9d93

Mycobacteriophage Bxb1 tail tip - Composite map and model

Method: ELECTRON MICROSCOPY D_max: 267.8 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

▼

1. 结构基本信息 1. Structure Basics

条目编号 entry_id	9d93
沉积日期 deposition_date	2024-08-20
结构标题 title	Mycobacteriophage Bxb1 tail tip - Composite map and model
关键词 keywords	Bacteriophage, tail tip, VIRAL PROTEIN; VIRAL PROTEIN
实验方法 method	ELECTRON MICROSCOPY

▼

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

回转半径 Rg (Guinier) rg_guinier	93.15 Å
回转半径 Rg (电子) rg_electron	93.88 Å
零角强度 I(0) i0	28478900000.00
分子量 molecular_weight	1434500.0 kDa
排除体积 excluded_volume	1790300 Å³
包络体积 envelope_volume	3069000 Å³
水化壳体积 shell_volume	279490 Å³
包络直径 envelope_diameter	354.5 Å
壳层 Rg shell_rg	88.01 Å
包络 Rg envelope_rg	92.73 Å
形状 Rg shape_rg	93.87 Å
总 Rg total_rg	93.87 Å
总原子数 total_atoms	199287
残基数 n_residues	13374
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

▼

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

最大尺寸 Dmax dmax	267.8 Å
Rg (实空间) rg_real	87.97 Å
Rg 误差 (实空间) rg_real_error	1.17 Å
I(0) (实空间) i0_real	2.7250e+10
I(0) 误差 (实空间) i0_real_error	5.7160e+08
Rg (倒空间) rg_reciprocal	89.63 Å
I(0) (倒空间) i0_reciprocal	28160000000.0000
解质量估计 total_estimate	0.8981
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	94.5 Å
偏度 Skewness skewness	0.452
峰度 Kurtosis kurtosis	-0.307
角度范围 angular_range	— – 0.0850 Å⁻¹
当前正则化参数 α current_alpha	0.5795
最高正则化参数 α highest_alpha	4970000000.0000
实空间数据点数 n_real_points	18
GNOM 版本 gnom_version	4.1.3
质量判据 quality_criteria	AN1: 0.001; Oscil: 0.922; Stabil: 0.978; Sysdev: 1.000; Positv: 1.000; Valcen: 0.970; Smooth: 0.012

▶

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

▶

5. 实体与聚合体信息 (10)

Entity 1 polymer

描述 description	Tail tube, gp19
分子量 formula_weight	30170.3 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	Ja,Jb,Jc,Jd,Je,Jf
原子数 atom_count	199287

MALKDDAVLIAARGYVYTAAVGTAAPTPSQLKLIDLEHPEAWDRTGWDLVGHTSEDDLPEFGFDGGDSEVRGSWQKKKLREVETEEIADYVVINLTQFDETALELYFGPNQSATPGIFGVKSGSVVNERALLIVIVDNDVRLGFHARKASLKREDAISLATDEFGALPVRATFLDYQSYNLYEWIEEDWFNAVDAPVVYLLDLGGATGGDYTLLVGGKSTGDIAYNANASAIKTAIGAVDDGVAESAWTVTADGSDFEISGPLAVALGVDSTTGGSGVTVDVV

Entity 2 polymer

描述 description	Tail collar spacer, gp6
分子量 formula_weight	9696.7 kDa
来源方法 src_method	nat
拷贝数 entity_count	3

聚合体 Polymer

聚合体类型 type	polypeptide(L)
链编号 strand_id	Ka,Kb,Kc

MTTVTATVHDISGRPDDSHWTFSSDLREQDGVIITPRVVRVKPFNGELALTLPPGPVRVTHHQDRWLIDVPEEDSDLWDLIEAATD

Entity 3 polymer

描述 description	Tail collar fibers, gp4
分子量 formula_weight	36724.0 kDa
来源方法 src_method	nat
拷贝数 entity_count	9

