2eba

Crystal structure of the putative glutaryl-CoA dehydrogenase from thermus thermophilus

Method: X-RAY DIFFRACTION

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1. 蛋白身份与相关结构 Protein Identity & Related Structures

Putative glutaryl-CoA dehydrogenase

Thermus thermophilus

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 4	FLAVIN-ADENINE DINUCLEOTIDE × 4 water × 4	与蛋白数一致
2	蛋白同源多聚体	同源多聚体	蛋白 4	FLAVIN-ADENINE DINUCLEOTIDE × 4 water × 4	与蛋白数一致

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	Q5SK63_THET8
Isoform	—
PDB实体	1
链与序列区间	作者链 A； PDB构建体 1–385； UniProt 1–385 作者链 C； PDB构建体 1–385； UniProt 1–385 作者链 D； PDB构建体 1–385； UniProt 1–385 作者链 E； PDB构建体 1–385； UniProt 1–385 作者链 F； PDB构建体 1–385； UniProt 1–385 作者链 G； PDB构建体 1–385； UniProt 1–385 作者链 H； PDB构建体 1–385； UniProt 1–385 作者链 I； PDB构建体 1–385； UniProt 1–385

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_id	2eba
沉积日期 deposition_date	2007-02-07
结构标题 title	Crystal structure of the putative glutaryl-CoA dehydrogenase from thermus thermophilus
关键词 keywords	;glutaryl-CoA dehydrogenase, thermus thermophilius, FAD, Structural Genomics, NPPSFA, National Project on Protein Structural and Functional Analyses, RIKEN Structural Genomics/Proteomics Initiative, RSGI, OXIDOREDUCTASE ;; OXIDOREDUCTASE
实验方法 method	X-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。

2eba__assembly_1__model_1

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

下载该曲线 .dat

2eba__assembly_1__model_1 | I(q)

100 个绘图点；横轴和纵轴均采用对数尺度。

2eba__assembly_1__model_1 | P(r) · Pending

P(r) 将按相同 assembly/model 分别计算和展示。

Rg（Guinier）	34.70 Å
Rg（电子密度）	33.99 Å
总 Rg	34.47 Å
原子数	12156
残基数	1520
排除体积	217230 Å³
最大 q	0.500 Å⁻¹

Assembly	Model	结构单元	聚集说明	状态	CRYSOL	操作
1	1	`2eba__assembly_1__model_1`	tetrameric （4）	成功	4.1.3-1-20251215 (887e7ef)	查看下载
2	1	`2eba__assembly_2__model_1`	tetrameric （4）	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 (3)

实体 1 Entity 1 polymer

描述 description	Putative glutaryl-CoA dehydrogenase
分子量 formula_weight	42834.2 kDa
EC 编号 ec_number	1.3.99.7
来源方法 src_method	man
拷贝数 entity_count	8

聚合物 Polymer

聚合物类型 type	polypeptide(L)
链编号 strand_id	A,C,D,E,F,G,H,I
原子数 atom_count	24912

MLDFYALEDLLTPEEKEVQKAARRFLEKEALPHIRDWWEEGVFPTHLIPRFAELGFLGPTLPPEYGGAGVSSAAYGLICYELERVDSGLRSFVSVQSSLVMYPIYAYGSEEQKREFLPKLARGEMVGCFGLTEPDGGSDPYGNMKTRARREGDTWVLNGTKMWITNGNLAHLAVIWAKDEGGEVLGFLVPTDTPGFQAREVKRKMSLRASVTSELVLEEVRVPESLRLPKALGLKAPLSCLTQARFGIAWGAMGALEAVYEEAVAFAKSRSTFGEPLAKKQLVQAKLAEMLAWHTEGLLLAWRLARLKDEGKLTPAQVSLAKRQNVWKALQAARMARDILGGSGITLEYHAIRHMLNLETVYTYEGTHDVHTLVLGREITGLNAF

来源 Source

来源生物 organism	Thermus thermophilus
NCBI 分类编号 ncbi_taxonomy_id	300852
宿主生物 host_organism	Escherichia coli BL21(DE3)

实体 2 Entity 2 non-polymer

描述 description	FLAVIN-ADENINE DINUCLEOTIDE
分子量 formula_weight	785.5 kDa
来源方法 src_method	syn
拷贝数 entity_count	8

实体 3 Entity 3 water

描述 description	water
分子量 formula_weight	18.0 kDa
来源方法 src_method	nat
拷贝数 entity_count	600

