1ffx

TUBULIN:STATHMIN-LIKE DOMAIN COMPLEX

Method: X-RAY DIFFRACTION D_max: 171.1 Å Quality: REASONABLE

SAXS 散射曲线 SAXS Profile

P(r) 距离分布 P(r) Distribution

下载 Download SAXS (.dat) P(r) (.pr.out) CIF

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1. 结构基本信息 1. Structure Basics

条目编号 entry_id	1ffx
沉积日期 deposition_date	2000-07-26
结构标题 title	TUBULIN:STATHMIN-LIKE DOMAIN COMPLEX
关键词 keywords	ALPHA-TUBULIN, BETA-TUBULIN, STATHMIN, MICROTUBULE, TUBULIN, STRUCTURAL PROTEIN; STRUCTURAL PROTEIN
实验方法 method	X-RAY DIFFRACTION

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2. SAXS 参数 (CRYSOL 理论计算) 2. SAXS Parameters (CRYSOL)

回转半径 Rg (Guinier) rg_guinier	50.81 Å
回转半径 Rg (电子) rg_electron	51.74 Å
零角强度 I(0) i0	585352000.00
分子量 molecular_weight	193350.0 kDa
排除体积 excluded_volume	238930 Å³
包络体积 envelope_volume	314560 Å³
水化壳体积 shell_volume	56949 Å³
包络直径 envelope_diameter	188.2 Å
壳层 Rg shell_rg	45.98 Å
包络 Rg envelope_rg	52.04 Å
形状 Rg shape_rg	51.72 Å
总 Rg total_rg	51.58 Å
总原子数 total_atoms	13568
残基数 n_residues	1757
球谐函数阶数 n_harmonics	20
q 范围 q_range	— – 0.5000 Å⁻¹
数据点数 n_points	101
壳层类型 shell_type	directional
溶剂电子密度 solvent_density	0.3340 e/Å³
壳层衬度 contrast_shell	0.0300 e/Å³
CRYSOL 版本 crysol_version	4.1.3

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3. P(r) 距离分布 (GNOM 反演) 3. P(r) Analysis (GNOM)

最大尺寸 Dmax dmax	171.1 Å
Rg (实空间) rg_real	51.49 Å
Rg 误差 (实空间) rg_real_error	1.90 Å
I(0) (实空间) i0_real	5.8530e+08
I(0) 误差 (实空间) i0_real_error	1.1050e+07
Rg (倒空间) rg_reciprocal	50.24 Å
I(0) (倒空间) i0_reciprocal	584400000.0000
解质量估计 total_estimate	0.6754
解质量评级 solution_quality	REASONABLE a REASONABLE solution
P(r) 峰数 n_peaks	1
主峰位置 r_peak_primary	38.6 Å
偏度 Skewness skewness	0.657
峰度 Kurtosis kurtosis	-0.384
角度范围 angular_range	— – 0.1550 Å⁻¹
当前正则化参数 α current_alpha	0.0000
最高正则化参数 α highest_alpha	118000000.0000
实空间数据点数 n_real_points	32
GNOM 版本 gnom_version	4.1.3
质量判据 quality_criteria	AN1: 0.000; Oscil: 0.455; Stabil: 1.000; Sysdev: 1.000; Positv: 1.000; Valcen: 0.350; Smooth: 0.060

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

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5. 实体与聚合体信息 (5)

Entity 1 polymer

描述 description	PROTEIN (TUBULIN)
分子量 formula_weight	50121.3 kDa
来源方法 src_method	nat
拷贝数 entity_count	2

聚合体 Polymer

聚合体类型 type	polypeptide(L)
链编号 strand_id	A,C
原子数 atom_count	13568

MRECISIHVGQAGVQIGNACWELYCLEHGIQPDGQMPSDKTIGGGDDSFNTFFSETGAGKHVPRAVFVDLEPTVIDEVRTGTYRQLFHPEQLITGKEDAANNYARGHYTIGKEIIDLVLDRIRKLADQCTGLQGFSVFHSFGGGTGSGFTSLLMERLSVDYGKKSKLEFSIYPAPQVSTAVVEPYNSILTTHTTLEHSDCAFMVDNEAIYDICRRNLDIERPTYTNLNRLIGQIVSSITASLRFDGALNVDLTEFQTNLVPYPRAHFPLATYAPVISAEKAYHEQLSVAEITNACFEPANQMVKCDPRHGKYMACCLLYRGDVVPKDVNAAIATIKTKRTIQFVDWCPTGFKVGINYEPPTVVPGGDLAKVQRAVCMLSNTTAIAEAWARLDHKFDLMYAKRAFVHWYVGEGMEEGEFSEAREDMAALEKDYEEVGVDSVEGEGEEEGEEY

