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Conserved domains on  [gi|334187516|ref|NP_001190260|]
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Ribosomal protein L7Ae/L30e/S12e/Gadd45 family protein [Arabidopsis thaliana]

Protein Classification

ribosomal eL8 family protein( domain architecture ID 1903236)

ribosomal eL8 family protein such as large ribosomal subunit protein eL8 and H/ACA ribonucleoprotein complex subunit 2

Gene Ontology:  GO:0003723
SCOP:  4001513

Graphical summary

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List of domain hits

 Name Accession Description Interval E-value
SNU13 super family cl42391
U4/U6.U5 small nuclear ribonucleoprotein SNU13; U4/U6.U5 small nuclear ribonucleoprotein SNU13, ...
 24-151 9.27e-25

U4/U6.U5 small nuclear ribonucleoprotein SNU13; U4/U6.U5 small nuclear ribonucleoprotein SNU13, also known as NHP2-like protein 1 or U4/U6.U5 tri-snRNP 15.5 kDa protein, is a component of the spliceosome B complex, involved in pre-mRNA splicing. It binds to the 5'-stem-loop of U4 snRNA.


The actual alignment was detected with superfamily member cd21104:

Pssm-ID: 455736  Cd Length: 122  Bit Score: 92.01  E-value: 9.27e-25
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 334187516  24 PIAKPLAGKKLQKRTFKLIQKAAGKKCLKRGVKEVVKSIRRGQKGLCVIAGNISPIDVITHLPILCEEAGVPYVYVPSKE 103
Cdd:cd21104    2 PKAYPLADAQLTQTILDLVQQAANYKQLKKGANEATKTLNRGIAEFIVMAADAEPLEILLHLPLLCEDKNVPYVFVPSKQ 81

                         90       100       110       120
                 ....*....|....*....|....*....|....*....|....*...
gi 334187516 104 DLAQAGATKRPTCCVLVmlkpakgdlTAEELAKLKTDYEQVSDDIKEL 151
Cdd:cd21104   82 ALGRACGVSRPVIACSV---------TTNEGSQLKSQIQSLKDAIEKL 120
 
Name Accession Description Interval E-value
SNU13 cd21104
U4/U6.U5 small nuclear ribonucleoprotein SNU13; U4/U6.U5 small nuclear ribonucleoprotein SNU13, ...
 24-151 9.27e-25

U4/U6.U5 small nuclear ribonucleoprotein SNU13; U4/U6.U5 small nuclear ribonucleoprotein SNU13, also known as NHP2-like protein 1 or U4/U6.U5 tri-snRNP 15.5 kDa protein, is a component of the spliceosome B complex, involved in pre-mRNA splicing. It binds to the 5'-stem-loop of U4 snRNA.


Pssm-ID: 411046  Cd Length: 122  Bit Score: 92.01  E-value: 9.27e-25
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 334187516  24 PIAKPLAGKKLQKRTFKLIQKAAGKKCLKRGVKEVVKSIRRGQKGLCVIAGNISPIDVITHLPILCEEAGVPYVYVPSKE 103
Cdd:cd21104    2 PKAYPLADAQLTQTILDLVQQAANYKQLKKGANEATKTLNRGIAEFIVMAADAEPLEILLHLPLLCEDKNVPYVFVPSKQ 81

                         90       100       110       120
                 ....*....|....*....|....*....|....*....|....*...
gi 334187516 104 DLAQAGATKRPTCCVLVmlkpakgdlTAEELAKLKTDYEQVSDDIKEL 151
Cdd:cd21104   82 ALGRACGVSRPVIACSV---------TTNEGSQLKSQIQSLKDAIEKL 120
Ribosomal_L7Ae pfam01248
Ribosomal protein L7Ae/L30e/S12e/Gadd45 family; This family includes: Ribosomal L7A from ...
 40-120 1.75e-21

Ribosomal protein L7Ae/L30e/S12e/Gadd45 family; This family includes: Ribosomal L7A from metazoa, Ribosomal L8-A and L8-B from fungi, 30S ribosomal protein HS6 from archaebacteria, 40S ribosomal protein S12 from eukaryotes, Ribosomal protein L30 from eukaryotes and archaebacteria. Gadd45 and MyD118.


