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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 25,880 172,269 62
Proteins 23,267 151,979 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 disease0.6875Least InformativeInherited
Disease Ontology (DO)artery disease0.006925Moderately InformativeInherited
Disease Ontology (DO)endocrine system disease0.01808Moderately InformativeInherited
Disease Ontology (DO)brain disease0.1507Moderately InformativeInherited
Disease Ontology (DO)disease by infectious agent0.2257Moderately InformativeInherited
Disease Ontology (DO)lower respiratory tract disease0.8563Moderately InformativeInherited
Disease Ontology (DO)allergic rhinitis0.00002284InformativeDirect
Disease Ontology (DO)parasitic protozoa infectious disease0.00005774InformativeDirect
Disease Ontology (DO)migraine0.0001922InformativeDirect
Disease Ontology (DO)hypertension0.0006238InformativeDirect
Disease Ontology (DO)primary immunodeficiency disease0.06464InformativeInherited
Disease Ontology (DO)phagocyte bactericidal dysfunction0.000000456Highly InformativeDirect
Disease Ontology (DO)hypothyroidism0.00003278Highly 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 phenotype0.01924Least InformativeInherited
Mammalian Phenotype (MP)nervous system phenotype0.06746Least InformativeInherited
Mammalian Phenotype (MP)cellular phenotype0.2207Least InformativeInherited
Mammalian Phenotype (MP)immune system phenotype0.337Least InformativeInherited
Mammalian Phenotype (MP)abnormal homeostasis0.4219Least InformativeInherited
Mammalian Phenotype (MP)mortality/aging0.4995Least InformativeInherited
Mammalian Phenotype (MP)hematopoietic system phenotype0.5297Least InformativeInherited
Mammalian Phenotype (MP)abnormal induced morbidity/mortality0.000877Moderately InformativeDirect
Mammalian Phenotype (MP)abnormal cardiovascular system physiology0.001741Moderately InformativeInherited
Mammalian Phenotype (MP)abnormal postnatal growth/weight/body size0.002187Moderately InformativeInherited
Mammalian Phenotype (MP)abnormal inflammatory response0.01747Moderately InformativeInherited
Mammalian Phenotype (MP)respiratory system phenotype0.02348Moderately InformativeInherited
Mammalian Phenotype (MP)abnormal hormone level0.0257Moderately InformativeInherited
Mammalian Phenotype (MP)abnormal cell death0.05306Moderately InformativeInherited
Mammalian Phenotype (MP)liver/biliary system phenotype0.05632Moderately InformativeInherited
Mammalian Phenotype (MP)abnormal nervous system physiology0.09981Moderately InformativeInherited
Mammalian Phenotype (MP)abnormal lipid homeostasis0.1231Moderately InformativeInherited
Mammalian Phenotype (MP)abnormal renal/urinary system physiology0.1425Moderately InformativeInherited
Mammalian Phenotype (MP)abnormal skeleton morphology0.1838Moderately InformativeInherited
Mammalian Phenotype (MP)abnormal heart morphology0.2278Moderately InformativeInherited
Mammalian Phenotype (MP)abnormal protein level0.263Moderately InformativeInherited
Mammalian Phenotype (MP)abnormal myeloid cell morphology0.2845Moderately InformativeInherited
Mammalian Phenotype (MP)abnormal mononuclear cell morphology0.2881Moderately InformativeInherited
Mammalian Phenotype (MP)abnormal blood vessel morphology0.3449Moderately InformativeInherited
Mammalian Phenotype (MP)abnormal hematopoietic cell number0.3789Moderately InformativeInherited
Mammalian Phenotype (MP)abnormal muscle physiology0.4686Moderately InformativeInherited
Mammalian Phenotype (MP)abnormal muscle morphology0.4752Moderately InformativeInherited
Mammalian Phenotype (MP)abnormal digestive system morphology0.4861Moderately InformativeInherited
Mammalian Phenotype (MP)abnormal renal/urinary system morphology0.7428Moderately InformativeInherited
Mammalian Phenotype (MP)abnormal behavior1Moderately InformativeInherited
Mammalian Phenotype (MP)abnormal stomach morphology0.0000549InformativeDirect
Mammalian Phenotype (MP)abnormal kidney physiology0.0001306InformativeDirect
Mammalian Phenotype (MP)abnormal sensitivity to induced morbidity/mortality0.0002845InformativeDirect
Mammalian Phenotype (MP)abnormal amino acid level0.0005678InformativeDirect
Mammalian Phenotype (MP)impaired muscle contractility0.0006292InformativeDirect
Mammalian Phenotype (MP)abnormal lung morphology0.0007079InformativeDirect
Mammalian Phenotype (MP)abnormal bone ossification0.001252InformativeInherited
Mammalian Phenotype (MP)abnormal systemic arterial blood pressure0.001457InformativeInherited
Mammalian Phenotype (MP)abnormal renal tubule morphology0.003424InformativeInherited
Mammalian Phenotype (MP)abnormal blood coagulation0.003642InformativeInherited
Mammalian Phenotype (MP)abnormal cholesterol level0.003945InformativeInherited
Mammalian Phenotype (MP)abnormal consumption behavior0.005596InformativeInherited
Mammalian Phenotype (MP)abnormal renal corpuscle morphology0.007623InformativeInherited
Mammalian Phenotype (MP)abnormal response to injury0.01166InformativeInherited
Mammalian Phenotype (MP)abnormal blood vessel physiology0.01652InformativeInherited
Mammalian Phenotype (MP)abnormal circulating lipid level0.0205InformativeInherited
