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Conserved domains on  [gi|2053336113|gb|QWR82866|]
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ribosome maturation factor RimM [Cronobacter sakazakii]

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
 10-182 9.49e-83

16S rRNA-processing protein RimM; Provisional


:

Pssm-ID: 234650 [Multi-domain]  Cd Length: 172  Bit Score: 241.97  E-value: 9.49e-83
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2053336113  10 PVNPIVLGKMGSSYGIRGWLRVFSSTEDAESIFDYQPWFIQQAGQWQQVQLESWKHHNQDMIIKLKGVDDRDAANLLTNC 89
Cdd:PRK00122    4 PEDLLVVGKIVSAHGIKGEVKVKSFTDFPERIFDYGPWLLGKGGEWQEVEIESGRFHKGFLIVKFEGVDDRNAAEALKGC 83

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2053336113  90 EIVVDSSQLPDLEEGDYYWKDLIGCQVVTTEGYSLGKVIDMMETGSNDVLVVKANLKdafgiKERLLPFLDgQVIKKVDL 169
Cdd:PRK00122   84 ELFVPRSQLPELEEDEYYWHDLIGLEVVDEDGEELGKVTDILETGANDVLVVLKDKK-----EERLIPFVE-EVVKEVDL 157

                         170
                  ....*....|...
gi 2053336113 170 ATQTIEVDWDPGF 182
Cdd:PRK00122  158 EAKRITVDWPEGL 170
 
Name Accession Description Interval E-value
rimM PRK00122
16S rRNA-processing protein RimM; Provisional
 10-182 9.49e-83

16S rRNA-processing protein RimM; Provisional


Pssm-ID: 234650 [Multi-domain]  Cd Length: 172  Bit Score: 241.97  E-value: 9.49e-83
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2053336113  10 PVNPIVLGKMGSSYGIRGWLRVFSSTEDAESIFDYQPWFIQQAGQWQQVQLESWKHHNQDMIIKLKGVDDRDAANLLTNC 89
Cdd:PRK00122    4 PEDLLVVGKIVSAHGIKGEVKVKSFTDFPERIFDYGPWLLGKGGEWQEVEIESGRFHKGFLIVKFEGVDDRNAAEALKGC 83

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2053336113  90 EIVVDSSQLPDLEEGDYYWKDLIGCQVVTTEGYSLGKVIDMMETGSNDVLVVKANLKdafgiKERLLPFLDgQVIKKVDL 169
Cdd:PRK00122   84 ELFVPRSQLPELEEDEYYWHDLIGLEVVDEDGEELGKVTDILETGANDVLVVLKDKK-----EERLIPFVE-EVVKEVDL 157

                         170
                  ....*....|...
gi 2053336113 170 ATQTIEVDWDPGF 182
Cdd:PRK00122  158 EAKRITVDWPEGL 170
16S_RimM TIGR02273
16S rRNA processing protein RimM; This family consists of the bacterial protein RimM (YfjA, ...
 13-181 1.24e-71

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: 213.61  E-value: 1.24e-71
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2053336113  13 PIVLGKMGSSYGIRGWLRVFSSTEDAESIFDYQPWFIQQAGQWQQV-QLESWKHHNQDMIIKLKGVDDRDAANLLTNCEI 91
Cdd:TIGR02273   1 LLVVGKIGGPHGIKGEVKVKSFTDFPESLFDYGPWLILKGSKQWQTvKVARVRKQNNKLIVKFEGIDDREAAEALKGLEL 80

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2053336113  92 VVDSSQLPDLEEGDYYWKDLIGCQVVTTEGYSLGKVIDMMETGSNDVLVVKAnlkdAFGIKERLLPFLDgQVIKKVDLAT 171
Cdd:TIGR02273  81 FVPREALPELEEDEYYWTDLIGLEVVTEEGEELGKVVEILETGANDVLVVRS----KKGKKEVLIPFVE-EIVKEIDLEK 155

