1.000000 0.000000 0.000000 0.000000 1.000000 0.000000 0.000000 0.000000 1.000000 0.00000 0.00000 0.00000 Li, H. Tomizawa, T. Koshiba, S. Inoue, M. Kigawa, T. Yokoyama, S. RIKEN Structural Genomics/Proteomics Initiative (RSGI) http://mmcif.pdb.org/dictionaries/ascii/mmcif_pdbx.dic C3 H7 N O2 89.093 y ALANINE L-peptide linking C6 H15 N4 O2 1 175.209 y ARGININE L-peptide linking C4 H8 N2 O3 132.118 y ASPARAGINE L-peptide linking C4 H7 N O4 133.103 y ASPARTIC ACID L-peptide linking C3 H7 N O2 S 121.158 y CYSTEINE L-peptide linking C5 H10 N2 O3 146.144 y GLUTAMINE L-peptide linking C5 H9 N O4 147.129 y GLUTAMIC ACID L-peptide linking C2 H5 N O2 75.067 y GLYCINE peptide linking C6 H10 N3 O2 1 156.162 y HISTIDINE L-peptide linking C6 H13 N O2 131.173 y ISOLEUCINE L-peptide linking C6 H13 N O2 131.173 y LEUCINE L-peptide linking C6 H15 N2 O2 1 147.195 y LYSINE L-peptide linking C5 H11 N O2 S 149.211 y METHIONINE L-peptide linking C9 H11 N O2 165.189 y PHENYLALANINE L-peptide linking C5 H9 N O2 115.130 y PROLINE L-peptide linking C3 H7 N O3 105.093 y SERINE L-peptide linking C4 H9 N O3 119.119 y THREONINE L-peptide linking C11 H12 N2 O2 204.225 y TRYPTOPHAN L-peptide linking C9 H11 N O3 181.189 y TYROSINE L-peptide linking C5 H11 N O2 117.146 y VALINE L-peptide linking To be Published 0353 Solution structure of the PH domain of Pleckstrin homology domain-containing protein family B member 1 from mouse 10.2210/pdb2d9v/pdb pdb_00002d9v 1.000000 0.000000 0.000000 0.000000 1.000000 0.000000 0.000000 0.000000 1.000000 0.00000 0.00000 0.00000 14395.934 Pleckstrin homology domain-containing protein family B member 1 PH domain 1 man polymer Pleckstrin homology domain retinal protein 1, PH domain containing protein in retina 1, PHRET1 no no GSSGSSGLVRGGWLWRQSSILRRWKRNWFALWLDGTLGYYHDETAQDEEDRVVIHFNVRDIKVGQECQDVQPPEGRSRDG LLTVNLREGSRLHLCAETRDDAIAWKTALMEANSTPAPAGATVPSGPSSG GSSGSSGLVRGGWLWRQSSILRRWKRNWFALWLDGTLGYYHDETAQDEEDRVVIHFNVRDIKVGQECQDVQPPEGRSRDG LLTVNLREGSRLHLCAETRDDAIAWKTALMEANSTPAPAGATVPSGPSSG A mmi002018667.1 polypeptide(L) n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n house mouse Mus sample Cell-free protein synthesis Phr1 10090 Mus musculus PLASMID P050302-02 RIKEN Structural Genomics/Proteomics Initiative RSGI NPPSFA, National Project on Protein