聚合体 Polymer

聚合体类型 type	polypeptide(L)
链编号 strand_id	La,Lb,Lc,Ld,Le,Lf,Lg,Lh,Li

MTVTITADVRDVTGQPDNQQWVFSTVLRQQDGSILTQKQVRVNPVDGALSVELEPGFAIVVYGEYRWFIEVPETDAGLWGLIATSVAVPPDTSAELLADAVNGYLDANPPSADWDALSNVPSEFPPSAHDHVAADVTDLDSAIAAYLASNPPEAGSVAWDDIDDKPSTFTPSSHTHSIANVTGLQDALDEKLDEAAVDARVSLGTAALVDSAPSTLDTLNELAAALGDDPNFATTVASQIGAKADKATTITAGTGLTGGGDLSANRTLNVSFGTSSTTACVGNDSRLSNTRTPTDGSVTNAKVASGAGIALSKLATGYVAGSDNSGARTLTIWVGTEAQYTAIGTKDSNTIYLRTA

Entity 4 polymer

描述 description	Tail tip cage, gp23
分子量 formula_weight	74357.4 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	Ma,Mb,Mc,Md,Me,Mf

MASRLLDPDTLVELEGVNGEWFDLTNGTEGIYLATEVTGLLDPPVKATYEEPGNFPGARYLNHRVLRRDLVFGVEILNDENDETWLRRDSAWRKAWSFKRDAKLHITTGESGHRYLKVRLFESPTTDMVTDPRGREVNITKMVVVAGDPFWYEDDVVYPIEVQEDTTFDPNPLPWPWPQPELPVEDIEITVPNANPTDNIIWPKWTLPGSSEKPAEPYIPGLPWLGAPKSPATLWTVPDYKLDLDEDEDPSLGTRRIRMPGQIGGLRVEEVQQIYIDGRPTGGTFKIGYGDEWTEPIAYNASPNDVRAALIALEGISANDVEVSLGGATNEVQTVRLKGGALGGTFTLSLGSETTVGIPFNASDADLQGALVGLDSIGSADVRVKSTKINEVQVVELVGEPTSGSFTLTLDGQTTAPIAYNATPATVAARIADLPNIDGNYVKVEGLNEWFHSPYRITFGEAQSQGVITDIISGIIDFIGGLFGGNASGKGVGGIDIDEMTGDVGTLSGGAGLDVQVTTEQDGDRLYVVSFQRAAGGLNLPQLVGNASGLEGDDLSIETATNVDGGRPYVVRFTDDLQGVDVPTMTVDTDDLTGGYEVGSRVVVLREGYTYPAENVVVDSDPREEQVSSESGSPIWERMNSVRFLHYIPPYTGEVTFKLSVSGAVPGQIATLRLPRAWSRPWGLE

Entity 5 polymer

描述 description	Tapemeasure protein
分子量 formula_weight	84842.4 kDa
来源方法 src_method	nat
拷贝数 entity_count	3

