0.022914 0.013230 0.000000 0.000000 0.026459 0.000000 0.000000 0.000000 0.007827 0.00000 0.00000 0.00000 Nocek, B. Tesar, C. Cobb, G. Joachimiak, A. Midwest Center for Structural Genomics (MCSG) http://mmcif.pdb.org/dictionaries/ascii/mmcif_pdbx.dic 6 90.00 90.00 120.00 43.641 43.641 127.763 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 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 O4 P -3 94.971 PHOSPHATE ION non-polymer 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 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 CBS domain of a putative transporter from Clostridium difficile 630 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 CCD 2009-02-28 ADSC QUANTUM 315r double crystal SINGLE WAVELENGTH M x-ray 1 0.9794 1.0 19-ID APS 0.9794 SYNCHROTRON APS BEAMLINE 19-ID 17315.418 Putative transporter 1 man polymer 94.971 PHOSPHATE ION 1 syn non-polymer 18.015 water 13 nat water no yes SNAGLIDESEQRLVDNIFEFEEKKIREI(MSE)VPRTD(MSE)VCIYESDSEEKILAILKEEGVTRYPVCRKNKDDILGF VHIRDLYNQKINENKIELEEILRDIIYISENLTIDKALERIRKEKLQLAIVVDEYGGTSGVVTIEDILEEIVGEIQ SNAGLIDESEQRLVDNIFEFEEKKIREIMVPRTDMVCIYESDSEEKILAILKEEGVTRYPVCRKNKDDILGFVHIRDLYN QKINENKIELEEILRDIIYISENLTIDKALERIRKEKLQLAIVVDEYGGTSGVVTIEDILEEIVGEIQ A apc62621.1 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 n n n n n n n n n n 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 272563 Clostridium difficile 630 469008 Escherichia coli BL23-DE3 plasmid pMCSG19 1 2.03 39.36 VAPOR DIFFUSION, SITTING DROP 6.2 0.2 M sodium Chloride 0.1M Na/K phosphate 50% PEG200, pH 6.2, VAPOR DIFFUSION, SITTING DROP, temperature 291K 291 Midwest Center for Structural Genomics MCSG PSI, Protein Structure Initiative software repository Initial release Advisory Version format compliance Refinement description 1 0 2010-03-09 1 1 2011-07-13 1 2 2017-11-08 Y RCSB Y RCSB 2010-02-19 REL REL PO4 PHOSPHATE ION HOH water PO4 401 2 PO4 PO4 401 A HOH 9 3 HOH HOH 146 A HOH 13 3 HOH HOH 147 A HOH 17 3 HOH HOH 148 A HOH 18 3 HOH HOH 149 A HOH 19 3 HOH HOH 150 A HOH 20 3 HOH HOH 151 A HOH 22 3 HOH HOH 152 A HOH 23 3 HOH HOH 153 A HOH 24 3 HOH HOH 154 A HOH 25 3 HOH HOH 155 A HOH 26 3 HOH HOH 156 A HOH 27 3 HOH HOH 157 A HOH 28 3 HOH HOH 158 A n 1 -2 A n 2 -1 A n 3 0 A n 4 1 A n 5 2 A n 6 3 A n 7 4 A n 8 5 A n 9 6 A n 10 7 A n 11 8 A n 12 9 A n 13 10 A n 14 11 A n 15 12 A n 16 13 A n 17 14 A PHE 15 n 18 PHE 15 A GLU 16 n 19 GLU 16 A PHE 17 n 20 PHE 17 A GLU 18 n 21 GLU 18 A GLU 19 n 22 GLU 19 A LYS 20 n 23 LYS 20 A LYS 21 n 24 LYS 21 A ILE 