Structural and Functional Analyses database_2 pdbx_nmr_software pdbx_nmr_spectrometer pdbx_struct_assembly pdbx_struct_oper_list struct_ref_seq_dif repository Initial release Version format compliance Version format compliance Data collection Database references Derived calculations 1 0 2006-06-13 1 1 2008-04-30 1 2 2011-07-13 1 3 2022-03-09 _database_2.pdbx_DOI _database_2.pdbx_database_accession _pdbx_nmr_software.name _pdbx_nmr_spectrometer.model _struct_ref_seq_dif.details HELIX Determination Method: Author determined SHEET Determination Method: Author determined Y PDBJ Y PDBJ 2005-12-13 REL target function, structures with the least restraint violations 100 20 3D_15N-separated_NOESY 3D_13C-separated_NOESY 120mM 7.0 ambient 296 K torsion angle dynamics 1 lowest energy 1.12mM PH domain U-15N, 13C; 20mM d-Tris-HCl(pH 7.0); 100mM NaCl; 1mM d-DTT; 0.02% NaN3; 90% H2O,10% D2O 90% H2O/10% D2O Bruker collection XwinNMR 3.5 Delaglio, F. processing NMRPipe 20030801 Johnson, B.A. data analysis NMRView 5.0.4 Kobayashi, N. data analysis KUJIRA 0.932 Guntert, P. structure solution CYANA 2.0.17 Guntert, P. refinement CYANA 2.0.17 800 Bruker AVANCE GLY 1 n 1 GLY 1 A SER 2 n 2 SER 2 A SER 3 n 3 SER 3 A GLY 4 n 4 GLY 4 A SER 5 n 5 SER 5 A SER 6 n 6 SER 6 A GLY 7 n 7 GLY 7 A LEU 8 n 8 LEU 8 A VAL 9 n 9 VAL 9 A ARG 10 n 10 ARG 10 A GLY 11 n 11 GLY 11 A GLY 12 n 12 GLY 12 A TRP 13 n 13 TRP 13 A LEU 14 n 14 LEU 14 A TRP 15 n 15 TRP 15 A ARG 16 n 16 ARG 16 A GLN 17 n 17 GLN 17 A SER 18 n 18 SER 18 A SER 19 n 19 SER 19 A ILE 20 n 20 ILE 20 A LEU 21 n 21 LEU 21 A ARG 22 n 22 ARG 22 A ARG 23 n 23 ARG 23 A TRP 24 n 24 TRP 24 A LYS 25 n 25 LYS 25 A ARG 26 n 26 ARG 26 A ASN 27 n 27 ASN 27 A TRP 28 n 28 TRP 28 A PHE 29 n 29 PHE 29 A ALA 30 n 30 ALA 30 A LEU 31 n 31 LEU 31 A TRP 32 n 32 TRP 32 A LEU 33 n 33 LEU 33 A ASP 34 n 34 ASP 34 A GLY 35 n 35 GLY 35 A THR 36 n 36 THR 36 A LEU 37 n 37 LEU 37 A GLY 38 n 38 GLY 38 A TYR 39 n 39 TYR 39 A TYR 40 n 40 TYR 40 A HIS 41 n 41 HIS 41 A ASP 42 n 42 ASP 42 A GLU 43 n 43 GLU 43 A THR 44 n 44 THR 44 A ALA 45 n 45 ALA 45 A GLN 46 n 46 GLN 46 A ASP 47 n 47 ASP 47 A GLU 48 n 48 GLU 48 A GLU 49 n 49 GLU 49 A ASP 50 n 50 ASP 50 A ARG 51 n 51 ARG 51 A VAL 52 n 52 VAL 52 A VAL 53 n 53 VAL 53 A ILE 54 n 54 ILE 54 A HIS 55 n 55 HIS 55 A PHE 56 