0.033113 0.000000 0.000000 0.000000 0.021322 0.000000 0.000000 0.000000 0.013419 0.00000 0.00000 0.00000 Holland, D.R. Rubin, J.R. http://mmcif.pdb.org/dictionaries/ascii/mmcif_pdbx.dic 4 90.00 90.00 90.00 30.200 46.900 74.520 C26 H39 N4 O10 P 598.582 [[O-PHOSPHONO-N-ACETYL-TYROSINYL]-GLUTAMYL-3[CYCLOHEXYLMETHYL]ALANINYL]-AMINE non-polymer 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 H2 O 18.015 WATER non-polymer 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 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 US J.Am.Chem.Soc. JACSAT 0004 0002-7863 119 12471 -1 Structure-Based Design of a Novel Series of Nonpeptide Ligands that Bind to the Pp60Src Sh2 Domain 1997 US Cell(Cambridge,Mass.) CELLB5 0998 0092-8674 72 779 Binding of a High Affinity Phosphotyrosyl Peptide to the Src Sh2 Domain: Crystal Structures of the Complexed and Peptide-Free Forms 1993 10.2210/pdb1bkm/pdb pdb_00001bkm 1.000000 0.000000 0.000000 0.000000 1.000000 0.000000 0.000000 0.000000 1.000000 0.00000 0.00000 0.00000 293 1 IMAGE PLATE 1994-07 MARRESEARCH CU FILTER M x-ray 1 1.5418 1.0 1.5418 ROTATING ANODE RIGAKU 12821.392 PP60 V-SRC TYROSINE KINASE TRANSFORMING PROTEIN 2.7.1.112 DOMAIN INS(G0,S1), INS(EFIVTD) AT C-TERMINUS 1 man polymer 598.582 [[O-PHOSPHONO-N-ACETYL-TYROSINYL]-GLUTAMYL-3[CYCLOHEXYLMETHYL]ALANINYL]-AMINE 1 syn non-polymer 18.015 water 61 nat water SRC SH2 no no GSAEEWYFGKITRRESEALLLNPENPRGTFLVRESETTKGAYCLSVSDFDNAKGLNVKHYKIRKLDSGGFYITSRTQFSS LQQLVAYYSKHADGLCHRLTNVCPTSKEFIVTD GSAEEWYFGKITRRESEALLLNPENPRGTFLVRESETTKGAYCLSVSDFDNAKGLNVKHYKIRKLDSGGFYITSRTQFSS LQQLVAYYSKHADGLCHRLTNVCPTSKEFIVTD A 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 Alpharetrovirus SCHMIDT-RUPPIN STRAIN A Escherichia sample 11886 Rous sarcoma virus 562 Escherichia coli JM83 1 2.0 40.22 WAKSMAN AND KURIYAN SRC SH2 STRUCTURE VAPOR DIFFUSION, SITTING DROP 8.0 5% PEG 6K, 0.1M TRIS, PH 8, SITTING DROP EXPERIMENT, PROTEIN 50 MG/ML, INHIBITOR 4 MG/ML, 4:4:2 RATIO (WELL:PROT:INHIB), pH 8.0, vapor diffusion - sitting drop database_2 pdbx_database_status pdbx_initial_refinement_model struct_ref_seq_dif struct_site repository Initial release