1dce

CRYSTAL STRUCTURE OF RAB GERANYLGERANYLTRANSFERASE FROM RAT BRAIN

Method: X-RAY DIFFRACTION D_max: 142.6 Å Quality: GOOD

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1. 蛋白身份与相关结构 Protein Identity & Related Structures

PROTEIN (RAB GERANYLGERANYLTRANSFERASE ALPHA SUBUNIT)

物种未注明

当前结构中的状态

Assembly	聚集状态	构建体	突变与修饰	配体、离子与共同组分	实验方法与环境	结构质量
1	蛋白异源复合物异源复合物蛋白 × 2 PDB 声明：dimeric（2）与蛋白拷贝数一致	链 A； UniProt 1–567	非标准单体：是（mmCIF未提供具体位点）	PROTEIN (RAB GERANYLGERANYLTRANSFERASE BETA SUBUNIT) × 1 （Q08603） ZN ZINC ION × 1	X-RAY DIFFRACTION mmCIF 未提供已读取环境条件	分辨率 2.00 Å R-free 0.263
2	蛋白异源复合物异源复合物蛋白 × 2 PDB 声明：dimeric（2）与蛋白拷贝数一致	链 C； UniProt 1–567	非标准单体：是（mmCIF未提供具体位点）	PROTEIN (RAB GERANYLGERANYLTRANSFERASE BETA SUBUNIT) × 1 （Q08603） ZN ZINC ION × 1	X-RAY DIFFRACTION mmCIF 未提供已读取环境条件	分辨率 2.00 Å R-free 0.263

数据库中的同蛋白其他状态

以下每一行都是同一 UniProt 蛋白在另一个 PDB 条目中的 biological assembly， “相对当前条目”直接指出证据层面的不同；没有差异标签表示当前已读取字段一致。

