4kfl - Revision history

OCA: Redirecting to 4v9n

OCA — Wed, 10 Dec 2014 15:47:36 GMT

Redirecting to 4v9n

←Older revision		Revision as of 15:47, 10 December 2014
Line 1:		Line 1:
-	~~{{Large structure}}~~	+	#REDIRECT [[4v9n]] This PDB entry is obsolete and replaced by 4v9n
-	~~{{STRUCTURE_4kfl\| PDB=4kfl \| SCENE= }}~~	+
-	~~===Crystal structure of the 70S ribosome bound with the Q253P mutant of release factor RF2. 50S of the B subunit===~~	+
-	~~{{ABSTRACT_PUBMED_23769667}}~~	+
-		+
-	~~==Function==~~	+
-	[[http://www.uniprot.org/uniprot/RL14_THET2 RL14_THET2]] Binds to 23S rRNA. Forms part of two intersubunit bridges in the 70S ribosome (By similarity). [[http://www.uniprot.org/uniprot/RL24_THET2 RL24_THET2]] One of two assembly initiator proteins, it binds directly to the 5'-end of the 23S rRNA, where it nucleates assembly of the 50S subunit (By similarity). One of the proteins that surrounds the polypeptide exit tunnel on the outside of the subunit (By similarity). [[http://www.uniprot.org/uniprot/RL6_THET2 RL6_THET2]] This ~~protein binds to the 23S rRNA, and~~ is ~~important in its secondary structure. It is located near the subunit interface in the base of the L7/L12 stalk,~~ and near the tRNA binding site of the peptidyltransferase center (By similarity). [[http://www.uniprot.org/uniprot/RL20_THET2 RL20_THET2]] Binds directly to 23S ribosomal RNA and is necessary for the in vitro assembly process of the 50S ribosomal subunit. It is not involved in the protein synthesizing functions of that subunit (By similarity). [[http://www.uniprot.org/uniprot/RL25_THET2 RL25_THET2]] This is one of the proteins that binds to the 5S RNA in the ribosome where it forms part of the central protuberance (By similarity). [[http://www.uniprot.org/uniprot/RL21_THET2 RL21_THET2]] This protein binds to 23S rRNA in the presence of protein L20 (By similarity). [[http://www.uniprot.org/uniprot/RL34_THET8 RL34_THET8]] Found on the solvent side of the large subunit.[HAMAP-Rule:MF_00391] [[http://www.uniprot.org/uniprot/RL16_THET2 RL16_THET2]] Binds 23S rRNA and is also seen to make contacts with the A and possibly P site tRNAs (By similarity). [[http://www.uniprot.org/uniprot/RL19_THET2 RL19_THET2]] This protein is located at the 30S-50S ribosomal subunit interface and may play a role in the structure and function of the aminoacyl-tRNA binding site (By similarity). [[http://www.uniprot.org/uniprot/RL5_THET2 RL5_THET2]] This is 1 of the proteins that binds and probably mediates the attachment of the 5S RNA into the large ribosomal subunit, where it forms part of the central protuberance. In the 70S ribosome it contacts protein S13 of the 30S subunit (bridge B1b), connecting the 2 subunits; this bridge is implicated in subunit movement. Contacts the P site tRNA; the 5S rRNA and some of its associated proteins might help stabilize positioning of ribosome-bound tRNAs (By similarity). [[http://www.uniprot.org/uniprot/RL31_THET2 RL31_THET2]] Binds the 23S rRNA (By similarity). [[http://www.uniprot.org/uniprot/RL32_THET2 RL32_THET2]] Found on the solvent side of the large subunit (By similarity). [[http://www.uniprot.org/uniprot/RL2_THET2 RL2_THET2]] One of the primary rRNA binding proteins. Required for