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(-)Theoretical Model
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Theoretical Model  (Jmol Viewer)

(-) Description

Title :  RIBOSOMAL RNAS AND PROTEINS AS WELL AS FACTORS IN THE PRE-TRANSLOCATIONAL STATE
 
Authors :  K. Nagano, N. Nagano
Date :  20 Apr 01  (Deposition) - 30 Sep 03  (Release) - 30 Sep 03  (Revision)
Method :  THEORETICAL MODEL
Resolution :  NOT APPLICABLE
Chains :  Theor. Model :  A,B,C,D,E,F,G,H,_#
( #:   chains that contain no standard or modified protein/DNA/RNA residue)
 
Keywords :  Possible Interaction Between Small And Large Ribosomal Rnas, Mrna And Trnas (Keyword Search: [Gene Ontology, PubMed, Web (Google)] )
 
Reference :  K. Nagano, N. Nagano
Stereochemical Mechanism Of Translocation, Termination And Codon Recognition Of E. Coli 16S And 23S Ribosomal Rnas
To Be Published
PubMed: search
(for further references see the PDB file header)

(-) Compounds

Molecule 1 - 16S RIBOSOMAL RNA
    Chains: A
    Organism Common: BACTERIA
    Organism Scientific: ESCHERICHIA COLI
 
Molecule 2 - 5'- R(P*UP*UP*UP*UP*UP*UP*UP*UP*UP*UP*UP*UP*UP*UP*UP*UP*UP*UP*U P*UP*UP*UP*U)-3'
    Chains: B
    Organism Common: BACTERIA
    Organism Scientific: ESCHERICHIA COLI
    Other Details: MESSENGER RNA
 
Molecule 3 - TRNAS BOUND TO A AND P SITES
    Chains: C, D
    Organism Common: BACTERIA
    Organism Scientific: ESCHERICHIA COLI
 
Molecule 4 - 23S RIBOSOMAL RNA
    Chains: E
    Organism Common: BACTERIA
    Organism Scientific: ESCHERICHIA COLI
 
Molecule 5 - NASCENT POLYPEPTIDE
    Chains: F
    Organism Common: BACTERIA
    Organism Scientific: ESCHERICHIA COLI
 
Molecule 6 - RIBOSOMAL PROTEIN L11
    Chains: G
    Organism Common: BACTERIA
    Organism Scientific: THERMOTOGA MARITIMA
    Other Details: HYBRID SEQUENCE: N-TERMINUS FROM THERMOTOGA MARITIMA AND C-TERMINUS FROM BACILLUS STEAROTHERMOPHILUS
 
Molecule 7 - ELONGATION FACTOR G
    Chains: H
    Organism Common: BACTERIA
    Organism Scientific: THERMUS THERMOPHILUS

 Structural Features

(-) Chains, Units

  
Theoretical Model : 
( #:   chains that contain no standard or modified protein/DNA/RNA residue)
 

Summary Information (see also Sequences/Alignments below)

(-) Ligands, Modified Residues, Ions  (16, 46)

Theoretical Model (16, 46)
No.NameCountTypeFull Name
11MA2Mod. Nucleotide6-HYDRO-1-METHYLADENOSINE-5'-MONOPHOSPHATE
22MG2Mod. Nucleotide2N-METHYLGUANOSINE-5'-MONOPHOSPHATE
32MU1Mod. Nucleotide2',5-DIMETHYLURIDINE-5'-MONOPHOSPHATE
45MC4Mod. Nucleotide5-METHYLCYTIDINE-5'-MONOPHOSPHATE
55MU2Mod. Nucleotide5-METHYLURIDINE 5'-MONOPHOSPHATE
67MG1Mod. Nucleotide7N-METHYL-8-HYDROGUANOSINE-5'-MONOPHOSPHATE
7GTP1Ligand/IonGUANOSINE-5'-TRIPHOSPHATE
8H2U4Mod. Nucleotide5,6-DIHYDROURIDINE-5'-MONOPHOSPHATE
9M2G2Mod. NucleotideN2-DIMETHYLGUANOSINE-5'-MONOPHOSPHATE
10MA62Mod. Nucleotide6N-DIMETHYLADENOSINE-5'-MONOPHOSHATE
11OMC7Mod. NucleotideO2'-METHYLYCYTIDINE-5'-MONOPHOSPHATE
12OMG5Mod. NucleotideO2'-METHYLGUANOSINE-5'-MONOPHOSPHATE
13OMU4Mod. NucleotideO2'-METHYLURIDINE 5'-MONOPHOSPHATE
14PSU6Mod. NucleotidePSEUDOURIDINE-5'-MONOPHOSPHATE
15TYR1Mod. Amino AcidTYROSINE
16YG2Mod. ResidueWYBUTOSINE

