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3bdj

Crystal Structure of Bovine Milk Xanthine Dehydrogenase with a Covalently Bound Oxipurinol Inhibitor

Method: X-RAY DIFFRACTION
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1. 蛋白身份与相关结构 Protein Identity & Related Structures

Xanthine dehydrogenase/oxidase

物种未注明

UniProt P80457

当前结构中的状态

Assembly 物理组成 蛋白状态 分子拷贝数 共同组分 数据核对
1 蛋白同源多聚体 同源多聚体 蛋白 2 CALCIUM ION × 2 FE2/S2 (INORGANIC) CLUSTER × 4 PHOSPHONIC ACIDMONO-(2-AMINO-5,6-DIMERCAPTO-4-OXO-3,7,8A,9,10,10A-HEXAHYDRO-4H-8-OXA-1,3,9,10-TETRAAZA-ANTHRACEN-7-YLMETHYL)ESTER × 2 Oxo(sulfanyl)molybdenum(IV) ION × 2 FLAVIN-ADENINE DINUCLEOTIDE × 2 Oxypurinol × 2 GLYCEROL × 7 CARBONATE ION × 2 water × 2 与蛋白数一致

数据库中的同蛋白其他状态

单体

暂无

同源二聚体
1fo4 1n5x 1v97 1vdv 3am9 3amz 3ax7 3ax9 3bdj 3una 3unc 3uni

共 13 个 assembly，这里只显示前 12 个

同源四聚体

暂无

其他同源多聚体
1fiq 3b9j 3b9j 3etr 3etr 3etr 3eub 3eub 3nrz 3ns1 3nvv 3nvw

共 15 个 assembly，这里只显示前 12 个

异源或核酸复合物

暂无

查看构建体与数据证据
UniProt名称 XDH_BOVIN
Isoform —
PDB实体 1
链与序列区间 作者链 A； PDB构建体 1–1332； UniProt 1–1332 作者链 B； PDB构建体 1–1332； UniProt 1–1332

页面优先展示蛋白身份、当前 assembly、共同组分、聚集状态和跨 PDB 结构链接。 链映射与序列区间收在“数据证据”中；数据库内部编号、导入时间和 assembly 操作表达式仅用于维护，因此不在读者页面展示。

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2. 结构基本信息 2. Structure Basics

条目编号 entry_id3bdj
沉积日期 deposition_date2007-11-14
结构标题 titleCrystal Structure of Bovine Milk Xanthine Dehydrogenase with a Covalently Bound Oxipurinol Inhibitor
关键词 keywords;OXYPURINOL, OXIPURINOL, ALLOXANTHINE, ALLOPURINOL, COVALENTLY BOUND INHIBITOR, XANTHINE OXIDASE, XANTHINE OXIDOREDUCTASE, XANTHINE DEHYDROGENASE, FAD, FLAVOPROTEIN, IRON-SULFUR, MOLYBDOPTERIN, PEROXISOME, OXIDOREDUCTASE ;; OXIDOREDUCTASE
实验方法 methodX-RAY DIFFRACTION
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3. Official assembly/model 理论 SAXS Official SAXS Profiles

页面只读取最新 assembly 计算结果。每一条曲线都对应明确的 PDB、official biological assembly 和 coordinate model。

3bdj__assembly_1__model_1

Assembly 1 · Model 1 · CRYSOL 4.1.3-1-20251215 (887e7ef)

下载该曲线 .dat

3bdj__assembly_1__model_1 | I(q)

10-2 10-1 106 107 108 109 q (1/Angstrom) I(q)
100 个绘图点；横轴和纵轴均采用对数尺度。

3bdj__assembly_1__model_1 | P(r) · Pending

新版 assembly/model P(r) 尚未计算 此处仅保留位置，不展示旧数据 r (Angstrom) P(r)
P(r) 将按相同 assembly/model 分别计算和展示。
Rg（Guinier）44.86 Å
Rg（电子密度）45.16 Å
总 Rg45.22 Å
原子数20232
残基数2572
排除体积361310 ų
最大 q0.500 Å⁻¹
Assembly Model 结构单元 聚集说明 状态 CRYSOL 操作
1 1 3bdj__assembly_1__model_1 dimeric （2） 成功 4.1.3-1-20251215 (887e7ef) 查看 下载
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4. 晶体学与实验 4. Crystallography & Experiment

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5. 实体与聚合物信息 Entities & Polymers (10)

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6. 折叠分类 (SCOP + CATH) 12 domains

SCOP 2.08 (12 domains)