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6. 折叠分类 (SCOP + CATH) 40 domains

SCOP 2.08 (16 domains)

结构域编号 domain_id	d2ebaa1
类 Class class	e — Multi-domain proteins (alpha and beta)
折叠类型 Fold fold	e.6 — Acyl-CoA dehydrogenase NM domain-like
超家族 Superfamily superfamily	e.6.1 — Acyl-CoA dehydrogenase NM domain-like
家族 Family family	e.6.1.0 — automated matches

结构域编号 domain_id	d2ebaa2
类 Class class	a — All alpha proteins
折叠类型 Fold fold	a.29 — Bromodomain-like
超家族 Superfamily superfamily	a.29.3 — Acyl-CoA dehydrogenase C-terminal domain-like
家族 Family family	a.29.3.0 — automated matches

结构域编号 domain_id	d2ebac1
类 Class class	e — Multi-domain proteins (alpha and beta)
折叠类型 Fold fold	e.6 — Acyl-CoA dehydrogenase NM domain-like
超家族 Superfamily superfamily	e.6.1 — Acyl-CoA dehydrogenase NM domain-like
家族 Family family	e.6.1.0 — automated matches

结构域编号 domain_id	d2ebac2
类 Class class	a — All alpha proteins
折叠类型 Fold fold	a.29 — Bromodomain-like
超家族 Superfamily superfamily	a.29.3 — Acyl-CoA dehydrogenase C-terminal domain-like
家族 Family family	a.29.3.0 — automated matches

结构域编号 domain_id	d2ebad1
类 Class class	e — Multi-domain proteins (alpha and beta)
折叠类型 Fold fold	e.6 — Acyl-CoA dehydrogenase NM domain-like
超家族 Superfamily superfamily	e.6.1 — Acyl-CoA dehydrogenase NM domain-like
家族 Family family	e.6.1.0 — automated matches

结构域编号 domain_id	d2ebad2
类 Class class	a — All alpha proteins
折叠类型 Fold fold	a.29 — Bromodomain-like
超家族 Superfamily superfamily	a.29.3 — Acyl-CoA dehydrogenase C-terminal domain-like
家族 Family family	a.29.3.0 — automated matches

结构域编号 domain_id	d2ebae1
类 Class class	e — Multi-domain proteins (alpha and beta)
折叠类型 Fold fold	e.6 — Acyl-CoA dehydrogenase NM domain-like
超家族 Superfamily superfamily	e.6.1 — Acyl-CoA dehydrogenase NM domain-like
家族 Family family	e.6.1.0 — automated matches

结构域编号 domain_id	d2ebae2
类 Class class	a — All alpha proteins
折叠类型 Fold fold	a.29 — Bromodomain-like
超家族 Superfamily superfamily	a.29.3 — Acyl-CoA dehydrogenase C-terminal domain-like
家族 Family family	a.29.3.0 — automated matches

结构域编号 domain_id	d2ebaf1
类 Class class	e — Multi-domain proteins (alpha and beta)
折叠类型 Fold fold	e.6 — Acyl-CoA dehydrogenase NM domain-like
超家族 Superfamily superfamily	e.6.1 — Acyl-CoA dehydrogenase NM domain-like
家族 Family family	e.6.1.0 — automated matches

结构域编号 domain_id	d2ebaf2
类 Class class	a — All alpha proteins
折叠类型 Fold fold	a.29 — Bromodomain-like
超家族 Superfamily superfamily	a.29.3 — Acyl-CoA dehydrogenase C-terminal domain-like
家族 Family family	a.29.3.0 — automated matches

结构域编号 domain_id	d2ebag1
类 Class class	e — Multi-domain proteins (alpha and beta)
折叠类型 Fold fold	e.6 — Acyl-CoA dehydrogenase NM domain-like
超家族 Superfamily superfamily	e.6.1 — Acyl-CoA dehydrogenase NM domain-like
家族 Family family	e.6.1.0 — automated matches

结构域编号 domain_id	d2ebag2
类 Class class	a — All alpha proteins
折叠类型 Fold fold	a.29 — Bromodomain-like
超家族 Superfamily superfamily	a.29.3 — Acyl-CoA dehydrogenase C-terminal domain-like
家族 Family family	a.29.3.0 — automated matches

结构域编号 domain_id	d2ebah1
类 Class class	e — Multi-domain proteins (alpha and beta)
折叠类型 Fold fold	e.6 — Acyl-CoA dehydrogenase NM domain-like
超家族 Superfamily superfamily	e.6.1 — Acyl-CoA dehydrogenase NM domain-like
家族 Family family	e.6.1.0 — automated matches

