1l0q

Tandem YVTN beta-propeller and PKD domains from an archaeal surface layer protein

Method: X-RAY DIFFRACTION

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

Surface layer protein

Methanosarcina mazei

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	water × 1	与蛋白数一致
2	蛋白单体	单体	蛋白 1	water × 1	与蛋白数一致
3	蛋白单体	单体	蛋白 1	water × 1	与蛋白数一致
4	蛋白单体	单体	蛋白 1	water × 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	Q50245_METMA
Isoform	—
PDB实体	1
链与序列区间	作者链 A； PDB构建体 1–391； UniProt 43–433 作者链 B； PDB构建体 1–391； UniProt 43–433 作者链 C； PDB构建体 1–391； UniProt 43–433 作者链 D； PDB构建体 1–391； UniProt 43–433

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	1l0q
沉积日期 deposition_date	2002-02-12
结构标题 title	Tandem YVTN beta-propeller and PKD domains from an archaeal surface layer protein
关键词 keywords	surface layer protein, SLP, S-layer, 7-bladed beta-propeller, PKD superfamily, PROTEIN BINDING; PROTEIN BINDING
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。

1l0q__assembly_1__model_1

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

下载该曲线 .dat

1l0q__assembly_1__model_1 | I(q)

100 个绘图点；横轴和纵轴均采用对数尺度。

1l0q__assembly_1__model_1 | P(r) · Pending

P(r) 将按相同 assembly/model 分别计算和展示。

Rg（Guinier）	24.21 Å
Rg（电子密度）	24.06 Å
总 Rg	24.62 Å
原子数	2850
残基数	385
排除体积	50816 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	`1l0q__assembly_1__model_1`	monomeric （1）	成功	4.1.3-1-20251215 (887e7ef)	查看下载
2	1	`1l0q__assembly_2__model_1`	monomeric （1）	成功	4.1.3-1-20251215 (887e7ef)	查看下载
3	1	`1l0q__assembly_3__model_1`	monomeric （1）	成功	4.1.3-1-20251215 (887e7ef)	查看下载
4	1	`1l0q__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)

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6. 折叠分类 (SCOP + CATH) 16 domains

SCOP 2.08 (8 domains)

结构域编号 domain_id	d1l0qa1
类 Class class	b — All beta proteins
折叠类型 Fold fold	b.1 — Immunoglobulin-like beta-sandwich
超家族 Superfamily superfamily	b.1.3 — PKD domain
家族 Family family	b.1.3.1 — PKD domain

结构域编号 domain_id	d1l0qa2
类 Class class	b — All beta proteins
折叠类型 Fold fold	b.69 — 7-bladed beta-propeller
超家族 Superfamily superfamily	b.69.2 — YVTN repeat-like/Quinoprotein amine dehydrogenase
家族 Family family	b.69.2.3 — YVTN repeat

结构域编号 domain_id	d1l0qb1
类 Class class	b — All beta proteins
折叠类型 Fold fold	b.1 — Immunoglobulin-like beta-sandwich
超家族 Superfamily superfamily	b.1.3 — PKD domain
家族 Family family	b.1.3.1 — PKD domain

结构域编号 domain_id	d1l0qb2
类 Class class	b — All beta proteins
折叠类型 Fold fold	b.69 — 7-bladed beta-propeller
超家族 Superfamily superfamily	b.69.2 — YVTN repeat-like/Quinoprotein amine dehydrogenase
家族 Family family	b.69.2.3 — YVTN repeat

结构域编号 domain_id	d1l0qc1
类 Class class	b — All beta proteins
折叠类型 Fold fold	b.1 — Immunoglobulin-like beta-sandwich
超家族 Superfamily superfamily	b.1.3 — PKD domain
家族 Family family	b.1.3.1 — PKD domain

结构域编号 domain_id	d1l0qc2
类 Class class	b — All beta proteins
折叠类型 Fold fold	b.69 — 7-bladed beta-propeller
超家族 Superfamily superfamily	b.69.2 — YVTN repeat-like/Quinoprotein amine dehydrogenase
家族 Family family	b.69.2.3 — YVTN repeat

结构域编号 domain_id	d1l0qd1
类 Class class	b — All beta proteins
折叠类型 Fold fold	b.1 — Immunoglobulin-like beta-sandwich
超家族 Superfamily superfamily	b.1.3 — PKD domain
家族 Family family	b.1.3.1 — PKD domain

结构域编号 domain_id	d1l0qd2
类 Class class	b — All beta proteins
折叠类型 Fold fold	b.69 — 7-bladed beta-propeller
超家族 Superfamily superfamily	b.69.2 — YVTN repeat-like/Quinoprotein amine dehydrogenase
家族 Family family	b.69.2.3 — YVTN repeat

CATH v4.4 (8 domains)

结构域编号 domain_id	1l0qA01
类 Class class	2 — Mainly Beta
架构 Architecture architecture	130 — 7 Propeller
拓扑 Topology topology	10 — Methylamine Dehydrogenase; Chain H
同源超家族 H-superfamily homologous superfamily	10 — YVTN repeat-like/Quinoprotein amine dehydrogenase

