8woe

Cryo-EM structure of the intact flagellar motor-hook complex in the CW state

Method: ELECTRON MICROSCOPY D_max: 602.9 Å Quality: GOOD

SAXS 散射曲线 SAXS Profile

P(r) 距离分布 P(r) Distribution

下载 Download SAXS (.dat) P(r) (.pr.out) CIF

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1. 结构基本信息 1. Structure Basics

条目编号 entry_id	8woe
沉积日期 deposition_date	2023-10-07
结构标题 title	Cryo-EM structure of the intact flagellar motor-hook complex in the CW state
关键词 keywords	Flagellum, Flagellar motor, C ring, Switch complex, CheY, MOTOR PROTEIN; MOTOR PROTEIN
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	— Å
回转半径 Rg (电子) rg_electron	236.20 Å
零角强度 I(0) i0	1061100000000.00
分子量 molecular_weight	8744200.0 kDa
排除体积 excluded_volume	10922000 Å³
包络体积 envelope_volume	29328000 Å³
水化壳体积 shell_volume	1080300 Å³
包络直径 envelope_diameter	714.9 Å
壳层 Rg shell_rg	170.10 Å
包络 Rg envelope_rg	222.10 Å
形状 Rg shape_rg	236.20 Å
总 Rg total_rg	236.10 Å
总原子数 total_atoms	614043
残基数 n_residues	80330
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	602.9 Å
Rg (实空间) rg_real	234.60 Å
Rg 误差 (实空间) rg_real_error	1.88 Å
I(0) (实空间) i0_real	1.0610e+12
I(0) 误差 (实空间) i0_real_error	2.7090e+10
Rg (倒空间) rg_reciprocal	140.90 Å
I(0) (倒空间) i0_reciprocal	669500000000.0000
解质量估计 total_estimate	0.8140
解质量评级 solution_quality	GOOD a GOOD solution
P(r) 峰数 n_peaks	2
主峰位置 r_peak_primary	301.4 Å
偏度 Skewness skewness	-0.039
峰度 Kurtosis kurtosis	-1.190
角度范围 angular_range	— – 0.0300 Å⁻¹
当前正则化参数 α current_alpha	2.0840
最高正则化参数 α highest_alpha	2991000000.0000
实空间数据点数 n_real_points	7
GNOM 版本 gnom_version	4.1.3
质量判据 quality_criteria	AN1: 2.770; Oscil: 0.975; Stabil: 0.854; Sysdev: 1.000; Positv: 1.000; Valcen: 0.000; Smooth: 0.158

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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 (16)

Entity 1 polymer

描述 description	Flagellar basal-body rod protein FlgG
分子量 formula_weight	27784.8 kDa
来源方法 src_method	nat
拷贝数 entity_count	24

聚合体 Polymer

聚合体类型 type	polypeptide(L)
链编号 strand_id	0,1,2,3,4,5,6,7,8,9,AF,AG,AH,AI,AJ,AK,AL,AM,AN,ZA,ZB,ZC,ZD,ZE
原子数 atom_count	614043

MISSLWIAKTGLDAQQTNMDVIANNLANVSTNGFKRQRAVFEDLLYQTIRQPGAQSSEQTTLPSGLQIGTGVRPVATERLHSQGNLSQTNNSKDVAIKGQGFFQVMLPDGTSAYTRDGSFQVDQNGQLVTAGGFQVQPAITIPANALSITIGRDGVVSVTQQGQAAPVQVGQLNLTTFMNDTGLESIGENLYIETQSSGAPNESTPGLNGAGLLYQGYVETSNVNVAEELVNMIQVQRAYEINSKAVSTTDQMLQKLTQL

Entity 2 polymer

描述 description	Flagellar L-ring protein
分子量 formula_weight	24726.7 kDa
来源方法 src_method	nat
拷贝数 entity_count	26

聚合体 Polymer

聚合体类型 type	polypeptide(L)
链编号 strand_id	A,B,C,D,E,F,G,H,I,J,K,L,M,N,O,P,Q,R,S,T,U,V,W,X,Y,Z

MQKYALHAYPVMALMVATLTGCAWIPAKPLVQGATTAQPIPGPVPVANGSIFQSAQPINYGYQPLFEDRRPRNIGDTLTIVLQENVSASKSSSANASRDGKTSFGFDTVPRYLQGLFGNSRADMEASGGNSFNGKGGANASNTFSGTLTVTVDQVLANGNLHVVGEKQIAINQGTEFIRFSGVVNPRTISGSNSVPSTQVADARIEYVGNGYINEAQNMGWLQRFFLNLSPM

