HEADER LIPID BINDING PROTEIN 23-SEP-08 3ELZ TITLE CRYSTAL STRUCTURE OF ZEBRAFISH ILEAL BILE ACID-BINDIN PROTEIN TITLE 2 COMPLEXED WITH CHOLIC ACID (CRYSTAL FORM A). COMPND MOL_ID: 1; COMPND 2 MOLECULE: ILEAL BILE ACID-BINDING PROTEIN; COMPND 3 CHAIN: A, B, C; COMPND 4 SYNONYM: FATTY ACID BINDING PROTEIN 6, ILEAL (GASTROTROPIN); COMPND 5 ENGINEERED: YES SOURCE MOL_ID: 1; SOURCE 2 ORGANISM_SCIENTIFIC: DANIO RERIO; SOURCE 3 ORGANISM_COMMON: LEOPARD DANIO,ZEBRA DANIO,ZEBRA FISH; SOURCE 4 ORGANISM_TAXID: 7955; SOURCE 5 GENE: FABP6, ZGC:92421; SOURCE 6 EXPRESSION_SYSTEM: ESCHERICHIA COLI; SOURCE 7 EXPRESSION_SYSTEM_TAXID: 562; SOURCE 8 EXPRESSION_SYSTEM_STRAIN: SG13009; SOURCE 9 EXPRESSION_SYSTEM_VECTOR_TYPE: PLASMID; SOURCE 10 EXPRESSION_SYSTEM_PLASMID: PQE50 KEYWDS ILEAL BILE ACID-BINDING PROTEIN, ZEBRAFISH (DANIO RERIO), CHOLIC KEYWDS 2 ACID, LIPID-BINDING, TRANSPORT, LIPID BINDING PROTEIN EXPDTA X-RAY DIFFRACTION AUTHOR S.CAPALDI,G.SACCOMANI,D.FESSAS,M.SIGNORELLI,M.PERDUCA,H.L.MONACO REVDAT 2 13-JUL-11 3ELZ 1 VERSN REVDAT 1 13-JAN-09 3ELZ 0 JRNL AUTH S.CAPALDI,G.SACCOMANI,D.FESSAS,M.SIGNORELLI,M.PERDUCA, JRNL AUTH 2 H.L.MONACO JRNL TITL THE X-RAY STRUCTURE OF ZEBRAFISH (DANIO RERIO) ILEAL BILE JRNL TITL 2 ACID-BINDING PROTEIN REVEALS THE PRESENCE OF BINDING SITES JRNL TITL 3 ON THE SURFACE OF THE PROTEIN MOLECULE. JRNL REF J.MOL.BIOL. V. 385 99 2009 JRNL REFN ISSN 0022-2836 JRNL PMID 18952094 JRNL DOI 10.1016/J.JMB.2008.10.007 REMARK 2 REMARK 2 RESOLUTION. 2.20 ANGSTROMS. REMARK 3 REMARK 3 REFINEMENT. REMARK 3 PROGRAM : REFMAC 5.2.0019 REMARK 3 AUTHORS : MURSHUDOV,VAGIN,DODSON 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) : 30.00 REMARK 3 DATA CUTOFF (SIGMA(F)) : 0.000 REMARK 3 COMPLETENESS FOR RANGE (%) : 96.3 REMARK 3 NUMBER OF REFLECTIONS : 21673 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) : 0.224 REMARK 3 R VALUE (WORKING SET) : 0.222 REMARK 3 FREE R VALUE : 0.264 REMARK 3 FREE R VALUE TEST SET SIZE (%) : 5.100 REMARK 3 FREE R VALUE TEST SET COUNT : 1164 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) : 1316 REMARK 3 BIN COMPLETENESS (WORKING+TEST) (%) : 80.31 REMARK 3 BIN R VALUE (WORKING SET) : 0.2700 REMARK 3 BIN FREE R VALUE SET COUNT : 67 REMARK 3 BIN FREE R VALUE : 0.3360 REMARK 3 REMARK 3 NUMBER OF NON-HYDROGEN ATOMS USED IN REFINEMENT. REMARK 3 PROTEIN ATOMS : 3090 REMARK 3 NUCLEIC ACID ATOMS : 0 REMARK 3 HETEROGEN ATOMS : 377 REMARK 3 SOLVENT ATOMS : 70 REMARK 3 REMARK 3 B VALUES. REMARK 3 B VALUE TYPE : LIKELY RESIDUAL REMARK 3 FROM WILSON PLOT (A**2) : 37.70 REMARK 3 MEAN B VALUE (OVERALL, A**2) : 35.92 