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306  structures 7679  species 0  interactions 44089  sequences 605  architectures

Family: NAD_binding_1 (PF00175)

Summary: Oxidoreductase NAD-binding domain

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

This is the Wikipedia entry entitled "Oxidoreductase NAD-binding domain". More...

Oxidoreductase NAD-binding domain Edit Wikipedia article

Oxidoreductase NAD-binding domain
Identifiers
SymbolNAD_binding_1
PfamPF00175
InterProIPR001433
SCOPe2cnd / SUPFAM
TCDB3.D.5
CDDcd00322

Oxidoreductase NAD-binding domain is an evolutionary conserved protein domain.[1]

Xanthine dehydrogenases, that also bind FAD/NAD, have essentially no similarity.

Bacterial ferredoxin-NADP+ reductase may be bound to the thylakoid membrane or anchored to the thylakoid-bound phycobilisomes. Chloroplast ferredoxin-NADP+ reductase (EC 1.18.1.2) may play a key role in regulating the relative amounts of cyclic and non-cyclic electron flow to meet the demands of the plant for ATP and reducing power. It is involved in the final step in the linear photosynthetic electron transport chain and has also been implicated in cyclic electron flow around photosystem I where its role would be to return electrons from ferredoxin to the cytochrome B-F complex.

This domain is present in a variety of proteins that include, bacterial flavohemoprotein, mammalian NADH-cytochrome b5 reductase, eukaryotic NADPH-cytochrome P450 reductase, nitrate reductase from plants, nitric-oxide synthase, bacterial vanillate demethylase and others.

Examples

Human genes encoding proteins containing this domain include:

References

  1. ^ Hyde GE, Crawford NM, Campbell WH (December 1991). "The sequence of squash NADH:nitrate reductase and its relationship to the sequences of other flavoprotein oxidoreductases. A family of flavoprotein pyridine nucleotide cytochrome reductases". J. Biol. Chem. 266 (35): 23542–7. PMID 1748631.


This page is based on a Wikipedia article. The text is available under the Creative Commons Attribution/Share-Alike License.

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.

Oxidoreductase NAD-binding domain Provide feedback

Xanthine dehydrogenases, that also bind FAD/NAD, have essentially no similarity.

Literature references

  1. Hyde GE, Crawford NM, Campbell W; , J Biol Chem 1991;266:23542-23547.: The sequence of squash NADH:nitrate reductase and its relationship to the sequences of other flavoprotein oxidoreductases. A family of flavoprotein pyridine nucleotide cytochrome reductases. PUBMED:1748631 EPMC:1748631


Internal database links

External database links

This tab holds annotation information from the InterPro database.

InterPro entry IPR001433

Bacterial ferredoxin-NADP + reductase may be bound to the thylakoid membrane or anchored to the thylakoid-bound phycobilisomes. Chloroplast ferredoxin-NADP + reductase ( EC ) may play a key role in regulating the relative amounts of cyclic and non-cyclic electron flow to meet the demands of the plant for ATP and reducing power. It is involved in the final step in the linear photosynthetic electron transport chain and has also been implicated in cyclic electron flow around photosystem I where its role would be to return electrons from ferredoxin to the cytochrome B-F complex.

This domain is present in a variety of proteins that include, bacterial flavohemoprotein, mammalian NADH-cytochrome b5 reductase, eukaryotic NADPH-cytochrome P450 reductase, nitrate reductase from plants, nitric-oxide synthase, bacterial vanillate demethylase, as well as others.

Gene Ontology

The mapping between Pfam and Gene Ontology is provided by InterPro. If you use this data please cite InterPro.

Domain organisation

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

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Pfam Clan

This family is a member of clan NAD_Ferredoxin (CL0091), which has the following description:

The Ferredoxin / Ferric reductase-like NAD binding domain is adopts a Rossmann like fold. However, these families have been excluded from the classical NAD(P) binding Rossmann clan (CLAN:CL0063), due to a divergence of the GxGxxG motif. In this clan, the motif phosphate binding motif is G-T/S-G-A/I-P. The changes in the motif are a reflection of the different way that the NAD(P)H is bound by this fold and the classical Rossmann fold [1,2].

The clan contains the following 4 members:

Colicin_M NAD_binding_1 NAD_binding_6 SIP

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...

