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Hemopexin-like domain superfamily

SCOP classification
Root:   SCOP hierarchy in SUPERFAMILY [ 0] (11)
Class:   All beta proteins [ 48724] (174)
Fold:   4-bladed beta-propeller [ 50922]
Superfamily:   Hemopexin-like domain [ 50923]
Families:   Hemopexin-like domain [ 50924] (5)

Superfamily statistics
Genomes (161) Uniprot 2013_05 PDB chains (SCOP 1.75)
Domains 2,136 2,326 11
Proteins 2,022 2,145 10

 Functional annotation
General category General
Detailed category Protein interaction

Document: Function annotation of SCOP domain superfamilies

Gene Ontology (high-quality)

(show details)
GO termFDR (singleton)FDR (all)SDFO levelAnnotation (direct or inherited)
Molecular Function (MF)hydrolase activity0.00067570Least InformativeDirect
Molecular Function (MF)peptidase activity9.08e-070InformativeDirect
Molecular Function (MF)endopeptidase activity1.508e-071.279e-06Highly InformativeDirect
Molecular Function (MF)metallopeptidase activity1.067e-100Highly InformativeDirect

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) protein metabolic process 3.239e-09 Least Informative Direct
Biological Process (BP) multicellular organismal process 1.269e-13 Least Informative Direct
Biological Process (BP) developmental process 9.477e-09 Least Informative Direct
Biological Process (BP) cellular component organization or biogenesis 0.0005874 Least Informative Direct
Biological Process (BP) single-organism metabolic process 0.003606 Least Informative Inherited
Biological Process (BP) single-organism cellular process 0.01897 Least Informative Inherited
Biological Process (BP) regulation of cellular process 1 Least Informative Inherited
Biological Process (BP) regulation of metabolic process 1 Least Informative Inherited
Biological Process (BP) localization 0.1214 Least Informative Inherited
Biological Process (BP) response to stimulus 0.1293 Least Informative Inherited
Biological Process (BP) response to endogenous stimulus 3.515e-05 Moderately Informative Direct
Biological Process (BP) immune system process 0.00246 Moderately Informative Inherited
Biological Process (BP) response to oxygen-containing compound 0.005115 Moderately Informative Inherited
Biological Process (BP) cellular response to chemical stimulus 0.02701 Moderately Informative Inherited
Biological Process (BP) response to abiotic stimulus 0.04324 Moderately Informative Inherited
Biological Process (BP) regulation of localization 0.01837 Moderately Informative Inherited
Biological Process (BP) positive regulation of cellular process 0.2757 Moderately Informative Inherited
Biological Process (BP) single-organism developmental process 0.006156 Moderately Informative Inherited
Biological Process (BP) anatomical structure morphogenesis 0.2081 Moderately Informative Inherited
Biological Process (BP) regulation of protein metabolic process 0.0475 Moderately Informative Inherited
Biological Process (BP) negative regulation of metabolic process 0.4255 Moderately Informative Inherited
Biological Process (BP) negative regulation of cellular process 0.7476 Moderately Informative Inherited
Biological Process (BP) regulation of biosynthetic process 1 Moderately Informative Inherited
Biological Process (BP) regulation of cellular metabolic process 1 Moderately Informative Inherited
Biological Process (BP) regulation of multicellular organismal process 0.2021 Moderately Informative Inherited
Biological Process (BP) gene expression 1 Moderately Informative Inherited
Biological Process (BP) response to organic substance 0.02727 Moderately Informative Inherited
Biological Process (BP) organ development 0.001706 Moderately Informative Inherited
Biological Process (BP) reproduction 0.003032 Moderately Informative Inherited
Biological Process (BP) multi-organism process 0.003122 Moderately Informative Inherited
Biological Process (BP) tissue development 0.03517 Moderately Informative Inherited
Biological Process (BP) proteolysis 1.104e-09 Informative Direct
Biological Process (BP) cellular component movement 3.297e-06 Informative Direct
Biological Process (BP) response to wounding 6.856e-05 Informative Direct
Biological Process (BP) response to organic nitrogen 4.98e-05 Informative Direct
Biological Process (BP) cellular component disassembly 0 Informative Direct
Biological Process (BP) locomotion 7.761e-07 Informative Direct
Biological Process (BP) regulation of locomotion 9.055e-06 Informative Direct
Biological Process (BP) multi-organism reproductive process 2.113e-05 Informative Direct
Biological Process (BP) regulation of cellular component movement 1.095e-06 Informative Direct
