3nhq

The dark Pfr structure of the photosensory core module of P. aeruginosa Bacteriophytochrome

Method: X-RAY DIFFRACTION

▼

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

Bacteriophytochrome

Pseudomonas aeruginosa

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 2	BILIVERDINE IX ALPHA × 2 water × 2	与蛋白数一致
2	蛋白同源多聚体	同源多聚体	蛋白 2	BILIVERDINE IX ALPHA × 2 water × 2	与蛋白数一致
3	蛋白同源多聚体	同源多聚体	蛋白 2	BILIVERDINE IX ALPHA × 2 water × 2	与蛋白数一致
4	蛋白同源多聚体	同源多聚体	蛋白 2	BILIVERDINE IX ALPHA × 2 water × 2	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	BPHY_PSEAE
Isoform	—
PDB实体	1
链与序列区间	作者链 A； PDB构建体 1–497； UniProt 1–497 作者链 B； PDB构建体 1–497； UniProt 1–497 作者链 C； PDB构建体 1–497； UniProt 1–497 作者链 D； PDB构建体 1–497； UniProt 1–497 作者链 E； PDB构建体 1–497； UniProt 1–497 作者链 F； PDB构建体 1–497； UniProt 1–497 作者链 G； PDB构建体 1–497； UniProt 1–497 作者链 H； PDB构建体 1–497； UniProt 1–497

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	3nhq
沉积日期 deposition_date	2010-06-14
结构标题 title	The dark Pfr structure of the photosensory core module of P. aeruginosa Bacteriophytochrome
关键词 keywords	Photoreceptor, phytochrome, PAS, signaling, SIGNALING PROTEIN; SIGNALING PROTEIN
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。

3nhq__assembly_4__model_1

Assembly 4 · Model 1 · CRYSOL 4.1.3-1-20251215 (887e7ef)

下载该曲线 .dat

3nhq__assembly_4__model_1 | I(q)

100 个绘图点；横轴和纵轴均采用对数尺度。

3nhq__assembly_4__model_1 | P(r) · Pending

P(r) 将按相同 assembly/model 分别计算和展示。

Rg（Guinier）	34.67 Å
Rg（电子密度）	33.85 Å
总 Rg	34.35 Å
原子数	7707
残基数	963
排除体积	136250 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	`3nhq__assembly_1__model_1`	dimeric （2）	成功	4.1.3-1-20251215 (887e7ef)	查看下载
2	1	`3nhq__assembly_2__model_1`	dimeric （2）	成功	4.1.3-1-20251215 (887e7ef)	查看下载
3	1	`3nhq__assembly_3__model_1`	dimeric （2）	成功	4.1.3-1-20251215 (887e7ef)	查看下载
4	1	`3nhq__assembly_4__model_1`	dimeric （2）	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 (3)

实体 1 Entity 1 polymer

描述 description	Bacteriophytochrome
分子量 formula_weight	56823.2 kDa
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,B,C,D,E,F,G,H
原子数 atom_count	30788

MTSITPVTLANCEDEPIHVPGAIQPHGALVTLRADGMVLAASENIQALLGFVASPGSYLTQEQVGPEVLRMLEEGLTGNGPWSNSVETRIGEHLFDVIGHSYKEVFYLEFEIRTADTLSITSFTLNAQRIIAQVQLHNDTASLLSNVTDELRRMTGYDRVMAYRFRHDDSGEVVAESRREDLESYLGQRYPASDIPAQARRLYIQNPIRLIADVAYTPMRVFPALNPETNESFDLSYSVLRSVSPIHCEYLTNMGVRASMSISIVVGGKLWGLFSCHHMSPKLIPYPVRMSFQIFSQVCSAIVERLEQGRIAELLRVSTERRLALARRARDADDLFGALAHPDDGIAALIPCDGALVMLGGRTLSIRGDFERQAGNVLQRLQRDPERDIYHTDNWPQPSEDSPDGGDCCGVLAIRFHRQESGWIFWFRHEEVHRIRWGGKPEKLLTIGPSGPRLTPRGSFEAWEEVVRGHSTPWSETDLAIAEKLRLDLMELCLNHALEHHHHHH

