HEADER NEUROTOXIN 01-SEP-99 1QLL TITLE PIRATOXIN-II (PRTX-II) - A K49 PLA2 FROM BOTHROPS PIRAJAI COMPND MOL_ID: 1; COMPND 2 MOLECULE: PHOSPHOLIPASE A2; COMPND 3 CHAIN: A, B; COMPND 4 SYNONYM: MYOTOXIN II, BOTHROPSTOXIN I, BTXTX1, BTHTX1; COMPND 5 EC: 3.1.1.4; COMPND 6 OTHER_DETAILS: FATTY ACID TRAPPED AT THE HYDROPHOBIC CHANNEL SOURCE MOL_ID: 1; SOURCE 2 ORGANISM_SCIENTIFIC: BOTHROPS PIRAJAI; SOURCE 3 ORGANISM_TAXID: 113192; SOURCE 4 SECRETION: TOTAL VENOM KEYWDS NEUROTOXIN, K49 PHOSPHOLIPASE A2 (PLA2) EXPDTA X-RAY DIFFRACTION AUTHOR W.-H.LEE,I.POLIKARPOV REVDAT 6 13-NOV-24 1QLL 1 REMARK REVDAT 5 13-DEC-23 1QLL 1 REMARK REVDAT 4 06-MAR-19 1QLL 1 REMARK REVDAT 3 24-FEB-09 1QLL 1 VERSN REVDAT 2 26-FEB-01 1QLL 1 JRNL REVDAT 1 07-SEP-00 1QLL 0 JRNL AUTH W.H.LEE,M.T.DA SILVA GIOTTO,S.MARANGONI,M.H.TOYAMA, JRNL AUTH 2 I.POLIKARPOV,R.C.GARRATT JRNL TITL STRUCTURAL BASIS FOR LOW CATALYTIC ACTIVITY IN LYS49 JRNL TITL 2 PHOSPHOLIPASES A2-A HYPOTHESIS: THE CRYSTAL STRUCTURE OF JRNL TITL 3 PIRATOXIN II COMPLEXED TO FATTY ACID JRNL REF BIOCHEMISTRY V. 40 28 2001 JRNL REFN ISSN 0006-2960 JRNL PMID 11141053 JRNL DOI 10.1021/BI0010470 REMARK 2 REMARK 2 RESOLUTION. 2.04 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) : 2.04 REMARK 3 RESOLUTION RANGE LOW (ANGSTROMS) : 10.00 REMARK 3 DATA CUTOFF (SIGMA(F)) : 2.000 REMARK 3 COMPLETENESS FOR RANGE (%) : 90.2 REMARK 3 NUMBER OF REFLECTIONS : 23809 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) : NULL REMARK 3 R VALUE (WORKING SET) : 0.176 REMARK 3 FREE R VALUE : 0.268 REMARK 3 FREE R VALUE TEST SET SIZE (%) : 5.000 REMARK 3 FREE R VALUE TEST SET COUNT : 1190 REMARK 3 REMARK 3 NUMBER OF NON-HYDROGEN ATOMS USED IN REFINEMENT. REMARK 3 PROTEIN ATOMS : 1908 REMARK 3 NUCLEIC ACID ATOMS : 0 REMARK 3 HETEROGEN ATOMS : 30 REMARK 3 SOLVENT ATOMS : 302 REMARK 3 REMARK 3 B VALUES. REMARK 3 FROM WILSON PLOT (A**2) : NULL REMARK 3 MEAN B VALUE (OVERALL, A**2) : NULL REMARK 3 OVERALL ANISOTROPIC B VALUE. REMARK 3 B11 (A**2) : NULL REMARK 3 B22 (A**2) : NULL REMARK 3 B33 (A**2) : NULL REMARK 3 B12 (A**2) : NULL REMARK 3 B13 (A**2) : NULL REMARK 3 B23 (A**2) : NULL REMARK 3 REMARK 3 ESTIMATED OVERALL COORDINATE ERROR. REMARK 3 ESU BASED ON R VALUE (A): NULL REMARK 3 ESU BASED ON FREE R VALUE (A): NULL REMARK 3 ESU BASED ON MAXIMUM LIKELIHOOD (A): NULL 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) : 0.015 ; 0.020 REMARK 3 ANGLE DISTANCE (A) : 0.038 ; 0.040 REMARK 3 INTRAPLANAR 1-4 DISTANCE (A) : 0.047 ; 0.050 