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.

PHL pollen allergen superfamily

SCOP classification
Root:   SCOP hierarchy in SUPERFAMILY [ 0] (11)
Class:   All beta proteins [ 48724] (174)
Fold:   C2 domain-like [ 49561] (5)
Superfamily:   PHL pollen allergen [ 49590]
Families:   PHL pollen allergen [ 49591] (2)

Superfamily statistics
Genomes (229) Uniprot 2017_06 genome PDB chains (SCOP 1.75)
Domains 3,568 5,835 2
Proteins 3,500 5,762 2

Functional annotation
General category Other
Detailed category Unknown function

Function annotation of SCOP domain superfamilies

Gene Ontology (high-coverage)

(show details)
GO term FDR (all) SDFO level Annotation (direct or inherited)
Biological Process (BP) single-organism cellular process 0.002927 Least Informative Inherited
Biological Process (BP) cellular component organization or biogenesis 0.03037 Least Informative Inherited
Biological Process (BP) multicellular organismal process 0.2897 Least Informative Inherited
Biological Process (BP) anatomical structure morphogenesis 0.00000000000001079 Moderately Informative Direct
Biological Process (BP) tissue development 0.9428 Moderately Informative Inherited
Biological Process (BP) growth 0.000004084 Informative Direct
Biological Process (BP) anatomical structure formation involved in morphogenesis 0.000008442 Informative Direct
Biological Process (BP) post-embryonic development 0.00001095 Informative Direct
Biological Process (BP) cellular component morphogenesis 0.04294 Informative Inherited
Biological Process (BP) cell growth 0.00000003176 Highly Informative Direct
Biological Process (BP) developmental growth involved in morphogenesis 0.0002967 Highly Informative Direct
Cellular Component (CC) external encapsulating structure 0.0000000001708 Informative Direct
Cellular Component (CC) plant-type cell wall 0.00008668 Highly Informative Direct

Document: GO annotation of SCOP domains

UniProtKB KeyWords (KW)

(show details)
KW termFDR (all)SDKW levelAnnotation (direct or inherited)
Biological processCell wall biogenesis/degradation0InformativeDirect
Cellular componentMembrane0Least InformativeDirect
Cellular componentSecreted0Moderately InformativeDirect
Cellular componentCell wall0Highly InformativeDirect
DiseaseAllergen0Moderately InformativeDirect
DomainSignal0Least InformativeDirect
Post-translational modificationGlycoprotein0.000000000002845Least InformativeDirect
Post-translational modificationDisulfide bond0.00000000001876Least InformativeDirect

Document: KW annotation of SCOP domains

InterPro annotation
Cross references IPR007117 SSF49590 Protein matches

Expansins are unusual proteins that mediate cell wall extension in plants [PubMed7568110]. They are believed to act as a sort of chemical grease, allowing polymers to slide past one another by disrupting non-covalent hydrogen bonds that hold many wall polymers to one another. This process is not degradative and hence does not weaken the wall, which could otherwise rupture under internal pressure during growth.

Sequence comparisons indicate at least four distinct expansin cDNAs in rice and at least six in Arabidopsis. The proteins are highly conserved in size and sequence (75-95% amino acid sequence similarity between any pairwise comparison), and phylogenetic trees indicate that this multigene family formed before the evolutionary divergence of monocotyledons and dicotyledons [PubMed7568110]. Sequence and motif analyses show no similarities to known functional domains that might account for expansin action on wall extension. It is thought that several highly-conserved tryptophans may function in expansin binding to cellulose, or other glycans. The high conservation of the family indicates that the mechanism by which expansins promote wall extensin tolerates little variation in protein structure.

Grass pollens, such as pollen from timothy grass, represent a major cause of type I allergy [PubMed7930302]. Interestingly, expansins share a high degree of sequence similarity with the Lol p I family of allergens. This entry represents the C-terminal 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-coverage) · 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 2 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 PHL pollen allergen 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 2 hidden Markov models representing the PHL pollen allergen 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-coverage) · UniProtKB KeyWords (KW) · Internal database links ]