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Conserved domains on  [gi|1066904898|gb|OED01806|]
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50S ribosomal protein L30 [Methanosarcina sp. A14]

Protein Classification

50S ribosomal protein L30( domain architecture ID 10765202)

50S ribosomal protein L30

Graphical summary

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List of domain hits

 Name Accession Description Interval E-value
rpl30p PRK06049
50S ribosomal protein L30P; Reviewed
 1-153 8.72e-97

50S ribosomal protein L30P; Reviewed


:

Pssm-ID: 235683  Cd Length: 154  Bit Score: 275.53  E-value: 8.72e-97
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1066904898   1 MYAIVRLRGQVNVRYTIEDTMKMLRLHKVNHCVLVPEDPHFKGMVQKVKDYVAFGKIDANTLAEILENRGRLEGDTRLTE 80
Cdd:PRK06049    2 MYAVIRIRGRVNVPRDIADTLKMLRLHRVNHCVLVPETPSYKGMLQKVKDYVTWGEIDADTLAELLRKRGRLEGNKKLTD 81

                          90       100       110       120       130       140       150
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|...
gi 1066904898  81 EYIRENTAYDSIQAFAEAVVEGEATLKDVPKLKPVFRLHPPRKGHAGIKRTVQQGGELGDHGDGINALLHKMR 153
Cdd:PRK06049   82 EYVKENTGYDSIEELAEALVEGEIKLKDLPGLKPVFRLHPPRGGFGGIKRPFKEGGELGYRGEKINELLRRMR 154
 
Name Accession Description Interval E-value
rpl30p PRK06049
50S ribosomal protein L30P; Reviewed
 1-153 8.72e-97

50S ribosomal protein L30P; Reviewed


Pssm-ID: 235683  Cd Length: 154  Bit Score: 275.53  E-value: 8.72e-97
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1066904898   1 MYAIVRLRGQVNVRYTIEDTMKMLRLHKVNHCVLVPEDPHFKGMVQKVKDYVAFGKIDANTLAEILENRGRLEGDTRLTE 80
Cdd:PRK06049    2 MYAVIRIRGRVNVPRDIADTLKMLRLHRVNHCVLVPETPSYKGMLQKVKDYVTWGEIDADTLAELLRKRGRLEGNKKLTD 81

                          90       100       110       120       130       140       150
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|...
gi 1066904898  81 EYIRENTAYDSIQAFAEAVVEGEATLKDVPKLKPVFRLHPPRKGHAGIKRTVQQGGELGDHGDGINALLHKMR 153
Cdd:PRK06049   82 EYVKENTGYDSIEELAEALVEGEIKLKDLPGLKPVFRLHPPRGGFGGIKRPFKEGGELGYRGEKINELLRRMR 154
uL30_arch TIGR01309
50S ribosomal protein uL30, archaeal form; This model represents the archaeal ribosomal ...
 2-153 2.96e-71

50S ribosomal protein uL30, archaeal form; This model represents the archaeal ribosomal protein similar to longer (~ 250 residue) eukaryotic 60S ribosomal protein L7 and to the much shorter (~ 60 residue) bacterial 50S ribosomal protein L30. Protein naming follows the SwissProt designation as L30P, while the gene symbol rpmD follows TIGR usage. [Protein synthesis, Ribosomal proteins: synthesis and modification]


Pssm-ID: 130376  Cd Length: 152  Bit Score: 211.09  E-value: 2.96e-71
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1066904898   2 YAIVRLRGQVNVRYTIEDTMKMLRLHKVNHCVLVPEDPHFKGMVQKVKDYVAFGKIDANTLAEILENRGRLEGDTRLTEE 81
Cdd:TIGR01309   1 LAVIRIRGTVDVPRDIADTLEMLRLHRVNHCVLYPETPTYLGMLQKVKDYVTWGEIDEDTLELLIRKRGRLVGGDKVTDE 80