其他 PDB	相对当前条目 1DCE	Assembly / 聚集状态	构建体	突变与修饰	配体、离子与非聚合物	实验方法与环境	结构质量
1LTX Structure of Rab Escort Protein-1 in complex with Rab geranylgeranyl transferase and isoprenoid 提交 2002-05-21	突变/修饰不同聚集状态不同配体/离子不同实验环境不同结构质量不同	Assembly 1 蛋白异源复合物异源复合物；蛋白 × 4 PDB 声明：tetrameric	链 A 1–567（567 aa）	未记录	ZN ZINC ION × 1 CL CHLORIDE ION × 1 FAR FARNESYL × 1	X-RAY DIFFRACTION X-ray结晶条件 VAPOR DIFFUSION, HANGING DROP；pH 7.2；298 K；20% PEG 3350, 100mM KSCN, 100mM Namalonate, pH 7.2, VAPOR DIFFUSION, HANGING DROP, temperature 298.0K	分辨率 2.70 Å R-free 0.272
3C72 Engineered RabGGTase in complex with a peptidomimetic inhibitor 提交 2008-02-06	构建体不同突变/修饰不同配体/离子不同实验环境不同结构质量不同	Assembly 1 蛋白异源复合物异源复合物；蛋白 × 2 PDB 声明：dimeric	链 A 1–236（236 aa）链 A 353–441（89 aa）	未记录	ZN ZINC ION × 1 CA CALCIUM ION × 1 CX1 N-[(benzyloxy)carbonyl]-L-histidyl-N-methyl-L-phenylalanyl-L-tyrosine × 1	X-RAY DIFFRACTION X-ray结晶条件 VAPOR DIFFUSION, HANGING DROP；pH 7.2；284 K；14% (w/v) PEG 3350, 0.2 M Ca-Acetate, 0.1 M HEPES, cocrystallization with 5 mM inhibitor, pH 7.2, VAPOR DIFFUSION, HANGING DROP, temperature 284K	分辨率 2.30 Å R-free 0.256
3DSS Crystal structure of RabGGTase(DELTA LRR; DELTA IG) 提交 2008-07-14	构建体不同突变/修饰不同配体/离子不同实验环境不同结构质量不同	Assembly 1 蛋白异源复合物异源复合物；蛋白 × 2 PDB 声明：dimeric	链 A 1–237（237 aa）片段：PFTA domains, UNP residues 1-237 and 353-441 链 A 353–441（89 aa）片段：PFTA domains, UNP residues 1-237 and 353-441	未记录	ZN ZINC ION × 1 CA CALCIUM ION × 2	X-RAY DIFFRACTION X-ray结晶条件 VAPOR DIFFUSION, HANGING DROP；pH 7.2；284 K；14% (w/v) PEG 3350, 0.2M Ca(OAc)2, 0.1M HEPES, pH 7.2, VAPOR DIFFUSION, HANGING DROP, temperature 284K	分辨率 1.80 Å R-free 0.194
3DST Crystal structure of RabGGTase(DELTA LRR; DELTA IG)in complex with geranylgeranyl pyrophosphate 提交 2008-07-14	构建体不同突变/修饰不同配体/离子不同实验环境不同结构质量不同	Assembly 1 蛋白异源复合物异源复合物；蛋白 × 2 PDB 声明：dimeric	链 A 1–237（237 aa）片段：PFTA domains, UNP residues 1-237 and 353-441 链 A 353–441（89 aa）片段：PFTA domains, UNP residues 1-237 and 353-441	未记录	GRG GERANYLGERANYL DIPHOSPHATE × 1 ZN ZINC ION × 1 CA CALCIUM ION × 1	X-RAY DIFFRACTION X-ray结晶条件 VAPOR DIFFUSION, HANGING DROP；pH 7.2；284 K；14% (w/v) PEG 3350, 0.2M Ca(OAc)2, 0.1M HEPES, pH 7.2, VAPOR DIFFUSION, HANGING DROP, temperature 284K	分辨率 1.90 Å R-free 0.220
3DSU Crystal structure of RabGGTase(DELTA LRR; DELTA IG)in complex with farnesyl pyrophosphate 提交 2008-07-14	构建体不同突变/修饰不同配体/离子不同实验环境不同结构质量不同	Assembly 1 蛋白异源复合物异源复合物；蛋白 × 2 PDB 声明：dimeric	链 A 1–237（237 aa）片段：PFTA domains, UNP residues 1-237 and 353-441 链 A 353–441（89 aa）片段：PFTA domains, UNP residues 1-237 and 353-441	未记录	FPP FARNESYL DIPHOSPHATE × 1 ZN ZINC ION × 1 CA CALCIUM ION × 1	X-RAY DIFFRACTION X-ray结晶条件 VAPOR DIFFUSION, HANGING DROP；pH 7.2；284 K；14% (w/v) PEG 3350, 0.2M Ca(OAc)2, 0.1M HEPES, pH 7.2, VAPOR DIFFUSION, HANGING DROP, temperature 284K	分辨率 1.90 Å R-free 0.215
