1.000000 0.000000 0.000000 0.000000 1.000000 0.000000 0.000000 0.000000 1.000000 0.00000 0.00000 0.00000 Assfalg, M. Bertini, I. Dolfi, A. Turano, P. Mauk, A.G. Rosell, F.I. Gray, H.B. 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 C34 H34 Fe N4 O4 618.503 HEME C non-polymer 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 J.Am.Chem.Soc. JACSAT 0004 0002-7863 125 2913 2922 10.1021/ja027180s 12617658 Structural model for an alkaline form of ferricytochrome c 2003 10.2210/pdb1lms/pdb pdb_00001lms 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 11955.591 Cytochrome c, iso-1 K72A,K79A,C102T 1 man polymer 618.503 HEME C 1 syn non-polymer no no TEFKAGSAKKGATLFKTRCLQCHTVEKGGPHKVGPNLHGIFGRHSGQAEGYSYTDANIKKNVLWDENNMSEYLTNPAKYI PGTAMAFGGLKKEKDRNDLITYLKKATE TEFKAGSAKKGATLFKTRCLQCHTVEKGGPHKVGPNLHGIFGRHSGQAEGYSYTDANIKKNVLWDENNMSEYLTNPAKYI PGTAMAFGGLKKEKDRNDLITYLKKATE 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 baker's yeast Saccharomyces Escherichia sample 4932 Saccharomyces cerevisiae 562 Escherichia coli database_2 pdbx_nmr_software pdbx_struct_assembly pdbx_struct_oper_list struct_conn struct_conn_type struct_ref_seq_dif struct_site repository Initial release Version format compliance Version format compliance Data collection Database references Derived calculations 1 0 2003-03-18 1 1 2008-04-28 1 2 2011-07-13 1 3 2021-10-27 _database_2.pdbx_DOI _database_2.pdbx_database_accession _pdbx_nmr_software.name _struct_conn.conn_type_id _struct_conn.id _struct_conn.pdbx_dist_value _struct_conn.pdbx_leaving_atom_flag _struct_conn.ptnr1_auth_comp_id _struct_conn.ptnr1_auth_seq_id _struct_conn.ptnr1_label_atom_id _struct_conn.ptnr1_label_comp_id _struct_conn.ptnr1_label_seq_id _struct_conn.ptnr2_label_atom_id _struct_conn_type.id _struct_ref_seq_dif.details _struct_site.pdbx_auth_asym_id _struct_site.pdbx_auth_comp_id _struct_site.pdbx_auth_seq_id Contains the solution structure of the native yeast iso-1-ferricytochrome c RCSB Y RCSB 2002-05-02 REL REL HEC HEME C The coordinates of residues -5 to 8 are not included, although present in the sequence, because no constraints were available 1 2D NOESY 2D TOCSY 3D_15N-separated_NOESY 50 mM phosphate 11.1 1 atm 298 K simulated annealing in torsion angle space minimized