|
Entity Name |
Entity Definition |
Entity Attribute Name |
Entity Attribute Definition
|
|
ART_AUT |
This
table associates authors (PERSON) with articles (ARTICLE) |
ARTICLEID |
Automatically
generated integer ID for an article. This may be an article in the
on-line Journal associated with this database. |
|
AUTHORID |
Person
ID, see PERSON table |
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|
LASTNAME |
Last
name of an author of this article. (Required) |
||
|
FIRSTNAME |
First
name of an author of this article. (Required) |
||
|
AUTH_SEQ |
Ordinal
sequence number of this author in the articles author list. |
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|
CONTACT |
"Yes"
for the corresponding author of the paper. |
||
|
ARTICLE |
This
table contains articles that are referenced by Entry. |
JOURNALID |
ID
of the journal of publication; see JOURNAL table. |
|
ARTICLEID |
Automatically
generated integer ID for an article. This may be an article in the on-line
journal associated with this database. |
||
|
TITLE |
The
full title of this scientific publication. |
||
|
PMID |
PubMed
reference ID of this article. |
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|
VOLUME |
Volume
of journal in which article was published. Must be a number; expressions like
(23) or 21-2 are invalid. |
||
|
YEAR |
Year
of publication; must be a four-digit number. |
||
|
FIRSTPAGE |
Page
number of the first page of the article. |
||
|
LASTPAGE |
Page
number of the last page of the article. |
||
|
ABSTRACT |
Abstract
of the article. |
||
|
ARTICLE_KWORD |
This
table contains keywords describing an article. One Article ID may relate to
several keywords. |
ARTICLEID |
ARTICLE
ID of the article for which keywords are listed. |
|
KWORD |
Keywords
that describe an article. |
||
|
ASSAY |
Text
description of enzyme-inhibition assay method. |
ASSAYID |
Automatically
generated integer ID for this assay. |
|
ASSAY_NAME |
The
full name of the assay. |
||
|
DESCRIPTION |
Detailed
text description of the assay |
||
|
COMPLEX |
Table
of molecules consisting of more than one component. |
COMPLEXID |
Automatically
generated integer ID for each complex. |
|
TYPE |
The
"type" of the Complex. This is usually drawn usually from the
following (preliminary) enumerated list, but a user-specified type is also
allowed. 1) Protein Complex 2) DNA Complex 3) RNA Complex 4) Other Complex |
||
|
WEIGHT |
Molecular
mass of this complex, in g/mol. |
||
|
DISPLAY_NAME |
The
most commonly used name of the complex |
||
|
COMPONENT_COUNT |
The
number components making up this complex |
||
|
COMMENTS |
Any
description of the complex that is not covered by the other attributes. |
||
|
COMPLEX_COMPONENT |
Table
listing the Monomer(s) and Polymer(s) that compose a Complex. |
COMPLEXID |
The
ID of the Complex to which this component belongs. |
|
COMPONENTID |
The
ID of this component. |
||
|
POLYMERID |
The
ID of a Polymer included in this complex (See POLYMER table.) |
||
|
MONOMERID |
The
ID of a Monomer included in this complex (See MONOMER table.) |
||
|
TYPE |
The
"type" of the component, a monomer or polymer |
||
|
COMPLEX_NAME |
Table
storing the synonyms for a complex. |
COMPLEXID |
ID
of the complex to which names apply. |
|
NAME |
A
legitimate name of a Complex; e.g., "Ca Binding protein with Ca++
". For compounds without an obvious name, a corporate or other ID can be
used. |
||
|
DATA_FIT_METH |
Table
storing the data fitting methods used in analyzing binding results. |
DATA_FIT_METH_ID |
Automatically
generated integer ID for each data fitting method. |
|
DATA_FIT_METH_DESC |
Free
text description of the method used to fit the experimental data to the
reaction model. |
||
|
DATA_FIT_SOFTWARE |
Identity
of the computer software, if any, used in fitting experimental data to the
reaction model. |
||
|
SOFTWARE_VERSION |
The
version number of the computer software. |
||
|
COMMENTS |
Further
description of the data fitting method. |
||
|
ENTRY |
Table
with summary information for each BindingDB data entry. An entry contains a set of related data.
