HEADER PROTEIN BINDING 10-JUN-10 3NFL TITLE CRYSTAL STRUCTURE OF THE PTPN4 PDZ DOMAIN COMPLEXED WITH THE C- TITLE 2 TERMINUS OF THE GLUN2A NMDA RECEPTOR SUBUNIT COMPND MOL_ID: 1; COMPND 2 MOLECULE: TYROSINE-PROTEIN PHOSPHATASE NON-RECEPTOR TYPE 4; COMPND 3 CHAIN: A, B, C, D; COMPND 4 FRAGMENT: PDZ DOMAIN (UNP RESIDUES 499-604); COMPND 5 SYNONYM: PROTEIN-TYROSINE PHOSPHATASE MEG1, PTPASE-MEG1, MEG; COMPND 6 ENGINEERED: YES; COMPND 7 MOL_ID: 2; COMPND 8 MOLECULE: GLUTAMATE [NMDA] RECEPTOR SUBUNIT EPSILON-1; COMPND 9 CHAIN: E, F, G, H; COMPND 10 FRAGMENT: UNP RESIDUES 1449-1464; COMPND 11 SYNONYM: N-METHYL D-ASPARTATE RECEPTOR SUBTYPE 2A, NMDAR2A, NR2A, COMPND 12 HNR2A; COMPND 13 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: PTPN4; SOURCE 6 EXPRESSION_SYSTEM: ESCHERICHIA COLI; SOURCE 7 EXPRESSION_SYSTEM_TAXID: 469008; SOURCE 8 EXPRESSION_SYSTEM_STRAIN: BL21 (DE3) STAR; SOURCE 9 EXPRESSION_SYSTEM_VECTOR_TYPE: PLASMID; SOURCE 10 EXPRESSION_SYSTEM_PLASMID: PDEST15; SOURCE 11 MOL_ID: 2; SOURCE 12 SYNTHETIC: YES; SOURCE 13 ORGANISM_SCIENTIFIC: HOMO SAPIENS; SOURCE 14 ORGANISM_COMMON: HUMAN; SOURCE 15 ORGANISM_TAXID: 9606; SOURCE 16 OTHER_DETAILS: NR2A16 PEPTIDE HAS BEEN CHEMICALLY SYNTHETIZED. THE SOURCE 17 SEQUENCE OCUURS NATURALLY IN HOMO SAPIENS (HUMAN) KEYWDS PDZ-PDZ-BINDING SITE COMPLEX, PROTEIN BINDING EXPDTA X-RAY DIFFRACTION AUTHOR N.BABAULT,F.CORDIER,M.LAFAGE,J.COCKBURN,A.HAOUZ,F.A.REY,M.DELEPIERRE, AUTHOR 2 H.BUC,M.LAFON,N.WOLFF REVDAT 3 06-SEP-23 3NFL 1 SEQADV REVDAT 2 30-NOV-11 3NFL 1 JRNL REVDAT 1 24-AUG-11 3NFL 0 JRNL AUTH N.BABAULT,F.CORDIER,M.LAFAGE,J.COCKBURN,A.HAOUZ,C.PREHAUD, JRNL AUTH 2 F.A.REY,M.DELEPIERRE,H.BUC,M.LAFON,N.WOLFF JRNL TITL PEPTIDES TARGETING THE PDZ DOMAIN OF PTPN4 ARE EFFICIENT JRNL TITL 2 INDUCERS OF GLIOBLASTOMA CELL DEATH. JRNL REF STRUCTURE V. 19 1518 2011 JRNL REFN ISSN 0969-2126 JRNL PMID 22000519 JRNL DOI 10.1016/J.STR.2011.07.007 REMARK 2 REMARK 2 RESOLUTION. 1.91 ANGSTROMS. REMARK 3 REMARK 3 REFINEMENT. REMARK 3 PROGRAM : BUSTER 2.9.3 REMARK 3 AUTHORS : BRICOGNE,BLANC,BRANDL,FLENSBURG,KELLER, REMARK 3 : PACIOREK,ROVERSI,SHARFF,SMART,VONRHEIN, REMARK 3 : WOMACK,MATTHEWS,TEN EYCK,TRONRUD REMARK 3 REMARK 3 DATA USED IN REFINEMENT. REMARK 3 RESOLUTION RANGE HIGH (ANGSTROMS) : 1.91 REMARK 3 RESOLUTION RANGE LOW (ANGSTROMS) : 49.88 REMARK 3 DATA CUTOFF (SIGMA(F)) : 0.000 REMARK 3 COMPLETENESS FOR RANGE (%) : 95.8 REMARK 3 NUMBER OF REFLECTIONS : 38911 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) : 0.218 REMARK 3 R VALUE (WORKING SET) : 0.217 REMARK 3 FREE R VALUE : 0.247 REMARK 3 FREE R VALUE TEST SET SIZE (%) : 5.030 REMARK 3 FREE R VALUE TEST SET COUNT : 1959 REMARK 3 ESTIMATED ERROR OF FREE R VALUE : NULL REMARK 3 REMARK 3 FIT IN THE HIGHEST RESOLUTION BIN. REMARK 3 TOTAL NUMBER OF BINS USED : 20 REMARK 3 BIN RESOLUTION RANGE HIGH (ANGSTROMS) : 1.91 REMARK 3 BIN RESOLUTION RANGE LOW (ANGSTROMS) : 1.96 REMARK 3 BIN COMPLETENESS (WORKING+TEST) (%) : 95.84 REMARK 3 REFLECTIONS