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Riboflavin synthase domain-like superfamily

SCOP classification
Root:   SCOP hierarchy in SUPERFAMILY [ 0] (11)
Class:   All beta proteins [ 48724] (174)
Fold:   Reductase/isomerase/elongation factor common domain [ 50412] (4)
Superfamily:   Riboflavin synthase domain-like [ 63380] (3)
Families:   Riboflavin synthase [ 63783]
  Ferredoxin reductase FAD-binding domain-like [ 63381] (9)
  NADPH-cytochrome p450 reductase FAD-binding domain-like [ 50438] (3)


Superfamily statistics
Genomes (3,025) Uniprot 2018_03 genome PDB chains (SCOP 1.75)
Domains 25,880 0 62
Proteins 23,267 0 60


Functional annotation
General category Metabolism
Detailed category Coenzyme metabolism and transport

Document:
Function annotation of SCOP domain superfamilies

Enzyme Commission (EC)

(show details)
EC termFDR (all)SDEO levelAnnotation (direct or inherited)
Enzyme Commission (EC)Oxidoreductases0Least InformativeDirect
Enzyme Commission (EC)Acting on NADH or NADPH0Moderately InformativeDirect
Enzyme Commission (EC)Acting on paired donors, with incorporation or red0Moderately InformativeDirect
Enzyme Commission (EC)Acting on a sulfur group of donors0.000000000000007826Moderately InformativeDirect
Enzyme Commission (EC)Transferring alkyl or aryl groups, other than meth1Moderately InformativeInherited
Enzyme Commission (EC)With NAD(+) or NADP(+) as acceptor0InformativeDirect
Enzyme Commission (EC)With NAD(+) or NADP(+) as acceptor0InformativeDirect
Enzyme Commission (EC)Acting on iron-sulfur proteins as donors0InformativeDirect
Enzyme Commission (EC)Oxidizing metal ions0.00000000001461InformativeDirect
Enzyme Commission (EC)With NADH or NADPH as one donor, and incorporation0.06286InformativeInherited
Enzyme Commission (EC)With NAD(+) or NADP(+) as acceptor0Highly InformativeDirect
Enzyme Commission (EC)Sulfite reductase (NADPH)0Highly InformativeDirect
Enzyme Commission (EC)Nitric-oxide synthase0Highly InformativeDirect
Enzyme Commission (EC)With a heme protein as acceptor0Highly InformativeDirect
Enzyme Commission (EC)Nitrate reductase (NADH)0Highly InformativeDirect
Enzyme Commission (EC)Nitric oxide dioxygenase0.000000000001117Highly InformativeDirect
Enzyme Commission (EC)Nitrate reductase (NADPH)0.0000000004944Highly InformativeDirect
Enzyme Commission (EC)With a oxygen as acceptor0.000000004206Highly InformativeDirect

Document: EC annotation of SCOP domains

Disease Ontology (DO)

(show details)
DO termFDR (all)SDDO levelAnnotation (direct or inherited)
Disease Ontology (DO)nervous system disease0.689Least InformativeInherited
Disease Ontology (DO)artery disease0.006836Moderately InformativeInherited
Disease Ontology (DO)endocrine system disease0.01797Moderately InformativeInherited
Disease Ontology (DO)brain disease0.1501Moderately InformativeInherited
Disease Ontology (DO)disease by infectious agent0.2252Moderately InformativeInherited
Disease Ontology (DO)lower respiratory tract disease0.8572Moderately InformativeInherited
Disease Ontology (DO)allergic rhinitis0.0000225InformativeDirect
Disease Ontology (DO)parasitic protozoa infectious disease0.00005709InformativeDirect
Disease Ontology (DO)migraine0.0001907InformativeDirect
Disease Ontology (DO)hypertension0.0006168InformativeDirect
Disease Ontology (DO)primary immunodeficiency disease0.06442InformativeInherited
Disease Ontology (DO)phagocyte bactericidal dysfunction0.0000004488Highly InformativeDirect
Disease Ontology (DO)hypothyroidism0.00003237Highly InformativeDirect

Document: DO annotation of SCOP domains

Mouse Phenotype (MP)

