3j1a: Difference between revisions

Revision as of 17:13, 24 January 2024

HK97-like fold fitted into 3D reconstruction of bacteriophage CW02HK97-like fold fitted into 3D reconstruction of bacteriophage CW02

3j1a, resolution 16.00Å

Structural highlights

3j1a is a 7 chain structure with sequence from Unidentified. Full crystallographic information is available from OCA. For a guided tour on the structure components use FirstGlance.
Method:	Electron Microscopy, Resolution 16Å
Experimental data:	Check
Resources:	FirstGlance, OCA, PDBe, RCSB, PDBsum, ProSAT

Function

CAPSD_BPHK7 Assembles to form an icosahedral capsid of 66 nm, with a T=7 laevo symmetry (PubMed:11000116, PubMed:21276801). Responsible for its self-assembly into a procapsid. The phage does not need to encode a separate scaffolfing protein because its capsid protein contains the delta domain that carries that function.^[1] ^[2] ^[3] ^[4]

Publication Abstract from PubMed

Halophage CW02 infects a Salinivibrio costicola-like bacterium, SA50, isolated from the Great Salt Lake. Following isolation, cultivation, and purification, CW02 was characterized by DNA sequencing, mass spectrometry, and electron microscopy. A conserved module of structural genes places CW02 in the T7 supergroup, members of which are found in diverse aquatic environments, including marine and freshwater ecosystems. CW02 has morphological similarities to viruses of the Podoviridae family. The structure of CW02, solved by cryogenic electron microscopy (cryo-EM) and three-dimensional reconstruction, enabled fitting of a portion of the bacteriophage HK97 capsid protein into CW02 capsid density, thereby providing additional evidence that capsid proteins of dsDNA tailed phages have a conserved fold. The CW02 capsid consists of bacteriophage lambda gpD-like densities that likely contribute to particle stability. Turret-like densities were found on icosahedral vertices and may represent a unique adaptation similar to what has been seen in other extremophilic viruses that infect archaea, such as Sulfolobus turreted icosahedral virus and halophage SH1.

Sequence and Structural Characterization of Great Salt Lake Bacteriophage CW02, a Member of the T7-like Supergroup.,Shen PS, Domek MJ, Sanz-Garcia E, Makaju A, Taylor RM, Hoggan R, Culumber M, Oberg C, Breakwell DP, Prince JT, Belnap DM J Virol. 2012 May 16. PMID:22593163^[5]

From MEDLINE®/PubMed®, a database of the U.S. National Library of Medicine.

References

↑ Wikoff WR, Liljas L, Duda RL, Tsuruta H, Hendrix RW, Johnson JE. Topologically linked protein rings in the bacteriophage HK97 capsid. Science. 2000 Sep 22;289(5487):2129-33. PMID:11000116
↑ Huang RK, Khayat R, Lee KK, Gertsman I, Duda RL, Hendrix RW, Johnson JE. The Prohead-I Structure of Bacteriophage HK97: Implications for Scaffold-Mediated Control of Particle Assembly and Maturation. J Mol Biol. 2011 Jan 27. PMID:21276801 doi:10.1016/j.jmb.2011.01.016
↑ Duda RL, Martincic K, Xie Z, Hendrix RW. Bacteriophage HK97 head assembly. FEMS Microbiol Rev. 1995 Aug;17(1-2):41-6. PMID:7669350 doi:10.1111/j.1574-6976.1995.tb00186.x
↑ Duda RL, Martincic K, Hendrix RW. Genetic basis of bacteriophage HK97 prohead assembly. J Mol Biol. 1995 Apr 7;247(4):636-47. PMID:7723020 doi:10.1006/jmbi.1994.0169
↑ Shen PS, Domek MJ, Sanz-Garcia E, Makaju A, Taylor RM, Hoggan R, Culumber M, Oberg C, Breakwell DP, Prince JT, Belnap DM. Sequence and Structural Characterization of Great Salt Lake Bacteriophage CW02, a Member of the T7-like Supergroup. J Virol. 2012 May 16. PMID:22593163 doi:10.1128/JVI.00407-12

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OCA

[1] Wikoff WR, Liljas L, Duda RL, Tsuruta H, Hendrix RW, Johnson JE. Topologically linked protein rings in the bacteriophage HK97 capsid. Science. 2000 Sep 22;289(5487):2129-33. PMID:11000116

[2] Huang RK, Khayat R, Lee KK, Gertsman I, Duda RL, Hendrix RW, Johnson JE. The Prohead-I Structure of Bacteriophage HK97: Implications for Scaffold-Mediated Control of Particle Assembly and Maturation. J Mol Biol. 2011 Jan 27. PMID:21276801 doi:10.1016/j.jmb.2011.01.016

[3] Duda RL, Martincic K, Xie Z, Hendrix RW. Bacteriophage HK97 head assembly. FEMS Microbiol Rev. 1995 Aug;17(1-2):41-6. PMID:7669350 doi:10.1111/j.1574-6976.1995.tb00186.x

