0.025114 0.000000 0.000000 0.000000 0.024757 0.000000 0.000000 0.000000 0.022374 0.00000 0.00000 0.00000 Debreczeni, J.E. Pal, A. Kahle, B. Zeeck, A. Sheldrick, G.M. http://mmcif.pdb.org/dictionaries/ascii/mmcif_pdbx.dic 8 90.00 90.00 90.00 39.819 40.392 44.694 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 H9 N O4 147.129 y GLUTAMIC ACID L-peptide linking C2 H5 N O2 75.067 y GLYCINE peptide linking H2 O 18.015 WATER non-polymer 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 H9 N O2 115.130 y PROLINE L-peptide linking C3 H7 N O3 105.093 y SERINE L-peptide linking O4 S -2 96.063 SULFATE ION non-polymer C4 H9 N O3 119.119 y THREONINE L-peptide linking C9 H11 N O3 181.189 y TYROSINE L-peptide linking DK Acta Crystallogr. D Biol. Crystallogr. ABCRE6 0766 0907-4449 64 985 992 10.1107/S0907444908022646 18703848 Structures of viscotoxins A1 and B2 from European mistletoe solved using native data alone. 2008 1.000000 0.000000 0.000000 0.000000 1.000000 0.000000 0.000000 0.000000 1.000000 0.00000 0.00000 0.00000 100 1 CCD 2003-05-15 MARRESEARCH SINGLE WAVELENGTH M x-ray 1 0.98 1.0 X13 EMBL/DESY, HAMBURG 0.98 SYNCHROTRON EMBL/DESY, HAMBURG BEAMLINE X13 4865.536 VISCOTOXIN-B YES 2 nat polymer 96.063 SULFATE ION 6 syn non-polymer 18.015 water 106 nat water VISCOTOXIN B2 no no KSCCPNTTGRDIYNTCRLGGGSRERCASLSGCKIISASTCPSDYPK KSCCPNTTGRDIYNTCRLGGGSRERCASLSGCKIISASTCPSDYPK A,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 EUROPEAN MISTLETOE sample 3972 VISCUM ALBUM 1 1.7 30 NONE VAPOR DIFFUSION, HANGING DROP 6.5 1UL HANGING DROP, 30 MG/ML PROTEIN, 0.2M AMSO4, 0.08M CACODYLATE PH 6.5, 25% PEG20000 citation diffrn_source struct struct_ref_seq_dif database_PDB_rev database_PDB_rev_record exptl_crystal_grow diffrn_source diffrn_source repository Initial release Version format compliance Version format compliance Data collection Database references Structure summary Data collection Experimental preparation Data collection Data collection 1 0 2008-06-17 1 1 2011-05-08 1 2 2011-07-13 1 3 2018-10-24 1 4 2019-05-08 1 5 2019-07-10 1 6 2019-07-24 _citation.journal_abbrev _citation.page_last _citation.title _diffrn_source.pdbx_synchrotron_site _struct.title _struct_ref_seq_dif.details _exptl_crystal_grow.method _diffrn_source.pdbx_synchrotron_site _diffrn_source.pdbx_synchrotron_site SOLUTION STRUCTURE OF THE VISCOTOXIN B 1H NMR STRUCTURE DETERMINATION OF