1.000000 0.000000 0.000000 0.000000 1.000000 0.000000 0.000000 0.000000 1.000000 0.00000 0.00000 0.00000 Newlove, T. Atkinson, K.R. Van Dorn, L.O. Cordes, M.H. 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 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 US Biochemistry BICHAW 0033 0006-2960 45 6379 6391 10.1021/bi052541c 16700549 A Trade between Similar but Nonequivalent Intrasubunit and Intersubunit Contacts in Cro Dimer Evolution. 2006 10.2210/pdb2a63/pdb pdb_00002a63 1.000000 0.000000 0.000000 0.000000 1.000000 0.000000 0.000000 0.000000 1.000000 0.00000 0.00000 0.00000 1 SINGLE WAVELENGTH M 1 1.0 7423.485 Regulatory protein cro A33W, F58D, Y26Q 1 man polymer no no MEQRITLKDYAMRFGQTKTAKDLGVQQSAINKWIHAGRKIFLTINADGSVYAEEVKPDPSNKKTTA MEQRITLKDYAMRFGQTKTAKDLGVQQSAINKWIHAGRKIFLTINADGSVYAEEVKPDPSNKKTTA 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 Lambda-like viruses Escherichia Escherichia coli sample cro 10710 Enterobacteria phage lambda 469008 Escherichia coli BL21(DE3) BL21 DE3 PLASMID pET21b database_2 pdbx_nmr_software 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 2006-06-06 1 1 2008-04-30 1 2 2011-07-13 1 3 2021-10-20 _database_2.pdbx_DOI _database_2.pdbx_database_accession _pdbx_nmr_software.name _struct_ref_seq_dif.details N RCSB Y RCSB 2005-07-01 REL REL Proton chemical shifts submitted with this deposition were referenced to TSP at 0.00 ppm. However, we should add a cautionary note that this referencing led to an unusually high value for the water signal of 4.966 at 293 K, pH 5.3. We suspect that the TSP resonance is shifted below 0 ppm in our samples, possibly as much as -0.15 ppm. In our view, this is probably due to some transient interaction of the standard with the protein. all structures compatible with experimental restraints; structures chosen had the lowest energies and/or best agreement to J(NHB) data not used in explicit restraints 40 20 3D_15N-separated_NOESY HNHA HNHB HSQC (amide hydrogen exchange) 3D_13C-separated_NOESY 2D NOESY 2D NOESY 2D NOESY 2D NOESY no salt added 5.3 ambient 293 K no salt added 6.1 ambient 293 K no salt added 6.1 ambient 298 K 40 structures were calculated using 838 noe-derived restraints, 14 hydrogen bond distance restraints, 50 phi angle restraints and 17 chi1 angle restraints. All 40 calculations converged to structures with no noe violations > 0.5 angstroms and no dihedral angle restraint violations >5 degrees. 