HEADER TRANSPORT PROTEIN 29-APR-04 1VYG TITLE SCHISTOSOMA MANSONI FATTY ACID BINDING PROTEIN IN COMPLEX WITH TITLE 2 ARACHIDONIC ACID COMPND MOL_ID: 1; COMPND 2 MOLECULE: FATTY ACID BINDING PROTEIN; COMPND 3 CHAIN: A; COMPND 4 SYNONYM: SM14; COMPND 5 ENGINEERED: YES; COMPND 6 OTHER_DETAILS: 2 ADDITIONAL AMINO ACIDS AT THE N-TERMINUS SOURCE MOL_ID: 1; SOURCE 2 ORGANISM_SCIENTIFIC: SCHISTOSOMA MANSONI; SOURCE 3 ORGANISM_COMMON: BLOOD FLUKE; SOURCE 4 ORGANISM_TAXID: 6183; SOURCE 5 STRAIN: BRAZILIAN BH; SOURCE 6 EXPRESSION_SYSTEM: ESCHERICHIA COLI; SOURCE 7 EXPRESSION_SYSTEM_TAXID: 469008; SOURCE 8 EXPRESSION_SYSTEM_STRAIN: BL21(DE3); SOURCE 9 EXPRESSION_SYSTEM_PLASMID: PDEST17; SOURCE 10 OTHER_DETAILS: CDNA KEYWDS FATTY ACID BINDING PROTEIN, TRANSPORT PROTEIN EXPDTA X-RAY DIFFRACTION AUTHOR F.ANGELUCCI,K.A.JOHNSON,P.BAIOCCO,A.E.MIELE,A.BELLELLI REVDAT 4 13-DEC-23 1VYG 1 REMARK REVDAT 3 24-FEB-09 1VYG 1 VERSN REVDAT 2 20-OCT-04 1VYG 1 JRNL REVDAT 1 23-SEP-04 1VYG 0 JRNL AUTH F.ANGELUCCI,K.A.JOHNSON,P.BAIOCCO,A.E.MIELE,M.BRUNORI, JRNL AUTH 2 C.VALLE,F.VIGOROSI,A.R.TROIANI,P.LIBERTI,D.CIOLI, JRNL AUTH 3 M.Q.KLINKERT,A.BELLELLI JRNL TITL SCHISTOSOMA MANSONI FATTY ACID BINDING PROTEIN: SPECIFICITY JRNL TITL 2 AND FUNCTIONAL CONTROL AS REVEALED BY CRYSTALLOGRAPHIC JRNL TITL 3 STRUCTURE JRNL REF BIOCHEMISTRY V. 43 13000 2004 JRNL REFN ISSN 0006-2960 JRNL PMID 15476393 JRNL DOI 10.1021/BI048505F REMARK 2 REMARK 2 RESOLUTION. 2.40 ANGSTROMS. REMARK 3 REMARK 3 REFINEMENT. REMARK 3 PROGRAM : REFMAC REMARK 3 AUTHORS : MURSHUDOV,SKUBAK,LEBEDEV,PANNU,STEINER, REMARK 3 : NICHOLLS,WINN,LONG,VAGIN REMARK 3 REMARK 3 DATA USED IN REFINEMENT. REMARK 3 RESOLUTION RANGE HIGH (ANGSTROMS) : 2.40 REMARK 3 RESOLUTION RANGE LOW (ANGSTROMS) : 20.00 REMARK 3 DATA CUTOFF (SIGMA(F)) : NULL REMARK 3 COMPLETENESS FOR RANGE (%) : 94.6 REMARK 3 NUMBER OF REFLECTIONS : 5148 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) : 0.217 REMARK 3 R VALUE (WORKING SET) : 0.213 REMARK 3 FREE R VALUE : 0.283 REMARK 3 FREE R VALUE TEST SET SIZE (%) : 4.600 REMARK 3 FREE R VALUE TEST SET COUNT : 246 REMARK 3 REMARK 3 NUMBER OF NON-HYDROGEN ATOMS USED IN REFINEMENT. REMARK 3 PROTEIN ATOMS : 1047 REMARK 3 NUCLEIC ACID ATOMS : 0 REMARK 3 HETEROGEN ATOMS : 22 REMARK 3 SOLVENT ATOMS : 76 