Please note: this site relies heavily on the use of javascript. Without a javascript-enabled browser, this site will not function correctly. Please enable javascript and reload the page, or switch to a different browser.
191  structures 1866  species 0  interactions 9024  sequences 150  architectures

Family: NTF2 (PF02136)

Summary: Nuclear transport factor 2 (NTF2) domain

Pfam includes annotations and additional family information from a range of different sources. These sources can be accessed via the tabs below.

The Pfam group coordinates the annotation of Pfam families in Wikipedia, but we have not yet assigned a Wikipedia article to this family. If you think that a particular Wikipedia article provides good annotation, please let us know.

This tab holds the annotation information that is stored in the Pfam database. As we move to using Wikipedia as our main source of annotation, the contents of this tab will be gradually replaced by the Wikipedia tab.

Nuclear transport factor 2 (NTF2) domain Provide feedback

This family includes the NTF2-like Delta-5-3-ketosteroid isomerase proteins.

Literature references

  1. Stewart M, Kent HM, McCoy AJ; , J Mol Biol 1998;277:635-646.: Structural basis for molecular recognition between nuclear transport factor 2 (NTF2) and the GDP-bound form of the Ras-family GTPase Ran. PUBMED:9533885 EPMC:9533885


Internal database links

External database links

This tab holds annotation information from the InterPro database.

InterPro entry IPR002075

Nuclear transport factor 2 (NTF2) is a homodimer which stimulates efficient nuclear import of a cargo protein. NTF2 binds to both RanGDP and FxFG repeat-containing nucleoporins. NTF2 folds into a cone with a deep hydrophobic cavity, the opening of which is surrounded by several negatively charged residues. RanGDP binds to NTF2 by inserting a conserved phenylalanine residue into the hydrophobic pocket of NTF2 and making electrostatic interactions with the conserved negatively charged residues that surround the cavity [ PUBMED:9533885 ].

This entry represent the main structural domain of NTF2 and related domains.

Domain organisation

Below is a listing of the unique domain organisations or architectures in which this domain is found. More...

Loading domain graphics...

Pfam Clan

This family is a member of clan NTF2 (CL0051), which has the following description:

This superfamily contains a variety of enzymes such as Scytalone dehydratase, Delta-5-3-ketosteroid isomerase, Limonene-1,2-epoxide hydrolase among others. The family also includes presumed non-enzymatic homologues such as NTF2.

The clan contains the following 46 members:

ARC6-like_IMS CaMKII_AD Coa1 DUF1348 DUF2358 DUF3225 DUF3804 DUF3828 DUF3887 DUF4019 DUF4348 DUF4440 DUF4467 DUF4518 DUF4783 DUF4829 DUF4864 DUF4878 DUF4904 DUF5104 DUF5105 DUF6715 Endopep_inhib LEH Lumazine_bd_2 MBA1 MecA_N MlaC Mtr2 NTF2 ORF_12_N PHZA_PHZB Ring_hydroxyl_B Scytalone_dh SnoaL SnoaL_2 SnoaL_3 SnoaL_4 SnoaL_5 T4BSS_DotI_IcmL TIM21 Tim44 TpcC UPF0225 VirB8 WI12

Alignments

We store a range of different sequence alignments for families. As well as the seed alignment from which the family is built, we provide the full alignment, generated by searching the sequence database (reference proteomes) using the family HMM. We also generate alignments using four representative proteomes (RP) sets and the UniProtKB sequence database. More...

View options

We make a range of alignments for each Pfam-A family. You can see a description of each above. You can view these alignments in various ways but please note that some types of alignment are never generated while others may not be available for all families, most commonly because the alignments are too large to handle.

  Seed
(38)
Full
(9024)
Representative proteomes UniProt
(15334)
RP15
(1415)
RP35
(3875)
RP55
(7068)
RP75
(9868)
Jalview View  View  View  View  View  View  View 
HTML View             
PP/heatmap 1            

1Cannot generate PP/Heatmap alignments for seeds; no PP data available

Key: ✓ available, x not generated, not available.

Format an alignment

  Seed
(38)
Full
(9024)
Representative proteomes UniProt
(15334)
RP15
(1415)
RP35
(3875)
RP55
(7068)
RP75
(9868)
Alignment:
Format:
Order:
Sequence:
Gaps:
Download/view:

Download options

We make all of our alignments available in Stockholm format. You can download them here as raw, plain text files or as gzip-compressed files.

  Seed
(38)
Full
(9024)
Representative proteomes UniProt
(15334)
RP15
(1415)
RP35
(3875)
RP55
(7068)
RP75
(9868)
Raw Stockholm Download   Download   Download   Download   Download   Download   Download  
Gzipped Download   Download   Download   Download   Download   Download   Download  

You can also download a FASTA format file containing the full-length sequences for all sequences in the full alignment.

