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Conserved domains on  [gi|62078803|ref|NP_001014058|]
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la-related protein 1B isoform 2 [Rattus norvegicus]

Protein Classification

LARP_2 domain-containing protein( domain architecture ID 10169015)

LARP_2 domain-containing protein

Graphical summary

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List of domain hits

 Name Accession Description Interval E-value
LARP_2 cd08038
La RNA-binding domain of La-related protein 2; This domain is found in vertebrate La-related ...
 216-288 5.59e-46

La RNA-binding domain of La-related protein 2; This domain is found in vertebrate La-related protein 2 (LARP2). A variety of La-related proteins (LARPs or La ribonucleoproteins), with differing domain architecture, appear to function as RNA-binding proteins in eukaryotic cellular processes.


:

Pssm-ID: 153407  Cd Length: 73  Bit Score: 150.87  E-value: 5.59e-46
                        10        20        30        40        50        60        70
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|...
gi 62078803 216 KEYIKRQIEYYFSIENLERDFFLRRKMDEQGFLPISLIAGFHRVQALTTNLNLILEALKDSTEVEIVDEKMRK 288
Cdd:cd08038   1 KEYIKRQIEYYFSTENLERDFFLRRKMDLQGFLPISLIAGFYRVQALTTNVDLILEALKDSTEVEIVDQKIRR 73
 
Name Accession Description Interval E-value
LARP_2 cd08038
La RNA-binding domain of La-related protein 2; This domain is found in vertebrate La-related ...
 216-288 5.59e-46

La RNA-binding domain of La-related protein 2; This domain is found in vertebrate La-related protein 2 (LARP2). A variety of La-related proteins (LARPs or La ribonucleoproteins), with differing domain architecture, appear to function as RNA-binding proteins in eukaryotic cellular processes.


Pssm-ID: 153407  Cd Length: 73  Bit Score: 150.87  E-value: 5.59e-46
                        10        20        30        40        50        60        70
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|...
gi 62078803 216 KEYIKRQIEYYFSIENLERDFFLRRKMDEQGFLPISLIAGFHRVQALTTNLNLILEALKDSTEVEIVDEKMRK 288
Cdd:cd08038   1 KEYIKRQIEYYFSTENLERDFFLRRKMDLQGFLPISLIAGFYRVQALTTNVDLILEALKDSTEVEIVDQKIRR 73
LA smart00715
Domain in the RNA-binding Lupus La protein; unknown function;
214-289 1.24e-34

Domain in the RNA-binding Lupus La protein; unknown function;


Pssm-ID: 128955 [Multi-domain]  Cd Length: 80  Bit Score: 121.57  E-value: 1.24e-34
                           10        20        30        40        50        60        70
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*..
gi 62078803    214 LLKEYIKRQIEYYFSIENLERDFFLRRKMDEQ-GFLPISLIAGFHRVQALTTNLNLILEALKDSTEVEIVDEKMRKK 289
Cdd:smart00715   2 ELKQKIKKQVEYYFSDENLPRDKFLRKKMDKNdGYVPISTIASFKRVKSLTTDVNLIVEALRSSPKLEVSEDGLKVR 78
La pfam05383
La domain; This presumed domain is found at the N-terminus of La RNA-binding proteins as well ...
 219-275 1.98e-27

La domain; This presumed domain is found at the N-terminus of La RNA-binding proteins as well as other proteins. The function of this region is uncertain.


Pssm-ID: 461635  Cd Length: 59  Bit Score: 101.73  E-value: 1.98e-27
                          10        20        30        40        50
                  ....*....|....*....|....*....|....*....|....*....|....*....
gi 62078803   219 IKRQIEYYFSIENLERDFFLRRKMDE--QGFLPISLIAGFHRVQALTTNLNLILEALKD 275
Cdd:pfam05383   1 IKKQVEYYFSDENLPKDKFLRKQMDKdpDGYVPISVIASFKRMKKLTTDIDLIAEALRE 59
LHP1 COG5193
La protein, small RNA-binding pol III transcript stabilizing protein and related ...
 198-280 1.28e-12

