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Conserved domains on  [gi|19112933|ref|NP_596141|]
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60S ribosomal protein L27 [Schizosaccharomyces pombe]

Protein Classification

KOW domain-containing RNA-binding protein( domain architecture ID 55)

KOW domain-containing RNA-binding protein similar to the KOW motif in 60S ribosomal protein L27, which is a component of the large ribosomal subunit; the KOW domain is known as an RNA-binding motif that is shared among some families of ribosomal proteins

Gene Ontology:  GO:0003723|GO:0003735
PubMed:  8987397

Graphical summary

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List of domain hits

 Name Accession Description Interval E-value
KOW super family cl00354
KOW: an acronym for the authors' surnames (Kyrpides, Ouzounis and Woese); KOW domain is known ...
 1-136 1.03e-46

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.


The actual alignment was detected with superfamily member PTZ00471:

Pssm-ID: 469738 [Multi-domain]  Cd Length: 134  Bit Score: 147.69  E-value: 1.03e-46
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 19112933    1 MVKILKPGKVALITRGRFAGKKVVILQAIDQGSKSHPFGHAVVAGVERYPLKVTKSMGAKRIARRSRVKPFIKVVNYNHL 80
Cdd:PTZ00471   1 MTKFLKPGKVVIVTSGRYAGRKAVIVQNFDTASKERPYGHALVAGIKKYPKKVVRGMSKRTIARRSQVGVFLRVVNHKHF 80

                         90       100       110       120       130
                 ....*....|....*....|....*....|....*....|....*....|....*.
gi 19112933   81 MPTRYALELDnlKGLITADTFKEPTQRSAARKTVKKTFEEKYQSGKSAWFFTPLRF 136
Cdd:PTZ00471  81 LPTRYNMDMS--KELRGRINVSDASKKARSKQLVKKLFQARYNAGSSRWFFQRLRF 134
 
Name Accession Description Interval E-value
PTZ00471 PTZ00471
60S ribosomal protein L27; Provisional
 1-136 1.03e-46

60S ribosomal protein L27; Provisional


Pssm-ID: 240428 [Multi-domain]  Cd Length: 134  Bit Score: 147.69  E-value: 1.03e-46
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 19112933    1 MVKILKPGKVALITRGRFAGKKVVILQAIDQGSKSHPFGHAVVAGVERYPLKVTKSMGAKRIARRSRVKPFIKVVNYNHL 80
Cdd:PTZ00471   1 MTKFLKPGKVVIVTSGRYAGRKAVIVQNFDTASKERPYGHALVAGIKKYPKKVVRGMSKRTIARRSQVGVFLRVVNHKHF 80

                         90       100       110       120       130
                 ....*....|....*....|....*....|....*....|....*....|....*.
gi 19112933   81 MPTRYALELDnlKGLITADTFKEPTQRSAARKTVKKTFEEKYQSGKSAWFFTPLRF 136
Cdd:PTZ00471  81 LPTRYNMDMS--KELRGRINVSDASKKARSKQLVKKLFQARYNAGSSRWFFQRLRF 134
KOW_RPL27 cd06090
KOW motif of eukaryotic Ribosomal Protein L27; RPL27e has a KOW motif at its N terminal. KOW ...
 6-88 3.09e-45

KOW motif of eukaryotic Ribosomal Protein L27; RPL27e has a KOW motif at its 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.


Pssm-ID: 240514  Cd Length: 83  Bit Score: 141.94  E-value: 3.09e-45
                        10        20        30        40        50        60        70        80
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 19112933   6 KPGKVALITRGRFAGKKVVILQAIDQGSKSHPFGHAVVAGVERYPLKVTKSMGAKRIARRSRVKPFIKVVNYNHLMPTRY 85
Cdd:cd06090   1 KPGKVVIVLSGRYAGKKAVIVKNNDEGTKDRPYGHALVAGIDRYPRKVTKKMSKKKIAKRSKVKPFVKVVNYNHLMPTRY 80


                ...
gi 19112933  86 ALE 88
Cdd:cd06090  81 SVD 83
Ribosomal_L27e pfam01777
Ribosomal L27e protein family; The N-terminal region of the eukaryotic ribosomal L27 has the ...
 52-136 2.86e-44

Ribosomal L27e protein family; The N-terminal region of the eukaryotic ribosomal L27 has the KOW motif. C-terminal region is represented by this family.


