1.000000 0.000000 0.000000 0.000000 1.000000 0.000000 0.000000 0.000000 1.000000 0.00000 0.00000 0.00000 Arnesano, F. Banci, L. Bertini, I. Felli, I.C. http://mmcif.pdb.org/dictionaries/ascii/mmcif_pdbx.dic 1 90.00 90.00 90.00 1.000 1.000 1.000 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 C34 H32 Fe N4 O4 616.487 PROTOPORPHYRIN IX CONTAINING FE HEME 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 IX Eur.J.Biochem. EJBCAI 0262 0014-2956 260 347 354 10.1046/j.1432-1327.1999.00167.x 10095768 Solution structure of the B form of oxidized rat microsomal cytochrome b5 and backbone dynamics via 15N rotating-frame NMR-relaxation measurements. Biological implications. 1999 10.2210/pdb1bfx/pdb pdb_00001bfx 1.000000 0.000000 0.000000 0.000000 1.000000 0.000000 0.000000 0.000000 1.000000 0.00000 0.00000 0.00000 FROM RAT MICROSOMAL MEMBRANE 11360.501 CYTOCHROME B5 SOLUBLE DOMAIN 1 man polymer 616.487 PROTOPORPHYRIN IX CONTAINING FE 1 syn non-polymer no no MAEQSDKDVKYYTLEEIQKHKDSKSTWVILHHKVYDLTKFLEEHPGGEEVLREQAGGDATENFEDVGHSTDARELSKTYI IGELHPDDRSKIAKPSETL MAEQSDKDVKYYTLEEIQKHKDSKSTWVILHHKVYDLTKFLEEHPGGEEVLREQAGGDATENFEDVGHSTDARELSKTYI IGELHPDDRSKIAKPSETL 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 Norway rat Rattus Escherichia sample 10116 LIVER MICROSOME Rattus norvegicus CYTOPLASM 562 Escherichia coli NM522 PLASMID PUC 13 database_2 pdbx_database_status pdbx_nmr_software pdbx_struct_assembly pdbx_struct_oper_list struct_conn struct_site repository Initial release Version format compliance Version format compliance Data collection Database references Derived calculations Other 1 0 1998-08-12 1 1 2008-03-03 1 2 2011-07-13 1 3 2022-02-16 _database_2.pdbx_DOI _database_2.pdbx_database_accession _pdbx_database_status.process_site _pdbx_nmr_software.name _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_site.pdbx_auth_asym_id _struct_site.pdbx_auth_comp_id _struct_site.pdbx_auth_seq_id Y BNL 1998-05-23 REL HEM PROTOPORPHYRIN IX CONTAINING FE MINIMIZED AVERAGE 40 1 NOESY TOCSY PHOSPHATE 1mM 7 1 atm 298 K PSEUDOREM (BANCI, BERTINI, GORI SAVELLINI, ROMAGNOLI, TURANO, CREMONINI, LUCHINAT, GRAY) ALSO WAS USED. TORSION ANGLE MOLECULAR DYNAMICS SIMULATED ANNEALING, RESTRAINED ENERGY MINIMIZATION. PSEUDOCONTACT SHIFTS WERE USED IN THE CALCULATION AND IN THE MINIMIZATION AS FURTHER NON-CLASSICAL CONSTRAINTS. H2O AND D2O PEARLMAN,CASE,CALDWELL,ROSS,CHEATHAM, FERGUSON,SEIBEL,SINGH,WEINER,KOLLMAN refinement Amber structure solution DYANA structure solution PSEUDYANA structure solution Amber 800 Bruker AVANCE 800 MHZ HEM 96 2 HEM HEM 96 A n 1 -4 A n 2 -3 A n 3 -2 A n 4 -1 A n 5 0 A ASP 1 n 6 ASP 1 A LYS 2 n 7 LYS 2 A ASP 3 n 8 ASP 3 A VAL 4 n 9 VAL 4 A LYS 5 n 10 LYS 5 A TYR 6 n 11 TYR 6 A TYR 7 n 12 TYR 7 A THR 8 n 13 THR 8 A LEU 9 n 14 LEU 9 A GLU 10 