Pssm-ID: 426153 [Multi-domain]  Cd Length: 95  Bit Score: 82.64  E-value: 1.75e-21
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 334187516   40 KLIQKAAGKKCLKRGVKEVVKSIRRGQKGLCVIAGNISPIDVITHLPILCEEAGVPYVYVPSKEDLAQAGATKRPTCCVL 119
Cdd:pfam01248   5 EVLKKALKTGKLVLGLKEVTKALERGEAKLVIIAEDCDPEEKVKLIPALCKEKNVPYVKVPSKKELGEACGKKRPVSALA 84


                  .
gi 334187516  120 V 120
Cdd:pfam01248  85 I 85
eL8_ribo TIGR03677
ribosomal protein eL8, archaeal form; This model specifically identifies the archaeal version ...
 32-135 5.33e-19

ribosomal protein eL8, archaeal form; This model specifically identifies the archaeal version of the large ribosomal complex protein eL8, previously designated L8 in yeast and L7Ae in the archaea. The family is a narrower version of the pfam01248 model which also recognizes the L30 protein.


Pssm-ID: 188367 [Multi-domain]  Cd Length: 117  Bit Score: 77.11  E-value: 5.33e-19
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 334187516   32 KKLQKRTFKLIQKAAGKKCLKRGVKEVVKSIRRGQKGLCVIAGNISPIDVITHLPILCEEAGVPYVYVPSKEDLAQAGAT 111
Cdd:TIGR03677   8 EELADKALEAVEKARETGKIKKGTNEVTKAVERGIAKLVVIAEDVEPPEIVAHLPALCEEKGIPYIYVKSKEDLGAAAGL 87

                          90       100
                  ....*....|....*....|....
gi 334187516  112 KRPTCCVlVMLKPAKGDLTAEELA 135
Cdd:TIGR03677  88 EVGAASA-AIVDAGKAEELLKEII 110
Rpl7Ae COG1358
Ribosomal protein L7Ae or related RNA K-turn-binding protein [Translation, ribosomal structure ...
 46-136 1.74e-11

Ribosomal protein L7Ae or related RNA K-turn-binding protein [Translation, ribosomal structure and biogenesis]; Ribosomal protein L7Ae or related RNA K-turn-binding protein is part of the Pathway/BioSystem: Ribosome 50S subunit


Pssm-ID: 440969 [Multi-domain]  Cd Length: 98  Bit Score: 57.09  E-value: 1.74e-11
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 334187516  46 AGKkcLKRGVKEVVKSIRRGQKGLCVIAGNISPiDVITHLPILCEEAGVPYVYVPSKEDLAQagATKRPTCCVLVMLKPA 125
Cdd:COG1358   13 AGK--LVSGEEQVLKAIRKGKAKLVIIAEDASE-NTKKKLLDLCEEYGVPVVEVGTKEELGK--AIGKVGRAVVAITDEG 87

                         90
                 ....*....|.
gi 334187516 126 KGDLTAEELAK 136
Cdd:COG1358   88 FAKKLLELLEE 98
PTZ00222 PTZ00222
60S ribosomal protein L7a; Provisional
 4-138 4.69e-10

60S ribosomal protein L7a; Provisional


Pssm-ID: 140249  Cd Length: 263  Bit Score: 56.25  E-value: 4.69e-10
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 334187516   4 DTEAEKSIQKEKKKYAitlapiakPLAGKKLQKRTFKLIQ-------KAAGKK---CLKRGVKEVVKSIRRGQKGLCVIA 73
Cdd:PTZ00222  84 DRSSRNELLKLIKKYA--------PETRKARRDRLHKVAEekkkdpkKTVSTKaplAVVTGLQEVTRAIEKKQARMVVIA 155

                         90       100       110       120       130       140
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*
gi 334187516  74 GNISPIDVITHLPILCEEAGVPYVYVPSKEDLAQAGATKRPTCCVLVmlkpakgDLTAEELAKLK 138
Cdd:PTZ00222 156 NNVDPVELVLWMPNLCRANKIPYAIVKDMARLGDAIGRKTATCVAIT-------DVNAEDEAALK 213
 
Name Accession Description Interval E-value
SNU13 cd21104
U4/U6.U5 small nuclear ribonucleoprotein SNU13; U4/U6.U5 small nuclear ribonucleoprotein SNU13, ...
 24-151 9.27e-25

U4/U6.U5 small nuclear ribonucleoprotein SNU13; U4/U6.U5 small nuclear ribonucleoprotein SNU13, also known as NHP2-like protein 1 or U4/U6.U5 tri-snRNP 15.5 kDa protein, is a component of the spliceosome B complex, involved in pre-mRNA splicing. It binds to the 5'-stem-loop of U4 snRNA.


