1oco

BOVINE HEART CYTOCHROME C OXIDASE IN CARBON MONOXIDE-BOUND STATE

Method: X-RAY DIFFRACTION Dmax: 170.7 Å Quality: GOOD

SAXS 散射曲线 SAXS Profile

SAXS profile for 1oco

P(r) 距离分布 P(r) Distribution

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

条目编号 entry_id1oco
沉积日期 deposition_date1998-07-09
结构标题 titleBOVINE HEART CYTOCHROME C OXIDASE IN CARBON MONOXIDE-BOUND STATE
关键词 keywordsOXIDOREDUCTASE (CYTOCHROME(C)-OXYGEN), CYTOCHROME C OXIDASE, CARBON MONOXIDE-BOUND, 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_guinier50.95
回转半径 Rg (电子) rg_electron50.49
零角强度 I(0) i02106020000.00
分子量 molecular_weight407330.0 kDa
排除体积 excluded_volume517890 ų
包络体积 envelope_volume667720 ų
水化壳体积 shell_volume107400 ų
包络直径 envelope_diameter170.1
壳层 Rg shell_rg56.35
包络 Rg envelope_rg49.79
形状 Rg shape_rg50.46
总 Rg total_rg50.79
总原子数 total_atoms28728
残基数 n_residues3560
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 dmax170.7
Rg (实空间) rg_real50.88
Rg 误差 (实空间) rg_real_error1.54
I(0) (实空间) i0_real2.1060e+09
I(0) 误差 (实空间) i0_real_error3.9900e+07
Rg (倒空间) rg_reciprocal51.00
I(0) (倒空间) i0_reciprocal2106000000.0000
解质量估计 total_estimate0.8826
解质量评级 solution_quality GOOD a GOOD solution
P(r) 峰数 n_peaks2
主峰位置 r_peak_primary60.6
偏度 Skewness skewness0.276
峰度 Kurtosis kurtosis-0.424
角度范围 angular_range— – 0.1550 −1
当前正则化参数 α current_alpha0.0000
最高正则化参数 α highest_alpha314200000.0000
实空间数据点数 n_real_points32
GNOM 版本 gnom_version4.1.3
质量判据 quality_criteria AN1: 0.000; Oscil: 0.866; Stabil: 1.000; Sysdev: 1.000; Positv: 1.000; Valcen: 1.000; Smooth: 0.871

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

5. 实体与聚合体信息 (19)

6. 折叠分类 (SCOP + CATH) 58 domains

SCOP 2.08 (28 domains)