Entity 2 polymer

描述 description	PROTEIN (TUBULIN)
分子量 formula_weight	49907.8 kDa
来源方法 src_method	nat
拷贝数 entity_count	2

聚合体 Polymer

聚合体类型 type	polypeptide(L)
链编号 strand_id	B,D

MREIVHIQAGQCGNQIGAKFWEVISDEHGIDPTGSYHGDSDLQLERINVYYNEAAGNKYVPRAILVDLEPGTMDSVRSGPFGQIFRPDNFVFGQSGAGNNWAKGHYTEGAELVDSVLDVVRKESESCDCLQGFQLTHSLGGGTGSGMGTLLISKIREEYPDRIMNTFSVVPSPKVSDTVVEPYNATLSVHQLVENTDETYCIDNEALYDICFRTLKLTTPTYGDLNHLVSATMSGVTTCLRFPGQLNADLRKLAVNMVPFPRLHFFMPGFAPLTSRGSQQYRALTVPELTQQMFDAKNMMAACDPRHGRYLTVAAVFRGRMSMKEVDEQMLNVQNKNSSYFVEWIPNNVKTAVCDIPPRGLKMSATFIGNSTAIQELFKRISEQFTAMFRRKAFLHWYTGEGMDEMEFTEAESNMNDLVSEYQQYQDATADEQGEFEEEGEEDEA

Entity 3 polymer

描述 description	PROTEIN (STATHMIN-LIKE DOMAIN OF RB3)
分子量 formula_weight	7762.6 kDa
来源方法 src_method	man
拷贝数 entity_count	1

聚合体 Polymer

聚合体类型 type	polypeptide(L)
链编号 strand_id	E

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来源 Source

来源生物 organism	Rattus norvegicus
通用名 common_name	Norway rat
NCBI 分类编号 ncbi_taxonomy_id	10116
宿主生物 host_organism	Escherichia coli

Entity 4 non-polymer

描述 description	GUANOSINE-5'-TRIPHOSPHATE
分子量 formula_weight	523.2 kDa
来源方法 src_method	syn
拷贝数 entity_count	2

Entity 5 non-polymer

描述 description	GUANOSINE-5'-DIPHOSPHATE
分子量 formula_weight	443.2 kDa
来源方法 src_method	syn
拷贝数 entity_count	2

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6. 折叠分类 (SCOP + CATH) 17 domains

SCOP 2.08 (5 domains)

结构域编号 domain_id	d1ffxa_
类 Class class	i — Low resolution protein structures
折叠类型 Fold fold	i.10 — Microtubule complexes
超家族 Superfamily superfamily	i.10.1 — Microtubule complexes
家族 Family family	i.10.1.1 — Microtubule complexes

结构域编号 domain_id	d1ffxb_
类 Class class	i — Low resolution protein structures
折叠类型 Fold fold	i.10 — Microtubule complexes
超家族 Superfamily superfamily	i.10.1 — Microtubule complexes
家族 Family family	i.10.1.1 — Microtubule complexes

结构域编号 domain_id	d1ffxc_
类 Class class	i — Low resolution protein structures
折叠类型 Fold fold	i.10 — Microtubule complexes
超家族 Superfamily superfamily	i.10.1 — Microtubule complexes
家族 Family family	i.10.1.1 — Microtubule complexes

结构域编号 domain_id	d1ffxd_
类 Class class	i — Low resolution protein structures
折叠类型 Fold fold	i.10 — Microtubule complexes
超家族 Superfamily superfamily	i.10.1 — Microtubule complexes
家族 Family family	i.10.1.1 — Microtubule complexes

结构域编号 domain_id	d1ffxe_
类 Class class	i — Low resolution protein structures
折叠类型 Fold fold	i.10 — Microtubule complexes
超家族 Superfamily superfamily	i.10.1 — Microtubule complexes
家族 Family family	i.10.1.1 — Microtubule complexes

CATH v4.4 (12 domains)

结构域编号 domain_id	1ffxA01
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	1440 — Tubulin/FtsZ, GTPase domain

