HEADER LIPID BINDING PROTEIN 25-JUL-05 2AF9 TITLE CRYSTAL STRUCTURE ANALYSIS OF GM2-ACTIVATOR PROTEIN TITLE 2 COMPLEXED WITH PHOSPHATIDYLCHOLINE COMPND MOL_ID: 1; COMPND 2 MOLECULE: GANGLIOSIDE GM2 ACTIVATOR; COMPND 3 CHAIN: A; 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, NEURONS; 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 LIPID-PROTEIN COMPLEX, LIPID ACYL CHAIN STACKING, LIPID KEYWDS 2 BINDING PROTEIN EXPDTA X-RAY DIFFRACTION AUTHOR C.S.WRIGHT,L.Z.MI,S.LEE,F.RASTINEJAD REVDAT 2 24-FEB-09 2AF9 1 VERSN REVDAT 1 25-OCT-05 2AF9 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 JRNL TITL 3 COMPLEXES: 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 REMARK 1 TITL 2 WITH A 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 REMARK 1 TITL 2 GM2-ACTIVATOR 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 REMARK 1 TITL 2 STRUCTURE OF THE GM2-ACTIVATOR COMPLEX WITH REMARK 1 TITL 3 PLATELET ACTIVATING FACTOR REMARK 1 REF J.MOL.BIOL. V. 342 585 2004 REMARK 1 REFN ISSN 0022-2836 REMARK 2 REMARK 2 RESOLUTION. 2.00 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) : 2.00 REMARK 3 RESOLUTION RANGE LOW (ANGSTROMS) : 18.50 REMARK 3 DATA CUTOFF (SIGMA(F)) : 1.000 REMARK 3 DATA CUTOFF HIGH (ABS(F)) : 1020095.170 REMARK 3 DATA CUTOFF LOW (ABS(F)) : 0.0000 REMARK 3 COMPLETENESS (WORKING+TEST) (%) : 94.7 REMARK 3 NUMBER OF REFLECTIONS : 12607 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) : 0.222 REMARK 3 FREE R VALUE : 0.279 REMARK 3 FREE R VALUE TEST SET SIZE (%) : 8.100 REMARK 3 FREE R VALUE TEST SET COUNT : 1020 REMARK 3 ESTIMATED ERROR OF FREE R VALUE : 0.009 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) : 2.00 REMARK 3 BIN RESOLUTION RANGE LOW (A) : 2.13 REMARK 3 BIN COMPLETENESS (WORKING+TEST) (%) : 100.00 REMARK 3 REFLECTIONS IN BIN (WORKING SET) : 1994 REMARK 3 BIN R VALUE (WORKING SET) : 0.2120 REMARK 3 BIN FREE R VALUE : 0.2710 REMARK 3 BIN FREE R VALUE TEST SET SIZE (%) : 7.80 REMARK 3 BIN FREE R VALUE TEST SET COUNT : 169 REMARK 3 ESTIMATED ERROR OF BIN FREE R VALUE : 0.021 REMARK 3 REMARK 3 NUMBER OF NON-HYDROGEN ATOMS USED IN REFINEMENT. REMARK 3 PROTEIN ATOMS : 1235 REMARK 3 NUCLEIC ACID ATOMS : 0 REMARK 3 HETEROGEN ATOMS : 64 REMARK 3 SOLVENT ATOMS : 123 REMARK 3 REMARK 3 B VALUES. REMARK 3 FROM WILSON PLOT (A**2) : 23.67 REMARK 3 MEAN B VALUE (OVERALL, A**2) : 33.00 REMARK 3 OVERALL ANISOTROPIC B VALUE. REMARK 3 B11 (A**2) : -0.03000 REMARK 3 B22 (A**2) : -0.29000 REMARK 3 B33 (A**2) : 0.31000 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 COORDINATE ERROR. REMARK 3 ESD FROM LUZZATI PLOT (A) : 0.24 REMARK 3 ESD FROM SIGMAA (A) : 0.02 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) : 0.31 REMARK 3 ESD FROM C-V SIGMAA (A) : 0.02 REMARK 3 REMARK 3 RMS DEVIATIONS FROM IDEAL VALUES. REMARK 3 BOND LENGTHS (A) : 0.011 REMARK 3 BOND ANGLES (DEGREES) : 1.50 REMARK 3 DIHEDRAL ANGLES (DEGREES) : 25.90 REMARK 3 IMPROPER ANGLES (DEGREES) : 1.11 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) : 2.990 ; 1.500 REMARK 3 MAIN-CHAIN ANGLE (A**2) : 3.870 ; 2.000 REMARK 3 SIDE-CHAIN BOND (A**2) : 9.750 ; 2.000 REMARK 3 SIDE-CHAIN ANGLE (A**2) : 8.380 ; 2.500 REMARK 3 REMARK 3 BULK SOLVENT MODELING. REMARK 3 METHOD USED : FLAT MODEL REMARK 3 KSOL : 0.40 REMARK 3 BSOL : 85.19 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 2AF9 COMPLIES WITH FORMAT V. 3.15, 01-DEC-08 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY RCSB ON 04-AUG-05. REMARK 100 THE RCSB ID CODE IS RCSB033823. 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 : 5.5 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 : 13297 REMARK 200 RESOLUTION RANGE HIGH (A) : 1.550 REMARK 200 RESOLUTION RANGE LOW (A) : 50.000 REMARK 200 REJECTION CRITERIA (SIGMA(I)) : 1.000 REMARK 200 REMARK 200 OVERALL. REMARK 200 COMPLETENESS FOR RANGE (%) : 92.6 REMARK 200 DATA REDUNDANCY : 5.700 REMARK 200 R MERGE (I) : 0.04000 REMARK 200 R SYM (I) : 0.04000 REMARK 200 FOR THE DATA SET : 34.0000 REMARK 200 REMARK 200 IN THE HIGHEST RESOLUTION SHELL. REMARK 200 HIGHEST RESOLUTION SHELL, RANGE HIGH (A) : 1.55 REMARK 200 HIGHEST RESOLUTION SHELL, RANGE LOW (A) : 1.61 REMARK 200 COMPLETENESS FOR SHELL (%) : 65.0 REMARK 200 DATA REDUNDANCY IN SHELL : 2.80 REMARK 200 R MERGE FOR SHELL (I) : 0.29200 REMARK 200 R SYM FOR SHELL (I) : 0.29200 REMARK 200 FOR SHELL : 3.100 REMARK 200 REMARK 200 DIFFRACTION PROTOCOL: SINGLE WAVELENGTH REMARK 200 METHOD USED TO DETERMINE THE STRUCTURE: MOLECULAR REPLACEMENT REMARK 200 SOFTWARE USED: CNS REMARK 200 STARTING MODEL: PDB ENTRY 1PUB REMARK 200 REMARK 200 REMARK: NULL REMARK 280 REMARK 280 CRYSTAL REMARK 280 SOLVENT CONTENT, VS (%): 45.10 REMARK 280 MATTHEWS COEFFICIENT, VM (ANGSTROMS**3/DA): 2.63 REMARK 280 REMARK 280 CRYSTALLIZATION CONDITIONS: PEG 4000, ISO-PROPANOL, HEPES, PH REMARK 280 5.5, VAPOR DIFFUSION, HANGING DROP, TEMPERATURE 278K REMARK 290 REMARK 290 CRYSTALLOGRAPHIC SYMMETRY REMARK 290 SYMMETRY OPERATORS FOR SPACE GROUP: P 21 21 21 REMARK 290 REMARK 290 SYMOP SYMMETRY REMARK 290 NNNMMM OPERATOR REMARK 290 1555 X,Y,Z REMARK 290 2555 -X+1/2,-Y,Z+1/2 REMARK 290 3555 -X,Y+1/2,-Z+1/2 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 19.56000 REMARK 290 SMTRY2 2 0.000000 -1.000000 0.000000 0.00000 REMARK 290 SMTRY3 2 0.000000 0.000000 1.000000 57.10500 REMARK 290 SMTRY1 3 -1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY2 3 0.000000 1.000000 0.000000 20.99000 REMARK 290 SMTRY3 3 0.000000 0.000000 -1.000000 57.10500 REMARK 290 SMTRY1 4 1.000000 0.000000 0.000000 19.56000 REMARK 290 SMTRY2 4 0.000000 -1.000000 0.000000 20.99000 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 