(show details)
MP termFDR (all)SDMP levelAnnotation (direct or inherited)
Mammalian Phenotype (MP)growth/size/body region phenotype0.01361Least InformativeInherited
Mammalian Phenotype (MP)cardiovascular system phenotype0.01932Least InformativeInherited
Mammalian Phenotype (MP)nervous system phenotype0.06744Least InformativeInherited
Mammalian Phenotype (MP)cellular phenotype0.2215Least InformativeInherited
Mammalian Phenotype (MP)immune system phenotype0.3371Least InformativeInherited
Mammalian Phenotype (MP)abnormal homeostasis0.4217Least InformativeInherited
Mammalian Phenotype (MP)mortality/aging0.4991Least InformativeInherited
Mammalian Phenotype (MP)hematopoietic system phenotype0.5304Least InformativeInherited
Mammalian Phenotype (MP)abnormal induced morbidity/mortality0.000884Moderately InformativeDirect
Mammalian Phenotype (MP)abnormal cardiovascular system physiology0.001753Moderately InformativeInherited
Mammalian Phenotype (MP)abnormal postnatal growth/weight/body size0.002194Moderately InformativeInherited
Mammalian Phenotype (MP)abnormal inflammatory response0.0175Moderately InformativeInherited
Mammalian Phenotype (MP)respiratory system phenotype0.02354Moderately InformativeInherited
Mammalian Phenotype (MP)abnormal hormone level0.0257Moderately InformativeInherited
Mammalian Phenotype (MP)abnormal cell death0.05307Moderately InformativeInherited
Mammalian Phenotype (MP)liver/biliary system phenotype0.05628Moderately InformativeInherited
Mammalian Phenotype (MP)abnormal nervous system physiology0.1003Moderately InformativeInherited
Mammalian Phenotype (MP)abnormal lipid homeostasis0.1231Moderately InformativeInherited
Mammalian Phenotype (MP)abnormal renal/urinary system physiology0.1429Moderately InformativeInherited
Mammalian Phenotype (MP)abnormal skeleton morphology0.1833Moderately InformativeInherited
Mammalian Phenotype (MP)abnormal heart morphology0.2277Moderately InformativeInherited
Mammalian Phenotype (MP)abnormal protein level0.2624Moderately InformativeInherited
Mammalian Phenotype (MP)abnormal myeloid cell morphology0.2846Moderately InformativeInherited
Mammalian Phenotype (MP)abnormal mononuclear cell morphology0.2883Moderately InformativeInherited
Mammalian Phenotype (MP)abnormal blood vessel morphology0.3446Moderately InformativeInherited
Mammalian Phenotype (MP)abnormal hematopoietic cell number0.3794Moderately InformativeInherited
Mammalian Phenotype (MP)abnormal muscle physiology0.4678Moderately InformativeInherited
Mammalian Phenotype (MP)abnormal muscle morphology0.4745Moderately InformativeInherited
Mammalian Phenotype (MP)abnormal digestive system morphology0.486Moderately InformativeInherited
Mammalian Phenotype (MP)abnormal renal/urinary system morphology0.7423Moderately InformativeInherited
Mammalian Phenotype (MP)abnormal behavior1Moderately InformativeInherited
Mammalian Phenotype (MP)abnormal stomach morphology0.00005516InformativeDirect
Mammalian Phenotype (MP)abnormal kidney physiology0.0001311InformativeDirect
Mammalian Phenotype (MP)abnormal sensitivity to induced morbidity/mortality0.0002852InformativeDirect
Mammalian Phenotype (MP)abnormal amino acid level0.0005681InformativeDirect
Mammalian Phenotype (MP)impaired muscle contractility0.0006321InformativeDirect
Mammalian Phenotype (MP)abnormal lung morphology0.0007118InformativeDirect
Mammalian Phenotype (MP)abnormal bone ossification0.001259InformativeInherited
Mammalian Phenotype (MP)abnormal systemic arterial blood pressure0.001458InformativeInherited
Mammalian Phenotype (MP)abnormal renal tubule morphology0.003438InformativeInherited
Mammalian Phenotype (MP)abnormal blood coagulation0.003657InformativeInherited
Mammalian Phenotype (MP)abnormal cholesterol level0.003996InformativeInherited
Mammalian Phenotype (MP)abnormal consumption behavior0.005611InformativeInherited
Mammalian Phenotype (MP)abnormal renal corpuscle morphology0.00764InformativeInherited
Mammalian Phenotype (MP)abnormal response to injury0.01166InformativeInherited
Mammalian Phenotype (MP)abnormal blood vessel physiology0.01647InformativeInherited
Mammalian Phenotype (MP)abnormal circulating lipid level0.02048InformativeInherited
Mammalian Phenotype (MP)abnormal cardiac muscle contractility0.02214InformativeInherited
Mammalian Phenotype (MP)abnormal circulating lipoprotein level0.02322InformativeInherited
Mammalian Phenotype (MP)abnormal smooth muscle morphology0.02599InformativeInherited
