SUPERFAMILY 1.75 HMM library and genome assignments server

Globin-like superfamily

SCOP classification
Root:   SCOP hierarchy in SUPERFAMILY [ 0] (11)
Class:   All alpha proteins [ 46456] (284)
Fold:   Globin-like [ 46457] (2)
Superfamily:   Globin-like [ 46458] (4)
Families:   Truncated hemoglobin [ 46459]
  Nerve tissue mini-hemoglobin (neural globin) [ 74660]
  Globins [ 46463] (26)
  Phycocyanin-like phycobilisome proteins [ 46532] (6)


Superfamily statistics
Genomes (1,890) Uniprot 2014_06 PDB chains (SCOP 1.75)
Domains 6,838 32,577 280
Proteins 6,613 32,257 274


Functional annotation
General category Metabolism
Detailed category Energy

Document:
Function annotation of SCOP domain superfamilies

Gene Ontology (high-quality)

(show details)
GO termFDR (singleton)FDR (all)SDFO levelAnnotation (direct or inherited)
Biological Process (BP)localization0.000000027940.0003074Least InformativeDirect
Biological Process (BP)cellular component organization or biogenesis0.7731Least InformativeInherited
Biological Process (BP)single-organism cellular process11Least InformativeInherited
Biological Process (BP)multicellular organismal process0.0077911Least InformativeInherited
Biological Process (BP)developmental process0.22071Least InformativeInherited
Biological Process (BP)response to stimulus0.050570.06536Least InformativeInherited
Biological Process (BP)regulation of metabolic process0.061581Least InformativeInherited
Biological Process (BP)regulation of cellular process0.13891Least InformativeInherited
Biological Process (BP)cellular component biogenesis0.025820.3709Moderately InformativeInherited
Biological Process (BP)macromolecular complex subunit organization0.01160.3303Moderately InformativeInherited
Biological Process (BP)regulation of biological quality0.0017090.05911Moderately InformativeInherited
Biological Process (BP)organ development0.0036590.7463Moderately InformativeInherited
Biological Process (BP)immune system process0.00016360.01378Moderately InformativeInherited
Biological Process (BP)cell differentiation0.021080.9046Moderately InformativeInherited
Biological Process (BP)response to abiotic stimulus0.024170.1762Moderately InformativeInherited
Biological Process (BP)negative regulation of metabolic process0.00055680.1892Moderately InformativeInherited
Biological Process (BP)regulation of gene expression0.0027210.856Moderately InformativeInherited
Biological Process (BP)regulation of macromolecule biosynthetic process0.00084650.5862Moderately InformativeInherited
Biological Process (BP)regulation of nucleobase-containing compound metabolic process0.044760.7693Moderately InformativeInherited
Biological Process (BP)regulation of cellular biosynthetic process0.00060010.387Moderately InformativeInherited
Biological Process (BP)negative regulation of cellular process0.088210.7673Moderately InformativeInherited
Biological Process (BP)hematopoietic or lymphoid organ development0.00000000049450.000006779InformativeDirect
Biological Process (BP)regulation of body fluid levels0.000054950.0006987InformativeDirect
Biological Process (BP)protein oligomerization0.0000010980.00001046InformativeDirect
Biological Process (BP)regulation of transcription from RNA polymerase II promoter0.00000041080.0435InformativeInherited
Biological Process (BP)negative regulation of biosynthetic process0.0000083990.01406InformativeInherited
Biological Process (BP)negative regulation of nitrogen compound metabolic process0.00000056020.01176InformativeInherited
Biological Process (BP)response to hypoxia0.0000037070.00001259Highly InformativeDirect
Biological Process (BP)hemostasis0.00000033980.00005714Highly InformativeDirect
Biological Process (BP)gas transport00Highly InformativeDirect
Biological Process (BP)erythrocyte differentiation0.0000000000052730.000000001389Highly InformativeDirect
Biological Process (BP)coagulation0.000011540.00005218Highly InformativeDirect
Biological Process (BP)myeloid cell development0.00000000036330.000000002389Highly InformativeDirect
Biological Process (BP)wound healing0.000010720.001233Highly InformativeInherited
Biological Process (BP)negative regulation of transcription, DNA-templated0.0000000068250.003865Highly InformativeInherited
Molecular Function (MF)binding0.000061780.04281Least InformativeInherited
Molecular Function (MF)transporter activity00.00000000000012Moderately InformativeDirect
Molecular Function (MF)oxidoreductase activity0.058750.000003749Moderately InformativeInherited
Molecular Function (MF)tetrapyrrole binding0.00000021050InformativeDirect
Molecular Function (MF)antioxidant activity0.000013730.000007422Highly InformativeDirect
Molecular Function (MF)oxidoreductase activity, acting on peroxide as acceptor0.0000016310.0002258Highly InformativeDirect
Molecular Function (MF)heme binding0.00000014220Highly InformativeDirect
Cellular Component (CC)protein complex00.00000003615Least InformativeDirect
Cellular Component (CC)cytoplasmic part0.0015430.0004025Least InformativeInherited
Cellular Component (CC)cytosol0.0000000000000014290.00000000000004498Moderately InformativeDirect
Cellular Component (CC)extracellular region part0.020390.08158Moderately InformativeInherited
Cellular Component (CC)extracellular space0.45170.246InformativeInherited