结构域编号 domain_id	1l0qA02
类 Class class	2 — Mainly Beta
架构 Architecture architecture	60 — Sandwich
拓扑 Topology topology	40 — Immunoglobulin-like
同源超家族 H-superfamily homologous superfamily	10 — Immunoglobulins

结构域编号 domain_id	1l0qB01
类 Class class	2 — Mainly Beta
架构 Architecture architecture	130 — 7 Propeller
拓扑 Topology topology	10 — Methylamine Dehydrogenase; Chain H
同源超家族 H-superfamily homologous superfamily	10 — YVTN repeat-like/Quinoprotein amine dehydrogenase

结构域编号 domain_id	1l0qB02
类 Class class	2 — Mainly Beta
架构 Architecture architecture	60 — Sandwich
拓扑 Topology topology	40 — Immunoglobulin-like
同源超家族 H-superfamily homologous superfamily	10 — Immunoglobulins

结构域编号 domain_id	1l0qC01
类 Class class	2 — Mainly Beta
架构 Architecture architecture	130 — 7 Propeller
拓扑 Topology topology	10 — Methylamine Dehydrogenase; Chain H
同源超家族 H-superfamily homologous superfamily	10 — YVTN repeat-like/Quinoprotein amine dehydrogenase

结构域编号 domain_id	1l0qC02
类 Class class	2 — Mainly Beta
架构 Architecture architecture	60 — Sandwich
拓扑 Topology topology	40 — Immunoglobulin-like
同源超家族 H-superfamily homologous superfamily	10 — Immunoglobulins

结构域编号 domain_id	1l0qD01
类 Class class	2 — Mainly Beta
架构 Architecture architecture	130 — 7 Propeller
拓扑 Topology topology	10 — Methylamine Dehydrogenase; Chain H
同源超家族 H-superfamily homologous superfamily	10 — YVTN repeat-like/Quinoprotein amine dehydrogenase

结构域编号 domain_id	1l0qD02
类 Class class	2 — Mainly Beta
架构 Architecture architecture	60 — Sandwich
拓扑 Topology topology	40 — Immunoglobulin-like
同源超家族 H-superfamily homologous superfamily	10 — Immunoglobulins

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7. 引用文献 (6)

;Archaeal Surface Layer Proteins Contain beta Propeller, PKD, and beta Helix Domains and Are Related to Metazoan Cell Surface Proteins. ;

Structure (2002)

PMID: 12377130 · DOI: 10.1016/S0969-2126(02)00840-7 PRIMARY

Implications for familial hypercholesterolemia from structure of the LDL receptor YWTD-EGF doman pair

Nat.Struct.Biol. (2001)

DOI: 10.1038/88556

The structure of a PKD domain from polycystin-1: implications for polycystic kidney disease

Embo J. (1999)

DOI: 10.1093/emboj/18.2.297

Structure, organization, and expression of genes coding for envelope components in the archaeon Methanosarcina mazei S-6

Arch.Microbiol. (1998)

DOI: 10.1007/s002030050580

;An extracellular beta-propeller module predicted in lipoprotein and scavenger receptors, tyrosine kinases, epidermal growth factor precursor, and extracellular matrix components ;

J.Mol.Biol. (1998)

DOI: 10.1006/jmbi.1998.2115

The genome of Methanosarcina acetivorans reveals extensive metabolic and physiological diversity

To be Published

晶胞边长 a length_a	188.181 Å
晶胞边长 b length_b	65.885 Å
晶胞边长 c length_c	140.030 Å
晶胞夹角 α angle_alpha	90.00 °
晶胞夹角 β angle_beta	124.25 °
晶胞夹角 γ angle_gamma	90.00 °
晶胞分子数 Z z_pdb	16

空间群 space_group	C 1 2 1
空间群编号 int_tables_number	5
晶系 crystal_system	—

分辨率 resolution	2.400 Å
最低分辨率 resolution_low	20.000 Å
R 因子 r_factor	0.2170
R_work r_work	0.2140
R_free r_free	0.2630

描述 description	Surface layer protein
分子量 formula_weight	40796.6 kDa
来源方法 src_method	man
拷贝数 entity_count	4

聚合物类型 type	polypeptide(L)
链编号 strand_id	A,B,C,D
原子数 atom_count	12764

Tandem YVTN beta-propeller and PKD domains from an archaeal surface layer protein

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

Surface layer protein

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

1l0q__assembly_1__model_1

1l0q__assembly_1__model_1 | I(q)

1l0q__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 water

6. 折叠分类 (SCOP + CATH) 16 domains

SCOP 2.08 (8 domains)

CATH v4.4 (8 domains)

7. 引用文献 (6)

来源生物 organism	Methanosarcina mazei
NCBI 分类编号 ncbi_taxonomy_id	213585
宿主生物 host_organism	Escherichia coli

描述 description	water
分子量 formula_weight	18.0 kDa
来源方法 src_method	nat
拷贝数 entity_count	1364

Tandem YVTN beta-propeller and PKD domains from an archaeal surface layer protein

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

Surface layer protein

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

1l0q__assembly_1__model_1

1l0q__assembly_1__model_1 | I(q)

1l0q__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 water

6. 折叠分类 (SCOP + CATH) 16 domains

SCOP 2.08 (8 domains)

CATH v4.4 (8 domains)

7. 引用文献 (6)