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Conserved domains on  [gi|41054591|ref|NP_955884|]
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60S ribosomal protein L7-like 1 [Danio rerio]

Protein Classification

uL30 family ribosomal protein( domain architecture ID 1001441)

uL30 family ribosomal protein plays a regulatory role in the translation apparatus

Gene Ontology:  GO:0003723|GO:0003735
PubMed:  24524803

Graphical summary

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List of domain hits

 Name Accession Description Interval E-value
uL30_euk super family cl36866
60S ribosomal protein uL30, eukaryotic form; This model describes the eukaryotic 60S ...
 15-247 5.42e-86

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).


The actual alignment was detected with superfamily member TIGR01310:

Pssm-ID: 273548 [Multi-domain]  Cd Length: 235  Bit Score: 255.36  E-value: 5.42e-86
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 41054591    15 ENLLKKRKAYQAIKANQAKLALQQKKRVQKGIPFKFKRLEEFLQNSRRKHRDETRLARLKKRPPPPMPPAKNSLAFAVRI 94
Cdd:TIGR01310   1 ELLLKKRKANQELAVAAAKQAKAKKKANKKKRKDYFKRAESFVKEYRKAERKIIRLKRLAKKPGKFYVPAEHKLVFVIRI 80

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 41054591    95 REIKGVSPKVMNVIQMLRLRKIFSGTFVKVSKHSINMLKTVEPYVAWGYPNLKSVRELILKRGQGKVDKRKIPLTDNTLI 174
Cdd:TIGR01310  81 KGINGIPPKPRKVLRLLRLKQVHNGVFVKVNKATLEMLRIVEPYVAYGYPNLKSVRELIYKRGFAKINGQRVPLTDNAII 160

                         170       180       190       200       210       220       230
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*
gi 41054591   175 EQHLGKYGIICLEDLIHEIYSAGKNFRVVNNFLWPFRLSVPR--HAARDKVGLMKDVGNPGPRAEDINTVIRKLN 247
Cdd:TIGR01310 161 EQHLGKYGIICIEDLIHEIYTVGPHFKEVNNFLWPFKLSSPVkgFGKRKKVKHFIEGGDFGNREDHINELIKKMN 235
 
Name Accession Description Interval E-value
uL30_euk TIGR01310
60S ribosomal protein uL30, eukaryotic form; This model describes the eukaryotic 60S ...
 15-247 5.42e-86

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: 255.36  E-value: 5.42e-86
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 41054591    15 ENLLKKRKAYQAIKANQAKLALQQKKRVQKGIPFKFKRLEEFLQNSRRKHRDETRLARLKKRPPPPMPPAKNSLAFAVRI 94
Cdd:TIGR01310   1 ELLLKKRKANQELAVAAAKQAKAKKKANKKKRKDYFKRAESFVKEYRKAERKIIRLKRLAKKPGKFYVPAEHKLVFVIRI 80

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 41054591    95 REIKGVSPKVMNVIQMLRLRKIFSGTFVKVSKHSINMLKTVEPYVAWGYPNLKSVRELILKRGQGKVDKRKIPLTDNTLI 174
Cdd:TIGR01310  81 KGINGIPPKPRKVLRLLRLKQVHNGVFVKVNKATLEMLRIVEPYVAYGYPNLKSVRELIYKRGFAKINGQRVPLTDNAII 160

                         170       180       190       200       210       220       230
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*
gi 41054591   175 EQHLGKYGIICLEDLIHEIYSAGKNFRVVNNFLWPFRLSVPR--HAARDKVGLMKDVGNPGPRAEDINTVIRKLN 247
Cdd:TIGR01310 161 EQHLGKYGIICIEDLIHEIYTVGPHFKEVNNFLWPFKLSSPVkgFGKRKKVKHFIEGGDFGNREDHINELIKKMN 235
Ribosomal_L7_archeal_euk cd01657
Ribosomal protein L7, which is found in archaea and eukaryotes but not in prokaryotes, binds ...
 88-247 7.42e-65

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: 198.90  E-value: 7.42e-65
                        10        20        30        40        50        60        70        80
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 41054591  88 LAFAVRIREIKGVSPKVMNVIQMLRLRKIFSGTFVKVSKHSINMLKTVEPYVAWGYPNLKSVRELILKRGQGKVDKRKIP 167
Cdd:cd01657   1 LYAVVRIRGIVGVPPKIRKTLQLLRLRRINNAVFVKLTKATIGMLKKVEPYVTWGEPNLETLRELIYKRGRLKGNGQRIP 80

                        90       100       110       120       130       140       150       160
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 41054591 168 LTDNTLIEQHLgKYGIICLEDLIHEIYSAGKNFRVVNNFLWPFRLSVPRHAARDKVGLMKDVGNPGPRAEDINTVIRKLN 247
Cdd:cd01657  81 LTDNYLVEKTL-KKGIICIEDLAHEIYTGGPNFKEVNNFLPPFRLHPPRGGFKGKKRHFSEGGELGYRGEDINELIRRMI 159
rpl30p PRK06049
50S ribosomal protein L30P; Reviewed
 92-245 1.36e-14

