1mjg

;CRYSTAL STRUCTURE OF BIFUNCTIONAL CARBON MONOXIDE DEHYDROGENASE/ACETYL-COA SYNTHASE(CODH/ACS) FROM MOORELLA THERMOACETICA (F. CLOSTRIDIUM THERMOACETICUM) ;

Method: X-RAY DIFFRACTION Dmax: 233.2 Å Quality: GOOD

SAXS 散射曲线 SAXS Profile

SAXS profile for 1mjg

P(r) 距离分布 P(r) Distribution

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

条目编号 entry_id1mjg
沉积日期 deposition_date2002-08-27
结构标题 title;CRYSTAL STRUCTURE OF BIFUNCTIONAL CARBON MONOXIDE DEHYDROGENASE/ACETYL-COA SYNTHASE(CODH/ACS) FROM MOORELLA THERMOACETICA (F. CLOSTRIDIUM THERMOACETICUM) ;
关键词 keywords;Carbon monoxide dehydrogenase(CODH), Acetyl-CoA Synthase (ACS), Nickel-Iron-Sulfur cluster (Ni-Fe-S), Nickel-Coopper-Iron-Sulfur (Ni-Cu-Fe-S) Cluster, Hydrophobic CO channel, substrate tunnel, Helical domain, Rossmann fold, Electron transfer, Clostridium thermoaceticum, Wood-Ljundahl pathway, OXIDOREDUCTASE ;; OXIDOREDUCTASE
实验方法 methodX-RAY DIFFRACTION

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

回转半径 Rg (Guinier) rg_guinier66.45
回转半径 Rg (电子) rg_electron66.59
零角强度 I(0) i05445770000.00
分子量 molecular_weight622550.0 kDa
排除体积 excluded_volume777530 ų
包络体积 envelope_volume1074700 ų
水化壳体积 shell_volume132700 ų
包络直径 envelope_diameter234.4
壳层 Rg shell_rg67.29
包络 Rg envelope_rg65.86
形状 Rg shape_rg66.65
总 Rg total_rg66.40
总原子数 total_atoms43424
残基数 n_residues5600
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

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

最大尺寸 Dmax dmax233.2
Rg (实空间) rg_real66.47
Rg 误差 (实空间) rg_real_error2.17
I(0) (实空间) i0_real5.4460e+09
I(0) 误差 (实空间) i0_real_error1.0980e+08
Rg (倒空间) rg_reciprocal66.38
I(0) (倒空间) i0_reciprocal5445000000.0000
解质量估计 total_estimate0.8730
解质量评级 solution_quality GOOD a GOOD solution
P(r) 峰数 n_peaks1
主峰位置 r_peak_primary87.4
偏度 Skewness skewness0.259
峰度 Kurtosis kurtosis-0.456
角度范围 angular_range— – 0.1200 −1
当前正则化参数 α current_alpha0.0004
最高正则化参数 α highest_alpha274900000.0000
实空间数据点数 n_real_points25
GNOM 版本 gnom_version4.1.3
质量判据 quality_criteria AN1: 0.000; Oscil: 0.838; Stabil: 1.000; Sysdev: 1.000; Positv: 1.000; Valcen: 0.997; Smooth: 0.834

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

5. 实体与聚合体信息 (8)

6. 折叠分类 (SCOP + CATH) 40 domains

SCOP 2.08 (8 domains)