Version format compliance Version format compliance Database references Derived calculations Other Refinement description 1 0 1997-07-07 1 1 2008-03-24 1 2 2011-07-13 1 3 2023-08-02 _database_2.pdbx_DOI _database_2.pdbx_database_accession _pdbx_database_status.process_site _struct_ref_seq_dif.details _struct_site.pdbx_auth_asym_id _struct_site.pdbx_auth_comp_id _struct_site.pdbx_auth_seq_id Y BNL 1997-05-02 REL REL 1C5 [[O-PHOSPHONO-N-ACETYL-TYROSINYL]-GLUTAMYL-3[CYCLOHEXYLMETHYL]ALANINYL]-AMINE HOH water G-S ARE NOT NATURAL SEQUENCE - BYPRODUCT OF CLONING E-F-I-V-T-D NOT NATURAL SEQUENCE - BYPRODUCT OF CLONING 1SPS PROTEIN MODEL FROM 1SPS PDB experimental model 1C5 1 2 1C5 1C5 113 A HOH 106 3 HOH HOH 114 A HOH 107 3 HOH HOH 115 A HOH 108 3 HOH HOH 116 A HOH 202 3 HOH HOH 117 A HOH 204 3 HOH HOH 118 A HOH 205 3 HOH HOH 119 A HOH 206 3 HOH HOH 120 A HOH 207 3 HOH HOH 121 A HOH 209 3 HOH HOH 122 A HOH 210 3 HOH HOH 123 A HOH 211 3 HOH HOH 124 A HOH 212 3 HOH HOH 125 A HOH 213 3 HOH HOH 126 A HOH 214 3 HOH HOH 127 A HOH 215 3 HOH HOH 128 A HOH 216 3 HOH HOH 129 A HOH 217 3 HOH HOH 130 A HOH 218 3 HOH HOH 131 A HOH 219 3 HOH HOH 132 A HOH 220 3 HOH HOH 133 A HOH 221 3 HOH HOH 134 A HOH 222 3 HOH HOH 135 A HOH 224 3 HOH HOH 136 A HOH 302 3 HOH HOH 137 A HOH 310 3 HOH HOH 138 A HOH 316 3 HOH HOH 139 A HOH 317 3 HOH HOH 140 A HOH 318 3 HOH HOH 141 A HOH 319 3 HOH HOH 142 A HOH 320 3 HOH HOH 143 A HOH 321 3 HOH HOH 144 A HOH 322 3 HOH HOH 145 A HOH 323 3 HOH HOH 146 A HOH 324 3 HOH HOH 147 A HOH 325 3 HOH HOH 148 A HOH 326 3 HOH HOH 149 A HOH 327 3 HOH HOH 150 A HOH 328 3 HOH HOH 151 A HOH 330 3 HOH HOH 152 A HOH 331 3 HOH HOH 153 A HOH 332 3 HOH HOH 154 A HOH 333 3 HOH HOH 155 A HOH 334 3 HOH HOH 156 A HOH 335 3 HOH HOH 157 A HOH 337 3 HOH HOH 158 A HOH 338 3 HOH HOH 159 A HOH 341 3 HOH HOH 160 A HOH 343 3 HOH HOH 161 A HOH 344 3 HOH HOH 162 A HOH 346 3 HOH HOH 163 A HOH 348 3 HOH HOH 164 A HOH 349 3 HOH HOH 165 A HOH 350 3 HOH HOH 166 A HOH 351 3 HOH HOH 167 A HOH 352 3 HOH HOH 168 A HOH 353 3 HOH HOH 169 A HOH 354 3 HOH HOH 170 A HOH 356 3 HOH HOH 171 A HOH 357 3 HOH HOH 172 A HOH 358 3 HOH HOH 173 A HOH 359 3 HOH HOH 