HEADER TRANSFERASE 11-DEC-14 4X93 TITLE CRYSTAL STRUCTURE OF LYSOSOMAL PHOSPHOLIPASE A2 CRYSTALLIZED IN THE TITLE 2 PRESENCE OF METHYL ARACHIDONYL FLUOROPHOSPHONATE (TETRAGONAL FORM) COMPND MOL_ID: 1; COMPND 2 MOLECULE: GROUP XV PHOSPHOLIPASE A2; COMPND 3 CHAIN: A, B; COMPND 4 FRAGMENT: UNP RESIDUES 34-412; COMPND 5 SYNONYM: 1-O-ACYLCERAMIDE SYNTHASE,ACS,LCAT-LIKE LYSOPHOSPHOLIPASE, COMPND 6 LLPL,LYSOPHOSPHOLIPASE 3,LYSOSOMAL PHOSPHOLIPASE A2,LPLA2; COMPND 7 EC: 2.3.1.-; COMPND 8 ENGINEERED: YES SOURCE MOL_ID: 1; SOURCE 2 ORGANISM_SCIENTIFIC: HOMO SAPIENS; SOURCE 3 ORGANISM_COMMON: HUMAN; SOURCE 4 ORGANISM_TAXID: 9606; SOURCE 5 GENE: PLA2G15, LYPLA3, UNQ341/PRO540; SOURCE 6 EXPRESSION_SYSTEM: HOMO SAPIENS; SOURCE 7 EXPRESSION_SYSTEM_TAXID: 9606; SOURCE 8 EXPRESSION_SYSTEM_CELL_LINE: HEK293S GNTI-; SOURCE 9 EXPRESSION_SYSTEM_ATCC_NUMBER: CRL-3022 KEYWDS HYDROLASE, PHOSPHOLIPASE, ESTERASE, ACYLTRANSFERASE, TRANSFERASE EXPDTA X-RAY DIFFRACTION AUTHOR A.GLUKHOVA,J.J.G.TESMER REVDAT 6 27-SEP-23 4X93 1 HETSYN REVDAT 5 29-JUL-20 4X93 1 COMPND REMARK HETNAM LINK REVDAT 5 2 1 SITE REVDAT 4 04-DEC-19 4X93 1 REMARK REVDAT 3 22-NOV-17 4X93 1 REMARK REVDAT 2 13-SEP-17 4X93 1 SOURCE REMARK SSBOND REVDAT 1 25-MAR-15 4X93 0 JRNL AUTH A.GLUKHOVA,V.HINKOVSKA-GALCHEVA,R.KELLY,A.ABE,J.A.SHAYMAN, JRNL AUTH 2 J.J.TESMER JRNL TITL STRUCTURE AND FUNCTION OF LYSOSOMAL PHOSPHOLIPASE A2 AND JRNL TITL 2 LECITHIN:CHOLESTEROL ACYLTRANSFERASE. JRNL REF NAT COMMUN V. 6 6250 2015 JRNL REFN ESSN 2041-1723 JRNL PMID 25727495 JRNL DOI 10.1038/NCOMMS7250 REMARK 2 REMARK 2 RESOLUTION. 2.60 ANGSTROMS. REMARK 3 REMARK 3 REFINEMENT. REMARK 3 PROGRAM : REFMAC 5.8.0073 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) : 2.60 REMARK 3 RESOLUTION RANGE LOW (ANGSTROMS) : 30.00 REMARK 3 DATA CUTOFF (SIGMA(F)) : 0.000 REMARK 3 COMPLETENESS FOR RANGE (%) : 99.8 REMARK 3 NUMBER OF REFLECTIONS : 42161 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) : 0.200 REMARK 3 R VALUE (WORKING SET) : 0.199 REMARK 3 FREE R VALUE : 0.218 REMARK 3 FREE R VALUE TEST SET SIZE (%) : 4.900 REMARK 3 FREE R VALUE TEST SET COUNT : 2158 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) : 2.60 REMARK 3 BIN RESOLUTION RANGE LOW (A) : 2.67 REMARK 3 REFLECTION IN BIN (WORKING SET) : 3054 REMARK 3 BIN COMPLETENESS (WORKING+TEST) (%) : 99.84 REMARK 3 BIN R VALUE (WORKING SET) : 0.3030 REMARK 3 BIN FREE R VALUE SET COUNT : 160 REMARK 3 BIN FREE R VALUE : 0.3350 REMARK 3 REMARK 3 NUMBER OF NON-HYDROGEN ATOMS USED IN REFINEMENT. REMARK 3 PROTEIN