Entity 3 polymer

描述 description	Flagellar basal body rod protein FlgB
分子量 formula_weight	15145.1 kDa
来源方法 src_method	nat
拷贝数 entity_count	5

聚合体 Polymer

聚合体类型 type	polypeptide(L)
链编号 strand_id	A0,A6,A7,A8,A9

MLDRLDAALRFQQEALNLRAQRQEILAANIANADTPGYQARDIDFASELKKVMVRGREETGGVALTLTSSHHIPAQAVSSPAVDLLYRVPDQPSLDGNTVDMDRERTQFADNSLKYQMGLTVLGSQLKGMMNVLQGGN

Entity 4 polymer

描述 description	Flagellar hook-basal body complex protein FliE
分子量 formula_weight	11087.7 kDa
来源方法 src_method	nat
拷贝数 entity_count	6

聚合体 Polymer

聚合体类型 type	polypeptide(L)
链编号 strand_id	A1,A2,A3,A4,A5,Az

MAAIQGIEGVISQLQATAMAARGQDTHSQSTVSFAGQLHAALDRISDRQAAARVQAEKFTLGEPGIALNDVMADMQKASVSMQMGIQVRNKLVAAYQEVMSMQV

Entity 5 polymer

描述 description	Flagellar basal-body rod protein FlgF
分子量 formula_weight	26121.2 kDa
来源方法 src_method	nat
拷贝数 entity_count	5

聚合体 Polymer

聚合体类型 type	polypeptide(L)
链编号 strand_id	AA,AB,AC,AD,AE

MDHAIYTAMGAASQTLNQQAVTASNLANASTPGFRAQLNALRAVPVDGLSLATRTLVTASTPGADMTPGQLDYTSRPLDVALQQDGWLVVQAADGAEGYTRNGNIQVGPTGQLTIQGHPVIGEGGPITVPEGSEITIAADGTISALNPGDPPNTVAPVGRLKLVKAEGNEVQRSDDGLFRLTAEAQAERGAVLAADPSIRIMSGVLEGSNVKPVEAMTDMIANARRFEMQMKVITSVDENEGRANQLLSMS

Entity 6 polymer

描述 description	Flagellar M-ring protein
分子量 formula_weight	61295.6 kDa
来源方法 src_method	nat
拷贝数 entity_count	110

聚合体 Polymer

聚合体类型 type	polypeptide(L)
链编号 strand_id	;AO,AP,AQ,AR,AS,AT,AU,AV,AW,AX,AY,AZ,Aa,Ac,Ad,Ae,Af,Ag,Ah,Ai,Aj,Ak,Al,Am,An,Ao,Ap,BG,BH,BI,BJ,BK,BL,BM,BN,BO,BP,BQ,BR,BS,BT,BU,BV,BW,BX,UI,UJ,UK,UL,UM,UN,UO,UP,WA,WB,WC,WD,WE,WF,WG,WH,WI,WJ,WK,WL,WM,WN,WO,WP,WQ,WR,WS,WT,WU,WV,WW,DE,DL,B0,B3,EH,EO,EV,Ba,Bh,Bo,Bv,Ea,CG,CN,CU,Cb,Ci,Cp,Cw,Eb,Ec,Ed,Ee,Ef,Eg,Eh,Ei,Ej,Ek,El,Em,En,Eo,Ep ;

MSATASTATQPKPLEWLNRLRANPRIPLIVAGSAAVAIVVAMVLWAKTPDYRTLFSNLSDQDGGAIVAQLTQMNIPYRFANGSGAIEVPADKVHELRLRLAQQGLPKGGAVGFELLDQEKFGISQFSEQVNYQRALEGELARTIETLGPVKSARVHLAMPKPSLFVREQKSPSASVTVTLEPGRALDEGQISAVVHLVSSAVAGLPPGNVTLVDQSGHLLTQSNTSGRDLNDAQLKFANDVESRIQRRIEAILSPIVGNGNVHAQVTAQLDFANKEQTEEHYSPNGDASKATLRSRQLNISEQVGAGYPGGVPGALSNQPAPPNEAPIATPPTNQQNAQNTPQTSTSTNSNSAGPRSTQRNETSNYEVDRTIRHTKMNVGDIERLSVAVVVNYKTLADGKPLPLTADQMKQIEDLTREAMGFSDKRGDTLNVVNSPFSAVDNTGGELPFWQQQSFIDQLLAAGRWLLVLVVAWILWRKAVRPQLTRRVEEAKAAQEQAQVRQETEEAVEVRLSKDEQLQQRRANQRLGAEVMSQRIREMSDNDPRVVALVIRQWMSNDHE

