SUPERFAMILY 1.75 HMM library and genome assignments server

Please note: Superfamily is currently under maintenance and some functionality may be limited. Please bear with us as we fix these problems.


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 (175) Uniprot 2014_06 PDB chains (SCOP 1.75)
Domains 5,719 7,075 21
Proteins 5,527 6,914 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 matrix0.00000021310InformativeDirect
Cellular Component (CC)extracellular matrix part0.0000000064790.00000000001302Highly 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 0.00000000002776 Least Informative Direct
Biological Process (BP) developmental process 0.00000001909 Least Informative Direct
Biological Process (BP) response to stimulus 0.000000007757 Least Informative Direct
Biological Process (BP) cellular component organization or biogenesis 0.000001301 Least Informative Direct
Biological Process (BP) regulation of cellular process 1 Least Informative Inherited
Biological Process (BP) regulation of metabolic process 0.7529 Least Informative Inherited
Biological Process (BP) single-organism cellular process 0.009498 Least Informative Inherited
Biological Process (BP) single-organism metabolic process 0.5489 Least Informative Inherited
Biological Process (BP) protein metabolic process 0.6159 Least Informative Inherited
Biological Process (BP) cell differentiation 0.000009111 Moderately Informative Direct
Biological Process (BP) organ development 0.9945 Moderately Informative Inherited
Biological Process (BP) single-organism developmental process 0.09311 Moderately Informative Inherited
Biological Process (BP) regulation of biological quality 0.03435 Moderately Informative Inherited
Biological Process (BP) regulation of localization 0.04209 Moderately Informative Inherited
Biological Process (BP) signal transduction 0.9787 Moderately Informative Inherited
Biological Process (BP) positive regulation of cellular process 0.1013 Moderately Informative Inherited
Biological Process (BP) regulation of multicellular organismal process 0.03803 Moderately Informative Inherited
Biological Process (BP) regulation of catalytic activity 0.00131 Moderately Informative Inherited
Biological Process (BP) regulation of signal transduction 1 Moderately Informative Inherited
Biological Process (BP) regulation of protein metabolic process 0.01327 Moderately Informative Inherited
Biological Process (BP) negative regulation of cellular process 0.1643 Moderately Informative Inherited
Biological Process (BP) regulation of phosphate metabolic process 0.002276 Moderately Informative Inherited
Biological Process (BP) response to abiotic stimulus 0.8586 Moderately Informative Inherited
Biological Process (BP) cellular response to stress 1 Moderately Informative Inherited
Biological Process (BP) nervous system development 0.07053 Moderately Informative Inherited
Biological Process (BP) regulation of developmental process 0.5246 Moderately Informative Inherited
Biological Process (BP) regulation of cellular component organization 0.9858 Moderately Informative Inherited
Biological Process (BP) phosphate-containing compound metabolic process 0.9322 Moderately Informative Inherited
Biological Process (BP) organophosphate metabolic process 0.2278 Moderately Informative Inherited
Biological Process (BP) cellular lipid metabolic process 0.01216 Moderately Informative Inherited
Biological Process (BP) tissue development 0.06743 Moderately Informative Inherited
Biological Process (BP) anatomical structure morphogenesis 0.1883 Moderately Informative Inherited
Biological Process (BP) immune system process 0.002303 Moderately Informative Inherited
Biological Process (BP) positive regulation of response to stimulus 0.03521 Moderately Informative Inherited
Biological Process (BP) regulation of protein phosphorylation 0.00001233 Informative Direct
Biological Process (BP) phospholipid metabolic process 0.0002814 Informative Direct
Biological Process (BP) response to wounding 0.000000002456 Informative Direct
Biological Process (BP) regulation of anatomical structure morphogenesis 0.00006742 Informative Direct
Biological Process (BP) biological adhesion 0 Informative Direct
Biological Process (BP) cell projection organization 0.00000007612 Informative Direct
Biological Process (BP) regulation of apoptotic process 0.00006693 Informative Direct
Biological Process (BP) generation of neurons 0.000000002787 Informative Direct
Biological Process (BP) regulation of body fluid levels 0.000001588 Informative Direct
Biological Process (BP) negative regulation of cell death 0.000004964 Informative Direct
Biological Process (BP) cardiovascular system development 0.00358 Informative Inherited
Biological Process (BP) negative regulation of catalytic activity 0.1147 Informative Inherited
Biological Process (BP) regulation of secretion 0.09153 Informative Inherited
Biological Process (BP) regulation of establishment of protein localization 0.001647 Informative Inherited
Biological Process (BP) positive regulation of transport 0.009131 Informative Inherited
Biological Process (BP) regulation of intracellular protein kinase cascade 0.002478 Informative Inherited
Biological Process (BP) positive regulation of developmental process 0.03048 Informative Inherited
Biological Process (BP) regulation of kinase activity 0.6827 Informative Inherited
Biological Process (BP) cellular component morphogenesis 0.4706 Informative Inherited
Biological Process (BP) regulation of cell development 0.05663 Informative Inherited
Biological Process (BP) enzyme linked receptor protein signaling pathway 0.001422 Informative Inherited
Biological Process (BP) glycerolipid metabolic process 0.001053 Informative Inherited
Biological Process (BP) tissue morphogenesis 0.05646 Informative Inherited
Biological Process (BP) epithelium development 0.8505 Informative Inherited
Biological Process (BP) immune response 0.4042 Informative Inherited
