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1lm1

Structural studies on the synchronization of catalytic centers in glutamate synthase: native enzyme

Method: X-RAY DIFFRACTION Dmax: 101.8 Å Quality: EXCELLENT

SAXS 散射曲线 SAXS Profile

SAXS profile for 1lm1

P(r) 距离分布 P(r) Distribution

P(r) distribution for 1lm1
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1. 结构基本信息 1. Structure Basics

条目编号 entry_id1lm1
沉积日期 deposition_date2002-04-30
结构标题 titleStructural studies on the synchronization of catalytic centers in glutamate synthase: native enzyme
关键词 keywordsglutamate synthase, channeling, amidotransferase, Oxidoreductase; OXIDOREDUCTASE
实验方法 methodX-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_guinier33.33 Å
回转半径 Rg (电子) rg_electron32.41 Å
零角强度 I(0) i0406734000.00
分子量 molecular_weight161700.0 kDa
排除体积 excluded_volume201910 ų
包络体积 envelope_volume238340 ų
水化壳体积 shell_volume57338 ų
包络直径 envelope_diameter109.8 Å
壳层 Rg shell_rg41.92 Å
包络 Rg envelope_rg32.77 Å
形状 Rg shape_rg32.43 Å
总 Rg total_rg33.02 Å
总原子数 total_atoms11357
残基数 n_residues1475
球谐函数阶数 n_harmonics20
q 范围 q_range— – 0.5000 Å−1
数据点数 n_points101
壳层类型 shell_typedirectional
溶剂电子密度 solvent_density0.3340 e/ų
壳层衬度 contrast_shell0.0300 e/ų
CRYSOL 版本 crysol_version4.1.3
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3. P(r) 距离分布 (GNOM 反演) 3. P(r) Analysis (GNOM)

最大尺寸 Dmax dmax101.8 Å
Rg (实空间) rg_real33.08 Å
Rg 误差 (实空间) rg_real_error0.53 Å
I(0) (实空间) i0_real4.0670e+08
I(0) 误差 (实空间) i0_real_error5.6870e+06
Rg (倒空间) rg_reciprocal33.19 Å
I(0) (倒空间) i0_reciprocal406800000.0000
解质量估计 total_estimate0.9026
解质量评级 solution_quality EXCELLENT a EXCELLENT solution
P(r) 峰数 n_peaks2
主峰位置 r_peak_primary42.4 Å
偏度 Skewness skewness0.130
峰度 Kurtosis kurtosis-0.516
角度范围 angular_range— – 0.2400 Å−1
当前正则化参数 α current_alpha0.0000
最高正则化参数 α highest_alpha127800000.0000
实空间数据点数 n_real_points49
GNOM 版本 gnom_version4.1.3
质量判据 quality_criteria AN1: 0.000; Oscil: 0.934; Stabil: 1.000; Sysdev: 1.000; Positv: 1.000; Valcen: 0.980; Smooth: 0.948
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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)

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6. 折叠分类 (SCOP + CATH) 7 domains

SCOP 2.08 (3 domains)

结构域编号 domain_idd1lm1a1
类 Class classb — All beta proteins
折叠类型 Fold foldb.80 — Single-stranded right-handed beta-helix
超家族 Superfamily superfamilyb.80.4 — Alpha subunit of glutamate synthase, C-terminal domain
家族 Family familyb.80.4.1 — Alpha subunit of glutamate synthase, C-terminal domain
结构域编号 domain_idd1lm1a2
类 Class classc — Alpha and beta proteins (a/b)
折叠类型 Fold foldc.1 — TIM beta/alpha-barrel
超家族 Superfamily superfamilyc.1.4 — FMN-linked oxidoreductases
家族 Family familyc.1.4.1 — FMN-linked oxidoreductases
结构域编号 domain_idd1lm1a3
类 Class classd — Alpha and beta proteins (a+b)
折叠类型 Fold foldd.153 — Ntn hydrolase-like
超家族 Superfamily superfamilyd.153.1 — N-terminal nucleophile aminohydrolases (Ntn hydrolases)
家族 Family familyd.153.1.1 — Class II glutamine amidotransferases

CATH v4.4 (4 domains)

结构域编号 domain_id1lm1A01
类 Class class3 — Alpha Beta
架构 Architecture architecture60 — 4-Layer Sandwich
拓扑 Topology topology20 — Glutamine Phosphoribosylpyrophosphate, subunit 1, domain 1
同源超家族 H-superfamily homologous superfamily10 — Aminohydrolase, N-terminal nucleophile (Ntn) domain
结构域编号 domain_id1lm1A02
类 Class class3 — Alpha Beta
架构 Architecture architecture20 — Alpha-Beta Barrel
拓扑 Topology topology20 — TIM Barrel
同源超家族 H-superfamily homologous superfamily70 — Aldolase class I
结构域编号 domain_id1lm1A03
类 Class class3 — Alpha Beta
架构 Architecture architecture20 — Alpha-Beta Barrel
拓扑 Topology topology20 — TIM Barrel
同源超家族 H-superfamily homologous superfamily70 — Aldolase class I
结构域编号 domain_id1lm1A04
类 Class class2 — Mainly Beta
架构 Architecture architecture160 — 3 Solenoid
拓扑 Topology topology20 — Pectate Lyase C-like
同源超家族 H-superfamily homologous superfamily60 — Glutamate synthase, alpha subunit, C-terminal domain
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7. 引用文献 (1)

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8. 文件与曲线 (10)