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: THE C-TERMINAL IS CLEARLY VISIBLE IN REMARK 3 THE DENSITY MAP AND IT IS MAKING A DISULPHIDE BRIDGE. REMARK 4 REMARK 4 1QLL COMPLIES WITH FORMAT V. 3.30, 13-JUL-11 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY PDBE ON 01-SEP-99. REMARK 100 THE DEPOSITION ID IS D_1290001950. REMARK 200 REMARK 200 EXPERIMENTAL DETAILS REMARK 200 EXPERIMENT TYPE : X-RAY DIFFRACTION REMARK 200 DATE OF DATA COLLECTION : 15-SEP-97 REMARK 200 TEMPERATURE (KELVIN) : 277.0 REMARK 200 PH : 8.50 REMARK 200 NUMBER OF CRYSTALS USED : 2 REMARK 200 REMARK 200 SYNCHROTRON (Y/N) : Y REMARK 200 RADIATION SOURCE : LNLS REMARK 200 BEAMLINE : D03B-MX1 REMARK 200 X-RAY GENERATOR MODEL : NULL REMARK 200 MONOCHROMATIC OR LAUE (M/L) : M REMARK 200 WAVELENGTH OR RANGE (A) : 1.38 REMARK 200 MONOCHROMATOR : SI(111) REMARK 200 OPTICS : NULL REMARK 200 REMARK 200 DETECTOR TYPE : IMAGE PLATE 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 : 6934 REMARK 200 RESOLUTION RANGE HIGH (A) : 2.040 REMARK 200 RESOLUTION RANGE LOW (A) : 20.000 REMARK 200 REJECTION CRITERIA (SIGMA(I)) : 2.000 REMARK 200 REMARK 200 OVERALL. REMARK 200 COMPLETENESS FOR RANGE (%) : 90.2 REMARK 200 DATA REDUNDANCY : 3.430 REMARK 200 R MERGE (I) : NULL REMARK 200 R SYM (I) : 0.07000 REMARK 200 FOR THE DATA SET : 12.4000 REMARK 200 REMARK 200 IN THE HIGHEST RESOLUTION SHELL. REMARK 200 HIGHEST RESOLUTION SHELL, RANGE HIGH (A) : 2.04 REMARK 200 HIGHEST RESOLUTION SHELL, RANGE LOW (A) : 2.11 REMARK 200 COMPLETENESS FOR SHELL (%) : 72.5 REMARK 200 DATA REDUNDANCY IN SHELL : 1.53 REMARK 200 R MERGE FOR SHELL (I) : NULL REMARK 200 R SYM FOR SHELL (I) : 0.26000 REMARK 200 FOR SHELL : 2.570 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: PDB ENTRY 1CLP REMARK 200 REMARK 200 REMARK: NULL REMARK 280 REMARK 280 CRYSTAL REMARK 280 SOLVENT CONTENT, VS (%): 61.00 REMARK 280 MATTHEWS COEFFICIENT, VM (ANGSTROMS**3/DA): 3.17 REMARK 280 REMARK 280 CRYSTALLIZATION CONDITIONS: 28% PEG 3350, 0.25 M LITHIUM SULFATE REMARK 280 0.1 M TRIS-HCL PH 8.5, AT 277 K FOR APPROX. 40 DAYS, PH 8.50 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 30.18000 REMARK 290 SMTRY3 2 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 300 REMARK: THE ASYMMETRIC UNIT CONTAINS A HOMO-DIMERIC REMARK 300 COMPLEX 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 SOFTWARE DETERMINED QUATERNARY STRUCTURE: DIMERIC REMARK 350 SOFTWARE USED: PQS REMARK 350 TOTAL BURIED SURFACE AREA: 1080 ANGSTROM**2 