SAXSdb — 1kpm

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

Phospholipase A2

物种未注明

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	VITAMIN E × 1 ACETIC ACID × 1 water × 1	与蛋白数一致
2	蛋白单体	单体	蛋白 1	ACETIC ACID × 3 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	PA28_DABRP
Isoform	—
PDB实体	1
链与序列区间	作者链 A； PDB构建体 1–50； UniProt 1–50 作者链 B； PDB构建体 1–50； UniProt 1–50

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	1kpm
沉积日期 deposition_date	2002-01-01
结构标题 title	First Structural Evidence of a Specific Inhibition of Phospholipase A2 by Vitamin E and its Implications in Inflammation: Crystal Structure of the Complex Formed between Phospholipase A2 and Vitamin E at 1.8 A Resolution.
关键词 keywords	phospholipase A2, Daboia russelli pulchella, neurotoxic, inflammation, HYDROLASE; HYDROLASE
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。

1kpm__assembly_1__model_1

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

下载该曲线 .dat

1kpm__assembly_1__model_1 | I(q)

100 个绘图点；横轴和纵轴均采用对数尺度。

1kpm__assembly_1__model_1 | P(r) · Pending

P(r) 将按相同 assembly/model 分别计算和展示。

Rg（Guinier）	15.00 Å
Rg（电子密度）	14.20 Å
总 Rg	15.39 Å
原子数	979
残基数	121
排除体积	17623 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	`1kpm__assembly_1__model_1`	monomeric （1）	成功	4.1.3-1-20251215 (887e7ef)	查看下载
2	1	`1kpm__assembly_2__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 (4)

实体 1 Entity 1 polymer

描述 description	Phospholipase A2
分子量 formula_weight	13629.8 kDa
EC 编号 ec_number	3.1.1.4
来源方法 src_method	nat
拷贝数 entity_count	2

聚合物 Polymer

聚合物类型 type	polypeptide(L)
链编号 strand_id	A,B
原子数 atom_count	2241

SLLEFGKMILEETGKLAIPSYSSYGCYCGWGGKGTPKDATDRCCFVHDCCYGNLPDCNPKSDRYKYKRVNGAIVCEKGTSCENRICECDKAAAICFRQNLNTYSKKYMLYPDFLCKGELKC

实体 2 Entity 2 non-polymer

描述 description	VITAMIN E
分子量 formula_weight	430.7 kDa
来源方法 src_method	syn
拷贝数 entity_count	1

实体 3 Entity 3 non-polymer

描述 description	ACETIC ACID
分子量 formula_weight	60.1 kDa
来源方法 src_method	syn
拷贝数 entity_count	4

实体 4 Entity 4 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	306

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6. 折叠分类 (SCOP + CATH) 4 domains

SCOP 2.08 (2 domains)

结构域编号 domain_id	d1kpma_
类 Class class	a — All alpha proteins
折叠类型 Fold fold	a.133 — Phospholipase A2, PLA2
超家族 Superfamily superfamily	a.133.1 — Phospholipase A2, PLA2
家族 Family family	a.133.1.2 — Vertebrate phospholipase A2

结构域编号 domain_id	d1kpmb_
类 Class class	a — All alpha proteins
折叠类型 Fold fold	a.133 — Phospholipase A2, PLA2
超家族 Superfamily superfamily	a.133.1 — Phospholipase A2, PLA2
家族 Family family	a.133.1.2 — Vertebrate phospholipase A2

CATH v4.4 (2 domains)

结构域编号 domain_id	1kpmA00
类 Class class	1 — Mainly Alpha
架构 Architecture architecture	20 — Up-down Bundle
拓扑 Topology topology	90 — Phospholipase A2
同源超家族 H-superfamily homologous superfamily	10 — Phospholipase A2 domain

结构域编号 domain_id	1kpmB00
类 Class class	1 — Mainly Alpha
架构 Architecture architecture	20 — Up-down Bundle
拓扑 Topology topology	90 — Phospholipase A2
同源超家族 H-superfamily homologous superfamily	10 — Phospholipase A2 domain