IN BIN (WORKING + TEST SET) : 1949 REMARK 3 BIN R VALUE (WORKING + TEST SET) : 0.2122 REMARK 3 REFLECTIONS IN BIN (WORKING SET) : 1849 REMARK 3 BIN R VALUE (WORKING SET) : 0.2099 REMARK 3 BIN FREE R VALUE : 0.2541 REMARK 3 BIN FREE R VALUE TEST SET SIZE (%) : 5.13 REMARK 3 BIN FREE R VALUE TEST SET COUNT : 100 REMARK 3 ESTIMATED ERROR OF BIN FREE R VALUE : NULL REMARK 3 REMARK 3 NUMBER OF NON-HYDROGEN ATOMS USED IN REFINEMENT. REMARK 3 PROTEIN ATOMS : 2924 REMARK 3 NUCLEIC ACID ATOMS : 0 REMARK 3 HETEROGEN ATOMS : 0 REMARK 3 SOLVENT ATOMS : 167 REMARK 3 REMARK 3 B VALUES. REMARK 3 FROM WILSON PLOT (A**2) : 37.40 REMARK 3 MEAN B VALUE (OVERALL, A**2) : 54.07 REMARK 3 OVERALL ANISOTROPIC B VALUE. REMARK 3 B11 (A**2) : 0.87600 REMARK 3 B22 (A**2) : -6.51610 REMARK 3 B33 (A**2) : 5.64010 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 COORDINATE ERROR. REMARK 3 ESD FROM LUZZATI PLOT (A) : 0.387 REMARK 3 DPI (BLOW EQ-10) BASED ON R VALUE (A) : NULL REMARK 3 DPI (BLOW EQ-9) BASED ON FREE R VALUE (A) : NULL REMARK 3 DPI (CRUICKSHANK) BASED ON R VALUE (A) : 0.144 REMARK 3 DPI (CRUICKSHANK) BASED ON FREE R VALUE (A) : NULL REMARK 3 REMARK 3 REFERENCES: BLOW, D. (2002) ACTA CRYST D58, 792-797 REMARK 3 CRUICKSHANK, D.W.J. (1999) ACTA CRYST D55, 583-601 REMARK 3 REMARK 3 CORRELATION COEFFICIENTS. REMARK 3 CORRELATION COEFFICIENT FO-FC : 0.924 REMARK 3 CORRELATION COEFFICIENT FO-FC FREE : 0.903 REMARK 3 REMARK 3 NUMBER OF GEOMETRIC FUNCTION TERMS DEFINED : 15 REMARK 3 TERM COUNT WEIGHT FUNCTION. REMARK 3 BOND LENGTHS : 2994 ; 2.000 ; NULL REMARK 3 BOND ANGLES : 4054 ; 2.000 ; NULL REMARK 3 TORSION ANGLES : 1061 ; 2.000 ; NULL REMARK 3 TRIGONAL CARBON PLANES : 92 ; 2.000 ; NULL REMARK 3 GENERAL PLANES : 427 ; 5.000 ; NULL REMARK 3 ISOTROPIC THERMAL FACTORS : 2994 ; 20.000 ; NULL REMARK 3 BAD NON-BONDED CONTACTS : NULL ; NULL ; NULL REMARK 3 IMPROPER TORSIONS : NULL ; NULL ; NULL REMARK 3 PSEUDOROTATION ANGLES : NULL ; NULL ; NULL REMARK 3 CHIRAL IMPROPER TORSION : 383 ; 5.000 ; NULL REMARK 3 SUM OF OCCUPANCIES : NULL ; NULL ; NULL REMARK 3 UTILITY DISTANCES : NULL ; NULL ; NULL REMARK 3 UTILITY ANGLES : NULL ; NULL ; NULL REMARK 3 UTILITY TORSION : NULL ; NULL ; NULL REMARK 3 IDEAL-DIST CONTACT TERM : 3407 ; 4.000 ; NULL REMARK 3 REMARK 3 RMS DEVIATIONS FROM IDEAL VALUES. REMARK 3 BOND LENGTHS (A) : 0.010 REMARK 3 BOND ANGLES (DEGREES) : 1.18 REMARK 3 PEPTIDE OMEGA TORSION ANGLES (DEGREES) : 2.77 REMARK 3 OTHER TORSION ANGLES (DEGREES) : 18.12 REMARK 3 REMARK 3 TLS DETAILS REMARK 3 NUMBER OF TLS GROUPS : 8 REMARK 3 REMARK 3 TLS GROUP : 1 REMARK 3 SELECTION: { C|511 - C|590 C|596 - C|604 } REMARK 3 ORIGIN FOR THE GROUP (A): 15.2227 -13.6259 -13.2444 REMARK 3 T TENSOR REMARK 3 T11: -0.2163 T22: 0.1952 REMARK 3 T33: -0.2568 T12: -0.0056 REMARK 3 T13: 0.0348 T23: -0.0206 REMARK 3 L TENSOR REMARK 3 L11: 8.3155 L22: 5.3178 REMARK 3 L33: 6.1208 L12: -2.0465 REMARK 3 L13: 1.2892 L23: 0.1137 REMARK 3 S TENSOR REMARK 3 S11: 0.2536 S12: 0.5442 