REMARK 3 REMARK 3 B VALUES. REMARK 3 FROM WILSON PLOT (A**2) : 55.07 REMARK 3 MEAN B VALUE (OVERALL, A**2) : 45.80 REMARK 3 OVERALL ANISOTROPIC B VALUE. REMARK 3 B11 (A**2) : -1.93000 REMARK 3 B22 (A**2) : -2.27000 REMARK 3 B33 (A**2) : 4.20000 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 ESTIMATED OVERALL COORDINATE ERROR. REMARK 3 ESU BASED ON R VALUE (A): 0.786 REMARK 3 ESU BASED ON FREE R VALUE (A): 0.334 REMARK 3 ESU BASED ON MAXIMUM LIKELIHOOD (A): 0.215 REMARK 3 ESU FOR B VALUES BASED ON MAXIMUM LIKELIHOOD (A**2): NULL REMARK 3 REMARK 3 RMS DEVIATIONS FROM IDEAL VALUES. REMARK 3 DISTANCE RESTRAINTS. RMS SIGMA REMARK 3 BOND LENGTH (A) : NULL ; NULL REMARK 3 ANGLE DISTANCE (A) : NULL ; NULL REMARK 3 INTRAPLANAR 1-4 DISTANCE (A) : NULL ; NULL REMARK 3 H-BOND OR METAL COORDINATION (A) : NULL ; NULL REMARK 3 REMARK 3 PLANE RESTRAINT (A) : NULL ; NULL REMARK 3 CHIRAL-CENTER RESTRAINT (A**3) : NULL ; NULL REMARK 3 REMARK 3 NON-BONDED CONTACT RESTRAINTS. REMARK 3 SINGLE TORSION (A) : NULL ; NULL REMARK 3 MULTIPLE TORSION (A) : NULL ; NULL REMARK 3 H-BOND (X...Y) (A) : NULL ; NULL REMARK 3 H-BOND (X-H...Y) (A) : NULL ; NULL REMARK 3 REMARK 3 CONFORMATIONAL TORSION ANGLE RESTRAINTS. REMARK 3 SPECIFIED (DEGREES) : NULL ; NULL REMARK 3 PLANAR (DEGREES) : NULL ; NULL REMARK 3 STAGGERED (DEGREES) : NULL ; NULL REMARK 3 TRANSVERSE (DEGREES) : NULL ; NULL REMARK 3 REMARK 3 ISOTROPIC THERMAL FACTOR RESTRAINTS. RMS SIGMA REMARK 3 MAIN-CHAIN BOND (A**2) : NULL ; NULL REMARK 3 MAIN-CHAIN ANGLE (A**2) : NULL ; NULL REMARK 3 SIDE-CHAIN BOND (A**2) : NULL ; NULL REMARK 3 SIDE-CHAIN ANGLE (A**2) : NULL ; NULL REMARK 3 REMARK 3 OTHER REFINEMENT REMARKS: NULL REMARK 4 REMARK 4 1VYG COMPLIES WITH FORMAT V. 3.30, 13-JUL-11 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY PDBE ON 29-APR-04. REMARK 100 THE DEPOSITION ID IS D_1290015117. REMARK 200 REMARK 200 EXPERIMENTAL DETAILS REMARK 200 EXPERIMENT TYPE : X-RAY DIFFRACTION REMARK 200 DATE OF DATA COLLECTION : 15-FEB-03 REMARK 200 TEMPERATURE (KELVIN) : 100.0 REMARK 200 PH : 6.00 REMARK 200 NUMBER OF CRYSTALS USED : 1 REMARK 200 REMARK 200 SYNCHROTRON (Y/N) : Y REMARK 200 RADIATION SOURCE : ELETTRA REMARK 200 BEAMLINE : 5.2R REMARK 200 X-RAY GENERATOR MODEL : NULL REMARK 200 MONOCHROMATIC OR LAUE (M/L) : M REMARK 200 WAVELENGTH OR RANGE (A) : 1.0 REMARK 200 MONOCHROMATOR : NULL REMARK 200 OPTICS : NULL REMARK 200 REMARK 200 DETECTOR TYPE : CCD REMARK 200 DETECTOR MANUFACTURER : MARRESEARCH REMARK 200 INTENSITY-INTEGRATION SOFTWARE : DENZO REMARK 200 DATA SCALING SOFTWARE : SCALEPACK REMARK 200 REMARK 200 NUMBER OF UNIQUE REFLECTIONS : 5746 REMARK 200 RESOLUTION RANGE HIGH (A) : 2.400 REMARK 200 RESOLUTION RANGE LOW (A) : 25.000 REMARK 200 REJECTION CRITERIA (SIGMA(I)) : NULL REMARK 200 REMARK 200 OVERALL. REMARK 200 COMPLETENESS FOR RANGE (%) : 95.5 REMARK 200 DATA REDUNDANCY : 5.500 REMARK 200 R MERGE (I) : 0.06700 REMARK 200 R SYM (I) : NULL REMARK 200 <I/SIGMA(I)> FOR THE DATA SET : 19.6000 REMARK 200 REMARK 200 IN THE HIGHEST RESOLUTION SHELL. REMARK 200 HIGHEST RESOLUTION SHELL, RANGE HIGH (A) : 2.40 REMARK 200 HIGHEST RESOLUTION SHELL, RANGE LOW (A) : 2.49 REMARK 200 COMPLETENESS FOR SHELL (%) : 86.9 REMARK 200 DATA REDUNDANCY IN SHELL : 5.50 REMARK 200 R MERGE FOR SHELL (I) : 0.17000 REMARK 200 R SYM FOR SHELL (I) : NULL REMARK 200 <I/SIGMA(I)> FOR SHELL : 8.800 REMARK 200 REMARK 200 DIFFRACTION PROTOCOL: SINGLE WAVELENGTH REMARK 200 METHOD USED TO DETERMINE THE STRUCTURE: MOLECULAR REPLACEMENT REMARK 200 SOFTWARE USED: AMORE REMARK 200 STARTING MODEL: PDBE ENTRY 1VYF REMARK 200 REMARK 200 REMARK: NULL REMARK 280 REMARK 280 CRYSTAL REMARK 280 SOLVENT CONTENT, VS (%): 37.10 REMARK 280 MATTHEWS COEFFICIENT, VM (ANGSTROMS**3/DA): 2.28 REMARK 280 REMARK 280 CRYSTALLIZATION CONDITIONS: 30% PEG 8K,0.1M MES, 0.2M NA ACETATE, REMARK 280 5MM BME, PH 6.00 REMARK 290 REMARK 290 CRYSTALLOGRAPHIC SYMMETRY REMARK 290 SYMMETRY OPERATORS FOR SPACE GROUP: P 21 21 2 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 21.14500 REMARK 290 SMTRY2 3 0.000000 1.000000 0.000000 45.50500 REMARK 290 SMTRY3 3 0.000000 0.000000 -1.000000 0.00000 REMARK 290 SMTRY1 4 1.000000 0.000000 0.000000 21.14500 REMARK 290 SMTRY2 4 0.000000 -1.000000 0.000000 45.50500 REMARK 290 SMTRY3 4 0.000000 0.000000 -1.000000 0.00000 REMARK 290 REMARK 290 REMARK: NULL REMARK 300 REMARK 300 BIOMOLECULE: 1 REMARK 300 SEE REMARK 350 FOR THE AUTHOR PROVIDED AND/OR PROGRAM REMARK 300 GENERATED ASSEMBLY INFORMATION FOR THE STRUCTURE IN REMARK 300 THIS ENTRY. THE REMARK MAY ALSO PROVIDE