0.015085 0.008709 0.000000 0.000000 0.017419 0.000000 0.000000 0.000000 0.003940 0.00000 0.00000 0.00000 Joint Center for Structural Genomics (JCSG) http://mmcif.pdb.org/dictionaries/ascii/mmcif_pdbx.dic 24 90.000 90.000 120.000 66.290 66.290 253.830 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 Cl -1 35.453 CHLORIDE ION non-polymer 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 C3 H8 O3 92.094 GLYCEROL GLYCERIN; PROPANE-1,2,3-TRIOL non-polymer 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 O4 S -2 96.063 SULFATE ION non-polymer 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 To be published 0353 Crystal structure of a hypothetical protein (RUMGNA_01855) from Ruminococcus gnavus ATCC 29149 at 2.25 A resolution 10.2210/pdb4hyz/pdb pdb_00004hyz 100 1 Flat mirror (vertical focusing); single crystal Si(111) bent monochromator (horizontal focusing) PIXEL 2012-06-28 DECTRIS PILATUS 6M single crystal Si(111) bent MAD M x-ray 1 0.97871 1.0 0.97922 1.0 0.91837 1.0 BL11-1 SSRL 0.97871,0.97922,0.91837 SYNCHROTRON SSRL BEAMLINE BL11-1 13421.566 Uncharacterized protein UNP residues 36-148 2 man polymer 96.063 SULFATE ION 6 syn non-polymer 35.453 CHLORIDE ION 6 syn non-polymer 92.094 GLYCEROL 8 syn non-polymer 18.015 water 107 nat water no yes GEILKELPEGFDKETVRKQA(MSE)EDIEIAQSKDYESWKSRFTKDLQSSLTEESYDSYLKILEKQGEFKEFGKCTYLGQ IKDNKKYGGVIIVVKYEEGNVNYSLAYDED(MSE)NLVSFT(MSE) GEILKELPEGFDKETVRKQAMEDIEIAQSKDYESWKSRFTKDLQSSLTEESYDSYLKILEKQGEFKEFGKCTYLGQIKDN KKYGGVIIVVKYEEGNVNYSLAYDEDMNLVSFTM A,B JCSG-417405 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 n n n n n n n n n n n n n n n sample 29149 411470 Ruminococcus gnavus 562 Escherichia coli PB1 Plasmid SpeedET 1 3.00 58.98 VAPOR DIFFUSION, SITTING DROP 4.0 2.40M ammonium sulfate, 0.1M citric acid pH 4.0, NANODROP, VAPOR DIFFUSION, SITTING DROP, temperature 277K 277 Joint Center for Structural Genomics JCSG PSI:Biology software database_2 struct_conn struct_ref_seq_dif struct_site repository Initial release Structure summary Refinement description Database references Derived calculations 1 0 2013-01-09 1 1 2014-12-24 1 2 2017-11-15 1 3 2023-02-01 _software.classification _software.name _database_2.pdbx_DOI _database_2.pdbx_database_accession _struct_conn.pdbx_leaving_atom_flag _struct_ref_seq_dif.details _struct_site.pdbx_auth_asym_id _struct_site.pdbx_auth_comp_id _struct_site.pdbx_auth_seq_id Y RCSB Y RCSB 2012-11-14 REL REL SO4 SULFATE ION CL CHLORIDE ION GOL GLYCEROL HOH water THE CONSTRUCT (RESIDUES 37-149) WAS EXPRESSED WITH A PURIFICATION TAG MGSDKIHHHHHHENLYFQG. THE TAG WAS REMOVED WITH TEV PROTEASE LEAVING ONLY A GLYCINE (0) FOLLOWED BY THE TARGET SEQUENCE. SO4 150 2 SO4 SO4 201 A SO4 152 2 SO4 SO4 202 A CL 156 3 CL CL 203 A CL 159 3 CL CL 204 