average structure 2mM protein 50 mM phosphate buffer; 90% H2O, 10% D2O; pH 11.1 Guentert structure solution DYANA 1.5 iterative matrix relaxation CORMA CASE AND KOLLMAN refinement Amber 6.0 800 Bruker DRX HEC 118 2 HEC HEC 118 A n 1 -4 A n 2 -3 A n 3 -2 A n 4 -1 A n 5 0 A n 6 1 A n 7 2 A n 8 3 A n 9 4 A n 10 5 A n 11 6 A n 12 7 A n 13 8 A LEU 9 n 14 LEU 9 A PHE 10 n 15 PHE 10 A LYS 11 n 16 LYS 11 A THR 12 n 17 THR 12 A ARG 13 n 18 ARG 13 A CYS 14 n 19 CYS 14 A LEU 15 n 20 LEU 15 A GLN 16 n 21 GLN 16 A CYS 17 n 22 CYS 17 A HIS 18 n 23 HIS 18 A THR 19 n 24 THR 19 A VAL 20 n 25 VAL 20 A GLU 21 n 26 GLU 21 A LYS 22 n 27 LYS 22 A GLY 23 n 28 GLY 23 A GLY 24 n 29 GLY 24 A PRO 25 n 30 PRO 25 A HIS 26 n 31 HIS 26 A LYS 27 n 32 LYS 27 A VAL 28 n 33 VAL 28 A GLY 29 n 34 GLY 29 A PRO 30 n 35 PRO 30 A ASN 31 n 36 ASN 31 A LEU 32 n 37 LEU 32 A HIS 33 n 38 HIS 33 A GLY 34 n 39 GLY 34 A ILE 35 n 40 ILE 35 A PHE 36 n 41 PHE 36 A GLY 37 n 42 GLY 37 A ARG 38 n 43 ARG 38 A HIS 39 n 44 HIS 39 A SER 40 n 45 SER 40 A GLY 41 n 46 GLY 41 A GLN 42 n 47 GLN 42 A ALA 43 n 48 ALA 43 A GLU 44 n 49 GLU 44 A GLY 45 n 50 GLY 45 A TYR 46 n 51 TYR 46 A SER 47 n 52 SER 47 A TYR 48 n 53 TYR 48 A THR 49 n 54 THR 49 A ASP 50 n 55 ASP 50 A ALA 51 n 56 ALA 51 A ASN 52 n 57 ASN 52 A ILE 53 n 58 ILE 53 A LYS 54 n 59 LYS 54 A LYS 55 n 60 LYS 55 A ASN 56 n 61 ASN 56 A VAL 57 n 62 VAL 57 A LEU 58 n 63 LEU 58 A TRP 59 n 64 TRP 59 A ASP 60 n 65 ASP 60 A GLU 61 n 66 GLU 61 A ASN 62 n 67 ASN 62 A ASN 63 n 68 ASN 63 A MET 64 n 69 MET 64 A SER 65 n 70 SER 65 A GLU 66 n 71 GLU 66 A TYR 67 n 72 TYR 67 A LEU 68 n 73 LEU 68 A THR 69 n 74 THR 69 A ASN 70 n 75 ASN 70 A PRO 71 n 76 PRO 71 A ALA 72 n 77 ALA 72 A LYS 73 n 78 LYS 73 A TYR 74 n 79 TYR 74 A ILE 75 n 80 ILE 75 A PRO 76 n 81 PRO 76 A GLY 77 n 82 GLY 77 A THR 78 n 83 THR 78 A ALA 79 n 84 ALA 79 A MET 80 n 85 MET 80 A ALA 81 n 86 ALA 81 A PHE 82 n 87 PHE 82 A GLY 83 n 88 GLY 83 A GLY 84 n 89 GLY 84 A LEU 85 n 90 LEU 85 A LYS 86 n 91 LYS 86 A LYS 87 n 92 LYS 87 A GLU 88 n 93 GLU 88 A LYS 89 n 94 LYS 89 A ASP 90 n 95 ASP 90 A ARG 91 n 96 ARG 91 A ASN 92 n 97 ASN 92 A ASP 93 n 98 ASP 93 A LEU 94 n 99 LEU 94 A ILE 95 n 100 ILE 95 A THR 96 n 101 THR 96 A TYR 97 n 102 TYR 97 A LEU 98 n 103 LEU 98 A LYS 99 n 104 LYS 99 A