Cryo buffer 冷冻缓冲液

Cryo buffer 冷冻缓冲液

We’ve had good success using the well solution directly as the foundation of a cryobuffer in several situations where crystals cannot be grown directly in the presence of cryoprotectant, and where crystals don’t tolerate transfer to artificial mother liquors. The basic protocol is as follows:

1. Remove 100 microliters of the well solution after crystals have grown

2. Split this sample into two 50 microliter aliquots.

3. Add 7.5 mg of dextrose (glucose) to the first aliquot and 15 mg of dextrose to the second. Dissolve by gentle pipeting with a wide-bore tip. This will give two sequential well solutions that now contain 15% and 30% w/v dextrose. If all the dextrose won’t go into the second aliquot, spin hard and remove the supernatant.

4. Transfer the crystal to aliquot 1, equilibrate for 3 minutes, then to aliquot number 2, then freeze. We’ve had a few crystals that routinely crack or blow up when transfered to artificial mother liquor that behave well when transfered to well solution plus glucose. We assume that there is some aspect of the crystal drop (pH, ionic tension, precipitant concentration) that is more effectively reproduced within the well than by separately prepared mother liquors. The nice thing about the protocol above is that you don’t get much of a volume increase when dry dextrose is dissolved in the well solution, so the components in the solution are not diluted.

Finally, if you don’t get a really good freeze, you can try to add about 5% v/v glycerol to aliquot 2 in addition to the 30% w/v dextrose. Reference: Personal communication from Barry Stoddard, Fred Hutchinson Cancer Research Center

冷冻缓冲液
在几种情况下,在存在冷冻保护剂的情况下晶体不能直接生长以及晶体不能转移到人工母液中的情况下,我们直接使用井溶液作为冷冻缓冲液的基础取得了很好的成功。基本协议如下:

1. 晶体生长后取出 100 微升孔溶液

2. 将此样品分成两份 50 微升的等份。

3. 在第一个等分试样中加入 7.5 mg 葡萄糖(葡萄糖),在第二个等分试样中加入 15 mg 葡萄糖。用大口径吸头轻轻吹打溶解。这将给出两个顺序井解决方案,现在包含 15% 和 30% w/v 葡萄糖。如果所有的葡萄糖都不会进入第二个等分试样,请用力旋转并去除上清液。

4. 将晶体转移到 1 号等分试样中,平衡 3 分钟,然后转移到 2 号等分试样中,然后冷冻。我们有一些晶体在转移到人造母液中时会经常破裂或爆炸,当转移到井溶液和葡萄糖中时表现良好。我们假设晶体液滴的某些方面(pH、离子张力、沉淀剂浓度)在井内比单独制备的母液更有效地再现。上述协议的好处是,当干葡萄糖溶解在孔溶液中时,体积不会增加太多,因此溶液中的成分不会被稀释。

最后,如果您没有得到很好的冷冻效果,除了 30% w/v 葡萄糖外,您可以尝试在等分试样 2 中添加约 5% v/v 甘油。参考:来自 Fred Hutchinson 癌症研究中心的 Barry Stoddard 的个人交流

A is for Aggregation 阻止包括蛋白质、肽和核酸在内的生物大分子的结晶

A is for Aggregation  A 代表聚合

Aggregation can be a deterrent to the crystallization of biological macromolecules including proteins, peptides, and nucleic acids. The presence of sample aggregation can be detected by either dynamic light scattering or native gel electrophoresis. Aggregation might be caused by hydrophobic patches on the surface of the sample, differently charged isoforms, differently phosphorylated isoforms, mixtures of methylated and non-methylated samples, glycosylation, as well as electrostatic interactions. Aggregation can be due to autologous aggregation where the protein is aggregating with itself or heterologous contamination where the sample is aggregating with other proteins. In the case of heterologous contamination, further purification of the sample should be seriously considered. In the case of autologous aggregation that precludes crystallization one might consider:

Using molecular biology to manipulate intra and inter molecule interactions by modifying the sample sequence (alter, add, or delete residues).

