SUPERFAMILY 1.75 HMM library and genome assignments server

Superfamily is undergoing a server migration - you are now browsing on the new server. Please contact us if you experience any problems.


Lissencephaly-1 protein (Lis-1, PAF-AH alpha) N-terminal domain superfamily

SCOP classification
Root:   SCOP hierarchy in SUPERFAMILY [ 0] (11)
Class:   All alpha proteins [ 46456] (284)
Fold:   Lissencephaly-1 protein (Lis-1, PAF-AH alpha) N-terminal domain [ 109924]
Superfamily:   Lissencephaly-1 protein (Lis-1, PAF-AH alpha) N-terminal domain [ 109925]
Families:   Lissencephaly-1 protein (Lis-1, PAF-AH alpha) N-terminal domain [ 109926]


Superfamily statistics
Genomes (359) Uniprot 2014_06 PDB chains (SCOP 1.75)
Domains 433 502 2
Proteins 433 502 2


Functional annotation
General category Other
Detailed category Unknown function

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) single-organism cellular process 0.182 Least Informative Inherited
Biological Process (BP) cellular localization 0.00000000001746 Moderately Informative Direct
Biological Process (BP) single-organism transport 0.000007579 Moderately Informative Direct
Biological Process (BP) reproduction 0.00003709 Moderately Informative Direct
Biological Process (BP) multi-organism process 0.000243 Moderately Informative Direct
Biological Process (BP) system development 0.6684 Moderately Informative Inherited
Biological Process (BP) organelle localization 0 Informative Direct
Biological Process (BP) single-organism intracellular transport 0.000000002795 Informative Direct
Biological Process (BP) central nervous system development 0.00000009012 Informative Direct
Biological Process (BP) microtubule-based process 0.0000001172 Informative Direct
Biological Process (BP) multi-organism reproductive process 0.0000003031 Informative Direct
Biological Process (BP) movement of cell or subcellular component 0.0001073 Informative Direct
Biological Process (BP) single organism reproductive process 0.0005263 Informative Direct
Biological Process (BP) microtubule-based movement 0.00000000001622 Highly Informative Direct
Biological Process (BP) brain development 0.00002069 Highly Informative Direct
Molecular Function (MF) binding 0.0002662 Least Informative Direct
Molecular Function (MF) cytoskeletal protein binding 0.000007642 Informative Direct
Molecular Function (MF) tubulin binding 0.000000000008461 Highly Informative Direct
Cellular Component (CC) non-membrane-bounded organelle 0.0000002553 Least Informative Direct
Cellular Component (CC) intracellular organelle part 0.03073 Least Informative Inherited
Cellular Component (CC) cytoskeleton 0.0000000002221 Moderately Informative Direct
Cellular Component (CC) microtubule cytoskeleton 0.000000000002821 Informative Direct

Document: GO annotation of SCOP domains

UniProtKB KeyWords (KW)

(show details)
KW termFDR (all)SDKW levelAnnotation (direct or inherited)
Biological processTransport0Least InformativeDirect
Biological processDifferentiation0Moderately InformativeDirect
Biological processCell cycle0Moderately InformativeDirect
Biological processLipid metabolism0.05965Moderately InformativeInherited
Biological processNeurogenesis0InformativeDirect
Biological processMitosis0InformativeDirect
Biological processLipid degradation0.0000000306InformativeDirect
Cellular componentCytoplasm0Least InformativeDirect
Cellular componentCytoskeleton0Moderately InformativeDirect
Cellular componentMicrotubule0InformativeDirect
DomainRepeat0Least InformativeDirect
DomainCoiled coil0Moderately InformativeDirect
DomainWD repeat0InformativeDirect
Post-translational modificationDevelopmental protein0.000000000000007982Moderately InformativeDirect

Document: KW annotation of SCOP domains

Jump to [ Top of page · SCOP classification · Functional annotation · Gene Ontology (high-coverage) · 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 1 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 Lissencephaly-1 protein (Lis-1, PAF-AH alpha) 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 1 hidden Markov models representing the Lissencephaly-1 protein (Lis-1, PAF-AH alpha) 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) · UniProtKB KeyWords (KW) · Internal database links ]