La protein, small RNA-binding pol III transcript stabilizing protein and related La-motif-containing proteins involved in translation [Posttranslational modification, protein turnover, chaperones / Translation, ribosomal structure and biogenesis];


Pssm-ID: 227520 [Multi-domain]  Cd Length: 438  Bit Score: 68.15  E-value: 1.28e-12
                        10        20        30        40        50        60        70        80
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 62078803 198 YYDDGTGVQVYPVEETLLK-EYIKRQIEYYFSIENLERDFFLRRKMDEQGFLPISLIAGFHRVQALTTNLNLILEALKDS 276
Cdd:COG5193 252 YPNDPETVYYYSVEPILLSiMAKKEQIEYYFSEENLKSDEFLRKKFKKAGFIPLSFIGKFYRNLSFGGDKNLILAAMKEV 331


                ....
gi 62078803 277 TEVE 280
Cdd:COG5193 332 VQNK 335
 
Name Accession Description Interval E-value
LARP_2 cd08038
La RNA-binding domain of La-related protein 2; This domain is found in vertebrate La-related ...
 216-288 5.59e-46

La RNA-binding domain of La-related protein 2; This domain is found in vertebrate La-related protein 2 (LARP2). A variety of La-related proteins (LARPs or La ribonucleoproteins), with differing domain architecture, appear to function as RNA-binding proteins in eukaryotic cellular processes.


Pssm-ID: 153407  Cd Length: 73  Bit Score: 150.87  E-value: 5.59e-46
                        10        20        30        40        50        60        70
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|...
gi 62078803 216 KEYIKRQIEYYFSIENLERDFFLRRKMDEQGFLPISLIAGFHRVQALTTNLNLILEALKDSTEVEIVDEKMRK 288
Cdd:cd08038   1 KEYIKRQIEYYFSTENLERDFFLRRKMDLQGFLPISLIAGFYRVQALTTNVDLILEALKDSTEVEIVDQKIRR 73
LARP_1_2 cd08034
La RNA-binding domain proteins similar to La-related proteins 1 and 2; This domain is found in ...
 216-288 1.52e-45

La RNA-binding domain proteins similar to La-related proteins 1 and 2; This domain is found in proteins similar to vertebrate La-related proteins 1 and 2 (LARP1, LARP2). A variety of La-related proteins (LARPs or La ribonucleoproteins), with differing domain architecture, appear to function as RNA-binding proteins in eukaryotic cellular processes.


Pssm-ID: 153403  Cd Length: 73  Bit Score: 149.50  E-value: 1.52e-45
                        10        20        30        40        50        60        70
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|...
gi 62078803 216 KEYIKRQIEYYFSIENLERDFFLRRKMDEQGFLPISLIAGFHRVQALTTNLNLILEALKDSTEVEIVDEKMRK 288
Cdd:cd08034   1 KEYIKKQIEYYFSVDNLEKDFFLRRKMDPEGYLPIALIASFHRVQALTTDVNLILEALKDSTVVELVDEKVRC 73
LARP_1 cd08037
La RNA-binding domain of La-related protein 1; This domain is found in vertebrate La-related ...
 216-288 1.59e-40

La RNA-binding domain of La-related protein 1; This domain is found in vertebrate La-related protein 1 (LARP1). A variety of La-related proteins (LARPs or La ribonucleoproteins), with differing domain architecture, appear to function as RNA-binding proteins in eukaryotic cellular processes.


Pssm-ID: 153406  Cd Length: 73  Bit Score: 136.57  E-value: 1.59e-40
                        10        20        30        40        50        60        70
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|...
gi 62078803 216 KEYIKRQIEYYFSIENLERDFFLRRKMDEQGFLPISLIAGFHRVQALTTNLNLILEALKDSTEVEIVDEKMRK 288
Cdd:cd08037   1 KDYIKRQIEYYFSVDNLERDFFLRRKMDEDGFLPVTLIASFHRVQALTTDISLIIKALKDSKVVEIIDMKIRR 73
LA smart00715
Domain in the RNA-binding Lupus La protein; unknown function;
214-289 1.24e-34

Domain in the RNA-binding Lupus La protein; unknown function;