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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
(35)
Full
(44089)
Representative proteomes UniProt
(171934)
RP15
(5493)
RP35
(18499)
RP55
(40121)
RP75
(70492)
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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
(35)
Full
(44089)
Representative proteomes UniProt
(171934)
RP15
(5493)
RP35
(18499)
RP55
(40121)
RP75
(70492)
Alignment:
Format:
Order:
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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
(35)
Full
(44089)
Representative proteomes UniProt
(171934)
RP15
(5493)
RP35
(18499)
RP55
(40121)
RP75
(70492)
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: Prosite
Previous IDs: oxidored_fad; NAD_binding;
Type: Domain
Sequence Ontology: SO:0000417
Author: Sonnhammer ELL
Number in seed: 35
Number in full: 44089
Average length of the domain: 107.50 aa
Average identity of full alignment: 21 %
Average coverage of the sequence by the domain: 21.93 %

HMM information View help on HMM parameters

HMM build commands:
build method: hmmbuild -o /dev/null HMM SEED
search method: hmmsearch -Z 57096847 -E 1000 --cpu 4 HMM pfamseq
Model details:
Parameter Sequence Domain
Gathering cut-off 22.0 22.0
Trusted cut-off 22.0 22.0
Noise cut-off 21.9 21.9
Model length: 109
Family (HMM) version: 23
Download: download the raw HMM for this family

Species distribution

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Archea Archea Eukaryota Eukaryota
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Viroids Viroids Unclassified sequence Unclassified sequence

Selections

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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 NAD_binding_1 domain has been found. There are 306 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.