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) localization 0.0003074 Least Informative Direct
Biological Process (BP) cellular component organization or biogenesis 1 Least Informative Inherited
Biological Process (BP) single-organism cellular process 1 Least Informative Inherited
Biological Process (BP) multicellular organismal process 1 Least Informative Inherited
Biological Process (BP) developmental process 1 Least Informative Inherited
Biological Process (BP) response to stimulus 0.06536 Least Informative Inherited
Biological Process (BP) regulation of metabolic process 1 Least Informative Inherited
Biological Process (BP) regulation of cellular process 1 Least Informative Inherited
Biological Process (BP) cellular component biogenesis 0.3709 Moderately Informative Inherited
Biological Process (BP) macromolecular complex subunit organization 0.3303 Moderately Informative Inherited
Biological Process (BP) regulation of biological quality 0.05911 Moderately Informative Inherited
Biological Process (BP) organ development 0.7463 Moderately Informative Inherited
Biological Process (BP) immune system process 0.01378 Moderately Informative Inherited
Biological Process (BP) cell differentiation 0.9046 Moderately Informative Inherited
Biological Process (BP) response to abiotic stimulus 0.1762 Moderately Informative Inherited
Biological Process (BP) negative regulation of metabolic process 0.1892 Moderately Informative Inherited
Biological Process (BP) regulation of gene expression 0.856 Moderately Informative Inherited
Biological Process (BP) regulation of macromolecule biosynthetic process 0.5862 Moderately Informative Inherited
Biological Process (BP) regulation of nucleobase-containing compound metabolic process 0.7693 Moderately Informative Inherited
Biological Process (BP) regulation of cellular biosynthetic process 0.387 Moderately Informative Inherited
Biological Process (BP) negative regulation of cellular process 0.7673 Moderately Informative Inherited
Biological Process (BP) hematopoietic or lymphoid organ development 0.000006779 Informative Direct
Biological Process (BP) regulation of body fluid levels 0.0006987 Informative Direct
Biological Process (BP) protein oligomerization 0.00001046 Informative Direct
Biological Process (BP) regulation of transcription from RNA polymerase II promoter 0.0435 Informative Inherited
Biological Process (BP) negative regulation of biosynthetic process 0.01406 Informative Inherited
Biological Process (BP) negative regulation of nitrogen compound metabolic process 0.01176 Informative Inherited
Biological Process (BP) response to hypoxia 0.00001259 Highly Informative Direct
Biological Process (BP) hemostasis 0.00005714 Highly Informative Direct
Biological Process (BP) response to toxic substance 0.00008794 Highly Informative Direct
Biological Process (BP) gas transport 0 Highly Informative Direct
Biological Process (BP) erythrocyte differentiation 0.000000001389 Highly Informative Direct
Biological Process (BP) coagulation 0.00005218 Highly Informative Direct
Biological Process (BP) myeloid cell development 0.000000002389 Highly Informative Direct
Biological Process (BP) wound healing 0.001233 Highly Informative Inherited
Biological Process (BP) negative regulation of transcription, DNA-templated 0.003865 Highly Informative Inherited
Molecular Function (MF) binding 0.04281 Least Informative Inherited
Molecular Function (MF) transporter activity 0.00000000000012 Moderately Informative Direct
Molecular Function (MF) oxidoreductase activity 0.000003749 Moderately Informative Direct
Molecular Function (MF) tetrapyrrole binding 0 Informative Direct
Molecular Function (MF) antioxidant activity 0.000007422 Highly Informative Direct
Molecular Function (MF) oxidoreductase activity, acting on peroxide as acceptor 0.0002258 Highly Informative Direct
Molecular Function (MF) oxidoreductase activity, acting on paired donors, with incorporation or reduction of molecular oxyge 0.00002475 Highly Informative Direct
Molecular Function (MF) heme binding 0 Highly Informative Direct
Molecular Function (MF) dioxygenase activity 0.0000002246 Highly Informative Direct
Cellular Component (CC) protein complex 0.00000003615 Least Informative Direct
Cellular Component (CC) cytoplasmic part 0.0004025 Least Informative Direct
Cellular Component (CC) cytosol 0.00000000000004498 Moderately Informative Direct
Cellular Component (CC) extracellular region part 0.08158 Moderately Informative Inherited
Cellular Component (CC) extracellular space 0.246 Informative Inherited

