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Conserved domains on  [gi|564395696|ref|XP_006255630|]
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transport and Golgi organization protein 6 homolog isoform X2 [Rattus norvegicus]

Protein Classification

RTP1/Tango6 family protein( domain architecture ID 10563852)

RTP1/Tango6 family protein similar to Saccharomyces cerevisiae RNA polymerase II assembly factor RTP1 that is required for the cytoplasmic assembly and the nuclear import of RNA polymerase II

Graphical summary

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List of domain hits

 Name Accession Description Interval E-value
RTP1_C1 pfam10363
Required for nuclear transport of RNA pol II C-terminus 1; This domain is found towards the ...
 770-881 2.98e-40

Required for nuclear transport of RNA pol II C-terminus 1; This domain is found towards the C-terminus of required for the nuclear transport of RNA pol II protein (RTP1). RTP1 is required for the nuclear localization of RNA polymerase II. This family is found in association with pfam10304.


:

Pssm-ID: 463059  Cd Length: 112  Bit Score: 144.15  E-value: 2.98e-40
                           10        20        30        40        50        60        70        80
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 564395696   770 FREVLLSACDPQVPTRAAALRTLSRWVEQREGRALEEQKKLLQIFLENLEHEDSFVYLSAIQGVALLSDVYPEEILVDLL 849
Cdd:pfam10363    1 LQEALKDLNDPLVPVRAHGLVLLRKLIEKKDPSPVIDIPKILDLFLSNLKDEDSYVYLNAIKGLAALADRYPDEVLPTLL 80

                           90       100       110
                   ....*....|....*....|....*....|..
gi 564395696   850 ARYDSSKDKHTPETRMKVGEVLMRIVRALGDM 881
Cdd:pfam10363   81 EEYGDLNEKRSLDERLKVGEALLRVIQRLGEL 112
RTP1_C2 pfam10304
Required for nuclear transport of RNA pol II C-terminus 2; This domain is found towards the ...
 972-1005 9.76e-07

Required for nuclear transport of RNA pol II C-terminus 2; This domain is found towards the C-terminus of required for the nuclear transport of RNA pol II protein (RTP1). RTP1 is required for the nuclear localization of RNA polymerase II. This family is found in association with pfam10363.


:

Pssm-ID: 431206  Cd Length: 34  Bit Score: 45.86  E-value: 9.76e-07
                           10        20        30
                   ....*....|....*....|....*....|....
gi 564395696   972 VLKDLYHLLKHVVRLEPDDVAKIQAQLALEELDE 1005
Cdd:pfam10304    1 NLEDLYRTLKYVEDTDTDDLVREHARDVLEELEA 34
 
Name Accession Description Interval E-value
RTP1_C1 pfam10363
Required for nuclear transport of RNA pol II C-terminus 1; This domain is found towards the ...
 770-881 2.98e-40

Required for nuclear transport of RNA pol II C-terminus 1; This domain is found towards the C-terminus of required for the nuclear transport of RNA pol II protein (RTP1). RTP1 is required for the nuclear localization of RNA polymerase II. This family is found in association with pfam10304.


Pssm-ID: 463059  Cd Length: 112  Bit Score: 144.15  E-value: 2.98e-40
                           10        20        30        40        50        60        70        80
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 564395696   770 FREVLLSACDPQVPTRAAALRTLSRWVEQREGRALEEQKKLLQIFLENLEHEDSFVYLSAIQGVALLSDVYPEEILVDLL 849
Cdd:pfam10363    1 LQEALKDLNDPLVPVRAHGLVLLRKLIEKKDPSPVIDIPKILDLFLSNLKDEDSYVYLNAIKGLAALADRYPDEVLPTLL 80

                           90       100       110
                   ....*....|....*....|....*....|..
gi 564395696   850 ARYDSSKDKHTPETRMKVGEVLMRIVRALGDM 881
Cdd:pfam10363   81 EEYGDLNEKRSLDERLKVGEALLRVIQRLGEL 112
RTP1_C2 pfam10304
Required for nuclear transport of RNA pol II C-terminus 2; This domain is found towards the ...
 972-1005 9.76e-07

Required for nuclear transport of RNA pol II C-terminus 2; This domain is found towards the C-terminus of required for the nuclear transport of RNA pol II protein (RTP1). RTP1 is required for the nuclear localization of RNA polymerase II. This family is found in association with pfam10363.


Pssm-ID: 431206  Cd Length: 34  Bit Score: 45.86  E-value: 9.76e-07
                           10        20        30
                   ....*....|....*....|....*....|....
gi 564395696   972 VLKDLYHLLKHVVRLEPDDVAKIQAQLALEELDE 1005
Cdd:pfam10304    1 NLEDLYRTLKYVEDTDTDDLVREHARDVLEELEA 34
 
Name Accession Description Interval E-value
RTP1_C1 pfam10363
Required for nuclear transport of RNA pol II C-terminus 1; This domain is found towards the ...
 770-881 2.98e-40

Required for nuclear transport of RNA pol II C-terminus 1; This domain is found towards the C-terminus of required for the nuclear transport of RNA pol II protein (RTP1). RTP1 is required for the nuclear localization of RNA polymerase II. This family is found in association with pfam10304.


Pssm-ID: 463059  Cd Length: 112  Bit Score: 144.15  E-value: 2.98e-40
                           10        20        30        40        50        60        70        80
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 564395696   770 FREVLLSACDPQVPTRAAALRTLSRWVEQREGRALEEQKKLLQIFLENLEHEDSFVYLSAIQGVALLSDVYPEEILVDLL 849
Cdd:pfam10363    1 LQEALKDLNDPLVPVRAHGLVLLRKLIEKKDPSPVIDIPKILDLFLSNLKDEDSYVYLNAIKGLAALADRYPDEVLPTLL 80

                           90       100       110
                   ....*....|....*....|....*....|..
gi 564395696   850 ARYDSSKDKHTPETRMKVGEVLMRIVRALGDM 881
Cdd:pfam10363   81 EEYGDLNEKRSLDERLKVGEALLRVIQRLGEL 112
RTP1_C2 pfam10304
Required for nuclear transport of RNA pol II C-terminus 2; This domain is found towards the ...
 972-1005 9.76e-07

Required for nuclear transport of RNA pol II C-terminus 2; This domain is found towards the C-terminus of required for the nuclear transport of RNA pol II protein (RTP1). RTP1 is required for the nuclear localization of RNA polymerase II. This family is found in association with pfam10363.


Pssm-ID: 431206  Cd Length: 34  Bit Score: 45.86  E-value: 9.76e-07
                           10        20        30
                   ....*....|....*....|....*....|....
gi 564395696   972 VLKDLYHLLKHVVRLEPDDVAKIQAQLALEELDE 1005
Cdd:pfam10304    1 NLEDLYRTLKYVEDTDTDDLVREHARDVLEELEA 34
 
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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