SUPERFAMILY 1.75 HMM library and genome assignments server


Fibrinogen C-terminal domain-like superfamily

SCOP classification
Root:   SCOP hierarchy in SUPERFAMILY [ 0] (11)
Class:   Alpha and beta proteins (a+b) [ 53931] (376)
Fold:   Fibrinogen C-terminal domain-like [ 56495]
Superfamily:   Fibrinogen C-terminal domain-like [ 56496]
Families:   Fibrinogen C-terminal domain-like [ 56497] (2)


Superfamily statistics
Genomes (159) Uniprot 2013_05 PDB chains (SCOP 1.75)
Domains 5,180 5,976 21
Proteins 5,018 5,845 21


Functional annotation
General category Processes_EC
Detailed category Blood clotting

Document:
Function annotation of SCOP domain superfamilies

Gene Ontology (high-quality)

(show details)
GO termFDR (singleton)FDR (all)SDFO levelAnnotation (direct or inherited)
Cellular Component (CC)extracellular matrix3.899e-070InformativeDirect
Cellular Component (CC)extracellular matrix part1.148e-089.125e-12Highly 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 6.11e-09 Least Informative Direct
Biological Process (BP) developmental process 1.479e-07 Least Informative Direct
Biological Process (BP) single-organism cellular process 0.0009424 Least Informative Direct
Biological Process (BP) response to stimulus 1.05e-07 Least Informative Direct
Biological Process (BP) cellular component organization or biogenesis 1.846e-07 Least Informative Direct
Biological Process (BP) regulation of metabolic process 0.742 Least Informative Inherited
Biological Process (BP) regulation of cellular process 1 Least Informative Inherited
Biological Process (BP) protein metabolic process 0.9197 Least Informative Inherited
Biological Process (BP) single-organism metabolic process 0.8172 Least Informative Inherited
Biological Process (BP) cell differentiation 5.091e-06 Moderately Informative Direct
Biological Process (BP) regulation of programmed cell death 8.524e-05 Moderately Informative Direct
Biological Process (BP) regulation of catalytic activity 0.0002492 Moderately Informative Direct
Biological Process (BP) regulation of localization 0.06416 Moderately Informative Inherited
Biological Process (BP) organ development 1 Moderately Informative Inherited
Biological Process (BP) single-organism developmental process 0.01994 Moderately Informative Inherited
Biological Process (BP) signal transduction 1 Moderately Informative Inherited
Biological Process (BP) positive regulation of cellular process 0.05467 Moderately Informative Inherited
Biological Process (BP) regulation of multicellular organismal process 0.1342 Moderately Informative Inherited
Biological Process (BP) regulation of signal transduction 0.7098 Moderately Informative Inherited
Biological Process (BP) regulation of protein metabolic process 0.002749 Moderately Informative Inherited
Biological Process (BP) negative regulation of cellular process 0.02258 Moderately Informative Inherited
Biological Process (BP) regulation of phosphate metabolic process 0.001373 Moderately Informative Inherited
Biological Process (BP) response to abiotic stimulus 0.7104 Moderately Informative Inherited
Biological Process (BP) cellular response to stress 1 Moderately Informative Inherited
Biological Process (BP) nervous system development 0.02103 Moderately Informative Inherited
Biological Process (BP) regulation of developmental process 0.3173 Moderately Informative Inherited
Biological Process (BP) regulation of cellular component organization 0.8556 Moderately Informative Inherited
Biological Process (BP) phosphate-containing compound metabolic process 0.8741 Moderately Informative Inherited
Biological Process (BP) organophosphate metabolic process 0.1854 Moderately Informative Inherited
Biological Process (BP) cellular lipid metabolic process 0.008554 Moderately Informative Inherited
Biological Process (BP) tissue development 0.178 Moderately Informative Inherited
Biological Process (BP) anatomical structure morphogenesis 0.06148 Moderately Informative Inherited
Biological Process (BP) immune system process 0.007885 Moderately Informative Inherited
Biological Process (BP) positive regulation of response to stimulus 0.03472 Moderately Informative Inherited
Biological Process (BP) regulation of protein phosphorylation 6.374e-06 Informative Direct
Biological Process (BP) phospholipid metabolic process 0.0002228 Informative Direct
Biological Process (BP) enzyme linked receptor protein signaling pathway 5.436e-05 Informative Direct
Biological Process (BP) response to wounding 6.42e-08 Informative Direct
Biological Process (BP) regulation of anatomical structure morphogenesis 3.775e-05 Informative Direct
Biological Process (BP) biological adhesion 0 Informative Direct
Biological Process (BP) cell projection organization 3.25e-08 Informative Direct
Biological Process (BP) generation of neurons 6.841e-10 Informative Direct
Biological Process (BP) regulation of body fluid levels 0.0001402 Informative Direct
Biological Process (BP) negative regulation of cell death 4.495e-06 Informative Direct
Biological Process (BP) cardiovascular system development 0.001838 Informative Inherited
Biological Process (BP) negative regulation of catalytic activity 0.1143 Informative Inherited
Biological Process (BP) regulation of intracellular protein kinase cascade 0.002428 Informative Inherited
Biological Process (BP) positive regulation of developmental process 0.02749 Informative Inherited