结构域编号 domain_id	d2ebah2
类 Class class	a — All alpha proteins
折叠类型 Fold fold	a.29 — Bromodomain-like
超家族 Superfamily superfamily	a.29.3 — Acyl-CoA dehydrogenase C-terminal domain-like
家族 Family family	a.29.3.0 — automated matches

结构域编号 domain_id	d2ebai1
类 Class class	e — Multi-domain proteins (alpha and beta)
折叠类型 Fold fold	e.6 — Acyl-CoA dehydrogenase NM domain-like
超家族 Superfamily superfamily	e.6.1 — Acyl-CoA dehydrogenase NM domain-like
家族 Family family	e.6.1.0 — automated matches

结构域编号 domain_id	d2ebai2
类 Class class	a — All alpha proteins
折叠类型 Fold fold	a.29 — Bromodomain-like
超家族 Superfamily superfamily	a.29.3 — Acyl-CoA dehydrogenase C-terminal domain-like
家族 Family family	a.29.3.0 — automated matches

CATH v4.4 (24 domains)

结构域编号 domain_id	2ebaA01
类 Class class	1 — Mainly Alpha
架构 Architecture architecture	10 — Orthogonal Bundle
拓扑 Topology topology	540 — Butyryl-Coa Dehydrogenase, subunit A; domain 1
同源超家族 H-superfamily homologous superfamily	10 — Acyl-CoA dehydrogenase/oxidase, N-terminal domain

结构域编号 domain_id	2ebaA02
类 Class class	2 — Mainly Beta
架构 Architecture architecture	40 — Beta Barrel
拓扑 Topology topology	110 — Butyryl-CoA Dehydrogenase, subunit A; domain 2
同源超家族 H-superfamily homologous superfamily	10 — Butyryl-CoA Dehydrogenase, subunit A, domain 2

结构域编号 domain_id	2ebaA03
类 Class class	1 — Mainly Alpha
架构 Architecture architecture	20 — Up-down Bundle
拓扑 Topology topology	140 — Butyryl-CoA Dehydrogenase, subunit A; domain 3
同源超家族 H-superfamily homologous superfamily	10 — Butyryl-CoA Dehydrogenase, subunit A, domain 3

结构域编号 domain_id	2ebaC01
类 Class class	1 — Mainly Alpha
架构 Architecture architecture	10 — Orthogonal Bundle
拓扑 Topology topology	540 — Butyryl-Coa Dehydrogenase, subunit A; domain 1
同源超家族 H-superfamily homologous superfamily	10 — Acyl-CoA dehydrogenase/oxidase, N-terminal domain

结构域编号 domain_id	2ebaC02
类 Class class	2 — Mainly Beta
架构 Architecture architecture	40 — Beta Barrel
拓扑 Topology topology	110 — Butyryl-CoA Dehydrogenase, subunit A; domain 2
同源超家族 H-superfamily homologous superfamily	10 — Butyryl-CoA Dehydrogenase, subunit A, domain 2

结构域编号 domain_id	2ebaC03
类 Class class	1 — Mainly Alpha
架构 Architecture architecture	20 — Up-down Bundle
拓扑 Topology topology	140 — Butyryl-CoA Dehydrogenase, subunit A; domain 3
同源超家族 H-superfamily homologous superfamily	10 — Butyryl-CoA Dehydrogenase, subunit A, domain 3

结构域编号 domain_id	2ebaD01
类 Class class	1 — Mainly Alpha
架构 Architecture architecture	10 — Orthogonal Bundle
拓扑 Topology topology	540 — Butyryl-Coa Dehydrogenase, subunit A; domain 1
同源超家族 H-superfamily homologous superfamily	10 — Acyl-CoA dehydrogenase/oxidase, N-terminal domain

结构域编号 domain_id	2ebaD02
类 Class class	2 — Mainly Beta
架构 Architecture architecture	40 — Beta Barrel
拓扑 Topology topology	110 — Butyryl-CoA Dehydrogenase, subunit A; domain 2
同源超家族 H-superfamily homologous superfamily	10 — Butyryl-CoA Dehydrogenase, subunit A, domain 2