Pssm-ID: 460322  Cd Length: 85  Bit Score: 139.63  E-value: 2.86e-44
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 19112933    52 KVTKSMGAKRIARRSRVKPFIKVVNYNHLMPTRYALELDNLKGLITADTFKEPTQRSAARKTVKKTFEEKYQSGKSAWFF 131
Cdd:pfam01777   1 KVTKKMSKKKIAKRSKVKPFVKVVNYNHLMPTRYTVDVEDLKGVVTKDTFKDPSKRKEARKEVKKKFEERYKTGKNKWFF 80


                  ....*
gi 19112933   132 TPLRF 136
Cdd:pfam01777  81 TKLRF 85
 
Name Accession Description Interval E-value
PTZ00471 PTZ00471
60S ribosomal protein L27; Provisional
 1-136 1.03e-46

60S ribosomal protein L27; Provisional


Pssm-ID: 240428 [Multi-domain]  Cd Length: 134  Bit Score: 147.69  E-value: 1.03e-46
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 19112933    1 MVKILKPGKVALITRGRFAGKKVVILQAIDQGSKSHPFGHAVVAGVERYPLKVTKSMGAKRIARRSRVKPFIKVVNYNHL 80
Cdd:PTZ00471   1 MTKFLKPGKVVIVTSGRYAGRKAVIVQNFDTASKERPYGHALVAGIKKYPKKVVRGMSKRTIARRSQVGVFLRVVNHKHF 80

                         90       100       110       120       130
                 ....*....|....*....|....*....|....*....|....*....|....*.
gi 19112933   81 MPTRYALELDnlKGLITADTFKEPTQRSAARKTVKKTFEEKYQSGKSAWFFTPLRF 136
Cdd:PTZ00471  81 LPTRYNMDMS--KELRGRINVSDASKKARSKQLVKKLFQARYNAGSSRWFFQRLRF 134
KOW_RPL27 cd06090
KOW motif of eukaryotic Ribosomal Protein L27; RPL27e has a KOW motif at its N terminal. KOW ...
 6-88 3.09e-45

KOW motif of eukaryotic Ribosomal Protein L27; RPL27e has a KOW motif at its 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.


Pssm-ID: 240514  Cd Length: 83  Bit Score: 141.94  E-value: 3.09e-45
                        10        20        30        40        50        60        70        80
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 19112933   6 KPGKVALITRGRFAGKKVVILQAIDQGSKSHPFGHAVVAGVERYPLKVTKSMGAKRIARRSRVKPFIKVVNYNHLMPTRY 85
Cdd:cd06090   1 KPGKVVIVLSGRYAGKKAVIVKNNDEGTKDRPYGHALVAGIDRYPRKVTKKMSKKKIAKRSKVKPFVKVVNYNHLMPTRY 80


                ...
gi 19112933  86 ALE 88
Cdd:cd06090  81 SVD 83
Ribosomal_L27e pfam01777
Ribosomal L27e protein family; The N-terminal region of the eukaryotic ribosomal L27 has the ...
 52-136 2.86e-44

Ribosomal L27e protein family; The N-terminal region of the eukaryotic ribosomal L27 has the KOW motif. C-terminal region is represented by this family.


Pssm-ID: 460322  Cd Length: 85  Bit Score: 139.63  E-value: 2.86e-44
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 19112933    52 KVTKSMGAKRIARRSRVKPFIKVVNYNHLMPTRYALELDNLKGLITADTFKEPTQRSAARKTVKKTFEEKYQSGKSAWFF 131
Cdd:pfam01777   1 KVTKKMSKKKIAKRSKVKPFVKVVNYNHLMPTRYTVDVEDLKGVVTKDTFKDPSKRKEARKEVKKKFEERYKTGKNKWFF 80


                  ....*
gi 19112933   132 TPLRF 136
Cdd:pfam01777  81 TKLRF 85
eL14 cd23702
Vairimorpha necatrix ribosomal protein eL14 and similar proteins; eL14 is a component of the ...
 7-92 8.68e-04

Vairimorpha necatrix ribosomal protein eL14 and similar proteins; eL14 is a component of the large subunit (LSU) of the microsporidian ribosome that reveals a prokaryotic-like rRNA core covered with eukaryotic ribosomal proteins.


