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FMN-binding split barrel superfamily

SCOP classification
Root:   SCOP hierarchy in SUPERFAMILY [ 0] (11)
Class:   All beta proteins [ 48724] (174)
Fold:   Split barrel-like [ 50474] (3)
Superfamily:   FMN-binding split barrel [ 50475] (4)
Families:   PNP-oxidase like [ 50476] (16)
  NADH:FMN oxidoreductase-like [ 50482] (5)
  UbiD middle domain-like [ 141368]
  MTH863-like [ 159164] (3)


Superfamily statistics
Genomes (3,007) Uniprot 2017_06 genome PDB chains (SCOP 1.75)
Domains 19,165 123,004 34
Proteins 18,989 122,239 34


Functional annotation
General category Metabolism
Detailed category Coenzyme metabolism and transport

Document:
Function annotation of SCOP domain superfamilies

Gene Ontology (high-quality)

(show details)
GO termFDR (singleton)FDR (all)SDFO levelAnnotation (direct or inherited)
Biological Process (BP)organonitrogen compound metabolic process0.55120.8495Least InformativeInherited
Biological Process (BP)cellular nitrogen compound metabolic process0.069470.2542Least InformativeInherited
Biological Process (BP)single-organism cellular process11Least InformativeInherited
Biological Process (BP)heterocycle metabolic process0.0290.1186Least InformativeInherited
Biological Process (BP)single-organism metabolic process0.36230.08371Least InformativeInherited
Biological Process (BP)biosynthetic process0.25990.2856Least InformativeInherited
Biological Process (BP)organic cyclic compound metabolic process0.0065780.0146Least InformativeInherited
Biological Process (BP)cellular aromatic compound metabolic process0.012920.02413Least InformativeInherited
Biological Process (BP)aromatic compound biosynthetic process0.00034620.0004364Moderately InformativeDirect
Biological Process (BP)organic cyclic compound biosynthetic process0.00067710.000738Moderately InformativeDirect
Biological Process (BP)heterocycle biosynthetic process0.0010740.0006525Moderately InformativeInherited
Biological Process (BP)organophosphate biosynthetic process0.004250.001726Moderately InformativeInherited
Biological Process (BP)small molecule biosynthetic process0.032340.006613Moderately InformativeInherited
Biological Process (BP)cofactor metabolic process0.039650.0005852Moderately InformativeInherited
Biological Process (BP)cellular aldehyde metabolic process0.000033570.0000003993InformativeDirect
Biological Process (BP)coenzyme biosynthetic process0.00059610.0009299InformativeDirect
Biological Process (BP)pyridine-containing compound metabolic process0.000000040090.000000000427InformativeDirect
Biological Process (BP)organic hydroxy compound biosynthetic process0.0000031950.000001745InformativeDirect
Biological Process (BP)water-soluble vitamin biosynthetic process0.50640.2992InformativeInherited
Biological Process (BP)vitamin B6 metabolic process0.000000000000023470Highly InformativeDirect
Biological Process (BP)pyridine-containing compound biosynthetic process0.000000045940.0000000001557Highly InformativeDirect
Molecular Function (MF)binding0.47991Least InformativeInherited
Molecular Function (MF)oxidoreductase activity0.000000021230.000000007291Moderately InformativeDirect
Molecular Function (MF)small molecule binding0.000014790.0000816Moderately InformativeDirect
Molecular Function (MF)carbohydrate derivative binding0.000080520.0004615Moderately InformativeDirect
Molecular Function (MF)anion binding0.000019710.001758Moderately InformativeInherited
Molecular Function (MF)identical protein binding0.000030.0008385InformativeDirect
Molecular Function (MF)protein dimerization activity0.0000020770.0009137InformativeDirect
Molecular Function (MF)ribonucleotide binding0.43080.4179InformativeInherited
Molecular Function (MF)FMN binding0.0000000018860.00000000001089Highly InformativeDirect
Molecular Function (MF)oxidoreductase activity, acting on the CH-NH2 group of donors0.00000000000019650.0000000000003304Highly InformativeDirect
Molecular Function (MF)oxidoreductase activity, acting on the CH-NH group of donors0.00000046160.000008712Highly InformativeDirect
Molecular Function (MF)protein homodimerization activity0.00000031820.000867Highly InformativeDirect
Cellular Component (CC)external encapsulating structure0.0010720.0008206InformativeInherited

Document: GO annotation of SCOP domains

Gene Ontology (high-coverage)