Use chemical additives to manipulate sample-sample and sample solvent interactions.
Detergents
Chaotropes (urea, guanidine hydrochloride, hydrochloric acid, etc)
Electrostatic agents
Alcohols (isopropanol, methanol, ethanol, etc)
Salts (sodium chloride, potassium chloride, sodium fluoride, etc)
Polyols (glycerol, PEG 400, etc)
Ligands, inhibitors, co-factors, and metals
Use temperature to prevent aggregation (0°C and 60°C)
Consider a fusion protein
Remove C-terminus or N-terminus
Truncate domains
Remove His-tag

In some cases aggregates can be removed by centrifugation or filtration.

In some cases the aggregates can be removed by mixing the sample with the crystallization reagent, allowing the sample to incubate for 15 minutes, centrifuging the sample/reagent mixture, removing the precipitate and setting the drop with the supernatant.

聚集可以阻止包括蛋白质、肽和核酸在内的生物大分子的结晶。可以通过动态光散射或天然凝胶电泳检测样品聚集的存在。聚集可能是由样品表面的疏水斑块、不同电荷的异构体、不同的磷酸化异构体、甲基化和非甲基化样本的混合物、糖基化以及静电相互作用引起的。聚集可能是由于蛋白质与自身聚集的自体聚集或样品与其他蛋白质聚集的异源污染。在异源污染的情况下,应认真考虑样品的进一步纯化。在排除结晶的自体聚集的情况下,可以考虑:

使用分子生物学通过修改样品序列(改变、添加或删除残基)来操纵分子内和分子间的相互作用。

使用化学添加剂来控制样品-样品和样品溶剂的相互作用。
洗涤剂
离液剂(尿素、盐酸胍、盐酸等)
静电剂
醇类(异丙醇、甲醇、乙醇等)
盐类(氯化钠、氯化钾、氟化钠等)
多元醇(甘油、PEG 400 等)
配体、抑制剂、辅因子和金属
使用温度防止聚集(0°C 和 60°C)
考虑融合蛋白
移除 C 端或 N 端
截断域
删除 His 标签

在某些情况下,可以通过离心或过滤去除聚集体。

在某些情况下,可以通过将样品与结晶试剂混合、让样品孵育 15 分钟、离心样品/试剂混合物、去除沉淀物并用上清液放置液滴来去除聚集体。

Trouble with protein storage 蛋白质储存问题

Trouble with protein storage 蛋白质储存问题

Try 3 to 5% 1,2-propanediol in the protein buffer as a substitute for glycerol to stabilize proteins. Annie Hassell, Glaxo Smithkline 2009

尝试在蛋白质缓冲液中加入 3% 到 5% 的 1,2-丙二醇作为甘油的替代品来稳定蛋白质。 安妮哈塞尔,葛兰素史克 2009

Dissolving hydrophobic additives into oil-用于静滴蒸汽扩散或油下微量

Dissolving hydrophobic additives into oil-用于静滴蒸汽扩散或油下微量

Try dissolving the small molecule additive into paraffin or silicon oil, and use this mixture to cover the sample drop. This can be used with sitting drop vapor diffusion or with microbatch under oil. The oil acts as a reservoir that may contain excess small molecule that (you hope) will be fed into the crystals.

将疏水性添加剂溶解到油中
尝试将小分子添加剂溶解在石蜡或硅油中,然后用这种混合物覆盖样品液滴。 这可用于静滴蒸汽扩散或油下微量。 油充当储存器,可能含有过量的小分子(您希望)将被送入晶体中。

硫代硫酸钠防止分子间二硫键 -促进晶体生长和避免形成不稳定和弱衍射晶体

Sodium thiosulfate to prevent intermolecular disulfide bridges

The presence of thiosulfate in the protein solution was essential to promote crystal growth and to avoid the formation of unstable and weakly diffracting crystals(1); this is likely to be a consequence of the intrinsic capability of the reduced thiol group of the active-site cysteine to form disulfide bridges, leading to the destabilization of the protein native structure. Sulfane sulfur-donor compounds such as Na2S2O3 are likely to either keep the protein in the persulfurated form or to prevent intermolecular disulfide bridges leading to unfolding and aggregation

硫代硫酸钠防止分子间二硫键
蛋白质溶液中硫代硫酸盐的存在对于促进晶体生长和避免形成不稳定和弱衍射晶体至关重要 (1);这可能是活性位点半胱氨酸的还原硫醇基团形成二硫键的内在能力的结果,导致蛋白质天然结构的不稳定。硫烷硫供体化合物(如 Na2S2O3)可能使蛋白质保持过硫化形式或防止分子间二硫键导致展开和聚集 。

(2). References 参考文献

1. Crystallization and preliminary crystallographic characterization of LmACR2, an arsenate/antimonate reductase from Leishmania major. D. Bisacchi, Y. Zhou, B. P. Rosen, R. Mukhopadhyay and D. Bordo. Acta Cryst. (2006). F62, 976-979. 2. Bordo, D., Forlani, F., Spallarossa, A., Colnaghi, R., Carpen, A., Bolognesi, M. & Pagani, S. (2001). Biol. Chem. 382, 1245–1252.

