HEADER LIPID BINDING PROTEIN 26-JUL-05 2AG4 TITLE CRYSTAL STRUCTURE ANALYSIS OF GM2-ACTIVATOR PROTEIN COMPLEXED WITH TITLE 2 PHOSPHATIDYLCHOLINE COMPND MOL_ID: 1; COMPND 2 MOLECULE: GANGLIOSIDE GM2 ACTIVATOR; COMPND 3 CHAIN: A, B; COMPND 4 SYNONYM: GM2-AP; COMPND 5 ENGINEERED: YES SOURCE MOL_ID: 1; SOURCE 2 ORGANISM_SCIENTIFIC: HOMO SAPIENS; SOURCE 3 ORGANISM_COMMON: HUMAN; SOURCE 4 ORGANISM_TAXID: 9606; SOURCE 5 ORGAN: LIVER, BRAIN, KIDNEY; SOURCE 6 GENE: GM2A; SOURCE 7 EXPRESSION_SYSTEM: ESCHERICHIA COLI BL21(DE3); SOURCE 8 EXPRESSION_SYSTEM_TAXID: 469008; SOURCE 9 EXPRESSION_SYSTEM_STRAIN: BL21(DE3); SOURCE 10 EXPRESSION_SYSTEM_VECTOR_TYPE: PLASMID; SOURCE 11 EXPRESSION_SYSTEM_PLASMID: PET16B (NOVAGEN) KEYWDS COMPLEX OF SINGLE CHAIN LIPID AND FATTY ACIDS, LIPID BINDING PROTEIN EXPDTA X-RAY DIFFRACTION AUTHOR C.S.WRIGHT,L.Z.MI,S.LEE,F.RASTINEJAD REVDAT 4 13-JUL-11 2AG4 1 VERSN REVDAT 3 08-SEP-09 2AG4 1 HETNAM REVDAT 2 24-FEB-09 2AG4 1 VERSN REVDAT 1 25-OCT-05 2AG4 0 JRNL AUTH C.S.WRIGHT,L.Z.MI,S.LEE,F.RASTINEJAD JRNL TITL CRYSTAL STRUCTURE ANALYSIS OF JRNL TITL 2 PHOSPHATIDYLCHOLINE-GM2-ACTIVATOR PRODUCT COMPLEXES: JRNL TITL 3 EVIDENCE FOR HYDROLASE ACTIVITY. JRNL REF BIOCHEMISTRY V. 44 13510 2005 JRNL REFN ISSN 0006-2960 JRNL PMID 16216074 JRNL DOI 10.1021/BI050668W REMARK 1 REMARK 1 REFERENCE 1 REMARK 1 AUTH C.S.WRIGHT,S.C.LI,F.RASTINEJAD REMARK 1 TITL CRYSTAL STRUCTURE OF HUMAN GM2- ACTIVATOR PROTEIN WITH A REMARK 1 TITL 2 NOVEL BETA-CUP TOPOLOGY REMARK 1 REF J.MOL.BIOL. V. 304 411 2000 REMARK 1 REFN ISSN 0022-2836 REMARK 1 PMID 11090283 REMARK 1 DOI 10.1006/JMBI.2000.4225 REMARK 1 REFERENCE 2 REMARK 1 AUTH C.S.WRIGHT,Q.ZHAO,F.RASTINEJAD REMARK 1 TITL STRUCTURE ANALYSIS OF LIPID COMPLEXES OF GM2-ACTIVATOR REMARK 1 TITL 2 PROTEIN REMARK 1 REF J.MOL.BIOL. V. 331 951 2003 REMARK 1 REFN ISSN 0022-2836 REMARK 1 PMID 12909021 REMARK 1 DOI 10.1016/S0022-2836(03)00794-0 REMARK 1 REFERENCE 3 REMARK 1 AUTH C.S.WRIGHT,L.Z.MI,F.RASTINEJAD REMARK 1 TITL EVIDENCE FOR LIPID PACKAGING IN THE CRYSTAL STRUCTURE OF THE REMARK 1 TITL 2 GM2-ACTIVATOR COMPLEX WITH PLATELET ACTIVATING FACTOR REMARK 1 REF J.MOL.BIOL. V. 342 585 2004 REMARK 1 REFN ISSN 0022-2836 REMARK 2 REMARK 2 RESOLUTION. 