HEADER HYDROLASE 21-JUN-07 2QDP TITLE CRYSTAL STRUCTURE OF THE HEPTP CATALYTIC DOMAIN C270S MUTANT TITLE 2 CRYSTALLIZED IN AMMONIUM ACETATE COMPND MOL_ID: 1; COMPND 2 MOLECULE: TYROSINE-PROTEIN PHOSPHATASE NON-RECEPTOR TYPE 7; COMPND 3 CHAIN: A; COMPND 4 FRAGMENT: CATALYTIC DOMAIN (RESIDUES 65-360); COMPND 5 SYNONYM: PROTEIN-TYROSINE PHOSPHATASE LC-PTP, HEMATOPOIETIC PROTEIN- COMPND 6 TYROSINE PHOSPHATASE, HEPTP; COMPND 7 EC: 3.1.3.48; COMPND 8 ENGINEERED: YES; COMPND 9 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: PTPN7; SOURCE 6 EXPRESSION_SYSTEM: ESCHERICHIA COLI; SOURCE 7 EXPRESSION_SYSTEM_TAXID: 562; SOURCE 8 EXPRESSION_SYSTEM_STRAIN: BL21 (DE3) RIL; SOURCE 9 EXPRESSION_SYSTEM_VECTOR_TYPE: PLASMID; SOURCE 10 EXPRESSION_SYSTEM_PLASMID: PBAD KEYWDS HEPTP, HUMAN HEMATOPOIETIC TYROSINE PHOSPHATASE CATALYTIC DOMAIN KEYWDS 2 MUTANT, LC-PTP, PTPN7, HYDROLASE EXPDTA X-RAY DIFFRACTION AUTHOR D.A.CRITTON,A.TORTAJADA,R.PAGE REVDAT 7 20-SEP-23 2QDP 1 REMARK REVDAT 6 25-JAN-23 2QDP 1 SEQADV REVDAT 5 20-OCT-21 2QDP 1 REMARK SEQADV REVDAT 4 18-OCT-17 2QDP 1 REMARK REVDAT 3 13-JUL-11 2QDP 1 VERSN REVDAT 2 24-FEB-09 2QDP 1 VERSN REVDAT 1 24-JUN-08 2QDP 0 JRNL AUTH D.A.CRITTON,A.TORTAJADA,G.STETSON,W.PETI,R.PAGE JRNL TITL STRUCTURAL BASIS OF SUBSTRATE RECOGNITION BY HEMATOPOIETIC JRNL TITL 2 TYROSINE PHOSPHATASE. JRNL REF TO BE PUBLISHED JRNL REFN REMARK 2 REMARK 2 RESOLUTION. 2.72 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) : 2.72 REMARK 3 RESOLUTION RANGE LOW (ANGSTROMS) : 20.00 REMARK 3 DATA CUTOFF (SIGMA(F)) : NULL REMARK 3 COMPLETENESS FOR RANGE (%) : 99.3 REMARK 3 NUMBER OF REFLECTIONS : 14314 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) : 0.161 REMARK 3 R VALUE (WORKING SET) : 0.157 REMARK 3 FREE R VALUE : 0.227 REMARK 3 FREE R VALUE TEST SET SIZE (%) : 5.000 REMARK 3 FREE R VALUE TEST SET COUNT : 752 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) : 2.72 REMARK 3 BIN RESOLUTION RANGE LOW (A) : 2.79 REMARK 3 REFLECTION IN BIN (WORKING SET) : 1026 REMARK 3 BIN COMPLETENESS (WORKING+TEST) (%) : 97.91 REMARK 3 BIN R VALUE (WORKING SET) : 0.2520 REMARK 3 BIN FREE R VALUE SET COUNT : 53 REMARK 3 BIN FREE R VALUE : 0.4840 REMARK 3 REMARK 3 NUMBER OF NON-HYDROGEN ATOMS USED IN REFINEMENT. REMARK 3 PROTEIN ATOMS : 2299 REMARK 3 NUCLEIC ACID ATOMS : 0 REMARK 3 HETEROGEN ATOMS : 5 REMARK 3 SOLVENT ATOMS : 132 REMARK 3 REMARK 3 B VALUES. REMARK 3 B VALUE TYPE : LIKELY RESIDUAL REMARK 3 FROM WILSON PLOT (A**2) : NULL REMARK 3 MEAN B VALUE (OVERALL, A**2) : 28.51 REMARK 3 OVERALL ANISOTROPIC B VALUE. REMARK 