n 15 GLU 10 A GLU 11 n 16 GLU 11 A ILE 12 n 17 ILE 12 A GLN 13 n 18 GLN 13 A LYS 14 n 19 LYS 14 A HIS 15 n 20 HIS 15 A LYS 16 n 21 LYS 16 A ASP 17 n 22 ASP 17 A SER 18 n 23 SER 18 A LYS 19 n 24 LYS 19 A SER 20 n 25 SER 20 A THR 21 n 26 THR 21 A TRP 22 n 27 TRP 22 A VAL 23 n 28 VAL 23 A ILE 24 n 29 ILE 24 A LEU 25 n 30 LEU 25 A HIS 26 n 31 HIS 26 A HIS 27 n 32 HIS 27 A LYS 28 n 33 LYS 28 A VAL 29 n 34 VAL 29 A TYR 30 n 35 TYR 30 A ASP 31 n 36 ASP 31 A LEU 32 n 37 LEU 32 A THR 33 n 38 THR 33 A LYS 34 n 39 LYS 34 A PHE 35 n 40 PHE 35 A LEU 36 n 41 LEU 36 A GLU 37 n 42 GLU 37 A GLU 38 n 43 GLU 38 A HIS 39 n 44 HIS 39 A PRO 40 n 45 PRO 40 A GLY 41 n 46 GLY 41 A GLY 42 n 47 GLY 42 A GLU 43 n 48 GLU 43 A GLU 44 n 49 GLU 44 A VAL 45 n 50 VAL 45 A LEU 46 n 51 LEU 46 A ARG 47 n 52 ARG 47 A GLU 48 n 53 GLU 48 A GLN 49 n 54 GLN 49 A ALA 50 n 55 ALA 50 A GLY 51 n 56 GLY 51 A GLY 52 n 57 GLY 52 A ASP 53 n 58 ASP 53 A ALA 54 n 59 ALA 54 A THR 55 n 60 THR 55 A GLU 56 n 61 GLU 56 A ASN 57 n 62 ASN 57 A PHE 58 n 63 PHE 58 A GLU 59 n 64 GLU 59 A ASP 60 n 65 ASP 60 A VAL 61 n 66 VAL 61 A GLY 62 n 67 GLY 62 A HIS 63 n 68 HIS 63 A SER 64 n 69 SER 64 A THR 65 n 70 THR 65 A ASP 66 n 71 ASP 66 A ALA 67 n 72 ALA 67 A ARG 68 n 73 ARG 68 A GLU 69 n 74 GLU 69 A LEU 70 n 75 LEU 70 A SER 71 n 76 SER 71 A LYS 72 n 77 LYS 72 A THR 73 n 78 THR 73 A TYR 74 n 79 TYR 74 A ILE 75 n 80 ILE 75 A ILE 76 n 81 ILE 76 A GLY 77 n 82 GLY 77 A GLU 78 n 83 GLU 78 A LEU 79 n 84 LEU 79 A HIS 80 n 85 HIS 80 A PRO 81 n 86 PRO 81 A ASP 82 n 87 ASP 82 A ASP 83 n 88 ASP 83 A ARG 84 n 89 ARG 84 A SER 85 n 90 SER 85 A LYS 86 n 91 LYS 86 A ILE 87 n 92 ILE 87 A ALA 88 n 93 ALA 88 A LYS 89 n 94 LYS 89 A PRO 90 n 95 PRO 90 A SER 91 n 96 SER 91 A GLU 92 n 97 GLU 92 A THR 93 n 98 THR 93 A LEU 94 n 99 LEU 94 A author_defined_assembly 1 monomeric A HIS 39 A NE2 HIS 44 1_555 A HEM 96 B FE HEM 1_555 A HEM 96 B NA HEM 1_555 89.2 A HIS 39 A NE2 HIS 44 1_555 A HEM 96 B FE HEM 1_555 A HEM 96 B NB HEM 1_555 91.1 A HEM 96 B NA HEM 1_555 A HEM 96 B FE HEM 1_555 A HEM 96 B NB HEM 1_555 92.4 A HIS 39 A NE2 HIS 44 1_555 A HEM 96 B FE HEM 1_555 A HEM 96 B NC HEM 1_555 89.7 A HEM 96 B NA HEM 1_555 A HEM 96 B FE HEM 1_555 A HEM 96 B NC HEM 1_555 177.4 A HEM 96 B NB HEM 1_555 A HEM 96 B FE HEM 1_555 A HEM 96 B NC HEM 1_555 90.0 A HIS 39 A NE2 HIS 44 1_555 A HEM 96 B FE HEM 1_555 A HEM 96 B ND HEM 1_555 91.6 A HEM 96 B NA HEM 1_555 A HEM 96 B FE HEM 1_555 A HEM 96 B ND HEM 1_555 90.1 A HEM 96 B NB HEM 1_555 A HEM 96 B FE HEM 1_555 A HEM 96 B ND HEM 1_555 176.4 A HEM 96 B NC HEM 1_555 A HEM 96 B FE HEM 1_555 A HEM 96 B ND HEM 1_555 87.6 A HIS 39 A NE2 HIS 44 1_555 A HEM 96 B FE HEM 1_555 A HIS 63 A NE2 HIS 68 1_555 178.0 A HEM 96 B NA HEM 1_555 A HEM 96 B FE HEM 1_555 A HIS 63 A NE2 HIS 68 1_555 92.3 A HEM 96 B NB HEM 1_555 A HEM 