来源 Source

来源生物 organism	Pseudomonas aeruginosa
NCBI 分类编号 ncbi_taxonomy_id	287
宿主生物 host_organism	Escherichia coli

实体 2 Entity 2 non-polymer

描述 description	BILIVERDINE IX ALPHA
分子量 formula_weight	582.6 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	201

▼

6. 折叠分类 (SCOP + CATH) 49 domains

SCOP 2.08 (25 domains)

结构域编号 domain_id	d3nhqa1
类 Class class	d — Alpha and beta proteins (a+b)
折叠类型 Fold fold	d.110 — Profilin-like
超家族 Superfamily superfamily	d.110.3 — PYP-like sensor domain (PAS domain)
家族 Family family	d.110.3.9 — BphP N-terminal domain-like

结构域编号 domain_id	d3nhqa2
类 Class class	d — Alpha and beta proteins (a+b)
折叠类型 Fold fold	d.110 — Profilin-like
超家族 Superfamily superfamily	d.110.2 — GAF domain-like
家族 Family family	d.110.2.1 — GAF domain

结构域编号 domain_id	d3nhqa3
类 Class class	d — Alpha and beta proteins (a+b)
折叠类型 Fold fold	d.110 — Profilin-like
超家族 Superfamily superfamily	d.110.2 — GAF domain-like
家族 Family family	d.110.2.4 — Phytochrome-specific domain

结构域编号 domain_id	d3nhqb1
类 Class class	d — Alpha and beta proteins (a+b)
折叠类型 Fold fold	d.110 — Profilin-like
超家族 Superfamily superfamily	d.110.3 — PYP-like sensor domain (PAS domain)
家族 Family family	d.110.3.9 — BphP N-terminal domain-like

结构域编号 domain_id	d3nhqb2
类 Class class	d — Alpha and beta proteins (a+b)
折叠类型 Fold fold	d.110 — Profilin-like
超家族 Superfamily superfamily	d.110.2 — GAF domain-like
家族 Family family	d.110.2.1 — GAF domain

结构域编号 domain_id	d3nhqb3
类 Class class	d — Alpha and beta proteins (a+b)
折叠类型 Fold fold	d.110 — Profilin-like
超家族 Superfamily superfamily	d.110.2 — GAF domain-like
家族 Family family	d.110.2.4 — Phytochrome-specific domain

结构域编号 domain_id	d3nhqc1
类 Class class	d — Alpha and beta proteins (a+b)
折叠类型 Fold fold	d.110 — Profilin-like
超家族 Superfamily superfamily	d.110.3 — PYP-like sensor domain (PAS domain)
家族 Family family	d.110.3.9 — BphP N-terminal domain-like

结构域编号 domain_id	d3nhqc2
类 Class class	d — Alpha and beta proteins (a+b)
折叠类型 Fold fold	d.110 — Profilin-like
超家族 Superfamily superfamily	d.110.2 — GAF domain-like
家族 Family family	d.110.2.1 — GAF domain

结构域编号 domain_id	d3nhqc3
类 Class class	d — Alpha and beta proteins (a+b)
折叠类型 Fold fold	d.110 — Profilin-like
超家族 Superfamily superfamily	d.110.2 — GAF domain-like
家族 Family family	d.110.2.4 — Phytochrome-specific domain

结构域编号 domain_id	d3nhqd1
类 Class class	d — Alpha and beta proteins (a+b)
折叠类型 Fold fold	d.110 — Profilin-like
超家族 Superfamily superfamily	d.110.3 — PYP-like sensor domain (PAS domain)
家族 Family family	d.110.3.9 — BphP N-terminal domain-like

结构域编号 domain_id	d3nhqd2
类 Class class	d — Alpha and beta proteins (a+b)
折叠类型 Fold fold	d.110 — Profilin-like
超家族 Superfamily superfamily	d.110.2 — GAF domain-like
家族 Family family	d.110.2.1 — GAF domain