S13: -0.1786 REMARK 3 S21: 0.0172 S22: -0.2906 S23: -0.2785 REMARK 3 S31: 0.0647 S32: 0.1607 S33: 0.0370 REMARK 3 REMARK 3 TLS GROUP : 2 REMARK 3 SELECTION: { G|12 - G|16 } REMARK 3 ORIGIN FOR THE GROUP (A): 25.1678 -9.7598 -10.7435 REMARK 3 T TENSOR REMARK 3 T11: -0.1793 T22: 0.1858 REMARK 3 T33: 0.0142 T12: -0.0620 REMARK 3 T13: -0.0848 T23: 0.1230 REMARK 3 L TENSOR REMARK 3 L11: 0.7230 L22: 0.0000 REMARK 3 L33: 0.4035 L12: 0.5207 REMARK 3 L13: -0.8412 L23: 0.0566 REMARK 3 S TENSOR REMARK 3 S11: -0.0106 S12: 0.0675 S13: 0.0501 REMARK 3 S21: 0.0376 S22: -0.0333 S23: 0.0001 REMARK 3 S31: -0.0528 S32: 0.0235 S33: 0.0439 REMARK 3 REMARK 3 TLS GROUP : 3 REMARK 3 SELECTION: { D|513 - D|591 D|595 - D|604 } REMARK 3 ORIGIN FOR THE GROUP (A): -0.8680 23.9665 59.2921 REMARK 3 T TENSOR REMARK 3 T11: 0.2038 T22: -0.1503 REMARK 3 T33: -0.1166 T12: -0.1074 REMARK 3 T13: -0.0694 T23: 0.0184 REMARK 3 L TENSOR REMARK 3 L11: 1.6712 L22: 5.4487 REMARK 3 L33: 4.9015 L12: 0.0413 REMARK 3 L13: 0.5116 L23: -0.2538 REMARK 3 S TENSOR REMARK 3 S11: 0.2107 S12: -0.1780 S13: -0.0639 REMARK 3 S21: 0.5442 S22: -0.3335 S23: 0.0459 REMARK 3 S31: -0.3474 S32: -0.2633 S33: 0.1228 REMARK 3 REMARK 3 TLS GROUP : 4 REMARK 3 SELECTION: { H|12 - H|16 } REMARK 3 ORIGIN FOR THE GROUP (A): -4.9382 14.9526 55.9402 REMARK 3 T TENSOR REMARK 3 T11: 0.0854 T22: -0.0926 REMARK 3 T33: 0.0276 T12: -0.1292 REMARK 3 T13: -0.0814 T23: 0.0219 REMARK 3 L TENSOR REMARK 3 L11: 0.0000 L22: 0.0377 REMARK 3 L33: 1.1841 L12: -0.4520 REMARK 3 L13: 1.3277 L23: -2.3314 REMARK 3 S TENSOR REMARK 3 S11: -0.0111 S12: 0.0025 S13: -0.0110 REMARK 3 S21: 0.0964 S22: -0.0814 S23: 0.0748 REMARK 3 S31: -0.0234 S32: 0.0468 S33: 0.0926 REMARK 3 REMARK 3 TLS GROUP : 5 REMARK 3 SELECTION: { A|512 - A|603 } REMARK 3 ORIGIN FOR THE GROUP (A): -1.1128 21.9898 33.2558 REMARK 3 T TENSOR REMARK 3 T11: 0.1422 T22: -0.2183 REMARK 3 T33: -0.1706 T12: 0.0768 REMARK 3 T13: -0.0592 T23: 0.0124 REMARK 3 L TENSOR REMARK 3 L11: 1.3086 L22: 4.4114 REMARK 3 L33: 5.9077 L12: 0.2900 REMARK 3 L13: 0.8745 L23: 0.3889 REMARK 3 S TENSOR REMARK 3 S11: 0.2235 S12: 0.0934 S13: -0.0009 REMARK 3 S21: -0.4322 S22: -0.2126 S23: 0.0316 REMARK 3 S31: 0.4339 S32: -0.0400 S33: -0.0110 REMARK 3 REMARK 3 TLS GROUP : 6 REMARK 3 SELECTION: { B|512 - B|590 B|594 - B|603 } REMARK 3 ORIGIN FOR THE GROUP (A): 17.1771 -11.2478 13.0444 REMARK 3 T TENSOR REMARK 3 T11: -0.2206 T22: 0.3040 REMARK 3 T33: -0.3040 T12: -0.1155 REMARK 3 T13: 0.0183 T23: -0.0432 REMARK 3 L TENSOR REMARK 3 L11: 7.6290 L22: 1.2705 REMARK 3 L33: 7.9913 L12: 0.4330 REMARK 3 L13: -2.9104 L23: -0.6294 REMARK 3 S TENSOR REMARK 3 S11: -0.0248 S12: -0.0422 S13: 0.2870 REMARK 3 S21: -0.0214 S22: 0.5195 S23: -0.0920 REMARK 3 S31: -0.1384 S32: 0.5442 S33: -0.4947 REMARK 3 REMARK 3 TLS GROUP : 7 REMARK 3 SELECTION: { E|12 - E|16 } REMARK 3 ORIGIN FOR THE GROUP (A): -5.8559 31.7417 33.5772 REMARK 3 T TENSOR REMARK 3 T11: 0.1830 T22: -0.0427 REMARK 3 T33: -0.1184 T12: 0.0747 REMARK 3 