PDB Short entry for 3NG8 HEADER TRANSFERASE 11-JUN-10 3NG8 TITLE CRYSTAL STRUCTURE OF AN ABRIDGED SER TO ALA MUTANT OF THE MATURE TITLE 2 ECTODOMAIN OF THE HUMAN RECEPTOR-TYPE PROTEIN-TYROSINE PHOSPHATASE TITLE 3 ICA512/IA-2 AT PH 8.5 COMPND MOL_ID: 1; COMPND 2 MOLECULE: RECEPTOR-TYPE TYROSINE-PROTEIN PHOSPHATASE-LIKE N; COMPND 3 CHAIN: A, B; COMPND 4 FRAGMENT: UNP RESIDUES 470-558; COMPND 5 SYNONYM: R-PTP-N, PTP IA-2, ISLET CELL ANTIGEN 512, ICA 512, ISLET COMPND 6 CELL AUTOANTIGEN 3; COMPND 7 ENGINEERED: YES; COMPND 8 MUTATION: 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 TRANSFERASE EXPDTA X-RAY DIFFRACTION AUTHOR M.E.PRIMO,J.JAKONCIC,E.POSKUS,M.R.ERMACORA REVDAT 3 06-SEP-23 3NG8 1 REMARK SEQADV LINK REVDAT 2 10-JUL-13 3NG8 1 JRNL VERSN REVDAT 1 15-DEC-10 3NG8 0 JRNL AUTH M.E.PRIMO,S.KLINKE,M.P.SICA,F.A.GOLDBAUM,J.JAKONCIC, JRNL AUTH 2 E.POSKUS,M.R.ERMACORA JRNL TITL STRUCTURE OF THE MATURE ECTODOMAIN OF THE HUMAN JRNL TITL 2 RECEPTOR-TYPE PROTEIN-TYROSINE PHOSPHATASE IA-2. JRNL REF J.BIOL.CHEM. V. 283 4674 2008 JRNL REFN ISSN 0021-9258 JRNL PMID 18048354 JRNL DOI 10.1074/JBC.M708144200 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. 1.35 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 : MAXIMUM LIKELIHOOD REMARK 3 REMARK 3 DATA USED IN REFINEMENT. REMARK 3 RESOLUTION RANGE HIGH (ANGSTROMS) : 1.35 REMARK 3 RESOLUTION RANGE LOW (ANGSTROMS) : 19.45 REMARK 3 DATA CUTOFF (SIGMA(F)) : NULL REMARK 3 COMPLETENESS FOR RANGE (%) : 100.0 REMARK 3 NUMBER OF REFLECTIONS : 32636 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) : 0.179 REMARK 3 R VALUE (WORKING SET) : 0.177 REMARK 3 FREE R VALUE : 0.224 REMARK 3 FREE R VALUE TEST SET SIZE (%) : 5.000 REMARK 3 FREE R VALUE TEST SET COUNT : 1735 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) : 1.35 REMARK 3 BIN RESOLUTION RANGE LOW (A) : 1.39 REMARK 3 REFLECTION IN BIN (WORKING SET) : 2122 REMARK 3 BIN COMPLETENESS (WORKING+TEST) (%) : 100.0 REMARK 3 BIN R VALUE (WORKING SET) : 0.2980 REMARK 3 BIN FREE R VALUE SET COUNT : 133 REMARK 3 BIN FREE R VALUE : 0.3060 REMARK 3 REMARK 3 NUMBER OF NON-HYDROGEN ATOMS USED IN REFINEMENT. REMARK 3 PROTEIN ATOMS : 1312 REMARK 3 NUCLEIC ACID ATOMS : 0 REMARK 3 HETEROGEN ATOMS : 1 REMARK 3 SOLVENT ATOMS : 215 REMARK 3 REMARK 3 B VALUES. REMARK 3 FROM WILSON PLOT (A**2) : NULL REMARK 3 MEAN B VALUE (OVERALL, A**2) : 21.72 REMARK 3 OVERALL ANISOTROPIC B VALUE. REMARK 3 B11 (A**2) : 1.06000 REMARK 3 B22 (A**2) : 0.09000 REMARK 3 B33 (A**2) : -1.14000 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): 0.073 REMARK 3 ESU BASED ON FREE R VALUE (A): 0.069 REMARK 3 ESU BASED ON MAXIMUM LIKELIHOOD (A): 0.038 REMARK 3 ESU FOR B VALUES BASED ON MAXIMUM LIKELIHOOD (A**2): 2.014 REMARK 3 REMARK 3 CORRELATION COEFFICIENTS. REMARK 3 CORRELATION COEFFICIENT FO-FC : 0.962 REMARK 3 CORRELATION COEFFICIENT FO-FC FREE : 0.942 REMARK 3 REMARK 3 RMS DEVIATIONS FROM IDEAL VALUES COUNT RMS WEIGHT REMARK 3 BOND LENGTHS REFINED ATOMS (A): 1445 ; 0.014 ; 0.022 REMARK 3 BOND LENGTHS OTHERS (A): NULL ; NULL ; NULL REMARK 3 BOND ANGLES REFINED ATOMS (DEGREES): 1984 ; 1.561 ; 1.971 REMARK 3 BOND ANGLES OTHERS (DEGREES): NULL ; NULL ; NULL REMARK 3 TORSION ANGLES, PERIOD 1 (DEGREES): 208 ; 5.666 ; 5.000 REMARK 3 TORSION ANGLES, PERIOD 2 (DEGREES): 61 ;37.798 ;26.393 REMARK 