(-) Sites  (0, 0)

(no "Site" information available for 1IP8)

(-) SS Bonds  (0, 0)

(no "SS Bond" information available for 1IP8)

(-) Cis Peptide Bonds  (0, 0)

(no "Cis Peptide Bond" information available for 1IP8)

 Sequence-Structure Mapping

(-) SAPs(SNPs)/Variants  (0, 0)

(no "SAP(SNP)/Variant" information available for 1IP8)

(-) PROSITE Motifs  (2, 3)

Theoretical Model (2, 3)
 PROSITEUniProtKBPDB
No.IDACDescriptionIDLocationCountLocation
1G_TR_1PS00301 Translational (tr)-type guanine nucleotide-binding (G) domain signature.EFG_THETH53-68  1H:8068-8068
2RIBOSOMAL_L11PS00359 Ribosomal protein L11 signature.RL11_GEOSE118-133  1G:7126-7141
RL11_THEMA126-141  1G:7128-7141

(-) Exons   (0, 0)

(no "Exon" information available for 1IP8)

(-) Sequences/Alignments

Theoretical Model
   Reformat: Number of residues per line =  ('0' or empty: single-line sequence representation)
  Number of residues per labelling interval =   
  UniProt sequence: complete  aligned part    
   Show mapping: SCOP domains CATH domains Pfam domains Secondary structure (by author)
SAPs(SNPs) PROSITE motifs Exons
(details for a mapped element are shown in a popup box when the mouse pointer rests over it) 
Chain A from PDB  Type:RNA  Length:1288
                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                         
                1ip8 A    9 GAGUUUGAUCAUGGCUCAGAUUGAACGCUGGCGGCAGGCCUAACACAUGCAAGUCGAACGGUAACAGGAAGAAGCUUGCUUCUUUGCUGACGAGUGGCGGACGGGUGAGUAAUGUCUGGGAAACUGCCUGAUGGAGGGGGAUAACUACUGGAAACGGUAGCUAAUACCGCAUAACGUCGCAAGACCAAAGAGGGGGACCUUCGGGCCUCUUGCCAUCGGAUGUGCCCAGAUGGGAUUAGCUAGUAGGUGGGGUAACGGCUCACCUAGGCGACGAUCCCUAGCUGGUCUGAGAGGAUGACCAGCCACACUGGAACUGAGACACGGUCCAGACUCCUACGGGAGGCAGCAGUGGGGAAUAUUGCACAAUGGGCGCAAGCCUGAUGCAGCCAUGCCGCGUGUAUGAAGAAGGCCUUCGGGUUGUAAAGUACUUUCAGCGGGGAGGAAGGGAGUAAAGUUAAUACCUUUGCUCAUUGACGUUACCCGCAGAAGAAGCACCGGCUAACUCCGuGCCAGCAGCCgCGGUAAUACGGAGGGUGCAAGCGUUAAUCGGAAUUACUGGGCGAGUCUCGUAGAGGGGGGUAGAAUUCCAGGUGUAGCGGUGAAAUGCGUAGAGAUCUGGAGGAAUACCGGUGGCGAAGGCGGCCCCCUGGACGAAGACUGAGCGUGGGGAGCAAACAGGAUUAGAUACCCUGGUAGUCCACGCCCGCCUGGGGAGUACGGCCGCAAGGUUAAAACUCAAAUGAAUUGACGGGGGCCCGCACAAGCGGUGGAGCAUGUGGUUUAAUUCGAUgcAACGCGAAGAACCUUACCUGGUCUUGACAUCCACGGAAGUUUUCAGAGAUGAGAAUGUGCCUUCGGGAACCGUGAGACAGGUGCUGCAUGGCUGUCGUCAGCUCGUGUUGUGAAAUGUUGGGUUAAGUCCCGCAACGAGCGCAACCCUUAUCCUUUGUUGCCAGCGGUCCGGCCGGGAACUCAAAGGAGACUGCCAGUGAUAAACUGGAGGAAGGUGGGGAUGACGUCAAGUCAUCAUGgCCCUUACGACCAGGGCUACACACGUGCUACAAUGGCGCAUACAAAGAGAAGCGACCUCGCGAGAGCAAGCGGACCUCAUAAAGUGCGUCGUAGUCCGGAUUGGAGUCUGCAACUCGACUCCAUGAAGUCGGAAUCGCUAGUAAUCGUGGAUCAGAAUGCCACGGUGAAUACGUUCCCGGGCCUUGUACACACCGcCCGUcACAUGAAGUCGuAACAAGGUAACCGUAGGgGaaCCUGCGGUUGGAUCACCUCCUUA 1542
                                    18        28        38        48        58        68        78        88        98       108       118       128       138       148       158       168       178       188       198       208       218       228       238       248       258       268       278       288       298       308       318       328       338       348       358       368       378       388       398       408       418       428       438       448       458       468       478       488       498       508       518       528       538       548       558       568||     662       672       682       692       702       712       722       732       742       752|      777       787       797       807   ||  885       895       905       915       925       935       945       955       965||     975       985       995      1005      1015      1025      1035      1045      1055      1065      1075      1085      1095      1105      1115      1125      1135      1145      1155      1165      1175      1185      1195      1205 |    1215      1225      1235      1245      1255      1265      1275      1285      1295      1305      1315      1325      1335      1345      1355      1365      1375      1385      1395      1405 |  ||1494   |  1504      1514 | || 1524      1534        
