2jho

From Proteopedia

(Difference between revisions)

Revision as of 10:18, 9 September 2020

Cyanomet Sperm Whale Myoglobin at 1.4A resolution

Structural highlights

2jho is a 1 chain structure with sequence from Physeter catodon. Full crystallographic information is available from OCA. For a guided tour on the structure components use FirstGlance.
Ligands:	, , ,
Related:	101m, 102m, 103m, 104m, 105m, 106m, 107m, 108m, 109m, 110m, 111m, 112m, 1a6g, 1a6k, 1a6m, 1a6n, 1abs, 1ajg, 1ajh, 1bvc, 1bvd, 1bz6, 1bzp, 1bzr, 1ch1, 1ch2, 1ch3, 1ch5, 1ch7, 1ch9, 1cik, 1cio, 1co8, 1co9, 1cp0, 1cp5, 1cpw, 1cq2, 1do1, 1do3, 1do4, 1do7, 1dti, 1dtm, 1duk, 1duo, 1dxc, 1dxd, 1ebc, 1f63, 1f65, 1f6h, 1fcs, 1h1x, 1hjt, 1iop, 1irc, 1j3f, 1j52, 1jdo, 1jp6, 1jp8, 1jp9, 1jpb, 1jw8, 1l2k, 1ltw, 1lue, 1mbc, 1mbd, 1mbi, 1mbn, 1mbo, 1mcy, 1mgn, 1mlf, 1mlg, 1mlh, 1mlj, 1mlk, 1mll, 1mlm, 1mln, 1mlo, 1mlq, 1mlr, 1mls, 1mlu, 1moa, 1mob, 1moc, 1mod, 1mti, 1mtj, 1mtk, 1myf, 1mym, 1myz, 1mz0, 1n9f, 1n9h, 1n9i, 1n9x, 1naz, 1o16, 1obm, 1ofj, 1ofk, 1spe, 1swm, 1tes, 1u7r, 1u7s, 1ufj, 1ufp, 1vxa, 1vxb, 1vxc, 1vxd, 1vxe, 1vxf, 1vxg, 1vxh, 1wvp, 1yog, 1yoh, 1yoi, 2blh, 2bli, 2blj, 2bw9, 2bwh, 2cdj, 2cdk, 2cdl, 2cmm, 2d6c, 2evp, 2g0r, 2g0s, 2g0v, 2g0x, 2g0z, 2g10, 2g11, 2g12, 2g14, 2mb5, 2mbw, 2mga, 2mgb, 2mgc, 2mgd, 2mge, 2mgf, 2mgg, 2mgh, 2mgi, 2mgj, 2mgk, 2mgl, 2mgm, 2mya, 2myb, 2myc, 2myd, 2mye, 2spl, 2spm, 2spn, 2spo, 4mbn, 5mbn
Resources:	FirstGlance, OCA, PDBe, RCSB, PDBsum, ProSAT

Function

[MYG_PHYCD] Serves as a reserve supply of oxygen and facilitates the movement of oxygen within muscles.

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

X-ray absorption spectroscopy is exquisitely sensitive to the coordination geometry of an absorbing atom and therefore allows bond distances and angles of the surrounding atomic cluster to be measured with atomic resolution. By contrast, the accuracy and resolution of metalloprotein active sites obtainable from x-ray crystallography are often insufficient to analyze the electronic properties of the metals that are essential for their biological functions. Here, we demonstrate that the combination of both methods on the same metalloprotein single crystal yields a structural model of the protein with exceptional active-site resolution. To this end, we have collected an x-ray diffraction data set to 1.4-A resolution and Fe K-edge polarized x-ray absorption near edge structure (XANES) spectra on the same cyanomet sperm whale myoglobin crystal. The XANES spectra were quantitatively analyzed by using a method based on the multiple scattering approach, which yielded Fe-heme structural parameters with +/-(0.02-0.07)-A accuracy on the atomic distances and +/-7 degrees on the Fe-CN angle. These XANES-derived parameters were subsequently used as restraints in the crystal structure refinement. By combining XANES and x-ray diffraction, we have obtained an cyanomet sperm whale myoglobin structural model with a higher precision of the bond lengths and angles at the active site than would have been possible with crystallographic analysis alone.