VISCOTOXIN C1 PDBE Y PDBE 2007-08-23 REL SO4 SULFATE ION HOH water ENGINEERED RESIDUE IN CHAIN A, ASN 17 TO ASP ENGINEERED RESIDUE IN CHAIN B, ASN 17 TO ASP N11D KNOWN ISOFORM MUTATION SO4 1047 2 SO4 SO4 1047 A SO4 1048 2 SO4 SO4 1048 A SO4 1049 2 SO4 SO4 1049 A SO4 1050 2 SO4 SO4 1050 A SO4 1047 2 SO4 SO4 1047 B SO4 1048 2 SO4 SO4 1048 B HOH 2001 3 HOH HOH 2001 A HOH 2002 3 HOH HOH 2002 A HOH 2003 3 HOH HOH 2003 A HOH 2004 3 HOH HOH 2004 A HOH 2005 3 HOH HOH 2005 A HOH 2006 3 HOH HOH 2006 A HOH 2007 3 HOH HOH 2007 A HOH 2008 3 HOH HOH 2008 A HOH 2009 3 HOH HOH 2009 A HOH 2010 3 HOH HOH 2010 A HOH 2011 3 HOH HOH 2011 A HOH 2012 3 HOH HOH 2012 A HOH 2013 3 HOH HOH 2013 A HOH 2014 3 HOH HOH 2014 A HOH 2015 3 HOH HOH 2015 A HOH 2016 3 HOH HOH 2016 A HOH 2017 3 HOH HOH 2017 A HOH 2018 3 HOH HOH 2018 A HOH 2019 3 HOH HOH 2019 A HOH 2020 3 HOH HOH 2020 A HOH 2021 3 HOH HOH 2021 A HOH 2022 3 HOH HOH 2022 A HOH 2023 3 HOH HOH 2023 A HOH 2024 3 HOH HOH 2024 A HOH 2025 3 HOH HOH 2025 A HOH 2026 3 HOH HOH 2026 A HOH 2027 3 HOH HOH 2027 A HOH 2028 3 HOH HOH 2028 A HOH 2029 3 HOH HOH 2029 A HOH 2030 3 HOH HOH 2030 A HOH 2031 3 HOH HOH 2031 A HOH 2032 3 HOH HOH 2032 A HOH 2033 3 HOH HOH 2033 A HOH 2034 3 HOH HOH 2034 A HOH 2035 3 HOH HOH 2035 A HOH 2036 3 HOH HOH 2036 A HOH 2037 3 HOH HOH 2037 A HOH 2038 3 HOH HOH 2038 A HOH 2039 3 HOH HOH 2039 A HOH 2040 3 HOH HOH 2040 A HOH 2041 3 HOH HOH 2041 A HOH 2042 3 HOH HOH 2042 A HOH 2043 3 HOH HOH 2043 A HOH 2044 3 HOH HOH 2044 A HOH 2045 3 HOH HOH 2045 A HOH 2046 3 HOH HOH 2046 A HOH 2047 3 HOH HOH 2047 A HOH 2048 3 HOH HOH 2048 A HOH 2049 3 HOH HOH 2049 A HOH 2050 3 HOH HOH 2050 A HOH 2051 3 HOH HOH 2051 A HOH 2052 3 HOH HOH 2052 A HOH 2053 3 HOH HOH 2053 A HOH 2054 3 HOH HOH 2054 A HOH 2001 3 HOH HOH 2001 B HOH 2002 3 HOH HOH 2002 B HOH 2003 3 HOH HOH 2003 B HOH 2004 3 HOH HOH 2004 B HOH 2005 3 HOH HOH 2005 B HOH 2006 3 HOH HOH 2006 B HOH 2007 3 HOH HOH 2007 B HOH 2008 3 HOH HOH 2008 B HOH 2009 3 HOH HOH 2009 B HOH 2010 3 HOH HOH 2010 B HOH 2011 3 HOH HOH 2011 B HOH 2012 3 HOH HOH 2012 B HOH 2013 3 HOH HOH 2013 B HOH 2014 3 HOH HOH 2014 B HOH 2015 3 HOH HOH 2015 B HOH 2016 3 HOH HOH 2016 B HOH 2017 3 HOH HOH 2017 B HOH 2018 3 HOH HOH 2018 B HOH 2019 3 HOH HOH 2019 B HOH 2020 3 HOH HOH 2020 B HOH 2021 3 HOH HOH 2021 B HOH 2022 3 HOH HOH 2022 B HOH 2023 3 HOH HOH 2023 B HOH 2024 3 HOH HOH 2024 B HOH 2025 3 HOH HOH 