REMARK 3 OVERALL ANISOTROPIC B VALUE. REMARK 3 B11 (A**2) : 1.09000 REMARK 3 B22 (A**2) : 0.02000 REMARK 3 B33 (A**2) : -1.18000 REMARK 3 B12 (A**2) : 0.00000 REMARK 3 B13 (A**2) : -0.33000 REMARK 3 B23 (A**2) : 0.00000 REMARK 3 REMARK 3 ESTIMATED OVERALL COORDINATE ERROR. REMARK 3 ESU BASED ON R VALUE (A): 0.345 REMARK 3 ESU BASED ON FREE R VALUE (A): 0.242 REMARK 3 ESU BASED ON MAXIMUM LIKELIHOOD (A): 0.204 REMARK 3 ESU FOR B VALUES BASED ON MAXIMUM LIKELIHOOD (A**2): 15.666 REMARK 3 REMARK 3 CORRELATION COEFFICIENTS. REMARK 3 CORRELATION COEFFICIENT FO-FC : 0.936 REMARK 3 CORRELATION COEFFICIENT FO-FC FREE : 0.917 REMARK 3 REMARK 3 RMS DEVIATIONS FROM IDEAL VALUES COUNT RMS WEIGHT REMARK 3 BOND LENGTHS REFINED ATOMS (A): 3566 ; 0.010 ; 0.022 REMARK 3 BOND LENGTHS OTHERS (A): NULL ; NULL ; NULL REMARK 3 BOND ANGLES REFINED ATOMS (DEGREES): 4909 ; 1.462 ; 2.056 REMARK 3 BOND ANGLES OTHERS (DEGREES): NULL ; NULL ; NULL REMARK 3 TORSION ANGLES, PERIOD 1 (DEGREES): 398 ; 5.706 ; 5.000 REMARK 3 TORSION ANGLES, PERIOD 2 (DEGREES): 130 ;38.894 ;25.692 REMARK 3 TORSION ANGLES, PERIOD 3 (DEGREES): 569 ;17.147 ;15.000 REMARK 3 TORSION ANGLES, PERIOD 4 (DEGREES): 7 ;21.470 ;15.000 REMARK 3 CHIRAL-CENTER RESTRAINTS (A**3): 614 ; 0.091 ; 0.200 REMARK 3 GENERAL PLANES REFINED ATOMS (A): 2384 ; 0.003 ; 0.020 REMARK 3 GENERAL PLANES OTHERS (A): NULL ; NULL ; NULL REMARK 3 NON-BONDED CONTACTS REFINED ATOMS (A): 1367 ; 0.201 ; 0.200 REMARK 3 NON-BONDED CONTACTS OTHERS (A): NULL ; NULL ; NULL REMARK 3 NON-BONDED TORSION REFINED ATOMS (A): 2450 ; 0.328 ; 0.200 REMARK 3 NON-BONDED TORSION OTHERS (A): NULL ; NULL ; NULL REMARK 3 H-BOND (X...Y) REFINED ATOMS (A): 138 ; 0.126 ; 0.200 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): 60 ; 0.175 ; 0.200 REMARK 3 SYMMETRY VDW OTHERS (A): NULL ; NULL ; NULL REMARK 3 SYMMETRY H-BOND REFINED ATOMS (A): 4 ; 0.120 ; 0.200 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): 2040 ; 0.357 ; 1.500 REMARK 3 MAIN-CHAIN BOND OTHER ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 MAIN-CHAIN ANGLE REFINED ATOMS (A**2): 3186 ; 0.650 ; 2.000 REMARK 3 SIDE-CHAIN BOND REFINED ATOMS (A**2): 1701 ; 0.921 ; 3.000 REMARK 3 SIDE-CHAIN ANGLE REFINED ATOMS (A**2): 1723 ; 1.366 ; 4.500 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 : 3 REMARK 3 REMARK 3 TLS GROUP : 1 REMARK 3 NUMBER OF COMPONENTS GROUP : 6 REMARK 3 COMPONENTS C SSSEQI TO C SSSEQI REMARK 3 RESIDUE RANGE : A -1 A 130 REMARK 3 RESIDUE RANGE : A 150 A 150 REMARK 3 RESIDUE RANGE : A 151 A 151 REMARK 3 RESIDUE RANGE : A 152 A 152 REMARK 3 RESIDUE RANGE : A 153 A 