2bvg

Crystal structure of 6-hydoxy-D-nicotine oxidase from Arthrobacter nicotinovorans. Crystal Form 1 (P21)

Method: X-RAY DIFFRACTION

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

6-HYDROXY-D-NICOTINE OXIDASE

ARTHROBACTER NICOTINOVORANS

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	蛋白单体	单体	蛋白 1	FLAVIN-ADENINE DINUCLEOTIDE × 1	与蛋白数一致
2	蛋白单体	单体	蛋白 1	FLAVIN-ADENINE DINUCLEOTIDE × 1	与蛋白数一致
3	蛋白单体	单体	蛋白 1	FLAVIN-ADENINE DINUCLEOTIDE × 1	与蛋白数一致
4	蛋白单体	单体	蛋白 1	FLAVIN-ADENINE DINUCLEOTIDE × 1	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	Q8GAG1_ARTNI
Isoform	—
PDB实体	1
链与序列区间	作者链 A； PDB构建体 1–459； UniProt 1–459 作者链 B； PDB构建体 1–459； UniProt 1–459 作者链 C； PDB构建体 1–459； UniProt 1–459 作者链 D； PDB构建体 1–459； UniProt 1–459

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	2bvg
沉积日期 deposition_date	2005-06-28
结构标题 title	Crystal structure of 6-hydoxy-D-nicotine oxidase from Arthrobacter nicotinovorans. Crystal Form 1 (P21)
关键词 keywords	AUTOFLAVINYLATION, ENANTIOMERIC SUBSTRATES, FLAVOENZYMES, NICOTINE DEGRADATION, OXIDASE; OXIDASE
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。

2bvg__assembly_1__model_1

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

下载该曲线 .dat

2bvg__assembly_1__model_1 | I(q)

100 个绘图点；横轴和纵轴均采用对数尺度。

2bvg__assembly_1__model_1 | P(r) · Pending

P(r) 将按相同 assembly/model 分别计算和展示。

Rg（Guinier）	22.79 Å
Rg（电子密度）	21.91 Å
总 Rg	22.78 Å
原子数	3452
残基数	453
排除体积	60898 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	`2bvg__assembly_1__model_1`	monomeric （1）	成功	4.1.3-1-20251215 (887e7ef)	查看下载
2	1	`2bvg__assembly_2__model_1`	monomeric （1）	成功	4.1.3-1-20251215 (887e7ef)	查看下载
3	1	`2bvg__assembly_3__model_1`	monomeric （1）	成功	4.1.3-1-20251215 (887e7ef)	查看下载
4	1	`2bvg__assembly_4__model_1`	monomeric （1）	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 (2)

实体 1 Entity 1 polymer

描述 description	6-HYDROXY-D-NICOTINE OXIDASE
分子量 formula_weight	48918.1 kDa
EC 编号 ec_number	1.5.3.6
突变 mutation	YES
来源方法 src_method	man
拷贝数 entity_count	4

聚合物 Polymer

聚合物类型 type	polypeptide(L)
链编号 strand_id	A,B,C,D
原子数 atom_count	13808

MVSSKLATPLSIQGEVIYPDDSGFDAIANIWDGRHLQRPSLIARCLSAGDVAKSVRYACDNGLEISVRSGGHNPNGYATNDGGIVLDLRLMNSIHIDTAGSRARIGGGVISGDLVKEAAKFGLAAVTGMHPKVGFCGLALNGGVGFLTPKYGLASDNILGATLVTATGDVIYCSDDERPELFWAVRGAGPNFGVVTEVEVQLYELPRKMLAGFITWAPSVSELAGLLTSLLDALNEMADHIYPSVFVGVDENRAPSVTVCVGHLGGLDIAERDIARLRGLGRTVSDSIAVRSYDEVVALNAEVGSFEDGMSNLWIDREIAMPNARFAEAIAGNLDKFVSEPASGGSVKLEIEGMPFGNPKRTPARHRDAMGVLALAEWSGAAPGSEKYPELARELDAALLRAGVTTSGFGLLNNNSEVTAEMVAEVYKPEVYSRLAAVKREYDPENRFRHNYNIDPEGS

来源 Source

来源生物 organism	ARTHROBACTER NICOTINOVORANS
NCBI 分类编号 ncbi_taxonomy_id	29320
宿主生物 host_organism	ESCHERICHIA COLI

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	4

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6. 折叠分类 (SCOP + CATH) 20 domains

SCOP 2.08 (8 domains)

