1.000000 0.000000 0.000000 0.000000 1.000000 0.000000 0.000000 0.000000 1.000000 0.00000 0.00000 0.00000 TYR A 24 - ARG A 25 MODEL 1 OMEGA =228.97 PEPTIDE BOND DEVIATES SIGNIFICANTLY FROM TRANS CONFORMATION CYS A 29 - ASP A 30 MODEL 1 OMEGA = 17.57 PEPTIDE BOND DEVIATES SIGNIFICANTLY FROM TRANS CONFORMATION GLU A 41 - LEU A 42 MODEL 2 OMEGA =134.97 PEPTIDE BOND DEVIATES SIGNIFICANTLY FROM TRANS CONFORMATION LYS A 38 - VAL A 39 MODEL 3 OMEGA =145.32 PEPTIDE BOND DEVIATES SIGNIFICANTLY FROM TRANS CONFORMATION TYR A 24 - ARG A 25 MODEL 4 OMEGA = 9.57 PEPTIDE BOND DEVIATES SIGNIFICANTLY FROM TRANS CONFORMATION VAL A 39 - VAL A 40 MODEL 4 OMEGA =210.33 PEPTIDE BOND DEVIATES SIGNIFICANTLY FROM TRANS CONFORMATION VAL A 40 - GLU A 41 MODEL 4 OMEGA =128.73 PEPTIDE BOND DEVIATES SIGNIFICANTLY FROM TRANS CONFORMATION Basus, V.J. Song, G. Hawrot, E. 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 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 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 32 12290 12298 10.1021/bi00097a004 8241115 NMR solution structure of an alpha-bungarotoxin/nicotinic receptor peptide complex. 1993 UK Proc.R.Soc.London,Ser.B PRLBA4 0338 0080-4649 241 207 213 The Role of Tyrosine at the Ligand-Binding Site of the Nicotinic Acetylcholine Receptor 1990 US Biochemistry BICHAW 0033 0006-2960 27 2763 2771 Structural Studies of Alpha-Bungarotoxin. 1. Sequence-Specific 1H NMR Resonance Assignments 1988 10.2210/pdb1abt/pdb pdb_00001abt 1.000000 0.000000 0.000000 0.000000 1.000000 0.000000 0.000000 0.000000 1.000000 0.00000 0.00000 0.00000 8005.281 ALPHA-BUNGAROTOXIN 1 man polymer 1517.726 NICOTINIC RECEPTOR PEPTIDE 1 man polymer no no IVCHTTATSPISAVTCPPGENLCYRKMWCDAFCSSRGKVVELGCAATCPSKKPYEEVTCCSTDKCNPHPKQRPG IVCHTTATSPISAVTCPPGENLCYRKMWCDAFCSSRGKVVELGCAATCPSKKPYEEVTCCSTDKCNPHPKQRPG A polypeptide(L) no no KHWVYYTCCPDT KHWVYYTCCPDT B 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 database_2 pdbx_database_status pdbx_struct_assembly pdbx_struct_oper_list repository Initial release Version format compliance Version format compliance Database references Derived calculations Other 1 0 1994-01-31 1 1 2008-03-24 1 2 2011-07-13 1 3 2022-02-16 _database_2.pdbx_DOI _database_2.pdbx_database_accession _pdbx_database_status.process_site Y BNL 1993-11-17 REL REL 4 NOE DATA CAME FROM SPECTRA COLLECTED AT 35 DEGREES AND AT 25 DEGREES CELSIUS, PH 5.8. A LIST OF ALL NMR CONSTRAINTS WAS DEPOSITED IN THE