REMARK 350 SURFACE AREA OF THE COMPLEX: 16300 ANGSTROM**2 REMARK 350 CHANGE IN SOLVENT FREE ENERGY: 0.2 KCAL/MOL REMARK 350 APPLY THE FOLLOWING TO CHAINS: A, 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 400 REMARK 400 COMPOUND REMARK 400 THE PHOSPHOLIPASES A2 (PLA2) CAN BE DIVIDED INTO TWO MAJOR REMARK 400 CLASSES BASED UPON CATALYTIC ACTIVITY. THE D49 CLASS IS REMARK 400 ACTIVE, WHILE THE K49 CLASS IS INACTIVE. THE SEQUENCE REMARK 400 NUMBERING IS BASED ON A REPRESENTATIVE PHOSPHOLIPASE A2. REMARK 400 IN THE K49 PLA2 CLASS ENZYME STUDIED HERE THE LYS IS REMARK 400 RESIDUE 48. SIGNIFICANTLY THIS K49 ENZYME, DESPITE ITS LACK REMARK 400 OF PHOSPHOLIPASE ACTION, SHOWS SEVERAL PHARMACOLOGICAL REMARK 400 EFFECTS. REMARK 400 THE STRUCTURE REVEALS THE PRESENCE OF A FATTY ACID MOLECULE REMARK 400 TRAPPED IN THE REACTION SITE OF EACH ENZYME MOLECULE. 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 2102 O HOH B 2035 2.04 REMARK 500 REMARK 500 REMARK: NULL 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 2126 O HOH B 2060 2745 2.18 REMARK 500 REMARK 500 REMARK: NULL 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 ASP A 41 CB - CG - OD1 ANGL. DEV. = 5.7 DEGREES REMARK 500 TYR A 51 CB - CG - CD2 ANGL. DEV. = 8.0 DEGREES REMARK 500 TYR A 51 CD1 - CG - CD2 ANGL. DEV. = -15.3 DEGREES REMARK 500 TYR A 51 CB - CG - CD1 ANGL. DEV. = 7.4 DEGREES REMARK 500 TYR A 51 CG - CD1 - CE1 ANGL. DEV. = 8.2 DEGREES REMARK 500 TYR A 51 CG - CD2 - CE2 ANGL. DEV. = 6.5 DEGREES REMARK 500 TYR A 51 CD1 - CE1 - CZ ANGL. DEV. = 7.1 DEGREES REMARK 500 TYR A 51 CE1 - CZ - CE2 ANGL. DEV. = -15.5 DEGREES REMARK 500 TYR A 51 CZ - CE2 - CD2 ANGL. DEV. = 9.1 DEGREES REMARK 500 LEU A 54 O - C - N ANGL. DEV. = 10.2 DEGREES REMARK 500 ARG A 97 NH1 - CZ - NH2 ANGL. DEV. = -26.0 DEGREES REMARK 500 ARG A 97 NE - CZ - NH1 ANGL. DEV. = 16.5 DEGREES REMARK 500 ARG A 97 NE - CZ - NH2 ANGL. DEV. = 9.5 DEGREES REMARK 500 TYR B 24 CB - CG - CD1 ANGL. DEV. = -4.2 DEGREES REMARK 500 ASP B 41 CB - CG - OD1 ANGL. DEV. = 5.9 DEGREES REMARK 500 ARG B 42 NE - CZ - NH1 ANGL. DEV. = 4.2 DEGREES REMARK 500 CYS B 43 CA - CB - SG ANGL. DEV. = 10.3 DEGREES REMARK 500 TYR B 51 CB - CG - CD2 ANGL. DEV. = 7.5 DEGREES REMARK 500 TYR B 51 CD1 - CG - CD2 ANGL. DEV. = -15.3 DEGREES REMARK 500 TYR B 51 CB - CG - CD1 ANGL. DEV. = 7.9 DEGREES REMARK 500 TYR B 51 CG - CD1 - CE1 ANGL. DEV. = 8.3 DEGREES REMARK 500 TYR B 51 CG - CD2 - CE2 ANGL. DEV. = 7.5 DEGREES REMARK 500 TYR B 51 CD1 - CE1 - CZ ANGL. DEV. = 6.9 DEGREES REMARK 500 TYR B 51 CE1 - CZ - CE2 ANGL. DEV. = -15.4 DEGREES REMARK 500 TYR B 51 CZ - CE2 - CD2 ANGL. DEV. = 8.2 DEGREES REMARK 500 LEU B 54 CA - C - N ANGL. DEV. = 17.1 DEGREES REMARK 500 LEU B 54 O - C - N ANGL. DEV. = -11.8 DEGREES REMARK 500 ARG B 97 NH1 - CZ - NH2 ANGL. DEV. = -23.1 DEGREES REMARK 500 ARG B 97 NE - CZ - NH1 ANGL. DEV. = 11.0 DEGREES REMARK 500 ARG B 97 NE - CZ - NH2 ANGL. DEV. = 12.1 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 LEU A 31 -170.14 71.81 REMARK 500 THR A 55 -108.19 -51.49 REMARK 500 ASN A 78 -167.29 44.14 REMARK 500 TYR A 109 66.98 -112.49 REMARK 500 ALA B 23 24.30 -140.69 REMARK 500 LEU B 31 -171.52 77.89 REMARK 500 ASN B 78 -171.77 45.20 REMARK 500 TYR B 109 67.39 -113.50 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 A2007 DISTANCE = 7.51 ANGSTROMS REMARK 525 HOH A2015 DISTANCE = 6.06 ANGSTROMS REMARK 525 HOH A2023 DISTANCE = 6.38 ANGSTROMS REMARK 525 HOH A2030 DISTANCE = 5.82 ANGSTROMS REMARK 525 HOH A2042 DISTANCE = 5.83 ANGSTROMS REMARK 525 HOH B2014 DISTANCE = 6.60 ANGSTROMS REMARK 800 REMARK 800 SITE REMARK 800 SITE_IDENTIFIER: AC1 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE TDA A 122 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC2 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE TDA B 122 REMARK 900 REMARK 900 RELATED ENTRIES REMARK 900 RELATED ID: 1CLP RELATED DB: PDB REMARK 900 MYOTOXIN II (PHOSPHOLIPASE A2) (E.C.3.1.1.4) MUTANT WITH ASP 49 REMARK 900 REPLACED BY LYS (D49K) FROM TERCIOPELO (BOTHROPS ASPER) DBREF 1QLL A 1 121 UNP P82287 P82287 1 121 DBREF 1QLL B 1 121 UNP P82287 P82287 1 121 SEQADV 1QLL LYS A 120 UNP P82287 ASP 120 CONFLICT SEQADV 1QLL LYS B 120 UNP P82287 ASP 120 CONFLICT SEQRES 1 A 121 SER LEU PHE GLU LEU GLY LYS MET ILE LEU GLN GLU THR SEQRES 2 A 121 GLY LYS ASN PRO ALA LYS SER TYR GLY ALA TYR GLY CYS SEQRES 3 A 121 ASN CYS GLY VAL LEU GLY ARG GLY LYS PRO LYS ASP ALA SEQRES 4 A 121 THR ASP ARG CYS CYS TYR VAL HIS LYS CYS CYS TYR LYS SEQRES 5 A 121 LYS LEU THR GLY CYS ASN PRO LYS LYS ASP ARG TYR SER SEQRES 6 A 121 TYR SER TRP LYS ASP LYS THR ILE VAL CYS GLY GLU ASN SEQRES 7 A 121 ASN PRO CYS LEU LYS GLU LEU CYS GLU CYS ASP LYS ALA SEQRES 8 A 121 VAL ALA ILE CYS LEU ARG GLU ASN LEU GLY THR TYR ASN SEQRES 9 A 121 LYS LYS TYR ARG TYR HIS LEU LYS PRO PHE CYS LYS LYS SEQRES 10 A 121 ALA ASP LYS CYS SEQRES 1 B 121 SER LEU PHE GLU LEU GLY LYS MET ILE LEU GLN GLU THR SEQRES 2 B 121 GLY LYS ASN PRO ALA LYS SER TYR GLY ALA TYR GLY CYS