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Conserved domains on  [gi|117579313|emb|CAL67782|]
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50S ribosomal protein L24 [Gramella forsetii KT0803]

Protein Classification

Graphical summary

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List of domain hits

 Name Accession Description Interval E-value
RplX COG0198
Ribosomal protein L24 [Translation, ribosomal structure and biogenesis]; Ribosomal protein L24 ...
 3-103 2.05e-47

Ribosomal protein L24 [Translation, ribosomal structure and biogenesis]; Ribosomal protein L24 is part of the Pathway/BioSystem: Ribosome 50S subunit


:

Pssm-ID: 439968 [Multi-domain]  Cd Length: 104  Bit Score: 146.75  E-value: 2.05e-47
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 117579313   3 KLKIKSGDTVRVIAGDHKGQEGKVQKVLIEKNKAIVEGVNMISKHEKPSASNPQGGIKEKEAPIHISNLSLID-KNGDTT 81
Cdd:COG0198    2 KMKIKKGDTVIVIAGKDKGKRGKVLKVLPKKNRVIVEGVNIVKKHQKPNQQNPQGGIIEKEAPIHISNVMLVDpKTGKPT 81

                         90       100
                 ....*....|....*....|...
gi 117579313  82 RVGYK-EEDGKKVRFSKKSNEVI 103
Cdd:COG0198   82 RVGFKvLEDGKKVRVCKKSGEVI 104
 
Name Accession Description Interval E-value
RplX COG0198
Ribosomal protein L24 [Translation, ribosomal structure and biogenesis]; Ribosomal protein L24 ...
 3-103 2.05e-47

Ribosomal protein L24 [Translation, ribosomal structure and biogenesis]; Ribosomal protein L24 is part of the Pathway/BioSystem: Ribosome 50S subunit


Pssm-ID: 439968 [Multi-domain]  Cd Length: 104  Bit Score: 146.75  E-value: 2.05e-47
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 117579313   3 KLKIKSGDTVRVIAGDHKGQEGKVQKVLIEKNKAIVEGVNMISKHEKPSASNPQGGIKEKEAPIHISNLSLID-KNGDTT 81
Cdd:COG0198    2 KMKIKKGDTVIVIAGKDKGKRGKVLKVLPKKNRVIVEGVNIVKKHQKPNQQNPQGGIIEKEAPIHISNVMLVDpKTGKPT 81

                         90       100
                 ....*....|....*....|...
gi 117579313  82 RVGYK-EEDGKKVRFSKKSNEVI 103
Cdd:COG0198   82 RVGFKvLEDGKKVRVCKKSGEVI 104
rplX_bact TIGR01079
ribosomal protein L24, bacterial/organelle; This model recognizes bacterial and organellar ...
 4-103 2.84e-32

ribosomal protein L24, bacterial/organelle; This model recognizes bacterial and organellar forms of ribosomal protein L24. It excludes eukaryotic and archaeal forms, designated L26 in eukaryotes. [Protein synthesis, Ribosomal proteins: synthesis and modification]


Pssm-ID: 273431 [Multi-domain]  Cd Length: 102  Bit Score: 108.51  E-value: 2.84e-32
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 117579313    4 LKIKSGDTVRVIAGDHKGQEGKVQKVLIEKNKAIVEGVNMISKHEKPSASNPQGGIKEKEAPIHISNLSLID-KNGDTTR 82
Cdd:TIGR01079   1 MKIKKGDTVKVISGKDKGKRGKVLKVLPKKNKVIVEGVNMVKKHVKPVPANRQGGIIEKEAPIHISNVMLFDpKTGKATR 80

                          90       100
                  ....*....|....*....|..
gi 117579313   83 VGYK-EEDGKKVRFSKKSNEVI 103
Cdd:TIGR01079  81 VGYRfEEDGKKVRVFKKNGEII 102
KOW_RPL26 cd06089
KOW motif of Ribosomal Protein L26; RPL26 and its bacterial paralogs RPL24 have a KOW motif at ...
 9-73 8.81e-25

KOW motif of Ribosomal Protein L26; RPL26 and its bacterial paralogs RPL24 have a KOW motif at their N terminal. KOW domain is known as an RNA-binding motif that is shared so far among some families of ribosomal proteins, the essential bacterial transcriptional elongation factor NusG, the eukaryotic chromatin elongation factor Spt5, the higher eukaryotic KIN17 proteins and Mtr4. RPL26 makes a very minor contributions to the biogenesis, structure, and function of 60s ribosomal subunits. However, RPL24 is essential to generate the first intermediate during 50s ribosomal subunits assembly. RPL26 have an extra-ribosomal function to enhances p53 translation after DNA damage.


