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Conserved domains on  [gi|2513039249|ref|NP_001408996|]
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40S ribosomal protein S12 [Oryza sativa Japonica Group]

Protein Classification

ribosomal L7Ae/L30e/S12e/Gadd45 family protein( domain architecture ID 10472466)

ribosomal L7Ae/L30e/S12e/Gadd45 family protein belongs to a family of K-turn-binding proteins that are important in ribosome structure, the site-specific modification of RNA, and spliceosome assembly

CATH:  3.30.1330.30
Gene Ontology:  GO:0003735|GO:0042274
PubMed:  24149842|24524803|7622064

Graphical summary

 Zoom to residue level

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List of domain hits

 Name Accession Description Interval E-value
Ribosomal_L7Ae pfam01248
Ribosomal protein L7Ae/L30e/S12e/Gadd45 family; This family includes: Ribosomal L7A from ...
 23-118 2.58e-31

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: 107.30  E-value: 2.58e-31
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2513039249  23 TALQLVMKKSSAHDGLVKGLREAAKAIEKHAAQLCVLAEDCDQPDYVKLVKALCAEHNVHLVTVPSAKTLGEWAGLCKId 102
Cdd:pfam01248   1 DAIYEVLKKALKTGKLVLGLKEVTKALERGEAKLVIIAEDCDPEEKVKLIPALCKEKNVPYVKVPSKKELGEACGKKRP- 79

                          90
                  ....*....|....*.
gi 2513039249 103 SEGKARKVVGCSCVVV 118
Cdd:pfam01248  80 VSALAIKDEGDSKILV 95
 
Name Accession Description Interval E-value
Ribosomal_L7Ae pfam01248
Ribosomal protein L7Ae/L30e/S12e/Gadd45 family; This family includes: Ribosomal L7A from ...
 23-118 2.58e-31

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: 107.30  E-value: 2.58e-31
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2513039249  23 TALQLVMKKSSAHDGLVKGLREAAKAIEKHAAQLCVLAEDCDQPDYVKLVKALCAEHNVHLVTVPSAKTLGEWAGLCKId 102
Cdd:pfam01248   1 DAIYEVLKKALKTGKLVLGLKEVTKALERGEAKLVIIAEDCDPEEKVKLIPALCKEKNVPYVKVPSKKELGEACGKKRP- 79

                          90
                  ....*....|....*.
gi 2513039249 103 SEGKARKVVGCSCVVV 118
Cdd:pfam01248  80 VSALAIKDEGDSKILV 95
Rpl7Ae COG1358
Ribosomal protein L7Ae or related RNA K-turn-binding protein [Translation, ribosomal structure ...
 38-122 4.03e-08

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: 47.84  E-value: 4.03e-08
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2513039249  38 LVKGLREAAKAIEKHAAQLCVLAEDCDqPDYVKLVKALCAEHNVHLVTVPSAKTLGEWAGLckidsegkarkvVGCSCVV 117
Cdd:COG1358    16 LVSGEEQVLKAIRKGKAKLVIIAEDAS-ENTKKKLLDLCEEYGVPVVEVGTKEELGKAIGK------------VGRAVVA 82


                  ....*
gi 2513039249 118 VKDFG 122
Cdd:COG1358    83 ITDEG 87
PTZ00222 PTZ00222
60S ribosomal protein L7a; Provisional
 38-126 2.26e-05

60S ribosomal protein L7a; Provisional


Pssm-ID: 140249  Cd Length: 263  Bit Score: 42.38  E-value: 2.26e-05
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2513039249  38 LVKGLREAAKAIEKHAAQLCVLAEDCDQPDYVKLVKALCAEHNVHLVTVPSAKTLGEWAGlckidsegkaRKVVgcSCVV 117
Cdd:PTZ00222  133 VVTGLQEVTRAIEKKQARMVVIANNVDPVELVLWMPNLCRANKIPYAIVKDMARLGDAIG----------RKTA--TCVA 200


                  ....*....
gi 2513039249 118 VKDFGEESE 126
Cdd:PTZ00222  201 ITDVNAEDE 209
SNU13 cd21104
U4/U6.U5 small nuclear ribonucleoprotein SNU13; U4/U6.U5 small nuclear ribonucleoprotein SNU13, ...
 10-120 3.88e-05

