1u8r

Crystal Structure of an IdeR-DNA Complex Reveals a Conformational Change in Activated IdeR for Base-specific Interactions

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

Iron-dependent repressor ideR

Mycobacterium tuberculosis

UniProt P0A672

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–DNA 同源多聚体 蛋白 4 DNA 2 mbtA operator DNA × 1 mbtB operator DNA × 1 COBALT (II) ION × 12 SODIUM ION × 4 water × 6 与全部聚合物一致
2 蛋白–DNA 同源多聚体 蛋白 4 DNA 2 mbtA operator DNA × 1 mbtB operator DNA × 1 COBALT (II) ION × 12 SODIUM ION × 4 water × 6 与全部聚合物一致

数据库中的同蛋白其他状态

查看构建体与数据证据
UniProt名称 IDER_MYCTU
Isoform —
PDB实体 3
链与序列区间 作者链 A; PDB构建体 1–230; UniProt 1–230 作者链 B; PDB构建体 1–230; UniProt 1–230 作者链 C; PDB构建体 1–230; UniProt 1–230 作者链 D; PDB构建体 1–230; UniProt 1–230 作者链 G; PDB构建体 1–230; UniProt 1–230 作者链 H; PDB构建体 1–230; UniProt 1–230 作者链 I; PDB构建体 1–230; UniProt 1–230 作者链 J; PDB构建体 1–230; UniProt 1–230

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_id1u8r
沉积日期 deposition_date2004-08-06
结构标题 titleCrystal Structure of an IdeR-DNA Complex Reveals a Conformational Change in Activated IdeR for Base-specific Interactions
关键词 keywords;IdeR, iron-dependent regulator, iron acquisition, siderophores, Mycobacterium tuberculosis, metal-binding protein, Transcription-DNA COMPLEX ;; metal-binding protein,Transcription/DNA
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。

1u8r__assembly_1__model_1

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

下载该曲线 .dat

1u8r__assembly_1__model_1 | I(q)

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

1u8r__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)36.81 Å
Rg(电子密度)37.33 Å
总 Rg37.47 Å
原子数8207
残基数950
排除体积142080 ų
最大 q0.500 Å⁻¹
Assembly Model 结构单元 聚集说明 状态 CRYSOL 操作
1 1 1u8r__assembly_1__model_1 hexameric (6) 成功 4.1.3-1-20251215 (887e7ef) 查看 下载
2 1 1u8r__assembly_2__model_1 hexameric (6) 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 (6)

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6. 折叠分类 (SCOP + CATH) 48 domains

SCOP 2.08 (24 domains)