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7. 引用文献 (7)

;First Structural Evidence of a Specific Inhibition of Phospholipase A2 by alpha-Tocopherol (Vitamin E) and its Implications in Inflammation: Crystal Structure of the Complex Formed Between Phospholipase A2 and alpha-Tocopherol at 1.8 A Resolution ;

J.Mol.Biol. (2002)

PMID: 12079380 · DOI: 10.1016/S0022-2836(02)00473-4 PRIMARY

;Regulation of catalytic function by molecular association: structure of phospholipase A2 from Daboia russelli pulchella (DPLA2) at 1.9 A resolution. ;

ACTA CRYSTALLOGR.,SECT.D (2001)

DOI: 10.1107/S0907444901014524

;Three-dimensional structure of a presynaptic neurotoxic phospholipase A2 from Daboia russelli pulchella at 2.4 A resolution. ;

J.Mol.Biol. (2000)

DOI: 10.1006/jmbi.2000.3537

;First Structural Evidence of Antiinflammatory Action of Vitamin E (2,5,7,8-tetramethyl-2-(4',8',12'-trimethyltridecyl)-6-chromanol) Through its Binding to Phospholipase A2 Specifically: Crystal Structure of a Complex Formed between Phospholipase A2 and Vitamin E at 1.80 Resolution ;

To be Published

;Crystal Structure of a Complex Formed between Phospholipase A2 from Daboia russelli pulchella and a Designed Pentapeptide Phe-Leu-Ser-Tyr-Lys at 1.8 Resolution ;

To be Published

;First Structural Evidence of the Inhibition of Phospholipase A2 by Aristolochic Acid: Crystal Structure of a Complex Formed between Phospholipase A2 and Aristolochic Acid ;

To be Published

;Design of Specific Inhibitors of Phospholipase A2: Crystal Structure of a Complex Formed between Phospholipase A2 from Daboia russelli pulchella and a Designed Pentapeptide Leu-Ala-Ile-Tyr-Ser at 2.0 Resolution ;

To be Published

晶胞边长 a length_a	75.790 Å
晶胞边长 b length_b	88.510 Å
晶胞边长 c length_c	78.040 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	16

空间群 space_group	C 2 2 21
空间群编号 int_tables_number	20
晶系 crystal_system	—

分辨率 resolution	1.800 Å
最低分辨率 resolution_low	20.000 Å
R 因子 r_factor	0.1970
R_work r_work	0.1970
R_free r_free	0.2280

First Structural Evidence of a Specific Inhibition of Phospholipase A2 by Vitamin E and its Implications in Inflammation: Crystal Structure of the Complex Formed between Phospholipase A2 and Vitamin E at 1.8 A Resolution.

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

Phospholipase A2

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

1kpm__assembly_1__model_1

1kpm__assembly_1__model_1 | I(q)

1kpm__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 (4)

实体 1 Entity 1 polymer

聚合物 Polymer

实体 2 Entity 2 non-polymer

实体 3 Entity 3 non-polymer

实体 4 Entity 4 water

6. 折叠分类 (SCOP + CATH) 4 domains

SCOP 2.08 (2 domains)

CATH v4.4 (2 domains)

7. 引用文献 (7)

First Structural Evidence of a Specific Inhibition of Phospholipase A2 by Vitamin E and its Implications in Inflammation: Crystal Structure of the Complex Formed between Phospholipase A2 and Vitamin E at 1.8 A Resolution.

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

Phospholipase A2

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

1kpm__assembly_1__model_1

1kpm__assembly_1__model_1 | I(q)

1kpm__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 (4)

实体 1 Entity 1 polymer

聚合物 Polymer

实体 2 Entity 2 non-polymer

实体 3 Entity 3 non-polymer

实体 4 Entity 4 water

6. 折叠分类 (SCOP + CATH) 4 domains

SCOP 2.08 (2 domains)

CATH v4.4 (2 domains)

7. 引用文献 (7)