HEADER HYDROLASE 19-APR-11 3RLH TITLE CRYSTAL STRUCTURE OF A CLASS II PHOSPHOLIPASE D FROM LOXOSCELES TITLE 2 INTERMEDIA VENOM COMPND MOL_ID: 1; COMPND 2 MOLECULE: SPHINGOMYELIN PHOSPHODIESTERASE D LISICTOX-ALPHAIA1A; COMPND 3 CHAIN: A; COMPND 4 FRAGMENT: MATURE PHOSPHOLIPASE D; COMPND 5 SYNONYM: DERMONECROTIC PROTEIN 1, LIRECDT1, SPHINGOMYELIN COMPND 6 PHOSPHODIESTERASE D 1, SMD 1, SMASE D 1, SPHINGOMYELINASE D 1; COMPND 7 EC: 3.1.4.41; COMPND 8 ENGINEERED: YES; COMPND 9 MUTATION: YES SOURCE MOL_ID: 1; SOURCE 2 ORGANISM_SCIENTIFIC: LOXOSCELES INTERMEDIA; SOURCE 3 ORGANISM_COMMON: SPIDER; SOURCE 4 ORGANISM_TAXID: 58218; SOURCE 5 EXPRESSION_SYSTEM: ESCHERICHIA COLI; SOURCE 6 EXPRESSION_SYSTEM_TAXID: 469008; SOURCE 7 EXPRESSION_SYSTEM_STRAIN: BL21(DE3)PLYSS; SOURCE 8 EXPRESSION_SYSTEM_VECTOR_TYPE: PLASMID; SOURCE 9 EXPRESSION_SYSTEM_PLASMID: PET-14B KEYWDS CLASS II PLD, TIM BETA/ALPHA-BARREL SUPERFAMILY, PLC-LIKE KEYWDS 2 PHOSPHODIESTERASE, PHOSPHOLIPASE D, VENOM, HYDROLASE EXPDTA X-RAY DIFFRACTION AUTHOR P.O.GIUSEPPE,A.ULLAH,S.S.VEIGA,M.T.MURAKAMI,R.K.ARNI REVDAT 2 13-SEP-23 3RLH 1 REMARK SEQADV LINK REVDAT 1 29-JUN-11 3RLH 0 JRNL AUTH P.O.DE GIUSEPPE,A.ULLAH,D.T.SILVA,L.H.GREMSKI,A.C.WILLE, JRNL AUTH 2 D.CHAVES MOREIRA,A.S.RIBEIRO,O.M.CHAIM,M.T.MURAKAMI, JRNL AUTH 3 S.S.VEIGA,R.K.ARNI JRNL TITL STRUCTURE OF A NOVEL CLASS II PHOSPHOLIPASE D: CATALYTIC JRNL TITL 2 CLEFT IS MODIFIED BY A DISULPHIDE BRIDGE. JRNL REF BIOCHEM.BIOPHYS.RES.COMMUN. V. 409 622 2011 JRNL REFN ISSN 0006-291X JRNL PMID 21616057 JRNL DOI 10.1016/J.BBRC.2011.05.053 REMARK 2 REMARK 2 RESOLUTION. 1.72 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 REFINEMENT TARGET : MAXIMUM LIKELIHOOD REMARK 3 REMARK 3 DATA USED IN REFINEMENT. REMARK 3 RESOLUTION RANGE HIGH (ANGSTROMS) : 1.72 REMARK 3 RESOLUTION RANGE LOW (ANGSTROMS) : 54.16 REMARK 3 DATA CUTOFF (SIGMA(F)) : 0.000 REMARK 3 COMPLETENESS FOR RANGE (%) : 99.8 REMARK 3 NUMBER OF REFLECTIONS : 28026 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) : 0.174 REMARK 3 R VALUE (WORKING SET) : 0.172 REMARK 3 FREE R VALUE : 0.214 REMARK 3 FREE R VALUE TEST SET SIZE (%) : 5.000 REMARK 3 FREE R VALUE TEST SET COUNT : 1408 REMARK 3 REMARK 3 FIT IN THE HIGHEST RESOLUTION BIN. REMARK 3 TOTAL NUMBER OF BINS USED : 20 REMARK 3 BIN RESOLUTION RANGE HIGH (A) : 1.72 REMARK 3 BIN RESOLUTION RANGE LOW (A) : 1.77 REMARK 3 REFLECTION IN BIN (WORKING SET) : 1920 REMARK 3 BIN COMPLETENESS (WORKING+TEST) (%) : 99.80 REMARK 3 BIN R VALUE (WORKING SET) : 0.3530 REMARK 3 BIN FREE R VALUE SET COUNT : 116 REMARK 3 BIN FREE R VALUE : 0.4660 REMARK 3 REMARK 3 NUMBER OF NON-HYDROGEN ATOMS USED IN