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Conserved domains on  [gi|12053833|emb|CAC20434|]
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nuclear RNA export factor 3, partial [Homo sapiens]

Protein Classification

nuclear transport factor 2 family protein( domain architecture ID 10557597)

nuclear transport factor 2 (NTF2) family protein with a SnoaL-like polyketide cyclase domain

Graphical summary

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List of domain hits

 Name Accession Description Interval E-value
Tap-RNA_bind pfam09162
Tap, RNA-binding; Members of this family adopt a structure consisting of an alpha+beta ...
 1-68 1.78e-36

Tap, RNA-binding; Members of this family adopt a structure consisting of an alpha+beta sandwich with an antiparallel beta-sheet, arranged in a 2(beta-alpha-beta) motif. They are mainly found in mRNA export factors, and mediate the sequence nonspecific nuclear export of cellular mRNAs as well as the sequence-specific export of retroviral mRNAs bearing the constitutive transport element.


:

Pssm-ID: 462696  Cd Length: 80  Bit Score: 126.90  E-value: 1.78e-36
                          10        20        30        40        50        60
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*...
gi 12053833     1 NEKWLLNLIQNECSVPFVPVEFHYENMHASFFVENASIAYALKNVSGKIWDEDNEKISIFVNPAGIPH 68
Cdd:pfam09162  13 DKKWLLNSIQSLCSVPFTPVDFHYEKNRAVFFVEDASTASALKKVSRKITDEDGRKISIFVNPSAPPY 80
NTF2_like super family cl09109
Nuclear transport factor 2 (NTF2-like) superfamily. This family includes members of the NTF2 ...
 217-335 1.36e-12

Nuclear transport factor 2 (NTF2-like) superfamily. This family includes members of the NTF2 family, Delta-5-3-ketosteroid isomerases, Scytalone Dehydratases, and the beta subunit of Ring hydroxylating dioxygenases. This family is a classic example of divergent evolution wherein the proteins have many common structural details but diverge greatly in their function. For example, nuclear transport factor 2 (NTF2) mediates the nuclear import of RanGDP and binds to both RanGDP and FxFG repeat-containing nucleoporins while Ketosteroid isomerases catalyze the isomerization of delta-5-3-ketosteroid to delta-4-3-ketosteroid, by intramolecular transfer of the C4-beta proton to the C6-beta position. While the function of the beta sub-unit of the Ring hydroxylating dioxygenases is not known, Scytalone Dehydratases catalyzes two reactions in the biosynthetic pathway that produces fungal melanin. Members of the NTF2-like superfamily are widely distributed among bacteria, archaea and eukaryotes.


The actual alignment was detected with superfamily member cd00780:

Pssm-ID: 471850  Cd Length: 119  Bit Score: 63.84  E-value: 1.36e-12
                        10        20        30        40        50        60        70        80
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 12053833 217 LKNLVLQFLQQYYLIYDsGDRQGLLSAYHDEACFSLSipfnpedsapssfckffkdsrnikilkdpylrGELLKHTKLDI 296
Cdd:cd00780   2 AEDVAKAFVQQYYSIFD-NNREGLHRLYGDTSMLSRE--------------------------------GMKQVTGRDAI 48

                        90       100       110       120
                ....*....|....*....|....*....|....*....|.
gi 12053833 297 VDSLSALP--KTQHDLSSflVDMWYQTEWMLCFSVNGVFKE 335
Cdd:cd00780  49 VEKLSSLPfqKTKHKITT--VDSQPTPSGGVIVMVTGSLKL 87
 
Name Accession Description Interval E-value
Tap-RNA_bind pfam09162
Tap, RNA-binding; Members of this family adopt a structure consisting of an alpha+beta ...
 1-68 1.78e-36

Tap, RNA-binding; Members of this family adopt a structure consisting of an alpha+beta sandwich with an antiparallel beta-sheet, arranged in a 2(beta-alpha-beta) motif. They are mainly found in mRNA export factors, and mediate the sequence nonspecific nuclear export of cellular mRNAs as well as the sequence-specific export of retroviral mRNAs bearing the constitutive transport element.


