Structure Protein: Difference between revisions
No edit summary |
|||
| Line 55: | Line 55: | ||
[[Image:2ifuA interpro.png | [[Image:2ifuA interpro.png]] | ||
== PDB files === | == PDB files === | ||
[ | [ | ||
http://www.pdb.org/pdb/explore/explore.do?structureId=1QQE 1QQE] | http://www.pdb.org/pdb/explore/explore.do?structureId=1QQE 1QQE] | ||
Revision as of 08:22, 4 June 2007
2ifu has 4 chains (A, B, C and D) integrated together to form the whole molecular structure as shown below:
(chain A= green, chain B= cyan, chain c= purple, and chain d= yellow)
ligands: sulfate ion (SO4) and selenomethionine (MSE)
Ten sulfate ions were observed. Each ion differs in arrangement as well as orientation related with each chains.
protein sequence (FASTA)
>gi|118138356|pdb|2IFU|A Chain A, Crystal Structure Of A Gamma-Snap From Danio Rerio AIAAQKISEAHEHIAKAEKYLKTSFXKWKPDYDSAASEYAKAAVAFKNAKQLEQAKDAYLQEAEAHANNR SLFHAAKAFEQAGXXLKDLQRXPEAVQYIEKASVXYVENGTPDTAAXALDRAGKLXEPLDLSKAVHLYQQ AAAVFENEERLRQAAELIGKASRLLVRQQKFDEAAASLQKEKSXYKEXENYPTCYKKCIAQVLVQLHRAD YVAAQKCVRESYSIPGFSGSEDCAALEDLLQAYDEQDEEQLLRVCRSPLVTYXDNDYAKLAISLKVPGGG GGKKKPSASASAQPQEEEDDEYAGGLC
Strutural comparisons
Based on Dali search, 6 proteins with highest Z-value were chosen: 1qqe-A (protein transport), 2fi7-A (protein binding), 1a17 (hydrolase), 2ak6-A, 1fch-A (signalling protein), 1haz4-A (transcription factor),
snap-gamma: multiple structure alignment
Snap-gamma: sequence alignment with 1QQE:A
Dark colors: 2ifu:A
Light colors: 1qqe:A
Protein families
has 2 domains: Pfam at Sanger
alignment with Pfam-B_15198
highly conserved residue :residue 104, 109, 121, 168
scorecons result indicated a Diversity of position scores: 89.4% where 100%=high diversity
InterProScan Results
PDB files =
[ http://www.pdb.org/pdb/explore/explore.do?structureId=1QQE 1QQE]
