HEADER HYDROLASE 08-DEC-08 3FGR TITLE TWO CHAIN FORM OF THE 66.3 KDA PROTEIN AT 1.8 ANGSTROEM COMPND MOL_ID: 1; COMPND 2 MOLECULE: PUTATIVE PHOSPHOLIPASE B-LIKE 2 28 KDA FORM; COMPND 3 CHAIN: A; COMPND 4 FRAGMENT: N-TERMINAL DOMAIN, RESIDUES 47-248; COMPND 5 SYNONYM: LAMINA ANCESTOR HOMOLOG 2, LAMA-LIKE PROTEIN 2, 76 KDA COMPND 6 PROTEIN, P76, 66.3 KDA PROTEIN; COMPND 7 EC: 3.1.1.-; COMPND 8 ENGINEERED: YES; COMPND 9 MOL_ID: 2; COMPND 10 MOLECULE: PUTATIVE PHOSPHOLIPASE B-LIKE 2 40 KDA FORM; COMPND 11 CHAIN: B; COMPND 12 FRAGMENT: C-TERMINAL DOMAIN, RESIDUES 249-594; COMPND 13 SYNONYM: LAMINA ANCESTOR HOMOLOG 2, LAMA-LIKE PROTEIN 2, 76 KDA COMPND 14 PROTEIN, P76, 66.3 KDA PROTEIN; COMPND 15 EC: 3.1.1.-; COMPND 16 ENGINEERED: YES SOURCE MOL_ID: 1; SOURCE 2 ORGANISM_SCIENTIFIC: MUS MUSCULUS; SOURCE 3 ORGANISM_COMMON: MOUSE; SOURCE 4 ORGANISM_TAXID: 10090; SOURCE 5 STRAIN: C3H/RV; SOURCE 6 GENE: AAG44101; SOURCE 7 EXPRESSION_SYSTEM: HOMO SAPIENS; SOURCE 8 EXPRESSION_SYSTEM_COMMON: HUMAN; SOURCE 9 EXPRESSION_SYSTEM_TAXID: 9606; SOURCE 10 EXPRESSION_SYSTEM_CELL_LINE: HT1080; SOURCE 11 EXPRESSION_SYSTEM_CELL: FIBROSARCOMA CELL; SOURCE 12 EXPRESSION_SYSTEM_VECTOR_TYPE: PLASMID; SOURCE 13 EXPRESSION_SYSTEM_PLASMID: PCDNA3.1/HYGRO(+); SOURCE 14 MOL_ID: 2; SOURCE 15 ORGANISM_SCIENTIFIC: MUS MUSCULUS; SOURCE 16 ORGANISM_COMMON: MOUSE; SOURCE 17 ORGANISM_TAXID: 10090; SOURCE 18 STRAIN: C3H/RV; SOURCE 19 GENE: AAG44101; SOURCE 20 EXPRESSION_SYSTEM: HOMO SAPIENS; SOURCE 21 EXPRESSION_SYSTEM_COMMON: HUMAN; SOURCE 22 EXPRESSION_SYSTEM_TAXID: 9606; SOURCE 23 EXPRESSION_SYSTEM_CELL_LINE: HT1080; SOURCE 24 EXPRESSION_SYSTEM_CELL: FIBROSARCOMA CELL; SOURCE 25 EXPRESSION_SYSTEM_VECTOR_TYPE: PLASMID; SOURCE 26 EXPRESSION_SYSTEM_PLASMID: PCDNA3.1/HYGRO(+) KEYWDS ALPHA BETA, GLYCOSYLATED, DISULPHIDE BONDS, N-TERMINAL NUCLEOPHILE KEYWDS 2 HYDROLASE FOLD, TWO CHAIN FORM, GLYCOPROTEIN, HYDROLASE, LIPID KEYWDS 3 DEGRADATION, LYSOSOME EXPDTA X-RAY DIFFRACTION AUTHOR K.LAKOMEK,A.DICKMANNS,R.FICNER REVDAT 6 22-NOV-23 3FGR 1 REMARK REVDAT 5 01-NOV-23 3FGR 1 HETSYN REVDAT 4 29-JUL-20 3FGR 1 COMPND REMARK SEQADV HETNAM REVDAT 4 2 1 LINK SITE ATOM REVDAT 3 01-NOV-17 3FGR 1 REMARK REVDAT 2 13-JUL-11 3FGR 1 VERSN REVDAT 1 15-SEP-09 3FGR 0 JRNL AUTH K.LAKOMEK,A.DICKMANNS,M.KETTWIG,H.URLAUB,R.FICNER,T.LUEBKE JRNL TITL INITIAL INSIGHT INTO THE FUNCTION OF THE LYSOSOMAL 66.3 KDA JRNL TITL 2 PROTEIN FROM MOUSE BY MEANS OF X-RAY