REFINEMENT. REMARK 3 PROTEIN ATOMS : 2188 REMARK 3 NUCLEIC ACID ATOMS : 0 REMARK 3 HETEROGEN ATOMS : 47 REMARK 3 SOLVENT ATOMS : 184 REMARK 3 REMARK 3 B VALUES. REMARK 3 FROM WILSON PLOT (A**2) : NULL REMARK 3 MEAN B VALUE (OVERALL, A**2) : 17.81 REMARK 3 OVERALL ANISOTROPIC B VALUE. REMARK 3 B11 (A**2) : 1.62000 REMARK 3 B22 (A**2) : 0.63000 REMARK 3 B33 (A**2) : -1.91000 REMARK 3 B12 (A**2) : 0.00000 REMARK 3 B13 (A**2) : 0.63000 REMARK 3 B23 (A**2) : 0.00000 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): 0.114 REMARK 3 ESU BASED ON MAXIMUM LIKELIHOOD (A): 0.076 REMARK 3 ESU FOR B VALUES BASED ON MAXIMUM LIKELIHOOD (A**2): 2.364 REMARK 3 REMARK 3 CORRELATION COEFFICIENTS. REMARK 3 CORRELATION COEFFICIENT FO-FC : 0.961 REMARK 3 CORRELATION COEFFICIENT FO-FC FREE : 0.940 REMARK 3 REMARK 3 RMS DEVIATIONS FROM IDEAL VALUES COUNT RMS WEIGHT REMARK 3 BOND LENGTHS REFINED ATOMS (A): 2312 ; 0.023 ; 0.022 REMARK 3 BOND LENGTHS OTHERS (A): NULL ; NULL ; NULL REMARK 3 BOND ANGLES REFINED ATOMS (DEGREES): 3125 ; 1.930 ; 1.945 REMARK 3 BOND ANGLES OTHERS (DEGREES): NULL ; NULL ; NULL REMARK 3 TORSION ANGLES, PERIOD 1 (DEGREES): 289 ; 6.176 ; 5.000 REMARK 3 TORSION ANGLES, PERIOD 2 (DEGREES): 118 ;36.842 ;24.915 REMARK 3 TORSION ANGLES, PERIOD 3 (DEGREES): 370 ;13.250 ;15.000 REMARK 3 TORSION ANGLES, PERIOD 4 (DEGREES): 12 ;20.591 ;15.000 REMARK 3 CHIRAL-CENTER RESTRAINTS (A**3): 329 ; 0.149 ; 0.200 REMARK 3 GENERAL PLANES REFINED ATOMS (A): 1782 ; 0.011 ; 0.021 REMARK 3 GENERAL PLANES OTHERS (A): NULL ; NULL ; NULL REMARK 3 NON-BONDED CONTACTS REFINED ATOMS (A): NULL ; NULL ; NULL REMARK 3 NON-BONDED CONTACTS OTHERS (A): NULL ; NULL ; NULL REMARK 3 NON-BONDED TORSION REFINED ATOMS (A): NULL ; NULL ; NULL REMARK 3 NON-BONDED TORSION OTHERS (A): NULL ; NULL ; NULL REMARK 3 H-BOND (X...Y) REFINED ATOMS (A): NULL ; NULL ; NULL REMARK 3 H-BOND (X...Y) OTHERS (A): NULL ; NULL ; NULL REMARK 3 POTENTIAL METAL-ION REFINED ATOMS (A): NULL ; NULL ; NULL REMARK 3 POTENTIAL METAL-ION OTHERS (A): NULL ; NULL ; NULL REMARK 3 SYMMETRY VDW REFINED ATOMS (A): NULL ; NULL ; NULL REMARK 3 SYMMETRY VDW OTHERS (A): NULL ; NULL ; NULL REMARK 3 SYMMETRY H-BOND REFINED ATOMS (A): NULL ; NULL ; NULL REMARK 3 SYMMETRY H-BOND OTHERS (A): NULL ; NULL ; NULL REMARK 3 SYMMETRY METAL-ION REFINED ATOMS (A): NULL ; NULL ; NULL REMARK 3 SYMMETRY METAL-ION OTHERS (A): NULL ; NULL ; NULL REMARK 3 REMARK 3 ISOTROPIC THERMAL FACTOR RESTRAINTS. COUNT RMS WEIGHT REMARK 3 MAIN-CHAIN BOND REFINED ATOMS (A**2): 1392 ; 1.215 ; 1.500 REMARK 3 MAIN-CHAIN BOND OTHER ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 MAIN-CHAIN ANGLE REFINED ATOMS (A**2): 