153 REMARK 3 RESIDUE RANGE : A 200 A 200 REMARK 3 ORIGIN FOR THE GROUP (A): -9.5032 3.3294 -10.1132 REMARK 3 T TENSOR REMARK 3 T11: -0.2393 T22: -0.1429 REMARK 3 T33: -0.1301 T12: -0.0369 REMARK 3 T13: -0.0628 T23: 0.0573 REMARK 3 L TENSOR REMARK 3 L11: 4.3157 L22: 1.5024 REMARK 3 L33: 4.4344 L12: -0.1129 REMARK 3 L13: 0.8291 L23: 0.5415 REMARK 3 S TENSOR REMARK 3 S11: -0.0587 S12: -0.2165 S13: 0.0386 REMARK 3 S21: -0.0447 S22: 0.0123 S23: 0.2196 REMARK 3 S31: -0.0050 S32: -0.3422 S33: 0.0464 REMARK 3 REMARK 3 TLS GROUP : 2 REMARK 3 NUMBER OF COMPONENTS GROUP : 6 REMARK 3 COMPONENTS C SSSEQI TO C SSSEQI REMARK 3 RESIDUE RANGE : B -2 B 131 REMARK 3 RESIDUE RANGE : B 150 B 150 REMARK 3 RESIDUE RANGE : B 151 B 151 REMARK 3 RESIDUE RANGE : B 152 B 152 REMARK 3 RESIDUE RANGE : B 153 B 153 REMARK 3 RESIDUE RANGE : B 200 B 200 REMARK 3 ORIGIN FOR THE GROUP (A): -40.8975 -4.7257 -22.8807 REMARK 3 T TENSOR REMARK 3 T11: -0.1229 T22: -0.1742 REMARK 3 T33: -0.1504 T12: -0.0657 REMARK 3 T13: -0.0255 T23: -0.0496 REMARK 3 L TENSOR REMARK 3 L11: 4.2200 L22: 3.0373 REMARK 3 L33: 3.9490 L12: 0.3534 REMARK 3 L13: -0.8890 L23: -0.1825 REMARK 3 S TENSOR REMARK 3 S11: -0.0315 S12: 0.2007 S13: -0.2322 REMARK 3 S21: -0.1196 S22: -0.1113 S23: 0.0270 REMARK 3 S31: 0.2750 S32: -0.2483 S33: 0.1428 REMARK 3 REMARK 3 TLS GROUP : 3 REMARK 3 NUMBER OF COMPONENTS GROUP : 4 REMARK 3 COMPONENTS C SSSEQI TO C SSSEQI REMARK 3 RESIDUE RANGE : C 0 C 133 REMARK 3 RESIDUE RANGE : C 150 C 150 REMARK 3 RESIDUE RANGE : C 151 C 151 REMARK 3 RESIDUE RANGE : C 153 C 153 REMARK 3 ORIGIN FOR THE GROUP (A): -51.7069 14.5194 -6.4850 REMARK 3 T TENSOR REMARK 3 T11: 0.1355 T22: -0.0921 REMARK 3 T33: 0.0089 T12: 0.1002 REMARK 3 T13: 0.1745 T23: 0.0066 REMARK 3 L TENSOR REMARK 3 L11: 2.5929 L22: 6.1857 REMARK 3 L33: 7.3374 L12: -0.8500 REMARK 3 L13: -0.7417 L23: 1.6637 REMARK 3 S TENSOR REMARK 3 S11: 0.3775 S12: 0.0429 S13: 0.3257 REMARK 3 S21: -0.1275 S22: -0.1221 S23: 0.1173 REMARK 3 S31: -1.0153 S32: -0.7871 S33: -0.2554 REMARK 3 REMARK 3 BULK SOLVENT MODELLING. REMARK 3 METHOD USED : MASK REMARK 3 PARAMETERS FOR MASK CALCULATION REMARK 3 VDW PROBE RADIUS : 1.40 REMARK 3 ION PROBE RADIUS : 0.80 REMARK 3 SHRINKAGE RADIUS : 0.80 REMARK 3 REMARK 3 OTHER REFINEMENT REMARKS: NULL REMARK 4 REMARK 4 3ELZ COMPLIES WITH FORMAT V. 3.30, 13-JUL-11 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY RCSB ON 24-SEP-08. REMARK 100 THE RCSB ID CODE IS RCSB049489. REMARK 200 REMARK 200 EXPERIMENTAL DETAILS REMARK 200 EXPERIMENT TYPE : X-RAY DIFFRACTION REMARK 200 DATE OF DATA COLLECTION : 22-MAR-06 REMARK 