0.019320 0.000000 0.000000 0.000000 0.019320 0.000000 0.000000 0.000000 0.010922 0.000000 0.000000 0.000000 Lazareno-Saez, C. Arutyunova, E. Coquelle, N. Lemieux, M.J. http://mmcif.pdb.org/dictionaries/ascii/mmcif_pdbx.dic 16 90.000 90.000 90.000 51.760 51.760 91.560 C2 H3 O2 -1 59.044 ACETATE ION non-polymer 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 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 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 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 UK J.Mol.Biol. JMOBAK 0070 0022-2836 425 1127 1142 10.1016/j.jmb.2013.01.019 23353827 Domain swapping in the cytoplasmic domain of the Escherichia coli rhomboid protease. 2013 100 1 100 2 CCD 2011-09-08 ADSC QUANTUM 315r CCD 2011-10-06 RAYONIX MX-300 Si(111) MAD M x-ray 1 Si(111) SINGLE WAVELENGTH M x-ray 1 0.9793 1.0 1.116 1.0 0.9795 1.0 12.3.1 ALS 0.9793, 1.116 SYNCHROTRON ALS BEAMLINE 12.3.1 08ID-1 CLSI 0.9795 SYNCHROTRON CLSI BEAMLINE 08ID-1 9112.795 Rhomboid protease GlpG 3.4.21.105 N-terminal cytoplasmic domain (UNP residues 2-74) 1 man polymer 59.044 ACETATE ION 1 syn non-polymer 18.015 water 66 nat water Intramembrane serine protease no yes L(MSE)ITSFANPRVAQAFVDY(MSE)ATQGVILTIQQHNQSDVWLADESQAERVRAELARFLENPADPRYLAASWQAGH TENLYFQ LMITSFANPRVAQAFVDYMATQGVILTIQQHNQSDVWLADESQAERVRAELARFLENPADPRYLAASWQAGHTENLYFQ 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 TOP10 sample b3424, glpG, JW5687 562 Escherichia coli 562 Escherichia coli TOP10 plasmid pBad Myc/HisA 1 1.68 26.89 VAPOR DIFFUSION, HANGING DROP 6.9 0.49M sodium phosphate monobasic monohydrate - 0.91M potassium phosphate dibasic, pH 6.9, VAPOR DIFFUSION, HANGING DROP, temperature 298K 298 VAPOR DIFFUSION, HANGING DROP 4.6 100mM sodium acetate trihydrate, 0.2M ammonium sulfate, 25% PEG 4000, pH 4.6, VAPOR DIFFUSION, HANGING DROP, temperature 298K 298 repository Initial release Database references 1 0 2013-02-06 1 1 2013-05-22 RCSB Y RCSB 2012-10-02 REL REL ACT ACETATE ION HOH water ACT 1 2 ACT ACT 101 A HOH 1 3 HOH HOH 201 A HOH 2 3 HOH HOH 202 A HOH 3 3 HOH HOH 203 A HOH 4 3 HOH HOH 204 A HOH 5 3 HOH HOH 205 A HOH 6 3 HOH HOH 206 A HOH 7 3 HOH HOH 207 A HOH 8 3 HOH HOH 208 A HOH 9 3 HOH HOH 209 A HOH 10 3 HOH HOH 210 A HOH 11 3 HOH HOH 211 A HOH 12 3 HOH HOH 212 A HOH 13 3 HOH HOH 213 A HOH 14 3 HOH HOH 214 A HOH 15 3 HOH HOH 215 A HOH 16 3 HOH HOH 216 A HOH 17 3 HOH HOH 217 A HOH 18 3 HOH HOH 218 A HOH 19 3 HOH HOH 219 A HOH 20 3 HOH HOH 220 A HOH 21 3 HOH HOH 221 A HOH 22 3 HOH HOH 222 A HOH 24 3 HOH HOH 223 A HOH 25 3 HOH HOH 224 A HOH 26 3 HOH HOH 225 A HOH 27 3 HOH HOH 226 A HOH 28 3 HOH HOH 227 A HOH 29 