Pssm-ID: 462696  Cd Length: 80  Bit Score: 126.90  E-value: 1.78e-36
                          10        20        30        40        50        60
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*...
gi 12053833     1 NEKWLLNLIQNECSVPFVPVEFHYENMHASFFVENASIAYALKNVSGKIWDEDNEKISIFVNPAGIPH 68
Cdd:pfam09162  13 DKKWLLNSIQSLCSVPFTPVDFHYEKNRAVFFVEDASTASALKKVSRKITDEDGRKISIFVNPSAPPY 80
NTF2 cd00780
Nuclear transport factor 2 (NTF2) domain plays an important role in the trafficking of ...
 217-335 1.36e-12

Nuclear transport factor 2 (NTF2) domain plays an important role in the trafficking of macromolecules, ions and small molecules between the cytoplasm and nucleus. This bi-directional transport of macromolecules across the nuclear envelope requires many soluble factors that includes GDP-binding protein Ran (RanGDP). RanGDP is required for both import and export of proteins and poly(A) RNA. RanGDP also has been implicated in cell cycle control, specifically in mitotic spindle assembly. In interphase cells, RanGDP is predominately nuclear and thought to be GTP bound, but it is also present in the cytoplasm, probably in the GDP-bound state. NTF2 mediates the nuclear import of RanGDP. NTF2 binds to both RanGDP and FxFG repeat-containing nucleoporins.


Pssm-ID: 238403  Cd Length: 119  Bit Score: 63.84  E-value: 1.36e-12
                        10        20        30        40        50        60        70        80
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 12053833 217 LKNLVLQFLQQYYLIYDsGDRQGLLSAYHDEACFSLSipfnpedsapssfckffkdsrnikilkdpylrGELLKHTKLDI 296
Cdd:cd00780   2 AEDVAKAFVQQYYSIFD-NNREGLHRLYGDTSMLSRE--------------------------------GMKQVTGRDAI 48

                        90       100       110       120
                ....*....|....*....|....*....|....*....|.
gi 12053833 297 VDSLSALP--KTQHDLSSflVDMWYQTEWMLCFSVNGVFKE 335
Cdd:cd00780  49 VEKLSSLPfqKTKHKITT--VDSQPTPSGGVIVMVTGSLKL 87
NTF2 pfam02136
Nuclear transport factor 2 (NTF2) domain; This family includes the NTF2-like ...
 220-271 5.05e-05

Nuclear transport factor 2 (NTF2) domain; This family includes the NTF2-like Delta-5-3-ketosteroid isomerase proteins.


Pssm-ID: 396625  Cd Length: 116  Bit Score: 42.34  E-value: 5.05e-05
                          10        20        30        40        50
                  ....*....|....*....|....*....|....*....|....*....|..
gi 12053833   220 LVLQFLQQYYLIYDSGDRQGLLSAYHDEACFsLSIPFNPEDSAPSSFCKFFK 271
Cdd:pfam02136   1 VGNAFVQQYYAALDAHDPEGLHALYADDASM-LTPPGSDPVVGLEAINEFFD 51
 
Name Accession Description Interval E-value
Tap-RNA_bind pfam09162
Tap, RNA-binding; Members of this family adopt a structure consisting of an alpha+beta ...
 1-68 1.78e-36

Tap, RNA-binding; Members of this family adopt a structure consisting of an alpha+beta sandwich with an antiparallel beta-sheet, arranged in a 2(beta-alpha-beta) motif. They are mainly found in mRNA export factors, and mediate the sequence nonspecific nuclear export of cellular mRNAs as well as the sequence-specific export of retroviral mRNAs bearing the constitutive transport element.