200 TEMPERATURE (KELVIN) : 100 REMARK 200 PH : 7.0 REMARK 200 NUMBER OF CRYSTALS USED : 1 REMARK 200 REMARK 200 SYNCHROTRON (Y/N) : Y REMARK 200 RADIATION SOURCE : ESRF REMARK 200 BEAMLINE : ID29 REMARK 200 X-RAY GENERATOR MODEL : NULL REMARK 200 MONOCHROMATIC OR LAUE (M/L) : M REMARK 200 WAVELENGTH OR RANGE (A) : 0.93 REMARK 200 MONOCHROMATOR : SI 311 CHANNEL REMARK 200 OPTICS : TOROIDAL MIRROR REMARK 200 REMARK 200 DETECTOR TYPE : CCD REMARK 200 DETECTOR MANUFACTURER : ADSC QUANTUM 315 REMARK 200 INTENSITY-INTEGRATION SOFTWARE : MOSFLM REMARK 200 DATA SCALING SOFTWARE : SCALA REMARK 200 REMARK 200 NUMBER OF UNIQUE REFLECTIONS : 22845 REMARK 200 RESOLUTION RANGE HIGH (A) : 2.200 REMARK 200 RESOLUTION RANGE LOW (A) : 40.000 REMARK 200 REJECTION CRITERIA (SIGMA(I)) : 0.000 REMARK 200 REMARK 200 OVERALL. REMARK 200 COMPLETENESS FOR RANGE (%) : 96.4 REMARK 200 DATA REDUNDANCY : 2.900 REMARK 200 R MERGE (I) : 0.06000 REMARK 200 R SYM (I) : 0.06000 REMARK 200 FOR THE DATA SET : 16.3000 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) : 2.32 REMARK 200 COMPLETENESS FOR SHELL (%) : 84.4 REMARK 200 DATA REDUNDANCY IN SHELL : 2.50 REMARK 200 R MERGE FOR SHELL (I) : 0.34700 REMARK 200 R SYM FOR SHELL (I) : 0.34700 REMARK 200 FOR SHELL : 2.300 REMARK 200 REMARK 200 DIFFRACTION PROTOCOL: SINGLE WAVELENGTH REMARK 200 METHOD USED TO DETERMINE THE STRUCTURE: MOLECULAR REPLACEMENT REMARK 200 SOFTWARE USED: MOLREP REMARK 200 STARTING MODEL: 3ELX REMARK 200 REMARK 200 REMARK: NULL REMARK 280 REMARK 280 CRYSTAL REMARK 280 SOLVENT CONTENT, VS (%): 52.61 REMARK 280 MATTHEWS COEFFICIENT, VM (ANGSTROMS**3/DA): 2.60 REMARK 280 REMARK 280 CRYSTALLIZATION CONDITIONS: 1.1 M TRI-SODIUM CITRATE DIHYDRATE., REMARK 280 PH 7.0, VAPOR DIFFUSION, SITTING DROP, TEMPERATURE 293K 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 74.59750 REMARK 290 SMTRY2 3 0.000000 1.000000 0.000000 40.14500 REMARK 290 SMTRY3 3 0.000000 0.000000 1.000000 0.00000 REMARK 290 SMTRY1 4 -1.000000 0.000000 0.000000 74.59750 REMARK 290 SMTRY2 4 0.000000 1.000000 0.000000 40.14500 REMARK 290 SMTRY3 4 0.000000 0.000000 -1.000000 0.00000 REMARK 290 REMARK 290 REMARK: NULL REMARK 300 REMARK 300 BIOMOLECULE: 1, 2, 3 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 300 REMARK: THE BIOLOGICAL ASSEMBLY IS THE PROTEIN MONOMER. 