|
Explanations:
A. Intein Name: Tli pol-1. The intein name
should consist of a 3 letter organism specification, where the first
letter is the first letter of the Genus (Thermococcus) and the second
and third letters are a Species designation (litoralis). The organism
abbreviation is then followed by an abbreviation for the extein gene
(Pol). If more than 1 intein is present in a gene, they should be
numbered in order of appearance from the N- to C-terminus. For organisms
with only a genus designation and an isolate code, such as Psp
Pol or Tsp Pol inteins, include a strain designation - Example:
Psp-KOD Pol.
B. Prototype Allele: List the prototype
intein, which is the first intein identified at the identical extein
insertion site in an extein homolog. See the
Intein Allele page for a current
list of intein alleles and their prototype intein. If this intein is a
member of a new allele group, list the first example of this allele
as the prototype and in the 'Allele Group' field (See AG. below)
indicate 'New' followed by the intein homolog.
C. Extein name: Full extein gene or
protein product name.
D. Intein Class: List as EXPERIMENTAL if
you have demonstrated the presence of the spliced product either by
Western blot or staining of a SDS-PAGE gel. List as THEORETICAL if
you have not demonstrated the presence of the spliced product.
E. Organism Name: List full genus and
species name including isolate or strain designation.
F. Organism Description: Include a
descriptive term for the organism such as Thermophile, Red alga,
phage, Cyanobacterium, human pathogen, etc.
G. Domain of Life: Choose from: Eucarya,
Eubacteria or Archaea
H. Endo Activity: If endonuclease activity
has been demonstrated, list endonuclease name. Convention dictates that the
endonuclease name is preceded by the 'PI-' prefix.
I. Endo Motif: List: 'DOD' if a member of
the LAGLIDADG or dodecapeptide motif family; 'HNH' if a member of the
HNH family; 'none' if no large insert is present between intein
Blocks B and F; and 'unknown' if a large insert (>100 aa) is
present that doesn't have any of the known homing endonuclease
signature motifs. Leave blank if you are not sure.
J. Location in extein (aa preceding
intein): List the amino acid preceding the intein (using the
single letter code) and its position in the extein, with amino acid 1
being the initiating Met of the extein gene.
K. Insert Site: Include the insertion site
name consisting of the abbreviated extein name and an alphabetic
designation for insertion sites in that extein, taking into account
the previously identified insertion sites in extein homologs. Also
list notable landmarks like motifs or active site residues.
L. Intein size (aa): List the number of
amino acids in the intein, not including the C-extein S/T/C.
M. N-terminal Splice Junction: Last 10
N-extein residues/intein N-terminus (single letter code).
N. C-terminal Splice Junction: Last 2
amino acids of the intein/first 10 amino acids of the C-extein
(single letter code).
O. Accession No.: Indicate the database
associated with the accession number. If the accession number refers
to a large, multi-gene nucleotide sequence, also use ORF designation
if possible. The amino acid sequence of the full extein is the preferred
accession number.
P. Intein aa sequence: Please use the single
letter aa code and
submit in FASTA format. Any comment line should begin with ">". You
can choose to include the +1 and -1 extein residues, just the intein
sequence, or both sequences. Please indicate the accession number of
the submitted sequence.
Q. Initially Contributed by: Your name
R. Contributor's Address: Optional
S. Contributor's Phone No.: Optional
T. Contributor's Fax No.: Optional
U. Contributor's Email address: Mandatory
V. Independently Found by: To be filled in
by the Curator
W. Comments: Any comment that you think
people will find useful, especially missing conserved residues or
motifs. Try to be brief.
X. Block A: List the 13 amino acids in Block
A and indicate the number of the last residue in the block when the
first intein residue is #1. Instructions for identifying intein motifs
are found on the Conserved Intein Features - Do you Have an Intein?page.
Y. Block B: List the 14 amino acids in Block
B and indicate the number of the last residue in the block when the
first intein residue is #1.
Z. Block C: List the 9 amino acids in Block
C and indicate the number of the last residue in the block when the
first intein residue is #1.
AA. Block D: List the 8 amino acids in Block
D and indicate the number of the last residue in the block when the
first intein residue is #1.
AB. Block E: List the 10 amino acids in
Block E and indicate the number of the last residue in the block when
the first intein residue is #1.
AC. Block H: List the 19 amino acids in
Block H and indicate the number of the last residue in the block when
the first intein residue is #1.
AD. Block F: List the 14 amino acids in
Block F and indicate the number of the last residue in the block when
the first intein residue is #1.
AE. Block G: List the 8 amino acids in
Block G and indicate the number of the last residue in the block when
the first intein residue is #1.
AF. Date Submitted: Date submitted
AG. References: List all references
associated with this intein, including papers in press.
AH. Allele Group: If this intein is a
member of an already identified allele group, use that allele group
name. If this is a new allele group, indicate 'New' followed by the
other intein homolog. The Allele Group is similar to the prototype
allele designation, but it includes the extein insertion site designation
and is listed in the "Intein Alleles" page.
|