INFORMATION ON REMARK 300 BURIED SURFACE AREA. REMARK 350 REMARK 350 COORDINATES FOR A COMPLETE MULTIMER REPRESENTING THE KNOWN REMARK 350 BIOLOGICALLY SIGNIFICANT OLIGOMERIZATION STATE OF THE REMARK 350 MOLECULE CAN BE GENERATED BY APPLYING BIOMT TRANSFORMATIONS REMARK 350 GIVEN BELOW. BOTH NON-CRYSTALLOGRAPHIC AND REMARK 350 CRYSTALLOGRAPHIC OPERATIONS ARE GIVEN. REMARK 350 REMARK 350 BIOMOLECULE: 1 REMARK 350 AUTHOR DETERMINED BIOLOGICAL UNIT: MONOMERIC REMARK 350 SOFTWARE DETERMINED QUATERNARY STRUCTURE: MONOMERIC REMARK 350 SOFTWARE USED: PQS 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 500 REMARK 500 GEOMETRY AND STEREOCHEMISTRY REMARK 500 SUBTOPIC: CLOSE CONTACTS IN SAME ASYMMETRIC UNIT REMARK 500 REMARK 500 THE FOLLOWING ATOMS ARE IN CLOSE CONTACT. REMARK 500 REMARK 500 ATM1 RES C SSEQI ATM2 RES C SSEQI DISTANCE REMARK 500 O HOH A 2021 O HOH A 2029 1.95 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 88.12 33.48 REMARK 500 MET A 1 41.14 79.36 REMARK 500 ASN A 15 30.13 72.59 REMARK 500 PHE A 57 -70.86 -67.16 REMARK 500 REMARK 500 REMARK: NULL REMARK 525 REMARK 525 SOLVENT REMARK 525 REMARK 525 THE SOLVENT MOLECULES HAVE CHAIN IDENTIFIERS THAT REMARK 525 INDICATE THE POLYMER CHAIN WITH WHICH THEY ARE MOST REMARK 525 CLOSELY ASSOCIATED. THE REMARK LISTS ALL THE SOLVENT REMARK 525 MOLECULES WHICH ARE MORE THAN 5A AWAY FROM THE REMARK 525 NEAREST POLYMER CHAIN (M = MODEL NUMBER; REMARK 525 RES=RESIDUE NAME; C=CHAIN IDENTIFIER; SSEQ=SEQUENCE REMARK 525 NUMBER; I=INSERTION CODE): REMARK 525 REMARK 525 M RES CSSEQI REMARK 525 HOH A2002 DISTANCE = 6.47 ANGSTROMS REMARK 650 REMARK 650 HELIX REMARK 650 THESE HELIX BOUNDARIES WERE PROVIDED BY THE DEPOSITOR REMARK 650 HELIX 1 PHE A 16 LEU A 23 REMARK 650 HELIX 2 ALA A 28 THR A 35 REMARK 700 REMARK 700 SHEET REMARK 700 THESE STRAND BOUNDARIES WERE PROVIDED BY THE DEPOSITOR REMARK 700 STRAND A GLY A 6 HIS A 14 REMARK 700 STRAND B THR A 39 ASP A 45 REMARK 700 STRAND C LYS A 48 SER A 55 REMARK 700 STRAND D LYS A 58 CYS A 62 REMARK 700 STRAND E PHE A 70 LYS A 73 REMARK 700 STRAND F ASN A 79 LYS A 86 REMARK 700 STRAND G LYS A 91 ASP A 98 REMARK 700 STRAND H ASN A 101 ASP A 110 REMARK 700 STRAND I THR A 113 VAL A 120 REMARK 700 STRAND J ILE A 126 ARG A 131 REMARK 800 REMARK 800 SITE REMARK 