SAXSdb — 1suv

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1. 结构基本信息 1. Structure Basics

条目编号 entry_id	1suv
沉积日期 deposition_date	2004-03-26
结构标题 title	Structure of Human Transferrin Receptor-Transferrin Complex
关键词 keywords	Protein Complex, METAL TRANSPORT; METAL TRANSPORT
实验方法 method	ELECTRON MICROSCOPY

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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	43.72 Å
回转半径 Rg (电子) rg_electron	42.83 Å
零角强度 I(0) i0	1261060000.00
分子量 molecular_weight	292590.0 kDa
排除体积 excluded_volume	365380 Å³
包络体积 envelope_volume	471790 Å³
水化壳体积 shell_volume	88260 Å³
包络直径 envelope_diameter	144.0 Å
壳层 Rg shell_rg	50.47 Å
包络 Rg envelope_rg	42.24 Å
形状 Rg shape_rg	42.79 Å
总 Rg total_rg	43.29 Å
总原子数 total_atoms	20572
残基数 n_residues	2626
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	137.7 Å
Rg (实空间) rg_real	43.46 Å
Rg 误差 (实空间) rg_real_error	1.01 Å
I(0) (实空间) i0_real	1.2610e+09
I(0) 误差 (实空间) i0_real_error	2.2060e+07
Rg (倒空间) rg_reciprocal	43.72 Å
I(0) (倒空间) i0_reciprocal	1261000000.0000
解质量估计 total_estimate	0.8887
解质量评级 solution_quality	GOOD a GOOD solution
P(r) 峰数 n_peaks	1
主峰位置 r_peak_primary	57.4 Å
偏度 Skewness skewness	0.117
峰度 Kurtosis kurtosis	-0.445
角度范围 angular_range	— – 0.1800 Å⁻¹
当前正则化参数 α current_alpha	0.0000
最高正则化参数 α highest_alpha	129100000.0000
实空间数据点数 n_real_points	37
GNOM 版本 gnom_version	4.1.3
质量判据 quality_criteria	AN1: 0.000; Oscil: 0.891; Stabil: 1.000; Sysdev: 1.000; Positv: 1.000; Valcen: 0.970; Smooth: 0.905

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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	Transferrin receptor protein 1
分子量 formula_weight	71623.0 kDa
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	20612

LYWDDLKRKLSEKLDSTDFTSTIKLLNENSYVPREAGSQKDENLALYVENEFREFKLSKVWRDQHFVKIQVKDSAQNSVIIVDKNGRLVYLVENPGGYVAYSKAATVTGKLVHANFGTKKDFEDLYTPVNGSIVIVRAGKITFAEKVANAESLNAIGVLIYMDQTKFPIVNAELSFFGHAHLGTGDPYTPGFPSFNHTQFPPSRSSGLPNIPVQTISRAAAEKLFGNMEGDCPSDWKTDSTCRMVTSESKNVKLTVSNVLKEIKILNIFGVIKGFVEPDHYVVVGAQRDAWGPGAAKSGVGTALLLKLAQMFSDMVLKDGFQPSRSIIFASWSAGDFGSVGATEWLEGYLSSLHLKAFTYINLDKAVLGTSNFKVSASPLLYTLIEKTMQNVKHPVTGQFLYQDSNWASKVEKLTLDNAAFPFLAYSGIPAVSFCFCEDTDYPYLGTTMDTYKELIERIPELNKVARAAAEVAGQFVIKLTHDVELNLDYEEYNSQLLSFVRDLNQYRADIKEMGLSLQWLYSARGDFFRATSRLTTDFGNAEKTDRFVMKKLNDRVMRVEYHFLSPYVSPKESPFRHVFWGSGSHTLPALLENLKLRKQNNGAFNETLFRNQLALATWTIQGAANALSGDVWDIDNEF

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	Cricetulus griseus

Entity 2 polymer

描述 description	Serotransferrin, N-lobe
分子量 formula_weight	36408.4 kDa
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	C,D

DKTVRWCAVSEHEATKCQSFRDHMKSVIPSDGPSVACVKKASYLDCIRAIAANEADAVTLDAGLVYDAYLAPNNLKPVVAEFYGSKEDPQTFYYAVAVVKKDSGFQMNQLRGKKSCHTGLGRSAGWNIPIGLLYCDLPEPRKPLEKAVANFFSGSCAPCADGTDFPQLCQLCPGCGCSTLNQYFGYSGAFKCLKDGAGDVAFVKHSTIFENLANKADRDQYELLCLDNTRKPVDEYKDCHLAQVPSHTVVARSMGGKEDLIWELLNQAQEHFGKDKSKEFQLFSSPHGKDLLFKDSAHGFLKVPPRMDAKMYLGYEYVTAIRNLREGTC