(show details)
GO term FDR (all) SDFO level Annotation (direct or inherited)
Biological Process (BP) organonitrogen compound metabolic process 0.8495 Least Informative Inherited
Biological Process (BP) cellular nitrogen compound metabolic process 0.2542 Least Informative Inherited
Biological Process (BP) single-organism cellular process 1 Least Informative Inherited
Biological Process (BP) heterocycle metabolic process 0.1186 Least Informative Inherited
Biological Process (BP) single-organism metabolic process 0.08371 Least Informative Inherited
Biological Process (BP) biosynthetic process 0.2856 Least Informative Inherited
Biological Process (BP) organic cyclic compound metabolic process 0.0146 Least Informative Inherited
Biological Process (BP) cellular aromatic compound metabolic process 0.02413 Least Informative Inherited
Biological Process (BP) heterocycle biosynthetic process 0.0006525 Moderately Informative Direct
Biological Process (BP) aromatic compound biosynthetic process 0.0004364 Moderately Informative Direct
Biological Process (BP) cofactor metabolic process 0.0005852 Moderately Informative Direct
Biological Process (BP) organic cyclic compound biosynthetic process 0.000738 Moderately Informative Direct
Biological Process (BP) organophosphate biosynthetic process 0.001726 Moderately Informative Inherited
Biological Process (BP) small molecule biosynthetic process 0.006613 Moderately Informative Inherited
Biological Process (BP) cellular aldehyde metabolic process 0.0000003993 Informative Direct
Biological Process (BP) coenzyme biosynthetic process 0.0009299 Informative Direct
Biological Process (BP) pyridine-containing compound metabolic process 0.000000000427 Informative Direct
Biological Process (BP) organic hydroxy compound biosynthetic process 0.000001745 Informative Direct
Biological Process (BP) water-soluble vitamin biosynthetic process 0.2992 Informative Inherited
Biological Process (BP) vitamin B6 metabolic process 0 Highly Informative Direct
Biological Process (BP) pyridine-containing compound biosynthetic process 0.0000000001557 Highly Informative Direct
Molecular Function (MF) binding 1 Least Informative Inherited
Molecular Function (MF) oxidoreductase activity 0.000000007291 Moderately Informative Direct
Molecular Function (MF) small molecule binding 0.0000816 Moderately Informative Direct
Molecular Function (MF) carbohydrate derivative binding 0.0004615 Moderately Informative Direct
Molecular Function (MF) anion binding 0.001758 Moderately Informative Inherited
Molecular Function (MF) identical protein binding 0.0008385 Informative Direct
Molecular Function (MF) protein dimerization activity 0.0009137 Informative Direct
Molecular Function (MF) ribonucleotide binding 0.4179 Informative Inherited
Molecular Function (MF) FMN binding 0.00000000001089 Highly Informative Direct
Molecular Function (MF) oxidoreductase activity, acting on the CH-NH2 group of donors 0.0000000000003304 Highly Informative Direct
Molecular Function (MF) oxidoreductase activity, acting on the CH-NH group of donors 0.000008712 Highly Informative Direct
Molecular Function (MF) protein homodimerization activity 0.000867 Highly Informative Direct
Cellular Component (CC) external encapsulating structure 0.0008206 Informative Direct

Document: GO annotation of SCOP domains

Enzyme Commission (EC)

(show details)
EC termFDR (all)SDEO levelAnnotation (direct or inherited)
Enzyme Commission (EC)Oxidoreductases0Least InformativeDirect
Enzyme Commission (EC)Acting on the CH-NH group of donors0.000000000001171Moderately InformativeDirect
Enzyme Commission (EC)With NAD(+) or NADP(+) as acceptor0InformativeDirect
Enzyme Commission (EC)With oxygen as acceptor0InformativeDirect

Document: EC annotation of SCOP domains

UniProtKB KeyWords (KW)

(show details)
KW termFDR (all)SDKW levelAnnotation (direct or inherited)
Biological processAromatic hydrocarbons catabolism0.0000000000004351InformativeDirect
Cellular componentMembrane0.00000001703Least InformativeDirect
Cellular componentCell membrane0Moderately InformativeDirect
Molecular functionFlavoprotein0Moderately InformativeDirect
Molecular functionManganese0Moderately InformativeDirect
Molecular functionNAD0.0007849Moderately InformativeDirect
Molecular functionFMN0InformativeDirect
Post-translational modificationOxidoreductase0Moderately InformativeDirect
Post-translational modificationLyase0Moderately InformativeDirect
Post-translational modificationDecarboxylase0Highly InformativeDirect

Document: KW annotation of SCOP domains

InterPro annotation
Cross references IPR009002 SSF50475 Protein matches
Abstract

Sulphate-reducing bacteria possess many redox proteins including some flavoproteins. Flavodoxins are a group of proteins with a tightly bound flavin mononucleotide (FMN) that mediate electron transfer at low redox potential. A novel FMN-binding protein from Desulphovibrio vulgaris has been cloned and crystallised and shown to be composed of 122 amino acids making it the smallest of the known proteins which bind FMN [PubMed10713530]. The exact function of this protein is unknown but it may take part in the electron-transfer pathway. The structure has been shown to contain a FMN-binding split barrel, which is related to the ferredoxin reductase-like FAD-binding domain.


InterPro database


PDBeMotif information about ligands, sequence and structure motifs
Cross references PDB entries
Ligand binding statistics
Nucleic-acid binding statistics
Occurrence of secondary structure elements
Occurrence of small 3D structural motifs

PDBeMotif resource

Jump to [ Top of page · SCOP classification · InterPro annotation · PDBeMotif links · Functional annotation · Gene Ontology (high-quality) · Gene Ontology (high-coverage) · Enzyme Commission (EC) · UniProtKB KeyWords (KW) ]

Internal database links

Browse genome assignments for this superfamily. The SUPERFAMILY hidden Markov model library has been used to carry out SCOP domain assignments to all genomes at the superfamily level.


Alignments of sequences to 30 models in this superfamily are available by clicking on the 'Alignments' icon above. PDB sequences less than 40% identical are shown by default, but any other sequence(s) may be aligned. Select PDB sequences, genome sequences, or paste in or upload your own sequences.


Browse and view proteins in genomes which have different domain combinations including a FMN-binding split barrel domain.


Examine the distribution of domain superfamilies, or families, across the major taxonomic kingdoms or genomes within a kingdom. This gives an immediate impression of how superfamilies, or families, are restricted to certain kingdoms of life.


Explore domain occurrence network where nodes represent genomes and edges are domain architectures (shared between genomes) containing the superfamily of interest.

There are 30 hidden Markov models representing the FMN-binding split barrel superfamily. Information on how the models are built, and plots showing hydrophobicity, match emmission probabilities and insertion/deletion probabilities can be inspected.


Jump to [ Top of page · SCOP classification · InterPro annotation · PDBeMotif links · Functional annotation · Gene Ontology (high-quality) · Gene Ontology (high-coverage) · Enzyme Commission (EC) · UniProtKB KeyWords (KW) · Internal database links ]