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: 40.39  E-value: 3.88e-05
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2513039249  10 PPAPVLGEPMDLMTALQLVmKKSSAHDGLVKGLREAAKAIEKHAAQLCVLAEDCDQPDYVKLVKALCAEHNVHLVTVPSA 89
Cdd:cd21104     2 PKAYPLADAQLTQTILDLV-QQAANYKQLKKGANEATKTLNRGIAEFIVMAADAEPLEILLHLPLLCEDKNVPYVFVPSK 80

                          90       100       110
                  ....*....|....*....|....*....|.
gi 2513039249  90 KTLGEWAGLckidsegkARKVVGCScVVVKD 120
Cdd:cd21104    81 QALGRACGV--------SRPVIACS-VTTNE 102
 
Name Accession Description Interval E-value
Ribosomal_L7Ae pfam01248
Ribosomal protein L7Ae/L30e/S12e/Gadd45 family; This family includes: Ribosomal L7A from ...
 23-118 2.58e-31

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: 107.30  E-value: 2.58e-31
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2513039249  23 TALQLVMKKSSAHDGLVKGLREAAKAIEKHAAQLCVLAEDCDQPDYVKLVKALCAEHNVHLVTVPSAKTLGEWAGLCKId 102
Cdd:pfam01248   1 DAIYEVLKKALKTGKLVLGLKEVTKALERGEAKLVIIAEDCDPEEKVKLIPALCKEKNVPYVKVPSKKELGEACGKKRP- 79

                          90
                  ....*....|....*.
gi 2513039249 103 SEGKARKVVGCSCVVV 118
Cdd:pfam01248  80 VSALAIKDEGDSKILV 95
Rpl7Ae COG1358
Ribosomal protein L7Ae or related RNA K-turn-binding protein [Translation, ribosomal structure ...
 38-122 4.03e-08

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: 47.84  E-value: 4.03e-08
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2513039249  38 LVKGLREAAKAIEKHAAQLCVLAEDCDqPDYVKLVKALCAEHNVHLVTVPSAKTLGEWAGLckidsegkarkvVGCSCVV 117
Cdd:COG1358    16 LVSGEEQVLKAIRKGKAKLVIIAEDAS-ENTKKKLLDLCEEYGVPVVEVGTKEELGKAIGK------------VGRAVVA 82


                  ....*
gi 2513039249 118 VKDFG 122
Cdd:COG1358    83 ITDEG 87
PTZ00222 PTZ00222
60S ribosomal protein L7a; Provisional
 38-126 2.26e-05

60S ribosomal protein L7a; Provisional


Pssm-ID: 140249  Cd Length: 263  Bit Score: 42.38  E-value: 2.26e-05
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2513039249  38 LVKGLREAAKAIEKHAAQLCVLAEDCDQPDYVKLVKALCAEHNVHLVTVPSAKTLGEWAGlckidsegkaRKVVgcSCVV 117
Cdd:PTZ00222  133 VVTGLQEVTRAIEKKQARMVVIANNVDPVELVLWMPNLCRANKIPYAIVKDMARLGDAIG----------RKTA--TCVA 200


                  ....*....
gi 2513039249 118 VKDFGEESE 126
Cdd:PTZ00222  201 ITDVNAEDE 209
SNU13 cd21104
U4/U6.U5 small nuclear ribonucleoprotein SNU13; U4/U6.U5 small nuclear ribonucleoprotein SNU13, ...
 10-120 3.88e-05

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: 40.39  E-value: 3.88e-05
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2513039249  10 PPAPVLGEPMDLMTALQLVmKKSSAHDGLVKGLREAAKAIEKHAAQLCVLAEDCDQPDYVKLVKALCAEHNVHLVTVPSA 89
Cdd:cd21104     2 PKAYPLADAQLTQTILDLV-QQAANYKQLKKGANEATKTLNRGIAEFIVMAADAEPLEILLHLPLLCEDKNVPYVFVPSK 80

                          90       100       110
                  ....*....|....*....|....*....|.
gi 2513039249  90 KTLGEWAGLckidsegkARKVVGCScVVVKD 120
Cdd:cd21104    81 QALGRACGV--------SRPVIACS-VTTNE 102
 
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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