- PDB-6cst: Structure of human DNA polymerase kappa with DNA -
+
データを開く
IDまたはキーワード:
読み込み中...
-
基本情報
登録情報
データベース: PDB / ID: 6cst
タイトル
Structure of human DNA polymerase kappa with DNA
要素
DNA (5'-D(P*AP*TP*AP*CP*AP*TP*AP*CP*C)-3')
DNA (5'-D(P*TP*AP*CP*TP*GP*GP*TP*AP*TP*GP*TP*AP*T)-3')
DNA polymerase kappa
キーワード
REPLICATION / TRANSFERASE/DNA / DNA polymerase kappa / translesion synthesis / DNA replication / TRANSFERASE-DNA complex
機能・相同性
機能・相同性情報
nucleotide-excision repair, DNA gap filling / error-prone translesion synthesis / Translesion synthesis by POLK / Gap-filling DNA repair synthesis and ligation in GG-NER / Termination of translesion DNA synthesis / HDR through Homologous Recombination (HRR) / Dual Incision in GG-NER / Dual incision in TC-NER / Gap-filling DNA repair synthesis and ligation in TC-NER / cellular response to UV ...nucleotide-excision repair, DNA gap filling / error-prone translesion synthesis / Translesion synthesis by POLK / Gap-filling DNA repair synthesis and ligation in GG-NER / Termination of translesion DNA synthesis / HDR through Homologous Recombination (HRR) / Dual Incision in GG-NER / Dual incision in TC-NER / Gap-filling DNA repair synthesis and ligation in TC-NER / cellular response to UV / DNA replication / damaged DNA binding / DNA-directed DNA polymerase / DNA-directed DNA polymerase activity / nuclear body / DNA repair / DNA damage response / nucleoplasm / nucleus / metal ion binding / cytosol 類似検索 - 分子機能
DNA polymerase; domain 1 - #810 / Rad18-like CCHC zinc finger / DNA polymerase type-Y, HhH motif / IMS family HHH motif / DNA polymerase IV / DNA polymerase, Y-family, little finger domain / MutS, DNA mismatch repair protein, domain I - #60 / Rad18, zinc finger UBZ4-type / Zinc finger UBZ4-type profile. / MutS, DNA mismatch repair protein, domain I ...DNA polymerase; domain 1 - #810 / Rad18-like CCHC zinc finger / DNA polymerase type-Y, HhH motif / IMS family HHH motif / DNA polymerase IV / DNA polymerase, Y-family, little finger domain / MutS, DNA mismatch repair protein, domain I - #60 / Rad18, zinc finger UBZ4-type / Zinc finger UBZ4-type profile. / MutS, DNA mismatch repair protein, domain I / DNA polymerase, Y-family, little finger domain / impB/mucB/samB family C-terminal domain / UmuC domain / DNA polymerase, Y-family, little finger domain superfamily / impB/mucB/samB family / UmuC domain profile. / Reverse transcriptase/Diguanylate cyclase domain / Dna Ligase; domain 1 / DNA polymerase; domain 1 / Reverse transcriptase/Diguanylate cyclase domain / Alpha-Beta Plaits / DNA/RNA polymerase superfamily / 2-Layer Sandwich / Orthogonal Bundle / 3-Layer(aba) Sandwich / Mainly Alpha / Alpha Beta 類似検索 - ドメイン・相同性
Chem-DZ4 / IODIDE ION / : / DI(HYDROXYETHYL)ETHER / TRIETHYLENE GLYCOL / DNA / DNA (> 10) / DNA polymerase kappa 類似検索 - 構成要素
ジャーナル: Sci Rep / 年: 2018 タイトル: 2.0 angstrom resolution crystal structure of human pol kappa reveals a new catalytic function of N-clasp in DNA replication. 著者: Jha, V. / Ling, H.
A: DNA polymerase kappa B: DNA polymerase kappa C: DNA (5'-D(P*AP*TP*AP*CP*AP*TP*AP*CP*C)-3') D: DNA (5'-D(P*TP*AP*CP*TP*GP*GP*TP*AP*TP*GP*TP*AP*T)-3') P: DNA (5'-D(P*AP*TP*AP*CP*AP*TP*AP*CP*C)-3') T: DNA (5'-D(P*TP*AP*CP*TP*GP*GP*TP*AP*TP*GP*TP*AP*T)-3') ヘテロ分子
解像度: 2→2.11 Å / 冗長度: 4.7 % / Rmerge(I) obs: 0.55 / Mean I/σ(I) obs: 2.8 / Num. unique obs: 13313 / CC1/2: 0.88 / % possible all: 97.4
-
解析
ソフトウェア
名称
バージョン
分類
REFMAC
5.8.0135
精密化
iMOSFLM
データ削減
SCALA
データスケーリング
PHASER
位相決定
精密化
解像度: 2→44.14 Å / Cor.coef. Fo:Fc: 0.957 / Cor.coef. Fo:Fc free: 0.937 / SU B: 4.796 / SU ML: 0.127 / 交差検証法: THROUGHOUT / ESU R: 0.156 / ESU R Free: 0.146 / 立体化学のターゲット値: MAXIMUM LIKELIHOOD / 詳細: HYDROGENS HAVE BEEN ADDED IN THE RIDING POSITIONS
Rfactor
反射数
%反射
Selection details
Rfree
0.23416
2327
2.5 %
RANDOM
Rwork
0.19833
-
-
-
obs
0.19923
90700
98.05 %
-
溶媒の処理
イオンプローブ半径: 0.8 Å / 減衰半径: 0.8 Å / VDWプローブ半径: 1.2 Å / 溶媒モデル: MASK