3DSV Crystal structure of RabGGTase(DELTA LRR; DELTA IG)in complex with mono-prenylated peptide Ser-Cys-Ser-Cys(GG) derivated from Rab7 提交 2008-07-14	构建体不同突变/修饰不同配体/离子不同实验环境不同结构质量不同	Assembly 1 蛋白异源复合物异源复合物；蛋白 × 2 PDB 声明：dimeric	链 A 1–237（237 aa）片段：PFTA domains, UNP residues 1-237 and 353-441 链 A 353–441（89 aa）片段：PFTA domains, UNP residues 1-237 and 353-441	未记录	ZN ZINC ION × 1 CA CALCIUM ION × 1 GER GERAN-8-YL GERAN × 1	X-RAY DIFFRACTION X-ray结晶条件 VAPOR DIFFUSION, HANGING DROP；pH 7.2；284 K；14% (w/v) PEG 3350, 0.2M Ca(OAc)2, 0.1M HEPES, pH 7.2, VAPOR DIFFUSION, HANGING DROP, temperature 284K	分辨率 2.10 Å R-free 0.211
3DSW Crystal structure of RabGGTase(DELTA LRR; DELTA IG)in complex with mono-prenylated peptide Ser-Cys(GG)-Ser-Cys derivated from Rab7 提交 2008-07-14	构建体不同突变/修饰不同配体/离子不同实验环境不同结构质量不同	Assembly 1 蛋白异源复合物异源复合物；蛋白 × 2 PDB 声明：dimeric	链 A 1–237（237 aa）片段：PFTA domains, UNP residues 1-237 and 353-441 链 A 353–441（89 aa）片段：PFTA domains, UNP residues 1-237 and 353-441	未记录	ZN ZINC ION × 1 CA CALCIUM ION × 1 GER GERAN-8-YL GERAN × 1	X-RAY DIFFRACTION X-ray结晶条件 VAPOR DIFFUSION, HANGING DROP；pH 7.2；284 K；14% (w/v) PEG 3350, 0.2M Ca(OAc)2, 0.1M HEPES, pH 7.2, VAPOR DIFFUSION, HANGING DROP, temperature 284K	分辨率 2.15 Å R-free 0.232
3DSX Crystal structure of RabGGTase(DELTA LRR; DELTA IG)in complex with di-prenylated peptide Ser-Cys(GG)-Ser-Cys(GG) derivated from Rab7 提交 2008-07-14	构建体不同突变/修饰不同配体/离子不同实验环境不同结构质量不同	Assembly 1 蛋白异源复合物异源复合物；蛋白 × 2 PDB 声明：dimeric	链 A 1–237（237 aa）片段：PFTA domains, UNP residues 1-237 and 353-441 链 A 353–441（89 aa）片段：PFTA domains, UNP residues 1-237 and 353-441	未记录	ZN ZINC ION × 1 CA CALCIUM ION × 1 GER GERAN-8-YL GERAN × 1	X-RAY DIFFRACTION X-ray结晶条件 VAPOR DIFFUSION, HANGING DROP；pH 7.2；284 K；14% (w/v) PEG 3350, 0.2M Ca(OAc)2, 2.5% (v/v)DMSO, 0.1M HEPES, pH 7.2, VAPOR DIFFUSION, HANGING DROP, temperature 284K	分辨率 2.10 Å R-free 0.229
3HXB Engineered RabGGTase in complex with a peptidomimetic inhibitor (compound 6) 提交 2009-06-20	构建体不同突变/修饰不同配体/离子不同实验环境不同结构质量不同	Assembly 1 蛋白异源复合物异源复合物；蛋白 × 2 PDB 声明：dimeric	链 A 1–237（237 aa）片段：RabGGTase ALPHA-subunit 链 A 353–441（89 aa）片段：RabGGTase ALPHA-subunit	突变：DELTA LRR; DELTA IG 突变：DELTA LRR; DELTA IG	BD5 N-[(benzyloxy)carbonyl]-D-tyrosyl-L-phenylalanyl-L-tyrosine × 1 ZN ZINC ION × 1	X-RAY DIFFRACTION X-ray结晶条件 VAPOR DIFFUSION, HANGING DROP；pH 7.2；284 K；14% (w/v) PEG3350, 0.2 M Ca(OAc)2, 0.1 M HEPES, pH 7.2, VAPOR DIFFUSION, HANGING DROP, temperature 284K	分辨率 2.25 Å R-free 0.278