Pssm-ID: 467915 [Multi-domain]  Cd Length: 82  Bit Score: 35.88  E-value: 8.68e-04
                        10        20        30        40        50        60        70        80
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 19112933   7 PGKVALITRGRFAGKKVVILQAIDQgskshpfGHAVVAGveryplkvtKSMGAKRiarrsrvkpfiKVVNYNHLMPTRYA 86
Cdd:cd23702   5 VGRVVLINYGPDAGKLAVIVDIIDQ-------NRVLVDG---------PKTGVKR-----------QVVNLKRLSLTDFV 57


                ....*.
gi 19112933  87 LELDNL 92
Cdd:cd23702  58 VKIPNL 63
KOW_RPL14 cd06088
KOW motif of Ribosomal Protein L14; RPL14 is a component of the large ribosomal subunit in ...
 5-120 1.23e-03

KOW motif of Ribosomal Protein L14; RPL14 is a component of the large ribosomal subunit in both archaea and eukaryotes with KOW motif at its 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. Auto-antibodies to RPL14 in humans have been associated with systemic lupus erythematosus . Although RPL14 is well conserved, it is not found in all archaea, and therefore it is presumably not essential.


Pssm-ID: 240512  Cd Length: 76  Bit Score: 35.53  E-value: 1.23e-03
                        10        20        30        40        50        60        70        80
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 19112933   5 LKPGKVALITRGRFAGKKVVILQAIDQGSkshpfghAVVAGVERyplkvtksmgakRIARRsrvkpfiKVVNYNHLMPTR 84
Cdd:cd06088   1 VEIGRVVLSKAGRDKGKLYVIVDIIDENV-------VLVDGPLR------------TGVKP-------KKKNLKHLQLTD 54

                        90       100       110
                ....*....|....*....|....*....|....*.
gi 19112933  85 YaleldnlkglitadTFKEPtqRSAARKTVKKTFEE 120
Cdd:cd06088  55 F--------------VIDIP--RGARTKGVKKANEK 74
PRK04333 PRK04333
50S ribosomal protein L14e; Validated
 8-120 1.45e-03

50S ribosomal protein L14e; Validated


Pssm-ID: 235283  Cd Length: 84  Bit Score: 35.43  E-value: 1.45e-03
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 19112933    8 GKVALITRGRFAGKKVVILQAIDQgskshpfGHAVVAGVeryplkvtKSMGAKRiaRRsrvkpfikvVNYNHLMPTRYAL 87
Cdd:PRK04333   7 GRVCVKTAGREAGRKCVIVDIIDK-------NFVLVTGP--------SLTGVKR--RR---------CNIKHLEPTDKKV 60

                         90       100       110
                 ....*....|....*....|....*....|...
gi 19112933   88 ELdnlkglitadtfkeptQRSAARKTVKKTFEE 120
Cdd:PRK04333  61 DI----------------EKGASDEEVKKALEA 77
KOW_RPL6 cd13156
KOW motif of Ribosomal Protein L6; RPL6 contains KOW motif that has an extra ribosomal role as ...
 5-32 9.00e-03

KOW motif of Ribosomal Protein L6; RPL6 contains KOW motif that has an extra ribosomal role as an oncogenic. 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.


Pssm-ID: 240520  Cd Length: 152  Bit Score: 34.45  E-value: 9.00e-03
                        10        20
                ....*....|....*....|....*...
gi 19112933   5 LKPGKVALITRGRFAGKKVVILQAIDQG 32
Cdd:cd13156   9 ITPGTVLILLAGRFRGKRVVFLKQLDSG 36
 
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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