0.023031 0.000000 0.000000 0.000000 0.013931 0.000000 0.000000 0.000000 0.009716 0.00000 0.00000 0.00000 Guarne, A. Nanji, T. Gloyd, M. Swiercz, J.P. Elliot, M.A. http://mmcif.pdb.org/dictionaries/ascii/mmcif_pdbx.dic 8 90.00 90.00 90.00 43.420 71.782 102.925 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 C9 H14 N3 O7 P 307.197 y 2'-DEOXYCYTIDINE-5'-MONOPHOSPHATE DNA linking C10 H14 N5 O7 P 347.221 y 2'-DEOXYGUANOSINE-5'-MONOPHOSPHATE DNA 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 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 H11 N O2 Se 196.106 n SELENOMETHIONINE 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 C5 H11 N O2 117.146 y VALINE L-peptide linking UK Nucleic Acids Res. NARHAD 0389 0305-1048 41 4171 4184 10.1093/nar/gkt095 23427309 A novel nucleoid-associated protein specific to the actinobacteria. 2013 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 mirrors PIXEL 2012-07-31 PSI PILATUS 6M Double silicon(111) crystal SINGLE WAVELENGTH M x-ray 1 0.9793 1.0 X25 NSLS 0.9793 SYNCHROTRON NSLS BEAMLINE X25 11717.030 Putative uncharacterized protein SCO1480 1 man polymer 2388.569 5'-D(P*CP*CP*GP*CP*GP*CP*GP*C)-3' 1 syn polymer 2468.617 5'-D(P*GP*CP*GP*CP*GP*CP*GP*G)-3' 1 syn polymer 18.015 water 6 nat water sIHF no yes (MSE)ALPPLTPEQRAAALEKAAAARRERAEVKNRLKHSGASLHEVIKQGQENDVIGK(MSE)KVSALLESLPGVGKVRA KQI(MSE)ERLGISESRRVRGLGSNQIASLEREFGSTGS MALPPLTPEQRAAALEKAAAARRERAEVKNRLKHSGASLHEVIKQGQENDVIGKMKVSALLESLPGVGKVRAKQIMERLG ISESRRVRGLGSNQIASLEREFGSTGS A polypeptide(L) no no (DC)(DC)(DG)(DC)(DG)(DC)(DG)(DC) CCGCGCGC B polydeoxyribonucleotide no no (DG)(DC)(DG)(DC)(DG)(DC)(DG)(DG) GCGCGCGG C polydeoxyribonucleotide n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n protein is MSE-labeled A3(2) sample SCO1480 100226 Streptomyces coelicolor 562 Escherichia coli B834(DE3) pRare plasmid pET15b 1 2.42 49.16 VAPOR DIFFUSION, HANGING DROP 7.6 19% PEG 3350, 210 mM KSCN, 5% ethylene glycol, 100 mM HEPES pH 7.6, VAPOR DIFFUSION, HANGING DROP, temperature 277K 277 4.634 1 19 B 1 C 8 -0.068 B_DC1:DG8_C 1 -12.668 0.123 -0.040 -0.120 4.842 1 19 B 2 C 7 0.525 B_DC2:DG7_C 2 -13.015 -0.578 -0.268 -0.111 -3.246 1 19 B 3 C 6 7.007 B_DG3:DC6_C 3 -9.807 0.638 0.494 -0.092 3.424 1 19 B 4 C 5 -1.758 B_DC4:DG5_C 4 -4.873 -0.420 0.049 -0.091 6.979 1 19 B 5 C 4 1.440 B_DG5:DC4_C 5 -18.565 -0.535 0.060 -0.228 -2.884 1 19 B 6 C 3 5.756 B_DC6:DG3_C 6 -9.684 -0.437 0.197 -0.129 0.905 1 19 B 7 C 2 