174 A n 1 0 A n 2 1 A n 3 2 A GLU 3 n 4 GLU 3 A GLU 4 n 5 GLU 4 A TRP 5 n 6 TRP 5 A TYR 6 n 7 TYR 6 A PHE 7 n 8 PHE 7 A GLY 8 n 9 GLY 8 A LYS 9 n 10 LYS 9 A ILE 10 n 11 ILE 10 A THR 11 n 12 THR 11 A ARG 12 n 13 ARG 12 A ARG 13 n 14 ARG 13 A GLU 14 n 15 GLU 14 A SER 15 n 16 SER 15 A GLU 16 n 17 GLU 16 A ALA 17 n 18 ALA 17 A LEU 18 n 19 LEU 18 A LEU 19 n 20 LEU 19 A LEU 20 n 21 LEU 20 A ASN 21 n 22 ASN 21 A PRO 22 n 23 PRO 22 A GLU 23 n 24 GLU 23 A ASN 24 n 25 ASN 24 A PRO 25 n 26 PRO 25 A ARG 26 n 27 ARG 26 A GLY 27 n 28 GLY 27 A THR 28 n 29 THR 28 A PHE 29 n 30 PHE 29 A LEU 30 n 31 LEU 30 A VAL 31 n 32 VAL 31 A ARG 32 n 33 ARG 32 A GLU 33 n 34 GLU 33 A SER 34 n 35 SER 34 A GLU 35 n 36 GLU 35 A THR 36 n 37 THR 36 A THR 37 n 38 THR 37 A LYS 38 n 39 LYS 38 A GLY 39 n 40 GLY 39 A ALA 40 n 41 ALA 40 A TYR 41 n 42 TYR 41 A CYS 42 n 43 CYS 42 A LEU 43 n 44 LEU 43 A SER 44 n 45 SER 44 A VAL 45 n 46 VAL 45 A SER 46 n 47 SER 46 A ASP 47 n 48 ASP 47 A PHE 48 n 49 PHE 48 A ASP 49 n 50 ASP 49 A ASN 50 n 51 ASN 50 A ALA 51 n 52 ALA 51 A LYS 52 n 53 LYS 52 A GLY 53 n 54 GLY 53 A LEU 54 n 55 LEU 54 A ASN 55 n 56 ASN 55 A VAL 56 n 57 VAL 56 A LYS 57 n 58 LYS 57 A HIS 58 n 59 HIS 58 A TYR 59 n 60 TYR 59 A LYS 60 n 61 LYS 60 A ILE 61 n 62 ILE 61 A ARG 62 n 63 ARG 62 A LYS 63 n 64 LYS 63 A LEU 64 n 65 LEU 64 A ASP 65 n 66 ASP 65 A SER 66 n 67 SER 66 A GLY 67 n 68 GLY 67 A GLY 68 n 69 GLY 68 A PHE 69 n 70 PHE 69 A TYR 70 n 71 TYR 70 A ILE 71 n 72 ILE 71 A THR 72 n 73 THR 72 A SER 73 n 74 SER 73 A ARG 74 n 75 ARG 74 A THR 75 n 76 THR 75 A GLN 76 n 77 GLN 76 A PHE 77 n 78 PHE 77 A SER 78 n 79 SER 78 A SER 79 n 80 SER 79 A LEU 80 n 81 LEU 80 A GLN 81 n 82 GLN 81 A GLN 82 n 83 GLN 82 A LEU 83 n 84 LEU 83 A VAL 84 n 85 VAL 84 A ALA 85 n 86 ALA 85 A TYR 86 n 87 TYR 86 A TYR 87 n 88 TYR 87 A SER 88 n 89 SER 88 A LYS 89 n 90 LYS 89 A HIS 90 n 91 HIS 90 A ALA 91 n 92 ALA 91 A ASP 92 n 93 ASP 92 A GLY 93 n 94 GLY 93 A LEU 94 n 95 LEU 94 A CYS 95 n 96 CYS 95 A HIS 96 n 97 HIS 96 A ARG 97 n 98 ARG 97 A LEU 98 n 99 LEU 98 A THR 99 n 100 THR 99 A ASN 100 n 101 ASN 100 A VAL 101 n 102 VAL 101 A CYS 102 n 103 CYS 102 A PRO 103 n 104 PRO 103 A THR 104 