800 SITE_IDENTIFIER: AC1 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE ACD A1134 REMARK 900 REMARK 900 RELATED ENTRIES REMARK 900 RELATED ID: 1VYF RELATED DB: PDB REMARK 900 SCHISTOSOMA MANSONI FATTY ACID BINDING PROTEIN IN COMPLEX WITH REMARK 900 OLEIC ACID REMARK 999 REMARK 999 SEQUENCE REMARK 999 2 EXTRA AMINO ACIDS AT THE N-TERMINUS DBREF 1VYG A -1 0 PDB 1VYG 1VYG -1 0 DBREF 1VYG A 1 133 UNP P29498 FABP_SCHMA 1 133 SEQRES 1 A 135 GLY SER MET SER SER PHE LEU GLY LYS TRP LYS LEU SER SEQRES 2 A 135 GLU SER HIS ASN PHE ASP ALA VAL MET SER LYS LEU GLY SEQRES 3 A 135 VAL SER TRP ALA THR ARG GLN ILE GLY ASN THR VAL THR SEQRES 4 A 135 PRO THR VAL THR PHE THR MET ASP GLY ASP LYS MET THR SEQRES 5 A 135 MET LEU THR GLU SER THR PHE LYS ASN LEU SER CYS THR SEQRES 6 A 135 PHE LYS PHE GLY GLU GLU PHE ASP GLU LYS THR SER ASP SEQRES 7 A 135 GLY ARG ASN VAL LYS SER VAL VAL GLU LYS ASN SER GLU SEQRES 8 A 135 SER LYS LEU THR GLN THR GLN VAL ASP PRO LYS ASN THR SEQRES 9 A 135 THR VAL ILE VAL ARG GLU VAL ASP GLY ASP THR MET LYS SEQRES 10 A 135 THR THR VAL THR VAL GLY ASP VAL THR ALA ILE ARG ASN SEQRES 11 A 135 TYR LYS ARG LEU SER HET ACD A1134 22 HETNAM ACD ARACHIDONIC ACID FORMUL 2 ACD C20 H32 O2 FORMUL 3 HOH *76(H2 O) HELIX 1 1 ASN A 15 LYS A 22 1 8 HELIX 2 2 SER A 26 VAL A 36 1 11 SHEET 1 AA10 ASN A 59 PHE A 64 0 SHEET 2 AA10 LYS A 48 GLU A 54 -1 O MET A 49 N PHE A 64 SHEET 3 AA10 THR A 39 ASP A 45 -1 O THR A 39 N GLU A 54 SHEET 4 AA10 GLY A 6 HIS A 14 -1 O GLY A 6 N PHE A 42 SHEET 5 AA10 VAL A 123 ARG A 131 -1 O ILE A 126 N HIS A 14 SHEET 6 AA10 THR A 113 VAL A 120 -1 O MET A 114 N TYR A 129 SHEET 7 AA10 THR A 102 ASP A 110 -1 O VAL A 104 N THR A 119 SHEET 8 AA10 LYS A 91 VAL A 97 -1 O LEU A 92 N ARG A 107 SHEET 9 AA10 ASN A 79 LYS A 86 -1 O LYS A 81 N VAL A 97 SHEET 10 AA10 PHE A 70 LYS A 73 -1 O PHE A 70 N SER A 82 SITE 1 AC1 16 MET A 20 LEU A 23 VAL A 25 GLY A 33 SITE 2 AC1 16 SER A 55 LYS A 58 SER A 75 ASP A 76 SITE 3 AC1 16 ARG A 78 ILE A 105 ARG A 107 THR A 116 SITE 4 AC1 16 ARG A 127 TYR A 129 HOH A2075 HOH A2076 CRYST1 42.290 91.010 35.330 90.00 90.00 90.00 P 21 21 2 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 0.023646 0.000000 0.000000 0.00000 SCALE2 0.000000 0.010988 0.000000 0.00000 SCALE3 0.000000 0.000000 0.028304 0.00000