3 B11 (A**2) : -0.25000 REMARK 3 B22 (A**2) : -0.25000 REMARK 3 B33 (A**2) : 0.37000 REMARK 3 B12 (A**2) : -0.12000 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): 0.323 REMARK 3 ESU BASED ON FREE R VALUE (A): 0.261 REMARK 3 ESU BASED ON MAXIMUM LIKELIHOOD (A): 0.171 REMARK 3 ESU FOR B VALUES BASED ON MAXIMUM LIKELIHOOD (A**2): 16.093 REMARK 3 REMARK 3 CORRELATION COEFFICIENTS. REMARK 3 CORRELATION COEFFICIENT FO-FC : 0.960 REMARK 3 CORRELATION COEFFICIENT FO-FC FREE : 0.922 REMARK 3 REMARK 3 RMS DEVIATIONS FROM IDEAL VALUES COUNT RMS WEIGHT REMARK 3 BOND LENGTHS REFINED ATOMS (A): 2386 ; 0.020 ; 0.022 REMARK 3 BOND LENGTHS OTHERS (A): NULL ; NULL ; NULL REMARK 3 BOND ANGLES REFINED ATOMS (DEGREES): 3246 ; 2.000 ; 1.960 REMARK 3 BOND ANGLES OTHERS (DEGREES): NULL ; NULL ; NULL REMARK 3 TORSION ANGLES, PERIOD 1 (DEGREES): 291 ; 7.055 ; 5.000 REMARK 3 TORSION ANGLES, PERIOD 2 (DEGREES): 113 ;37.231 ;23.628 REMARK 3 TORSION ANGLES, PERIOD 3 (DEGREES): 396 ;17.817 ;15.000 REMARK 3 TORSION ANGLES, PERIOD 4 (DEGREES): 19 ;21.046 ;15.000 REMARK 3 CHIRAL-CENTER RESTRAINTS (A**3): 351 ; 0.123 ; 0.200 REMARK 3 GENERAL PLANES REFINED ATOMS (A): 1841 ; 0.007 ; 0.020 REMARK 3 GENERAL PLANES OTHERS (A): NULL ; NULL ; NULL REMARK 3 NON-BONDED CONTACTS REFINED ATOMS (A): 1109 ; 0.239 ; 0.200 REMARK 3 NON-BONDED CONTACTS OTHERS (A): NULL ; NULL ; NULL REMARK 3 NON-BONDED TORSION REFINED ATOMS (A): 1605 ; 0.329 ; 0.200 REMARK 3 NON-BONDED TORSION OTHERS (A): NULL ; NULL ; NULL REMARK 3 H-BOND (X...Y) REFINED ATOMS (A): 132 ; 0.167 ; 0.200 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): 21 ; 0.175 ; 0.200 REMARK 3 SYMMETRY VDW OTHERS (A): NULL ; NULL ; NULL REMARK 3 SYMMETRY H-BOND REFINED ATOMS (A): 9 ; 0.204 ; 0.200 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): 1501 ; 2.862 ; 3.000 REMARK 3 MAIN-CHAIN BOND OTHER ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 MAIN-CHAIN ANGLE REFINED ATOMS (A**2): 2373 ; 4.555 ; 5.000 REMARK 3 MAIN-CHAIN ANGLE OTHER ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 SIDE-CHAIN BOND REFINED ATOMS (A**2): 1005 ; 7.500 ; 8.000 REMARK 3 SIDE-CHAIN BOND OTHER ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 SIDE-CHAIN ANGLE REFINED ATOMS (A**2): 873 ;10.128 ;11.000 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 : 1 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 45 A 334 REMARK 3 ORIGIN FOR THE GROUP (A): 43.8000 44.3944 9.9146 REMARK 3 T TENSOR REMARK 3 T11: -0.0824 T22: -0.0632 REMARK 3 T33: -0.0760 T12: 0.0524 REMARK 3 T13: 0.0657 T23: 0.0347 REMARK 3 L