3c2i: Difference between revisions
No edit summary |
No edit summary |
||
(6 intermediate revisions by the same user not shown) | |||
Line 1: | Line 1: | ||
== | ==The Crystal Structure of Methyl-CpG Binding Domain of Human MeCP2 in Complex with a Methylated DNA Sequence from BDNF== | ||
[[http://www.uniprot.org/uniprot/MECP2_HUMAN MECP2_HUMAN | <StructureSection load='3c2i' size='340' side='right'caption='[[3c2i]], [[Resolution|resolution]] 2.50Å' scene=''> | ||
== Structural highlights == | |||
<table><tr><td colspan='2'>[[3c2i]] is a 3 chain structure with sequence from [https://en.wikipedia.org/wiki/Homo_sapiens Homo sapiens]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=3C2I OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=3C2I FirstGlance]. <br> | |||
</td></tr><tr id='method'><td class="sblockLbl"><b>[[Empirical_models|Method:]]</b></td><td class="sblockDat" id="methodDat">X-ray diffraction, [[Resolution|Resolution]] 2.5Å</td></tr> | |||
<tr id='ligand'><td class="sblockLbl"><b>[[Ligand|Ligands:]]</b></td><td class="sblockDat" id="ligandDat"><scene name='pdbligand=5CM:5-METHYL-2-DEOXY-CYTIDINE-5-MONOPHOSPHATE'>5CM</scene>, <scene name='pdbligand=MSE:SELENOMETHIONINE'>MSE</scene></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=3c2i FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=3c2i OCA], [https://pdbe.org/3c2i PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=3c2i RCSB], [https://www.ebi.ac.uk/pdbsum/3c2i PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=3c2i ProSAT]</span></td></tr> | |||
</table> | |||
== Disease == | |||
[https://www.uniprot.org/uniprot/MECP2_HUMAN MECP2_HUMAN] Defects in MECP2 may be a cause of Angelman syndrome (AS) [MIM:[https://omim.org/entry/105830 105830]; also known as happy puppet syndrome. AS is a neurodevelopmental disorder characterized by severe mental retardation, absent speech, ataxia, sociable affect and dysmorphic facial features. AS and Rett syndrome have overlapping clinical features.<ref>PMID:11376998</ref> <ref>PMID:11283202</ref> Defects in MECP2 are the cause of mental retardation syndromic X-linked type 13 (MRXS13) [MIM:[https://omim.org/entry/300055 300055]. Mental retardation is a mental disorder characterized by significantly sub-average general intellectual functioning associated with impairments in adaptative behavior and manifested during the developmental period. MRXS13 patients manifest mental retardation associated with other variable features such as spasticity, episodes of manic depressive psychosis, increased tone and macroorchidism.<ref>PMID:10986043</ref> <ref>PMID:11007980</ref> <ref>PMID:11309367</ref> <ref>PMID:11885030</ref> <ref>PMID:12325019</ref> <ref>PMID:12161600</ref> <ref>PMID:11805248</ref> <ref>PMID:12615169</ref> <ref>PMID:16966553</ref> Defects in MECP2 are the cause of Rett syndrome (RTT) [MIM:[https://omim.org/entry/312750 312750]. RTT is an X-linked dominant disease, it is a progressive neurologic developmental disorder and one of the most common causes of mental retardation in females. Patients appear to develop normally until 6 to 18 months of age, then gradually lose speech and purposeful hand movements and develop microcephaly, seizures, autism, ataxia, intermittent hyperventilation, and stereotypic hand movements. After initial regression, the condition stabilizes and patients usually survive into adulthood.<ref>PMID:11376998</ref> <ref>PMID:11283202</ref> <ref>PMID:12161600</ref> <ref>PMID:15034579</ref> <ref>PMID:10577905</ref> <ref>PMID:10508514</ref> <ref>PMID:11055898</ref> <ref>PMID:10767337</ref> <ref>PMID:10814719</ref> <ref>PMID:10944854</ref> <ref>PMID:10745042</ref> <ref>PMID:10991688</ref> <ref>PMID:10991689</ref> <ref>PMID:11706982</ref> <ref>PMID:11738883</ref> <ref>PMID:11241840</ref> <ref>PMID:11269512</ref> <ref>PMID:11402105</ref> <ref>PMID:12567420</ref> <ref>PMID:12966522</ref> <ref>PMID:12966523</ref> <ref>PMID:15057977</ref> Defects in MECP2 may be the cause of susceptibility autism X-linked type 3 (AUTSX3) [MIM:[https://omim.org/entry/300496 300496]. AUTSX3 is a pervasive developmental disorder (PDD), prototypically characterized by impairments in reciprocal social interaction and communication, restricted and stereotyped patterns of interests and activities, and the presence of developmental abnormalities by 3 years of age.