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Conserved domains on  [gi|489121402|ref|WP_003031230|]
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MULTISPECIES: ribosome maturation factor RimM [Citrobacter]

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 1.67e-86

16S rRNA-processing protein RimM; Provisional


:

Pssm-ID: 234650 [Multi-domain]  Cd Length: 172  Bit Score: 251.60  E-value: 1.67e-86
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 489121402  10 PVEPIVLGKMGSSYGIRGWLRVFSSTEDAESIFDYQPWFIQKAGQWQQVQLESWKHHNQDLIIKLKGVDDRDSANLLTNC 89
Cdd:PRK00122   4 PEDLLVVGKIVSAHGIKGEVKVKSFTDFPERIFDYGPWLLGKGGEWQEVEIESGRFHKGFLIVKFEGVDDRNAAEALKGC 83

                         90       100       110       120       130       140       150       160
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 489121402  90 EIVVDSSQLPALEDGSYYWKDLMGCQVVTTEGYDLGKVVDMMETGSNDVIVIKANLKdafgiKERLVPFLDgQVIKKVDL 169
Cdd:PRK00122  84 ELFVPRSQLPELEEDEYYWHDLIGLEVVDEDGEELGKVTDILETGANDVLVVLKDKK-----EERLIPFVE-EVVKEVDL 157

                        170
                 ....*....|...
gi 489121402 170 ATRTIEVDWDPGF 182
Cdd:PRK00122 158 EAKRITVDWPEGL 170
 
Name Accession Description Interval E-value
rimM PRK00122
16S rRNA-processing protein RimM; Provisional
 10-182 1.67e-86

16S rRNA-processing protein RimM; Provisional


Pssm-ID: 234650 [Multi-domain]  Cd Length: 172  Bit Score: 251.60  E-value: 1.67e-86
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 489121402  10 PVEPIVLGKMGSSYGIRGWLRVFSSTEDAESIFDYQPWFIQKAGQWQQVQLESWKHHNQDLIIKLKGVDDRDSANLLTNC 89
Cdd:PRK00122   4 PEDLLVVGKIVSAHGIKGEVKVKSFTDFPERIFDYGPWLLGKGGEWQEVEIESGRFHKGFLIVKFEGVDDRNAAEALKGC 83

                         90       100       110       120       130       140       150       160
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 489121402  90 EIVVDSSQLPALEDGSYYWKDLMGCQVVTTEGYDLGKVVDMMETGSNDVIVIKANLKdafgiKERLVPFLDgQVIKKVDL 169
Cdd:PRK00122  84 ELFVPRSQLPELEEDEYYWHDLIGLEVVDEDGEELGKVTDILETGANDVLVVLKDKK-----EERLIPFVE-EVVKEVDL 157

                        170
                 ....*....|...
gi 489121402 170 ATRTIEVDWDPGF 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 1.21e-76

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: 226.32  E-value: 1.21e-76
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 489121402   13 PIVLGKMGSSYGIRGWLRVFSSTEDAESIFDYQPWFIQKAG-QWQQVQLESWKHHNQDLIIKLKGVDDRDSANLLTNCEI 91
Cdd:TIGR02273   1 LLVVGKIGGPHGIKGEVKVKSFTDFPESLFDYGPWLILKGSkQWQTVKVARVRKQNNKLIVKFEGIDDREAAEALKGLEL 80

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 489121402   92 VVDSSQLPALEDGSYYWKDLMGCQVVTTEGYDLGKVVDMMETGSNDVIVIKAnlkdAFGIKERLVPFLDgQVIKKVDLAT 171
Cdd:TIGR02273  81 FVPREALPELEEDEYYWTDLIGLEVVTEEGEELGKVVEILETGANDVLVVRS----KKGKKEVLIPFVE-EIVKEIDLEK 155

                         170
                  ....*....|
gi 489121402  172 RTIEVDWDPG 181
Cdd:TIGR02273 156 KIITVDWPEG 165
RimM COG0806
Ribosomal 30S subunit maturation factor RimM, required for 16S rRNA processing [Translation, ...
 12-182 3.48e-74

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: 220.37  E-value: 3.48e-74
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 489121402  12 EPIVLGKMGSSYGIRGWLRVFSSTEDAESIFDYQPWFIQK-AGQWQQVQLESWKHHNQDLIIKLKGVDDRDSANLLTNCE 90
Cdd:COG0806    5 DLVVVGRIVKAHGVKGEVKVKSFTDDPERFFDYGPVFLEDpDGELRPLTVESVRPHKGGLLVKFEGVDDREAAEALRGAE 84

