This is a former mirror of the BNL PDB in NTHU.

Structural Classification of Proteins (Origin Site). 1.69 release (July 2005). 25973 PDB Entries. 1 Literature Reference. 70859 Domains. (excluding nucleic acids and theoretical models).

The Predict Protein server in NTHU.
PredictProtein is a service for sequence analysis, and structure prediction. You submit any protein sequence. PredictProtein retrieves similar sequences in the database and predicts aspects of protein structure.

BLAST against PDB protein databank in NTHU.
Choose program to use and database to search...

Search sequence against databases of profiles in NTHU.
Search your protein or DNA sequence against Motif/Domain database ...

Pair-wise Sequences Alignment (FASTA) in NTHU.

Melting temperature (Tm) database in NTHU.
Melting Temperature Prediction. Tutorial

Gene predict service in NTHU.

CustalW web interface in NTHU

GPDB: Genome Profile DataBase.
GPDB has been developed to provide and compare features of the fully sequenced organisms in a graphic and easy-reading way. We focus on these prokaryotes including bacteria and archaea. In this post-genome era, we try to grab the information derived from both nucleotide and protein sequence in a genome-wide scale. We provide some "Genome Profile", develop on-line graphic browsing interface and use hierarchical clustering method to compare and view the difference between these organisms.

WebLogo is a web based application designed to make the generation of sequence logos as easy and painless as possible.

RMA: Reniforced Merging Algorithms
This step-by-step RMA guide covers the basic strategy for searching unique peptide motifs by RMA system, describes the format and significance of the searched output and discusses the use of RMA tools to extract and distinguish different levels of uniqueness of unique peptide motifs.
Reference:
Chang H.T., Pai T.W., Fan T.C., Su B.H., Wu P.C., Tang C.Y., Chang C.T., Liu S.H. and Chang M.D.T. (2006) A Reinforced Merging methodology for mapping unique peptide motifs in members of protein families. BMC Bioinformatics 7:38

Structure Alignment with Ramachandran Search Tool
Searching similar protein structures of the specified protein in PDB
Reference:
Lo WC, Chang CH, Huang PJ, Lyu PC: Protein structural similarity search by Ramachandran codes. BMC Bioinformatics 2007, 8:307.
[Abstract] [PDF]

Circular Permutation Search Aided by Ramachandran Sequential Transformation

KEGG pathway search tool / Tutorial

BioTeam iNquiry is a cluster enabled bioinformatics platform that becomes the portal for distributed computing. Many informatics tools have a UNIX command line interface and require the submission of UNIX shell statements to a distributed resource management system in order to schedule their execution on a cluster. The BioTeam iNquiry goes beyond the command line to provide an intuitive human readable consistent interface to over 200 cluster enabled bioinformatics tools.
[相關工具包括: Glimmer, BioTeam, NCBI tools, EMBOSS, HMMer, MPIBLAST...]
*即日起開放試用, id: inquiry password: inquiry
- Results files will be sent by email, you need to register first.