Biological Process (BP) regulation of kinase activity 0.7239 Informative Inherited
Biological Process (BP) cellular component morphogenesis 0.4656 Informative Inherited
Biological Process (BP) regulation of locomotion 0.02391 Informative Inherited
Biological Process (BP) regulation of cellular component movement 0.006741 Informative Inherited
Biological Process (BP) regulation of cell development 0.04203 Informative Inherited
Biological Process (BP) glycerolipid metabolic process 0.001124 Informative Inherited
Biological Process (BP) tissue morphogenesis 0.03287 Informative Inherited
Biological Process (BP) epithelium development 0.5046 Informative Inherited
Biological Process (BP) immune response 0.4931 Informative Inherited
Biological Process (BP) immune effector process 0.05264 Informative Inherited
Biological Process (BP) positive regulation of immune system process 0.2129 Informative Inherited
Biological Process (BP) regulation of immune response 0.3775 Informative Inherited
Biological Process (BP) defense response 0.9149 Informative Inherited
Biological Process (BP) anatomical structure formation involved in morphogenesis 0.1835 Informative Inherited
Biological Process (BP) angiogenesis 0.0001509 Highly Informative Direct
Biological Process (BP) acylglycerol metabolic process 5.778e-09 Highly Informative Direct
Biological Process (BP) humoral immune response 2.331e-05 Highly Informative Direct
Biological Process (BP) cell adhesion 0 Highly Informative Direct
Biological Process (BP) transmembrane receptor protein tyrosine kinase signaling pathway 1.238e-06 Highly Informative Direct
Biological Process (BP) hemostasis 1.802e-08 Highly Informative Direct
Biological Process (BP) regulation of cell morphogenesis involved in differentiation 0.0004351 Highly Informative Direct
Biological Process (BP) regulation of cell adhesion 0 Highly Informative Direct
Biological Process (BP) extracellular matrix organization 0 Highly Informative Direct
Biological Process (BP) neuron projection development 1.701e-13 Highly Informative Direct
Biological Process (BP) cell part morphogenesis 0.0004262 Highly Informative Direct
Biological Process (BP) coagulation 6.466e-06 Highly Informative Direct
Biological Process (BP) protein activation cascade 7.359e-07 Highly Informative Direct
Biological Process (BP) regulation of cellular response to stress 0.0005036 Highly Informative Direct
Biological Process (BP) renal system development 0.01434 Highly Informative Inherited
Biological Process (BP) regulation of angiogenesis 0.002624 Highly Informative Inherited
Biological Process (BP) regulation of MAP kinase activity 0.1276 Highly Informative Inherited
Biological Process (BP) response to axon injury 0.005201 Highly Informative Inherited
Biological Process (BP) activation of immune response 0.006385 Highly Informative Inherited
Biological Process (BP) innate immune response 0.06844 Highly Informative Inherited
Molecular Function (MF) binding 1.266e-07 Least Informative Direct
Molecular Function (MF) enzyme regulator activity 0.0001226 Moderately Informative Direct
Molecular Function (MF) anion binding 0.03216 Moderately Informative Inherited
Molecular Function (MF) receptor binding 0 Informative Direct
Molecular Function (MF) carbohydrate derivative binding 3.054e-15 Informative Direct
Molecular Function (MF) sulfur compound binding 1.538e-07 Informative Direct
Molecular Function (MF) heparin binding 4.301e-09 Highly Informative Direct
Molecular Function (MF) protein complex binding 2.148e-06 Highly Informative Direct
Molecular Function (MF) cytokine receptor binding 0.2361 Highly Informative Inherited
Molecular Function (MF) growth factor receptor binding 0.03499 Highly Informative Inherited
Cellular Component (CC) protein complex 0.612 Least Informative Inherited
Cellular Component (CC) membrane 0.758 Least Informative Inherited
Cellular Component (CC) cell projection 7.906e-06 Moderately Informative Direct
Cellular Component (CC) extracellular region part 0 Moderately Informative Direct
Cellular Component (CC) vesicle 0.001442 Moderately Informative Inherited
Cellular Component (CC) intrinsic to membrane 0.7601 Moderately Informative Inherited
Cellular Component (CC) plasma membrane part 0.02806 Moderately Informative Inherited
Cellular Component (CC) cell surface 9.24e-08 Informative Direct
Cellular Component (CC) extracellular matrix 0 Informative Direct
Cellular Component (CC) extracellular membrane-bounded organelle 6.466e-06 Informative Direct
Cellular Component (CC) neuron projection 0.03444 Informative Inherited
Cellular Component (CC) integral to membrane 0.2113 Informative Inherited
Cellular Component (CC) intrinsic to plasma membrane 0.3046 Informative Inherited
Cellular Component (CC) extracellular space 0.1494 Informative Inherited
Cellular Component (CC) proteinaceous extracellular matrix 8.811e-06 Highly Informative Direct
Cellular Component (CC) axon part 0.0005035 Highly Informative Direct
Cellular Component (CC) ion channel complex 6.067e-05 Highly Informative Direct
Cellular Component (CC) extracellular matrix part 9.125e-12 Highly Informative Direct
Cellular Component (CC) blood microparticle 1.283e-05 Highly Informative Direct
Cellular Component (CC) integral to plasma membrane 0.05911 Highly Informative Inherited