14 of the 40 structures were discarded based on incompatibility of the rotamer of val 55 with a small J(HNHB) coupling constant, though no explicit restraint on the chi1 angle was included in the calculation. Of the 26 remaining structures, the 6 with the highest energy were discarded. In addition to having high energies, these 6 structures showed unusual conformations, particularly in turn regions, that were unreasonable and in strong disagreement with previously published structures of lambda Cro variants. The final ensemble contains 20 members. The ordered region of the protein extends from approximately residue 3 to residue 55. Pairwise RMSDs for the ordered region were 0.66 A (backbone atoms) and 1.29 A (all heavy atoms). None of the backbone angles in the ordered region of any ensemble member fell outside the most favorable and additionally allowed regions of a ramachandran plot. simulated annealing 1 closest to the average 2.5 mM lambda Cro A33W/F58D/Y26Q U-13C, 50mM Na-phosphate, 90% H2O, 10% D2O, 0.01% sodium azide, 1 mM TSP 90% H2O/10% D2O 5 mM lambda Cro A33W/F58D/Y26Q U-15N, 50mM Na-phosphate, 90% H2O, 10% D2O, 0.01% sodium azide, 1 mM TSP 90% H2O/10% D2O 5 mM lambda Cro A33W/F58D/Y26Q unlabelled, 50mM Na-phosphate, 90% H2O, 10% D2O, 0.01% sodium azide, 1 mM TSP 90% H2O/10% D2O 5 mM lambda Cro A33W/F58D/Y26Q U-15N, 50mM Na-phosphate, 100% D2O, 0.01% sodium azide, 1 mM TSP 100% D2O Bruker collection XwinNMR 3.1 Frank Delaglio, Stephan Grzesiek, Ad Bax, Guang Zhu, Geerten Vuister, John Pfeifer processing NMRPipe 1.8 Bruce Johnston data analysis NMRView 4.1.3 structure solution CNS 1.1 refinement CNS 1.1 600 Bruker DRX MET 1 n 1 MET 1 A GLU 2 n 2 GLU 2 A GLN 3 n 3 GLN 3 A ARG 4 n 4 ARG 4 A ILE 5 n 5 ILE 5 A THR 6 n 6 THR 6 A LEU 7 n 7 LEU 7 A LYS 8 n 8 LYS 8 A ASP 9 n 9 ASP 9 A TYR 10 n 10 TYR 10 A ALA 11 n 11 ALA 11 A MET 12 n 12 MET 12 A ARG 13 n 13 ARG 13 A PHE 14 n 14 PHE 14 A GLY 15 n 15 GLY 15 A GLN 16 n 16 GLN 16 A THR 17 n 17 THR 17 A LYS 18 n 18 LYS 18 A THR 19 n 19 THR 19 A ALA 20 n 20 ALA 20 A LYS 21 n 21 LYS 21 A ASP 22 n 22 ASP 22 A LEU 23 n 23 LEU 23 A GLY 24 n 24 GLY 24 A VAL 25 n 25 VAL 25 A GLN 26 n 26 GLN 26 A GLN 27 n 27 GLN 27 A SER 28 n 28 SER 28 A ALA 29 n 29 ALA 29 A ILE 30 n 30 ILE 30 A ASN 31 n 31 ASN 31 A LYS 32 n 32 LYS 32 A TRP 33 n 33 TRP 33 A ILE 34 n 34 ILE 34 A HIS 35 n 35 HIS 35 A ALA 36 n 36 ALA 36 A GLY 37 n 37 GLY 37 A ARG 38 n 38 ARG 38 A LYS 39 n 39 LYS 39 A ILE 40 n 40 ILE 40 A PHE 41 n 41 PHE 41 A LEU 42 n 42 LEU 42 A THR 43 n 43 THR 43 A ILE 44 n 44 ILE 44 A ASN 45 n 45 ASN 45 A ALA 46 n 46 ALA 46 A ASP 47 n 47 ASP 47 A GLY 48 n 48 GLY 48 A SER 49 n 49 SER 49 A VAL 50 n 50 VAL 50 A TYR 51 n 51 TYR 51 A ALA 52 n 52 ALA 52 A GLU 53 n 53 GLU 53 A GLU 54 n 54 GLU 54 A VAL 55 n 55 VAL 55 A LYS 56 n 56 LYS 56 A PRO 57 n 57 PRO 57 A ASP 58 n 58 ASP 58 A PRO 59 n 59 PRO 59 A SER 60 n 60 SER 60 A ASN 61 n 61 ASN 61 A LYS 62 n 62 LYS 62 A LYS 63 n 63 LYS 63 A THR 64 n 64 THR 64 A THR 65 n 65 THR 65 A ALA 66 n 66 ALA 66 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 