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 (1,846) Uniprot 2013_05 PDB chains (SCOP 1.75)
Domains 6,520 18,393 280
Proteins 6,329 18,094 274


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)multicellular organismal process0.0048350.9361Least InformativeInherited
Biological Process (BP)developmental process0.15391Least InformativeInherited
Biological Process (BP)single-organism cellular process11Least InformativeInherited
Biological Process (BP)cellular component organization or biogenesis0.65731Least InformativeInherited
Biological Process (BP)localization6.668e-070.001291Least InformativeInherited
Biological Process (BP)response to stimulus0.06980.1176Least InformativeInherited
Biological Process (BP)regulation of metabolic process0.053391Least InformativeInherited
Biological Process (BP)regulation of cellular process0.10941Least InformativeInherited
Biological Process (BP)response to abiotic stimulus0.01170.1751Moderately InformativeInherited
Biological Process (BP)macromolecular complex subunit organization0.0024950.05859Moderately InformativeInherited
Biological Process (BP)cellular component biogenesis0.015080.2693Moderately InformativeInherited
Biological Process (BP)single-organism developmental process0.52981Moderately InformativeInherited
Biological Process (BP)organ development0.0026830.6117Moderately InformativeInherited
Biological Process (BP)immune system process6.445e-050.006177Moderately InformativeInherited
Biological Process (BP)homeostatic process0.16080.1174Moderately InformativeInherited
Biological Process (BP)cell differentiation0.0092450.7462Moderately InformativeInherited
Biological Process (BP)negative regulation of metabolic process4.118e-050.05667Moderately InformativeInherited
Biological Process (BP)regulation of gene expression0.000240.6326Moderately InformativeInherited
Biological Process (BP)regulation of macromolecule biosynthetic process0.002730.4662Moderately InformativeInherited
Biological Process (BP)regulation of nucleobase-containing compound metabolic process0.10550.7778Moderately InformativeInherited
Biological Process (BP)regulation of cellular biosynthetic process0.0026010.405Moderately InformativeInherited
Biological Process (BP)negative regulation of cellular process0.06730.5559Moderately InformativeInherited
Biological Process (BP)hematopoietic or lymphoid organ development6.481e-111.565e-06InformativeDirect
Biological Process (BP)regulation of body fluid levels5.261e-050.0005027InformativeDirect
Biological Process (BP)protein complex assembly0.00018310.001846InformativeInherited
Biological Process (BP)response to wounding0.10650.3648InformativeInherited
Biological Process (BP)regulation of transcription from RNA polymerase II promoter1.337e-070.02444InformativeInherited
Biological Process (BP)negative regulation of biosynthetic process2.741e-050.006853InformativeInherited
Biological Process (BP)negative regulation of gene expression1.354e-060.005507InformativeInherited
Biological Process (BP)negative regulation of nitrogen compound metabolic process6.105e-070.004199InformativeInherited
Biological Process (BP)response to hypoxia7.644e-071.427e-05Highly InformativeDirect
Biological Process (BP)hemostasis2.213e-074.137e-05Highly InformativeDirect
Biological Process (BP)erythrocyte differentiation1.698e-126.949e-10Highly InformativeDirect
Biological Process (BP)wound healing6.691e-060.0007903Highly InformativeDirect
Biological Process (BP)coagulation1.139e-053.767e-05Highly InformativeDirect
Biological Process (BP)myeloid cell development2.476e-104.031e-10Highly InformativeDirect
Biological Process (BP)negative regulation of transcription, DNA-dependent2.107e-090.001793Highly InformativeInherited
Molecular Function (MF)binding0.015530.4464Least InformativeInherited
Molecular Function (MF)transporter activity01.821e-14Moderately InformativeDirect
Molecular Function (MF)oxidoreductase activity0.18646.12e-06Moderately InformativeInherited
Molecular Function (MF)tetrapyrrole binding2.888e-058.626e-14InformativeDirect