结构域编号 domain_id	1ffxA02
类 Class class	3 — Alpha Beta
架构 Architecture architecture	30 — 2-Layer Sandwich
拓扑 Topology topology	1330 — 60s Ribosomal Protein L30; Chain: A;
同源超家族 H-superfamily homologous superfamily	20 — Tubulin/FtsZ, C-terminal domain

结构域编号 domain_id	1ffxA03
类 Class class	1 — Mainly Alpha
架构 Architecture architecture	10 — Orthogonal Bundle
拓扑 Topology topology	287 — Helix Hairpins
同源超家族 H-superfamily homologous superfamily	600 — Helix hairpin bin

结构域编号 domain_id	1ffxB01
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	1440 — Tubulin/FtsZ, GTPase domain

结构域编号 domain_id	1ffxB02
类 Class class	3 — Alpha Beta
架构 Architecture architecture	30 — 2-Layer Sandwich
拓扑 Topology topology	1330 — 60s Ribosomal Protein L30; Chain: A;
同源超家族 H-superfamily homologous superfamily	20 — Tubulin/FtsZ, C-terminal domain

结构域编号 domain_id	1ffxB03
类 Class class	1 — Mainly Alpha
架构 Architecture architecture	10 — Orthogonal Bundle
拓扑 Topology topology	287 — Helix Hairpins
同源超家族 H-superfamily homologous superfamily	600 — Helix hairpin bin

结构域编号 domain_id	1ffxC01
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	1440 — Tubulin/FtsZ, GTPase domain

结构域编号 domain_id	1ffxC02
类 Class class	3 — Alpha Beta
架构 Architecture architecture	30 — 2-Layer Sandwich
拓扑 Topology topology	1330 — 60s Ribosomal Protein L30; Chain: A;
同源超家族 H-superfamily homologous superfamily	20 — Tubulin/FtsZ, C-terminal domain

结构域编号 domain_id	1ffxC03
类 Class class	1 — Mainly Alpha
架构 Architecture architecture	10 — Orthogonal Bundle
拓扑 Topology topology	287 — Helix Hairpins
同源超家族 H-superfamily homologous superfamily	600 — Helix hairpin bin

结构域编号 domain_id	1ffxD01
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	1440 — Tubulin/FtsZ, GTPase domain

结构域编号 domain_id	1ffxD02
类 Class class	3 — Alpha Beta
架构 Architecture architecture	30 — 2-Layer Sandwich
拓扑 Topology topology	1330 — 60s Ribosomal Protein L30; Chain: A;
同源超家族 H-superfamily homologous superfamily	20 — Tubulin/FtsZ, C-terminal domain

结构域编号 domain_id	1ffxD03
类 Class class	1 — Mainly Alpha
架构 Architecture architecture	10 — Orthogonal Bundle
拓扑 Topology topology	287 — Helix Hairpins
同源超家族 H-superfamily homologous superfamily	600 — Helix hairpin bin

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7. 引用文献 (1)

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晶胞边长 a length_a	328.500 Å
晶胞边长 b length_b	328.500 Å
晶胞边长 c length_c	54.400 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	120.00 °
晶胞分子数 Z z_pdb	12

空间群 space_group	P 65
空间群编号 int_tables_number	170
晶系 crystal_system	—

分辨率 resolution	3.950 Å
最低分辨率 resolution_low	7.000 Å
R 因子 r_factor	0.2670
R_work r_work	0.2670
R_free r_free	0.3670

fit	/app/data/saxs_computation/ff/1ffx/1ffx.fit
pddf	/app/data/pr_computation/ff/1ffx/1ffx.pr.out
profile	/app/data/saxs_computation/ff/1ffx/1ffx.dat

TUBULIN:STATHMIN-LIKE DOMAIN COMPLEX

SAXS 散射曲线 SAXS Profile

P(r) 距离分布 P(r) Distribution

1. 结构基本信息 1. Structure Basics

2. SAXS 参数 (CRYSOL 理论计算) 2. SAXS Parameters (CRYSOL)

3. P(r) 距离分布 (GNOM 反演) 3. P(r) Analysis (GNOM)

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. 实体与聚合体信息 (5)

Entity 1 polymer

聚合体 Polymer

Entity 2 polymer

聚合体 Polymer

Entity 3 polymer

聚合体 Polymer

来源 Source

Entity 4 non-polymer

Entity 5 non-polymer

6. 折叠分类 (SCOP + CATH) 17 domains

SCOP 2.08 (5 domains)

CATH v4.4 (12 domains)

7. 引用文献 (1)

8. 文件与曲线 (10)

Files (7)

Curves (3)