                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                     516-OMU    527-7MG                                   569|                                                                                               752|                                        811|                                                                                   966-OMG                                                                                                                                                                                                                                         1207-OMG                                                                                                                                                                                           1402-OMC|  ||       |              1516-OMG                      
                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                           654                                                                                                768                                         880                                                                                    967-OMC                                                                                                                                                                                                                                                                                                                                                                                                                                                1407-OMC       |                1518-MA6                    
                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                           1410|       |                 1519-MA6                   
                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                            1490       |                                            
                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                    1498-OMU                                        


Chain B from PDB  Type:RNA  Length:23
                                                        
                1ip8 B 1623 UUUUUUUUUUUUUUUUUUUUUUU 1645
                                  1632      1642   


Chain C from PDB  Type:RNA  Length:92
                                                                                                                             
                1ip8 C 1801 GCGGAUUUAgCUCAGuuGGGAGAGCgCCAGAcUgAAgAucUGGAAUGCGGUCAAAAGCUGCAUCcUGUGuuCGaUCCACAGAAUUCGCACCA 1892
                                  1810     |1820     |1830 | |  1840      1850      1860    | 1870|  |  1880      1890  
                                  1810-2MG ||     1826-M2G | |  | ||                     1865-5MC||  |                  
                                        1816-H2U        1832-OMC| ||                          1870-5MU                  
                                         1817-H2U         1834-OMG||                           1871-PSU                 
                                                             1837-YG                              1874-1MA              
                                                               1839-PSU                                                 
                                                                1840-5MC                                                