3HXC Engineered RabGGTase in complex with a peptidomimetic inhibitor (compound 8) 提交 2009-06-20	构建体不同突变/修饰不同配体/离子不同实验环境不同结构质量不同	Assembly 1 蛋白异源复合物异源复合物；蛋白 × 2 PDB 声明：dimeric	链 A 1–237（237 aa）片段：RabGGTase ALPHA-subunit 链 A 353–441（89 aa）片段：RabGGTase ALPHA-subunit	突变：DELTA LRR; DELTA IG 突变：DELTA LRR; DELTA IG	ZN ZINC ION × 1 CA CALCIUM ION × 1 BD6 N-[(benzyloxy)carbonyl]-L-histidyl-N-methyl-L-phenylalanyl-N-hydroxy-L-tryptophanamide × 1	X-RAY DIFFRACTION X-ray结晶条件 VAPOR DIFFUSION, HANGING DROP；pH 7.2；284 K；14% (w/v) PEG3350, 0.2 M Ca(OAc)2, 0.1 M HEPES, pH 7.2, VAPOR DIFFUSION, HANGING DROP, temperature 284K	分辨率 1.95 Å R-free 0.218
3HXD Engineered RabGGTase in complex with a peptidomimetic inhibitor (compound 9) 提交 2009-06-20	构建体不同突变/修饰不同配体/离子不同实验环境不同结构质量不同	Assembly 1 蛋白异源复合物异源复合物；蛋白 × 2 PDB 声明：dimeric	链 A 1–237（237 aa）片段：RabGGTase ALPHA-subunit 链 A 353–441（89 aa）片段：RabGGTase ALPHA-subunit	突变：DELTA LRR; DELTA IG 突变：DELTA LRR; DELTA IG	ZN ZINC ION × 1 CA CALCIUM ION × 1 BD7 N-[(benzyloxy)carbonyl]-L-histidyl-N-methyl-L-phenylalanyl-N-hydroxy-L-tyrosinamide × 1	X-RAY DIFFRACTION X-ray结晶条件 VAPOR DIFFUSION, HANGING DROP；pH 7.2；284 K；14% (w/v) PEG3350, 0.2 M Ca(OAc)2, 0.1 M HEPES, pH 7.2, VAPOR DIFFUSION, HANGING DROP, temperature 284K	分辨率 1.95 Å R-free 0.222
3HXE Engineered RabGGTase in complex with a peptidomimetic inhibitor (compound 37) 提交 2009-06-20	构建体不同突变/修饰不同配体/离子不同实验环境不同结构质量不同	Assembly 1 蛋白异源复合物异源复合物；蛋白 × 2 PDB 声明：dimeric	链 A 1–237（237 aa）片段：RabGGTase ALPHA-subunit 链 A 353–441（89 aa）片段：RabGGTase ALPHA-subunit	突变：DELTA LRR; DELTA IG 突变：DELTA LRR; DELTA IG	ZN ZINC ION × 1 CA CALCIUM ION × 1 BD8 N-undecanoyl-L-histidyl-L-phenylalanyl-N-methyl-N-(2-pyridin-2-ylethyl)-L-tyrosinamide × 1	X-RAY DIFFRACTION X-ray结晶条件 VAPOR DIFFUSION, HANGING DROP；pH 7.2；284 K；14% (w/v) PEG3350, 0.2 M Ca(OAc)2, 0.1 M HEPES, pH 7.2, VAPOR DIFFUSION, HANGING DROP, temperature 284K	分辨率 1.95 Å R-free 0.215
3HXF Engineered RabGGTase in complex with a peptidomimetic inhibitor (compound 32) 提交 2009-06-20	构建体不同突变/修饰不同配体/离子不同实验环境不同结构质量不同	Assembly 1 蛋白异源复合物异源复合物；蛋白 × 2 PDB 声明：dimeric	链 A 1–237（237 aa）片段：RabGGTase ALPHA-subunit 链 A 353–441（89 aa）片段：RabGGTase ALPHA-subunit	突变：DELTA LRR; DELTA IG 突变：DELTA LRR; DELTA IG	ZN ZINC ION × 1 CA CALCIUM ION × 1 BD9 N-undecanoyl-L-histidyl-L-histidyl-N-methyl-N-(2-pyridin-2-ylethyl)-L-tyrosinamide × 1	X-RAY DIFFRACTION X-ray结晶条件 VAPOR DIFFUSION, HANGING DROP；pH 7.2；284 K；14% (w/v) PEG3350, 0.2 M Ca(OAc)2, 0.1 M HEPES, pH 7.2, VAPOR DIFFUSION, HANGING DROP, temperature 284K	分辨率 1.90 Å R-free 0.212