Pssm-ID: 462696  Cd Length: 80  Bit Score: 126.90  E-value: 1.78e-36
                          10        20        30        40        50        60
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*...
gi 12053833     1 NEKWLLNLIQNECSVPFVPVEFHYENMHASFFVENASIAYALKNVSGKIWDEDNEKISIFVNPAGIPH 68
Cdd:pfam09162  13 DKKWLLNSIQSLCSVPFTPVDFHYEKNRAVFFVEDASTASALKKVSRKITDEDGRKISIFVNPSAPPY 80
NTF2 cd00780
Nuclear transport factor 2 (NTF2) domain plays an important role in the trafficking of ...
 217-335 1.36e-12

Nuclear transport factor 2 (NTF2) domain plays an important role in the trafficking of macromolecules, ions and small molecules between the cytoplasm and nucleus. This bi-directional transport of macromolecules across the nuclear envelope requires many soluble factors that includes GDP-binding protein Ran (RanGDP). RanGDP is required for both import and export of proteins and poly(A) RNA. RanGDP also has been implicated in cell cycle control, specifically in mitotic spindle assembly. In interphase cells, RanGDP is predominately nuclear and thought to be GTP bound, but it is also present in the cytoplasm, probably in the GDP-bound state. NTF2 mediates the nuclear import of RanGDP. NTF2 binds to both RanGDP and FxFG repeat-containing nucleoporins.


Pssm-ID: 238403  Cd Length: 119  Bit Score: 63.84  E-value: 1.36e-12
                        10        20        30        40        50        60        70        80
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 12053833 217 LKNLVLQFLQQYYLIYDsGDRQGLLSAYHDEACFSLSipfnpedsapssfckffkdsrnikilkdpylrGELLKHTKLDI 296
Cdd:cd00780   2 AEDVAKAFVQQYYSIFD-NNREGLHRLYGDTSMLSRE--------------------------------GMKQVTGRDAI 48

                        90       100       110       120
                ....*....|....*....|....*....|....*....|.
gi 12053833 297 VDSLSALP--KTQHDLSSflVDMWYQTEWMLCFSVNGVFKE 335
Cdd:cd00780  49 VEKLSSLPfqKTKHKITT--VDSQPTPSGGVIVMVTGSLKL 87
NTF2 pfam02136
Nuclear transport factor 2 (NTF2) domain; This family includes the NTF2-like ...
 220-271 5.05e-05

Nuclear transport factor 2 (NTF2) domain; This family includes the NTF2-like Delta-5-3-ketosteroid isomerase proteins.


Pssm-ID: 396625  Cd Length: 116  Bit Score: 42.34  E-value: 5.05e-05
                          10        20        30        40        50
                  ....*....|....*....|....*....|....*....|....*....|..
gi 12053833   220 LVLQFLQQYYLIYDSGDRQGLLSAYHDEACFsLSIPFNPEDSAPSSFCKFFK 271
Cdd:pfam02136   1 VGNAFVQQYYAALDAHDPEGLHALYADDASM-LTPPGSDPVVGLEAINEFFD 51
NTF2_like cd00531
Nuclear transport factor 2 (NTF2-like) superfamily. This family includes members of the NTF2 ...
 221-255 1.02e-03

Nuclear transport factor 2 (NTF2-like) superfamily. This family includes members of the NTF2 family, Delta-5-3-ketosteroid isomerases, Scytalone Dehydratases, and the beta subunit of Ring hydroxylating dioxygenases. This family is a classic example of divergent evolution wherein the proteins have many common structural details but diverge greatly in their function. For example, nuclear transport factor 2 (NTF2) mediates the nuclear import of RanGDP and binds to both RanGDP and FxFG repeat-containing nucleoporins while Ketosteroid isomerases catalyze the isomerization of delta-5-3-ketosteroid to delta-4-3-ketosteroid, by intramolecular transfer of the C4-beta proton to the C6-beta position. While the function of the beta sub-unit of the Ring hydroxylating dioxygenases is not known, Scytalone Dehydratases catalyzes two reactions in the biosynthetic pathway that produces fungal melanin. Members of the NTF2-like superfamily are widely distributed among bacteria, archaea and eukaryotes.


Pssm-ID: 238296 [Multi-domain]  Cd Length: 124  Bit Score: 38.65  E-value: 1.02e-03
                        10        20        30
                ....*....|....*....|....*....|....*
gi 12053833 221 VLQFLQQYYLIYDSGDRQGLLSAYHDEACFSLSIP 255
Cdd:cd00531   1 AEQFLYRYARLLDAGDREWLALLYADDAYFEPPGG 35
 
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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