1.000000 0.000000 0.000000 0.000000 1.000000 0.000000 0.000000 0.000000 1.000000 0.00000 0.00000 0.00000 Yao, Y. Tong, Y. Liu, G. Wang, J. Zheng, J. Tang, W. 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 C3 H5 N2 1 69.085 IMIDAZOLE non-polymer 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 imidazole complex of iso-1 cytochrome c 10.2210/pdb1nmi/pdb pdb_00001nmi 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 12071.796 Cytochrome c, iso-1 1 man polymer 69.085 IMIDAZOLE 1 syn non-polymer 618.503 HEME C 1 syn non-polymer no no TEFKAGSAKKGATLFKTRCLQCHTVEKGGPHKVGPNLHGIFGRHSGQAEGYSYTDANIKKNVLWDENNMSEYLTNPKKYI PGTKMAFGGLKKEKDRNDLITYLKKATE TEFKAGSAKKGATLFKTRCLQCHTVEKGGPHKVGPNLHGIFGRHSGQAEGYSYTDANIKKNVLWDENNMSEYLTNPKKYI PGTKMAFGGLKKEKDRNDLITYLKKATE 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_conn_angle 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 2003-02-04 1 1 2008-04-29 1 2 2011-07-13 1 3 2022-02-23 _database_2.pdbx_DOI _database_2.pdbx_database_accession _pdbx_nmr_software.name _pdbx_struct_conn_angle.ptnr1_auth_comp_id _pdbx_struct_conn_angle.ptnr1_auth_seq_id _pdbx_struct_conn_angle.ptnr1_label_asym_id _pdbx_struct_conn_angle.ptnr1_label_atom_id _pdbx_struct_conn_angle.ptnr1_label_comp_id _pdbx_struct_conn_angle.ptnr1_label_seq_id _pdbx_struct_conn_angle.ptnr3_auth_comp_id _pdbx_struct_conn_angle.ptnr3_auth_seq_id _pdbx_struct_conn_angle.ptnr3_label_asym_id _pdbx_struct_conn_angle.ptnr3_label_atom_id _pdbx_struct_conn_angle.ptnr3_label_comp_id _pdbx_struct_conn_angle.ptnr3_label_seq_id _pdbx_struct_conn_angle.value _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_asym_id _struct_conn.ptnr1_label_atom_id _struct_conn.ptnr1_label_comp_id _struct_conn.ptnr1_label_seq_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_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 RCSB Y PDBJ 2003-01-10 REL IMD IMIDAZOLE HEC HEME C structures with acceptable covalent geometry 200 1 2D TOCSY 2D NOESY DQF-COSY 3D_15N-separated_NOESY 7.0 298 K Restrained Energy Minimization 1 minimized average structure 1mM iso-1 cytochrome c, 120mM d5imidazole H2O 1mM 15N labeled iso-1 cytochrome c, 120mM d5imidazole H2O processing XwinNMR 2.6 structure solution DYANA 1.5 refinement DYANA 1.5 600 Bruker DMX 500 Bruker DRX IMD 104 2 IMD IMD 104 A HES 18 3 HEC HEC 1018 A THR -5 n 1 THR -5 A GLU -4 n 2 GLU -4 A PHE -3 n 3 PHE -3 A LYS -2 n 4 LYS -2 A ALA -1 n 5 ALA -1 A GLY 1 n 6 GLY 1 A SER 2 n 7 SER 2 A ALA 3 n 8 ALA 3 A LYS 4 n 9 LYS 4 A LYS 5 n 10 LYS 5 A GLY 6 n 11 GLY 6 A ALA 7 n 12 ALA 7 A THR 8 n 13 THR 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 HES 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 LYS 72 n 77 LYS 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 LYS 79 n 84 LYS 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 1018 C FE HEC 1_555 A HEC 1018 C NA HEC 1_555 91.0 A HIS 18 A NE2 HIS 23 1_555 A HEC 1018 C FE HEC 1_555 A HEC 1018 C NB HEC 1_555 88.9 A HEC 1018 C NA HEC 1_555 A HEC 1018 C FE HEC 1_555 A HEC 1018 C NB HEC 1_555 90.7 A HIS 18 A NE2 HIS 23 1_555 A HEC 1018 C FE HEC 1_555 A HEC 1018 C NC HEC 1_555 88.5 A HEC 1018 C NA HEC 1_555 A HEC 1018 C FE HEC 1_555 A HEC 