3PZ1 Crystal structure of RabGGTase(DELTA LRR; DELTA IG) in Complex with BMS3 提交 2010-12-14	构建体不同突变/修饰不同配体/离子不同实验环境不同结构质量不同	Assembly 1 蛋白异源复合物异源复合物；蛋白 × 2 PDB 声明：dimeric	链 A 1–237（237 aa）片段：Fusion of residues 1-237 and 353-441 with linker AGSG 链 A 353–441（89 aa）片段：Fusion of residues 1-237 and 353-441 with linker AGSG	未记录	3PZ (3R)-3-benzyl-4-[(4-methoxyphenyl)sulfonyl]-1-[(1-methyl-1H-imidazol-5-yl)methyl]-2,3,4,5-tetrahydro-1H-1,4-benzodiazepine-7-carbonitrile × 1 ZN ZINC ION × 1 CA CALCIUM ION × 1 DMS DIMETHYL SULFOXIDE × 4	X-RAY DIFFRACTION X-ray结晶条件 VAPOR DIFFUSION, HANGING DROP；pH 7.2；284 K；14% (w/v) PEG3350, 0.2 M Ca(OAc)2, 0.1 M HEPES, pH 7.2, VAPOR DIFFUSION, HANGING DROP, temperature 284K	分辨率 1.95 Å R-free 0.232
3PZ2 Crystal structure of RabGGTase(DELTA LRR; DELTA IG) in Complex with BMS3 and lipid substrate GGPP 提交 2010-12-14	构建体不同突变/修饰不同配体/离子不同实验环境不同结构质量不同	Assembly 1 蛋白异源复合物异源复合物；蛋白 × 2 PDB 声明：dimeric	链 A 1–237（237 aa）片段：UNP residues 1-237 and 353-441 链 A 353–441（89 aa）片段：UNP residues 1-237 and 353-441	未记录	ZN ZINC ION × 1 CA CALCIUM ION × 1 3PZ (3R)-3-benzyl-4-[(4-methoxyphenyl)sulfonyl]-1-[(1-methyl-1H-imidazol-5-yl)methyl]-2,3,4,5-tetrahydro-1H-1,4-benzodiazepine-7-carbonitrile × 1 GRG GERANYLGERANYL DIPHOSPHATE × 1	X-RAY DIFFRACTION X-ray结晶条件 VAPOR DIFFUSION, HANGING DROP；pH 7.2；284 K；14% (w/v) PEG3350, 0.2 M Ca(OAc)2, 0.1 M HEPES, pH 7.2, VAPOR DIFFUSION, HANGING DROP, temperature 284K	分辨率 2.35 Å R-free 0.256
3PZ3 Crystal structure of RabGGTase(DELTA LRR; DELTA IG) in Complex with BMS-analogue 14 提交 2010-12-14	构建体不同突变/修饰不同配体/离子不同实验环境不同结构质量不同	Assembly 1 蛋白异源复合物异源复合物；蛋白 × 2 PDB 声明：dimeric	链 A 1–237（237 aa）片段：UNP residues 1-237 and 353-441 链 A 353–441（89 aa）片段：UNP residues 1-237 and 353-441	未记录	ZN ZINC ION × 1 CA CALCIUM ION × 1 PZ3 4-({(3R)-7-(5-formylfuran-2-yl)-4-[(4-methoxyphenyl)sulfonyl]-1-[(1-methyl-1H-imidazol-5-yl)methyl]-2,3,4,5-tetrahydro-1H-1,4-benzodiazepin-3-yl}methyl)phenyl benzylcarbamate × 1	X-RAY DIFFRACTION X-ray结晶条件 VAPOR DIFFUSION, HANGING DROP；pH 7.2；284 K；14% (w/v) PEG3350, 0.2 M Ca(OAc)2, 0.1 M HEPES, pH 7.2, VAPOR DIFFUSION, HANGING DROP, temperature 284K	分辨率 2.00 Å R-free 0.224
4EHM RabGGTase in complex with covalently bound Psoromic acid 提交 2012-04-02	构建体不同突变/修饰不同配体/离子不同实验环境不同结构质量不同	Assembly 1 蛋白异源复合物异源复合物；蛋白 × 2 PDB 声明：dimeric	链 A 1–237（237 aa）链 A 353–441（89 aa）	未记录	PJA 4-formyl-3-hydroxy-8-methoxy-1,9-dimethyl-11-oxo-11H-dibenzo[b,e][1,4]dioxepine-6-carboxylic acid × 1 ZN ZINC ION × 1 CA CALCIUM ION × 1	X-RAY DIFFRACTION X-ray结晶条件 VAPOR DIFFUSION, HANGING DROP；pH 7.2；285 K；20mM Hepes pH7.2, 100mM NaCl, 2mM DTT, 15% PEG 3350, 0.2M Ca Acetate, 0.1M Hepes pH7.2, VAPOR DIFFUSION, HANGING DROP, temperature 285K	分辨率 2.20 Å R-free 0.251