Biological Process (BP) localization of cell 8.771e-10 Informative Direct
Biological Process (BP) cell proliferation 0.006227 Informative Inherited
Biological Process (BP) hematopoietic or lymphoid organ development 0.07721 Informative Inherited
Biological Process (BP) cellular response to endogenous stimulus 0.4871 Informative Inherited
Biological Process (BP) cellular response to nitrogen compound 0.001561 Informative Inherited
Biological Process (BP) cellular response to oxygen-containing compound 0.001877 Informative Inherited
Biological Process (BP) response to hormone stimulus 0.02628 Informative Inherited
Biological Process (BP) response to organic cyclic compound 0.008185 Informative Inherited
Biological Process (BP) response to lipid 0.01477 Informative Inherited
Biological Process (BP) negative regulation of biosynthetic process 0.1659 Informative Inherited
Biological Process (BP) regulation of cytokine production 0.002366 Informative Inherited
Biological Process (BP) multicellular organismal reproductive process 0.8928 Informative Inherited
Biological Process (BP) negative regulation of cellular metabolic process 0.3172 Informative Inherited
Biological Process (BP) negative regulation of protein metabolic process 0.002278 Informative Inherited
Biological Process (BP) tube development 0.003489 Informative Inherited
Biological Process (BP) response to external stimulus 0.1547 Informative Inherited
Biological Process (BP) reproductive system development 0.5658 Informative Inherited
Biological Process (BP) single organism reproductive process 0.001829 Informative Inherited
Biological Process (BP) organ morphogenesis 0.2689 Informative Inherited
Biological Process (BP) developmental process involved in reproduction 0.9407 Informative Inherited
Biological Process (BP) tissue morphogenesis 0.001144 Informative Inherited
Biological Process (BP) epithelium development 0.2556 Informative Inherited
Biological Process (BP) response to acid 1.626e-07 Highly Informative Direct
Biological Process (BP) skeletal system development 3.96e-06 Highly Informative Direct
Biological Process (BP) ossification 7.337e-08 Highly Informative Direct
Biological Process (BP) response to hypoxia 6.871e-07 Highly Informative Direct
Biological Process (BP) protein processing 9.688e-11 Highly Informative Direct
Biological Process (BP) ovulation cycle process 6.343e-06 Highly Informative Direct
Biological Process (BP) extracellular matrix organization 0 Highly Informative Direct
Biological Process (BP) lung development 2.521e-06 Highly Informative Direct
Biological Process (BP) regulation of cytokine biosynthetic process 9.724e-07 Highly Informative Direct
Biological Process (BP) multicellular organismal metabolic process 0 Highly Informative Direct
Biological Process (BP) multi-multicellular organism process 0.0001117 Highly Informative Direct
Biological Process (BP) development of primary female sexual characteristics 1.97e-06 Highly Informative Direct
Biological Process (BP) stem cell proliferation 0.0002516 Highly Informative Direct
Biological Process (BP) epithelial tube morphogenesis 0.6836 Highly Informative Inherited
Biological Process (BP) morphogenesis of a branching epithelium 0.01574 Highly Informative Inherited
Biological Process (BP) post-embryonic development 0.7671 Highly Informative Inherited
Biological Process (BP) gonad development 0.003723 Highly Informative Inherited
Biological Process (BP) post-embryonic organ development 0.09343 Highly Informative Inherited
Molecular Function (MF) hydrolase activity 0 Least Informative Direct
Molecular Function (MF) binding 0.9163 Least Informative Inherited
Molecular Function (MF) cation binding 1.276e-09 Moderately Informative Direct
Molecular Function (MF) enzyme regulator activity 0.02228 Moderately Informative Inherited
Molecular Function (MF) enzyme activator activity 0.000201 Informative Direct
Molecular Function (MF) peptidase activity 0 Informative Direct
Molecular Function (MF) transition metal ion binding 0.004957 Informative Inherited
Molecular Function (MF) endopeptidase activity 1.279e-06 Highly Informative Direct
Molecular Function (MF) metallopeptidase activity 0 Highly Informative Direct
Molecular Function (MF) zinc ion binding 1.038e-14 Highly Informative Direct
Cellular Component (CC) extracellular region 0 Moderately Informative Direct
Cellular Component (CC) cell projection 0.09624 Moderately Informative Inherited
Cellular Component (CC) extracellular matrix 5.91e-07 Informative Direct
Cellular Component (CC) neuron part 0.01236 Informative Inherited
Cellular Component (CC) dendrite 6.137e-05 Highly Informative Direct