Chain D from PDB  Type:RNA  Length:92
                                                                                                                             
                1ip8 D 1901 GCGGAUUUAgCUCAGuuGGGAGAGCgCCAGAcUgAAgAucUGGAAUGCGGUCAAAAGCUGCAUCcUGUGuuCGaUCCACAGAAUUCGCACCA 1992
                                  1910     |1920     |1930 | |  1940      1950      1960    | 1970|  |  1980      1990  
                                  1910-2MG ||     1926-M2G | |  | ||                     1965-5MC||  |                  
                                        1916-H2U        1932-OMC| ||                          1970-5MU                  
                                         1917-H2U         1934-OMG||                           1971-PSU                 
                                                             1937-YG                              1974-1MA              
                                                               1939-PSU                                                 
                                                                1940-5MC                                                


Chain E from PDB  Type:RNA  Length:894
                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                               
                1ip8 E 2406 GGGGGGACCAUCCUCCGAGCACUGUUUCGGCAAGGGGGUCAUCCCGACUUACCAACCCGAUGCAAACUGCGCCAGGAUGUUGGCUUAGAAGCAGCCAUCAUUUAAAGAAAGCGUAAUAGCUCACUGGUACGCCUGCCCGGUGCCGGAAGGUUAAUUGAUGGGGUUAGCGCAAGCGAAGCUCUUGAUCGAAGCCCCGGUAAACGGCGGCCGuAACuAuAACGGUCCUAAGGUAGCGAAAuUCCUUGUCGGGUAAGUUCCGACcUGCACGAAUGGCGUCGCUGUGAAGAUGCAGUGUACCCGCGGCAAGACGGAAAGACCCCGUGAACCUUUACUAUAGCUGGUGGGUAGUUUGACUGGGGCGGUCUCCUCCUAAAGAGUAACGGAGGAGCACGAAGGUUGGCUAAUCCUGGUCGGACAUCAGGAGGUUAGUGCAAUGGCAUAAGCCAGCUUGACUGCGAGCGUGACGGCGCGAGCAGGUGCGAAAGCAGGUCAUAGUGAUCCGGUGGUUCUGAAUGGAAGGGCCAUCGCUCAACGGAUAAAAGGUACUCCGGGGAUAACAGGCUGAUACCGCCCAAGAGUUCAUAUCGACGGCGGUGUUUGGCAcCUCGAUGUCGGCUCAUCACAUCCUGGGGCUGAAGUAGGUCCCAAGGGUAUGGCuGUUCGCCAUUUAAAGUGGUACGCGAGCUGGGUUUAGAACGUCGUGAGACAGUUCGGUCCCUAUCUGCCGUGGGCGCUGGAGAACUGAGGGGGGCUGCUCCUAGUACGAGAGGACCGGAGUGGACGCAUCACUGGUGUUCGGGUUGUCAUGCCAAUGGCACUGCCCGGUAGCUAAAUGCGGAAGAGAUAAGUGCUGAAAGCAUCUAAGCACGAAACUUGCCCCGAGAUGAGUUCUCC 4788
                                  2415     |2865      2875      2885      2895      2905      2915|     3060      3070      3080      3090      3100      3830      3840      3850      3860      3870      3880      3890      3900      3910|   | 3920      3930      3940      3950      3960 |    3970     |4026      4036      4046      4056      4066      4076      4234      4244      4254      4264      4274      4284      4294      4304      4314      4324      4334      4344      4354      4364      4374      4384      4394      4404      4414      4424      4434      4444      4454      4464      4474      4484      4494   |  4504      4514      4524      4534      4544      4554      4564      4574      4584      4594      4604      4614      4624      4634      4644      4654      4664      4674      4684      4694      4704      4714      4724      4734      4744      4754      4764      4774      4784    
                                        2421|                                                 2915|                                                     3108|                                                                              3911-PSU |                  3939-2MU               3962-OMC      3976|                                                          4085|                                                                                                                                                                                                                                                                    4498-OMC                                              4552-OMU                                                                                                                                                                                                                                        
                                         2862                                                  3051                                                      3829                                                                                  3915-OMU                                                      4023                                                           4234                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                          
                                                                                                                                                                                                                                                 3917-PSU                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                 