4GTS Engineered RabGGTase in complex with BMS analogue 16 提交 2012-08-29	构建体不同突变/修饰不同配体/离子不同实验环境不同结构质量不同	Assembly 1 蛋白异源复合物异源复合物；蛋白 × 2 PDB 声明：dimeric	链 A 1–237（237 aa）片段：residues 1-237 and 353-441 linked with AGSG 链 A 353–441（89 aa）片段：residues 1-237 and 353-441 linked with AGSG	未记录	ZN ZINC ION × 1 CA CALCIUM ION × 1 7TP 5-{(3R)-3-(4-hydroxybenzyl)-4-[(4-methoxyphenyl)sulfonyl]-1-[(1-methyl-1H-imidazol-5-yl)methyl]-2,3,4,5-tetrahydro-1H-1,4-benzodiazepin-7-yl}furan-2-carbaldehyde × 1	X-RAY DIFFRACTION X-ray结晶条件 VAPOR DIFFUSION, HANGING DROP；pH 7.2；285 K；RabGGTase in 20mM Hepes pH7.2, 100mM NaCl and 2mM DTT was mixed with 15% PEG3350, 0.2M Ca Acetate, 0.1M Hepes pH7.2. The obtained crystals was soaked with 20% PEG3350, 0.2M Ca Acetate, 5% Glycerol in the presence of 1mM inhibitor for 12 hour, VAPOR DIFFUSION, HANGING DROP, temperature 285K	分辨率 2.45 Å R-free 0.248
4GTT Engineered RabGGTase in complex with BMS analogue 12 提交 2012-08-29	构建体不同突变/修饰不同配体/离子不同实验环境不同结构质量不同	Assembly 1 蛋白异源复合物异源复合物；蛋白 × 2 PDB 声明：dimeric	链 A 1–237（237 aa）片段：residues 1-237 and 353-441 linked with AGSG 链 A 353–441（89 aa）片段：residues 1-237 and 353-441 linked with AGSG	未记录	ZN ZINC ION × 1 CA CALCIUM ION × 1 7TQ 4-({(3R)-7-cyano-4-[(4-methoxyphenyl)sulfonyl]-1-[(1-methyl-1H-imidazol-5-yl)methyl]-2,3,4,5-tetrahydro-1H-1,4-benzodiazepin-3-yl}methyl)phenyl benzylcarbamate × 1	X-RAY DIFFRACTION X-ray结晶条件 VAPOR DIFFUSION, HANGING DROP；pH 7.2；285 K；RabGGTase in 20mM Hepes pH7.2, 100mM NaCl and 2mM DTT was mixed with 15% PEG3350, 0.2M Ca Acetate, 0.1M Hepes pH7.2. The obtained crystals was soaked with 20% PEG3350, 0.2M Ca Acetate, 5% Glycerol in the presence of 1mM inhibitor for 12 hour., VAPOR DIFFUSION, HANGING DROP, temperature 285K	分辨率 2.05 Å R-free 0.233
4GTV Engineered RabGGTase in complex with BMS analogue 13 提交 2012-08-29	构建体不同突变/修饰不同配体/离子不同实验环境不同结构质量不同	Assembly 1 蛋白异源复合物异源复合物；蛋白 × 2 PDB 声明：dimeric	链 A 1–237（237 aa）片段：residues 1-237 and 353-441 linked with AGSG 链 A 353–441（89 aa）片段：residues 1-237 and 353-441 linked with AGSG	未记录	ZN ZINC ION × 1 CA CALCIUM ION × 1 7TR 4-({(3R)-7-cyano-4-[(4-methoxyphenyl)sulfonyl]-1-[(1-methyl-1H-imidazol-5-yl)methyl]-2,3,4,5-tetrahydro-1H-1,4-benzodiazepin-3-yl}methyl)phenyl diethylcarbamate × 1	X-RAY DIFFRACTION X-ray结晶条件 VAPOR DIFFUSION, HANGING DROP；pH 7.2；285 K；RabGGTase in 20mM Hepes pH7.2, 100mM NaCl and 2mM DTT was mixed with 15% PEG3350, 0.2M Ca Acetate, 0.1M Hepes pH7.2. The obtained crystals was soaked with 20% PEG3350, 0.2M Ca Acetate, 5% Glycerol in the presence of 1mM inhibitor for 12 hour, VAPOR DIFFUSION, HANGING DROP, temperature 285K	分辨率 1.95 Å R-free 0.211