association of the 30S and 50S subunits to form the 70S ribosome, for tRNA binding and peptide bond formation. It has been suggested to have peptidyltransferase activity; this is somewhat controversial. Makes several contacts with the 16S rRNA in the 70S ribosome (By similarity). [[http://www.uniprot.org/uniprot/RL11_THET2 RL11_THET2]] This protein binds directly to 23S ribosomal RNA (By similarity). [[http://www.uniprot.org/uniprot/RL15_THET2 RL15_THET2]] Binds to the 23S rRNA (By similarity). [[http://www.uniprot.org/uniprot/RL18_THET2 RL18_THET2]] This is one of the proteins that binds and probably mediates the attachment of the 5S RNA into the large ribosomal subunit, where it forms part of the central protuberance (By similarity). [[http://www.uniprot.org/uniprot/RL23_THET2 RL23_THET2]] One of the early assembly proteins it binds 23S rRNA. One of the proteins that surrounds the polypeptide exit tunnel on the outside of the ribosome. Forms the main docking site for trigger factor binding to the ribosome (By similarity). [[http://www.uniprot.org/uniprot/RL9_THET2 RL9_THET2]] Binds to the 23S rRNA (By similarity). [[http://www.uniprot.org/uniprot/RL3_THET2 RL3_THET2]] One of the primary rRNA binding proteins, it binds directly near the 3'-end of the 23S rRNA, where it nucleates assembly of the 50S subunit (By similarity). [[http://www.uniprot.org/uniprot/RL13_THET2 RL13_THET2]] This protein is one of the early assembly proteins of the 50S ribosomal subunit, although it is not seen to bind rRNA by itself. It is important during the early stages of 50S assembly (By similarity). [[http://www.uniprot.org/uniprot/RL22_THET2 RL22_THET2]] This protein binds specifically to 23S rRNA; its binding is stimulated by other ribosomal proteins, e.g. L4, L17, and L20. It is important during the early stages of 50S assembly. It makes multiple contacts with different domains of the 23S rRNA in the assembled 50S subunit and ribosome (By similarity). The globular domain of the protein is located near the polypeptide exit tunnel on the outside of the subunit, while an extended beta-hairpin is found that lines the wall of the exit tunnel in the center of the 70S ribosome (By similarity). [[http://www.uniprot.org/uniprot/RL4_THET2 RL4_THET2]] One of the primary rRNA binding proteins, this protein initially binds near the 5'-end of the 23S rRNA. It is important during the early stages of 50S assembly. It makes multiple contacts with different domains of the 23S rRNA in the assembled 50S subunit and ribosome (By similarity). Forms part of the polypeptide exit tunnel (By similarity).	+
-		+
-	~~==About this Structure==~~	+
-	[[4kfl]] is a 30 chain structure with sequence from [http://en.wikipedia.org/wiki/Thermus_thermophilus Thermus thermophilus]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=4KFL OCA].	+
-		+
-	~~==Reference==~~	+
-	~~<ref group="xtra">PMID:023769667</ref><references group="xtra"/><references/>~~	+
-	~~[[Category: Thermus thermophilus]]~~	+
-	~~[[Category: Donohue, J P.]]~~	+
-	~~[[Category: Korostelev, A A.]]~~	+
-	~~[[Category: Noller, H F]]~~	+
-	~~[[Category: Santos, N.]]~~	+
-	~~[[Category: Zhu, J.]]~~	+
-	~~[[Category: Release factor 2 mutant]]~~	+
-	~~[[Category: Ribosome]]~~	+

