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Sequence, Chains, Asymmetric and Biological Units

Title CRYSTAL STRUCTURE OF RLUF IN COMPLEX WITH A 22 NUCLEOTIDE RN SUBSTRATE
Keywords PROTEIN-RNA COMPLEX, S4 DOMAIN, ALPHA/BETA PROTEIN, ISOMERAS BINDING, RRNA PROCESSING, ISOMERASE-RNA COMPLEX
Experiment X-ray diffraction
Number of Models  1

   Database       ID code    StatusCoordinate files
        Header     Asymmetric unit     Biological unit  
PDB   3DH3     released     available     available     Quaternary Structure Server  
Asymmetric unit from PDB
 Unit     Type     Name   Chain ID   Residues   Atoms   Hetatoms 
1  Protein   RIBOSOMAL LARGE SUBUNIT PSEUDOURIDINE SYNTHASE F  A 240 1902 0
2  RNA    E 22 453 22
3  Protein   RIBOSOMAL LARGE SUBUNIT PSEUDOURIDINE SYNTHASE F  B 241 1909 0
4  RNA    F 22 453 22
5  Protein   RIBOSOMAL LARGE SUBUNIT PSEUDOURIDINE SYNTHASE F  C 239 1895 0
6  RNA    G 22 453 22
7  Protein   RIBOSOMAL LARGE SUBUNIT PSEUDOURIDINE SYNTHASE F  D 239 1895 0
8  RNA    H 22 453 22
9 Water     49 0 49
total       1096 9413 137
Proteins
Unit 1 ASP4 SER5 SER6 VAL7 ARG8 LEU9 ASN10 LYS11 TYR12 ILE13 SER14 GLU15 SER16 GLY17 ILE18 CYS19 SER20 ARG21 ARG22 GLU23 ALA24 ASP25 ARG26 TYR27 ILE28 GLU29 GLN30 GLY31 ASN32 VAL33 PHE34 LEU35 ASN36 GLY37 LYS38 ARG39 ALA40 THR41 ILE42 GLY43 ASP44 GLN45 VAL46 LYS47 PRO48 GLY49 ASP50 VAL51 VAL52 LYS53 VAL54 ASN55 GLY56 GLN57 LEU58 ILE59 GLU60 PRO61 ARG62 GLU63 ALA64 GLU65 ASP66 LEU67 VAL68 LEU69 ILE70 ALA71 LEU72 ASN73 LYS74 PRO75 VAL76 GLY77 ILE78 VAL79 SER80 THR81 THR82 GLU83 ASP84 GLY85 GLU86 ARG87 ASP88 ASN89 ILE90 VAL91 ASP92 PHE93 VAL94 ASN95 HIS96 SER97 LYS98 ARG99 VAL100 PHE101 PRO102 ILE103 GLY104 ARG105 LEU106 ASP107 LYS108 ASP109 SER110 GLN111 GLY112 LEU113 ILE114 PHE115 LEU116 THR117 ASN118 HIS119 GLY120 ASP121 LEU122 VAL123 ASN124 LYS125 ILE126 LEU127 ARG128 ALA129 GLY130 ASN131 ASP132 HIS133 GLU134 LYS135 GLU136 TYR137 LEU138 VAL139 THR140 VAL141 ASP142 LYS143 PRO144 ILE145 THR146 GLU147 GLU148 PHE149 ILE150 ARG151 GLY152 MET153 SER154 ALA155 GLY156 VAL157 PRO158 ILE159 LEU160 GLY161 THR162 VAL163 THR164 LYS165 LYS166 CYS167 LYS168 VAL169 LYS170 LYS171 GLU172 ALA173 PRO174 PHE175 VAL176 PHE177 ARG178 ILE179 THR180 LEU181 VAL182 GLN183 GLY184 LEU185 ASN186 ARG187 GLN188 ILE189 ARG190 ARG191 MET192 CYS193 GLU194 HIS195 PHE196 GLY197 TYR198 GLU199 VAL200 LYS201 LYS202 LEU203 GLU204 ARG205 THR206 ARG207 ILE208 MET209 ASN210 VAL211 SER212 LEU213 SER214 GLY215 ILE216 PRO217 LEU218 GLY219 GLU220 TRP221 ARG222 ASP223 LEU224 THR225 ASP226 ASP227 GLU228 LEU229 ILE230 ASP231 LEU232 PHE233 LYS234 LEU235 ILE236 GLU237 ASN238 SER239 SER240 SER241 GLU242 VAL243