共 20 个其他 PDB 条目、20 个 assembly。打开独立比较页并筛选聚集状态

查看构建体与数据证据

UniProt名称	PGTA_RAT
Isoform	—
PDB实体	1
链与序列区间	作者链 A； PDB构建体 1–567； UniProt 1–567 作者链 C； PDB构建体 1–567； UniProt 1–567

PROTEIN (RAB GERANYLGERANYLTRANSFERASE BETA SUBUNIT)

物种未注明

UniProt Q08603

当前结构中的状态

Assembly	聚集状态	构建体	突变与修饰	配体、离子与共同组分	实验方法与环境	结构质量
1	蛋白异源复合物异源复合物蛋白 × 2 PDB 声明：dimeric（2）与蛋白拷贝数一致	链 B； UniProt 1–331	未记录	PROTEIN (RAB GERANYLGERANYLTRANSFERASE ALPHA SUBUNIT) × 1 （Q08602） ZN ZINC ION × 1	X-RAY DIFFRACTION mmCIF 未提供已读取环境条件	分辨率 2.00 Å R-free 0.263
2	蛋白异源复合物异源复合物蛋白 × 2 PDB 声明：dimeric（2）与蛋白拷贝数一致	链 D； UniProt 1–331	未记录	PROTEIN (RAB GERANYLGERANYLTRANSFERASE ALPHA SUBUNIT) × 1 （Q08602） ZN ZINC ION × 1	X-RAY DIFFRACTION mmCIF 未提供已读取环境条件	分辨率 2.00 Å R-free 0.263