Molecular Function (MF)peroxidase activity4.063e-071.845e-07Highly InformativeDirect
Molecular Function (MF)heme binding2.116e-055.085e-14Highly InformativeDirect
Cellular Component (CC)protein complex05.391e-09Least InformativeDirect
Cellular Component (CC)cytoplasmic part0.0025523.742e-05Least InformativeInherited
Cellular Component (CC)cytosol04.09e-14Moderately InformativeDirect
Cellular Component (CC)extracellular region part0.094590.261Moderately InformativeInherited
Cellular Component (CC)extracellular space0.02650.0412InformativeInherited
Cellular Component (CC)blood microparticle2.577e-082.089e-08Highly 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) multicellular organismal process 0.9361 Least Informative Inherited
Biological Process (BP) developmental process 1 Least Informative Inherited
Biological Process (BP) single-organism cellular process 1 Least Informative Inherited
Biological Process (BP) cellular component organization or biogenesis 1 Least Informative Inherited
Biological Process (BP) localization 0.001291 Least Informative Inherited
Biological Process (BP) response to stimulus 0.1176 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) response to abiotic stimulus 0.1751 Moderately Informative Inherited
Biological Process (BP) macromolecular complex subunit organization 0.05859 Moderately Informative Inherited
Biological Process (BP) cellular component biogenesis 0.2693 Moderately Informative Inherited
Biological Process (BP) single-organism developmental process 1 Moderately Informative Inherited
Biological Process (BP) organ development 0.6117 Moderately Informative Inherited
Biological Process (BP) immune system process 0.006177 Moderately Informative Inherited
Biological Process (BP) homeostatic process 0.1174 Moderately Informative Inherited
Biological Process (BP) cell differentiation 0.7462 Moderately Informative Inherited
Biological Process (BP) negative regulation of metabolic process 0.05667 Moderately Informative Inherited
Biological Process (BP) regulation of gene expression 0.6326 Moderately Informative Inherited
Biological Process (BP) regulation of macromolecule biosynthetic process 0.4662 Moderately Informative Inherited
Biological Process (BP) regulation of nucleobase-containing compound metabolic process 0.7778 Moderately Informative Inherited
Biological Process (BP) regulation of cellular biosynthetic process 0.405 Moderately Informative Inherited
Biological Process (BP) negative regulation of cellular process 0.5559 Moderately Informative Inherited
Biological Process (BP) hematopoietic or lymphoid organ development 1.565e-06 Informative Direct
Biological Process (BP) regulation of body fluid levels 0.0005027 Informative Direct
Biological Process (BP) protein complex assembly 0.001846 Informative Inherited
Biological Process (BP) response to wounding 0.3648 Informative Inherited
Biological Process (BP) regulation of transcription from RNA polymerase II promoter 0.02444 Informative Inherited
Biological Process (BP) negative regulation of biosynthetic process 0.006853 Informative Inherited
Biological Process (BP) negative regulation of gene expression 0.005507 Informative Inherited
Biological Process (BP) negative regulation of nitrogen compound metabolic process 0.004199 Informative Inherited
Biological Process (BP) response to hypoxia 1.427e-05 Highly Informative Direct
Biological Process (BP) hemostasis 4.137e-05 Highly Informative Direct
Biological Process (BP) erythrocyte differentiation 6.949e-10 Highly Informative Direct
Biological Process (BP) wound healing 0.0007903 Highly Informative Direct
Biological Process (BP) coagulation 3.767e-05 Highly Informative Direct
Biological Process (BP) myeloid cell development 4.031e-10 Highly Informative Direct
Biological Process (BP) negative regulation of transcription, DNA-dependent 0.001793 Highly Informative Inherited
Molecular Function (MF) binding 0.4464 Least Informative Inherited
Molecular Function (MF) transporter activity 1.821e-14 Moderately Informative Direct
Molecular Function (MF) oxidoreductase activity 6.12e-06 Moderately Informative Direct