1.80 ANGSTROMS. REMARK 3 REMARK 3 REFINEMENT. REMARK 3 PROGRAM : CNS 1.0 REMARK 3 AUTHORS : BRUNGER,ADAMS,CLORE,DELANO,GROS,GROSSE- REMARK 3 : KUNSTLEVE,JIANG,KUSZEWSKI,NILGES,PANNU, REMARK 3 : READ,RICE,SIMONSON,WARREN REMARK 3 REMARK 3 REFINEMENT TARGET : NULL REMARK 3 REMARK 3 DATA USED IN REFINEMENT. REMARK 3 RESOLUTION RANGE HIGH (ANGSTROMS) : 1.80 REMARK 3 RESOLUTION RANGE LOW (ANGSTROMS) : 19.85 REMARK 3 DATA CUTOFF (SIGMA(F)) : 1.000 REMARK 3 DATA CUTOFF HIGH (ABS(F)) : 973814.230 REMARK 3 DATA CUTOFF LOW (ABS(F)) : 0.0000 REMARK 3 COMPLETENESS (WORKING+TEST) (%) : 95.4 REMARK 3 NUMBER OF REFLECTIONS : 37646 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 SET) : 0.188 REMARK 3 FREE R VALUE : 0.224 REMARK 3 FREE R VALUE TEST SET SIZE (%) : 8.200 REMARK 3 FREE R VALUE TEST SET COUNT : 3099 REMARK 3 ESTIMATED ERROR OF FREE R VALUE : 0.004 REMARK 3 REMARK 3 FIT IN THE HIGHEST RESOLUTION BIN. REMARK 3 TOTAL NUMBER OF BINS USED : 6 REMARK 3 BIN RESOLUTION RANGE HIGH (A) : 1.80 REMARK 3 BIN RESOLUTION RANGE LOW (A) : 1.91 REMARK 3 BIN COMPLETENESS (WORKING+TEST) (%) : 90.90 REMARK 3 REFLECTIONS IN BIN (WORKING SET) : 5441 REMARK 3 BIN R VALUE (WORKING SET) : 0.2100 REMARK 3 BIN FREE R VALUE : 0.2460 REMARK 3 BIN FREE R VALUE TEST SET SIZE (%) : 8.20 REMARK 3 BIN FREE R VALUE TEST SET COUNT : 485 REMARK 3 ESTIMATED ERROR OF BIN FREE R VALUE : 0.011 REMARK 3 REMARK 3 NUMBER OF NON-HYDROGEN ATOMS USED IN REFINEMENT. REMARK 3 PROTEIN ATOMS : 2496 REMARK 3 NUCLEIC ACID ATOMS : 0 REMARK 3 HETEROGEN ATOMS : 158 REMARK 3 SOLVENT ATOMS : 639 REMARK 3 REMARK 3 B VALUES. REMARK 3 FROM WILSON PLOT (A**2) : 21.50 REMARK 3 MEAN B VALUE (OVERALL, A**2) : 26.70 REMARK 3 OVERALL ANISOTROPIC B VALUE. REMARK 3 B11 (A**2) : -0.38000 REMARK 3 B22 (A**2) : -0.97000 REMARK 3 B33 (A**2) : 1.35000 REMARK 3 B12 (A**2) : 0.00000 REMARK 3 B13 (A**2) : -1.81000 REMARK 3 B23 (A**2) : 0.00000 REMARK 3 REMARK 3 ESTIMATED COORDINATE ERROR. REMARK 3 ESD FROM LUZZATI PLOT (A) : 0.18 REMARK 3 ESD FROM SIGMAA (A) : 0.06 REMARK 3 LOW RESOLUTION CUTOFF (A) : 5.00 REMARK 3 REMARK 3 CROSS-VALIDATED ESTIMATED COORDINATE ERROR. REMARK 3 ESD FROM C-V LUZZATI PLOT (A) : 0.22 REMARK 3 ESD FROM C-V SIGMAA (A) : 0.08 REMARK 3 REMARK 3 RMS DEVIATIONS FROM IDEAL VALUES. REMARK 3 BOND LENGTHS (A) : 0.012 REMARK 3 BOND ANGLES (DEGREES) : 1.50 REMARK 3 DIHEDRAL ANGLES (DEGREES) : 26.10 REMARK 3 IMPROPER ANGLES (DEGREES) : 1.12 REMARK 3 REMARK 3 ISOTROPIC THERMAL MODEL : RESTRAINED REMARK 