结构域编号 domain_id	2ebaD03
类 Class class	1 — Mainly Alpha
架构 Architecture architecture	20 — Up-down Bundle
拓扑 Topology topology	140 — Butyryl-CoA Dehydrogenase, subunit A; domain 3
同源超家族 H-superfamily homologous superfamily	10 — Butyryl-CoA Dehydrogenase, subunit A, domain 3

结构域编号 domain_id	2ebaE01
类 Class class	1 — Mainly Alpha
架构 Architecture architecture	10 — Orthogonal Bundle
拓扑 Topology topology	540 — Butyryl-Coa Dehydrogenase, subunit A; domain 1
同源超家族 H-superfamily homologous superfamily	10 — Acyl-CoA dehydrogenase/oxidase, N-terminal domain

结构域编号 domain_id	2ebaE02
类 Class class	2 — Mainly Beta
架构 Architecture architecture	40 — Beta Barrel
拓扑 Topology topology	110 — Butyryl-CoA Dehydrogenase, subunit A; domain 2
同源超家族 H-superfamily homologous superfamily	10 — Butyryl-CoA Dehydrogenase, subunit A, domain 2

结构域编号 domain_id	2ebaE03
类 Class class	1 — Mainly Alpha
架构 Architecture architecture	20 — Up-down Bundle
拓扑 Topology topology	140 — Butyryl-CoA Dehydrogenase, subunit A; domain 3
同源超家族 H-superfamily homologous superfamily	10 — Butyryl-CoA Dehydrogenase, subunit A, domain 3

结构域编号 domain_id	2ebaF01
类 Class class	1 — Mainly Alpha
架构 Architecture architecture	10 — Orthogonal Bundle
拓扑 Topology topology	540 — Butyryl-Coa Dehydrogenase, subunit A; domain 1
同源超家族 H-superfamily homologous superfamily	10 — Acyl-CoA dehydrogenase/oxidase, N-terminal domain

结构域编号 domain_id	2ebaF02
类 Class class	2 — Mainly Beta
架构 Architecture architecture	40 — Beta Barrel
拓扑 Topology topology	110 — Butyryl-CoA Dehydrogenase, subunit A; domain 2
同源超家族 H-superfamily homologous superfamily	10 — Butyryl-CoA Dehydrogenase, subunit A, domain 2

结构域编号 domain_id	2ebaF03
类 Class class	1 — Mainly Alpha
架构 Architecture architecture	20 — Up-down Bundle
拓扑 Topology topology	140 — Butyryl-CoA Dehydrogenase, subunit A; domain 3
同源超家族 H-superfamily homologous superfamily	10 — Butyryl-CoA Dehydrogenase, subunit A, domain 3

结构域编号 domain_id	2ebaG01
类 Class class	1 — Mainly Alpha
架构 Architecture architecture	10 — Orthogonal Bundle
拓扑 Topology topology	540 — Butyryl-Coa Dehydrogenase, subunit A; domain 1
同源超家族 H-superfamily homologous superfamily	10 — Acyl-CoA dehydrogenase/oxidase, N-terminal domain

结构域编号 domain_id	2ebaG02
类 Class class	2 — Mainly Beta
架构 Architecture architecture	40 — Beta Barrel
拓扑 Topology topology	110 — Butyryl-CoA Dehydrogenase, subunit A; domain 2
同源超家族 H-superfamily homologous superfamily	10 — Butyryl-CoA Dehydrogenase, subunit A, domain 2

结构域编号 domain_id	2ebaG03
类 Class class	1 — Mainly Alpha
架构 Architecture architecture	20 — Up-down Bundle
拓扑 Topology topology	140 — Butyryl-CoA Dehydrogenase, subunit A; domain 3
同源超家族 H-superfamily homologous superfamily	10 — Butyryl-CoA Dehydrogenase, subunit A, domain 3

结构域编号 domain_id	2ebaH01
类 Class class	1 — Mainly Alpha
架构 Architecture architecture	10 — Orthogonal Bundle
拓扑 Topology topology	540 — Butyryl-Coa Dehydrogenase, subunit A; domain 1
同源超家族 H-superfamily homologous superfamily	10 — Acyl-CoA dehydrogenase/oxidase, N-terminal domain

结构域编号 domain_id	2ebaH02
类 Class class	2 — Mainly Beta
架构 Architecture architecture	40 — Beta Barrel
拓扑 Topology topology	110 — Butyryl-CoA Dehydrogenase, subunit A; domain 2
同源超家族 H-superfamily homologous superfamily	10 — Butyryl-CoA Dehydrogenase, subunit A, domain 2