Document: GO annotation of SCOP domains

Enzyme Commission (EC)

(show details)
EC termFDR (all)SDEO levelAnnotation (direct or inherited)
Enzyme Commission (EC)Acting on peptide bonds (peptide hydrolases)0Least InformativeDirect
Enzyme Commission (EC)Metalloendopeptidases0InformativeDirect
Enzyme Commission (EC)Gelatinase B6.093e-06Highly InformativeDirect
Enzyme Commission (EC)Gelatinase A6.093e-06Highly InformativeDirect

Document: EC annotation of SCOP domains

Disease Ontology (DO)

(show details)
DO termFDR (all)SDDO levelAnnotation (direct or inherited)
Disease Ontology (DO)organ system cancer0.06133Least InformativeInherited
Disease Ontology (DO)immune system disease0.07256Least InformativeInherited
Disease Ontology (DO)nervous system disease0.4329Least InformativeInherited
Disease Ontology (DO)skin disease0.0004691Moderately InformativeDirect
Disease Ontology (DO)bone disease0.0005597Moderately InformativeDirect
Disease Ontology (DO)vascular disease0.0006699Moderately InformativeDirect
Disease Ontology (DO)lung disease0.0007961Moderately InformativeDirect
Disease Ontology (DO)gastrointestinal system disease0.001777Moderately InformativeInherited
Disease Ontology (DO)cell type cancer0.01258Moderately InformativeInherited
Disease Ontology (DO)hypersensitivity reaction type II disease0.02801Moderately InformativeInherited
Disease Ontology (DO)disease by infectious agent0.03056Moderately InformativeInherited
Disease Ontology (DO)heart disease0.04406Moderately InformativeInherited
Disease Ontology (DO)hematologic cancer0.07948Moderately InformativeInherited
Disease Ontology (DO)nervous system cancer0.1006Moderately InformativeInherited
Disease Ontology (DO)sensory system disease0.1471Moderately InformativeInherited
Disease Ontology (DO)disease of metabolism0.1728Moderately InformativeInherited
Disease Ontology (DO)myopia8.296e-07InformativeDirect
Disease Ontology (DO)prostate cancer4.253e-06InformativeDirect
Disease Ontology (DO)female reproductive system disease1.709e-05InformativeDirect
Disease Ontology (DO)integumentary system cancer7.86e-05InformativeDirect
Disease Ontology (DO)arthritis0.0001184InformativeDirect
Disease Ontology (DO)atherosclerosis0.0001512InformativeDirect
Disease Ontology (DO)myeloma0.000221InformativeDirect
Disease Ontology (DO)meningioma0.0003429InformativeDirect
Disease Ontology (DO)familial hyperlipidemia0.00056InformativeDirect
Disease Ontology (DO)primary bacterial infectious disease0.001795InformativeInherited
Disease Ontology (DO)connective tissue cancer0.001811InformativeInherited
Disease Ontology (DO)aneurysm disease0.002213InformativeInherited
Disease Ontology (DO)kidney cancer0.00239InformativeInherited
Disease Ontology (DO)rheumatic disease0.004005InformativeInherited
Disease Ontology (DO)vascular skin disease0.006311InformativeInherited
Disease Ontology (DO)malignant glioma0.04159InformativeInherited
Disease Ontology (DO)esophageal disease0.05038InformativeInherited
Disease Ontology (DO)retinal degeneration0.2255InformativeInherited
Disease Ontology (DO)connective tissue disease0.2557InformativeInherited
Disease Ontology (DO)female reproductive organ cancer0.9171InformativeInherited
Disease Ontology (DO)lymphadenitis1InformativeInherited
Disease Ontology (DO)abdominal aortic aneurysm3.1e-06Highly InformativeDirect
Disease Ontology (DO)adult astrocytic tumour3.407e-06Highly InformativeDirect
Disease Ontology (DO)bronchiectasis4.268e-05Highly InformativeDirect
Disease Ontology (DO)Lyme disease0.0003575Highly InformativeDirect
Disease Ontology (DO)ovary epithelial cancer0.0004188Highly InformativeDirect
Disease Ontology (DO)glaucoma0.0009533Highly InformativeDirect