3 REMARK 3 ISOTROPIC THERMAL FACTOR RESTRAINTS. RMS SIGMA REMARK 3 MAIN-CHAIN BOND (A**2) : 2.360 ; 1.500 REMARK 3 MAIN-CHAIN ANGLE (A**2) : 3.440 ; 2.000 REMARK 3 SIDE-CHAIN BOND (A**2) : 12.170; 2.000 REMARK 3 SIDE-CHAIN ANGLE (A**2) : 6.990 ; 2.500 REMARK 3 REMARK 3 BULK SOLVENT MODELING. REMARK 3 METHOD USED : FLAT MODEL REMARK 3 KSOL : 0.35 REMARK 3 BSOL : 85.95 REMARK 3 REMARK 3 NCS MODEL : NULL REMARK 3 REMARK 3 NCS RESTRAINTS. RMS SIGMA/WEIGHT REMARK 3 GROUP 1 POSITIONAL (A) : NULL ; NULL REMARK 3 GROUP 1 B-FACTOR (A**2) : NULL ; NULL REMARK 3 REMARK 3 PARAMETER FILE 1 : PROTEIN_REP.PARAM REMARK 3 PARAMETER FILE 2 : ION.PARAM REMARK 3 PARAMETER FILE 3 : SOLVENT_REP.PARAM REMARK 3 PARAMETER FILE 4 : LPC_OLA_MYR_LAU_EPE.PARAM REMARK 3 PARAMETER FILE 5 : NULL REMARK 3 TOPOLOGY FILE 1 : PROTEIN.TOP REMARK 3 TOPOLOGY FILE 2 : ION.TOP REMARK 3 TOPOLOGY FILE 3 : SOLVENT.TOP REMARK 3 TOPOLOGY FILE 4 : LPC_OLA_MYR_LAU_EPE.TOP REMARK 3 TOPOLOGY FILE 5 : NULL REMARK 3 REMARK 3 OTHER REFINEMENT REMARKS: NULL REMARK 4 REMARK 4 2AG4 COMPLIES WITH FORMAT V. 3.15, 01-DEC-08 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY RCSB ON 09-AUG-05. REMARK 100 THE RCSB ID CODE IS RCSB033851. REMARK 200 REMARK 200 EXPERIMENTAL DETAILS REMARK 200 EXPERIMENT TYPE : X-RAY DIFFRACTION REMARK 200 DATE OF DATA COLLECTION : 23-AUG-03 REMARK 200 TEMPERATURE (KELVIN) : 123 REMARK 200 PH : 7.3 REMARK 200 NUMBER OF CRYSTALS USED : 1 REMARK 200 REMARK 200 SYNCHROTRON (Y/N) : Y REMARK 200 RADIATION SOURCE : APS REMARK 200 BEAMLINE : 22-ID REMARK 200 X-RAY GENERATOR MODEL : NULL REMARK 200 MONOCHROMATIC OR LAUE (M/L) : M REMARK 200 WAVELENGTH OR RANGE (A) : 0.97943 REMARK 200 MONOCHROMATOR : NULL REMARK 200 OPTICS : NULL REMARK 200 REMARK 200 DETECTOR TYPE : CCD REMARK 200 DETECTOR MANUFACTURER : MAR CCD 165 MM REMARK 200 INTENSITY-INTEGRATION SOFTWARE : HKL-2000 REMARK 200 DATA SCALING SOFTWARE : SCALEPACK REMARK 200 REMARK 200 NUMBER OF UNIQUE REFLECTIONS : 52552 REMARK 200 RESOLUTION RANGE HIGH (A) : 1.600 REMARK 200 RESOLUTION RANGE LOW (A) : 28.000 REMARK 200 REJECTION CRITERIA (SIGMA(I)) : 1.000 REMARK 200 REMARK 200 OVERALL. REMARK 200 COMPLETENESS FOR RANGE (%) : 93.8 REMARK 200 DATA REDUNDANCY : 3.400 REMARK 200 R MERGE (I) : 0.04300 REMARK 200 R SYM (I) : NULL REMARK 200 FOR THE DATA SET : 22.0000 REMARK 200 REMARK 200 