2025 B HOH 2026 3 HOH HOH 2026 B HOH 2027 3 HOH HOH 2027 B HOH 2028 3 HOH HOH 2028 B HOH 2029 3 HOH HOH 2029 B HOH 2030 3 HOH HOH 2030 B HOH 2031 3 HOH HOH 2031 B HOH 2032 3 HOH HOH 2032 B HOH 2033 3 HOH HOH 2033 B HOH 2034 3 HOH HOH 2034 B HOH 2035 3 HOH HOH 2035 B HOH 2036 3 HOH HOH 2036 B HOH 2037 3 HOH HOH 2037 B HOH 2038 3 HOH HOH 2038 B HOH 2039 3 HOH HOH 2039 B HOH 2040 3 HOH HOH 2040 B HOH 2041 3 HOH HOH 2041 B HOH 2042 3 HOH HOH 2042 B HOH 2043 3 HOH HOH 2043 B HOH 2044 3 HOH HOH 2044 B HOH 2045 3 HOH HOH 2045 B HOH 2046 3 HOH HOH 2046 B HOH 2047 3 HOH HOH 2047 B HOH 2048 3 HOH HOH 2048 B HOH 2049 3 HOH HOH 2049 B HOH 2050 3 HOH HOH 2050 B HOH 2051 3 HOH HOH 2051 B HOH 2052 3 HOH HOH 2052 B LYS 1 n 1 LYS 1 A SER 2 n 2 SER 2 A CYS 3 n 3 CYS 3 A CYS 4 n 4 CYS 4 A PRO 5 n 5 PRO 5 A ASN 6 n 6 ASN 6 A THR 7 n 7 THR 7 A THR 8 n 8 THR 8 A GLY 9 n 9 GLY 9 A ARG 10 n 10 ARG 10 A ASP 11 n 11 ASP 11 A ILE 12 n 12 ILE 12 A TYR 13 n 13 TYR 13 A ASN 14 n 14 ASN 14 A THR 15 n 15 THR 15 A CYS 16 n 16 CYS 16 A ARG 17 n 17 ARG 17 A LEU 18 n 18 LEU 18 A GLY 19 n 19 GLY 19 A GLY 20 n 20 GLY 20 A GLY 21 n 21 GLY 21 A SER 22 n 22 SER 22 A ARG 23 n 23 ARG 23 A GLU 24 n 24 GLU 24 A ARG 25 n 25 ARG 25 A CYS 26 n 26 CYS 26 A ALA 27 n 27 ALA 27 A SER 28 n 28 SER 28 A LEU 29 n 29 LEU 29 A SER 30 n 30 SER 30 A GLY 31 n 31 GLY 31 A CYS 32 n 32 CYS 32 A LYS 33 n 33 LYS 33 A ILE 34 n 34 ILE 34 A ILE 35 n 35 ILE 35 A SER 36 n 36 SER 36 A ALA 37 n 37 ALA 37 A SER 38 n 38 SER 38 A THR 39 n 39 THR 39 A CYS 40 n 40 CYS 40 A PRO 41 n 41 PRO 41 A SER 42 n 42 SER 42 A ASP 43 n 43 ASP 43 A TYR 44 n 44 TYR 44 A PRO 45 n 45 PRO 45 A LYS 46 n 46 LYS 46 A LYS 1 n 1 LYS 1 B SER 2 n 2 SER 2 B CYS 3 n 3 CYS 3 B CYS 4 n 4 CYS 4 B PRO 5 n 5 PRO 5 B ASN 6 n 6 ASN 6 B THR 7 n 7 THR 7 B THR 8 n 8 THR 8 B GLY 9 n 9 GLY 9 B ARG 10 n 10 ARG 10 B ASP 11 n 11 ASP 11 B ILE 12 n 12 ILE 12 B TYR 13 n 13 TYR 13 B ASN 14 n 14 ASN 14 B THR 15 n 15 THR 15 B CYS 16 n 16 CYS 16 B ARG 17 n 17 ARG 17 B LEU 18 n 18 LEU 18 B GLY 19 n 19 GLY 19 B GLY 20 n 20 GLY 20 B GLY 21 n 21 GLY 21 B SER 22 n 22 SER 22 B ARG 23 n 23 ARG 23 B GLU 24 n 24 GLU 24 B ARG 25 n 25 ARG 25 B CYS 26 n 26 CYS 26 B ALA 27 n 27 ALA 27 B SER 28 n 28 SER 28 B LEU 29 n 29 LEU 29 B SER 30 n 30 SER 30 B GLY 31 n 31 GLY 31 B CYS 32 n 32 CYS 32 B LYS 33 n 33 LYS 33 B ILE 34 n 34 ILE 34 B ILE 35 n 35 ILE 35 B SER 36 n 36 SER 36 B ALA 37 n 37 