聚合体 Polymer

聚合体类型 type	polypeptide(L)
链编号 strand_id	Na,Nb,Nc

MAAGKEVGRLSIKVTPDLDGFYRELKAAVEAAEKMKVHIPVEPDMGNFRQEVAASTAGMSTRVKVQADVDRGLLDRLSNSLSGMKAPSFGSGINPTGYMLILGAAAALTPLIAGSLGAISAALLTLPGLIAAVAVPIGALALGIDGFKRAAERLKPAFDGLKESMSAAVENQFGPVFDQLGKAIPTLAANLPKVTQGMADVAKSIVDSVTSGEGLGRIESLISNIGAAISRSAPGLTSFVDGLLNLAEKFSGKLPAIADWINRTGESFSKWVTDFTTAGPDGVSKFDNAMSGLGDTLQMLGGGLVDILNKSLEFFSDPQKIQSFKAELDGLIASISTLVDLINSLAAAFSKVPGLSDGEANGVMDFAPIQIQGAIELIKQIPTAWEGVKLKAAEVWNSIPTMAATAIASIRATLATLPGLLSGIWTTVTASASSAFATIGAAVSAGARSVVNTAGNIFRSMGSVIANAFSAAVSAVQTAFSQMVSAAASGAQQVVAEVQALGGKIAAAAGNFGSILVAAGKALMDGLLSGIKAGLSAVLDFASGIAAKIAAVKGPLPKDRKELIPAGEALMEGLGTGIENGLDPVLDRAREIAKQIFSAFKETFGTAPTSLAFNLGSMQGDLSGLQTSLESTATASRDLTSSLTAPTAELASGSSLLGDDVKDQLDELKLAYDQLELQRKQLKVQKNEAGSKEDKAAIQDKIDALQAEKDKLAYQKDQLKIQQKQTGEMGEQKTLAQFLGEQIASTWQQGTDAVAGFARSNLDQAMSDLGIGGGAITNGLNAGLDWGVQALGNAVNIQVNSVDDAIAVKNNEVNKQALTYTRR

Entity 6 polymer

描述 description	Baseplate hub, gp25
分子量 formula_weight	67065.2 kDa
来源方法 src_method	nat
拷贝数 entity_count	3

聚合体 Polymer

聚合体类型 type	polypeptide(L)
链编号 strand_id	Oa,Ob,Oc

MPAPAADMTTLAGHQQLWDTVMKRRQKREDERIAPPLIRLWDGDYKLRGQLVGERSHKFEFIENETGTASITISLDHYLAKWIASHKGRARRNVHVSFDKQGARWTGRMDHYDIVRTKEGDVYMEVVFKHDYEELKHIYVWANPFLRPEFQFPKLWVMFGPAKWALLLTLFVNILRLETSLWTLPDNPLDISEWFPFSLNPGNWRNIVKPFPFLADNSPLTIVFSRFKSFHDTAKNVLADSQLTIVCRRYFHGEDPHPFAELSGELGLPLIEGIASLIPLRHGCLVWDIVDNSGWGSETAFGGSLLTGLVRAVMNIASDGMTEGIDIYTGLPTYPGEYYTPGFLGTYPKAPHVVFMESPYTGIESSKFTYTEATDTSFVLGGQSMPGVNEVISAGINMGGDFLTSLINSQLATLGAFGGAIDLPPLGGIMDAVARPLYENVVLAFMEIPTLRAAGLSLPIAGLEDIVTGLGDFHYNEGWVDGADKAFTISAIMAARAKQWATRAKHSHEIQVSDAAPYIIGERGHGHFWLGDRVGTTVLGYPDPYTIFVERVTKLTYEWTSDGPKGWTITIGYKEPEDPILKAFELIQYINSNLGQLGIL

Entity 7 polymer

描述 description	Tail spike, gp29
分子量 formula_weight	64056.2 kDa
来源方法 src_method	nat
拷贝数 entity_count	3

聚合体 Polymer

聚合体类型 type	polypeptide(L)
链编号 strand_id	Pa,Pb,Pc

MADDQWVPDVPDGAFVIGGGDYRYGQDMTEDIARSLFQVPDFNPANALLVLPQLLLRLPLEALQKFKDFIPNVLEGAFNTVAGAVDAIMGAIRETPRVLEQILSYLPQELRDELEHAAARIGAVIDAIVQALTGTLNIGHTIEDLIFSLTNIRPGAVGGVLGGGSIEETIKRIVDAIVSGIVGVTGIGAGISDLQSLIEQISSAAARGGFAWDILGIQNNKKPKSGLYKSERGNFDLDTLNSTVSVAPGTSIIAFDVIEQSMPIGLITWIGWGTSGITEFYINVYRCVDDRSDPELGELIHQSENIAGLLAGSASPGANMAYELTTPIEAVAGDLLAYEFIAVGGTHTMRGRDFNLPDNDGAPIGNVGATRSLSTPSLPPATLDKADVTWTDNVPRVGIAVDTGTGSDHHDPQVEFFEKPVAIPVPAWCDRIDAIVTGKGGEGADGFLGFYGNPGQPGSVNTVTWTRGEHFSGTTTILEWDGAELSIPGFEVSAANGSNGSGQRPVALGKPVGKGIEEVEYNGLKLAAGGDQHAYGGAGTKPGGGGNGGHWLGIYTQGGPGGPACAAVQFRKGALPGEVVGDGEGDVTPPNVSALHVDVSATSTSITITPSGAVDDA