Unit 3 PRO3 ASP4 SER5 SER6 VAL7 ARG8 LEU9 ASN10 LYS11 TYR12 ILE13 SER14 GLU15 SER16 GLY17 ILE18 CYS19 SER20 ARG21 ARG22 GLU23 ALA24 ASP25 ARG26 TYR27 ILE28 GLU29 GLN30 GLY31 ASN32 VAL33 PHE34 LEU35 ASN36 GLY37 LYS38 ARG39 ALA40 THR41 ILE42 GLY43 ASP44 GLN45 VAL46 LYS47 PRO48 GLY49 ASP50 VAL51 VAL52 LYS53 VAL54 ASN55 GLY56 GLN57 LEU58 ILE59 GLU60 PRO61 ARG62 GLU63 ALA64 GLU65 ASP66 LEU67 VAL68 LEU69 ILE70 ALA71 LEU72 ASN73 LYS74 PRO75 VAL76 GLY77 ILE78 VAL79 SER80 THR81 THR82 GLU83 ASP84 GLY85 GLU86 ARG87 ASP88 ASN89 ILE90 VAL91 ASP92 PHE93 VAL94 ASN95 HIS96 SER97 LYS98 ARG99 VAL100 PHE101 PRO102 ILE103 GLY104 ARG105 LEU106 ASP107 LYS108 ASP109 SER110 GLN111 GLY112 LEU113 ILE114 PHE115 LEU116 THR117 ASN118 HIS119 GLY120 ASP121 LEU122 VAL123 ASN124 LYS125 ILE126 LEU127 ARG128 ALA129 GLY130 ASN131 ASP132 HIS133 GLU134 LYS135 GLU136 TYR137 LEU138 VAL139 THR140 VAL141 ASP142 LYS143 PRO144 ILE145 THR146 GLU147 GLU148 PHE149 ILE150 ARG151 GLY152 MET153 SER154 ALA155 GLY156 VAL157 PRO158 ILE159 LEU160 GLY161 THR162 VAL163 THR164 LYS165 LYS166 CYS167 LYS168 VAL169 LYS170 LYS171 GLU172 ALA173 PRO174 PHE175 VAL176 PHE177 ARG178 ILE179 THR180 LEU181 VAL182 GLN183 GLY184 LEU185 ASN186 ARG187 GLN188 ILE189 ARG190 ARG191 MET192 CYS193 GLU194 HIS195 PHE196 GLY197 TYR198 GLU199 VAL200 LYS201 LYS202 LEU203 GLU204 ARG205 THR206 ARG207 ILE208 MET209 ASN210 VAL211 SER212 LEU213 SER214 GLY215 ILE216 PRO217 LEU218 GLY219 GLU220 TRP221 ARG222 ASP223 LEU224 THR225 ASP226 ASP227 GLU228 LEU229 ILE230 ASP231 LEU232 PHE233 LYS234 LEU235 ILE236 GLU237 ASN238 SER239 SER240 SER241 GLU242 VAL243
Unit 5 ASP4 SER5 SER6 VAL7 ARG8 LEU9 ASN10 LYS11 TYR12 ILE13 SER14 GLU15 SER16 GLY17 ILE18 CYS19 SER20 ARG21 ARG22 GLU23 ALA24 ASP25 ARG26 TYR27 ILE28 GLU29 GLN30 GLY31 ASN32 VAL33 PHE34 LEU35 ASN36 GLY37 LYS38 ARG39 ALA40 THR41 ILE42 GLY43 ASP44 GLN45 VAL46 LYS47 PRO48 GLY49 ASP50 VAL51 VAL52 LYS53 VAL54 ASN55 GLY56 GLN57 LEU58 ILE59 GLU60 PRO61 ARG62 GLU63 ALA64 GLU65 ASP66 LEU67 VAL68 LEU69 ILE70 ALA71 LEU72 ASN73 LYS74 PRO75 VAL76 GLY77 ILE78 VAL79 SER80 THR81 THR82 GLU83 ASP84 GLY85 GLU86 ARG87 ASP88 ASN89 ILE90 VAL91 ASP92 PHE93 VAL94 ASN95 HIS96 SER97 LYS98 ARG99 VAL100 PHE101 PRO102 ILE103 GLY104 ARG105 LEU106 ASP107 LYS108 ASP109 SER110 GLN111 GLY112 LEU113 ILE114 PHE115 LEU116 THR117 ASN118 HIS119 GLY120 ASP121 LEU122 VAL123 ASN124 LYS125 ILE126 LEU127 ARG128 ALA129 GLY130 ASN131 ASP132 HIS133 GLU134 LYS135 GLU136 TYR137 LEU138 VAL139 THR140 VAL141 ASP142 LYS143 PRO144 ILE145 THR146 GLU147 GLU148 PHE149 ILE150 ARG151 GLY152 MET153 SER154 ALA155 GLY156 VAL157 PRO158 ILE159 LEU160 GLY161 THR162 VAL163 THR164 LYS165 LYS166 CYS167 LYS168 VAL169 LYS170 LYS171 GLU172 ALA173 PRO174 PHE175 VAL176 PHE177 ARG178 ILE179 THR180 LEU181 VAL182 GLN183 GLY184 LEU185 ASN186 ARG187 GLN188 ILE189 ARG190 ARG191 MET192 CYS193 GLU194 HIS195 PHE196 GLY197 TYR198 GLU199 VAL200 LYS201 LYS202 LEU203 GLU204 ARG205 THR206 ARG207 ILE208 MET209 ASN210 VAL211 SER212 LEU213 SER214 GLY215 ILE216 PRO217 LEU218 GLY219 GLU220 TRP221 ARG222 ASP223 LEU224 THR225 ASP226 ASP227 GLU228 LEU229 ILE230 ASP231 LEU232 PHE233 LYS234 LEU235 ILE236 GLU237 ASN238 SER239 SER240 SER241 GLU242