[4] Duda RL, Martincic K, Hendrix RW. Genetic basis of bacteriophage HK97 prohead assembly. J Mol Biol. 1995 Apr 7;247(4):636-47. PMID:7723020 doi:10.1006/jmbi.1994.0169

[5] Shen PS, Domek MJ, Sanz-Garcia E, Makaju A, Taylor RM, Hoggan R, Culumber M, Oberg C, Breakwell DP, Prince JT, Belnap DM. Sequence and Structural Characterization of Great Salt Lake Bacteriophage CW02, a Member of the T7-like Supergroup. J Virol. 2012 May 16. PMID:22593163 doi:10.1128/JVI.00407-12

[1]

[2]

[3]

[4]

[5]

@@ Line 3: / Line 3: @@
 <SX load='3j1a' size='340' side='right' viewer='molstar' caption='[[3j1a]], [[Resolution|resolution]] 16.00&Aring;' scene=''>
 == Structural highlights ==
-<table><tr><td colspan='2'>[[3j1a]] is a 7 chain structure with sequence from [https://en.wikipedia.org/wiki/Miscellaneous_nucleic_acid Miscellaneous nucleic acid]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=3J1A OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=3J1A FirstGlance]. <br>
+<table><tr><td colspan='2'>[[3j1a]] is a 7 chain structure with sequence from [https://en.wikipedia.org/wiki/Unidentified Unidentified]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=3J1A OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=3J1A FirstGlance]. <br>
-</td></tr><tr id='resources'><td class="sblockLbl"><b>Resources:</b></td><td class="sblockDat"><span class='plainlinks'>[https://proteopedia.org/fgij/fg.htm?mol=3j1a FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=3j1a OCA], [https://pdbe.org/3j1a PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=3j1a RCSB], [https://www.ebi.ac.uk/pdbsum/3j1a PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=3j1a ProSAT]</span></td></tr>
+</td></tr><tr id='method'><td class="sblockLbl"><b>[[Empirical_models|Method:]]</b></td><td class="sblockDat" id="methodDat">Electron Microscopy, [[Resolution|Resolution]] 16&#8491;</td></tr>
+<tr id='resources'><td class="sblockLbl"><b>Resources:</b></td><td class="sblockDat"><span class='plainlinks'>[https://proteopedia.org/fgij/fg.htm?mol=3j1a FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=3j1a OCA], [https://pdbe.org/3j1a PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=3j1a RCSB], [https://www.ebi.ac.uk/pdbsum/3j1a PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=3j1a ProSAT]</span></td></tr>
 </table>
+== Function ==
+[https://www.uniprot.org/uniprot/CAPSD_BPHK7 CAPSD_BPHK7] Assembles to form an icosahedral capsid of 66 nm, with a T=7 laevo symmetry (PubMed:11000116, PubMed:21276801). Responsible for its self-assembly into a procapsid. The phage does not need to encode a separate scaffolfing protein because its capsid protein contains the delta domain that carries that function.<ref>PMID:11000116</ref> <ref>PMID:21276801</ref> <ref>PMID:7669350</ref> <ref>PMID:7723020</ref>
 <div style="background-color:#fffaf0;">
 == Publication Abstract from PubMed ==
@@ Line 20: / Line 23: @@
 </SX>
 [[Category: Large Structures]]
-[[Category: Miscellaneous nucleic acid]]
+[[Category: Unidentified]]
-[[Category: Belnap, D M]]
+[[Category: Belnap DM]]
-[[Category: Breakwell, D P]]
+[[Category: Breakwell DP]]
-[[Category: Culumber, M]]
+[[Category: Culumber M]]
-[[Category: Domek, M J]]
+[[Category: Domek MJ]]
-[[Category: Makaju, A]]
+[[Category: Makaju A]]
-[[Category: Prince, J T]]
+[[Category: Prince JT]]
-[[Category: Sanz-Garcia, E]]
+[[Category: Sanz-Garcia E]]
-[[Category: Shen, P S]]
+[[Category: Shen PS]]
-[[Category: Taylor, R]]
+[[Category: Taylor R]]
-[[Category: Bacteriophage hk97]]
-[[Category: Bacteriophage t7]]
-[[Category: Extremophile]]
-[[Category: Great salt lake]]
-[[Category: Halophage]]
-[[Category: T7-like phage]]
-[[Category: Turret]]
-[[Category: Virus]]

3j1a: Difference between revisions

Revision as of 17:13, 24 January 2024

HK97-like fold fitted into 3D reconstruction of bacteriophage CW02HK97-like fold fitted into 3D reconstruction of bacteriophage CW02

Structural highlights

Function

Publication Abstract from PubMed

References

Contents

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3j1a: Difference between revisions

Revision as of 17:13, 24 January 2024

HK97-like fold fitted into 3D reconstruction of bacteriophage CW02HK97-like fold fitted into 3D reconstruction of bacteriophage CW02

Structural highlights

Function

Publication Abstract from PubMed

References

Proteopedia Page Contributors and Editors (what is this?)Proteopedia Page Contributors and Editors (what is this?)

Navigation menu

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