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Conserved domains on  [gi|42569568|ref|NP_180823|]
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Lycopene beta/epsilon cyclase protein [Arabidopsis thaliana]

Protein Classification

Rossmann-fold NAD(P)-binding domain-containing protein( domain architecture ID 229380)

Rossmann-fold NAD(P)-binding domain-containing protein may function as an oxidoreductase

Graphical summary

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List of domain hits

 Name Accession Description Interval E-value
PRK07608 super family cl32230
UbiH/UbiF family hydroxylase;
111-140 2.12e-03

UbiH/UbiF family hydroxylase;


The actual alignment was detected with superfamily member PRK07608:

Pssm-ID: 181057 [Multi-domain]  Cd Length: 388  Bit Score: 40.71  E-value: 2.12e-03
                         10        20        30
                 ....*....|....*....|....*....|.
gi 42569568  111 TFDIVVCGGTL-GIFLATALCAKGLRVAVVE 140
Cdd:PRK07608   5 KFDVVVVGGGLvGASLALALAQSGLRVALLA 35
NADB_Rossmann super family cl21454
Rossmann-fold NAD(P)(+)-binding proteins; A large family of proteins that share a ...
 114-175 4.75e-03

Rossmann-fold NAD(P)(+)-binding proteins; A large family of proteins that share a Rossmann-fold NAD(P)H/NAD(P)(+) binding (NADB) domain. The NADB domain is found in numerous dehydrogenases of metabolic pathways such as glycolysis, and many other redox enzymes. NAD binding involves numerous hydrogen-bonds and van der Waals contacts, in particular H-bonding of residues in a turn between the first strand and the subsequent helix of the Rossmann-fold topology. Characteristically, this turn exhibits a consensus binding pattern similar to GXGXXG, in which the first 2 glycines participate in NAD(P)-binding, and the third facilitates close packing of the helix to the beta-strand. Typically, proteins in this family contain a second domain in addition to the NADB domain, which is responsible for specifically binding a substrate and catalyzing a particular enzymatic reaction.


The actual alignment was detected with superfamily member pfam00070:

Pssm-ID: 473865 [Multi-domain]  Cd Length: 80  Bit Score: 36.41  E-value: 4.75e-03
                          10        20        30        40        50        60
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*.
gi 42569568   114 IVVCGGTLGIFLATALCAKGLRVAVVERNA--IKGRDQEwnISRKEMKELTE--VRVLTEDEIEEV 175
Cdd:pfam00070   3 VVVGGGYIGLELAGALARLGSKVTVVERRDrlLPGFDPE--IAKILQEKLEKngIEFLLNTTVEAI 66
 
Name Accession Description Interval E-value
PRK07608 PRK07608
UbiH/UbiF family hydroxylase;
111-140 2.12e-03

UbiH/UbiF family hydroxylase;


Pssm-ID: 181057 [Multi-domain]  Cd Length: 388  Bit Score: 40.71  E-value: 2.12e-03
                         10        20        30
                 ....*....|....*....|....*....|.
gi 42569568  111 TFDIVVCGGTL-GIFLATALCAKGLRVAVVE 140
Cdd:PRK07608   5 KFDVVVVGGGLvGASLALALAQSGLRVALLA 35
Pyr_redox pfam00070
Pyridine nucleotide-disulphide oxidoreductase; This family includes both class I and class II ...
 114-175 4.75e-03

Pyridine nucleotide-disulphide oxidoreductase; This family includes both class I and class II oxidoreductases and also NADH oxidases and peroxidases. This domain is actually a small NADH binding domain within a larger FAD binding domain.


Pssm-ID: 425450 [Multi-domain]  Cd Length: 80  Bit Score: 36.41  E-value: 4.75e-03
                          10        20        30        40        50        60
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*.
gi 42569568   114 IVVCGGTLGIFLATALCAKGLRVAVVERNA--IKGRDQEwnISRKEMKELTE--VRVLTEDEIEEV 175
Cdd:pfam00070   3 VVVGGGYIGLELAGALARLGSKVTVVERRDrlLPGFDPE--IAKILQEKLEKngIEFLLNTTVEAI 66
 
Name Accession Description Interval E-value
PRK07608 PRK07608
UbiH/UbiF family hydroxylase;
111-140 2.12e-03

UbiH/UbiF family hydroxylase;


Pssm-ID: 181057 [Multi-domain]  Cd Length: 388  Bit Score: 40.71  E-value: 2.12e-03
                         10        20        30
                 ....*....|....*....|....*....|.
gi 42569568  111 TFDIVVCGGTL-GIFLATALCAKGLRVAVVE 140
Cdd:PRK07608   5 KFDVVVVGGGLvGASLALALAQSGLRVALLA 35
Pyr_redox pfam00070
Pyridine nucleotide-disulphide oxidoreductase; This family includes both class I and class II ...
 114-175 4.75e-03

Pyridine nucleotide-disulphide oxidoreductase; This family includes both class I and class II oxidoreductases and also NADH oxidases and peroxidases. This domain is actually a small NADH binding domain within a larger FAD binding domain.


Pssm-ID: 425450 [Multi-domain]  Cd Length: 80  Bit Score: 36.41  E-value: 4.75e-03
                          10        20        30        40        50        60
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*.
gi 42569568   114 IVVCGGTLGIFLATALCAKGLRVAVVERNA--IKGRDQEwnISRKEMKELTE--VRVLTEDEIEEV 175
Cdd:pfam00070   3 VVVGGGYIGLELAGALARLGSKVTVVERRDrlLPGFDPE--IAKILQEKLEKngIEFLLNTTVEAI 66
 
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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