identity operation 0.0000000000 0.0000000000 0.0000000000 A N ILE 5 A N ILE 5 A O LEU 42 A O LEU 42 A N PHE 41 A N PHE 41 A O GLU 53 A O GLU 53 1 A PRO 57 -57.27 -161.69 2 A GLU 2 60.62 87.26 2 A GLN 3 -97.82 39.01 2 A LYS 39 -68.23 76.41 2 A LYS 62 -79.98 -168.79 2 A THR 64 -101.85 53.54 3 A PRO 59 -55.08 87.82 3 A THR 65 -148.04 32.81 4 A GLU 2 61.42 169.24 4 A GLN 3 -147.96 39.66 4 A ARG 13 -90.15 -69.07 4 A LYS 39 -66.04 87.84 4 A PRO 59 -65.31 65.15 4 A SER 60 56.03 89.71 5 A GLU 2 62.11 65.73 5 A GLN 3 -96.15 44.42 5 A ARG 13 -90.06 -72.49 5 A PRO 59 -68.32 67.57 5 A LYS 62 -105.89 -61.08 6 A GLN 3 -98.48 37.32 6 A ARG 13 -90.08 -63.84 6 A PRO 57 -71.95 -168.23 6 A SER 60 -176.71 -40.35 6 A LYS 63 -146.29 44.63 7 A SER 60 -155.25 -66.56 8 A GLU 2 -73.22 -169.79 8 A ARG 13 -84.66 -70.26 8 A LYS 56 -150.60 78.83 8 A ASP 58 49.39 71.65 8 A PRO 59 -56.12 86.42 8 A SER 60 -162.73 86.53 8 A LYS 62 -133.13 -43.02 9 A ASP 58 -160.26 79.07 9 A LYS 62 -131.22 -67.81 10 A ARG 13 -90.09 -70.44 10 A SER 60 -157.78 31.22 10 A LYS 62 -144.17 37.38 10 A THR 65 -98.21 -66.44 11 A GLU 2 62.63 118.97 11 A ARG 13 -90.06 -68.87 11 A LYS 39 -63.18 84.10 11 A SER 60 -170.56 78.03 11 A LYS 62 -158.44 -45.59 13 A GLU 2 60.64 170.34 13 A ARG 13 -90.02 -70.19 13 A PRO 57 -73.16 -169.31 13 A PRO 59 -67.96 87.31 13 A SER 60 -90.19 54.18 14 A GLN 3 -156.97 37.23 14 A ARG 13 -90.04 -60.67 14 A PRO 59 -68.36 78.44 14 A LYS 62 -146.17 -48.13 15 A PRO 59 -60.02 -150.31 15 A ASN 61 -160.07 56.07 15 A LYS 63 -158.19 -46.04 16 A GLN 3 -152.30 39.55 16 A PRO 57 -69.76 -167.62 16 A ASP 58 -116.54 64.61 16 A THR 65 -150.19 -47.15 17 A LYS 39 -63.34 87.26 17 A PRO 59 -43.64 94.31 17 A ASN 61 -79.79 -166.34 17 A THR 65 -140.66 31.34 18 A GLU 2 -168.30 117.75 18 A ARG 13 -90.04 -70.02 18 A SER 60 -142.17 -58.10 18 A LYS 62 -143.34 -58.76 18 A LYS 63 -160.07 97.19 19 A GLU 2 -154.83 56.07 19 A GLN 3 -97.46 38.97 19 A PRO 59 -62.10 76.06 19 A SER 60 52.65 83.70 20 A GLN 3 -159.22 36.78 20 A ARG 13 -90.06 -66.93 Solution structure of a stably monomeric mutant of lambda Cro produced by substitutions in the ball-and-socket interface 1 N N A LEU 7 A LEU 7 HELX_P A PHE 14 A PHE 14 1 1 8 A GLY 15 A GLY 15 HELX_P A GLY 24 A GLY 24 1 2 10 A GLN 26 A GLN 26 HELX_P A ALA 36 A ALA 36 1 3 11 VIRAL PROTEIN helix-turn-helix, monomer, ball-and-socket, VIRAL PROTEIN RCRO_LAMBD UNP 1 1 P03040 1 66 2A63 1 66 P03040 A 1 1 66 1 TYR engineered mutation GLN 26 2A63 A P03040 UNP 26 26 1 ALA engineered mutation TRP 33 2A63 A P03040 UNP 33 33 1 PHE engineered mutation ASP 58 2A63 A P03040 UNP 58 58 3 anti-parallel anti-parallel A ARG 4 A ARG 4 A THR 6 A THR 6 A ILE 40 A ILE 40 A ILE 44 A ILE 44 A VAL 50 A VAL 50 A GLU 54 A GLU 54