96 B FE HEM 1_555 A HIS 63 A NE2 HIS 68 1_555 90.1 A HEM 96 B NC HEM 1_555 A HEM 96 B FE HEM 1_555 A HIS 63 A NE2 HIS 68 1_555 88.8 A HEM 96 B ND HEM 1_555 A HEM 96 B FE HEM 1_555 A HIS 63 A NE2 HIS 68 1_555 87.2 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 MET -4 A MET 1 1 Y 1 A ALA -3 A ALA 2 1 Y 1 A GLU -2 A GLU 3 1 Y 1 A GLN -1 A GLN 4 1 Y 1 A SER 0 A SER 5 1 Y 1 A CA ASP 1 WRONG HAND 1 A CA LYS 2 WRONG HAND 1 A CA THR 93 WRONG HAND 1 A CB THR 93 WRONG HAND 1 A A ASP LYS 1 2 148.44 1 A A ALA LYS 88 89 -136.98 1 A A PRO SER 90 91 -138.72 1 A A SER GLU 91 92 -147.49 1 A A THR LEU 93 94 120.31 1 A TYR 6 0.107 SIDE CHAIN 1 A PHE 58 0.097 SIDE CHAIN 1 A TYR 74 0.092 SIDE CHAIN 1 -38.41 1.20 123.30 84.89 A A A OE1 CD OE2 GLU GLU GLU 44 44 44 N 1 45.75 2.00 118.30 164.05 A A A CG CD OE1 GLU GLU GLU 44 44 44 N 1 -39.14 2.00 118.30 79.16 A A A CG CD OE2 GLU GLU GLU 44 44 44 N 1 13.40 2.20 113.40 126.80 A A A CA CB CG GLU GLU GLU 92 92 92 N 1 A LYS 2 177.28 160.87 1 A VAL 4 -96.73 -118.70 1 A LYS 5 134.76 73.46 1 A SER 18 53.67 -64.72 1 A HIS 26 61.36 -61.62 1 A HIS 27 -175.96 32.38 1 A LEU 36 -29.15 -63.48 1 A HIS 39 -46.47 106.31 1 A ASP 82 -52.17 -76.08 1 A ILE 87 24.64 68.50 1 A ALA 88 -54.93 106.30 1 A GLU 92 -179.59 -140.60 1 A THR 93 -175.00 64.91 model building DYANA refinement AMBER refinement DYANA THE SOLUTION NMR STRUCTURE OF THE B FORM OF OXIDIZED RAT MICROSOMAL CYTOCHROME B5, MINIMIZED AVERAGE STRUCTURE 1 Y N 2 N N A THR 8 A THR 13 HELX_P A LYS 14 A LYS 19 1 1 7 A THR 33 A THR 38 HELX_P A HIS 39 A HIS 44 5 2 7 A GLY 42 A GLY 47 HELX_P A ALA 50 A ALA 55 1 3 9 A ALA 54 A ALA 59 HELX_P A GLY 62 A GLY 67 1 4 9 A ASP 66 A ASP 71 HELX_P A TYR 74 A TYR 79 1 5 9 A PRO 81 A PRO 86 HELX_P A ILE 87 A ILE 92 1 6 7 metalc 1.977 A HIS 39 A NE2 HIS 44 1_555 A HEM 96 B FE HEM 1_555 metalc 1.971 A HIS 63 A NE2 HIS 68 1_555 A HEM 96 B FE HEM 1_555 ELECTRON TRANSPORT ELECTRON TRANSPORT, CYTOCHROME B5, PROTEIN RECOGNITION, ELECTRON TRANSFER, SOLUTION STRUCTURE, PARAMAGNETIC NMR A GLU 92 A GLU 97 1 A THR 93 A THR 98 -8.03 CYB5_RAT UNP 1 1 P00173 AEQSDKDVKYYTLEEIQKHKDSKSTWVILHHKVYDLTKFLEEHPGGEEVLREQAGGDATENFEDVGHSTDARELSKTYII GELHPDDRSKIAKPSETLITTVESNSSWWTNWVIPAISALVVALMYRLYMAED 1 98 1BFX -3 94 P00173 A 1 2 99 3 anti-parallel anti-parallel A THR 21 A THR 26 A LEU 25 A LEU 30 A LYS 28 A LYS 33 A LEU 32 A LEU 37 A ILE 75 A ILE 80 A GLY 77 A GLY 82 Unknown 2 BINDING SITE FOR RESIDUE HEM A 96 A HEM 96 Software 11 A HIS 39 A HIS 44 2 1_555 A HIS 63 A HIS 68 2 1_555 A LEU 32 A LEU 37 11 1_555 A PHE 35 A PHE 40 11 1_555 A HIS 39 A HIS 44 11 1_555 A PRO 40 A PRO 45 11 1_555 A LEU 46 A LEU 51 11 1_555 A GLN 49 A GLN 54 11 1_555 A ALA 54 A ALA 59 11 1_555 A HIS 63 A HIS 68 11 1_555 A SER 64 A SER 69 11 1_555 A ALA 67 A ALA 72 11 1_555 A SER 71 A SER 76 11 1_555 1 P 1