A GOL 162 4 GOL GOL 205 A GOL 165 4 GOL GOL 206 A GOL 166 4 GOL GOL 207 A GOL 168 4 GOL GOL 208 A SO4 151 2 SO4 SO4 201 B SO4 153 2 SO4 SO4 202 B SO4 154 2 SO4 SO4 203 B SO4 155 2 SO4 SO4 204 B CL 157 3 CL CL 205 B CL 158 3 CL CL 206 B CL 160 3 CL CL 207 B CL 161 3 CL CL 208 B GOL 163 4 GOL GOL 209 B GOL 164 4 GOL GOL 210 B GOL 167 4 GOL GOL 211 B GOL 169 4 GOL GOL 212 B HOH 170 5 HOH HOH 301 A HOH 171 5 HOH HOH 302 A HOH 172 5 HOH HOH 303 A HOH 173 5 HOH HOH 304 A HOH 174 5 HOH HOH 305 A HOH 175 5 HOH HOH 306 A HOH 176 5 HOH HOH 307 A HOH 177 5 HOH HOH 308 A HOH 178 5 HOH HOH 309 A HOH 179 5 HOH HOH 310 A HOH 180 5 HOH HOH 311 A HOH 181 5 HOH HOH 312 A HOH 182 5 HOH HOH 313 A HOH 183 5 HOH HOH 314 A HOH 184 5 HOH HOH 315 A HOH 185 5 HOH HOH 316 A HOH 186 5 HOH HOH 317 A HOH 187 5 HOH HOH 318 A HOH 188 5 HOH HOH 319 A HOH 189 5 HOH HOH 320 A HOH 190 5 HOH HOH 321 A HOH 191 5 HOH HOH 322 A HOH 192 5 HOH HOH 323 A HOH 193 5 HOH HOH 324 A HOH 206 5 HOH HOH 325 A HOH 207 5 HOH HOH 326 A HOH 208 5 HOH HOH 327 A HOH 209 5 HOH HOH 328 A HOH 210 5 HOH HOH 329 A HOH 211 5 HOH HOH 330 A HOH 212 5 HOH HOH 331 A HOH 215 5 HOH HOH 332 A HOH 216 5 HOH HOH 333 A HOH 218 5 HOH HOH 334 A HOH 221 5 HOH HOH 335 A HOH 222 5 HOH HOH 336 A HOH 223 5 HOH HOH 337 A HOH 228 5 HOH HOH 338 A HOH 229 5 HOH HOH 339 A HOH 232 5 HOH HOH 340 A HOH 233 5 HOH HOH 341 A HOH 234 5 HOH HOH 342 A HOH 235 5 HOH HOH 343 A HOH 236 5 HOH HOH 344 A HOH 237 5 HOH HOH 345 A HOH 238 5 HOH HOH 346 A HOH 239 5 HOH HOH 347 A HOH 240 5 HOH HOH 348 A HOH 241 5 HOH HOH 349 A HOH 242 5 HOH HOH 350 A HOH 243 5 HOH HOH 351 A HOH 244 5 HOH HOH 352 A HOH 245 5 HOH HOH 353 A HOH 246 5 HOH HOH 354 A HOH 247 5 HOH HOH 355 A HOH 248 5 HOH HOH 356 A HOH 249 5 HOH HOH 357 A HOH 250 5 HOH HOH 358 A HOH 251 5 HOH HOH 359 A HOH 252 5 HOH HOH 360 A HOH 253 5 HOH HOH 361 A HOH 254 5 HOH HOH 362 A HOH 255 5 HOH HOH 363 A HOH 256 5 HOH HOH 364 A HOH 263 5 HOH HOH 365 A HOH 265 5 HOH HOH 366 A HOH 266 5 HOH HOH 367 A HOH 268 5 HOH HOH 368 A HOH 194 5 HOH HOH 301 B HOH 195 5 HOH HOH 302 B HOH 196 5 HOH HOH 303 B HOH 197 5 HOH HOH 304 B HOH 198 5 HOH HOH 305 B HOH 199 5 HOH HOH 306 B HOH 200 5 HOH HOH 307 B HOH 201 5 HOH HOH 308 B HOH 202 5 HOH HOH 309 B HOH 203 5 HOH HOH 310 B HOH 204 5 HOH HOH 311 B HOH 205 5 HOH HOH 312 B HOH 213 5 HOH HOH 313 B HOH 214 5 HOH HOH 314 B HOH 217 5 HOH HOH 315 B HOH 219 5 HOH HOH 316 B HOH 220 5 HOH HOH 317 B HOH 224 5 HOH HOH 318 B HOH 225 5 HOH HOH 319 B HOH 226 5 HOH HOH 320 B HOH 227 5 HOH HOH 321 B HOH 230 5 HOH HOH 322 B HOH 231 5 HOH HOH 323 B HOH 257 5 HOH HOH 324 B HOH 258 5 HOH HOH 325 B HOH 259 5 HOH HOH 326 B HOH 260 5 HOH HOH 327 B HOH 261 5 HOH HOH 328 B HOH 262 5 HOH HOH 329 B HOH 264 5 HOH HOH 330 B HOH 267 5 HOH HOH 331 B HOH 269 5 