10 20 30 40 50 60 70 80 1X5Z - Header ----|----|----|----|----|----|----|----|----|----|----|----|----|----|----|----| Asymmetric UnitHEADER HYDROLASE 17-MAY-05 1X5Z
TITLE SOLUTION STRUCTURE OF THE FIBRONECTIN TYPE-III DOMAIN OF TITLE 2 HUMAN PROTEIN TYROSINE PHOSPHATASE, RECEPTOR TYPE, D TITLE 3 ISOFORM 4 VARIANT
COMPND MOL_ID: 1; COMPND 2 MOLECULE: RECEPTOR-TYPE TYROSINE-PROTEIN PHOSPHATASE DELTA; COMPND 3 CHAIN: A; COMPND 4 FRAGMENT: FIBRONECTIN TYPE-III DOMAIN; COMPND 5 SYNONYM: PROTEIN-TYROSINE PHOSPHATASE DELTA, R-PTP-DELTA, COMPND 6 PROTEIN TYROSINE PHOSPHATASE, RECEPTOR TYPE, D ISOFORM 4; COMPND 7 EC: 3.1.3.48; COMPND 8 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: PTPRD; SOURCE 6 EXPRESSION_SYSTEM_VECTOR_TYPE: PLASMID; SOURCE 7 EXPRESSION_SYSTEM_PLASMID: P050131-05; SOURCE 8 OTHER_DETAILS: CELL-FREE PROTEIN SYNTHESIS
KEYWDS FIBRONECTIN TYPE III DOMAIN CONTAINING PROTEIN, STRUCTURAL KEYWDS 2 GENOMICS, NPPSFA, NATIONAL PROJECT ON PROTEIN STRUCTURAL KEYWDS 3 AND FUNCTIONAL ANALYSES, RIKEN STRUCTURAL KEYWDS 4 GENOMICS/PROTEOMICS INITIATIVE, RSGI, HYDROLASE
EXPDTA SOLUTION NMR
NUMMDL 20
AUTHOR M.YONEYAMA,K.SAITO,N.TOCHIO,S.KOSHIBA,M.INOUE,T.KIGAWA, AUTHOR 2 S.YOKOYAMA,RIKEN STRUCTURAL GENOMICS/PROTEOMICS INITIATIVE AUTHOR 3 (RSGI)
REVDAT 3 24-FEB-09 1X5Z 1 VERSN REVDAT 2 17-JAN-06 1X5Z 1 JRNL TITLE REVDAT 1 17-NOV-05 1X5Z 0
JRNL AUTH M.YONEYAMA,K.SAITO,N.TOCHIO,S.KOSHIBA,M.INOUE, JRNL AUTH 2 T.KIGAWA,S.YOKOYAMA JRNL TITL SOLUTION STRUCTURE OF THE FIBRONECTIN TYPE-III JRNL TITL 2 DOMAIN OF HUMAN PROTEIN TYROSINE PHOSPHATASE, JRNL TITL 3 RECEPTOR TYPE, D ISOFORM 4 VARIANT JRNL REF TO BE PUBLISHED JRNL REFN
REMARK 1
REMARK 2 REMARK 2 RESOLUTION. NOT APPLICABLE.
REMARK 3 REMARK 3 REFINEMENT. REMARK 3 PROGRAM : CYANA 2.0.17 REMARK 3 AUTHORS : GUNTERT, P. REMARK 3 REMARK 3 OTHER REFINEMENT REMARKS: NULL
REMARK 4 REMARK 4 1X5Z COMPLIES WITH FORMAT V. 3.15, 01-DEC-08
REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY PDBJ ON 20-MAY-05. REMARK 100 THE RCSB ID CODE IS RCSB024421.