Pssm-ID: 411046  Cd Length: 122  Bit Score: 92.01  E-value: 9.27e-25
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 334187516  24 PIAKPLAGKKLQKRTFKLIQKAAGKKCLKRGVKEVVKSIRRGQKGLCVIAGNISPIDVITHLPILCEEAGVPYVYVPSKE 103
Cdd:cd21104    2 PKAYPLADAQLTQTILDLVQQAANYKQLKKGANEATKTLNRGIAEFIVMAADAEPLEILLHLPLLCEDKNVPYVFVPSKQ 81

                         90       100       110       120
                 ....*....|....*....|....*....|....*....|....*...
gi 334187516 104 DLAQAGATKRPTCCVLVmlkpakgdlTAEELAKLKTDYEQVSDDIKEL 151
Cdd:cd21104   82 ALGRACGVSRPVIACSV---------TTNEGSQLKSQIQSLKDAIEKL 120
Ribosomal_L7Ae pfam01248
Ribosomal protein L7Ae/L30e/S12e/Gadd45 family; This family includes: Ribosomal L7A from ...
 40-120 1.75e-21

Ribosomal protein L7Ae/L30e/S12e/Gadd45 family; This family includes: Ribosomal L7A from metazoa, Ribosomal L8-A and L8-B from fungi, 30S ribosomal protein HS6 from archaebacteria, 40S ribosomal protein S12 from eukaryotes, Ribosomal protein L30 from eukaryotes and archaebacteria. Gadd45 and MyD118.


Pssm-ID: 426153 [Multi-domain]  Cd Length: 95  Bit Score: 82.64  E-value: 1.75e-21
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 334187516   40 KLIQKAAGKKCLKRGVKEVVKSIRRGQKGLCVIAGNISPIDVITHLPILCEEAGVPYVYVPSKEDLAQAGATKRPTCCVL 119
Cdd:pfam01248   5 EVLKKALKTGKLVLGLKEVTKALERGEAKLVIIAEDCDPEEKVKLIPALCKEKNVPYVKVPSKKELGEACGKKRPVSALA 84


                  .
gi 334187516  120 V 120
Cdd:pfam01248  85 I 85
eL8_ribo TIGR03677
ribosomal protein eL8, archaeal form; This model specifically identifies the archaeal version ...
 32-135 5.33e-19

ribosomal protein eL8, archaeal form; This model specifically identifies the archaeal version of the large ribosomal complex protein eL8, previously designated L8 in yeast and L7Ae in the archaea. The family is a narrower version of the pfam01248 model which also recognizes the L30 protein.


Pssm-ID: 188367 [Multi-domain]  Cd Length: 117  Bit Score: 77.11  E-value: 5.33e-19
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 334187516   32 KKLQKRTFKLIQKAAGKKCLKRGVKEVVKSIRRGQKGLCVIAGNISPIDVITHLPILCEEAGVPYVYVPSKEDLAQAGAT 111
Cdd:TIGR03677   8 EELADKALEAVEKARETGKIKKGTNEVTKAVERGIAKLVVIAEDVEPPEIVAHLPALCEEKGIPYIYVKSKEDLGAAAGL 87

                          90       100
                  ....*....|....*....|....
gi 334187516  112 KRPTCCVlVMLKPAKGDLTAEELA 135
Cdd:TIGR03677  88 EVGAASA-AIVDAGKAEELLKEII 110
Rpl7Ae COG1358
Ribosomal protein L7Ae or related RNA K-turn-binding protein [Translation, ribosomal structure ...
 46-136 1.74e-11

Ribosomal protein L7Ae or related RNA K-turn-binding protein [Translation, ribosomal structure and biogenesis]; Ribosomal protein L7Ae or related RNA K-turn-binding protein is part of the Pathway/BioSystem: Ribosome 50S subunit


Pssm-ID: 440969 [Multi-domain]  Cd Length: 98  Bit Score: 57.09  E-value: 1.74e-11
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 334187516  46 AGKkcLKRGVKEVVKSIRRGQKGLCVIAGNISPiDVITHLPILCEEAGVPYVYVPSKEDLAQagATKRPTCCVLVMLKPA 125
Cdd:COG1358   13 AGK--LVSGEEQVLKAIRKGKAKLVIIAEDASE-NTKKKLLDLCEEYGVPVVEVGTKEELGK--AIGKVGRAVVAITDEG 87