2238 ; 1.970 ; 2.000 REMARK 3 MAIN-CHAIN ANGLE OTHER ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 SIDE-CHAIN BOND REFINED ATOMS (A**2): 920 ; 3.206 ; 3.000 REMARK 3 SIDE-CHAIN BOND OTHER ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 SIDE-CHAIN ANGLE REFINED ATOMS (A**2): 880 ; 4.816 ; 4.500 REMARK 3 SIDE-CHAIN ANGLE OTHER ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 LONG RANGE B REFINED ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 LONG RANGE B OTHER ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 REMARK 3 ANISOTROPIC THERMAL FACTOR RESTRAINTS. COUNT RMS WEIGHT REMARK 3 RIGID-BOND RESTRAINTS (A**2): NULL ; NULL ; NULL REMARK 3 SPHERICITY; FREE ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 SPHERICITY; BONDED ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 REMARK 3 NCS RESTRAINTS STATISTICS REMARK 3 NUMBER OF DIFFERENT NCS GROUPS : NULL REMARK 3 REMARK 3 TLS DETAILS REMARK 3 NUMBER OF TLS GROUPS : NULL REMARK 3 REMARK 3 BULK SOLVENT MODELLING. REMARK 3 METHOD USED : MASK REMARK 3 PARAMETERS FOR MASK CALCULATION REMARK 3 VDW PROBE RADIUS : 1.40 REMARK 3 ION PROBE RADIUS : 0.80 REMARK 3 SHRINKAGE RADIUS : 0.80 REMARK 3 REMARK 3 OTHER REFINEMENT REMARKS: HYDROGENS HAVE BEEN ADDED IN THE RIDING REMARK 3 POSITIONS U VALUES : REFINED INDIVIDUALLY REMARK 4 REMARK 4 3RLH COMPLIES WITH FORMAT V. 3.30, 13-JUL-11 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY RCSB ON 22-APR-11. REMARK 100 THE DEPOSITION ID IS D_1000065078. REMARK 200 REMARK 200 EXPERIMENTAL DETAILS REMARK 200 EXPERIMENT TYPE : X-RAY DIFFRACTION REMARK 200 DATE OF DATA COLLECTION : 20-AUG-10 REMARK 200 TEMPERATURE (KELVIN) : 100 REMARK 200 PH : 7.5 REMARK 200 NUMBER OF CRYSTALS USED : 1 REMARK 200 REMARK 200 SYNCHROTRON (Y/N) : Y REMARK 200 RADIATION SOURCE : LNLS REMARK 200 BEAMLINE : W01B-MX2 REMARK 200 X-RAY GENERATOR MODEL : NULL REMARK 200 MONOCHROMATIC OR LAUE (M/L) : M REMARK 200 WAVELENGTH OR RANGE (A) : 1.458 REMARK 200 MONOCHROMATOR : SI(111) REMARK 200 OPTICS : NULL REMARK 200 REMARK 200 DETECTOR TYPE : CCD REMARK 200 DETECTOR MANUFACTURER : MARMOSAIC 225 MM CCD REMARK 200 INTENSITY-INTEGRATION SOFTWARE : MOSFLM REMARK 200 DATA SCALING SOFTWARE : SCALEPACK, SCALA REMARK 200 REMARK 200 NUMBER OF UNIQUE REFLECTIONS : 28041 REMARK 200 RESOLUTION RANGE HIGH (A) : 1.720 REMARK 200 RESOLUTION RANGE LOW (A) : 54.165 REMARK 200 REJECTION CRITERIA (SIGMA(I)) : 6.000 REMARK 200 REMARK 200 OVERALL. REMARK 200 COMPLETENESS FOR RANGE (%) : 99.9 REMARK 200 DATA REDUNDANCY : NULL REMARK 200 R MERGE (I) : NULL REMARK 200 R SYM (I) : NULL REMARK 200 FOR THE DATA SET : NULL REMARK 200 REMARK 