结构域编号 domain_id	d2bvga1
类 Class class	d — Alpha and beta proteins (a+b)
折叠类型 Fold fold	d.145 — FAD-binding/transporter-associated domain-like
超家族 Superfamily superfamily	d.145.1 — FAD-binding/transporter-associated domain-like
家族 Family family	d.145.1.1 — FAD-linked oxidases, N-terminal domain

结构域编号 domain_id	d2bvga2
类 Class class	d — Alpha and beta proteins (a+b)
折叠类型 Fold fold	d.58 — Ferredoxin-like
超家族 Superfamily superfamily	d.58.32 — FAD-linked oxidases, C-terminal domain
家族 Family family	d.58.32.5 — 6-hydroxy-d-nicotine oxidase

结构域编号 domain_id	d2bvgb1
类 Class class	d — Alpha and beta proteins (a+b)
折叠类型 Fold fold	d.145 — FAD-binding/transporter-associated domain-like
超家族 Superfamily superfamily	d.145.1 — FAD-binding/transporter-associated domain-like
家族 Family family	d.145.1.1 — FAD-linked oxidases, N-terminal domain

结构域编号 domain_id	d2bvgb2
类 Class class	d — Alpha and beta proteins (a+b)
折叠类型 Fold fold	d.58 — Ferredoxin-like
超家族 Superfamily superfamily	d.58.32 — FAD-linked oxidases, C-terminal domain
家族 Family family	d.58.32.5 — 6-hydroxy-d-nicotine oxidase

结构域编号 domain_id	d2bvgc1
类 Class class	d — Alpha and beta proteins (a+b)
折叠类型 Fold fold	d.145 — FAD-binding/transporter-associated domain-like
超家族 Superfamily superfamily	d.145.1 — FAD-binding/transporter-associated domain-like
家族 Family family	d.145.1.1 — FAD-linked oxidases, N-terminal domain

结构域编号 domain_id	d2bvgc2
类 Class class	d — Alpha and beta proteins (a+b)
折叠类型 Fold fold	d.58 — Ferredoxin-like
超家族 Superfamily superfamily	d.58.32 — FAD-linked oxidases, C-terminal domain
家族 Family family	d.58.32.5 — 6-hydroxy-d-nicotine oxidase

结构域编号 domain_id	d2bvgd1
类 Class class	d — Alpha and beta proteins (a+b)
折叠类型 Fold fold	d.145 — FAD-binding/transporter-associated domain-like
超家族 Superfamily superfamily	d.145.1 — FAD-binding/transporter-associated domain-like
家族 Family family	d.145.1.1 — FAD-linked oxidases, N-terminal domain

结构域编号 domain_id	d2bvgd2
类 Class class	d — Alpha and beta proteins (a+b)
折叠类型 Fold fold	d.58 — Ferredoxin-like
超家族 Superfamily superfamily	d.58.32 — FAD-linked oxidases, C-terminal domain
家族 Family family	d.58.32.5 — 6-hydroxy-d-nicotine oxidase

CATH v4.4 (12 domains)

结构域编号 domain_id	2bvgA01
类 Class class	3 — Alpha Beta
架构 Architecture architecture	30 — 2-Layer Sandwich
拓扑 Topology topology	43 — Uridine Diphospho-n-acetylenolpyruvylglucosamine Reductase; domain 2
同源超家族 H-superfamily homologous superfamily	10 — Uridine Diphospho-n-acetylenolpyruvylglucosamine Reductase, domain 2

结构域编号 domain_id	2bvgA02
类 Class class	3 — Alpha Beta
架构 Architecture architecture	30 — 2-Layer Sandwich
拓扑 Topology topology	465 — Uridine Diphospho-n-acetylenolpyruvylglucosamine Reductase; domain 3
同源超家族 H-superfamily homologous superfamily	10 —

结构域编号 domain_id	2bvgA03
类 Class class	3 — Alpha Beta
架构 Architecture architecture	40 — 3-Layer(aba) Sandwich
拓扑 Topology topology	462 — Vanillyl-alcohol Oxidase; Chain A, domain 3
同源超家族 H-superfamily homologous superfamily	20 —

结构域编号 domain_id	2bvgB01
类 Class class	3 — Alpha Beta
架构 Architecture architecture	30 — 2-Layer Sandwich
拓扑 Topology topology	43 — Uridine Diphospho-n-acetylenolpyruvylglucosamine Reductase; domain 2
同源超家族 H-superfamily homologous superfamily	10 — Uridine Diphospho-n-acetylenolpyruvylglucosamine Reductase, domain 2