SEQRES 3 B 121 ASN CYS GLY VAL LEU GLY ARG GLY LYS PRO LYS ASP ALA SEQRES 4 B 121 THR ASP ARG CYS CYS TYR VAL HIS LYS CYS CYS TYR LYS SEQRES 5 B 121 LYS LEU THR GLY CYS ASN PRO LYS LYS ASP ARG TYR SER SEQRES 6 B 121 TYR SER TRP LYS ASP LYS THR ILE VAL CYS GLY GLU ASN SEQRES 7 B 121 ASN PRO CYS LEU LYS GLU LEU CYS GLU CYS ASP LYS ALA SEQRES 8 B 121 VAL ALA ILE CYS LEU ARG GLU ASN LEU GLY THR TYR ASN SEQRES 9 B 121 LYS LYS TYR ARG TYR HIS LEU LYS PRO PHE CYS LYS LYS SEQRES 10 B 121 ALA ASP LYS CYS HET TDA A 122 15 HET TDA B 122 15 HETNAM TDA N-TRIDECANOIC ACID FORMUL 3 TDA 2(C13 H26 O2) FORMUL 5 HOH *302(H2 O) HELIX 1 1 SER A 1 GLY A 14 1 14 HELIX 2 2 ASN A 16 GLY A 22 1 7 HELIX 3 3 ASP A 38 LYS A 53 1 16 HELIX 4 4 ASN A 79 ASN A 99 1 21 HELIX 5 5 LEU A 100 TYR A 103 5 4 HELIX 6 6 ASN A 104 ARG A 108 5 5 HELIX 7 7 LEU A 111 CYS A 115 5 5 HELIX 8 8 SER B 1 GLY B 14 1 14 HELIX 9 9 ASN B 16 GLY B 22 1 7 HELIX 10 10 ASP B 38 LYS B 53 1 16 HELIX 11 11 ASN B 79 ASN B 99 1 21 HELIX 12 12 LEU B 100 TYR B 103 5 4 HELIX 13 13 ASN B 104 ARG B 108 5 5 HELIX 14 14 LEU B 111 CYS B 115 5 5 SHEET 1 A 2 TYR A 66 TRP A 68 0 SHEET 2 A 2 ILE A 73 CYS A 75 -1 N VAL A 74 O SER A 67 SHEET 1 B 2 TYR B 66 TRP B 68 0 SHEET 2 B 2 ILE B 73 CYS B 75 -1 N VAL B 74 O SER B 67 SSBOND 1 CYS A 26 CYS A 115 1555 1555 2.09 SSBOND 2 CYS A 28 CYS A 44 1555 1555 2.01 SSBOND 3 CYS A 43 CYS A 95 1555 1555 2.06 SSBOND 4 CYS A 49 CYS A 121 1555 1555 2.01 SSBOND 5 CYS A 50 CYS A 88 1555 1555 2.05 SSBOND 6 CYS A 57 CYS A 81 1555 1555 2.02 SSBOND 7 CYS A 75 CYS A 86 1555 1555 2.04 SSBOND 8 CYS B 26 CYS B 115 1555 1555 2.07 SSBOND 9 CYS B 28 CYS B 44 1555 1555 2.06 SSBOND 10 CYS B 43 CYS B 95 1555 1555 2.09 SSBOND 11 CYS B 49 CYS B 121 1555 1555 2.02 SSBOND 12 CYS B 50 CYS B 88 1555 1555 2.05 SSBOND 13 CYS B 57 CYS B 81 1555 1555 2.08 SSBOND 14 CYS B 75 CYS B 86 1555 1555 2.04 SITE 1 AC1 11 LEU A 2 GLY A 6 ILE A 9 PRO A 17 SITE 2 AC1 11 TYR A 21 CYS A 28 GLY A 29 HIS A 47 SITE 3 AC1 11 HOH A2002 HOH A2149 HOH A2150 SITE 1 AC2 10 LEU B 2 GLY B 6 ILE B 9 PRO B 17 SITE 2 AC2 10 TYR B 21 CYS B 28 GLY B 29 HIS B 47 SITE 3 AC2 10 HOH B2001 HOH B2152 CRYST1 46.190 60.360 58.740 90.00 96.05 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 0.021650 0.000000 0.002294 0.00000 SCALE2 0.000000 0.016567 0.000000 0.00000 SCALE3 0.000000 0.000000 0.017119 0.00000 MTRIX1 1 1.000000 -0.000300 -0.004300 -0.02500 1 MTRIX2 1 -0.000300 -0.999900 -0.015700 43.07760 1 MTRIX3 1 -0.004300 0.015700 -0.999900 -0.39900 1