<ref>PMID:12770674</ref> Defects in MECP2 are the cause of encephalopathy neonatal severe due to MECP2 mutations (ENS-MECP2) [MIM:[https://omim.org/entry/300673 300673]. Note=The MECP2 gene is mutated in Rett syndrome, a severe neurodevelopmental disorder that almost always occurs in females. Although it was first thought that MECP2 mutations causing Rett syndrome were lethal in males, later reports identified a severe neonatal encephalopathy in surviving male sibs of patients with Rett syndrome. Additional reports have confirmed a severe phenotype in males with Rett syndrome-associated MECP2 mutations.<ref>PMID:11238684</ref> Defects in MECP2 are the cause of mental retardation syndromic X-linked Lubs type (MRXSL) [MIM:[https://omim.org/entry/300260 300260]. Mental retardation is characterized by significantly below average general intellectual functioning associated with impairments in adaptative behavior and manifested during the developmental period. MRXSL patients manifest mental retardation associated with variable features. They include swallowing dysfunction and gastroesophageal reflux with secondary recurrent respiratory infections, hypotonia, mild myopathy and characteristic facies such as downslanting palpebral fissures, hypertelorism and a short nose with a low nasal bridge. Note=Increased dosage of MECP2 due to gene duplication appears to be responsible for the mental retardation phenotype. | |||
== Function == | |||
[https://www.uniprot.org/uniprot/MECP2_HUMAN MECP2_HUMAN] Chromosomal protein that binds to methylated DNA. It can bind specifically to a single methyl-CpG pair. It is not influenced by sequences flanking the methyl-CpGs. Mediates transcriptional repression through interaction with histone deacetylase and the corepressor SIN3A. | |||
== Evolutionary Conservation == | |||
[[Image:Consurf_key_small.gif|200px|right]] | |||
Check<jmol> | |||
<jmolCheckbox> | |||
<scriptWhenChecked>; select protein; define ~consurf_to_do selected; consurf_initial_scene = true; script "/wiki/ConSurf/c2/3c2i_consurf.spt"</scriptWhenChecked> | |||
<scriptWhenUnchecked>script /wiki/extensions/Proteopedia/spt/initialview03.spt</scriptWhenUnchecked> | |||
<text>to colour the structure by Evolutionary Conservation</text> | |||
</jmolCheckbox> | |||
</jmol>, as determined by [http://consurfdb.tau.ac.il/ ConSurfDB]. You may read the [[Conservation%2C_Evolutionary|explanation]] of the method and the full data available from [http://bental.tau.ac.il/new_ConSurfDB/main_output.php?pdb_ID=3c2i ConSurf]. | |||
<div style="clear:both"></div> | |||
<div style="background-color:#fffaf0;"> | |||
== Publication Abstract from PubMed == | |||
MeCP2 is an essential transcriptional repressor that mediates gene silencing through binding to methylated DNA. Binding specificity has been thought to depend on hydrophobic interactions between cytosine methyl groups and a hydrophobic patch within the methyl-CpG-binding domain (MBD). X-ray analysis of a methylated DNA-MBD cocrystal reveals, however, that the methyl groups make contact with a predominantly hydrophilic surface that includes tightly bound water molecules. This suggests that MeCP2 recognizes hydration of the major groove of methylated DNA rather than cytosine methylation per se. The MeCP2-DNA complex also identifies a unique structural role for T158, the residue most commonly mutated in Rett syndrome. | |||
MeCP2 binding to DNA depends upon hydration at methyl-CpG.,Ho KL, McNae IW, Schmiedeberg L, Klose RJ, Bird AP, Walkinshaw MD Mol Cell. 2008 Feb 29;29(4):525-31. PMID:18313390<ref>PMID:18313390</ref> | |||
From MEDLINE®/PubMed®, a database of the U.S. National Library of Medicine.<br> | |||
</div> | |||
<div class="pdbe-citations 3c2i" style="background-color:#fffaf0;"></div> | |||
==See Also== | ==See Also== | ||
*[[Methyl CpG Binding Protein 2|Methyl CpG Binding Protein 2]] | *[[Methyl CpG Binding Protein 2|Methyl CpG Binding Protein 2]] | ||
*[[Methyl CpG binding protein 3D structures|Methyl CpG binding protein 3D structures]] | |||
== | == References == | ||
<references/> | |||
__TOC__ | |||
</StructureSection> | |||
[[Category: Homo sapiens]] | [[Category: Homo sapiens]] | ||
[[Category: Bird | [[Category: Large Structures]] | ||
[[Category: Ho | [[Category: Bird AP]] | ||
[[Category: Klose | [[Category: Ho KL]] | ||
[[Category: McNae | [[Category: Klose RJ]] | ||
[[Category: Schmiedeberg | [[Category: McNae IW]] | ||
[[Category: Walkinshaw | [[Category: Schmiedeberg L]] | ||
[[Category: Walkinshaw MD]] | |||
Latest revision as of 04:39, 21 November 2024
The Crystal Structure of Methyl-CpG Binding Domain of Human MeCP2 in Complex with a Methylated DNA Sequence from BDNFThe Crystal Structure of Methyl-CpG Binding Domain of Human MeCP2 in Complex with a Methylated DNA Sequence from BDNF
Structural highlights
