SUPERFAMILY 1.75 HMM library and genome assignments server

Superfamily is undergoing a server migration - you are now browsing on the new server. Please contact us if you experience any problems.


L domain-like superfamily

SCOP classification
Root:   SCOP hierarchy in SUPERFAMILY [ 0] (11)
Class:   Alpha and beta proteins (a/b) [ 51349] (147)
Fold:   Leucine-rich repeat, LRR (right-handed beta-alpha superhelix) [ 52046] (3)
Superfamily:   L domain-like [ 52058] (8)
Families:   Internalin LRR domain [ 52059] (3)
  Leucine rich effector protein YopM [ 69433]
  Ngr ectodomain-like [ 75142] (6)
  Polygalacturonase inhibiting protein PGIP [ 89569]
  Rab geranylgeranyltransferase alpha-subunit, C-terminal domain [ 52062]
  mRNA export factor tap [ 52065]
  U2A'-like [ 52068]
  L domain [ 52071] (5)


Superfamily statistics
Genomes (1,419) Uniprot 2018_03 genome PDB chains (SCOP 1.75)
Domains 119,601 298,005 63
Proteins 93,513 237,507 49


Functional annotation
General category General
Detailed category General

Document:
Function annotation of SCOP domain superfamilies

Enzyme Commission (EC)

(show details)
EC termFDR (all)SDEO levelAnnotation (direct or inherited)
Enzyme Commission (EC)Acting on ester bonds0.00000756Least InformativeDirect
Enzyme Commission (EC)Lyases1Least InformativeInherited
Enzyme Commission (EC)Oxidoreductases1Least InformativeInherited
Enzyme Commission (EC)Protein-serine/threonine kinases0Moderately InformativeDirect
Enzyme Commission (EC)Phosphoric monoester hydrolases0.3857Moderately InformativeInherited
Enzyme Commission (EC)Receptor protein-tyrosine kinase0InformativeDirect
Enzyme Commission (EC)Phosphoprotein phosphatase0.00000000441InformativeDirect
Enzyme Commission (EC)Peroxidases0.0001357InformativeDirect
Enzyme Commission (EC)Phosphorus-oxygen lyases1InformativeInherited
Enzyme Commission (EC)Poly(A)-specific ribonuclease0Highly InformativeDirect
Enzyme Commission (EC)Adenylate cyclase0.00000000003813Highly InformativeDirect
Enzyme Commission (EC)Peroxidase0.0000000001091Highly 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 disease0.05437Least InformativeInherited
Disease Ontology (DO)hematopoietic system disease0.2511Moderately InformativeInherited
Disease Ontology (DO)sensory system disease0.3445Moderately InformativeInherited
Disease Ontology (DO)disease by infectious agent0.6163Moderately InformativeInherited
Disease Ontology (DO)myopia0.0009218InformativeDirect
Disease Ontology (DO)inherited blood coagulation disease0.004274InformativeInherited
Disease Ontology (DO)filariasis0.000004058Highly InformativeDirect
Disease Ontology (DO)opportunistic mycosis0.0001611Highly InformativeDirect

Document: DO annotation of SCOP domains

Human Phenotype (HP)

(show details)
HP termFDR (all)SDHP levelAnnotation (direct or inherited)
Incomplete penetrance0InformativeDirect
Phenotypic Abnormality (PA)Abnormality of the cardiovascular system0.7182Least InformativeInherited
Phenotypic Abnormality (PA)Abnormality of the digestive system0.7673Least InformativeInherited
Phenotypic Abnormality (PA)Abnormality of the head0.7828Least InformativeInherited
Phenotypic Abnormality (PA)Abnormality of the genitourinary system0.8311Least InformativeInherited
Phenotypic Abnormality (PA)Abnormality of metabolism/homeostasis0.9945Least InformativeInherited
Phenotypic Abnormality (PA)Abnormal cardiovascular system physiology0.3892Moderately InformativeInherited
Phenotypic Abnormality (PA)Abnormality of the upper urinary tract0.7057Moderately InformativeInherited
Phenotypic Abnormality (PA)Abnormality of the urinary system physiology0.713Moderately InformativeInherited
Phenotypic Abnormality (PA)Abnormality of digestive system physiology0.7267Moderately InformativeInherited
Phenotypic Abnormality (PA)Abnormality of the gastrointestinal tract0.92Moderately InformativeInherited
Phenotypic Abnormality (PA)Abnormality of blood and blood-forming tissues1Moderately InformativeInherited
Phenotypic Abnormality (PA)Abnormal urine cytology0.05824InformativeInherited
Phenotypic Abnormality (PA)Abnormality of the coagulation cascade0.1235InformativeInherited
Phenotypic Abnormality (PA)Abnormality of blood circulation0.4164InformativeInherited
Phenotypic Abnormality (PA)Abnormal thrombocyte morphology0.4819InformativeInherited
Phenotypic Abnormality (PA)Abnormal renal physiology0.5288InformativeInherited
Phenotypic Abnormality (PA)Abnormal renal morphology0.593InformativeInherited
Phenotypic Abnormality (PA)Abnormality of the nose0.699InformativeInherited
Phenotypic Abnormality (PA)Functional abnormality of the gastrointestinal tract0.7127InformativeInherited
Phenotypic Abnormality (PA)Abnormal bleeding0.7761InformativeInherited
Phenotypic Abnormality (PA)Prolonged bleeding following procedure0.0007119Highly InformativeDirect
Phenotypic Abnormality (PA)Epistaxis0.06598Highly InformativeInherited
Phenotypic Abnormality (PA)Gastrointestinal hemorrhage0.1552Highly InformativeInherited
Phenotypic Abnormality (PA)Abnormality of bone marrow cell morphology0.2111Highly InformativeInherited
Phenotypic Abnormality (PA)Thrombocytopenia0.362Highly InformativeInherited

