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Conserved domains on  [gi|2085263189|ref|XP_043091925|]
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60S ribosomal protein L27 [Puntigrus tetrazona]

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 3.54e-48

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: 151.16  E-value: 3.54e-48
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2085263189   1 MGKFMKPGKVVMVLAGRYAGRKAVIVKNIDDGTSDRPYSHALVAGIDRYPRKVTTVMGKKKIAKRSKIKAFVKVFNYNHL 80
Cdd:PTZ00471    1 MTKFLKPGKVVIVTSGRYAGRKAVIVQNFDTASKERPYGHALVAGIKKYPKKVVRGMSKRTIARRSQVGVFLRVVNHKHF 80

                          90       100       110       120       130
                  ....*....|....*....|....*....|....*....|....*....|....*.
gi 2085263189  81 MPTRYSVDipLDKTVVNKDVFRDPALKRKARREAKVKFEERYKTGKNKWFFQKLRF 136
Cdd:PTZ00471   81 LPTRYNMD--MSKELRGRINVSDASKKARSKQLVKKLFQARYNAGSSRWFFQRLRF 134
 
Name Accession Description Interval E-value
PTZ00471 PTZ00471
60S ribosomal protein L27; Provisional
 1-136 3.54e-48

60S ribosomal protein L27; Provisional


Pssm-ID: 240428 [Multi-domain]  Cd Length: 134  Bit Score: 151.16  E-value: 3.54e-48
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2085263189   1 MGKFMKPGKVVMVLAGRYAGRKAVIVKNIDDGTSDRPYSHALVAGIDRYPRKVTTVMGKKKIAKRSKIKAFVKVFNYNHL 80
Cdd:PTZ00471    1 MTKFLKPGKVVIVTSGRYAGRKAVIVQNFDTASKERPYGHALVAGIKKYPKKVVRGMSKRTIARRSQVGVFLRVVNHKHF 80

                          90       100       110       120       130
                  ....*....|....*....|....*....|....*....|....*....|....*.
gi 2085263189  81 MPTRYSVDipLDKTVVNKDVFRDPALKRKARREAKVKFEERYKTGKNKWFFQKLRF 136
Cdd:PTZ00471   81 LPTRYNMD--MSKELRGRINVSDASKKARSKQLVKKLFQARYNAGSSRWFFQRLRF 134
KOW_RPL27 cd06090
KOW motif of eukaryotic Ribosomal Protein L27; RPL27e has a KOW motif at its N terminal. KOW ...
 6-88 1.05e-46

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: 145.79  E-value: 1.05e-46
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2085263189   6 KPGKVVMVLAGRYAGRKAVIVKNIDDGTSDRPYSHALVAGIDRYPRKVTTVMGKKKIAKRSKIKAFVKVFNYNHLMPTRY 85
Cdd:cd06090     1 KPGKVVIVLSGRYAGKKAVIVKNNDEGTKDRPYGHALVAGIDRYPRKVTKKMSKKKIAKRSKVKPFVKVVNYNHLMPTRY 80


                  ...
gi 2085263189  86 SVD 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 1.41e-43

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: 137.71  E-value: 1.41e-43
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2085263189  52 KVTTVMGKKKIAKRSKIKAFVKVFNYNHLMPTRYSVDIPLDKTVVNKDVFRDPALKRKARREAKVKFEERYKTGKNKWFF 131
Cdd:pfam01777   1 KVTKKMSKKKIAKRSKVKPFVKVVNYNHLMPTRYTVDVEDLKGVVTKDTFKDPSKRKEARKEVKKKFEERYKTGKNKWFF 80


                  ....*
gi 2085263189 132 QKLRF 136
Cdd:pfam01777  81 TKLRF 85
RPL14A COG2163
Ribosomal protein L14E/L6E/L27E [Translation, ribosomal structure and biogenesis]; Ribosomal ...
 5-93 2.04e-05