Pssm-ID: 240513  Cd Length: 65  Bit Score: 88.34  E-value: 8.81e-25
                         10        20        30        40        50        60
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*
gi 117579313   9 GDTVRVIAGDHKGQEGKVQKVLIEKNKAIVEGVNMISKHEKPSASNPQGGIKEKEAPIHISNLSL 73
Cdd:cd06089    1 GDEVQVIRGKDKGKQGKVLKVDRKKNRVIVEGVNVVKKHVKPSQENPQGGIIEVEAPIHISNVML 65
rplX PRK12281
50S ribosomal protein L24; Reviewed
 1-70 1.23e-23

50S ribosomal protein L24; Reviewed


Pssm-ID: 183399  Cd Length: 76  Bit Score: 85.86  E-value: 1.23e-23
                         10        20        30        40        50        60        70
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 117579313   1 MTKLKIKSGDTVRVIAGDHKGQEGKVQKVLIEKNKAIVEGVNMISKHEKPSASNPQGGIKEKEAPIHISN 70
Cdd:PRK12281   2 KVKLKVKKGDMVKVIAGDDKGKTGKVLAVLPKKNRVIVEGVKIAKKAIKPSQKNPNGGFIEKEMPIHISN 71
ribosomal_L24 pfam17136
Ribosomal proteins 50S L24/mitochondrial 39S L24; This is the family of bacterial 50S ...
 41-100 2.22e-23

Ribosomal proteins 50S L24/mitochondrial 39S L24; This is the family of bacterial 50S ribosomal subunit proteins L24. It also carries some mitochondrial 39S L24 proteins.


Pssm-ID: 465359  Cd Length: 60  Bit Score: 84.80  E-value: 2.22e-23
                          10        20        30        40        50        60
                  ....*....|....*....|....*....|....*....|....*....|....*....|.
gi 117579313   41 VNMISKHEKPSASNPQGGIKEKEAPIHISNLSLID-KNGDTTRVGYKeEDGKKVRFSKKSN 100
Cdd:pfam17136   1 VNMVKKHVKPSQQNPQGGIIEKEAPIHVSNVMLVDpKCGKPTRVGFK-EDGKKVRVSKKTG 60
KOW smart00739
KOW (Kyprides, Ouzounis, Woese) motif; Motif in ribosomal proteins, NusG, Spt5p, KIN17 and T54.
 5-29 2.04e-03

KOW (Kyprides, Ouzounis, Woese) motif; Motif in ribosomal proteins, NusG, Spt5p, KIN17 and T54.


Pssm-ID: 128978  Cd Length: 28  Bit Score: 33.07  E-value: 2.04e-03
                           10        20
                   ....*....|....*....|....*
gi 117579313     5 KIKSGDTVRVIAGDHKGQEGKVQKV 29
Cdd:smart00739   1 KFEVGDTVRVIAGPFKGKVGKVLEV 25
 
Name Accession Description Interval E-value
RplX COG0198
Ribosomal protein L24 [Translation, ribosomal structure and biogenesis]; Ribosomal protein L24 ...
 3-103 2.05e-47

Ribosomal protein L24 [Translation, ribosomal structure and biogenesis]; Ribosomal protein L24 is part of the Pathway/BioSystem: Ribosome 50S subunit


Pssm-ID: 439968 [Multi-domain]  Cd Length: 104  Bit Score: 146.75  E-value: 2.05e-47
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 117579313   3 KLKIKSGDTVRVIAGDHKGQEGKVQKVLIEKNKAIVEGVNMISKHEKPSASNPQGGIKEKEAPIHISNLSLID-KNGDTT 81
Cdd:COG0198    2 KMKIKKGDTVIVIAGKDKGKRGKVLKVLPKKNRVIVEGVNIVKKHQKPNQQNPQGGIIEKEAPIHISNVMLVDpKTGKPT 81

