SAXSdb — 8ghl

▼

1. 结构基本信息 1. Structure Basics

条目编号 entry_id	8ghl
沉积日期 deposition_date	2023-03-10
结构标题 title	the Hir complex core
关键词 keywords	Histone, Complex, Replication-Independent, CHAPERONE; CHAPERONE
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	65.61 Å
回转半径 Rg (电子) rg_electron	66.75 Å
零角强度 I(0) i0	2518190000.00
分子量 molecular_weight	435120.0 kDa
排除体积 excluded_volume	549590 Å³
包络体积 envelope_volume	844480 Å³
水化壳体积 shell_volume	109970 Å³
包络直径 envelope_diameter	252.8 Å
壳层 Rg shell_rg	62.85 Å
包络 Rg envelope_rg	66.98 Å
形状 Rg shape_rg	66.83 Å
总 Rg total_rg	66.38 Å
总原子数 total_atoms	30648
残基数 n_residues	3780
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	229.0 Å
Rg (实空间) rg_real	66.39 Å
Rg 误差 (实空间) rg_real_error	2.12 Å
I(0) (实空间) i0_real	2.5150e+09
I(0) 误差 (实空间) i0_real_error	5.6650e+07
Rg (倒空间) rg_reciprocal	64.76 Å
I(0) (倒空间) i0_reciprocal	2510000000.0000
解质量估计 total_estimate	0.8497
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	76.3 Å
偏度 Skewness skewness	0.678
峰度 Kurtosis kurtosis	0.215
角度范围 angular_range	— – 0.1200 Å⁻¹
当前正则化参数 α current_alpha	0.0125
最高正则化参数 α highest_alpha	121200000.0000
实空间数据点数 n_real_points	25
GNOM 版本 gnom_version	4.1.3
质量判据 quality_criteria	AN1: 0.000; Oscil: 0.745; Stabil: 0.999; Sysdev: 1.000; Positv: 1.000; Valcen: 0.976; Smooth: 0.832

▶

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

▶

5. 实体与聚合体信息 (3)

Entity 1 polymer

描述 description	Protein HIR1
分子量 formula_weight	93983.7 kDa
来源方法 src_method	nat
拷贝数 entity_count	2

聚合体 Polymer

聚合体类型 type	polypeptide(L)
链编号 strand_id	A,G
原子数 atom_count	30648

MKVVKFPWLAHREESRKYEIYTVDVSHDGKRLATGGLDGKIRIWSIDSILRCMELESLTPEIPLPQDLQMPLCSMSRHTGSITCVKFSPDGKYLASGSDDRILLIWALDEEQSSQPAFGSEHEREHWTVRKRLVAHDNDIQDICWAPDSSILVTVGLDRSVIVWNGSTFEKLKRFDVHQSLVKGVVFDPANKYFATTSDDRTMKIFRYHKTGDISFTIEHIITEPFKESPLTTYFRRPSWSPDGQHIAVPNATNGPVSSVAIVNRGTWDTNVSLIGHDAPTEVARFNPRLFERNAGVKQKKDDDPENALVGQNDDKVHHFDKNIDSVVATAGQDKSLAVWSTSRPRPILVAFDIANKSITDMSWNPDGSLLFVASLDSSITLFKFENNELGKPIPLEKNMEQLYRYGVDKDSLDFPESINQLLLEDQTKSFKHTKISTSKLGENHPTLATNSASNQKDNNDASVSRSEHINILIPKRKKDAILNKAVTLKSGKKRVAPTLISTSSSSPFSNGIKKPTLDSKRIENNVKSSTKTINSKNTLLNVPEGVEKKISISSFPLPRLGIHSLIMGTKERSAWKISNSELENDDADNAGGKGSDGTSNSIDDIAVLSEEENDFHRMTLNAKLTQEKIWSEEPTTRCLLQSDVIPDTDVVVLEGGSLDDIAVLEIRNGVERSIQFDSEALLDNPTRILGYQGGKRTIETFIPEVIICAIGSKDCKCWCLASANGSIYILSYNGQQRIPKICLGHKVIKMVTSSKYLLVLTERGLFFAWDLLDLKLVLRNVPILPILNGQPIHGNKVRINKVIKCFRLDGSSCDLLLEVGDPKNVYKWTKDLGCWSLYK

Entity 2 polymer

描述 description	Histone transcription regulator 3
分子量 formula_weight	191915.2 kDa
来源方法 src_method	nat
拷贝数 entity_count	2

