2AG9 - Header Asymmetric Unit

HEADER LIPID BINDING PROTEIN 26-JUL-05 2AG9

TITLE CRYSTAL STRUCTURE OF THE Y137S MUTANT OF GM2-ACTIVATOR TITLE 2 PROTEIN

COMPND MOL_ID: 1; COMPND 2 MOLECULE: GANGLIOSIDE GM2 ACTIVATOR; COMPND 3 CHAIN: A, B; COMPND 4 SYNONYM: GM2-AP; COMPND 5 ENGINEERED: YES; COMPND 6 MUTATION: 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 CONFORMATIONAL CHANGES IN MOBILE LOOP (W131 LOOP), 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 2AG9 1 VERSN REVDAT 1 25-OCT-05 2AG9 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. 2.20 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) : 2.20 REMARK 3 RESOLUTION RANGE LOW (ANGSTROMS) : 19.87 REMARK 3 DATA CUTOFF (SIGMA(F)) : 2.000 REMARK 3 DATA CUTOFF HIGH (ABS(F)) : 1051432.220 REMARK 3 DATA CUTOFF LOW (ABS(F)) : 0.0000 REMARK 3 COMPLETENESS (WORKING+TEST) (%) : 77.2 REMARK 3 NUMBER OF REFLECTIONS : 16410 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) : 0.243 REMARK 3 FREE R VALUE : 0.334 REMARK 3 FREE R VALUE TEST SET SIZE (%) : 8.400 REMARK 3 FREE R VALUE TEST SET COUNT : 1377 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) : 2.20 REMARK 3 BIN RESOLUTION RANGE LOW (A) : 2.34 REMARK 3 BIN COMPLETENESS (WORKING+TEST) (%) : 31.30 REMARK 3 REFLECTIONS IN BIN (WORKING SET) : 1025 REMARK 3 BIN R VALUE (WORKING SET) : 0.4060 REMARK 3 BIN FREE R VALUE : 0.4430 REMARK 3 BIN FREE R VALUE TEST SET SIZE (%) : 7.50 REMARK 3 BIN FREE R VALUE TEST SET COUNT : 83 REMARK 3 ESTIMATED ERROR OF BIN FREE R VALUE : 0.049 REMARK 3 REMARK 3 NUMBER OF NON-HYDROGEN ATOMS USED IN REFINEMENT. REMARK 3 PROTEIN ATOMS : 2484 REMARK 3 NUCLEIC ACID ATOMS : 0 REMARK 3 HETEROGEN ATOMS : 16 REMARK 3 SOLVENT ATOMS : 335 REMARK 3 REMARK 3 B VALUES. REMARK 3 FROM WILSON PLOT (A**2) : 26.70 REMARK 3 MEAN B VALUE (OVERALL, A**2) : 41.10 REMARK 3 OVERALL ANISOTROPIC B VALUE. REMARK 3 B11 (A**2) : -5.19000 REMARK 3 B22 (A**2) : 6.28000 REMARK 3 B33 (A**2) : -1.09000 REMARK 3 B12 (A**2) : 0.52000 REMARK 3 B13 (A**2) : 0.53000 REMARK 3 B23 (A**2) : 6.63000 REMARK 3 REMARK 3 ESTIMATED COORDINATE ERROR. REMARK 3 ESD FROM LUZZATI PLOT (A) : 0.34 REMARK 3 ESD FROM SIGMAA (A) : 0.29 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) : 0.47 REMARK 3 ESD FROM C-V SIGMAA (A) : 0.35 REMARK 3 REMARK 3 RMS DEVIATIONS FROM IDEAL VALUES. REMARK 3 BOND LENGTHS (A) : 0.010 REMARK 3 BOND ANGLES (DEGREES) : 1.50 REMARK 3 DIHEDRAL ANGLES (DEGREES) : 26.60 REMARK 3 IMPROPER ANGLES (DEGREES) : 1.09 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) : 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 BULK SOLVENT MODELING. REMARK 3 METHOD USED : FLAT MODEL REMARK 3 KSOL : 0.22 REMARK 3 BSOL : 72.45 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 : STE_LPC_MYR_LAU_EPE.TOP REMARK 3 TOPOLOGY FILE 5 : NULL REMARK 3 REMARK 3 OTHER REFINEMENT REMARKS: NULL

