0.021151 0.000000 0.000000 0.000000 0.017056 0.000000 0.000000 0.000000 0.051760 0.000000 0.000000 0.000000 Thaimattam, R. Tykarska, E. Bierzynski, A. Sheldrick, G.M. Jaskolski, M. http://mmcif.pdb.org/dictionaries/ascii/mmcif_pdbx.dic 8 90.00 90.00 90.00 47.280 58.630 19.320 C3 H7 N O2 89.093 y ALANINE L-peptide linking C6 H15 N4 O2 1 175.209 y ARGININE 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 H9 N O4 147.129 y GLUTAMIC ACID L-peptide linking C2 H5 N O2 75.067 y GLYCINE peptide linking C3 H8 O3 92.094 GLYCEROL GLYCERIN; PROPANE-1,2,3-TRIOL non-polymer 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 C5 H11 N O2 S 149.211 y METHIONINE L-peptide linking C6 H14 O2 118.174 (4R)-2-METHYLPENTANE-2,4-DIOL non-polymer C5 H9 N O2 115.130 y PROLINE L-peptide linking C3 H7 N O3 105.093 y SERINE L-peptide linking O4 S -2 96.063 SULFATE ION non-polymer C9 H11 N O3 181.189 y TYROSINE L-peptide linking C5 H11 N O2 117.146 y VALINE L-peptide linking Zn 2 65.409 ZINC ION non-polymer DK Acta Crystallogr.,Sect.D ABCRE6 0766 0907-4449 58 1448 1461 10.1107/S0907444902011769 12198301 Atomic resolution structure of squash trypsin inhibitor: unexpected metal coordination. 2002 NE FEBS Lett. FEBLAL 0165 0014-5793 242 285 292 10.1016/0014-5793(89)80486-7 The refined 2.0 A X-ray crystal structure of the complex formed between bovine beta-trypsin and CMTI-I, a trypsin inhibitor from squash seeds (Cucurbita maxima). Topological similarity of the squash seed inhibitors with the carboxypeptidase A inhibitor from potatoes 1989 DK Acta Crystallogr.,Sect.D ABCRE6 0766 0907-4449 55 139 148 10.1107/S0108768198010805 High-Resolution Structures of Three New Trypsin-Squash-Inhibitor Complexes: A Detailed Comparison with Other Trypsins and Their Complexes 1999 US Protein Sci. PRCIEI 0795 0961-8368 9 273 279 Conservative mutation Met8 --> Leu Effects Folding and Stability of Squash Trypsin Inhibitor Cmti-I 2000 UK J.Mol.Biol. JMOBAK 0070 0022-2836 219 499 510 Relaxation matrix refinement of the solution structure of squash trypsin inhibitor 1991 10.2210/pdb1lu0/pdb pdb_00001lu0 1.000000 0.000000 0.000000 0.000000 1.000000 0.000000 0.000000 0.000000 1.000000 0.000000 0.000000 0.000000 100 1 CCD 2000-04-07 MARRESEARCH Si, double crystal, tunable SINGLE WAVELENGTH M x-ray 1 0.8919 1.0 BW7A EMBL/DESY, HAMBURG 0.8919 SYNCHROTRON EMBL/DESY, HAMBURG BEAMLINE BW7A 3261.881 Trypsin inhibitor I M8L 2 man polymer 65.409 ZINC ION 1 syn non-polymer 92.094 GLYCEROL 2 syn non-polymer 96.063 SULFATE ION 1 syn non-polymer 118.174 (4R)-2-METHYLPENTANE-2,4-DIOL 1 syn non-polymer 18.015 water 76 nat water CMTI-I no no RVCPRILLECKKDSDCLAECVCLEHGYCG RVCPRILLECKKDSDCLAECVCLEHGYCG A,B 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 winter squash Cucurbita Escherichia sample 3661 Cucurbita maxima 562 Escherichia coli BL21(DE3)-pLys(S) plasmid