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 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 HIS A -1 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 MET A 0 CG SD CE REMARK 480 REMARK 480 ZERO OCCUPANCY ATOM REMARK 480 THE FOLLOWING RESIDUES HAVE ATOMS MODELED WITH ZERO REMARK 480 OCCUPANCY. THE LOCATION AND PROPERTIES OF THESE ATOMS REMARK 480 MAY NOT BE RELIABLE. (M=MODEL NUMBER; RES=RESIDUE NAME; REMARK 480 C=CHAIN IDENTIFIER; SSEQ=SEQUENCE NUMBER; I=INSERTION CODE): REMARK 480 M RES C SSEQI ATOMS REMARK 480 THR A 90 CB OG1 CG2 REMARK 480 LYS A 110 CD CE NZ REMARK 480 GLU A 111 CG CD OE1 OE2 REMARK 480 ASP A 125 CG OD1 OD2 REMARK 480 LEU A 126 CG CD1 CD2 REMARK 480 GLU A 127 CB CG CD OE1 OE2 REMARK 480 LYS A 160 NZ REMARK 480 ILE A 162 CB CG1 CG2 CD1 OXT REMARK 500 REMARK 500 GEOMETRY AND STEREOCHEMISTRY REMARK 500 SUBTOPIC: CLOSE CONTACTS REMARK 500 REMARK 500 THE FOLLOWING ATOMS THAT ARE RELATED BY CRYSTALLOGRAPHIC REMARK 500 SYMMETRY ARE IN CLOSE CONTACT. AN ATOM LOCATED WITHIN 0.15 REMARK 500 ANGSTROMS OF A SYMMETRY RELATED ATOM IS ASSUMED TO BE ON A REMARK 500 SPECIAL POSITION AND IS, THEREFORE, LISTED IN REMARK 375 REMARK 500 INSTEAD OF REMARK 500. ATOMS WITH NON-BLANK ALTERNATE REMARK 500 LOCATION INDICATORS ARE NOT INCLUDED IN THE CALCULATIONS. REMARK 500 REMARK 500 DISTANCE CUTOFF: REMARK 500 2.2 ANGSTROMS FOR CONTACTS NOT INVOLVING HYDROGEN ATOMS REMARK 500 1.6 ANGSTROMS FOR CONTACTS INVOLVING HYDROGEN ATOMS REMARK 500 REMARK 500 ATM1 RES C SSEQI ATM2 RES C SSEQI SSYMOP DISTANCE REMARK 500 O HOH A 3651 O HOH A 3679 3655 2.05 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 TYR A 71 -1.05 77.58 REMARK 500 CYS A 105 25.08 -143.77 REMARK 500 LEU A 126 -17.99 65.01 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 A3721 DISTANCE = 5.01 ANGSTROMS REMARK 525 HOH A3724 DISTANCE = 5.28 ANGSTROMS REMARK 525 HOH A3725 DISTANCE = 6.88 ANGSTROMS REMARK 525 HOH A3730 DISTANCE = 5.27 ANGSTROMS REMARK 525 HOH A3731 DISTANCE = 7.44 ANGSTROMS REMARK 525 HOH A3732 DISTANCE = 5.78 ANGSTROMS REMARK 525 HOH A3736 DISTANCE = 7.55 ANGSTROMS REMARK 525 HOH A3737 DISTANCE = 6.15 ANGSTROMS REMARK 525 HOH A3744 DISTANCE = 5.80 ANGSTROMS REMARK 800 REMARK 800 SITE REMARK 800 SITE_IDENTIFIER: AC1 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE OLA A 3629 REMARK 800 SITE_IDENTIFIER: AC2 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE MYR A 3045 REMARK 800 SITE_IDENTIFIER: AC3 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE DAO A 1364 REMARK 800 SITE_IDENTIFIER: AC4 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE DAO A 1365 REMARK 800 SITE_IDENTIFIER: AC5 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE IPA A 1510 REMARK 800 SITE_IDENTIFIER: AC6 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE IPA