BioinformaticsPlus > 3D-SPECS

3D Structural Proteomics Explorer with Crystallisation Scores

Crystallisation predictions for the entire human proteome

Enter NCBI Gene ID or 3D-SPECS ID: e.g. NCBI Gene ID = 1, 3D-SPECS ID = GDB1A
Please note that the NCBI Gene ID is not the same as the Genbank ID and the above box does not do text searches
Having problems? Use the NCBI Gene website search function to find the Gene ID and paste it in above or use the advanced text search options below
Looking for more information? Try the Frequently asked questions page.

Advanced Search Options

Text Search
SEARCH TERM:
Search Type: Examples:
HUGO Name (Contains)
Protein Description (Contains)
PFAM Domain ID (Contains)
Domain ID = adh_short
HUGO Name = CBR1
Description = macrophage

Search by protein sequence

For a list of HUGO Gene Symbols that start with a particular letter - click below.
A | B | C | D | E | F | G | H | I | J | K | L | M | P | Q | R | S | T | U | V | W | X | Y | Z


Examples

All XtalPred crystallisation class 1 (optimal) with a PDB template and not solved

55347 (ABHD10) | 33 (ACADL) | 80221 (ACSF2) | 144193 (AMDHD1) | 54851 (ANKRD49) | 440 (ASNS) | 494143 (CHAC2) | 1819 (DRG2) | 132158 (GLYCTK) | 51110 (LACTB2) | 138307 (LCN8) | 197257 (LDHD) | 29081 (METTL5) | 79716 (NPEPL1) | 375189 (PFN4) | 493911 (PHOSPHO2) | 23483 (TGDS) | 81629 (TSSK3) | 10493 (VAT1) | 9948 (WDR1)

About the Database

3D-SPECS defines the regions of the proteome that have a structural template in the Protein Data Bank and predicts the likelihood of these regions to crystallise (using the XtalPred crystallisation prediction tool). More explanation can be found on the frequently asked questions page.

The database contains the following predictions/annotations:

There are 25,796 human proteins in the version of the NCBI RefSeq annotated human proteome used on this website (counting the longest protein isoform for each gene)

Crystallisable Region Listings

This is the first database release (v1):
Total Crystallisable Regions = 39,899 | Solved Regions = 5,976 (14.98%) | PDB Library = 10th August 2011

XtalPred classes: 1 (optimal), 2 (suboptimal), 3 (average), 4 (difficult), 5 (very difficult) More about XtalPred..

Not Solved and Template Found: Class: 1 (753) | 2 (1308) | 3 (2346) | 4 (3876) | 5 (10573) | IMP (1484)
Not Solved and No Template: Class: 1 (668) | 2 (1064) | 3 (1969) | 4 (4101) | 5 (4818) | IMP (963)
Solved: Class: 1 (369) | 2 (567) | 3 (1056) | 4 (1621) | 5 (2342) | IMP (21)
Download whole dataset (tab separated format) ALL (39,899)