3bat

Crystal structure of the N-terminal region of the scallop myosin rod, monoclinic (P21) form

Method: X-RAY DIFFRACTION Dmax: 128.3 Å Quality: REASONABLE

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

Myosin heavy chain, striated muscle/General control protein GCN4

Saccharomyces cerevisiae

UniProt P03069

当前结构中的状态

Assembly 聚集状态 构建体 突变与修饰 配体、离子与共同组分 实验方法与环境 结构质量
1 信息不足 同源多聚体 蛋白 × 2 PDB 声明:dimeric(2) 与蛋白拷贝数一致 链 A; UniProt 250–281 链 B; UniProt 250–281 片段:Bay Scallop Myosin (Residues 835-885)/Yeast GCN4 Transcription Factor (Residues 250-281) 无其他共同聚合物 X-RAY DIFFRACTION X-ray结晶条件:VAPOR DIFFUSION, HANGING DROP;pH 6.2;277 K;2 microliters of protein solution (4 mg/ml protein in 30 mM MOPS buffer pH 7.2, 40 mM NaCl, 2 mM NaN3) mixed with 2 microliters of (25% PEG 3350, 50 mM NH4I) and equilibrated against 1 ml of (17.5% PEG 3350, 35 mM NH4I, 28 mM NaCl, 2 mM NaN3, 20 mM MOPS pH 6.2). Harvested crystals were cryoprotected in 25.5% PEG 3350 and 15% glycerol, VAPOR DIFFUSION, HANGING DROP, temperature 277K 分辨率 2.30 Å R-free 0.299
2 信息不足 同源多聚体 蛋白 × 2 PDB 声明:dimeric(2) 与蛋白拷贝数一致 链 C; UniProt 250–281 链 D; UniProt 250–281 片段:Bay Scallop Myosin (Residues 835-885)/Yeast GCN4 Transcription Factor (Residues 250-281) 无其他共同聚合物 X-RAY DIFFRACTION X-ray结晶条件:VAPOR DIFFUSION, HANGING DROP;pH 6.2;277 K;2 microliters of protein solution (4 mg/ml protein in 30 mM MOPS buffer pH 7.2, 40 mM NaCl, 2 mM NaN3) mixed with 2 microliters of (25% PEG 3350, 50 mM NH4I) and equilibrated against 1 ml of (17.5% PEG 3350, 35 mM NH4I, 28 mM NaCl, 2 mM NaN3, 20 mM MOPS pH 6.2). Harvested crystals were cryoprotected in 25.5% PEG 3350 and 15% glycerol, VAPOR DIFFUSION, HANGING DROP, temperature 277K 分辨率 2.30 Å R-free 0.299

数据库中的同蛋白其他状态

以下每一行都是同一 UniProt 蛋白在另一个 PDB 条目中的 biological assembly, “相对当前条目”直接指出证据层面的不同;没有差异标签表示当前已读取字段一致。

共 162 个其他 PDB 条目、199 个 assembly。 打开独立比较页并筛选聚集状态

查看构建体与数据证据
UniProt名称 GCN4_YEAST
Isoform
PDB实体 1
链与序列区间 作者链 A; PDB构建体 58–89; UniProt 250–281 作者链 B; PDB构建体 58–89; UniProt 250–281 作者链 C; PDB构建体 58–89; UniProt 250–281 作者链 D; PDB构建体 58–89; UniProt 250–281

Myosin heavy chain, striated muscle/General control protein GCN4

Saccharomyces cerevisiae

UniProt P24733

当前结构中的状态

Assembly 聚集状态 构建体 突变与修饰 配体、离子与共同组分 实验方法与环境 结构质量
1 信息不足 同源多聚体 蛋白 × 2 PDB 声明:dimeric(2) 与蛋白拷贝数一致 链 A; UniProt 835–885 链 B; UniProt 835–885 片段:Bay Scallop Myosin (Residues 835-885)/Yeast GCN4 Transcription Factor (Residues 250-281) 无其他共同聚合物 X-RAY DIFFRACTION X-ray结晶条件:VAPOR DIFFUSION, HANGING DROP;pH 6.2;277 K;2 microliters of protein solution (4 mg/ml protein in 30 mM MOPS buffer pH 7.2, 40 mM NaCl, 2 mM NaN3) mixed with 2 microliters of (25% PEG 3350, 50 mM NH4I) and equilibrated against 1 ml of (17.5% PEG 3350, 35 mM NH4I, 28 mM NaCl, 2 mM NaN3, 20 mM MOPS pH 6.2). Harvested crystals were cryoprotected in 25.5% PEG 3350 and 15% glycerol, VAPOR DIFFUSION, HANGING DROP, temperature 277K 分辨率 2.30 Å R-free 0.299
2 信息不足 同源多聚体 蛋白 × 2 PDB 声明:dimeric(2) 与蛋白拷贝数一致 链 C; UniProt 835–885 链 D; UniProt 835–885 片段:Bay Scallop Myosin (Residues 835-885)/Yeast GCN4 Transcription Factor (Residues 250-281) 无其他共同聚合物 X-RAY DIFFRACTION X-ray结晶条件:VAPOR DIFFUSION, HANGING DROP;pH 6.2;277 K;2 microliters of protein solution (4 mg/ml protein in 30 mM MOPS buffer pH 7.2, 40 mM NaCl, 2 mM NaN3) mixed with 2 microliters of (25% PEG 3350, 50 mM NH4I) and equilibrated against 1 ml of (17.5% PEG 3350, 35 mM NH4I, 28 mM NaCl, 2 mM NaN3, 20 mM MOPS pH 6.2). Harvested crystals were cryoprotected in 25.5% PEG 3350 and 15% glycerol, VAPOR DIFFUSION, HANGING DROP, temperature 277K 分辨率 2.30 Å R-free 0.299