200 IN THE HIGHEST RESOLUTION SHELL. REMARK 200 HIGHEST RESOLUTION SHELL, RANGE HIGH (A) : 1.72 REMARK 200 HIGHEST RESOLUTION SHELL, RANGE LOW (A) : 1.81 REMARK 200 COMPLETENESS FOR SHELL (%) : 99.9 REMARK 200 DATA REDUNDANCY IN SHELL : 3.50 REMARK 200 R MERGE FOR SHELL (I) : 0.46800 REMARK 200 R SYM FOR SHELL (I) : 0.46800 REMARK 200 FOR SHELL : 2.000 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: PDB ENTRY 1XX1 REMARK 200 REMARK 200 REMARK: NULL REMARK 280 REMARK 280 CRYSTAL REMARK 280 SOLVENT CONTENT, VS (%): 32.07 REMARK 280 MATTHEWS COEFFICIENT, VM (ANGSTROMS**3/DA): 1.81 REMARK 280 REMARK 280 CRYSTALLIZATION CONDITIONS: 0.1 M TRIS-HCL PH 7.5, 40%(V/V) REMARK 280 PEG200, VAPOR DIFFUSION, SITTING DROP, TEMPERATURE 291K 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 24.65000 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 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: PISA 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 MET A -48 REMARK 465 GLY A -47 REMARK 465 SER A -46 REMARK 465 SER A -45 REMARK 465 HIS A -44 REMARK 465 HIS A -43 REMARK 465 HIS A -42 REMARK 465 HIS A -41 REMARK 465 HIS A -40 REMARK 465 HIS A -39 REMARK 465 SER A -38 REMARK 465 SER A -37 REMARK 465 GLY A -36 REMARK 465 LEU A -35 REMARK 465 VAL A -34 REMARK 465 PRO A -33 REMARK 465 ARG A -32 REMARK 465 GLY A -31 REMARK 465 SER A -30 REMARK 465 HIS A -29 REMARK 465 MET A -28 REMARK 465 LEU A -27 REMARK 465 GLU A -26 REMARK 465 MET A -25 REMARK 465 LEU A -24 REMARK 465 PRO A -23 REMARK 465 TYR A -22 REMARK 465 ILE A -21 REMARK 465 VAL A -20 REMARK 465 LEU A -19 REMARK 465 VAL A -18 REMARK 465 LEU A -17 REMARK 465 GLY A -16 REMARK 465 CYS A -15 REMARK 465 TRP A -14 REMARK 465 SER A -13 REMARK 465 VAL A -12 REMARK 465 LEU A -11 REMARK 465 SER A -10 REMARK 465 GLN A -9 REMARK 465 ALA A -8 REMARK 465 ALA A -7 REMARK 465 GLN A -6 REMARK 465 THR A -5 REMARK 465 ASP A -4 REMARK 465 ASP A -3 REMARK 465 GLU A -2 REMARK 465 GLU A -1 REMARK 465 ARG A 0 REMARK 465 ALA A 1 REMARK 465 LYS A 285 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 LYS A 58 CD CE NZ REMARK 480 LYS A 184 CG CD CE NZ REMARK 480 LYS A 269 CE NZ REMARK 500 REMARK 500 GEOMETRY AND STEREOCHEMISTRY REMARK 500 SUBTOPIC: COVALENT BOND LENGTHS 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,2(A3,1X,A1,I4,A1,1X,A4,3X),1X,F6.3) 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 RES CSSEQI ATM2 DEVIATION REMARK 500 GLY A 205 C LEU A 207 N 0.164 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 ARG A 4 NE - CZ - NH1 ANGL. DEV. = 4.5 DEGREES REMARK 500 ARG A 4 NE - CZ - NH2 ANGL. DEV. = -3.1 DEGREES REMARK 500 LEU A 97 CB - CG - CD1 ANGL. DEV. = -12.3 DEGREES REMARK 500 GLY A 205 CA - C - N ANGL. DEV. = -13.8 DEGREES REMARK 500 REMARK 500 REMARK: NULL REMARK 500 REMARK 500 GEOMETRY AND STEREOCHEMISTRY REMARK 500 SUBTOPIC: MAIN CHAIN PLANARITY REMARK 500 REMARK 500 THE FOLLOWING RESIDUES HAVE A PSEUDO PLANARITY REMARK 500 TORSION ANGLE, C(I) - CA(I) - N(I+1) - O(I), GREATER REMARK 500 10.0 DEGREES. (M=MODEL NUMBER; RES=RESIDUE NAME; REMARK 500 C=CHAIN IDENTIFIER; SSEQ=SEQUENCE NUMBER; REMARK 500 I=INSERTION CODE). REMARK 500 REMARK 500 M RES CSSEQI ANGLE REMARK 500 GLY A 205 14.87 REMARK 500 REMARK 500 REMARK: NULL REMARK 620 REMARK 620 METAL COORDINATION REMARK 620 (M=MODEL NUMBER; RES=RESIDUE NAME; C=CHAIN IDENTIFIER; REMARK 620 SSEQ=SEQUENCE NUMBER; I=INSERTION CODE): REMARK 620 REMARK 620 COORDINATION ANGLES FOR: M RES CSSEQI METAL REMARK 620 MG A 286 MG REMARK 620 N RES CSSEQI ATOM REMARK 620 1 GLU A 32 OE2 REMARK 620 2 ASP A 34 OD1 100.6 REMARK 620 3 ASP A 91 OD2 94.5 87.5 REMARK 620 4 PEG A 289 O2 98.7 160.7 89.7 REMARK 620 5 PEG A 289 O1 161.5 97.8 88.8 63.0 REMARK 620 6 HOH A 294 O 91.9 85.1 171.0 95.6 87.1 REMARK 620 N 1 2 3 4 5 REMARK 800 REMARK 800 SITE REMARK 800 SITE_IDENTIFIER: AC1 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE MG A 286 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC2 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE PGE A 287 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC3 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE PEG A 288 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC4 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE PEG A 289 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC5 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE PEG A 290 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC6 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE PEG A 291 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC7 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE EDO A 292 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC8 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE EDO A 293 REMARK 900 REMARK 900 RELATED ENTRIES REMARK 900 RELATED ID: 3RLG RELATED DB: PDB DBREF 3RLH A -25 285 UNP P0CE80 A1HA_LOXIN 1 306 SEQADV 3RLH MET A -48 UNP P0CE80 EXPRESSION TAG SEQADV 3RLH GLY A -47 UNP P0CE80 EXPRESSION TAG SEQADV 3RLH SER A -46 UNP P0CE80 EXPRESSION TAG SEQADV 3RLH SER A -45 UNP P0CE80 EXPRESSION TAG SEQADV 3RLH HIS A -44 UNP P0CE80 EXPRESSION TAG SEQADV 3RLH HIS A -43 UNP P0CE80 EXPRESSION TAG SEQADV 3RLH HIS A -42 UNP P0CE80 EXPRESSION TAG SEQADV 3RLH HIS A -41 UNP P0CE80 EXPRESSION TAG SEQADV 3RLH HIS A -40 UNP