Chain F from PDB  Type:PROTEIN  Length:18
                                                   
               SCOP domains ------------------ SCOP domains
               CATH domains ------------------ CATH domains
               Pfam domains ------------------ Pfam domains
         Sec.struct. author .................. Sec.struct. author
                 SAPs(SNPs) ------------------ SAPs(SNPs)
                    PROSITE ------------------ PROSITE
                 Transcript ------------------ Transcript
                1ip8 F 5001 YKKKKKKKKKKKKKKKKY 5018
                                  5010        


Chain G from PDB  Type:PROTEIN  Length:141
 aligned with RL11_GEOSE | P56210 from UniProtKB/Swiss-Prot  Length:133

    Alignment length:141
                                    1                                                                                                                                    
                                    |2        12        22        32        42        52        62        72        82        92       102       112       122       132 
          RL11_GEOSE      - --------MKLQIPAGKANPAPPVGPALGQAGVNIMAFCKEFNARTADQAGLIIPVEITVFEDRSFTFITKTPPAAVLLKKAAGIESGSGEPNRNKVATIKRDKVREIAELKMPDLNAASIEAAMRMIEGTARSMGIVVED  133
               SCOP domains --------------------------------------------------------------------------------------------------------------------------------------------- SCOP domains
               CATH domains --------------------------------------------------------------------------------------------------------------------------------------------- CATH domains
               Pfam domains --------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author ............................................................................................................................................. Sec.struct. author
                 SAPs(SNPs) --------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE -----------------------------------------------------------------------------------------------------------------------------RIBOSOMAL_L11    PROSITE
                 Transcript --------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                1ip8 G 7001 MAKKVAAQIKLQLPAGKATPAPPVGPALGQHGVNIMEFCKRFNAETADKAGMILPVVITVYEDKSFTFIIKTPPAAVLLKKAAGIESGSGEPNRNKVATIKRDKVREIAELKMPDLNAASIEAAMRMIEGTARSMGIVVED 7141
                                  7010      7020      7030      7040      7050      7060      7070      7080      7090      7100      7110      7120      7130      7140 


Chain G from PDB  Type:PROTEIN  Length:141
 aligned with RL11_THEMA | P29395 from UniProtKB/Swiss-Prot  Length:141

    Alignment length:141
                                    10        20        30        40        50        60        70        80        90       100       110       120       130       140 
          RL11_THEMA      1 MAKKVAAQIKLQLPAGKATPAPPVGPALGQHGVNIMEFCKRFNAETADKAGMILPVVITVYEDKSFTFIIKTPPASFLLKKAAGIEKGSSEPKRKIVGKVTRKQIEEIAKTKMPDLNANSLEAAMKIIEGTAKSMGIEVVD  141
               SCOP domains --------------------------------------------------------------------------------------------------------------------------------------------- SCOP domains
               CATH domains --------------------------------------------------------------------------------------------------------------------------------------------- CATH domains
               Pfam domains --------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author ............................................................................................................................................. Sec.struct. author
                 SAPs(SNPs) --------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                PROSITE (2) -----------------------------------------------------------------------------------------------------------------------------RIBOSOMAL_L11    PROSITE (2)
                 Transcript --------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                1ip8 G 7001 MAKKVAAQIKLQLPAGKATPAPPVGPALGQHGVNIMEFCKRFNAETADKAGMILPVVITVYEDKSFTFIIKTPPAAVLLKKAAGIESGSGEPNRNKVATIKRDKVREIAELKMPDLNAASIEAAMRMIEGTARSMGIVVED 7141
                                  7010      7020      7030      7040      7050      7060      7070      7080      7090      7100      7110      7120      7130      7140 


Chain H from PDB  Type:PROTEIN  Length:632
 aligned with EFG_THETH | P13551 from UniProtKB/Swiss-Prot  Length:691