CRYSTALLOGRAPHY JRNL REF BMC STRUCT.BIOL. V. 9 56 2009 JRNL REFN ESSN 1472-6807 JRNL PMID 19706171 JRNL DOI 10.1186/1472-6807-9-56 REMARK 1 REMARK 1 REFERENCE 1 REMARK 1 AUTH K.LAKOMEK,A.DICKMANNS,U.MUELLER,K.KOLLMANN,F.DEUSCHL, REMARK 1 AUTH 2 A.BERNDT,T.LUEBKE,R.FICNER REMARK 1 TITL DE NOVO SULFUR SAD PHASING OF THE LYSOSOMAL 66.3 KDA PROTEIN REMARK 1 TITL 2 FROM MOUSE REMARK 1 REF ACTA CRYSTALLOGR.,SECT.D V. 65 220 2009 REMARK 1 REFN ISSN 0907-4449 REMARK 1 PMID 19237744 REMARK 1 DOI 10.1107/S0907444908041814 REMARK 2 REMARK 2 RESOLUTION. 1.80 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) : 1.80 REMARK 3 RESOLUTION RANGE LOW (ANGSTROMS) : 29.26 REMARK 3 DATA CUTOFF (SIGMA(F)) : 0.000 REMARK 3 COMPLETENESS FOR RANGE (%) : 99.9 REMARK 3 NUMBER OF REFLECTIONS : 77685 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) : 0.153 REMARK 3 R VALUE (WORKING SET) : 0.152 REMARK 3 FREE R VALUE : 0.182 REMARK 3 FREE R VALUE TEST SET SIZE (%) : 4.900 REMARK 3 FREE R VALUE TEST SET COUNT : 3839 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) : 1.80 REMARK 3 BIN RESOLUTION RANGE LOW (A) : 1.85 REMARK 3 REFLECTION IN BIN (WORKING SET) : 5489 REMARK 3 BIN COMPLETENESS (WORKING+TEST) (%) : 99.79 REMARK 3 BIN R VALUE (WORKING SET) : 0.2030 REMARK 3 BIN FREE R VALUE SET COUNT : 259 REMARK 3 BIN FREE R VALUE : 0.2870 REMARK 3 REMARK 3 NUMBER OF NON-HYDROGEN ATOMS USED IN REFINEMENT. REMARK 3 PROTEIN ATOMS : 4180 REMARK 3 NUCLEIC ACID ATOMS : 0 REMARK 3 HETEROGEN ATOMS : 174 REMARK 3 SOLVENT ATOMS : 576 REMARK 3 REMARK 3 B VALUES. REMARK 3 FROM WILSON PLOT (A**2) : NULL REMARK 3 MEAN B VALUE (OVERALL, A**2) : 24.26 REMARK 3 OVERALL ANISOTROPIC B VALUE. REMARK 3 B11 (A**2) : -0.51000 REMARK 3 B22 (A**2) : -0.51000 REMARK 3 B33 (A**2) : 0.89000 REMARK 3 B12 (A**2) : 0.00000 REMARK 3 B13 (A**2) : -0.44000 REMARK 3 B23 (A**2) : 0.00000 REMARK 3 REMARK 3 ESTIMATED OVERALL COORDINATE ERROR. REMARK 3 ESU BASED ON R VALUE (A): 0.085 REMARK 3 ESU BASED ON FREE R VALUE (A): 0.087 REMARK 3 ESU BASED ON MAXIMUM LIKELIHOOD (A): 0.052 REMARK 3 ESU FOR B VALUES BASED ON MAXIMUM LIKELIHOOD (A**2): 1.607 REMARK 3 REMARK 3 CORRELATION COEFFICIENTS. REMARK 3 CORRELATION COEFFICIENT FO-FC : 0.969 REMARK 3 CORRELATION COEFFICIENT FO-FC FREE : 0.956 REMARK 3 REMARK 3 RMS DEVIATIONS FROM IDEAL VALUES COUNT RMS WEIGHT REMARK 3 BOND LENGTHS REFINED ATOMS (A): 4607 ; 0.015 ; 0.022 REMARK 3 BOND LENGTHS OTHERS (A): NULL ; NULL ; NULL REMARK 3 BOND ANGLES REFINED ATOMS (DEGREES): 6282 ; 1.533 ; 1.984 REMARK 3 BOND ANGLES OTHERS (DEGREES): NULL ; NULL ; NULL REMARK 3 TORSION ANGLES, PERIOD 1 (DEGREES): 567 ; 5.707 ; 5.000 REMARK 3 TORSION ANGLES, PERIOD 2 (DEGREES): 213 ;34.654 ;23.944 REMARK 3 TORSION ANGLES, PERIOD 3 (DEGREES): 723 ;13.418 ;15.000 REMARK 3 TORSION ANGLES, PERIOD 4 (DEGREES): 27 ;21.962 ;15.000 REMARK 3 CHIRAL-CENTER RESTRAINTS (A**3): 681 ; 0.121 ; 0.200 REMARK 3 GENERAL PLANES REFINED ATOMS (A): 3506 ; 0.007 ; 0.020 REMARK 3 GENERAL PLANES OTHERS (A): NULL ; NULL ; NULL REMARK 3 NON-BONDED CONTACTS REFINED ATOMS (A): 2360 ; 0.228 ; 0.300 REMARK 3 NON-BONDED CONTACTS OTHERS (A): NULL ; NULL ; NULL REMARK 3 NON-BONDED TORSION REFINED ATOMS (A): 3157 ; 0.323 ; 0.500 REMARK 3 NON-BONDED TORSION OTHERS (A): NULL ; NULL ; NULL REMARK 3 H-BOND (X...Y) REFINED ATOMS (A): 853 ; 0.207 ; 0.500 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): 40 ; 0.177 ; 0.300 REMARK 3 SYMMETRY VDW OTHERS (A): NULL ; NULL ; NULL REMARK 3 SYMMETRY H-BOND REFINED ATOMS (A): 29 ; 0.170 ; 0.500 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): 2688 ; 0.955 ; 1.500 REMARK 3 MAIN-CHAIN BOND OTHER ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 MAIN-CHAIN ANGLE REFINED ATOMS (A**2): 4353 ; 1.777 ; 2.000 REMARK 3 MAIN-CHAIN ANGLE OTHER ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 SIDE-CHAIN BOND REFINED ATOMS (A**2): 2019 ; 2.926 ; 3.000 REMARK 3 SIDE-CHAIN BOND OTHER ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 SIDE-CHAIN ANGLE REFINED ATOMS (A**2): 1906 ; 4.534 ; 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 : 1.20 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 REMARK 4 REMARK 4 3FGR COMPLIES WITH FORMAT V. 3.30, 13-JUL-11 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY PDBJ ON 11-DEC-08. REMARK 100 THE DEPOSITION ID IS D_1000050570. REMARK 200 REMARK 200 EXPERIMENTAL DETAILS REMARK 200 EXPERIMENT TYPE : X-RAY DIFFRACTION REMARK 200 DATE OF DATA COLLECTION : 07-MAR-08 REMARK 200 TEMPERATURE (KELVIN) : 100 REMARK 200 PH : 4.6 REMARK 200 NUMBER OF CRYSTALS USED : 1 REMARK 200 REMARK 200 SYNCHROTRON (Y/N) : Y REMARK 200 RADIATION SOURCE : BESSY REMARK 200 BEAMLINE : 14.2 REMARK 200 X-RAY GENERATOR MODEL : NULL REMARK 200 MONOCHROMATIC OR LAUE (M/L) : M REMARK 200 WAVELENGTH OR RANGE (A) : 0.91841 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 : DENZO, HKL-2000 