                         90
                 ....*....|.
gi 334187516 126 KGDLTAEELAK 136
Cdd:COG1358   88 FAKKLLELLEE 98
PTZ00222 PTZ00222
60S ribosomal protein L7a; Provisional
 4-138 4.69e-10

60S ribosomal protein L7a; Provisional


Pssm-ID: 140249  Cd Length: 263  Bit Score: 56.25  E-value: 4.69e-10
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 334187516   4 DTEAEKSIQKEKKKYAitlapiakPLAGKKLQKRTFKLIQ-------KAAGKK---CLKRGVKEVVKSIRRGQKGLCVIA 73
Cdd:PTZ00222  84 DRSSRNELLKLIKKYA--------PETRKARRDRLHKVAEekkkdpkKTVSTKaplAVVTGLQEVTRAIEKKQARMVVIA 155

                         90       100       110       120       130       140
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*
gi 334187516  74 GNISPIDVITHLPILCEEAGVPYVYVPSKEDLAQAGATKRPTCCVLVmlkpakgDLTAEELAKLK 138
Cdd:PTZ00222 156 NNVDPVELVLWMPNLCRANKIPYAIVKDMARLGDAIGRKTATCVAIT-------DVNAEDEAALK 213
PTZ00365 PTZ00365
60S ribosomal protein L7Ae-like; Provisional
 43-121 6.19e-05

60S ribosomal protein L7Ae-like; Provisional


Pssm-ID: 240382  Cd Length: 266  Bit Score: 41.76  E-value: 6.19e-05
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 334187516  43 QKAAGKK--CLKRGVKEVVKSIRRGQKGLCVIAGNISPIDVITHLPILCEEAGVPYVYVPSKEDLAQAGATKrpTCCVLV 120
Cdd:PTZ00365 123 EEVESKKpfMLKYGLNHVTDLVEYKKAKLVVIAHDVDPIELVCFLPALCRKKEVPYCIIKGKSRLGKLVHQK--TAAVVA 200


                 .
gi 334187516 121 M 121
Cdd:PTZ00365 201 I 201
ICL_PEPM cd00377
Members of the ICL/PEPM enzyme family catalyze either P-C or C-C bond formation/cleavage. ...
 90-137 5.76e-03

Members of the ICL/PEPM enzyme family catalyze either P-C or C-C bond formation/cleavage. Known members are phosphoenolpyruvate mutase (PEPM), phosphonopyruvate hydrolase (PPH), carboxyPEP mutase (CPEP mutase), oxaloacetate hydrolase (OAH), isocitrate lyase (ICL), and 2-methylisocitrate lyase (MICL). Isocitrate lyase (ICL) catalyzes the conversion of isocitrate to succinate and glyoxylate, the first committed step in the glyoxylate pathway. This carbon-conserving pathway is present in most prokaryotes, lower eukaryotes and plants, but has not been observed in vertebrates. PEP mutase (PEPM) turns phosphoenolpyruvate (PEP) into phosphonopyruvate (P-pyr), an important intermediate in the formation of organophosphonates, which function as antibiotics or play a role in pathogenesis or signaling. P-pyr can be hydrolyzed by phosphonopyruvate hydrolase (PPH) to from pyruvate and phosphate. Oxaloacetate acetylhydrolase (OAH) catalyzes the hydrolytic cleavage of oxaloacetate to form acetate and oxalate, an important pathway to produce oxalate in filamentous fungi. 2-methylisocitrate lyase (MICL) cleaves 2-methylisocitrate to pyruvate and succinate, part of the methylcitrate cycle for the alpha-oxidation of propionate.


Pssm-ID: 119340 [Multi-domain]  Cd Length: 243  Bit Score: 35.93  E-value: 5.76e-03
                         10        20        30        40
                 ....*....|....*....|....*....|....*....|....*....
gi 334187516  90 EEAGVPYVYVPSKEDLAQAGA-TKRPTCCVLVMLKPAKGDLTAEELAKL 137
Cdd:cd00377  170 AEAGADGIFVEGLKDPEEIRAfAEAPDVPLNVNMTPGGNLLTVAELAEL 218
 
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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