4.80 REMARK 200 R MERGE FOR SHELL (I) : 0.47900 REMARK 200 R SYM FOR SHELL (I) : NULL REMARK 200 FOR SHELL : 2.900 REMARK 200 REMARK 200 DIFFRACTION PROTOCOL: SINGLE WAVELENGTH REMARK 200 METHOD USED TO DETERMINE THE STRUCTURE: MOLECULAR REPLACEMENT REMARK 200 SOFTWARE USED: PHASER 2.3.0 REMARK 200 STARTING MODEL: 4L8P REMARK 200 REMARK 200 REMARK: NULL REMARK 280 REMARK 280 CRYSTAL REMARK 280 SOLVENT CONTENT, VS (%): 57.55 REMARK 280 MATTHEWS COEFFICIENT, VM (ANGSTROMS**3/DA): 2.60 REMARK 280 REMARK 280 CRYSTALLIZATION CONDITIONS: 0.01M COBALT CHLORIDE, 1.80M AMMONIUM REMARK 280 SULFATE, 0.1M MES PH 6.5, ADDITIVE - 0.001 M 3-OXO-DELTA 4,6, REMARK 280 LITHOCHOLYL COENZYME A, NANODROP, VAPOR DIFFUSION, SITTING DROP, REMARK 280 TEMPERATURE 293K REMARK 290 REMARK 290 CRYSTALLOGRAPHIC SYMMETRY REMARK 290 SYMMETRY OPERATORS FOR SPACE GROUP: H 3 2 REMARK 290 REMARK 290 SYMOP SYMMETRY REMARK 290 NNNMMM OPERATOR REMARK 290 1555 X,Y,Z REMARK 290 2555 -Y,X-Y,Z REMARK 290 3555 -X+Y,-X,Z REMARK 290 4555 Y,X,-Z REMARK 290 5555 X-Y,-Y,-Z REMARK 290 6555 -X,-X+Y,-Z REMARK 290 7555 X+2/3,Y+1/3,Z+1/3 REMARK 290 8555 -Y+2/3,X-Y+1/3,Z+1/3 REMARK 290 9555 -X+Y+2/3,-X+1/3,Z+1/3 REMARK 290 10555 Y+2/3,X+1/3,-Z+1/3 REMARK 290 11555 X-Y+2/3,-Y+1/3,-Z+1/3 REMARK 290 12555 -X+2/3,-X+Y+1/3,-Z+1/3 REMARK 290 13555 X+1/3,Y+2/3,Z+2/3 REMARK 290 14555 -Y+1/3,X-Y+2/3,Z+2/3 REMARK 290 15555 -X+Y+1/3,-X+2/3,Z+2/3 REMARK 290 16555 Y+1/3,X+2/3,-Z+2/3 REMARK 290 17555 X-Y+1/3,-Y+2/3,-Z+2/3 REMARK 290 18555 -X+1/3,-X+Y+2/3,-Z+2/3 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 -0.500000 -0.866025 0.000000 0.00000 REMARK 290 SMTRY2 2 0.866025 -0.500000 0.000000 0.00000 REMARK 290 SMTRY3 2 0.000000 0.000000 1.000000 0.00000 REMARK 290 SMTRY1 3 -0.500000 0.866025 0.000000 0.00000 REMARK 290 SMTRY2 3 -0.866025 -0.500000 0.000000 0.00000 REMARK 290 SMTRY3 3 0.000000 0.000000 1.000000 0.00000 REMARK 290 SMTRY1 4 -0.500000 0.866025 0.000000 0.00000 REMARK 290 SMTRY2 4 0.866025 0.500000 0.000000 0.00000 REMARK 290 SMTRY3 4 0.000000 0.000000 -1.000000 0.00000 REMARK 290 SMTRY1 5 1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY2 5 0.000000 -1.000000 0.000000 0.00000 REMARK 290 SMTRY3 5 0.000000 0.000000 -1.000000 0.00000 REMARK 290 SMTRY1 6 -0.500000 -0.866025 0.000000 0.00000 REMARK 290 SMTRY2 6 -0.866025 0.500000 0.000000 0.00000 REMARK 290 SMTRY3 6 0.000000 0.000000 -1.000000 0.00000 REMARK 290 SMTRY1 7 1.000000 0.000000 0.000000 26.47800 REMARK 290 SMTRY2 7 0.000000 1.000000 0.000000 15.28708 REMARK 290 SMTRY3 7 0.000000 0.000000 1.000000 142.87567 REMARK 290 SMTRY1 8 -0.500000 -0.866025 0.000000 26.47800 REMARK 290 SMTRY2 8 0.866025 -0.500000 0.000000 15.28708 REMARK 290 SMTRY3 8 0.000000 0.000000 1.000000 142.87567 REMARK 290 SMTRY1 9 -0.500000 0.866025 0.000000 26.47800 REMARK 290 SMTRY2 9 -0.866025 -0.500000 0.000000 15.28708 REMARK 290 SMTRY3 9 0.000000 0.000000 