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 350 REMARK 350 BIOMOLECULE: 2 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: 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 350 REMARK 350 BIOMOLECULE: 3 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: C 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 -3 REMARK 465 ARG A -2 REMARK 465 LEU A 131 REMARK 465 VAL A 132 REMARK 465 PRO A 133 REMARK 465 ARG A 134 REMARK 465 VAL B 132 REMARK 465 PRO B 133 REMARK 465 ARG B 134 REMARK 465 MET C -3 REMARK 465 ARG C -2 REMARK 465 GLY C -1 REMARK 465 ARG C 134 REMARK 500 REMARK 500 GEOMETRY AND STEREOCHEMISTRY REMARK 500 SUBTOPIC: COVALENT BOND ANGLES REMARK 500 REMARK 500 THE STEREOCHEMICAL PARAMETERS OF THE FOLLOWING RESIDUES REMARK 500 HAVE VALUES WHICH DEVIATE FROM EXPECTED VALUES BY MORE REMARK 500 THAN 6*RMSD (M=MODEL NUMBER; RES=RESIDUE NAME; C=CHAIN REMARK 500 IDENTIFIER; SSEQ=SEQUENCE NUMBER; I=INSERTION CODE). REMARK 500 REMARK 500 STANDARD TABLE: REMARK 500 FORMAT: (10X,I3,1X,A3,1X,A1,I4,A1,3(1X,A4,2X),12X,F5.1) REMARK 500 REMARK 500 EXPECTED VALUES PROTEIN: ENGH AND HUBER, 1999 REMARK 500 EXPECTED VALUES NUCLEIC ACID: CLOWNEY ET AL 1996 REMARK 500 REMARK 500 M RES CSSEQI ATM1 ATM2 ATM3 REMARK 500 LEU B 123 CA - CB - CG ANGL. DEV. = 14.8 DEGREES 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 SER A 0 -9.93 -141.15 REMARK 500 LYS B 96 -1.31 75.96 REMARK 500 REMARK 500 REMARK: NULL REMARK 800 REMARK 800 SITE REMARK 800 SITE_IDENTIFIER: AC1 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE CHD A 150 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC2 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE CHD A 151 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC3 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE CHD A 152 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC4 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE CHD A 153 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC5 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE CHD A 200 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC6 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE CHD B 150 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC7 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE CHD B 151 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC8 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE CHD B 152 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC9 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE CHD B 153 REMARK 800 REMARK 800 SITE_IDENTIFIER: BC1 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE CHD B 200 REMARK 800 REMARK 800 SITE_IDENTIFIER: BC2 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE CHD C 150 REMARK 800 REMARK 800 SITE_IDENTIFIER: BC3 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE CHD C 151 REMARK 800 