REMARK 4 REMARK 4 2AG9 COMPLIES WITH FORMAT V. 3.15, 01-DEC-08

REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY RCSB ON 12-AUG-05. REMARK 100 THE RCSB ID CODE IS RCSB033856.

REMARK 200 REMARK 200 EXPERIMENTAL DETAILS REMARK 200 EXPERIMENT TYPE : X-RAY DIFFRACTION REMARK 200 DATE OF DATA COLLECTION : 30-JUL-04 REMARK 200 TEMPERATURE (KELVIN) : 123 REMARK 200 PH : 7.9 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) : 0.92015 REMARK 200 MONOCHROMATOR : NULL REMARK 200 OPTICS : NULL REMARK 200 REMARK 200 DETECTOR TYPE : CCD REMARK 200 DETECTOR MANUFACTURER : MARMOSAIC 225 MM CCD REMARK 200 INTENSITY-INTEGRATION SOFTWARE : HKL-2000 REMARK 200 DATA SCALING SOFTWARE : CCP4 (TRUNCATE) REMARK 200 REMARK 200 NUMBER OF UNIQUE REFLECTIONS : 18838 REMARK 200 RESOLUTION RANGE HIGH (A) : 2.000 REMARK 200 RESOLUTION RANGE LOW (A) : 30.000 REMARK 200 REJECTION CRITERIA (SIGMA(I)) : 1.000 REMARK 200 REMARK 200 OVERALL. REMARK 200 COMPLETENESS FOR RANGE (%) : 66.6 REMARK 200 DATA REDUNDANCY : 1.700 REMARK 200 R MERGE (I) : 0.08200 REMARK 200 R SYM (I) : NULL REMARK 200 <I/SIGMA(I)> FOR THE DATA SET : 9.9000 REMARK 200 REMARK 200 IN THE HIGHEST RESOLUTION SHELL. REMARK 200 HIGHEST RESOLUTION SHELL, RANGE HIGH (A) : 2.00 REMARK 200 HIGHEST RESOLUTION SHELL, RANGE LOW (A) : 2.07 REMARK 200 COMPLETENESS FOR SHELL (%) : 26.0 REMARK 200 DATA REDUNDANCY IN SHELL : 1.10 REMARK 200 R MERGE FOR SHELL (I) : 0.29100 REMARK 200 R SYM FOR SHELL (I) : NULL REMARK 200 <I/SIGMA(I)> FOR SHELL : 1.700 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: 2AG4 REMARK 200 REMARK 200 REMARK: NULL

REMARK 280 REMARK 280 CRYSTAL REMARK 280 SOLVENT CONTENT, VS (%): 52.10 REMARK 280 MATTHEWS COEFFICIENT, VM (ANGSTROMS**3/DA): 3.04 REMARK 280 REMARK 280 CRYSTALLIZATION CONDITIONS: PEG 4000, HEPES BUFFER, REMARK 280 ISOPROPANOL, PH 7.9, VAPOR DIFFUSION, HANGING DROP, REMARK 280 TEMPERATURE 278K

