PDBsum entry 3ndb

Signaling protein/RNA

PDB id: 3ndb

Contents

Protein chains

87 a.a. *

420 a.a. *

DNA/RNA

Ligands

PO4

* Residue conservation analysis

PDB id:

3ndb

Name:

Signaling protein/RNA

Title:

Crystal structure of a signal sequence bound to the signal recognition particle

Structure:

Signal recognition particle 19 kda protein. Chain: a. Synonym: srp19. Engineered: yes. Signal recognition 54 kda protein. Chain: b. Synonym: srp54. Engineered: yes. Srp RNA.

Source:

Methanocaldococcus jannaschii. Methanococcus jannaschii. Organism_taxid: 2190. Gene: mj1034, srp19. Expressed in: escherichia coli. Expression_system_taxid: 562. Gene: mj0101, srp54. Expressed in: lactococcus lactis. Expression_system_taxid: 1358.

Resolution:

3.00Å R-factor: 0.230 R-free: 0.267

Authors:

T.Hainzl,S.Huang,E.Sauer-Eriksson

Key ref:

T.Hainzl et al. (2011). Structural basis of signal-sequence recognition by the signal recognition particle. Nat Struct Biol, 18, 389-391. PubMed id: 21336278

Date:

07-Jun-10 Release date: 23-Feb-11

Protein chain

Q58440  (SRP19_METJA) -  Signal recognition particle 19 kDa protein from Methanocaldococcus jannaschii (strain ATCC 43067 / DSM 2661 / JAL-1 / JCM 10045 / NBRC 100440)

Seq: 87 a.a.

Struc: 87 a.a.

Protein chain

Q57565  (SRP54_METJA) -  Signal recognition particle 54 kDa protein from Methanocaldococcus jannaschii (strain ATCC 43067 / DSM 2661 / JAL-1 / JCM 10045 / NBRC 100440)

Seq: 451 a.a.

Struc: 420 a.a.*

* PDB and UniProt seqs differ at 13 residue positions (black crosses)

DNA/RNA chain

G-U-C-U-C-G-U-C-C-C-G-U-G-G-G-G-C-U-C-G-G-C-G-G-U-G-G-G-G-G-A-G-C-A-U-C-U-C-C- 136 bases

Enzyme reactions

• Enzyme class 1: Chain A: E.C.?
• Enzyme class 2: Chain B: E.C.3.6.5.4 - signal-recognition-particle GTPase.
• Reaction: GTP + H2O = GDP + phosphate + H⁺

GTP + H2O = GDP + phosphate + H(+) (Bound ligand (Het Group name = PO4) corresponds exactly)

Note, where more than one E.C. class is given (as above), each may correspond to a different protein domain or, in the case of polyprotein precursors, to a different mature protein.

Molecule diagrams generated from .mol files obtained from the KEGG ftp site

reference

Nat Struct Biol 18:389-391 (2011)

PubMed id: 21336278

Structural basis of signal-sequence recognition by the signal recognition particle.

T.Hainzl, S.Huang, G.Meriläinen, K.Brännström, A.E.Sauer-Eriksson.

ABSTRACT

No abstract given.