HOH HOH 332 B HOH 270 5 HOH HOH 333 B HOH 271 5 HOH HOH 334 B HOH 272 5 HOH HOH 335 B HOH 273 5 HOH HOH 336 B HOH 274 5 HOH HOH 337 B HOH 275 5 HOH HOH 338 B HOH 276 5 HOH HOH 339 B GLY 0 n 1 GLY 0 A GLU 37 n 2 GLU 37 A ILE 38 n 3 ILE 38 A LEU 39 n 4 LEU 39 A LYS 40 n 5 LYS 40 A GLU 41 n 6 GLU 41 A LEU 42 n 7 LEU 42 A PRO 43 n 8 PRO 43 A GLU 44 n 9 GLU 44 A GLY 45 n 10 GLY 45 A PHE 46 n 11 PHE 46 A ASP 47 n 12 ASP 47 A LYS 48 n 13 LYS 48 A GLU 49 n 14 GLU 49 A THR 50 n 15 THR 50 A VAL 51 n 16 VAL 51 A ARG 52 n 17 ARG 52 A LYS 53 n 18 LYS 53 A GLN 54 n 19 GLN 54 A ALA 55 n 20 ALA 55 A MSE 56 n 21 MSE 56 A GLU 57 n 22 GLU 57 A ASP 58 n 23 ASP 58 A ILE 59 n 24 ILE 59 A GLU 60 n 25 GLU 60 A ILE 61 n 26 ILE 61 A ALA 62 n 27 ALA 62 A GLN 63 n 28 GLN 63 A SER 64 n 29 SER 64 A LYS 65 n 30 LYS 65 A ASP 66 n 31 ASP 66 A TYR 67 n 32 TYR 67 A GLU 68 n 33 GLU 68 A SER 69 n 34 SER 69 A TRP 70 n 35 TRP 70 A LYS 71 n 36 LYS 71 A SER 72 n 37 SER 72 A ARG 73 n 38 ARG 73 A PHE 74 n 39 PHE 74 A THR 75 n 40 THR 75 A LYS 76 n 41 LYS 76 A ASP 77 n 42 ASP 77 A LEU 78 n 43 LEU 78 A GLN 79 n 44 GLN 79 A SER 80 n 45 SER 80 A SER 81 n 46 SER 81 A LEU 82 n 47 LEU 82 A THR 83 n 48 THR 83 A GLU 84 n 49 GLU 84 A GLU 85 n 50 GLU 85 A SER 86 n 51 SER 86 A TYR 87 n 52 TYR 87 A ASP 88 n 53 ASP 88 A SER 89 n 54 SER 89 A TYR 90 n 55 TYR 90 A LEU 91 n 56 LEU 91 A LYS 92 n 57 LYS 92 A ILE 93 n 58 ILE 93 A LEU 94 n 59 LEU 94 A GLU 95 n 60 GLU 95 A LYS 96 n 61 LYS 96 A GLN 97 n 62 GLN 97 A GLY 98 n 63 GLY 98 A GLU 99 n 64 GLU 99 A PHE 100 n 65 PHE 100 A LYS 101 n 66 LYS 101 A GLU 102 n 67 GLU 102 A PHE 103 n 68 PHE 103 A GLY 104 n 69 GLY 104 A LYS 105 n 70 LYS 105 A CYS 106 n 71 CYS 106 A THR 107 n 72 THR 107 A TYR 108 n 73 TYR 108 A LEU 109 n 74 LEU 109 A GLY 110 n 75 GLY 110 A GLN 111 n 76 GLN 111 A ILE 112 n 77 ILE 112 A LYS 113 n 78 LYS 113 A ASP 114 n 79 ASP 114 A ASN 115 n 80 ASN 115 A LYS 116 n 81 LYS 116 A LYS 117 n 82 LYS 117 A TYR 118 n 83 TYR 118 A GLY 119 n 84 GLY 119 A GLY 120 n 85 GLY 120 A VAL 121 n 86 VAL 121 A ILE 122 n 87 ILE 122 A ILE 123 n 88 ILE 123 A VAL 124 n 89 VAL 124 A VAL 125 n 90 VAL 125 A LYS 126 n 91 LYS 126 A TYR 127 n 92 TYR 127 A GLU 128 n 93 GLU 128 A GLU 129 n 94 GLU 129 A GLY 130 n 95 GLY 130 A ASN 131 n 96 ASN 131 A VAL 132 n 97 VAL 132 A ASN 133 n 98 ASN 133 A TYR 134 n 99 TYR 134 A SER 135 n 100 SER 135 A LEU 136 n 101 LEU 136 A ALA 137 n 102 ALA 137 A TYR 138 n 103 TYR 138 A ASP 139 n 104 ASP 139 A GLU 140 n 105 GLU 140 A ASP 141 n 106 ASP 141 A MSE 142 n 107 MSE 142 A ASN 143 n 108 ASN 143 A LEU 144 n 109 LEU 144 A VAL 145 n 110 VAL 145 A SER 146 n 111 SER 146 A PHE 147 n 112 PHE 147 A THR 148 n 113 THR 148 A MSE 149 n 114 MSE 149 A GLY 0 n 1 GLY 0 B GLU 37 n 2 GLU 37 B ILE 38 n 3 ILE 38 B LEU 39 n 4 LEU 39 B LYS 40 