HEADER HYDROLASE 27-JUN-10 3NP5 TITLE CRYSTAL STRUCTURE OF AN ABRIDGED FORM OF THE MATURE ECTODOMAIN OF THE TITLE 2 HUMAN RECEPTOR-TYPE PROTEIN TYROSINE PHOSPHATASE ICA512/IA-2 AT PH TITLE 3 4.5 COMPND MOL_ID: 1; COMPND 2 MOLECULE: RECEPTOR-TYPE TYROSINE-PROTEIN PHOSPHATASE-LIKE N; COMPND 3 CHAIN: A, B, C, D; COMPND 4 FRAGMENT: UNP RESIDUES 470-558; COMPND 5 SYNONYM: R-PTP-N, ISLET CELL ANTIGEN 512, ICA 512, ISLET CELL COMPND 6 AUTOANTIGEN 3, PTP IA-2; COMPND 7 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: ICA3, ICA512, PTPRN; SOURCE 6 EXPRESSION_SYSTEM: ESCHERICHIA COLI; SOURCE 7 EXPRESSION_SYSTEM_TAXID: 469008; SOURCE 8 EXPRESSION_SYSTEM_STRAIN: BL21(DE3)PLYSS; SOURCE 9 EXPRESSION_SYSTEM_VECTOR_TYPE: PLASMID; SOURCE 10 EXPRESSION_SYSTEM_PLASMID: PET9B KEYWDS IA-2, ICA-512, PROTEIN-TYROSINE PHOSPHATASE, TRANSMEMBRANE PROTEIN, KEYWDS 2 DIABETES, AUTOIMMUNITY, PROTEOLYSIS, GLYCOPROTEIN, RECEPTOR, KEYWDS 3 HYDROLASE EXPDTA X-RAY DIFFRACTION AUTHOR M.E.PRIMO,J.JAKONCIC,E.POSKUS,M.R.ERMACORA REVDAT 4 06-SEP-23 3NP5 1 REMARK LINK REVDAT 3 18-APR-12 3NP5 1 SHEET VERSN REVDAT 2 12-JAN-11 3NP5 1 COMPND DBREF REVDAT 1 29-DEC-10 3NP5 0 JRNL AUTH M.E.PRIMO,J.JAKONCIC,E.POSKUS,M.R.ERMACORA JRNL TITL RECEPTOR-TYPE PROTEIN-TYROSINE PHOSPHATASE IA-2-ICA512 JRNL REF TO BE PUBLISHED JRNL REFN REMARK 1 REMARK 1 REFERENCE 1 REMARK 1 AUTH M.E.PRIMO,S.KLINKE,M.P.SICA,F.A.GOLDBAUM,J.JAKONCIC, REMARK 1 AUTH 2 E.POSKUS,M.R.ERMACORA REMARK 1 TITL STRUCTURE OF THE MATURE ECTODOMAIN OF THE HUMAN REMARK 1 TITL 2 RECEPTOR-TYPE PROTEIN-TYROSINE PHOSPHATASE IA-2 REMARK 1 REF J.BIOL.CHEM. V. 283 4674 2008 REMARK 1 REFN ISSN 0021-9258 REMARK 1 PMID 18048354 REMARK 2 REMARK 2 RESOLUTION. 1.80 ANGSTROMS. REMARK 3 REMARK 3 REFINEMENT. REMARK 3 PROGRAM : REFMAC 5.5.0109 REMARK 3 AUTHORS : MURSHUDOV,SKUBAK,LEBEDEV,PANNU,STEINER, REMARK 3 : NICHOLLS,WINN,LONG,VAGIN REMARK 3 REMARK 3 REFINEMENT TARGET : ENGH & HUBER REMARK 3 REMARK 3 DATA USED IN REFINEMENT. REMARK 3 RESOLUTION RANGE HIGH (ANGSTROMS) : 1.80 REMARK 3 RESOLUTION RANGE LOW (ANGSTROMS) : 19.84 REMARK 3 DATA CUTOFF (SIGMA(F)) : NULL REMARK 3 COMPLETENESS FOR RANGE (%) : 92.1 REMARK 3 NUMBER OF REFLECTIONS : 26639 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) : 0.161 REMARK 3 FREE R VALUE : 0.239 REMARK 3 FREE R VALUE TEST SET SIZE (%) : 5.000 REMARK 3 FREE R VALUE TEST SET COUNT : 1390 REMARK 3 REMARK 3 FIT IN THE HIGHEST RESOLUTION BIN. REMARK 