聚合体 Polymer

聚合体类型 type	polypeptide(L)
链编号 strand_id	J,D

MSMFNALNSNIEGEQYEAEEHSRELQIEQSFNILQDALIDLKNKDFEKSDSKFQELFQIDVVKPDRWGMYRNSSPTLDNLRYLCYRNRGMYYHLYLENNYERLNSQELVNCILKAVENLVESIQHSDADFAVTDLLARIFKSFNSVKLERLISEYEFTKQENLSLLLGRHRKFLLNDLTLMMNNYVELTNKLLVPNLSDNTIFERYHLEKYKDIKPEPLAFGPILSRISEMKKQDEEIMKKLDVFNVTLNEESWDEVAKALKNLLPSVKTSSLIGRNMDPYNEIEEPIEAVKFELSEAINNTPSLDRESERQEEEQDNESVRADDKSGNLAPSDIQTNEEARPNKRTDEHIDSTKPLQRSSKRFKEREQENSKELVMDVHKRFFGEFNTLLSYIHILPFCDFDTFASKFIIGSSDKQPEKFIPYTDLYECLKSWSSRYTDIFNQNDYLSSGSNENEELFQLNALLKSNAFDDKESFPRYLNDLDSDHIRSFISEVNAGNLHFHQVRLKLLFKLLGTYDEGNGRRLIIDYLWESQLLKIVLWFVFGIESNIFALINKNKRQCKYLALSIYELLVNHLGNIVEEITNKRIQGHKSADLKSQRNKVEKRIRSWHTLLEQIADEKDKELYVHFQWTHYCFLQYTCDIVDSRLSETLTSLENTIKDSDSSLDIAYPNYRHIPALNLNTVQSQKRKIRIIQNITVEDISEDTNSDTHSENHLETLEKVLLHILHPSTNHSNIDEEMVSFIFNSPFLLKIRLWGVLFSSYVKKSSIQDVQRIYFHVLDFMKGALTSPVYKESNPHGRHQMLLTVLTAIGYLSSQLTAILNSNRWESSDFVLEDYMFEKLLQTFFFFYTVLFYESSAVNDVSNKSFFKRASKSSGKMKDIMIDLATLILYYYDLQAKLRTPAEQGIETTELIWSLHTLFGHFHFCDASNGKFLDLAEKLLCQFINNDSFLQLKQILWCRYHYAIASDNFSPDLHDTKAVEMEKIHSLPLGTYLIKLQYQNKNPYLSSSKTTLKQIMDNIIEKIGDPSTLDNHIISRNSFLLNEYLSRPITADLLKHTFSGATSLYLTSPNDELQQGMTAGLFYVSSLQSLGLYKMRKKSMQARPSELDSIIRMLKNDIIYNTNRFESWILLGKCYSYIVEDDLIWTSDKITVPEKKDVIALTQRKAILCYLMAISIYYSKLDRTIDDKKIILEALDDLGSMLISGYYNPMNKLCFSWKSSAENTMRLSETGEVVMEKTKKITTISDFNIEQSIFLCFNRACSLSGDIKSQDDVFVLNWSSFYNLAKFFFKTDGGNNCKLVAKYITQGCQIAYESSPAKDPIIEPHYLLVNACYKWVKRGVIGVNEALTLLSKDNQFFQEQEEFWVNDEGLAWDYQEKFFFDKIIRLLRHLLSVDKKKWQHRPRYRIARILFDDLGDVNGALEEMDSLISAKSINKNLVNIWKPDFERPGKHFIYTYQYLVLYLDLLFAIKDFNTTGLVIKKLRRFGSGTVNVNELLERAINVYTQSAKIKLQLQDKSYVEQILPTLNYQEFLKISEQLNQVFDQGKYPEEISSGLKLAFQLKKGHSGIAFDSVCLGIYFEYLYFPLARQDQSLTDVNDENNPALPSSGSVTSKSTPDPTSKPSAIKKRVTKKEVFDRVRLLVDKIT

Entity 3 polymer

描述 description	Protein HIR2
分子量 formula_weight	98553.6 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	B,C,H,I

MRLLKYPLDIHNEQVNALAALGPYIILAGSGGHVMAWRQQQLVDTAFDRVMIKDLKPEVSFQVDQDTTGDIFFITGDLETLYIGSEHRLWGYSGWLCRDTNNINSVEKMNSKLLFECKSPSTITDVKYDINLGILFVLLSNENKILLFRHKTFDKLSEITIDKASKPITGIIDPTGQTFTVMTSDRSILVYQINKTGTHKLINKLTQHVQMYPLHYRISMSPQADILPVINSVKGVPNNATSCTALLDRNNNYKVTKTLVTPSSNGCRVLVYSPAFYEKPNLKKGTSTRYNLIATSGSTDGTILVWNTKRMKPLFNALQVSSTAINDMSWSQDGFTLFAISNDATLYTFAFQEKDLGVALPQTEIKSLQEVNKKLPKLEEPLAEQIPKSFPENIKLEESASAAPIPNDIGRSAVGKKPTKKKTANNQTNGIKTIQSTSMEFNTPSYTVPRDLKRKPKEATPSNIAPGSKKQKKELQPIDFLDTGLLLPNTSFSRIRLATPKIRSTFKYSPINNPNLILDVKNGSGNEQRPTIVKLTSKVLDQDQVLFQDFIPKLITICTAGDTFWSFCSEDGSIYIYSDSGRKLMAPLVLGVSISFLEACGTYLLCLTSIGELYCWNIEQKKLAFPTNTIYPLLNPSLRYSDDILTRAENITLCSITKKGVPLVTLSNGDGYLFDKNMETWLLVSDGWWAYGSQYWDTTNTTGLSSSKANTDSFNGSESNINEIVSDIKNDNQSIINFLECKTNDELNRKGRIKNLQRFARTILMKEGFENMEEIVTLSHLENKILISIRLEEPEEFSKLMMVYCIRLSELGYMDRLNDVFQWLYDDLPISGTGSAFADKDFKRNLLKKILIACGDIRQVQRVTTRYAKEMNIIS

▶

7. 引用文献 (1)

▶

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	2.96 Å
分辨率测定方法 resolution_method	—
颗粒数 num_particles	495250

fit	/app/data/saxs_computation/gh/8ghl/8ghl.fit
pddf	/app/data/pr_computation/gh/8ghl/8ghl.pr.out
profile	/app/data/saxs_computation/gh/8ghl/8ghl.dat

the Hir complex core

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 (3)

Entity 1 polymer

聚合体 Polymer

Entity 2 polymer

聚合体 Polymer

Entity 3 polymer

聚合体 Polymer

7. 引用文献 (1)

8. 文件与曲线 (10)

Files (7)

Curves (3)