结构域编号 domain_idd1mjga_
类 Class classe — Multi-domain proteins (alpha and beta)
折叠类型 Fold folde.26 — Prismane protein-like
超家族 Superfamily superfamilye.26.1 — Prismane protein-like
家族 Family familye.26.1.2 — Carbon monoxide dehydrogenase
结构域编号 domain_idd1mjgb_
类 Class classe — Multi-domain proteins (alpha and beta)
折叠类型 Fold folde.26 — Prismane protein-like
超家族 Superfamily superfamilye.26.1 — Prismane protein-like
家族 Family familye.26.1.2 — Carbon monoxide dehydrogenase
结构域编号 domain_idd1mjgc_
类 Class classe — Multi-domain proteins (alpha and beta)
折叠类型 Fold folde.26 — Prismane protein-like
超家族 Superfamily superfamilye.26.1 — Prismane protein-like
家族 Family familye.26.1.2 — Carbon monoxide dehydrogenase
结构域编号 domain_idd1mjgd_
类 Class classe — Multi-domain proteins (alpha and beta)
折叠类型 Fold folde.26 — Prismane protein-like
超家族 Superfamily superfamilye.26.1 — Prismane protein-like
家族 Family familye.26.1.2 — Carbon monoxide dehydrogenase
结构域编号 domain_idd1mjgm_
类 Class classe — Multi-domain proteins (alpha and beta)
折叠类型 Fold folde.26 — Prismane protein-like
超家族 Superfamily superfamilye.26.1 — Prismane protein-like
家族 Family familye.26.1.3 — Acetyl-CoA synthase
结构域编号 domain_idd1mjgn_
类 Class classe — Multi-domain proteins (alpha and beta)
折叠类型 Fold folde.26 — Prismane protein-like
超家族 Superfamily superfamilye.26.1 — Prismane protein-like
家族 Family familye.26.1.3 — Acetyl-CoA synthase
结构域编号 domain_idd1mjgo_
类 Class classe — Multi-domain proteins (alpha and beta)
折叠类型 Fold folde.26 — Prismane protein-like
超家族 Superfamily superfamilye.26.1 — Prismane protein-like
家族 Family familye.26.1.3 — Acetyl-CoA synthase
结构域编号 domain_idd1mjgp_
类 Class classe — Multi-domain proteins (alpha and beta)
折叠类型 Fold folde.26 — Prismane protein-like
超家族 Superfamily superfamilye.26.1 — Prismane protein-like
家族 Family familye.26.1.3 — Acetyl-CoA synthase

CATH v4.4 (32 domains)