Crystal Positioning Systems(CPS)

Crystal Positioning Systems(CPS)简介

美国Crystal Positioning Systems(CPS)是专业的晶体设备生产商,有兼容SSRL和ALS机器人的样品槽、样品储存和转移用的工具、同步加速器相关工具等,还可根据客户的要求进行产品定制。

ALL CATEGORIES   所有类别
10 UNIVERSAL V-1 Pucks *RainbowUnipucks   10 个通用 V-1 Pucks *RainbowUnipucks
Thermal ShipperCrystallography at Room Temperature / Controlled Humidity  室温/受控湿度下的热托运晶体学
Bent Cryo-TongPuck Tools
Heating ShieldSynchrotron Tools    加热屏蔽同步加速器工具
Sample Storage Cassette non CopperSSRL Cassettes and Tools     样品存储盒非 Copper SSRL 盒和工具
Sample Pin Bases non-CopperSample Mounts and Bases
CX100 Hard Shell Square Grey Shipping CaseTaylor Wharton and shipping accessories  CX100 硬壳方形灰色运输箱Taylor Wharton 和运输配件
Replacement Ring MagnetsReplacement parts  更换环形磁铁更换零件
ALS Puck ALS Pucks    ALS Puck
Crystal Positioning Systems(CPS)

货号 产品名称 规格 描述
CP-111-021 Universal V1- Puck 通用型圆盘样品槽
CP-111-022 Double Puck Loading Dewar with Lid 液氮箱
CP-111-026 Puck Wand Base Holder Tool 圆盘样品槽底座转移工具
CP-111-027 Puck Dewar Loading Tool 样品槽转移工具
CP-111-028 Puck Separator Tools (base removal platform and push tool) 样品槽分离工具
CP-111-030 Bent Cryo-Tong 样品槽钳
CP-111-065 One-Piece Shelved Puck Shipping Cane 样品槽架
CP-111-049 CX100 Dry Shipper, with Canister & Shipping Case 液氮罐+运输箱

Molecular Dimensions 蛋白结晶培养箱(立式)

Molecular Dimensions 蛋白结晶培养箱(立式)

上海金畔生物代理Molecular Dimensions品牌蛋白结晶试剂耗材工具等,我们将竭诚为您服务,欢迎访问Molecular Dimensions官网或者咨询我们获取更多相关Molecular Dimensions品牌产品信息。

Temperature controlled cabinets specifically designed for crystal growth.

All have temperature programming and can be further customised with accessories such as lighting, glazed door, extra shelves, instrument cable ports and humidity control. These incubators need only a small floor space. They have a white interior with easily-cleaned plastic-coated wire shelves, adjustable at 35mm intervals to provide maximum flexibility of positioning. Temperature control is via an electronic controller with digital display, over/under temperature safety cut-outs and warning alarms. The doors are lockable and have a magnetic seal. The large workspace door can be opened wide to provide full-width access.

Molecular Dimensions Cooled Crystallisation Incubators are an economical alternative to building temperature-controlled rooms, and provide much more precise control of crystal growth temperature.