Document: HP annotation of SCOP domains

Mouse Phenotype (MP)

(show details)
MP termFDR (all)SDMP levelAnnotation (direct or inherited)
Mammalian Phenotype (MP)nervous system phenotype0.1702Least InformativeInherited
Mammalian Phenotype (MP)immune system phenotype0.6118Least InformativeInherited
Mammalian Phenotype (MP)hematopoietic system phenotype0.975Least InformativeInherited
Mammalian Phenotype (MP)growth/size/body region phenotype0.9941Least InformativeInherited
Mammalian Phenotype (MP)integument phenotype0.2158Moderately InformativeInherited
Mammalian Phenotype (MP)abnormal professional antigen presenting cell physiology0.2853Moderately InformativeInherited
Mammalian Phenotype (MP)abnormal skeleton morphology0.458Moderately InformativeInherited
Mammalian Phenotype (MP)abnormal muscle morphology0.4963Moderately InformativeInherited
Mammalian Phenotype (MP)abnormal leukocyte physiology0.6645Moderately InformativeInherited
Mammalian Phenotype (MP)abnormal eye morphology0.692Moderately InformativeInherited
Mammalian Phenotype (MP)abnormal nervous system physiology0.8206Moderately InformativeInherited
Mammalian Phenotype (MP)abnormal muscle physiology0.8595Moderately InformativeInherited
Mammalian Phenotype (MP)abnormal immune serum protein physiology0.8717Moderately InformativeInherited
Mammalian Phenotype (MP)abnormal postnatal growth/weight/body size0.9037Moderately InformativeInherited
Mammalian Phenotype (MP)abnormal reproductive system morphology0.9424Moderately InformativeInherited
Mammalian Phenotype (MP)abnormal macrophage physiology0.03856InformativeInherited
Mammalian Phenotype (MP)abnormal spinal cord morphology0.04031InformativeInherited
Mammalian Phenotype (MP)abnormal compact bone morphology0.05819InformativeInherited
Mammalian Phenotype (MP)abnormal anterior eye segment morphology0.2008InformativeInherited
Mammalian Phenotype (MP)abnormal skin physiology0.2452InformativeInherited
Mammalian Phenotype (MP)abnormal interleukin secretion0.3088InformativeInherited
Mammalian Phenotype (MP)abnormal internal male genitalia morphology0.6241InformativeInherited
Mammalian Phenotype (MP)decreased interleukin-12b secretion0.0001083Highly InformativeDirect
Mammalian Phenotype (MP)abnormal skin tensile strength0.0001238Highly InformativeDirect
Mammalian Phenotype (MP)abnormal spinal cord ventral commissure morphology0.0002486Highly InformativeDirect
Mammalian Phenotype (MP)abnormal tendon morphology0.0003413Highly InformativeDirect
Mammalian Phenotype (MP)decreased macrophage cytokine production0.0005058Highly InformativeDirect
Mammalian Phenotype (MP)abnormal nervous system regeneration0.0006055Highly InformativeDirect
Mammalian Phenotype (MP)abnormal cornea morphology0.004873Highly InformativeInherited
Mammalian Phenotype (MP)abnormal epididymis morphology0.05779Highly InformativeInherited
Mammalian Phenotype (MP)abnormal susceptibility to weight loss0.06716Highly InformativeInherited
Mammalian Phenotype (MP)abnormal spinal cord white matter morphology0.1342Highly InformativeInherited
Mammalian Phenotype (MP)decreased bone mass0.2104Highly 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 variant1Least InformativeInherited

