- PDB-3v5a: Crystal Structure of C-lobe of Bovine Lactoferrin Complexed with ... -
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基本情報
登録情報
データベース: PDB / ID: 3v5a
タイトル
Crystal Structure of C-lobe of Bovine Lactoferrin Complexed with Gamma Amino Butyric Acid at 1.44 A Resolution
要素
C-TERMINAL PEPTIDE OF LACTOTRANSFERRIN
Lactotransferrinラクトフェリン
キーワード
METAL BINDING PROTEIN / C-Lobe Of Lactoferrin / GABA / Iron binding protein
機能・相同性
機能・相同性情報
Metal sequestration by antimicrobial proteins / 抗微生物ペプチド / negative regulation of cysteine-type endopeptidase activity / negative regulation of tumor necrosis factor (ligand) superfamily member 11 production / negative regulation of single-species biofilm formation in or on host organism / positive regulation of bone mineralization involved in bone maturation / negative regulation of lipopolysaccharide-mediated signaling pathway / specific granule / negative regulation of osteoclast development / antifungal humoral response ...Metal sequestration by antimicrobial proteins / 抗微生物ペプチド / negative regulation of cysteine-type endopeptidase activity / negative regulation of tumor necrosis factor (ligand) superfamily member 11 production / negative regulation of single-species biofilm formation in or on host organism / positive regulation of bone mineralization involved in bone maturation / negative regulation of lipopolysaccharide-mediated signaling pathway / specific granule / negative regulation of osteoclast development / antifungal humoral response / positive regulation of chondrocyte proliferation / regulation of tumor necrosis factor production / bone morphogenesis / Neutrophil degranulation / cysteine-type endopeptidase inhibitor activity / positive regulation of osteoblast proliferation / 加水分解酵素; プロテアーゼ; ペプチド結合加水分解酵素; セリンエンドペプチターゼ / positive regulation of osteoblast differentiation / regulation of cytokine production / 骨化 / innate immune response in mucosa / recycling endosome / antibacterial humoral response / iron ion transport / エンドソーム / iron ion binding / signaling receptor binding / serine-type endopeptidase activity / negative regulation of apoptotic process / タンパク質分解 / extracellular space / 細胞膜 類似検索 - 分子機能
PROTEINS IN THIS STRUCTURE WERE PREPARED FROM LACTOFERRIN (RESIDUES 1-686) BY PROTEOLYSIS USING ...PROTEINS IN THIS STRUCTURE WERE PREPARED FROM LACTOFERRIN (RESIDUES 1-686) BY PROTEOLYSIS USING SERINE PROTEASE PROTEINASE K. THE ENZYME CUT PROTEIN AT 342, 676, 680 THUS PRODUCING PEPTIDES OF 1-341, 342-676, 677-680, 681-686. CYS 684 FROM THE FRAGMENT 681-686 IS COVALENTLY BONDED TO CYS 405. THIS STRUCTURE CONTAINS PEPTIDE OF 342-676 AND COVALENTLY ATTACHED PEPTIDE 681- 686. (RESIDUE NUMBERING ABOVE FOLLOWS THE COORDINATES. RESIDUES 1-686 CORRESPOND TO RESIDUES 20-705 IN UNIPROTKB/SWISSPROT P24627, TRFL_BOVIN.)
解像度: 1.44→31.83 Å / Cor.coef. Fo:Fc: 0.973 / Cor.coef. Fo:Fc free: 0.962 / 交差検証法: THROUGHOUT / σ(I): 0 / ESU R: 0.058 / ESU R Free: 0.062 / 立体化学のターゲット値: MAXIMUM LIKELIHOOD / 詳細: HYDROGENS HAVE BEEN USED IF PRESENT IN THE INPUT
Rfactor
反射数
%反射
Selection details
Rfree
0.19135
3479
5 %
RANDOM
Rwork
0.16145
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all
0.16299
69791
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obs
0.16299
65630
99.02 %
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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