Features:

  • 100, 160, 230, and 400-litre models
  • Temperature range 0°C to 50°C
  • Temperature accuracy ± 0.5°C for precise crystal growth conditions
  • Virtually vibration free for undisturbed experiments
  • Easy-to-use control panel
  • Small foot-print maximises precious floor space in the laboratory

专为晶体生长而设计的温控柜。
所有产品都具有温度程序,并可进一步定制照明、玻璃门、额外搁板、仪器电缆端口和湿度控制等配件。这些孵化器只需要很小的占地面积。它们的内部为白色,带有易于清洁的塑料涂层金属丝架,可按 35 毫米的间隔进行调节,以提供最大的定位灵活性。温度控制是通过带有数字显示、超温/超温安全切断和警告警报的电子控制器进行的。门可上锁并带有磁性密封。大工作区门可以打开很宽,以提供全宽的访问。

分子尺寸冷却结晶培养箱是建造温控室的经济替代方案,可以更精确地控制晶体生长温度。

特征:

100、160、230 和 400 升型号
温度范围 0°C 至 50°C
温度精度 ± 0.5°C,适用于精确的晶体生长条件
对于不受干扰的实验几乎没有振动
易于使用的控制面板
占地面积小,可最大限度地利用实验室宝贵的占地面积

400 litre internal volume cooled crystallization incubator.

Precise and constant temperature
Temperature is controlled electronically. A continuously-running fan guarantees high accuracy of temperature control throughout the cabinet interior and over time, according to DIN-58945.
Heating and cooling
The continuously adjustable fan-mounted electrical resistance heater has low thermal “drag”. It is controlled by a solid-state relay, avoiding steps and relay contact breaking. This design provides maximal accuracy of temperature with “coasting” practically eliminated. The air-cooled refrigeration unit uses CFC-free refrigerant and has a highly efficient heat exchanger. Solenoid valve-bypass operation ensures smooth and continuous running, with minimal vibration.
Easy-to-use, programmable temperature control
A temperature program controller allowing up to 70 set points is fitted as standard. Programing is simple, with a clear digital display of set and actual temperature. Both real time and process time controlled dual set-point temperature programs are available. Set point values or a freely programable ramp function can be selected.
Double security for sample and incubator
The incubators cannot over-heat or over-cool. In the event of a failure, a standby controller with a separate sensor takes over temperature control. Additionally an alarm is sounded. A mechanical safety switch with factory-adjusted release temperature (TWB DIN12880, class 2) protects the incubator against incorrect adjustment of the temperature selector.

400 升内部容积冷却结晶培养箱。

精确恒温
温度由电子控制。根据 DIN-58945,连续运行的风扇可确保整个机柜内部和随时间推移的高精度温度控制。
加热和冷却
连续可调的风扇安装电阻加热器具有低热“阻力”。它由固态继电器控制,避免了步骤和继电器触点断开。这种设计提供了最大的温度精度,实际上消除了“惯性”。风冷式制冷机组采用无CFC制冷剂,具有高效换热器。电磁阀旁通操作确保平稳连续运行,振动最小。
易于使用的可编程温度控制
标配最多可设置 70 个设定点的温度程序控制器。编程简单,设置和实际温度的数字显示清晰。提供实时和过程时间控制的双设定点温度程序。可以选择设定点值或可自由编程的斜坡功能。
样品和培养箱双重安全
培养箱不能过热或过冷。在发生故障时,带有独立传感器的备用控制器接管温度控制。此外还会发出警报。带有出厂调节释放温度(TWB DIN12880,2 级)的机械安全开关可保护培养箱免受温度选择器的错误调节。

MD5-01 Cooled Crystallization Incubator 400 litre 1
MD5-02 Cooled Crystallization Incubator 230 litre 1
MD5-03 Cooled Crystallization Incubator 160 litre 1
MD5-04 Cooled Crystallization Incubator 100 litre 1

Molecular Dimensions MD1-13 3D Structure Screen 48 x 10 mL

Molecular Dimensions MD1-13 3D Structure Screen 48 x 10 mL

上海金畔生物代理Molecular Dimensions品牌蛋白结晶试剂耗材工具等,我们将竭诚为您服务,欢迎访问Molecular Dimensions官网或者咨询我们获取更多相关Molecular Dimensions品牌产品信息。

The 3D Structure Screen is formulated for growing protein crystals in the metastable zone using the vapour diffusion technique.

This method is presented in the 3D Structure Screen as an optimized sparse matrix crystal growth screen which allows the 24 “nucleation” conditions of the Mini Screen and 24 “backed-off” conditions for crystal growth to be tried. Formatted for HT blocks as the Heavy + Light (3D Structure Screen) Twin Pack HT-96.

Features of 3D Structure Screen:

Separate nucleation from crystal growth.
A simple method for growing crystals in the metastable zone.
Obtain much larger and better diffracting crystals compared to conventional methods.
This product is manufactured under an exclusive licence from Imperial College of Science, Technology and Medicine, London U.K.