Unit 7 ASP4 SER5 SER6 VAL7 ARG8 LEU9 ASN10 LYS11 TYR12 ILE13 SER14 GLU15 SER16 GLY17 ILE18 CYS19 SER20 ARG21 ARG22 GLU23 ALA24 ASP25 ARG26 TYR27 ILE28 GLU29 GLN30 GLY31 ASN32 VAL33 PHE34 LEU35 ASN36 GLY37 LYS38 ARG39 ALA40 THR41 ILE42 GLY43 ASP44 GLN45 VAL46 LYS47 PRO48 GLY49 ASP50 VAL51 VAL52 LYS53 VAL54 ASN55 GLY56 GLN57 LEU58 ILE59 GLU60 PRO61 ARG62 GLU63 ALA64 GLU65 ASP66 LEU67 VAL68 LEU69 ILE70 ALA71 LEU72 ASN73 LYS74 PRO75 VAL76 GLY77 ILE78 VAL79 SER80 THR81 THR82 GLU83 ASP84 GLY85 GLU86 ARG87 ASP88 ASN89 ILE90 VAL91 ASP92 PHE93 VAL94 ASN95 HIS96 SER97 LYS98 ARG99 VAL100 PHE101 PRO102 ILE103 GLY104 ARG105 LEU106 ASP107 LYS108 ASP109 SER110 GLN111 GLY112 LEU113 ILE114 PHE115 LEU116 THR117 ASN118 HIS119 GLY120 ASP121 LEU122 VAL123 ASN124 LYS125 ILE126 LEU127 ARG128 ALA129 GLY130 ASN131 ASP132 HIS133 GLU134 LYS135 GLU136 TYR137 LEU138 VAL139 THR140 VAL141 ASP142 LYS143 PRO144 ILE145 THR146 GLU147 GLU148 PHE149 ILE150 ARG151 GLY152 MET153 SER154 ALA155 GLY156 VAL157 PRO158 ILE159 LEU160 GLY161 THR162 VAL163 THR164 LYS165 LYS166 CYS167 LYS168 VAL169 LYS170 LYS171 GLU172 ALA173 PRO174 PHE175 VAL176 PHE177 ARG178 ILE179 THR180 LEU181 VAL182 GLN183 GLY184 LEU185 ASN186 ARG187 GLN188 ILE189 ARG190 ARG191 MET192 CYS193 GLU194 HIS195 PHE196 GLY197 TYR198 GLU199 VAL200 LYS201 LYS202 LEU203 GLU204 ARG205 THR206 ARG207 ILE208 MET209 ASN210 VAL211 SER212 LEU213 SER214 GLY215 ILE216 PRO217 LEU218 GLY219 GLU220 TRP221 ARG222 ASP223 LEU224 THR225 ASP226 ASP227 GLU228 LEU229 ILE230 ASP231 LEU232 PHE233 LYS234 LEU235 ILE236 GLU237 ASN238 SER239 SER240 SER241 GLU242
Nucleic acids
Unit 2 A2587 G2588 A2589 A2590 C2591 G2592 U2593 C2594 G2595 U2596 G2597 A2598 G2599 A2600 C2601 A2602 G2603 FHU2604 U2605 C2606 G2607 G2608
Unit 4 A2587 G2588 A2589 A2590 C2591 G2592 U2593 C2594 G2595 U2596 G2597 A2598 G2599 A2600 C2601 A2602 G2603 FHU2604 U2605 C2606 G2607 G2608
Unit 6 A2587 G2588 A2589 A2590 C2591 G2592 U2593 C2594 G2595 U2596 G2597 A2598 G2599 A2600 C2601 A2602 G2603 FHU2604 U2605 C2606 G2607 G2608
Unit 8 A2587 G2588 A2589 A2590 C2591 G2592 U2593 C2594 G2595 U2596 G2597 A2598 G2599 A2600 C2601 A2602 G2603 FHU2604 U2605 C2606 G2607 G2608
Chirality of ribose and phosphate atoms

Check the naming of phosphate and ribose substituents. Recommended for phosphate oxygens and for ribose hydrogens in NMR structures.

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Perl script:    PDBscan.pl  (15 Sep 2016)
Author:    Peter Slickers  (slickers@leibniz-fli.de),  IMB Jena,  Germany