3 TOTAL NUMBER OF BINS USED : NULL 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) : NULL REMARK 3 BIN COMPLETENESS (WORKING+TEST) (%) : 74.00 REMARK 3 BIN R VALUE (WORKING SET) : 0.2500 REMARK 3 BIN FREE R VALUE SET COUNT : 66 REMARK 3 BIN FREE R VALUE : 0.4140 REMARK 3 REMARK 3 NUMBER OF NON-HYDROGEN ATOMS USED IN REFINEMENT. REMARK 3 PROTEIN ATOMS : 2679 REMARK 3 NUCLEIC ACID ATOMS : 0 REMARK 3 HETEROGEN ATOMS : 2 REMARK 3 SOLVENT ATOMS : 132 REMARK 3 REMARK 3 B VALUES. REMARK 3 FROM WILSON PLOT (A**2) : 22.30 REMARK 3 MEAN B VALUE (OVERALL, A**2) : 20.89 REMARK 3 OVERALL ANISOTROPIC B VALUE. REMARK 3 B11 (A**2) : -4.95000 REMARK 3 B22 (A**2) : -4.95000 REMARK 3 B33 (A**2) : 9.89000 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): 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 CORRELATION COEFFICIENTS. REMARK 3 CORRELATION COEFFICIENT FO-FC : NULL REMARK 3 CORRELATION COEFFICIENT FO-FC FREE : NULL REMARK 3 REMARK 3 RMS DEVIATIONS FROM IDEAL VALUES COUNT RMS WEIGHT REMARK 3 BOND LENGTHS REFINED ATOMS (A): NULL ; 0.022 ; NULL REMARK 3 BOND LENGTHS OTHERS (A): NULL ; NULL ; NULL REMARK 3 BOND ANGLES REFINED ATOMS (DEGREES): NULL ; 1.968 ; NULL REMARK 3 BOND ANGLES OTHERS (DEGREES): NULL ; NULL ; NULL REMARK 3 TORSION ANGLES, PERIOD 1 (DEGREES): NULL ; 5.000 ; NULL REMARK 3 TORSION ANGLES, PERIOD 2 (DEGREES): NULL ;25.902 ; NULL REMARK 3 TORSION ANGLES, PERIOD 3 (DEGREES): NULL ; NULL ; NULL REMARK 3 TORSION ANGLES, PERIOD 4 (DEGREES): NULL ; NULL ; NULL REMARK 3 CHIRAL-CENTER RESTRAINTS (A**3): NULL ; 0.200 ; NULL REMARK 3 GENERAL PLANES REFINED ATOMS (A): NULL ; NULL ; NULL 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): NULL ; NULL ; NULL REMARK 3 MAIN-CHAIN BOND OTHER ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 MAIN-CHAIN ANGLE REFINED ATOMS (A**2): NULL ; NULL ; NULL 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 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 : NULL REMARK 3 PARAMETERS FOR MASK CALCULATION REMARK 3 VDW PROBE RADIUS : NULL REMARK 3 ION PROBE RADIUS : NULL REMARK 3 SHRINKAGE RADIUS : NULL REMARK 3 REMARK 3 OTHER REFINEMENT REMARKS: NULL REMARK 4 REMARK 4 3NP5 COMPLIES WITH FORMAT V. 3.30, 13-JUL-11 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY RCSB ON 02-JUL-10. REMARK 100 THE DEPOSITION ID IS D_1000060104. REMARK 200 REMARK 200 EXPERIMENTAL DETAILS REMARK 200 EXPERIMENT TYPE : X-RAY DIFFRACTION REMARK 200 