50S ribosomal protein L30P; Reviewed


Pssm-ID: 235683  Cd Length: 154  Bit Score: 69.07  E-value: 1.36e-14
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 41054591   92 VRIREIKGVSPKVMNVIQMLRLRKIFSGTFVKVSKHSINMLKTVEPYVAWGYPNLKSVRELILKRGQGKVDKRkipLTDN 171
Cdd:PRK06049   6 IRIRGRVNVPRDIADTLKMLRLHRVNHCVLVPETPSYKGMLQKVKDYVTWGEIDADTLAELLRKRGRLEGNKK---LTDE 82

                         90       100       110       120       130       140       150
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....
gi 41054591  172 TLIEqhlgKYGIICLEDLIHEIYSAGKNFRVVNNFLWPFRLSVPRHAARDKVGLMKDVGNPGPRAEDINTVIRK 245
Cdd:PRK06049  83 YVKE----NTGYDSIEELAEALVEGEIKLKDLPGLKPVFRLHPPRGGFGGIKRPFKEGGELGYRGEKINELLRR 152
Ribosomal_L30_N pfam08079
Ribosomal L30 N-terminal domain; This presumed domain is found at the N-terminus of Ribosomal ...
 13-76 1.09e-13

Ribosomal L30 N-terminal domain; This presumed domain is found at the N-terminus of Ribosomal L30 proteins and has been termed RL30NT or NUC018.


Pssm-ID: 462360  Cd Length: 72  Bit Score: 64.14  E-value: 1.09e-13
                          10        20        30        40        50        60
                  ....*....|....*....|....*....|....*....|....*....|....*....|....
gi 41054591    13 VPENLLKKRKAYQAIKANQAKLALQQKKRVQKGIPFKFKRLEEFLQNSRRKHRDETRLARLKKR 76
Cdd:pfam08079   1 VPESLLKKRKRNEKLKAERAKKALARKKANKKKRKLIFKRAEKYVKEYRRKERDEIRLKREAKK 64
 
Name Accession Description Interval E-value
uL30_euk TIGR01310
60S ribosomal protein uL30, eukaryotic form; This model describes the eukaryotic 60S ...
 15-247 5.42e-86

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: 255.36  E-value: 5.42e-86
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 41054591    15 ENLLKKRKAYQAIKANQAKLALQQKKRVQKGIPFKFKRLEEFLQNSRRKHRDETRLARLKKRPPPPMPPAKNSLAFAVRI 94
Cdd:TIGR01310   1 ELLLKKRKANQELAVAAAKQAKAKKKANKKKRKDYFKRAESFVKEYRKAERKIIRLKRLAKKPGKFYVPAEHKLVFVIRI 80

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 41054591    95 REIKGVSPKVMNVIQMLRLRKIFSGTFVKVSKHSINMLKTVEPYVAWGYPNLKSVRELILKRGQGKVDKRKIPLTDNTLI 174
Cdd:TIGR01310  81 KGINGIPPKPRKVLRLLRLKQVHNGVFVKVNKATLEMLRIVEPYVAYGYPNLKSVRELIYKRGFAKINGQRVPLTDNAII 160

                         170       180       190       200       210       220       230
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*
gi 41054591   175 EQHLGKYGIICLEDLIHEIYSAGKNFRVVNNFLWPFRLSVPR--HAARDKVGLMKDVGNPGPRAEDINTVIRKLN 247
Cdd:TIGR01310 161 EQHLGKYGIICIEDLIHEIYTVGPHFKEVNNFLWPFKLSSPVkgFGKRKKVKHFIEGGDFGNREDHINELIKKMN 235
Ribosomal_L7_archeal_euk cd01657
Ribosomal protein L7, which is found in archaea and eukaryotes but not in prokaryotes, binds ...
 88-247 7.42e-65

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: 198.90  E-value: 7.42e-65
                        10        20        30        40        50        60        70        80
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 41054591  88 LAFAVRIREIKGVSPKVMNVIQMLRLRKIFSGTFVKVSKHSINMLKTVEPYVAWGYPNLKSVRELILKRGQGKVDKRKIP 167
Cdd:cd01657   1 LYAVVRIRGIVGVPPKIRKTLQLLRLRRINNAVFVKLTKATIGMLKKVEPYVTWGEPNLETLRELIYKRGRLKGNGQRIP 80