结构域编号 domain_idd1ocoa_
类 Class classf — Membrane and cell surface proteins and peptides
折叠类型 Fold foldf.24 — Cytochrome c oxidase subunit I-like
超家族 Superfamily superfamilyf.24.1 — Cytochrome c oxidase subunit I-like
家族 Family familyf.24.1.1 — Cytochrome c oxidase subunit I-like
结构域编号 domain_idd1ocob1
类 Class classb — All beta proteins
折叠类型 Fold foldb.6 — Cupredoxin-like
超家族 Superfamily superfamilyb.6.1 — Cupredoxins
家族 Family familyb.6.1.2 — Periplasmic domain of cytochrome c oxidase subunit II
结构域编号 domain_idd1ocob2
类 Class classf — Membrane and cell surface proteins and peptides
折叠类型 Fold foldf.17 — Transmembrane helix hairpin
超家族 Superfamily superfamilyf.17.2 — Cytochrome c oxidase subunit II-like, transmembrane region
家族 Family familyf.17.2.1 — Cytochrome c oxidase subunit II-like, transmembrane region
结构域编号 domain_idd1ococ_
类 Class classf — Membrane and cell surface proteins and peptides
折叠类型 Fold foldf.25 — Cytochrome c oxidase subunit III-like
超家族 Superfamily superfamilyf.25.1 — Cytochrome c oxidase subunit III-like
家族 Family familyf.25.1.1 — Cytochrome c oxidase subunit III-like
结构域编号 domain_idd1ocod_
类 Class classf — Membrane and cell surface proteins and peptides
折叠类型 Fold foldf.23 — Single transmembrane helix
超家族 Superfamily superfamilyf.23.1 — Mitochondrial cytochrome c oxidase subunit IV
家族 Family familyf.23.1.1 — Mitochondrial cytochrome c oxidase subunit IV
结构域编号 domain_idd1ocoe_
类 Class classa — All alpha proteins
折叠类型 Fold folda.118 — alpha-alpha superhelix
超家族 Superfamily superfamilya.118.11 — Cytochrome c oxidase subunit E
家族 Family familya.118.11.1 — Cytochrome c oxidase subunit E
结构域编号 domain_idd1ocof_
类 Class classg — Small proteins
折叠类型 Fold foldg.41 — Rubredoxin-like
超家族 Superfamily superfamilyg.41.5 — Rubredoxin-like
家族 Family familyg.41.5.3 — Cytochrome c oxidase Subunit F
结构域编号 domain_idd1ocog_
类 Class classf — Membrane and cell surface proteins and peptides
折叠类型 Fold foldf.23 — Single transmembrane helix
超家族 Superfamily superfamilyf.23.2 — Mitochondrial cytochrome c oxidase subunit VIa
家族 Family familyf.23.2.1 — Mitochondrial cytochrome c oxidase subunit VIa
结构域编号 domain_idd1ocoh_
类 Class classa — All alpha proteins
折叠类型 Fold folda.51 — Cytochrome c oxidase subunit h
超家族 Superfamily superfamilya.51.1 — Cytochrome c oxidase subunit h
家族 Family familya.51.1.1 — Cytochrome c oxidase subunit h
结构域编号 domain_idd1ocoi_
类 Class classf — Membrane and cell surface proteins and peptides
折叠类型 Fold foldf.23 — Single transmembrane helix
超家族 Superfamily superfamilyf.23.3 — Mitochondrial cytochrome c oxidase subunit VIc
家族 Family familyf.23.3.1 — Mitochondrial cytochrome c oxidase subunit VIc
结构域编号 domain_idd1ocoj_
类 Class classf — Membrane and cell surface proteins and peptides
折叠类型 Fold foldf.23 — Single transmembrane helix
超家族 Superfamily superfamilyf.23.4 — Mitochondrial cytochrome c oxidase subunit VIIa
家族 Family familyf.23.4.1 — Mitochondrial cytochrome c oxidase subunit VIIa
结构域编号 domain_idd1ocok_
类 Class classf — Membrane and cell surface proteins and peptides
折叠类型 Fold foldf.23 — Single transmembrane helix
超家族 Superfamily superfamilyf.23.5 — Mitochondrial cytochrome c oxidase subunit VIIb
家族 Family familyf.23.5.1 — Mitochondrial cytochrome c oxidase subunit VIIb
结构域编号 domain_idd1ocol_
类 Class classf — Membrane and cell surface proteins and peptides
折叠类型 Fold foldf.23 — Single transmembrane helix
超家族 Superfamily superfamilyf.23.6 — Mitochondrial cytochrome c oxidase subunit VIIc (aka VIIIa)
家族 Family familyf.23.6.1 — Mitochondrial cytochrome c oxidase subunit VIIc (aka VIIIa)
结构域编号 domain_idd1ocom_
类 Class classf — Membrane and cell surface proteins and peptides
折叠类型 Fold foldf.23 — Single transmembrane helix
超家族 Superfamily superfamilyf.23.7 — Mitochondrial cytochrome c oxidase subunit VIIIb (aka IX)
家族 Family familyf.23.7.1 — Mitochondrial cytochrome c oxidase subunit VIIIb (aka IX)