结构域编号 domain_idd3bdja1
类 Class classd — Alpha and beta proteins (a+b)
折叠类型 Fold foldd.15 — beta-Grasp (ubiquitin-like)
超家族 Superfamily superfamilyd.15.4 — 2Fe-2S ferredoxin-like
家族 Family familyd.15.4.2 — 2Fe-2S ferredoxin domains from multidomain proteins
结构域编号 domain_idd3bdja2
类 Class classa — All alpha proteins
折叠类型 Fold folda.56 — CO dehydrogenase ISP C-domain like
超家族 Superfamily superfamilya.56.1 — CO dehydrogenase ISP C-domain like
家族 Family familya.56.1.1 — CO dehydrogenase ISP C-domain like
结构域编号 domain_idd3bdja3
类 Class classd — Alpha and beta proteins (a+b)
折叠类型 Fold foldd.145 — FAD-binding/transporter-associated domain-like
超家族 Superfamily superfamilyd.145.1 — FAD-binding/transporter-associated domain-like
家族 Family familyd.145.1.3 — CO dehydrogenase flavoprotein N-terminal domain-like
结构域编号 domain_idd3bdja4
类 Class classd — Alpha and beta proteins (a+b)
折叠类型 Fold foldd.87 — CO dehydrogenase flavoprotein C-domain-like
超家族 Superfamily superfamilyd.87.2 — CO dehydrogenase flavoprotein C-terminal domain-like
家族 Family familyd.87.2.1 — CO dehydrogenase flavoprotein C-terminal domain-like
结构域编号 domain_idd3bdja5
类 Class classd — Alpha and beta proteins (a+b)
折叠类型 Fold foldd.41 — alpha/beta-Hammerhead
超家族 Superfamily superfamilyd.41.1 — CO dehydrogenase molybdoprotein N-domain-like
家族 Family familyd.41.1.1 — CO dehydrogenase molybdoprotein N-domain-like
结构域编号 domain_idd3bdja6
类 Class classd — Alpha and beta proteins (a+b)
折叠类型 Fold foldd.133 — Molybdenum cofactor-binding domain
超家族 Superfamily superfamilyd.133.1 — Molybdenum cofactor-binding domain
家族 Family familyd.133.1.1 — Molybdenum cofactor-binding domain
结构域编号 domain_idd3bdjb1
类 Class classd — Alpha and beta proteins (a+b)
折叠类型 Fold foldd.15 — beta-Grasp (ubiquitin-like)
超家族 Superfamily superfamilyd.15.4 — 2Fe-2S ferredoxin-like
家族 Family familyd.15.4.2 — 2Fe-2S ferredoxin domains from multidomain proteins
结构域编号 domain_idd3bdjb2
类 Class classa — All alpha proteins
折叠类型 Fold folda.56 — CO dehydrogenase ISP C-domain like
超家族 Superfamily superfamilya.56.1 — CO dehydrogenase ISP C-domain like
家族 Family familya.56.1.1 — CO dehydrogenase ISP C-domain like
结构域编号 domain_idd3bdjb3
类 Class classd — Alpha and beta proteins (a+b)
折叠类型 Fold foldd.145 — FAD-binding/transporter-associated domain-like
超家族 Superfamily superfamilyd.145.1 — FAD-binding/transporter-associated domain-like
家族 Family familyd.145.1.3 — CO dehydrogenase flavoprotein N-terminal domain-like
结构域编号 domain_idd3bdjb4
类 Class classd — Alpha and beta proteins (a+b)
折叠类型 Fold foldd.87 — CO dehydrogenase flavoprotein C-domain-like
超家族 Superfamily superfamilyd.87.2 — CO dehydrogenase flavoprotein C-terminal domain-like
家族 Family familyd.87.2.1 — CO dehydrogenase flavoprotein C-terminal domain-like
结构域编号 domain_idd3bdjb5
类 Class classd — Alpha and beta proteins (a+b)
折叠类型 Fold foldd.41 — alpha/beta-Hammerhead
超家族 Superfamily superfamilyd.41.1 — CO dehydrogenase molybdoprotein N-domain-like
家族 Family familyd.41.1.1 — CO dehydrogenase molybdoprotein N-domain-like
结构域编号 domain_idd3bdjb6
类 Class classd — Alpha and beta proteins (a+b)
折叠类型 Fold foldd.133 — Molybdenum cofactor-binding domain
超家族 Superfamily superfamilyd.133.1 — Molybdenum cofactor-binding domain
家族 Family familyd.133.1.1 — Molybdenum cofactor-binding domain
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7. 引用文献 (5)