Ribosomal protein L14E/L6E/L27E [Translation, ribosomal structure and biogenesis]; Ribosomal protein L14E/L6E/L27E is part of the Pathway/BioSystem: Ribosome 50S subunit


Pssm-ID: 441766  Cd Length: 88  Bit Score: 40.55  E-value: 2.04e-05
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2085263189   5 MKPGKVVMVLAGRYAGRKAVIVKNIDDgtsdrpySHALVAGidryPRKVTTVMGKKKiakrskikafvkvfNYNHLMPTR 84
Cdd:COG2163     3 IEIGQVVRSKAGRDAGRYFVVVDIIDD-------NFVLVAD----GDKRKVEKPKKK--------------NIKHLQPTD 57


                  ....*....
gi 2085263189  85 YSVDIPLDK 93
Cdd:COG2163    58 KVIEEIKEK 66
KOW smart00739
KOW (Kyprides, Ouzounis, Woese) motif; Motif in ribosomal proteins, NusG, Spt5p, KIN17 and T54.
 6-31 9.18e-03

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


Pssm-ID: 128978  Cd Length: 28  Bit Score: 31.91  E-value: 9.18e-03
                           10        20
                   ....*....|....*....|....*.
gi 2085263189    6 KPGKVVMVLAGRYAGRKAVIVKNIDD 31
Cdd:smart00739   3 EVGDTVRVIAGPFKGKVGKVLEVDGE 28
 
Name Accession Description Interval E-value
PTZ00471 PTZ00471
60S ribosomal protein L27; Provisional
 1-136 3.54e-48

60S ribosomal protein L27; Provisional


Pssm-ID: 240428 [Multi-domain]  Cd Length: 134  Bit Score: 151.16  E-value: 3.54e-48
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2085263189   1 MGKFMKPGKVVMVLAGRYAGRKAVIVKNIDDGTSDRPYSHALVAGIDRYPRKVTTVMGKKKIAKRSKIKAFVKVFNYNHL 80
Cdd:PTZ00471    1 MTKFLKPGKVVIVTSGRYAGRKAVIVQNFDTASKERPYGHALVAGIKKYPKKVVRGMSKRTIARRSQVGVFLRVVNHKHF 80

                          90       100       110       120       130
                  ....*....|....*....|....*....|....*....|....*....|....*.
gi 2085263189  81 MPTRYSVDipLDKTVVNKDVFRDPALKRKARREAKVKFEERYKTGKNKWFFQKLRF 136
Cdd:PTZ00471   81 LPTRYNMD--MSKELRGRINVSDASKKARSKQLVKKLFQARYNAGSSRWFFQRLRF 134
KOW_RPL27 cd06090
KOW motif of eukaryotic Ribosomal Protein L27; RPL27e has a KOW motif at its N terminal. KOW ...
 6-88 1.05e-46

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: 145.79  E-value: 1.05e-46
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2085263189   6 KPGKVVMVLAGRYAGRKAVIVKNIDDGTSDRPYSHALVAGIDRYPRKVTTVMGKKKIAKRSKIKAFVKVFNYNHLMPTRY 85
Cdd:cd06090     1 KPGKVVIVLSGRYAGKKAVIVKNNDEGTKDRPYGHALVAGIDRYPRKVTKKMSKKKIAKRSKVKPFVKVVNYNHLMPTRY 80


                  ...
gi 2085263189  86 SVD 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 1.41e-43

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: 137.71  E-value: 1.41e-43
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2085263189  52 KVTTVMGKKKIAKRSKIKAFVKVFNYNHLMPTRYSVDIPLDKTVVNKDVFRDPALKRKARREAKVKFEERYKTGKNKWFF 131
Cdd:pfam01777   1 KVTKKMSKKKIAKRSKVKPFVKVVNYNHLMPTRYTVDVEDLKGVVTKDTFKDPSKRKEARKEVKKKFEERYKTGKNKWFF 80