X-ray structure analysis of a metalloprotein with enhanced active-site resolution using in situ x-ray absorption near edge structure spectroscopy.,Arcovito A, Benfatto M, Cianci M, Hasnain SS, Nienhaus K, Nienhaus GU, Savino C, Strange RW, Vallone B, Della Longa S Proc Natl Acad Sci U S A. 2007 Apr 10;104(15):6211-6. Epub 2007 Apr 2. PMID:17404234^[1]

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

References

↑ Arcovito A, Benfatto M, Cianci M, Hasnain SS, Nienhaus K, Nienhaus GU, Savino C, Strange RW, Vallone B, Della Longa S. X-ray structure analysis of a metalloprotein with enhanced active-site resolution using in situ x-ray absorption near edge structure spectroscopy. Proc Natl Acad Sci U S A. 2007 Apr 10;104(15):6211-6. Epub 2007 Apr 2. PMID:17404234

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/2jho"

@@ Line 1: / Line 1: @@
 ==Cyanomet Sperm Whale Myoglobin at 1.4A resolution==
-<StructureSection load='2jho' size='340' side='right' caption='[[2jho]], [[Resolution|resolution]] 1.40&Aring;' scene=''>
+<StructureSection load='2jho' size='340' side='right'caption='[[2jho]], [[Resolution|resolution]] 1.40&Aring;' scene=''>
 == Structural highlights ==
-<table><tr><td colspan='2'>[[2jho]] is a 1 chain structure with sequence from [http://en.wikipedia.org/wiki/Physeter_catodon Physeter catodon]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=2JHO OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=2JHO FirstGlance]. <br>
+<table><tr><td colspan='2'>[[2jho]] is a 1 chain structure with sequence from [http://en.wikipedia.org/wiki/Physeter_catodon Physeter catodon]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=2JHO OCA]. For a <b>guided tour on the structure components</b> use [http://proteopedia.org/fgij/fg.htm?mol=2JHO FirstGlance]. <br>
-</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=CYN:CYANIDE+ION'>CYN</scene>, <scene name='pdbligand=HEM:PROTOPORPHYRIN+IX+CONTAINING+FE'>HEM</scene>, <scene name='pdbligand=SO4:SULFATE+ION'>SO4</scene>, <scene name='pdbligand=ZN:ZINC+ION'>ZN</scene></td></tr>
+</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand|Ligands:]]</b></td><td class="sblockDat" id="ligandDat"><scene name='pdbligand=CYN:CYANIDE+ION'>CYN</scene>, <scene name='pdbligand=HEM:PROTOPORPHYRIN+IX+CONTAINING+FE'>HEM</scene>, <scene name='pdbligand=SO4:SULFATE+ION'>SO4</scene>, <scene name='pdbligand=ZN:ZINC+ION'>ZN</scene></td></tr>
 <tr id='related'><td class="sblockLbl"><b>[[Related_structure|Related:]]</b></td><td class="sblockDat">[[101m|101m]], [[102m|102m]], [[103m|103m]], [[104m|104m]], [[105m|105m]], [[106m|106m]], [[107m|107m]], [[108m|108m]], [[109m|109m]], [[110m|110m]], [[111m|111m]], [[112m|112m]], [[1a6g|1a6g]], [[1a6k|1a6k]], [[1a6m|1a6m]], [[1a6n|1a6n]], [[1abs|1abs]], [[1ajg|1ajg]], [[1ajh|1ajh]], [[1bvc|1bvc]], [[1bvd|1bvd]], [[1bz6|1bz6]], [[1bzp|1bzp]], [[1bzr|1bzr]], [[1ch1|1ch1]], [[1ch2|1ch2]], [[1ch3|1ch3]], [[1ch5|1ch5]], [[1ch7|1ch7]], [[1ch9|1ch9]], [[1cik|1cik]], [[1cio|1cio]], [[1co8|1co8]], [[1co9|1co9]], [[1cp0|1cp0]], [[1cp5|1cp5]], [[1cpw|1cpw]], [[1cq2|1cq2]], [[1do1|1do1]], [[1do3|1do3]], [[1do4|1do4]], [[1do