REMARK 800 SITE_IDENTIFIER: BC4 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE CHD C 153 REMARK 900 REMARK 900 RELATED ENTRIES REMARK 900 RELATED ID: 3ELX RELATED DB: PDB REMARK 900 CRYSTAL STRUCTURE OF APO ZEBRAFISH ILEAL BILE ACID-BINDIN REMARK 900 PROTEIN. REMARK 900 RELATED ID: 3EM0 RELATED DB: PDB REMARK 900 CRYSTAL STRUCTURE OF ZEBRAFISH ILEAL BILE ACID-BINDIN REMARK 900 PROTEIN COMPLEXED WITH CHOLIC ACID (CRYSTAL FORM B). DBREF 3ELZ A 1 130 UNP Q6IMW5 Q6IMW5_DANRE 2 131 DBREF 3ELZ B 1 130 UNP Q6IMW5 Q6IMW5_DANRE 2 131 DBREF 3ELZ C 1 130 UNP Q6IMW5 Q6IMW5_DANRE 2 131 SEQADV 3ELZ MET A -3 UNP Q6IMW5 EXPRESSION TAG SEQADV 3ELZ ARG A -2 UNP Q6IMW5 EXPRESSION TAG SEQADV 3ELZ GLY A -1 UNP Q6IMW5 EXPRESSION TAG SEQADV 3ELZ SER A 0 UNP Q6IMW5 EXPRESSION TAG SEQADV 3ELZ LEU A 131 UNP Q6IMW5 EXPRESSION TAG SEQADV 3ELZ VAL A 132 UNP Q6IMW5 EXPRESSION TAG SEQADV 3ELZ PRO A 133 UNP Q6IMW5 EXPRESSION TAG SEQADV 3ELZ ARG A 134 UNP Q6IMW5 EXPRESSION TAG SEQADV 3ELZ MET B -3 UNP Q6IMW5 EXPRESSION TAG SEQADV 3ELZ ARG B -2 UNP Q6IMW5 EXPRESSION TAG SEQADV 3ELZ GLY B -1 UNP Q6IMW5 EXPRESSION TAG SEQADV 3ELZ SER B 0 UNP Q6IMW5 EXPRESSION TAG SEQADV 3ELZ LEU B 131 UNP Q6IMW5 EXPRESSION TAG SEQADV 3ELZ VAL B 132 UNP Q6IMW5 EXPRESSION TAG SEQADV 3ELZ PRO B 133 UNP Q6IMW5 EXPRESSION TAG SEQADV 3ELZ ARG B 134 UNP Q6IMW5 EXPRESSION TAG SEQADV 3ELZ MET C -3 UNP Q6IMW5 EXPRESSION TAG SEQADV 3ELZ ARG C -2 UNP Q6IMW5 EXPRESSION TAG SEQADV 3ELZ GLY C -1 UNP Q6IMW5 EXPRESSION TAG SEQADV 3ELZ SER C 0 UNP Q6IMW5 EXPRESSION TAG SEQADV 3ELZ LEU C 131 UNP Q6IMW5 EXPRESSION TAG SEQADV 3ELZ VAL C 132 UNP Q6IMW5 EXPRESSION TAG SEQADV 3ELZ PRO C 133 UNP Q6IMW5 EXPRESSION TAG SEQADV 3ELZ ARG C 134 UNP Q6IMW5 EXPRESSION TAG SEQRES 1 A 138 MET ARG GLY SER ALA PHE ASN GLY LYS TRP GLU THR GLU SEQRES 2 A 138 SER GLN GLU GLY TYR GLU PRO PHE CYS LYS LEU ILE GLY SEQRES 3 A 138 ILE PRO ASP ASP VAL ILE ALA LYS GLY ARG ASP PHE LYS SEQRES 4 A 138 LEU VAL THR GLU ILE VAL GLN ASN GLY ASP ASP PHE THR SEQRES 5 A 138 TRP THR GLN TYR TYR PRO ASN ASN HIS VAL VAL THR ASN SEQRES 6 A 138 LYS PHE ILE VAL GLY LYS GLU SER ASP MET GLU THR VAL SEQRES 7 A 138 GLY GLY LYS LYS PHE LYS GLY ILE VAL SER MET GLU GLY SEQRES 8 A 138 GLY LYS LEU THR ILE SER PHE PRO LYS TYR GLN GLN THR SEQRES 9 A 138 THR GLU ILE SER GLY GLY LYS LEU VAL GLU THR SER THR SEQRES 10 A 138 ALA SER GLY ALA GLN GLY THR ALA VAL LEU VAL ARG THR SEQRES 11 A 138 SER LYS LYS VAL LEU VAL PRO ARG SEQRES 1 B 138 MET ARG GLY SER ALA PHE ASN GLY LYS TRP GLU THR GLU SEQRES 2 B 138 SER GLN GLU GLY TYR GLU PRO PHE CYS LYS LEU ILE GLY SEQRES 3 B 