ATOMS : 6049 REMARK 3 NUCLEIC ACID ATOMS : 0 REMARK 3 HETEROGEN ATOMS : 174 REMARK 3 SOLVENT ATOMS : 91 REMARK 3 REMARK 3 B VALUES. REMARK 3 FROM WILSON PLOT (A**2) : NULL REMARK 3 MEAN B VALUE (OVERALL, A**2) : 62.71 REMARK 3 OVERALL ANISOTROPIC B VALUE. REMARK 3 B11 (A**2) : 0.67000 REMARK 3 B22 (A**2) : 0.67000 REMARK 3 B33 (A**2) : -1.34000 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 OVERALL COORDINATE ERROR. REMARK 3 ESU BASED ON R VALUE (A): 0.326 REMARK 3 ESU BASED ON FREE R VALUE (A): 0.225 REMARK 3 ESU BASED ON MAXIMUM LIKELIHOOD (A): 0.175 REMARK 3 ESU FOR B VALUES BASED ON MAXIMUM LIKELIHOOD (A**2): 17.517 REMARK 3 REMARK 3 CORRELATION COEFFICIENTS. REMARK 3 CORRELATION COEFFICIENT FO-FC : 0.952 REMARK 3 CORRELATION COEFFICIENT FO-FC FREE : 0.945 REMARK 3 REMARK 3 RMS DEVIATIONS FROM IDEAL VALUES COUNT RMS WEIGHT REMARK 3 BOND LENGTHS REFINED ATOMS (A): 6488 ; 0.008 ; 0.019 REMARK 3 BOND LENGTHS OTHERS (A): 6054 ; 0.003 ; 0.020 REMARK 3 BOND ANGLES REFINED ATOMS (DEGREES): 8822 ; 1.240 ; 1.985 REMARK 3 BOND ANGLES OTHERS (DEGREES): 13916 ; 0.869 ; 3.000 REMARK 3 TORSION ANGLES, PERIOD 1 (DEGREES): 765 ; 5.914 ; 5.000 REMARK 3 TORSION ANGLES, PERIOD 2 (DEGREES): 292 ;35.107 ;23.493 REMARK 3 TORSION ANGLES, PERIOD 3 (DEGREES): 1011 ;12.608 ;15.000 REMARK 3 TORSION ANGLES, PERIOD 4 (DEGREES): 42 ;11.200 ;15.000 REMARK 3 CHIRAL-CENTER RESTRAINTS (A**3): 966 ; 0.086 ; 0.200 REMARK 3 GENERAL PLANES REFINED ATOMS (A): 7179 ; 0.005 ; 0.021 REMARK 3 GENERAL PLANES OTHERS (A): 1507 ; 0.003 ; 0.020 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): 3051 ; 1.484 ; 3.877 REMARK 3 MAIN-CHAIN BOND OTHER ATOMS (A**2): 3050 ; 1.484 ; 3.875 REMARK 3 MAIN-CHAIN ANGLE REFINED ATOMS (A**2): 3813 ; 2.542 ; 5.812 REMARK 3 MAIN-CHAIN ANGLE OTHER ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 SIDE-CHAIN BOND REFINED ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 SIDE-CHAIN BOND OTHER ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 SIDE-CHAIN ANGLE REFINED ATOMS (A**2): NULL ; NULL ; NULL 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 NCS TYPE: LOCAL REMARK 3 NUMBER OF DIFFERENT NCS PAIRS : 1 REMARK 3 GROUP CHAIN1 RANGE CHAIN2 RANGE COUNT RMS WEIGHT REMARK 3 1 A 4 378 B 4 378 23361 0.070 0.050 REMARK 3 REMARK 3 TLS DETAILS REMARK 3 NUMBER OF TLS GROUPS : 2 REMARK 3 REMARK 3 TLS GROUP : 1 REMARK 3 NUMBER OF COMPONENTS GROUP : 1 REMARK 3 COMPONENTS C SSSEQI TO C SSSEQI REMARK 3 RESIDUE RANGE : A 4 A 385 REMARK 3 ORIGIN FOR THE GROUP (A): 34.9694 86.6045 