    Alignment length:685
                                    14        24        34        44        54        64        74        84        94       104       114       124       134       144       154       164       174       184       194       204       214       224       234       244       254       264       274       284       294       304       314       324       334       344       354       364       374       384       394       404       414       424       434       444       454       464       474       484       494       504       514       524       534       544       554       564       574       584       594       604       614       624       634       644       654       664       674       684     
           EFG_THETH      5 VEYDLKRLRNIGIAAHIDAGKTTTTERILYYTGRIHKIGEVHEGAATMDFMEQERERGITITAAVTTCFWKDHRINIIDTPGHVDFTIEVERSMRVLDGAIVVFDSSQGVEPQSETVWRQAEKYKVPRIAFANKMDKTGADLWLVIRTMQERLGARPVVMQLPIGREDTFSGIIDVLRMKAYTYGNDLGTDIREIPIPEEYLDQAREYHEKLVEVAADFDENIMLKYLEGEEPTEEELVAAIRKGTIDLKITPVFLGSALKNKGVQLLLDAVVDYLPSPLDIPPIKGTTPEGEVVEIHPDPNGPLAALAFKIMADPYVGRLTFIRVYSGTLTSGSYVYNTTKGRKERVARLLRMHANHREEVEELKAGDLGAVVGLKETITGDTLVGEDAPRVILESIEVPEPVIDVAIEPKTKADQEKLSQALARLAEEDPTFRVSTHPETGQTIISGMGELHLEIIVDRLKREFKVDANVGKPQVAYRETITKPVDVEGKFIRQTGGRGQYGHVKIKVEPLPRGSGFEFVNAIVGGVIPKEYIPAVQKGIEEAMQSGPLIGFPVVDIKVTLYDGSYHEVDSSEMAFKIAGSMAIKEAVQKGDPVILEPIMRVEVTTPEEYMGDVIGDLNARRGQILGMEPRGNAQVIRAFVPLAEMFGYATDLRSKTQGRGSFVMFFDHYQEVPKQVQEKLIK  689
               SCOP domains ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SCOP domains
               CATH domains ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- CATH domains
               Pfam domains ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author ...................................----------------------------............................................................................................................................................................................................................................................................................................................................................---------........--------....................---.......................-----...................................................................................................................................................................................................................... Sec.struct. author
                 SAPs(SNPs) ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE ------------------------------------------------G_TR_1          --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                1ip8 H 8005 VEYDLKRLRNIGIAAHIDAGKTTTTERILYYTGRI----------------------------AVTTCFWKDHRINIIDTPGHVDFTIEVERSMRVLDGAIVVFDSSQGVEPQSETVWRQAEKYKVPRIAFANKMDKTGADLWLVIRTMQERLGARPVVMQLPIGREDTFSGIIDVLRMKAYTYGNDLGTDIREIPIPEEYLDQAREYHEKLVEVAADFDENIMLKYLEGEEPTEEELVAAIRKGTIDLKITPVFLGSALKNKGVQLLLDAVVDYLPSPLDIPPIKGTTPEGEVVEIHPDPNGPLAALAFKIMADPYVGRLTFIRVYSGTLTSGSYVYNTTKGRKERVARLLRMHANHREEVEELKAGDLGAVVGLKETITGDTLVGEDAPRVIL---------IDVAIEPK--------SQALARLAEEDPTFRVSTHP---QTIISGMGELHLEIIVDRLKREF-----VGKPQVAYRETITKPVDVEGKFIRQTGGRGQYGHVKIKVEPLPRGSGFEFVNAIVGGVIPKEYIPAVQKGIEEAMQSGPLIGFPVVDIKVTLYDGSYHEVDSSEMAFKIAGSMAIKEAVQKGDPVILEPIMRVEVTTPEEYMGDVIGDLNARRGQILGMEPRGNAQVIRAFVPLAEMFGYATDLRSKTQGRGSFVMFFDHYQEVPKQVQEKLIK 8689
                                  8014      8024      8034    |    -         -         -   |  8074      8084      8094      8104      8114      8124      8134      8144      8154      8164      8174      8184      8194      8204      8214      8224      8234      8244      8254      8264      8274      8284      8294      8304      8314      8324      8334      8344      8354      8364      8374      8384      8394    |    -    | 8414 |       -|     8434      8444   |  8454      8464     |   - |    8484      8494      8504      8514      8524      8534      8544      8554      8564      8574      8584      8594      8604      8614      8624      8634      8644      8654      8664      8674      8684     
                                                           8039                         8068                                                                                                                                                                                                                                                                                                                                       8399      8409   8416     8425               8444   |                  8470  8476                                                                                                                                                                                                                     
                                                                                                                                                                                                                                                                                                                                                                                                                                                                                    8448
   Legend:   → Mismatch (orange background)
  - → Gap (green background, '-', border residues have a numbering label)
    → Modified Residue (blue background, lower-case, 'x' indicates undefined single-letter code, labelled with number + name)
  x → Chemical Group (purple background, 'x', labelled with number + name, e.g. ACE or NH2)
  extra numbering lines below/above indicate numbering irregularities and modified residue names etc., number ends below/above '|'

