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Conserved domains on  [gi|1896923959|ref|WP_186868652|]
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MULTISPECIES: ribosome maturation factor RimM [Ornithinibacillus]

Protein Classification

ribosome maturation factor RimM( domain architecture ID 11478117)

ribosome maturation factor RimM is an accessory protein needed during the final step in the assembly of 30S ribosomal subunit, possibly for assembly of the head region

Gene Ontology:  GO:0043022|GO:0042274
PubMed:  23293003

Graphical summary

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List of domain hits

 Name Accession Description Interval E-value
rimM PRK00122
16S rRNA-processing protein RimM; Provisional
 1-171 5.17e-69

16S rRNA-processing protein RimM; Provisional


:

Pssm-ID: 234650 [Multi-domain]  Cd Length: 172  Bit Score: 206.92  E-value: 5.17e-69
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1896923959   1 MEEKMFTVGKIINTHGIRGDLKVLRVSDF-DDRFKVGNLLYlvTNQKVIRELEIDGHRIHKGFDLIHFKGLDNINDVEHF 79
Cdd:PRK00122    3 KPEDLLVVGKIVSAHGIKGEVKVKSFTDFpERIFDYGPWLL--GKGGEWQEVEIESGRFHKGFLIVKFEGVDDRNAAEAL 80

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1896923959  80 KGSTLKIKESQLTELDENEYYYHEIIGCEVFTTDGDSIGKVKEILAPGANDVWVVKQPKGKDILIPYIEEVVIEIDVDHK 159
Cdd:PRK00122   81 KGCELFVPRSQLPELEEDEYYWHDLIGLEVVDEDGEELGKVTDILETGANDVLVVLKDKKEERLIPFVEEVVKEVDLEAK 160

                         170
                  ....*....|..
gi 1896923959 160 RIMIEPMEGLLD 171
Cdd:PRK00122  161 RITVDWPEGLLD 172
 
Name Accession Description Interval E-value
rimM PRK00122
16S rRNA-processing protein RimM; Provisional
 1-171 5.17e-69

16S rRNA-processing protein RimM; Provisional


Pssm-ID: 234650 [Multi-domain]  Cd Length: 172  Bit Score: 206.92  E-value: 5.17e-69
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1896923959   1 MEEKMFTVGKIINTHGIRGDLKVLRVSDF-DDRFKVGNLLYlvTNQKVIRELEIDGHRIHKGFDLIHFKGLDNINDVEHF 79
Cdd:PRK00122    3 KPEDLLVVGKIVSAHGIKGEVKVKSFTDFpERIFDYGPWLL--GKGGEWQEVEIESGRFHKGFLIVKFEGVDDRNAAEAL 80

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1896923959  80 KGSTLKIKESQLTELDENEYYYHEIIGCEVFTTDGDSIGKVKEILAPGANDVWVVKQPKGKDILIPYIEEVVIEIDVDHK 159
Cdd:PRK00122   81 KGCELFVPRSQLPELEEDEYYWHDLIGLEVVDEDGEELGKVTDILETGANDVLVVLKDKKEERLIPFVEEVVKEVDLEAK 160

                         170
                  ....*....|..
gi 1896923959 160 RIMIEPMEGLLD 171
Cdd:PRK00122  161 RITVDWPEGLLD 172
RimM COG0806
Ribosomal 30S subunit maturation factor RimM, required for 16S rRNA processing [Translation, ...
 1-171 9.14e-67

Ribosomal 30S subunit maturation factor RimM, required for 16S rRNA processing [Translation, ribosomal structure and biogenesis]; Ribosomal 30S subunit maturation factor RimM, required for 16S rRNA processing is part of the Pathway/BioSystem: 16S rRNA modification


Pssm-ID: 440569 [Multi-domain]  Cd Length: 173  Bit Score: 201.11  E-value: 9.14e-67
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1896923959   1 MEEKMFTVGKIINTHGIRGDLKVLRVSDFDDRFKVGNLLYLVTNQKVIRELEIDGHRIHKGFDLIHFKGLDNINDVEHFK 80
Cdd:COG0806     2 KMEDLVVVGRIVKAHGVKGEVKVKSFTDDPERFFDYGPVFLEDPDGELRPLTVESVRPHKGGLLVKFEGVDDREAAEALR 81