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	Cricetulus griseus

Entity 3 polymer

描述 description	Serotransferrin, C-lobe
分子量 formula_weight	38300.4 kDa
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	E,F

PDPLQDECKAVKWCALGHHERLKCDEWSVTSGGLIECESAETPEDCIAKIMNGEADAMSLDGGYVYIAGQCGLVPVLAENYESTDCKKAPEEGYLSVAVVKKSNPDINWNNLEGKKSCHTAVDRTAGWNIPMGLLYNRINHCRFDEFFRQGCAPGSQKNSSLCELCVGPSVCAPNNREGYYGYTGAFRCLVEKGDVAFVKSQTVLQNTGGRNSEPWAKDLKEEDFELLCLDGTRKPVSEAHNCHLAKAPNHAVVSRKDKAACVKQKLLDLQVEFGNTVADCSSKFCMFHSKTKDLLFRDDTKCLVDLRGKNTYEKYLGADYIKAVSNLRKCSTSRLLEACTFHKH

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	Cricetulus griseus

Entity 4 non-polymer

描述 description	CARBONATE ION
分子量 formula_weight	60.0 kDa
来源方法 src_method	syn
拷贝数 entity_count	4

Entity 5 non-polymer

描述 description	FE (III) ION
分子量 formula_weight	55.8 kDa
来源方法 src_method	syn
拷贝数 entity_count	4

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6. 折叠分类 (SCOP + CATH) 6 domains

SCOP 2.08 (6 domains)

结构域编号 domain_id	d1suva_
类 Class class	i — Low resolution protein structures
折叠类型 Fold fold	i.21 — Transferrin receptor-transferrin complex
超家族 Superfamily superfamily	i.21.1 — Transferrin receptor-transferrin complex
家族 Family family	i.21.1.1 — Transferrin receptor-transferrin complex

结构域编号 domain_id	d1suvb_
类 Class class	i — Low resolution protein structures
折叠类型 Fold fold	i.21 — Transferrin receptor-transferrin complex
超家族 Superfamily superfamily	i.21.1 — Transferrin receptor-transferrin complex
家族 Family family	i.21.1.1 — Transferrin receptor-transferrin complex

结构域编号 domain_id	d1suvc_
类 Class class	i — Low resolution protein structures
折叠类型 Fold fold	i.21 — Transferrin receptor-transferrin complex
超家族 Superfamily superfamily	i.21.1 — Transferrin receptor-transferrin complex
家族 Family family	i.21.1.1 — Transferrin receptor-transferrin complex

结构域编号 domain_id	d1suvd_
类 Class class	i — Low resolution protein structures
折叠类型 Fold fold	i.21 — Transferrin receptor-transferrin complex
超家族 Superfamily superfamily	i.21.1 — Transferrin receptor-transferrin complex
家族 Family family	i.21.1.1 — Transferrin receptor-transferrin complex

结构域编号 domain_id	d1suve_
类 Class class	i — Low resolution protein structures
折叠类型 Fold fold	i.21 — Transferrin receptor-transferrin complex
超家族 Superfamily superfamily	i.21.1 — Transferrin receptor-transferrin complex
家族 Family family	i.21.1.1 — Transferrin receptor-transferrin complex

结构域编号 domain_id	d1suvf_
类 Class class	i — Low resolution protein structures
折叠类型 Fold fold	i.21 — Transferrin receptor-transferrin complex
超家族 Superfamily superfamily	i.21.1 — Transferrin receptor-transferrin complex
家族 Family family	i.21.1.1 — Transferrin receptor-transferrin complex

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7. 引用文献 (1)

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晶胞边长 a length_a	1.000 Å
晶胞边长 b length_b	1.000 Å
晶胞边长 c length_c	1.000 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	1

分辨率 resolution	7.50 Å
分辨率测定方法 resolution_method	Fourier Space reconstruction
颗粒数 num_particles	—

fit	/app/data/saxs_computation/su/1suv/1suv.fit
pddf	/app/data/pr_computation/su/1suv/1suv.pr.out
profile	/app/data/saxs_computation/su/1suv/1suv.dat

Structure of Human Transferrin Receptor-Transferrin 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

冷冻电镜 EM 3D

5. 实体与聚合体信息 (5)

Entity 1 polymer

聚合体 Polymer

来源 Source

Entity 2 polymer

聚合体 Polymer

来源 Source

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) 6 domains

SCOP 2.08 (6 domains)

7. 引用文献 (1)

8. 文件与曲线 (10)

Files (7)

Curves (3)