OCA at 14:02, 3 July 2013

OCA — Wed, 03 Jul 2013 14:02:34 GMT

←Older revision		Revision as of 14:02, 3 July 2013
Line 1:		Line 1:
-	~~'''Unreleased~~ structure~~'''~~	+	{{Large structure}}
		+	{{STRUCTURE_4kfl\| PDB=4kfl \| SCENE= }}
		+	===Crystal structure of the 70S ribosome bound with the Q253P mutant of release factor RF2. 50S of the B subunit===
		+	{{ABSTRACT_PUBMED_23769667}}

-	The ~~entry 4kfl~~ is ~~ON HOLD~~ ~~until Paper Publication~~	+	==Function==
		+	[[http://www.uniprot.org/uniprot/RL14_THET2 RL14_THET2]] Binds to 23S rRNA. Forms part of two intersubunit bridges in the 70S ribosome (By similarity). [[http://www.uniprot.org/uniprot/RL24_THET2 RL24_THET2]] One of two assembly initiator proteins, it binds directly to the 5'-end of the 23S rRNA, where it nucleates assembly of the 50S subunit (By similarity). One of the proteins that surrounds the polypeptide exit tunnel on the outside of the subunit (By similarity). [[http://www.uniprot.org/uniprot/RL6_THET2 RL6_THET2]] This protein binds to the 23S rRNA, and is important in its secondary structure. It is located near the subunit interface in the base of the L7/L12 stalk, and near the tRNA binding site of the peptidyltransferase center (By similarity). [[http://www.uniprot.org/uniprot/RL20_THET2 RL20_THET2]] Binds directly to 23S ribosomal RNA and is necessary for the in vitro assembly process of the 50S ribosomal subunit. It is not involved in the protein synthesizing functions of that subunit (By similarity). [[http://www.uniprot.org/uniprot/RL25_THET2 RL25_THET2]] This is one of the proteins that binds to the 5S RNA in the ribosome where it forms part of the central protuberance (By similarity). [[http://www.uniprot.org/uniprot/RL21_THET2 RL21_THET2]] This protein binds to 23S rRNA in the presence of protein L20 (By similarity). [[http://www.uniprot.org/uniprot/RL34_THET8 RL34_THET8]] Found on the solvent side of the large subunit.[HAMAP-Rule:MF_00391] [[http://www.uniprot.org/uniprot/RL16_THET2 RL16_THET2]] Binds 23S rRNA and is also seen to make contacts with the A and possibly P site tRNAs (By similarity). [[http://www.uniprot.org/uniprot/RL19_THET2 RL19_THET2]] This protein is located at the 30S-50S ribosomal subunit interface and may play a role in the structure and function of the aminoacyl-tRNA binding site (By similarity). [[http://www.uniprot.org/uniprot/RL5_THET2 RL5_THET2]] This is 1 of the proteins that binds and probably mediates the attachment of the 5S RNA into the large ribosomal subunit, where it forms part of the central protuberance. In the 70S ribosome it contacts protein S13 of the 30S subunit (bridge B1b), connecting the 2 subunits; this bridge is implicated in subunit movement. Contacts the P site tRNA; the 5S rRNA and some of its associated proteins might help stabilize positioning of ribosome-bound tRNAs (By similarity). [[http://www.uniprot.org/uniprot/RL31_THET2 RL31_THET2]] Binds the 23S rRNA (By similarity). [[http://www.uniprot.org/uniprot/RL32_THET2 RL32_THET2]] Found on the solvent side of the large subunit (By similarity). [[http://www.uniprot.org/uniprot/RL2_THET2 RL2_THET2]] One of the primary rRNA binding proteins. Required for association of the 30S and 50S subunits to form the 70S ribosome, for tRNA binding and peptide bond formation. It has been suggested to have peptidyltransferase activity; this is somewhat controversial. Makes several contacts with the 16S rRNA in the 70S ribosome (By similarity). [[http://www.uniprot.org/uniprot/RL11_THET2 RL11_THET2]] This protein binds directly to 23S ribosomal RNA (By similarity). [[http://www.uniprot.org/uniprot/RL15_THET2 RL15_THET2]] Binds to the 23S rRNA (By similarity). [[http://www.uniprot.org/uniprot/RL18_THET2 RL18_THET2]] This is one of the proteins that binds and probably mediates the attachment of the 5S RNA into the large ribosomal subunit, where it forms part of the central protuberance (By similarity). [[http://www.uniprot.org/uniprot/RL23_THET2 RL23_THET2]] One of the early assembly proteins it binds 23S rRNA. One of the proteins that surrounds the polypeptide exit tunnel on the outside of the ribosome. Forms the main docking site for trigger factor binding to the ribosome (By similarity). [[http://www.uniprot.org/uniprot/RL9_THET2 RL9_THET2]] Binds to the 23S rRNA (By similarity). [[http://www.uniprot.org/uniprot/RL3_THET2 RL3_THET2]] One of the primary rRNA binding proteins, it binds directly near the 3'-end of the 23S rRNA, where it nucleates assembly of the 50S subunit (By similarity). [[http://www.uniprot.org/uniprot/RL13_THET2 RL13_THET2]] This protein is one of the early assembly proteins of the 50S ribosomal subunit, although it is not seen to bind rRNA by itself. It is important during the early stages of 50S assembly (By similarity). [[http://www.uniprot.org/uniprot/RL22_THET2 RL22_THET2]] This protein binds specifically to 23S rRNA; its binding is stimulated by other ribosomal proteins, e.g. L4, L17, and L20. It is important during the early stages of 50S assembly. It makes multiple contacts with different domains of the 23S rRNA in the assembled 50S subunit and ribosome (By similarity). The globular domain of the protein is located near the polypeptide exit tunnel on the outside of the subunit, while an extended beta-hairpin is found that lines the wall of the exit tunnel in the center of the 70S ribosome (By similarity). [[http://www.uniprot.org/uniprot/RL4_THET2 RL4_THET2]] One of the primary rRNA binding proteins, this protein initially binds near the 5'-end of the 23S rRNA. It is important during the early stages of 50S assembly. It makes multiple contacts with different domains of the 23S rRNA in the assembled 50S subunit and ribosome (By similarity). Forms part of the polypeptide exit tunnel (By similarity).