结构域编号 domain_id	d3nhqd3
类 Class class	d — Alpha and beta proteins (a+b)
折叠类型 Fold fold	d.110 — Profilin-like
超家族 Superfamily superfamily	d.110.2 — GAF domain-like
家族 Family family	d.110.2.4 — Phytochrome-specific domain

结构域编号 domain_id	d3nhqe1
类 Class class	d — Alpha and beta proteins (a+b)
折叠类型 Fold fold	d.110 — Profilin-like
超家族 Superfamily superfamily	d.110.3 — PYP-like sensor domain (PAS domain)
家族 Family family	d.110.3.9 — BphP N-terminal domain-like

结构域编号 domain_id	d3nhqe2
类 Class class	d — Alpha and beta proteins (a+b)
折叠类型 Fold fold	d.110 — Profilin-like
超家族 Superfamily superfamily	d.110.2 — GAF domain-like
家族 Family family	d.110.2.1 — GAF domain

结构域编号 domain_id	d3nhqe3
类 Class class	d — Alpha and beta proteins (a+b)
折叠类型 Fold fold	d.110 — Profilin-like
超家族 Superfamily superfamily	d.110.2 — GAF domain-like
家族 Family family	d.110.2.4 — Phytochrome-specific domain

结构域编号 domain_id	d3nhqf1
类 Class class	d — Alpha and beta proteins (a+b)
折叠类型 Fold fold	d.110 — Profilin-like
超家族 Superfamily superfamily	d.110.3 — PYP-like sensor domain (PAS domain)
家族 Family family	d.110.3.9 — BphP N-terminal domain-like

结构域编号 domain_id	d3nhqf2
类 Class class	d — Alpha and beta proteins (a+b)
折叠类型 Fold fold	d.110 — Profilin-like
超家族 Superfamily superfamily	d.110.2 — GAF domain-like
家族 Family family	d.110.2.1 — GAF domain

结构域编号 domain_id	d3nhqf3
类 Class class	d — Alpha and beta proteins (a+b)
折叠类型 Fold fold	d.110 — Profilin-like
超家族 Superfamily superfamily	d.110.2 — GAF domain-like
家族 Family family	d.110.2.4 — Phytochrome-specific domain

结构域编号 domain_id	d3nhqf4
类 Class class	l — Artifacts
折叠类型 Fold fold	l.1 — Tags
超家族 Superfamily superfamily	l.1.1 — Tags
家族 Family family	l.1.1.1 — Tags

结构域编号 domain_id	d3nhqg1
类 Class class	d — Alpha and beta proteins (a+b)
折叠类型 Fold fold	d.110 — Profilin-like
超家族 Superfamily superfamily	d.110.3 — PYP-like sensor domain (PAS domain)
家族 Family family	d.110.3.9 — BphP N-terminal domain-like

结构域编号 domain_id	d3nhqg2
类 Class class	d — Alpha and beta proteins (a+b)
折叠类型 Fold fold	d.110 — Profilin-like
超家族 Superfamily superfamily	d.110.2 — GAF domain-like
家族 Family family	d.110.2.1 — GAF domain

结构域编号 domain_id	d3nhqg3
类 Class class	d — Alpha and beta proteins (a+b)
折叠类型 Fold fold	d.110 — Profilin-like
超家族 Superfamily superfamily	d.110.2 — GAF domain-like
家族 Family family	d.110.2.4 — Phytochrome-specific domain

结构域编号 domain_id	d3nhqh1
类 Class class	d — Alpha and beta proteins (a+b)
折叠类型 Fold fold	d.110 — Profilin-like
超家族 Superfamily superfamily	d.110.3 — PYP-like sensor domain (PAS domain)
家族 Family family	d.110.3.9 — BphP N-terminal domain-like

结构域编号 domain_id	d3nhqh2
类 Class class	d — Alpha and beta proteins (a+b)
折叠类型 Fold fold	d.110 — Profilin-like
超家族 Superfamily superfamily	d.110.2 — GAF domain-like
家族 Family family	d.110.2.1 — GAF domain