T13: -0.1082 T23: -0.0044 REMARK 3 L TENSOR REMARK 3 L11: 0.0000 L22: 0.3454 REMARK 3 L33: 0.1177 L12: -0.6551 REMARK 3 L13: 0.6305 L23: 0.0677 REMARK 3 S TENSOR REMARK 3 S11: -0.0009 S12: 0.0164 S13: 0.0131 REMARK 3 S21: -0.0325 S22: -0.0176 S23: 0.1372 REMARK 3 S31: 0.0219 S32: -0.0611 S33: 0.0186 REMARK 3 REMARK 3 TLS GROUP : 8 REMARK 3 SELECTION: { F|12 - F|16 } REMARK 3 ORIGIN FOR THE GROUP (A): 7.3425 -7.7929 11.1394 REMARK 3 T TENSOR REMARK 3 T11: -0.1258 T22: 0.2789 REMARK 3 T33: -0.1313 T12: -0.0516 REMARK 3 T13: -0.0684 T23: 0.1520 REMARK 3 L TENSOR REMARK 3 L11: 0.0000 L22: 0.0696 REMARK 3 L33: 0.0000 L12: -0.6604 REMARK 3 L13: 0.6447 L23: -0.0150 REMARK 3 S TENSOR REMARK 3 S11: -0.0102 S12: -0.0216 S13: 0.0456 REMARK 3 S21: -0.0201 S22: -0.0055 S23: 0.0172 REMARK 3 S31: -0.0368 S32: -0.0070 S33: 0.0157 REMARK 3 REMARK 3 OTHER REFINEMENT REMARKS: NULL REMARK 4 REMARK 4 3NFL COMPLIES WITH FORMAT V. 3.30, 13-JUL-11 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY RCSB ON 16-JUN-10. REMARK 100 THE DEPOSITION ID IS D_1000059767. REMARK 200 REMARK 200 EXPERIMENTAL DETAILS REMARK 200 EXPERIMENT TYPE : X-RAY DIFFRACTION REMARK 200 DATE OF DATA COLLECTION : 08-AUG-09 REMARK 200 TEMPERATURE (KELVIN) : 100 REMARK 200 PH : NULL REMARK 200 NUMBER OF CRYSTALS USED : 1 REMARK 200 REMARK 200 SYNCHROTRON (Y/N) : Y REMARK 200 RADIATION SOURCE : SLS REMARK 200 BEAMLINE : X06SA REMARK 200 X-RAY GENERATOR MODEL : NULL REMARK 200 MONOCHROMATIC OR LAUE (M/L) : M REMARK 200 WAVELENGTH OR RANGE (A) : 0.9795 REMARK 200 MONOCHROMATOR : LN2 COOLED FIXED-EXIT SI(111) REMARK 200 DYNAMICALLY BENDABLE MIRROR REMARK 200 OPTICS : NULL REMARK 200 REMARK 200 DETECTOR TYPE : PIXEL REMARK 200 DETECTOR MANUFACTURER : PSI PILATUS 6M REMARK 200 INTENSITY-INTEGRATION SOFTWARE : XDS REMARK 200 DATA SCALING SOFTWARE : XDS, SCALA REMARK 200 REMARK 200 NUMBER OF UNIQUE REFLECTIONS : 38978 REMARK 200 RESOLUTION RANGE HIGH (A) : 1.910 REMARK 200 RESOLUTION RANGE LOW (A) : 95.450 REMARK 200 REJECTION CRITERIA (SIGMA(I)) : NULL REMARK 200 REMARK 200 OVERALL. REMARK 200 COMPLETENESS FOR RANGE (%) : 96.1 REMARK 200 DATA REDUNDANCY : 4.200 REMARK 200 R MERGE (I) : 0.04300 REMARK 200 R SYM (I) : NULL REMARK 200 FOR THE DATA SET : 21.1000 REMARK 200 REMARK 200 IN THE HIGHEST RESOLUTION SHELL. REMARK 200 HIGHEST RESOLUTION SHELL, RANGE HIGH (A) : 1.91 REMARK 200 HIGHEST RESOLUTION SHELL, RANGE LOW (A) : 2.01 REMARK 200 COMPLETENESS FOR SHELL (%) : 74.7 REMARK 200 DATA REDUNDANCY IN SHELL : 2.10 REMARK 200 R MERGE FOR SHELL (I) : 0.30900 REMARK 200 R SYM FOR SHELL (I) : NULL 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: PHASER REMARK 200 STARTING MODEL: PDB ENTRY 2VPH REMARK 200 REMARK 200 REMARK: NULL REMARK 280 REMARK 280 CRYSTAL REMARK 280 SOLVENT CONTENT, VS (%): 47.38 REMARK 280 MATTHEWS COEFFICIENT, VM (ANGSTROMS**3/DA): 2.34 REMARK 280 REMARK 280 CRYSTALLIZATION CONDITIONS: 24% PEG 4000, 0.2M AMMONIUM SULFATE, REMARK 280 VAPOR DIFFUSION, HANGING