                         90       100
                 ....*....|....*....|...
gi 117579313  82 RVGYK-EEDGKKVRFSKKSNEVI 103
Cdd:COG0198   82 RVGFKvLEDGKKVRVCKKSGEVI 104
rplX_bact TIGR01079
ribosomal protein L24, bacterial/organelle; This model recognizes bacterial and organellar ...
 4-103 2.84e-32

ribosomal protein L24, bacterial/organelle; This model recognizes bacterial and organellar forms of ribosomal protein L24. It excludes eukaryotic and archaeal forms, designated L26 in eukaryotes. [Protein synthesis, Ribosomal proteins: synthesis and modification]


Pssm-ID: 273431 [Multi-domain]  Cd Length: 102  Bit Score: 108.51  E-value: 2.84e-32
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 117579313    4 LKIKSGDTVRVIAGDHKGQEGKVQKVLIEKNKAIVEGVNMISKHEKPSASNPQGGIKEKEAPIHISNLSLID-KNGDTTR 82
Cdd:TIGR01079   1 MKIKKGDTVKVISGKDKGKRGKVLKVLPKKNKVIVEGVNMVKKHVKPVPANRQGGIIEKEAPIHISNVMLFDpKTGKATR 80

                          90       100
                  ....*....|....*....|..
gi 117579313   83 VGYK-EEDGKKVRFSKKSNEVI 103
Cdd:TIGR01079  81 VGYRfEEDGKKVRVFKKNGEII 102
KOW_RPL26 cd06089
KOW motif of Ribosomal Protein L26; RPL26 and its bacterial paralogs RPL24 have a KOW motif at ...
 9-73 8.81e-25

KOW motif of Ribosomal Protein L26; RPL26 and its bacterial paralogs RPL24 have a KOW motif at their N terminal. KOW domain is known as an RNA-binding motif that is shared so far among some families of ribosomal proteins, the essential bacterial transcriptional elongation factor NusG, the eukaryotic chromatin elongation factor Spt5, the higher eukaryotic KIN17 proteins and Mtr4. RPL26 makes a very minor contributions to the biogenesis, structure, and function of 60s ribosomal subunits. However, RPL24 is essential to generate the first intermediate during 50s ribosomal subunits assembly. RPL26 have an extra-ribosomal function to enhances p53 translation after DNA damage.


Pssm-ID: 240513  Cd Length: 65  Bit Score: 88.34  E-value: 8.81e-25
                         10        20        30        40        50        60
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*
gi 117579313   9 GDTVRVIAGDHKGQEGKVQKVLIEKNKAIVEGVNMISKHEKPSASNPQGGIKEKEAPIHISNLSL 73
Cdd:cd06089    1 GDEVQVIRGKDKGKQGKVLKVDRKKNRVIVEGVNVVKKHVKPSQENPQGGIIEVEAPIHISNVML 65
rplX PRK12281
50S ribosomal protein L24; Reviewed
 1-70 1.23e-23

50S ribosomal protein L24; Reviewed


Pssm-ID: 183399  Cd Length: 76  Bit Score: 85.86  E-value: 1.23e-23
                         10        20        30        40        50        60        70
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 117579313   1 MTKLKIKSGDTVRVIAGDHKGQEGKVQKVLIEKNKAIVEGVNMISKHEKPSASNPQGGIKEKEAPIHISN 70
Cdd:PRK12281   2 KVKLKVKKGDMVKVIAGDDKGKTGKVLAVLPKKNRVIVEGVKIAKKAIKPSQKNPNGGFIEKEMPIHISN 71
ribosomal_L24 pfam17136
Ribosomal proteins 50S L24/mitochondrial 39S L24; This is the family of bacterial 50S ...
 41-100 2.22e-23

Ribosomal proteins 50S L24/mitochondrial 39S L24; This is the family of bacterial 50S ribosomal subunit proteins L24. It also carries some mitochondrial 39S L24 proteins.


Pssm-ID: 465359  Cd Length: 60  Bit Score: 84.80  E-value: 2.22e-23
                          10        20        30        40        50        60
                  ....*....|....*....|....*....|....*....|....*....|....*....|.
gi 117579313   41 VNMISKHEKPSASNPQGGIKEKEAPIHISNLSLID-KNGDTTRVGYKeEDGKKVRFSKKSN 100
Cdd:pfam17136   1 VNMVKKHVKPSQQNPQGGIIEKEAPIHVSNVMLVDpKCGKPTRVGFK-EDGKKVRVSKKTG 60
rpl24 CHL00141
ribosomal protein L24; Validated
 3-77 1.45e-16