3 TORSION ANGLES, PERIOD 3 (DEGREES): 268 ;12.466 ;15.000 REMARK 3 TORSION ANGLES, PERIOD 4 (DEGREES): 4 ;26.310 ;15.000 REMARK 3 CHIRAL-CENTER RESTRAINTS (A**3): 247 ; 0.107 ; 0.200 REMARK 3 GENERAL PLANES REFINED ATOMS (A): 1072 ; 0.007 ; 0.020 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): 919 ; 1.840 ; 1.500 REMARK 3 MAIN-CHAIN BOND OTHER ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 MAIN-CHAIN ANGLE REFINED ATOMS (A**2): 1496 ; 2.903 ; 2.000 REMARK 3 MAIN-CHAIN ANGLE OTHER ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 SIDE-CHAIN BOND REFINED ATOMS (A**2): 526 ; 3.885 ; 3.000 REMARK 3 SIDE-CHAIN BOND OTHER ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 SIDE-CHAIN ANGLE REFINED ATOMS (A**2): 470 ; 5.807 ; 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): 1445 ; 1.786 ; 3.000 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 : BABINET MODEL WITH 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: U VALUES REFINED INDIVIDUALLY REMARK 4 REMARK 4 3NG8 COMPLIES WITH FORMAT V. 3.30, 13-JUL-11 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY RCSB ON 14-JUN-10. REMARK 100 THE DEPOSITION ID IS D_1000059789. REMARK 200 REMARK 200 EXPERIMENTAL DETAILS REMARK 200 EXPERIMENT TYPE : X-RAY DIFFRACTION REMARK 200 DATE OF DATA COLLECTION : 15-FEB-10 REMARK 200 TEMPERATURE (KELVIN) : 100.0 REMARK 200 PH : 8.5 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) : 1.0332 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 : 34457 REMARK 200 RESOLUTION RANGE HIGH (A) : 1.350 REMARK 200 RESOLUTION RANGE LOW (A) : 20.000 REMARK 200 REJECTION CRITERIA (SIGMA(I)) : 3.000 REMARK 200 REMARK 200 OVERALL. REMARK 200 COMPLETENESS FOR RANGE (%) : 98.4 REMARK 200 DATA REDUNDANCY : 5.600 REMARK 200 R MERGE (I) : 0.03900 REMARK 200 R SYM (I) : 0.03900 REMARK 200 <I/SIGMA(I)> FOR THE DATA SET : 44.2000 REMARK 200 REMARK 200 IN THE HIGHEST RESOLUTION SHELL. REMARK 200 HIGHEST RESOLUTION SHELL, RANGE HIGH (A) : 1.35 REMARK 200 HIGHEST RESOLUTION SHELL, RANGE LOW (A) : 1.37 REMARK 200 COMPLETENESS FOR SHELL (%) : 85.5 REMARK 200 DATA REDUNDANCY IN SHELL : 3.10 REMARK 200 R MERGE FOR SHELL (I) : 0.28000 REMARK 200 R SYM FOR SHELL (I) : 0.28000 REMARK 200 <I/SIGMA(I)> FOR SHELL : 3.000 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 2QT7 REMARK 200 REMARK 200 REMARK: NULL REMARK 280 REMARK 280 CRYSTAL REMARK 280 SOLVENT CONTENT, VS (%): 39.90 REMARK 280 MATTHEWS COEFFICIENT, VM (ANGSTROMS**3/DA): 2.05 REMARK 280 REMARK 280 CRYSTALLIZATION CONDITIONS: 30% (W/V) PEG 4000, 0.1 M TRISCL PH REMARK 280 8.5, 0.2 M CACL2, VAPOR DIFFUSION, HANGING DROP, TEMPERATURE 292 REMARK 290 REMARK 290 CRYSTALLOGRAPHIC SYMMETRY REMARK 290 SYMMETRY OPERATORS FOR SPACE GROUP: P 21 21 21 REMARK 290 REMARK 290 SYMOP SYMMETRY REMARK 290 NNNMMM OPERATOR REMARK 290 1555 X,Y,Z REMARK 290 2555 -X+1/2,-Y,Z+1/2 REMARK 290 3555 -X,Y+1/2,-Z+1/2 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 15.77700 REMARK 290 SMTRY2 2 0.000000 -1.000000 0.000000 0.00000 REMARK 290 SMTRY3 2 0.000000 0.000000 1.000000 36.85600 REMARK 290 SMTRY1 3 -1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY2 3 0.000000 1.000000 0.000000 33.27200 REMARK 290 SMTRY3 3 0.000000 0.000000 -1.000000 36.85600 REMARK 290 SMTRY1 4 1.000000 0.000000 0.000000 15.77700 REMARK 290 SMTRY2 