结构域编号 domain_id1mjgA01
类 Class class3 — Alpha Beta
架构 Architecture architecture40 — 3-Layer(aba) Sandwich
拓扑 Topology topology50 — Rossmann fold
同源超家族 H-superfamily homologous superfamily2030
结构域编号 domain_id1mjgA02
类 Class class3 — Alpha Beta
架构 Architecture architecture40 — 3-Layer(aba) Sandwich
拓扑 Topology topology50 — Rossmann fold
同源超家族 H-superfamily homologous superfamily2030
结构域编号 domain_id1mjgA03
类 Class class1 — Mainly Alpha
架构 Architecture architecture20 — Up-down Bundle
拓扑 Topology topology1270 — Substrate Binding Domain Of Dnak; Chain:A; Domain 2
同源超家族 H-superfamily homologous superfamily30
结构域编号 domain_id1mjgB01
类 Class class3 — Alpha Beta
架构 Architecture architecture40 — 3-Layer(aba) Sandwich
拓扑 Topology topology50 — Rossmann fold
同源超家族 H-superfamily homologous superfamily2030
结构域编号 domain_id1mjgB02
类 Class class3 — Alpha Beta
架构 Architecture architecture40 — 3-Layer(aba) Sandwich
拓扑 Topology topology50 — Rossmann fold
同源超家族 H-superfamily homologous superfamily2030
结构域编号 domain_id1mjgB03
类 Class class1 — Mainly Alpha
架构 Architecture architecture20 — Up-down Bundle
拓扑 Topology topology1270 — Substrate Binding Domain Of Dnak; Chain:A; Domain 2
同源超家族 H-superfamily homologous superfamily30
结构域编号 domain_id1mjgC01
类 Class class3 — Alpha Beta
架构 Architecture architecture40 — 3-Layer(aba) Sandwich
拓扑 Topology topology50 — Rossmann fold
同源超家族 H-superfamily homologous superfamily2030
结构域编号 domain_id1mjgC02
类 Class class3 — Alpha Beta
架构 Architecture architecture40 — 3-Layer(aba) Sandwich
拓扑 Topology topology50 — Rossmann fold
同源超家族 H-superfamily homologous superfamily2030
结构域编号 domain_id1mjgC03
类 Class class1 — Mainly Alpha
架构 Architecture architecture20 — Up-down Bundle
拓扑 Topology topology1270 — Substrate Binding Domain Of Dnak; Chain:A; Domain 2
同源超家族 H-superfamily homologous superfamily30
结构域编号 domain_id1mjgD01
类 Class class3 — Alpha Beta
架构 Architecture architecture40 — 3-Layer(aba) Sandwich
拓扑 Topology topology50 — Rossmann fold
同源超家族 H-superfamily homologous superfamily2030
结构域编号 domain_id1mjgD02
类 Class class3 — Alpha Beta
架构 Architecture architecture40 — 3-Layer(aba) Sandwich
拓扑 Topology topology50 — Rossmann fold
同源超家族 H-superfamily homologous superfamily2030
结构域编号 domain_id1mjgD03
类 Class class1 — Mainly Alpha
架构 Architecture architecture20 — Up-down Bundle
拓扑 Topology topology1270 — Substrate Binding Domain Of Dnak; Chain:A; Domain 2
同源超家族 H-superfamily homologous superfamily30
结构域编号 domain_id1mjgM01
类 Class class1 — Mainly Alpha
架构 Architecture architecture10 — Orthogonal Bundle
拓扑 Topology topology8 — Helicase, Ruva Protein; domain 3
同源超家族 H-superfamily homologous superfamily190 — Carbon monoxide dehydrogenase alpha subunit. Chain M, domain 1
结构域编号 domain_id1mjgM02
类 Class class3 — Alpha Beta
架构 Architecture architecture40 — 3-Layer(aba) Sandwich
拓扑 Topology topology50 — Rossmann fold
同源超家族 H-superfamily homologous superfamily2030
结构域编号 domain_id1mjgM03
类 Class class3 — Alpha Beta
架构 Architecture architecture30 — 2-Layer Sandwich
拓扑 Topology topology1650 — Bifunctional carbon monoxide dehydrogenase/acetyl-coa synthase(codh/acs), Chain M, domain 3
同源超家族 H-superfamily homologous superfamily10 — Bifunctional carbon monoxide dehydrogenase/acetyl-coa synthase(codh/acs), Chain M, domain 3
结构域编号 domain_id1mjgM04
类 Class class3 — Alpha Beta
架构 Architecture architecture40 — 3-Layer(aba) Sandwich
拓扑 Topology topology970 — Ribonuclease HI; Chain A
同源超家族 H-superfamily homologous superfamily20 — Carbon monoxide dehydrogenase alpha subunit. Chain D, domain 4
结构域编号 domain_id1mjgM05
类 Class class3 — Alpha Beta
架构 Architecture architecture40 — 3-Layer(aba) Sandwich
拓扑 Topology topology1470 — Bifunctional carbon monoxide dehydrogenase/acetyl-coa synthase(codh/acs), Chain M, domain 5
同源超家族 H-superfamily homologous superfamily10 — Bifunctional carbon monoxide dehydrogenase/acetyl-coa synthase(codh/acs), Chain M, domain 5
结构域编号 domain_id1mjgN01
类 Class class1 — Mainly Alpha
架构 Architecture architecture10 — Orthogonal Bundle
拓扑 Topology topology8 — Helicase, Ruva Protein; domain 3
同源超家族 H-superfamily homologous superfamily190 — Carbon monoxide dehydrogenase alpha subunit. Chain M, domain 1