 Classification and Annotation

(-) SCOP Domains  (0, 0)

(no "SCOP Domain" information available for 1IP8)

(-) CATH Domains  (0, 0)

(no "CATH Domain" information available for 1IP8)

(-) Pfam Domains  (0, 0)

(no "Pfam Domain" information available for 1IP8)

(-) Gene Ontology  (16, 23)

Theoretical Model(hide GO term definitions)
Chain G   (RL11_THEMA | P29395)
molecular function
    GO:0003723    RNA binding    Interacting selectively and non-covalently with an RNA molecule or a portion thereof.
    GO:0070180    large ribosomal subunit rRNA binding    Interacting selectively and non-covalently with the large ribosomal subunit RNA (LSU rRNA), a constituent of the large ribosomal subunit. In S. cerevisiae, this is the 25S rRNA.
    GO:0019843    rRNA binding    Interacting selectively and non-covalently with ribosomal RNA.
    GO:0003735    structural constituent of ribosome    The action of a molecule that contributes to the structural integrity of the ribosome.
biological process
    GO:0000027    ribosomal large subunit assembly    The aggregation, arrangement and bonding together of constituent RNAs and proteins to form the large ribosomal subunit.
    GO:0006412    translation    The cellular metabolic process in which a protein is formed, using the sequence of a mature mRNA or circRNA molecule to specify the sequence of amino acids in a polypeptide chain. Translation is mediated by the ribosome, and begins with the formation of a ternary complex between aminoacylated initiator methionine tRNA, GTP, and initiation factor 2, which subsequently associates with the small subunit of the ribosome and an mRNA or circRNA. Translation ends with the release of a polypeptide chain from the ribosome.
cellular component
    GO:0022625    cytosolic large ribosomal subunit    The large subunit of a ribosome located in the cytosol.
    GO:0030529    intracellular ribonucleoprotein complex    An intracellular macromolecular complex containing both protein and RNA molecules.
    GO:0005840    ribosome    An intracellular organelle, about 200 A in diameter, consisting of RNA and protein. It is the site of protein biosynthesis resulting from translation of messenger RNA (mRNA). It consists of two subunits, one large and one small, each containing only protein and RNA. Both the ribosome and its subunits are characterized by their sedimentation coefficients, expressed in Svedberg units (symbol: S). Hence, the prokaryotic ribosome (70S) comprises a large (50S) subunit and a small (30S) subunit, while the eukaryotic ribosome (80S) comprises a large (60S) subunit and a small (40S) subunit. Two sites on the ribosomal large subunit are involved in translation, namely the aminoacyl site (A site) and peptidyl site (P site). Ribosomes from prokaryotes, eukaryotes, mitochondria, and chloroplasts have characteristically distinct ribosomal proteins.