4 0.000000 -1.000000 0.000000 33.27200 REMARK 290 SMTRY3 4 0.000000 0.000000 -1.000000 0.00000 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: DIMERIC REMARK 350 APPLY THE FOLLOWING TO CHAINS: A, B REMARK 350 BIOMT1 1 1.000000 0.000000 0.000000 0.00000 REMARK 350 BIOMT2 1 0.000000 1.000000 0.000000 0.00000 REMARK 350 BIOMT3 1 0.000000 0.000000 1.000000 0.00000 REMARK 350 REMARK 350 BIOMOLECULE: 2 REMARK 350 SOFTWARE DETERMINED QUATERNARY STRUCTURE: DIMERIC REMARK 350 SOFTWARE USED: PISA REMARK 350 TOTAL BURIED SURFACE AREA: 1100 ANGSTROM**2 REMARK 350 SURFACE AREA OF THE COMPLEX: 8550 ANGSTROM**2 REMARK 350 CHANGE IN SOLVENT FREE ENERGY: -14.0 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: A REMARK 350 BIOMT1 2 -1.000000 0.000000 0.000000 -15.77700 REMARK 350 BIOMT2 2 0.000000 -1.000000 0.000000 0.00000 REMARK 350 BIOMT3 2 0.000000 0.000000 1.000000 36.85600 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 ARG B 557 REMARK 465 GLU B 558 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 55 O HOH B 213 2.08 REMARK 500 O HOH A 120 O HOH A 269 2.15 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 A 520 129.82 -39.34 REMARK 500 HIS B 520 138.34 -38.27 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 B 1 CA REMARK 620 N RES CSSEQI ATOM REMARK 620 1 HOH B 10 O REMARK 620 2 HOH B 13 O 92.8 REMARK 620 3 HOH B 18 O 154.3 87.4 REMARK 620 4 GLU B 542 OE1 76.1 90.1 129.6 REMARK 620 5 GLU B 542 OE2 128.4 94.3 77.1 52.9 REMARK 620 6 GLN B 548 OE1 87.1 178.3 93.4 88.2 84.4 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 CA B 1 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: 3N4W RELATED DB: PDB REMARK 900 THE SAME PROTEIN AT PH 7.5 DBREF 3NG8 A 470 558 UNP Q16849 PTPRN_HUMAN 470 558 DBREF 3NG8 B 470 558 UNP Q16849 PTPRN_HUMAN 470 558 SEQADV 3NG8 ALA A 508 UNP Q16849 SER 508 ENGINEERED MUTATION SEQADV 3NG8 ALA B 508 UNP Q16849 SER 508 ENGINEERED MUTATION 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 ALA 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 ALA 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 HET CA B 1 1 HETNAM CA CALCIUM ION FORMUL 3 CA CA 2+ FORMUL 4 HOH *215(H2 O) HELIX 1 1 SER A 482 HIS A 498 1 17 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 SHEET 1 A 8 PHE A 504 VAL A 510 0 SHEET 2 A 8 ALA A 513 ILE A 518 -1 O THR A 515 N ALA A 508 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 GLY A 555 -1 O GLY A 555 N TYR A 471 SHEET 5 A 8 ILE B 549 GLY B 555 -1 O VAL B 554 N THR A 552 SHEET 6 A 8 TYR B 471 THR B 476 -1 N VAL B 475 O LEU B 550 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 ALA B 508 O THR B 515 LINK CA CA B 1 O HOH B 10 1555 1555 2.38 LINK CA CA B 1 O HOH B 13 1555 1555 2.35 LINK CA CA B 1 O HOH B 18 1555 1555 2.40 LINK CA CA B 1 OE1 GLU B 542 1555 1555 2.40 LINK CA CA B 1 OE2 GLU B 542 1555 1555 2.44 LINK CA CA B 1 OE1 GLN B 548 1555 1555 2.32 CISPEP 1 LYS A 479 PRO A 480 0 -2.07 CISPEP 2 LYS A 479 PRO A 480 0 -0.76 CISPEP 3 LYS B 479 PRO B 480 0 -3.06 SITE 1 AC1 6 HIS A 498 HOH B 10 HOH B 13 HOH B 18 SITE 2 AC1 6 GLU B 542 GLN B 548 CRYST1 31.554 66.544 73.712 90.00 90.00 90.00 P 21 21 21 8 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 0.031692 0.000000 0.000000 0.00000 SCALE2 0.000000 0.015028 0.000000 0.00000 SCALE3 0.000000 0.000000 0.013566 0.00000