6.443 B_DG7:DC2_C 7 -6.253 1.117 0.413 0.044 -7.459 1 19 B 8 C 1 -1.531 B_DC8:DG1_C 8 -8.746 0.314 0.323 -0.167 3.183 29.135 B B 1 2 2.972 C C 8 7 3.228 1.491 -0.071 -0.268 BB_DC1DC2:DG7DG8_CC 1 3.317 -6.611 28.912 -0.853 0.854 3.508 42.702 B B 2 3 9.201 C C 7 6 3.515 6.667 0.445 0.554 BB_DC2DG3:DC6DG7_CC 2 -3.771 5.205 42.041 0.037 -1.021 3.067 25.717 B B 3 4 4.752 C C 6 5 3.155 2.110 -0.127 -0.716 BB_DG3DC4:DG5DC6_CC 3 2.098 -4.725 25.547 -2.174 0.849 2.910 37.226 B B 4 5 18.229 C C 5 4 3.133 11.459 0.621 -0.210 BB_DC4DG5:DC4DG5_CC 4 -1.062 1.689 35.462 -1.773 -1.106 3.484 31.155 B B 5 6 -0.927 C C 4 3 3.455 -0.497 -0.375 -0.720 BB_DG5DC6:DG3DC4_CC 5 -2.216 4.129 31.074 -1.240 0.250 3.457 43.101 B B 6 7 7.711 C C 3 2 3.396 5.649 -0.578 0.588 BB_DC6DG7:DC2DG3_CC 6 -1.183 1.615 42.731 0.215 0.664 3.366 28.041 B B 7 8 5.746 C C 2 1 3.451 2.774 0.299 -0.826 BB_DG7DC8:DG1DC2_CC 7 3.207 -6.642 27.725 -2.392 0.175 repository Initial release Database references 1 0 2013-03-27 1 1 2013-05-22 RCSB Y RCSB 2013-01-18 REL REL HOH water THE ORIGINAL SEQUENCE OF THE DNA DUPLEX INCLUDED IN THE CRYSTALLIZATION DROPS IS: 5' GAGGGAGTGCGTGGGTCTGA 3'/5' CTCAGACCCACGCACTCCCT 3'. THE DUPLEX WAS PARTLY DISORDERED IN THE CRYSTAL STRUCTURE (PROBABLY BECAUSE THE PROTEIN BINDS DNA UNSPECIFICALLY AND COULD BIND ALL ALONG THE DUPLEX). AS A RESULT ONLY 8 BP ARE VISIBLE IN THE ASYMMETRIC UNIT. THE DENSITY COULD NOT BE ASSIGNED TO ANY PARTICULAR SEQUENCE OF THE 19 BP DUPLEX AND HENCE THE ELECTRON DENSITY WAS MODELED BASED ON THE RELATIVE SIZE OF THE NUCLEOTIDE MOIETY (USING GUANOSINE FOR "PURINE-LIKE" DENSITIES AND CYTOSINE FOR "PYRIMIDINE-LIKE" DENSITIES). HOH 2 4 HOH HOH 201 A HOH 3 4 HOH HOH 202 A HOH 4 4 HOH HOH 203 A HOH 5 4 HOH HOH 204 A HOH 7 4 HOH HOH 205 A HOH 6 4 HOH HOH 101 C n 1 1 A n 2 2 A n 3 3 A n 4 4 A n 5 5 A n 6 6 A n 7 7 A n 8 8 A n 9 9 A n 10 10 A n 11 11 A n 12 12 A n 13 13 A ALA 14 n 14 ALA 14 A ALA 15 n 15 LEU 15 A GLU 16 n 16 GLU 16 A ALA 17 n 17 LYS 17 A ALA 18 n 18 ALA 18 A ALA 19 n 19 ALA 19 A ALA 20 n 20 ALA 20 A ALA 21 n 21 ALA 21 A ARG 22 n 22 ARG 22 A ALA 23 n 23 ARG 23 A GLU 24 n 24 GLU 24 A ARG 25 n 25 ARG 25 A ALA 26 n 26 ALA 26 A GLU 27 n 27 GLU 27 A VAL 28 n 28 VAL 28 A LYS 29 n 29 LYS 29 A ALA 30 n 30 ASN 30 A ARG 31 n 31 ARG 31 A LEU 32 n 32 LEU 32 A LYS 33 n 33 LYS 33 A HIS 34 n 34 HIS 34 A SER 35 n 35 SER 35 A GLY 36 n 36 GLY 36 A ALA 37 n 37 ALA 37 A SER 38 n 38 SER 38 A LEU 39 n 39 LEU 39 A