                         170
                  ....*....|
gi 2053336113 172 QTIEVDWDPG 181
Cdd:TIGR02273 156 KIITVDWPEG 165
RimM COG0806
Ribosomal 30S subunit maturation factor RimM, required for 16S rRNA processing [Translation, ...
 12-182 3.68e-70

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: 209.97  E-value: 3.68e-70
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2053336113  12 NPIVLGKMGSSYGIRGWLRVFSSTEDAESIFDYQPWFIQQAGQWQQV-QLESWKHHNQDMIIKLKGVDDRDAANLLTNCE 90
Cdd:COG0806     5 DLVVVGRIVKAHGVKGEVKVKSFTDDPERFFDYGPVFLEDPDGELRPlTVESVRPHKGGLLVKFEGVDDREAAEALRGAE 84

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2053336113  91 IVVDSSQLPDLEEGDYYWKDLIGCQVVTTEGYSLGKVIDMMETGSNDVLVVKanlkdAFGIKERLLPFLDgQVIKKVDLA 170
Cdd:COG0806    85 LYVPRDDLPELEEDEFYWHDLIGLEVVDEDGEELGKVTDVLETGANDVLVVK-----GPGGKEVLIPFVD-EFVPEVDLE 158

                         170
                  ....*....|..
gi 2053336113 171 TQTIEVDWDPGF 182
Cdd:COG0806   159 AGRIVVDPPEGL 170
RimM pfam01782
RimM N-terminal domain; The RimM protein is essential for efficient processing of 16S rRNA. ...
 15-97 3.14e-26

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: 95.32  E-value: 3.14e-26
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2053336113  15 VLGKMGSSYGIRGWLRVFSSTEDAESIFDYQPWFIQQAGQWQQV-QLESWKHHNQDMIIKLKGVDDRDAANLLTNCEIVV 93
Cdd:pfam01782   1 VVGKIVGTHGLKGEVKVKSFTDFPEDRFDYGPVFLLKKKGKWQTlTVESVRVHKKGLILKFEGIDDRDAAEALKGAELYV 80


                  ....
gi 2053336113  94 DSSQ 97
Cdd:pfam01782  81 PRSD 84
 
Name Accession Description Interval E-value
rimM PRK00122
16S rRNA-processing protein RimM; Provisional
 10-182 9.49e-83

16S rRNA-processing protein RimM; Provisional


Pssm-ID: 234650 [Multi-domain]  Cd Length: 172  Bit Score: 241.97  E-value: 9.49e-83
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2053336113  10 PVNPIVLGKMGSSYGIRGWLRVFSSTEDAESIFDYQPWFIQQAGQWQQVQLESWKHHNQDMIIKLKGVDDRDAANLLTNC 89
Cdd:PRK00122    4 PEDLLVVGKIVSAHGIKGEVKVKSFTDFPERIFDYGPWLLGKGGEWQEVEIESGRFHKGFLIVKFEGVDDRNAAEALKGC 83

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2053336113  90 EIVVDSSQLPDLEEGDYYWKDLIGCQVVTTEGYSLGKVIDMMETGSNDVLVVKANLKdafgiKERLLPFLDgQVIKKVDL 169
Cdd:PRK00122   84 ELFVPRSQLPELEEDEYYWHDLIGLEVVDEDGEELGKVTDILETGANDVLVVLKDKK-----EERLIPFVE-EVVKEVDL 157

                         170
                  ....*....|...
gi 2053336113 170 ATQTIEVDWDPGF 182
Cdd:PRK00122  158 EAKRITVDWPEGL 170
16S_RimM TIGR02273
16S rRNA processing protein RimM; This family consists of the bacterial protein RimM (YfjA, ...
 13-181 1.24e-71

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: 213.61  E-value: 1.24e-71
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2053336113  13 PIVLGKMGSSYGIRGWLRVFSSTEDAESIFDYQPWFIQQAGQWQQV-QLESWKHHNQDMIIKLKGVDDRDAANLLTNCEI 91
Cdd:TIGR02273   1 LLVVGKIGGPHGIKGEVKVKSFTDFPESLFDYGPWLILKGSKQWQTvKVARVRKQNNKLIVKFEGIDDREAAEALKGLEL 80