1018 C NC HEC 1_555 179.3 A HEC 1018 C NB HEC 1_555 A HEC 1018 C FE HEC 1_555 A HEC 1018 C NC HEC 1_555 89.9 A HIS 18 A NE2 HIS 23 1_555 A HEC 1018 C FE HEC 1_555 A HEC 1018 C ND HEC 1_555 87.5 A HEC 1018 C NA HEC 1_555 A HEC 1018 C FE HEC 1_555 A HEC 1018 C ND HEC 1_555 89.9 A HEC 1018 C NB HEC 1_555 A HEC 1018 C FE HEC 1_555 A HEC 1018 C ND HEC 1_555 176.4 A HEC 1018 C NC HEC 1_555 A HEC 1018 C FE HEC 1_555 A HEC 1018 C ND HEC 1_555 89.5 A HIS 18 A NE2 HIS 23 1_555 A HEC 1018 C FE HEC 1_555 A IMD 104 B N1 IMD 1_555 176.7 A HEC 1018 C NA HEC 1_555 A HEC 1018 C FE HEC 1_555 A IMD 104 B N1 IMD 1_555 91.7 A HEC 1018 C NB HEC 1_555 A HEC 1018 C FE HEC 1_555 A IMD 104 B N1 IMD 1_555 92.9 A HEC 1018 C NC HEC 1_555 A HEC 1018 C FE HEC 1_555 A IMD 104 B N1 IMD 1_555 88.7 A HEC 1018 C ND HEC 1_555 A HEC 1018 C FE HEC 1_555 A IMD 104 B N1 IMD 1_555 90.6 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 A ARG 13 0.145 SIDE CHAIN 1 A HIS 18 0.109 SIDE CHAIN 1 A ARG 38 0.085 SIDE CHAIN 1 A TYR 48 0.114 SIDE CHAIN 1 A TYR 74 0.072 SIDE CHAIN 1 -3.24 0.50 120.30 117.06 A A A NE CZ NH2 ARG ARG ARG 13 13 13 N 1 A SER 2 -104.78 -62.60 1 A ARG 13 -133.47 -60.76 1 A LYS 22 -65.39 96.07 1 A VAL 28 -121.52 -51.40 1 A ARG 38 -142.16 -102.99 1 A HIS 39 -179.40 -177.59 1 A SER 40 -66.10 82.18 1 A GLN 42 -92.84 46.17 1 A LYS 54 -53.76 -77.70 1 A LYS 55 26.71 46.01 1 A ASN 56 15.23 68.63 1 A THR 69 -104.80 -65.00 1 A LYS 72 51.92 -137.47 1 A LYS 73 70.57 -33.36 1 A ILE 75 20.12 56.92 1 A THR 78 -21.77 -66.22 1 A LYS 79 -167.78 -71.40 1 A LYS 86 -162.00 -49.56 minimized average Solution structure of the imidazole complex of iso-1 cytochrome c 1 N N 2 N N 3 N N A LYS 5 A LYS 10 HELX_P A THR 12 A THR 17 1 1 8 A ASP 50 A ASP 55 HELX_P A LYS 55 A LYS 60 1 2 6 A ASP 60 A ASP 65 HELX_P A LEU 68 A LEU 73 1 3 9 A LYS 87 A LYS 92 HELX_P A GLU 103 A GLU 108 1 4 17 covale 1.830 none A CYS 14 A SG CYS 19 1_555 A HEC 1018 C CAB HEC 1_555 covale 1.843 none A CYS 17 A SG CYS 22 1_555 A HEC 1018 C CAC HEC 1_555 metalc 1.943 A HIS 18 A NE2 HIS 23 1_555 A HEC 1018 C FE HEC 1_555 metalc 1.985 A IMD 104 B N1 IMD 1_555 A HEC 1018 C FE HEC 1_555 ELECTRON TRANSPORT ligand-protein complex, ELECTRON TRANSPORT CYC1_YEAST UNP 1 1 P00044 TEFKAGSAKKGATLFKTRCLQCHTVEKGGPHKVGPNLHGIFGRHSGQAEGYSYTDANIKKNVLWDENNMSEYLTNPKKYI PGTKMAFGGLKKEKDRNDLITYLKKACE 1 108 1NMI -5 103 P00044 A 1 1 108 1 CYS conflict THR 102 1NMI A P00044 UNP 107 107 BINDING SITE FOR RESIDUE IMD A 104 A IMD 104 Software 3 BINDING SITE FOR RESIDUE HEC A 1018 A HEC 1018 Software 21 A TYR 67 A TYR 72 3 1_555 A ALA 81 A ALA 86 3 1_555 A HEC 1018 C HEC 3 1_555 A ARG 13 A ARG 18 21 1_555 A CYS 14 A CYS 19 21 1_555 A CYS 17 A CYS 22 21 1_555 A HIS 18 A HIS 23 21 1_555 A PRO 30 A PRO 35 21 1_555 A LEU 32 A LEU 37 21 1_555 A ILE 35 A ILE 40 21 1_555 A TYR 48 A TYR 53 21 1_555 A ASP 50 A ASP 55 21 1_555 A TRP 59 A TRP 64 21 1_555 A MET 64 A MET 69 21 1_555 A LEU 68 A LEU 73 21 1_555 A PRO 76 A PRO 81 21 1_555 A THR 78 A THR 83 21 1_555 A LYS 79 A LYS 84 21 1_555 A MET 80 A MET 85 21 1_555 A ALA 81 A ALA 86 21 1_555 A PHE 82 A PHE 87 21 1_555 A LEU 94 A LEU 99 21 1_555 A LEU 98 A LEU 103 21 1_555 A IMD 104 B IMD 21 1_555