Document: GO annotation of SCOP domains

Worm Phenotype (WP)

(show details)
WP termFDR (all)SDWP levelAnnotation (direct or inherited)
Worm Phenotype (WP)growth variant0Least InformativeDirect
Worm Phenotype (WP)developmental timing variant0Least InformativeDirect
Worm Phenotype (WP)larval development variant0Least InformativeDirect
Worm Phenotype (WP)larval lethal0Moderately InformativeDirect
Worm Phenotype (WP)sterile progeny0Moderately InformativeDirect

Document: WP annotation of SCOP domains

Fly Anatomy (FA)

(show details)
FA termFDR (all)SDFA levelAnnotation (direct or inherited)
Fly Anatomy (FA)anatomical group0Least InformativeDirect
Fly Anatomy (FA)sense organ0Moderately InformativeDirect
Fly Anatomy (FA)cell cluster organ0Moderately InformativeDirect
Fly Anatomy (FA)chaeta0InformativeDirect

Document: FA annotation of SCOP domains

Xenopus Anatomy (XA)

(show details) Document: XA annotation of SCOP domains

UniProtKB KeyWords (KW)

(show details)
KW termFDR (all)SDKW levelAnnotation (direct or inherited)
Biological processDifferentiation0Moderately InformativeDirect
Biological processAngiogenesis0InformativeDirect
Biological processCell adhesion0InformativeDirect
Biological processHemostasis0InformativeDirect
Biological processInnate immunity5.619e-14InformativeDirect
Biological processBlood coagulation0Highly InformativeDirect
Cellular componentSecreted0Moderately InformativeDirect
Cellular componentExtracellular matrix6.104e-08InformativeDirect
DomainSignal0Least InformativeDirect
DomainTransmembrane1Least InformativeInherited
DomainCoiled coil0Moderately InformativeDirect
DomainEGF-like domain0InformativeDirect
DomainCollagen6.448e-14Highly InformativeDirect
Molecular functionCalcium0Moderately InformativeDirect
Molecular functionLectin0InformativeDirect
Molecular functionChitin-binding3.17e-13Highly InformativeDirect
Post-translational modificationDevelopmental protein1.762e-15Moderately InformativeDirect
Post-translational modificationToxin0.002171InformativeInherited
Post-translational modificationHemostasis impairing toxin2.69e-07Highly InformativeDirect
Post-translational modificationGlycoprotein0Least InformativeDirect
Post-translational modificationDisulfide bond0Least InformativeDirect
Post-translational modificationHydroxylation2.921e-06InformativeDirect

Document: KW annotation of SCOP domains

InterPro annotation
Cross references IPR002181 SSF56496 Protein matches
Abstract

This entry represents the C-terminal globular D domain of the alpha, beta and gamma chains. These domains are related to domains in other proteins: in the Parastichopus parvimensis (Sea cucumber) fibrogen-like FreP-A and FreP-B proteins; in the C-terminus of the Drosophila scabrous protein that is involved in the regulation of neurogenesis, possibly through the inhibition of R8 cell differentiation; and in ficolin proteins, which display lectin activity towards N-acetylglucosamine through their fibrogen-like domains [PubMed12396010].

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


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) · Worm Phenotype (WP) · Fly Anatomy (FA) · Xenopus Anatomy (XA) · 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 8 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 Fibrinogen C-terminal 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 8 hidden Markov models representing the Fibrinogen C-terminal 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 · InterPro annotation · PDBeMotif links · Functional annotation · Gene Ontology (high-quality) · Gene Ontology (high-coverage) · Worm Phenotype (WP) · Fly Anatomy (FA) · Xenopus Anatomy (XA) · UniProtKB KeyWords (KW) · Internal database links ]