22 n 25 ILE 22 A ARG 23 n 26 ARG 23 A GLU 24 n 27 GLU 24 A ILE 25 n 28 ILE 25 A MSE 26 n 29 MSE 26 A VAL 27 n 30 VAL 27 A PRO 28 n 31 PRO 28 A ARG 29 n 32 ARG 29 A THR 30 n 33 THR 30 A ASP 31 n 34 ASP 31 A MSE 32 n 35 MSE 32 A VAL 33 n 36 VAL 33 A CYS 34 n 37 CYS 34 A ILE 35 n 38 ILE 35 A TYR 36 n 39 TYR 36 A GLU 37 n 40 GLU 37 A SER 38 n 41 SER 38 A ASP 39 n 42 ASP 39 A SER 40 n 43 SER 40 A GLU 41 n 44 GLU 41 A GLU 42 n 45 GLU 42 A LYS 43 n 46 LYS 43 A ILE 44 n 47 ILE 44 A LEU 45 n 48 LEU 45 A ALA 46 n 49 ALA 46 A ILE 47 n 50 ILE 47 A LEU 48 n 51 LEU 48 A LYS 49 n 52 LYS 49 A GLU 50 n 53 GLU 50 A GLU 51 n 54 GLU 51 A GLY 52 n 55 GLY 52 A VAL 53 n 56 VAL 53 A THR 54 n 57 THR 54 A ARG 55 n 58 ARG 55 A TYR 56 n 59 TYR 56 A PRO 57 n 60 PRO 57 A VAL 58 n 61 VAL 58 A CYS 59 n 62 CYS 59 A ARG 60 n 63 ARG 60 A LYS 61 n 64 LYS 61 A ASN 62 n 65 ASN 62 A LYS 63 n 66 LYS 63 A ASP 64 n 67 ASP 64 A ASP 65 n 68 ASP 65 A ILE 66 n 69 ILE 66 A LEU 67 n 70 LEU 67 A GLY 68 n 71 GLY 68 A PHE 69 n 72 PHE 69 A VAL 70 n 73 VAL 70 A HIS 71 n 74 HIS 71 A ILE 72 n 75 ILE 72 A ARG 73 n 76 ARG 73 A ASP 74 n 77 ASP 74 A LEU 75 n 78 LEU 75 A TYR 76 n 79 TYR 76 A ASN 77 n 80 ASN 77 A GLN 78 n 81 GLN 78 A LYS 79 n 82 LYS 79 A ILE 80 n 83 ILE 80 A ASN 81 n 84 ASN 81 A GLU 82 n 85 GLU 82 A ASN 83 n 86 ASN 83 A LYS 84 n 87 LYS 84 A ILE 85 n 88 ILE 85 A GLU 86 n 89 GLU 86 A LEU 87 n 90 LEU 87 A GLU 88 n 91 GLU 88 A GLU 89 n 92 GLU 89 A ILE 90 n 93 ILE 90 A LEU 91 n 94 LEU 91 A ARG 92 n 95 ARG 92 A ASP 93 n 96 ASP 93 A ILE 94 n 97 ILE 94 A ILE 95 n 98 ILE 95 A TYR 96 n 99 TYR 96 A ILE 97 n 100 ILE 97 A SER 98 n 101 SER 98 A GLU 99 n 102 GLU 99 A ASN 100 n 103 ASN 100 A LEU 101 n 104 LEU 101 A THR 102 n 105 THR 102 A ILE 103 n 106 ILE 103 A ASP 104 n 107 ASP 104 A LYS 105 n 108 LYS 105 A ALA 106 n 109 ALA 106 A LEU 107 n 110 LEU 107 A GLU 108 n 111 GLU 108 A ARG 109 n 112 ARG 109 A ILE 110 n 113 ILE 110 A ARG 111 n 114 ARG 111 A LYS 112 n 115 LYS 112 A GLU 113 n 116 GLU 113 A LYS 114 n 117 LYS 114 A LEU 115 n 118 LEU 115 A GLN 116 n 119 GLN 116 A LEU 117 n 120 LEU 117 A ALA 118 n 121 ALA 118 A ILE 119 n 122 ILE 119 A VAL 120 n 123 VAL 120 A VAL 121 n 124 VAL 121 A ASP 122 n 125 ASP 122 A GLU 123 n 126 GLU 123 A TYR 124 n 127 TYR 124 A GLY 125 n 128 GLY 125 A GLY 126 n 129 GLY 126 A THR 127 n 130 THR 127 A SER 128 n 131 SER 128 A GLY 129 n 132 GLY 129 A VAL 130 n 133 VAL 130 A VAL 131 n 134 VAL 131 A THR 132 n 135 THR 132 A ILE 133 n 136 ILE 133 A GLU 134 n 137 GLU 134 A ASP 135 n 138 ASP 135 A ILE 136 n 139 