ALA 40 n 40 HIS 40 A GLU 41 n 41 GLU 41 A VAL 42 n 42 VAL 42 A ILE 43 n 43 ILE 43 A LYS 44 n 44 LYS 44 A GLN 45 n 45 GLN 45 A GLY 46 n 46 GLY 46 A GLN 47 n 47 GLN 47 A GLU 48 n 48 GLU 48 A ASN 49 n 49 ASN 49 A ASP 50 n 50 ASP 50 A VAL 51 n 51 VAL 51 A ILE 52 n 52 ILE 52 A GLY 53 n 53 GLY 53 A LYS 54 n 54 LYS 54 A MSE 55 n 55 MSE 55 A LYS 56 n 56 LYS 56 A VAL 57 n 57 VAL 57 A SER 58 n 58 SER 58 A ALA 59 n 59 ALA 59 A LEU 60 n 60 LEU 60 A LEU 61 n 61 LEU 61 A GLU 62 n 62 GLU 62 A SER 63 n 63 SER 63 A LEU 64 n 64 LEU 64 A PRO 65 n 65 PRO 65 A GLY 66 n 66 GLY 66 A VAL 67 n 67 VAL 67 A GLY 68 n 68 GLY 68 A LYS 69 n 69 LYS 69 A VAL 70 n 70 VAL 70 A ARG 71 n 71 ARG 71 A ALA 72 n 72 ALA 72 A LYS 73 n 73 LYS 73 A GLN 74 n 74 GLN 74 A ILE 75 n 75 ILE 75 A MSE 76 n 76 MSE 76 A GLU 77 n 77 GLU 77 A ARG 78 n 78 ARG 78 A LEU 79 n 79 LEU 79 A GLY 80 n 80 GLY 80 A ILE 81 n 81 ILE 81 A SER 82 n 82 SER 82 A GLU 83 n 83 GLU 83 A SER 84 n 84 SER 84 A ARG 85 n 85 ARG 85 A ARG 86 n 86 ARG 86 A VAL 87 n 87 VAL 87 A ARG 88 n 88 ARG 88 A GLY 89 n 89 GLY 89 A LEU 90 n 90 LEU 90 A GLY 91 n 91 GLY 91 A SER 92 n 92 SER 92 A ASN 93 n 93 ASN 93 A GLN 94 n 94 GLN 94 A ILE 95 n 95 ILE 95 A ALA 96 n 96 ALA 96 A SER 97 n 97 SER 97 A LEU 98 n 98 LEU 98 A ALA 99 n 99 GLU 99 A ALA 100 n 100 ARG 100 A GLU 101 n 101 GLU 101 A PHE 102 n 102 PHE 102 A ALA 103 n 103 GLY 103 A n 104 104 A n 105 105 A n 106 106 A n 107 107 A DC 1 n 1 DC 1 B DC 2 n 2 DC 2 B DG 3 n 3 DG 3 B DC 4 n 4 DC 4 B DG 5 n 5 DG 5 B DC 6 n 6 DC 6 B DG 7 n 7 DG 7 B DC 8 n 8 DC 8 B DG 1 n 1 DG 1 C DC 2 n 2 DC 2 C DG 3 n 3 DG 3 C DC 4 n 4 DC 4 C DG 5 n 5 DG 5 C DC 6 n 6 DC 6 C DG 7 n 7 DG 7 C DG 8 n 8 DG 8 C software_defined_assembly PISA 3 trimeric 1550 -9 8110 A MSE 55 SELENOMETHIONINE A MSE 55 MET A MSE 76 SELENOMETHIONINE A MSE 76 MET 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 CG LEU 15 A CG LEU 15 1 Y 1 A CD1 LEU 15 A CD1 LEU 15 1 Y 1 A CD2 LEU 15 A CD2 LEU 15 1 Y 1 A CG LYS 17 A CG LYS 17 1 Y 1 A CD LYS 17 A CD LYS 17 1 Y 1 A CE LYS 17 A CE LYS 17 1 Y 1 A NZ LYS 17 A NZ LYS 17 1 Y 1 A CG ARG 23 A CG ARG 23 1 Y 1 A CD ARG 23 A CD ARG 23 1 Y 1 A NE ARG 23 A NE ARG 23 1 Y 1 A CZ ARG 23 A CZ ARG 23 1 Y 1 A NH1 ARG 23 A NH1 ARG 23 1 Y 1 A NH2 ARG 23 A NH2 ARG 23 1 Y 1 A CG ASN 30 A CG ASN 30 1 Y 1 A OD1 ASN 30 A OD1 ASN 30 1 Y 1 A ND2 ASN 30 A ND2 ASN 30 1 Y 1 A CG HIS 40 A CG HIS 40 1 Y 1 A ND1 HIS 40 A ND1 HIS 40 1 Y 1 A CD2 HIS 40 A CD2 HIS 40 1 Y 1 A CE1 HIS 40 A