TENSOR REMARK 3 L11: 2.2861 L22: 1.8606 REMARK 3 L33: 1.0709 L12: -0.5655 REMARK 3 L13: 0.8784 L23: 0.0385 REMARK 3 S TENSOR REMARK 3 S11: 0.1512 S12: 0.0869 S13: -0.0199 REMARK 3 S21: -0.0575 S22: -0.0366 S23: -0.0654 REMARK 3 S31: -0.0657 S32: -0.1271 S33: -0.1146 REMARK 3 REMARK 3 BULK SOLVENT MODELLING. REMARK 3 METHOD USED : 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: HYDROGENS HAVE BEEN ADDED IN THE RIDING REMARK 3 POSITIONS REMARK 4 REMARK 4 2QDP COMPLIES WITH FORMAT V. 3.30, 13-JUL-11 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY RCSB ON 22-JUN-07. REMARK 100 THE DEPOSITION ID IS D_1000043468. REMARK 200 REMARK 200 EXPERIMENTAL DETAILS REMARK 200 EXPERIMENT TYPE : X-RAY DIFFRACTION REMARK 200 DATE OF DATA COLLECTION : 08-SEP-06 REMARK 200 TEMPERATURE (KELVIN) : 100 REMARK 200 PH : 5.5 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) : 0.9795 REMARK 200 MONOCHROMATOR : SI(111) CHANNEL CUT REMARK 200 MONOCHROMATOR REMARK 200 OPTICS : SI(111) CHANNEL CUT REMARK 200 MONOCHROMATOR, OXFORD DANFYSIK REMARK 200 TOROIDAL FOCUSING MIRROR REMARK 200 REMARK 200 DETECTOR TYPE : CCD REMARK 200 DETECTOR MANUFACTURER : ADSC QUANTUM 4 REMARK 200 INTENSITY-INTEGRATION SOFTWARE : DENZO, HKL-2000 REMARK 200 DATA SCALING SOFTWARE : SCALEPACK, HKL-2000 REMARK 200 REMARK 200 NUMBER OF UNIQUE REFLECTIONS : 14980 REMARK 200 RESOLUTION RANGE HIGH (A) : 2.720 REMARK 200 RESOLUTION RANGE LOW (A) : 50.000 REMARK 200 REJECTION CRITERIA (SIGMA(I)) : 1.000 REMARK 200 REMARK 200 OVERALL. REMARK 200 COMPLETENESS FOR RANGE (%) : 99.2 REMARK 200 DATA REDUNDANCY : 4.200 REMARK 200 R MERGE (I) : 0.12200 REMARK 200 R SYM (I) : NULL REMARK 200 FOR THE DATA SET : 6.6000 REMARK 200 REMARK 200 IN THE HIGHEST RESOLUTION SHELL. REMARK 200 HIGHEST RESOLUTION SHELL, RANGE HIGH (A) : 2.72 REMARK 200 HIGHEST RESOLUTION SHELL, RANGE LOW (A) : 2.82 REMARK 200 COMPLETENESS FOR SHELL (%) : 98.4 REMARK 200 DATA REDUNDANCY IN SHELL : 4.10 REMARK 200 R MERGE FOR SHELL (I) : 0.60100 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: PDB ENTRY 1ZC0 REMARK 200 REMARK 200 REMARK: NULL REMARK 280 REMARK 280 CRYSTAL REMARK 280 SOLVENT CONTENT, VS (%): 70.60 REMARK 280 MATTHEWS COEFFICIENT, VM (ANGSTROMS**3/DA): 4.18 REMARK 280 REMARK 280 CRYSTALLIZATION CONDITIONS: 0.07 M AMMONIUM ACETATE, 0.07 M BIS REMARK 280 -TRIS, 12% POLYETHYLENE GLYCOL 10000, PH 5.5, VAPOR DIFFUSION, REMARK 280 SITTING DROP, TEMPERATURE 277K REMARK 290 REMARK 290 CRYSTALLOGRAPHIC SYMMETRY REMARK 290 SYMMETRY OPERATORS FOR SPACE GROUP: P 61 REMARK 290 REMARK 290 SYMOP SYMMETRY