Mammalian Phenotype (MP)abnormal cardiac muscle contractility0.02217InformativeInherited
Mammalian Phenotype (MP)abnormal circulating lipoprotein level0.02321InformativeInherited
Mammalian Phenotype (MP)abnormal smooth muscle morphology0.02592InformativeInherited
Mammalian Phenotype (MP)abnormal urine homeostasis0.03158InformativeInherited
Mammalian Phenotype (MP)abnormal CNS synaptic transmission0.03923InformativeInherited
Mammalian Phenotype (MP)abnormal gas homeostasis0.0403InformativeInherited
Mammalian Phenotype (MP)abnormal ion homeostasis0.04532InformativeInherited
Mammalian Phenotype (MP)abnormal phagocyte morphology0.06415InformativeInherited
Mammalian Phenotype (MP)abnormal heart ventricle morphology0.07148InformativeInherited
Mammalian Phenotype (MP)abnormal pituitary hormone level0.09799InformativeInherited
Mammalian Phenotype (MP)abnormal heartbeat0.1017InformativeInherited
Mammalian Phenotype (MP)abnormal circulating enzyme level0.1069InformativeInherited
Mammalian Phenotype (MP)increased leukocyte cell number0.1233InformativeInherited
Mammalian Phenotype (MP)abnormal intestine physiology0.1683InformativeInherited
Mammalian Phenotype (MP)abnormal white adipose tissue morphology0.2134InformativeInherited
Mammalian Phenotype (MP)increased apoptosis0.2502InformativeInherited
Mammalian Phenotype (MP)abnormal adipose tissue amount0.3496InformativeInherited
Mammalian Phenotype (MP)pyloric sphincter hypertrophy0.000000001839Highly InformativeDirect
Mammalian Phenotype (MP)glomerular capillary thrombosis0.000000009Highly InformativeDirect
Mammalian Phenotype (MP)decreased urine sodium level0.00000001225Highly InformativeDirect
Mammalian Phenotype (MP)perivascular fibrosis0.00000007746Highly InformativeDirect
Mammalian Phenotype (MP)abnormal nitric oxide homeostasis0.0000001161Highly InformativeDirect
Mammalian Phenotype (MP)decreased systemic arterial blood pressure0.0000001355Highly InformativeDirect
Mammalian Phenotype (MP)increased blood osmolality0.0000002305Highly InformativeDirect
Mammalian Phenotype (MP)increased renal tubule apoptosis0.0000007318Highly InformativeDirect
Mammalian Phenotype (MP)renal tubular necrosis0.0000007318Highly InformativeDirect
Mammalian Phenotype (MP)increased prostaglandin level0.0000007318Highly InformativeDirect
Mammalian Phenotype (MP)liver vascular congestion0.00000268Highly InformativeDirect
Mammalian Phenotype (MP)polydipsia0.00000552Highly InformativeDirect
Mammalian Phenotype (MP)pulmonary vascular congestion0.000007492Highly InformativeDirect
Mammalian Phenotype (MP)decreased adiponectin level0.000009952Highly InformativeDirect
Mammalian Phenotype (MP)increased white adipose tissue amount0.00002253Highly InformativeDirect
Mammalian Phenotype (MP)thick ventricular wall0.00002588Highly InformativeDirect
Mammalian Phenotype (MP)hypertension0.00003586Highly InformativeDirect
Mammalian Phenotype (MP)abnormal blood-brain barrier function0.00003649Highly InformativeDirect
Mammalian Phenotype (MP)increased circulating LDL cholesterol level0.0000405Highly InformativeDirect
Mammalian Phenotype (MP)cardiac interstitial fibrosis0.0000405Highly InformativeDirect
Mammalian Phenotype (MP)abnormal bone mineralization0.00005043Highly InformativeDirect
Mammalian Phenotype (MP)increased circulating alkaline phosphatase level0.00005183Highly InformativeDirect
Mammalian Phenotype (MP)increased systemic arterial systolic blood pressure0.0000599Highly InformativeDirect
Mammalian Phenotype (MP)increased osteoclast cell number0.0000664Highly InformativeDirect
Mammalian Phenotype (MP)cardiac hypertrophy0.0000865Highly InformativeDirect
Mammalian Phenotype (MP)glomerulosclerosis0.0000972Highly InformativeDirect
Mammalian Phenotype (MP)abnormal heart ventricle pressure0.00009797Highly InformativeDirect
Mammalian Phenotype (MP)increased circulating creatinine level0.0001343Highly InformativeDirect
Mammalian Phenotype (MP)increased circulating pituitary hormone level0.0002417Highly InformativeDirect
Mammalian Phenotype (MP)abnormal heart left ventricle size0.0003902Highly InformativeDirect
Mammalian Phenotype (MP)abnormal blood flow velocity0.0004928Highly InformativeDirect
Mammalian Phenotype (MP)reduced long term potentiation0.0006102Highly InformativeDirect
Mammalian Phenotype (MP)decreased heart rate0.0006102Highly InformativeDirect
Mammalian Phenotype (MP)increased blood urea nitrogen level0.000799Highly InformativeDirect
Mammalian Phenotype (MP)altered response to CNS ischemic injury0.001361Highly InformativeInherited
Mammalian Phenotype (MP)increased heart ventricle size0.111Highly InformativeInherited
Mammalian Phenotype (MP)decreased susceptibility to injury0.1162Highly 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 variant0.003217Least InformativeInherited
Worm Phenotype (WP)organism metabolism processing variant0.01068Least InformativeInherited
Worm Phenotype (WP)protein expression variant0.09398Moderately InformativeInherited
Worm Phenotype (WP)vesicle organization variant0.000003548InformativeDirect
Worm Phenotype (WP)pattern protein expression variant0.0003109InformativeDirect
Worm Phenotype (WP)lysosome-related organelle morphology variant0.0001857Highly 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