3 HOH HOH 228 A HOH 30 3 HOH HOH 229 A HOH 31 3 HOH HOH 230 A HOH 32 3 HOH HOH 231 A HOH 33 3 HOH HOH 232 A HOH 34 3 HOH HOH 233 A HOH 35 3 HOH HOH 234 A HOH 36 3 HOH HOH 235 A HOH 37 3 HOH HOH 236 A HOH 38 3 HOH HOH 237 A HOH 39 3 HOH HOH 238 A HOH 40 3 HOH HOH 239 A HOH 41 3 HOH HOH 240 A HOH 42 3 HOH HOH 241 A HOH 43 3 HOH HOH 242 A HOH 44 3 HOH HOH 243 A HOH 45 3 HOH HOH 244 A HOH 46 3 HOH HOH 245 A HOH 49 3 HOH HOH 246 A HOH 50 3 HOH HOH 247 A HOH 51 3 HOH HOH 248 A HOH 52 3 HOH HOH 249 A HOH 53 3 HOH HOH 250 A HOH 54 3 HOH HOH 251 A HOH 57 3 HOH HOH 252 A HOH 59 3 HOH HOH 253 A HOH 61 3 HOH HOH 254 A HOH 62 3 HOH HOH 255 A HOH 63 3 HOH HOH 256 A HOH 64 3 HOH HOH 257 A HOH 65 3 HOH HOH 258 A HOH 66 3 HOH HOH 259 A HOH 67 3 HOH HOH 260 A HOH 68 3 HOH HOH 261 A HOH 69 3 HOH HOH 262 A HOH 70 3 HOH HOH 263 A HOH 72 3 HOH HOH 264 A HOH 73 3 HOH HOH 265 A HOH 74 3 HOH HOH 266 A LEU 2 n 1 LEU 2 A MSE 3 n 2 MSE 3 A ILE 4 n 3 ILE 4 A THR 5 n 4 THR 5 A SER 6 n 5 SER 6 A PHE 7 n 6 PHE 7 A ALA 8 n 7 ALA 8 A ASN 9 n 8 ASN 9 A PRO 10 n 9 PRO 10 A ARG 11 n 10 ARG 11 A VAL 12 n 11 VAL 12 A ALA 13 n 12 ALA 13 A GLN 14 n 13 GLN 14 A ALA 15 n 14 ALA 15 A PHE 16 n 15 PHE 16 A VAL 17 n 16 VAL 17 A ASP 18 n 17 ASP 18 A TYR 19 n 18 TYR 19 A MSE 20 n 19 MSE 20 A ALA 21 n 20 ALA 21 A THR 22 n 21 THR 22 A GLN 23 n 22 GLN 23 A GLY 24 n 23 GLY 24 A VAL 25 n 24 VAL 25 A ILE 26 n 25 ILE 26 A LEU 27 n 26 LEU 27 A THR 28 n 27 THR 28 A ILE 29 n 28 ILE 29 A GLN 30 n 29 GLN 30 A GLN 31 n 30 GLN 31 A HIS 32 n 31 HIS 32 A ASN 33 n 32 ASN 33 A GLN 34 n 33 GLN 34 A SER 35 n 34 SER 35 A ASP 36 n 35 ASP 36 A VAL 37 n 36 VAL 37 A TRP 38 n 37 TRP 38 A LEU 39 n 38 LEU 39 A ALA 40 n 39 ALA 40 A ASP 41 n 40 ASP 41 A GLU 42 n 41 GLU 42 A SER 43 n 42 SER 43 A GLN 44 n 43 GLN 44 A ALA 45 n 44 ALA 45 A GLU 46 n 45 GLU 46 A ARG 47 n 46 ARG 47 A VAL 48 n 47 VAL 48 A ARG 49 n 48 ARG 49 A ALA 50 n 49 ALA 50 A GLU 51 n 50 GLU 51 A LEU 52 n 51 LEU 52 A ALA 53 n 52 ALA 53 A ARG 54 n 53 ARG 54 A PHE 55 n 54 PHE 55 A LEU 56 n 55 LEU 56 A GLU 57 n 56 GLU 57 A ASN 58 n 57 ASN 58 A PRO 59 n 58 PRO 59 A ALA 60 n 59 ALA 60 A ASP 61 n 60 ASP 61 A PRO 62 n 61 PRO 62 A ARG 63 n 62 ARG 63 A TYR 64 n 63 TYR 64 A LEU 65 n 64 LEU 65 A ALA 66 n 65 ALA 66 A ALA 67 n 66 ALA 67 A n 67 68 A n 68 69 A n 69 70 A n 70 71 A n 71 72 A n 72 73 A n 73 74 A n 74 75 A n 75 76 A n 76 77 A n 77 78 A n 78 79 A n 79 80 A author_and_software_defined_assembly PISA 2 dimeric software_defined_assembly PISA 8 octameric 5100 -29 7910 29320 -173 22700 A MSE 3 SELENOMETHIONINE A MSE 2 MET A MSE 20 SELENOMETHIONINE A MSE 19 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 -1.0000000000 0.0000000000 0.0000000000 0.0000000000 1.0000000000 0.0000000000 0.0000000000 0.0000000000 -1.0000000000 5_556 -x,y,-z+1 crystal symmetry operation 0.0000000000 0.0000000000 91.5600000000 -1.0000000000 0.0000000000 0.0000000000 0.0000000000 -1.0000000000 0.0000000000 0.0000000000 0.0000000000 1.0000000000 2_555 -x,-y,z crystal symmetry operation 0.0000000000 0.0000000000 0.0000000000 0.0000000000 -1.0000000000 0.0000000000 1.0000000000 0.0000000000 0.0000000000 0.0000000000 0.0000000000 1.0000000000 3_555 -y,x,z crystal symmetry operation 0.0000000000 0.0000000000 0.0000000000 0.0000000000 1.0000000000 0.0000000000 -1.0000000000 0.0000000000 0.0000000000 0.0000000000 0.0000000000 1.0000000000 4_555 y,-x,z crystal symmetry operation 0.0000000000 0.0000000000 0.0000000000 1.0000000000 0.0000000000 0.0000000000 0.0000000000 -1.0000000000 0.0000000000 0.0000000000 0.0000000000 -1.0000000000 6_556 x,-y,-z+1 crystal symmetry operation 0.0000000000 0.0000000000 91.5600000000 0.0000000000 1.0000000000 0.0000000000 1.0000000000 0.0000000000 0.0000000000 0.0000000000 0.0000000000 -1.0000000000 7_556 y,x,-z+1 crystal symmetry operation 0.0000000000 0.0000000000 91.5600000000 0.0000000000 -1.0000000000 0.0000000000 -1.0000000000 0.0000000000 0.0000000000 0.0000000000 0.0000000000 -1.0000000000 8_556 -y,-x,-z+1 crystal symmetry operation 0.0000000000 0.0000000000 91.5600000000 1 A OE1 GLU 46 A OE1 GLU 45 1 Y 1 A OE2 GLU 46 A OE2 GLU 45 1 Y 1 A SER 68 A SER 67 1 Y 1 A TRP 69 A TRP 68 1 Y 1 A GLN 70 A GLN 69 1 Y 1 A ALA 71 A ALA 70 1 Y 1 A GLY 72 A GLY 71 1 Y 1 A HIS 73 A HIS 72 1 Y 1 A THR 74 A THR 73 1 Y 1 A GLU 75 A GLU 74 1 Y 1 A ASN 76 A ASN 75 1 Y 1 A LEU 77 A LEU 76 1 Y 1 A TYR 78 A TYR 77 1 Y 1 A PHE 79 A PHE 78 1 Y 1 A GLN 80 A GLN 79 1 Y 1 A A O O HOH HOH 258 259 2.08 1 A A O O HOH HOH 226 258 2.10 1 A A NE2 O GLN HOH 30 237 2.12 1 A A O O HOH HOH 210 231 2.19 1 3.10 0.50 120.30 123.40 A A A NE CZ NH1 ARG ARG ARG 49 49 49 N 1 A A O O HOH HOH 260 262 2.11 1_555 5_556 1 A THR 5 -170.15 -176.28 1 A ASN 58 -163.24 85.75 74.930 21.7243 8.590 -1.1799 -0.0000 0.0000 -1.1799 0.0000 2.3598 0.1820 0.1618 0.1629 1.3500 45.0580 704 14001 14001 5.0300 99.4100 1.000 0.420 0.8858 0.1800 RANDOM 1,2 -3.000 MAD 17.6100 0.9000 1.1100 phased maximum-likelihood FLAT BULK SOLVENT MODEL 48.6680 0.4340 1.3500 45.0580 66 592 4 0 522 0.014 553 1.437 756 0.091 86 0.007 102 16.056 204 0.3067 0.2032 1.4543 137 2600 2737 5 100.0000 0.2135 0.1529 1.6007 138 2625 2763 5 100.0000 0.1880 0.1452 1.8323 141 2662 2803 5 100.0000 0.1654 0.1355 2.3085 140 2657 2797 5 100.0000 0.1697 0.1735 45.0836 148 2753 2901 5 98.0000 21.595 