P0CE80 EXPRESSION TAG SEQADV 3RLH HIS A -39 UNP P0CE80 EXPRESSION TAG SEQADV 3RLH SER A -38 UNP P0CE80 EXPRESSION TAG SEQADV 3RLH SER A -37 UNP P0CE80 EXPRESSION TAG SEQADV 3RLH GLY A -36 UNP P0CE80 EXPRESSION TAG SEQADV 3RLH LEU A -35 UNP P0CE80 EXPRESSION TAG SEQADV 3RLH VAL A -34 UNP P0CE80 EXPRESSION TAG SEQADV 3RLH PRO A -33 UNP P0CE80 EXPRESSION TAG SEQADV 3RLH ARG A -32 UNP P0CE80 EXPRESSION TAG SEQADV 3RLH GLY A -31 UNP P0CE80 EXPRESSION TAG SEQADV 3RLH SER A -30 UNP P0CE80 EXPRESSION TAG SEQADV 3RLH HIS A -29 UNP P0CE80 EXPRESSION TAG SEQADV 3RLH MET A -28 UNP P0CE80 EXPRESSION TAG SEQADV 3RLH LEU A -27 UNP P0CE80 EXPRESSION TAG SEQADV 3RLH GLU A -26 UNP P0CE80 EXPRESSION TAG SEQADV 3RLH ASP A 277 UNP P0CE80 GLU 298 ENGINEERED MUTATION SEQRES 1 A 329 MET GLY SER SER HIS HIS HIS HIS HIS HIS SER SER GLY SEQRES 2 A 329 LEU VAL PRO ARG GLY SER HIS MET LEU GLU MET LEU PRO SEQRES 3 A 329 TYR ILE VAL LEU VAL LEU GLY CYS TRP SER VAL LEU SER SEQRES 4 A 329 GLN ALA ALA GLN THR ASP ASP GLU GLU ARG ALA GLY ASN SEQRES 5 A 329 ARG ARG PRO ILE TRP ILE MET GLY HIS MET VAL ASN ALA SEQRES 6 A 329 ILE GLY GLN ILE ASP GLU PHE VAL ASN LEU GLY ALA ASN SEQRES 7 A 329 SER ILE GLU THR ASP VAL SER PHE ASP ASP ASN ALA ASN SEQRES 8 A 329 PRO GLU TYR THR TYR HIS GLY ILE PRO CYS ASP CYS GLY SEQRES 9 A 329 ARG ASN CYS LYS LYS TYR GLU ASN PHE ASN ASP PHE LEU SEQRES 10 A 329 LYS GLY LEU ARG SER ALA THR THR PRO GLY ASN SER LYS SEQRES 11 A 329 TYR GLN GLU LYS LEU VAL LEU VAL VAL PHE ASP LEU LYS SEQRES 12 A 329 THR GLY SER LEU TYR ASP ASN GLN ALA ASN ASP ALA GLY SEQRES 13 A 329 LYS LYS LEU ALA LYS ASN LEU LEU GLN HIS TYR TRP ASN SEQRES 14 A 329 ASN GLY ASN ASN GLY GLY ARG ALA TYR ILE VAL LEU SER SEQRES 15 A 329 ILE PRO ASP LEU ASN HIS TYR PRO LEU ILE LYS GLY PHE SEQRES 16 A 329 LYS ASP GLN LEU THR LYS ASP GLY HIS PRO GLU LEU MET SEQRES 17 A 329 ASP LYS VAL GLY HIS ASP PHE SER GLY ASN ASP ASP ILE SEQRES 18 A 329 GLY ASP VAL GLY LYS ALA TYR LYS LYS ALA GLY ILE THR SEQRES 19 A 329 GLY HIS ILE TRP GLN SER ASP GLY ILE THR ASN CYS LEU SEQRES 20 A 329 PRO ARG GLY LEU SER ARG VAL ASN ALA ALA VAL ALA ASN SEQRES 21 A 329 ARG ASP SER ALA ASN GLY PHE ILE ASN LYS VAL TYR TYR SEQRES 22 A 329 TRP THR VAL ASP LYS ARG SER THR THR ARG ASP ALA LEU SEQRES 23 A 329 ASP ALA GLY VAL ASP GLY ILE MET THR ASN TYR PRO ASP SEQRES 24 A 329 VAL ILE THR ASP VAL LEU ASN GLU ALA ALA TYR LYS LYS SEQRES 25 A 329 LYS PHE ARG VAL ALA THR TYR ASP ASP ASN PRO TRP VAL SEQRES 26 A 329 THR PHE LYS LYS HET MG A 286 1 HET PGE A 287 10 HET PEG A 288 7 HET PEG A 289 7 HET PEG A 290 7 HET PEG A 291 7 HET EDO A 292 4 HET EDO A 293 4 HETNAM MG MAGNESIUM ION HETNAM PGE TRIETHYLENE