1.000000 142.87567 REMARK 290 SMTRY1 10 -0.500000 0.866025 0.000000 26.47800 REMARK 290 SMTRY2 10 0.866025 0.500000 0.000000 15.28708 REMARK 290 SMTRY3 10 0.000000 0.000000 -1.000000 142.87567 REMARK 290 SMTRY1 11 1.000000 0.000000 0.000000 26.47800 REMARK 290 SMTRY2 11 0.000000 -1.000000 0.000000 15.28708 REMARK 290 SMTRY3 11 0.000000 0.000000 -1.000000 142.87567 REMARK 290 SMTRY1 12 -0.500000 -0.866025 0.000000 26.47800 REMARK 290 SMTRY2 12 -0.866025 0.500000 0.000000 15.28708 REMARK 290 SMTRY3 12 0.000000 0.000000 -1.000000 142.87567 REMARK 290 SMTRY1 13 1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY2 13 0.000000 1.000000 0.000000 30.57416 REMARK 290 SMTRY3 13 0.000000 0.000000 1.000000 285.75133 REMARK 290 SMTRY1 14 -0.500000 -0.866025 0.000000 0.00000 REMARK 290 SMTRY2 14 0.866025 -0.500000 0.000000 30.57416 REMARK 290 SMTRY3 14 0.000000 0.000000 1.000000 285.75133 REMARK 290 SMTRY1 15 -0.500000 0.866025 0.000000 0.00000 REMARK 290 SMTRY2 15 -0.866025 -0.500000 0.000000 30.57416 REMARK 290 SMTRY3 15 0.000000 0.000000 1.000000 285.75133 REMARK 290 SMTRY1 16 -0.500000 0.866025 0.000000 0.00000 REMARK 290 SMTRY2 16 0.866025 0.500000 0.000000 30.57416 REMARK 290 SMTRY3 16 0.000000 0.000000 -1.000000 285.75133 REMARK 290 SMTRY1 17 1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY2 17 0.000000 -1.000000 0.000000 30.57416 REMARK 290 SMTRY3 17 0.000000 0.000000 -1.000000 285.75133 REMARK 290 SMTRY1 18 -0.500000 -0.866025 0.000000 0.00000 REMARK 290 SMTRY2 18 -0.866025 0.500000 0.000000 30.57416 REMARK 290 SMTRY3 18 0.000000 0.000000 -1.000000 285.75133 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: TRIMERIC REMARK 350 SOFTWARE DETERMINED QUATERNARY STRUCTURE: TRIMERIC REMARK 350 SOFTWARE USED: PISA REMARK 350 TOTAL BURIED SURFACE AREA: 11140 ANGSTROM**2 REMARK 350 SURFACE AREA OF THE COMPLEX: 23320 ANGSTROM**2 REMARK 350 CHANGE IN SOLVENT FREE ENERGY: -124.0 KCAL/MOL 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 350 BIOMT1 2 -0.500000 -0.866025 0.000000 0.00000 REMARK 350 BIOMT2 2 0.866025 -0.500000 0.000000 0.00000 REMARK 350 BIOMT3 2 0.000000 0.000000 1.000000 0.00000 REMARK 350 BIOMT1 3 -0.500000 0.866025 0.000000 0.00000 REMARK 350 BIOMT2 3 -0.866025 -0.500000 0.000000 0.00000 REMARK 350 BIOMT3 3 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 CO CO A 201 LIES ON A SPECIAL POSITION. REMARK 375 NA NA A 202 LIES ON A SPECIAL POSITION. REMARK 375 S SO4 A 203 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 MET A -18 REMARK 465 GLY A -17 REMARK 465 SER A -16 REMARK 465 ASP A -15 REMARK 465 LYS A -14 REMARK 465 ILE A -13 REMARK 465 HIS A -12 REMARK 465 HIS A -11 REMARK 465 HIS A -10 REMARK 465 HIS A -9 REMARK 465 HIS A -8 REMARK 465 HIS A -7 REMARK 465 GLU A -6 REMARK 465 ASN A -5 REMARK 465 LEU A -4 REMARK 465 TYR A -3 REMARK 465 PHE A -2 REMARK 465 GLN A -1 REMARK 465 GLY A 0 REMARK 465 SER A 55 REMARK 465 