65.8475 REMARK 3 T TENSOR REMARK 3 T11: 0.2837 T22: 0.0702 REMARK 3 T33: 0.0072 T12: 0.0562 REMARK 3 T13: -0.0078 T23: -0.0189 REMARK 3 L TENSOR REMARK 3 L11: 1.4662 L22: 1.2504 REMARK 3 L33: 2.1161 L12: 0.4173 REMARK 3 L13: -1.1085 L23: -0.5144 REMARK 3 S TENSOR REMARK 3 S11: 0.0438 S12: -0.0694 S13: -0.0277 REMARK 3 S21: -0.2888 S22: -0.0274 S23: -0.0289 REMARK 3 S31: -0.0410 S32: 0.1720 S33: -0.0165 REMARK 3 REMARK 3 TLS GROUP : 2 REMARK 3 NUMBER OF COMPONENTS GROUP : 1 REMARK 3 COMPONENTS C SSSEQI TO C SSSEQI REMARK 3 RESIDUE RANGE : B 3 B 397 REMARK 3 ORIGIN FOR THE GROUP (A): 41.3750 79.1221 21.6907 REMARK 3 T TENSOR REMARK 3 T11: 0.1884 T22: 0.2236 REMARK 3 T33: 0.1080 T12: -0.0830 REMARK 3 T13: 0.0711 T23: -0.0214 REMARK 3 L TENSOR REMARK 3 L11: 1.4174 L22: 1.8129 REMARK 3 L33: 2.3236 L12: 0.0627 REMARK 3 L13: 0.2363 L23: 0.4705 REMARK 3 S TENSOR REMARK 3 S11: 0.0584 S12: -0.0224 S13: 0.0378 REMARK 3 S21: 0.1609 S22: -0.1614 S23: 0.3851 REMARK 3 S31: 0.0575 S32: -0.6038 S33: 0.1030 REMARK 3 REMARK 3 BULK SOLVENT MODELLING. REMARK 3 METHOD USED : MASK REMARK 3 PARAMETERS FOR MASK CALCULATION REMARK 3 VDW PROBE RADIUS : 1.20 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 : WITH TLS ADDED REMARK 4 REMARK 4 4X93 COMPLIES WITH FORMAT V. 3.30, 13-JUL-11 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY RCSB ON 17-DEC-14. REMARK 100 THE DEPOSITION ID IS D_1000205258. REMARK 200 REMARK 200 EXPERIMENTAL DETAILS REMARK 200 EXPERIMENT TYPE : X-RAY DIFFRACTION REMARK 200 DATE OF DATA COLLECTION : 14-JUN-13 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 : APS REMARK 200 BEAMLINE : 23-ID-D REMARK 200 X-RAY GENERATOR MODEL : NULL REMARK 200 MONOCHROMATIC OR LAUE (M/L) : M REMARK 200 WAVELENGTH OR RANGE (A) : 0.97933 REMARK 200 MONOCHROMATOR : NULL REMARK 200 OPTICS : NULL REMARK 200 REMARK 200 DETECTOR TYPE : CCD REMARK 200 DETECTOR MANUFACTURER : MARMOSAIC 300 MM CCD REMARK 200 INTENSITY-INTEGRATION SOFTWARE : NULL REMARK 200 DATA SCALING SOFTWARE : HKL-2000, AIMLESS REMARK 200 REMARK 200 NUMBER OF UNIQUE REFLECTIONS : 44707 REMARK 200 RESOLUTION RANGE HIGH (A) : 2.600 REMARK 200 RESOLUTION RANGE LOW (A) : 30.000 REMARK 200 REJECTION CRITERIA (SIGMA(I)) : NULL REMARK 200 REMARK 200 OVERALL. REMARK 200 COMPLETENESS FOR RANGE (%) : 100.0 REMARK 200 DATA REDUNDANCY : 14.60 REMARK 200 R MERGE (I) : 0.15900 REMARK 200 R SYM (I) : NULL REMARK 200 FOR THE DATA SET : 4.4000 REMARK 200 REMARK 200 IN THE HIGHEST RESOLUTION SHELL. REMARK 200 HIGHEST RESOLUTION SHELL, RANGE