REMARK 290 REMARK 290 CRYSTALLOGRAPHIC SYMMETRY REMARK 290 SYMMETRY OPERATORS FOR SPACE GROUP: P 1 REMARK 290 REMARK 290 SYMOP SYMMETRY REMARK 290 NNNMMM OPERATOR REMARK 290 1555 X,Y,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 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 A 1585 O HOH A 1664 0.31 REMARK 500 O HOH B 3054 O HOH B 3127 1.88 REMARK 500 O HOH B 3110 O HOH B 3159 2.06 REMARK 500 O HOH A 1595 O HOH A 1606 2.17 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 GLU A 12 -28.20 -38.42 REMARK 500 ALA A 62 45.02 22.55 REMARK 500 THR A 92 125.09 -39.95 REMARK 500 LEU A 128 8.49 -51.36 REMARK 500 THR A 135 26.79 -59.41 REMARK 500 LYS A 162 93.47 177.76 REMARK 500 ASP B 11 67.43 -164.65 REMARK 500 LEU B 128 39.32 -67.77 REMARK 500 GLU B 129 118.54 49.16 REMARK 500 THR B 135 31.13 -73.67 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 B3064 DISTANCE = 5.61 ANGSTROMS REMARK 525 HOH B3069 DISTANCE = 5.64 ANGSTROMS REMARK 525 HOH B3072 DISTANCE = 5.58 ANGSTROMS REMARK 525 HOH A1570 DISTANCE = 6.14 ANGSTROMS REMARK 525 HOH A1571 DISTANCE = 7.53 ANGSTROMS REMARK 525 HOH B3102 DISTANCE = 6.60 ANGSTROMS REMARK 525 HOH A1583 DISTANCE = 8.17 ANGSTROMS REMARK 525 HOH A1588 DISTANCE = 6.66 ANGSTROMS REMARK 525 HOH A1591 DISTANCE = 10.17 ANGSTROMS REMARK 525 HOH A1595 DISTANCE = 6.80 ANGSTROMS REMARK 525 HOH B3123 DISTANCE = 7.30 ANGSTROMS REMARK 525 HOH B3129 DISTANCE = 5.04 ANGSTROMS REMARK 525 HOH B3130 DISTANCE = 5.70 ANGSTROMS REMARK 525 HOH B3132 DISTANCE = 5.48 ANGSTROMS REMARK 525 HOH A1607 DISTANCE = 6.53 ANGSTROMS REMARK 525 HOH A1608 DISTANCE = 5.31 ANGSTROMS REMARK 525 HOH A1610 DISTANCE = 8.37 ANGSTROMS REMARK 525 HOH A1614 DISTANCE = 9.70 ANGSTROMS REMARK 525 HOH B3146 DISTANCE = 6.96 ANGSTROMS REMARK 525 HOH B3150 DISTANCE = 7.02 ANGSTROMS REMARK 525 HOH B3151 DISTANCE = 6.66 ANGSTROMS REMARK 525 HOH B3160 DISTANCE = 7.99 ANGSTROMS REMARK 525 HOH A1633 DISTANCE = 8.70 ANGSTROMS REMARK 525 HOH B3161 DISTANCE = 5.03 ANGSTROMS REMARK 525 HOH A1634 DISTANCE = 8.28 ANGSTROMS REMARK 525 HOH A1639 DISTANCE = 6.76 ANGSTROMS REMARK 525 HOH A1645 DISTANCE = 8.11 ANGSTROMS REMARK 525 HOH A1646 DISTANCE = 10.77 ANGSTROMS REMARK 525 HOH A1647 DISTANCE = 11.95 ANGSTROMS REMARK 525 HOH A1648 DISTANCE = 5.39 ANGSTROMS REMARK 525 HOH A1658 DISTANCE = 12.35 ANGSTROMS REMARK 525 HOH A1659 DISTANCE = 7.00 ANGSTROMS REMARK 525 HOH A1661 DISTANCE = 7.56 ANGSTROMS REMARK 525 HOH A1665 DISTANCE = 8.67 ANGSTROMS REMARK 525 HOH A1667 DISTANCE = 5.30 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 MYR B 3045