ASN A 56 REMARK 465 GLY A 57 REMARK 465 LYS A 169 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 LYS A 12 CE NZ REMARK 470 TYR A 54 C O CB CG CD1 CD2 CE1 REMARK 470 TYR A 54 CE2 CZ OH REMARK 470 LYS A 58 N CA CB CG CD CE NZ REMARK 470 ARG A 77 NE CZ NH1 NH2 REMARK 470 LYS A 115 CD CE NZ REMARK 470 LYS A 160 CD CE NZ REMARK 470 LYS A 167 CG CD CE NZ REMARK 470 THR A 168 O 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 THR A 87 68.48 39.88 REMARK 500 ASN A 164 106.39 -165.94 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 CO A 201 CO REMARK 620 N RES CSSEQI ATOM REMARK 620 1 HIS A 86 NE2 REMARK 620 2 HOH A 301 O 87.7 REMARK 620 N 1 REMARK 620 REMARK 620 COORDINATION ANGLES FOR: M RES CSSEQI METAL REMARK 620 NA A 202 NA REMARK 620 N RES CSSEQI ATOM REMARK 620 1 GLU A 105 OE1 REMARK 620 2 HOH A 370 O 105.7 REMARK 620 N 1 REMARK 800 REMARK 800 SITE REMARK 800 SITE_IDENTIFIER: AC1 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE CO A 201 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC2 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE NA A 202 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC3 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE SO4 A 203 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC4 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE EDO A 204 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC5 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE EDO A 205 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC6 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE EDO A 206 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC7 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE EDO A 207 REMARK 900 REMARK 900 RELATED ENTRIES REMARK 900 RELATED ID: JCSG-421786 RELATED DB: TARGETTRACK REMARK 900 RELATED ID: 4L8P RELATED DB: PDB REMARK 900 CRYSTAL STRUCTURE OF A BILE-ACID 7-ALPHA DEHYDRATASE (CLOHIR_00079) REMARK 900 FROM CLOSTRIDIUM HIRANONIS DSM 13275 AT 1.60 A RESOLUTION - REMARK 900 ORTHOLOG STRUCTURE REMARK 900 RELATED ID: 4LEH RELATED DB: PDB REMARK 900 CRYSTAL STRUCTURE OF A BILE-ACID 7-ALPHA DEHYDRATASE (CLOSCI_03134) REMARK 900 FROM CLOSTRIDIUM SCINDENS ATCC 35704 AT 2.90 A RESOLUTION - REMARK 900 ORTHOLOG STRUCTURE REMARK 999 REMARK 999 SEQUENCE REMARK 999 THIS CONSTRUCT (RESIDUES 1-169) WAS EXPRESSED WITH AN N-TERMINAL REMARK 999 PURIFICATION TAG MGSDKIHHHHHHENLYFQG. DBREF 4L8O A 1 169 UNP B4YSU1 B4YSU1_9CLOT 1 169 SEQADV 4L8O MET A -18 UNP B4YSU1 EXPRESSION TAG SEQADV 4L8O GLY A -17 UNP B4YSU1 EXPRESSION TAG SEQADV 4L8O SER A -16 UNP B4YSU1 EXPRESSION TAG SEQADV 4L8O ASP A -15 UNP B4YSU1 EXPRESSION TAG SEQADV 4L8O LYS A -14 UNP B4YSU1 EXPRESSION TAG SEQADV 4L8O ILE A -13 UNP B4YSU1 EXPRESSION TAG SEQADV 4L8O HIS A -12 UNP B4YSU1 EXPRESSION TAG SEQADV 4L8O HIS A -11 UNP B4YSU1 EXPRESSION TAG SEQADV 4L8O HIS A -10 UNP B4YSU1 EXPRESSION TAG SEQADV 4L8O