7|1do7]], [[1dti|1dti]], [[1dtm|1dtm]], [[1duk|1duk]], [[1duo|1duo]], [[1dxc|1dxc]], [[1dxd|1dxd]], [[1ebc|1ebc]], [[1f63|1f63]], [[1f65|1f65]], [[1f6h|1f6h]], [[1fcs|1fcs]], [[1h1x|1h1x]], [[1hjt|1hjt]], [[1iop|1iop]], [[1irc|1irc]], [[1j3f|1j3f]], [[1j52|1j52]], [[1jdo|1jdo]], [[1jp6|1jp6]], [[1jp8|1jp8]], [[1jp9|1jp9]], [[1jpb|1jpb]], [[1jw8|1jw8]], [[1l2k|1l2k]], [[1ltw|1ltw]], [[1lue|1lue]], [[1mbc|1mbc]], [[1mbd|1mbd]], [[1mbi|1mbi]], [[1mbn|1mbn]], [[1mbo|1mbo]], [[1mcy|1mcy]], [[1mgn|1mgn]], [[1mlf|1mlf]], [[1mlg|1mlg]], [[1mlh|1mlh]], [[1mlj|1mlj]], [[1mlk|1mlk]], [[1mll|1mll]], [[1mlm|1mlm]], [[1mln|1mln]], [[1mlo|1mlo]], [[1mlq|1mlq]], [[1mlr|1mlr]], [[1mls|1mls]], [[1mlu|1mlu]], [[1moa|1moa]], [[1mob|1mob]], [[1moc|1moc]], [[1mod|1mod]], [[1mti|1mti]], [[1mtj|1mtj]], [[1mtk|1mtk]], [[1myf|1myf]], [[1mym|1mym]], [[1myz|1myz]], [[1mz0|1mz0]], [[1n9f|1n9f]], [[1n9h|1n9h]], [[1n9i|1n9i]], [[1n9x|1n9x]], [[1naz|1naz]], [[1o16|1o16]], [[1obm|1obm]], [[1ofj|1ofj]], [[1ofk|1ofk]], [[1spe|1spe]], [[1swm|1swm]], [[1tes|1tes]], [[1u7r|1u7r]], [[1u7s|1u7s]], [[1ufj|1ufj]], [[1ufp|1ufp]], [[1vxa|1vxa]], [[1vxb|1vxb]], [[1vxc|1vxc]], [[1vxd|1vxd]], [[1vxe|1vxe]], [[1vxf|1vxf]], [[1vxg|1vxg]], [[1vxh|1vxh]], [[1wvp|1wvp]], [[1yog|1yog]], [[1yoh|1yoh]], [[1yoi|1yoi]], [[2blh|2blh]], [[2bli|2bli]], [[2blj|2blj]], [[2bw9|2bw9]], [[2bwh|2bwh]], [[2cdj|2cdj]], [[2cdk|2cdk]], [[2cdl|2cdl]], [[2cmm|2cmm]], [[2d6c|2d6c]], [[2evp|2evp]], [[2g0r|2g0r]], [[2g0s|2g0s]], [[2g0v|2g0v]], [[2g0x|2g0x]], [[2g0z|2g0z]], [[2g10|2g10]], [[2g11|2g11]], [[2g12|2g12]], [[2g14|2g14]], [[2mb5|2mb5]], [[2mbw|2mbw]], [[2mga|2mga]], [[2mgb|2mgb]], [[2mgc|2mgc]], [[2mgd|2mgd]], [[2mge|2mge]], [[2mgf|2mgf]], [[2mgg|2mgg]], [[2mgh|2mgh]], [[2mgi|2mgi]], [[2mgj|2mgj]], [[2mgk|2mgk]], [[2mgl|2mgl]], [[2mgm|2mgm]], [[2mya|2mya]], [[2myb|2myb]], [[2myc|2myc]], [[2myd|2myd]], [[2mye|2mye]], [[2spl|2spl]], [[2spm|2spm]], [[2spn|2spn]], [[2spo|2spo]], [[4mbn|4mbn]], [[5mbn|5mbn]]</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=2jho FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=2jho OCA], [http://pdbe.org/2jho PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=2jho RCSB], [http://www.ebi.ac.uk/pdbsum/2jho PDBsum], [http://prosat.h-its.org/prosat/prosatexe?pdbcode=2jho 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=2jho FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=2jho OCA], [http://pdbe.org/2jho PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=2jho RCSB], [http://www.ebi.ac.uk/pdbsum/2jho PDBsum], [http://prosat.h-its.org/prosat/prosatexe?pdbcode=2jho ProSAT]</span></td></tr>
 </table>
 == Function ==
@@ Line 31: / Line 31: @@
 ==See Also==
-*[[Myoglobin|Myoglobin]]
+*[[Myoglobin 3D structures|Myoglobin 3D structures]]
 == References ==
 <references/>
 __TOC__
 </StructureSection>
+[[Category: Large Structures]]
 [[Category: Physeter catodon]]
 [[Category: Arcovito, A]]

2jho

From Proteopedia

Revision as of 10:18, 9 September 2020

Cyanomet Sperm Whale Myoglobin at 1.4A resolution

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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