pAED4 1 2.23 44.8 VAPOR DIFFUSION, HANGING DROP 6.5 PEG 8000, zinc sulfate, cacodylate, MPD, pH 6.5, VAPOR DIFFUSION, HANGING DROP, temperature 293.0K 293.0 database_2 diffrn_source pdbx_struct_conn_angle struct_conn struct_ref_seq_dif struct_site repository Initial release Version format compliance Derived calculations Version format compliance Derived calculations Data collection Database references Derived calculations 1 0 2002-08-28 1 1 2008-04-28 1 2 2011-07-13 1 3 2016-01-20 1 4 2021-10-27 _database_2.pdbx_DOI _database_2.pdbx_database_accession _diffrn_source.pdbx_synchrotron_site _pdbx_struct_conn_angle.ptnr1_auth_asym_id _pdbx_struct_conn_angle.ptnr1_label_asym_id _pdbx_struct_conn_angle.ptnr1_label_atom_id _pdbx_struct_conn_angle.ptnr1_symmetry _pdbx_struct_conn_angle.ptnr3_auth_asym_id _pdbx_struct_conn_angle.ptnr3_label_asym_id _pdbx_struct_conn_angle.ptnr3_label_atom_id _pdbx_struct_conn_angle.ptnr3_symmetry _pdbx_struct_conn_angle.value _struct_conn.pdbx_dist_value _struct_conn.ptnr1_auth_comp_id _struct_conn.ptnr1_auth_seq_id _struct_conn.ptnr1_label_asym_id _struct_conn.ptnr1_label_atom_id _struct_conn.ptnr1_label_comp_id _struct_conn.ptnr1_label_seq_id _struct_conn.ptnr1_symmetry _struct_conn.ptnr2_auth_asym_id _struct_conn.ptnr2_auth_comp_id _struct_conn.ptnr2_auth_seq_id _struct_conn.ptnr2_label_asym_id _struct_conn.ptnr2_label_atom_id _struct_conn.ptnr2_label_comp_id _struct_conn.ptnr2_label_seq_id _struct_conn.ptnr2_symmetry _struct_ref_seq_dif.details _struct_site.pdbx_auth_asym_id _struct_site.pdbx_auth_comp_id _struct_site.pdbx_auth_seq_id 1ppe is Wild type sequence of the same protein complexed with bovine trypsin 2sta is Wild type sequence of the same protein complexed with salmon trypsin 2stb is A related inhibitor complexed with salmon trypsin 2btc is A related inhibitor complexed with bovine trypsin 1bxj is NMR structure of the same protein 3cti is NMR structure of wild type sequence of the same protein RCSB Y RCSB 2002-05-21 REL REL ZN ZINC ION GOL GLYCEROL SO4 SULFATE ION MRD (4R)-2-METHYLPENTANE-2,4-DIOL HOH water ZN 201 2 ZN ZN 201 A GOL 202 3 GOL GOL 202 A SO4 205 4 SO4 SO4 205 B MPD 204 5 MRD MRD 204 B GOL 203 3 GOL GOL 203 B HOH 302 6 HOH HOH 302 A HOH 303 6 HOH HOH 303 A HOH 306 6 HOH HOH 306 A HOH 307 6 HOH HOH 307 A HOH 308 6 HOH HOH 308 A HOH 309 6 HOH HOH 309 A HOH 310 6 HOH HOH 310 A HOH 311 6 HOH HOH 311 A HOH 313 6 HOH HOH 313 A HOH 315 6 HOH HOH 315 A HOH 318 6 HOH HOH 318 A HOH 319 6 HOH HOH 319 A HOH 322 6 HOH HOH 322 A HOH 329 6 HOH HOH 329 A HOH 330 6 HOH HOH 330 A HOH 332 6 HOH HOH 332 A HOH 333 6 HOH HOH 333 A HOH 334 6 HOH HOH 334 A HOH 335 6 HOH HOH 335 A HOH 336 6 HOH HOH 336 A HOH 338 6 HOH HOH 338 A HOH 340 6 HOH HOH 340 A HOH 343 6 HOH HOH 343 A HOH 345 6 HOH HOH 345 A HOH 346 6 HOH HOH 346 A HOH 348 6 HOH HOH 348 A HOH 350 6 HOH HOH 