n 105 THR 104 A n 106 105 A n 107 106 A n 108 107 A n 109 108 A n 110 109 A n 111 110 A n 112 111 A n 113 112 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 LEU 30 A O LEU 31 A N SER 44 A N SER 45 A O TYR 41 A O TYR 42 A N ILE 61 A N ILE 62 1 A CB GLU 3 A CB GLU 4 1 Y 1 A CG GLU 3 A CG GLU 4 1 Y 1 A CD GLU 3 A CD GLU 4 1 Y 1 A OE1 GLU 3 A OE1 GLU 4 1 Y 1 A OE2 GLU 3 A OE2 GLU 4 1 Y 1 A CG GLU 4 A CG GLU 5 1 Y 1 A CD GLU 4 A CD GLU 5 1 Y 1 A OE1 GLU 4 A OE1 GLU 5 1 Y 1 A OE2 GLU 4 A OE2 GLU 5 1 Y 1 A OH TYR 6 A OH TYR 7 1 Y 1 A GLY 0 A GLY 1 1 Y 1 A SER 1 A SER 2 1 Y 1 A ALA 2 A ALA 3 1 Y 1 A SER 105 A SER 106 1 Y 1 A LYS 106 A LYS 107 1 Y 1 A GLU 107 A GLU 108 1 Y 1 A PHE 108 A PHE 109 1 Y 1 A ILE 109 A ILE 110 1 Y 1 A VAL 110 A VAL 111 1 Y 1 A THR 111 A THR 112 1 Y 1 A ASP 112 A ASP 113 1 Y 1 A A CZ H1 ARG HOH 13 140 0.80 1 A A HG1 H THR GLU 11 14 1.03 1 A A OG1 H THR GLU 11 14 1.16 1 A A NH2 H1 ARG HOH 13 140 1.18 1 A A HE H2 ARG HOH 13 140 1.27 1 A A HH21 O ARG HOH 13 140 1.34 1 A A NE H1 ARG HOH 13 140 1.39 1 A A O HG ARG SER 12 15 1.41 1 A A HH21 OE1 ARG GLU 13 14 1.46 1 A A NH2 OE1 ARG GLU 13 14 1.49 1 A A HE O ARG HOH 13 140 1.55 1 A A NH2 O ARG HOH 13 140 1.63 1 A A CZ O ARG HOH 13 140 1.69 1 A A NE O ARG HOH 13 140 1.75 1 A A OG1 N THR GLU 11 14 2.04 1 A TYR 41 0.079 SIDE CHAIN 1 A TYR 70 0.073 SIDE CHAIN 1 A ARG 97 0.088 SIDE CHAIN 1 -19.00 2.70 111.60 92.60 A A A CB CA C THR THR THR 11 11 11 N 1 15.80 2.10 109.00 124.80 A A A CA CB OG1 THR THR THR 11 11 11 N 1 -19.75 1.40 112.40 92.65 A A A CA CB CG2 THR THR THR 11 11 11 N 1 -3.71 0.50 120.30 116.59 A A A NE CZ NH2 ARG ARG ARG 12 12 12 N 1 -15.56 0.50 120.30 104.74 A A A NE CZ NH1 ARG ARG ARG 13 13 13 N 1 13.47 0.50 120.30 133.77 A A A NE CZ NH2 ARG ARG ARG 13 13 13 N 1 16.05 2.20 113.40 129.45 A A A CA CB CG GLU GLU GLU 14 14 14 N 1 13.26 2.00 118.30 131.56 A A A CG CD OE1 GLU GLU GLU 14 14 14 N 1 -14.78 2.00 118.30 103.52 A A A CG CD OE2 GLU GLU GLU 14 14 14 N 1 14.34 2.30 115.30 129.64 A A A CA CB CG LEU LEU LEU 30 30 30 N 1 3.34 0.50 120.30 123.64 A A A NE CZ NH1 ARG ARG ARG 32 32 32 N 1 -3.63 0.60 121.00 117.37 A A A CB CG CD1 TYR TYR TYR 87 87 87 N 1 A LYS 9 -90.49 39.12 1 A THR 99 -120.80 -103.88 20.6 0.2750000 0.2000000 0.2000000 2.0 8. 