HIGH (A) : 2.60 REMARK 200 HIGHEST RESOLUTION SHELL, RANGE LOW (A) : 2.64 REMARK 200 COMPLETENESS FOR SHELL (%) : 100.0 REMARK 200 DATA REDUNDANCY IN SHELL : 14.70 REMARK 200 R MERGE FOR SHELL (I) : 0.85500 REMARK 200 R SYM FOR SHELL (I) : NULL REMARK 200 FOR SHELL : NULL REMARK 200 REMARK 200 DIFFRACTION PROTOCOL: SINGLE WAVELENGTH REMARK 200 METHOD USED TO DETERMINE THE STRUCTURE: MOLECULAR REPLACEMENT REMARK 200 SOFTWARE USED: PHASER REMARK 200 STARTING MODEL: 4X90 REMARK 200 REMARK 200 REMARK: NULL REMARK 280 REMARK 280 CRYSTAL REMARK 280 SOLVENT CONTENT, VS (%): 69.36 REMARK 280 MATTHEWS COEFFICIENT, VM (ANGSTROMS**3/DA): 4.01 REMARK 280 REMARK 280 CRYSTALLIZATION CONDITIONS: 100 MM HEPES PH 7.5, 30% PEG MME 550, REMARK 280 50 MM MGCL2, VAPOR DIFFUSION, SITTING DROP, TEMPERATURE 277K REMARK 290 REMARK 290 CRYSTALLOGRAPHIC SYMMETRY REMARK 290 SYMMETRY OPERATORS FOR SPACE GROUP: P 43 21 2 REMARK 290 REMARK 290 SYMOP SYMMETRY REMARK 290 NNNMMM OPERATOR REMARK 290 1555 X,Y,Z REMARK 290 2555 -X,-Y,Z+1/2 REMARK 290 3555 -Y+1/2,X+1/2,Z+3/4 REMARK 290 4555 Y+1/2,-X+1/2,Z+1/4 REMARK 290 5555 -X+1/2,Y+1/2,-Z+3/4 REMARK 290 6555 X+1/2,-Y+1/2,-Z+1/4 REMARK 290 7555 Y,X,-Z REMARK 290 8555 -Y,-X,-Z+1/2 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 0.00000 REMARK 290 SMTRY3 2 0.000000 0.000000 1.000000 182.92400 REMARK 290 SMTRY1 3 0.000000 -1.000000 0.000000 43.41000 REMARK 290 SMTRY2 3 1.000000 0.000000 0.000000 43.41000 REMARK 290 SMTRY3 3 0.000000 0.000000 1.000000 274.38600 REMARK 290 SMTRY1 4 0.000000 1.000000 0.000000 43.41000 REMARK 290 SMTRY2 4 -1.000000 0.000000 0.000000 43.41000 REMARK 290 SMTRY3 4 0.000000 0.000000 1.000000 91.46200 REMARK 290 SMTRY1 5 -1.000000 0.000000 0.000000 43.41000 REMARK 290 SMTRY2 5 0.000000 1.000000 0.000000 43.41000 REMARK 290 SMTRY3 5 0.000000 0.000000 -1.000000 274.38600 REMARK 290 SMTRY1 6 1.000000 0.000000 0.000000 43.41000 REMARK 290 SMTRY2 6 0.000000 -1.000000 0.000000 43.41000 REMARK 290 SMTRY3 6 0.000000 0.000000 -1.000000 91.46200 REMARK 290 SMTRY1 7 0.000000 1.000000 0.000000 0.00000 REMARK 290 SMTRY2 7 1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY3 7 0.000000 0.000000 -1.000000 0.00000 REMARK 290 SMTRY1 8 0.000000 -1.000000 0.000000 0.00000 REMARK 290 SMTRY2 8 -1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY3 8 0.000000 0.000000 -1.000000 182.92400 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 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 GLY A 0 REMARK 465 ALA A 1 REMARK 465 GLY A 2 REMARK 465 