REMARK 210 REMARK 210 EXPERIMENTAL DETAILS REMARK 210 EXPERIMENT TYPE : NMR REMARK 210 TEMPERATURE (KELVIN) : 298 REMARK 210 PH : 7.0 REMARK 210 IONIC STRENGTH : 120 REMARK 210 PRESSURE : AMBIENT REMARK 210 SAMPLE CONTENTS : 1.37MM FN3 DOMAIN U-15N, 13C; REMARK 210 20MM D-TRIS-HCL (PH7.0); 100MM REMARK 210 NACL; 1MM D-DTT; 0.02% NAN3; REMARK 210 10% D2O REMARK 210 REMARK 210 NMR EXPERIMENTS CONDUCTED : 3D_15N-SEPARATED_NOESY, 3D_ REMARK 210 13C-SEPARATED_NOESY REMARK 210 SPECTROMETER FIELD STRENGTH : 800 MHZ REMARK 210 SPECTROMETER MODEL : AVANCE REMARK 210 SPECTROMETER MANUFACTURER : BRUKER REMARK 210 REMARK 210 STRUCTURE DETERMINATION. REMARK 210 SOFTWARE USED : XWINNMR 2.6, NMRPIPE REMARK 210 20020425, NMRVIEW 5.0.4, REMARK 210 KUJIRA 0.9295, CYANA 2.0.17 REMARK 210 METHOD USED : TORSION ANGLE DYNAMICS REMARK 210 REMARK 210 CONFORMERS, NUMBER CALCULATED : 100 REMARK 210 CONFORMERS, NUMBER SUBMITTED : 20 REMARK 210 CONFORMERS, SELECTION CRITERIA : TARGET FUNCTION,STRUCTURES REMARK 210 WITH THE LOWEST ENERGY, REMARK 210 STRUCTURES WITH THE LEAST REMARK 210 RESTRAINT VIOLATIONS REMARK 210 REMARK 210 BEST REPRESENTATIVE CONFORMER IN THIS ENSEMBLE : 1 REMARK 210 REMARK 210 REMARK: NULL
REMARK 215 REMARK 215 NMR STUDY REMARK 215 THE COORDINATES IN THIS ENTRY WERE GENERATED FROM SOLUTION REMARK 215 NMR DATA. PROTEIN DATA BANK CONVENTIONS REQUIRE THAT REMARK 215 CRYST1 AND SCALE RECORDS BE INCLUDED, BUT THE VALUES ON REMARK 215 THESE RECORDS ARE MEANINGLESS.
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 1 SER A 2 -54.78 -129.77 REMARK 500 1 GLN A 20 144.46 -37.51 REMARK 500 1 PRO A 28 92.19 -69.76 REMARK 500 1 PRO A 41 -177.46 -69.82 REMARK 500 1 SER A 43 108.13 -46.49 REMARK 500 1 ASP A 55 103.08 -56.11 REMARK 500 1 HIS A 58 31.62 -91.88 REMARK 500 1 PRO A 68 82.03 -69.73 REMARK 500 1 ASN A 80 51.80 37.25 REMARK 500 1 ALA A 88 108.22 -162.83 REMARK 500 1 PRO A 112 86.48 -69.79 REMARK 500 2 GLN A 10 94.68 -67.65 REMARK 500 2 GLN A 20 145.80 -38.96 REMARK 500 2 PRO A 28 93.13 -69.77 REMARK 500 2 SER A 43 104.79 -49.37 REMARK 500 2 HIS A 58 34.00 -89.65 REMARK 500 2 PRO A 68 83.16 -69.75 REMARK 500 2 ALA A 100 154.53 -42.50 REMARK 500 3 VAL A 17 146.68 -39.23 REMARK 500 3 PRO A 28 96.96 -69.77 REMARK 500 3 PRO A 41 -176.71 -69.85 REMARK 500 3 ASN A 48 -175.75 -176.24 REMARK 500 3 PRO A 68 79.89 -69.74 REMARK 500 3 THR A 70 -34.30 -131.93 REMARK 500 3 PRO A 92 2.02 -69.78 REMARK 