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1896923959  81 GSTLKIKESQLTELDENEYYYHEIIGCEVFTTDGDSIGKVKEILAPGANDVWVVKQPKGKDILIPYIEEVVIEIDVDHKR 160
Cdd:COG0806    82 GAELYVPRDDLPELEEDEFYWHDLIGLEVVDEDGEELGKVTDVLETGANDVLVVKGPGGKEVLIPFVDEFVPEVDLEAGR 161

                         170
                  ....*....|.
gi 1896923959 161 IMIEPMEGLLD 171
Cdd:COG0806   162 IVVDPPEGLLD 172
16S_RimM TIGR02273
16S rRNA processing protein RimM; This family consists of the bacterial protein RimM (YfjA, ...
 5-168 9.22e-53

16S rRNA processing protein RimM; This family consists of the bacterial protein RimM (YfjA, 21K), a 30S ribosomal subunit-binding protein implicated in 16S ribsomal RNA processing. It has been partially characterized in Escherichia coli, is found with other translation-associated genes such as trmD. It is broadly distributed among bacteria, including some minimal genomes such the aphid endosymbiont Buchnera aphidicola. The protein contains a PRC-barrel domain that it shares with other protein families (pfam05239) and a unique domain (pfam01782). This model describes the full-length protein. A member from Arabidopsis (plant) has additional N-terminal sequence likely to represent a chloroplast transit peptide. [Transcription, RNA processing]


Pssm-ID: 274061 [Multi-domain]  Cd Length: 165  Bit Score: 165.46  E-value: 9.22e-53
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1896923959   5 MFTVGKIINTHGIRGDLKVLRVSDFDDRFKVGNLLYLVTNQKVIRELEIDGHRIHKGFDLIHFKGLDNINDVEHFKGSTL 84
Cdd:TIGR02273   1 LLVVGKIGGPHGIKGEVKVKSFTDFPESLFDYGPWLILKGSKQWQTVKVARVRKQNNKLIVKFEGIDDREAAEALKGLEL 80

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1896923959  85 KIKESQLTELDENEYYYHEIIGCEVFTTDGDSIGKVKEILAPGANDVWVVKQPKG-KDILIPYIEEVVIEIDVDHKRIMI 163
Cdd:TIGR02273  81 FVPREALPELEEDEYYWTDLIGLEVVTEEGEELGKVVEILETGANDVLVVRSKKGkKEVLIPFVEEIVKEIDLEKKIITV 160


                  ....*
gi 1896923959 164 EPMEG 168
Cdd:TIGR02273 161 DWPEG 165
RimM pfam01782
RimM N-terminal domain; The RimM protein is essential for efficient processing of 16S rRNA. ...
 7-90 2.24e-21

RimM N-terminal domain; The RimM protein is essential for efficient processing of 16S rRNA. The RimM protein was shown to have affinity for free ribosomal 30S subunits but not for 30S subunits in the 70S ribosomes. This N-terminal domain is found associated with a PRC-barrel domain.


Pssm-ID: 460327  Cd Length: 84  Bit Score: 82.61  E-value: 2.24e-21
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1896923959   7 TVGKIINTHGIRGDLKVLRVSDF-DDRFKVGNLLYLVTNQKvIRELEIDGHRIHKGFDLIHFKGLDNINDVEHFKGSTLK 85
Cdd:pfam01782   1 VVGKIVGTHGLKGEVKVKSFTDFpEDRFDYGPVFLLKKKGK-WQTLTVESVRVHKKGLILKFEGIDDRDAAEALKGAELY 79


                  ....*
gi 1896923959  86 IKESQ 90
Cdd:pfam01782  80 VPRSD 84
 
Name Accession Description Interval E-value
rimM PRK00122
16S rRNA-processing protein RimM; Provisional
 1-171 5.17e-69