ARG A 3 REMARK 465 GLY B 0 REMARK 465 ALA B 1 REMARK 465 GLY B 2 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 ND2 ASN A 256 O5 NAG A 403 1.95 REMARK 500 ND2 ASN B 365 O5 NAG B 404 2.04 REMARK 500 O1S EPE B 405 O HOH B 546 2.12 REMARK 500 ND2 ASN B 240 O5 NAG B 402 2.12 REMARK 500 N VAL B 52 O HOH B 501 2.13 REMARK 500 ND2 ASN A 240 O5 NAG A 402 2.15 REMARK 500 ND2 ASN B 66 O5 NAG B 401 2.16 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 PRO B 51 N - CA - C ANGL. DEV. = 22.8 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 ASP A 23 70.55 -151.65 REMARK 500 VAL A 52 -15.76 -49.23 REMARK 500 ILE A 53 -3.89 -144.96 REMARK 500 TYR A 104 -79.51 -125.39 REMARK 500 GLU A 121 -92.61 -113.03 REMARK 500 SER A 165 -130.03 56.79 REMARK 500 THR A 329 -54.73 -127.73 REMARK 500 ASP B 23 70.28 -151.96 REMARK 500 TYR B 104 -80.31 -125.48 REMARK 500 GLU B 121 -90.99 -111.61 REMARK 500 SER B 165 -130.67 56.89 REMARK 500 ASN B 212 -79.57 -102.89 REMARK 500 ASN B 213 -25.69 42.86 REMARK 500 ILE B 215 85.64 155.92 REMARK 500 THR B 329 -54.58 -127.95 REMARK 500 REMARK 500 REMARK: NULL REMARK 900 REMARK 900 RELATED ENTRIES REMARK 900 RELATED ID: 4X90 RELATED DB: PDB REMARK 900 RELATED ID: 4X91 RELATED DB: PDB REMARK 900 RELATED ID: 4X92 RELATED DB: PDB REMARK 900 RELATED ID: 4X94 RELATED DB: PDB REMARK 900 RELATED ID: 4X95 RELATED DB: PDB REMARK 900 RELATED ID: 4X96 RELATED DB: PDB REMARK 900 RELATED ID: 4X97 RELATED DB: PDB DBREF 4X93 A 1 379 UNP Q8NCC3 PAG15_HUMAN 34 412 DBREF 4X93 B 1 379 UNP Q8NCC3 PAG15_HUMAN 34 412 SEQADV 4X93 GLY A 0 UNP Q8NCC3 CLONING ARTIFACT SEQADV 4X93 GLY B 0 UNP Q8NCC3 CLONING ARTIFACT SEQRES 1 A 380 GLY ALA GLY ARG HIS PRO PRO VAL VAL LEU VAL PRO GLY SEQRES 2 A 380 ASP LEU GLY ASN GLN LEU GLU ALA LYS LEU ASP LYS PRO SEQRES 3 A 380 THR VAL VAL HIS TYR LEU CYS SER LYS LYS THR GLU SER SEQRES 4 A 380 TYR PHE THR ILE TRP LEU ASN LEU GLU LEU LEU LEU PRO SEQRES 5 A 380 VAL ILE ILE ASP CYS TRP ILE ASP ASN ILE ARG LEU VAL SEQRES 6 A 380 TYR ASN LYS THR SER ARG ALA THR GLN PHE PRO ASP GLY SEQRES 7 A 380 VAL ASP VAL ARG VAL PRO GLY PHE GLY LYS THR PHE SER SEQRES 8 A 380 LEU GLU PHE LEU ASP PRO SER LYS SER SER VAL GLY SER SEQRES 9 A 380 TYR PHE HIS THR MET VAL GLU SER LEU VAL GLY TRP GLY SEQRES 10 A 380 TYR THR ARG GLY GLU ASP VAL ARG GLY ALA PRO TYR ASP SEQRES 11 A 380 TRP ARG ARG ALA PRO ASN GLU ASN GLY PRO TYR PHE LEU SEQRES 12 A 380 ALA LEU ARG GLU MET ILE GLU GLU MET TYR GLN LEU TYR SEQRES 13 A 380 GLY GLY PRO VAL VAL LEU VAL ALA HIS SER MET GLY ASN SEQRES 14 