PROTEIN DATA BANK TOGETHER WITH THE STRUCTURE LIST. THESE CONSTRAINTS CONSISTED OF 365 INTRAMOLECULAR CONSTRAINTS (146 LONG-RANGE, 155 SEQUENTIAL AND 64 DIHEDRAL ANGLES), AND 24 INTERMOLECULAR CONSTRAINTS BETWEEN THE 74 RESIDUES OF BGTX AND THE FIRST 6 RESIDUES OF THE 12 RESIDUE PEPTIDE FRAGMENT OF NACHR USED IN THIS STUDY (LISTED HERE AS RESIDUES 75 B - 80 B). THE COORDINATES THAT FOLLOW ARE IN FOUR SEPARATE MODELS. THE 12 RESIDUE PEPTIDE FRAGMENT OF NACHR HAS BEEN MODELED FOR ONLY THE FIRST SIX RESIDUES AND HAS BEEN NUMBERED AS A CONTINUATION OF THE NUMBERS FOR THE BGTX PORTION OF THE COMPLEX AND GIVEN THE CHAIN IDENTIFIER 'B', AFTER THE TER ENTRY SEPARATING THE COORDINATES OF THE TWO COMPONENTS OF THE COMPLEX. THE AVERAGE RMS DEVIATION OF THE BACKBONE ATOMS, WHEN MATCHED IN A PAIRWISE MANNER, IS 2.6 ANGSTROMS, WITH THE POORLY DEFINED REGIONS OF RESIDUES 30 A - 38 A, AND 69 A - 74 A OF BGTX EXCLUDED. RESTRAINT VIOLATIONS: VIOLATIONS WERE CATEGORIZED ACCORDING TO SIZE. THE TOTAL NUMBER OF VIOLATIONS IN EACH CATEGORY WAS ADDED, AND THAT NUMBER DIVIDED BY 4 TO DETERMINE THE AVERAGE NUMBER OF VIOLATIONS PER STRUCTURE FOR EACH CATEGORY. VIOLATION RANGE AVERAGE NUMBER OF VIOLATIONS (ANGSTROMS) VIOLATION >0.7 5.0 0.7>=VIOLATION >0.6 6.0 0.6>=VIOLATION >0.5 5.75 0.5>=VIOLATION >0.4 9.5 0.4>=VIOLATION >0.3 17.0 0.3>=VIOLATION >0.2 16.5 0.2>=VIOLATION >0.1 18.0. TO SIMPLIFY THE CALCULATIONS, ONLY THE FIRST SIX AMINO ACIDS (185 - 190) OF THE DODECAPEPTIDE WERE INCORPORATED INTO THE STRUCTURE OF THE COMPLEX. THIS WAS APPROPRIATE AS NO INTERMOLECULAR NOE'S AND NO LONG-RANGE INTRAMOLECULAR NOE'S WERE ASSIGNED INVOLVING PEPTIDE RESIDUES 191 - 196. THE COORDINATES ARE PRESENTED IN FOUR SEPARATE MODELS, WITH TER STATEMENTS TO SEPARATE THE BGTX PART OF THE COMPLEX FROM THE NACHR PORTION OF THE COMPLEX. ALL STRUCTURES WERE MATCHED IN CARTESIAN SPACE SUCH THAT THE RMSD BETWEEN THEM WAS MINIMIZED, WITH THE EXCLUSION OF RESIDUES 30 A - 38 A, AND 69 A - 74 A OF BGTX. KUNTZ refinement VEMBED VAN GUNSTEREN refinement GROMOS-87 ILE 1 n 1 ILE 1 A VAL 2 n 2 VAL 2 A CYS 3 n 3 CYS 3 A HIS 4 n 4 HIS 4 A THR 5 n 5 THR 5 A THR 6 n 6 THR 6 A ALA 7 n 7 ALA 7 A THR 8 n 8 THR 8 A SER 9 n 9 SER 9 A PRO 10 n 10 PRO 10 A ILE 11 n 11 ILE 11 A SER 12 n 12 SER 12 A ALA 13 n 13 ALA 13 A VAL 14 n 14 VAL 14 A THR 15 n 15 THR 15 A CYS 16 n 16 CYS 16 A PRO 17 n 17 PRO 17 A PRO 18 n 18 PRO 18 A GLY 19 n 19 GLY 19 A GLU 20 n 20 GLU 20 A ASN 21 n 21 ASN 21 A