结构域编号 domain_id	2ebaH03
类 Class class	1 — Mainly Alpha
架构 Architecture architecture	20 — Up-down Bundle
拓扑 Topology topology	140 — Butyryl-CoA Dehydrogenase, subunit A; domain 3
同源超家族 H-superfamily homologous superfamily	10 — Butyryl-CoA Dehydrogenase, subunit A, domain 3

结构域编号 domain_id	2ebaI01
类 Class class	1 — Mainly Alpha
架构 Architecture architecture	10 — Orthogonal Bundle
拓扑 Topology topology	540 — Butyryl-Coa Dehydrogenase, subunit A; domain 1
同源超家族 H-superfamily homologous superfamily	10 — Acyl-CoA dehydrogenase/oxidase, N-terminal domain

结构域编号 domain_id	2ebaI02
类 Class class	2 — Mainly Beta
架构 Architecture architecture	40 — Beta Barrel
拓扑 Topology topology	110 — Butyryl-CoA Dehydrogenase, subunit A; domain 2
同源超家族 H-superfamily homologous superfamily	10 — Butyryl-CoA Dehydrogenase, subunit A, domain 2

结构域编号 domain_id	2ebaI03
类 Class class	1 — Mainly Alpha
架构 Architecture architecture	20 — Up-down Bundle
拓扑 Topology topology	140 — Butyryl-CoA Dehydrogenase, subunit A; domain 3
同源超家族 H-superfamily homologous superfamily	10 — Butyryl-CoA Dehydrogenase, subunit A, domain 3

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晶胞边长 a length_a	75.239 Å
晶胞边长 b length_b	86.239 Å
晶胞边长 c length_c	157.418 Å
晶胞夹角 α angle_alpha	75.92 °
晶胞夹角 β angle_beta	81.25 °
晶胞夹角 γ angle_gamma	64.24 °
晶胞分子数 Z z_pdb	8

空间群 space_group	P 1
空间群编号 int_tables_number	1
晶系 crystal_system	—

分辨率 resolution	2.210 Å
最低分辨率 resolution_low	19.960 Å
R 因子 r_factor	0.2600
R_work r_work	0.2600
R_free r_free	0.2750

Crystal structure of the putative glutaryl-CoA dehydrogenase from thermus thermophilus

1. 蛋白身份与相关结构 Protein Identity & Related Structures

Putative glutaryl-CoA dehydrogenase

当前结构中的状态

数据库中的同蛋白其他状态

2. 结构基本信息 2. Structure Basics

3. Official assembly/model 理论 SAXS Official SAXS Profiles

2eba__assembly_1__model_1

2eba__assembly_1__model_1 | I(q)

2eba__assembly_1__model_1 | P(r) · Pending

4. 晶体学与实验 4. Crystallography & Experiment

晶胞参数 Unit Cell

对称性 Symmetry

精修参数 Refinement

衍射实验 Diffraction

5. 实体与聚合物信息 Entities & Polymers (3)

实体 1 Entity 1 polymer

聚合物 Polymer

来源 Source

实体 2 Entity 2 non-polymer

实体 3 Entity 3 water

6. 折叠分类 (SCOP + CATH) 40 domains

SCOP 2.08 (16 domains)

CATH v4.4 (24 domains)

7. 引用文献 (1)

Crystal structure of the putative glutaryl-CoA dehydrogenase from thermus thermophilus

1. 蛋白身份与相关结构 Protein Identity & Related Structures

Putative glutaryl-CoA dehydrogenase

当前结构中的状态

数据库中的同蛋白其他状态

单体

同源二聚体

同源四聚体

其他同源多聚体

异源或核酸复合物

2. 结构基本信息 2. Structure Basics

3. Official assembly/model 理论 SAXS Official SAXS Profiles

2eba__assembly_1__model_1

2eba__assembly_1__model_1 | I(q)

2eba__assembly_1__model_1 | P(r) · Pending

4. 晶体学与实验 4. Crystallography & Experiment

晶胞参数 Unit Cell

对称性 Symmetry

精修参数 Refinement

衍射实验 Diffraction

5. 实体与聚合物信息 Entities & Polymers (3)

实体 1 Entity 1 polymer

聚合物 Polymer

来源 Source

实体 2 Entity 2 non-polymer

实体 3 Entity 3 water

6. 折叠分类 (SCOP + CATH) 40 domains

SCOP 2.08 (16 domains)

CATH v4.4 (24 domains)

7. 引用文献 (1)