IN THE HIGHEST RESOLUTION SHELL. REMARK 200 HIGHEST RESOLUTION SHELL, RANGE HIGH (A) : 1.60 REMARK 200 HIGHEST RESOLUTION SHELL, RANGE LOW (A) : 1.66 REMARK 200 COMPLETENESS FOR SHELL (%) : 89.7 REMARK 200 DATA REDUNDANCY IN SHELL : 3.30 REMARK 200 R MERGE FOR SHELL (I) : 0.31500 REMARK 200 R SYM FOR SHELL (I) : NULL REMARK 200 FOR SHELL : 3.900 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: 1PU5 MONOMER B REMARK 200 REMARK 200 REMARK: NULL REMARK 280 REMARK 280 CRYSTAL REMARK 280 SOLVENT CONTENT, VS (%): 47.90 REMARK 280 MATTHEWS COEFFICIENT, VM (ANGSTROMS**3/DA): 3.02 REMARK 280 REMARK 280 CRYSTALLIZATION CONDITIONS: PEG 4000, HEPES BUFFER, ISOPROPANOL, REMARK 280 PH 7.3, VAPOR DIFFUSION, HANGING DROP, TEMPERATURE 278K REMARK 290 REMARK 290 CRYSTALLOGRAPHIC SYMMETRY REMARK 290 SYMMETRY OPERATORS FOR SPACE GROUP: P 1 21 1 REMARK 290 REMARK 290 SYMOP SYMMETRY REMARK 290 NNNMMM OPERATOR REMARK 290 1555 X,Y,Z REMARK 290 2555 -X,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 32.04500 REMARK 290 SMTRY3 2 0.000000 0.000000 -1.000000 0.00000 REMARK 290 REMARK 290 REMARK: NULL REMARK 300 REMARK 300 BIOMOLECULE: 1, 2 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 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 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 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 B 3896 O HOH B 3913 0.00 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 CYS A 107 36.56 -149.69 REMARK 500 ASP B 11 72.36 -150.70 REMARK 500 CYS B 107 34.42 -150.97 REMARK 500 PRO B 126 -173.17 -54.54 REMARK 500 ASP B 127 41.85 -104.17 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 A3790 DISTANCE = 5.50 ANGSTROMS REMARK 525 HOH A3818 DISTANCE = 7.27 ANGSTROMS REMARK 525 HOH A3832 DISTANCE = 5.44 ANGSTROMS REMARK 525 HOH A3853 DISTANCE = 6.19 ANGSTROMS REMARK 525 HOH A3856 DISTANCE = 7.84 ANGSTROMS REMARK 525 HOH A3883 DISTANCE = 5.40 ANGSTROMS REMARK 525 HOH A3884 DISTANCE = 5.78 ANGSTROMS REMARK 525 HOH A3886 DISTANCE = 6.97 ANGSTROMS REMARK 525 HOH A3887 DISTANCE = 8.84 ANGSTROMS REMARK 525 HOH A3888 DISTANCE = 8.50 ANGSTROMS REMARK 525 HOH A3890 DISTANCE = 5.67 ANGSTROMS REMARK 525 HOH A3892 DISTANCE = 5.15 ANGSTROMS REMARK 525 HOH A3893 DISTANCE = 6.55 ANGSTROMS REMARK 525 HOH A3894 DISTANCE = 7.76 ANGSTROMS REMARK 525 HOH A3895 DISTANCE = 6.17 ANGSTROMS REMARK 