1c2y

CRYSTAL STRUCTURES OF A PENTAMERIC FUNGAL AND AN ICOSAHEDRAL PLANT LUMAZINE SYNTHASE REVEALS THE STRUCTURAL BASIS FOR DIFFERENCES IN ASSEMBLY

Method: X-RAY DIFFRACTION

▼

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

PROTEIN (LUMAZINE SYNTHASE)

Spinacia oleracea

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 20	5-NITROSO-6-RIBITYL-AMINO-2,4(1H,3H)-PYRIMIDINEDIONE × 20	与蛋白数一致
2	蛋白同源多聚体	同源多聚体	蛋白 60	5-NITROSO-6-RIBITYL-AMINO-2,4(1H,3H)-PYRIMIDINEDIONE × 60	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	RISB_SPIOL
Isoform	—
PDB实体	1
链与序列区间	作者链 A； PDB构建体 1–156； UniProt 67–222 作者链 B； PDB构建体 1–156； UniProt 67–222 作者链 C； PDB构建体 1–156； UniProt 67–222 作者链 D； PDB构建体 1–156； UniProt 67–222 作者链 E； PDB构建体 1–156； UniProt 67–222 作者链 F； PDB构建体 1–156； UniProt 67–222 作者链 G； PDB构建体 1–156； UniProt 67–222 作者链 H； PDB构建体 1–156； UniProt 67–222 作者链 I； PDB构建体 1–156； UniProt 67–222 作者链 J； PDB构建体 1–156； UniProt 67–222 作者链 K； PDB构建体 1–156； UniProt 67–222 作者链 L； PDB构建体 1–156； UniProt 67–222 作者链 M； PDB构建体 1–156； UniProt 67–222 作者链 N； PDB构建体 1–156； UniProt 67–222 作者链 O； PDB构建体 1–156； UniProt 67–222 作者链 P； PDB构建体 1–156； UniProt 67–222 作者链 Q； PDB构建体 1–156； UniProt 67–222 作者链 R； PDB构建体 1–156； UniProt 67–222 作者链 S； PDB构建体 1–156； UniProt 67–222 作者链 T； PDB构建体 1–156； UniProt 67–222

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。

▼

2. 结构基本信息 2. Structure Basics

条目编号 entry_id	1c2y
沉积日期 deposition_date	1999-07-27
结构标题 title	CRYSTAL STRUCTURES OF A PENTAMERIC FUNGAL AND AN ICOSAHEDRAL PLANT LUMAZINE SYNTHASE REVEALS THE STRUCTURAL BASIS FOR DIFFERENCES IN ASSEMBLY
关键词 keywords	RIBOFLAVIN BIOSYNTHESIS, TRANSFERASE; TRANSFERASE
实验方法 method	X-RAY DIFFRACTION

▼

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。

1c2y__assembly_2__model_1

Assembly 2 · Model 1 · CRYSOL 4.1.3-1-20251215 (887e7ef)

下载该曲线 .dat

1c2y__assembly_2__model_1 | I(q)

100 个绘图点；横轴和纵轴均采用对数尺度。

1c2y__assembly_2__model_1 | P(r) · Pending

P(r) 将按相同 assembly/model 分别计算和展示。

Rg（Guinier）	63.65 Å
Rg（电子密度）	62.98 Å
总 Rg	63.09 Å
原子数	70500
残基数	9300
排除体积	1249700 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	`1c2y__assembly_1__model_1`	eicosameric （20）	成功	4.1.3-1-20251215 (887e7ef)	查看下载
2	1	`1c2y__assembly_2__model_1`	60-meric （60）	成功	4.1.3-1-20251215 (887e7ef)	查看下载

▶

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

▶

5. 实体与聚合物信息 Entities & Polymers (2)

▼

6. 折叠分类 (SCOP + CATH) 40 domains

SCOP 2.08 (20 domains)

结构域编号 domain_id	d1c2ya_
类 Class class	c — Alpha and beta proteins (a/b)
折叠类型 Fold fold	c.16 — Lumazine synthase
超家族 Superfamily superfamily	c.16.1 — Lumazine synthase
家族 Family family	c.16.1.1 — Lumazine synthase

结构域编号 domain_id	d1c2yb_
类 Class class	c — Alpha and beta proteins (a/b)
折叠类型 Fold fold	c.16 — Lumazine synthase
超家族 Superfamily superfamily	c.16.1 — Lumazine synthase
家族 Family family	c.16.1.1 — Lumazine synthase

结构域编号 domain_id	d1c2yc_
类 Class class	c — Alpha and beta proteins (a/b)
折叠类型 Fold fold	c.16 — Lumazine synthase
超家族 Superfamily superfamily	c.16.1 — Lumazine synthase
家族 Family family	c.16.1.1 — Lumazine synthase