结构域编号 domain_idd1ocon_
类 Class classf — Membrane and cell surface proteins and peptides
折叠类型 Fold foldf.24 — Cytochrome c oxidase subunit I-like
超家族 Superfamily superfamilyf.24.1 — Cytochrome c oxidase subunit I-like
家族 Family familyf.24.1.1 — Cytochrome c oxidase subunit I-like
结构域编号 domain_idd1ocoo1
类 Class classb — All beta proteins
折叠类型 Fold foldb.6 — Cupredoxin-like
超家族 Superfamily superfamilyb.6.1 — Cupredoxins
家族 Family familyb.6.1.2 — Periplasmic domain of cytochrome c oxidase subunit II
结构域编号 domain_idd1ocoo2
类 Class classf — Membrane and cell surface proteins and peptides
折叠类型 Fold foldf.17 — Transmembrane helix hairpin
超家族 Superfamily superfamilyf.17.2 — Cytochrome c oxidase subunit II-like, transmembrane region
家族 Family familyf.17.2.1 — Cytochrome c oxidase subunit II-like, transmembrane region
结构域编号 domain_idd1ocop_
类 Class classf — Membrane and cell surface proteins and peptides
折叠类型 Fold foldf.25 — Cytochrome c oxidase subunit III-like
超家族 Superfamily superfamilyf.25.1 — Cytochrome c oxidase subunit III-like
家族 Family familyf.25.1.1 — Cytochrome c oxidase subunit III-like
结构域编号 domain_idd1ocoq_
类 Class classf — Membrane and cell surface proteins and peptides
折叠类型 Fold foldf.23 — Single transmembrane helix
超家族 Superfamily superfamilyf.23.1 — Mitochondrial cytochrome c oxidase subunit IV
家族 Family familyf.23.1.1 — Mitochondrial cytochrome c oxidase subunit IV
结构域编号 domain_idd1ocor_
类 Class classa — All alpha proteins
折叠类型 Fold folda.118 — alpha-alpha superhelix
超家族 Superfamily superfamilya.118.11 — Cytochrome c oxidase subunit E
家族 Family familya.118.11.1 — Cytochrome c oxidase subunit E
结构域编号 domain_idd1ocos_
类 Class classg — Small proteins
折叠类型 Fold foldg.41 — Rubredoxin-like
超家族 Superfamily superfamilyg.41.5 — Rubredoxin-like
家族 Family familyg.41.5.3 — Cytochrome c oxidase Subunit F
结构域编号 domain_idd1ocot_
类 Class classf — Membrane and cell surface proteins and peptides
折叠类型 Fold foldf.23 — Single transmembrane helix
超家族 Superfamily superfamilyf.23.2 — Mitochondrial cytochrome c oxidase subunit VIa
家族 Family familyf.23.2.1 — Mitochondrial cytochrome c oxidase subunit VIa
结构域编号 domain_idd1ocou_
类 Class classa — All alpha proteins
折叠类型 Fold folda.51 — Cytochrome c oxidase subunit h
超家族 Superfamily superfamilya.51.1 — Cytochrome c oxidase subunit h
家族 Family familya.51.1.1 — Cytochrome c oxidase subunit h
结构域编号 domain_idd1ocov_
类 Class classf — Membrane and cell surface proteins and peptides
折叠类型 Fold foldf.23 — Single transmembrane helix
超家族 Superfamily superfamilyf.23.3 — Mitochondrial cytochrome c oxidase subunit VIc
家族 Family familyf.23.3.1 — Mitochondrial cytochrome c oxidase subunit VIc
结构域编号 domain_idd1ocow_
类 Class classf — Membrane and cell surface proteins and peptides
折叠类型 Fold foldf.23 — Single transmembrane helix
超家族 Superfamily superfamilyf.23.4 — Mitochondrial cytochrome c oxidase subunit VIIa
家族 Family familyf.23.4.1 — Mitochondrial cytochrome c oxidase subunit VIIa
结构域编号 domain_idd1ocox_
类 Class classf — Membrane and cell surface proteins and peptides
折叠类型 Fold foldf.23 — Single transmembrane helix
超家族 Superfamily superfamilyf.23.5 — Mitochondrial cytochrome c oxidase subunit VIIb
家族 Family familyf.23.5.1 — Mitochondrial cytochrome c oxidase subunit VIIb
结构域编号 domain_idd1ocoy_
类 Class classf — Membrane and cell surface proteins and peptides
折叠类型 Fold foldf.23 — Single transmembrane helix
超家族 Superfamily superfamilyf.23.6 — Mitochondrial cytochrome c oxidase subunit VIIc (aka VIIIa)
家族 Family familyf.23.6.1 — Mitochondrial cytochrome c oxidase subunit VIIc (aka VIIIa)
结构域编号 domain_idd1ocoz_
类 Class classf — Membrane and cell surface proteins and peptides
折叠类型 Fold foldf.23 — Single transmembrane helix
超家族 Superfamily superfamilyf.23.7 — Mitochondrial cytochrome c oxidase subunit VIIIb (aka IX)
家族 Family familyf.23.7.1 — Mitochondrial cytochrome c oxidase subunit VIIIb (aka IX)