结构域编号 domain_id1mjgN02
类 Class class3 — Alpha Beta
架构 Architecture architecture40 — 3-Layer(aba) Sandwich
拓扑 Topology topology50 — Rossmann fold
同源超家族 H-superfamily homologous superfamily2030
结构域编号 domain_id1mjgN03
类 Class class3 — Alpha Beta
架构 Architecture architecture30 — 2-Layer Sandwich
拓扑 Topology topology1650 — Bifunctional carbon monoxide dehydrogenase/acetyl-coa synthase(codh/acs), Chain M, domain 3
同源超家族 H-superfamily homologous superfamily10 — Bifunctional carbon monoxide dehydrogenase/acetyl-coa synthase(codh/acs), Chain M, domain 3
结构域编号 domain_id1mjgN04
类 Class class3 — Alpha Beta
架构 Architecture architecture40 — 3-Layer(aba) Sandwich
拓扑 Topology topology970 — Ribonuclease HI; Chain A
同源超家族 H-superfamily homologous superfamily20 — Carbon monoxide dehydrogenase alpha subunit. Chain D, domain 4
结构域编号 domain_id1mjgN05
类 Class class3 — Alpha Beta
架构 Architecture architecture40 — 3-Layer(aba) Sandwich
拓扑 Topology topology1470 — Bifunctional carbon monoxide dehydrogenase/acetyl-coa synthase(codh/acs), Chain M, domain 5
同源超家族 H-superfamily homologous superfamily10 — Bifunctional carbon monoxide dehydrogenase/acetyl-coa synthase(codh/acs), Chain M, domain 5
结构域编号 domain_id1mjgO01
类 Class class1 — Mainly Alpha
架构 Architecture architecture10 — Orthogonal Bundle
拓扑 Topology topology8 — Helicase, Ruva Protein; domain 3
同源超家族 H-superfamily homologous superfamily190 — Carbon monoxide dehydrogenase alpha subunit. Chain M, domain 1
结构域编号 domain_id1mjgO02
类 Class class3 — Alpha Beta
架构 Architecture architecture40 — 3-Layer(aba) Sandwich
拓扑 Topology topology50 — Rossmann fold
同源超家族 H-superfamily homologous superfamily2030
结构域编号 domain_id1mjgO03
类 Class class3 — Alpha Beta
架构 Architecture architecture30 — 2-Layer Sandwich
拓扑 Topology topology1650 — Bifunctional carbon monoxide dehydrogenase/acetyl-coa synthase(codh/acs), Chain M, domain 3
同源超家族 H-superfamily homologous superfamily10 — Bifunctional carbon monoxide dehydrogenase/acetyl-coa synthase(codh/acs), Chain M, domain 3
结构域编号 domain_id1mjgO04
类 Class class3 — Alpha Beta
架构 Architecture architecture40 — 3-Layer(aba) Sandwich
拓扑 Topology topology970 — Ribonuclease HI; Chain A
同源超家族 H-superfamily homologous superfamily20 — Carbon monoxide dehydrogenase alpha subunit. Chain D, domain 4
结构域编号 domain_id1mjgO05
类 Class class3 — Alpha Beta
架构 Architecture architecture40 — 3-Layer(aba) Sandwich
拓扑 Topology topology1470 — Bifunctional carbon monoxide dehydrogenase/acetyl-coa synthase(codh/acs), Chain M, domain 5
同源超家族 H-superfamily homologous superfamily10 — Bifunctional carbon monoxide dehydrogenase/acetyl-coa synthase(codh/acs), Chain M, domain 5
结构域编号 domain_id1mjgP01
类 Class class1 — Mainly Alpha
架构 Architecture architecture10 — Orthogonal Bundle
拓扑 Topology topology8 — Helicase, Ruva Protein; domain 3
同源超家族 H-superfamily homologous superfamily190 — Carbon monoxide dehydrogenase alpha subunit. Chain M, domain 1
结构域编号 domain_id1mjgP02
类 Class class3 — Alpha Beta
架构 Architecture architecture40 — 3-Layer(aba) Sandwich
拓扑 Topology topology50 — Rossmann fold
同源超家族 H-superfamily homologous superfamily2030
结构域编号 domain_id1mjgP03
类 Class class3 — Alpha Beta
架构 Architecture architecture30 — 2-Layer Sandwich
拓扑 Topology topology1650 — Bifunctional carbon monoxide dehydrogenase/acetyl-coa synthase(codh/acs), Chain M, domain 3
同源超家族 H-superfamily homologous superfamily10 — Bifunctional carbon monoxide dehydrogenase/acetyl-coa synthase(codh/acs), Chain M, domain 3
结构域编号 domain_id1mjgP04
类 Class class3 — Alpha Beta
架构 Architecture architecture40 — 3-Layer(aba) Sandwich
拓扑 Topology topology970 — Ribonuclease HI; Chain A
同源超家族 H-superfamily homologous superfamily20 — Carbon monoxide dehydrogenase alpha subunit. Chain D, domain 4
结构域编号 domain_id1mjgP05
类 Class class3 — Alpha Beta
架构 Architecture architecture40 — 3-Layer(aba) Sandwich
拓扑 Topology topology1470 — Bifunctional carbon monoxide dehydrogenase/acetyl-coa synthase(codh/acs), Chain M, domain 5
同源超家族 H-superfamily homologous superfamily10 — Bifunctional carbon monoxide dehydrogenase/acetyl-coa synthase(codh/acs), Chain M, domain 5

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