REMARK 800 REMARK 800 SITE REMARK 800 SITE_IDENTIFIER: AC1 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE MYR B 3045 REMARK 800 SITE_IDENTIFIER: AC2 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE IPA B 1504 REMARK 800 SITE_IDENTIFIER: AC3 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE IPA A 1505 REMARK 800 SITE_IDENTIFIER: AC4 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE IPA B 1506 REMARK 800 SITE_IDENTIFIER: AC5 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE IPA B 1511 REMARK 800 SITE_IDENTIFIER: AC6 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE IPA A 1513 REMARK 800 SITE_IDENTIFIER: AC7 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE IPA A 1514 REMARK 800 SITE_IDENTIFIER: AC8 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE IPA A 1515 REMARK 800 SITE_IDENTIFIER: AC9 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE IPA A 1517

REMARK 900 REMARK 900 RELATED ENTRIES REMARK 900 RELATED ID: 1G13 RELATED DB: PDB REMARK 900 APO-PROTEIN STRUCTURE OF CRYSTALS GROWN AT PH 7.6 REMARK 900 RELATED ID: 1PUB RELATED DB: PDB REMARK 900 APO-PROTEIN STRUCTURE OF CRYSTALS GROWN AT PH 5.5 REMARK 900 RELATED ID: 1PU5 RELATED DB: PDB REMARK 900 PROTEIN COMPLEXED WITH GM2 GANGLIOSIDE REMARK 900 RELATED ID: 1TJJ RELATED DB: PDB REMARK 900 PROTEIN COMPLEXED WITH PLATELET ACTIVATING FACTOR (PAF) REMARK 900 RELATED ID: 2AG4 RELATED DB: PDB REMARK 900 PROTEIN COMPLEXED WITH PHOSPHATIDYL CHOLINE; MONOCLINIC REMARK 900 CRYSTALS REMARK 900 RELATED ID: 2AG2 RELATED DB: PDB REMARK 900 PROTEIN COMPLEXED WITH PHOSPHATIDYL CHOLINE; ORTHORHOMBIC REMARK 900 CRYSTALS

DBREF 2AG9 A 3 164 UNP P17900 SAP3_HUMAN 32 193 DBREF 2AG9 B 3 164 UNP P17900 SAP3_HUMAN 32 193

SEQADV 2AG9 HIS A 1 UNP P17900 CLONING ARTIFACT SEQADV 2AG9 MET A 2 UNP P17900 CLONING ARTIFACT SEQADV 2AG9 SER A 139 UNP P17900 TYR 168 ENGINEERED SEQADV 2AG9 HIS B 1 UNP P17900 CLONING ARTIFACT SEQADV 2AG9 MET B 2 UNP P17900 CLONING ARTIFACT SEQADV 2AG9 SER B 139 UNP P17900 TYR 168 ENGINEERED

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 SER 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 SER 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 MYR B3045 16 HET IPA A1501 4 HET IPA A1502 4 HET IPA A1503 4 HET IPA B1504 4 HET IPA A1505 4 HET IPA B1506 4 HET IPA B1507 4 HET IPA A1508 4 HET IPA B1511 4 HET IPA A1513 4 HET IPA A1514 4 HET IPA A1515 4 HET IPA A1516 4 HET IPA A1517 4

HETNAM MYR MYRISTIC ACID HETNAM IPA ISOPROPYL ALCOHOL

HETSYN IPA 2-PROPANOL

FORMUL 3 MYR C14 H28 O2 FORMUL 4 IPA 14(C3 H8 O) FORMUL 18 HOH *279(H2 O)

HELIX 1 1 HIS A 81 ILE A 90 1 10 HELIX 2 2 LEU A 100 GLY A 104 5 5 HELIX 3 3 HIS B 81 ILE B 90 1 10 HELIX 4 4 LEU B 100 GLY B 104 5 5