138 ILE PRO ASP ASP VAL ILE ALA LYS GLY ARG ASP PHE LYS SEQRES 4 B 138 LEU VAL THR GLU ILE VAL GLN ASN GLY ASP ASP PHE THR SEQRES 5 B 138 TRP THR GLN TYR TYR PRO ASN ASN HIS VAL VAL THR ASN SEQRES 6 B 138 LYS PHE ILE VAL GLY LYS GLU SER ASP MET GLU THR VAL SEQRES 7 B 138 GLY GLY LYS LYS PHE LYS GLY ILE VAL SER MET GLU GLY SEQRES 8 B 138 GLY LYS LEU THR ILE SER PHE PRO LYS TYR GLN GLN THR SEQRES 9 B 138 THR GLU ILE SER GLY GLY LYS LEU VAL GLU THR SER THR SEQRES 10 B 138 ALA SER GLY ALA GLN GLY THR ALA VAL LEU VAL ARG THR SEQRES 11 B 138 SER LYS LYS VAL LEU VAL PRO ARG SEQRES 1 C 138 MET ARG GLY SER ALA PHE ASN GLY LYS TRP GLU THR GLU SEQRES 2 C 138 SER GLN GLU GLY TYR GLU PRO PHE CYS LYS LEU ILE GLY SEQRES 3 C 138 ILE PRO ASP ASP VAL ILE ALA LYS GLY ARG ASP PHE LYS SEQRES 4 C 138 LEU VAL THR GLU ILE VAL GLN ASN GLY ASP ASP PHE THR SEQRES 5 C 138 TRP THR GLN TYR TYR PRO ASN ASN HIS VAL VAL THR ASN SEQRES 6 C 138 LYS PHE ILE VAL GLY LYS GLU SER ASP MET GLU THR VAL SEQRES 7 C 138 GLY GLY LYS LYS PHE LYS GLY ILE VAL SER MET GLU GLY SEQRES 8 C 138 GLY LYS LEU THR ILE SER PHE PRO LYS TYR GLN GLN THR SEQRES 9 C 138 THR GLU ILE SER GLY GLY LYS LEU VAL GLU THR SER THR SEQRES 10 C 138 ALA SER GLY ALA GLN GLY THR ALA VAL LEU VAL ARG THR SEQRES 11 C 138 SER LYS LYS VAL LEU VAL PRO ARG HET CHD A 150 29 HET CHD A 151 29 HET CHD A 152 29 HET CHD A 153 29 HET CHD A 200 29 HET CHD B 150 29 HET CHD B 151 29 HET CHD B 152 29 HET CHD B 153 29 HET CHD B 200 29 HET CHD C 150 29 HET CHD C 151 29 HET CHD C 153 29 HETNAM CHD CHOLIC ACID FORMUL 4 CHD 13(C24 H40 O5) FORMUL 17 HOH *70(H2 O) HELIX 1 1 GLY A 13 ILE A 21 1 9 HELIX 2 2 PRO A 24 ARG A 32 1 9 HELIX 3 3 PRO A 54 ASN A 56 5 3 HELIX 4 4 GLY B 13 GLY B 22 1 10 HELIX 5 5 PRO B 24 ARG B 32 1 9 HELIX 6 6 GLY C 13 ILE C 21 1 9 HELIX 7 7 PRO C 24 ALA C 29 1 6 SHEET 1 A 9 HIS A 57 ILE A 64 0 SHEET 2 A 9 ASP A 46 TYR A 53 -1 N TRP A 49 O ASN A 61 SHEET 3 A 9 VAL A 37 ASN A 43 -1 N ASN A 43 O ASP A 46 SHEET 4 A 9 GLY A 4 GLU A 12 -1 N TRP A 6 O THR A 38 SHEET 5 A 9 THR A 120 LYS A 129 -1 O THR A 126 N GLU A 9 SHEET 6 A 9 LYS A 107 SER A 115 -1 N GLU A 110 O ARG A 125 SHEET 7 A 9 TYR A 97 SER A 104 -1 N GLN A 98 O THR A 113 SHEET 8 A 9 LYS A 89 PHE A 94 -1 N LEU A 90 O THR A 101 SHEET 9 A 9 VAL A 83 GLU A 86 -1 N SER A 84 O THR A 91 SHEET 1 B 2 SER A 69 GLU A 72 0 SHEET 2 B 2 LYS A 78 GLY A 81 -1 O PHE A 79 N MET A 71 SHEET 1 C 9 HIS B 57 ILE B 64 0 SHEET 2 C 9 ASP B 46 TYR B 53 -1 N TRP B 49 O ASN B 61 SHEET 3 C 9 VAL B 37 ASN B 43 -1 N ASN B 43 O ASP B 46 SHEET 4 C 9 GLY B 4 GLU B 12 -1 N TRP B 6 O THR B 38 SHEET 5 C 9 GLY