DROP, TEMPERATURE 291K 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 25.79100 REMARK 290 SMTRY2 2 0.000000 -1.000000 0.000000 0.00000 REMARK 290 SMTRY3 2 0.000000 0.000000 1.000000 95.45100 REMARK 290 SMTRY1 3 -1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY2 3 0.000000 1.000000 0.000000 25.83950 REMARK 290 SMTRY3 3 0.000000 0.000000 -1.000000 95.45100 REMARK 290 SMTRY1 4 1.000000 0.000000 0.000000 25.79100 REMARK 290 SMTRY2 4 0.000000 -1.000000 0.000000 25.83950 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, 3, 4, 5, 6 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 SOFTWARE DETERMINED QUATERNARY STRUCTURE: DIMERIC REMARK 350 SOFTWARE USED: PISA REMARK 350 TOTAL BURIED SURFACE AREA: 780 ANGSTROM**2 REMARK 350 SURFACE AREA OF THE COMPLEX: 5830 ANGSTROM**2 REMARK 350 CHANGE IN SOLVENT FREE ENERGY: -2.0 KCAL/MOL REMARK 350 APPLY THE FOLLOWING TO CHAINS: A, E 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: DIMERIC REMARK 350 SOFTWARE DETERMINED QUATERNARY STRUCTURE: DIMERIC REMARK 350 SOFTWARE USED: PISA REMARK 350 TOTAL BURIED SURFACE AREA: 770 ANGSTROM**2 REMARK 350 SURFACE AREA OF THE COMPLEX: 5730 ANGSTROM**2 REMARK 350 CHANGE IN SOLVENT FREE ENERGY: -2.0 KCAL/MOL REMARK 350 APPLY THE FOLLOWING TO CHAINS: B, F 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: 3 REMARK 350 AUTHOR DETERMINED BIOLOGICAL UNIT: DIMERIC REMARK 350 SOFTWARE DETERMINED QUATERNARY STRUCTURE: DIMERIC REMARK 350 SOFTWARE USED: PISA REMARK 350 TOTAL BURIED SURFACE AREA: 830 ANGSTROM**2 REMARK 350 SURFACE AREA OF THE COMPLEX: 5590 ANGSTROM**2 REMARK 350 CHANGE IN SOLVENT FREE ENERGY: -2.0 KCAL/MOL REMARK 350 APPLY THE FOLLOWING TO CHAINS: C, G 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: 4 REMARK 350 AUTHOR DETERMINED BIOLOGICAL UNIT: DIMERIC REMARK 350 SOFTWARE DETERMINED QUATERNARY STRUCTURE: DIMERIC REMARK 350 SOFTWARE USED: PISA REMARK 350 TOTAL BURIED SURFACE AREA: 810 ANGSTROM**2 REMARK 350 SURFACE AREA OF THE COMPLEX: 5520 ANGSTROM**2 REMARK 350 CHANGE IN SOLVENT FREE ENERGY: -3.0 KCAL/MOL REMARK 350 APPLY THE FOLLOWING TO CHAINS: D, H 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: 5 REMARK 350 SOFTWARE DETERMINED QUATERNARY STRUCTURE: TETRAMERIC REMARK 350 SOFTWARE USED: PISA REMARK 350 TOTAL BURIED SURFACE AREA: 2680 ANGSTROM**2 REMARK 350 SURFACE AREA OF THE COMPLEX: 10250 ANGSTROM**2 REMARK 350 CHANGE IN SOLVENT FREE ENERGY: -12.0 KCAL/MOL REMARK 350 APPLY THE FOLLOWING TO CHAINS: A, E 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, H REMARK 350 BIOMT1 2 -1.000000 0.000000 0.000000 0.00000 REMARK 350 BIOMT2 2 0.000000 1.000000 0.000000 -25.83950 REMARK 350 BIOMT3 2 0.000000 0.000000 -1.000000 95.45100 REMARK 350 REMARK 350 BIOMOLECULE: 6 REMARK 350 SOFTWARE DETERMINED QUATERNARY STRUCTURE: TETRAMERIC REMARK 350 SOFTWARE USED: PISA REMARK 350 TOTAL BURIED SURFACE AREA: 2700 ANGSTROM**2 REMARK 350 SURFACE AREA OF THE COMPLEX: 10220 ANGSTROM**2 REMARK 350 CHANGE IN SOLVENT FREE ENERGY: -13.0 KCAL/MOL REMARK 350 APPLY THE FOLLOWING TO CHAINS: B, F 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, G REMARK 350 BIOMT1 2 1.000000 0.000000 0.000000 25.79100 REMARK 350 BIOMT2 2 0.000000 -1.000000 0.000000 -25.83950 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 GLY A 498 REMARK 465 SER A 499 REMARK 465 SER A 500 REMARK 465 PRO A 501 REMARK 465 GLU A 502 REMARK 465 LYS A 503 REMARK 465 PRO A 504 REMARK 465 THR A 505 REMARK 465 PRO A 506 REMARK 465 ASN A 507 REMARK 465 GLY A 508 REMARK 465 GLY A 509 REMARK 465 ILE A 510 REMARK 465 PRO A 511 REMARK 465 ASN A 604 REMARK 465 GLY B 498 REMARK 465 SER B 499 REMARK 465 SER B 500 REMARK 465 PRO B 501 REMARK 465 GLU B 502 REMARK 465 LYS B 503 REMARK 465 PRO B 504 REMARK 465 THR B 505 REMARK 465 PRO B 506 REMARK 465 ASN B 507 REMARK 465 GLY B 508 REMARK 465 GLY B 509 REMARK 465 ILE B 510 REMARK 465 PRO B 511 REMARK 465 GLU B 591 REMARK 465 ARG B 592 REMARK 465 HIS B 593 REMARK 465 ASN B 604 REMARK 465 GLY C 498 REMARK 465 SER C 499 REMARK 465 SER C 500 REMARK 465 PRO C 501 REMARK 465 GLU C 502 REMARK 465 LYS C 503 REMARK 465 PRO C 504 REMARK 465 THR C 505 REMARK 465 PRO C 506 REMARK 465 ASN C 507 REMARK 465 GLY C 508 REMARK 465 GLY C 509 REMARK 465 ILE C 510 REMARK 465 GLU C 591 REMARK 465 ARG C 592 REMARK 465 HIS C 593 REMARK 465 SER C 594 REMARK 465 GLY C 595 REMARK 465 GLY D 498 REMARK 465 SER D 499 REMARK 465 SER D 500 REMARK 465 PRO D 501 REMARK 465 GLU D 502 REMARK 465 LYS D 503 REMARK 465 PRO D 504 REMARK 465 THR D 505 REMARK 465 PRO D 506 REMARK 465 ASN D 507 REMARK 465 GLY D 508 REMARK 465 GLY D 509 REMARK 465 ILE D 510 REMARK 465 PRO D 511 REMARK 465 HIS D 512 REMARK 465 ARG D 592 REMARK 465 HIS D 593 REMARK 465 SER D 594 REMARK 465 SER E 1 REMARK 465 ASN E 2 REMARK 465 ARG E 3 REMARK 465 ARG E 4 REMARK 465 VAL E 5 REMARK 465 TYR E 6 REMARK 465 LYS E 7 REMARK 465 LYS E 8 REMARK 465 MET E 9 REMARK 465 PRO E 10 REMARK 465 SER E 11 REMARK 465 SER F 1 REMARK 465 ASN F 2 REMARK 465 ARG F 3 REMARK 465 ARG F 4 REMARK 465 VAL F 5 REMARK 465 TYR F 6 REMARK 465 LYS F 7 REMARK 465 LYS F 8 REMARK 465 MET F 9 REMARK 465 PRO F 10 REMARK 465 SER F 11 REMARK 465 SER G 1 REMARK 465 ASN G 2 REMARK 465 ARG G 3 REMARK 465 ARG G 4 REMARK 465 VAL G 5 REMARK 465 TYR G 6 REMARK 465 LYS G 7 REMARK 465 LYS G 8 REMARK 465 MET G 9 REMARK 465 PRO G 10 REMARK 465 SER G 11 REMARK 465 SER H 1 REMARK 465 ASN H 2 REMARK 465 ARG H 3 REMARK 465 ARG H 4 REMARK 465 VAL H 5 REMARK 465 TYR H 6 REMARK 465 LYS H 7 REMARK 465 LYS H 8 REMARK 465 MET H 9 REMARK 465 PRO H 10 REMARK 465 SER H 11 REMARK 470 REMARK 470 MISSING ATOM REMARK 470 THE FOLLOWING RESIDUES HAVE MISSING ATOMS (M=MODEL NUMBER; REMARK 470 RES=RESIDUE NAME; C=CHAIN IDENTIFIER; SSEQ=SEQUENCE NUMBER; REMARK 470 I=INSERTION CODE): REMARK 470 M RES CSSEQI ATOMS REMARK 470 MET A 598 CG SD CE REMARK 470 HIS B 512 CG ND1 CD2 CE1 NE2 REMARK 470 LYS C 539 CG CD CE NZ REMARK 470 LYS D 539 CG CD CE NZ 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 