ILE 136 A LEU 137 n 140 LEU 137 A GLU 138 n 141 GLU 138 A GLU 139 n 142 GLU 139 A ILE 140 n 143 ILE 140 A VAL 141 n 144 VAL 141 A GLY 142 n 145 GLY 142 A GLU 143 n 146 GLU 143 A ILE 144 n 147 ILE 144 A n 148 145 A 15.0256 3.7797 8.6241 -0.2825 -3.4302 23.9723 -0.1438 0.1510 1.6426 0.6917 -0.1572 0.2916 -0.6003 0.1059 0.3010 0.9796 -0.0951 -0.0797 0.0411 -0.0925 0.3731 refined 17.4083 25.5280 17.5677 X-RAY DIFFRACTION 2.4412 1.0360 -0.5482 2.4174 0.2222 1.1211 0.0120 -0.0025 0.0772 0.0210 -0.0023 -0.0209 -0.0517 0.1687 -0.0097 0.2672 0.0021 -0.0042 0.1797 0.0156 0.1990 refined 22.4143 11.4414 7.9966 X-RAY DIFFRACTION 2.9029 1.8770 -0.7884 4.9273 0.3372 5.2309 -0.0201 0.0819 -0.0473 -0.0600 0.0182 -0.0590 0.1221 0.1069 0.0019 0.1997 -0.0217 0.0263 0.1842 -0.0071 0.1788 refined 18.8967 -9.1610 4.6204 X-RAY DIFFRACTION 10.6110 -7.6873 1.7184 11.8643 1.3860 6.7402 -0.1924 -0.4169 0.7633 0.7242 0.4652 -0.8327 0.0109 0.5577 -0.2728 0.2768 -0.0909 -0.0285 0.1957 -0.0208 0.1882 refined 20.0929 -4.5939 14.9650 X-RAY DIFFRACTION 0.0202 0.5819 0.3228 4.6307 -1.1624 3.5001 0.0012 0.0257 0.0248 0.0728 0.0255 0.2017 -0.0918 -0.0366 -0.0267 0.1726 -0.0008 0.0166 0.2071 -0.0249 0.2255 refined 14.0661 -0.5807 3.4532 X-RAY DIFFRACTION 4.1633 -1.4969 3.4132 8.7668 4.6343 9.0727 0.0047 0.2966 0.1521 0.7023 0.0660 0.0610 0.0673 -0.3196 -0.0708 0.2840 0.0018 0.0468 0.2535 0.0266 0.1293 refined 10.2920 -12.6972 14.6789 X-RAY DIFFRACTION 1.6806 -0.4416 0.9306 13.1266 -2.1878 0.6883 0.2217 0.0099 0.0687 -0.3397 -0.0089 0.6159 0.1429 0.0232 -0.2128 0.2408 -0.0077 0.0525 0.1647 -0.0127 0.3075 refined 7.1727 -9.9825 7.1188 X-RAY DIFFRACTION 3.4053 -1.3530 -0.4578 2.1050 2.2245 4.0548 -0.0095 -0.0223 0.1795 0.0997 0.1218 -0.0129 -0.2584 -0.1259 -0.1122 0.2476 0.0481 0.0270 0.1298 0.0062 0.2412 refined 11.5879 16.9223 9.7222 X-RAY DIFFRACTION 4.3137 5.6523 1.1056 9.7807 2.8104 -4.2703 -0.5724 0.6517 0.2855 0.1245 0.4504 0.6072 0.3164 -0.0040 0.1220 0.4211 0.0213 0.0781 0.3640 0.0659 0.2183 refined 5.2040 11.7304 12.9697 X-RAY DIFFRACTION 1.9404 -0.5337 -2.7601 1.2900 0.2686 9.1371 0.1831 -0.0166 0.1008 0.0736 0.0394 0.1496 -0.2492 0.0228 -0.2225 0.1817 0.0018 -0.0139 0.1883 -0.0103 0.2206 refined 16.0006 11.3740 5.9267 X-RAY DIFFRACTION 4.0972 -4.6602 -1.0387 5.8401 3.5093 6.0729 -0.2790 -0.2354 0.1820 0.1099 0.4260 -0.4531 -0.0840 0.6267 -0.1469 0.3227 0.0208 0.0613 0.2329 0.0082 0.2461 refined 16.9125 16.0916 22.5002 X-RAY DIFFRACTION A 15 A 21 X-RAY DIFFRACTION 1 A 22 A 32 X-RAY DIFFRACTION 2 A 33 A 