B 119 VAL B 130 -1 O THR B 126 N GLU B 9 SHEET 6 C 9 LYS B 107 GLY B 116 -1 N GLU B 110 O ARG B 125 SHEET 7 C 9 TYR B 97 SER B 104 -1 N GLU B 102 O VAL B 109 SHEET 8 C 9 LYS B 89 PHE B 94 -1 N LEU B 90 O THR B 101 SHEET 9 C 9 SER B 84 GLU B 86 -1 N GLU B 86 O LYS B 89 SHEET 1 D 2 SER B 69 GLU B 72 0 SHEET 2 D 2 LYS B 78 GLY B 81 -1 O PHE B 79 N MET B 71 SHEET 1 E 9 HIS C 57 ILE C 64 0 SHEET 2 E 9 ASP C 46 TYR C 53 -1 N TRP C 49 O ASN C 61 SHEET 3 E 9 VAL C 37 ASN C 43 -1 N GLU C 39 O THR C 50 SHEET 4 E 9 GLY C 4 GLU C 12 -1 N TRP C 6 O THR C 38 SHEET 5 E 9 GLY C 119 LYS C 129 -1 O THR C 126 N GLU C 9 SHEET 6 E 9 LYS C 107 GLY C 116 -1 N GLU C 110 O ARG C 125 SHEET 7 E 9 TYR C 97 SER C 104 -1 N GLN C 98 O THR C 113 SHEET 8 E 9 LYS C 89 PHE C 94 -1 N PHE C 94 O TYR C 97 SHEET 9 E 9 SER C 84 GLU C 86 -1 N SER C 84 O THR C 91 SHEET 1 F 2 SER C 69 GLU C 72 0 SHEET 2 F 2 LYS C 78 GLY C 81 -1 O PHE C 79 N MET C 71 SITE 1 AC1 16 TRP A 49 PHE A 63 GLU A 72 THR A 73 SITE 2 AC1 16 VAL A 74 VAL A 83 LEU A 90 ILE A 92 SITE 3 AC1 16 TYR A 97 GLN A 99 THR A 101 CHD A 151 SITE 4 AC1 16 CHD A 200 HOH A 201 HOH A 202 HOH A 203 SITE 1 AC2 8 TYR A 14 GLY A 31 TYR A 53 VAL A 74 SITE 2 AC2 8 LEU A 123 ARG A 125 CHD A 150 HOH A 204 SITE 1 AC3 3 HIS A 57 CHD B 152 CHD B 200 SITE 1 AC4 4 THR A 73 LYS A 78 CHD A 200 HOH A 237 SITE 1 AC5 7 THR A 73 VAL A 74 GLY A 75 CHD A 150 SITE 2 AC5 7 CHD A 153 PRO B 24 ASP B 26 SITE 1 AC6 13 TRP B 49 GLN B 51 GLU B 72 THR B 73 SITE 2 AC6 13 VAL B 74 LEU B 90 ILE B 92 TYR B 97 SITE 3 AC6 13 GLN B 99 THR B 101 CHD B 153 CHD B 200 SITE 4 AC6 13 HOH B 245 SITE 1 AC7 11 TYR B 14 ILE B 23 GLY B 31 TYR B 53 SITE 2 AC7 11 VAL B 74 LEU B 123 CHD B 200 HOH B 231 SITE 3 AC7 11 HOH B 234 HOH B 246 HOH B 264 SITE 1 AC8 3 CHD A 152 PRO B 54 ASN B 55 SITE 1 AC9 7 THR B 73 LYS B 77 LYS B 78 PHE B 79 SITE 2 AC9 7 SER B 115 CHD B 150 PRO C 95 SITE 1 BC1 9 PRO A 24 CHD A 152 PRO B 24 THR B 73 SITE 2 BC1 9 VAL B 74 GLY B 75 LYS B 77 CHD B 150 SITE 3 BC1 9 CHD B 151 SITE 1 BC2 12 TRP C 49 GLN C 51 GLU C 72 THR C 73 SITE 2 BC2 12 VAL C 74 LEU C 90 ILE C 92 TYR C 97 SITE 3 BC2 12 GLN C 99 THR C 101 CHD C 153 HOH C 253 SITE 1 BC3 5 TYR C 14 VAL C 27 LYS C 30 TYR C 53 SITE 2 BC3 5 LEU C 123 SITE 1 BC4 8 PRO B 95 ILE C 21 THR C 73 LYS C 77 SITE 2 BC4 8 LYS C 78 LYS C 96 SER C 115 CHD C 150 CRYST1 149.195 80.290 39.723 90.00 96.12 90.00 C 1 2 1 12 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 0.006703 0.000000 0.000718 0.00000 SCALE2 0.000000 0.012455 0.000000 0.00000 SCALE3 0.000000 0.000000 0.025319 0.00000 MASTER 435 0 13 7 33 0 30 6 0 0 0 33 END