16S rRNA-processing protein RimM; Provisional


Pssm-ID: 234650 [Multi-domain]  Cd Length: 172  Bit Score: 206.92  E-value: 5.17e-69
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1896923959   1 MEEKMFTVGKIINTHGIRGDLKVLRVSDF-DDRFKVGNLLYlvTNQKVIRELEIDGHRIHKGFDLIHFKGLDNINDVEHF 79
Cdd:PRK00122    3 KPEDLLVVGKIVSAHGIKGEVKVKSFTDFpERIFDYGPWLL--GKGGEWQEVEIESGRFHKGFLIVKFEGVDDRNAAEAL 80

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1896923959  80 KGSTLKIKESQLTELDENEYYYHEIIGCEVFTTDGDSIGKVKEILAPGANDVWVVKQPKGKDILIPYIEEVVIEIDVDHK 159
Cdd:PRK00122   81 KGCELFVPRSQLPELEEDEYYWHDLIGLEVVDEDGEELGKVTDILETGANDVLVVLKDKKEERLIPFVEEVVKEVDLEAK 160

                         170
                  ....*....|..
gi 1896923959 160 RIMIEPMEGLLD 171
Cdd:PRK00122  161 RITVDWPEGLLD 172
RimM COG0806
Ribosomal 30S subunit maturation factor RimM, required for 16S rRNA processing [Translation, ...
 1-171 9.14e-67

Ribosomal 30S subunit maturation factor RimM, required for 16S rRNA processing [Translation, ribosomal structure and biogenesis]; Ribosomal 30S subunit maturation factor RimM, required for 16S rRNA processing is part of the Pathway/BioSystem: 16S rRNA modification


Pssm-ID: 440569 [Multi-domain]  Cd Length: 173  Bit Score: 201.11  E-value: 9.14e-67
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1896923959   1 MEEKMFTVGKIINTHGIRGDLKVLRVSDFDDRFKVGNLLYLVTNQKVIRELEIDGHRIHKGFDLIHFKGLDNINDVEHFK 80
Cdd:COG0806     2 KMEDLVVVGRIVKAHGVKGEVKVKSFTDDPERFFDYGPVFLEDPDGELRPLTVESVRPHKGGLLVKFEGVDDREAAEALR 81

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1896923959  81 GSTLKIKESQLTELDENEYYYHEIIGCEVFTTDGDSIGKVKEILAPGANDVWVVKQPKGKDILIPYIEEVVIEIDVDHKR 160
Cdd:COG0806    82 GAELYVPRDDLPELEEDEFYWHDLIGLEVVDEDGEELGKVTDVLETGANDVLVVKGPGGKEVLIPFVDEFVPEVDLEAGR 161

                         170
                  ....*....|.
gi 1896923959 161 IMIEPMEGLLD 171
Cdd:COG0806   162 IVVDPPEGLLD 172
16S_RimM TIGR02273
16S rRNA processing protein RimM; This family consists of the bacterial protein RimM (YfjA, ...
 5-168 9.22e-53

16S rRNA processing protein RimM; This family consists of the bacterial protein RimM (YfjA, 21K), a 30S ribosomal subunit-binding protein implicated in 16S ribsomal RNA processing. It has been partially characterized in Escherichia coli, is found with other translation-associated genes such as trmD. It is broadly distributed among bacteria, including some minimal genomes such the aphid endosymbiont Buchnera aphidicola. The protein contains a PRC-barrel domain that it shares with other protein families (pfam05239) and a unique domain (pfam01782). This model describes the full-length protein. A member from Arabidopsis (plant) has additional N-terminal sequence likely to represent a chloroplast transit peptide. [Transcription, RNA processing]


Pssm-ID: 274061 [Multi-domain]  Cd Length: 165  Bit Score: 165.46  E-value: 9.22e-53
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1896923959   5 MFTVGKIINTHGIRGDLKVLRVSDFDDRFKVGNLLYLVTNQKVIRELEIDGHRIHKGFDLIHFKGLDNINDVEHFKGSTL 84
Cdd:TIGR02273   1 LLVVGKIGGPHGIKGEVKVKSFTDFPESLFDYGPWLILKGSKQWQTVKVARVRKQNNKLIVKFEGIDDREAAEALKGLEL 80

