1.000000 0.000000 0.000000 0.000000 1.000000 0.000000 0.000000 0.000000 1.000000 0.00000 0.00000 0.00000 Banci, L. Bertini, I. Ciurli, S. Dikiy, A. Dittmer, J. Rosato, A. Sciara, G. Thompsett, A.R. http://mmcif.pdb.org/dictionaries/ascii/mmcif_pdbx.dic C3 H7 N O2 89.093 y ALANINE 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 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 GE Chembiochem 1439-4227 3 299 310 10.1002/1439-7633(20020402)3:4<299::AID-CBIC299>3.0.CO;2-0 11933230 NMR solution structure, backbone mobility, and homology modeling of c-type cytochromes from gram-positive bacteria. 2002 US Biochemistry BICHAW 0033 0006-2960 39 13115 13126 10.1021/bi000402j Crystal Structure of Oxidized Bacillus pasteurii cytochrome c-553 at 0.97-A Resolution 2000 GW J.Biol.Inorg.Chem. JJBCFA 2154 0949-8257 3 371 382 10.1007/s007750050247 Modulation of Bacillus pasteurii Cytochrome c553 Reduction Potential by Structural and Solution Parameters 1998 10.2210/pdb1k3g/pdb pdb_00001k3g There is a chirality error at the CA center of VAL22. 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 7115.937 cytochrome c-553 residues 22-92 1 man polymer 618.503 HEME C 1 syn non-polymer C553 no no VDAEAVVQQKCISCHGGDLTGASAPAIDKAGANYSEEEILDIILNGQGGMPGGIAKGAEAEAVAAWLAEKK VDAEAVVQQKCISCHGGDLTGASAPAIDKAGANYSEEEILDIILNGQGGMPGGIAKGAEAEAVAAWLAEKK 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 Sporosarcina Escherichia sample 1474 Sporosarcina pasteurii 562 Escherichia coli DH5alpha plasmid pEC86 database_2 pdbx_nmr_software pdbx_nmr_spectrometer pdbx_struct_assembly pdbx_struct_oper_list struct_conn struct_conn_type struct_site repository Initial release Version format compliance Version format compliance Data collection Database references Derived calculations 1 0 2001-10-31 1 1 2008-04-27 1 2 2011-07-13 1 3 2022-02-23 _database_2.pdbx_DOI _database_2.pdbx_database_accession _pdbx_nmr_software.name _pdbx_nmr_spectrometer.model _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_site.pdbx_auth_asym_id _struct_site.pdbx_auth_comp_id _struct_site.pdbx_auth_seq_id 1c75 is the X-ray structure of the cytochrome c553 from B. pasteurii. 1k3h is the minimized average of oxidized cytochrome c-553 from B. pasteurii. RCSB Y RCSB 2001-10-03 REL REL HEC HEME C target function 400 30 2D NOESY HNHA 1D NOE 10 mM phosphate buffer 7.5 Ambient 288 K PSEUDOCONTACT SHIFTS WERE INCLUDED AS CONSTRAINTS BY MEANS OF MODIFIED DYANA AND SANDER MODULES (PSEUDODYANA, PSEUDOREM) (BANCI ET AL., 1997) torsion angle dynamics, restrained energy minimization 1-3 mM oxidized cytochrome c-553 in 10 mM phosphate buffer 90%H2O+10%D2O; 100% D2O Bruker processing XwinNMR 