                        90       100       110       120       130       140       150       160
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 41054591 168 LTDNTLIEQHLgKYGIICLEDLIHEIYSAGKNFRVVNNFLWPFRLSVPRHAARDKVGLMKDVGNPGPRAEDINTVIRKLN 247
Cdd:cd01657  81 LTDNYLVEKTL-KKGIICIEDLAHEIYTGGPNFKEVNNFLPPFRLHPPRGGFKGKKRHFSEGGELGYRGEDINELIRRMI 159
uL30_arch TIGR01309
50S ribosomal protein uL30, archaeal form; This model represents the archaeal ribosomal ...
 92-246 1.34e-14

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: 68.95  E-value: 1.34e-14
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 41054591    92 VRIREIKGVSPKVMNVIQMLRLRKIFSGTFVKVSKHSINMLKTVEPYVAWGYPNLKSVRELILKRGQGKVDKrkiPLTDN 171
Cdd:TIGR01309   4 IRIRGTVDVPRDIADTLEMLRLHRVNHCVLYPETPTYLGMLQKVKDYVTWGEIDEDTLELLIRKRGRLVGGD---KVTDE 80

                          90       100       110       120       130       140       150
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*.
gi 41054591   172 TLIEqhlgKYGIICLEDLIHEIYSaGKNFRVVNNFLWPFRLSVPRHAARDKVGLM-KDVGNPGPRAEDINTVIRKL 246
Cdd:TIGR01309  81 YVKE----VTGYESVDELAKALVE-GEIKLSEAGLKPVFRLHPPRKGFKGGIKTPyRDGGELGYRGEKINELLRRM 151
rpl30p PRK06049
50S ribosomal protein L30P; Reviewed
 92-245 1.36e-14

50S ribosomal protein L30P; Reviewed


Pssm-ID: 235683  Cd Length: 154  Bit Score: 69.07  E-value: 1.36e-14
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 41054591   92 VRIREIKGVSPKVMNVIQMLRLRKIFSGTFVKVSKHSINMLKTVEPYVAWGYPNLKSVRELILKRGQGKVDKRkipLTDN 171
Cdd:PRK06049   6 IRIRGRVNVPRDIADTLKMLRLHRVNHCVLVPETPSYKGMLQKVKDYVTWGEIDADTLAELLRKRGRLEGNKK---LTDE 82

                         90       100       110       120       130       140       150
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....
gi 41054591  172 TLIEqhlgKYGIICLEDLIHEIYSAGKNFRVVNNFLWPFRLSVPRHAARDKVGLMKDVGNPGPRAEDINTVIRK 245
Cdd:PRK06049  83 YVKE----NTGYDSIEELAEALVEGEIKLKDLPGLKPVFRLHPPRGGFGGIKRPFKEGGELGYRGEKINELLRR 152
Ribosomal_L30_N pfam08079
Ribosomal L30 N-terminal domain; This presumed domain is found at the N-terminus of Ribosomal ...
 13-76 1.09e-13

Ribosomal L30 N-terminal domain; This presumed domain is found at the N-terminus of Ribosomal L30 proteins and has been termed RL30NT or NUC018.


Pssm-ID: 462360  Cd Length: 72  Bit Score: 64.14  E-value: 1.09e-13
                          10        20        30        40        50        60
                  ....*....|....*....|....*....|....*....|....*....|....*....|....
gi 41054591    13 VPENLLKKRKAYQAIKANQAKLALQQKKRVQKGIPFKFKRLEEFLQNSRRKHRDETRLARLKKR 76
Cdd:pfam08079   1 VPESLLKKRKRNEKLKAERAKKALARKKANKKKRKLIFKRAEKYVKEYRRKERDEIRLKREAKK 64
Ribosomal_L30_like cd00355
Ribosomal protein L30, which is found in eukaryotes and prokaryotes but not in archaea, is one ...
 90-142 9.75e-12

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: 58.19  E-value: 9.75e-12
                        10        20        30        40        50
                ....*....|....*....|....*....|....*....|....*....|...
gi 41054591  90 FAVRIREIKGVSPKVMNVIQMLRLRKIFSGTFVKVSKHSINMLKTVEPYVAWG 142
Cdd:cd00355   1 KVTRVRSLIGRPPKQRKTLKALGLRKINQTVFVKDTPSIRGMLRKVKHLVTVG 53
Ribosomal_L30 pfam00327
Ribosomal protein L30p/L7e; This family includes prokaryotic L30 and eukaryotic L7.
 89-139 3.12e-09

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


Pssm-ID: 459762 [Multi-domain]  Cd Length: 51  Bit Score: 51.54  E-value: 3.12e-09
                          10        20        30        40        50
                  ....*....|....*....|....*....|....*....|....*....|..
gi 41054591    89 AFAVRIREIKGVSPKVMNVIQMLRLRKIFsGTFVKVSKHSIN-MLKTVEPYV 139
Cdd:pfam00327   1 LKVTRIRSIIGRPPKQRKTLKALGLRKIN-GVVVKEDTPSIRgMLRKVKHLV 51
 
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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