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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
A0A0P0UXN1 View 3D Structure Click here
A0A0R0EM30 View 3D Structure Click here
A0A0R0KKK6 View 3D Structure Click here
A0A0R0L4H1 View 3D Structure Click here
A0A0R4IQG7 View 3D Structure Click here
A0A0R4J338 View 3D Structure Click here
A0A0R4J4B4 View 3D Structure Click here
A0A0R4J4Q1 View 3D Structure Click here
A0A0R4J5H2 View 3D Structure Click here
A0A0R4J5H8 View 3D Structure Click here
A0A0R4J5K2 View 3D Structure Click here
A0A1D6DVQ5 View 3D Structure Click here
A0A1D6EN30 View 3D Structure Click here
A0A1D6GKU3 View 3D Structure Click here
A0A1D6HBR0 View 3D Structure Click here
A0A1D6HF37 View 3D Structure Click here
A0A1D6HLK9 View 3D Structure Click here
A0A1D6HS61 View 3D Structure Click here
A0A1D6IAL1 View 3D Structure Click here
A0A1D6IRH5 View 3D Structure Click here
A0A1D6JVM1 View 3D Structure Click here
A0A1D6KL79 View 3D Structure Click here
A0A1D6KNG9 View 3D Structure Click here
A0A1D6L5H8 View 3D Structure Click here
A0A1D6L6S3 View 3D Structure Click here
A0A1D6LVS1 View 3D Structure Click here
A0A1D6M6Z3 View 3D Structure Click here
A0A1D6N0R1 View 3D Structure Click here
A0A1D6N0R1 View 3D Structure Click here
A0A1D6N8X4 View 3D Structure Click here
A0A1D6NAV8 View 3D Structure Click here
A0A1D6ND25 View 3D Structure Click here
A0A1D6PZA5 View 3D Structure Click here
A0A1D6Q4T9 View 3D Structure Click here
A0A1D6Q6R4 View 3D Structure Click here
A0A1D6Q9B2 View 3D Structure Click here
A0A1D6QDP6 View 3D Structure Click here
A0A1D8PIF6 View 3D Structure Click here
A0A1D8PLR7 View 3D Structure Click here
A0A1D8PTX6 View 3D Structure Click here
A0A2R8QQ95 View 3D Structure Click here
A0A368UIE7 View 3D Structure Click here
A1ZBK6 View 3D Structure Click here
A2AI05 View 3D Structure Click here
A2BIN8 View 3D Structure Click here
A3KP77 View 3D Structure Click here
A4HVN4 View 3D Structure Click here
A4HWA2 View 3D Structure Click here
A4HYH5 View 3D Structure Click here
A4HZV4 View 3D Structure Click here
A4HZV5 View 3D Structure Click here
A4I3K3 View 3D Structure Click here
A4I589 View 3D Structure Click here
A4I862 View 3D Structure Click here
A4IA43 View 3D Structure Click here
A4IAY0 View 3D Structure Click here
A4IB12 View 3D Structure Click here
A4IDQ0 View 3D Structure Click here
B1AS42 View 3D Structure Click here
B4F8I1 View 3D Structure Click here
B4FRC8 View 3D Structure Click here
B4FUM2 View 3D Structure Click here
B6TCK3 View 3D Structure Click here
C0H553 View 3D Structure Click here
C0HFL6 View 3D Structure Click here
C6KT68 View 3D Structure Click here
C6T8Y4 View 3D Structure Click here
C6TIM5 View 3D Structure Click here
C6TKA3 View 3D Structure Click here
D3ZZ05 View 3D Structure Click here
D4A0Y4 View 3D Structure Click here
D4ABT4 View 3D Structure Click here
E9AHE4 View 3D Structure Click here
F1Q7F3 View 3D Structure Click here
F1QJ75 View 3D Structure Click here
F1QML0 View 3D Structure Click here
F8W4Z6 View 3D Structure Click here
I1JCG8 View 3D Structure Click here
I1K1F4 View 3D Structure Click here
I1K9R6 View 3D Structure Click here
I1KVY3 View 3D Structure Click here
I1LEP0 View 3D Structure Click here
I1LW34 View 3D Structure Click here
I1MAM4 View 3D Structure Click here
I1MAM5 View 3D Structure Click here
I1MB07 View 3D Structure Click here
I1N5D0 View 3D Structure Click here
I1NFS6 View 3D Structure Click here
K7K479 View 3D Structure Click here
K7LAX4 View 3D Structure Click here
K7LX30 View 3D Structure Click here
K7THB1 View 3D Structure Click here
K7TVP4 View 3D Structure Click here
K7UYB6 View 3D Structure Click here
M1ZMI3 View 3D Structure Click here
O16521 View 3D Structure Click here
O16522 View 3D Structure Click here
O23877 View 3D Structure Click here
O74557 View 3D Structure Click here
O86347 View 3D Structure Click here
O94613 View 3D Structure Click here
P00387 View 3D Structure Click here
P00388 View 3D Structure Click here
P0AEN1 View 3D Structure Click here
P11035 View 3D Structure Click here
P11832 View 3D Structure Click here
P16081 View 3D Structure Click here
P16435 View 3D Structure Click here
P16603 View 3D Structure Click here
P17571 View 3D Structure Click here
P20070 View 3D Structure Click here
P24232 View 3D Structure Click here
P28861 View 3D Structure Click here
P29474 View 3D Structure Click here
P29475 View 3D Structure Click here
P29476 View 3D Structure Click here
P29477 View 3D Structure Click here