Document: DO annotation of SCOP domains

Human Phenotype (HP)

(show details)
HP termFDR (all)SDHP levelAnnotation (direct or inherited)
Phenotypic Abnormality (PA)Abnormality of skeletal morphology0.217Least InformativeInherited
Phenotypic Abnormality (PA)Abnormality of the lower limb0.02352Moderately InformativeInherited
Phenotypic Abnormality (PA)Abnormal joint morphology0.02451Moderately InformativeInherited
Phenotypic Abnormality (PA)Abnormality of pelvic girdle bone morphology0.0007285InformativeDirect
Phenotypic Abnormality (PA)Limitation of joint mobility0.000377Highly InformativeDirect
Phenotypic Abnormality (PA)Abnormality of the femur0.01044Highly InformativeInherited

Document: HP annotation of SCOP domains

Mouse Phenotype (MP)

(show details)
MP termFDR (all)SDMP levelAnnotation (direct or inherited)
Mammalian Phenotype (MP)immune system phenotype0.1485Least InformativeInherited
Mammalian Phenotype (MP)cardiovascular system phenotype0.1707Least InformativeInherited
Mammalian Phenotype (MP)altered susceptibility to infection0.0008542Moderately InformativeDirect
Mammalian Phenotype (MP)limbs/digits/tail phenotype0.0384Moderately InformativeInherited
Mammalian Phenotype (MP)abnormal blood vessel morphology0.07759Moderately InformativeInherited
Mammalian Phenotype (MP)respiratory system phenotype0.1889Moderately InformativeInherited
Mammalian Phenotype (MP)abnormal cardiovascular development0.2313Moderately InformativeInherited
Mammalian Phenotype (MP)abnormal skeleton morphology0.6773Moderately InformativeInherited
Mammalian Phenotype (MP)abnormal response to injury0.0006769InformativeDirect
Mammalian Phenotype (MP)abnormal cartilage morphology0.005507InformativeInherited
Mammalian Phenotype (MP)abnormal limb morphology0.01662InformativeInherited
Mammalian Phenotype (MP)abnormal appendicular skeleton morphology0.03363InformativeInherited
Mammalian Phenotype (MP)abnormal lung morphology0.05584InformativeInherited
Mammalian Phenotype (MP)decreased susceptibility to bacterial infection6.545e-06Highly InformativeDirect
Mammalian Phenotype (MP)short femur0.0001341Highly InformativeDirect
Mammalian Phenotype (MP)abnormal long bone epiphyseal plate morphology0.0001366Highly InformativeDirect
Mammalian Phenotype (MP)abnormal pulmonary alveolus morphology0.01667Highly InformativeInherited

Document: MP annotation of SCOP domains

Worm Phenotype (WP)

(show details)
WP termFDR (all)SDWP levelAnnotation (direct or inherited)
Worm Phenotype (WP)pericellular component development variant1.214e-05Moderately InformativeDirect
Worm Phenotype (WP)basement membrane remodeling variant5.838e-06InformativeDirect

Document: WP annotation of SCOP domains

Xenopus Anatomy (XA)

(show details)
XA termFDR (all)SDXA levelAnnotation (direct or inherited)
Xenopus ANatomical entity (XAN)head0.7625Least InformativeInherited
Xenopus ANatomical entity (XAN)central nervous system0.797Least InformativeInherited
Xenopus ANatomical entity (XAN)portion of tissue0.9002Least InformativeInherited
Xenopus ANatomical entity (XAN)surface structure0.1865Moderately InformativeInherited
Xenopus ANatomical entity (XAN)sensory system1Moderately InformativeInherited
Xenopus ANatomical entity (XAN)notochord6.869e-05InformativeDirect
Xenopus DEvelopment stage (XDE)embryonic stage1.05e-05Least InformativeDirect