ribosomal protein L24; Validated


Pssm-ID: 214374  Cd Length: 83  Bit Score: 68.13  E-value: 1.45e-16
                         10        20        30        40        50        60        70
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*
gi 117579313   3 KLKIKSGDTVRVIAGDHKGQEGKVQKVLIEKNKAIVEGVNMISKHEKPSASNPQGGIKEKEAPIHISNLSLIDKN 77
Cdd:CHL00141   6 KMHVKIGDTVKIISGSDKGKIGEVLKIIKKSNKVIVKGINIKFKHIKPNKENEVGEIKQFEAPIHSSNVMLYNEE 80
Ribosomal_L26 pfam16906
Ribosomal proteins L26 eukaryotic, L24P archaeal; Ribosomal_L26 is a family of the 50S and the ...
 4-71 4.24e-06

Ribosomal proteins L26 eukaryotic, L24P archaeal; Ribosomal_L26 is a family of the 50S and the 60S ribosomal proteins from eukaryotes - L26 - and archaea - L25.


Pssm-ID: 465307 [Multi-domain]  Cd Length: 114  Bit Score: 41.72  E-value: 4.24e-06
                          10        20        30        40        50        60
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*...
gi 117579313    4 LKIKSGDTVRVIAGDHKGQEGKVQKVLIEKNKAIVEGVNmiskHEKPSASNPQggikekeAPIHISNL 71
Cdd:pfam16906  40 LPIRKGDEVKVVRGDFKGREGKVVQVYRKKYRIHVEGVT----REKANGTTVP-------VPIHPSKV 96
KOW_NusG cd06091
NusG contains an NGN domain at its N-terminus and KOW motif at its C-terminus; KOW_NusG motif ...
 3-43 5.00e-06

NusG contains an NGN domain at its N-terminus and KOW motif at its C-terminus; KOW_NusG motif is one of the two domains of N-Utilization Substance G (NusG) a transcription elongation and Rho-termination factor in bacteria and archaea. KOW domain is known as an RNA-binding motif that is shared so far among some families of ribosomal proteins, the essential bacterial transcriptional elongation factor NusG, the eukaryotic chromatin elongation factor Spt5, the higher eukaryotic KIN17 proteins and Mtr4. The eukaryotic ortholog of NusG is Spt5 with multiple KOW motifs at its C-terminus.


Pssm-ID: 240515 [Multi-domain]  Cd Length: 56  Bit Score: 40.52  E-value: 5.00e-06
                         10        20        30        40
                 ....*....|....*....|....*....|....*....|.
gi 117579313   3 KLKIKSGDTVRVIAGDHKGQEGKVQKVLIEKNKAIVEgVNM 43
Cdd:cd06091    1 EVDFEVGDTVRIISGPFAGFEGKVEEIDEEKGKVKVL-VEM 40
rplX_A_E TIGR01080
ribosomal protein uL24, archaeal/eukaryotic form; This model represents the archaeal and ...
 4-79 1.49e-05

ribosomal protein uL24, archaeal/eukaryotic form; This model represents the archaeal and eukaryotic branch of the ribosomal protein L24p/L26e family. Bacterial and organellar forms are represented by related model TIGR01079. [Protein synthesis, Ribosomal proteins: synthesis and modification]


Pssm-ID: 273432  Cd Length: 114  Bit Score: 40.60  E-value: 1.49e-05
                          10        20        30        40        50        60        70
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*.
gi 117579313    4 LKIKSGDTVRVIAGDHKGQEGKVQKVLIEKNKAIVEGVNMiskhEKPSASnpqggikEKEAPIHISNLSLIDKNGD 79
Cdd:TIGR01080  40 LPIRKGDEVRIVRGDFKGHEGKVSKVDRKRYRIYVEGVTK----EKVDGT-------EVPVPLHPSNVMITKLHLD 104
KOW cd00380
KOW: an acronym for the authors' surnames (Kyrpides, Ouzounis and Woese); KOW domain is known ...
 9-50 1.91e-05

KOW: an acronym for the authors' surnames (Kyrpides, Ouzounis and Woese); KOW domain is known as an RNA-binding motif that is shared so far among some families of ribosomal proteins, the essential bacterial transcriptional elongation factor NusG, the eukaryotic chromatin elongation factor Spt5, the higher eukaryotic KIN17 proteins and Mtr4. The KOW motif contains an invariants glycine residue and comprises alternating blocks of hydrophilic and hydrophobic residues.