CE1 HIS 40 1 Y 1 A NE2 HIS 40 A NE2 HIS 40 1 Y 1 A CG GLU 99 A CG GLU 99 1 Y 1 A CD GLU 99 A CD GLU 99 1 Y 1 A OE1 GLU 99 A OE1 GLU 99 1 Y 1 A OE2 GLU 99 A OE2 GLU 99 1 Y 1 A CG ARG 100 A CG ARG 100 1 Y 1 A CD ARG 100 A CD ARG 100 1 Y 1 A NE ARG 100 A NE ARG 100 1 Y 1 A CZ ARG 100 A CZ ARG 100 1 Y 1 A NH1 ARG 100 A NH1 ARG 100 1 Y 1 A NH2 ARG 100 A NH2 ARG 100 1 Y 1 A MSE 1 A MSE 1 1 Y 1 A ALA 2 A ALA 2 1 Y 1 A LEU 3 A LEU 3 1 Y 1 A PRO 4 A PRO 4 1 Y 1 A PRO 5 A PRO 5 1 Y 1 A LEU 6 A LEU 6 1 Y 1 A THR 7 A THR 7 1 Y 1 A PRO 8 A PRO 8 1 Y 1 A GLU 9 A GLU 9 1 Y 1 A GLN 10 A GLN 10 1 Y 1 A ARG 11 A ARG 11 1 Y 1 A ALA 12 A ALA 12 1 Y 1 A ALA 13 A ALA 13 1 Y 1 A SER 104 A SER 104 1 Y 1 A THR 105 A THR 105 1 Y 1 A GLY 106 A GLY 106 1 Y 1 A SER 107 A SER 107 1 Y 1 2.66 0.30 108.30 110.96 C C C O4' C1' N9 DG DG DG 1 1 1 N 1 2.01 0.30 108.30 110.31 C C C O4' C1' N9 DG DG DG 3 3 3 N 67.32 29.9819 -0.0000 -0.0000 -13.1865 -0.0000 -18.3995 0.3150 0.2617 0.2672 2.700 29.439 447 4664 4613 9.69 98.91 0.56 random 1 THROUGHOUT 0.00 SAD 33.06 1.11 1.30 MLHL FLAT BULK SOLVENT MODEL 29.370 0.265 2.700 29.439 6 992 0 328 658 0.003 1042 0.789 1464 22.447 421 0.038 168 0.001 136 0.4179 0.3679 3.0904 141 1349 1349 98.00 0.3276 0.2428 3.8922 149 1362 1362 99.00 0.2903 0.2501 29.4404 157 1455 1455 100.00 61 2.6 50 4ITQ 5202 0 2 0.055 1 31.2 6.1 99.6 .539 2.6 2.64 1.4 462 1 4.6 94.7 .026 7.05 50 66.4 480 1 6.5 100 .048 5.6 7.05 47.5 491 1 6.5 100 .04 4.89 5.6 48.1 475 1 6.8 100 .046 4.45 4.89 42.1 483 1 6.3 100 .044 4.13 4.45 44.9 471 1 6.8 100 .045 3.88 4.13 41.7 488 1 6.1 100 .061 3.69 3.88 28.6 469 1 6.6 100 .057 3.53 3.69 28.5 477 1 6.6 100 .041 3.39 3.53 34.7 476 1 6.6 100 .049 3.28 3.39 25.0 475 1 5.8 99.8 .043 3.17 3.28 22.9 475 1 6.2 100 .056 3.08 3.17 14.9 480 1 6.4 100 .188 3.00 3.08 6.1 473 1 6.2 100 .266 2.93 3.00 4.6 497 1 5.7 100 .354 2.86 2.93 3.4 472 1 5.9 100 .3 2.80 2.86 3.4 462 1 6.0 100 .466 2.74 2.80 2.5 492 1 6.1 100 .463 2.69 2.74 2.3 478 1 5.8 99 .556 2.64 2.69 1.7 449 1 5.1 98 data collection CBASS phasing AutoSol refinement PHENIX (phenix.refine: 1.7.3_928) data reduction HKL-2000 data scaling HKL-2000 Putative uncharacterized protein SCO1480/DNA complex Crystal structure of hypothetical protein SCO1480 bound to DNA 1 N N 2 N N 3 N N 4 N N 4 N N A ALA 14 A ALA 14 HELX_P A HIS 34 A HIS 34 1 1 21 A SER 38 A SER 38 HELX_P A GLN 47 A GLN 47 1 2 10 A ASN 49 A ASN 49 HELX_P A LYS 54 A LYS 54 1 3 6 A LYS 56 A LYS 