Biological Process (BP) immune effector process 0.09703 Informative Inherited
Biological Process (BP) positive regulation of immune system process 0.1011 Informative Inherited
Biological Process (BP) defense response 0.9436 Informative Inherited
Biological Process (BP) regulation of immune response 0.3064 Informative Inherited
Biological Process (BP) anatomical structure formation involved in morphogenesis 0.2779 Informative Inherited
Biological Process (BP) angiogenesis 0.0001368 Highly Informative Direct
Biological Process (BP) acylglycerol metabolic process 0.000000008424 Highly Informative Direct
Biological Process (BP) humoral immune response 0.0001191 Highly Informative Direct
Biological Process (BP) cell adhesion 0 Highly Informative Direct
Biological Process (BP) transmembrane receptor protein tyrosine kinase signaling pathway 0.000001728 Highly Informative Direct
Biological Process (BP) hemostasis 0.000000000003891 Highly Informative Direct
Biological Process (BP) regulation of cell morphogenesis involved in differentiation 0.0006362 Highly Informative Direct
Biological Process (BP) regulation of cell adhesion 0.000000000000009109 Highly Informative Direct
Biological Process (BP) extracellular matrix organization 0 Highly Informative Direct
Biological Process (BP) neuron projection development 0.0000000000007289 Highly Informative Direct
Biological Process (BP) cell part morphogenesis 0.0007586 Highly Informative Direct
Biological Process (BP) negative regulation of apoptotic process 0.00000006655 Highly Informative Direct
Biological Process (BP) positive regulation of protein secretion 0.00007156 Highly Informative Direct
Biological Process (BP) coagulation 0.00000002339 Highly Informative Direct
Biological Process (BP) protein activation cascade 0.0000000001354 Highly Informative Direct
Biological Process (BP) renal system development 0.02097 Highly Informative Inherited
Biological Process (BP) regulation of cellular response to stress 0.001856 Highly Informative Inherited
Biological Process (BP) regulation of angiogenesis 0.002501 Highly Informative Inherited
Biological Process (BP) regulation of MAP kinase activity 0.1088 Highly Informative Inherited
Biological Process (BP) response to axon injury 0.009707 Highly Informative Inherited
Biological Process (BP) innate immune response 0.03664 Highly Informative Inherited
Molecular Function (MF) binding 0.000002182 Least Informative Direct
Molecular Function (MF) enzyme regulator activity 0.0001935 Moderately Informative Direct
Molecular Function (MF) anion binding 0.02894 Moderately Informative Inherited
Molecular Function (MF) receptor binding 0 Informative Direct
Molecular Function (MF) carbohydrate derivative binding 0.000000000000003071 Informative Direct
Molecular Function (MF) sulfur compound binding 0.000000163 Informative Direct
Molecular Function (MF) heparin binding 0.000000003984 Highly Informative Direct
Molecular Function (MF) protein complex binding 0.000002476 Highly Informative Direct
Molecular Function (MF) cytokine receptor binding 0.2519 Highly Informative Inherited
Molecular Function (MF) growth factor receptor binding 0.0389 Highly Informative Inherited
Cellular Component (CC) protein complex 0.7207 Least Informative Inherited
Cellular Component (CC) membrane 0.3559 Least Informative Inherited
Cellular Component (CC) vesicle 0.00009103 Moderately Informative Direct
Cellular Component (CC) cell projection 0.00002216 Moderately Informative Direct
Cellular Component (CC) extracellular region part 0 Moderately Informative Direct
Cellular Component (CC) intrinsic to membrane 0.9647 Moderately Informative Inherited
Cellular Component (CC) plasma membrane 0.3181 Moderately Informative Inherited
Cellular Component (CC) cell surface 0.00000000414 Informative Direct
Cellular Component (CC) extracellular matrix 0 Informative Direct
Cellular Component (CC) extracellular membrane-bounded organelle 0.00000005496 Informative Direct
Cellular Component (CC) neuron projection 0.06666 Informative Inherited
Cellular Component (CC) integral to membrane 0.2562 Informative Inherited
Cellular Component (CC) intrinsic to plasma membrane 0.5282 Informative Inherited
Cellular Component (CC) extracellular space 0.02461 Informative Inherited
Cellular Component (CC) proteinaceous extracellular matrix 0.000001264 Highly Informative Direct
Cellular Component (CC) ion channel complex 0.00008494 Highly Informative Direct
Cellular Component (CC) main axon 0.0000000001761 Highly Informative Direct
Cellular Component (CC) extracellular matrix part 0.00000000001302 Highly Informative Direct
Cellular Component (CC) integral to plasma membrane 0.07662 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)external sensory organ0Moderately InformativeDirect
Fly Anatomy (FA)sensillum0Moderately 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 immunity0.00000000000006849InformativeDirect
Biological processBlood coagulation0Highly InformativeDirect
Cellular componentSecreted0Moderately InformativeDirect
Cellular componentExtracellular matrix0.00000005274InformativeDirect
DomainSignal0Least InformativeDirect
DomainTransmembrane1Least InformativeInherited
DomainCoiled coil0Moderately InformativeDirect
DomainEGF-like domain0InformativeDirect
DomainCollagen0.00000000000006026Highly InformativeDirect
Molecular functionCalcium0Moderately InformativeDirect
Molecular functionLectin0InformativeDirect
Molecular functionChitin-binding0.0000000000006988Highly InformativeDirect
Post-translational modificationDevelopmental protein0.000000000000001762Moderately InformativeDirect
Post-translational modificationToxin0.002373InformativeInherited
Post-translational modificationHemostasis impairing toxin0.0000003358Highly InformativeDirect
Post-translational modificationGlycoprotein0Least InformativeDirect
Post-translational modificationDisulfide bond0Least InformativeDirect
Post-translational modificationHydroxylation0.00000378InformativeDirect

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 ]