A 380 MET TYR THR LEU TYR PHE LEU GLN ARG GLN PRO GLN ALA SEQRES 15 A 380 TRP LYS ASP LYS TYR ILE ARG ALA PHE VAL SER LEU GLY SEQRES 16 A 380 ALA PRO TRP GLY GLY VAL ALA LYS THR LEU ARG VAL LEU SEQRES 17 A 380 ALA SER GLY ASP ASN ASN ARG ILE PRO VAL ILE GLY PRO SEQRES 18 A 380 LEU LYS ILE ARG GLU GLN GLN ARG SER ALA VAL SER THR SEQRES 19 A 380 SER TRP LEU LEU PRO TYR ASN TYR THR TRP SER PRO GLU SEQRES 20 A 380 LYS VAL PHE VAL GLN THR PRO THR ILE ASN TYR THR LEU SEQRES 21 A 380 ARG ASP TYR ARG LYS PHE PHE GLN ASP ILE GLY PHE GLU SEQRES 22 A 380 ASP GLY TRP LEU MET ARG GLN ASP THR GLU GLY LEU VAL SEQRES 23 A 380 GLU ALA THR MET PRO PRO GLY VAL GLN LEU HIS CYS LEU SEQRES 24 A 380 TYR GLY THR GLY VAL PRO THR PRO ASP SER PHE TYR TYR SEQRES 25 A 380 GLU SER PHE PRO ASP ARG ASP PRO LYS ILE CYS PHE GLY SEQRES 26 A 380 ASP GLY ASP GLY THR VAL ASN LEU LYS SER ALA LEU GLN SEQRES 27 A 380 CYS GLN ALA TRP GLN SER ARG GLN GLU HIS GLN VAL LEU SEQRES 28 A 380 LEU GLN GLU LEU PRO GLY SER GLU HIS ILE GLU MET LEU SEQRES 29 A 380 ALA ASN ALA THR THR LEU ALA TYR LEU LYS ARG VAL LEU SEQRES 30 A 380 LEU GLY PRO SEQRES 1 B 380 GLY ALA GLY ARG HIS PRO PRO VAL VAL LEU VAL PRO GLY SEQRES 2 B 380 ASP LEU GLY ASN GLN LEU GLU ALA LYS LEU ASP LYS PRO SEQRES 3 B 380 THR VAL VAL HIS TYR LEU CYS SER LYS LYS THR GLU SER SEQRES 4 B 380 TYR PHE THR ILE TRP LEU ASN LEU GLU LEU LEU LEU PRO SEQRES 5 B 380 VAL ILE ILE ASP CYS TRP ILE ASP ASN ILE ARG LEU VAL SEQRES 6 B 380 TYR ASN LYS THR SER ARG ALA THR GLN PHE PRO ASP GLY SEQRES 7 B 380 VAL ASP VAL ARG VAL PRO GLY PHE GLY LYS THR PHE SER SEQRES 8 B 380 LEU GLU PHE LEU ASP PRO SER LYS SER SER VAL GLY SER SEQRES 9 B 380 TYR PHE HIS THR MET VAL GLU SER LEU VAL GLY TRP GLY SEQRES 10 B 380 TYR THR ARG GLY GLU ASP VAL ARG GLY ALA PRO TYR ASP SEQRES 11 B 380 TRP ARG ARG ALA PRO ASN GLU ASN GLY PRO TYR PHE LEU SEQRES 12 B 380 ALA LEU ARG GLU MET ILE GLU GLU MET TYR GLN LEU TYR SEQRES 13 B 380 GLY GLY PRO VAL VAL LEU VAL ALA HIS SER MET GLY ASN SEQRES 14 B 380 MET TYR THR LEU TYR PHE LEU GLN ARG GLN PRO GLN ALA SEQRES 15 B 380 TRP LYS ASP LYS TYR ILE ARG ALA PHE VAL SER LEU GLY SEQRES 16 B 380 ALA PRO TRP GLY GLY VAL ALA LYS THR LEU ARG VAL LEU SEQRES 17 B 380 ALA SER GLY ASP ASN ASN ARG ILE PRO VAL ILE GLY PRO SEQRES 18 B 380 LEU LYS ILE ARG GLU GLN GLN ARG SER ALA VAL SER THR SEQRES 19 B 380 SER TRP LEU LEU PRO TYR ASN TYR THR TRP SER PRO GLU SEQRES 20 B 380 LYS VAL PHE VAL GLN THR PRO THR ILE ASN TYR THR LEU SEQRES 21 B 380 ARG ASP TYR ARG LYS PHE PHE GLN ASP ILE GLY PHE GLU