REMARK 200 DATA SCALING SOFTWARE : SCALEPACK, HKL-2000 REMARK 200 REMARK 200 NUMBER OF UNIQUE REFLECTIONS : 91683 REMARK 200 RESOLUTION RANGE HIGH (A) : 1.700 REMARK 200 RESOLUTION RANGE LOW (A) : 50.000 REMARK 200 REJECTION CRITERIA (SIGMA(I)) : NULL REMARK 200 REMARK 200 OVERALL. REMARK 200 COMPLETENESS FOR RANGE (%) : 99.5 REMARK 200 DATA REDUNDANCY : 3.200 REMARK 200 R MERGE (I) : 0.03300 REMARK 200 R SYM (I) : NULL REMARK 200 FOR THE DATA SET : 32.0750 REMARK 200 REMARK 200 IN THE HIGHEST RESOLUTION SHELL. REMARK 200 HIGHEST RESOLUTION SHELL, RANGE HIGH (A) : 1.70 REMARK 200 HIGHEST RESOLUTION SHELL, RANGE LOW (A) : 1.76 REMARK 200 COMPLETENESS FOR SHELL (%) : 96.2 REMARK 200 DATA REDUNDANCY IN SHELL : 2.60 REMARK 200 R MERGE FOR SHELL (I) : 0.41900 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: MOLREP REMARK 200 STARTING MODEL: PDB ENTRY 3FBX REMARK 200 REMARK 200 REMARK: NULL REMARK 280 REMARK 280 CRYSTAL REMARK 280 SOLVENT CONTENT, VS (%): 63.54 REMARK 280 MATTHEWS COEFFICIENT, VM (ANGSTROMS**3/DA): 3.37 REMARK 280 REMARK 280 CRYSTALLIZATION CONDITIONS: 12% (W/V) PEG 4000, 200MM NH4AC, 100MM REMARK 280 NAAC/HAC PH 4.6, VAPOR DIFFUSION, SITTING DROP, TEMPERATURE 293K REMARK 290 REMARK 290 CRYSTALLOGRAPHIC SYMMETRY REMARK 290 SYMMETRY OPERATORS FOR SPACE GROUP: C 1 2 1 REMARK 290 REMARK 290 SYMOP SYMMETRY REMARK 290 NNNMMM OPERATOR REMARK 290 1555 X,Y,Z REMARK 290 2555 -X,Y,-Z REMARK 290 3555 X+1/2,Y+1/2,Z 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 0.00000 REMARK 290 SMTRY2 2 0.000000 1.000000 0.000000 0.00000 REMARK 290 SMTRY3 2 0.000000 0.000000 -1.000000 0.00000 REMARK 290 SMTRY1 3 1.000000 0.000000 0.000000 74.36850 REMARK 290 SMTRY2 3 0.000000 1.000000 0.000000 44.78000 REMARK 290 SMTRY3 3 0.000000 0.000000 1.000000 0.00000 REMARK 290 SMTRY1 4 -1.000000 0.000000 0.000000 74.36850 REMARK 290 SMTRY2 4 0.000000 1.000000 0.000000 44.78000 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 300 REMARK: AUTHOR STATES THAT THE BIOLOGICAL UNIT IS UNKNOWN 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: PISA REMARK 350 TOTAL BURIED SURFACE AREA: 11410 ANGSTROM**2 REMARK 350 SURFACE AREA OF THE COMPLEX: 19920 ANGSTROM**2 REMARK 350 CHANGE IN SOLVENT FREE ENERGY: -34.0 KCAL/MOL REMARK 350 APPLY THE FOLLOWING TO CHAINS: A, B, C, D 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 LEU A 47 REMARK 465 PRO A 48 REMARK 465 THR A 49 REMARK 465 LEU A 50 REMARK 