56 HELX_P A SER 63 A SER 63 1 4 8 A GLY 68 A GLY 68 HELX_P A GLY 80 A GLY 80 1 5 13 A GLY 91 A GLY 91 HELX_P A PHE 102 A PHE 102 1 6 12 covale 1.328 A LYS 54 A C LYS 54 1_555 A MSE 55 A N MSE 55 1_555 covale 1.329 A MSE 55 A C MSE 55 1_555 A LYS 56 A N LYS 56 1_555 covale 1.328 A ILE 75 A C ILE 75 1_555 A MSE 76 A N MSE 76 1_555 covale 1.331 A MSE 76 A C MSE 76 1_555 A GLU 77 A N GLU 77 1_555 hydrog WATSON-CRICK B DC 1 B N3 DC 1 1_555 C DG 8 C N1 DG 8 1_555 hydrog WATSON-CRICK B DC 1 B N4 DC 1 1_555 C DG 8 C O6 DG 8 1_555 hydrog WATSON-CRICK B DC 1 B O2 DC 1 1_555 C DG 8 C N2 DG 8 1_555 hydrog WATSON-CRICK B DC 2 B N3 DC 2 1_555 C DG 7 C N1 DG 7 1_555 hydrog WATSON-CRICK B DC 2 B N4 DC 2 1_555 C DG 7 C O6 DG 7 1_555 hydrog WATSON-CRICK B DC 2 B O2 DC 2 1_555 C DG 7 C N2 DG 7 1_555 hydrog WATSON-CRICK B DG 3 B N1 DG 3 1_555 C DC 6 C N3 DC 6 1_555 hydrog WATSON-CRICK B DG 3 B N2 DG 3 1_555 C DC 6 C O2 DC 6 1_555 hydrog WATSON-CRICK B DG 3 B O6 DG 3 1_555 C DC 6 C N4 DC 6 1_555 hydrog WATSON-CRICK B DC 4 B N3 DC 4 1_555 C DG 5 C N1 DG 5 1_555 hydrog WATSON-CRICK B DC 4 B N4 DC 4 1_555 C DG 5 C O6 DG 5 1_555 hydrog WATSON-CRICK B DC 4 B O2 DC 4 1_555 C DG 5 C N2 DG 5 1_555 hydrog WATSON-CRICK B DG 5 B N1 DG 5 1_555 C DC 4 C N3 DC 4 1_555 hydrog WATSON-CRICK B DG 5 B N2 DG 5 1_555 C DC 4 C O2 DC 4 1_555 hydrog WATSON-CRICK B DG 5 B O6 DG 5 1_555 C DC 4 C N4 DC 4 1_555 hydrog WATSON-CRICK B DC 6 B N3 DC 6 1_555 C DG 3 C N1 DG 3 1_555 hydrog WATSON-CRICK B DC 6 B N4 DC 6 1_555 C DG 3 C O6 DG 3 1_555 hydrog WATSON-CRICK B DC 6 B O2 DC 6 1_555 C DG 3 C N2 DG 3 1_555 hydrog WATSON-CRICK B DG 7 B N1 DG 7 1_555 C DC 2 C N3 DC 2 1_555 hydrog WATSON-CRICK B DG 7 B N2 DG 7 1_555 C DC 2 C O2 DC 2 1_555 hydrog WATSON-CRICK B DG 7 B O6 DG 7 1_555 C DC 2 C N4 DC 2 1_555 hydrog WATSON-CRICK B DC 8 B N3 DC 8 1_555 C DG 1 C N1 DG 1 1_555 hydrog WATSON-CRICK B DC 8 B N4 DC 8 1_555 C DG 1 C O6 DG 1 1_555 hydrog WATSON-CRICK B DC 8 B O2 DC 8 1_555 C DG 1 C N2 DG 1 1_555 GENE REGULATION, STRUCTURAL PROTEIN/DNA protein-DNA complex, H2TH motif, nucleoid-associated protein, GENE REGULATION, STRUCTURAL PROTEIN-DNA complex A PHE 102 A PHE 102 1 A GLY 103 A GLY 103 -0.84 Q9KXR9_STRCO UNP 1 1 Q9KXR9 MALPPLTPEQRAAALEKAAAARRERAEVKNRLKHSGASLHEVIKQGQENDVIGKMKVSALLESLPGVGKVRAKQIMERLG ISESRRVRGLGSNQIASLEREFGSTGS 4ITQ PDB 2 4ITQ 4ITQ PDB 3 4ITQ 1 107 4ITQ 1 107 Q9KXR9 A 1 1 107 1 8 4ITQ 1 8 4ITQ B 2 1 8 1 8 4ITQ 1 8 4ITQ C 3 1 8 20 C 2 2 21