Pssm-ID: 128955 [Multi-domain]  Cd Length: 80  Bit Score: 121.57  E-value: 1.24e-34
                           10        20        30        40        50        60        70
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*..
gi 62078803    214 LLKEYIKRQIEYYFSIENLERDFFLRRKMDEQ-GFLPISLIAGFHRVQALTTNLNLILEALKDSTEVEIVDEKMRKK 289
Cdd:smart00715   2 ELKQKIKKQVEYYFSDENLPRDKFLRKKMDKNdGYVPISTIASFKRVKSLTTDVNLIVEALRSSPKLEVSEDGLKVR 78
LAM cd07323
LA motif RNA-binding domain; This domain is found at the N-terminus of La RNA-binding proteins ...
 216-285 2.66e-33

LA motif RNA-binding domain; This domain is found at the N-terminus of La RNA-binding proteins as well as in other related proteins. Typically, the domain co-occurs with an RNA-recognition motif (RRM), and together these domains function to bind primary transcripts of RNA polymerase III in the La autoantigen (Lupus La protein, LARP3, or Sjoegren syndrome type B antigen, SS-B). A variety of La-related proteins (LARPs or La ribonucleoproteins), with differing domain architecture, appear to function as RNA-binding proteins in eukaryotic cellular processes.


Pssm-ID: 153396  Cd Length: 75  Bit Score: 117.63  E-value: 2.66e-33
                        10        20        30        40        50        60        70
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 62078803 216 KEYIKRQIEYYFSIENLERDFFLRRKMDEQGFLPISLIAGFHRVQALTTNLNLILEALKDSTEVEIVDEK 285
Cdd:cd07323   1 LEKIKKQVEYYFSDENLCKDRFLRSLMDDDGWVPLSLLASFNRVKKLTTDVELILEALRDSSVVEVSEDG 70
La pfam05383
La domain; This presumed domain is found at the N-terminus of La RNA-binding proteins as well ...
 219-275 1.98e-27

La domain; This presumed domain is found at the N-terminus of La RNA-binding proteins as well as other proteins. The function of this region is uncertain.


Pssm-ID: 461635  Cd Length: 59  Bit Score: 101.73  E-value: 1.98e-27
                          10        20        30        40        50
                  ....*....|....*....|....*....|....*....|....*....|....*....
gi 62078803   219 IKRQIEYYFSIENLERDFFLRRKMDE--QGFLPISLIAGFHRVQALTTNLNLILEALKD 275
Cdd:pfam05383   1 IKKQVEYYFSDENLPKDKFLRKQMDKdpDGYVPISVIASFKRMKKLTTDIDLIAEALRE 59
LARP_4_5_like cd08031
La RNA-binding domain of proteins similar to La-related proteins 4 and 5; This domain is found ...
 216-288 6.57e-22

La RNA-binding domain of proteins similar to La-related proteins 4 and 5; This domain is found in proteins similar to La-related proteins 4 and 5 (LARP4, LARP5). A variety of La-related proteins (LARPs or La ribonucleoproteins), with differing domain architecture, appear to function as RNA-binding proteins in eukaryotic cellular processes.


Pssm-ID: 153400  Cd Length: 75  Bit Score: 87.88  E-value: 6.57e-22
                        10        20        30        40        50        60        70
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|...
gi 62078803 216 KEYIKRQIEYYFSIENLERDFFLRRKMDEQGFLPISLIAGFHRVQALTTNLNLILEALKDSTEVEiVDEKMRK 288
Cdd:cd08031   1 KELLKRQLEYYFSRENLANDAYLLSQMDSDQYVPIWTIANFNKIKKLTTDIDLIVEALRESPNVQ-VDEKGEK 72
LARP_6 cd08033
La RNA-binding domain of La-related protein 6; This domain is found in animal and plant ...
 219-288 4.83e-17

La RNA-binding domain of La-related protein 6; This domain is found in animal and plant proteins related to the La autoantigen. A variety of La-related proteins (LARPs or La ribonucleoproteins), with differing domain architecture, appear to function as RNA-binding proteins in eukaryotic cellular processes.


