1orn

From Proteopedia

Structure of a Trapped Endonuclease III-DNA Covalent Intermediate: Estranged-Guanine Complex

Structural highlights

1orn is a 3 chain structure with sequence from Geobacillus stearothermophilus. Full crystallographic information is available from OCA. For a guided tour on the structure components use FirstGlance.
Method:	X-ray diffraction, Resolution 1.7Å
Ligands:	NA, PED, TRS
Resources:	FirstGlance, OCA, PDBe, RCSB, PDBsum, ProSAT

Evolutionary Conservation

Checkto colour the structure by Evolutionary Conservation, as determined by ConSurfDB. You may read the explanation of the method and the full data available from ConSurf.

Publication Abstract from PubMed

Nearly all cells express proteins that confer resistance to the mutagenic effects of oxidative DNA damage. The primary defense against the toxicity of oxidative nucleobase lesions in DNA is the base-excision repair (BER) pathway. Endonuclease III (EndoIII) is a [4Fe-4S] cluster-containing DNA glycosylase with repair activity specific for oxidized pyrimidine lesions in duplex DNA. We have determined the crystal structure of a trapped intermediate that represents EndoIII frozen in the act of repairing DNA. The structure of the protein-DNA complex provides insight into the ability of EndoIII to recognize and repair a diverse array of oxidatively damaged bases. This structure also suggests a rationale for the frequent occurrence in certain human cancers of a specific mutation in the related DNA repair protein MYH.

Structure of a trapped endonuclease III-DNA covalent intermediate.,Fromme JC, Verdine GL EMBO J. 2003 Jul 1;22(13):3461-71. PMID:12840008^[1]

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

Loading citation details..

Citations

28 reviews cite this structure

DNA base damage recognition and removal: new twists and grooves.

Huffman et al. (2005)

27 more

79 other articles

No citations found

References

↑ Fromme JC, Verdine GL. Structure of a trapped endonuclease III-DNA covalent intermediate. EMBO J. 2003 Jul 1;22(13):3461-71. PMID:12840008 doi:10.1093/emboj/cdg311

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

loadScript /wiki/extensions/jsmol/j2s/core/package.js

loadScript /wiki/extensions/jsmol/j2s/core/corejmol.z.js

loadScript /wiki/extensions/jsmol/j2s/J/translation/PO.js

loadScript /wiki/extensions/jsmol/j2s/core/corescript.z.js

JSmol exec jmolApplet1 start applet null

Jmol JavaScript applet jmolApplet1__141462315304703__ initializing

Jmol getValue debug null

Jmol getValue logLevel null

Jmol getValue allowjavascript null

AppletRegistry.checkIn(jmolApplet1__141462315304703__)

vwrOptions:

{ "name":"jmolApplet1","applet":true,"documentBase":"https://proteopedia.org/wiki/index.php/1orn","platform":"J.awtjs2d.Platform","fullName":"jmolApplet1__141462315304703__","codePath":"https:/wiki/extensions/jsmol/j2s/","display":"jmolApplet1_canvas2d","loadStructCallback":"manageLoadStructCallback","signedApplet":"true","appletReadyCallback":"Jmol._readyCallback","statusListener":"[J.appletjs.Jmol object]","syncId":"141462315304703","messageCallback":"msgCb","bgcolor":"white" }

setting document base to "https://proteopedia.org/wiki/index.php/1orn"

Jmol Version: 14.31.8 2020-09-26 10:04

java.vendor: Java2Script (HTML5)

java.version: 2019-06-08 00:17:46 (JSmol/j2s)

os.name: Mozilla/5.0 AppleWebKit/537.36 (KHTML, like Gecko; compatible; ClaudeBot/1.0; +claudebot@anthropic.com)

Access: ALL

memory: 0.0/0.0

processors available: 1

useCommandThread: false

appletId:jmolApplet1 (signed)

Jmol getValue emulate null

defaults = "Jmol"

Jmol getValue boxbgcolor null

Jmol getValue bgcolor white

backgroundColor = "white"

Jmol getValue ANIMFRAMECallback null

Jmol getValue APPLETREADYCallback Jmol._readyCallback

APPLETREADYCallback = "Jmol._readyCallback"

StatusManager callback set for APPLETREADYCallback f=Jmol._readyCallback cb=APPLETREADY

Jmol getValue ATOMMOVEDCallback null

Jmol getValue AUDIOCallback null

Jmol getValue CLICKCallback null

Jmol getValue DRAGDROPCallback null

Jmol getValue ECHOCallback null

Jmol getValue ERRORCallback null

Jmol getValue EVALCallback null

Jmol getValue HOVERCallback null

Jmol getValue IMAGECallback null

Jmol getValue LOADSTRUCTCallback manageLoadStructCallback

LOADSTRUCTCallback = "manageLoadStructCallback"

StatusManager callback set for LOADSTRUCTCallback f=manageLoadStructCallback cb=LOADSTRUCT

Jmol getValue MEASURECallback null

Jmol getValue MESSAGECallback msgCb

MESSAGECallback = "msgCb"

StatusManager callback set for MESSAGECallback f=msgCb cb=MESSAGE

Jmol getValue MINIMIZATIONCallback null

Jmol getValue SERVICECallback null

Jmol getValue PICKCallback null

Jmol getValue RESIZECallback null

Jmol getValue SCRIPTCallback null

Jmol getValue SYNCCallback null

Jmol getValue STRUCTUREMODIFIEDCallback null

Jmol getValue doTranslate null

language=en_US

Jmol getValue doTranslate null

Note -- Presence of message callback disables disable translation; to enable message translation use jmolSetTranslation(true) prior to jmolApplet()

Note -- language translation disabled

Jmol getValue popupMenu null

Jmol getValue script null

Jmol getValue loadInline null

Jmol getValue load null

Jmol applet jmolApplet1__141462315304703__ ready

script 1 started

pdbGetHeader = true

FileManager opening url https://proteopedia.org/wiki/extensions/Proteopedia/spt/functions.spt?1733933141

loadScript /wiki/extensions/jsmol/j2s/core/coretext.z.js

Loading, please wait ...

platformSpeed = 8

loadScript /wiki/extensions/jsmol/j2s/core/corescriptmath.z.js

loadScript /wiki/extensions/jsmol/j2s/J/bspt/PointIterator.js

FileManager opening url https://proteopedia.org/cgi-bin/infopdb?1orn

loadScript /wiki/extensions/jsmol/j2s/JU/JSJSONParser.js

loadScript /wiki/extensions/jsmol/j2s/JU/JSONException.js

JSON parser cannot parse NetworkError

Data for 1orn could not be found.- Using defaults.

cache cleared

[Step 1] pdb_features.ca_p_only is: integer 0

Loading, please wait ...

PDB ID 1orn

Drag the structure with the mouse to rotate

Export Animated Image

Proteopedia Page Contributors and Editors (what is this?)

OCA

Retrieved from "http://proteopedia.org/wiki/index.php/1orn"

Categories: Geobacillus stearothermophilus | Large Structures | Fromme JC | Verdine GL

1orn

From Proteopedia

Structure of a Trapped Endonuclease III-DNA Covalent Intermediate: Estranged-Guanine Complex

Structural highlights

Evolutionary Conservation

Publication Abstract from PubMed

See Also

References

Contents

Proteopedia Page Contributors and Editors (what is this?)

Views

Personal tools

Navigation

Search

Toolbox