DiseaseMECP2_HUMAN Defects in MECP2 may be a cause of Angelman syndrome (AS) [MIM:105830; also known as happy puppet syndrome. AS is a neurodevelopmental disorder characterized by severe mental retardation, absent speech, ataxia, sociable affect and dysmorphic facial features. AS and Rett syndrome have overlapping clinical features.[1] [2] Defects in MECP2 are the cause of mental retardation syndromic X-linked type 13 (MRXS13) [MIM:300055. Mental retardation is a mental disorder characterized by significantly sub-average general intellectual functioning associated with impairments in adaptative behavior and manifested during the developmental period. MRXS13 patients manifest mental retardation associated with other variable features such as spasticity, episodes of manic depressive psychosis, increased tone and macroorchidism.[3] [4] [5] [6] [7] [8] [9] [10] [11] Defects in MECP2 are the cause of Rett syndrome (RTT) [MIM:312750. RTT is an X-linked dominant disease, it is a progressive neurologic developmental disorder and one of the most common causes of mental retardation in females. Patients appear to develop normally until 6 to 18 months of age, then gradually lose speech and purposeful hand movements and develop microcephaly, seizures, autism, ataxia, intermittent hyperventilation, and stereotypic hand movements. After initial regression, the condition stabilizes and patients usually survive into adulthood.[12] [13] [14] [15] [16] [17] [18] [19] [20] [21] [22] [23] [24] [25] [26] [27] [28] [29] [30] [31] [32] [33] Defects in MECP2 may be the cause of susceptibility autism X-linked type 3 (AUTSX3) [MIM:300496. AUTSX3 is a pervasive developmental disorder (PDD), prototypically characterized by impairments in reciprocal social interaction and communication, restricted and stereotyped patterns of interests and activities, and the presence of developmental abnormalities by 3 years of age.[34] Defects in MECP2 are the cause of encephalopathy neonatal severe due to MECP2 mutations (ENS-MECP2) [MIM:300673. Note=The MECP2 gene is mutated in Rett syndrome, a severe neurodevelopmental disorder that almost always occurs in females. Although it was first thought that MECP2 mutations causing Rett syndrome were lethal in males, later reports identified a severe neonatal encephalopathy in surviving male sibs of patients with Rett syndrome. Additional reports have confirmed a severe phenotype in males with Rett syndrome-associated MECP2 mutations.[35] Defects in MECP2 are the cause of mental retardation syndromic X-linked Lubs type (MRXSL) [MIM:300260. Mental retardation is characterized by significantly below average general intellectual functioning associated with impairments in adaptative behavior and manifested during the developmental period. MRXSL patients manifest mental retardation associated with variable features. They include swallowing dysfunction and gastroesophageal reflux with secondary recurrent respiratory infections, hypotonia, mild myopathy and characteristic facies such as downslanting palpebral fissures, hypertelorism and a short nose with a low nasal bridge. Note=Increased dosage of MECP2 due to gene duplication appears to be responsible for the mental retardation phenotype. FunctionMECP2_HUMAN Chromosomal protein that binds to methylated DNA. It can bind specifically to a single methyl-CpG pair. It is not influenced by sequences flanking the methyl-CpGs. Mediates transcriptional repression through interaction with histone deacetylase and the corepressor SIN3A. 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 PubMedMeCP2 is an essential transcriptional repressor that mediates gene silencing through binding to methylated DNA. Binding specificity has been thought to depend on hydrophobic interactions between cytosine methyl groups and a hydrophobic patch within the methyl-CpG-binding domain (MBD). X-ray analysis of a methylated DNA-MBD cocrystal reveals, however, that the methyl groups make contact with a predominantly hydrophilic surface that includes tightly bound water molecules. This suggests that MeCP2 recognizes hydration of the major groove of methylated DNA rather than cytosine methylation per se. The MeCP2-DNA complex also identifies a unique structural role for T158, the residue most commonly mutated in Rett syndrome. MeCP2 binding to DNA depends upon hydration at methyl-CpG.,Ho KL, McNae IW, Schmiedeberg L, Klose RJ, Bird AP, Walkinshaw MD Mol Cell. 2008 Feb 29;29(4):525-31. PMID:18313390[36] From MEDLINE®/PubMed®, a database of the U.S. National Library of Medicine. See AlsoReferences
|
|