465 GLY A 51 REMARK 465 PRO A 52 REMARK 465 GLY A 53 REMARK 465 TRP A 54 REMARK 465 GLN A 55 REMARK 465 ARG A 56 REMARK 465 GLN A 57 REMARK 465 ASN A 58 REMARK 465 PRO A 59 REMARK 465 ASP A 60 REMARK 465 PRO A 61 REMARK 465 PRO A 62 REMARK 465 ASN A 239 REMARK 465 THR A 240 REMARK 465 LYS A 241 REMARK 465 PRO A 242 REMARK 465 SER A 243 REMARK 465 LEU A 244 REMARK 465 TRP B 593 REMARK 465 ASP B 594 REMARK 465 GLY B 595 REMARK 465 ARG B 596 REMARK 465 GLY B 597 REMARK 465 SER B 598 REMARK 465 HIS B 599 REMARK 465 HIS B 600 REMARK 465 HIS B 601 REMARK 465 HIS B 602 REMARK 465 HIS B 603 REMARK 465 HIS B 604 REMARK 465 GLY B 605 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 OD1 ASP A 87 O HOH A 594 1.84 REMARK 500 ND2 ASN B 520 O5 NAG B 41 1.91 REMARK 500 OD2 ASP A 107 NH2 ARG B 283 2.01 REMARK 500 OG1 THR A 95 O7 NAG A 1 2.02 REMARK 500 O HOH B 651 O HOH B 755 2.03 REMARK 500 NH1 ARG A 65 O HOH A 756 2.06 REMARK 500 OE2 GLU A 132 O HOH A 757 2.15 REMARK 500 O HOH B 153 O HOH B 759 2.17 REMARK 500 O HOH A 271 O HOH A 712 2.18 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 MET B 275 40.10 -80.21 REMARK 500 SER B 306 -159.50 -155.45 REMARK 500 ASN B 394 -6.24 75.78 REMARK 500 ARG B 401 -27.94 83.92 REMARK 500 ARG B 401 -23.46 80.06 REMARK 500 TYR B 431 48.20 -162.81 REMARK 500 HIS B 577 48.42 -146.57 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 NA B 607 NA REMARK 620 N RES CSSEQI ATOM REMARK 620 1 OCS B 249 OD1 REMARK 620 2 OCS B 249 OD2 49.5 REMARK 620 3 ASP B 315 O 57.0 99.7 REMARK 620 4 GLU B 328 OE1 130.5 137.3 76.3 REMARK 620 5 THR B 330 OG1 125.2 78.2 168.5 97.5 REMARK 620 6 TYR B 379 OH 127.9 148.2 100.3 71.9 86.6 REMARK 620 N 1 2 3 4 5 REMARK 900 REMARK 900 RELATED ENTRIES REMARK 900 RELATED ID: 3FBX RELATED DB: PDB REMARK 900 CRYSTAL STRUCTURE OF THE LYSOSOMAL 66.3 KDA PROTEIN FROM MOUSE REMARK 900 SOLVED BY S-SAD REMARK 900 RELATED ID: 3FGT RELATED DB: PDB REMARK 900 TWO CHAIN FORM OF THE 66.3 KDA PROTEIN FROM MOUSE LACKING THE REMARK 900 LINKER PEPTIDE REMARK 900 RELATED ID: 3FGW RELATED DB: PDB REMARK 900 ONE CHAIN FORM OF THE 66.3 KDA PROTEIN DBREF 3FGR A 47 248 UNP Q3TCN2 PLBL2_MOUSE 47 248 DBREF 3FGR B 249 594 UNP Q3TCN2 PLBL2_MOUSE 249 594 SEQADV 3FGR GLY B 595 UNP Q3TCN2 EXPRESSION TAG SEQADV 3FGR ARG B 596 UNP Q3TCN2 EXPRESSION TAG SEQADV 3FGR GLY B 597 UNP Q3TCN2 EXPRESSION TAG SEQADV 3FGR SER B 598 UNP Q3TCN2 EXPRESSION TAG SEQADV 3FGR HIS B 599 UNP