结构域编号 domain_id	d3nhqh3
类 Class class	d — Alpha and beta proteins (a+b)
折叠类型 Fold fold	d.110 — Profilin-like
超家族 Superfamily superfamily	d.110.2 — GAF domain-like
家族 Family family	d.110.2.4 — Phytochrome-specific domain

CATH v4.4 (24 domains)

结构域编号 domain_id	3nhqA01
类 Class class	3 — Alpha Beta
架构 Architecture architecture	30 — 2-Layer Sandwich
拓扑 Topology topology	450 — Beta-Lactamase
同源超家族 H-superfamily homologous superfamily	40 — GAF domain

结构域编号 domain_id	3nhqA02
类 Class class	3 — Alpha Beta
架构 Architecture architecture	30 — 2-Layer Sandwich
拓扑 Topology topology	450 — Beta-Lactamase
同源超家族 H-superfamily homologous superfamily	20 — PAS domain

结构域编号 domain_id	3nhqA03
类 Class class	3 — Alpha Beta
架构 Architecture architecture	30 — 2-Layer Sandwich
拓扑 Topology topology	450 — Beta-Lactamase
同源超家族 H-superfamily homologous superfamily	270 — PHY domain

结构域编号 domain_id	3nhqB01
类 Class class	3 — Alpha Beta
架构 Architecture architecture	30 — 2-Layer Sandwich
拓扑 Topology topology	450 — Beta-Lactamase
同源超家族 H-superfamily homologous superfamily	40 — GAF domain

结构域编号 domain_id	3nhqB02
类 Class class	3 — Alpha Beta
架构 Architecture architecture	30 — 2-Layer Sandwich
拓扑 Topology topology	450 — Beta-Lactamase
同源超家族 H-superfamily homologous superfamily	20 — PAS domain

结构域编号 domain_id	3nhqB03
类 Class class	3 — Alpha Beta
架构 Architecture architecture	30 — 2-Layer Sandwich
拓扑 Topology topology	450 — Beta-Lactamase
同源超家族 H-superfamily homologous superfamily	270 — PHY domain

结构域编号 domain_id	3nhqC01
类 Class class	3 — Alpha Beta
架构 Architecture architecture	30 — 2-Layer Sandwich
拓扑 Topology topology	450 — Beta-Lactamase
同源超家族 H-superfamily homologous superfamily	40 — GAF domain

结构域编号 domain_id	3nhqC02
类 Class class	3 — Alpha Beta
架构 Architecture architecture	30 — 2-Layer Sandwich
拓扑 Topology topology	450 — Beta-Lactamase
同源超家族 H-superfamily homologous superfamily	20 — PAS domain

结构域编号 domain_id	3nhqC03
类 Class class	3 — Alpha Beta
架构 Architecture architecture	30 — 2-Layer Sandwich
拓扑 Topology topology	450 — Beta-Lactamase
同源超家族 H-superfamily homologous superfamily	270 — PHY domain

结构域编号 domain_id	3nhqD01
类 Class class	3 — Alpha Beta
架构 Architecture architecture	30 — 2-Layer Sandwich
拓扑 Topology topology	450 — Beta-Lactamase
同源超家族 H-superfamily homologous superfamily	40 — GAF domain

结构域编号 domain_id	3nhqD02
类 Class class	3 — Alpha Beta
架构 Architecture architecture	30 — 2-Layer Sandwich
拓扑 Topology topology	450 — Beta-Lactamase
同源超家族 H-superfamily homologous superfamily	20 — PAS domain

结构域编号 domain_id	3nhqD03
类 Class class	3 — Alpha Beta
架构 Architecture architecture	30 — 2-Layer Sandwich
拓扑 Topology topology	450 — Beta-Lactamase
同源超家族 H-superfamily homologous superfamily	270 — PHY domain

结构域编号 domain_id	3nhqE01
类 Class class	3 — Alpha Beta
架构 Architecture architecture	30 — 2-Layer Sandwich
拓扑 Topology topology	450 — Beta-Lactamase
同源超家族 H-superfamily homologous superfamily	40 — GAF domain

结构域编号 domain_id	3nhqE02
类 Class class	3 — Alpha Beta
架构 Architecture architecture	30 — 2-Layer Sandwich
拓扑 Topology topology	450 — Beta-Lactamase
同源超家族 H-superfamily homologous superfamily	20 — PAS domain