ALA B 588 74.54 -66.90 REMARK 500 ARG C 546 137.97 -170.47 REMARK 500 LYS D 539 9.34 58.01 REMARK 500 REMARK 500 REMARK: NULL REMARK 900 REMARK 900 RELATED ENTRIES REMARK 900 RELATED ID: 2VPH RELATED DB: PDB REMARK 900 CRYSTAL STRUCTURE OF PTPN4-PDZ REMARK 900 RELATED ID: 2CS5 RELATED DB: PDB REMARK 900 SOLUTION STRUCTURE OF PTPN4-PDZ REMARK 900 RELATED ID: 3NFK RELATED DB: PDB DBREF 3NFL A 499 604 UNP P29074 PTN4_HUMAN 499 604 DBREF 3NFL B 499 604 UNP P29074 PTN4_HUMAN 499 604 DBREF 3NFL C 499 604 UNP P29074 PTN4_HUMAN 499 604 DBREF 3NFL D 499 604 UNP P29074 PTN4_HUMAN 499 604 DBREF 3NFL E 1 16 UNP Q12879 NMDE1_HUMAN 1449 1464 DBREF 3NFL F 1 16 UNP Q12879 NMDE1_HUMAN 1449 1464 DBREF 3NFL G 1 16 UNP Q12879 NMDE1_HUMAN 1449 1464 DBREF 3NFL H 1 16 UNP Q12879 NMDE1_HUMAN 1449 1464 SEQADV 3NFL GLY A 498 UNP P29074 EXPRESSION TAG SEQADV 3NFL GLY B 498 UNP P29074 EXPRESSION TAG SEQADV 3NFL GLY C 498 UNP P29074 EXPRESSION TAG SEQADV 3NFL GLY D 498 UNP P29074 EXPRESSION TAG SEQRES 1 A 107 GLY SER SER PRO GLU LYS PRO THR PRO ASN GLY GLY ILE SEQRES 2 A 107 PRO HIS ASP ASN LEU VAL LEU ILE ARG MET LYS PRO ASP SEQRES 3 A 107 GLU ASN GLY ARG PHE GLY PHE ASN VAL LYS GLY GLY TYR SEQRES 4 A 107 ASP GLN LYS MET PRO VAL ILE VAL SER ARG VAL ALA PRO SEQRES 5 A 107 GLY THR PRO ALA ASP LEU CYS VAL PRO ARG LEU ASN GLU SEQRES 6 A 107 GLY ASP GLN VAL VAL LEU ILE ASN GLY ARG ASP ILE ALA SEQRES 7 A 107 GLU HIS THR HIS ASP GLN VAL VAL LEU PHE ILE LYS ALA SEQRES 8 A 107 SER CYS GLU ARG HIS SER GLY GLU LEU MET LEU LEU VAL SEQRES 9 A 107 ARG PRO ASN SEQRES 1 B 107 GLY SER SER PRO GLU LYS PRO THR PRO ASN GLY GLY ILE SEQRES 2 B 107 PRO HIS ASP ASN LEU VAL LEU ILE ARG MET LYS PRO ASP SEQRES 3 B 107 GLU ASN GLY ARG PHE GLY PHE ASN VAL LYS GLY GLY TYR SEQRES 4 B 107 ASP GLN LYS MET PRO VAL ILE VAL SER ARG VAL ALA PRO SEQRES 5 B 107 GLY THR PRO ALA ASP LEU CYS VAL PRO ARG LEU ASN GLU SEQRES 6 B 107 GLY ASP GLN VAL VAL LEU ILE ASN GLY ARG ASP ILE ALA SEQRES 7 B 107 GLU HIS THR HIS ASP GLN VAL VAL LEU PHE ILE LYS ALA SEQRES 8 B 107 SER CYS GLU ARG HIS SER GLY GLU LEU MET LEU LEU VAL SEQRES 9 B 107 ARG PRO ASN SEQRES 1 C 107 GLY SER SER PRO GLU LYS PRO THR PRO ASN GLY GLY ILE SEQRES 2 C 107 PRO HIS ASP ASN LEU VAL LEU ILE ARG MET LYS PRO ASP SEQRES 3 C 107 GLU ASN GLY ARG PHE GLY PHE ASN VAL LYS GLY GLY TYR SEQRES 4 C 107 ASP GLN LYS MET PRO VAL ILE VAL SER ARG VAL ALA PRO SEQRES 5 C 107 GLY THR PRO ALA ASP LEU CYS VAL PRO ARG LEU ASN GLU SEQRES 6 C 107 GLY ASP GLN VAL VAL LEU ILE ASN GLY ARG ASP ILE ALA SEQRES 7 C 107 GLU HIS THR HIS ASP GLN VAL VAL LEU PHE ILE LYS ALA SEQRES 8 C 107 SER CYS GLU ARG HIS SER GLY GLU LEU MET LEU LEU VAL SEQRES 9 C 107 ARG PRO ASN SEQRES 1 D 107 GLY SER SER PRO GLU LYS PRO THR PRO ASN GLY GLY ILE SEQRES 2 D 107 PRO HIS ASP ASN LEU VAL LEU ILE ARG MET LYS PRO ASP SEQRES 3 D 107 GLU ASN GLY ARG PHE GLY PHE ASN VAL LYS GLY GLY TYR SEQRES 4 D 107 ASP GLN LYS MET PRO VAL ILE VAL SER ARG VAL ALA PRO SEQRES 5 D 107 GLY THR PRO