DATE OF DATA COLLECTION : 01-MAR-10 REMARK 200 TEMPERATURE (KELVIN) : 100.000000 REMARK 200 PH : 4.5 REMARK 200 NUMBER OF CRYSTALS USED : 1 REMARK 200 REMARK 200 SYNCHROTRON (Y/N) : Y REMARK 200 RADIATION SOURCE : NSLS REMARK 200 BEAMLINE : X6A REMARK 200 X-RAY GENERATOR MODEL : NULL REMARK 200 MONOCHROMATIC OR LAUE (M/L) : M REMARK 200 WAVELENGTH OR RANGE (A) : 0.9537 REMARK 200 MONOCHROMATOR : SI (111) CHANNEL CUT REMARK 200 MONOCHROMATOR REMARK 200 OPTICS : TOROIDAL FOCUSING MIRROR REMARK 200 REMARK 200 DETECTOR TYPE : CCD REMARK 200 DETECTOR MANUFACTURER : ADSC QUANTUM 270 REMARK 200 INTENSITY-INTEGRATION SOFTWARE : HKL-2000 REMARK 200 DATA SCALING SOFTWARE : HKL-2000 REMARK 200 REMARK 200 NUMBER OF UNIQUE REFLECTIONS : 28186 REMARK 200 RESOLUTION RANGE HIGH (A) : 1.800 REMARK 200 RESOLUTION RANGE LOW (A) : 20.000 REMARK 200 REJECTION CRITERIA (SIGMA(I)) : 0.000 REMARK 200 REMARK 200 OVERALL. REMARK 200 COMPLETENESS FOR RANGE (%) : 91.9 REMARK 200 DATA REDUNDANCY : 5.300 REMARK 200 R MERGE (I) : 0.04200 REMARK 200 R SYM (I) : 0.04200 REMARK 200 FOR THE DATA SET : 40.6000 REMARK 200 REMARK 200 IN THE HIGHEST RESOLUTION SHELL. REMARK 200 HIGHEST RESOLUTION SHELL, RANGE HIGH (A) : 1.80 REMARK 200 HIGHEST RESOLUTION SHELL, RANGE LOW (A) : 1.83 REMARK 200 COMPLETENESS FOR SHELL (%) : 73.6 REMARK 200 DATA REDUNDANCY IN SHELL : 3.10 REMARK 200 R MERGE FOR SHELL (I) : 0.22600 REMARK 200 R SYM FOR SHELL (I) : 0.22600 REMARK 200 FOR SHELL : 3.500 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 2QT7 REMARK 200 REMARK 200 REMARK: NULL REMARK 280 REMARK 280 CRYSTAL REMARK 280 SOLVENT CONTENT, VS (%): 44.70 REMARK 280 MATTHEWS COEFFICIENT, VM (ANGSTROMS**3/DA): 2.22 REMARK 280 REMARK 280 CRYSTALLIZATION CONDITIONS: 30% (W/V) PEG 4000, 0.1 M ACNA/ACH, PH REMARK 280 4.50.2 M CALCIUM CHLORIDE, VAPOR DIFFUSION, HANGING DROP, REMARK 280 TEMPERATURE 292K REMARK 290 REMARK 290 CRYSTALLOGRAPHIC SYMMETRY REMARK 290 SYMMETRY OPERATORS FOR SPACE GROUP: P 41 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,X,Z+1/4 REMARK 290 4555 Y,-X,Z+3/4 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 84.33250 REMARK 290 SMTRY1 3 0.000000 -1.000000 0.000000 0.00000 REMARK 290 SMTRY2 3 1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY3 3 0.000000 0.000000 1.000000 42.16625 REMARK 290 SMTRY1 4 0.000000 1.000000 0.000000 0.00000 REMARK 290 SMTRY2 4 -1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY3 