                          90       100       110       120       130       140       150
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|...
gi 1066904898  82 YIRENTAYDSIQAFAEAVVEGEATLKDVPkLKPVFRLHPPRKGH-AGIKRTVQQGGELGDHGDGINALLHKMR 153
Cdd:TIGR01309  81 YVKEVTGYESVDELAKALVEGEIKLSEAG-LKPVFRLHPPRKGFkGGIKTPYRDGGELGYRGEKINELLRRMR 152
Ribosomal_L7_archeal_euk cd01657
Ribosomal protein L7, which is found in archaea and eukaryotes but not in prokaryotes, binds ...
 1-153 4.67e-71

Ribosomal protein L7, which is found in archaea and eukaryotes but not in prokaryotes, binds domain II of the 23S rRNA as well as the 5S rRNA and is one of five ribosomal proteins that mediate the interactions 5S rRNA makes with the ribosome. The eukaryotic L7 members have an N-terminal extension not found in the archeal L7 orthologs. L7 is closely related to the ribosomal L30 protein found in eukaryotes and prokaryotes.


Pssm-ID: 100099  Cd Length: 159  Bit Score: 210.85  E-value: 4.67e-71
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1066904898   1 MYAIVRLRGQVNVRYTIEDTMKMLRLHKVNHCVLVPEDPHFKGMVQKVKDYVAFGKIDANTLAEILENRGRLEGD---TR 77
Cdd:cd01657     1 LYAVVRIRGIVGVPPKIRKTLQLLRLRRINNAVFVKLTKATIGMLKKVEPYVTWGEPNLETLRELIYKRGRLKGNgqrIP 80

                          90       100       110       120       130       140       150
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....
gi 1066904898  78 LTEEYIRENTA---YDSIQAFAEAVVEGEATLKDVPKLKPVFRLHPPRKGHAGIKRTVQQGGELGDHGDGINALLHKMR 153
Cdd:cd01657    81 LTDNYLVEKTLkkgIICIEDLAHEIYTGGPNFKEVNNFLPPFRLHPPRGGFKGKKRHFSEGGELGYRGEDINELIRRMI 159
RpmD COG1841
Ribosomal protein L30/L7E [Translation, ribosomal structure and biogenesis]; Ribosomal protein ...
 1-55 4.05e-19

Ribosomal protein L30/L7E [Translation, ribosomal structure and biogenesis]; Ribosomal protein L30/L7E is part of the Pathway/BioSystem: Ribosome 50S subunit


Pssm-ID: 441446  Cd Length: 58  Bit Score: 75.46  E-value: 4.05e-19
                          10        20        30        40        50
                  ....*....|....*....|....*....|....*....|....*....|....*
gi 1066904898   1 MYAIVRLRGQVNVRYTIEDTMKMLRLHKVNHCVLVPEDPHFKGMVQKVKDYVAFG 55
Cdd:COG1841     3 KLKVTLVRSTIGRPPDQRATLKALGLRKINHTVELPDTPAIRGMINKVKHLVTVE 57
Ribosomal_L30 pfam00327
Ribosomal protein L30p/L7e; This family includes prokaryotic L30 and eukaryotic L7.
 2-52 3.38e-12

Ribosomal protein L30p/L7e; This family includes prokaryotic L30 and eukaryotic L7.


Pssm-ID: 459762 [Multi-domain]  Cd Length: 51  Bit Score: 57.71  E-value: 3.38e-12
                          10        20        30        40        50
                  ....*....|....*....|....*....|....*....|....*....|.
gi 1066904898   2 YAIVRLRGQVNVRYTIEDTMKMLRLHKVNHCVLVPEDPHFKGMVQKVKDYV 52
Cdd:pfam00327   1 LKVTRIRSIIGRPPKQRKTLKALGLRKINGVVVKEDTPSIRGMLRKVKHLV 51
 
Name Accession Description Interval E-value
rpl30p PRK06049
50S ribosomal protein L30P; Reviewed
 1-153 8.72e-97

