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2w5i

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Revision as of 08:12, 1 July 2020

RNASE A-AP3A COMPLEX

Structural highlights

2w5i is a 2 chain structure with sequence from Bos taurus. Full crystallographic information is available from OCA. For a guided tour on the structure components use FirstGlance.
Ligands:
Related:	1ssb, 1afu, 1w4q, 1c0b, 6rat, 1ymr, 1o0o, 8rsa, 5rsa, 1rno, 7rat, 1izq, 1eid, 1cjq, 1eos, 1rnn, 1j82, 1qhc, 1ymw, 1afk, 1f0v, 1dy5, 1o0h, 1jn4, 1rnq, 1rnm, 1rbf, 1z3m, 1rnx, 1rob, 1rbn, 1rbx, 1eow, 1rbi, 1rbj, 1dfj, 1rsm, 1kf5, 1xps, 1rat, 1fev, 2aas, 1j80, 1rhb, 1b6v, 1fs3, 1rpg, 3srn, 1z6s, 1kf8, 4rsk, 1rtb, 1bzq, 9rsa, 1bel, 1kf4, 1kf7, 1rbw, 1eie, 9rat, 1rpf, 1o0m, 1c8w, 1rnc, 1rca, 1jvt, 1c0c, 3rsd, 1xpt, 1rbb, 2blz, 3rsp, 1ssc, 8rat, 2apq, 1w4o, 1j7z, 1rbd, 1rnz, 1jvv, 1rar, 1kf3, 1z3l, 1aqp, 1rbh, 1rbg, 1o0n, 1js0, 3rsk, 1ssa, 1cjr, 1eic, 1d5d, 1ymn, 1j81, 1rnw, 1rph, 2rns, 1rta, 1rny, 1rnu, 1z3p, 1gv7, 1rcn, 1rnv, 4rat, 1w4p, 4rsd, 1a5p, 1wbu, 1rha, 1ras, 2blp, 1rnd, 1kf2, 1d5h, 1srn, 2rat, 1d5e, 1izp, 1o0f, 1izr, 1c9x, 2rln, 4srn, 1c9v, 1u1b, 5rat, 1ruv, 1rbc, 1afl, 1z6d, 1rbe, 1a5q, 1kh8, 1lsq, 1jvu, 1a2w, 3rat, 3rn3
Activity:	Pancreatic ribonuclease, with EC number 3.1.27.5
Resources:	FirstGlance, OCA, PDBe, RCSB, PDBsum, ProSAT

Function

[RNAS1_BOVIN] Endonuclease that catalyzes the cleavage of RNA on the 3' side of pyrimidine nucleotides. Acts on single stranded and double stranded RNA.^[1]

Evolutionary Conservation

Check, as determined by ConSurfDB. You may read the explanation of the method and the full data available from ConSurf.

Publication Abstract from PubMed

Ribonuclease A is the archetype of a functionally diverse superfamily of vertebrate-specific ribonucleases. Inhibitors of its action have potential use in the elucidation of the in vivo roles of these enzymes and in the treatment of pathologies associated therewith. Derivatives of adenosine 5'-pyrophosphate are the most potent nucleotide-based inhibitors known. Here, we use X-ray crystallography to visualize the binding of four naturally-occurring derivatives that contain 5'-pyrophosphate-linked extensions. 5'-ATP binds with the adenine occupying the B(2) subsite in the manner of an RNA substrate but with the gamma-phosphate at the P(1) subsite. Diadenosine triphosphate (Ap(3)A) binds with the adenine in syn conformation, the beta-phosphate as the principal P(1) subsite ligand and without order beyond the gamma-phosphate. NADPH and NADP(+) bind with the adenine stacked against an alternative rotamer of His119, the 2'-phosphate at the P(1) subsite and without order beyond the 5'-alpha-phosphate. We also present the structure of the complex formed with pyrophosphate ion. The structural data enable existing kinetic data on the binding of these compounds to a variety of ribonucleases to be rationalized and suggest that as the complexity of the 5'-linked extension increases, the need to avoid unfavorable contacts places limitations on the number of possible binding modes. (c) 2009 Wiley Periodicals, Inc. Biopolymers, 2009.