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2053336113  92 VVDSSQLPDLEEGDYYWKDLIGCQVVTTEGYSLGKVIDMMETGSNDVLVVKAnlkdAFGIKERLLPFLDgQVIKKVDLAT 171
Cdd:TIGR02273  81 FVPREALPELEEDEYYWTDLIGLEVVTEEGEELGKVVEILETGANDVLVVRS----KKGKKEVLIPFVE-EIVKEIDLEK 155

                         170
                  ....*....|
gi 2053336113 172 QTIEVDWDPG 181
Cdd:TIGR02273 156 KIITVDWPEG 165
RimM COG0806
Ribosomal 30S subunit maturation factor RimM, required for 16S rRNA processing [Translation, ...
 12-182 3.68e-70

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: 209.97  E-value: 3.68e-70
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2053336113  12 NPIVLGKMGSSYGIRGWLRVFSSTEDAESIFDYQPWFIQQAGQWQQV-QLESWKHHNQDMIIKLKGVDDRDAANLLTNCE 90
Cdd:COG0806     5 DLVVVGRIVKAHGVKGEVKVKSFTDDPERFFDYGPVFLEDPDGELRPlTVESVRPHKGGLLVKFEGVDDREAAEALRGAE 84

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2053336113  91 IVVDSSQLPDLEEGDYYWKDLIGCQVVTTEGYSLGKVIDMMETGSNDVLVVKanlkdAFGIKERLLPFLDgQVIKKVDLA 170
Cdd:COG0806    85 LYVPRDDLPELEEDEFYWHDLIGLEVVDEDGEELGKVTDVLETGANDVLVVK-----GPGGKEVLIPFVD-EFVPEVDLE 158

                         170
                  ....*....|..
gi 2053336113 171 TQTIEVDWDPGF 182
Cdd:COG0806   159 AGRIVVDPPEGL 170
RimM pfam01782
RimM N-terminal domain; The RimM protein is essential for efficient processing of 16S rRNA. ...
 15-97 3.14e-26

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: 95.32  E-value: 3.14e-26
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2053336113  15 VLGKMGSSYGIRGWLRVFSSTEDAESIFDYQPWFIQQAGQWQQV-QLESWKHHNQDMIIKLKGVDDRDAANLLTNCEIVV 93
Cdd:pfam01782   1 VVGKIVGTHGLKGEVKVKSFTDFPEDRFDYGPVFLLKKKGKWQTlTVESVRVHKKGLILKFEGIDDRDAAEALKGAELYV 80


                  ....
gi 2053336113  94 DSSQ 97
Cdd:pfam01782  81 PRSD 84
rimM PRK14591
16S rRNA-processing protein RimM; Provisional
 16-179 1.98e-25

16S rRNA-processing protein RimM; Provisional


Pssm-ID: 173055 [Multi-domain]  Cd Length: 169  Bit Score: 96.26  E-value: 1.98e-25
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2053336113  16 LGKMGSSYGIRGWLRVFSSTEDAESIFDYQPWFIQQAGQWQQVQL--ESWKHHNQDMIIKLKGVDDRDAANLLTNCEIVV 93
Cdd:PRK14591    8 IAKIGATYKLNGELNLYPLANSIETLLSYGDWYIQLPATNVWQQLkgESVLKRADKVYIKLANINNADTAKKYVNALIGV 87

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2053336113  94 DSSQLPDLEEGDYYWKDLIGCQVVTTEGYSLGKVIDMMETGSNDVLVVKanlKDAfgiKERLLPFLDgQVIKKVDLATQT 173
Cdd:PRK14591   88 PKRALPQLAEDEVYFKDLIGCSVKNINNDSFGVVVDIIETGANEVLVCK---EDN---SEYLIPYVK-QYIVSEDLNSKK 160


                  ....*.
gi 2053336113 174 IEVDWD 179
Cdd:PRK14591  161 IVVDWE 166
rimM PRK13828
16S rRNA-processing protein RimM; Provisional
 25-177 9.12e-24