结构域编号 domain_id	d1c2yd_
类 Class class	c — Alpha and beta proteins (a/b)
折叠类型 Fold fold	c.16 — Lumazine synthase
超家族 Superfamily superfamily	c.16.1 — Lumazine synthase
家族 Family family	c.16.1.1 — Lumazine synthase

结构域编号 domain_id	d1c2ye_
类 Class class	c — Alpha and beta proteins (a/b)
折叠类型 Fold fold	c.16 — Lumazine synthase
超家族 Superfamily superfamily	c.16.1 — Lumazine synthase
家族 Family family	c.16.1.1 — Lumazine synthase

结构域编号 domain_id	d1c2yf_
类 Class class	c — Alpha and beta proteins (a/b)
折叠类型 Fold fold	c.16 — Lumazine synthase
超家族 Superfamily superfamily	c.16.1 — Lumazine synthase
家族 Family family	c.16.1.1 — Lumazine synthase

结构域编号 domain_id	d1c2yg_
类 Class class	c — Alpha and beta proteins (a/b)
折叠类型 Fold fold	c.16 — Lumazine synthase
超家族 Superfamily superfamily	c.16.1 — Lumazine synthase
家族 Family family	c.16.1.1 — Lumazine synthase

结构域编号 domain_id	d1c2yh_
类 Class class	c — Alpha and beta proteins (a/b)
折叠类型 Fold fold	c.16 — Lumazine synthase
超家族 Superfamily superfamily	c.16.1 — Lumazine synthase
家族 Family family	c.16.1.1 — Lumazine synthase

结构域编号 domain_id	d1c2yi_
类 Class class	c — Alpha and beta proteins (a/b)
折叠类型 Fold fold	c.16 — Lumazine synthase
超家族 Superfamily superfamily	c.16.1 — Lumazine synthase
家族 Family family	c.16.1.1 — Lumazine synthase

结构域编号 domain_id	d1c2yj_
类 Class class	c — Alpha and beta proteins (a/b)
折叠类型 Fold fold	c.16 — Lumazine synthase
超家族 Superfamily superfamily	c.16.1 — Lumazine synthase
家族 Family family	c.16.1.1 — Lumazine synthase

结构域编号 domain_id	d1c2yk_
类 Class class	c — Alpha and beta proteins (a/b)
折叠类型 Fold fold	c.16 — Lumazine synthase
超家族 Superfamily superfamily	c.16.1 — Lumazine synthase
家族 Family family	c.16.1.1 — Lumazine synthase

结构域编号 domain_id	d1c2yl_
类 Class class	c — Alpha and beta proteins (a/b)
折叠类型 Fold fold	c.16 — Lumazine synthase
超家族 Superfamily superfamily	c.16.1 — Lumazine synthase
家族 Family family	c.16.1.1 — Lumazine synthase

结构域编号 domain_id	d1c2ym_
类 Class class	c — Alpha and beta proteins (a/b)
折叠类型 Fold fold	c.16 — Lumazine synthase
超家族 Superfamily superfamily	c.16.1 — Lumazine synthase
家族 Family family	c.16.1.1 — Lumazine synthase

结构域编号 domain_id	d1c2yn_
类 Class class	c — Alpha and beta proteins (a/b)
折叠类型 Fold fold	c.16 — Lumazine synthase
超家族 Superfamily superfamily	c.16.1 — Lumazine synthase
家族 Family family	c.16.1.1 — Lumazine synthase

结构域编号 domain_id	d1c2yo_
类 Class class	c — Alpha and beta proteins (a/b)
折叠类型 Fold fold	c.16 — Lumazine synthase
超家族 Superfamily superfamily	c.16.1 — Lumazine synthase
家族 Family family	c.16.1.1 — Lumazine synthase

结构域编号 domain_id	d1c2yp_
类 Class class	c — Alpha and beta proteins (a/b)
折叠类型 Fold fold	c.16 — Lumazine synthase
超家族 Superfamily superfamily	c.16.1 — Lumazine synthase
家族 Family family	c.16.1.1 — Lumazine synthase

结构域编号 domain_id	d1c2yq_
类 Class class	c — Alpha and beta proteins (a/b)
折叠类型 Fold fold	c.16 — Lumazine synthase
超家族 Superfamily superfamily	c.16.1 — Lumazine synthase
家族 Family family	c.16.1.1 — Lumazine synthase

结构域编号 domain_id	d1c2yr_
类 Class class	c — Alpha and beta proteins (a/b)
折叠类型 Fold fold	c.16 — Lumazine synthase
超家族 Superfamily superfamily	c.16.1 — Lumazine synthase
家族 Family family	c.16.1.1 — Lumazine synthase