LYS 100 n 105 LYS 100 A ALA 101 n 106 ALA 101 A THR 102 n 107 THR 102 A GLU 103 n 108 GLU 103 A author_defined_assembly 1 monomeric A HIS 18 A NE2 HIS 23 1_555 A HEC 118 B FE HEC 1_555 A HEC 118 B NA HEC 1_555 90.4 A HIS 18 A NE2 HIS 23 1_555 A HEC 118 B FE HEC 1_555 A HEC 118 B NB HEC 1_555 91.9 A HEC 118 B NA HEC 1_555 A HEC 118 B FE HEC 1_555 A HEC 118 B NB HEC 1_555 90.6 A HIS 18 A NE2 HIS 23 1_555 A HEC 118 B FE HEC 1_555 A HEC 118 B NC HEC 1_555 88.4 A HEC 118 B NA HEC 1_555 A HEC 118 B FE HEC 1_555 A HEC 118 B NC HEC 1_555 178.3 A HEC 118 B NB HEC 1_555 A HEC 118 B FE HEC 1_555 A HEC 118 B NC HEC 1_555 90.7 A HIS 18 A NE2 HIS 23 1_555 A HEC 118 B FE HEC 1_555 A HEC 118 B ND HEC 1_555 83.3 A HEC 118 B NA HEC 1_555 A HEC 118 B FE HEC 1_555 A HEC 118 B ND HEC 1_555 90.3 A HEC 118 B NB HEC 1_555 A HEC 118 B FE HEC 1_555 A HEC 118 B ND HEC 1_555 175.2 A HEC 118 B NC HEC 1_555 A HEC 118 B FE HEC 1_555 A HEC 118 B ND HEC 1_555 88.4 A HIS 18 A NE2 HIS 23 1_555 A HEC 118 B FE HEC 1_555 A LYS 73 A NZ LYS 78 1_555 169.6 A HEC 118 B NA HEC 1_555 A HEC 118 B FE HEC 1_555 A LYS 73 A NZ LYS 78 1_555 93.1 A HEC 118 B NB HEC 1_555 A HEC 118 B FE HEC 1_555 A LYS 73 A NZ LYS 78 1_555 97.8 A HEC 118 B NC HEC 1_555 A HEC 118 B FE HEC 1_555 A LYS 73 A NZ LYS 78 1_555 87.9 A HEC 118 B ND HEC 1_555 A HEC 118 B FE HEC 1_555 A LYS 73 A NZ LYS 78 1_555 86.9 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 ARG 38 A N ARG 43 A O TRP 59 A O TRP 64 1 A THR -4 A THR 1 1 Y 1 A GLU -3 A GLU 2 1 Y 1 A PHE -2 A PHE 3 1 Y 1 A LYS -1 A LYS 4 1 Y 1 A ALA 0 A ALA 5 1 Y 1 A GLY 1 A GLY 6 1 Y 1 A SER 2 A SER 7 1 Y 1 A ALA 3 A ALA 8 1 Y 1 A LYS 4 A LYS 9 1 Y 1 A LYS 5 A LYS 10 1 Y 1 A GLY 6 A GLY 11 1 Y 1 A ALA 7 A ALA 12 1 Y 1 A THR 8 A THR 13 1 Y 1 A A HIS THR 18 19 147.82 1 A A GLU LYS 21 22 139.75 1 A A PRO HIS 25 26 -142.13 1 A A HIS LYS 26 27 149.07 1 A A LYS VAL 27 28 -115.64 1 A A TYR SER 46 47 -121.93 1 A A ASP GLU 60 61 -143.14 1 A A GLY THR 77 78 -138.49 1 A A ALA MET 79 80 -129.26 1 A A ALA PHE 81 82 148.54 1 A A PHE GLY 82 83 118.74 1 A A GLY LEU 84 85 120.39 1 A A LEU LYS 85 86 -144.55 1 A A LYS LYS 86 87 -121.45 1 A A LYS GLU 87 88 149.94 1 A A GLU LYS 88 89 -138.91 1 A ARG 38 0.141 SIDE CHAIN 1 A TYR 46 0.111 SIDE CHAIN 1 A PHE 82 0.170 