525 HOH A3908 DISTANCE = 5.34 ANGSTROMS REMARK 525 HOH A3926 DISTANCE = 8.24 ANGSTROMS REMARK 525 HOH B3770 DISTANCE = 5.18 ANGSTROMS REMARK 525 HOH B3790 DISTANCE = 5.70 ANGSTROMS REMARK 525 HOH B3833 DISTANCE = 5.26 ANGSTROMS REMARK 525 HOH B3873 DISTANCE = 6.84 ANGSTROMS REMARK 525 HOH B3881 DISTANCE = 5.26 ANGSTROMS REMARK 525 HOH B3885 DISTANCE = 5.45 ANGSTROMS REMARK 525 HOH B3888 DISTANCE = 6.92 ANGSTROMS REMARK 525 HOH B3895 DISTANCE = 5.19 ANGSTROMS REMARK 525 HOH B3907 DISTANCE = 12.65 ANGSTROMS REMARK 525 HOH B3910 DISTANCE = 5.70 ANGSTROMS REMARK 525 HOH B3915 DISTANCE = 5.15 ANGSTROMS REMARK 525 HOH B3919 DISTANCE = 5.30 ANGSTROMS REMARK 525 HOH B3922 DISTANCE = 5.91 ANGSTROMS REMARK 525 HOH B3928 DISTANCE = 5.24 ANGSTROMS REMARK 525 HOH B3939 DISTANCE = 6.25 ANGSTROMS REMARK 525 HOH B3943 DISTANCE = 8.21 ANGSTROMS REMARK 525 HOH B3944 DISTANCE = 5.33 ANGSTROMS REMARK 525 HOH B3954 DISTANCE = 5.22 ANGSTROMS REMARK 525 HOH B3960 DISTANCE = 5.97 ANGSTROMS REMARK 525 HOH B3961 DISTANCE = 7.57 ANGSTROMS REMARK 525 HOH B3962 DISTANCE = 6.53 ANGSTROMS REMARK 525 HOH B3964 DISTANCE = 5.07 ANGSTROMS REMARK 525 HOH B3967 DISTANCE = 6.99 ANGSTROMS REMARK 525 HOH B3968 DISTANCE = 5.50 ANGSTROMS REMARK 615 REMARK 615 ZERO OCCUPANCY ATOM REMARK 615 THE FOLLOWING RESIDUES HAVE ATOMS MODELED WITH ZERO REMARK 615 OCCUPANCY. THE LOCATION AND PROPERTIES OF THESE ATOMS REMARK 615 MAY NOT BE RELIABLE. (M=MODEL NUMBER; RES=RESIDUE NAME; REMARK 615 C=CHAIN IDENTIFIER; SSEQ=SEQUENCE NUMBER; I=INSERTION CODE): REMARK 615 M RES C SSEQI REMARK 615 LP3 B 2342 REMARK 615 OLA A 3628 REMARK 615 OLA B 3629 REMARK 800 REMARK 800 SITE REMARK 800 SITE_IDENTIFIER: AC1 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE LP3 A 2341 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC2 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE LP3 B 2342 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC3 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE OLA A 3628 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC4 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE OLA B 3629 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC5 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE IPA A 1501 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC6 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE IPA