Entity 7 polymer

描述 description	Flagellar biosynthetic protein FliQ
分子量 formula_weight	9606.8 kDa
来源方法 src_method	nat
拷贝数 entity_count	4

聚合体 Polymer

聚合体类型 type	polypeptide(L)
链编号 strand_id	Ab,Aq,Ar,As

MTPESVMMMGTEAMKVALALAAPLLLVALITGLIISILQAATQINEMTLSFIPKIVAVFIAIIVAGPWMLNLLLDYVRTLFSNLPYIIG

Entity 8 polymer

描述 description	Flagellar biosynthetic protein FliR
分子量 formula_weight	28938.9 kDa
来源方法 src_method	nat
拷贝数 entity_count	1

聚合体 Polymer

聚合体类型 type	polypeptide(L)
链编号 strand_id	At

MIQVTSEQWLYWLHLYFWPLLRVLALISTAPILSERAIPKRVKLGLGIMITLVIAPSLPANDTPLFSIAALWLAMQQILIGIALGFTMQFAFAAVRTAGEFIGLQMGLSFATFVDPGSHLNMPVLARIMDMLAMLLFLTFNGHLWLISLLVDTFHTLPIGSNPVNSNAFMALARAGGLIFLNGLMLALPVITLLLTLNLALGLLNRMAPQLSIFVIGFPLTLTVGIMLMAALMPLIAPFCEHLFSEIFNLLADIVSEMPINNNP

Entity 9 polymer

描述 description	Flagellar biosynthetic protein FliP
分子量 formula_weight	26801.1 kDa
来源方法 src_method	nat
拷贝数 entity_count	5

聚合体 Polymer

聚合体类型 type	polypeptide(L)
链编号 strand_id	Au,Av,Aw,Ax,Ay

MRRLLFLSLAGLWLFSPAAAAQLPGLISQPLAGGGQSWSLSVQTLVFITSLTFLPAILLMMTSFTRIIIVFGLLRNALGTPSAPPNQVLLGLALFLTFFIMSPVIDKIYVDAYQPFSEQKISMQEALDKGAQPLRAFMLRQTREADLALFARLANSGPLQGPEAVPMRILLPAYVTSELKTAFQIGFTIFIPFLIIDLVIASVLMALGMMMVPPATIALPFKLMLFVLVDGWQLLMGSLAQSFYS

Entity 10 polymer

描述 description	Flagellar basal-body rod protein FlgC
分子量 formula_weight	13991.9 kDa
来源方法 src_method	nat
拷贝数 entity_count	6

聚合体 Polymer

聚合体类型 type	polypeptide(L)
链编号 strand_id	BA,BB,BC,BD,BE,BF

MALLNIFDIAGSALAAQSKRLNVAASNLANADSVTGPDGQPYRAKQVVFQVDAAPGQATGGVKVASVIESQAPEKLVYEPGNPLADANGYVKMPNVDVVGEMVNTMSASRSYQANIEVLNTVKSMMLKTLTLGQ

Entity 11 polymer

描述 description	Flagellar hook protein FlgE
分子量 formula_weight	42233.2 kDa
来源方法 src_method	nat
拷贝数 entity_count	29

聚合体 Polymer

聚合体类型 type	polypeptide(L)
链编号 strand_id	ZF,ZG,ZH,ZI,ZJ,ZK,ZL,ZM,ZN,ZO,ZP,ZQ,ZR,ZS,ZT,ZU,ZV,ZW,ZX,ZY,ZZ,Za,Zb,Zc,Zd,Ze,Zf,Zg,Zh