Document: WP annotation of SCOP domains

Yeast Phenotype (YP)

(show details) Document: YP annotation of SCOP domains

Fly Anatomy (FA)

(show details)
FA termFDR (all)SDFA levelAnnotation (direct or inherited)
Fly Anatomy (FA)adult0.1279Least InformativeInherited
Fly Anatomy (FA)larva0.1861Least InformativeInherited
Fly Anatomy (FA)cell0.2316Least InformativeInherited
Fly Anatomy (FA)nervous system0.5424Least InformativeInherited
Fly Anatomy (FA)neuron0.157Moderately InformativeInherited

Document: FA annotation of SCOP domains

Zebrafish Anatomy (ZA)

(show details)
ZA termFDR (all)SDZA levelAnnotation (direct or inherited)
Zebrafish Anatomy (ZA)multi-tissue structure0.06648Least InformativeInherited
Zebrafish Anatomy (ZA)organism subdivision0.6483Least InformativeInherited
Zebrafish Anatomy (ZA)surface structure0.8305InformativeInherited
Zebrafish Anatomy (ZA)integument0.1827Highly InformativeInherited

Document: ZA annotation of SCOP domains

Xenopus Anatomy (XA)

(show details)
XA termFDR (all)SDXA levelAnnotation (direct or inherited)
Xenopus DEvelopment stage (XDE)embryonic stage0.0005789Moderately InformativeDirect
Xenopus DEvelopment stage (XDE)early tailbud stage0.1243Highly InformativeInherited

Document: XA annotation of SCOP domains

Arabidopsis Plant Ontology (AP)

(show details)
AP termFDR (all)SDAP levelAnnotation (direct or inherited)
Plant ANatomical entity (PAN)portion of meristem tissue1Least InformativeInherited

Document: AP annotation of SCOP domains

Enzyme Commission (EC)

(show details)
EC termFDR (all)SDEC levelAnnotation (direct or inherited)
Enzyme Commission (EC)Transferring phosphorus-containing groups0Least InformativeDirect
Enzyme Commission (EC)Oxidoreductases1Least InformativeInherited
Enzyme Commission (EC)Hydrolases1Least InformativeInherited
Enzyme Commission (EC)Lyases1Least InformativeInherited
Enzyme Commission (EC)Protein-serine/threonine kinases0Moderately InformativeDirect
Enzyme Commission (EC)Aminoacyltransferases0.00000197Moderately InformativeDirect
Enzyme Commission (EC)Glycosylases0.4375Moderately InformativeInherited
Enzyme Commission (EC)Phosphoric monoester hydrolases0.7469Moderately InformativeInherited
Enzyme Commission (EC)Protein-tyrosine kinases0InformativeDirect
Enzyme Commission (EC)Non-specific serine/threonine protein kinase0InformativeDirect
Enzyme Commission (EC)Exoribonucleases producing 5'-phosphomonoesters0InformativeDirect
Enzyme Commission (EC)RING-type E3 ubiquitin transferase0.0000000007957InformativeDirect
Enzyme Commission (EC)Hydrolyzing N-glycosyl compounds0.000584InformativeDirect
Enzyme Commission (EC)Acting on a peroxide as acceptor0.0006561InformativeDirect
Enzyme Commission (EC)Transferring alkyl or aryl groups, other than methyl groups1InformativeInherited
Enzyme Commission (EC)Phosphorus-oxygen lyases1InformativeInherited
Enzyme Commission (EC)Receptor protein-tyrosine kinase0Highly InformativeDirect
Enzyme Commission (EC)Poly(A)-specific ribonuclease0Highly InformativeDirect
Enzyme Commission (EC)ADP-ribosyl cyclase/cyclic ADP-ribose hydrolase5.111e-16Highly InformativeDirect
Enzyme Commission (EC)Adenylate cyclase0.00000001751Highly InformativeDirect
Enzyme Commission (EC)Protein-serine/threonine phosphatase0.00000003554Highly InformativeDirect

Document: EC annotation of SCOP domains

Jump to [ Top of page · SCOP classification · Functional annotation · Enzyme Commission (EC) · Disease Ontology (DO) · Human Phenotype (HP) · Mouse Phenotype (MP) · Worm Phenotype (WP) · Yeast Phenotype (YP) · 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 50 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 L 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 50 hidden Markov models representing the L 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) · Human Phenotype (HP) · Mouse Phenotype (MP) · Worm Phenotype (WP) · Yeast Phenotype (YP) · Fly Anatomy (FA) · Zebrafish Anatomy (ZA) · Xenopus Anatomy (XA) · Arabidopsis Plant Ontology (AP) · Enzyme Commission (EC) · Internal database links ]