A 1502 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC7 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE IPA A 1503 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC8 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE IPA A 1506 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC9 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE IPA B 1505 REMARK 800 REMARK 800 SITE_IDENTIFIER: BC1 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE IPA B 1507 REMARK 800 REMARK 800 SITE_IDENTIFIER: BC2 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE IPA B 1510 REMARK 800 REMARK 800 SITE_IDENTIFIER: BC3 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE IPA B 1512 REMARK 800 REMARK 800 SITE_IDENTIFIER: BC4 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE IPA B 1513 REMARK 900 REMARK 900 RELATED ENTRIES REMARK 900 RELATED ID: 1G13 RELATED DB: PDB REMARK 900 APO-PROTEIN STRUCTURE AT PH7.6 REMARK 900 RELATED ID: 1PUB RELATED DB: PDB REMARK 900 APO-PROTEIN STRUCTURE AT PH 5.5 WITH DIFFERENT CELL REMARK 900 RELATED ID: 1PU5 RELATED DB: PDB REMARK 900 SAME PROTEIN COMPLEXED WITH GM2 GANGLIOSIDE REMARK 900 RELATED ID: 1TJJ RELATED DB: PDB REMARK 900 SAME PROTEIN COMPLEXED WITH PLATELET ACTIVATING FACTOR DBREF 2AG4 A 3 164 UNP P17900 SAP3_HUMAN 32 193 DBREF 2AG4 B 3 164 UNP P17900 SAP3_HUMAN 32 193 SEQADV 2AG4 HIS A 1 UNP P17900 CLONING ARTIFACT SEQADV 2AG4 MET A 2 UNP P17900 CLONING ARTIFACT SEQADV 2AG4 HIS B 1 UNP P17900 CLONING ARTIFACT SEQADV 2AG4 MET B 2 UNP P17900 CLONING ARTIFACT SEQRES 1 A 164 HIS MET SER SER PHE SER TRP ASP ASN CYS ASP GLU GLY SEQRES 2 A 164 LYS ASP PRO ALA VAL ILE ARG SER LEU THR LEU GLU PRO SEQRES 3 A 164 ASP PRO ILE VAL VAL PRO GLY ASN VAL THR LEU SER VAL SEQRES 4 A 164 VAL GLY SER THR SER VAL PRO LEU SER SER PRO LEU LYS SEQRES 5 A 164 VAL ASP LEU VAL LEU GLU LYS GLU VAL ALA GLY LEU TRP SEQRES 6 A 164 ILE LYS ILE PRO CYS THR ASP TYR ILE GLY SER CYS THR SEQRES 7 A 164 PHE GLU HIS PHE CYS ASP VAL LEU ASP MET LEU ILE PRO SEQRES 8 A 164 THR GLY GLU PRO CYS PRO GLU PRO LEU ARG THR TYR GLY SEQRES 9 A 164 LEU PRO CYS HIS CYS PRO PHE LYS GLU GLY THR TYR SER SEQRES 10 A 164 LEU PRO LYS SER GLU PHE VAL VAL PRO ASP LEU GLU LEU SEQRES 11 A 164 PRO SER TRP LEU THR THR GLY ASN TYR ARG ILE GLU SER SEQRES 12 A 164 VAL LEU SER SER SER GLY LYS ARG LEU GLY CYS ILE LYS SEQRES 