REMARK 290 NNNMMM OPERATOR REMARK 290 1555 X,Y,Z REMARK 290 2555 -Y,X-Y,Z+1/3 REMARK 290 3555 -X+Y,-X,Z+2/3 REMARK 290 4555 -X,-Y,Z+1/2 REMARK 290 5555 Y,-X+Y,Z+5/6 REMARK 290 6555 X-Y,X,Z+1/6 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 -0.500000 -0.866025 0.000000 0.00000 REMARK 290 SMTRY2 2 0.866025 -0.500000 0.000000 0.00000 REMARK 290 SMTRY3 2 0.000000 0.000000 1.000000 20.17933 REMARK 290 SMTRY1 3 -0.500000 0.866025 0.000000 0.00000 REMARK 290 SMTRY2 3 -0.866025 -0.500000 0.000000 0.00000 REMARK 290 SMTRY3 3 0.000000 0.000000 1.000000 40.35867 REMARK 290 SMTRY1 4 -1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY2 4 0.000000 -1.000000 0.000000 0.00000 REMARK 290 SMTRY3 4 0.000000 0.000000 1.000000 30.26900 REMARK 290 SMTRY1 5 0.500000 0.866025 0.000000 0.00000 REMARK 290 SMTRY2 5 -0.866025 0.500000 0.000000 0.00000 REMARK 290 SMTRY3 5 0.000000 0.000000 1.000000 50.44833 REMARK 290 SMTRY1 6 0.500000 -0.866025 0.000000 0.00000 REMARK 290 SMTRY2 6 0.866025 0.500000 0.000000 0.00000 REMARK 290 SMTRY3 6 0.000000 0.000000 1.000000 10.08967 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 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 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 MET A -12 REMARK 465 GLY A -11 REMARK 465 SER A -10 REMARK 465 ASP A -9 REMARK 465 LYS A -8 REMARK 465 ILE A -7 REMARK 465 HIS A -6 REMARK 465 HIS A -5 REMARK 465 HIS A -4 REMARK 465 HIS A -3 REMARK 465 HIS A -2 REMARK 465 HIS A -1 REMARK 465 MET A 0 REMARK 465 GLU A 336 REMARK 465 PRO A 337 REMARK 465 SER A 338 REMARK 465 PRO A 339 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 GLU A 48 CD OE1 OE2 REMARK 470 GLU A 91 CD OE1 OE2 REMARK 470 LYS A 105 CG CD CE NZ REMARK 470 GLN A 123 CG CD OE1 NE2 REMARK 470 ASP A 125 CG OD1 OD2 REMARK 470 GLU A 160 CG CD OE1 OE2 REMARK 470 LEU A 176 CD1 CD2 REMARK 470 LYS A 180 CD CE NZ REMARK 470 GLU A 190 CG CD OE1 OE2 REMARK 470 GLN A 202 CD OE1 NE2 REMARK 470 GLU A 241 CG CD OE1 OE2 REMARK 470 THR A 259 OG1 CG2 REMARK 470 HIS A 262 CG ND1 CD2 CE1 NE2 REMARK 500 REMARK 500 GEOMETRY AND STEREOCHEMISTRY REMARK 500 SUBTOPIC: COVALENT BOND LENGTHS 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,2(A3,1X,A1,I4,A1,1X,A4,3X),1X,F6.3) 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 RES CSSEQI ATM2 DEVIATION REMARK 500 GLN A 112 CG GLN A 112 CD 0.167 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 THR A 45 N - CA - C ANGL. DEV. = -18.1 DEGREES REMARK 500 ARG A 284 NE - CZ - NH1 ANGL. DEV. = 3.8 DEGREES REMARK 500 ARG A 284 NE - CZ - NH2 ANGL. DEV. = -3.1 