SEQRES 22 B 380 ASP GLY TRP LEU MET ARG GLN ASP THR GLU GLY LEU VAL SEQRES 23 B 380 GLU ALA THR MET PRO PRO GLY VAL GLN LEU HIS CYS LEU SEQRES 24 B 380 TYR GLY THR GLY VAL PRO THR PRO ASP SER PHE TYR TYR SEQRES 25 B 380 GLU SER PHE PRO ASP ARG ASP PRO LYS ILE CYS PHE GLY SEQRES 26 B 380 ASP GLY ASP GLY THR VAL ASN LEU LYS SER ALA LEU GLN SEQRES 27 B 380 CYS GLN ALA TRP GLN SER ARG GLN GLU HIS GLN VAL LEU SEQRES 28 B 380 LEU GLN GLU LEU PRO GLY SER GLU HIS ILE GLU MET LEU SEQRES 29 B 380 ALA ASN ALA THR THR LEU ALA TYR LEU LYS ARG VAL LEU SEQRES 30 B 380 LEU GLY PRO HET NAG A 401 14 HET NAG A 402 14 HET NAG A 403 14 HET NAG A 404 14 HET EPE A 405 15 HET NAG B 401 14 HET NAG B 402 14 HET NAG B 403 14 HET NAG B 404 14 HET EPE B 405 15 HET PEG B 406 7 HET PE8 B 407 25 HETNAM NAG 2-ACETAMIDO-2-DEOXY-BETA-D-GLUCOPYRANOSE HETNAM EPE 4-(2-HYDROXYETHYL)-1-PIPERAZINE ETHANESULFONIC ACID HETNAM PEG DI(HYDROXYETHYL)ETHER HETNAM PE8 3,6,9,12,15,18,21-HEPTAOXATRICOSANE-1,23-DIOL HETSYN NAG N-ACETYL-BETA-D-GLUCOSAMINE; 2-ACETAMIDO-2-DEOXY-BETA- HETSYN 2 NAG D-GLUCOSE; 2-ACETAMIDO-2-DEOXY-D-GLUCOSE; 2-ACETAMIDO- HETSYN 3 NAG 2-DEOXY-GLUCOSE; N-ACETYL-D-GLUCOSAMINE HETSYN EPE HEPES FORMUL 3 NAG 8(C8 H15 N O6) FORMUL 7 EPE 2(C8 H18 N2 O4 S) FORMUL 13 PEG C4 H10 O3 FORMUL 14 PE8 C16 H34 O9 FORMUL 15 HOH *91(H2 O) HELIX 1 AA1 ASN A 45 LEU A 49 5 5 HELIX 2 AA2 LEU A 50 ARG A 62 1 13 HELIX 3 AA3 THR A 88 PHE A 93 1 6 HELIX 4 AA4 SER A 99 SER A 103 5 5 HELIX 5 AA5 PHE A 105 TRP A 115 1 11 HELIX 6 AA6 ALA A 133 GLU A 136 5 4 HELIX 7 AA7 ASN A 137 GLY A 156 1 20 HELIX 8 AA8 MET A 166 ARG A 177 1 12 HELIX 9 AA9 PRO A 179 TYR A 186 1 8 HELIX 10 AB1 LYS A 202 GLY A 210 1 9 HELIX 11 AB2 GLY A 219 ALA A 230 1 12 HELIX 12 AB3 ALA A 230 LEU A 236 1 7 HELIX 13 AB4 ASP A 261 ILE A 269 1 9 HELIX 14 AB5 GLU A 272 GLU A 282 1 11 HELIX 15 AB6 ASN A 331 SER A 334 5 4 HELIX 16 AB7 ALA A 335 GLN A 342 1 8 HELIX 17 AB8 ILE A 360 ALA A 364 5 5 HELIX 18 AB9 ASN A 365 GLY A 378 1 14 HELIX 19 AC1 ASN B 45 LEU B 50 5 6 HELIX 20 AC2 VAL B 52 ARG B 62 1 11 HELIX 21 AC3 THR B 88 PHE B 93 1 6 HELIX 22 AC4 SER B 99 SER B 103 5 5 HELIX 23 AC5 PHE B 105 TRP B 115 1 11 HELIX 24 AC6 ALA B 133 GLU B 136 5 4 HELIX 25 AC7 ASN B 137 GLY B 156 1 20 HELIX 26 AC8 MET B 166 ARG B 177 1 12 HELIX 27 AC9 PRO B 179 TYR B 186 1 8 HELIX 28 AD1 ALA B 201 GLY B 210 1 10 HELIX 29 AD2 GLY B 219 ALA B 230 1 12 HELIX 30 AD3 ALA B 230 LEU B 236 1 7 HELIX 31 AD4 ASP B 261 ILE B 269 1 9 HELIX 32 AD5 GLU B 272 GLU B 282 1 11 HELIX 33 AD6 ASN B 331 SER B 