SASDBC7: Human NEI like DNA glycosylase 1 (NEIL1) (Endonuclease 8-like 1)

基本情報

• 登録情報: データベース: SASBDB / ID: SASDBC7

試料

Human NEI like DNA glycosylase 1 (NEIL1)

• Endonuclease 8-like 1 (protein), Homo sapiens

機能・相同性

分子機能:

negative regulation of nuclease activity / Defective Base Excision Repair Associated with NEIL1 / depyrimidination / DNA N-glycosylase activity / 8-oxo-7,8-dihydroguanine DNA N-glycosylase activity / hydrolase activity, acting on glycosyl bonds / 加水分解酵素; 糖加水分解酵素; N-グリコシル化合物加水分解酵素 / APEX1-Independent Resolution of AP Sites via the Single Nucleotide Replacement Pathway / DNA-(apurinic or apyrimidinic site) endonuclease activity / Recognition and association of DNA glycosylase with site containing an affected pyrimidine / Cleavage of the damaged pyrimidine / class I DNA-(apurinic or apyrimidinic site) endonuclease activity / DNA-(apurinic or apyrimidinic site) lyase / base-excision repair, gap-filling / base-excision repair / chromosome / response to oxidative stress / damaged DNA binding / centrosome / zinc ion binding / nucleoplasm / nucleus / cytoplasm / cytosol

ドメイン・相同性:

Endonuclease VIII-like 1, DNA binding / Endonuclease VIII-like 1, DNA bind / Formamidopyrimidine-DNA glycosylase N-terminal domain / Formamidopyrimidine-DNA glycosylase N-terminal domain / MutM-like, N-terminal / Formamidopyrimidine-DNA glycosylase, catalytic domain / Formamidopyrimidine-DNA glycosylase catalytic domain profile. / Formamidopyrimidine-DNA glycosylase H2TH domain / DNA glycosylase/AP lyase, H2TH DNA-binding / Ribosomal protein S13-like, H2TH

構成要素:

Endonuclease 8-like 1

• 生物種: Homo sapiens (ヒト)
• 引用: ジャーナル: Nucleic Acids Res / 年: 2017; タイトル: Destabilization of the PCNA trimer mediated by its interaction with the NEIL1 DNA glycosylase.; 著者: Aishwarya Prakash / Kedar Moharana / Susan S Wallace / Sylvie Doublié / ; 要旨: The base excision repair (BER) pathway repairs oxidized lesions in the DNA that result from reactive oxygen species generated in cells. If left unrepaired, these damaged DNA bases can disrupt cellular processes such as replication. NEIL1 is one of the 11 human DNA glycosylases that catalyze the first step of the BER pathway, i.e. recognition and excision of DNA lesions. NEIL1 interacts with essential replication proteins such as the ring-shaped homotrimeric proliferating cellular nuclear antigen (PCNA). We isolated a complex formed between NEIL1 and PCNA (±DNA) using size exclusion chromatography (SEC). This interaction was confirmed using native gel electrophoresis and mass spectrometry. Stokes radii measured by SEC hinted that PCNA in complex with NEIL1 (±DNA) was no longer a trimer. Height measurements and images obtained by atomic force microscopy also demonstrated the dissociation of the PCNA homotrimer in the presence of NEIL1 and DNA, while small-angle X-ray scattering analysis confirmed the NEIL1 mediated PCNA trimer dissociation and formation of a 1:1:1 NEIL1-DNA-PCNA(monomer) complex. Furthermore, ab initio shape reconstruction provides insights into the solution structure of this previously unreported complex. Together, these data point to a potential mechanistic switch between replication and BER.

登録者

• Kedar Moharana (University of Vermont, Burlington, VT, USA)

モデル

• モデル #809: ; タイプ: dummy / ソフトウェア: GASBOR / ダミー原子の半径: 1.90 A / カイ2乗値: 1.07; Omokage検索でこの集合体の類似形状データを探す (詳細)

試料

• 試料: 名称: Human NEI like DNA glycosylase 1 (NEIL1) / 試料濃度: 0.50-2.00
• バッファ: 名称: 25mM HEPES 300mM NaCl 1mM DTT 10% Glycerol / pH: 7.5

要素 #453

タイプ: protein / 記述: Endonuclease 8-like 1 / 分子量: 44.722 / 分子数: 1 / 由来: Homo sapiens / 参照: UniProt: Q96FI4
配列:

MPEGPELHLA SQFVNEACRA LVFGGCVEKS SVSRNPEVPF ESSAYRISAS ARGKELRLIL SPLPGAQPQQ EPLALVFRFG MSGSFQLVPR EELPRHAHLR FYTAPPGPRL ALCFVDIRRF GRWDLGGKWQ PGRGPCVLQE YQQFRESVLR NLADKAFDRP ICEALLDQRF FNGIGNYLRA EILYRLKIPP FEKARSVLEA LQQHRPSPEL TLSQKIRTKL QNPDLLELCH SVPKEVVQLG GKGYGSESGE EDFAAFRAWL RCYGMPGMSS LQDRHGRTIW FQGDPGPLAP KGRKSRKKKS KATQLSPEDR VEDALPPSKA PSRTRRAKRD LPKRTATQRP EGTSLQQDPE APTVPKKGRR KGRQAASGHC RPRKVKADIP SLEPEGTSAS LEHHHHHH

実験情報

• ビーム: 設備名称: Advanced Photon Source (APS) BioCAT 18ID / 地域: Argonne, IL / 国: United States / 線源: X-ray synchrotron / 波長: 0.1033 Å
• 検出器: 名称: MAR 165 CCD

スキャン

タイトル: Human NEI like DNA glycosylase 1 (NEIL1) / 測定日: 2015年3月13日 / 保管温度: 4 °C / セル温度: 10 °C / 照射時間: 1 sec. / フレーム数: 14 / 単位: 1/A /

	Min	Max
Q	0.005	0.3286

距離分布関数 P(R)

ソフトウェア P(R): GNOM 5.0 / ポイント数: 1062 /

	Min	Max
Q	0.0130078	0.328583
P(R) point	1	1062
R	0	150

結果

カーブのタイプ: single_conc
コメント: Experimental MW reported here is calculated from Gnom based I(0) estimates and will be used for publication purpose in future. Guinier I(0) estimates are prone to presence of aggregates/radiation damage and that is why Gnom based I(0) was preferred to calculate the experimental MW.

	実験値	Standard	Standard error	Porod
分子量	48.1 kDa	50.56 kDa	0.35	47.8 kDa
体積	-	-	-	81.37 nm3

	P(R)	P(R) error	Guinier	Guinier error
前方散乱 I0	4.411	0.0441	4.31	0.03
慣性半径, Rg	3.83 nm	0.064	3.55 nm	0.331

	Min	Max	Error
D	-	15	0.25
Guinier point	28	107	-