结构域编号 domain_id	2bvgB02
类 Class class	3 — Alpha Beta
架构 Architecture architecture	30 — 2-Layer Sandwich
拓扑 Topology topology	465 — Uridine Diphospho-n-acetylenolpyruvylglucosamine Reductase; domain 3
同源超家族 H-superfamily homologous superfamily	10 —

结构域编号 domain_id	2bvgB03
类 Class class	3 — Alpha Beta
架构 Architecture architecture	40 — 3-Layer(aba) Sandwich
拓扑 Topology topology	462 — Vanillyl-alcohol Oxidase; Chain A, domain 3
同源超家族 H-superfamily homologous superfamily	20 —

结构域编号 domain_id	2bvgC01
类 Class class	3 — Alpha Beta
架构 Architecture architecture	30 — 2-Layer Sandwich
拓扑 Topology topology	43 — Uridine Diphospho-n-acetylenolpyruvylglucosamine Reductase; domain 2
同源超家族 H-superfamily homologous superfamily	10 — Uridine Diphospho-n-acetylenolpyruvylglucosamine Reductase, domain 2

结构域编号 domain_id	2bvgC02
类 Class class	3 — Alpha Beta
架构 Architecture architecture	30 — 2-Layer Sandwich
拓扑 Topology topology	465 — Uridine Diphospho-n-acetylenolpyruvylglucosamine Reductase; domain 3
同源超家族 H-superfamily homologous superfamily	10 —

结构域编号 domain_id	2bvgC03
类 Class class	3 — Alpha Beta
架构 Architecture architecture	40 — 3-Layer(aba) Sandwich
拓扑 Topology topology	462 — Vanillyl-alcohol Oxidase; Chain A, domain 3
同源超家族 H-superfamily homologous superfamily	20 —

结构域编号 domain_id	2bvgD01
类 Class class	3 — Alpha Beta
架构 Architecture architecture	30 — 2-Layer Sandwich
拓扑 Topology topology	43 — Uridine Diphospho-n-acetylenolpyruvylglucosamine Reductase; domain 2
同源超家族 H-superfamily homologous superfamily	10 — Uridine Diphospho-n-acetylenolpyruvylglucosamine Reductase, domain 2

结构域编号 domain_id	2bvgD02
类 Class class	3 — Alpha Beta
架构 Architecture architecture	30 — 2-Layer Sandwich
拓扑 Topology topology	465 — Uridine Diphospho-n-acetylenolpyruvylglucosamine Reductase; domain 3
同源超家族 H-superfamily homologous superfamily	10 —

结构域编号 domain_id	2bvgD03
类 Class class	3 — Alpha Beta
架构 Architecture architecture	40 — 3-Layer(aba) Sandwich
拓扑 Topology topology	462 — Vanillyl-alcohol Oxidase; Chain A, domain 3
同源超家族 H-superfamily homologous superfamily	20 —

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晶胞边长 a length_a	103.640 Å
晶胞边长 b length_b	95.230 Å
晶胞边长 c length_c	122.980 Å
晶胞夹角 α angle_alpha	90.00 °
晶胞夹角 β angle_beta	94.06 °
晶胞夹角 γ angle_gamma	90.00 °
晶胞分子数 Z z_pdb	8

空间群 space_group	P 1 21 1
空间群编号 int_tables_number	4
晶系 crystal_system	—

分辨率 resolution	3.180 Å
最低分辨率 resolution_low	43.490 Å
R 因子 r_factor	0.2530
R_work r_work	0.2530
R_free r_free	0.2890

Crystal structure of 6-hydoxy-D-nicotine oxidase from Arthrobacter nicotinovorans. Crystal Form 1 (P21)

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

6-HYDROXY-D-NICOTINE OXIDASE

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

2bvg__assembly_1__model_1

2bvg__assembly_1__model_1 | I(q)

2bvg__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 (2)

实体 1 Entity 1 polymer

聚合物 Polymer

来源 Source

实体 2 Entity 2 non-polymer

6. 折叠分类 (SCOP + CATH) 20 domains

SCOP 2.08 (8 domains)

CATH v4.4 (12 domains)

7. 引用文献 (1)

Crystal structure of 6-hydoxy-D-nicotine oxidase from Arthrobacter nicotinovorans. Crystal Form 1 (P21)

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

6-HYDROXY-D-NICOTINE OXIDASE

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

2bvg__assembly_1__model_1

2bvg__assembly_1__model_1 | I(q)

2bvg__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 (2)

实体 1 Entity 1 polymer

聚合物 Polymer

来源 Source

实体 2 Entity 2 non-polymer

6. 折叠分类 (SCOP + CATH) 20 domains

SCOP 2.08 (8 domains)

CATH v4.4 (12 domains)

7. 引用文献 (1)