50S ribosomal protein L30P; Reviewed


Pssm-ID: 235683  Cd Length: 154  Bit Score: 275.53  E-value: 8.72e-97
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1066904898   1 MYAIVRLRGQVNVRYTIEDTMKMLRLHKVNHCVLVPEDPHFKGMVQKVKDYVAFGKIDANTLAEILENRGRLEGDTRLTE 80
Cdd:PRK06049    2 MYAVIRIRGRVNVPRDIADTLKMLRLHRVNHCVLVPETPSYKGMLQKVKDYVTWGEIDADTLAELLRKRGRLEGNKKLTD 81

                          90       100       110       120       130       140       150
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|...
gi 1066904898  81 EYIRENTAYDSIQAFAEAVVEGEATLKDVPKLKPVFRLHPPRKGHAGIKRTVQQGGELGDHGDGINALLHKMR 153
Cdd:PRK06049   82 EYVKENTGYDSIEELAEALVEGEIKLKDLPGLKPVFRLHPPRGGFGGIKRPFKEGGELGYRGEKINELLRRMR 154
uL30_arch TIGR01309
50S ribosomal protein uL30, archaeal form; This model represents the archaeal ribosomal ...
 2-153 2.96e-71

50S ribosomal protein uL30, archaeal form; This model represents the archaeal ribosomal protein similar to longer (~ 250 residue) eukaryotic 60S ribosomal protein L7 and to the much shorter (~ 60 residue) bacterial 50S ribosomal protein L30. Protein naming follows the SwissProt designation as L30P, while the gene symbol rpmD follows TIGR usage. [Protein synthesis, Ribosomal proteins: synthesis and modification]


Pssm-ID: 130376  Cd Length: 152  Bit Score: 211.09  E-value: 2.96e-71
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1066904898   2 YAIVRLRGQVNVRYTIEDTMKMLRLHKVNHCVLVPEDPHFKGMVQKVKDYVAFGKIDANTLAEILENRGRLEGDTRLTEE 81
Cdd:TIGR01309   1 LAVIRIRGTVDVPRDIADTLEMLRLHRVNHCVLYPETPTYLGMLQKVKDYVTWGEIDEDTLELLIRKRGRLVGGDKVTDE 80

                          90       100       110       120       130       140       150
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|...
gi 1066904898  82 YIRENTAYDSIQAFAEAVVEGEATLKDVPkLKPVFRLHPPRKGH-AGIKRTVQQGGELGDHGDGINALLHKMR 153
Cdd:TIGR01309  81 YVKEVTGYESVDELAKALVEGEIKLSEAG-LKPVFRLHPPRKGFkGGIKTPYRDGGELGYRGEKINELLRRMR 152
Ribosomal_L7_archeal_euk cd01657
Ribosomal protein L7, which is found in archaea and eukaryotes but not in prokaryotes, binds ...
 1-153 4.67e-71

Ribosomal protein L7, which is found in archaea and eukaryotes but not in prokaryotes, binds domain II of the 23S rRNA as well as the 5S rRNA and is one of five ribosomal proteins that mediate the interactions 5S rRNA makes with the ribosome. The eukaryotic L7 members have an N-terminal extension not found in the archeal L7 orthologs. L7 is closely related to the ribosomal L30 protein found in eukaryotes and prokaryotes.


Pssm-ID: 100099  Cd Length: 159  Bit Score: 210.85  E-value: 4.67e-71
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1066904898   1 MYAIVRLRGQVNVRYTIEDTMKMLRLHKVNHCVLVPEDPHFKGMVQKVKDYVAFGKIDANTLAEILENRGRLEGD---TR 77
Cdd:cd01657     1 LYAVVRIRGIVGVPPKIRKTLQLLRLRRINNAVFVKLTKATIGMLKKVEPYVTWGEPNLETLRELIYKRGRLKGNgqrIP 80

