2ip6
From Proteopedia
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| - | [[Image:2ip6.jpg|left|200px]] | + | [[Image:2ip6.jpg|left|200px]] |
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| - | '''Crystal structure of PedB''' | + | {{Structure |
| + | |PDB= 2ip6 |SIZE=350|CAPTION= <scene name='initialview01'>2ip6</scene>, resolution 1.35Å | ||
| + | |SITE= | ||
| + | |LIGAND= <scene name='pdbligand=SO4:SULFATE ION'>SO4</scene> | ||
| + | |ACTIVITY= | ||
| + | |GENE= | ||
| + | }} | ||
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| + | '''Crystal structure of PedB''' | ||
| + | |||
==Overview== | ==Overview== | ||
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==About this Structure== | ==About this Structure== | ||
| - | 2IP6 is a [ | + | 2IP6 is a [[Single protein]] structure of sequence from [http://en.wikipedia.org/wiki/Pediococcus_pentosaceus Pediococcus pentosaceus]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=2IP6 OCA]. |
==Reference== | ==Reference== | ||
| - | High resolution crystal structure of PedB: a structural basis for the classification of pediocin-like immunity proteins., Kim IK, Kim MK, Kim JH, Yim HS, Cha SS, Kang SO, BMC Struct Biol. 2007 May 30;7:35. PMID:[http:// | + | High resolution crystal structure of PedB: a structural basis for the classification of pediocin-like immunity proteins., Kim IK, Kim MK, Kim JH, Yim HS, Cha SS, Kang SO, BMC Struct Biol. 2007 May 30;7:35. PMID:[http://www.ncbi.nlm.nih.gov/pubmed/17537233 17537233] |
[[Category: Pediococcus pentosaceus]] | [[Category: Pediococcus pentosaceus]] | ||
[[Category: Single protein]] | [[Category: Single protein]] | ||
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[[Category: immunity protein to the pediocin pp-1]] | [[Category: immunity protein to the pediocin pp-1]] | ||
| - | ''Page seeded by [http://oca.weizmann.ac.il/oca OCA ] on Thu | + | ''Page seeded by [http://oca.weizmann.ac.il/oca OCA ] on Thu Mar 20 17:32:04 2008'' |
Revision as of 15:32, 20 March 2008
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| , resolution 1.35Å | |||||||
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| Coordinates: | save as pdb, mmCIF, xml | ||||||
Crystal structure of PedB
Overview
BACKGROUND: Pediocin-like bacteriocins, ribosomally-synthesized antimicrobial peptides, are generally coexpressed with cognate immunity proteins in order to protect the bacteriocin-producer from its own bacteriocin. As a step for understanding the mode of action of immunity proteins, we determined the crystal structure of PedB, a pediocin-like immunity protein conferring immunity to pediocin PP-1. RESULTS: The 1.6 A crystal structure of PedB reveals that PedB consists of an antiparallel four-helix bundle with a flexible C-terminal end. PedB shows structural similarity to an immunity protein against enterocin A (EntA-im) but some disparity to an immunity protein against carnobacteriocin B2 (ImB2) in both the C-terminal conformation and the local structure constructed by alpha3, alpha4, and their connecting loop. Structure-inspired mutational studies reveal that deletion of the last seven residues of the C-terminus of PedB almost abolished its immunity activity. CONCLUSION: The fact that PedB, EntA-im, and ImB2 share a four-helix bundle structure strongly suggests the structural conservation of this motif in the pediocin-like immunity proteins. The significant difference in the core structure and the C-terminal conformation provides a structural basis for the classification of pediocin-like immunity proteins. Our mutational study using C-terminal-shortened PedBs and the investigation of primary sequence of the C-terminal region, propose that several polar or charged residues in the extreme C-terminus of PedB which is crucial for the immunity are involved in the specific recognition of pediocin PP-1.
About this Structure
2IP6 is a Single protein structure of sequence from Pediococcus pentosaceus. Full crystallographic information is available from OCA.
Reference
High resolution crystal structure of PedB: a structural basis for the classification of pediocin-like immunity proteins., Kim IK, Kim MK, Kim JH, Yim HS, Cha SS, Kang SO, BMC Struct Biol. 2007 May 30;7:35. PMID:17537233
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