n 56 PHE 56 A ASN 57 n 57 ASN 57 A VAL 58 n 58 VAL 58 A ARG 59 n 59 ARG 59 A ASP 60 n 60 ASP 60 A ILE 61 n 61 ILE 61 A LYS 62 n 62 LYS 62 A VAL 63 n 63 VAL 63 A GLY 64 n 64 GLY 64 A GLN 65 n 65 GLN 65 A GLU 66 n 66 GLU 66 A CYS 67 n 67 CYS 67 A GLN 68 n 68 GLN 68 A ASP 69 n 69 ASP 69 A VAL 70 n 70 VAL 70 A GLN 71 n 71 GLN 71 A PRO 72 n 72 PRO 72 A PRO 73 n 73 PRO 73 A GLU 74 n 74 GLU 74 A GLY 75 n 75 GLY 75 A ARG 76 n 76 ARG 76 A SER 77 n 77 SER 77 A ARG 78 n 78 ARG 78 A ASP 79 n 79 ASP 79 A GLY 80 n 80 GLY 80 A LEU 81 n 81 LEU 81 A LEU 82 n 82 LEU 82 A THR 83 n 83 THR 83 A VAL 84 n 84 VAL 84 A ASN 85 n 85 ASN 85 A LEU 86 n 86 LEU 86 A ARG 87 n 87 ARG 87 A GLU 88 n 88 GLU 88 A GLY 89 n 89 GLY 89 A SER 90 n 90 SER 90 A ARG 91 n 91 ARG 91 A LEU 92 n 92 LEU 92 A HIS 93 n 93 HIS 93 A LEU 94 n 94 LEU 94 A CYS 95 n 95 CYS 95 A ALA 96 n 96 ALA 96 A GLU 97 n 97 GLU 97 A THR 98 n 98 THR 98 A ARG 99 n 99 ARG 99 A ASP 100 n 100 ASP 100 A ASP 101 n 101 ASP 101 A ALA 102 n 102 ALA 102 A ILE 103 n 103 ILE 103 A ALA 104 n 104 ALA 104 A TRP 105 n 105 TRP 105 A LYS 106 n 106 LYS 106 A THR 107 n 107 THR 107 A ALA 108 n 108 ALA 108 A LEU 109 n 109 LEU 109 A MET 110 n 110 MET 110 A GLU 111 n 111 GLU 111 A ALA 112 n 112 ALA 112 A ASN 113 n 113 ASN 113 A SER 114 n 114 SER 114 A THR 115 n 115 THR 115 A PRO 116 n 116 PRO 116 A ALA 117 n 117 ALA 117 A PRO 118 n 118 PRO 118 A ALA 119 n 119 ALA 119 A GLY 120 n 120 GLY 120 A ALA 121 n 121 ALA 121 A THR 122 n 122 THR 122 A VAL 123 n 123 VAL 123 A PRO 124 n 124 PRO 124 A SER 125 n 125 SER 125 A GLY 126 n 126 GLY 126 A PRO 127 n 127 PRO 127 A SER 128 n 128 SER 128 A SER 129 n 129 SER 129 A GLY 130 n 130 GLY 130 A author_defined_assembly 1 monomeric 1.0000000000 0.0000000000 0.0000000000 0.0000000000 1.0000000000 0.0000000000 0.0000000000 0.0000000000 1.0000000000 1_555 x,y,z identity operation 0.0000000000 0.0000000000 0.0000000000 A O VAL 52 A O VAL 52 A N LEU 37 A N LEU 37 A O THR 36 A O THR 36 A N TRP 32 A N TRP 32 A O ASN 27 A O ASN 27 A N LEU 14 A N LEU 14 A N TRP 15 A N TRP 15 A O CYS 95 A O CYS 95 A O LEU 92 A O LEU 92 A N VAL 84 A N VAL 84 A O ASN 85 A O ASN 85 A N ASP 60 A N ASP 60 1 A ASP 47 -117.93 79.13 1 A PHE 56 37.05 47.40 1 A CYS 67 -41.53 151.07 1 A GLN 68 -130.93 -41.47 1 A PRO 73 -69.78 -165.77 1 A ARG 76 -48.09 