It may contain one or more binding reaction results and one or more
citations. |
ENTRYID |
Automatically
generated integer ID for an entry. |
|
ENTRYTITLE |
Descriptive
title of an entry in the binding database. The title should normally include
a brief description of the molecules involved, the technique used, and the
type of solvent, along with any other notable features of the study. |
||
|
MEAS_TECH |
The
measurement technique used in this entry. e.g. ITC, KI. |
||
|
HOLD |
"Yes"
if entrant wishes this entry to be held rather than released as soon as
possible. |
||
|
REVISED |
In
order to keep a record of data revisions, direct modification of an existing
entry is not allowed. Instead, a new entry is created based upon the
original, and the original is removed from the LOOKUP table (see below). "Yes" in the Revised attribute
implies that the entry is a revised version of an older entry. |
||
|
DEPOID |
The
unique deposition ID assigned at deposition time. |
||
|
COMMENTS |
Free
text comments on this entry. |
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|
ENTRYDATE |
The
date when this entry was entered or last updated. |
||
|
ENTRANTID |
The
PersonID of the Entrant-- the person who entered these data. |
||
|
ENTRY_CITATION |
Table
associating an entry with the appropriate journal citations. |
ENTRYID |
Entry
ID; see ENTRY table. |
|
ARTICLEID |
Article
ID of an article linked with this entry. |
||
|
ART_PURP |
Key
word describing the main reason this article is cited along with this
BindingDB entry. For example, if this article contains the actual binding
measurements, the reason would be "Binding Data". If the paper
contains the method used for the measurements, but not the data, then
"Method" would be appropriate here. The Reason for Citation is drawn
from an enumerated list that includes the following: 1) Binding Data 2)
Background 3) Method 4) Molecule information 5) DNA sequence 6) Protein
sequence 7) Structure 8) Synthesis |
||
|
ENTRY_KWORD |
Table
storing keywords that describes an entry. |
ENTRYID |
Entry
ID of the entry associated with this keyword. |
|
KWORD |
Words
or phrases describing this entry, to facilitate retrieval by database users. |
||
|
ENZYME_REACTANT_SET |
Table
storing the list of reactants -- enzyme, substrate and inhibitor -- that are involved in binding measurement
by enzyme inhibition. |
ENTRYID |
Entry
ID, see ENTRY table. |
|
REACTANT_SET_ID |
Automatically
generated integer ID for a KI reactant set. |
||
|
INHIBITOR |
Common
name of the inhibitor for initial display. |
||
|
I_MONOMERID |
If
the inhibitor is a monomer, this is its link to the MONOMER table;
I_POLYMERID and I_COMPLEXID will then be null. |
||
|
I_POLYMERID |
If
the inhibitor is a polymer, this is its link to POLYMER table; I_MONOMERID
and I_COMPLEXID will then be null. |
||
|
I_COMPLEXID |
If
the inhibitor is a complex, this is its link to COMPLEX table; I_POLYMERID
and I_MONOMERID will then be null. |
||
|
ENZYME |
Common
name of the enzyme for initial display. |
||
|
E_POLYMERID |
If
the enzyme is a single-chain polymer, this is its link to POLYMER table;
E_COMPLEXID will be null. |
||
|
E_COMPLEXID |
If
the enzyme is a complex, this is its link to COMPLEX table; E_POLYMERID will
be null. |
||
|
SUBSTRATE |
Common
name of the substrate for initial display. |
||
|
S_MONOMERID |
Same
as I_MONOMERID, for substrate. |
||
|
S_COMPLEXID |
Same
as I_COMPLEXID, for substrate. |
||
|
S_POLYMERID |
Same
as I_POLYMERID, for substrate. |
||
|
COMMENTS |
Free
text comments on this enzyme reactant set. |
||
|
INSTRUMENT
|
Table
describing the instrument used in this study |
INSTRUMENTID |
Automatically
generated integer ID for an instrument. |
|
TYPE |
Type
of the instrument used in the binding reaction. e.g. microcalorimeter. |
||
|
MODEL |
The
name of the model of the instrument, if applicable. |
||
|
MANUFACT |
Name
of the instrument manufacturer, if applicable. |
||
|
YEAR |
The
model year of the instrument, or the year it was constructed. |
||
|
COMMENTS |
Further
description of the instrument. |
||
|
ITC_RESULT_A_B_AB |
Table
storing the thermodynamic results of one ITC binding experiment interpreted
using the model A+B=AB. |
ENTRYID |
Entry
ID, see ENTRY table. |
|
ITC_RESULT_A_B_AB_ID |
Automatically
generated integer ID for an A+B=AB reaction. |
||
|
CELL_COMPLEXID |
If
the cell reactant is a complex, this is its link to COMPLEX table.