Influence of naturally-occurring 5'-pyrophosphate-linked substituents on the binding of adenylic inhibitors to ribonuclease A: An X-ray crystallographic study.,Holloway DE, Chavali GB, Leonidas DD, Baker MD, Acharya KR Biopolymers. 2009 Feb 3. PMID:19191310^[2]

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

References

↑ delCardayre SB, Ribo M, Yokel EM, Quirk DJ, Rutter WJ, Raines RT. Engineering ribonuclease A: production, purification and characterization of wild-type enzyme and mutants at Gln11. Protein Eng. 1995 Mar;8(3):261-73. PMID:7479688
↑ Holloway DE, Chavali GB, Leonidas DD, Baker MD, Acharya KR. Influence of naturally-occurring 5'-pyrophosphate-linked substituents on the binding of adenylic inhibitors to ribonuclease A: An X-ray crystallographic study. Biopolymers. 2009 Feb 3. PMID:19191310 doi:10.1002/bip.21158

1 Structural highlights
2 Function
3 Evolutionary Conservation
4 Publication Abstract from PubMed
5 See Also
6 References

Proteopedia Page Contributors and Editors (what is this?)

OCA

Retrieved from "http://52.214.119.220/wiki/index.php/2w5i"

@@ Line 1: / Line 1: @@
 ==RNASE A-AP3A COMPLEX==
-<StructureSection load='2w5i' size='340' side='right' caption='[[2w5i]], [[Resolution|resolution]] 2.40&Aring;' scene=''>
+<StructureSection load='2w5i' size='340' side='right'caption='[[2w5i]], [[Resolution|resolution]] 2.40&Aring;' scene=''>
 == Structural highlights ==
-<table><tr><td colspan='2'>[[2w5i]] is a 2 chain structure with sequence from [http://en.wikipedia.org/wiki/Bos_taurus Bos taurus]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=2W5I OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=2W5I FirstGlance]. <br>
+<table><tr><td colspan='2'>[[2w5i]] is a 2 chain structure with sequence from [http://en.wikipedia.org/wiki/Bos_taurus Bos taurus]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=2W5I OCA]. For a <b>guided tour on the structure components</b> use [http://proteopedia.org/fgij/fg.htm?mol=2W5I FirstGlance]. <br>
-</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=ATP:ADENOSINE-5-TRIPHOSPHATE'>ATP</scene></td></tr>
+</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand|Ligands:]]</b></td><td class="sblockDat" id="ligandDat"><scene name='pdbligand=ATP:ADENOSINE-5-TRIPHOSPHATE'>ATP</scene></td></tr>
 <tr id='related'><td class="sblockLbl"><b>[[Related_structure|Related:]]</b></td><td class="sblockDat">[[1ssb|1ssb]], [[1afu|1afu]], [[1w4q|1w4q]], [[1c0b|1c0b]], [[6rat|6rat]], [[1ymr|1ymr]], [[1o0o|1o0o]], [[8rsa|8rsa]], [[5rsa|5rsa]], [[1rno|1rno]], [[7rat|7rat]], [[1izq|1izq]], [[1eid|1eid]], [[1cjq|1cjq]], [[1eos|1eos]], [[1rnn|1rnn]], [[1j82|1j82]], [[1qhc|1qhc]], [[1ymw|1ymw]], [[1afk|1afk]], [[1f0v|1f0v]], [[1dy5|1dy5]], [[1o0h|1o0h]], [[1jn4|1jn4]], [[1rnq|1rnq]], [[1rnm|1rnm]], [[1rbf|1rbf]], [[1z3m|1z3m]], [[1rnx|1rnx]], [[1rob|1rob]], [[1rbn|1rbn]], [[1rbx|1rbx]], [[1eow|1eow]], [[1rbi|1rbi]], [[1rbj|1rbj]], [[1dfj|1dfj]], [[1rsm|1rsm]], [[1kf5|1kf5]], [[1xps|1xps]], [[1rat|1rat]], [[1fev|1fev]], [[2aas|2aas]], [[1j80|1j80]], [[1rhb|1rhb]], [[1b6v|1b6v]], [[1fs3|1fs3]], [[1rpg|1rpg]], [[3srn|3srn]], [[1z6s|1z6s]], [[1kf8|1kf8]], [[4rsk|4rsk]], [[1rtb|1rtb]], [[1bzq|1bzq]], [[9rsa|9rsa]], [[1bel|1bel]], [[1kf4|1kf4]], [[1kf7|1kf7]], [[1rbw|1rbw]], [[1eie|1eie]], [[9rat|9rat]], [[1rpf|1rpf]], [[1o0m|1o0m]], [[1c8w|1c8w]], [[1rnc|1rnc]], [[1rca|1rca]], [[1jvt|1jvt]], [[1c0c|1c0c]], [[3rsd|3rsd]], [[1xpt|1xpt]], [[1rbb|1rbb]], [[2blz|2blz]], [[3rsp|3rsp]], [[1ssc|1ssc]], [[8rat|8rat]], [[2apq|2apq]], [[1w4o|1w4o]], [[1j7z|1j7z]], [[1rbd|1rbd]], [[1rnz|1rnz]], [[1jvv|1jvv]], [[1rar|1rar]], [[1kf3|1kf3]], [[1z3l|1z3l]], [[1aqp|1aqp]], [[1rbh|1rbh]], [[1rbg|1rbg]], [[1o0n|1o0n]], [[1js0|1js0]], [[3rsk|3rsk]], [[1ssa|1ssa]], [[1cjr|1cjr]], [[1eic|1eic]], [[1d5d|1d5d]], [[1ymn|1ymn]], [[1j81|1j81]], [[1rnw|1rnw]], [[1rph|1rph]], [[2rns|2rns]], [[1rta|1rta]], [[1rny|1rny]], [[1rnu|1rnu]], [[1z3p|1z3p]], [[1gv7|1gv7]], [[1rcn|1rcn]], [[1rnv|1rnv]], [[4rat|4rat]], [[1w4p|1w4p]], [[4rsd|4rsd]], [[1a5p|1a5p]], [[1wbu|1wbu]], [[1rha|1rha]], [[1ras|1ras]], [[2blp|2blp]], [[1rnd|1rnd]], [[1kf2|1kf2]], [[1d5h|1d5h]], [[1srn|1srn]], [[2rat|2rat]], [[1d5e|1d5e]], [[1izp|1izp]], [[1o0f|1o0f]], [[1izr|1izr]], [[1c9x|1c9x]], [[2rln|2rln]], [[4srn|4srn]], [[1c9v|1c9v]], [[1u1b|1u1b]], [[5rat|5rat]], [[1ruv|1ruv]], [[1rbc|1rbc]], [[1afl|1afl]], [[1z6d|1z6d]], [[1rbe|1rbe]], [[1a5q|1a5q]], [[1kh8|1kh8]], [[1lsq|1lsq]], [[1jvu|1jvu]], [[1a2w|1a2w]], [[3rat|3rat]], [[3rn3|3rn3]]</td></tr>
 <tr id='activity'><td class="sblockLbl"><b>Activity:</b></td><td class="sblockDat"><span class='plainlinks'>[http://en.wikipedia.org/wiki/Pancreatic_ribonuclease Pancreatic ribonuclease], with EC number [http://www.brenda-enzymes.info/php/result_flat.php4?ecno=3.1.27.5 3.1.27.5] </span></td></tr>
-<tr id='resources'><td class="sblockLbl"><b>Resources:</b></td><td class="sblockDat"><span class='plainlinks'>[http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=2w5i FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=2w5i OCA], [http://pdbe.org/2w5i PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=2w5i RCSB], [http://www.ebi.ac.uk/pdbsum/2w5i PDBsum], [http://prosat.h-its.org/prosat/prosatexe?pdbcode=2w5i ProSAT]</span></td></tr>
+<tr id='resources'><td class="sblockLbl"><b>Resources:</b></td><td class="sblockDat"><span class='plainlinks'>[http://proteopedia.org/fgij/fg.htm?mol=2w5i FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=2w5i OCA], [http://pdbe.org/2w5i PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=2w5i RCSB], [http://www.ebi.ac.uk/pdbsum/2w5i PDBsum], [http://prosat.h-its.org/prosat/prosatexe?pdbcode=2w5i ProSAT]</span></td></tr>
 </table>
 == Function ==
@@ Line 32: / Line 32: @@
 ==See Also==
-*[[Ribonuclease|Ribonuclease]]
+*[[Ribonuclease 3D structures|Ribonuclease 3D structures]]
 *[[Temp|Temp]]
 == References ==
@@ Line 39: / Line 39: @@
 </StructureSection>
 [[Category: Bos taurus]]
+[[Category: Large Structures]]
 [[Category: Pancreatic ribonuclease]]
 [[Category: Acharya, K R]]

2w5i

From Proteopedia

Revision as of 08:12, 1 July 2020

RNASE A-AP3A COMPLEX

Structural highlights

Function

Evolutionary Conservation

Publication Abstract from PubMed

See Also

References

Contents

Proteopedia Page Contributors and Editors (what is this?)

Views

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