Mammalian Phenotype (MP)abnormal urine homeostasis0.0316InformativeInherited
Mammalian Phenotype (MP)abnormal gas homeostasis0.04006InformativeInherited
Mammalian Phenotype (MP)abnormal ion homeostasis0.04532InformativeInherited
Mammalian Phenotype (MP)abnormal phagocyte morphology0.06429InformativeInherited
Mammalian Phenotype (MP)abnormal heart ventricle morphology0.07143InformativeInherited
Mammalian Phenotype (MP)abnormal pituitary hormone level0.09926InformativeInherited
Mammalian Phenotype (MP)abnormal heartbeat0.1016InformativeInherited
Mammalian Phenotype (MP)abnormal circulating enzyme level0.1072InformativeInherited
Mammalian Phenotype (MP)increased leukocyte cell number0.1236InformativeInherited
Mammalian Phenotype (MP)abnormal intestine physiology0.1683InformativeInherited
Mammalian Phenotype (MP)abnormal white adipose tissue morphology0.212InformativeInherited
Mammalian Phenotype (MP)increased apoptosis0.2492InformativeInherited
Mammalian Phenotype (MP)abnormal adipose tissue amount0.3487InformativeInherited
Mammalian Phenotype (MP)pyloric sphincter hypertrophy0.000000001843Highly InformativeDirect
Mammalian Phenotype (MP)glomerular capillary thrombosis0.000000009026Highly InformativeDirect
Mammalian Phenotype (MP)decreased urine sodium level0.0000000123Highly InformativeDirect
Mammalian Phenotype (MP)perivascular fibrosis0.00000007736Highly InformativeDirect
Mammalian Phenotype (MP)abnormal nitric oxide homeostasis0.0000001165Highly InformativeDirect
Mammalian Phenotype (MP)decreased systemic arterial blood pressure0.0000001363Highly InformativeDirect
Mammalian Phenotype (MP)increased blood osmolality0.000000231Highly InformativeDirect
Mammalian Phenotype (MP)increased renal tubule apoptosis0.0000007329Highly InformativeDirect
Mammalian Phenotype (MP)renal tubular necrosis0.0000007329Highly InformativeDirect
Mammalian Phenotype (MP)increased prostaglandin level0.0000007329Highly InformativeDirect
Mammalian Phenotype (MP)liver vascular congestion0.000002685Highly InformativeDirect
Mammalian Phenotype (MP)polydipsia0.000005539Highly InformativeDirect
Mammalian Phenotype (MP)pulmonary vascular congestion0.000007519Highly InformativeDirect
Mammalian Phenotype (MP)decreased adiponectin level0.000009992Highly InformativeDirect
Mammalian Phenotype (MP)increased white adipose tissue amount0.00002265Highly InformativeDirect
Mammalian Phenotype (MP)thick ventricular wall0.00002596Highly InformativeDirect
Mammalian Phenotype (MP)hypertension0.00003601Highly InformativeDirect
Mammalian Phenotype (MP)abnormal blood-brain barrier function0.0000365Highly InformativeDirect
Mammalian Phenotype (MP)increased circulating LDL cholesterol level0.00004063Highly InformativeDirect
Mammalian Phenotype (MP)cardiac interstitial fibrosis0.00004063Highly InformativeDirect
Mammalian Phenotype (MP)abnormal bone mineralization0.00005068Highly InformativeDirect
Mammalian Phenotype (MP)increased circulating alkaline phosphatase level0.00005199Highly InformativeDirect
Mammalian Phenotype (MP)increased systemic arterial systolic blood pressure0.00006008Highly InformativeDirect
Mammalian Phenotype (MP)increased osteoclast cell number0.00006659Highly InformativeDirect
Mammalian Phenotype (MP)cardiac hypertrophy0.00008684Highly InformativeDirect
Mammalian Phenotype (MP)glomerulosclerosis0.00009744Highly InformativeDirect
Mammalian Phenotype (MP)abnormal heart ventricle pressure0.00009796Highly InformativeDirect
Mammalian Phenotype (MP)increased circulating creatinine level0.0001347Highly InformativeDirect
Mammalian Phenotype (MP)increased circulating pituitary hormone level0.0002493Highly InformativeDirect
Mammalian Phenotype (MP)abnormal heart left ventricle size0.000391Highly InformativeDirect
Mammalian Phenotype (MP)abnormal blood flow velocity0.0004917Highly InformativeDirect
Mammalian Phenotype (MP)reduced long term potentiation0.0006115Highly InformativeDirect
Mammalian Phenotype (MP)decreased heart rate0.0006115Highly InformativeDirect
Mammalian Phenotype (MP)increased blood urea nitrogen level0.0008029Highly InformativeDirect
Mammalian Phenotype (MP)altered response to CNS ischemic injury0.001363Highly InformativeInherited
Mammalian Phenotype (MP)increased heart ventricle size0.1109Highly InformativeInherited
Mammalian Phenotype (MP)decreased susceptibility to injury0.1161Highly InformativeInherited