ALA 37 B SER 38 n 38 SER 38 B THR 39 n 39 THR 39 B CYS 40 n 40 CYS 40 B PRO 41 n 41 PRO 41 B SER 42 n 42 SER 42 B ASP 43 n 43 ASP 43 B TYR 44 n 44 TYR 44 B PRO 45 n 45 PRO 45 B LYS 46 n 46 LYS 46 B 0.1223 0.1277 0.1649 0.1703 1619 1833 5 5 31043 author_and_software_defined_assembly PQS 2 dimeric 970 -8.9 6550 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 CYS 3 A N CYS 3 A O LYS 33 A O LYS 33 B N CYS 3 B N CYS 3 B O LYS 33 B O LYS 33 1 B CG GLU 24 B CG GLU 24 1 Y 1 B CD GLU 24 B CD GLU 24 1 Y 1 B OE1 GLU 24 B OE1 GLU 24 1 Y 1 B OE2 GLU 24 B OE2 GLU 24 1 Y 1 6.80 1.10 119.40 126.20 A A A NH1 CZ NH2 ARG ARG ARG 10 10 10 N 1 -4.25 0.50 120.30 116.05 A A A NE CZ NH1 ARG ARG ARG 10 10 10 N 1 11.73 1.10 114.20 125.93 A A A CA CB SG CYS CYS CYS 16 16 16 B N 1 -4.03 0.50 120.30 116.27 A A A NE CZ NH2 ARG ARG ARG 17 17 17 N 1 -12.18 1.80 114.00 101.82 A A A CA CB SG CYS CYS CYS 26 26 26 B N 1 9.19 0.90 118.30 127.49 A A A CB CG OD2 ASP ASP ASP 43 43 43 N 1 11.33 1.10 114.20 125.53 B B B CA CB SG CYS CYS CYS 16 16 16 B N 1 4.37 0.50 120.30 124.67 B B B NE CZ NH1 ARG ARG ARG 17 17 17 N 1 -4.82 0.50 120.30 115.48 B B B NE CZ NH2 ARG ARG ARG 17 17 17 N 1 3.14 0.50 120.30 123.44 B B B NE CZ NH1 ARG ARG ARG 23 23 23 N 1 -5.20 0.50 120.30 115.10 B B B NE CZ NH2 ARG ARG ARG 23 23 23 N 1 6.75 0.90 118.30 125.05 B B B CB CG OD1 ASP ASP ASP 43 43 43 N 1 A A CB SG CYS CYS 16 16 -0.183 0.016 1.812 1.629 B N 1 A A CB SG CYS CYS 26 26 0.232 0.017 1.818 2.050 B N 1 B B CB SG CYS CYS 16 16 -0.163 0.016 1.812 1.649 B N 1 B B CB SG CYS CYS 32 32 0.117 0.017 1.818 1.935 B N 1 B SER 36 -96.69 44.24 HYDROGEN ATOMS WERE ADDED IN RIDING POSITIONS 0.1703 0.1277 1.05 40 7604 1833 35151 10158 5 99.8 RANDOM 1 THROUGHOUT 12 DIRECT METHODS NONE ENGH AND HUBER 14 646 795 1.05 40 106 800 30 0 664 0.019 0.034 0.016 0.0285 0.080 0.106 0.114 0.006 0.044 0.092 1.15 20.00 2V9B 34317 3.0 0.06 1 25.80 21.34 99.8 0.22 1.05 1.15 12.60 1 21 99.6 refinement SHELXL-97 data reduction DENZO data scaling SADABS phasing SHELXD VISCOTOXIN-B X-ray structure of viscotoxin B2 from Viscum album 1 N N 1 N N 2 N N 2 N N 2 N N 2 N N 2 N N 2 N N 3 N N 3 N N A ASN 6 A ASN 6 HELX_P A GLY 19 A GLY 19 1 1 14 A SER 22 A SER 22 HELX_P A GLY 31 A GLY 31 1 2 10 B ASN 6 B ASN 6 HELX_P B GLY 19 B GLY 19 1 3 14 B SER 22 B SER 22 HELX_P B GLY 31 B GLY 31 1 4 10 disulf 2.025 A CYS 3 A SG CYS 3 1_555 A CYS 40 A SG CYS 40 