                         90       100       110       120       130       140       150       160
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 489121402  91 IVVDSSQLPALEDGSYYWKDLMGCQVVTTEGYDLGKVVDMMETGSNDVIVIKanlkdAFGIKERLVPFLDgQVIKKVDLA 170
Cdd:COG0806   85 LYVPRDDLPELEEDEFYWHDLIGLEVVDEDGEELGKVTDVLETGANDVLVVK-----GPGGKEVLIPFVD-EFVPEVDLE 158

                        170
                 ....*....|..
gi 489121402 171 TRTIEVDWDPGF 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 1.55e-31

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: 109.19  E-value: 1.55e-31
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 489121402   15 VLGKMGSSYGIRGWLRVFSSTEDAESIFDYQPWFIQKA-GQWQQVQLESWKHHNQDLIIKLKGVDDRDSANLLTNCEIVV 93
Cdd:pfam01782   1 VVGKIVGTHGLKGEVKVKSFTDFPEDRFDYGPVFLLKKkGKWQTLTVESVRVHKKGLILKFEGIDDRDAAEALKGAELYV 80


                  ....
gi 489121402   94 DSSQ 97
Cdd:pfam01782  81 PRSD 84
 
Name Accession Description Interval E-value
rimM PRK00122
16S rRNA-processing protein RimM; Provisional
 10-182 1.67e-86

16S rRNA-processing protein RimM; Provisional


Pssm-ID: 234650 [Multi-domain]  Cd Length: 172  Bit Score: 251.60  E-value: 1.67e-86
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 489121402  10 PVEPIVLGKMGSSYGIRGWLRVFSSTEDAESIFDYQPWFIQKAGQWQQVQLESWKHHNQDLIIKLKGVDDRDSANLLTNC 89
Cdd:PRK00122   4 PEDLLVVGKIVSAHGIKGEVKVKSFTDFPERIFDYGPWLLGKGGEWQEVEIESGRFHKGFLIVKFEGVDDRNAAEALKGC 83

                         90       100       110       120       130       140       150       160
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 489121402  90 EIVVDSSQLPALEDGSYYWKDLMGCQVVTTEGYDLGKVVDMMETGSNDVIVIKANLKdafgiKERLVPFLDgQVIKKVDL 169
Cdd:PRK00122  84 ELFVPRSQLPELEEDEYYWHDLIGLEVVDEDGEELGKVTDILETGANDVLVVLKDKK-----EERLIPFVE-EVVKEVDL 157

                        170
                 ....*....|...
gi 489121402 170 ATRTIEVDWDPGF 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 1.21e-76

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: 226.32  E-value: 1.21e-76
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 489121402   13 PIVLGKMGSSYGIRGWLRVFSSTEDAESIFDYQPWFIQKAG-QWQQVQLESWKHHNQDLIIKLKGVDDRDSANLLTNCEI 91
Cdd:TIGR02273   1 LLVVGKIGGPHGIKGEVKVKSFTDFPESLFDYGPWLILKGSkQWQTVKVARVRKQNNKLIVKFEGIDDREAAEALKGLEL 80

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 489121402   92 VVDSSQLPALEDGSYYWKDLMGCQVVTTEGYDLGKVVDMMETGSNDVIVIKAnlkdAFGIKERLVPFLDgQVIKKVDLAT 171
Cdd:TIGR02273  81 FVPREALPELEEDEYYWTDLIGLEVVTEEGEELGKVVEILETGANDVLVVRS----KKGKKEVLIPFVE-EIVKEIDLEK 155

                         170
                  ....*....|
gi 489121402  172 RTIEVDWDPG 181
Cdd:TIGR02273 156 KIITVDWPEG 165
RimM COG0806
Ribosomal 30S subunit maturation factor RimM, required for 16S rRNA processing [Translation, ...
 12-182 3.48e-74

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: 220.37  E-value: 3.48e-74
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 489121402  12 EPIVLGKMGSSYGIRGWLRVFSSTEDAESIFDYQPWFIQK-AGQWQQVQLESWKHHNQDLIIKLKGVDDRDSANLLTNCE 90
Cdd:COG0806    5 DLVVVGRIVKAHGVKGEVKVKSFTDDPERFFDYGPVFLEDpDGELRPLTVESVRPHKGGLLVKFEGVDDREAAEALRGAE 84

                         90       100       110       120       130       140       150       160
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 489121402  91 IVVDSSQLPALEDGSYYWKDLMGCQVVTTEGYDLGKVVDMMETGSNDVIVIKanlkdAFGIKERLVPFLDgQVIKKVDLA 170
Cdd:COG0806   85 LYVPRDDLPELEEDEFYWHDLIGLEVVDEDGEELGKVTDVLETGANDVLVVK-----GPGGKEVLIPFVD-EFVPEVDLE 158