4 0.000000 0.000000 1.000000 126.49875 REMARK 290 REMARK 290 REMARK: NULL REMARK 300 REMARK 300 BIOMOLECULE: 1, 2, 3 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: TETRAMERIC 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 350 REMARK 350 BIOMOLECULE: 2 REMARK 350 SOFTWARE DETERMINED QUATERNARY STRUCTURE: DIMERIC REMARK 350 SOFTWARE USED: PISA REMARK 350 TOTAL BURIED SURFACE AREA: 1080 ANGSTROM**2 REMARK 350 SURFACE AREA OF THE COMPLEX: 8930 ANGSTROM**2 REMARK 350 CHANGE IN SOLVENT FREE ENERGY: -7.0 KCAL/MOL 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 APPLY THE FOLLOWING TO CHAINS: C REMARK 350 BIOMT1 2 1.000000 0.000000 0.000000 44.66200 REMARK 350 BIOMT2 2 0.000000 1.000000 0.000000 0.00000 REMARK 350 BIOMT3 2 0.000000 0.000000 1.000000 0.00000 REMARK 350 REMARK 350 BIOMOLECULE: 3 REMARK 350 SOFTWARE DETERMINED QUATERNARY STRUCTURE: DIMERIC REMARK 350 SOFTWARE USED: PISA REMARK 350 TOTAL BURIED SURFACE AREA: 1260 ANGSTROM**2 REMARK 350 SURFACE AREA OF THE COMPLEX: 9330 ANGSTROM**2 REMARK 350 CHANGE IN SOLVENT FREE ENERGY: -17.0 KCAL/MOL 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 350 APPLY THE FOLLOWING TO CHAINS: D REMARK 350 BIOMT1 2 1.000000 0.000000 0.000000 0.00000 REMARK 350 BIOMT2 2 0.000000 1.000000 0.000000 -44.66200 REMARK 350 BIOMT3 2 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 ARG A 557 REMARK 465 GLU A 558 REMARK 465 GLU C 558 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 HIS A 520 CB CG ND1 CD2 CE1 NE2 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 B 636 O HOH B 644 1.60 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 HIS B 520 99.03 -50.01 REMARK 500 ASN C 524 -7.21 97.75 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 CA A 732 CA REMARK 620 N RES CSSEQI ATOM REMARK 620 1 ASP A 529 OD1 REMARK 620 2 GLN A 532 OE1 101.2 REMARK 620 3 HOH B 693 O 140.4 96.1 REMARK 620 4 ASP C 529 OD1 84.8 91.9 130.2 REMARK 620 5 ASP C 529 OD2 139.4 88.0 75.9 55.3 REMARK 620 N 1 2 3 4 REMARK 620 REMARK 620 COORDINATION ANGLES FOR: M RES CSSEQI METAL REMARK 620 CA D 732 CA REMARK 620 N RES CSSEQI ATOM REMARK 620 1 SER D 500 OG REMARK 620 2 HOH D 723 O 67.8 REMARK 620 N 1 REMARK 800 REMARK 800 SITE REMARK 800 SITE_IDENTIFIER: AC1 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE CA A 732 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC2 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE CA D 732 REMARK 