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 THR A 45 119.51 -167.52 REMARK 500 PRO A 46 -50.04 -22.16 REMARK 500 HIS A 59 76.39 -159.42 REMARK 500 GLN A 69 56.48 -162.37 REMARK 500 ASP A 203 138.26 -170.64 REMARK 500 GLN A 220 -119.89 53.64 REMARK 500 SER A 232 -159.40 -98.79 REMARK 500 GLU A 258 78.36 -100.37 REMARK 500 HIS A 262 73.30 -111.59 REMARK 500 ILE A 274 -30.24 -141.95 REMARK 500 ILE A 313 108.88 73.96 REMARK 500 PRO A 334 151.77 -46.72 REMARK 500 REMARK 500 REMARK: NULL REMARK 500 REMARK 500 GEOMETRY AND STEREOCHEMISTRY REMARK 500 SUBTOPIC: NON-CIS, NON-TRANS REMARK 500 REMARK 500 THE FOLLOWING PEPTIDE BONDS DEVIATE SIGNIFICANTLY FROM BOTH REMARK 500 CIS AND TRANS CONFORMATION. CIS BONDS, IF ANY, ARE LISTED REMARK 500 ON CISPEP RECORDS. TRANS IS DEFINED AS 180 +/- 30 AND REMARK 500 CIS IS DEFINED AS 0 +/- 30 DEGREES. REMARK 500 MODEL OMEGA REMARK 500 ASN A 44 THR A 45 -41.04 REMARK 500 REMARK 500 REMARK: NULL REMARK 800 REMARK 800 SITE REMARK 800 SITE_IDENTIFIER: AC1 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE PO4 A 436 REMARK 900 REMARK 900 RELATED ENTRIES REMARK 900 RELATED ID: 1ZC0 RELATED DB: PDB REMARK 900 RELATED ID: 2GP0 RELATED DB: PDB REMARK 900 RELATED ID: 2HVL RELATED DB: PDB REMARK 900 RELATED ID: 2QDC RELATED DB: PDB REMARK 900 RELATED ID: 2QDM RELATED DB: PDB DBREF 2QDP A 44 339 UNP P35236 PTN7_HUMAN 65 360 SEQADV 2QDP MET A -12 UNP P35236 EXPRESSION TAG SEQADV 2QDP GLY A -11 UNP P35236 EXPRESSION TAG SEQADV 2QDP SER A -10 UNP P35236 EXPRESSION TAG SEQADV 2QDP ASP A -9 UNP P35236 EXPRESSION TAG SEQADV 2QDP LYS A -8 UNP P35236 EXPRESSION TAG SEQADV 2QDP ILE A -7 UNP P35236 EXPRESSION TAG SEQADV 2QDP HIS A -6 UNP P35236 EXPRESSION TAG SEQADV 2QDP HIS A -5 UNP P35236 EXPRESSION TAG SEQADV 2QDP HIS A -4 UNP P35236 EXPRESSION TAG SEQADV 2QDP HIS A -3 UNP P35236 EXPRESSION TAG SEQADV 2QDP HIS A -2 UNP P35236 EXPRESSION TAG SEQADV 2QDP HIS A -1 UNP P35236 EXPRESSION TAG SEQADV 2QDP MET A 0 UNP P35236 EXPRESSION TAG SEQADV 2QDP SER A 270 UNP P35236 CYS 291 ENGINEERED MUTATION SEQRES 1 A 309 MET GLY SER ASP LYS ILE HIS HIS HIS HIS HIS HIS MET SEQRES 2 A 309 ASN THR PRO ARG GLU VAL THR LEU HIS PHE LEU ARG THR SEQRES 3 A 309 ALA GLY HIS PRO LEU THR ARG TRP ALA LEU GLN ARG GLN SEQRES 4 A 309 PRO PRO SER PRO LYS GLN LEU GLU GLU GLU PHE LEU LYS SEQRES 5 A 309 ILE PRO SER ASN PHE VAL SER PRO GLU ASP LEU ASP ILE SEQRES 6 A 309 PRO GLY HIS ALA SER LYS ASP ARG TYR LYS THR ILE LEU SEQRES 7 A 309 PRO ASN PRO GLN SER ARG VAL CYS LEU GLY ARG ALA GLN SEQRES 8 A 309 SER GLN GLU ASP GLY ASP TYR ILE ASN ALA ASN