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1896923959  85 KIKESQLTELDENEYYYHEIIGCEVFTTDGDSIGKVKEILAPGANDVWVVKQPKG-KDILIPYIEEVVIEIDVDHKRIMI 163
Cdd:TIGR02273  81 FVPREALPELEEDEYYWTDLIGLEVVTEEGEELGKVVEILETGANDVLVVRSKKGkKEVLIPFVEEIVKEIDLEKKIITV 160


                  ....*
gi 1896923959 164 EPMEG 168
Cdd:TIGR02273 161 DWPEG 165
RimM pfam01782
RimM N-terminal domain; The RimM protein is essential for efficient processing of 16S rRNA. ...
 7-90 2.24e-21

RimM N-terminal domain; The RimM protein is essential for efficient processing of 16S rRNA. The RimM protein was shown to have affinity for free ribosomal 30S subunits but not for 30S subunits in the 70S ribosomes. This N-terminal domain is found associated with a PRC-barrel domain.


Pssm-ID: 460327  Cd Length: 84  Bit Score: 82.61  E-value: 2.24e-21
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1896923959   7 TVGKIINTHGIRGDLKVLRVSDF-DDRFKVGNLLYLVTNQKvIRELEIDGHRIHKGFDLIHFKGLDNINDVEHFKGSTLK 85
Cdd:pfam01782   1 VVGKIVGTHGLKGEVKVKSFTDFpEDRFDYGPVFLLKKKGK-WQTLTVESVRVHKKGLILKFEGIDDRDAAEALKGAELY 79


                  ....*
gi 1896923959  86 IKESQ 90
Cdd:pfam01782  80 VPRSD 84
rimM PRK13828
16S rRNA-processing protein RimM; Provisional
 49-171 4.29e-19

16S rRNA-processing protein RimM; Provisional


Pssm-ID: 184351 [Multi-domain]  Cd Length: 161  Bit Score: 79.22  E-value: 4.29e-19
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1896923959  49 RELEIDGHRIHKGFDLIHFKGLDNINDVEHFKGSTLKIKESQLTELDENEYYYHEIIGCEVFTTDGDSIGKVKEILAPGA 128
Cdd:PRK13828   30 RSFTVALARPAKDGLVARLKGVATREAAEALRGLELYVPRDRLPELDDDEFYHADLIGLAAVDTGGALLGRVKAVHNFGA 109

                          90       100       110       120
                  ....*....|....*....|....*....|....*....|....
gi 1896923959 129 NDVWVVKQP-KGKDILIPYIEEVVIEIDVDHKRIMIEPMEGLLD 171
Cdd:PRK13828  110 GDILEIAPPgGGPTLLLPFTRAVVPTVDLAAGRVVADPPAEIEG 153
rimM PRK14591
16S rRNA-processing protein RimM; Provisional
 1-164 5.29e-17

16S rRNA-processing protein RimM; Provisional


Pssm-ID: 173055 [Multi-domain]  Cd Length: 169  Bit Score: 73.92  E-value: 5.29e-17
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1896923959   1 MEEKMFTVGKIINTHGIRGDLKVLRV-SDFDDRFKVGNLLYLVTNQKVIRELEidGHRIHKGFDLIHFKgLDNINDVEHF 79
Cdd:PRK14591    1 MSQDFVEIAKIGATYKLNGELNLYPLaNSIETLLSYGDWYIQLPATNVWQQLK--GESVLKRADKVYIK-LANINNADTA 77

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1896923959  80 K---GSTLKIKESQLTELDENEYYYHEIIGCEVFTTDGDSIGKVKEILAPGANDVWVVKQpKGKDILIPYIEEVVIEIDV 156
Cdd:PRK14591   78 KkyvNALIGVPKRALPQLAEDEVYFKDLIGCSVKNINNDSFGVVVDIIETGANEVLVCKE-DNSEYLIPYVKQYIVSEDL 156


                  ....*...
gi 1896923959 157 DHKRIMIE 164
Cdd:PRK14591  157 NSKKIVVD 164
PRC pfam05239
PRC-barrel domain; The PRC-barrel is an all beta barrel domain found in photosystem reaction ...
 96-170 1.37e-11

PRC-barrel domain; The PRC-barrel is an all beta barrel domain found in photosystem reaction centre subunit H of the purple bacteria and RNA metabolism proteins of the RimM group. PRC-barrels are approximately 80 residues long, and found widely represented in bacteria, archaea and plants. This domain is also present at the carboxyl terminus of the pan-bacterial protein RimM, which is involved in ribosomal maturation and processing of 16S rRNA. A family of small proteins conserved in all known euryarchaea are composed entirely of a single stand-alone copy of the domain.