A 1511 REMARK 900 REMARK 900 RELATED ENTRIES REMARK 900 RELATED ID: 1TJJ RELATED DB: PDB REMARK 900 SAME PROTEIN COMPLEXED WITH PLATELET ACTIVATING FACTOR (PAF) REMARK 900 RELATED ID: 1PUB RELATED DB: PDB REMARK 900 APO-PROTEIN STRUCTURE OF CRYTALS GROWN AT PH 5.5 REMARK 900 RELATED ID: 1PU5 RELATED DB: PDB REMARK 900 SAME PROTEIN CO-CRYSTALLIZED WITH GM2 GANGLIOSIDE REMARK 900 RELATED ID: 1G13 RELATED DB: PDB REMARK 900 APO-PROTEIN STRUCTURE OF CRYSTALS GROWN AT PH 7.9 DBREF 2AF9 A 1 162 UNP P17900 SAP3_HUMAN 32 193 SEQADV 2AF9 HIS A -1 UNP P17900 CLONING ARTIFACT SEQADV 2AF9 MET A 0 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 HET OLA A3629 20 HET MYR A3045 16 HET DAO A1364 14 HET DAO A1365 14 HET IPA A1510 4 HET IPA A1511 4 HETNAM OLA OLEIC ACID HETNAM MYR MYRISTIC ACID HETNAM DAO LAURIC ACID HETNAM IPA ISOPROPYL ALCOHOL HETSYN IPA 2-PROPANOL FORMUL 2 OLA C18 H34 O2 FORMUL 3 MYR C14 H28 O2 FORMUL 4 DAO 2(C12 H24 O2) FORMUL 6 IPA 2(C3 H8 O) FORMUL 8 HOH *115(H2 O) HELIX 1 1 ASP A 9 LYS A 12 5 4 HELIX 2 2 HIS A 79 ILE A 88 1 10 HELIX 3 3 PRO A 129 THR A 134 1 6 SHEET 1 A 5 SER A 4 ASN A 7 0 SHEET 2 A 5 LYS A 148 GLY A 161 -1 O LYS A 154 N ASP A 6 SHEET 3 A 5 GLY A 135 SER A 145 -1 N ILE A 139 O ILE A 155 SHEET 4 A 5 LYS A 50 VAL A 59 -1 N LYS A 50 O SER A 144 SHEET 5 A 5 LEU A 62 LYS A 65 -1 O ILE A 64 N LYS A 57 SHEET 1 B 5 ILE A 27 VAL A 29 0 SHEET 2 B 5 LYS A 148 GLY A 161 1 O LYS A 160 N VAL A 29 SHEET 3 B 5 GLY A 135 SER A 145 -1 N ILE A 139 O ILE A 155 SHEET 4 B 5 LYS A 50 VAL A 59 -1 N LYS A 50 O SER A 144 SHEET 5 B 5 THR A 76 PHE A 77 -1 O PHE A 77 N VAL A 51 SHEET 1 C 3 ALA A 15 GLU A 23 0 SHEET 2 C 3 GLY A 31 THR A 41 -1 O VAL A 38 N ARG A 18 SHEET 3 C 3 GLY A 112 VAL A 123 -1 O TYR A 114 N GLY A 39 SSBOND 1 CYS A 8 CYS A 152 1555 1555 2.04 SSBOND 2 CYS A 68 CYS A 75 1555 1555 2.04 SSBOND 3 CYS A 81 CYS A 107 1555 1555 2.03 SSBOND 4 CYS A 94 CYS A 105 1555 1555 2.03 CISPEP 1 GLU A 23 PRO A 24 0 -0.16 CISPEP 2 ASP A 25 PRO A 26 0 0.03 CISPEP 3 VAL A 29 PRO A 30 0 -0.12 CISPEP 4 SER A 47 PRO A 48 0 0.13 CISPEP 5 GLU A 96 PRO A 97 0 -0.10 CISPEP 6 CYS A 107 PRO A 108 0 -0.01 SITE 1 AC1 10 ALA A 15 PHE A 109 TYR A 114 SER A 141 SITE 2 AC1 10 LEU A 143 GLY A 151 CYS A 152 ILE A 153 SITE 3 AC1 10 DAO A1364 HOH A3732 SITE 1 AC2 4 ILE A 27 VAL A 33 LEU A 128 THR A 133 SITE 1 AC3 8 VAL A 51 PHE A 80 PHE A 109 ILE A 139 SITE 2 AC3 8 SER A 141 ILE A 153 ILE A 155 OLA A3629 SITE 1 AC4 6 LYS A 57 LEU A 132 TYR A 137 ILE A 155 SITE 2 AC4 6 ALA A 157 LEU A 159 SITE 1 AC5 2 IPA A1511 HOH A3742 SITE 1 AC6 3 LEU A 22 ILE A 155 IPA A1510 CRYST1 39.120 41.980 114.210 90.00 90.00 90.00 P 21 21 21 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 0.025562 0.000000 0.000000 0.00000 SCALE2 0.000000 0.023821 0.000000 0.00000 SCALE3 0.000000 0.000000 0.008756 0.00000