Q3TCN2 EXPRESSION TAG SEQADV 3FGR HIS B 600 UNP Q3TCN2 EXPRESSION TAG SEQADV 3FGR HIS B 601 UNP Q3TCN2 EXPRESSION TAG SEQADV 3FGR HIS B 602 UNP Q3TCN2 EXPRESSION TAG SEQADV 3FGR HIS B 603 UNP Q3TCN2 EXPRESSION TAG SEQADV 3FGR HIS B 604 UNP Q3TCN2 EXPRESSION TAG SEQADV 3FGR GLY B 605 UNP Q3TCN2 EXPRESSION TAG SEQRES 1 A 202 LEU PRO THR LEU GLY PRO GLY TRP GLN ARG GLN ASN PRO SEQRES 2 A 202 ASP PRO PRO VAL SER ARG THR ARG SER LEU LEU LEU ASP SEQRES 3 A 202 ALA ALA SER GLY GLN LEU ARG LEU GLU ASP GLY PHE HIS SEQRES 4 A 202 PRO ASP ALA VAL ALA TRP ALA ASN LEU THR ASN ALA ILE SEQRES 5 A 202 ARG GLU THR GLY TRP ALA TYR LEU ASP LEU SER THR ASN SEQRES 6 A 202 GLY ARG TYR ASN ASP SER LEU GLN ALA TYR ALA ALA GLY SEQRES 7 A 202 VAL VAL GLU ALA SER VAL SER GLU GLU LEU ILE TYR MET SEQRES 8 A 202 HIS TRP MET ASN THR VAL VAL ASN TYR CYS GLY PRO PHE SEQRES 9 A 202 GLU TYR GLU VAL GLY TYR CYS GLU LYS LEU LYS ASN PHE SEQRES 10 A 202 LEU GLU ALA ASN LEU GLU TRP MET GLN ARG GLU MET GLU SEQRES 11 A 202 LEU ASN PRO ASP SER PRO TYR TRP HIS GLN VAL ARG LEU SEQRES 12 A 202 THR LEU LEU GLN LEU LYS GLY LEU GLU ASP SER TYR GLU SEQRES 13 A 202 GLY ARG LEU THR PHE PRO THR GLY ARG PHE THR ILE LYS SEQRES 14 A 202 PRO LEU GLY PHE LEU LEU LEU GLN ILE SER GLY ASP LEU SEQRES 15 A 202 GLU ASP LEU GLU PRO ALA LEU ASN LYS THR ASN THR LYS SEQRES 16 A 202 PRO SER LEU GLY SER GLY SER SEQRES 1 B 357 OCS SER ALA LEU ILE LYS LEU LEU PRO GLY GLY HIS ASP SEQRES 2 B 357 LEU LEU VAL ALA HIS ASN THR TRP ASN SER TYR GLN ASN SEQRES 3 B 357 MET LEU ARG ILE ILE LYS LYS TYR ARG LEU GLN PHE ARG SEQRES 4 B 357 GLU GLY PRO GLN GLU GLU TYR PRO LEU VAL ALA GLY ASN SEQRES 5 B 357 ASN LEU VAL PHE SER SER TYR PRO GLY THR ILE PHE SER SEQRES 6 B 357 GLY ASP ASP PHE TYR ILE LEU GLY SER GLY LEU VAL THR SEQRES 7 B 357 LEU GLU THR THR ILE GLY ASN LYS ASN PRO ALA LEU TRP SEQRES 8 B 357 LYS TYR VAL GLN PRO GLN GLY CYS VAL LEU GLU TRP ILE SEQRES 9 B 357 ARG ASN VAL VAL ALA ASN ARG LEU ALA LEU ASP GLY ALA SEQRES 10 B 357 THR TRP ALA ASP VAL PHE LYS ARG PHE ASN SER GLY THR SEQRES 11 B 357 TYR ASN ASN GLN TRP MET ILE VAL ASP TYR LYS ALA PHE SEQRES 12 B 357 LEU PRO ASN GLY PRO SER PRO GLY SER ARG VAL LEU THR SEQRES 13 B 357 ILE LEU GLU GLN ILE PRO GLY MET VAL VAL VAL ALA ASP SEQRES 14 B 357 LYS THR ALA GLU LEU TYR LYS THR THR TYR TRP ALA SER SEQRES 15 B 357 TYR ASN ILE PRO TYR PHE GLU THR VAL PHE ASN ALA SER SEQRES 16 B 357 GLY LEU GLN ALA LEU VAL ALA GLN TYR GLY