Pssm-ID: 153402  Cd Length: 77  Bit Score: 74.63  E-value: 4.83e-17
                        10        20        30        40        50        60        70
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....
gi 62078803 219 IKRQIEYYFSIENLERDFFLRRKM--DEQGFLPISLIAGFHRVQALTTNLNLILEALKDSTEVEIVDE--KMRK 288
Cdd:cd08033   4 IVKQVEYYFSDENLLKDAFLLKHVrrNKEGYVPIKLIASFKKVKALTRDWRVVAAALRRSSKLVVSEDgkKVRR 77
LARP_4 cd08035
La RNA-binding domain of La-related protein 4; This domain is found in vertebrate La-related ...
 216-292 4.99e-15

La RNA-binding domain of La-related protein 4; This domain is found in vertebrate La-related protein 4 (LARP4), also known as c-MPL binding protein. La-type domains often co-occur with RNA-recognition motifs (RRMs). A variety of La-related proteins (LARPs or La ribonucleoproteins), with differing domain architecture, appear to function as RNA-binding proteins in eukaryotic cellular processes.


Pssm-ID: 153404  Cd Length: 75  Bit Score: 69.30  E-value: 4.99e-15
                        10        20        30        40        50        60        70
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*..
gi 62078803 216 KEYIKRQIEYYFSIENLERDFFLRRKMDEQGFLPISLIAGFHRVQALTTNLNLILEALKDSTEVEiVDEKmRKKIEP 292
Cdd:cd08035   1 RECLKKQLEFCFSRENLSKDLYLISQMDSDQFVPIWTVANMEGIKKLTTDMDLILDVLRSSPMVQ-VDET-GEKVRP 75
LARP_3 cd08028
La RNA-binding domain of La-related protein 3; This domain is found at the N-terminus of the ...
 215-287 6.60e-14

La RNA-binding domain of La-related protein 3; This domain is found at the N-terminus of the La autoantigen and similar proteins, and co-occurs with an RNA-recognition motif (RRM). Together these domains function to bind primary transcripts of RNA polymerase III at their 3' terminus and protect them from exonucleolytic degradation. Binding is specific for the 3'-terminal UUU-OH motif. The La autoantigen is also called Lupus La protein, LARP3, or Sjoegren syndrome type B antigen (SS-B).


Pssm-ID: 153397  Cd Length: 82  Bit Score: 66.17  E-value: 6.60e-14
                        10        20        30        40        50        60        70
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*.
gi 62078803 215 LKEYIKRQIEYYFSIENLERDFFLRRKMDE-QGFLPISLIAGFHRVQALTTNLNLILEALKDSTE--VEIVDEKMR 287
Cdd:cd08028   4 LEKKIIRQIEYYFGDFNLPRDKFLKEQIKEdDGWVPMEVMLKFNRLKSLSSDPEVIAKALKKSKSglIEVSEDKTK 79
LHP1 COG5193
La protein, small RNA-binding pol III transcript stabilizing protein and related ...
 198-280 1.28e-12

La protein, small RNA-binding pol III transcript stabilizing protein and related La-motif-containing proteins involved in translation [Posttranslational modification, protein turnover, chaperones / Translation, ribosomal structure and biogenesis];


Pssm-ID: 227520 [Multi-domain]  Cd Length: 438  Bit Score: 68.15  E-value: 1.28e-12
                        10        20        30        40        50        60        70        80
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 62078803 198 YYDDGTGVQVYPVEETLLK-EYIKRQIEYYFSIENLERDFFLRRKMDEQGFLPISLIAGFHRVQALTTNLNLILEALKDS 276
Cdd:COG5193 252 YPNDPETVYYYSVEPILLSiMAKKEQIEYYFSEENLKSDEFLRKKFKKAGFIPLSFIGKFYRNLSFGGDKNLILAAMKEV 331


                ....
gi 62078803 277 TEVE 280
Cdd:COG5193 332 VQNK 335
LARP_7 cd08032
La RNA-binding domain of La-related protein 7; LARP7 is a component of the 7SK snRNP, a key ...
 219-287 1.70e-12

La RNA-binding domain of La-related protein 7; LARP7 is a component of the 7SK snRNP, a key factor in the regulation of RNA polymerase II transcription. 7SK functionality is dependent on the presence of LARP7, which is thought to stabilize the 7SK RNA by interacting with its 3' end. The release of 7SK RNA from P-TEFb/HEXIM/7SK complexes activates the cyclin-dependent kinase P-TEFb, which in turn phosphorylates the C-terminal domain of RNA pol II and mediates a transition into productive transcription elongation.