16S rRNA-processing protein RimM; Provisional


Pssm-ID: 184351 [Multi-domain]  Cd Length: 161  Bit Score: 91.55  E-value: 9.12e-24
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2053336113  25 IRGWLRVFSSTEDAESIFDYQPwfIQQAGQWQQVQLESWKHHNQDMIIKLKGVDDRDAANLLTNCEIVVDSSQLPDLEEG 104
Cdd:PRK13828    1 VRGEVRLKSFTEDPLAIADYGP--LTTEDGARSFTVALARPAKDGLVARLKGVATREAAEALRGLELYVPRDRLPELDDD 78

                          90       100       110       120       130       140       150
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|...
gi 2053336113 105 DYYWKDLIGCQVVTTEGYSLGKVIDMMETGSNDVLvvkaNLKDAFGIKERLLPFLDgQVIKKVDLATQTIEVD 177
Cdd:PRK13828   79 EFYHADLIGLAAVDTGGALLGRVKAVHNFGAGDIL----EIAPPGGGPTLLLPFTR-AVVPTVDLAAGRVVAD 146
rimM PRK13829
16S rRNA-processing protein RimM; Provisional
 14-175 2.57e-18

16S rRNA-processing protein RimM; Provisional


Pssm-ID: 184352 [Multi-domain]  Cd Length: 162  Bit Score: 77.48  E-value: 2.57e-18
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2053336113  14 IVLGKMGSSYGIRGWLRVFSS--TEDAESIF-DYQPWfiqqagqwqqVQLESWKHHNQDMIIKLKGVDDRDAANLLTNCE 90
Cdd:PRK13829    4 TEIGRFGGPYGVQGGLKFRGEpvVLDLPRVYvEGLGW----------RAIERAERVGPELVLHLAGVTSREGAEALVGLR 73

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2053336113  91 IVVDSSQLPDLEEGDYYWKDLIGCQVVtTEGYSLGKVIDMMETGSNDVLVVKANLKDAFGIKERLLPFLDGQVikKVDLA 170
Cdd:PRK13829   74 VYADDADLPPLEEGSYYYHELRGLPVY-VDGEPLGEVVDVEDAGAQDLLVIRHVGGSLRARATYFVPLQAPYV--RVELD 150


                  ....*
gi 2053336113 171 TQTIE 175
Cdd:PRK13829  151 GITAD 155
rimM PRK14592
16S rRNA-processing protein RimM; Provisional
 14-139 8.09e-13

16S rRNA-processing protein RimM; Provisional


Pssm-ID: 173056 [Multi-domain]  Cd Length: 165  Bit Score: 62.82  E-value: 8.09e-13
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2053336113  14 IVLGKMGSSYGIRGWLRVFSSTEDAESIFDYQPwfiqQAGQWQQVQLESWKHHNQDMII-KLKGVDDRDAANLLTNCEIV 92
Cdd:PRK14592    3 ICLGVITSPHGIKGHVKIKTFTEDPENISAYGK----LTDGSNTYKISVVSVIGANLVIaKISGINSRTEAELLRNKKLY 78

                          90       100       110       120
                  ....*....|....*....|....*....|....*....|....*..
gi 2053336113  93 VDSSQLPDLEEGDYYWKDLIGCQVVTTEGYSLGKVIDMMETGSNDVL 139
Cdd:PRK14592   79 VERSKLPNLNEDEFYQSDLIGMEVKLEDNTIYGYIKKIYNFGSCDII 125
rimM PRK14590
16S rRNA-processing protein RimM; Provisional
 14-175 4.53e-11

16S rRNA-processing protein RimM; Provisional


Pssm-ID: 173054 [Multi-domain]  Cd Length: 171  Bit Score: 58.33  E-value: 4.53e-11
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2053336113  14 IVLGKMGSSYGIRGWLRVFSSTEDAES--------IFDYQPWFiqqagQWQQVQLESWKHHNQDMIIKLKGVDDRDAANL 85
Cdd:PRK14590    1 ISLGQLGKPFGIKGWLRVNVRGETLHTlkapatlkLGKEDPQF-----PESEIALLEIRPHGGKFLVRFEGYDTPEEAVK 75