ASP TRP PHE SEQRES 17 B 357 SER TYR THR LYS ASN PRO ARG ALA LYS ILE PHE GLN ARG SEQRES 18 B 357 ASP GLN SER LEU VAL GLU ASP MET ASP ALA MET VAL ARG SEQRES 19 B 357 LEU MET ARG TYR ASN ASP PHE LEU HIS ASP PRO LEU SER SEQRES 20 B 357 LEU CYS GLU ALA CYS ASN PRO LYS PRO ASN ALA GLU ASN SEQRES 21 B 357 ALA ILE SER ALA ARG SER ASP LEU ASN PRO ALA ASN GLY SEQRES 22 B 357 SER TYR PRO PHE GLN ALA LEU HIS GLN ARG ALA HIS GLY SEQRES 23 B 357 GLY ILE ASP VAL LYS VAL THR SER PHE THR LEU ALA LYS SEQRES 24 B 357 TYR MET SER MET LEU ALA ALA SER GLY PRO THR TRP ASP SEQRES 25 B 357 GLN CYS PRO PRO PHE GLN TRP SER LYS SER PRO PHE HIS SEQRES 26 B 357 SER MET LEU HIS MET GLY GLN PRO ASP LEU TRP MET PHE SEQRES 27 B 357 SER PRO ILE ARG VAL PRO TRP ASP GLY ARG GLY SER HIS SEQRES 28 B 357 HIS HIS HIS HIS HIS GLY MODRES 3FGR ASN A 93 ASN GLYCOSYLATION SITE MODRES 3FGR ASN A 115 ASN GLYCOSYLATION SITE MODRES 3FGR ASN A 236 ASN GLYCOSYLATION SITE MODRES 3FGR ASN B 441 ASN GLYCOSYLATION SITE MODRES 3FGR ASN B 520 ASN GLYCOSYLATION SITE MODRES 3FGR OCS B 249 CYS CYSTEINESULFONIC ACID HET OCS B 249 9 HET NAG C 1 14 HET NAG C 2 14 HET NAG D 1 14 HET NAG D 2 14 HET NAG A 21 14 HET NAG A 1 14 HET GOL A 9 6 HET GOL A 10 6 HET ACT A 22 4 HET GOL A 3 6 HET NAG B 41 14 HET GOL B 11 6 HET GOL B 1 6 HET GOL B 2 6 HET GOL B 4 6 HET GOL B 5 6 HET GOL B 6 6 HET GOL B 7 6 HET GOL B 8 6 HET ACT B 21 4 HET XE B 606 1 HET NA B 607 1 HETNAM OCS CYSTEINESULFONIC ACID HETNAM NAG 2-ACETAMIDO-2-DEOXY-BETA-D-GLUCOPYRANOSE HETNAM GOL GLYCEROL HETNAM ACT ACETATE ION HETNAM XE XENON HETNAM NA SODIUM ION 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 GOL GLYCERIN; PROPANE-1,2,3-TRIOL FORMUL 2 OCS C3 H7 N O5 S FORMUL 3 NAG 7(C8 H15 N O6) FORMUL 7 GOL 11(C3 H8 O3) FORMUL 9 ACT 2(C2 H3 O2 1-) FORMUL 21 XE XE FORMUL 22 NA NA 1+ FORMUL 23 HOH *576(H2 O) HELIX 1 1 ALA A 97 GLY A 102 1 6 HELIX 2 2 ASN A 115 VAL A 143 1 29 HELIX 3 3 GLU A 153 ASN A 178 1 26 HELIX 4 4 SER A 181 GLY A 203 1 23 HELIX 5 5 PHE A 219 ILE A 224 1 6 HELIX 6 6 ILE A 224 LEU A 235 1 12 HELIX 7 7 PRO B 257 HIS B 260 5 4 HELIX 8 8 GLN B 273 MET B 275 5 3 HELIX 9 9 ASN B 335 VAL B 342 5 8 HELIX 10 10 LEU B 349 ALA B 361 1 13 HELIX 11 11 ASP B 363 LYS B 372 1 10 HELIX 12 12 LYS B 389 PHE B 391 5 3 HELIX 13 13 LYS B 418 THR B 426 1 9 HELIX 14 14 PHE B 436 SER B 443 1 8 HELIX 15 15 GLY B 444 GLY B 453 1 10 HELIX 16 16 ASP B 454 SER B 457 5 4 HELIX 17 17 ASN B 461 GLN B 471 1 11 