Pssm-ID: 398765  Cd Length: 78  Bit Score: 57.30  E-value: 1.37e-11
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1896923959  96 ENEYYYHEIIGCEVFTTDGDSIGKVKEI-LAPGANDVWVV-----KQPKGKDILIPYIEEVVieiDVDHKRIMIEPMEGL 169
Cdd:pfam05239   1 EDEFYASDLIGLEVYTEDGEKLGKVKDVvIDEGEGRVRYLvvsvgGFLGGKEVLIPFDKLNV---KLGKDRIIVDPPKEL 77


                  .
gi 1896923959 170 L 170
Cdd:pfam05239  78 L 78
rimM PRK13829
16S rRNA-processing protein RimM; Provisional
 8-171 1.47e-11

16S rRNA-processing protein RimM; Provisional


Pssm-ID: 184352 [Multi-domain]  Cd Length: 162  Bit Score: 59.37  E-value: 1.47e-11
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1896923959   8 VGKIINTHGIRGDLKVL---RVSDFDdRFKVGNLLYLVtnqkvIRELEIDGHRIhkgfdLIHFKGLDNINDVEHFKGSTL 84
Cdd:PRK13829    6 IGRFGGPYGVQGGLKFRgepVVLDLP-RVYVEGLGWRA-----IERAERVGPEL-----VLHLAGVTSREGAEALVGLRV 74

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1896923959  85 KIKESQLTELDENEYYYHEIIGCEVFtTDGDSIGKVKEILAPGANDVWVVKQPKG-----KDILIPYIEEVViEIDVDHk 159
Cdd:PRK13829   75 YADDADLPPLEEGSYYYHELRGLPVY-VDGEPLGEVVDVEDAGAQDLLVIRHVGGslrarATYFVPLQAPYV-RVELDG- 151

                         170
                  ....*....|..
gi 1896923959 160 rIMIEPMEGLLD 171
Cdd:PRK13829  152 -ITADAIPGLLD 162
rimM PRK14592
16S rRNA-processing protein RimM; Provisional
 5-167 3.19e-10

16S rRNA-processing protein RimM; Provisional


Pssm-ID: 173056 [Multi-domain]  Cd Length: 165  Bit Score: 55.88  E-value: 3.19e-10
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1896923959   5 MFTVGKIINTHGIRGDLKVLRVSDFDDRFKVGNLLYLVTNQKVIRELEIdghrIHKGFDLIHFKGLDNINDVEHFKGSTL 84
Cdd:PRK14592    2 LICLGVITSPHGIKGHVKIKTFTEDPENISAYGKLTDGSNTYKISVVSV----IGANLVIAKISGINSRTEAELLRNKKL 77

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1896923959  85 KIKESQLTELDENEYYYHEIIGCEVFTTDGDSIGKVKEILAPGAND-VWVVKQPKGKDILIPYIEEVVIEIDVDHKRIMI 163
Cdd:PRK14592   78 YVERSKLPNLNEDEFYQSDLIGMEVKLEDNTIYGYIKKIYNFGSCDiIEISLTSTKKSTMLPFTKEIFPHINVKERYIIL 157


                  ....
gi 1896923959 164 EPME 167
Cdd:PRK14592  158 VPPE 161
rimM PRK14590
16S rRNA-processing protein RimM; Provisional
 7-165 2.66e-08

16S rRNA-processing protein RimM; Provisional


Pssm-ID: 173054 [Multi-domain]  Cd Length: 171  Bit Score: 50.62  E-value: 2.66e-08
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1896923959   7 TVGKIINTHGIRGDLKV---------------LRVSDFDDRFKvgnllylvtnQKVIRELEIdghRIHKGFDLIHFKGLD 71
Cdd:PRK14590    2 SLGQLGKPFGIKGWLRVnvrgetlhtlkapatLKLGKEDPQFP----------ESEIALLEI---RPHGGKFLVRFEGYD 68