3D Structure Screen 专为使用蒸汽扩散技术在亚稳态区域中生长蛋白质晶体而设计。

这种方法在 3D 结构屏幕中显示为优化的稀疏矩阵晶体生长屏幕,它允许尝试使用 Mini Screen 的 24 个“成核”条件和 24 个“回退”条件进行晶体生长。 为 HT 块格式化为 Heavy + Light(3D 结构屏幕)Twin Pack HT-96。

3D结构画面的特点:

将成核与晶体生长分开。
在亚稳区中生长晶体的简单方法。
与传统方法相比,获得更大更好的衍射晶体。
本产品是在英国伦敦帝国理工学院的独家许可下生产的。

References:  参考文献
Chayen, N. & Saridakis, E. Protein crystallization for genomics: towards high-throughout optimization techniques. Acta Cryst. D58: 921-927 (2002)
Chayen, N. & Saridakis, E. Improving protein crystal quality by decoupling nucleation and growth in vapor diffusion. Protein Science 9(4): 755-757 (2000)
Charron, C et al. Crystallization and preliminary X-ray diffraction data of the second and archaebacterial-type aspartyl-tRNA synthetase from Thermus thermophilus. Acta Cryst. D57: 1177-1179 (2001)

MD1-13 3D Structure Screen 48 x 10 mL
MD1-13-ECO 3D Structure Eco Screen 48 x 10 mL
MD1-35 Heavy + Light (3D Structure Screen) Twin Pack HT-96 48 x 1 mL (x 2)
MD1-35-ECO Heavy + Light (3D Structure Screen) Twin Pack HT-96 Eco Screen 48 x 1 ml (x 2)
MD1-35-FX Heavy + Light (3D Structure Screen) Twin Pack FX-96 pre-filled plate 48 x 100 µL (x 2)

Molecular Dimensions MD15-W12-T Wizard Classic 1 & 2

Molecular Dimensions MD15-W12-T Wizard Classic 1 & 2

规格:96 x 10 ml

上海金畔生物代理Molecular Dimensions品牌蛋白结晶试剂耗材工具等,我们将竭诚为您服务,欢迎访问Molecular Dimensions官网或者咨询我们获取更多相关Molecular Dimensions品牌产品信息。

The Wizard™ Classic line of random sparse matrix screens is designed to increase your probability of producing crystals during the coarse screening phase when crystallizing biological macromolecules (proteins, nucleic acids, peptides, and combinations thereof). The Wizard Classic reagents are proven to be a highly effective starting point in the screening of biological macromolecules. The Wizard Classic formulations include a large range of crystallants, buffers, and salts covering a broad range of crystallization space at pH levels from pH 4.5 to pH 10.5.

Wizard™ Classic 系列随机稀疏矩阵筛选旨在提高在粗筛选阶段在结晶生物大分子(蛋白质、核酸、肽及其组合)时产生晶体的可能性。 事实证明,Wizard Classic 试剂是筛选生物大分子的高效起点。 Wizard Classic 配方包括多种结晶剂、缓冲剂和盐,涵盖了从 pH 4.5 到 pH 10.5 的广泛结晶空间。

Overall structure of the EcFtsZ(L178E)–GDP complex obtained with Wizard Classic 3 condition 354

Molecular Dimensions distributes Wizard Crystallisation kits on behalf of Rigaku Reagents.

References:
1. Ueda M, Shimosaka M, Arai R. Expression, purification, crystallization and X-ray diffraction analysis of ChiL, a chitinase from Chitiniphilus shinanonensis. Acta Crystallogr F Struct Biol Commun. 2015; 71(Pt 12): 1516-1520
2. Moriyama S, Nishio K, Mizushima, T. Structure of glyoxysomal malate dehydrogenase (MDH3) from Saccharomyces cerevisiae. Acta Cryst. 2018; F74: 617-624
3. Jeong, Y.C., Lee, K.S. Overexpression, purification, crystallization and preliminary X-ray crystallographic characterization of the receiver domain of the response regulator PhoP from Enterococcus faecalis ATCC 29212. Appl Biol Chem. 2019; 62, 66
4. Schumacher, MA, Ohashi, T, Corbin, L & Erickson, HP. High-resolution crystal structures of Escherichia coli FtsZ bound to GDP and GTP. Acta Cryst. 2020; 76(2): 94-102