结构域编号 domain_idd1u8ra1
类 Class classa — All alpha proteins
折叠类型 Fold folda.4 — DNA/RNA-binding 3-helical bundle
超家族 Superfamily superfamilya.4.5 — 'Winged helix' DNA-binding domain
家族 Family familya.4.5.24 — Iron-dependent repressor protein
结构域编号 domain_idd1u8ra2
类 Class classa — All alpha proteins
折叠类型 Fold folda.76 — Iron-dependent repressor protein, dimerization domain
超家族 Superfamily superfamilya.76.1 — Iron-dependent repressor protein, dimerization domain
家族 Family familya.76.1.1 — Iron-dependent repressor protein, dimerization domain
结构域编号 domain_idd1u8ra3
类 Class classb — All beta proteins
折叠类型 Fold foldb.34 — SH3-like barrel
超家族 Superfamily superfamilyb.34.1 — C-terminal domain of transcriptional repressors
家族 Family familyb.34.1.2 — FeoA-like
结构域编号 domain_idd1u8rb1
类 Class classa — All alpha proteins
折叠类型 Fold folda.4 — DNA/RNA-binding 3-helical bundle
超家族 Superfamily superfamilya.4.5 — 'Winged helix' DNA-binding domain
家族 Family familya.4.5.24 — Iron-dependent repressor protein
结构域编号 domain_idd1u8rb2
类 Class classa — All alpha proteins
折叠类型 Fold folda.76 — Iron-dependent repressor protein, dimerization domain
超家族 Superfamily superfamilya.76.1 — Iron-dependent repressor protein, dimerization domain
家族 Family familya.76.1.1 — Iron-dependent repressor protein, dimerization domain
结构域编号 domain_idd1u8rb3
类 Class classb — All beta proteins
折叠类型 Fold foldb.34 — SH3-like barrel
超家族 Superfamily superfamilyb.34.1 — C-terminal domain of transcriptional repressors
家族 Family familyb.34.1.2 — FeoA-like
结构域编号 domain_idd1u8rc1
类 Class classa — All alpha proteins
折叠类型 Fold folda.4 — DNA/RNA-binding 3-helical bundle
超家族 Superfamily superfamilya.4.5 — 'Winged helix' DNA-binding domain
家族 Family familya.4.5.24 — Iron-dependent repressor protein
结构域编号 domain_idd1u8rc2
类 Class classa — All alpha proteins
折叠类型 Fold folda.76 — Iron-dependent repressor protein, dimerization domain
超家族 Superfamily superfamilya.76.1 — Iron-dependent repressor protein, dimerization domain
家族 Family familya.76.1.1 — Iron-dependent repressor protein, dimerization domain
结构域编号 domain_idd1u8rc3
类 Class classb — All beta proteins
折叠类型 Fold foldb.34 — SH3-like barrel
超家族 Superfamily superfamilyb.34.1 — C-terminal domain of transcriptional repressors
家族 Family familyb.34.1.2 — FeoA-like
结构域编号 domain_idd1u8rd1
类 Class classa — All alpha proteins
折叠类型 Fold folda.4 — DNA/RNA-binding 3-helical bundle
超家族 Superfamily superfamilya.4.5 — 'Winged helix' DNA-binding domain
家族 Family familya.4.5.24 — Iron-dependent repressor protein
结构域编号 domain_idd1u8rd2
类 Class classa — All alpha proteins
折叠类型 Fold folda.76 — Iron-dependent repressor protein, dimerization domain
超家族 Superfamily superfamilya.76.1 — Iron-dependent repressor protein, dimerization domain
家族 Family familya.76.1.1 — Iron-dependent repressor protein, dimerization domain
结构域编号 domain_idd1u8rd3
类 Class classb — All beta proteins
折叠类型 Fold foldb.34 — SH3-like barrel
超家族 Superfamily superfamilyb.34.1 — C-terminal domain of transcriptional repressors
家族 Family familyb.34.1.2 — FeoA-like
结构域编号 domain_idd1u8rg1
类 Class classa — All alpha proteins
折叠类型 Fold folda.4 — DNA/RNA-binding 3-helical bundle
超家族 Superfamily superfamilya.4.5 — 'Winged helix' DNA-binding domain
家族 Family familya.4.5.24 — Iron-dependent repressor protein
结构域编号 domain_idd1u8rg2
类 Class classa — All alpha proteins
折叠类型 Fold folda.76 — Iron-dependent repressor protein, dimerization domain
超家族 Superfamily superfamilya.76.1 — Iron-dependent repressor protein, dimerization domain
家族 Family familya.76.1.1 — Iron-dependent repressor protein, dimerization domain
结构域编号 domain_idd1u8rg3
类 Class classb — All beta proteins
折叠类型 Fold foldb.34 — SH3-like barrel
超家族 Superfamily superfamilyb.34.1 — C-terminal domain of transcriptional repressors
家族 Family familyb.34.1.2 — FeoA-like
结构域编号 domain_idd1u8rh1
类 Class classa — All alpha proteins
折叠类型 Fold folda.4 — DNA/RNA-binding 3-helical bundle
超家族 Superfamily superfamilya.4.5 — 'Winged helix' DNA-binding domain
家族 Family familya.4.5.24 — Iron-dependent repressor protein
结构域编号 domain_idd1u8rh2
类 Class classa — All alpha proteins
折叠类型 Fold folda.76 — Iron-dependent repressor protein, dimerization domain
超家族 Superfamily superfamilya.76.1 — Iron-dependent repressor protein, dimerization domain
家族 Family familya.76.1.1 — Iron-dependent repressor protein, dimerization domain
结构域编号 domain_idd1u8rh3
类 Class classb — All beta proteins
折叠类型 Fold foldb.34 — SH3-like barrel
超家族 Superfamily superfamilyb.34.1 — C-terminal domain of transcriptional repressors
家族 Family familyb.34.1.2 — FeoA-like
结构域编号 domain_idd1u8ri1
类 Class classa — All alpha proteins
折叠类型 Fold folda.4 — DNA/RNA-binding 3-helical bundle
超家族 Superfamily superfamilya.4.5 — 'Winged helix' DNA-binding domain
家族 Family familya.4.5.24 — Iron-dependent repressor protein
结构域编号 domain_idd1u8ri2
类 Class classa — All alpha proteins
折叠类型 Fold folda.76 — Iron-dependent repressor protein, dimerization domain
超家族 Superfamily superfamilya.76.1 — Iron-dependent repressor protein, dimerization domain
家族 Family familya.76.1.1 — Iron-dependent repressor protein, dimerization domain
结构域编号 domain_idd1u8ri3
类 Class classb — All beta proteins
折叠类型 Fold foldb.34 — SH3-like barrel
超家族 Superfamily superfamilyb.34.1 — C-terminal domain of transcriptional repressors
家族 Family familyb.34.1.2 — FeoA-like
结构域编号 domain_idd1u8rj1
类 Class classa — All alpha proteins
折叠类型 Fold folda.4 — DNA/RNA-binding 3-helical bundle
超家族 Superfamily superfamilya.4.5 — 'Winged helix' DNA-binding domain
家族 Family familya.4.5.24 — Iron-dependent repressor protein
结构域编号 domain_idd1u8rj2
类 Class classa — All alpha proteins
折叠类型 Fold folda.76 — Iron-dependent repressor protein, dimerization domain
超家族 Superfamily superfamilya.76.1 — Iron-dependent repressor protein, dimerization domain
家族 Family familya.76.1.1 — Iron-dependent repressor protein, dimerization domain
结构域编号 domain_idd1u8rj3
类 Class classb — All beta proteins
折叠类型 Fold foldb.34 — SH3-like barrel
超家族 Superfamily superfamilyb.34.1 — C-terminal domain of transcriptional repressors
家族 Family familyb.34.1.2 — FeoA-like