13 A 164 ILE ALA ALA SER LEU LYS GLY ILE SEQRES 1 B 164 HIS MET SER SER PHE SER TRP ASP ASN CYS ASP GLU GLY SEQRES 2 B 164 LYS ASP PRO ALA VAL ILE ARG SER LEU THR LEU GLU PRO SEQRES 3 B 164 ASP PRO ILE VAL VAL PRO GLY ASN VAL THR LEU SER VAL SEQRES 4 B 164 VAL GLY SER THR SER VAL PRO LEU SER SER PRO LEU LYS SEQRES 5 B 164 VAL ASP LEU VAL LEU GLU LYS GLU VAL ALA GLY LEU TRP SEQRES 6 B 164 ILE LYS ILE PRO CYS THR ASP TYR ILE GLY SER CYS THR SEQRES 7 B 164 PHE GLU HIS PHE CYS ASP VAL LEU ASP MET LEU ILE PRO SEQRES 8 B 164 THR GLY GLU PRO CYS PRO GLU PRO LEU ARG THR TYR GLY SEQRES 9 B 164 LEU PRO CYS HIS CYS PRO PHE LYS GLU GLY THR TYR SER SEQRES 10 B 164 LEU PRO LYS SER GLU PHE VAL VAL PRO ASP LEU GLU LEU SEQRES 11 B 164 PRO SER TRP LEU THR THR GLY ASN TYR ARG ILE GLU SER SEQRES 12 B 164 VAL LEU SER SER SER GLY LYS ARG LEU GLY CYS ILE LYS SEQRES 13 B 164 ILE ALA ALA SER LEU LYS GLY ILE HET LP3 A2341 35 HET LP3 B2342 35 HET OLA A3628 20 HET OLA B3629 20 HET IPA A1501 4 HET IPA A1502 4 HET IPA A1503 4 HET IPA B1504 4 HET IPA A1506 4 HET IPA B1505 4 HET IPA B1507 4 HET IPA A1508 4 HET IPA B1510 4 HET IPA B1511 4 HET IPA B1512 4 HET IPA B1513 4 HETNAM LP3 (7R)-4,7-DIHYDROXY-N,N,N-TRIMETHYL-10-OXO-3,5,9-TRIOXA- HETNAM 2 LP3 4-PHOSPHAHEPTACOSAN-1-AMINIUM 4-OXIDE HETNAM OLA OLEIC ACID HETNAM IPA ISOPROPYL ALCOHOL HETSYN IPA 2-PROPANOL FORMUL 3 LP3 2(C26 H55 N O7 P 1+) FORMUL 5 OLA 2(C18 H34 O2) FORMUL 7 IPA 12(C3 H8 O) FORMUL 19 HOH *639(H2 O) HELIX 1 1 HIS A 81 ILE A 90 1 10 HELIX 2 2 PRO A 99 GLY A 104 1 6 HELIX 3 3 HIS B 81 ILE B 90 1 10 HELIX 4 4 PRO B 99 GLY B 104 1 6 SHEET 1 A 5 SER A 6 ASN A 9 0 SHEET 2 A 5 LYS A 150 GLY A 163 -1 O ALA A 158 N SER A 6 SHEET 3 A 5 GLY A 137 SER A 147 -1 N LEU A 145 O LEU A 152 SHEET 4 A 5 LYS A 52 VAL A 61 -1 N GLU A 58 O ARG A 140 SHEET 5 A 5 LEU A 64 LYS A 67 -1 O LEU A 64 N VAL A 61 SHEET 1 B 5 ILE A 29 VAL A 31 0 SHEET 2 B 5 LYS A 150 GLY A 163 1 O SER A 160 N ILE A 29 SHEET 3 B 5 GLY A 137 SER A 147 -1 N LEU A 145 O LEU A 152 SHEET 4 B 5 LYS A 52 VAL A 61 -1 N GLU A 58 O ARG A 140 SHEET 5 B 5 THR A 78 PHE A 79 -1 O PHE A 79 N VAL A 53 SHEET 1 C 3 ALA A 17 GLU A 25 0 SHEET 2 C 3 GLY A 33 THR A 43 -1 O VAL A 40 N ARG A 20 SHEET 3 C 3 GLY A 114 VAL A 125 -1 O TYR A 116 N GLY A 41 SHEET 1 D 5 SER B 6 ASN B 9 0 SHEET 2 D 5 LYS B 150 LYS B 162 -1 O ALA B 158 N SER B 6 SHEET 3 