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2053336113  86 LTNCEIVVDSSQLPDLE-EGDYYWKDLIGCQVVTTEGYSLG-KVIDMMETGSNDVLV-VKANLkdafgiKERLLPFLDgQ 162
Cdd:PRK14590   76 WRGGSLFLPQELLPKIEtKGEFYSEDLIGLQAIDETGKPLNwKLTDVQDNPAHPILVfIKGEG------EEILIPFLN-V 148

                         170
                  ....*....|...
gi 2053336113 163 VIKKVDLATQTIE 175
Cdd:PRK14590  149 FVGDLDLEKQTIV 161
PRC pfam05239
PRC-barrel domain; The PRC-barrel is an all beta barrel domain found in photosystem reaction ...
 103-177 5.51e-09

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: 50.75  E-value: 5.51e-09
                          10        20        30        40        50        60        70
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*.
gi 2053336113 103 EGDYYWKDLIGCQVVTTEGYSLGKVID-MMETGSNDVLVVKANLKDAFGIKERLLPFldgqVIKKVDLATQTIEVD 177
Cdd:pfam05239   1 EDEFYASDLIGLEVYTEDGEKLGKVKDvVIDEGEGRVRYLVVSVGGFLGGKEVLIPF----DKLNVKLGKDRIIVD 72
rimM PRK14594
16S rRNA-processing protein RimM; Provisional
 15-176 3.55e-06

16S rRNA-processing protein RimM; Provisional


Pssm-ID: 173058 [Multi-domain]  Cd Length: 166  Bit Score: 44.77  E-value: 3.55e-06
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2053336113  15 VLGKMGSSYGIRGWLRVFSSTEDAESIFDYQPWFI---QQAGQWQQVQLESWKHHNQDMIIKLKGVDDRDAANLLTNCEI 91
Cdd:PRK14594    3 VKGIILSSYGINGYAKVKSISNNFCDFINLKNNKLvlkKSNCSSIEVKVEDVSLKNNSLLLKFEEFNAPEPIKPLIGFEL 82

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2053336113  92 VVDSSQLPDLEEGDYYWKDLIGCQVVtTEGYSLGKVIDMMETGSNDVLVVKAnlkdafGIKERLLPFLDgQVIKKVDLAT 171
Cdd:PRK14594   83 WVDDELASKLEEGEYYFGKLIGYAIV-NDGKELGEVVSFFECLNSVLLEVKV------GIKLFFVPFLS-IYLGDINREL 154


                  ....*
gi 2053336113 172 QTIEV 176
Cdd:PRK14594  155 KTIEL 159
rimM PRK14593
ribosome maturation factor RimM;
11-160 1.89e-04

ribosome maturation factor RimM;


Pssm-ID: 237760 [Multi-domain]  Cd Length: 184  Bit Score: 40.39  E-value: 1.89e-04
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2053336113  11 VNPIVLGKMGSSYGIRGWLRVFSSTEDAE--------SIFDYQPWFiqQAGQWQQVQLESWKHHNQdmIIKLKGVDDRDA 82
Cdd:PRK14593    2 VSMLLVGRIGKSVGLNGGLKLHLESDFPEclkkgvkvSVAPLNAFS--CASSFKDYVIHSYEHAKN--LLFLETIHTPEK 77

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2053336113  83 ANLLTNCEIVV---DSSQLPDLEEGDYYWKDLIGCQVVtTEGYSLGKVIDMMETGSNDVLVVKA--NLKDAFGIKERLLP 157
Cdd:PRK14593   78 AKELTNLGLFMseaESKKLCVLKEGEFFYCDLVGLSVV-EENEILGKVIEIQRISQTDYFMVETtlSLVEKGLAKIFLIP 156


                  ...
gi 2053336113 158 FLD 160
Cdd:PRK14593  157 YRD 159
 
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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