ALA ASP LEU CYS VAL PRO ARG LEU ASN GLU SEQRES 6 D 107 GLY ASP GLN VAL VAL LEU ILE ASN GLY ARG ASP ILE ALA SEQRES 7 D 107 GLU HIS THR HIS ASP GLN VAL VAL LEU PHE ILE LYS ALA SEQRES 8 D 107 SER CYS GLU ARG HIS SER GLY GLU LEU MET LEU LEU VAL SEQRES 9 D 107 ARG PRO ASN SEQRES 1 E 16 SER ASN ARG ARG VAL TYR LYS LYS MET PRO SER ILE GLU SEQRES 2 E 16 SER ASP VAL SEQRES 1 F 16 SER ASN ARG ARG VAL TYR LYS LYS MET PRO SER ILE GLU SEQRES 2 F 16 SER ASP VAL SEQRES 1 G 16 SER ASN ARG ARG VAL TYR LYS LYS MET PRO SER ILE GLU SEQRES 2 G 16 SER ASP VAL SEQRES 1 H 16 SER ASN ARG ARG VAL TYR LYS LYS MET PRO SER ILE GLU SEQRES 2 H 16 SER ASP VAL FORMUL 9 HOH *167(H2 O) HELIX 1 1 TYR A 536 LYS A 539 5 4 HELIX 2 2 THR A 551 CYS A 556 1 6 HELIX 3 3 THR A 578 ALA A 588 1 11 HELIX 4 4 SER A 589 GLU A 596 5 8 HELIX 5 5 THR B 551 CYS B 556 1 6 HELIX 6 6 THR B 578 ALA B 588 1 11 HELIX 7 7 TYR C 536 LYS C 539 5 4 HELIX 8 8 THR C 551 CYS C 556 1 6 HELIX 9 9 THR C 578 ALA C 588 1 11 HELIX 10 10 TYR D 536 LYS D 539 5 4 HELIX 11 11 THR D 551 CYS D 556 1 6 HELIX 12 12 THR D 578 LYS D 587 1 10 SHEET 1 A 4 VAL A 516 MET A 520 0 SHEET 2 A 4 LEU A 597 ARG A 602 -1 O LEU A 599 N ILE A 518 SHEET 3 A 4 GLN A 565 ILE A 569 -1 N VAL A 567 O LEU A 600 SHEET 4 A 4 ARG A 572 ASP A 573 -1 O ARG A 572 N ILE A 569 SHEET 1 B 3 MET A 540 VAL A 547 0 SHEET 2 B 3 PHE A 530 GLY A 535 -1 N LYS A 533 O ILE A 543 SHEET 3 B 3 GLU E 13 VAL E 16 -1 O VAL E 16 N PHE A 530 SHEET 1 C 4 VAL B 516 MET B 520 0 SHEET 2 C 4 LEU B 597 ARG B 602 -1 O LEU B 597 N MET B 520 SHEET 3 C 4 GLN B 565 ILE B 569 -1 N VAL B 567 O LEU B 600 SHEET 4 C 4 ARG B 572 ASP B 573 -1 O ARG B 572 N ILE B 569 SHEET 1 D 3 MET B 540 VAL B 547 0 SHEET 2 D 3 PHE B 530 GLY B 535 -1 N LYS B 533 O ILE B 543 SHEET 3 D 3 GLU F 13 ASP F 15 -1 O SER F 14 N VAL B 532 SHEET 1 E 4 VAL C 516 MET C 520 0 SHEET 2 E 4 LEU C 597 ARG C 602 -1 O LEU C 597 N MET C 520 SHEET 3 E 4 GLN C 565 ILE C 569 -1 N VAL C 567 O LEU C 600 SHEET 4 E 4 ARG C 572 ASP C 573 -1 O ARG C 572 N ILE C 569 SHEET 1 F 3 MET C 540 VAL C 547 0 SHEET 2 F 3 PHE C 530 GLY C 535 -1 N GLY C 535 O MET C 540 SHEET 3 F 3 GLU G 13 VAL G 16 -1 O VAL G 16 N PHE C 530 SHEET 1 G 4 VAL D 516 MET D 520 0 SHEET 2 G 4 LEU D 597 ARG D 602 -1 O VAL D 601 N VAL D 516 SHEET 3 G 4 GLN D 565 ILE D 569 -1 N VAL D 567 O LEU D 600 SHEET 4 G 4 ARG D 572 ASP D 573 -1 O ARG D 572 N ILE D 569 SHEET 1 H 3 MET D 540 VAL D 547 0 SHEET 2 H 3 PHE D 530 GLY D 535 -1 N LYS D 533 O ILE D 543 SHEET 3 H 3 GLU H 13 ASP H 15 -1 O SER H 14 N VAL D 532 SSBOND 1 CYS A 590 CYS D 590 1555 1555 2.05 SSBOND 2 CYS B 590 CYS C 590 1555 1555 2.03 CISPEP 1 VAL A 557 PRO A 558 0 2.07 CISPEP 2 VAL B 557 PRO B 558 0 0.31 CISPEP 3 VAL C 557 PRO C 558 0 0.42 CISPEP 4 VAL D 557 PRO D 558 0 -5.04 CRYST1 51.582 51.679 190.902 90.00 90.00 90.00 P 21 21 21 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 0.019387 0.000000 0.000000 0.00000 SCALE2 0.000000 0.019350 0.000000 0.00000 SCALE3 0.000000 0.000000 0.005238 0.00000