2.6 Xia data analysis XEASY 1.3.13 Guentert structure solution DYANA 1.5 Kollman refinement Amber 5.0 800 Bruker AVANCE 700 Bruker AVANCE 600 Bruker AVANCE HEC 93 2 HEC HEC 93 A VAL 22 n 1 VAL 22 A ASP 23 n 2 ASP 23 A ALA 24 n 3 ALA 24 A GLU 25 n 4 GLU 25 A ALA 26 n 5 ALA 26 A VAL 27 n 6 VAL 27 A VAL 28 n 7 VAL 28 A GLN 29 n 8 GLN 29 A GLN 30 n 9 GLN 30 A LYS 31 n 10 LYS 31 A CYS 32 n 11 CYS 32 A ILE 33 n 12 ILE 33 A SER 34 n 13 SER 34 A CYS 35 n 14 CYS 35 A HIS 36 n 15 HIS 36 A GLY 37 n 16 GLY 37 A GLY 38 n 17 GLY 38 A ASP 39 n 18 ASP 39 A LEU 40 n 19 LEU 40 A THR 41 n 20 THR 41 A GLY 42 n 21 GLY 42 A ALA 43 n 22 ALA 43 A SER 44 n 23 SER 44 A ALA 45 n 24 ALA 45 A PRO 46 n 25 PRO 46 A ALA 47 n 26 ALA 47 A ILE 48 n 27 ILE 48 A ASP 49 n 28 ASP 49 A LYS 50 n 29 LYS 50 A ALA 51 n 30 ALA 51 A GLY 52 n 31 GLY 52 A ALA 53 n 32 ALA 53 A ASN 54 n 33 ASN 54 A TYR 55 n 34 TYR 55 A SER 56 n 35 SER 56 A GLU 57 n 36 GLU 57 A GLU 58 n 37 GLU 58 A GLU 59 n 38 GLU 59 A ILE 60 n 39 ILE 60 A LEU 61 n 40 LEU 61 A ASP 62 n 41 ASP 62 A ILE 63 n 42 ILE 63 A ILE 64 n 43 ILE 64 A LEU 65 n 44 LEU 65 A ASN 66 n 45 ASN 66 A GLY 67 n 46 GLY 67 A GLN 68 n 47 GLN 68 A GLY 69 n 48 GLY 69 A GLY 70 n 49 GLY 70 A MET 71 n 50 MET 71 A PRO 72 n 51 PRO 72 A GLY 73 n 52 GLY 73 A GLY 74 n 53 GLY 74 A ILE 75 n 54 ILE 75 A ALA 76 n 55 ALA 76 A LYS 77 n 56 LYS 77 A GLY 78 n 57 GLY 78 A ALA 79 n 58 ALA 79 A GLU 80 n 59 GLU 80 A ALA 81 n 60 ALA 81 A GLU 82 n 61 GLU 82 A ALA 83 n 62 ALA 83 A VAL 84 n 63 VAL 84 A ALA 85 n 64 ALA 85 A ALA 86 n 65 ALA 86 A TRP 87 n 66 TRP 87 A LEU 88 n 67 LEU 88 A ALA 89 n 68 ALA 89 A GLU 90 n 69 GLU 90 A LYS 91 n 70 LYS 91 A LYS 92 n 71 LYS 92 A author_defined_assembly 1 monomeric A HIS 36 A NE2 HIS 15 1_555 A HEC 93 B FE HEC 1_555 A HEC 93 B NA HEC 1_555 98.0 A HIS 36 A NE2 HIS 15 1_555 A HEC 93 B FE HEC 1_555 A HEC 93 B NB HEC 1_555 89.5 A HEC 93 B NA HEC 1_555 A HEC 93 B FE HEC 1_555 A HEC 93 B NB HEC 1_555 90.6 A HIS 36 A NE2 HIS 15 1_555 A HEC 93 B FE HEC 1_555 A HEC 93 B NC HEC 1_555 86.1 A HEC 93 B NA HEC 1_555 A HEC 93 B FE HEC 1_555 A HEC 93 B NC HEC 1_555 173.8 A HEC 93 B NB HEC 1_555 A HEC 93 B FE HEC 1_555 A HEC 93 B NC HEC 1_555 94.0 A HIS 36 A NE2 HIS 15 1_555 A HEC 93 B FE HEC 1_555 A HEC 93 B ND HEC 1_555 91.1 A HEC 93 B NA HEC 1_555 A HEC 93 B FE HEC 1_555 A HEC 93 B ND HEC 1_555 87.5 A HEC 93 B NB HEC 1_555 A HEC 93 B FE HEC 1_555 A HEC 93 B ND HEC 1_555 178.0 A HEC 93 B NC HEC 1_555 A HEC 93 B FE HEC 1_555 A HEC 93 B ND HEC 1_555 87.9 A HIS 36 A NE2 HIS 15 1_555 A HEC 93 B FE HEC 1_555 A MET 71 A SD MET 50 1_555 173.2 A HEC 93 B NA HEC 1_555 A HEC 93 B FE HEC 1_555 A MET 71 A SD MET 50 1_555 82.1 A HEC 93 B NB HEC 1_555 