EBSR-100- Emerald Screen Single Reagent 100 ml
EBSR-250- Emerald Screen Single Reagent 250 ml
MD15-W12-B Wizard Classic 1 & 2 HT-96 96 x 1.7 ml
MD15-W12-T Wizard Classic 1 & 2 (10mL) 96 x 10 ml
MD15-W1-T Wizard Classic 1 (10mL) 48 x 10 ml
MD15-W2-T Wizard Classic 2 (10mL) 48 x 10 ml
MD15-W34-B Wizard Classic 3 & 4 HT-96 96 x 1.7 ml
MD15-W34-T Wizard Classic 3 & 4 (10mL) 96 x 10 ml
MD15-W3-T Wizard Classic 3 (10mL) 48 x 10 ml
MD15-W4-T Wizard Classic 4 (10mL) 48 x 10 ml
MD15-W-BUNDLE Wizard Tube Bundle Special (10ml) 1
MD15-W-BUNDLE-HT96 Wizard Tube Bundle Special (HT96) 1

Molecular Dimensions MD1-46 Morpheus 96 x 10 ml

Molecular Dimensions MD1-46 Morpheus 96 x 10 ml

上海金畔生物代理Molecular Dimensions品牌蛋白结晶试剂耗材工具等,我们将竭诚为您服务,欢迎访问Molecular Dimensions官网或者咨询我们获取更多相关Molecular Dimensions品牌产品信息。

A 96 condition protein crystallization screen with original chemistry incorporating a range of low molecular weight ligands found ordered in more than 33000 PDB structures. Developed and utilized in the world-renowned Laboratory of Molecular Biology, (Cambridge, UK) – Morpheus® carries on the tradition of being original and dynamic. This unique screen aims to unlock novel chemical space previously inaccessible using conventional screens.

96 条件蛋白质结晶筛选与原始化学结合发现在超过 33000 个 PDB 结构中发现的一系列低分子量配体。 在世界著名的分子生物学实验室(英国剑桥)开发和使用 – Morpheus® 继承了原创和动态的传统。 这种独特的屏幕旨在解锁以前使用传统屏幕无法进入的新型化学空间。

An IUCr Webinar describing the formulation of the Morpheus® screens is available hereMolecular Dimensions, as well as a webinar describing the four-corner method for optimizing crystals obtained in Morpheus® conditions. The kit is presented as a 96 condition screen.

Features of Morpheus®:

  • Simple and effective 3D grid design covering a range of pH, PEGs and salt additives.
  • 49 low molecular weight ligands promote both initial crystal formation and lattice stability.
  • Ideal for membrane proteins (contains PEGS and low salt)
  • Reduced crystal “stress” – all conditions are cryo-protected.
  • Derived from extensive data mining of over 33,000 PDB entries.
  • Available in both 10 mL tube and 96 condition deep well block formats.

This product has been designed and developed by Fabrice Gorrec, in collaboration with the scientists at the Medical Research Council Laboratory of Molecular Biology (LMB) at Cambridge and is manufactured exclusively under license by Molecular Dimensions Limited.

References  参考文献

Witek, W., Sliwiak, J. & Ruszkowski, M. Structural and mechanistic insights into the bifunctional HISN2 enzyme catalyzing the second and third steps of histidine biosynthesis in plants. Sci Rep 11: 9647 (2021)

Kozak, S et al. Homogeneously N-glycosylated proteins derived from the GlycoDelete HEK293 cell line enable diffraction-quality crystallogenesis D76: 1244-1255 (2020)

Gorrec, F., & Löwe, J. Automated Protocols for Macromolecular Crystallization at the MRC Laboratory of Molecular Biology 131: 55790 (2018)

Sonani, Ravi R et al. An improved crystal structure of C-phycoerythrin from the marine cyanobacterium Phormidium sp. A09DM. 135(1): 65-78 (2018)

Gorrec, F. Protein crystallization screens developed at the MRC Laboratory of Molecular Biology 21(5): 819-825 (2016)
Gorrec, F. The MORPHEUS protein crystallization screen. Journal Applied Crystallography 42: 1035-42 (2009)

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