SIDE CHAIN 1 A ARG 91 0.130 SIDE CHAIN 1 -4.21 0.60 121.00 116.79 A A A CB CG CD2 TYR TYR TYR 74 74 74 N 1 12.67 2.00 110.90 123.57 A A A CA CB CG2 ILE ILE ILE 75 75 75 N 1 A LYS 11 -26.14 -41.73 1 A CYS 14 -144.93 51.22 1 A VAL 20 -136.44 -34.83 1 A LYS 22 70.09 114.74 1 A LYS 27 27.05 -86.44 1 A VAL 28 -101.15 -124.04 1 A HIS 33 61.59 -19.63 1 A SER 40 56.01 -178.17 1 A GLU 44 -63.79 9.43 1 A TYR 48 -58.64 7.72 1 A THR 49 -37.95 10.70 1 A ASP 50 -178.98 44.49 1 A ALA 51 179.74 -96.50 1 A ASP 60 -176.57 82.23 1 A GLU 61 -169.81 -153.33 1 A ASN 62 -149.03 -56.96 1 A PRO 71 -69.18 71.51 1 A ALA 72 -141.64 -40.14 1 A TYR 74 -169.05 90.43 1 A ALA 79 67.19 -164.68 1 A MET 80 -172.55 -61.71 1 A ALA 81 -72.68 29.12 1 A LYS 86 -155.54 -43.92 1 A GLU 88 35.77 -100.24 1 A LYS 89 -172.89 38.38 minimized average Structural model for an alkaline form of ferricytochrome c 1 N N 2 N N A LEU 9 A LEU 14 HELX_P A CYS 14 A CYS 19 1 1 6 A ALA 51 A ALA 56 HELX_P A ASN 56 A ASN 61 1 2 6 A ASN 62 A ASN 67 HELX_P A ASN 70 A ASN 75 1 3 9 A LYS 89 A LYS 94 HELX_P A GLU 103 A GLU 108 1 4 15 covale 1.829 none A CYS 14 A SG CYS 19 1_555 A HEC 118 B CAB HEC 1_555 covale 1.812 none A CYS 17 A SG CYS 22 1_555 A HEC 118 B CAC HEC 1_555 metalc 1.961 A HIS 18 A NE2 HIS 23 1_555 A HEC 118 B FE HEC 1_555 metalc 2.037 A LYS 73 A NZ LYS 78 1_555 A HEC 118 B FE HEC 1_555 ELECTRON TRANSPORT alkaline transition; cytochrome c; NMR structure, ELECTRON TRANSPORT CYC1_YEAST UNP 1 1 P00044 TEFKAGSAKKGATLFKTRCLQCHTVEKGGPHKVGPNLHGIFGRHSGQAEGYSYTDANIKKNVLWDENNMSEYLTNPKKYI PGTKMAFGGLKKEKDRNDLITYLKKACE 1 108 1LMS -4 103 P00044 A 1 1 108 1 LYS engineered mutation ALA 72 1LMS A P00044 UNP 77 77 1 LYS engineered mutation ALA 79 1LMS A P00044 UNP 84 84 1 CYS engineered mutation THR 102 1LMS A P00044 UNP 107 107 2 anti-parallel A ARG 38 A ARG 43 A HIS 39 A HIS 44 A LEU 58 A LEU 63 A TRP 59 A TRP 64 BINDING SITE FOR RESIDUE HEC A 118 A HEC 118 Software 12 A CYS 14 A CYS 19 12 1_555 A GLN 16 A GLN 21 12 1_555 A CYS 17 A CYS 22 12 1_555 A HIS 18 A HIS 23 12 1_555 A VAL 28 A VAL 33 12 1_555 A LEU 32 A LEU 37 12 1_555 A GLY 41 A GLY 46 12 1_555 A TYR 48 A TYR 53 12 1_555 A ASN 52 A ASN 57 12 1_555 A TRP 59 A TRP 64 12 1_555 A LYS 73 A LYS 78 12 1_555 A PHE 82 A PHE 87 12 1_555