Entity 8 polymer

描述 description	Tail wing brush, gp33
分子量 formula_weight	24772.3 kDa
来源方法 src_method	nat
拷贝数 entity_count	3

聚合体 Polymer

聚合体类型 type	polypeptide(L)
链编号 strand_id	Qa,Qb,Qc

MSLKVGGLDVVGVFVGDAAATIYVGAMRIWPPVPDFTPFTISSEDPGYEDLIDEQVPEGASGCWVTLGGAGGGGGSGRRANSGYRYGGGGGGGGGYIDRVWIPRASLGSTFTLIRGLGGAGGARAAGSSNGNNGAPGGSTVFSSGSVSLTASGGAAGVKGTSSSASGSGGAGGTTSISGVSATGYTGGKGGNGGSSPSSGQSRTDGSGAGGGGGGGVRSNDNSFSGGSNGTSSGPAGNGGRGTDGSINTGGSNAGSGGDGYVLIEWE

Entity 9 polymer

描述 description	Tail wing arm, gp31
分子量 formula_weight	11315.5 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	Ra,Rb,Rc,Rd,Re,Rf

MIDADDYTVNLTSHTTLANIPSGAIIAVSESLTGKSVTSAGWVKADPTVFPEVTGDTGEAVIVYKHTGTASTSTLLSYHDSPTYQFVIPNGSDIRVIWPTDGFIRF

Entity 10 polymer

描述 description	Tail wing base, gp30
分子量 formula_weight	54931.0 kDa
来源方法 src_method	nat
拷贝数 entity_count	3

聚合体 Polymer

聚合体类型 type	polypeptide(L)
链编号 strand_id	Sa,Sb,Sc

MPSGLRGYNVYRNGVRQNTSPVTELGSVTITGLTPGTDYSSQITVTAIDMAGNESEPKTLAELEAEAATDELSPADPLAPAVRAQIDALVAAKMKPTSGKEADGAMVGIETPTGSYYKAYGGDRTKNQPLFLEQNFRYGSCSKMACNTLLLREIDRGHVDWDDTLDQFIDGIPNGDKITVRYLLLFQDGLKDWLQGDPAVQQTYFLNPTLNYDPLAYIRASTPVFEPGTDSHYSNAATLLMGKILEWCDAEFYTGRSARELIVEEWKNTVGMESLHWPTTNYMNQPYVRGWTPNMALPQIQAILGPFAFLAGLLGYPTSKDLEWTAVSTTWSDAAGSLAGNMEDFVKFGKALYEGEFLSEEMNQLRKEIFTRYVEYEPAGPHQGPGWMGFGLNSICWGHWLGWVGNLGGYIAVLFYNQDDGSVIATMLNNFAGHADAVDLFYQIAYLLNPESTGHRDWIFRPDPAEDADEVRDPTLYLTVESTGDNQIPADVPFEI

▶

7. 引用文献 (1)

▶

分辨率 resolution	2.85 Å
分辨率测定方法 resolution_method	—
颗粒数 num_particles	22280

fit	/app/data/saxs_computation/d9/9d93/9d93.fit
pddf	/app/data/pr_computation/d9/9d93/9d93.pr.out
profile	/app/data/saxs_computation/d9/9d93/9d93.dat

Mycobacteriophage Bxb1 tail tip - Composite map and model

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

冷冻电镜 EM 3D

5. 实体与聚合体信息 (10)

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

7. 引用文献 (1)

8. 文件与曲线 (10)

Files (7)

Curves (3)