n 5 LYS 40 B GLU 41 n 6 GLU 41 B LEU 42 n 7 LEU 42 B PRO 43 n 8 PRO 43 B GLU 44 n 9 GLU 44 B GLY 45 n 10 GLY 45 B PHE 46 n 11 PHE 46 B ASP 47 n 12 ASP 47 B LYS 48 n 13 LYS 48 B GLU 49 n 14 GLU 49 B THR 50 n 15 THR 50 B VAL 51 n 16 VAL 51 B ARG 52 n 17 ARG 52 B LYS 53 n 18 LYS 53 B GLN 54 n 19 GLN 54 B ALA 55 n 20 ALA 55 B MSE 56 n 21 MSE 56 B GLU 57 n 22 GLU 57 B ASP 58 n 23 ASP 58 B ILE 59 n 24 ILE 59 B GLU 60 n 25 GLU 60 B ILE 61 n 26 ILE 61 B ALA 62 n 27 ALA 62 B GLN 63 n 28 GLN 63 B SER 64 n 29 SER 64 B LYS 65 n 30 LYS 65 B ASP 66 n 31 ASP 66 B TYR 67 n 32 TYR 67 B GLU 68 n 33 GLU 68 B SER 69 n 34 SER 69 B TRP 70 n 35 TRP 70 B LYS 71 n 36 LYS 71 B SER 72 n 37 SER 72 B ARG 73 n 38 ARG 73 B PHE 74 n 39 PHE 74 B THR 75 n 40 THR 75 B LYS 76 n 41 LYS 76 B ASP 77 n 42 ASP 77 B LEU 78 n 43 LEU 78 B GLN 79 n 44 GLN 79 B SER 80 n 45 SER 80 B SER 81 n 46 SER 81 B LEU 82 n 47 LEU 82 B THR 83 n 48 THR 83 B GLU 84 n 49 GLU 84 B GLU 85 n 50 GLU 85 B SER 86 n 51 SER 86 B TYR 87 n 52 TYR 87 B ASP 88 n 53 ASP 88 B SER 89 n 54 SER 89 B TYR 90 n 55 TYR 90 B LEU 91 n 56 LEU 91 B LYS 92 n 57 LYS 92 B ILE 93 n 58 ILE 93 B LEU 94 n 59 LEU 94 B GLU 95 n 60 GLU 95 B LYS 96 n 61 LYS 96 B GLN 97 n 62 GLN 97 B GLY 98 n 63 GLY 98 B GLU 99 n 64 GLU 99 B PHE 100 n 65 PHE 100 B LYS 101 n 66 LYS 101 B GLU 102 n 67 GLU 102 B PHE 103 n 68 PHE 103 B GLY 104 n 69 GLY 104 B LYS 105 n 70 LYS 105 B CYS 106 n 71 CYS 106 B THR 107 n 72 THR 107 B TYR 108 n 73 TYR 108 B LEU 109 n 74 LEU 109 B GLY 110 n 75 GLY 110 B GLN 111 n 76 GLN 111 B ILE 112 n 77 ILE 112 B LYS 113 n 78 LYS 113 B ASP 114 n 79 ASP 114 B ASN 115 n 80 ASN 115 B LYS 116 n 81 LYS 116 B LYS 117 n 82 LYS 117 B TYR 118 n 83 TYR 118 B GLY 119 n 84 GLY 119 B GLY 120 n 85 GLY 120 B VAL 121 n 86 VAL 121 B ILE 122 n 87 ILE 122 B ILE 123 n 88 ILE 123 B VAL 124 n 89 VAL 124 B VAL 125 n 90 VAL 125 B LYS 126 n 91 LYS 126 B TYR 127 n 92 TYR 127 B GLU 128 n 93 GLU 128 B GLU 129 n 94 GLU 129 B GLY 130 n 95 GLY 130 B ASN 131 n 96 ASN 131 B VAL 132 n 97 VAL 132 B ASN 133 n 98 ASN 133 B TYR 134 n 99 TYR 134 B SER 135 n 100 SER 135 B LEU 136 n 101 LEU 136 B ALA 137 n 102 ALA 137 B TYR 138 n 103 TYR 138 B ASP 139 n 104 ASP 139 B GLU 140 n 105 GLU 140 B ASP 141 n 106 ASP 141 B MSE 142 n 107 MSE 142 B ASN 143 n 108 ASN 143 B LEU 144 n 109 LEU 144 B VAL 145 n 110 VAL 145 B SER 146 n 111 SER 146 B PHE 147 n 112 PHE 147 B THR 148 n 113 THR 148 B MSE 149 n 114 MSE 149 B 2.9009 -1.2283 -1.5242 3.5409 2.2114 3.8883 -0.1701 -0.0365 -0.1488 0.3365 0.0488 -0.2847 0.5794 0.2149 0.1213 0.0107 0.0088 0.0560 -0.0947 0.0145 -0.1027 refined 54.1434 -30.5441 136.9410 X-RAY DIFFRACTION 2.8011 -0.2438 1.6201 2.7052 0.9042 4.7257 -0.1918 -0.1888 0.3194 -0.1948 -0.2601 0.3419 -0.6217 -0.3797 0.4520 -0.0363 0.0244 -0.1281 -0.1575 -0.1188 0.0272 refined 21.6714 -19.1341 138.9340 X-RAY DIFFRACTION A 0 A 149 X-RAY DIFFRACTION 1 B 0 B 149 X-RAY DIFFRACTION 2 author_and_software_defined_assembly PISA 4 tetrameric 10850 -311 23540 A MSE 56 SELENOMETHIONINE A MSE 21 MET A MSE 142 SELENOMETHIONINE A MSE 107 MET A MSE 149 SELENOMETHIONINE A MSE 114 MET B MSE 56 SELENOMETHIONINE B MSE 21 MET B MSE 142 SELENOMETHIONINE B MSE 107 MET B MSE 149 SELENOMETHIONINE B MSE 114 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 0.5000000000 -0.8660254038 0.0000000000 -0.8660254038 -0.5000000000 0.0000000000 0.0000000000 0.0000000000 -1.0000000000 10_556 -y,-x,-z+7/6 crystal symmetry operation 0.0000000000 0.0000000000 296.1350000000 A N LEU 39 A N LEU 4 A O GLY 110 A O GLY 75 A N GLU 102 A N GLU 67 A O LYS 126 A O LYS 91 A N VAL 125 A N VAL 90 A O VAL 132 A O VAL 97 A N SER 135 A N SER 100 A O THR 148 A O THR 113 B N LEU 39 B N LEU 4 B O GLY 110 B O GLY 75 B N GLY 104 B N GLY 69 B O VAL 124 B O VAL 89 B N VAL 125 B N VAL 90 B O VAL 132 B O VAL 97 B N SER 135 B N SER 100 B O THR 148 B O THR 113 1 A CG GLU 44 A CG GLU 9 1 Y 1 A CD GLU 44 A CD GLU 9 1 Y 1 A OE1 GLU 44 A OE1 GLU 9 1 Y 1 A OE2 GLU 44 A OE2 GLU 9 1 Y 1 A CG GLU 85 A CG GLU 50 1 Y 1 A CD GLU 85 A CD GLU 50 1 Y 1 A OE1 GLU 85 A OE1 GLU 50 1 Y 1 A OE2 GLU 85 A OE2 GLU 50 1 Y 1 A CD LYS 92 A CD LYS 57 1 Y 1 A CE LYS 92 A CE LYS 57 1 Y 1 A NZ LYS 92 A NZ LYS 57 1 Y 1 A CE LYS 101 A CE LYS 66 1 Y 1 A NZ LYS 101 A NZ LYS 66 1 Y 1 A CE LYS 105 A CE LYS 70 1 Y 1 A NZ LYS 105 A NZ LYS 70 1 Y 1 A CE LYS 116 A CE LYS 81 1 Y 1 A NZ LYS 116 A NZ LYS 81 1 Y 1 A CD GLU 128 A CD GLU 93 1 Y 1 A OE1 GLU 128 A OE1 GLU 93 1 Y 1 A OE2 GLU 128 A OE2 GLU 93 1 Y 1 B CD GLU 44 B CD GLU 9 1 Y 1 B OE1 GLU 44 B OE1 GLU 9 1 Y 1 B OE2 GLU 44 B OE2 GLU 9 1 Y 1 B CG GLU 85 B CG GLU 50 1 Y 1 B CD GLU 85 B CD GLU 50 1 Y 1 B OE1 GLU 85 B OE1 GLU 50 1 Y 1 B OE2 GLU 85 B OE2 GLU 50 1 Y 1 B CE LYS 92 B CE LYS 57 1 Y 1 B NZ LYS 92 B NZ LYS 57 1 Y 1 B CG GLU 95 B CG GLU 60 1 Y 1 B CD GLU 95 B CD GLU 60 1 Y 1 B OE1 GLU 95 B OE1 GLU 60 1 Y 1 B OE2 GLU 95 B OE2 GLU 60 1 Y 1 B CD LYS 101 B CD LYS 66 1 Y 1 B CE LYS 101 B CE LYS 66 1 Y 1 B NZ LYS 101 B NZ LYS 66 1 Y 1 B CE LYS 113 B CE LYS 78 1 Y 1 B NZ LYS 113 B NZ LYS 78 1 Y 1 B CE LYS 116 B CE LYS 81 1 Y 1 B NZ LYS 116 B NZ LYS 81 1 Y 1 B CG GLU 128 B CG GLU 93 1 Y 1 B CD GLU 128 B CD GLU 93 1 Y 1 B OE1 GLU 128 B OE1 GLU 93 1 Y 1 B OE2 GLU 128 B OE2 GLU 93 1 Y 1 A LYS 40 -98.31 32.17 1 B LYS 40 -97.50 34.14 132.060 51.5237 21.130 -1.6180 0.0000 0.0000 -1.6180 0.0000 3.2360 0.9447 0.9364 1. A MET-INHIBITION PROTOCOL WAS USED FOR SELENOMETHIONINE INCORPORATION DURING PROTEIN EXPRESSION. THE OCCUPANCY OF THE SE ATOMS IN THE MSE RESIDUES WAS REDUCED TO 0.75 FOR THE REDUCED SCATTERING POWER DUE TO PARTIAL S-MET INCORPORATION. 