MSFSQAVSGLNAAATNLDVIGNNIANSATYGFKSGTASFADMFAGSKVGLGVKVAGITQDFTDGTTTNTGRGLDVAISQNGFFRLVDSNGSVFYSRNGQFKLDENRNLVNMQGMQLTGYPATGTPPTIQQGANPAPITIPNTLMAAKSTTTASMQINLNSTDPVPSKTPFSVSDADSYNKKGTVTVYDSQGNAHDMNVYFVKTKDNEWAVYTHDSSDPAATAPTTASTTLKFNENGILESGGTVNITTGTINGATAATFSLSFLNSMQQNTGANNIVATNQNGYKPGDLVSYQINNDGTVVGNYSNEQEQVLGQIVLANFANNEGLASQGDNVWAATQASGVALLGTAGSGNFGKLTNGALEASNVDLSKELVNMIVAQRNYQSNAQTIKTQDQILNTLVNLR

Entity 12 polymer

描述 description	Flagellar P-ring protein
分子量 formula_weight	38194.2 kDa
来源方法 src_method	nat
拷贝数 entity_count	26

聚合体 Polymer

聚合体类型 type	polypeptide(L)
链编号 strand_id	a,b,c,d,e,f,g,h,i,j,k,l,m,n,o,p,q,r,s,t,u,v,w,x,y,z

MFKALAGIVLALVATLAHAERIRDLTSVQGVRENSLIGYGLVVGLDGTGDQTTQTPFTTQTLNNMLSQLGITVPTGTNMQLKNVAAVMVTASYPPFARQGQTIDVVVSSMGNAKSLRGGTLLMTPLKGVDSQVYALAQGNILVGGAGASAGGSSVQVNQLNGGRITNGAIIERELPTQFGAGNTINLQLNDEDFTMAQQITDAINRARGYGSATALDARTVQVRVPSGNSSQVRFLADIQNMEVNVTPQDAKVVINSRTGSVVMNREVTLDSCAVAQGNLSVTVNRQLNVNQPNTPFGGGQTVVTPQTQIDLRQSGGSLQSVRSSANLNSVVRALNALGATPMDLMSILQSMQSAGCLRAKLEII

Entity 13 polymer

描述 description	Flagellar motor switch protein FliN
分子量 formula_weight	14801.8 kDa
来源方法 src_method	nat
拷贝数 entity_count	102

聚合体 Polymer

聚合体类型 type	polypeptide(L)
链编号 strand_id	;C3,C4,C5,C8,C9,DD,DI,DJ,DK,DM,DN,DO,DP,DQ,DR,DS,DT,DU,DV,DW,Da,Db,Dc,Dg,Dh,Di,Dm,Dn,Do,Ds,Dt,Du,Dy,Dz,D1,D5,D6,D7,EA,EB,B1,B2,B7,B8,B9,EE,EF,EG,EL,EM,EN,ES,ET,EU,EZ,BY,BZ,Be,Bf,Bg,Bl,Bm,Bn,Bs,Bt,Bu,Bz,C1,C2,CD,CE,CF,CK,CL,CM,CR,CS,CT,CY,CZ,Ca,Cf,Cg,Ch,Cm,Cn,Co,Ct,Cu,Cv,FC,FD,FE,FF,FG,FH,FI,FJ,FK,FL,FM,FN ;

MSDMNNPSDENTGALDDLWADALNEQKATTTKSAADAVFQQLGGGDVSGAMQDIDLIMDIPVKLTVELGRTRMTIKELLRLTQGSVVALDGLAGEPLDILINGYLIAQGEVVVVADKYGVRITDIITPSERMRRLSR

Entity 14 polymer

描述 description	Flagellar motor switch protein FliG
分子量 formula_weight	36891.0 kDa
来源方法 src_method	nat
拷贝数 entity_count	34

聚合体 Polymer

聚合体类型 type	polypeptide(L)
链编号 strand_id	C6,DA,DG,DY,De,Dk,Dq,Dw,D3,D9,B5,EC,EJ,EQ,EX,Bc,Bj,Bq,Bx,CB,CI,CP,CW,Cd,Ck,Cr,Cy,Ex,Ey,Ez,E1,E2,E3,E4

MSNLSGTDKSVILLMTIGEDRAAEVFKHLSTREVQALSTAMANVRQISNKQLTDVLSEFEQEAEQFAALNINANEYLRSVLVKALGEERASSLLEDILETRDTTSGIETLNFMEPQSAADLIRDEHPQIIATILVHLKRSQAADILALFDERLRHDVMLRIATFGGVQPAALAELTEVLNGLLDGQNLKRSKMGGVRTAAEIINLMKTQQEEAVITAVREFDGELAQKIIDEMFLFENLVDVDDRSIQRLLQEVDSESLLIALKGAEPPLREKFLRNMSQRAADILRDDLANRGPVRLSQVENEQKAILLIVRRLAETGEMVIGSGEDTYV