350 A HOH 351 6 HOH HOH 351 A HOH 352 6 HOH HOH 352 A HOH 356 6 HOH HOH 356 A HOH 357 6 HOH HOH 357 A HOH 361 6 HOH HOH 361 A HOH 362 6 HOH HOH 362 A HOH 364 6 HOH HOH 364 A HOH 365 6 HOH HOH 365 A HOH 367 6 HOH HOH 367 A HOH 368 6 HOH HOH 368 A HOH 369 6 HOH HOH 369 A HOH 374 6 HOH HOH 374 A HOH 301 6 HOH HOH 301 B HOH 304 6 HOH HOH 304 B HOH 305 6 HOH HOH 305 B HOH 312 6 HOH HOH 312 B HOH 314 6 HOH HOH 314 B HOH 316 6 HOH HOH 316 B HOH 317 6 HOH HOH 317 B HOH 320 6 HOH HOH 320 B HOH 321 6 HOH HOH 321 B HOH 323 6 HOH HOH 323 B HOH 324 6 HOH HOH 324 B HOH 325 6 HOH HOH 325 B HOH 326 6 HOH HOH 326 B HOH 327 6 HOH HOH 327 B HOH 328 6 HOH HOH 328 B HOH 331 6 HOH HOH 331 B HOH 337 6 HOH HOH 337 B HOH 339 6 HOH HOH 339 B HOH 341 6 HOH HOH 341 B HOH 342 6 HOH HOH 342 B HOH 344 6 HOH HOH 344 B HOH 347 6 HOH HOH 347 B HOH 349 6 HOH HOH 349 B HOH 353 6 HOH HOH 353 B HOH 354 6 HOH HOH 354 B HOH 355 6 HOH HOH 355 B HOH 358 6 HOH HOH 358 B HOH 359 6 HOH HOH 359 B HOH 360 6 HOH HOH 360 B HOH 363 6 HOH HOH 363 B HOH 366 6 HOH HOH 366 B HOH 370 6 HOH HOH 370 B HOH 371 6 HOH HOH 371 B HOH 372 6 HOH HOH 372 B HOH 373 6 HOH HOH 373 B HOH 375 6 HOH HOH 375 B HOH 376 6 HOH HOH 376 B ARG 1 n 1 ARG 1 A VAL 2 n 2 VAL 2 A CYS 3 n 3 CYS 3 A PRO 4 n 4 PRO 4 A ARG 5 n 5 ARG 5 A ILE 6 n 6 ILE 6 A LEU 7 n 7 LEU 7 A LEU 8 n 8 LEU 8 A GLU 9 n 9 GLU 9 A CYS 10 n 10 CYS 10 A LYS 11 n 11 LYS 11 A LYS 12 n 12 LYS 12 A ASP 13 n 13 ASP 13 A SER 14 n 14 SER 14 A ASP 15 n 15 ASP 15 A CYS 16 n 16 CYS 16 A LEU 17 n 17 LEU 17 A ALA 18 n 18 ALA 18 A GLU 19 n 19 GLU 19 A CYS 20 n 20 CYS 20 A VAL 21 n 21 VAL 21 A CYS 22 n 22 CYS 22 A LEU 23 n 23 LEU 23 A GLU 24 n 24 GLU 24 A HIS 25 n 25 HIS 25 A GLY 26 n 26 GLY 26 A TYR 27 n 27 TYR 27 A CYS 28 n 28 CYS 28 A GLY 29 n 29 GLY 29 A ARG 1 n 1 ARG 1 B VAL 2 n 2 VAL 2 B CYS 3 n 3 CYS 3 B PRO 4 n 4 PRO 4 B ARG 5 n 5 ARG 5 B ILE 6 n 6 ILE 6 B LEU 7 n 7 LEU 7 B LEU 8 n 8 LEU 8 B GLU 9 n 9 GLU 9 B CYS 10 n 10 CYS 10 B LYS 11 n 11 LYS 11 B LYS 12 n 12 LYS 12 B ASP 13 n 13 ASP 13 B SER 14 n 14 SER 14 B ASP 15 n 15 ASP 15 B CYS 16 n 16 CYS 16 B LEU 17 n 17 LEU 17 B ALA 18 n 18 ALA 18 B GLU 19 n 19 GLU 19 B CYS 20 n 20 CYS 20 B VAL 21 n 21 VAL 21 B CYS 22 n 22 CYS 22 B LEU 23 n 23 LEU 23 B GLU 24 n 24 GLU 24 B HIS 25 n 25 HIS 25 B GLY 26 n 26 GLY 26 B TYR 27 n 27 TYR 27 B CYS 28 n 28 CYS 28 B GLY 29 n 29 GLY 29 B 0.1148 0.1206 0.1141 0.12 0.1395 0.1449 1139 1345 5.0 5.0 22676 author_and_software_defined_assembly PISA,PQS 4 tetrameric 3410 -97 8570 A GLU 19 A OE1 GLU 19 1_555 A ZN 201 C ZN ZN 1_555 A GLU 19 A OE1 GLU 19 2_775 93.8 A GLU 19 A OE1 GLU 19 1_555 A ZN 201 C ZN ZN 1_555 B GLU 19 B OE2 GLU 19 1_555 116.7 A GLU 19 A OE1 GLU 19 2_775 A ZN 201 C ZN ZN 1_555 B GLU 19 B OE2 GLU 19 1_555 121.1 A GLU 19 A OE1 GLU 19 1_555 A ZN 201 C ZN ZN 1_555 B GLU 19 B OE1 GLU 19 1_555 88.1 A GLU 19 A OE1 GLU 19 