2. ATOM RECORD CONTAINS SUM OF TLS AND RESIDUAL B FACTORS. ANISOU RECORD CONTAINS SUM OF TLS AND RESIDUAL U FACTORS. 3. THE MAD PHASES WERE USED AS RESTRAINTS DURING REFINEMENT. 4.SULFATE (SO4) FROM THE CRYSTALLIZATION, GLYCEROL(GOL), USED AS A CRYOPROTECTANT, AND CHLORIDE FROM THE PURIFICATION BUFFER HAVE BEEN MODELED INTO THE STRUCTURE. 5. 4. NCS RESTRAINTS WERE APPLIED USING BUSTER'S LSSR RESTRAINT REPRESENTATION (-AUTONCS). 5.UNEXPLAINED DIFFERENCE DENSITY NEAR TYR 118 ON THE A AND B SUBUNITS WAS NOT MODELED. 0.2084 0.1865 0.1876 2.2500 29.377 842 16601 5.0700 99.9600 1.000 0.500 RANDOM 1 THROUGHOUT 0.000 MAD 0.315 2.2500 29.377 107 2013 84 0 1822 914 SINUSOIDAL 2.000 59 HARMONIC 2.000 265 HARMONIC 5.000 1935 HARMONIC 20.000 239 SEMIHARMONIC 5.000 2198 SEMIHARMONIC 4.000 0.010 1935 HARMONIC 2.000 1.060 2593 HARMONIC 2.000 3.740 2.800 0.2277 0.1977 0.1992 2.4000 152 2757 2909 8 5.2300 99.9600 43.423 2.25 29.377 4HYZ 16696 16696 0.103 1 15.000 11.100 99.900 0.873 2.250 2.310 0.9 11870 1191 0.873 1 10.000 100.000 0.729 2.310 2.370 1.1 13496 1175 0.729 1 11.500 100.000 0.605 2.370 2.440 1.3 13611 1112 0.605 1 12.200 100.000 0.536 2.440 2.520 1.4 13256 1106 0.536 1 12.000 100.000 0.436 2.520 2.600 1.8 12372 1068 0.436 1 11.600 100.000 0.363 2.600 2.690 2.1 11606 1028 0.363 1 11.300 100.000 0.268 2.690 2.790 2.9 10420 1025 0.268 1 10.200 100.000 0.198 2.790 2.900 3.8 10487 968 0.198 1 10.800 100.000 0.171 2.900 3.030 4.4 11395 954 0.171 1 11.900 100.000 0.135 3.030 3.180 5.6 10594 889 0.135 1 11.900 100.000 0.105 3.180 3.350 6.9 9971 863 0.105 1 11.600 100.000 0.085 3.350 3.560 8.2 9027 804 0.085 1 11.200 100.000 0.065 3.560 3.800 10.7 7804 787 0.065 1 9.900 100.000 0.060 3.800 4.110 11.5 8837 733 0.060 1 12.100 100.000 0.053 4.110 4.500 12.8 7702 670 0.053 1 11.500 100.000 0.051 4.500 5.030 13.2 6819 624 0.051 1 10.900 100.000 0.059 5.030 5.810 11.5 5179 561 0.059 1 9.200 100.000 0.073 5.810 7.120 9.4 5498 490 0.073 1 11.200 100.000 0.046 7.120 10.060 14.5 3737 392 0.046 1 9.500 99.900 0.040 10.060 29.377 16.0 2190 256 0.040 1 8.600 96.300 model building D.C. & J.S. Richardson lab molprobity@kinemage.biochem.duke.edu http://kinemage.biochem.duke.edu/molprobity/ MolProbity package 3beta29 data extraction PDB deposit@deposit.rcsb.org June 10, 2010 C++ http://sw-tools.pdb.org/apps/PDB_EXTRACT/ PDB_EXTRACT package 3.10 phasing George M. Sheldrick gsheldr@shelx.uni-ac.gwdg.de Fortran_77 http://shelx.uni-ac.gwdg.de/SHELX/ SHELX package phasing Eric de La Fortelle sharp-develop@globalphasing.com http://www.globalphasing.com/sharp/ SHARP package data scaling Phil Evans pre@mrc-lmb.cam.ac.uk SCALA package 3.3.20 refinement Gerard Bricogne buster-develop@GlobalPhasing.com http://www.globalphasing.com/buster/ BUSTER-TNT program 2.10.0 data reduction MOSFLM phasing SHELXD refinement BUSTER 2.10.0 Y Crystal structure of a DUF3887 family protein (RUMGNA_01855) from Ruminococcus gnavus ATCC 29149 at 2.25 A resolution 1 N N 1 N N 2 N N 2 N N 3 N N 3 N N 4 N N 4 N N 4 N N 4 N N 2 N N 2 N N 2 N N 2 N N 3 N N 3 N N 3 N N 3 N N 4 N N 4 N N 4 N N 4 N N 5 N N 5 N N A ASP 47 A ASP 12 HELX_P A SER 64 A SER 29 1 1 18 A ASP 66 A ASP 31 HELX_P A SER 72 A SER 37 1 2 7 A THR 75 A THR 40 HELX_P A SER 80 A SER 45 1 3 6 A THR 83 A THR 48 HELX_P A LYS 96 A LYS 61 1 4 14 B ASP 47 B ASP 12 HELX_P B SER 64 B SER 29 1 5 18 B ASP 66 B ASP 31 HELX_P B SER 72 B SER 37 1 6 7 B THR 75 B THR 40 HELX_P B SER 80 B SER 45 1 7 6 B THR 83 B THR 48 HELX_P B LYS 96 B LYS 61 1 8 14 covale 1.337 both A ALA 55 A C ALA 20 1_555 A MSE 56 A N MSE 21 1_555 covale 1.340 both A MSE 56 A C MSE 21 1_555 A GLU 57 A N GLU 22 1_555 covale 1.349 both A ASP 141 A C ASP 106 1_555 A MSE 142 A N MSE 107 1_555 covale 1.341 both A MSE 142 A C MSE 107 1_555 A ASN 143 A N ASN 108 1_555 covale 1.322 both A THR 148 A C THR 113 1_555 A MSE 149 A N MSE 114 1_555 covale 1.328 both B ALA 55 B C ALA 20 1_555 B MSE 56 B N MSE 21 1_555 covale 1.342 both B MSE 56 B C MSE 21 1_555 B GLU 57 B N GLU 22 1_555 covale 1.341 both B ASP 141 B C ASP 106 1_555 B MSE 142 B N MSE 107 1_555 covale 1.348 both B MSE 142 B C MSE 107 1_555 B ASN 143 B N ASN 108 1_555 covale 1.322 both B THR 148 B C THR 113 1_555 B MSE 149 B N MSE 114 1_555 STRUCTURAL GENOMICS, UNKNOWN FUNCTION PF13026 family protein, DUF3887, Structural Genomics, Joint Center for Structural Genomics, JCSG, Protein Structure Initiative, PSI-BIOLOGY, UNKNOWN FUNCTION A7B2S7_RUMGN UNP 1 37 A7B2S7 EILKELPEGFDKETVRKQAMEDIEIAQSKDYESWKSRFTKDLQSSLTEESYDSYLKILEKQGEFKEFGKCTYLGQIKDNK KYGGVIIVVKYEEGNVNYSLAYDEDMNLVSFTM 37 149 4HYZ 37 149 A7B2S7 A 1 2 114 37 149 4HYZ 37 149 A7B2S7 B 1 2 114 1 expression tag GLY 0 4HYZ A A7B2S7 UNP 1 2 expression tag GLY 0 4HYZ B A7B2S7 UNP 1 5 5 anti-parallel anti-parallel anti-parallel anti-parallel anti-parallel anti-parallel anti-parallel anti-parallel A GLU 37 A GLU 2 A LEU 39 A LEU 4 A PHE 100 A PHE 65 A LYS 113 A LYS 78 A LYS 116 A LYS 81 A TYR 127 A TYR 92 A GLY 130 A GLY 95 A TYR 138 A TYR 103 A LEU 144 A LEU 109 A THR 148 A THR 113 B GLU 37 B GLU 2 B LEU 39 B LEU 4 B PHE 100 B PHE 65 B LYS 113 B LYS 78 B LYS 116 B LYS 81 B TYR 127 B TYR 92 B GLY 130 B GLY 95 B TYR 138 B TYR 103 B LEU 144 B LEU 109 B THR 148 B THR 113 BINDING SITE FOR RESIDUE SO4 A 201 A SO4 201 Software 7 BINDING SITE FOR RESIDUE SO4 A 202 A SO4 202 Software 6 BINDING SITE FOR RESIDUE CL A 203 A CL 203 Software 1 BINDING SITE FOR RESIDUE CL A 204 A CL 204 Software 2 BINDING SITE FOR RESIDUE GOL A 205 A GOL 205 Software 4 BINDING