546 5528 10. RANDOM 1 R-FREE 2. MOLECULAR REPLACEMENT PROTEIN MODEL FROM 1SPS 2.0 8. 61 874 0 0 813 0.015 3.1 29.2 2.7 0.3300000 0.2400000 2.1 37 387 8 10. 50. 21.5 2.0 25. 1BKM 6768 2. 0.0760000 1 14.4 3. 88.7 0.3170000 2.0 2.12 5. 2. 71.9 model building X-PLOR 3.1 refinement X-PLOR 3.1 data reduction XDS data scaling XDS phasing X-PLOR 3.1 COCRYSTAL STRUCTURE OF D-AMINO ACID SUBSTITUTED PHOSPHOPEPTIDE COMPLEX 1 N N 2 N N 3 N N A ARG 12 A ARG 13 HELX_P A LEU 19 A LEU 20 1 1 8 A LEU 80 A LEU 81 HELX_P A LYS 89 A LYS 90 1 2 10 TRANSFORMING PROTEIN V-SRC SH2 DOMAIN, PHOSPHOTYROSINE RECOGNITION DOMAIN, PP60 SRC SH2 DOMAIN, TRIPEPTIDE, D-AMINO ACID, TRANSFORMING PROTEIN A GLU 4 A GLU 5 1 A TRP 5 A TRP 6 4.90 SRC_RSVSA UNP 1 1 P00524 MGSSKSKPKDPSQRRRSLEPPDSTHHGGFPASQTPNKTAAPDTHRTPSRSFGTVATEPKLFGGFNTSDTVTSPQRAGALA GGVTTFVALYDYESRTETDLSFKKGERLQIVNNTEGDWWLAHSLTTGQTGYIPSNYVAPSDSIQAEEWYFGKITRRESER LLLNPENPRGTFLVRESETTKGAYCLSVSDFDNAKGLNVKHYKIRKLDSGGFYITSRTQFSSLQQLVAYYSKHADGLCHR LTNVCPTSKPQTQGLAKDAWEIPRESLRLEVKLGQGCFGEVWMGTWNGTTRVAIKTLKPGTMSPEAFLQEAQVMKKLRHE KLVQLYAVVSEEPIYIVTEYMSKGSLLDFLKGEMGKYLRLPQLVDMAAQIASGMAYVERMNYVHRDLRAANILVGENLVC KVADFGLARLIEDNEYTARQGAKFPIKWTAPEAALYGRFTIKSDVWSFGILLTELTTKGRVPYPGMVNREVLDQVERGYR MPCPPECPESLHDLMCQCWRKDPEERPTFEYLQAFLEDYFTSTEPPVPAWREPIGLELLLAPEASLWGTGAWLRAEGPRF GEQPQSRMWHGEVSGAPSLIKTVLGHP 145 249 1BKM 2 106 P00524 A 1 3 107 1 ARG conflict ALA 17 1BKM A P00524 UNP 160 18 3 anti-parallel anti-parallel A PHE 29 A PHE 30 A GLU 33 A GLU 34 A TYR 41 A TYR 42 A ASP 49 A ASP 50 A GLY 53 A GLY 54 A ILE 61 A ILE 62 BINDING SITE FOR RESIDUE 1C5 A 113 A 1C5 113 Software 16 A ARG 12 A ARG 13 16 1_555 A ARG 32 A ARG 33 16 1_555 A SER 34 A SER 35 16 1_555 A GLU 35 A GLU 36 16 1_555 A THR 36 A THR 37 16 1_555 A CYS 42 A CYS 43 16 1_555 A HIS 58 A HIS 59 16 1_555 A TYR 59 A TYR 60 16 1_555 A LYS 60 A LYS 61 16 1_555 A THR 72 A THR 73 16 1_555 A LYS 89 A LYS 90 16 1_655 A GLY 93 A GLY 94 16 1_555 A HOH 117 C HOH 16 1_555 A HOH 118 C HOH 16 1_555 A HOH 119 C HOH 16 1_555 A HOH 127 C HOH 16 1_555 19 P 21 21 21