                        170
                 ....*....|..
gi 489121402 171 TRTIEVDWDPGF 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 1.55e-31

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: 109.19  E-value: 1.55e-31
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 489121402   15 VLGKMGSSYGIRGWLRVFSSTEDAESIFDYQPWFIQKA-GQWQQVQLESWKHHNQDLIIKLKGVDDRDSANLLTNCEIVV 93
Cdd:pfam01782   1 VVGKIVGTHGLKGEVKVKSFTDFPEDRFDYGPVFLLKKkGKWQTLTVESVRVHKKGLILKFEGIDDRDAAEALKGAELYV 80


                  ....
gi 489121402   94 DSSQ 97
Cdd:pfam01782  81 PRSD 84
rimM PRK14591
16S rRNA-processing protein RimM; Provisional
 16-179 1.87e-28

16S rRNA-processing protein RimM; Provisional


Pssm-ID: 173055 [Multi-domain]  Cd Length: 169  Bit Score: 103.97  E-value: 1.87e-28
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 489121402  16 LGKMGSSYGIRGWLRVFSSTEDAESIFDYQPWFIQ--KAGQWQQVQLESWKHHNQDLIIKLKGVDDRDSANLLTNCEIVV 93
Cdd:PRK14591   8 IAKIGATYKLNGELNLYPLANSIETLLSYGDWYIQlpATNVWQQLKGESVLKRADKVYIKLANINNADTAKKYVNALIGV 87

                         90       100       110       120       130       140       150       160
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 489121402  94 DSSQLPALEDGSYYWKDLMGCQVVTTEGYDLGKVVDMMETGSNDVIVIKanlKDAfgiKERLVPFLDgQVIKKVDLATRT 173
Cdd:PRK14591  88 PKRALPQLAEDEVYFKDLIGCSVKNINNDSFGVVVDIIETGANEVLVCK---EDN---SEYLIPYVK-QYIVSEDLNSKK 160


                 ....*.
gi 489121402 174 IEVDWD 179
Cdd:PRK14591 161 IVVDWE 166
rimM PRK13828
16S rRNA-processing protein RimM; Provisional
 25-177 4.52e-25

16S rRNA-processing protein RimM; Provisional


Pssm-ID: 184351 [Multi-domain]  Cd Length: 161  Bit Score: 95.01  E-value: 4.52e-25
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 489121402  25 IRGWLRVFSSTEDAESIFDYQPwFIQKAGQwQQVQLESWKHHNQDLIIKLKGVDDRDSANLLTNCEIVVDSSQLPALEDG 104
Cdd:PRK13828   1 VRGEVRLKSFTEDPLAIADYGP-LTTEDGA-RSFTVALARPAKDGLVARLKGVATREAAEALRGLELYVPRDRLPELDDD 78

                         90       100       110       120       130       140       150
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|...
gi 489121402 105 SYYWKDLMGCQVVTTEGYDLGKVVDMMETGSNDVIVIKAnlkdAFGIKERLVPFLDgQVIKKVDLATRTIEVD 177
Cdd:PRK13828  79 EFYHADLIGLAAVDTGGALLGRVKAVHNFGAGDILEIAP----PGGGPTLLLPFTR-AVVPTVDLAAGRVVAD 146
rimM PRK13829
16S rRNA-processing protein RimM; Provisional
 14-175 3.66e-20

16S rRNA-processing protein RimM; Provisional


Pssm-ID: 184352 [Multi-domain]  Cd Length: 162  Bit Score: 82.10  E-value: 3.66e-20
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 489121402  14 IVLGKMGSSYGIRGWLRVFSSTEdaesIFDYQPWFIQKAGqWQQVQLESWkhHNQDLIIKLKGVDDRDSANLLTNCEIVV 93
Cdd:PRK13829   4 TEIGRFGGPYGVQGGLKFRGEPV----VLDLPRVYVEGLG-WRAIERAER--VGPELVLHLAGVTSREGAEALVGLRVYA 76

                         90       100       110       120       130       140       150       160
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 489121402  94 DSSQLPALEDGSYYWKDLMGCQVVtTEGYDLGKVVDMMETGSNDVIVIKANLKDAFGIKERLVPFLDGQVikKVDLATRT 173
Cdd:PRK13829  77 DDADLPPLEEGSYYYHELRGLPVY-VDGEPLGEVVDVEDAGAQDLLVIRHVGGSLRARATYFVPLQAPYV--RVELDGIT 153