结构域编号 domain_id	3nhqE03
类 Class class	3 — Alpha Beta
架构 Architecture architecture	30 — 2-Layer Sandwich
拓扑 Topology topology	450 — Beta-Lactamase
同源超家族 H-superfamily homologous superfamily	270 — PHY domain

结构域编号 domain_id	3nhqF01
类 Class class	3 — Alpha Beta
架构 Architecture architecture	30 — 2-Layer Sandwich
拓扑 Topology topology	450 — Beta-Lactamase
同源超家族 H-superfamily homologous superfamily	40 — GAF domain

结构域编号 domain_id	3nhqF02
类 Class class	3 — Alpha Beta
架构 Architecture architecture	30 — 2-Layer Sandwich
拓扑 Topology topology	450 — Beta-Lactamase
同源超家族 H-superfamily homologous superfamily	20 — PAS domain

结构域编号 domain_id	3nhqF03
类 Class class	3 — Alpha Beta
架构 Architecture architecture	30 — 2-Layer Sandwich
拓扑 Topology topology	450 — Beta-Lactamase
同源超家族 H-superfamily homologous superfamily	270 — PHY domain

结构域编号 domain_id	3nhqG01
类 Class class	3 — Alpha Beta
架构 Architecture architecture	30 — 2-Layer Sandwich
拓扑 Topology topology	450 — Beta-Lactamase
同源超家族 H-superfamily homologous superfamily	40 — GAF domain

结构域编号 domain_id	3nhqG02
类 Class class	3 — Alpha Beta
架构 Architecture architecture	30 — 2-Layer Sandwich
拓扑 Topology topology	450 — Beta-Lactamase
同源超家族 H-superfamily homologous superfamily	20 — PAS domain

结构域编号 domain_id	3nhqG03
类 Class class	3 — Alpha Beta
架构 Architecture architecture	30 — 2-Layer Sandwich
拓扑 Topology topology	450 — Beta-Lactamase
同源超家族 H-superfamily homologous superfamily	270 — PHY domain

结构域编号 domain_id	3nhqH01
类 Class class	3 — Alpha Beta
架构 Architecture architecture	30 — 2-Layer Sandwich
拓扑 Topology topology	450 — Beta-Lactamase
同源超家族 H-superfamily homologous superfamily	40 — GAF domain

结构域编号 domain_id	3nhqH02
类 Class class	3 — Alpha Beta
架构 Architecture architecture	30 — 2-Layer Sandwich
拓扑 Topology topology	450 — Beta-Lactamase
同源超家族 H-superfamily homologous superfamily	20 — PAS domain

结构域编号 domain_id	3nhqH03
类 Class class	3 — Alpha Beta
架构 Architecture architecture	30 — 2-Layer Sandwich
拓扑 Topology topology	450 — Beta-Lactamase
同源超家族 H-superfamily homologous superfamily	270 — PHY domain

▶

晶胞边长 a length_a	154.380 Å
晶胞边长 b length_b	162.979 Å
晶胞边长 c length_c	436.098 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	64

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	2.550 Å
最低分辨率 resolution_low	48.480 Å
R 因子 r_factor	0.2174
R_work r_work	0.2152
R_free r_free	0.2579

The dark Pfr structure of the photosensory core module of P. aeruginosa Bacteriophytochrome

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

Bacteriophytochrome

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

3nhq__assembly_4__model_1

3nhq__assembly_4__model_1 | I(q)

3nhq__assembly_4__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) 49 domains

SCOP 2.08 (25 domains)

CATH v4.4 (24 domains)

7. 引用文献 (2)

The dark Pfr structure of the photosensory core module of P. aeruginosa Bacteriophytochrome

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

Bacteriophytochrome

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

3nhq__assembly_4__model_1

3nhq__assembly_4__model_1 | I(q)

3nhq__assembly_4__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) 49 domains

SCOP 2.08 (25 domains)

CATH v4.4 (24 domains)

7. 引用文献 (2)