Document: MP annotation of SCOP domains

Worm Phenotype (WP)

(show details)
WP termFDR (all)SDWP levelAnnotation (direct or inherited)
Worm Phenotype (WP)cell morphology variant0.001644Least InformativeInherited
Worm Phenotype (WP)organism metabolism processing variant0.007479Least InformativeInherited
Worm Phenotype (WP)cell component morphology variant0.0002419Moderately InformativeDirect
Worm Phenotype (WP)protein expression variant0.106Moderately InformativeInherited
Worm Phenotype (WP)pattern protein expression variant0.0002773InformativeDirect
Worm Phenotype (WP)endosome morphology variant0.0009954InformativeDirect
Worm Phenotype (WP)lysosome-related organelle morphology variant0.0006293Highly InformativeDirect

Document: WP annotation of SCOP domains

Yeast Phenotype (YP)

(show details) Document: YP annotation of SCOP domains

Fly Phenotype (FP)

(show details) Document: FP annotation of SCOP domains

Fly Anatomy (FA)

(show details) Document: FA annotation of SCOP domains

Xenopus Anatomy (XA)

(show details) Document: XA annotation of SCOP domains

Arabidopsis Plant Ontology (AP)

(show details) Document: AP annotation of SCOP domains

Enzyme Commission (EC)

(show details)
EC termFDR (all)SDEC levelAnnotation (direct or inherited)
Enzyme Commission (EC)Oxidoreductases0Least InformativeDirect
Enzyme Commission (EC)Acting on paired donors, with incorporation or reduction of molecular oxygen. The oxygen incorporate0InformativeDirect
Enzyme Commission (EC)Acting on NADH or NADPH0InformativeDirect
Enzyme Commission (EC)Acting on a sulfur group of donors0.000000000003604InformativeDirect
Enzyme Commission (EC)Acting on other nitrogenous compounds as donors0.0000009914InformativeDirect
Enzyme Commission (EC)Transferring alkyl or aryl groups, other than methyl groups1InformativeInherited
Enzyme Commission (EC)With NADH or NADPH as one donor, and incorporation of two atoms of oxygen into one donor0Highly InformativeDirect
Enzyme Commission (EC)Oxidizing metal ions0Highly InformativeDirect
Enzyme Commission (EC)Acting on iron-sulfur proteins as donors0Highly InformativeDirect
Enzyme Commission (EC)With a heme protein as acceptor0Highly InformativeDirect
Enzyme Commission (EC)With NAD(+) or NADP(+) as acceptor0Highly InformativeDirect
Enzyme Commission (EC)With NAD(+) or NADP(+) as acceptor0Highly InformativeDirect
Enzyme Commission (EC)With NADH or NADPH as one donor, and incorporation of one atom of oxygen0.07242Highly InformativeInherited
Enzyme Commission (EC)With reduced flavin or flavoprotein as one donor, and incorporation of one atom of oxygen1Highly InformativeInherited