CATH v4.4 (30 domains)

结构域编号 domain_id1ocoA00
类 Class class1 — Mainly Alpha
架构 Architecture architecture20 — Up-down Bundle
拓扑 Topology topology210 — Cytochrome C Oxidase; Chain A
同源超家族 H-superfamily homologous superfamily10 — Cytochrome c oxidase-like, subunit I domain
结构域编号 domain_id1ocoB01
类 Class class1 — Mainly Alpha
架构 Architecture architecture10 — Orthogonal Bundle
拓扑 Topology topology287 — Helix Hairpins
同源超家族 H-superfamily homologous superfamily90
结构域编号 domain_id1ocoB02
类 Class class2 — Mainly Beta
架构 Architecture architecture60 — Sandwich
拓扑 Topology topology40 — Immunoglobulin-like
同源超家族 H-superfamily homologous superfamily420 — Cupredoxins - blue copper proteins
结构域编号 domain_id1ocoC01
类 Class class1 — Mainly Alpha
架构 Architecture architecture10 — Orthogonal Bundle
拓扑 Topology topology287 — Helix Hairpins
同源超家族 H-superfamily homologous superfamily70
结构域编号 domain_id1ocoC02
类 Class class1 — Mainly Alpha
架构 Architecture architecture20 — Up-down Bundle
拓扑 Topology topology120 — Four Helix Bundle (Hemerythrin (Met), subunit A)
同源超家族 H-superfamily homologous superfamily80 — Cytochrome c oxidase, subunit III, four-helix bundle
结构域编号 domain_id1ocoD00
类 Class class1 — Mainly Alpha
架构 Architecture architecture10 — Orthogonal Bundle
拓扑 Topology topology442 — Cytochrome C Oxidase; Chain D
同源超家族 H-superfamily homologous superfamily10 — Cytochrome c oxidase subunit IV
结构域编号 domain_id1ocoE00
类 Class class1 — Mainly Alpha
架构 Architecture architecture25 — Alpha Horseshoe
拓扑 Topology topology40 — Serine Threonine Protein Phosphatase 5, Tetratricopeptide repeat
同源超家族 H-superfamily homologous superfamily40 — Cytochrome c oxidase, subunit Va/VI
结构域编号 domain_id1ocoF00
类 Class class2 — Mainly Beta
架构 Architecture architecture60 — Sandwich
拓扑 Topology topology11 — Cytochrome C Oxidase; Chain F
同源超家族 H-superfamily homologous superfamily10 — Cytochrome c oxidase, subunit Vb
结构域编号 domain_id1ocoG00
类 Class class4 — Few Secondary Structures
架构 Architecture architecture10 — Irregular
拓扑 Topology topology95 — Cytochrome C Oxidase; Chain G
同源超家族 H-superfamily homologous superfamily10 — Cytochrome c oxidase, subunit VIa
结构域编号 domain_id1ocoH00
类 Class class1 — Mainly Alpha
架构 Architecture architecture10 — Orthogonal Bundle
拓扑 Topology topology10 — Arc Repressor Mutant, subunit A
同源超家族 H-superfamily homologous superfamily140 — Cytochrome c oxidase, subunit VIb
结构域编号 domain_id1ocoI00
类 Class class4 — Few Secondary Structures
架构 Architecture architecture10 — Irregular
拓扑 Topology topology93 — Cytochrome C Oxidase; Chain I
同源超家族 H-superfamily homologous superfamily10 — Mitochondrial cytochrome c oxidase subunit VIc/VIIs
结构域编号 domain_id1ocoJ00
类 Class class4 — Few Secondary Structures
架构 Architecture architecture10 — Irregular
拓扑 Topology topology91 — Cytochrome C Oxidase; Chain J
同源超家族 H-superfamily homologous superfamily10 — Cytochrome c oxidase, subunit VIIa
结构域编号 domain_id1ocoK00
类 Class class4 — Few Secondary Structures
架构 Architecture architecture10 — Irregular
拓扑 Topology topology51 — Cytochrome C Oxidase; Chain K
同源超家族 H-superfamily homologous superfamily10 — Cytochrome C Oxidase, chain K
结构域编号 domain_id1ocoL00
类 Class class4 — Few Secondary Structures
架构 Architecture architecture10 — Irregular
拓扑 Topology topology49 — Cytochrome C Oxidase; Chain L
同源超家族 H-superfamily homologous superfamily10 — Cytochrome c oxidase subunit VIIc
结构域编号 domain_id1ocoM00
类 Class class4 — Few Secondary Structures
架构 Architecture architecture10 — Irregular
拓扑 Topology topology81 — Cytochrome C Oxidase; Chain M
同源超家族 H-superfamily homologous superfamily10 — Cytochrome c oxidase, subunit 8