Pssm-ID: 240504  Cd Length: 49  Bit Score: 38.74  E-value: 1.91e-05
                         10        20        30        40
                 ....*....|....*....|....*....|....*....|..
gi 117579313   9 GDTVRVIAGDHKGQEGKVQKVLIEKNKAIVEGVNMISKHEKP 50
Cdd:cd00380    1 GDVVRVLRGPYKGREGVVVDIDPRFGIVTVKGATGSKGAELK 42
KOW pfam00467
KOW motif; This family has been extended to coincide with ref. The KOW (Kyprides, Ouzounis, ...
 9-39 2.78e-05

KOW motif; This family has been extended to coincide with ref. The KOW (Kyprides, Ouzounis, Woese) motif is found in a variety of ribosomal proteins and NusG.


Pssm-ID: 425698 [Multi-domain]  Cd Length: 32  Bit Score: 37.75  E-value: 2.78e-05
                          10        20        30
                  ....*....|....*....|....*....|.
gi 117579313    9 GDTVRVIAGDHKGQEGKVQKVLIEKNKAIVE 39
Cdd:pfam00467   2 GDVVRVIAGPFKGKVGKVVEVDDKKNRVLVE 32
NusG COG0250
Transcription termination/antitermination protein NusG [Transcription];
2-44 5.16e-04

Transcription termination/antitermination protein NusG [Transcription];


Pssm-ID: 440020 [Multi-domain]  Cd Length: 171  Bit Score: 37.11  E-value: 5.16e-04
                         10        20        30        40
                 ....*....|....*....|....*....|....*....|...
gi 117579313   2 TKLKIKSGDTVRVIAGDHKGQEGKVQKVLIEKNKAIVEgVNMI 44
Cdd:COG0250  114 PKVDFEVGDRVRITDGPFAGFEGTVEEVDPEKGRVKVL-VSIF 155
KOW smart00739
KOW (Kyprides, Ouzounis, Woese) motif; Motif in ribosomal proteins, NusG, Spt5p, KIN17 and T54.
 5-29 2.04e-03

KOW (Kyprides, Ouzounis, Woese) motif; Motif in ribosomal proteins, NusG, Spt5p, KIN17 and T54.


Pssm-ID: 128978  Cd Length: 28  Bit Score: 33.07  E-value: 2.04e-03
                           10        20
                   ....*....|....*....|....*
gi 117579313     5 KIKSGDTVRVIAGDHKGQEGKVQKV 29
Cdd:smart00739   1 KFEVGDTVRVIAGPFKGKVGKVLEV 25
KOW_Spt5_3 cd06083
KOW domain of Spt5, repeat 3; Spt5, an eukaryotic ortholog of NusG, contains multiple KOW ...
 7-38 4.38e-03

KOW domain of Spt5, repeat 3; Spt5, an eukaryotic ortholog of NusG, contains multiple KOW motifs at its C-terminus. Spt5 is involved in transcription elongation and termination. KOW domain is known as an RNA-binding motif that is shared so far among some families of ribosomal proteins, the essential bacterial transcriptional elongation factor NusG, the eukaryotic chromatin elongation factor Spt5, the higher eukaryotic KIN17 proteins and Mtr4. KOW_Spt5 domains play critical roles in recruitment of multiple other eukaryotic transcription elongation and RNA biogenesis factors and additionally are involved in the binding of the eukaryotic Spt5 proteins to RNA polymerases.


Pssm-ID: 240507  Cd Length: 51  Bit Score: 32.50  E-value: 4.38e-03
                         10        20        30
                 ....*....|....*....|....*....|..
gi 117579313   7 KSGDTVRVIAGDHKGQEGKVQKVliEKNKAIV 38
Cdd:cd06083    3 KVGDHVKVISGRHEGETGLVVKV--EDDVVTV 32
PTZ00194 PTZ00194
60S ribosomal protein L26; Provisional
 4-42 4.99e-03

60S ribosomal protein L26; Provisional


Pssm-ID: 185508  Cd Length: 143  Bit Score: 33.95  E-value: 4.99e-03
                         10        20        30
                 ....*....|....*....|....*....|....*....
gi 117579313   4 LKIKSGDTVRVIAGDHKGQEGKVQKVLIEKNKAIVEGVN 42
Cdd:PTZ00194  45 MPVRKDDEVMVVRGHHKGREGKVTAVYRKKWVIHIEKIT 83
 
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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