SHEET 1 A 5 SER A 6 ASN A 9 0 SHEET 2 A 5 LYS A 150 SER A 160 -1 O LYS A 156 N ASP A 8 SHEET 3 A 5 ASN A 138 SER A 147 -1 N ILE A 141 O ILE A 157 SHEET 4 A 5 LYS A 52 GLU A 60 -1 N LYS A 52 O SER A 146 SHEET 5 A 5 TRP A 65 LYS A 67 -1 O ILE A 66 N LYS A 59 SHEET 1 B 5 SER A 6 ASN A 9 0 SHEET 2 B 5 LYS A 150 SER A 160 -1 O LYS A 156 N ASP A 8 SHEET 3 B 5 ASN A 138 SER A 147 -1 N ILE A 141 O ILE A 157 SHEET 4 B 5 LYS A 52 GLU A 60 -1 N LYS A 52 O SER A 146 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 ASN A 34 THR A 43 -1 O THR A 36 N GLU A 25 SHEET 3 C 3 GLY A 114 VAL A 124 -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 ALA B 159 -1 O ALA B 158 N SER B 6 SHEET 3 D 5 SER B 139 SER B 147 -1 N LEU B 145 O LEU B 152 SHEET 4 D 5 LYS B 52 VAL B 61 -1 N LYS B 52 O SER B 146 SHEET 5 D 5 LEU B 64 ILE B 68 -1 O ILE B 68 N LEU B 57 SHEET 1 E 5 SER B 6 ASN B 9 0 SHEET 2 E 5 LYS B 150 ALA B 159 -1 O ALA B 158 N SER B 6 SHEET 3 E 5 SER B 139 SER B 147 -1 N LEU B 145 O LEU B 152 SHEET 4 E 5 LYS B 52 VAL B 61 -1 N LYS B 52 O SER B 146 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 ASN B 34 THR B 43 -1 O THR B 36 N GLU B 25 SHEET 3 F 3 GLY B 114 VAL B 124 -1 O TYR B 116 N GLY B 41

SSBOND 1 CYS A 10 CYS A 154 1555 1555 2.04 SSBOND 2 CYS A 70 CYS A 77 1555 1555 2.05 SSBOND 3 CYS A 83 CYS A 109 1555 1555 2.04 SSBOND 4 CYS A 96 CYS A 107 1555 1555 2.04

CISPEP 1 GLU A 25 PRO A 26 0 -0.10 CISPEP 2 ASP A 27 PRO A 28 0 0.10 CISPEP 3 VAL A 31 PRO A 32 0 -0.40 CISPEP 4 SER A 49 PRO A 50 0 -0.03 CISPEP 5 GLU A 98 PRO A 99 0 -0.57 CISPEP 6 CYS A 109 PRO A 110 0 -0.22 CISPEP 7 GLU B 25 PRO B 26 0 0.08 CISPEP 8 ASP B 27 PRO B 28 0 0.16 CISPEP 9 VAL B 31 PRO B 32 0 -0.05 CISPEP 10 SER B 49 PRO B 50 0 -0.03 CISPEP 11 GLU B 98 PRO B 99 0 -0.16 CISPEP 12 CYS B 109 PRO B 110 0 -0.34

SITE 1 AC1 3 GLU B 98 LEU B 118 HOH B3087 SITE 1 AC2 1 GLU B 113 SITE 1 AC3 1 PHE A 82 SITE 1 AC4 2 GLY B 41 SER B 42 SITE 1 AC5 2 LEU B 100 PRO B 106 SITE 1 AC6 1 HOH A1611 SITE 1 AC7 1 HOH A1657 SITE 1 AC8 3 PRO A 97 GLU A 98 IPA A1517 SITE 1 AC9 2 PRO A 97 IPA A1515

CRYST1 41.490 48.390 55.590 76.16 87.70 87.54 P 1 2

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 0.024102 -0.001035 -0.000743 0.00000

SCALE2 0.000000 0.020684 -0.005066 0.00000

SCALE3 0.000000 0.000000 0.018536 0.00000