500 4 ASP A 8 79.24 -69.93 REMARK 500 4 GLN A 10 41.08 -104.07 REMARK 500 4 THR A 13 31.25 -83.97 REMARK 500 4 GLN A 20 148.29 -34.56 REMARK 500 4 PRO A 41 -165.16 -69.73 REMARK 500 4 SER A 43 102.01 -45.76 REMARK 500 4 ASN A 48 -175.03 -176.60 REMARK 500 4 ASP A 55 100.38 -55.47 REMARK 500 4 PRO A 68 80.48 -69.79 REMARK 500 4 ALA A 88 105.54 -164.68 REMARK 500 4 THR A 106 176.25 -59.60 REMARK 500 4 GLN A 108 86.00 -52.19 REMARK 500 5 THR A 15 126.43 -39.10 REMARK 500 5 GLN A 20 144.05 -35.32 REMARK 500 5 PRO A 28 93.08 -69.69 REMARK 500 5 SER A 43 103.23 -48.77 REMARK 500 5 HIS A 58 30.82 -86.54 REMARK 500 5 PRO A 68 82.29 -69.71 REMARK 500 5 ALA A 88 105.36 -165.85 REMARK 500 5 PRO A 92 2.17 -69.81 REMARK 500 6 SER A 6 113.82 -174.87 REMARK 500 6 GLN A 20 146.13 -34.51 REMARK 500 6 PRO A 21 -176.79 -69.80 REMARK 500 6 SER A 43 103.40 -43.76 REMARK 500 6 PRO A 68 80.27 -69.70 REMARK 500 6 PRO A 92 2.73 -69.69 REMARK 500 6 SER A 109 145.48 -35.11 REMARK 500 7 GLN A 10 119.50 -164.11 REMARK 500 7 GLN A 20 148.81 -39.76 REMARK 500 7 SER A 43 98.35 -45.51 REMARK 500 7 ASP A 55 105.24 -54.45 REMARK 500 7 PRO A 68 81.52 -69.76 REMARK 500 8 SER A 3 80.10 -68.29 REMARK 500 8 PRO A 28 97.34 -69.75 REMARK 500 8 PRO A 41 -178.02 -69.76 REMARK 500 8 SER A 43 96.04 -58.44 REMARK 500 8 THR A 45 98.61 -68.66 REMARK 500 8 PRO A 68 82.07 -69.72 REMARK 500 8 ALA A 88 106.62 -163.75 REMARK 500 8 PRO A 92 2.51 -69.78 REMARK 500 8 THR A 99 175.67 -52.64 REMARK 500 8 GLN A 108 39.00 -85.80 REMARK 500 8 PRO A 112 2.66 -69.76 REMARK 500 9 ILE A 12 -71.92 -75.33 REMARK 500 9 SER A 43 97.84 -45.32 REMARK 500 9 THR A 45 97.13 -68.92 REMARK 500 9 PRO A 68 80.05 -69.80 REMARK 500 9 ALA A 88 107.41 -161.90 REMARK 500 9 SER A 109 107.98 -51.86 REMARK 500 10 ASN A 48 -179.81 -173.77 REMARK 500 10 PRO A 68 80.30 -69.71 REMARK 500 10 ASN A 80 52.96 37.87 REMARK 500 10 ALA A 88 107.11 -164.35 REMARK 500 10 PRO A 92 2.75 -69.71 REMARK 500 10 SER A 109 97.52 -49.17 REMARK 500 11 SER A 2 43.04 -90.56 REMARK 500 11 SER A 5 -44.84 -130.28 REMARK 500 11 VAL A 11 -74.87 -88.20 REMARK 500 11 ILE A 12 95.06 -59.96 REMARK 500 11 ASN A 23 39.20 38.26 REMARK 500 11 PRO A 28 92.16 -69.76 REMARK 500 11 PRO A 41 -175.64 -69.79 REMARK 500 11 ASN A 48 -177.41 -174.64 REMARK 500 11 HIS A 58 34.05 -89.64 REMARK 500 11 PRO A 68 80.86 -69.83 REMARK 500 11 ASN A 80 48.01 37.90 REMARK 500 11 ALA A 88 105.51 -165.45 REMARK 500 12 SER A 2 