46 X-RAY DIFFRACTION 3 A 47 A 55 X-RAY DIFFRACTION 4 A 56 A 72 X-RAY DIFFRACTION 5 A 73 A 81 X-RAY DIFFRACTION 6 A 82 A 93 X-RAY DIFFRACTION 7 A 94 A 108 X-RAY DIFFRACTION 8 A 109 A 116 X-RAY DIFFRACTION 9 A 117 A 134 X-RAY DIFFRACTION 10 A 135 A 144 X-RAY DIFFRACTION 11 software_defined_assembly PISA 2 dimeric 2100 -19 13710 A MSE 26 SELENOMETHIONINE A MSE 29 MET A MSE 32 SELENOMETHIONINE A MSE 35 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_555 x-y,-y,-z+1/3 crystal symmetry operation 0.0000000000 0.0000000000 42.5876666667 A N VAL 27 A N VAL 30 A O VAL 130 A O VAL 133 A O VAL 131 A O VAL 134 A N ALA 118 A N ALA 121 A O VAL 121 A O VAL 124 A N ILE 97 A N ILE 100 A N ILE 35 A N ILE 38 A O PRO 57 A O PRO 60 A N TYR 56 A N TYR 59 A O VAL 70 A O VAL 73 1 A CG GLU 16 A CG GLU 19 1 Y 1 A CD GLU 16 A CD GLU 19 1 Y 1 A OE1 GLU 16 A OE1 GLU 19 1 Y 1 A OE2 GLU 16 A OE2 GLU 19 1 Y 1 A CG LYS 21 A CG LYS 24 1 Y 1 A CD LYS 21 A CD LYS 24 1 Y 1 A CE LYS 21 A CE LYS 24 1 Y 1 A NZ LYS 21 A NZ LYS 24 1 Y 1 A CG GLU 86 A CG GLU 89 1 Y 1 A CD GLU 86 A CD GLU 89 1 Y 1 A OE1 GLU 86 A OE1 GLU 89 1 Y 1 A OE2 GLU 86 A OE2 GLU 89 1 Y 1 A CG ARG 111 A CG ARG 114 1 Y 1 A CD ARG 111 A CD ARG 114 1 Y 1 A NE ARG 111 A NE ARG 114 1 Y 1 A CZ ARG 111 A CZ ARG 114 1 Y 1 A NH1 ARG 111 A NH1 ARG 114 1 Y 1 A NH2 ARG 111 A NH2 ARG 114 1 Y 1 A CG LYS 112 A CG LYS 115 1 Y 1 A CD LYS 112 A CD LYS 115 1 Y 1 A CE LYS 112 A CE LYS 115 1 Y 1 A NZ LYS 112 A NZ LYS 115 1 Y 1 A CG LYS 114 A CG LYS 117 1 Y 1 A CD LYS 114 A CD LYS 117 1 Y 1 A CE LYS 114 A CE LYS 117 1 Y 1 A NZ LYS 114 A NZ LYS 117 1 Y 1 A CG GLU 143 A CG GLU 146 1 Y 1 A CD GLU 143 A CD GLU 146 1 Y 1 A OE1 GLU 143 A OE1 GLU 146 1 Y 1 A OE2 GLU 143 A OE2 GLU 146 1 Y 1 A SER -2 A SER 1 1 Y 1 A ASN -1 A ASN 2 1 Y 1 A ALA 0 A ALA 3 1 Y 1 A GLY 1 A GLY 4 1 Y 1 A LEU 2 A LEU 5 1 Y 1 A ILE 3 A ILE 6 1 Y 1 A ASP 4 A ASP 7 1 Y 1 A GLU 5 A GLU 8 1 Y 1 A SER 6 A SER 9 1 Y 1 A GLU 7 A GLU 10 1 Y 1 A GLN 8 A GLN 11 1 Y 1 A ARG 9 A ARG 12 1 Y 1 A LEU 10 A LEU 13 1 Y 1 A VAL 11 A VAL 14 1 Y 1 A ASP 12 A ASP 15 1 Y 1 A ASN 13 A ASN 16 1 Y 1 A ILE 14 A ILE 17 1 Y 1 A GLN 145 A GLN 148 1 Y 1 A A CB SG CYS CYS 59 59 -0.116 0.016 1.812 1.696 N 1 A LYS 61 74.94 -60.13 1 A ASP 65 -112.84 76.77 28.370 -0.61 -0.30 0.00 -0.61 0.00 0.91 0.957 0.927 HYDROGENS HAVE BEEN ADDED IN THE RIDING POSITIONS 0.26241 0.20136 0.21 0.20423 2.40 40.00 271 5912 5641 4.6 99.09 20.364 0.214 RANDOM LIKELY RESIDUAL 1 THROUGHOUT 2 2 SAD 0.440 0.280 0.80 0.80 1.40 MAXIMUM LIKELIHOOD MASK 2.40 