Document: XA annotation of SCOP domains

Enzyme Commission (EC)

(show details)
EC termFDR (all)SDEC levelAnnotation (direct or inherited)
Enzyme Commission (EC)Hydrolases0Least InformativeDirect
Enzyme Commission (EC)Acting on peptide bonds (peptide hydrolases)0Moderately InformativeDirect
Enzyme Commission (EC)Metalloendopeptidases0InformativeDirect

Document: EC annotation of SCOP domains

UniProtKB KeyWords (KW)

(show details)
KW termFDR (all)SDKW levelAnnotation (direct or inherited)
Biological processAngiogenesis6.338e-13InformativeDirect
Cellular componentMembrane0.578Least InformativeInherited
Cellular componentSecreted0Moderately InformativeDirect
Cellular componentExtracellular matrix0InformativeDirect
Cellular componentGPI-anchor8.523e-07InformativeDirect
DomainRepeat0Least InformativeDirect
DomainSignal0Least InformativeDirect
Molecular functionMetal-binding0Least InformativeDirect
Molecular functionZinc0Least InformativeDirect
Molecular functionCalcium0Moderately InformativeDirect
Post-translational modificationHydrolase0Least InformativeDirect
Post-translational modificationProtease0Moderately InformativeDirect
Post-translational modificationMetalloprotease0InformativeDirect
Post-translational modificationGlycoprotein0Least InformativeDirect
Post-translational modificationDisulfide bond0Least InformativeDirect
Post-translational modificationCleavage on pair of basic residues0Moderately InformativeDirect
Post-translational modificationZymogen0InformativeDirect
Post-translational modificationAutocatalytic cleavage1.148e-08InformativeDirect

Document: KW annotation of SCOP domains

InterPro annotation
Cross references IPR000585 SSF50923 Protein matches
Abstract

Hemopexin is a serum glycoprotein that binds haem and transports it to the liver for breakdown and iron recovery, after which the free hemopexin returns to the circulation [PubMed12042069]. Hemopexin prevents haem-mediated oxidative stress. Structurally hemopexin consists of two similar halves of approximately two hundred amino acid residues connected by a histidine-rich hinge region. Each half is itself formed by the repetition of a basic unit of some 35 to 45 residues. Hemopexin-like domains have been found in two other types of proteins, vitronectin [PubMed9572850], a cell adhesion and spreading factor found in plasma and tissues, and matrixins MMP-1, MMP-2, MMP-3, MMP-9, MMP-10, MMP-11, MMP-12, MMP-14, MMP-15 and MMP-16, members of the matrix metalloproteinase family that cleave extracellular matrix constituents [PubMed14619953]. These zinc endopeptidases, which belong to MEROPS peptidase subfamily M10A, have a single hemopexin-like domain in their C-terminal section. It is suggested that the hemopexin domain facilitates binding to a variety of molecules and proteins, for example the HX repeats of some matrixins bind tissue inhibitor of metallopeptidases (TIMPs).


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) · Disease Ontology (DO) · Human Phenotype (HP) · Mouse Phenotype (MP) · Worm Phenotype (WP) · Xenopus Anatomy (XA) · 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 7 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 Hemopexin-like domain 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 7 hidden Markov models representing the Hemopexin-like domain 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) · Disease Ontology (DO) · Human Phenotype (HP) · Mouse Phenotype (MP) · Worm Phenotype (WP) · Xenopus Anatomy (XA) · Enzyme Commission (EC) · UniProtKB KeyWords (KW) · Internal database links ]
Please cite: Gough, J., Karplus, K., Hughey, R. and Chothia, C. (2001). "Assignment of Homology to Genome Sequences using a Library of Hidden Markov Models that Represent all Proteins of Known Structure." J. Mol. Biol., 313(4), 903-919.

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© Copyright 2013 The SUPERFAMILY authors and Julian Gough.