Document: GO annotation of SCOP domains

Enzyme Commission (EC)

(show details)
EC termFDR (all)SDEO levelAnnotation (direct or inherited)
Enzyme Commission (EC)Oxidoreductases0Least InformativeDirect
Enzyme Commission (EC)Nucleotidyltransferases0.1027Least InformativeInherited
Enzyme Commission (EC)Acting on paired donors, with incorporation or red0Moderately InformativeDirect
Enzyme Commission (EC)Nitric oxide dioxygenase0Highly InformativeDirect

Document: EC annotation of SCOP domains

Disease Ontology (DO)

(show details)
DO termFDR (all)SDDO levelAnnotation (direct or inherited)
Disease Ontology (DO)immune system disease0.08738Least InformativeInherited
Disease Ontology (DO)hematopoietic system disease0.0002328Moderately InformativeDirect
Disease Ontology (DO)genetic disease0.0004018Moderately InformativeDirect
Disease Ontology (DO)autosomal recessive disease0.000002384InformativeDirect
Disease Ontology (DO)in situ carcinoma0.000793InformativeDirect

Document: DO annotation of SCOP domains

Human Phenotype (HP)

(show details)
HP termFDR (all)SDHP levelAnnotation (direct or inherited)
Mode of Inheritance (MI)Autosomal dominant inheritance0Least InformativeDirect
Phenotypic Abnormality (PA)Abnormality of metabolism/homeostasis0Least InformativeDirect
Phenotypic Abnormality (PA)Abnormality of the abdomen0.2722Least InformativeInherited
Phenotypic Abnormality (PA)Abnormality of blood and blood-forming tissues0.06156Moderately InformativeInherited
Phenotypic Abnormality (PA)Abnormality of the immune system0.08025Moderately InformativeInherited
Phenotypic Abnormality (PA)Generalized abnormality of skin0.2562Moderately InformativeInherited
Phenotypic Abnormality (PA)Abnormality of the biliary system0.0002606InformativeDirect
Phenotypic Abnormality (PA)Dermatological manifestations of systemic disorders0.00194InformativeInherited
Phenotypic Abnormality (PA)Abnormality of the spleen0.002062InformativeInherited
Phenotypic Abnormality (PA)Functional respiratory abnormality0.06324InformativeInherited
Phenotypic Abnormality (PA)Abnormal hemoglobin0.000000002448Highly InformativeDirect
Phenotypic Abnormality (PA)Microcytic anemia0.00000001825Highly InformativeDirect
Phenotypic Abnormality (PA)Nonspherocytic hemolytic anemia0.0000004885Highly InformativeDirect
Phenotypic Abnormality (PA)Abnormality of the heme biosynthetic pathway0.0000007941Highly InformativeDirect
Phenotypic Abnormality (PA)Hypersplenism0.000005762Highly InformativeDirect
Phenotypic Abnormality (PA)Cyanosis0.00004416Highly InformativeDirect

Document: HP annotation of SCOP domains

Worm Phenotype (WP)

(show details) Document: WP annotation of SCOP domains

Xenopus Anatomy (XA)

(show details)
XA termFDR (all)SDXA levelAnnotation (direct or inherited)
Xenopus ANatomical entity (XAN)central nervous system0Least InformativeDirect
Xenopus ANatomical entity (XAN)head0Least InformativeDirect
Xenopus ANatomical entity (XAN)portion of tissue0.7985Least InformativeInherited
Xenopus ANatomical entity (XAN)embryo0.9392Least InformativeInherited
Xenopus ANatomical entity (XAN)embryonic structure0.366Moderately InformativeInherited
Xenopus ANatomical entity (XAN)multi-tissue structure1Moderately InformativeInherited
Xenopus ANatomical entity (XAN)hematological system0.000000001816InformativeDirect
Xenopus ANatomical entity (XAN)mesoderm0.04824InformativeInherited
Xenopus ANatomical entity (XAN)ventral blood island0.000000003084Highly InformativeDirect
Xenopus ANatomical entity (XAN)blood vessel0.00001442Highly InformativeDirect