Pssm-ID: 153401  Cd Length: 82  Bit Score: 62.26  E-value: 1.70e-12
                        10        20        30        40        50        60        70
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|.
gi 62078803 219 IKRQIEYYFSIENLERDFFLRRKMDEQ--GFLPISLIAGFHRVQALTTNLNLILEALKDSTEVEIVDEKMR 287
Cdd:cd08032   9 IAKQVDFWFGDVNLHKDRFLREQIEKSrdGYIDISLLVSFNKMKKLTTDGKLIARALKNSSVVELNLEGTR 79
LA_like_fungal cd08029
La-motif domain of fungal proteins similar to the La autoantigen; This domain is found in ...
 216-284 5.38e-11

La-motif domain of fungal proteins similar to the La autoantigen; This domain is found in fungal proteins related to the La autoantigen. A variety of La-related proteins (LARPs or La ribonucleoproteins), with differing domain architecture, appear to function as RNA-binding proteins in eukaryotic cellular processes.


Pssm-ID: 153398  Cd Length: 76  Bit Score: 57.70  E-value: 5.38e-11
                        10        20        30        40        50        60        70
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|.
gi 62078803 216 KEYIKRQIEYYFSIENLERDFFLRRKM--DEQGFLPISLIAGFHRVQALtTNLNLILEALKDSTEVEIVDE 284
Cdd:cd08029   1 PEEIRKQVEFYFSDSNLPTDKFLWTLTggSNNGWVPIKTIASFKRMRRF-QPLEAVVEALRESELLEVSED 70
LA_like_plant cd08030
La-motif domain of plant proteins similar to the La autoantigen; This domain is found in plant ...
 215-289 1.91e-09

La-motif domain of plant proteins similar to the La autoantigen; This domain is found in plant proteins related to the La autoantigen. A variety of La-related proteins (LARPs or La ribonucleoproteins), with differing domain architecture, appear to function as RNA-binding proteins in eukaryotic cellular processes.


Pssm-ID: 153399  Cd Length: 90  Bit Score: 53.93  E-value: 1.91e-09
                        10        20        30        40        50        60        70        80
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 62078803 215 LKEYIKRQIEYYFSIENLERDFFLRRKM--DEQGFLPISLIAGFHRVQAL------------TTNLNLILEALKDSTEVE 280
Cdd:cd08030   1 TKEKVLRQVEFYFSDSNLPRDDFLLEEVeeDPDGMVSLALICSFSRMRSLlglgggkpedvpEDTLKAVAEALRTSTLLK 80


                ....*....
gi 62078803 281 IVDEKMRKK 289
Cdd:cd08030  81 VSEDGKRVG 89
LARP_5 cd08036
La RNA-binding domain of La-related protein 5; This domain is found in vertebrate La-related ...
 216-288 1.92e-08

La RNA-binding domain of La-related protein 5; This domain is found in vertebrate La-related protein 5 (LARP5). A variety of La-related proteins (LARPs or La ribonucleoproteins), with differing domain architecture, appear to function as RNA-binding proteins in eukaryotic cellular processes.


Pssm-ID: 153405  Cd Length: 75  Bit Score: 50.79  E-value: 1.92e-08
                        10        20        30        40        50        60        70
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|...
gi 62078803 216 KEYIKRQIEYYFSIENLERDFFLRRKMDEQGFLPISLIAGFHRVQALTTNLNLILEALKDSTEVEiVDEKMRK 288
Cdd:cd08036   1 RELLKKTLEFCLSRENLASDMYLISQMDSDQYVPIMTVANLDHIKKLSTDVDLIVDVLRSLPLVQ-VDEKGEK 72
 
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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