900 REMARK 900 RELATED ENTRIES REMARK 900 RELATED ID: 2QT7 RELATED DB: PDB REMARK 900 A WILD-TYPE SIMILAR FRAGMENT REMARK 900 RELATED ID: 3N0I RELATED DB: PDB REMARK 900 A WILD-TYPE SIMILAR FRAGMENT REMARK 900 RELATED ID: 3NG8 RELATED DB: PDB REMARK 900 SER TO ALA MUTANT OF A SIMILAR FRAGMENT AT PH 8.5 REMARK 900 RELATED ID: 3N4W RELATED DB: PDB REMARK 900 SER TO ALA MUTANT OF A SIMILAR FRAGMENT AT PH 7.5 DBREF 3NP5 A 470 558 UNP Q16849 PTPRN_HUMAN 470 558 DBREF 3NP5 B 470 558 UNP Q16849 PTPRN_HUMAN 470 558 DBREF 3NP5 C 470 558 UNP Q16849 PTPRN_HUMAN 470 558 DBREF 3NP5 D 470 558 UNP Q16849 PTPRN_HUMAN 470 558 SEQRES 1 A 89 GLU TYR GLY TYR ILE VAL THR ASP GLN LYS PRO LEU SER SEQRES 2 A 89 LEU ALA ALA GLY VAL LYS LEU LEU GLU ILE LEU ALA GLU SEQRES 3 A 89 HIS VAL HIS MET SER SER GLY SER PHE ILE ASN ILE SER SEQRES 4 A 89 VAL VAL GLY PRO ALA LEU THR PHE ARG ILE ARG HIS ASN SEQRES 5 A 89 GLU GLN ASN LEU SER LEU ALA ASP VAL THR GLN GLN ALA SEQRES 6 A 89 GLY LEU VAL LYS SER GLU LEU GLU ALA GLN THR GLY LEU SEQRES 7 A 89 GLN ILE LEU GLN THR GLY VAL GLY GLN ARG GLU SEQRES 1 B 89 GLU TYR GLY TYR ILE VAL THR ASP GLN LYS PRO LEU SER SEQRES 2 B 89 LEU ALA ALA GLY VAL LYS LEU LEU GLU ILE LEU ALA GLU SEQRES 3 B 89 HIS VAL HIS MET SER SER GLY SER PHE ILE ASN ILE SER SEQRES 4 B 89 VAL VAL GLY PRO ALA LEU THR PHE ARG ILE ARG HIS ASN SEQRES 5 B 89 GLU GLN ASN LEU SER LEU ALA ASP VAL THR GLN GLN ALA SEQRES 6 B 89 GLY LEU VAL LYS SER GLU LEU GLU ALA GLN THR GLY LEU SEQRES 7 B 89 GLN ILE LEU GLN THR GLY VAL GLY GLN ARG GLU SEQRES 1 C 89 GLU TYR GLY TYR ILE VAL THR ASP GLN LYS PRO LEU SER SEQRES 2 C 89 LEU ALA ALA GLY VAL LYS LEU LEU GLU ILE LEU ALA GLU SEQRES 3 C 89 HIS VAL HIS MET SER SER GLY SER PHE ILE ASN ILE SER SEQRES 4 C 89 VAL VAL GLY PRO ALA LEU THR PHE ARG ILE ARG HIS ASN SEQRES 5 C 89 GLU GLN ASN LEU SER LEU ALA ASP VAL THR GLN GLN ALA SEQRES 6 C 89 GLY LEU VAL LYS SER GLU LEU GLU ALA GLN THR GLY LEU SEQRES 7 C 89 GLN ILE LEU GLN THR GLY VAL GLY GLN ARG GLU SEQRES 1 D 89 GLU TYR GLY TYR ILE VAL THR ASP GLN LYS PRO LEU SER SEQRES 2 D 89 LEU ALA ALA GLY VAL LYS LEU LEU GLU ILE LEU ALA GLU SEQRES 3 D 89 HIS VAL HIS MET SER SER GLY SER PHE ILE ASN ILE SER SEQRES 4 D 89 VAL VAL GLY PRO ALA LEU THR PHE ARG ILE ARG HIS ASN SEQRES 5 D 89 GLU GLN ASN LEU SER LEU ALA ASP VAL THR GLN GLN ALA SEQRES 6 D 89 GLY LEU VAL LYS SER GLU LEU GLU ALA GLN THR GLY LEU SEQRES 7 D 89 GLN ILE LEU GLN THR GLY VAL GLY GLN ARG