Document: EC annotation of SCOP domains

UniProtKB KeyWords (KW)

(show details)
KW termFDR (all)SDKW levelAnnotation (direct or inherited)
Biological processTransport0Least InformativeDirect
Biological processLipid metabolism0.0004213Moderately InformativeDirect
Biological processAmino-acid biosynthesis0.0004839Moderately InformativeDirect
Biological processIon transport0.6842Moderately InformativeInherited
Biological processAromatic hydrocarbons catabolism0InformativeDirect
Biological processElectron transport0InformativeDirect
Biological processSteroid metabolism0InformativeDirect
Biological processPhotosynthesis0.0003657InformativeDirect
Biological processLipid biosynthesis0.002239InformativeInherited
Biological processCysteine biosynthesis0Highly InformativeDirect
Biological processDetoxification0Highly InformativeDirect
Biological processLuminescence0Highly InformativeDirect
Biological processNitrate assimilation0Highly InformativeDirect
Biological processPyrimidine biosynthesis0Highly InformativeDirect
Biological processSodium transport0Highly InformativeDirect
Biological processSteroid biosynthesis0Highly InformativeDirect
Biological processOxygen transport4.87e-16Highly InformativeDirect
Biological processSterol biosynthesis0.0000001917Highly InformativeDirect
Cellular componentMembrane0Least InformativeDirect
Cellular componentEndoplasmic reticulum0Moderately InformativeDirect
Cellular componentMitochondrion0Moderately InformativeDirect
Cellular componentMitochondrion outer membrane0InformativeDirect
Cellular componentThylakoid0.0002104InformativeDirect
DomainTransmembrane0Least InformativeDirect
Molecular functionMetal-binding0.00001044Least InformativeDirect
Molecular functionFlavoprotein0Moderately InformativeDirect
Molecular functionIron0Moderately InformativeDirect
Molecular functionIron-sulfur0Moderately InformativeDirect
Molecular functionNAD0Moderately InformativeDirect
Molecular functionNADP0Moderately InformativeDirect
Molecular functionCalcium0.0002579Moderately InformativeDirect
Molecular function2Fe-2S0InformativeDirect
Molecular functionFAD0InformativeDirect
Molecular functionHeme0InformativeDirect
Molecular functionMolybdenum0InformativeDirect
Molecular functionSodium0InformativeDirect
Molecular functionUbiquinone0Highly InformativeDirect
Post-translational modificationOxidoreductase0Moderately InformativeDirect
Post-translational modificationCalmodulin-binding0InformativeDirect
Post-translational modificationIon channel0.02146InformativeInherited
Post-translational modificationVoltage-gated channel0.0006869Highly InformativeDirect
Post-translational modificationMyristate0.00000074InformativeDirect

Document: KW annotation of SCOP domains

Jump to [ Top of page · SCOP classification · Functional annotation · Enzyme Commission (EC) · Disease Ontology (DO) · Mouse Phenotype (MP) · Worm Phenotype (WP) · Yeast Phenotype (YP) · Fly Phenotype (FP) · Fly Anatomy (FA) · Xenopus Anatomy (XA) · Arabidopsis Plant Ontology (AP) · 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 26 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 Riboflavin synthase domain-like 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 26 hidden Markov models representing the Riboflavin synthase domain-like 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 · Functional annotation · Enzyme Commission (EC) · Disease Ontology (DO) · Mouse Phenotype (MP) · Worm Phenotype (WP) · Yeast Phenotype (YP) · Fly Phenotype (FP) · Fly Anatomy (FA) · Xenopus Anatomy (XA) · Arabidopsis Plant Ontology (AP) · Enzyme Commission (EC) · UniProtKB KeyWords (KW) · Internal database links ]