                  ....*
gi 2085263189 132 QKLRF 136
Cdd:pfam01777  81 TKLRF 85
RPL14A COG2163
Ribosomal protein L14E/L6E/L27E [Translation, ribosomal structure and biogenesis]; Ribosomal ...
 5-93 2.04e-05

Ribosomal protein L14E/L6E/L27E [Translation, ribosomal structure and biogenesis]; Ribosomal protein L14E/L6E/L27E is part of the Pathway/BioSystem: Ribosome 50S subunit


Pssm-ID: 441766  Cd Length: 88  Bit Score: 40.55  E-value: 2.04e-05
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2085263189   5 MKPGKVVMVLAGRYAGRKAVIVKNIDDgtsdrpySHALVAGidryPRKVTTVMGKKKiakrskikafvkvfNYNHLMPTR 84
Cdd:COG2163     3 IEIGQVVRSKAGRDAGRYFVVVDIIDD-------NFVLVAD----GDKRKVEKPKKK--------------NIKHLQPTD 57


                  ....*....
gi 2085263189  85 YSVDIPLDK 93
Cdd:COG2163    58 KVIEEIKEK 66
KOW_RPL6 cd13156
KOW motif of Ribosomal Protein L6; RPL6 contains KOW motif that has an extra ribosomal role as ...
 6-120 4.29e-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: 35.22  E-value: 4.29e-03
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2085263189   6 KPGKVVMVLAGRYAGRKAVIVKNIDDGTsdrpyshALVAGidryPRKVTTVmgkkkiakrskikAFVKVfNYNHLMPTRY 85
Cdd:cd13156    10 TPGTVLILLAGRFRGKRVVFLKQLDSGL-------LLVTG----PFKINGV-------------PLRRV-NQRYVIATST 64

                          90       100       110
                  ....*....|....*....|....*....|....*.
gi 2085263189  86 SVDIPLDKTV-VNKDVFRDPALKRKARREAKVKFEE 120
Cdd:cd13156    65 KVDISGVKVPkLNDAYFKRKKKKKKKKKEGEFFEEK 100
KOW pfam00467
KOW motif; This family has been extended to coincide with ref. The KOW (Kyprides, Ouzounis, ...
 7-32 5.34e-03

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: 32.74  E-value: 5.34e-03
                          10        20
                  ....*....|....*....|....*.
gi 2085263189   7 PGKVVMVLAGRYAGRKAVIVKNIDDG 32
Cdd:pfam00467   1 KGDVVRVIAGPFKGKVGKVVEVDDKK 26
PRK04333 PRK04333
50S ribosomal protein L14e; Validated
 8-90 8.01e-03

50S ribosomal protein L14e; Validated


Pssm-ID: 235283  Cd Length: 84  Bit Score: 33.50  E-value: 8.01e-03
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2085263189   8 GKVVMVLAGRYAGRKAVIVKNIDDgtsdrpySHALVAGIdryprKVTTVmgkkkiaKRSKIkafvkvfNYNHLMPTRYSV 87
Cdd:PRK04333    7 GRVCVKTAGREAGRKCVIVDIIDK-------NFVLVTGP-----SLTGV-------KRRRC-------NIKHLEPTDKKV 60


                  ...
gi 2085263189  88 DIP 90
Cdd:PRK04333   61 DIE 63
KOW smart00739
KOW (Kyprides, Ouzounis, Woese) motif; Motif in ribosomal proteins, NusG, Spt5p, KIN17 and T54.
 6-31 9.18e-03

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


Pssm-ID: 128978  Cd Length: 28  Bit Score: 31.91  E-value: 9.18e-03
                           10        20
                   ....*....|....*....|....*.
gi 2085263189    6 KPGKVVMVLAGRYAGRKAVIVKNIDD 31
Cdd:smart00739   3 EVGDTVRVIAGPFKGKVGKVLEVDGE 28
 
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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