                          90       100       110       120       130       140       150
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....
gi 1066904898  78 LTEEYIRENTA---YDSIQAFAEAVVEGEATLKDVPKLKPVFRLHPPRKGHAGIKRTVQQGGELGDHGDGINALLHKMR 153
Cdd:cd01657    81 LTDNYLVEKTLkkgIICIEDLAHEIYTGGPNFKEVNNFLPPFRLHPPRGGFKGKKRHFSEGGELGYRGEDINELIRRMI 159
RpmD COG1841
Ribosomal protein L30/L7E [Translation, ribosomal structure and biogenesis]; Ribosomal protein ...
 1-55 4.05e-19

Ribosomal protein L30/L7E [Translation, ribosomal structure and biogenesis]; Ribosomal protein L30/L7E is part of the Pathway/BioSystem: Ribosome 50S subunit


Pssm-ID: 441446  Cd Length: 58  Bit Score: 75.46  E-value: 4.05e-19
                          10        20        30        40        50
                  ....*....|....*....|....*....|....*....|....*....|....*
gi 1066904898   1 MYAIVRLRGQVNVRYTIEDTMKMLRLHKVNHCVLVPEDPHFKGMVQKVKDYVAFG 55
Cdd:COG1841     3 KLKVTLVRSTIGRPPDQRATLKALGLRKINHTVELPDTPAIRGMINKVKHLVTVE 57
Ribosomal_L30_like cd00355
Ribosomal protein L30, which is found in eukaryotes and prokaryotes but not in archaea, is one ...
 3-55 2.35e-17

Ribosomal protein L30, which is found in eukaryotes and prokaryotes but not in archaea, is one of the smallest ribosomal proteins with a molecular mass of about 7kDa. L30 binds the 23SrRNA as well as the 5S rRNA and is one of five ribosomal proteins that mediate the interactions 5S rRNA makes with the ribosome. The eukaryotic L30 members have N- and/or C-terminal extensions not found in their prokaryotic orthologs. L30 is closely related to the ribosomal L7 protein found in eukaryotes and archaea.


Pssm-ID: 100098 [Multi-domain]  Cd Length: 53  Bit Score: 70.90  E-value: 2.35e-17
                          10        20        30        40        50
                  ....*....|....*....|....*....|....*....|....*....|...
gi 1066904898   3 AIVRLRGQVNVRYTIEDTMKMLRLHKVNHCVLVPEDPHFKGMVQKVKDYVAFG 55
Cdd:cd00355     1 KVTRVRSLIGRPPKQRKTLKALGLRKINQTVFVKDTPSIRGMLRKVKHLVTVG 53
Ribosomal_L30 pfam00327
Ribosomal protein L30p/L7e; This family includes prokaryotic L30 and eukaryotic L7.
 2-52 3.38e-12

Ribosomal protein L30p/L7e; This family includes prokaryotic L30 and eukaryotic L7.


Pssm-ID: 459762 [Multi-domain]  Cd Length: 51  Bit Score: 57.71  E-value: 3.38e-12
                          10        20        30        40        50
                  ....*....|....*....|....*....|....*....|....*....|.
gi 1066904898   2 YAIVRLRGQVNVRYTIEDTMKMLRLHKVNHCVLVPEDPHFKGMVQKVKDYV 52
Cdd:pfam00327   1 LKVTRIRSIIGRPPKQRKTLKALGLRKINGVVVKEDTPSIRGMLRKVKHLV 51
uL30_euk TIGR01310
60S ribosomal protein uL30, eukaryotic form; This model describes the eukaryotic 60S ...
 4-152 1.55e-09

60S ribosomal protein uL30, eukaryotic form; This model describes the eukaryotic 60S (cytosolic) ribosomal protein uL30 (previously L7) and paralogs that may or may not also be uL30. Human, Drosophila, and Arabidopsis all have both a typical L7 and an L7-related paralog. This family is designated subfamily rather than equivalog to reflect these uncharacterized paralogs. Members of this family average ~ 250 residues in length, somewhat longer than the archaeal L30P/L7E homolog (~ 155 residues) and much longer than the related bacterial/organellar form (~ 60 residues).