HELIX 18 18 SER B 472 VAL B 474 5 3 HELIX 19 19 ASP B 476 ARG B 485 1 10 HELIX 20 20 ASP B 492 LEU B 496 5 5 HELIX 21 21 ARG B 513 ASN B 517 5 5 HELIX 22 22 PHE B 525 HIS B 529 5 5 HELIX 23 23 SER B 542 TYR B 548 1 7 HELIX 24 24 SER B 568 SER B 570 5 3 SHEET 1 A11 GLN A 77 ASP A 82 0 SHEET 2 A11 SER A 64 ASP A 72 -1 N LEU A 70 O ARG A 79 SHEET 3 A11 ALA A 90 ASN A 96 -1 O ALA A 90 N LEU A 69 SHEET 4 A11 ALA A 104 THR A 110 -1 O SER A 109 N TRP A 91 SHEET 5 A11 ILE B 278 ARG B 283 1 O ILE B 279 N ALA A 104 SHEET 6 A11 ASN B 301 SER B 306 -1 O LEU B 302 N TYR B 282 SHEET 7 A11 PHE B 317 LEU B 320 -1 O ILE B 319 N VAL B 303 SHEET 8 A11 LEU B 324 THR B 330 -1 O LEU B 324 N LEU B 320 SHEET 9 A11 ASN B 381 ASP B 387 -1 O MET B 384 N LEU B 327 SHEET 10 A11 LEU B 403 ILE B 409 -1 O LEU B 406 N TRP B 383 SHEET 11 A11 MET B 412 ASP B 417 -1 O ALA B 416 N ILE B 405 SHEET 1 B 6 TYR B 427 SER B 430 0 SHEET 2 B 6 SER B 250 LEU B 255 -1 N ILE B 253 O TRP B 428 SHEET 3 B 6 LEU B 262 ASN B 267 -1 O ASN B 267 N SER B 250 SHEET 4 B 6 ASP B 537 THR B 541 -1 O THR B 541 N VAL B 264 SHEET 5 B 6 MET B 551 SER B 555 -1 O LEU B 552 N VAL B 540 SHEET 6 B 6 ILE B 589 VAL B 591 -1 O VAL B 591 N MET B 551 SHEET 1 C 2 TRP B 269 SER B 271 0 SHEET 2 C 2 HIS B 533 GLY B 535 -1 O GLY B 534 N ASN B 270 SHEET 1 D 2 PHE B 565 GLN B 566 0 SHEET 2 D 2 LEU B 583 TRP B 584 -1 O TRP B 584 N PHE B 565 SSBOND 1 CYS A 147 CYS A 157 1555 1555 2.11 SSBOND 2 CYS B 497 CYS B 500 1555 1555 2.12 LINK C1 NAG A 1 ND2 ASN A 93 1555 1555 1.50 LINK C1 NAG A 21 ND2 ASN A 236 1555 1555 1.30 LINK ND2 ASN A 115 C1 NAG C 1 1555 1555 1.34 LINK C1 NAG B 41 ND2 ASN B 520 1555 1555 1.25 LINK C OCS B 249 N SER B 250 1555 1555 1.33 LINK ND2 ASN B 441 C1 NAG D 1 1555 1555 1.32 LINK O4 NAG C 1 C1 NAG C 2 1555 1555 1.49 LINK O4 NAG D 1 C1 NAG D 2 1555 1555 1.34 LINK OD1 OCS B 249 NA NA B 607 1555 1555 3.00 LINK OD2 OCS B 249 NA NA B 607 1555 1555 2.76 LINK O ASP B 315 NA NA B 607 1555 1555 2.86 LINK OE1 GLU B 328 NA NA B 607 1555 1555 2.76 LINK OG1 THR B 330 NA NA B 607 1555 1555 2.82 LINK OH TYR B 379 NA NA B 607 1555 1555 2.84 CISPEP 1 ASP B 315 ASP B 316 0 -4.68 CISPEP 2 ASN B 501 PRO B 502 0 2.95 CISPEP 3 VAL B 591 PRO B 592 0 10.32 CRYST1 148.737 89.560 64.811 90.00 98.69 90.00 C 1 2 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 0.006723 0.000000 0.001028 0.00000 SCALE2 0.000000 0.011166 0.000000 0.00000 SCALE3 0.000000 0.000000 0.015609 0.00000