176.98 1 A LEU 81 -36.74 151.93 1 A PRO 118 -69.76 2.81 1 A ALA 119 -34.14 110.85 1 A PRO 124 -69.76 2.75 1 A SER 125 -34.61 131.84 1 A SER 128 -129.69 -55.05 2 A ARG 22 34.58 37.70 2 A ALA 45 -82.14 40.36 2 A ASP 47 -90.59 42.16 2 A GLU 48 -37.55 114.76 2 A PHE 56 36.82 42.74 2 A GLN 68 -120.19 -63.25 2 A PRO 73 -69.78 -172.94 2 A LEU 81 -37.82 142.51 2 A PRO 118 -69.71 2.78 2 A SER 128 -90.53 48.44 3 A SER 3 -122.79 -54.31 3 A SER 6 -170.77 106.39 3 A ARG 22 34.44 41.04 3 A THR 44 -67.16 98.81 3 A ALA 45 -82.40 44.67 3 A ASP 47 -87.85 43.72 3 A GLU 48 -35.81 102.83 3 A PHE 56 38.32 47.03 3 A GLU 66 -34.76 -33.74 3 A CYS 67 -45.41 167.11 3 A GLN 68 -132.66 -53.78 3 A GLU 74 -37.57 120.61 3 A ARG 76 -52.72 173.56 3 A SER 90 -174.64 139.22 3 A THR 115 -165.71 105.04 3 A PRO 116 -69.85 -177.98 4 A SER 6 -54.06 -176.93 4 A VAL 9 -91.29 -61.64 4 A GLU 43 -39.88 -27.12 4 A THR 44 -67.56 97.62 4 A ASP 47 -103.93 45.18 4 A GLU 48 -49.94 106.96 4 A PHE 56 35.00 47.98 4 A ARG 76 -64.86 -178.98 4 A LEU 81 -46.24 151.78 4 A LEU 82 -166.23 110.78 5 A VAL 9 -99.58 -60.75 5 A SER 18 -56.92 177.65 5 A ARG 22 40.04 25.62 5 A THR 44 -65.30 88.81 5 A ALA 45 -57.47 82.59 5 A ASP 47 -102.61 73.01 5 A PHE 56 37.51 41.05 5 A GLU 66 -39.76 -25.51 5 A CYS 67 -43.76 167.20 5 A ASP 69 38.41 37.19 5 A ARG 76 -55.98 174.16 5 A LEU 82 -161.71 110.39 5 A PRO 118 -69.75 87.15 5 A PRO 127 -69.72 90.89 6 A SER 3 39.00 43.58 6 A SER 18 -65.26 -177.53 6 A ASP 47 -117.82 74.24 6 A PHE 56 36.66 41.44 6 A CYS 67 -42.31 153.92 6 A ASP 69 35.07 37.62 6 A PRO 73 -69.75 -163.69 6 A LEU 81 -46.39 153.39 6 A LEU 82 -164.15 112.64 6 A THR 115 -166.16 111.48 6 A SER 125 -59.02 170.35 7 A SER 2 -172.08 126.47 7 A VAL 9 -97.57 -61.88 7 A SER 18 -50.98 175.83 7 A HIS 55 -43.17 108.76 7 A PHE 56 36.84 47.99 7 A ARG 76 -51.52 -174.95 7 A LEU 81 -39.04 146.52 7 A LEU 82 -162.67 110.97 7 A PRO 118 -69.77 0.61 7 A PRO 124 -69.79 -179.54 7 A SER 128 -58.34 171.05 8 A THR 44 -65.74 93.79 8 A ALA 45 -56.98 95.99 8 A GLU 48 -58.38 93.40 8 A PHE 56 35.69 43.33 8 A ARG 76 -58.08 172.10 8 A LEU 81 -39.02 146.47 8 A LEU 82 -163.13 110.37 8 A PRO 118 -69.75 0.11 8 A PRO 124 -69.79 -176.26 9 A PHE 56 38.32 47.56 9 A ARG 76 -51.11 -175.78 9 A LEU 81 -38.79 142.84 9 A THR 115 -166.79 112.05 9 A PRO 116 -69.81 -170.96 9 A PRO 118 -69.78 1.12 9 A VAL 123 -171.19 136.61 10 A SER 18 -67.37 -175.47 10 A ARG 22 37.07 38.18 10 A ALA 45 -65.59 87.48 10 A GLN 46 -133.45 -46.49 10 A PHE 56 36.14 48.29 10 A GLU 66 -34.25 -36.74 10 A CYS 67 -41.04 158.46 10 A GLN 68 -114.41 -70.42 10 A ARG 76 -68.92 -173.00 10 A SER 90 -174.64 127.40 10 A THR 115 -163.36 106.60 10 A PRO 124 -69.78 1.33 10 A PRO 127 -69.69 90.70 11 A ARG 22 38.74 26.15 11 A ALA 45 -78.48 49.60 11 A ASP 47 -101.30 46.05 11 A GLU 48 -34.44 113.50 11 A PHE 56 37.18 35.15 11 A CYS 67 -48.41 151.75 11 A ARG 76 -55.03 -173.00 11 A GLU 111 -74.70 -70.06 11 A PRO 124 -69.80 95.62 12 A SER 19 -101.29 -62.10 12 A ARG 22 34.32 39.66 12 A GLU 43 -39.23 -28.28 12 A ALA 45 -85.62 47.15 12 A ASP 47 -114.56 66.40 12 A GLU 48 -54.54 107.44 12 A PHE 56 38.23 45.59 12 A GLN 68 -54.28 -175.27 12 A ASP 69 -80.52 45.34 12 A LEU 81 -35.08 143.65 12 A LEU 82 -163.03 111.25 12 A ALA 121 -59.46 100.81 12 A THR 122 -83.79 40.25 12 A PRO 124 -69.80 95.62 12 A SER 128 -35.75 143.56 13 A VAL 9 -127.55 -53.76 13 A ALA 45 -81.34 47.83 13 A ASP 47 -105.88 42.46 13 A GLU 48 -35.44 123.29 13 A PHE 56 39.36 47.16 13 A PRO 73 -69.79 -168.61 13 A ARG 76 -51.05 -176.03 13 A LEU 81 -34.38 149.03 13 A LEU 82 -161.44 112.23 13 A THR 115 -161.05 105.06 14 A SER 5 39.29 36.57 14 A ASP 47 -106.70 76.59 14 A PHE 56 35.88 45.32 14 A GLN 65 -38.71 -39.66 14 A PRO 73 -69.69 -178.31 14 A ARG 76 -51.36 -175.13 14 A GLU 88 -36.70 -34.16 14 A SER 90 -166.08 116.69 14 A PRO 116 -69.78 -177.11 14 A SER 125 -92.59 -68.08 14 A SER 128 -40.10 95.64 15 A PHE 56 35.40 43.06 15 A ARG 76 -52.35 -172.98 15 A LEU 81 -38.19 138.42 15 A SER 90 -171.11 145.93 15 A PRO 116 -69.79 -176.79 15 A PRO 124 -69.75 -171.21 15 A PRO 127 -69.76 86.00 15 A SER 129 -42.29 154.64 16 A VAL 9 -94.70 -60.25 16 A THR 44 -68.21 88.79 16 A ALA 45 -55.58 88.80 16 A GLN 46 -127.73 -50.00 16 A GLU 48 -53.01 106.99 16 A PHE 56 37.67 42.20 16 A GLU 66 -34.46 -39.54 16 A CYS 67 -37.09 149.09 16 A GLN 68 -131.84 -64.21 16 A PRO 73 -69.72 -168.73 16 A PRO 124 -69.77 89.35 17 A SER 5 -38.41 134.20 17 A VAL 9 -95.74 -60.88 17 A ARG 22 37.14 49.00 17 A ALA 45 -46.31 91.99 17 A GLU 48 -50.77 92.95 17 A ASN 57 -130.66 -35.01 17 A CYS 67 -35.07 124.55 17 A PRO 73 -69.81 -164.76 17 A ARG 76 -46.16 172.88 