LEU 22 n 22 LEU 22 A CYS 23 n 23 CYS 23 A TYR 24 n 24 TYR 24 A ARG 25 n 25 ARG 25 A LYS 26 n 26 LYS 26 A MET 27 n 27 MET 27 A TRP 28 n 28 TRP 28 A CYS 29 n 29 CYS 29 A ASP 30 n 30 ASP 30 A ALA 31 n 31 ALA 31 A PHE 32 n 32 PHE 32 A CYS 33 n 33 CYS 33 A SER 34 n 34 SER 34 A SER 35 n 35 SER 35 A ARG 36 n 36 ARG 36 A GLY 37 n 37 GLY 37 A LYS 38 n 38 LYS 38 A VAL 39 n 39 VAL 39 A VAL 40 n 40 VAL 40 A GLU 41 n 41 GLU 41 A LEU 42 n 42 LEU 42 A GLY 43 n 43 GLY 43 A CYS 44 n 44 CYS 44 A ALA 45 n 45 ALA 45 A ALA 46 n 46 ALA 46 A THR 47 n 47 THR 47 A CYS 48 n 48 CYS 48 A PRO 49 n 49 PRO 49 A SER 50 n 50 SER 50 A LYS 51 n 51 LYS 51 A LYS 52 n 52 LYS 52 A PRO 53 n 53 PRO 53 A TYR 54 n 54 TYR 54 A GLU 55 n 55 GLU 55 A GLU 56 n 56 GLU 56 A VAL 57 n 57 VAL 57 A THR 58 n 58 THR 58 A CYS 59 n 59 CYS 59 A CYS 60 n 60 CYS 60 A SER 61 n 61 SER 61 A THR 62 n 62 THR 62 A ASP 63 n 63 ASP 63 A LYS 64 n 64 LYS 64 A CYS 65 n 65 CYS 65 A ASN 66 n 66 ASN 66 A PRO 67 n 67 PRO 67 A HIS 68 n 68 HIS 68 A PRO 69 n 69 PRO 69 A LYS 70 n 70 LYS 70 A GLN 71 n 71 GLN 71 A ARG 72 n 72 ARG 72 A PRO 73 n 73 PRO 73 A GLY 74 n 74 GLY 74 A LYS 75 n 1 LYS 75 B HIS 76 n 2 HIS 76 B TRP 77 n 3 TRP 77 B VAL 78 n 4 VAL 78 B TYR 79 n 5 TYR 79 B TYR 80 n 6 TYR 80 B n 7 81 B n 8 82 B n 9 83 B n 10 84 B n 11 85 B n 12 86 B author_defined_assembly 2 dimeric 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 A N THR 5 A N THR 5 A O SER 12 A O SER 12 A O ALA 45 A O ALA 45 A N LEU 22 A N LEU 22 A N MET 27 A N MET 27 A O GLU 56 A O GLU 56 1 B THR 81 B THR 7 1 Y 1 B CYS 82 B CYS 8 1 Y 1 B CYS 83 B CYS 9 1 Y 1 B PRO 84 B PRO 10 1 Y 1 B ASP 85 B ASP 11 1 Y 1 B THR 86 B THR 12 1 Y 2 B THR 81 B THR 7 1 Y 2 B CYS 82 B CYS 8 1 Y 2 B CYS 83 B CYS 9 1 Y 2 B PRO 84 B PRO 10 1 Y 2 B ASP 85 B ASP 11 1 Y 2 B THR 86 B THR 12 1 Y 3 B THR 81 B THR 7 1 Y 3 B CYS 82 B CYS 8 1 Y 3 B CYS 83 B CYS 9 1 Y 3 B PRO 84 B PRO 10 1 Y 3 B ASP 85 B ASP 11 1 Y 3 B THR 86 B THR 12 1 Y 4 B THR 81 B THR 7 1 Y 4 B CYS 82 B CYS 8 1 Y 4 B CYS 83 B CYS 9 1 Y 4 B PRO 84 B PRO 10 1 Y 4 B ASP 85 B ASP 11 1 Y 4 B THR 86 B THR 12 1 Y 1 A GLU 56 11.41 3 A HIS 4 10.34 3 A THR 5 11.03 3 A ALA 7 -10.34 3 A SER 12 10.34 3 A TYR 24 10.32 3 A ARG 36 11.42 3 A LYS 38 15.60 3 A PRO 49 10.99 3 A LYS 51 -10.60 3 A CYS 65 -12.44 4 A VAL 40 11.33 1 A A TYR ARG 24 25 -131.03 2 A A GLU LEU 41 42 134.97 3 A A LYS VAL 38 39 145.32 4 A A VAL VAL 39 40 -149.67 4 A A VAL GLU 40 41 128.73 1 A HIS 4 0.162 SIDE CHAIN 1 A TYR 24 0.146 