TYR ILE SEQRES 9 A 309 ARG GLY TYR ASP GLY LYS GLU LYS VAL TYR ILE ALA THR SEQRES 10 A 309 GLN GLY PRO MET PRO ASN THR VAL SER ASP PHE TRP GLU SEQRES 11 A 309 MET VAL TRP GLN GLU GLU VAL SER LEU ILE VAL MET LEU SEQRES 12 A 309 THR GLN LEU ARG GLU GLY LYS GLU LYS CYS VAL HIS TYR SEQRES 13 A 309 TRP PRO THR GLU GLU GLU THR TYR GLY PRO PHE GLN ILE SEQRES 14 A 309 ARG ILE GLN ASP MET LYS GLU CYS PRO GLU TYR THR VAL SEQRES 15 A 309 ARG GLN LEU THR ILE GLN TYR GLN GLU GLU ARG ARG SER SEQRES 16 A 309 VAL LYS HIS ILE LEU PHE SER ALA TRP PRO ASP HIS GLN SEQRES 17 A 309 THR PRO GLU SER ALA GLY PRO LEU LEU ARG LEU VAL ALA SEQRES 18 A 309 GLU VAL GLU GLU SER PRO GLU THR ALA ALA HIS PRO GLY SEQRES 19 A 309 PRO ILE VAL VAL HIS SER SER ALA GLY ILE GLY ARG THR SEQRES 20 A 309 GLY CYS PHE ILE ALA THR ARG ILE GLY CYS GLN GLN LEU SEQRES 21 A 309 LYS ALA ARG GLY GLU VAL ASP ILE LEU GLY ILE VAL CYS SEQRES 22 A 309 GLN LEU ARG LEU ASP ARG GLY GLY MET ILE GLN THR ALA SEQRES 23 A 309 GLU GLN TYR GLN PHE LEU HIS HIS THR LEU ALA LEU TYR SEQRES 24 A 309 ALA GLY GLN LEU PRO GLU GLU PRO SER PRO HET PO4 A 436 5 HETNAM PO4 PHOSPHATE ION FORMUL 2 PO4 O4 P 3- FORMUL 3 HOH *132(H2 O) HELIX 1 1 THR A 45 ALA A 57 1 13 HELIX 2 2 ARG A 63 GLN A 69 1 7 HELIX 3 3 SER A 72 ILE A 83 1 12 HELIX 4 4 SER A 89 LEU A 93 5 5 HELIX 5 5 GLY A 97 ASP A 102 5 6 HELIX 6 6 ASN A 110 ARG A 114 5 5 HELIX 7 7 GLY A 136 LYS A 140 5 5 HELIX 8 8 MET A 151 ASN A 153 5 3 HELIX 9 9 THR A 154 GLU A 165 1 12 HELIX 10 10 SER A 242 GLU A 255 1 14 HELIX 11 11 GLY A 275 GLY A 294 1 20 HELIX 12 12 ILE A 298 ARG A 309 1 12 HELIX 13 13 THR A 315 GLN A 332 1 18 SHEET 1 A 2 PRO A 60 THR A 62 0 SHEET 2 A 2 GLU A 295 ASP A 297 -1 O VAL A 296 N LEU A 61 SHEET 1 B 8 ALA A 131 ILE A 134 0 SHEET 2 B 8 TYR A 144 GLN A 148 -1 O TYR A 144 N ILE A 134 SHEET 3 B 8 ILE A 266 SER A 270 1 O VAL A 268 N ILE A 145 SHEET 4 B 8 LEU A 169 LEU A 173 1 N VAL A 171 O VAL A 267 SHEET 5 B 8 GLU A 222 PHE A 231 1 O ILE A 229 N MET A 172 SHEET 6 B 8 THR A 211 TYR A 219 -1 N ARG A 213 O HIS A 228 SHEET 7 B 8 PHE A 197 GLU A 206 -1 N GLN A 202 O GLN A 214 SHEET 8 B 8 GLU A 191 TYR A 194 -1 N GLU A 192 O ILE A 199 CISPEP 1 PRO A 334 GLU A 335 0 20.26 SITE 1 AC1 11 SER A 270 SER A 271 ALA A 272 GLY A 273 SITE 2 AC1 11 ILE A 274 GLY A 275 ARG A 276 GLN A 314 SITE 3 AC1 11 GLU A 335 HOH A 466 HOH A 512 CRYST1 127.131 127.131 60.538 90.00 90.00 120.00 P 61 6 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 0.007866 0.004541 0.000000 0.00000 SCALE2 0.000000 0.009083 0.000000 0.00000 SCALE3 0.000000 0.000000 0.016519 0.00000