CELL_POLYMERID and CELL_MONOMERID will be null. |
||
|
CELL_MONOMERID |
If
the cell reactant is a monomer, this is its link to COMPLEX table.
CELL_POLYMERID and CELL_COMPLEXID will be null. |
||
|
CELL_POLYMERID |
If
the cell reactant is a polymer, this is its link to POLYMER table.
CELL_COMPLEXID and CELL_MONOMERID will be null. |
||
|
CELL_REACT |
Name
of the binding reactant in the calorimeter's cell (reaction vessel). |
||
|
CELL_REACT_SOURCE |
Brief
description of the source (e.g., chemical supplier) of this cell reactant. |
||
|
CELL_REACT_PURITY |
The
purity of this cell reactant, in percentage, grade, etc. |
||
|
CELL_REACT_PREP_METH |
Brief
description of how the cell reactant is prepared, if appropriate. |
||
|
SYR_REACT |
The
name of the binding reactant in the injection syringe. |
||
|
SYR_MONOMERID |
If
the syringe reactant is a monomer, this is its link to the MONOMR table.
SYR_POLYMERID and SYR_COMPLEXID will be null. |
||
|
SYR_POLYMERID |
If
the syringe reactant is a polymer, this is its link to POLYMER table.
SYR_COMPLEXID and SYR_MONOMERID will be null. |
||
|
SYR_COMPLEXID |
If
the syringe reactant is a complex, this is its link to COMPLEX table.
CELL_POLYMERID and CELL_MONOMERID will be null. |
||
|
SYR_REACT_SOURCE |
Brief
description of the source of this syringe reactant; e.g., chemical supplier. |
||
|
SYR_REACT_PURITY |
The
purity of this syringe reactant, in percentage, grade, etc. |
||
|
SYR_REACT_PREP_METH |
Brief
description of how the syringe reactant is prepared, if appropriate. |
||
|
PH |
The
solution pH for which these reported results apply. |
||
|
PH_UNCERT |
The
reported uncertainty in the pH. |
||
|
TEMP |
The
temperature for which these thermodynamic results are reported, in unit
of °C |
||
|
TEMP_UNCERT |
The
uncertainty in the temperature. |
||
|
PRESS |
The
pressure for which these results are reported; typically 1 atmosphere. |
||
|
PRESS_UNCERT |
The
reported uncertainly in the pressure, in same units. |
||
|
ION_STR |
The
reported ionic strength at which the measurements were made, in units of
millimoles/liter. |
||
|
ION_STR_UNCERT |
The
reported uncertainty in the ionic strength, in the same units. |
||
|
STOICH_FREE_PARAM |
"Yes"
if the stoichiometry parameter is fixed by the user during the fit to the
reaction model, and "no" if the stoichiometry is treated as a free
parameter. |
||
|
STOICH_PARAM |
The
stoichiometry of the binding reaction, defined as the molar ratio of the
syringe reactant to the cell reactant at the midpoint of the binding
isotherm. This can either be a fitted result, and thus possibly non-integer,
or a fixed parameter. (See above item.) |
||
|
FIT_SD |
The reported standard deviation of the fit of the data to the reaction model in the data fitting procedure. |