SIDE CHAIN 1 A PHE 32 0.078 SIDE CHAIN 1 A TYR 54 0.096 SIDE CHAIN 1 A HIS 68 0.135 SIDE CHAIN 1 B TYR 80 0.067 SIDE CHAIN 2 A TYR 24 0.146 SIDE CHAIN 2 B TYR 79 0.094 SIDE CHAIN 3 A TYR 24 0.065 SIDE CHAIN 3 B TYR 79 0.193 SIDE CHAIN 3 B TYR 80 0.069 SIDE CHAIN 4 A ARG 36 0.073 SIDE CHAIN 4 A HIS 68 0.101 SIDE CHAIN 1 16.61 2.70 111.00 127.61 A A A N CA C TYR TYR TYR 24 24 24 N 2 -4.80 0.60 121.00 116.20 A A A CB CG CD2 TYR TYR TYR 24 24 24 N 2 3.13 0.50 120.30 123.43 A A A NE CZ NH1 ARG ARG ARG 25 25 25 N 2 -3.74 0.60 121.00 117.26 B B B CB CG CD2 TYR TYR TYR 79 79 79 N 3 3.95 0.50 120.30 124.25 A A A NE CZ NH1 ARG ARG ARG 25 25 25 N 3 -3.94 0.60 121.00 117.06 A A A CB CG CD2 TYR TYR TYR 54 54 54 N 3 -5.25 0.60 121.00 115.75 B B B CB CG CD2 TYR TYR TYR 79 79 79 N 4 12.52 1.90 113.40 125.92 A A A CA CB CG TYR TYR TYR 24 24 24 N 4 -6.21 0.60 121.00 114.79 A A A CB CG CD2 TYR TYR TYR 24 24 24 N 4 4.33 0.60 121.00 125.33 A A A CB CG CD1 TYR TYR TYR 24 24 24 N 4 3.16 0.50 120.30 123.46 A A A NE CZ NH1 ARG ARG ARG 25 25 25 N 4 -5.23 0.60 121.00 115.77 B B B CB CG CD2 TYR TYR TYR 79 79 79 N 1 A CYS 3 -131.50 -138.70 1 A ALA 13 -68.85 81.59 1 A THR 15 -69.73 94.43 1 A GLU 20 -119.26 -163.54 1 A ASN 21 -65.75 13.90 1 A TYR 24 -18.63 -84.80 1 A ARG 25 -2.20 82.64 1 A TRP 28 -146.34 -156.55 1 A CYS 29 -25.34 116.38 1 A ASP 30 72.36 87.68 1 A PHE 32 23.10 43.71 1 A CYS 33 26.40 51.78 1 A SER 34 -166.74 -90.85 1 A ARG 36 70.41 100.85 1 A VAL 39 -67.13 95.62 1 A PRO 53 -59.40 108.82 1 A TYR 54 -64.76 88.74 1 A SER 61 -79.23 -73.50 1 A ASP 63 71.97 76.38 1 A LYS 64 59.55 -76.00 1 A CYS 65 56.64 -64.20 1 A HIS 68 -18.45 -66.78 1 A PRO 69 -66.47 -178.35 1 A GLN 71 -66.03 75.33 2 A CYS 3 -169.87 -124.05 2 A THR 6 55.67 -77.24 2 A ALA 7 -0.58 -80.63 2 A THR 8 -78.39 37.19 2 A PRO 10 -69.23 79.21 2 A ILE 11 65.30 114.83 2 A THR 15 -57.42 109.40 2 A GLU 20 20.15 53.12 2 A LYS 26 179.76 -161.81 2 A ALA 31 72.56 -53.70 2 A PHE 32 -49.63 -98.46 2 A CYS 33 62.97 -78.55 2 A ARG 36 63.23 105.77 2 A LYS 38 51.10 82.73 2 A GLU 41 -165.76 -167.68 2 A LEU 42 179.36 164.29 2 A ALA 46 -62.44 5.62 2 A PRO 49 -66.59 88.51 2 A LYS 51 84.40 -5.24 2 A PRO 53 -54.18 106.95 2 A TYR 54 -65.88 88.71 2 A ASP 63 46.44 -160.45 2 A LYS 64 -67.74 58.24 2 A LYS 70 -28.56 -77.37 2 A GLN 71 56.50 -37.59 2 B TYR 79 -100.30 61.72 3 A THR 6 54.86 13.92 3 A THR 8 -171.65 -159.83 3 A PRO 10 -17.20 89.38 3 A ILE 11 62.78 66.41 3 A VAL 14 -119.63 -86.65 3 A GLU 20 