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1896923959  72 NINDVEHFKGSTLKIKESQLTELD-ENEYYYHEIIGCEVFTTDGDSIG-KVKEILAPGANDVWVVKQPKGKDILIPYIEE 149
Cdd:PRK14590   69 TPEEAVKWRGGSLFLPQELLPKIEtKGEFYSEDLIGLQAIDETGKPLNwKLTDVQDNPAHPILVFIKGEGEEILIPFLNV 148

                         170
                  ....*....|....*..
gi 1896923959 150 VVIEIDVDHKRI-MIEP 165
Cdd:PRK14590  149 FVGDLDLEKQTIvLIQP 165
rimM PRK14593
ribosome maturation factor RimM;
5-171 2.63e-04

ribosome maturation factor RimM;


Pssm-ID: 237760 [Multi-domain]  Cd Length: 184  Bit Score: 39.62  E-value: 2.63e-04
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1896923959   5 MFTVGKIINTHGIRGDLKVLRVSDFDDRFKVGNLLYLVTNQKVIRELEIDGHRIHKGFDLIHFKGLDNINDVEHFKGST- 83
Cdd:PRK14593    4 MLLVGRIGKSVGLNGGLKLHLESDFPECLKKGVKVSVAPLNAFSCASSFKDYVIHSYEHAKNLLFLETIHTPEKAKELTn 83

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1896923959  84 --LKIKESQ---LTELDENEYYYHEIIGCEVfTTDGDSIGKVKEILAPGANDVWVVKQPK-------GKDILIPYIEEVV 151
Cdd:PRK14593   84 lgLFMSEAEskkLCVLKEGEFFYCDLVGLSV-VEENEILGKVIEIQRISQTDYFMVETTLslvekglAKIFLIPYRDFYI 162

                         170       180
                  ....*....|....*....|
gi 1896923959 152 IEIDVDHKRIMIEPMEGLLD 171
Cdd:PRK14593  163 QEILLQDKKITTHNAKTLLE 182
rimM PRK14594
16S rRNA-processing protein RimM; Provisional
 5-169 2.44e-03

16S rRNA-processing protein RimM; Provisional


Pssm-ID: 173058 [Multi-domain]  Cd Length: 166  Bit Score: 36.68  E-value: 2.44e-03
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1896923959   5 MFTVGKIINTHGIRGDLKVLRVSD-FDDRFKV-GNLLYLVTNQKVIRELEIDGHRIHKGFDLIHFKGLDNINDVEHFKGS 82
Cdd:PRK14594    1 MFVKGIILSSYGINGYAKVKSISNnFCDFINLkNNKLVLKKSNCSSIEVKVEDVSLKNNSLLLKFEEFNAPEPIKPLIGF 80

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1896923959  83 TLKIKESQLTELDENEYYYHEIIGCEVfTTDGDSIGKVKEILApGANDVWVVKQPKGKDILIPYIEEVVIEIDVDHKRIM 162
Cdd:PRK14594   81 ELWVDDELASKLEEGEYYFGKLIGYAI-VNDGKELGEVVSFFE-CLNSVLLEVKVGIKLFFVPFLSIYLGDINRELKTIE 158


                  ....*..
gi 1896923959 163 IEPMEGL 169
Cdd:PRK14594  159 LKVLDLL 165
 
Blast search parameters
Data Source: Precalculated data, version = cdd.v.3.21
Preset Options:Database: CDSEARCH/cdd   Low complexity filter: no  Composition Based Adjustment: yes   E-value threshold: 0.01

References:

  • Wang J et al. (2023), "The conserved domain database in 2023", Nucleic Acids Res.51(D)384-8.
  • Lu S et al. (2020), "The conserved domain database in 2020", Nucleic Acids Res.48(D)265-8.
  • Marchler-Bauer A et al. (2017), "CDD/SPARCLE: functional classification of proteins via subfamily domain architectures.", Nucleic Acids Res.45(D)200-3.
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