17 A THR 115 -162.98 105.22 17 A PRO 116 -69.78 -174.64 17 A THR 122 -45.76 104.43 17 A PRO 124 -69.76 1.11 17 A SER 128 -46.13 152.81 18 A GLU 43 -37.62 -39.49 18 A GLU 66 -34.77 -36.96 18 A CYS 67 -34.25 148.98 18 A SER 90 -169.79 119.57 18 A PRO 116 -69.77 -178.07 18 A ALA 119 -57.09 175.91 18 A ALA 121 -170.75 141.34 18 A SER 129 -59.42 108.50 19 A VAL 9 -94.61 -62.19 19 A ARG 22 34.38 42.37 19 A ASP 47 -109.65 44.60 19 A GLU 48 -36.95 109.34 19 A PHE 56 35.81 38.53 19 A GLU 74 -54.90 108.67 19 A THR 115 -160.51 107.82 19 A PRO 116 -69.74 -173.26 19 A ALA 121 71.90 36.38 20 A ARG 22 34.41 47.82 20 A ALA 45 -65.05 91.21 20 A PHE 56 36.03 45.90 20 A GLN 68 -58.54 -174.96 20 A ASP 69 -82.03 39.72 20 A GLU 74 -38.45 145.64 20 A PRO 116 -69.67 -177.16 20 A PRO 124 -69.77 98.09 Solution structure of the PH domain of Pleckstrin homology domain-containing protein family B member 1 from mouse 1 N N A ARG 99 A ARG 99 HELX_P A ASN 113 A ASN 113 1 1 15 MEMBRANE PROTEIN PH domain, PHRET1, structural genomics, NPPSFA, National Project on Protein Structural and Functional Analyses, RIKEN Structural Genomics/Proteomics Initiative, RSGI, MEMBRANE PROTEIN PLEB1_MOUSE UNP 1 22 Q9QYE9 LVRGGWLWRQSSILRRWKRNWFALWLDGTLGYYHDETAQDEEDRVVIHFNVRDIKVGQECQDVQPPEGRSRDGLLTVNLR EGSRLHLCAETRDDAIAWKTALMEANSTPAPAGATVP 22 138 2D9V 8 124 Q9QYE9 A 1 8 124 1 cloning artifact GLY 1 2D9V A Q9QYE9 UNP 1 1 cloning artifact SER 2 2D9V A Q9QYE9 UNP 2 1 cloning artifact SER 3 2D9V A Q9QYE9 UNP 3 1 cloning artifact GLY 4 2D9V A Q9QYE9 UNP 4 1 cloning artifact SER 5 2D9V A Q9QYE9 UNP 5 1 cloning artifact SER 6 2D9V A Q9QYE9 UNP 6 1 cloning artifact GLY 7 2D9V A Q9QYE9 UNP 7 1 cloning artifact SER 125 2D9V A Q9QYE9 UNP 125 1 cloning artifact GLY 126 2D9V A Q9QYE9 UNP 126 1 cloning artifact PRO 127 2D9V A Q9QYE9 UNP 127 1 cloning artifact SER 128 2D9V A Q9QYE9 UNP 128 1 cloning artifact SER 129 2D9V A Q9QYE9 UNP 129 1 cloning artifact GLY 130 2D9V A Q9QYE9 UNP 130 7 anti-parallel anti-parallel anti-parallel anti-parallel anti-parallel anti-parallel A ASP 50 A ASP 50 A VAL 53 A VAL 53 A THR 36 A THR 36 A TYR 40 A TYR 40 A TRP 24 A TRP 24 A TRP 32 A TRP 32 A LEU 8 A LEU 8 A GLN 17 A GLN 17 A SER 90 A SER 90 A CYS 95 A CYS 95 A LEU 81 A LEU 81 A LEU 86 A LEU 86 A VAL 58 A VAL 58 A VAL 63 A VAL 63