334 5 4 HELIX 34 AD7 ALA B 335 GLN B 342 1 8 HELIX 35 AD8 ILE B 360 ALA B 364 5 5 HELIX 36 AD9 ASN B 365 GLY B 378 1 14 SHEET 1 AA1 6 VAL A 123 GLY A 125 0 SHEET 2 AA1 6 VAL A 7 VAL A 10 1 N LEU A 9 O ARG A 124 SHEET 3 AA1 6 VAL A 159 HIS A 164 1 O VAL A 162 N VAL A 8 SHEET 4 AA1 6 ILE A 187 LEU A 193 1 O VAL A 191 N LEU A 161 SHEET 5 AA1 6 LEU A 295 THR A 301 1 O HIS A 296 N SER A 192 SHEET 6 AA1 6 VAL A 349 PRO A 355 1 O LEU A 350 N LEU A 295 SHEET 1 AA2 3 PHE A 40 TRP A 43 0 SHEET 2 AA2 3 LEU A 18 LEU A 22 -1 N ALA A 20 O PHE A 40 SHEET 3 AA2 3 VAL A 78 ARG A 81 -1 O ARG A 81 N GLU A 19 SHEET 1 AA3 2 VAL A 64 ASN A 66 0 SHEET 2 AA3 2 ALA A 71 GLN A 73 -1 O GLN A 73 N VAL A 64 SHEET 1 AA4 4 ASN A 256 TYR A 257 0 SHEET 2 AA4 4 VAL A 250 GLN A 251 -1 N VAL A 250 O TYR A 257 SHEET 3 AA4 4 THR A 305 TYR A 310 1 O PHE A 309 N GLN A 251 SHEET 4 AA4 4 LYS A 320 GLY A 324 -1 O CYS A 322 N ASP A 307 SHEET 1 AA5 6 VAL B 123 GLY B 125 0 SHEET 2 AA5 6 VAL B 7 VAL B 10 1 N LEU B 9 O ARG B 124 SHEET 3 AA5 6 VAL B 159 HIS B 164 1 O VAL B 162 N VAL B 8 SHEET 4 AA5 6 ILE B 187 LEU B 193 1 O VAL B 191 N LEU B 161 SHEET 5 AA5 6 LEU B 295 THR B 301 1 O HIS B 296 N SER B 192 SHEET 6 AA5 6 VAL B 349 PRO B 355 1 O LEU B 350 N LEU B 295 SHEET 1 AA6 3 PHE B 40 TRP B 43 0 SHEET 2 AA6 3 LEU B 18 LEU B 22 -1 N ALA B 20 O PHE B 40 SHEET 3 AA6 3 VAL B 78 ARG B 81 -1 O ARG B 81 N GLU B 19 SHEET 1 AA7 2 VAL B 64 ASN B 66 0 SHEET 2 AA7 2 ALA B 71 GLN B 73 -1 O GLN B 73 N VAL B 64 SHEET 1 AA8 4 ASN B 256 TYR B 257 0 SHEET 2 AA8 4 VAL B 250 GLN B 251 -1 N VAL B 250 O TYR B 257 SHEET 3 AA8 4 THR B 305 TYR B 310 1 O PHE B 309 N GLN B 251 SHEET 4 AA8 4 LYS B 320 GLY B 324 -1 O CYS B 322 N ASP B 307 SSBOND 1 CYS A 32 CYS A 56 1555 1555 2.05 SSBOND 2 CYS B 32 CYS B 56 1555 1555 2.07 LINK ND2 ASN A 66 C1 NAG A 401 1555 1555 1.43 LINK ND2 ASN A 240 C1 NAG A 402 1555 1555 1.43 LINK ND2 ASN A 256 C1 NAG A 403 1555 1555 1.44 LINK ND2 ASN A 365 C1 NAG A 404 1555 1555 1.43 LINK ND2 ASN B 66 C1 NAG B 401 1555 1555 1.43 LINK ND2 ASN B 240 C1 NAG B 402 1555 1555 1.43 LINK ND2 ASN B 256 C1 NAG B 403 1555 1555 1.44 LINK ND2 ASN B 365 C1 NAG B 404 1555 1555 1.44 CISPEP 1 TRP A 43 LEU A 44 0 -1.74 CISPEP 2 PHE A 314 PRO A 315 0 5.94 CISPEP 3 TRP B 43 LEU B 44 0 -2.07 CISPEP 4 PHE B 314 PRO B 315 0 2.00 CRYST1 86.820 86.820 365.848 90.00 90.00 90.00 P 43 21 2 16 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 0.011518 0.000000 0.000000 0.00000 SCALE2 0.000000 0.011518 0.000000 0.00000 SCALE3 0.000000 0.000000 0.002733 0.00000