D 5 GLY B 137 SER B 147 -1 N LEU B 145 O LEU B 152 SHEET 4 D 5 LYS B 52 VAL B 61 -1 N GLU B 60 O ASN B 138 SHEET 5 D 5 LEU B 64 ILE B 68 -1 O LEU B 64 N VAL B 61 SHEET 1 E 5 ILE B 29 VAL B 30 0 SHEET 2 E 5 LYS B 150 LYS B 162 1 O LYS B 162 N ILE B 29 SHEET 3 E 5 GLY B 137 SER B 147 -1 N LEU B 145 O LEU B 152 SHEET 4 E 5 LYS B 52 VAL B 61 -1 N GLU B 60 O ASN B 138 SHEET 5 E 5 THR B 78 PHE B 79 -1 O PHE B 79 N VAL B 53 SHEET 1 F 3 ALA B 17 GLU B 25 0 SHEET 2 F 3 GLY B 33 THR B 43 -1 O VAL B 40 N ARG B 20 SHEET 3 F 3 GLY B 114 VAL B 125 -1 O TYR B 116 N GLY B 41 SSBOND 1 CYS A 10 CYS A 154 1555 1555 2.05 SSBOND 2 CYS A 70 CYS A 77 1555 1555 2.04 SSBOND 3 CYS A 83 CYS A 109 1555 1555 2.04 SSBOND 4 CYS A 96 CYS A 107 1555 1555 2.05 SSBOND 5 CYS B 10 CYS B 154 1555 1555 2.04 SSBOND 6 CYS B 70 CYS B 77 1555 1555 2.05 SSBOND 7 CYS B 83 CYS B 109 1555 1555 2.04 SSBOND 8 CYS B 96 CYS B 107 1555 1555 2.04 CISPEP 1 GLU A 25 PRO A 26 0 -0.08 CISPEP 2 ASP A 27 PRO A 28 0 0.11 CISPEP 3 VAL A 31 PRO A 32 0 -0.26 CISPEP 4 SER A 49 PRO A 50 0 0.24 CISPEP 5 GLU A 98 PRO A 99 0 0.29 CISPEP 6 CYS A 109 PRO A 110 0 -0.35 CISPEP 7 GLU B 25 PRO B 26 0 -0.21 CISPEP 8 ASP B 27 PRO B 28 0 0.19 CISPEP 9 VAL B 31 PRO B 32 0 -0.08 CISPEP 10 SER B 49 PRO B 50 0 0.16 CISPEP 11 GLU B 98 PRO B 99 0 0.29 CISPEP 12 CYS B 109 PRO B 110 0 -0.25 SITE 1 AC1 13 ALA A 17 GLY A 41 SER A 42 THR A 43 SITE 2 AC1 13 LEU A 47 PRO A 97 PRO A 106 PHE A 111 SITE 3 AC1 13 TYR A 116 LEU A 145 ILE A 155 IPA A1501 SITE 4 AC1 13 HOH A3686 SITE 1 AC2 16 ALA B 17 ILE B 19 GLY B 41 SER B 42 SITE 2 AC2 16 LEU B 47 LEU B 89 PRO B 97 PRO B 106 SITE 3 AC2 16 PHE B 111 TYR B 116 LEU B 145 ILE B 155 SITE 4 AC2 16 IPA B1507 IPA B1510 HOH B3950 HOH B3953 SITE 1 AC3 3 LEU A 37 IPA A1501 HOH A3888 SITE 1 AC4 2 LEU B 37 IPA B1507 SITE 1 AC5 5 VAL A 39 TYR A 116 LEU A 118 LP3 A2341 SITE 2 AC5 5 OLA A3628 SITE 1 AC6 1 SER A 143 SITE 1 AC7 1 IPA A1506 SITE 1 AC8 1 IPA A1503 SITE 1 AC9 1 TYR B 139 SITE 1 BC1 6 VAL B 39 GLY B 41 TYR B 116 LP3 B2342 SITE 2 BC1 6 OLA B3629 HOH B3837 SITE 1 BC2 2 PHE B 82 LP3 B2342 SITE 1 BC3 1 HOH B3918 SITE 1 BC4 1 PHE B 123 CRYST1 41.500 64.090 80.990 90.00 92.81 90.00 P 1 21 1 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 0.024096 0.000000 0.001183 0.00000 SCALE2 0.000000 0.015603 0.000000 0.00000 SCALE3 0.000000 0.000000 0.012362 0.00000