CATH v4.4 (24 domains)

结构域编号 domain_id1u8rA01
类 Class class1 — Mainly Alpha
架构 Architecture architecture10 — Orthogonal Bundle
拓扑 Topology topology10 — Arc Repressor Mutant, subunit A
同源超家族 H-superfamily homologous superfamily10 — Winged helix-like DNA-binding domain superfamily/Winged helix DNA-binding domain
结构域编号 domain_id1u8rA02
类 Class class1 — Mainly Alpha
架构 Architecture architecture10 — Orthogonal Bundle
拓扑 Topology topology60 — Diphtheria Toxin Repressor; domain 2
同源超家族 H-superfamily homologous superfamily10 — Iron dependent repressor, metal binding and dimerisation domain
结构域编号 domain_id1u8rA03
类 Class class2 — Mainly Beta
架构 Architecture architecture30 — Roll
拓扑 Topology topology30 — SH3 type barrels.
同源超家族 H-superfamily homologous superfamily90 — Ferrous iron transport protein A (FeoA)
结构域编号 domain_id1u8rB01
类 Class class1 — Mainly Alpha
架构 Architecture architecture10 — Orthogonal Bundle
拓扑 Topology topology10 — Arc Repressor Mutant, subunit A
同源超家族 H-superfamily homologous superfamily10 — Winged helix-like DNA-binding domain superfamily/Winged helix DNA-binding domain
结构域编号 domain_id1u8rB02
类 Class class1 — Mainly Alpha
架构 Architecture architecture10 — Orthogonal Bundle
拓扑 Topology topology60 — Diphtheria Toxin Repressor; domain 2
同源超家族 H-superfamily homologous superfamily10 — Iron dependent repressor, metal binding and dimerisation domain
结构域编号 domain_id1u8rB03
类 Class class2 — Mainly Beta
架构 Architecture architecture30 — Roll
拓扑 Topology topology30 — SH3 type barrels.
同源超家族 H-superfamily homologous superfamily90 — Ferrous iron transport protein A (FeoA)
结构域编号 domain_id1u8rC01
类 Class class1 — Mainly Alpha
架构 Architecture architecture10 — Orthogonal Bundle
拓扑 Topology topology10 — Arc Repressor Mutant, subunit A
同源超家族 H-superfamily homologous superfamily10 — Winged helix-like DNA-binding domain superfamily/Winged helix DNA-binding domain
结构域编号 domain_id1u8rC02
类 Class class1 — Mainly Alpha
架构 Architecture architecture10 — Orthogonal Bundle
拓扑 Topology topology60 — Diphtheria Toxin Repressor; domain 2
同源超家族 H-superfamily homologous superfamily10 — Iron dependent repressor, metal binding and dimerisation domain
结构域编号 domain_id1u8rC03
类 Class class2 — Mainly Beta
架构 Architecture architecture30 — Roll
拓扑 Topology topology30 — SH3 type barrels.
同源超家族 H-superfamily homologous superfamily90 — Ferrous iron transport protein A (FeoA)
结构域编号 domain_id1u8rD01
类 Class class1 — Mainly Alpha
架构 Architecture architecture10 — Orthogonal Bundle
拓扑 Topology topology10 — Arc Repressor Mutant, subunit A
同源超家族 H-superfamily homologous superfamily10 — Winged helix-like DNA-binding domain superfamily/Winged helix DNA-binding domain
结构域编号 domain_id1u8rD02
类 Class class1 — Mainly Alpha
架构 Architecture architecture10 — Orthogonal Bundle
拓扑 Topology topology60 — Diphtheria Toxin Repressor; domain 2
同源超家族 H-superfamily homologous superfamily10 — Iron dependent repressor, metal binding and dimerisation domain
结构域编号 domain_id1u8rD03
类 Class class2 — Mainly Beta
架构 Architecture architecture30 — Roll
拓扑 Topology topology30 — SH3 type barrels.
同源超家族 H-superfamily homologous superfamily90 — Ferrous iron transport protein A (FeoA)
结构域编号 domain_id1u8rG01