结构域编号 domain_id	d1c2ys_
类 Class class	c — Alpha and beta proteins (a/b)
折叠类型 Fold fold	c.16 — Lumazine synthase
超家族 Superfamily superfamily	c.16.1 — Lumazine synthase
家族 Family family	c.16.1.1 — Lumazine synthase

结构域编号 domain_id	d1c2yt_
类 Class class	c — Alpha and beta proteins (a/b)
折叠类型 Fold fold	c.16 — Lumazine synthase
超家族 Superfamily superfamily	c.16.1 — Lumazine synthase
家族 Family family	c.16.1.1 — Lumazine synthase

CATH v4.4 (20 domains)

结构域编号 domain_id	1c2yA00
类 Class class	3 — Alpha Beta
架构 Architecture architecture	40 — 3-Layer(aba) Sandwich
拓扑 Topology topology	50 — Rossmann fold
同源超家族 H-superfamily homologous superfamily	960 — Lumazine/riboflavin synthase

结构域编号 domain_id	1c2yB00
类 Class class	3 — Alpha Beta
架构 Architecture architecture	40 — 3-Layer(aba) Sandwich
拓扑 Topology topology	50 — Rossmann fold
同源超家族 H-superfamily homologous superfamily	960 — Lumazine/riboflavin synthase

结构域编号 domain_id	1c2yC00
类 Class class	3 — Alpha Beta
架构 Architecture architecture	40 — 3-Layer(aba) Sandwich
拓扑 Topology topology	50 — Rossmann fold
同源超家族 H-superfamily homologous superfamily	960 — Lumazine/riboflavin synthase

结构域编号 domain_id	1c2yD00
类 Class class	3 — Alpha Beta
架构 Architecture architecture	40 — 3-Layer(aba) Sandwich
拓扑 Topology topology	50 — Rossmann fold
同源超家族 H-superfamily homologous superfamily	960 — Lumazine/riboflavin synthase

结构域编号 domain_id	1c2yE00
类 Class class	3 — Alpha Beta
架构 Architecture architecture	40 — 3-Layer(aba) Sandwich
拓扑 Topology topology	50 — Rossmann fold
同源超家族 H-superfamily homologous superfamily	960 — Lumazine/riboflavin synthase

结构域编号 domain_id	1c2yF00
类 Class class	3 — Alpha Beta
架构 Architecture architecture	40 — 3-Layer(aba) Sandwich
拓扑 Topology topology	50 — Rossmann fold
同源超家族 H-superfamily homologous superfamily	960 — Lumazine/riboflavin synthase

结构域编号 domain_id	1c2yG00
类 Class class	3 — Alpha Beta
架构 Architecture architecture	40 — 3-Layer(aba) Sandwich
拓扑 Topology topology	50 — Rossmann fold
同源超家族 H-superfamily homologous superfamily	960 — Lumazine/riboflavin synthase

结构域编号 domain_id	1c2yH00
类 Class class	3 — Alpha Beta
架构 Architecture architecture	40 — 3-Layer(aba) Sandwich
拓扑 Topology topology	50 — Rossmann fold
同源超家族 H-superfamily homologous superfamily	960 — Lumazine/riboflavin synthase

结构域编号 domain_id	1c2yI00
类 Class class	3 — Alpha Beta
架构 Architecture architecture	40 — 3-Layer(aba) Sandwich
拓扑 Topology topology	50 — Rossmann fold
同源超家族 H-superfamily homologous superfamily	960 — Lumazine/riboflavin synthase

结构域编号 domain_id	1c2yJ00
类 Class class	3 — Alpha Beta
架构 Architecture architecture	40 — 3-Layer(aba) Sandwich
拓扑 Topology topology	50 — Rossmann fold
同源超家族 H-superfamily homologous superfamily	960 — Lumazine/riboflavin synthase

结构域编号 domain_id	1c2yK00
类 Class class	3 — Alpha Beta
架构 Architecture architecture	40 — 3-Layer(aba) Sandwich
拓扑 Topology topology	50 — Rossmann fold
同源超家族 H-superfamily homologous superfamily	960 — Lumazine/riboflavin synthase

结构域编号 domain_id	1c2yL00
类 Class class	3 — Alpha Beta
架构 Architecture architecture	40 — 3-Layer(aba) Sandwich
拓扑 Topology topology	50 — Rossmann fold
同源超家族 H-superfamily homologous superfamily	960 — Lumazine/riboflavin synthase

结构域编号 domain_id	1c2yM00
类 Class class	3 — Alpha Beta
架构 Architecture architecture	40 — 3-Layer(aba) Sandwich
拓扑 Topology topology	50 — Rossmann fold
同源超家族 H-superfamily homologous superfamily	960 — Lumazine/riboflavin synthase