GLYCOL HETNAM PEG DI(HYDROXYETHYL)ETHER HETNAM EDO 1,2-ETHANEDIOL HETSYN EDO ETHYLENE GLYCOL FORMUL 2 MG MG 2+ FORMUL 3 PGE C6 H14 O4 FORMUL 4 PEG 4(C4 H10 O3) FORMUL 8 EDO 2(C2 H6 O2) FORMUL 10 HOH *184(H2 O) HELIX 1 1 GLY A 18 LEU A 26 1 9 HELIX 2 2 ASN A 62 THR A 74 1 13 HELIX 3 3 THR A 94 LEU A 97 5 4 HELIX 4 4 TYR A 98 ASN A 100 5 3 HELIX 5 5 GLN A 101 TYR A 117 1 17 HELIX 6 6 TRP A 118 ASN A 122 5 5 HELIX 7 7 ASP A 135 HIS A 138 5 4 HELIX 8 8 TYR A 139 ASP A 152 1 14 HELIX 9 9 HIS A 154 ASP A 159 5 6 HELIX 10 10 ASP A 175 GLY A 187 1 13 HELIX 11 11 LEU A 207 ASP A 218 1 12 HELIX 12 12 LYS A 234 GLY A 245 1 12 HELIX 13 13 TYR A 253 ASN A 262 1 10 HELIX 14 14 GLU A 263 LYS A 268 1 6 SHEET 1 A 8 VAL A 161 PHE A 165 0 SHEET 2 A 8 TYR A 128 ILE A 133 1 N ILE A 133 O ASP A 164 SHEET 3 A 8 LEU A 87 LEU A 92 1 N PHE A 90 O VAL A 130 SHEET 4 A 8 SER A 30 VAL A 35 1 N THR A 33 O ASP A 91 SHEET 5 A 8 ARG A 5 GLY A 11 1 N GLY A 11 O SER A 30 SHEET 6 A 8 GLY A 248 THR A 251 1 O ILE A 249 N MET A 10 SHEET 7 A 8 LYS A 226 TRP A 230 1 N TYR A 229 O MET A 250 SHEET 8 A 8 TRP A 193 GLY A 197 1 N GLN A 194 O LYS A 226 SHEET 1 B 6 VAL A 161 PHE A 165 0 SHEET 2 B 6 TYR A 128 ILE A 133 1 N ILE A 133 O ASP A 164 SHEET 3 B 6 LEU A 87 LEU A 92 1 N PHE A 90 O VAL A 130 SHEET 4 B 6 SER A 30 VAL A 35 1 N THR A 33 O ASP A 91 SHEET 5 B 6 ARG A 5 GLY A 11 1 N GLY A 11 O SER A 30 SHEET 6 B 6 PHE A 270 VAL A 272 1 O ARG A 271 N ILE A 7 SSBOND 1 CYS A 51 CYS A 57 1555 1555 2.04 SSBOND 2 CYS A 53 CYS A 201 1555 1555 2.10 LINK OE2 GLU A 32 MG MG A 286 1555 1555 1.97 LINK OD1 ASP A 34 MG MG A 286 1555 1555 2.09 LINK OD2 ASP A 91 MG MG A 286 1555 1555 2.18 LINK MG MG A 286 O2 APEG A 289 1555 1555 2.19 LINK MG MG A 286 O1 APEG A 289 1555 1555 2.23 LINK MG MG A 286 O HOH A 294 1555 1555 2.15 CISPEP 1 ILE A 49 PRO A 50 0 -1.61 CISPEP 2 TRP A 230 THR A 231 0 -24.55 SITE 1 AC1 6 GLU A 32 ASP A 34 ASP A 91 PEG A 289 SITE 2 AC1 6 PEG A 291 HOH A 294 SITE 1 AC2 5 ASP A 104 LYS A 108 LYS A 111 HOH A 336 SITE 2 AC2 5 HOH A 456 SITE 1 AC3 2 ASN A 137 LYS A 185 SITE 1 AC4 11 HIS A 12 GLU A 32 ASP A 34 HIS A 47 SITE 2 AC4 11 ASP A 91 LYS A 93 MG A 286 HOH A 294 SITE 3 AC4 11 HOH A 328 HOH A 369 HOH A 424 SITE 1 AC5 2 LYS A 267 HOH A 450 SITE 1 AC6 8 HIS A 12 ASP A 91 TYR A 228 TRP A 230 SITE 2 AC6 8 MG A 286 HOH A 369 HOH A 380 HOH A 424 SITE 1 AC7 4 GLU A 22 PHE A 23 ARG A 55 ASN A 252 SITE 1 AC8 2 SER A 96 TYR A 98 CRYST1 49.810 49.300 56.300 90.00 105.83 90.00 P 1 21 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 0.020076 0.000000 0.005692 0.00000 SCALE2 0.000000 0.020284 0.000000 0.00000 SCALE3 0.000000 0.000000 0.018462 0.00000