1.350 45.058 4HDD 25782 25782 -3.000 -3.000 0.032 1,2 14.830 98.600 0.481 1.350 1.390 2.070 3748 1882 1,2 98.500 0.379 1.390 1.420 2.510 3796 1887 1,2 99.000 0.274 1.420 1.460 3.310 3752 1846 1,2 99.200 0.183 1.460 1.510 4.710 3563 1743 1,2 99.100 0.154 1.510 1.560 5.840 3501 1697 1,2 99.200 0.122 1.560 1.610 7.340 3467 1659 1,2 99.200 0.092 1.610 1.670 9.220 3423 1616 1,2 99.300 0.071 1.670 1.740 11.170 3204 1519 1,2 99.500 0.057 1.740 1.820 13.720 3103 1474 1,2 99.100 0.045 1.820 1.910 16.380 2976 1405 1,2 99.100 0.038 1.910 2.010 19.940 2843 1336 1,2 99.500 0.030 2.010 2.130 23.490 2683 1262 1,2 98.700 0.027 2.130 2.280 26.250 2494 1175 1,2 97.700 0.024 2.280 2.460 28.480 2395 1129 1,2 99.300 0.024 2.460 2.700 31.600 2181 1007 1,2 98.700 0.022 2.700 3.020 32.320 1979 918 1,2 99.000 0.021 3.020 3.490 35.280 1742 800 1,2 96.900 0.023 3.490 4.270 36.920 1450 666 1,2 96.200 0.026 4.270 6.040 37.500 1085 490 1,2 92.800 0.029 6.040 37.570 595 271 1,2 87.700 data scaling Wolfgang Kabsch http://www.mpimf-heidelberg.mpg.de/~kabsch/xds/html_doc/xscale_program.html XSCALE package refinement Paul D. Adams PDAdams@lbl.gov C++ http://www.phenix-online.org/ PHENIX package 1.7.3_928 data extraction PDB deposit@deposit.rcsb.org April 22, 2011 C++ http://sw-tools.pdb.org/apps/PDB_EXTRACT/ PDB_EXTRACT package 3.11 data collection MxDC data reduction XDS phasing PHENIX (1.7.3_928) Rhomboid protease GlpG (E.C.3.4.21.105) Domain swapping in the cytoplasmic domain of the Escherichia coli rhomboid protease 1 N N 2 N N 3 N N A ASN 9 A ASN 8 HELX_P A GLN 23 A GLN 22 1 1 15 A ASP 41 A ASP 40 HELX_P A SER 43 A SER 42 5 2 3 A GLN 44 A GLN 43 HELX_P A ASN 58 A ASN 57 1 3 15 A ASP 61 A ASP 60 HELX_P A ALA 66 A ALA 65 1 4 6 covale 1.319 A LEU 2 A C LEU 1 1_555 A MSE 3 A N MSE 2 1_555 covale 1.308 A MSE 3 A C MSE 2 1_555 A ILE 4 A N ILE 3 1_555 covale 1.326 A TYR 19 A C TYR 18 1_555 A MSE 20 A N MSE 19 1_555 covale 1.334 A MSE 20 A C MSE 19 1_555 A ALA 21 A N ALA 20 1_555 HYDROLASE domain swapping, peptidase, rhomboid protease, intramembrane protease, membrane, HYDROLASE GLPG_ECOLI UNP 1 2 P09391 LMITSFANPRVAQAFVDYMATQGVILTIQQHNQSDVWLADESQAERVRAELARFLENPADPRYLAASWQAGHT 2 74 4HDD 2 74 P09391 A 1 1 73 1 EXPRESSION TAG GLU 75 4HDD A P09391 UNP 74 1 EXPRESSION TAG ASN 76 4HDD A P09391 UNP 75 1 EXPRESSION TAG LEU 77 4HDD A P09391 UNP 76 1 EXPRESSION TAG TYR 78 4HDD A P09391 UNP 77 1 EXPRESSION TAG PHE 79 4HDD A P09391 UNP 78 1 EXPRESSION TAG GLN 80 4HDD A P09391 UNP 79 BINDING SITE FOR RESIDUE ACT A 101 Software 4 A TYR 19 A TYR 18 4 5_556 A ARG 54 A ARG 53 4 15_456 A ARG 54 A ARG 53 4 1_555 A HOH 225 C HOH 4 5_556 97 I 4 2 2