A HEC 93 B FE HEC 1_555 A MET 71 A SD MET 50 1_555 97.3 A HEC 93 B NC HEC 1_555 A HEC 93 B FE HEC 1_555 A MET 71 A SD MET 50 1_555 93.2 A HEC 93 B ND HEC 1_555 A HEC 93 B FE HEC 1_555 A MET 71 A SD MET 50 1_555 82.2 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 A CA VAL 22 WRONG HAND 11 A CA VAL 22 WRONG HAND 26 A CA VAL 22 WRONG HAND 11 A A VAL ASP 22 23 133.18 5 A TYR 55 0.084 SIDE CHAIN 9 A TYR 55 0.070 SIDE CHAIN 23 A TYR 55 0.087 SIDE CHAIN 1 11.61 1.90 111.40 123.01 A A A CB CA C VAL VAL VAL 22 22 22 N 1 9.09 1.50 110.90 119.99 A A A CA CB CG2 VAL VAL VAL 22 22 22 N 26 12.14 1.90 111.40 123.54 A A A CB CA C VAL VAL VAL 22 22 22 N 26 10.91 1.50 110.90 121.81 A A A CA CB CG2 VAL VAL VAL 22 22 22 N 1 A GLN 29 -57.34 -8.03 1 A LYS 31 -138.97 -59.44 1 A ALA 43 -131.27 -77.93 1 A GLN 68 177.37 135.64 2 A GLN 30 -142.60 59.23 2 A LYS 31 -173.08 -36.39 2 A ALA 43 -143.79 -71.56 2 A GLN 68 173.83 133.56 3 A GLN 29 -58.12 -7.20 3 A GLN 30 -142.82 33.10 3 A LYS 31 -153.92 -55.66 3 A ALA 43 -137.45 -75.83 3 A GLN 68 176.87 140.58 4 A LYS 31 -172.04 -38.58 4 A SER 34 -38.92 -36.75 4 A ALA 43 -143.52 -76.90 4 A LYS 50 -109.31 40.87 4 A GLN 68 176.31 131.38 4 A GLU 90 -84.70 35.65 5 A GLN 30 -146.43 48.60 5 A LYS 31 -162.46 -39.70 5 A SER 34 -37.38 -39.19 5 A ALA 43 -143.60 -79.77 5 A GLN 68 173.98 130.18 6 A GLN 30 -142.56 44.57 6 A LYS 31 -157.36 -39.98 6 A ALA 43 -151.79 -73.10 6 A GLN 68 176.51 136.28 7 A LYS 31 -161.28 -58.61 7 A ALA 43 -152.52 -80.34 7 A GLN 68 170.46 139.13 8 A LYS 31 -167.96 -38.97 8 A SER 34 -37.92 -38.55 8 A ALA 43 -135.39 -78.10 8 A GLN 68 174.30 132.87 9 A GLN 30 -141.71 43.67 9 A LYS 31 -153.18 -39.73 9 A SER 34 -37.75 -37.01 9 A ALA 43 -155.08 -72.98 9 A GLN 68 167.08 139.63 10 A LYS 31 -166.43 -38.90 10 A SER 34 -36.92 -39.31 10 A ALA 43 -156.24 -76.77 10 A GLN 68 167.03 140.72 11 A GLN 30 -144.67 55.10 11 A LYS 31 -167.25 -38.29 11 A ALA 43 -135.95 -79.55 11 A GLN 68 166.73 138.38 12 A ALA 24 -105.18 -64.12 12 A LYS 31 -152.37 -56.67 12 A ALA 43 -152.92 -81.92 12 A GLN 68 173.27 133.41 13 A LYS 31 -157.08 -47.31 13 A ALA 43 -128.50 -78.74 13 A GLN 68 169.25 138.62 14 A LYS 31 -135.86 -62.79 14 A ALA 43 -134.50 -79.44 14 A GLN 68 170.12 138.18 15 A GLN 30 -144.98 48.21 15 A LYS 31 -162.69 -49.28 15 A ALA 43 -145.35 -78.34 15 A GLN 68 165.70 129.74 15 A GLU 90 -90.28 36.78 16 A GLN 30 -141.01 56.73 16 A LYS 31 -170.47 -38.12 16 A SER 34 -38.64 -35.76 16 A ALA 43 -136.42 -75.82 16 A GLN 68 168.52 130.94 17 A GLN 30 -150.36 50.65 17 A LYS 31 -167.24 -37.34 17 A ALA 43 -138.39 -79.97 17 A GLN 68 178.29 135.65 18 A GLN 30 -141.77 47.76 18 A LYS 31 -166.71 -42.70 18 A SER 34 -38.47 -37.31 18 A