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1ifj

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MOLECULAR MODELS AND STRUCTURAL COMPARISONS OF NATIVE AND MUTANT CLASS I FILAMENTOUS BACTERIOPHAGES FF (FD, F1, M13), IF1 AND IKE

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Retrieved from "http://52.214.119.220/wiki/index.php/1ifj"

Categories: Enterobacteria phage fd | Large Structures | Marvin DA

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-[[Image:1ifj.gif|left|200px]]<br /><applet load="1ifj" size="450" color="white" frame="true" align="right" spinBox="true"
-caption="1ifj, resolution 3.3&Aring;" />
-'''MOLECULAR MODELS AND STRUCTURAL COMPARISONS OF NATIVE AND MUTANT CLASS I FILAMENTOUS BACTERIOPHAGES FF (FD, F1, M13), IF1 AND IKE'''<br />
-==Overview==
+==MOLECULAR MODELS AND STRUCTURAL COMPARISONS OF NATIVE AND MUTANT CLASS I FILAMENTOUS BACTERIOPHAGES FF (FD, F1, M13), IF1 AND IKE==
-The filamentous bacteriophages are flexible rods about 1 to 2 microns long, and 6 nm in diameter, with a helical shell of protein subunits surrounding, a DNA core. The approximately 50-residue coat protein subunit is largely, alpha-helix and the axis of the alpha-helix makes a small angle with the, axis of the virion. The protein shell can be considered in three sections:, the outer surface, occupied by the N-terminal region of the subunit, rich, in acidic residues that interact with the surrounding solvent and give the, virion a low isoelectric point; the interior of the shell, including a, 19-residue stretch of apolar side-chains, where protein subunits interact, mainly with each other; and the inner surface, occupied by the C-terminal, region of the subunit, rich in basic residues that interact with the DNA, core. The fact that virtually all protein side-chain interactions are, between different subunits in the coat protein array, rather than within, subunits, makes this a useful model system for studies of interactions, between alpha-helix subunits in a macromolecular assembly. We describe, molecular models of the class I filamentous bacteriophages. This class, includes strains fd, f1, M13 (these 3 very similar strains are members of, the Ff group), If1 and IKe. Our model of fd has been refined to fit, quantitative X-ray fibre diffraction data to 30 A resolution in the, meridional direction and 7 A resolution in the equatorial direction. A, simulated 3.3 A resolution diffraction pattern from this model has the, same general distribution of intensity as the experimental diffraction, pattern. The observed diffraction data at 7 A resolution are fitted much, better by the calculated diffraction pattern of our molecular model than, by that of a model in which the alpha-helix subunit is represented by a, rod of uniform density. The fact that our fd model explains the fd, diffraction data is only part of our structure analysis. The atomic, details of the model are supported by non-diffraction data, in part, previously published and in part newly reported here. These data include, information about permitted or forbidden side-chain replacements, about, the effect of chemical modification, and about spectroscopic, experiments.(ABSTRACT TRUNCATED AT 400 WORDS)
+<StructureSection load='1ifj' size='340' side='right'caption='[[1ifj]], [[Resolution|resolution]] 3.30&Aring;' scene=''>
+== Structural highlights ==
-==About this Structure==
+<table><tr><td colspan='2'>[[1ifj]] is a 1 chain structure with sequence from [https://en.wikipedia.org/wiki/Enterobacteria_phage_fd Enterobacteria phage fd]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=1IFJ OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=1IFJ FirstGlance]. <br>
-IFJ is a [http://en.wikipedia.org/wiki/Single_protein Single protein] structure of sequence from [http://en.wikipedia.org/wiki/Phage_phi3t Phage phi3t]. Full crystallographic information is available from [http://ispc.weizmann.ac.il/oca-bin/ocashort?id=1IFJ OCA].
+</td></tr><tr id='method'><td class="sblockLbl"><b>[[Empirical_models|Method:]]</b></td><td class="sblockDat" id="methodDat">Fiber diffraction, [[Resolution|Resolution]] 3.3&#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=1ifj FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=1ifj OCA], [https://pdbe.org/1ifj PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=1ifj RCSB], [https://www.ebi.ac.uk/pdbsum/1ifj PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=1ifj ProSAT]</span></td></tr>
-==Reference==
+</table>
-Molecular models and structural comparisons of native and mutant class I filamentous bacteriophages Ff (fd, f1, M13), If1 and IKe., Marvin DA, Hale RD, Nave C, Helmer-Citterich M, J Mol Biol. 1994 Jan 7;235(1):260-86. PMID:[http://ispc.weizmann.ac.il//pmbin/getpm?pmid=8289247 8289247]
+== Function ==
-[[Category: Phage phi3t]]
+[https://www.uniprot.org/uniprot/CAPSD_BPFD CAPSD_BPFD] Self assembles to form a helical capsid wrapping up the viral genomic DNA. The capsid displays a filamentous structure with a length of 760-1950 nm and a width of 6-8 nm. The virion assembly and budding take place at the host inner membrane (By similarity).
-[[Category: Single protein]]
+__TOC__
-[[Category: Marvin, D.A.]]
+</StructureSection>
-[[Category: helical virus]]
+[[Category: Enterobacteria phage fd]]
-[[Category: virus]]
+[[Category: Large Structures]]
+[[Category: Marvin DA]]
-''Page seeded by [http://ispc.weizmann.ac.il/oca OCA ] on Tue Nov 20 17:21:57 2007''

1ifj

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MOLECULAR MODELS AND STRUCTURAL COMPARISONS OF NATIVE AND MUTANT CLASS I FILAMENTOUS BACTERIOPHAGES FF (FD, F1, M13), IF1 AND IKE

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