GLU HET CA A 732 1 HET CA D 732 1 HETNAM CA CALCIUM ION FORMUL 5 CA 2(CA 2+) FORMUL 7 HOH *132(H2 O) HELIX 1 1 SER A 482 VAL A 497 1 16 HELIX 2 2 SER A 500 GLY A 502 5 3 HELIX 3 3 SER A 526 VAL A 537 1 12 HELIX 4 4 VAL A 537 GLY A 546 1 10 HELIX 5 5 SER B 482 VAL B 497 1 16 HELIX 6 6 SER B 500 GLY B 502 5 3 HELIX 7 7 SER B 526 VAL B 537 1 12 HELIX 8 8 VAL B 537 GLY B 546 1 10 HELIX 9 9 SER C 482 VAL C 497 1 16 HELIX 10 10 SER C 500 GLY C 502 5 3 HELIX 11 11 SER C 526 VAL C 537 1 12 HELIX 12 12 VAL C 537 GLY C 546 1 10 HELIX 13 13 SER D 482 VAL D 497 1 16 HELIX 14 14 SER D 500 GLY D 502 5 3 HELIX 15 15 SER D 526 VAL D 537 1 12 HELIX 16 16 VAL D 537 GLY D 546 1 10 SHEET 1 A 8 PHE A 504 VAL A 510 0 SHEET 2 A 8 ALA A 513 ILE A 518 -1 O ALA A 513 N VAL A 510 SHEET 3 A 8 TYR A 471 THR A 476 -1 N GLY A 472 O PHE A 516 SHEET 4 A 8 ILE A 549 GLN A 556 -1 O LEU A 550 N VAL A 475 SHEET 5 A 8 ILE B 549 GLU B 558 -1 O GLU B 558 N THR A 552 SHEET 6 A 8 TYR B 471 THR B 476 -1 N VAL B 475 O GLN B 551 SHEET 7 A 8 ALA B 513 ILE B 518 -1 O PHE B 516 N GLY B 472 SHEET 8 A 8 PHE B 504 VAL B 510 -1 N SER B 508 O THR B 515 SHEET 1 B 8 PHE C 504 VAL C 510 0 SHEET 2 B 8 ALA C 513 ILE C 518 -1 O ALA C 513 N VAL C 510 SHEET 3 B 8 TYR C 471 THR C 476 -1 N ILE C 474 O LEU C 514 SHEET 4 B 8 ILE C 549 GLN C 556 -1 O GLY C 555 N TYR C 471 SHEET 5 B 8 ILE D 549 ARG D 557 -1 O GLN D 556 N THR C 552 SHEET 6 B 8 TYR D 471 THR D 476 -1 N VAL D 475 O LEU D 550 SHEET 7 B 8 ALA D 513 ILE D 518 -1 O PHE D 516 N GLY D 472 SHEET 8 B 8 PHE D 504 VAL D 510 -1 N ILE D 505 O ARG D 517 LINK OD1 ASP A 529 CA CA A 732 1555 1555 2.54 LINK OE1 GLN A 532 CA CA A 732 1555 1555 2.34 LINK CA CA A 732 O HOH B 693 1555 1555 2.46 LINK CA CA A 732 OD1 ASP C 529 1555 1555 2.32 LINK CA CA A 732 OD2 ASP C 529 1555 1555 2.41 LINK OG SER D 500 CA CA D 732 1555 1555 2.74 LINK O HOH D 723 CA CA D 732 1555 1555 2.93 CISPEP 1 LYS A 479 PRO A 480 0 7.73 CISPEP 2 LYS B 479 PRO B 480 0 1.77 CISPEP 3 LYS C 479 PRO C 480 0 -10.02 CISPEP 4 LYS C 479 PRO C 480 0 -9.85 CISPEP 5 LYS D 479 PRO D 480 0 -7.07 SITE 1 AC1 4 ASP A 529 GLN A 532 HOH B 693 ASP C 529 SITE 1 AC2 6 LEU B 483 HOH B 681 ALA C 543 SER D 500 SITE 2 AC2 6 GLY D 502 HOH D 723 CRYST1 44.662 44.662 168.665 90.00 90.00 90.00 P 41 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 0.022390 0.000000 0.000000 0.00000 SCALE2 0.000000 0.022390 0.000000 0.00000 SCALE3 0.000000 0.000000 0.005929 0.00000