8fb2

;HUMAN RETENOID-RELATED ORPHAN RECEPTOR-GAMMA (RORC2) LIGAND-BINDING DOMAIN IN COMPLEX WITH COMPOUND 8 ANDINDAZOLE ACID BOUND IN H12-POCKET ;

Method: X-RAY DIFFRACTION D_max: 111.3 Å Quality: GOOD

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	8fb2
沉积日期 deposition_date	2022-11-29
结构标题 title	;HUMAN RETENOID-RELATED ORPHAN RECEPTOR-GAMMA (RORC2) LIGAND-BINDING DOMAIN IN COMPLEX WITH COMPOUND 8 ANDINDAZOLE ACID BOUND IN H12-POCKET ;
关键词 keywords	RORC2, RORgammat, structure-based design, macrocyclization, topical delivery, DNA BINDING PROTEIN; DNA BINDING 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	32.30 Å
回转半径 Rg (电子) rg_electron	32.26 Å
零角强度 I(0) i0	55329500.00
分子量 molecular_weight	59356.0 kDa
排除体积 excluded_volume	74532 Å³
包络体积 envelope_volume	94345 Å³
水化壳体积 shell_volume	26791 Å³
包络直径 envelope_diameter	112.2 Å
壳层 Rg shell_rg	35.59 Å
包络 Rg envelope_rg	32.13 Å
形状 Rg shape_rg	32.26 Å
总 Rg total_rg	32.56 Å
总原子数 total_atoms	4239
残基数 n_residues	497
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	111.3 Å
Rg (实空间) rg_real	32.76 Å
Rg 误差 (实空间) rg_real_error	1.17 Å
I(0) (实空间) i0_real	5.5330e+07
I(0) 误差 (实空间) i0_real_error	9.5720e+05
Rg (倒空间) rg_reciprocal	32.57 Å
I(0) (倒空间) i0_reciprocal	55320000.0000
解质量估计 total_estimate	0.7635
解质量评级 solution_quality	GOOD a GOOD solution
P(r) 峰数 n_peaks	2
主峰位置 r_peak_primary	25.0 Å
偏度 Skewness skewness	0.526
峰度 Kurtosis kurtosis	-0.554
角度范围 angular_range	— – 0.2450 Å⁻¹
当前正则化参数 α current_alpha	0.0000
最高正则化参数 α highest_alpha	19830000.0000
实空间数据点数 n_real_points	50
GNOM 版本 gnom_version	4.1.3
质量判据 quality_criteria	AN1: 0.000; Oscil: 0.530; Stabil: 0.997; Sysdev: 1.000; Positv: 1.000; Valcen: 0.511; Smooth: 0.829

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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 (4)

Entity 1 polymer

描述 description	Nuclear receptor ROR-gamma
分子量 formula_weight	30250.8 kDa
突变 mutation	C278S, C345S
来源方法 src_method	man
拷贝数 entity_count	2

聚合体 Polymer

聚合体类型 type	polypeptide(L)
链编号 strand_id	A,B
原子数 atom_count	4441

SMPTPEAPYASLTEIEHLVQSVSKSYRETCQLRLEDLLRQRSNIFSREEVTGYQRKSMWEMWERCAHHLTEAIQYVVEFAKRLSGFMELSQNDQIVLLKAGAMEVVLVRMCRAYNADNRTVFFEGKYGGMELFRALGCSELISSIFDFSHSLSALHFSEDEIALYTALVLINAHRPGLQEKRKVEQLQYNLELAFHHHLCKTHRQSILAKLPPKGKLRSLCSQHVERLQIFQHLHPIVVQAAFPPLYKELFSTETESPVGLS

来源 Source

来源生物 organism	Homo sapiens
通用名 common_name	human
NCBI 分类编号 ncbi_taxonomy_id	9606
宿主生物 host_organism	Escherichia coli

Entity 2 non-polymer

描述 description	;(1R,15S)-16-(cyclopropylacetyl)-5-fluoro-20-methyl-9lambda~6~-thia-1,8,16-triazatricyclo[13.3.1.1~3,7~]icosa-3(20),4,6-triene-9,9-dione ;
分子量 formula_weight	437.6 kDa
来源方法 src_method	syn
拷贝数 entity_count	2

Entity 3 non-polymer

描述 description	4-[1-(2,6-dichlorobenzoyl)-4-fluoro-1H-indazol-3-yl]benzoic acid
分子量 formula_weight	429.2 kDa
来源方法 src_method	syn
拷贝数 entity_count	2

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	191

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7. 引用文献 (1)

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晶胞边长 a length_a	47.600 Å
晶胞边长 b length_b	97.680 Å
晶胞边长 c length_c	56.810 Å
晶胞夹角 α angle_alpha	90.00 °
晶胞夹角 β angle_beta	91.43 °
晶胞夹角 γ angle_gamma	90.00 °
晶胞分子数 Z z_pdb	4

空间群 space_group	P 1 21 1
空间群编号 int_tables_number	4
晶系 crystal_system	—

分辨率 resolution	2.300 Å
最低分辨率 resolution_low	25.530 Å
R 因子 r_factor	0.1812
R_work r_work	0.1785
R_free r_free	0.2299

fit	/app/data/saxs_computation/fb/8fb2/8fb2.fit
pddf	/app/data/pr_computation/fb/8fb2/8fb2.pr.out
profile	/app/data/saxs_computation/fb/8fb2/8fb2.dat

;HUMAN RETENOID-RELATED ORPHAN RECEPTOR-GAMMA (RORC2) LIGAND-BINDING DOMAIN IN COMPLEX WITH COMPOUND 8 ANDINDAZOLE ACID BOUND IN H12-POCKET ;

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