结构域编号 domain_id1ocoN00
类 Class class1 — Mainly Alpha
架构 Architecture architecture20 — Up-down Bundle
拓扑 Topology topology210 — Cytochrome C Oxidase; Chain A
同源超家族 H-superfamily homologous superfamily10 — Cytochrome c oxidase-like, subunit I domain
结构域编号 domain_id1ocoO01
类 Class class1 — Mainly Alpha
架构 Architecture architecture10 — Orthogonal Bundle
拓扑 Topology topology287 — Helix Hairpins
同源超家族 H-superfamily homologous superfamily90
结构域编号 domain_id1ocoO02
类 Class class2 — Mainly Beta
架构 Architecture architecture60 — Sandwich
拓扑 Topology topology40 — Immunoglobulin-like
同源超家族 H-superfamily homologous superfamily420 — Cupredoxins - blue copper proteins
结构域编号 domain_id1ocoP01
类 Class class1 — Mainly Alpha
架构 Architecture architecture10 — Orthogonal Bundle
拓扑 Topology topology287 — Helix Hairpins
同源超家族 H-superfamily homologous superfamily70
结构域编号 domain_id1ocoP02
类 Class class1 — Mainly Alpha
架构 Architecture architecture20 — Up-down Bundle
拓扑 Topology topology120 — Four Helix Bundle (Hemerythrin (Met), subunit A)
同源超家族 H-superfamily homologous superfamily80 — Cytochrome c oxidase, subunit III, four-helix bundle
结构域编号 domain_id1ocoQ00
类 Class class1 — Mainly Alpha
架构 Architecture architecture10 — Orthogonal Bundle
拓扑 Topology topology442 — Cytochrome C Oxidase; Chain D
同源超家族 H-superfamily homologous superfamily10 — Cytochrome c oxidase subunit IV
结构域编号 domain_id1ocoR00
类 Class class1 — Mainly Alpha
架构 Architecture architecture25 — Alpha Horseshoe
拓扑 Topology topology40 — Serine Threonine Protein Phosphatase 5, Tetratricopeptide repeat
同源超家族 H-superfamily homologous superfamily40 — Cytochrome c oxidase, subunit Va/VI
结构域编号 domain_id1ocoS00
类 Class class2 — Mainly Beta
架构 Architecture architecture60 — Sandwich
拓扑 Topology topology11 — Cytochrome C Oxidase; Chain F
同源超家族 H-superfamily homologous superfamily10 — Cytochrome c oxidase, subunit Vb
结构域编号 domain_id1ocoT00
类 Class class4 — Few Secondary Structures
架构 Architecture architecture10 — Irregular
拓扑 Topology topology95 — Cytochrome C Oxidase; Chain G
同源超家族 H-superfamily homologous superfamily10 — Cytochrome c oxidase, subunit VIa
结构域编号 domain_id1ocoU00
类 Class class1 — Mainly Alpha
架构 Architecture architecture10 — Orthogonal Bundle
拓扑 Topology topology10 — Arc Repressor Mutant, subunit A
同源超家族 H-superfamily homologous superfamily140 — Cytochrome c oxidase, subunit VIb
结构域编号 domain_id1ocoV00
类 Class class4 — Few Secondary Structures
架构 Architecture architecture10 — Irregular
拓扑 Topology topology93 — Cytochrome C Oxidase; Chain I
同源超家族 H-superfamily homologous superfamily10 — Mitochondrial cytochrome c oxidase subunit VIc/VIIs
结构域编号 domain_id1ocoW00
类 Class class4 — Few Secondary Structures
架构 Architecture architecture10 — Irregular
拓扑 Topology topology91 — Cytochrome C Oxidase; Chain J
同源超家族 H-superfamily homologous superfamily10 — Cytochrome c oxidase, subunit VIIa
结构域编号 domain_id1ocoX00
类 Class class4 — Few Secondary Structures
架构 Architecture architecture10 — Irregular
拓扑 Topology topology51 — Cytochrome C Oxidase; Chain K
同源超家族 H-superfamily homologous superfamily10 — Cytochrome C Oxidase, chain K
结构域编号 domain_id1ocoY00
类 Class class4 — Few Secondary Structures
架构 Architecture architecture10 — Irregular
拓扑 Topology topology49 — Cytochrome C Oxidase; Chain L
同源超家族 H-superfamily homologous superfamily10 — Cytochrome c oxidase subunit VIIc
结构域编号 domain_id1ocoZ00
类 Class class4 — Few Secondary Structures
架构 Architecture architecture10 — Irregular
拓扑 Topology topology81 — Cytochrome C Oxidase; Chain M
同源超家族 H-superfamily homologous superfamily10 — Cytochrome c oxidase, subunit 8

7. 引用文献 (3)

8. 文件与曲线 (10)