Zebrafish Anatomy (ZA)

(show details)
ZA termFDR (all)SDZA levelAnnotation (direct or inherited)
Zebrafish Anatomy (ZA)nervous system0Least InformativeDirect
Zebrafish Anatomy (ZA)compound organ0Least InformativeDirect
Zebrafish Anatomy (ZA)multi-tissue structure0Least InformativeDirect
Zebrafish Anatomy (ZA)central nervous system0.3334Moderately InformativeInherited
Zebrafish Anatomy (ZA)optic tectum0.0001759InformativeDirect

Document: ZA 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 donors0.000000000000244InformativeDirect
Enzyme Commission (EC)Acting on other nitrogenous compounds as donors0.00005699InformativeDirect
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)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)Oxidizing metal ions0.00000000000001656Highly InformativeDirect
Enzyme Commission (EC)With NADH or NADPH as one donor, and incorporation of one atom of oxygen0.00002585Highly InformativeDirect
Enzyme Commission (EC)With reduced iron-sulfur protein as one donor, and incorporation of one atom of oxygen0.6448Highly 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

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) · Zebrafish Anatomy (ZA) · Xenopus Anatomy (XA) · Arabidopsis Plant Ontology (AP) · Enzyme Commission (EC) ]

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 47 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 47 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) · Zebrafish Anatomy (ZA) · Xenopus Anatomy (XA) · Arabidopsis Plant Ontology (AP) · Enzyme Commission (EC) · Internal database links ]