- PDB-4d6i: Crystal structure of a family 98 glycoside hydrolase catalytic mo... -
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基本情報
登録情報
データベース: PDB / ID: 4d6i
タイトル
Crystal structure of a family 98 glycoside hydrolase catalytic module (Sp3GH98) in complex with the type 1 blood group A-tetrasaccharide (E558A L19 mutant)
要素
GLYCOSIDE HYDROLASE
キーワード
HYDROLASE / BLOOD GROUP ANTIGEN
機能・相同性
機能・相同性情報
family 98 glycoside hydrolase / arginine biosynthesis bifunctional protein fold / Polysaccharide lyase family 8-like, C-terminal / Chondroitinase Ac; Chain A, domain 3 / Glycosidases / TIM Barrel / Alpha-Beta Barrel / Sandwich / 2-Layer Sandwich / Mainly Beta / Alpha Beta 類似検索 - ドメイン・相同性
SHEET DETERMINATION METHOD: DSSP THE SHEETS PRESENTED AS "AA" IN EACH CHAIN ON SHEET RECORDS BELOW ... SHEET DETERMINATION METHOD: DSSP THE SHEETS PRESENTED AS "AA" IN EACH CHAIN ON SHEET RECORDS BELOW IS ACTUALLY AN 8-STRANDED BARREL THIS IS REPRESENTED BY A 9-STRANDED SHEET IN WHICH THE FIRST AND LAST STRANDS ARE IDENTICAL.
BETA-D-GALACTOSE (GAL): PART OF THE BLOOD GROUP A-TETRASACCHARIDE SUBSTRATE. ALPHA-L-FUCOSE (FUC): ...BETA-D-GALACTOSE (GAL): PART OF THE BLOOD GROUP A-TETRASACCHARIDE SUBSTRATE. ALPHA-L-FUCOSE (FUC): PART OF THE BLOOD GROUP A-TETRASACCHARIDE SUBSTRATE. N-ACETYL-2-DEOXY-2-AMINO-GALACTOSE (A2G): PART OF THE BLOOD GROUP A-TETRASACCHARIDE SUBSTRATE. N-ACETYL-D-GLUCOSAMINE (NAG): PART OF THE BLOOD GROUP A-TETRASACCHARIDE SUBSTRATE.
解像度: 1.99→29.95 Å / Cor.coef. Fo:Fc: 0.955 / Cor.coef. Fo:Fc free: 0.932 / SU B: 3.164 / SU ML: 0.089 / 交差検証法: THROUGHOUT / ESU R: 0.16 / 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
0.20572
2403
5.1 %
RANDOM
Rwork
0.16032
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obs
0.16258
45094
99.21 %
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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: 1.4 Å / 溶媒モデル: MASK