HIS A -9 UNP B4YSU1 EXPRESSION TAG SEQADV 4L8O HIS A -8 UNP B4YSU1 EXPRESSION TAG SEQADV 4L8O HIS A -7 UNP B4YSU1 EXPRESSION TAG SEQADV 4L8O GLU A -6 UNP B4YSU1 EXPRESSION TAG SEQADV 4L8O ASN A -5 UNP B4YSU1 EXPRESSION TAG SEQADV 4L8O LEU A -4 UNP B4YSU1 EXPRESSION TAG SEQADV 4L8O TYR A -3 UNP B4YSU1 EXPRESSION TAG SEQADV 4L8O PHE A -2 UNP B4YSU1 EXPRESSION TAG SEQADV 4L8O GLN A -1 UNP B4YSU1 EXPRESSION TAG SEQADV 4L8O GLY A 0 UNP B4YSU1 EXPRESSION TAG SEQRES 1 A 188 MET GLY SER ASP LYS ILE HIS HIS HIS HIS HIS HIS GLU SEQRES 2 A 188 ASN LEU TYR PHE GLN GLY MET SER ILE GLU GLU ARG LEU SEQRES 3 A 188 GLU ALA LEU GLU LYS GLU ILE GLN LYS MET LYS ASP ILE SEQRES 4 A 188 GLU GLU ILE LYS LYS LEU LYS GLY GLN TYR PHE ARG CYS SEQRES 5 A 188 LEU ASP GLY LYS PHE TRP ASP GLU LEU GLU THR THR LEU SEQRES 6 A 188 SER PRO ASN ILE VAL THR SER TYR SER ASN GLY LYS LEU SEQRES 7 A 188 VAL PHE HIS GLY PRO LYS GLU VAL THR ASP TYR PHE LYS SEQRES 8 A 188 LYS ALA MET PRO ARG GLU GLU ILE SER MET HIS MET GLY SEQRES 9 A 188 HIS THR PRO GLU ILE THR ILE ASP SER GLU THR THR ALA SEQRES 10 A 188 THR GLY ARG TRP TYR LEU GLU ASP LYS LEU ILE PHE THR SEQRES 11 A 188 GLU GLU SER LYS TYR ALA GLY SER GLY VAL ASN GLY GLY SEQRES 12 A 188 ALA PHE TYR THR ASP LYS TYR GLU LYS VAL ASP GLY LYS SEQRES 13 A 188 TRP TYR ILE LEU GLU THR GLY TYR LEU ARG VAL TYR GLU SEQRES 14 A 188 GLU HIS PHE MET ARG ASP PRO LYS ILE LYS ILE THR MET SEQRES 15 A 188 ASN MET HIS LYS THR LYS HET CO A 201 1 HET NA A 202 1 HET SO4 A 203 5 HET EDO A 204 4 HET EDO A 205 4 HET EDO A 206 4 HET EDO A 207 4 HETNAM CO COBALT (II) ION HETNAM NA SODIUM ION HETNAM SO4 SULFATE ION HETNAM EDO 1,2-ETHANEDIOL HETSYN EDO ETHYLENE GLYCOL FORMUL 2 CO CO 2+ FORMUL 3 NA NA 1+ FORMUL 4 SO4 O4 S 2- FORMUL 5 EDO 4(C2 H6 O2) FORMUL 9 HOH *70(H2 O) HELIX 1 1 SER A 2 GLY A 36 1 35 HELIX 2 2 PHE A 38 THR A 44 1 7 HELIX 3 3 GLY A 63 MET A 75 1 13 SHEET 1 A 2 VAL A 51 SER A 53 0 SHEET 2 A 2 VAL A 60 HIS A 62 -1 O PHE A 61 N THR A 52 SHEET 1 B 4 GLU A 79 SER A 94 0 SHEET 2 B 4 THR A 97 PHE A 110 -1 O THR A 99 N THR A 91 SHEET 3 B 4 SER A 119 VAL A 134 -1 O ALA A 125 N LEU A 104 SHEET 4 B 4 LYS A 137 MET A 154 -1 O GLY A 144 N THR A 128 LINK NE2 HIS A 86 CO CO A 201 1555 1555 2.32 LINK OE1 GLU A 105 NA NA A 202 1555 1555 2.66 LINK CO CO A 201 O HOH A 301 1555 1555 2.25 LINK NA NA A 202 O HOH A 370 1555 1555 2.96 SITE 1 AC1 2 HIS A 86 HOH A 301 SITE 1 AC2 2 GLU A 105 HOH A 370 SITE 1 AC3 3 LYS A 24 HOH A 317 HOH A 318 SITE 1 AC4 1 HIS A 152 SITE 1 AC5 7 HIS A 62 THR A 128 LYS A 130 GLU A 142 SITE 2 AC5 7 THR A 143 GLY A 144 HOH A 360 SITE 1 AC6 4 THR A 52 SER A 53 TYR A 54 TYR A 70 SITE 1 AC7 3 GLU A 151 PHE A 153 ILE A 159 CRYST1 52.956 52.956 428.627 90.00 90.00 120.00 H 3 2 18 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 0.018884 0.010902 0.000000 0.00000 SCALE2 0.000000 0.021805 0.000000 0.00000 SCALE3 0.000000 0.000000 0.002333 0.00000