ALA 43 -156.33 -78.03 18 A GLN 68 172.46 136.45 19 A GLN 30 -141.26 51.56 19 A LYS 31 -162.68 -36.63 19 A ALA 43 -156.80 -76.89 19 A GLN 68 174.63 141.72 20 A LYS 31 -172.20 -36.46 20 A ALA 43 -150.15 -80.38 20 A GLN 68 170.45 135.49 21 A LYS 31 -148.96 -66.85 21 A ALA 43 -145.40 -73.87 21 A ASN 54 -103.83 -61.78 21 A GLN 68 165.62 136.04 22 A GLN 29 -49.78 -19.39 22 A LYS 31 -145.96 -56.92 22 A ALA 43 -154.23 -81.36 23 A LYS 31 -168.50 -59.18 23 A LEU 40 80.16 15.29 23 A ALA 43 -164.80 -72.94 23 A GLN 68 170.72 137.45 24 A LYS 31 -178.22 -36.11 24 A ALA 43 -160.67 -79.82 24 A GLN 68 168.48 127.10 25 A GLN 30 -141.48 34.06 25 A LYS 31 -152.00 -62.62 25 A ALA 43 -150.88 -73.00 25 A GLN 68 167.41 133.36 26 A LYS 31 -163.50 -34.19 26 A ALA 43 -163.21 -79.16 26 A GLN 68 175.34 131.10 27 A ALA 24 -97.73 -61.94 27 A GLN 30 -142.62 59.04 27 A LYS 31 -179.81 -36.28 27 A SER 34 -38.17 -35.53 27 A ALA 43 -134.31 -80.13 27 A ASP 49 -38.99 -38.29 27 A GLN 68 171.66 133.01 28 A LYS 31 -173.82 -36.74 28 A SER 34 -37.82 -38.45 28 A ALA 43 -134.86 -78.42 28 A GLN 68 164.68 141.22 29 A GLN 30 -149.15 58.14 29 A LYS 31 178.34 -35.34 29 A SER 34 -38.23 -37.15 29 A ALA 43 -136.73 -75.47 29 A GLN 68 173.22 131.85 30 A ALA 24 -105.78 -62.39 30 A LYS 31 -146.59 -48.43 30 A ALA 43 -156.77 -79.94 30 A GLN 68 174.58 133.95 NMR Solution Structure of Oxidized Cytochrome c-553 from Bacillus pasteurii 1 N N 2 N N A ASP 23 A ASP 2 HELX_P A GLN 29 A GLN 8 1 1 7 A CYS 32 A CYS 11 HELX_P A GLY 37 A GLY 16 1 2 6 A LYS 50 A LYS 29 HELX_P A TYR 55 A TYR 34 1 3 6 A SER 56 A SER 35 HELX_P A GLY 67 A GLY 46 1 4 12 A GLY 78 A GLY 57 HELX_P A LYS 91 A LYS 70 1 5 14 covale 1.806 none A CYS 32 A SG CYS 11 1_555 A HEC 93 B CAB HEC 1_555 covale 1.813 none A CYS 35 A SG CYS 14 1_555 A HEC 93 B CAC HEC 1_555 metalc 1.982 A HIS 36 A NE2 HIS 15 1_555 A HEC 93 B FE HEC 1_555 metalc 2.407 A MET 71 A SD MET 50 1_555 A HEC 93 B FE HEC 1_555 ELECTRON TRANSPORT C-553, HEME, CYTOCHROME, BACILLUS PASTEURII, ELECTRON TRANSFER, ELECTRON TRANSPORT CY553_BACPA UNP 1 22 P82599 VDAEAVVQQKCISCHGGDLTGASAPAIDKAGANYSEEEILDIILNGQGGMPGGIAKGAEAEAVAAWLAEKK 22 92 1K3G 22 92 P82599 A 1 1 71 BINDING SITE FOR RESIDUE HEC A 93 A HEC 93 Software 17 A LYS 31 A LYS 10 17 1_555 A CYS 32 A CYS 11 17 1_555 A CYS 35 A CYS 14 17 1_555 A HIS 36 A HIS 15 17 1_555 A ALA 45 A ALA 24 17 1_555 A PRO 46 A PRO 25 17 1_555 A ILE 48 A ILE 27 17 1_555 A TYR 55 A TYR 34 17 1_555 A ILE 60 A ILE 39 17 1_555 A ILE 63 A ILE 42 17 1_555 A ILE 64 A ILE 43 17 1_555 A GLN 68 A GLN 47 17 1_555 A GLY 69 A GLY 48 17 1_555 A GLY 70 A GLY 49 17 1_555 A MET 71 A MET 50 17 1_555 A ILE 75 A ILE 54 17 1_555 A VAL 84 A VAL 63 17 1_555