SUPERFAMILY 1.75 HMM library and genome assignments server

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MurCD N-terminal domain superfamily

SCOP classification
Root:   SCOP hierarchy in SUPERFAMILY [ 0] (11)
Class:   Alpha and beta proteins (a/b) [ 51349] (147)
Fold:   MurCD N-terminal domain [ 51983]
Superfamily:   MurCD N-terminal domain [ 51984]
Families:   MurCD N-terminal domain [ 51985] (2)


Superfamily statistics
Genomes (2,494) Uniprot 2014_06 PDB chains (SCOP 1.75)
Domains 5,570 36,347 4
Proteins 5,569 36,343 4


Functional annotation
General category Metabolism
Detailed category Other enzymes

Document:
Function annotation of SCOP domain superfamilies

Gene Ontology (high-coverage)

(show details)
GO term FDR (all) SDFO level Annotation (direct or inherited)
Biological Process (BP) biosynthetic process 0.00008457 Least Informative Direct
Biological Process (BP) single-organism metabolic process 0.0003032 Least Informative Direct
Biological Process (BP) nitrogen compound metabolic process 0.0003975 Least Informative Direct
Biological Process (BP) cellular macromolecule metabolic process 0.05916 Least Informative Inherited
Biological Process (BP) cellular component organization or biogenesis 0.004792 Least Informative Inherited
Biological Process (BP) single-organism cellular process 0.05971 Least Informative Inherited
Biological Process (BP) organonitrogen compound biosynthetic process 0.00000002519 Moderately Informative Direct
Biological Process (BP) cellular component biogenesis 0.00002426 Moderately Informative Direct
Biological Process (BP) carbohydrate derivative metabolic process 0.00003224 Moderately Informative Direct
Biological Process (BP) cellular macromolecule biosynthetic process 0.0004164 Moderately Informative Direct
Biological Process (BP) cellular component macromolecule biosynthetic process 0.0000000000004191 Highly Informative Direct
Biological Process (BP) glycosaminoglycan metabolic process 0.000000000002305 Highly Informative Direct
Biological Process (BP) cell wall macromolecule metabolic process 0.000000000008828 Highly Informative Direct
Biological Process (BP) cell wall biogenesis 0.00000000001249 Highly Informative Direct
Biological Process (BP) aminoglycan biosynthetic process 0.00000000002867 Highly Informative Direct
Molecular Function (MF) ligase activity, forming carbon-nitrogen bonds 0.000000000000001557 Informative Direct

Document: GO annotation of SCOP domains

Enzyme Commission (EC)

(show details)
EC termFDR (all)SDEO levelAnnotation (direct or inherited)
Enzyme Commission (EC)Ligases0Least InformativeDirect
Enzyme Commission (EC)Forming carbon-nitrogen bonds0Moderately InformativeDirect
Enzyme Commission (EC)Acid--D-amino-acid ligases (peptide synthases)0InformativeDirect
Enzyme Commission (EC)UDP-N-acetylmuramate--L-alanine ligase0Highly InformativeDirect
Enzyme Commission (EC)UDP-N-acetylmuramoyl-L-alanine--D-glutamate ligase0Highly InformativeDirect

Document: EC annotation of SCOP domains

Enzyme Commission (EC)

(show details)
EC termFDR (all)SDEC levelAnnotation (direct or inherited)
Enzyme Commission (EC)Ligases0Moderately InformativeDirect
Enzyme Commission (EC)Acid--amino-acid ligases (peptide synthases)0InformativeDirect

Document: EC annotation of SCOP domains

UniProtKB KeyWords (KW)

(show details)
KW termFDR (all)SDKW levelAnnotation (direct or inherited)
Biological processCell cycle0Moderately InformativeDirect
Biological processCell shape0InformativeDirect
Biological processCell wall biogenesis/degradation0InformativeDirect
Biological processPeptidoglycan synthesis0Highly InformativeDirect
Cellular componentCytoplasm0Least InformativeDirect
Molecular functionNucleotide-binding0Least InformativeDirect
Molecular functionATP-binding0Moderately InformativeDirect
Post-translational modificationLigase0Moderately InformativeDirect

Document: KW annotation of SCOP domains

Jump to [ Top of page · SCOP classification · Functional annotation · Gene Ontology (high-coverage) · Enzyme Commission (EC) · 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 3 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 MurCD N-terminal 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 3 hidden Markov models representing the MurCD N-terminal 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 · Functional annotation · Gene Ontology (high-coverage) · Enzyme Commission (EC) · Enzyme Commission (EC) · UniProtKB KeyWords (KW) · Internal database links ]