P35228 View 3D Structure Click here
P36060 View 3D Structure Click here
P36587 View 3D Structure Click here
P37040 View 3D Structure Click here
P38038 View 3D Structure Click here
P38626 View 3D Structure Click here
P39692 View 3D Structure Click here
P39870 View 3D Structure Click here
P39871 View 3D Structure Click here
P41344 View 3D Structure Click here
P41345 View 3D Structure Click here
P49102 View 3D Structure Click here
P54233 View 3D Structure Click here
P70313 View 3D Structure Click here
P71846 View 3D Structure Click here
P75824 View 3D Structure Click here
P76081 View 3D Structure Click here
P76254 View 3D Structure Click here
P83291 View 3D Structure Click here
P95277 View 3D Structure Click here
P9WJ93 View 3D Structure Click here
P9WNE9 View 3D Structure Click here
Q04516 View 3D Structure Click here
Q06518 View 3D Structure Click here
Q09590 View 3D Structure Click here
Q09744 View 3D Structure Click here
Q09878 View 3D Structure Click here
Q0J705 View 3D Structure Click here
Q0P487 View 3D Structure Click here
Q12181 View 3D Structure Click here
Q12746 View 3D Structure Click here
Q17574 View 3D Structure Click here
Q27571 View 3D Structure Click here
Q27597 View 3D Structure Click here
Q2FUZ8 View 3D Structure Click here
Q3KNK3 View 3D Structure Click here
Q3TDX8 View 3D Structure Click here
Q498R1 View 3D Structure Click here
Q4CKI1 View 3D Structure Click here
Q4CL36 View 3D Structure Click here
Q4CM25 View 3D Structure Click here
Q4CMU8 View 3D Structure Click here
Q4CYX1 View 3D Structure Click here
Q4CZM5 View 3D Structure Click here
Q4D0C0 View 3D Structure Click here
Q4D2L9 View 3D Structure Click here
Q4D617 View 3D Structure Click here
Q4D778 View 3D Structure Click here
Q4D779 View 3D Structure Click here
Q4DA15 View 3D Structure Click here
Q4DA56 View 3D Structure Click here
Q4DEP6 View 3D Structure Click here
Q4DHD7 View 3D Structure Click here
Q4DL41 View 3D Structure Click here
Q4DLF5 View 3D Structure Click here
Q4DLP7 View 3D Structure Click here
Q4DM92 View 3D Structure Click here
Q4DNM4 View 3D Structure Click here
Q4DPU7 View 3D Structure Click here
Q4DRG8 View 3D Structure Click here
Q4DS22 View 3D Structure Click here
Q4DYC3 View 3D Structure Click here
Q502I6 View 3D Structure Click here
Q54B10 View 3D Structure Click here
Q54D73 View 3D Structure Click here
Q54JL0 View 3D Structure Click here
Q54L96 View 3D Structure Click here
Q54NC1 View 3D Structure Click here
Q54XV1 View 3D Structure Click here
Q55CT1 View 3D Structure Click here
Q55G48 View 3D Structure Click here
Q58841 View 3D Structure Click here
Q59M70 View 3D Structure Click here
Q59MV6 View 3D Structure Click here
Q59MV9 View 3D Structure Click here
Q59P03 View 3D Structure Click here
Q5AD27 View 3D Structure Click here
Q5EB81 View 3D Structure Click here
Q5JL61 View 3D Structure Click here
Q5N760 View 3D Structure Click here
Q5VR12 View 3D Structure Click here
Q62600 View 3D Structure Click here
Q653S9 View 3D Structure Click here
Q68EJ0 View 3D Structure Click here
Q6AVN1 View 3D Structure Click here
Q6AY12 View 3D Structure Click here
Q6BCY4 View 3D Structure Click here
Q6IPT4 View 3D Structure Click here
Q6NPS8 View 3D Structure Click here
Q6NYE6 View 3D Structure Click here
Q6PFP6 View 3D Structure Click here
Q6Z6B5 View 3D Structure Click here
Q6ZC33 View 3D Structure Click here
Q6ZFJ3 View 3D Structure Click here
Q6ZHH7 View 3D Structure Click here
Q7ARS9 View 3D Structure Click here
Q7L1T6 View 3D Structure Click here
Q7X7K8 View 3D Structure Click here
Q8C1A3 View 3D Structure Click here
Q8ID33 View 3D Structure Click here
Q8VE38 View 3D Structure Click here
Q8W493 View 3D Structure Click here
Q96HP4 View 3D Structure Click here
Q9DB73 View 3D Structure Click here
Q9DCN2 View 3D Structure Click here
Q9FKW6 View 3D Structure Click here
Q9M0V6 View 3D Structure Click here
Q9S9P8 View 3D Structure Click here
Q9SB48 View 3D Structure Click here
Q9SLP6 View 3D Structure Click here
Q9SUM3 View 3D Structure Click here
Q9SYR0 View 3D Structure Click here
Q9UAG7 View 3D Structure Click here
Q9UBK8 View 3D Structure Click here
Q9UHB4 View 3D Structure Click here
Q9UHQ9 View 3D Structure Click here
Q9URY5 View 3D Structure Click here
Q9US28 View 3D Structure Click here
Q9VEV2 View 3D Structure Click here
Q9VSJ5 View 3D Structure Click here
Q9XI55 View 3D Structure Click here
Q9XWF1 View 3D Structure Click here
Q9Z0J4 View 3D Structure Click here
Q9ZNT1 View 3D Structure Click here
X2JGK6 View 3D Structure Click here