81.07 -59.11 3 A TRP 28 -137.88 -125.28 3 A ASP 30 5.11 -78.46 3 A PHE 32 56.13 -26.55 3 A CYS 33 85.29 -7.03 3 A SER 35 -123.11 -116.03 3 A PRO 49 -63.54 87.37 3 A GLU 55 54.54 -102.14 3 A THR 62 73.05 -70.71 3 A LYS 64 -47.80 82.25 3 A CYS 65 -115.64 -88.24 3 A ASN 66 -51.92 85.36 3 A HIS 68 86.70 -68.17 3 A PRO 69 -48.74 99.16 3 B TRP 77 52.93 100.93 4 A HIS 4 -18.89 89.40 4 A THR 6 32.08 25.70 4 A ILE 11 -22.29 107.18 4 A THR 15 -68.50 95.02 4 A LEU 22 22.91 -108.02 4 A TYR 24 -16.29 126.84 4 A ARG 25 177.59 -51.72 4 A LYS 26 119.73 -165.14 4 A ASP 30 -77.35 39.76 4 A ALA 31 60.86 -49.14 4 A CYS 33 71.53 -28.74 4 A SER 35 70.07 -50.25 4 A LYS 38 -59.93 101.79 4 A GLU 41 58.75 -22.48 4 A ALA 45 68.79 -54.53 4 A THR 47 50.58 112.41 4 A LYS 51 71.85 -23.64 4 A GLU 55 78.05 -134.84 4 A LYS 64 51.40 7.38 4 A ASN 66 -118.96 55.92 4 A PRO 69 -67.76 83.69 4 A LYS 70 3.82 -79.91 4 A GLN 71 62.00 -53.26 4 A PRO 73 -66.10 86.08 4 B HIS 76 -31.50 104.14 4 B VAL 78 -72.44 38.32 NMR SOLUTION STRUCTURE OF AN ALPHA-BUNGAROTOXIN(SLASH)NICOTINIC RECEPTOR PEPTIDE COMPLEX 1 N N 2 N N A ASP 30 A ASP 30 HELX_P A SER 34 A SER 34 5 1 5 disulf 2.031 A CYS 3 A SG CYS 3 1_555 A CYS 23 A SG CYS 23 1_555 disulf 2.035 A CYS 16 A SG CYS 16 1_555 A CYS 44 A SG CYS 44 1_555 disulf 2.041 A CYS 29 A SG CYS 29 1_555 A CYS 33 A SG CYS 33 1_555 disulf 2.035 A CYS 48 A SG CYS 48 1_555 A CYS 59 A SG CYS 59 1_555 disulf 2.041 A CYS 60 A SG CYS 60 1_555 A CYS 65 A SG CYS 65 1_555 TOXIN TOXIN A CYS 29 A CYS 29 1 A ASP 30 A ASP 30 17.57 A TYR 24 A TYR 24 4 A ARG 25 A ARG 25 9.57 NXL1A_BUNMU UNP 1 1 P60615 IVCHTTATSPISAVTCPPGENLCYRKMWCDAFCSSRGKVVELGCAATCPSKKPYEEVTCCSTDKCNPHPKQRPG ACHA_TORCA UNP 2 1 P02710 MILCSYWHVGLVLLLFSCCGLVLGSEHETRLVANLLENYNKVIRPVEHHTHFVDITVGLQLIQLISVDEVNQIVETNVRL RQQWIDVRLRWNPADYGGIKKIRLPSDDVWLPDLVLYNNADGDFAIVHMTKLLLDYTGKIMWTPPAIFKSYCEIIVTHFP FDQQNCTMKLGIWTYDGTKVSISPESDRPDLSTFMESGEWVMKDYRGWKHWVYYTCCPDTPYLDITYHFIMQRIPLYFVV NVIIPCLLFSFLTGLVFYLPTDSGEKMTLSISVLLSLTVFLLVIVELIPSTSSAVPLIGKYMLFTMIFVISSIIITVVVI NTHHRSPSTHTMPQWVRKIFIDTIPNVMFFSTMKRASKEKQENKIFADDIDISDISGKQVTGEVIFQTPLIKNPDVKSAI EGVKYIAEHMKSDEESSNAAEEWKYVAMVIDHILLCVFMLICIIGTVSVFAGRLIELSQEG 1 74 1ABT 1 74 P60615 A 1 1 74 209 220 1ABT 75 86 P02710 B 2 1 12 2 3 anti-parallel anti-parallel anti-parallel A ILE 1 A ILE 1 A THR 5 A THR 5 A SER 12 A SER 12 A CYS 16 A CYS 16 A VAL 39 A VAL 39 A ALA 45 A ALA 45 A LEU 22 A LEU 22 A TRP 28 A TRP 28 A GLU 56 A GLU 56 A CYS 60 A CYS 60 1 P 1