2k9z

Protein Summary

The TM1112 gene of Thermotoga maritima encodes the conserved hypothetical protein NP_228918 (Pfam05899; DUF861) with unknown function [Ref]. This family consists of several bacterial and plant proteins. TM1112 has similar phylogenetic cooccurrence (string.embl.de) as TM1189 (putative KAP NTPase), indicating that functions of both proteins may be interdependent.

The 1o5u structure has a double-stranded beta-helix fold (SCOP sunid:51181), where one turn of helix is made by two pairs of antiparallel strands linked with short turns that has appearance of a sandwich of distinct architecture and jelly-roll topology. 1o5u belongs to the superfamily of RmlC-like cupins (SCOP sunid:51182), and has its own family. DALI top hits are with the DUF1255 protein 3eo6 (Z=11) and the uncharacterized protein 3bcw (Z=10).

1o5u has a large number of similar (Z<8) structures (PDB:2b8m, PDB:1yhf, PDB:1vj2, PDB:1vr3, PDB:2f4p, PDB:2fqp, PDB:2atf, PDB:1v70, PDB:1zz6, PDB:1m4o, PDB:1xja, PDB:1qwr, PDB:1lr5, PDB:1yfu, PDB:1od5, PDB:1j3p, PDB:1sef, PDB:1y9q, PDB:1ey2, PDB:1sq4, PDB:1zvf, PDB:1uik, PDB:1o4t, PDB:1sfn, PDB:1rc6, PDB:1zx5, PDB:1vrb, PDB:1j58, PDB:2gm6, PDB:1tq5, PDB:2h0v, PDB:1ipj, PDB:2cv6, PDB:1fi2, PDB:2cau, PDB:1fxz, PDB:1x7n). However it is unknown what functional implications, if any, can be obtained on the basis of structural similarity to those structures.

Analysis of the crystallographic packing of 1o5u using the PQS server {Henrick, 1998 #73} indicates that a monomer is the biologically relevant form. The alpha-helix 1 and 2 of 1o5u prevent dimerization of this protein in a way commonly observed for other proteins with cupin fold.

Ligand Summary

One of the unknown ligands (UNL401) interacts with residues from chain A: Tyr35, Glu39, Cys41, Trp76. This ligand is covalently bound to Lys84 from chain A.
The UNL401 is located in a cleft containing highly conserved Trp24, Glu39, and Tyr86.

References