170.33 -48.42 REMARK 500 12 GLN A 20 148.47 -34.71 REMARK 500 12 PRO A 28 93.26 -69.71 REMARK 500 12 HIS A 58 32.38 -91.74 REMARK 500 12 PRO A 68 80.23 -69.76 REMARK 500 12 PRO A 92 1.14 -69.80 REMARK 500 12 SER A 109 42.51 -83.30 REMARK 500 13 ILE A 12 145.97 -39.31 REMARK 500 13 GLN A 14 112.06 -170.41 REMARK 500 13 SER A 43 100.47 -53.10 REMARK 500 13 THR A 45 97.34 -69.68 REMARK 500 13 HIS A 58 33.65 -84.56 REMARK 500 13 PRO A 68 80.01 -69.78 REMARK 500 13 ALA A 88 105.47 -160.99 REMARK 500 13 PRO A 92 0.94 -69.72 REMARK 500 13 GLN A 108 107.13 -55.05 REMARK 500 14 GLN A 10 116.63 -172.54 REMARK 500 14 GLN A 20 142.82 -39.66 REMARK 500 14 PRO A 28 99.35 -69.80 REMARK 500 14 PRO A 41 -172.60 -69.75 REMARK 500 14 SER A 43 100.41 -40.18 REMARK 500 14 PRO A 68 81.81 -69.77 REMARK 500 14 THR A 99 171.05 -59.50 REMARK 500 15 GLN A 20 142.84 -38.39 REMARK 500 15 SER A 43 104.96 -48.20 REMARK 500 15 HIS A 58 33.41 -88.30 REMARK 500 15 PRO A 68 80.66 -69.68 REMARK 500 15 THR A 70 -37.09 -133.85 REMARK 500 15 ALA A 89 139.62 -33.92 REMARK 500 15 PRO A 92 0.99 -69.75 REMARK 500 16 ASP A 8 44.78 -109.93 REMARK 500 16 GLN A 20 148.50 -35.25 REMARK 500 16 ASN A 23 50.96 38.32 REMARK 500 16 PRO A 28 97.21 -69.72 REMARK 500 16 PRO A 41 -168.40 -69.78 REMARK 500 16 SER A 43 96.05 -59.22 REMARK 500 16 THR A 45 96.49 -69.27 REMARK 500 16 PRO A 68 80.09 -69.79 REMARK 500 16 ASN A 80 51.88 36.76 REMARK 500 16 ALA A 88 106.46 -160.34 REMARK 500 16 GLU A 101 105.20 -59.58 REMARK 500 16 SER A 110 144.50 -170.86 REMARK 500 17 ILE A 12 41.89 -88.51 REMARK 500 17 PRO A 28 99.23 -69.78 REMARK 500 17 SER A 43 106.02 -37.61 REMARK 500 17 ASP A 55 103.02 -53.86 REMARK 500 17 HIS A 58 33.44 -91.73 REMARK 500 17 PRO A 68 80.29 -69.69 REMARK 500 17 ALA A 88 106.38 -163.21 REMARK 500 17 THR A 99 -176.70 -59.71 REMARK 500 18 ILE A 9 48.77 32.81 REMARK 500 18 GLN A 20 145.52 -39.97 REMARK 500 18 SER A 43 127.74 -38.19 REMARK 500 18 ASN A 48 -175.38 -176.41 REMARK 500 18 GLU A 61 95.10 -66.49 REMARK 500 18 PRO A 68 80.00 -69.72 REMARK 500 18 ASN A 80 52.80 34.96 REMARK 500 18 THR A 99 -176.85 -62.06 REMARK 500 18 THR A 106 171.74 -59.97 REMARK 500 19 SER A 6 173.70 -51.93 REMARK 500 19 THR A 15 -68.44 -99.88 REMARK 500 19 GLN A 20 143.07 -34.72 REMARK 500 19 PRO A 41 -179.80 -69.78 REMARK 500 19 SER A 43 109.02 -34.78 REMARK 500 19 HIS A 58 30.75 -92.35 REMARK 500 19 PRO A 68 80.63 -69.65 REMARK 500 19 ALA A 88 106.85 -164.22 REMARK 500 19 PRO A 92 2.54 -69.80 REMARK 500 20 GLN A 20 146.93 -38.10 REMARK 500 20 PRO A 21 -173.65 -69.71 REMARK 500 20 PRO A 28 94.39 -69.80 REMARK 500 20 SER A 43 94.97 -44.17 REMARK 500 20 PRO A 68 80.79 -69.73 REMARK 500 20 THR A 70 -31.75 -131.50 REMARK 500 20 ASN A 80 52.53 39.83 REMARK 500 REMARK 500 REMARK: NULL