40.00 13 1055 5 0 1037 0.019 0.022 1073 0.001 0.020 732 1.638 1.994 1451 0.958 3.000 1795 6.243 5.000 133 31.053 24.808 52 17.721 15.000 211 24.169 15.000 9 0.091 0.200 172 0.006 0.020 1174 0.001 0.020 203 0.760 1.500 654 0.158 1.500 266 1.521 2.000 1067 2.456 3.000 419 4.099 4.500 383 0.163 0.174 2.463 19 404 20 98.83 68.3 2.30 40 3LV9 6540 6532 2 2 0.086 1 20 6.7 98.7 0.355 2.30 2.34 6.3 320 1 6.4 99.4 data collection SBC-Collect phasing HKL-3000 model building DM model building SHELX phasing MLPHARE model building Coot model building ARP/wARP refinement REFMAC 5.5.0102 data reduction HKL-3000 data scaling HKL-3000 phasing DM phasing SHELX Putative transporter Crystal structure of CBS domain of a putative transporter from Clostridium difficile 630 1 N N 2 N N 3 N N authors state that the biological assembly is likely monomer A PHE 15 A PHE 18 HELX_P A GLU 19 A GLU 22 5 1 5 A LYS 21 A LYS 24 HELX_P A ILE 25 A ILE 28 5 2 5 A SER 40 A SER 43 HELX_P A GLU 51 A GLU 54 1 3 12 A ILE 72 A ILE 75 HELX_P A ASN 83 A ASN 86 1 4 12 A GLU 86 A GLU 89 HELX_P A ILE 90 A ILE 93 5 5 5 A THR 102 A THR 105 HELX_P A LYS 114 A LYS 117 1 6 13 A ILE 133 A ILE 136 HELX_P A GLU 143 A GLU 146 1 7 11 disulf 1.651 A CYS 34 A SG CYS 37 1_555 A CYS 59 A SG CYS 62 1_555 covale 1.340 A ILE 25 A C ILE 28 1_555 A MSE 26 A N MSE 29 1_555 covale 1.321 A MSE 26 A C MSE 29 1_555 A VAL 27 A N VAL 30 1_555 covale 1.315 A ASP 31 A C ASP 34 1_555 A MSE 32 A N MSE 35 1_555 covale 1.311 A MSE 32 A C MSE 35 1_555 A VAL 33 A N VAL 36 1_555 MEMBRANE PROTEIN CBS domain, PSI, MCSG, Structural Genomics, Protein Structure Initiative, Midwest Center for Structural Genomics, Cell membrane, Membrane, Transmembrane, MEMBRANE PROTEIN Q183U2_CLOD6 UNP 1 196 Q183U2 GLIDESEQRLVDNIFEFEEKKIREIMVPRTDMVCIYESDSEEKILAILKEEGVTRYPVCRKNKDDILGFVHIRDLYNQKI NENKIELEEILRDIIYISENLTIDKALERIRKEKLQLAIVVDEYGGTSGVVTIEDILEEIVGEIQ 196 340 3LV9 1 145 Q183U2 A 1 4 148 1 expression tag SER -2 3LV9 A Q183U2 UNP 1 1 expression tag ASN -1 3LV9 A Q183U2 UNP 2 1 expression tag ALA 0 3LV9 A Q183U2 UNP 3 4 3 anti-parallel anti-parallel parallel parallel anti-parallel A VAL 27 A VAL 30 A PRO 28 A PRO 31 A THR 127 A THR 130 A THR 132 A THR 135 A LEU 117 A LEU 120 A VAL 121 A VAL 124 A ILE 95 A ILE 98 A SER 98 A SER 101 A ILE 35 A ILE 38 A TYR 36 A TYR 39 A ARG 55 A ARG 58 A CYS 59 A CYS 62 A ILE 66 A ILE 69 A HIS 71 A HIS 74 BINDING SITE FOR RESIDUE PO4 A 401 Software 3 A TYR 36 A TYR 39 3 1_555 A LYS 63 A LYS 66 3 1_555 A LYS 84 A LYS 87 3 4_655 154 P 32 2 1