SITE FOR RESIDUE GOL A 206 A GOL 206 Software 4 BINDING SITE FOR RESIDUE GOL A 207 A GOL 207 Software 4 BINDING SITE FOR RESIDUE GOL A 208 A GOL 208 Software 4 BINDING SITE FOR RESIDUE SO4 B 201 B SO4 201 Software 5 BINDING SITE FOR RESIDUE SO4 B 202 B SO4 202 Software 6 BINDING SITE FOR RESIDUE SO4 B 203 B SO4 203 Software 5 BINDING SITE FOR RESIDUE SO4 B 204 B SO4 204 Software 5 BINDING SITE FOR RESIDUE CL B 205 B CL 205 Software 1 BINDING SITE FOR RESIDUE CL B 206 B CL 206 Software 2 BINDING SITE FOR RESIDUE CL B 207 B CL 207 Software 3 BINDING SITE FOR RESIDUE CL B 208 B CL 208 Software 1 BINDING SITE FOR RESIDUE GOL B 209 B GOL 209 Software 3 BINDING SITE FOR RESIDUE GOL B 210 B GOL 210 Software 3 BINDING SITE FOR RESIDUE GOL B 211 B GOL 211 Software 1 BINDING SITE FOR RESIDUE GOL B 212 B GOL 212 Software 7 A GLY 0 A GLY 1 7 1_555 A LYS 113 A LYS 78 7 1_555 A ASP 114 A ASP 79 7 1_555 A ASN 131 A ASN 96 7 10_556 A HOH 322 W HOH 7 1_555 A HOH 323 W HOH 7 10_556 A HOH 363 W HOH 7 1_555 A THR 75 A THR 40 6 1_555 A LYS 76 A LYS 41 6 1_555 A ASP 139 A ASP 104 6 1_555 A ASP 141 A ASP 106 6 1_555 A ASN 143 A ASN 108 6 1_555 A HOH 361 W HOH 6 1_555 A GLY 45 A GLY 10 1 1_555 A LYS 48 A LYS 13 2 1_555 A HOH 329 W HOH 2 1_555 A LYS 116 A LYS 81 4 1_555 A LYS 117 A LYS 82 4 1_555 A GLU 140 A GLU 105 4 1_555 A HOH 316 W HOH 4 1_555 A GLU 57 A GLU 22 4 1_555 A GLU 60 A GLU 25 4 1_555 B ILE 61 B ILE 26 4 8_546 B HOH 308 X HOH 4 8_546 A ARG 52 A ARG 17 4 1_555 A CYS 106 A CYS 71 4 1_555 A TYR 108 A TYR 73 4 1_555 B CL 206 P CL 4 1_555 A LEU 82 A LEU 47 4 1_555 A THR 83 A THR 48 4 1_555 A GLU 84 A GLU 49 4 1_555 B LYS 76 B LYS 41 4 1_655 A LYS 40 A LYS 5 5 10_556 A LYS 48 A LYS 13 5 1_555 B LYS 40 B LYS 5 5 10_556 B LYS 48 B LYS 13 5 1_555 B HOH 311 X HOH 5 10_556 B GLY 0 B GLY 1 6 1_555 B LYS 113 B LYS 78 6 1_555 B ASP 114 B ASP 79 6 1_555 B ASN 131 B ASN 96 6 10_556 B HOH 316 X HOH 6 1_555 B HOH 324 X HOH 6 1_555 A LYS 48 A LYS 13 5 1_555 B ARG 52 B ARG 17 5 1_555 B CYS 106 B CYS 71 5 1_555 B TYR 108 B TYR 73 5 1_555 B HOH 322 X HOH 5 1_555 B THR 75 B THR 40 5 1_555 B LYS 76 B LYS 41 5 1_555 B ASP 139 B ASP 104 5 1_555 B ASP 141 B ASP 106 5 1_555 B ASN 143 B ASN 108 5 1_555 B GLY 45 B GLY 10 1 1_555 A GOL 207 I GOL 2 1_555 B LYS 48 B LYS 13 2 1_555 B GLU 84 B GLU 49 3 1_555 B GLU 85 B GLU 50 3 1_555 B HOH 314 X HOH 3 1_555 B ASN 133 B ASN 98 1 1_555 B GLN 111 B GLN 76 3 1_555 B GLY 120 B GLY 85 3 1_555 B HOH 329 X HOH 3 1_555 B LYS 117 B LYS 82 3 1_555 B GLU 140 B GLU 105 3 1_555 B HOH 317 X HOH 3 1_555 B GLN 97 B GLN 62 1 1_555 A LYS 53 A LYS 18 7 8_446 A GLU 57 A GLU 22 7 8_446 B GLN 54 B GLN 19 7 1_555 B ARG 73 B ARG 38 7 1_555 B ASP 141 B ASP 106 7 1_555 B ASN 143 B ASN 108 7 1_555 B HOH 330 X HOH 7 1_555 179 P 65 2 2