Pssm-ID: 273548 [Multi-domain]  Cd Length: 235  Bit Score: 54.29  E-value: 1.55e-09
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1066904898   4 IVRLRGQVNVRYTIEDTMKMLRLHKVNHCVLVPEDPHFKGMVQKVKDYVAFGKIDANTLAEILENRG--RLEG------D 75
Cdd:TIGR01310  77 VIRIKGINGIPPKPRKVLRLLRLKQVHNGVFVKVNKATLEMLRIVEPYVAYGYPNLKSVRELIYKRGfaKINGqrvpltD 156

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1066904898  76 TRLTEEYIREntaYD--SIQAFAEAVVEGEATLKDVPKLKPVFRLHPPRKGHAGIKRTV--QQGGELGDHGDGINALLHK 151
Cdd:TIGR01310 157 NAIIEQHLGK---YGiiCIEDLIHEIYTVGPHFKEVNNFLWPFKLSSPVKGFGKRKKVKhfIEGGDFGNREDHINELIKK 233


                  .
gi 1066904898 152 M 152
Cdd:TIGR01310 234 M 234
Ribosomal_L30 cd01658
Ribosomal protein L30, which is found in eukaryotes and prokaryotes but not in archaea, is one ...
 4-49 4.22e-04

Ribosomal protein L30, which is found in eukaryotes and prokaryotes but not in archaea, is one of the smallest ribosomal proteins with a molecular mass of about 7kDa. L30 binds the 23SrRNA as well as the 5S rRNA and is one of five ribosomal proteins that mediate the interactions 5S rRNA makes with the ribosome. The eukaryotic L30 members have N- and/or C-terminal extensions not found in their prokaryotic orthologs. L30 is closely related to the ribosomal L7 protein found in eukaryotes and archaea.


Pssm-ID: 100100  Cd Length: 54  Bit Score: 36.25  E-value: 4.22e-04
                          10        20        30        40
                  ....*....|....*....|....*....|....*....|....*.
gi 1066904898   4 IVRLRGQVNVRYTIEDTMKMLRLHKVNHCVLVPEDPHFKGMVQKVK 49
Cdd:cd01658     3 ITLVKSLIGRPKKQRATLKALGLKKINQTVVHKDTPSIRGMINKVK 48
CBS_pair_ACT cd17787
Two tandem repeats of the cystathionine beta-synthase (CBS pair) domains found in Thermatoga ...
 11-54 3.38e-03

Two tandem repeats of the cystathionine beta-synthase (CBS pair) domains found in Thermatoga in combination with an ACT domain; The CBS domain, named after human CBS, is a small domain originally identified in cystathionine beta-synthase and is subsequently found in a wide range of different proteins. CBS domains usually occur in tandem repeats. They associate to form a so-called Bateman domain or a CBS pair based on crystallographic studies in bacteria. The CBS pair was used as a basis for this cd hierarchy since the human CBS proteins can adopt the typical core structure and form an intramolecular CBS pair. The interface between the two CBS domains forms a cleft that is a potential ligand binding site. The CBS pair coexists with a variety of other functional domains and this has been used to help in its classification here. It has been proposed that the CBS domain may play a regulatory role, although its exact function is unknown. Mutations of conserved residues within this domain are associated with a variety of human hereditary diseases, including congenital myotonia, idiopathic generalized epilepsy, hypercalciuric nephrolithiasis, and classic Bartter syndrome (CLC chloride channel family members), Wolff-Parkinson-White syndrome (gamma 2 subunit of AMP-activated protein kinase), retinitis pigmentosa (IMP dehydrogenase-1), and homocystinuria (cystathionine beta-synthase).


Pssm-ID: 341423 [Multi-domain]  Cd Length: 111  Bit Score: 35.47  E-value: 3.38e-03
                          10        20        30        40        50
                  ....*....|....*....|....*....|....*....|....*....|....*
gi 1066904898  11 VNVRYTIEDTMKMLRLHKVNHCVLVPEDPHFKGMVQK-----------VKDYVAF 54
Cdd:cd17787     7 FEESATVGEVLHEMRKYETDYCIVVDEEGKFAGMVRKskimdedldkkVKEYVVE 61
 
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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