类 Class class1 — Mainly Alpha
架构 Architecture architecture10 — Orthogonal Bundle
拓扑 Topology topology10 — Arc Repressor Mutant, subunit A
同源超家族 H-superfamily homologous superfamily10 — Winged helix-like DNA-binding domain superfamily/Winged helix DNA-binding domain
结构域编号 domain_id1u8rG02
类 Class class1 — Mainly Alpha
架构 Architecture architecture10 — Orthogonal Bundle
拓扑 Topology topology60 — Diphtheria Toxin Repressor; domain 2
同源超家族 H-superfamily homologous superfamily10 — Iron dependent repressor, metal binding and dimerisation domain
结构域编号 domain_id1u8rG03
类 Class class2 — Mainly Beta
架构 Architecture architecture30 — Roll
拓扑 Topology topology30 — SH3 type barrels.
同源超家族 H-superfamily homologous superfamily90 — Ferrous iron transport protein A (FeoA)
结构域编号 domain_id1u8rH01
类 Class class1 — Mainly Alpha
架构 Architecture architecture10 — Orthogonal Bundle
拓扑 Topology topology10 — Arc Repressor Mutant, subunit A
同源超家族 H-superfamily homologous superfamily10 — Winged helix-like DNA-binding domain superfamily/Winged helix DNA-binding domain
结构域编号 domain_id1u8rH02
类 Class class1 — Mainly Alpha
架构 Architecture architecture10 — Orthogonal Bundle
拓扑 Topology topology60 — Diphtheria Toxin Repressor; domain 2
同源超家族 H-superfamily homologous superfamily10 — Iron dependent repressor, metal binding and dimerisation domain
结构域编号 domain_id1u8rH03
类 Class class2 — Mainly Beta
架构 Architecture architecture30 — Roll
拓扑 Topology topology30 — SH3 type barrels.
同源超家族 H-superfamily homologous superfamily90 — Ferrous iron transport protein A (FeoA)
结构域编号 domain_id1u8rI01
类 Class class1 — Mainly Alpha
架构 Architecture architecture10 — Orthogonal Bundle
拓扑 Topology topology10 — Arc Repressor Mutant, subunit A
同源超家族 H-superfamily homologous superfamily10 — Winged helix-like DNA-binding domain superfamily/Winged helix DNA-binding domain
结构域编号 domain_id1u8rI02
类 Class class1 — Mainly Alpha
架构 Architecture architecture10 — Orthogonal Bundle
拓扑 Topology topology60 — Diphtheria Toxin Repressor; domain 2
同源超家族 H-superfamily homologous superfamily10 — Iron dependent repressor, metal binding and dimerisation domain
结构域编号 domain_id1u8rI03
类 Class class2 — Mainly Beta
架构 Architecture architecture30 — Roll
拓扑 Topology topology30 — SH3 type barrels.
同源超家族 H-superfamily homologous superfamily90 — Ferrous iron transport protein A (FeoA)
结构域编号 domain_id1u8rJ01
类 Class class1 — Mainly Alpha
架构 Architecture architecture10 — Orthogonal Bundle
拓扑 Topology topology10 — Arc Repressor Mutant, subunit A
同源超家族 H-superfamily homologous superfamily10 — Winged helix-like DNA-binding domain superfamily/Winged helix DNA-binding domain
结构域编号 domain_id1u8rJ02
类 Class class1 — Mainly Alpha
架构 Architecture architecture10 — Orthogonal Bundle
拓扑 Topology topology60 — Diphtheria Toxin Repressor; domain 2
同源超家族 H-superfamily homologous superfamily10 — Iron dependent repressor, metal binding and dimerisation domain
结构域编号 domain_id1u8rJ03
类 Class class2 — Mainly Beta
架构 Architecture architecture30 — Roll
拓扑 Topology topology30 — SH3 type barrels.
同源超家族 H-superfamily homologous superfamily90 — Ferrous iron transport protein A (FeoA)
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7. 引用文献 (1)