结构域编号 domain_id	1c2yN00
类 Class class	3 — Alpha Beta
架构 Architecture architecture	40 — 3-Layer(aba) Sandwich
拓扑 Topology topology	50 — Rossmann fold
同源超家族 H-superfamily homologous superfamily	960 — Lumazine/riboflavin synthase

结构域编号 domain_id	1c2yO00
类 Class class	3 — Alpha Beta
架构 Architecture architecture	40 — 3-Layer(aba) Sandwich
拓扑 Topology topology	50 — Rossmann fold
同源超家族 H-superfamily homologous superfamily	960 — Lumazine/riboflavin synthase

结构域编号 domain_id	1c2yP00
类 Class class	3 — Alpha Beta
架构 Architecture architecture	40 — 3-Layer(aba) Sandwich
拓扑 Topology topology	50 — Rossmann fold
同源超家族 H-superfamily homologous superfamily	960 — Lumazine/riboflavin synthase

结构域编号 domain_id	1c2yQ00
类 Class class	3 — Alpha Beta
架构 Architecture architecture	40 — 3-Layer(aba) Sandwich
拓扑 Topology topology	50 — Rossmann fold
同源超家族 H-superfamily homologous superfamily	960 — Lumazine/riboflavin synthase

结构域编号 domain_id	1c2yR00
类 Class class	3 — Alpha Beta
架构 Architecture architecture	40 — 3-Layer(aba) Sandwich
拓扑 Topology topology	50 — Rossmann fold
同源超家族 H-superfamily homologous superfamily	960 — Lumazine/riboflavin synthase

结构域编号 domain_id	1c2yS00
类 Class class	3 — Alpha Beta
架构 Architecture architecture	40 — 3-Layer(aba) Sandwich
拓扑 Topology topology	50 — Rossmann fold
同源超家族 H-superfamily homologous superfamily	960 — Lumazine/riboflavin synthase

结构域编号 domain_id	1c2yT00
类 Class class	3 — Alpha Beta
架构 Architecture architecture	40 — 3-Layer(aba) Sandwich
拓扑 Topology topology	50 — Rossmann fold
同源超家族 H-superfamily homologous superfamily	960 — Lumazine/riboflavin synthase

▶

晶胞边长 a length_a	218.240 Å
晶胞边长 b length_b	218.240 Å
晶胞边长 c length_c	218.240 Å
晶胞夹角 α angle_alpha	90.00 °
晶胞夹角 β angle_beta	90.00 °
晶胞夹角 γ angle_gamma	90.00 °
晶胞分子数 Z z_pdb	240

空间群 space_group	P 21 3
空间群编号 int_tables_number	198
晶系 crystal_system	—

分辨率 resolution	3.300 Å
最低分辨率 resolution_low	12.000 Å
R 因子 r_factor	0.3100
R_work r_work	0.3100
R_free r_free	0.3260

描述 description	PROTEIN (LUMAZINE SYNTHASE)
分子量 formula_weight	16552.8 kDa
EC 编号 ec_number	2.5.1.78
来源方法 src_method	man
拷贝数 entity_count	20

聚合物类型 type	polypeptide(L)
链编号 strand_id	A,B,C,D,E,F,G,H,I,J,K,L,M,N,O,P,Q,R,S,T
原子数 atom_count	23500

CRYSTAL STRUCTURES OF A PENTAMERIC FUNGAL AND AN ICOSAHEDRAL PLANT LUMAZINE SYNTHASE REVEALS THE STRUCTURAL BASIS FOR DIFFERENCES IN ASSEMBLY

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

PROTEIN (LUMAZINE SYNTHASE)

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

1c2y__assembly_2__model_1

1c2y__assembly_2__model_1 | I(q)

1c2y__assembly_2__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) 40 domains

SCOP 2.08 (20 domains)

CATH v4.4 (20 domains)

7. 引用文献 (1)

来源生物 organism	Spinacia oleracea
通用名 common_name	spinach
NCBI 分类编号 ncbi_taxonomy_id	3562
宿主生物 host_organism	Escherichia coli BL21(DE3)

CRYSTAL STRUCTURES OF A PENTAMERIC FUNGAL AND AN ICOSAHEDRAL PLANT LUMAZINE SYNTHASE REVEALS THE STRUCTURAL BASIS FOR DIFFERENCES IN ASSEMBLY

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

PROTEIN (LUMAZINE SYNTHASE)

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

1c2y__assembly_2__model_1

1c2y__assembly_2__model_1 | I(q)

1c2y__assembly_2__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) 40 domains

SCOP 2.08 (20 domains)

CATH v4.4 (20 domains)

7. 引用文献 (1)