Document: XA annotation of SCOP domains

Arabidopsis Plant Ontology (AP)

(show details)
AP termFDR (all)SDAP levelAnnotation (direct or inherited)
Plant ANatomical entity (PAN)whole plant0Least InformativeDirect
Plant ANatomical entity (PAN)guard cell0Least InformativeDirect
Plant ANatomical entity (PAN)seed0Least InformativeDirect
Plant ANatomical entity (PAN)megasporophyll0Least InformativeDirect
Plant ANatomical entity (PAN)microsporophyll0Least InformativeDirect
Plant ANatomical entity (PAN)flower0Least InformativeDirect
Plant ANatomical entity (PAN)inflorescence0Least InformativeDirect
Plant ANatomical entity (PAN)collective phyllome structure0Least InformativeDirect
Plant ANatomical entity (PAN)root system0Least InformativeDirect
Plant ANatomical entity (PAN)shoot axis0Least InformativeDirect
Plant ANatomical entity (PAN)leaf0Least InformativeDirect
Plant ANatomical entity (PAN)cardinal part of multi-tissue plant structure0Least InformativeDirect
Plant structure DEvelopment stage (PDE)E expanded cotyledon stage0Least InformativeDirect
Plant structure DEvelopment stage (PDE)F mature embryo stage0Least InformativeDirect
Plant structure DEvelopment stage (PDE)C globular stage0Least InformativeDirect
Plant structure DEvelopment stage (PDE)D bilateral stage0Least InformativeDirect
Plant structure DEvelopment stage (PDE)LP.04 four leaves visible stage0Least InformativeDirect

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)Transferring phosphorous-containing groups0.8275Least InformativeInherited
Enzyme Commission (EC)Nucleotidyltransferases0.1127Moderately InformativeInherited
Enzyme Commission (EC)Acting on paired donors, with incorporation or reduction of molecular oxygen0InformativeDirect
Enzyme Commission (EC)With NADH or NADPH as one donor, and incorporation of two atoms of oxygen into one donor0Highly InformativeDirect

Document: EC annotation of SCOP domains

UniProtKB KeyWords (KW)

(show details)
KW termFDR (all)SDKW levelAnnotation (direct or inherited)
Biological processTransport0Least InformativeDirect
Biological processNitrogen fixation0InformativeDirect
Biological processPhotosynthesis0InformativeDirect
Biological processDetoxification0Highly InformativeDirect
Biological processOxygen transport0Highly InformativeDirect
Cellular componentPlastid0.00000001494Moderately InformativeDirect
Cellular componentThylakoid0InformativeDirect
Coding sequence diversityPolymorphism0.00000009025Moderately InformativeDirect
Molecular functionMetal-binding0Least InformativeDirect
Molecular functionIron0Moderately InformativeDirect
Molecular functionFlavoprotein0.1084Moderately InformativeInherited
Molecular functionChromophore0InformativeDirect
Molecular functionHeme0InformativeDirect
Molecular functionFAD0.0000000008916InformativeDirect
Post-translational modificationMuscle protein0Highly InformativeDirect
Post-translational modificationAcetylation0Least InformativeDirect
Post-translational modificationMethylation0Moderately InformativeDirect
Post-translational modificationS-nitrosylation0InformativeDirect

Document: KW annotation of SCOP domains

InterPro annotation
Cross references IPR009050 SSF46458 Protein matches
Abstract

This entry represents proteins with a globin-like fold consisting of six helices in a partly opened, folded leaf topology, as well as the truncated globins that lack the initial helix. This includes both the globins themselves, and the phycocyanin-like phycobilisome proteins (phycocyanin, allophycocyanin, phycoerythrin and phycoerythrocyanin). Phycobilisome proteins are oligomers of two different types of globin-like subunits that contain two extra helices at the N-terminus, and which are use to bind a bilin chromophore. They occur in red algae and cyanobacteria, where they are used for light-harvesting [PubMed10358042].

More information about these proteins can be found at Protein of the Month: Haemoglobin.


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) · Worm Phenotype (WP) · 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 110 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 Globin-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 110 hidden Markov models representing the Globin-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 · InterPro annotation · PDBeMotif links · Functional annotation · Gene Ontology (high-quality) · Gene Ontology (high-coverage) · Enzyme Commission (EC) · Disease Ontology (DO) · Human Phenotype (HP) · Worm Phenotype (WP) · Xenopus Anatomy (XA) · Arabidopsis Plant Ontology (AP) · Enzyme Commission (EC) · UniProtKB KeyWords (KW) · Internal database links ]