Entity 15 polymer

描述 description	Chemotaxis protein CheY
分子量 formula_weight	14177.5 kDa
突变 mutation	D13K, Y106W
来源方法 src_method	man
拷贝数 entity_count	34

聚合体 Polymer

聚合体类型 type	polypeptide(L)
链编号 strand_id	C7,DB,DH,DZ,Df,Dl,Dr,Dx,D4,D0,B6,ED,EK,ER,EY,Bd,Bk,Br,By,CC,CJ,CQ,CX,Ce,Cl,Cs,Cz,E6,E7,E8,E9,E0,FA,FB

MADKELKFLVVDKFSTMRRIVRNLLKELGFNNVEEAEDGVDALNKLQAGGFGFIISDWNMPNMDGLELLKTIRADSAMSALPVLMVTAEAKKENIIAAAQAGASGWVVKPFTAATLEEKLNKIFEKLGM

来源 Source

来源生物 organism	Salmonella enterica subsp. enterica serovar Typhimurium str. LT2
NCBI 分类编号 ncbi_taxonomy_id	99287
宿主生物 host_organism	Escherichia coli BL21(DE3)

Entity 16 polymer

描述 description	Flagellar motor switch protein FliM
分子量 formula_weight	37901.1 kDa
来源方法 src_method	nat
拷贝数 entity_count	34

聚合体 Polymer

聚合体类型 type	polypeptide(L)
链编号 strand_id	C0,DC,DF,DX,Dd,Dj,Dp,Dv,D2,D8,B4,EI,EP,EW,Bb,Bi,Bp,Bw,CA,CH,CO,CV,Cc,Cj,Cq,Cx,Eq,Er,Es,Et,Eu,Ev,Ew,E5

MGDSILSQAEIDALLNGDSDTKDEPTPGIASDSDIRPYDPNTQRRVVRERLQALEIINERFARQFRMGLFNLLRRSPDITVGAIRIQPYHEFARNLPVPTNLNLIHLKPLRGTGLVVFSPSLVFIAVDNLFGGDGRFPTKVEGREFTHTEQRVINRMLKLALEGYSDAWKAINPLEVEYVRSEMQVKFTNITTSPNDIVVNTPFHVEIGNLTGEFNICLPFSMIEPLRELLVNPPLENSRHEDQNWRDNLVRQVQHSELELVANFADIPLRLSQILKLKPGDVLPIEKPDRIIAHVDGVPVLTSQYGTVNGQYALRVEHLINPILNSLNEEQPK

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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	—

空间群 space_group	P 1
空间群编号 int_tables_number	1
晶系 crystal_system	—

分辨率 resolution	4.30 Å
分辨率测定方法 resolution_method	—
颗粒数 num_particles	26921

fit	/app/data/saxs_computation/wo/8woe/8woe.fit
pddf	/app/data/pr_computation/wo/8woe/8woe.pr.out
profile	/app/data/saxs_computation/wo/8woe/8woe.dat

Cryo-EM structure of the intact flagellar motor-hook complex in the CW state

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

对称性 Symmetry

冷冻电镜 EM 3D

5. 实体与聚合体信息 (16)

Entity 1 polymer

聚合体 Polymer

Entity 2 polymer

聚合体 Polymer

Entity 3 polymer

聚合体 Polymer

Entity 4 polymer

聚合体 Polymer

Entity 5 polymer

聚合体 Polymer

Entity 6 polymer

聚合体 Polymer

Entity 7 polymer

聚合体 Polymer

Entity 8 polymer

聚合体 Polymer

Entity 9 polymer

聚合体 Polymer

Entity 10 polymer

聚合体 Polymer

Entity 11 polymer

聚合体 Polymer

Entity 12 polymer

聚合体 Polymer

Entity 13 polymer

聚合体 Polymer

Entity 14 polymer

聚合体 Polymer

Entity 15 polymer

聚合体 Polymer

来源 Source

Entity 16 polymer

聚合体 Polymer

7. 引用文献 (1)

8. 文件与曲线 (10)

Files (7)

Curves (3)