2_775 A ZN 201 C ZN ZN 1_555 B GLU 19 B OE1 GLU 19 1_555 81.4 B GLU 19 B OE2 GLU 19 1_555 A ZN 201 C ZN ZN 1_555 B GLU 19 B OE1 GLU 19 1_555 53.2 A GLU 19 A OE1 GLU 19 1_555 A ZN 201 C ZN ZN 1_555 B GLU 19 B OE1 GLU 19 2_775 81.4 A GLU 19 A OE1 GLU 19 2_775 A ZN 201 C ZN ZN 1_555 B GLU 19 B OE1 GLU 19 2_775 88.1 B GLU 19 B OE2 GLU 19 1_555 A ZN 201 C ZN ZN 1_555 B GLU 19 B OE1 GLU 19 2_775 142.0 B GLU 19 B OE1 GLU 19 1_555 A ZN 201 C ZN ZN 1_555 B GLU 19 B OE1 GLU 19 2_775 164.7 A GLU 19 A OE1 GLU 19 1_555 A ZN 201 C ZN ZN 1_555 B GLU 19 B OE2 GLU 19 2_775 121.1 A GLU 19 A OE1 GLU 19 2_775 A ZN 201 C ZN ZN 1_555 B GLU 19 B OE2 GLU 19 2_775 116.7 B GLU 19 B OE2 GLU 19 1_555 A ZN 201 C ZN ZN 1_555 B GLU 19 B OE2 GLU 19 2_775 90.0 B GLU 19 B OE1 GLU 19 1_555 A ZN 201 C ZN ZN 1_555 B GLU 19 B OE2 GLU 19 2_775 142.0 B GLU 19 B OE1 GLU 19 2_775 A ZN 201 C ZN ZN 1_555 B GLU 19 B OE2 GLU 19 2_775 53.2 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 -1.0000000000 0.0000000000 0.0000000000 0.0000000000 -1.0000000000 0.0000000000 0.0000000000 0.0000000000 1.0000000000 2_775 -x+2,-y+2,z crystal symmetry operation 94.5600000000 117.2600000000 0.0000000000 B N VAL 21 B N VAL 21 B O GLY 29 B O GLY 29 1 A ZN 201 C ZN 1 B SO4 205 E SO4 1 B O3 SO4 205 E O3 SO4 1 1 N 1 B O4 SO4 205 E O4 SO4 1 1 N 1 -8.25 1.10 119.40 111.15 A A A NH1 CZ NH2 ARG ARG ARG 5 5 5 A A A N 1 -4.57 0.50 120.30 115.73 A A A NE CZ NH1 ARG ARG ARG 5 5 5 B B B N 1 6.39 0.50 120.30 126.69 A A A NE CZ NH2 ARG ARG ARG 5 5 5 A A A N 1 16.02 2.60 111.60 127.62 A A A CB CG CD LYS LYS LYS 11 11 11 N 1 5.60 0.80 121.30 126.90 B B B CG CD1 CE1 TYR TYR TYR 27 27 27 B B B N 1 A ALA 18 55.06 -128.59 1 B ALA 18 52.97 -131.06 Anisotropic refinement without stereochemical restraints on main chain atoms with low Beq (<15 A**2). In both molecules (A and B) there is a salt bridge between the C-terminus and the Arg1 side chain. The Arg5 side chain in molecule A is modeled in two conformations. The Val21 and Tyr27 side chains in both molecules are modeled in double conformation. His25 has different protonation and conformation in the two molecules. The zinc and sulfate ions lie on a common two fold axis. One MPD and two glycerol molecules are modeled in the solvent region. Blocked full-matix least-squares calculations were performed at the conclusion of the refinement. In remark 500, the atoms in all cases represent complementary pairs with partial occupancies. 