1_555 disulf 2.039 A CYS 4 A SG CYS 4 1_555 A CYS 32 A SG CYS 32 1_555 disulf 2.085 A CYS 16 A SG CYS 16 1_555 A CYS 26 A SG CYS 26 1_555 disulf 1.984 B CYS 3 B SG CYS 3 1_555 B CYS 40 B SG CYS 40 1_555 disulf 2.039 B CYS 4 B SG CYS 4 1_555 B CYS 32 B SG CYS 32 1_555 disulf 2.006 B CYS 16 B SG CYS 16 1_555 B CYS 26 B SG CYS 26 1_555 TOXIN TOXIN, THIONIN, SECRETED, PLANT TOXIN, PLANT DEFENSE given 0.000009 0.991300 -0.131500 0.982700 0.024270 0.183700 0.185300 -0.129200 -0.974200 7.41900 -11.22000 5.43300 THNB_VISAL UNP 1 P08943 7 52 2V9B 1 46 P08943 A 1 1 46 7 52 2V9B 1 46 P08943 B 1 1 46 1 ASN variant ASP 11 2V9B A P08943 UNP 17 11 2 ASN variant ASP 11 2V9B B P08943 UNP 17 11 2 2 anti-parallel anti-parallel A SER 2 A SER 2 A CYS 3 A CYS 3 A LYS 33 A LYS 33 A ILE 34 A ILE 34 B SER 2 B SER 2 B CYS 3 B CYS 3 B LYS 33 B LYS 33 B ILE 34 B ILE 34 BINDING SITE FOR RESIDUE SO4 A1047 Software 6 BINDING SITE FOR RESIDUE SO4 B1047 Software 4 BINDING SITE FOR RESIDUE SO4 A1048 Software 10 BINDING SITE FOR RESIDUE SO4 A1049 Software 11 BINDING SITE FOR RESIDUE SO4 B1048 Software 10 BINDING SITE FOR RESIDUE SO4 A1050 Software 7 A GLY 21 A GLY 21 6 1_555 A SER 22 A SER 22 6 1_555 A ARG 25 A ARG 25 6 1_555 A HOH 2045 I HOH 6 1_555 B ARG 25 B ARG 25 6 1_555 B HOH 2040 J HOH 6 1_555 B GLY 21 B GLY 21 4 1_555 B SER 22 B SER 22 4 1_555 B ARG 25 B ARG 25 4 1_555 B HOH 2046 J HOH 4 1_555 A LYS 1 A LYS 1 10 1_555 A SER 2 A SER 2 10 1_555 A THR 7 A THR 7 10 1_555 A TYR 13 A TYR 13 10 1_555 A ARG 23 A ARG 23 10 1_555 A HOH 2011 I HOH 10 1_555 A HOH 2021 I HOH 10 1_555 A HOH 2046 I HOH 10 1_555 A HOH 2047 I HOH 10 1_555 A HOH 2048 I HOH 10 1_555 A ASN 6 A ASN 6 11 1_555 A THR 7 A THR 7 11 1_555 A ARG 23 A ARG 23 11 1_555 A LYS 46 A LYS 46 11 1_555 A HOH 2004 I HOH 11 1_555 A HOH 2009 I HOH 11 1_555 A HOH 2049 I HOH 11 1_555 A HOH 2050 I HOH 11 1_555 A HOH 2051 I HOH 11 1_555 A HOH 2052 I HOH 11 1_555 B HOH 2001 J HOH 11 1_555 B SER 2 B SER 2 10 1_555 B TYR 13 B TYR 13 10 1_555 B ARG 17 B ARG 17 10 1_555 B ARG 23 B ARG 23 10 1_555 B HOH 2023 J HOH 10 1_555 B HOH 2048 J HOH 10 1_555 B HOH 2049 J HOH 10 1_555 B HOH 2050 J HOH 10 1_555 B HOH 2051 J HOH 10 1_555 B HOH 2052 J HOH 10 1_555 A ARG 17 A ARG 17 7 1_555 A SER 22 A SER 22 7 1_555 A ARG 23 A ARG 23 7 1_555 A HOH 2023 I HOH 7 1_555 A HOH 2044 I HOH 7 1_555 A HOH 2053 I HOH 7 1_555 A HOH 2054 I HOH 7 1_555 19 P 21 21 21