HMM logo

HMM logos is one way of visualising profile HMMs. Logos provide a quick overview of the properties of an HMM in a graphical form. You can see a more detailed description of HMM logos and find out how you can interpret them here. More...

Trees

This page displays the phylogenetic tree for this family's seed alignment. We use FastTree to calculate neighbour join trees with a local bootstrap based on 100 resamples (shown next to the tree nodes). FastTree calculates approximately-maximum-likelihood phylogenetic trees from our seed alignment.

Note: You can also download the data file for the tree.

Curation and family details

This section shows the detailed information about the Pfam family. You can see the definitions of many of the terms in this section in the glossary and a fuller explanation of the scoring system that we use in the scores section of the help pages.

Curation View help on the curation process

Seed source: IPR002075
Previous IDs: none
Type: Domain
Sequence Ontology: SO:0000417
Author: Mian N , Bateman A , Griffiths-Jones SR
Number in seed: 38
Number in full: 9024
Average length of the domain: 118.60 aa
Average identity of full alignment: 26 %
Average coverage of the sequence by the domain: 32.95 %

HMM information View help on HMM parameters

HMM build commands:
build method: hmmbuild -o /dev/null HMM SEED
search method: hmmsearch -Z 61295632 -E 1000 --cpu 4 HMM pfamseq
Model details:
Parameter Sequence Domain
Gathering cut-off 21.0 21.0
Trusted cut-off 21.0 21.0
Noise cut-off 20.9 20.9
Model length: 120
Family (HMM) version: 23
Download: download the raw HMM for this family

Species distribution

Sunburst controls

Hide

Weight segments by...


Change the size of the sunburst

Small
Large

Colour assignments

Archea Archea Eukaryota Eukaryota
Bacteria Bacteria Other sequences Other sequences
Viruses Viruses Unclassified Unclassified
Viroids Viroids Unclassified sequence Unclassified sequence

Selections

Align selected sequences to HMM

Generate a FASTA-format file

Clear selection

This visualisation provides a simple graphical representation of the distribution of this family across species. You can find the original interactive tree in the adjacent tab. More...

Loading sunburst data...

Tree controls

Hide

The tree shows the occurrence of this domain across different species. More...

Loading...

Please note: for large trees this can take some time. While the tree is loading, you can safely switch away from this tab but if you browse away from the family page entirely, the tree will not be loaded.

Structures

For those sequences which have a structure in the Protein DataBank, we use the mapping between UniProt, PDB and Pfam coordinate systems from the PDBe group, to allow us to map Pfam domains onto UniProt sequences and three-dimensional protein structures. The table below shows the structures on which the NTF2 domain has been found. There are 191 instances of this domain found in the PDB. Note that there may be multiple copies of the domain in a single PDB structure, since many structures contain multiple copies of the same protein sequence.

Loading structure mapping...

AlphaFold Structure Predictions

The list of proteins below match this family and have AlphaFold predicted structures. Click on the protein accession to view the predicted structure.

Protein Predicted structure External Information
A0A0P0VEB3 View 3D Structure Click here
A0A0P0VYT3 View 3D Structure Click here
A0A0P0WCA8 View 3D Structure Click here
A0A0R0F284 View 3D Structure Click here
A0A0R0FE79 View 3D Structure Click here
A0A0R0JQS9 View 3D Structure Click here
A0A0R0LFR9 View 3D Structure Click here
A0A178V9P2 View 3D Structure Click here
A0A1D6E634 View 3D Structure Click here
A0A1D6EDA2 View 3D Structure Click here
A0A1D6FZP2 View 3D Structure Click here
A0A1D6IIC3 View 3D Structure Click here
A0A1D6J5A2 View 3D Structure Click here
A0A1D6KJX7 View 3D Structure Click here
A0A1D6N9M7 View 3D Structure Click here
A0A1D6P0D2 View 3D Structure Click here
A0A1D6PYB8 View 3D Structure Click here
A0A1D6Q2L8 View 3D Structure Click here
A0A1D8PES3 View 3D Structure Click here
A0A1D8PQC8 View 3D Structure Click here
A0A1P8AW76 View 3D Structure Click here
A1L1U3 View 3D Structure Click here
A4HT08 View 3D Structure Click here
A4HUJ7 View 3D Structure Click here
B2GV77 View 3D Structure Click here
B2RZ65 View 3D Structure Click here
B4FJT7 View 3D Structure Click here
B4FWN0 View 3D Structure Click here
C0P7S7 View 3D Structure Click here
C6TFP4 View 3D Structure Click here
D3Z8R9 View 3D Structure Click here
D3ZGV3 View 3D Structure Click here
D3ZYS7 View 3D Structure Click here
E7EYP0 View 3D Structure Click here
F1M2M6 View 3D Structure Click here
F1M355 View 3D Structure Click here
F1Q7H6 View 3D Structure Click here
F1QNZ5 View 3D Structure Click here
F4IT98 View 3D Structure Click here
F4J8X6 View 3D Structure Click here