                 ..
gi 489121402 174 IE 175
Cdd:PRK13829 154 AD 155
rimM PRK14592
16S rRNA-processing protein RimM; Provisional
 14-141 7.44e-13

16S rRNA-processing protein RimM; Provisional


Pssm-ID: 173056 [Multi-domain]  Cd Length: 165  Bit Score: 63.20  E-value: 7.44e-13
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 489121402  14 IVLGKMGSSYGIRGWLRVFSSTEDAESIFDYQPWfiqKAGQwQQVQLESWKHHNQDLII-KLKGVDDRDSANLLTNCEIV 92
Cdd:PRK14592   3 ICLGVITSPHGIKGHVKIKTFTEDPENISAYGKL---TDGS-NTYKISVVSVIGANLVIaKISGINSRTEAELLRNKKLY 78

                         90       100       110       120
                 ....*....|....*....|....*....|....*....|....*....
gi 489121402  93 VDSSQLPALEDGSYYWKDLMGCQVVTTEGYDLGKVVDMMETGSNDVIVI 141
Cdd:PRK14592  79 VERSKLPNLNEDEFYQSDLIGMEVKLEDNTIYGYIKKIYNFGSCDIIEI 127
rimM PRK14590
16S rRNA-processing protein RimM; Provisional
 14-175 2.18e-10

16S rRNA-processing protein RimM; Provisional


Pssm-ID: 173054 [Multi-domain]  Cd Length: 171  Bit Score: 56.79  E-value: 2.18e-10
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 489121402  14 IVLGKMGSSYGIRGWLRVFSSTEDAESIFDYQPWFIQKA---GQWQQVQLESWKHHNQDLIIKLKGVDDRDSANLLTNCE 90
Cdd:PRK14590   1 ISLGQLGKPFGIKGWLRVNVRGETLHTLKAPATLKLGKEdpqFPESEIALLEIRPHGGKFLVRFEGYDTPEEAVKWRGGS 80

                         90       100       110       120       130       140       150       160
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 489121402  91 IVVDSSQLPALE-DGSYYWKDLMGCQVVTTEGYDLG-KVVDMMETGSNDVIV-IKANLkdafgiKERLVPFLDgQVIKKV 167
Cdd:PRK14590  81 LFLPQELLPKIEtKGEFYSEDLIGLQAIDETGKPLNwKLTDVQDNPAHPILVfIKGEG------EEILIPFLN-VFVGDL 153


                 ....*...
gi 489121402 168 DLATRTIE 175
Cdd:PRK14590 154 DLEKQTIV 161
PRC pfam05239
PRC-barrel domain; The PRC-barrel is an all beta barrel domain found in photosystem reaction ...
 103-177 7.78e-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: 50.37  E-value: 7.78e-09
                          10        20        30        40        50        60        70
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*.
gi 489121402  103 DGSYYWKDLMGCQVVTTEGYDLGKVVD-MMETGSNDVIVIKANLKDAFGIKERLVPFldgqVIKKVDLATRTIEVD 177
Cdd:pfam05239   1 EDEFYASDLIGLEVYTEDGEKLGKVKDvVIDEGEGRVRYLVVSVGGFLGGKEVLIPF----DKLNVKLGKDRIIVD 72
rimM PRK14594
16S rRNA-processing protein RimM; Provisional
 15-176 3.26e-08

16S rRNA-processing protein RimM; Provisional


Pssm-ID: 173058 [Multi-domain]  Cd Length: 166  Bit Score: 50.55  E-value: 3.26e-08
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 489121402  15 VLGKMGSSYGIRGWLRVFSSTEDAESIFDYQPWFI---QKAGQWQQVQLESWKHHNQDLIIKLKGVDDRDSANLLTNCEI 91
Cdd:PRK14594   3 VKGIILSSYGINGYAKVKSISNNFCDFINLKNNKLvlkKSNCSSIEVKVEDVSLKNNSLLLKFEEFNAPEPIKPLIGFEL 82

                         90       100       110       120       130       140       150       160
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 489121402  92 VVDSSQLPALEDGSYYWKDLMGCQVVtTEGYDLGKVVDMMETGSNDVIVIKAnlkdafGIKERLVPFLDgQVIKKVDLAT 171
Cdd:PRK14594  83 WVDDELASKLEEGEYYFGKLIGYAIV-NDGKELGEVVSFFECLNSVLLEVKV------GIKLFFVPFLS-IYLGDINREL 154


                 ....*
gi 489121402 172 RTIEV 176
Cdd:PRK14594 155 KTIEL 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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