0.1449 0.12 0.1206 0.1206 1.03 10.00 5179 1345 26990 26990 6000 5.0 99.1 RANDOM 1 Anisotropic FREE R 0.0 -3.0 Dual-space recycling CSD ENGH AND HUBER MOEWS & KRETSINGER, J.MOL.BIOL.91(1973)201-228 5 432.00 517.49 1.03 10.00 76 544 24 0 444 0.025 0.039 0.000 0.031 0.106 0.130 0.000 0.006 0.056 0.091 12.9 1.03 15.0 1LU0 27045 27045 0.0 -3.0 0.047 1 30.7 9.3 99.2 0.151 1.03 1.07 2.73 2637 1 3.5 98.3 data reduction DENZO data scaling SCALEPACK phasing SHELXD refinement SHELXL-97 Atomic Resolution Structure of Squash Trypsin Inhibitor: Unexpected Metal Coordination 1 N N 1 N N 2 N N 3 N N 4 N N 5 N N 3 N N 6 N N 6 N N Four molecules of the inhibitor coordinate a single zinc cation in a tetrahedral fashion via their Glu19 side chains. Two of them (molecules A and B) constitute the contents of the asymmetric unit. The full coordination sphere is generated by the operation: -X, -Y, Z, of a two-fold axis. The zinc cation has a special position (occupancy 0.5) on this two-fold axis. A LYS 12 A LYS 12 HELX_P A CYS 16 A CYS 16 5 1 5 B LYS 12 B LYS 12 HELX_P B CYS 16 B CYS 16 5 2 5 disulf 2.021 A CYS 3 A SG CYS 3 1_555 A CYS 20 A SG CYS 20 1_555 disulf 2.059 A CYS 10 A SG CYS 10 1_555 A CYS 22 A SG CYS 22 1_555 disulf 2.072 A CYS 16 A SG CYS 16 1_555 A CYS 28 A SG CYS 28 1_555 disulf 2.009 B CYS 3 B SG CYS 3 1_555 B CYS 20 B SG CYS 20 1_555 disulf 2.050 B CYS 10 B SG CYS 10 1_555 B CYS 22 B SG CYS 22 1_555 disulf 2.065 B CYS 16 B SG CYS 16 1_555 B CYS 28 B SG CYS 28 1_555 metalc 1.979 A GLU 19 A OE1 GLU 19 1_555 A ZN 201 C ZN ZN 1_555 metalc 1.979 A GLU 19 A OE1 GLU 19 2_775 A ZN 201 C ZN ZN 1_555 metalc 2.005 A ZN 201 C ZN ZN 1_555 B GLU 19 B OE2 GLU 19 1_555 metalc 2.710 A ZN 201 C ZN ZN 1_555 B GLU 19 B OE1 GLU 19 1_555 metalc 2.710 A ZN 201 C ZN ZN 1_555 B GLU 19 B OE1 GLU 19 2_775 metalc 2.005 A ZN 201 C ZN ZN 1_555 B GLU 19 B OE2 GLU 19 2_775 HYDROLASE INHIBITOR serine protease inhibitor, metal coordination, HYDROLASE INHIBITOR ITR1_CUCMA UNP 1 1 P01074 RVCPRILMECKKDSDCLAECVCLEHGYCG 1 29 1LU0 1 29 P01074 A 1 1 29 1 29 1LU0 1 29 P01074 B 1 1 29 1 MET engineered mutation LEU 8 1LU0 A P01074 UNP 8 8 2 MET engineered mutation LEU 8 1LU0 B P01074 UNP 8 8 2 anti-parallel B VAL 21 B VAL 21 B CYS 22 B CYS 22 B CYS 28 B CYS 28 B GLY 29 B GLY 29 BINDING SITE FOR RESIDUE ZN A 201 A ZN 201 Software 4 BINDING SITE FOR RESIDUE SO4 B 205 B SO4 205 Software 6 BINDING SITE FOR RESIDUE MRD B 204 B MRD 204 Software 6 BINDING SITE FOR RESIDUE GOL A 202 A GOL 202 Software 8 BINDING SITE FOR RESIDUE GOL B 203 B GOL 203 Software 4 A GLU 19 A GLU 19 4 1_555 A GLU 19 A GLU 19 4 2_775 B GLU 19 B GLU 19 4 1_555 B GLU 19 B GLU 19 4 2_775 A ARG 1 A ARG 1 6 1_555 A ARG 1 A ARG 1 6 2_775 A HOH 357 H HOH 6 2_775 B GLU 19 B GLU 19 6 1_555 B HOH 347 I HOH 6 2_775 B HOH 347 I HOH 6 1_555 B ARG 5 B ARG 5 6 1_555 B ASP 15 B ASP 15 6 1_556 B CYS 28 B CYS 28 6 1_555 B GLY 29 B GLY 29 6 1_555 B GOL 203 G GOL 6 1_556 B HOH 325 I HOH 6 1_556 A CYS 3 A CYS 3 8 1_555 A PRO 4 A PRO 4 8 1_555 A ARG 5 A ARG 5 8 1_555 A SER 14 A SER 14 8 1_554 A ASP 15 A ASP 15 8 1_554 A CYS 28 A CYS 28 8 1_555 A HOH 310 H HOH 8 1_555 A HOH 368 H HOH 8 1_555 A ILE 6 A ILE 6 4 4_566 B GLU 9 B GLU 9 4 1_555 B MRD 204 F MRD 4 1_554 B HOH 371 I HOH 4 1_555 18 P 21 21 2