-	~~Authors~~: ~~Santos, N~~.~~, Zhu, J~~.~~, Donohue, J~~.P.~~, Korostelev, A~~.A.~~, Noller, H~~.F	+	==About this Structure==
		+	[[4kfl]] is a 30 chain structure with sequence from [http://en.wikipedia.org/wiki/Thermus_thermophilus Thermus thermophilus]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=4KFL OCA].

-	~~Description~~: ~~Crystal structure of the 70S ribosome bound with the Q253P mutant of release factor RF2~~. ~~50S of the B subunit~~	+	==Reference==
		+	<ref group="xtra">PMID:023769667</ref><references group="xtra"/><references/>
		+	[[Category: Thermus thermophilus]]
		+	[[Category: Donohue, J P.]]
		+	[[Category: Korostelev, A A.]]
		+	[[Category: Noller, H F]]
		+	[[Category: Santos, N.]]
		+	[[Category: Zhu, J.]]
		+	[[Category: Release factor 2 mutant]]
		+	[[Category: Ribosome]]

OCA at 11:36, 19 June 2013

OCA — Wed, 19 Jun 2013 11:36:36 GMT

←Older revision		Revision as of 11:36, 19 June 2013
Line 1:		Line 1:
	'''Unreleased structure'''		'''Unreleased structure'''

-	The entry 4kfl is ON HOLD	+	The entry 4kfl is ON HOLD until Paper Publication

-	Authors: Santos, N., Zhu, J., Donohue, JP, Korostelev , AA, Noller, HF	+	Authors: Santos, N., Zhu, J., Donohue, J.P., Korostelev, A.A., Noller, H.F

	Description: Crystal structure of the 70S ribosome bound with the Q253P mutant of release factor RF2. 50S of the B subunit		Description: Crystal structure of the 70S ribosome bound with the Q253P mutant of release factor RF2. 50S of the B subunit

OCA: Protected "4kfl" [edit=sysop:move=sysop]

OCA — Wed, 08 May 2013 07:21:56 GMT

Protected "4kfl" [edit=sysop:move=sysop]

←Older revision

Revision as of 07:21, 8 May 2013

OCA: New page: '''Unreleased structure''' The entry 4kfl is ON HOLD Authors: Santos, N., Zhu, J., Donohue, JP, Korostelev , AA, Noller, HF Description: Crystal structure of the 70S ribosome bound wit...

OCA — Wed, 08 May 2013 07:21:55 GMT

New page: '''Unreleased structure''' The entry 4kfl is ON HOLD Authors: Santos, N., Zhu, J., Donohue, JP, Korostelev , AA, Noller, HF Description: Crystal structure of the 70S ribosome bound wit...

New page

'''Unreleased structure'''

The entry 4kfl is ON HOLD

Authors: Santos, N., Zhu, J., Donohue, JP, Korostelev , AA, Noller, HF

Description: Crystal structure of the 70S ribosome bound with the Q253P mutant of release factor RF2. 50S of the B subunit