数据库中的同蛋白其他状态

以下每一行都是同一 UniProt 蛋白在另一个 PDB 条目中的 biological assembly, “相对当前条目”直接指出证据层面的不同;没有差异标签表示当前已读取字段一致。

共 19 个其他 PDB 条目、20 个 assembly。 打开独立比较页并筛选聚集状态

查看构建体与数据证据
UniProt名称 MYS_AEQIR
Isoform
PDB实体 1
链与序列区间 作者链 A; PDB构建体 5–55; UniProt 835–885 作者链 B; PDB构建体 5–55; UniProt 835–885 作者链 C; PDB构建体 5–55; UniProt 835–885 作者链 D; PDB构建体 5–55; UniProt 835–885

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。

SAXS 散射曲线 SAXS Profile

SAXS profile for 3bat

P(r) 距离分布 P(r) Distribution

P(r) distribution for 3bat
下载 Download

2. 结构基本信息 2. Structure Basics

条目编号 entry_id3bat
沉积日期 deposition_date2007-11-08
结构标题 titleCrystal structure of the N-terminal region of the scallop myosin rod, monoclinic (P21) form
关键词 keywords;Alpha-helical coiled coil, disorder, salt links, contractile protein, Actin-binding, ATP-binding, Calmodulin-binding, Cytoplasm, Motor protein, Muscle protein, Myosin, Nucleotide-binding, Thick filament ;; CONTRACTILE PROTEIN
实验方法 methodX-RAY DIFFRACTION

3. SAXS 参数 (CRYSOL 理论计算) 3. SAXS Parameters (CRYSOL)

回转半径 Rg (Guinier) rg_guinier35.53
回转半径 Rg (电子) rg_electron36.21
零角强度 I(0) i025017400.00
分子量 molecular_weight38597.0 kDa
排除体积 excluded_volume48231 ų
包络体积 envelope_volume71907 ų
水化壳体积 shell_volume19515 ų
包络直径 envelope_diameter129.4
壳层 Rg shell_rg35.08
包络 Rg envelope_rg36.76
形状 Rg shape_rg36.14
总 Rg total_rg36.33
总原子数 total_atoms2694
残基数 n_residues323
球谐函数阶数 n_harmonics20
q 范围 q_range— – 0.5000 −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

4. P(r) 距离分布 (GNOM 反演) 4. P(r) Analysis (GNOM)

最大尺寸 Dmax dmax128.3
Rg (实空间) rg_real36.23
Rg 误差 (实空间) rg_real_error1.75
I(0) (实空间) i0_real2.5020e+07
I(0) 误差 (实空间) i0_real_error4.5810e+05
Rg (倒空间) rg_reciprocal35.80
I(0) (倒空间) i0_reciprocal25010000.0000
解质量估计 total_estimate0.5342
解质量评级 solution_quality REASONABLE a REASONABLE solution
P(r) 峰数 n_peaks1
主峰位置 r_peak_primary25.6
偏度 Skewness skewness0.627
峰度 Kurtosis kurtosis-0.396
角度范围 angular_range— – 0.2250 −1
当前正则化参数 α current_alpha0.0000
最高正则化参数 α highest_alpha1490000.0000
实空间数据点数 n_real_points46
GNOM 版本 gnom_version4.1.3
质量判据 quality_criteria AN1: 0.000; Oscil: 0.489; Stabil: 1.000; Sysdev: 0.186; Positv: 1.000; Valcen: 0.203; Smooth: 0.710

5. 晶体学与实验 5. Crystallography & Experiment

6. 实体与聚合物信息 Entities & Polymers (2)

7. 折叠分类 (SCOP + CATH) 4 domains

CATH v4.4 (4 domains)

结构域编号 domain_id3batA00
类 Class class1 — Mainly Alpha
架构 Architecture architecture20 — Up-down Bundle
拓扑 Topology topology5 — Single alpha-helices involved in coiled-coils or other helix-helix interfaces
同源超家族 H-superfamily homologous superfamily340
结构域编号 domain_id3batB00
类 Class class1 — Mainly Alpha
架构 Architecture architecture20 — Up-down Bundle
拓扑 Topology topology5 — Single alpha-helices involved in coiled-coils or other helix-helix interfaces
同源超家族 H-superfamily homologous superfamily340
结构域编号 domain_id3batC00
类 Class class1 — Mainly Alpha
架构 Architecture architecture20 — Up-down Bundle
拓扑 Topology topology5 — Single alpha-helices involved in coiled-coils or other helix-helix interfaces
同源超家族 H-superfamily homologous superfamily340
结构域编号 domain_id3batD00
类 Class class1 — Mainly Alpha
架构 Architecture architecture20 — Up-down Bundle
拓扑 Topology topology5 — Single alpha-helices involved in coiled-coils or other helix-helix interfaces
同源超家族 H-superfamily homologous superfamily340

8. 引用文献 (3)

9. 文件与曲线 (10)