Chain G   (RL11_GEOSE | P56210)
molecular function
    GO:0003723    RNA binding    Interacting selectively and non-covalently with an RNA molecule or a portion thereof.
    GO:0019843    rRNA binding    Interacting selectively and non-covalently with ribosomal RNA.
    GO:0003735    structural constituent of ribosome    The action of a molecule that contributes to the structural integrity of the ribosome.
biological process
    GO:0006412    translation    The cellular metabolic process in which a protein is formed, using the sequence of a mature mRNA or circRNA molecule to specify the sequence of amino acids in a polypeptide chain. Translation is mediated by the ribosome, and begins with the formation of a ternary complex between aminoacylated initiator methionine tRNA, GTP, and initiation factor 2, which subsequently associates with the small subunit of the ribosome and an mRNA or circRNA. Translation ends with the release of a polypeptide chain from the ribosome.
cellular component
    GO:0030529    intracellular ribonucleoprotein complex    An intracellular macromolecular complex containing both protein and RNA molecules.
    GO:0005840    ribosome    An intracellular organelle, about 200 A in diameter, consisting of RNA and protein. It is the site of protein biosynthesis resulting from translation of messenger RNA (mRNA). It consists of two subunits, one large and one small, each containing only protein and RNA. Both the ribosome and its subunits are characterized by their sedimentation coefficients, expressed in Svedberg units (symbol: S). Hence, the prokaryotic ribosome (70S) comprises a large (50S) subunit and a small (30S) subunit, while the eukaryotic ribosome (80S) comprises a large (60S) subunit and a small (40S) subunit. Two sites on the ribosomal large subunit are involved in translation, namely the aminoacyl site (A site) and peptidyl site (P site). Ribosomes from prokaryotes, eukaryotes, mitochondria, and chloroplasts have characteristically distinct ribosomal proteins.

Chain H   (EFG_THETH | P13551)
molecular function
    GO:0005525    GTP binding    Interacting selectively and non-covalently with GTP, guanosine triphosphate.
    GO:0003924    GTPase activity    Catalysis of the reaction: GTP + H2O = GDP + phosphate.
    GO:0000166    nucleotide binding    Interacting selectively and non-covalently with a nucleotide, any compound consisting of a nucleoside that is esterified with (ortho)phosphate or an oligophosphate at any hydroxyl group on the ribose or deoxyribose.
    GO:0003746    translation elongation factor activity    Functions in chain elongation during polypeptide synthesis at the ribosome.
biological process
    GO:0006412    translation    The cellular metabolic process in which a protein is formed, using the sequence of a mature mRNA or circRNA molecule to specify the sequence of amino acids in a polypeptide chain. Translation is mediated by the ribosome, and begins with the formation of a ternary complex between aminoacylated initiator methionine tRNA, GTP, and initiation factor 2, which subsequently associates with the small subunit of the ribosome and an mRNA or circRNA. Translation ends with the release of a polypeptide chain from the ribosome.
    GO:0006414    translational elongation    The successive addition of amino acid residues to a nascent polypeptide chain during protein biosynthesis.
cellular component
    GO:0005737    cytoplasm    All of the contents of a cell excluding the plasma membrane and nucleus, but including other subcellular structures.
    GO:0005622    intracellular    The living contents of a cell; the matter contained within (but not including) the plasma membrane, usually taken to exclude large vacuoles and masses of secretory or ingested material. In eukaryotes it includes the nucleus and cytoplasm.

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  1ip8
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  EFG_THETH | P13551
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  RL11_GEOSE | P56210
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  RL11_THEMA | P29395
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 Related Entries

(-) Entries Sharing at Least One Protein Chain (UniProt ID)

UniProtKB/Swiss-Prot
        EFG_THETH | P13551: 1efg 1fnm 1ipm 1ipo 1ipr 1jqm 1jqs 1ktv 1pn6 2bcw 2bm0 2bm1 2bv3 2efg 2j7k 2om7 3izp 4m1k 4myt 4myu
        RL11_GEOSE | P56210: 1aci 1c04 1fow 1fox 1foy 1hc8 1qa6 1y39 2fow
        RL11_THEMA | P29395: 1eg0 1jqm 1jqs 1jqt 1mms 1mvr 1oln 1pn7 1pn8 1r2w 1r2x 2bcw 2gky 2gkz 2jq7 2k3f 487d

(-) Related Entries Specified in the PDB File

1ipl MODEL 2
1ipm MODEL 3
1ipn MODEL 4
1ipo MODEL 5
1ipq MODEL 6
1ipr MODEL 7
1ipu MODEL 8
1ipv MODEL 9
1ipx MODEL 10
1ipy MODEL 11
1ipz MODEL 12