REMARK 900 REMARK 900 RELATED ENTRIES REMARK 900 RELATED ID: HSO002001101.1 RELATED DB: TARGETDB
DBREF 1X5Z A 8 109 UNP P23468 PTPRD_HUMAN 506 607
SEQADV 1X5Z GLY A 1 UNP P23468 CLONING ARTIFACT SEQADV 1X5Z SER A 2 UNP P23468 CLONING ARTIFACT SEQADV 1X5Z SER A 3 UNP P23468 CLONING ARTIFACT SEQADV 1X5Z GLY A 4 UNP P23468 CLONING ARTIFACT SEQADV 1X5Z SER A 5 UNP P23468 CLONING ARTIFACT SEQADV 1X5Z SER A 6 UNP P23468 CLONING ARTIFACT SEQADV 1X5Z GLY A 7 UNP P23468 CLONING ARTIFACT SEQADV 1X5Z SER A 110 UNP P23468 CLONING ARTIFACT SEQADV 1X5Z GLY A 111 UNP P23468 CLONING ARTIFACT SEQADV 1X5Z PRO A 112 UNP P23468 CLONING ARTIFACT SEQADV 1X5Z SER A 113 UNP P23468 CLONING ARTIFACT SEQADV 1X5Z SER A 114 UNP P23468 CLONING ARTIFACT SEQADV 1X5Z GLY A 115 UNP P23468 CLONING ARTIFACT
SEQRES 1 A 115 GLY SER SER GLY SER SER GLY ASP ILE GLN VAL ILE THR SEQRES 2 A 115 GLN THR GLY VAL PRO GLY GLN PRO LEU ASN PHE LYS ALA SEQRES 3 A 115 GLU PRO GLU SER GLU THR SER ILE LEU LEU SER TRP THR SEQRES 4 A 115 PRO PRO ARG SER ASP THR ILE ALA ASN TYR GLU LEU VAL SEQRES 5 A 115 TYR LYS ASP GLY GLU HIS GLY GLU GLU GLN ARG ILE THR SEQRES 6 A 115 ILE GLU PRO GLY THR SER TYR ARG LEU GLN GLY LEU LYS SEQRES 7 A 115 PRO ASN SER LEU TYR TYR PHE ARG LEU ALA ALA ARG SER SEQRES 8 A 115 PRO GLN GLY LEU GLY ALA SER THR ALA GLU ILE SER ALA SEQRES 9 A 115 ARG THR MET GLN SER SER GLY PRO SER SER GLY
SHEET 1 A 3 LEU A 22 GLU A 27 0 SHEET 2 A 3 SER A 33 THR A 39 -1 O SER A 37 N LYS A 25 SHEET 3 A 3 SER A 71 GLN A 75 -1 O LEU A 74 N ILE A 34 SHEET 1 B 4 THR A 65 ILE A 66 0 SHEET 2 B 4 ASN A 48 LEU A 51 -1 N TYR A 49 O ILE A 66 SHEET 3 B 4 LEU A 87 ARG A 90 -1 O ARG A 90 N ASN A 48 SHEET 4 B 4 LEU A 95 SER A 98 -1 O GLY A 96 N ALA A 89 SHEET 1 C 3 LYS A 54 ASP A 55 0 SHEET 2 C 3 LEU A 82 PHE A 85 -1 O TYR A 84 N LYS A 54 SHEET 3 C 3 ILE A 102 ARG A 105 -1 O ILE A 102 N PHE A 85
CRYST1 1.000 1.000 1.000 90.00 90.00 90.00 P 1 1
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 1.000000 0.000000 0.000000 0.00000
SCALE2 0.000000 1.000000 0.000000 0.00000
SCALE3 0.000000 0.000000 1.000000 0.00000