Molecular Function (MF) tetrapyrrole binding 8.626e-14 Informative Direct
Molecular Function (MF) peroxidase activity 1.845e-07 Highly Informative Direct
Molecular Function (MF) oxidoreductase activity, acting on paired donors, with incorporation or reduction of molecular oxyge 0.0001822 Highly Informative Direct
Molecular Function (MF) heme binding 5.085e-14 Highly Informative Direct
Molecular Function (MF) dioxygenase activity 1.72e-06 Highly Informative Direct
Cellular Component (CC) protein complex 5.391e-09 Least Informative Direct
Cellular Component (CC) cytoplasmic part 3.742e-05 Least Informative Direct
Cellular Component (CC) cytosol 4.09e-14 Moderately Informative Direct
Cellular Component (CC) extracellular region part 0.261 Moderately Informative Inherited
Cellular Component (CC) extracellular space 0.0412 Informative Inherited
Cellular Component (CC) blood microparticle 2.089e-08 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)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 disease0.08606Least InformativeInherited
Disease Ontology (DO)hematopoietic system disease0.0002379Moderately InformativeDirect
Disease Ontology (DO)genetic disease0.0003052Moderately InformativeDirect
Disease Ontology (DO)lung disease0.03979Moderately InformativeInherited
Disease Ontology (DO)autosomal recessive disease2.717e-06InformativeDirect
Disease Ontology (DO)anemia6.903e-06InformativeDirect
Disease Ontology (DO)in situ carcinoma0.0007628InformativeDirect

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 abdomen0.2728Least InformativeInherited
Phenotypic Abnormality (PA)Abnormality of blood and blood-forming tissues0.06378Moderately InformativeInherited
Phenotypic Abnormality (PA)Abnormality of the immune system0.0806Moderately InformativeInherited
Phenotypic Abnormality (PA)Abnormality of the abdominal organs0.154Moderately InformativeInherited
Phenotypic Abnormality (PA)Generalized abnormality of skin0.2558Moderately InformativeInherited
Phenotypic Abnormality (PA)Abnormality of the respiratory system0.2669Moderately InformativeInherited
Phenotypic Abnormality (PA)Abnormality of the biliary system0.0002845InformativeDirect
Phenotypic Abnormality (PA)Dermatological manifestations of systemic disorders0.00207InformativeInherited
Phenotypic Abnormality (PA)Abnormality of the spleen0.002191InformativeInherited
Phenotypic Abnormality (PA)Functional respiratory abnormality0.06574InformativeInherited
Phenotypic Abnormality (PA)Abnormal hemoglobin2.361e-09Highly InformativeDirect
Phenotypic Abnormality (PA)Microcytic anemia1.767e-08Highly InformativeDirect
Phenotypic Abnormality (PA)Nonspherocytic hemolytic anemia4.843e-07Highly InformativeDirect
Phenotypic Abnormality (PA)Abnormality of the heme biosynthetic pathway1.031e-06Highly InformativeDirect
Phenotypic Abnormality (PA)Hypersplenism5.683e-06Highly InformativeDirect
Phenotypic Abnormality (PA)Cyanosis5.666e-05Highly 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 tissue0.7948Least InformativeInherited
Xenopus ANatomical entity (XAN)multi-tissue structure1Moderately InformativeInherited
Xenopus ANatomical entity (XAN)hematological system1.414e-09InformativeDirect
Xenopus ANatomical entity (XAN)ventral blood island2.835e-09Highly InformativeDirect
Xenopus ANatomical entity (XAN)circulatory system1.697e-07Highly 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 groups0.8403Least InformativeInherited
Enzyme Commission (EC)Nucleotidyltransferases0.1186Moderately 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 componentPlastid1.18e-08Moderately InformativeDirect
Cellular componentThylakoid0InformativeDirect
Coding sequence diversityPolymorphism9.899e-08Moderately InformativeDirect
Molecular functionMetal-binding0Least InformativeDirect
Molecular functionIron0Moderately InformativeDirect
Molecular functionFlavoprotein0.1096Moderately InformativeInherited
Molecular functionChromophore0InformativeDirect
Molecular functionHeme0InformativeDirect
Molecular functionFAD8.144e-10InformativeDirect
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 ]