数据库中的同蛋白其他状态

其他 PDB	相对当前条目 1DCE	Assembly / 聚集状态	构建体	突变与修饰	配体、离子与非聚合物	实验方法与环境	结构质量
1LTX Structure of Rab Escort Protein-1 in complex with Rab geranylgeranyl transferase and isoprenoid 提交 2002-05-21	聚集状态不同配体/离子不同实验环境不同结构质量不同	Assembly 1 蛋白异源复合物异源复合物；蛋白 × 4 PDB 声明：tetrameric	链 B 1–331（331 aa）	未记录	ZN ZINC ION × 1 CL CHLORIDE ION × 1 FAR FARNESYL × 1	X-RAY DIFFRACTION X-ray结晶条件 VAPOR DIFFUSION, HANGING DROP；pH 7.2；298 K；20% PEG 3350, 100mM KSCN, 100mM Namalonate, pH 7.2, VAPOR DIFFUSION, HANGING DROP, temperature 298.0K	分辨率 2.70 Å R-free 0.272
3C72 Engineered RabGGTase in complex with a peptidomimetic inhibitor 提交 2008-02-06	配体/离子不同实验环境不同结构质量不同	Assembly 1 蛋白异源复合物异源复合物；蛋白 × 2 PDB 声明：dimeric	链 B 1–331（331 aa）	未记录	ZN ZINC ION × 1 CA CALCIUM ION × 1 CX1 N-[(benzyloxy)carbonyl]-L-histidyl-N-methyl-L-phenylalanyl-L-tyrosine × 1	X-RAY DIFFRACTION X-ray结晶条件 VAPOR DIFFUSION, HANGING DROP；pH 7.2；284 K；14% (w/v) PEG 3350, 0.2 M Ca-Acetate, 0.1 M HEPES, cocrystallization with 5 mM inhibitor, pH 7.2, VAPOR DIFFUSION, HANGING DROP, temperature 284K	分辨率 2.30 Å R-free 0.256
3DSS Crystal structure of RabGGTase(DELTA LRR; DELTA IG) 提交 2008-07-14	配体/离子不同实验环境不同结构质量不同	Assembly 1 蛋白异源复合物异源复合物；蛋白 × 2 PDB 声明：dimeric	链 B 1–331（331 aa）	未记录	ZN ZINC ION × 1 CA CALCIUM ION × 2	X-RAY DIFFRACTION X-ray结晶条件 VAPOR DIFFUSION, HANGING DROP；pH 7.2；284 K；14% (w/v) PEG 3350, 0.2M Ca(OAc)2, 0.1M HEPES, pH 7.2, VAPOR DIFFUSION, HANGING DROP, temperature 284K	分辨率 1.80 Å R-free 0.194
3DST Crystal structure of RabGGTase(DELTA LRR; DELTA IG)in complex with geranylgeranyl pyrophosphate 提交 2008-07-14	配体/离子不同实验环境不同结构质量不同	Assembly 1 蛋白异源复合物异源复合物；蛋白 × 2 PDB 声明：dimeric	链 B 1–331（331 aa）	未记录	GRG GERANYLGERANYL DIPHOSPHATE × 1 ZN ZINC ION × 1 CA CALCIUM ION × 1	X-RAY DIFFRACTION X-ray结晶条件 VAPOR DIFFUSION, HANGING DROP；pH 7.2；284 K；14% (w/v) PEG 3350, 0.2M Ca(OAc)2, 0.1M HEPES, pH 7.2, VAPOR DIFFUSION, HANGING DROP, temperature 284K	分辨率 1.90 Å R-free 0.220
3DSU Crystal structure of RabGGTase(DELTA LRR; DELTA IG)in complex with farnesyl pyrophosphate 提交 2008-07-14	配体/离子不同实验环境不同结构质量不同	Assembly 1 蛋白异源复合物异源复合物；蛋白 × 2 PDB 声明：dimeric	链 B 1–331（331 aa）	未记录	FPP FARNESYL DIPHOSPHATE × 1 ZN ZINC ION × 1 CA CALCIUM ION × 1	X-RAY DIFFRACTION X-ray结晶条件 VAPOR DIFFUSION, HANGING DROP；pH 7.2；284 K；14% (w/v) PEG 3350, 0.2M Ca(OAc)2, 0.1M HEPES, pH 7.2, VAPOR DIFFUSION, HANGING DROP, temperature 284K	分辨率 1.90 Å R-free 0.215
3DSV Crystal structure of RabGGTase(DELTA LRR; DELTA IG)in complex with mono-prenylated peptide Ser-Cys-Ser-Cys(GG) derivated from Rab7 提交 2008-07-14	配体/离子不同实验环境不同结构质量不同	Assembly 1 蛋白异源复合物异源复合物；蛋白 × 2 PDB 声明：dimeric	链 B 1–331（331 aa）	未记录	ZN ZINC ION × 1 CA CALCIUM ION × 1 GER GERAN-8-YL GERAN × 1	X-RAY DIFFRACTION X-ray结晶条件 VAPOR DIFFUSION, HANGING DROP；pH 7.2；284 K；14% (w/v) PEG 3350, 0.2M Ca(OAc)2, 0.1M HEPES, pH 7.2, VAPOR DIFFUSION, HANGING DROP, temperature 284K	分辨率 2.10 Å R-free 0.211
3DSW Crystal structure of RabGGTase(DELTA LRR; DELTA IG)in complex with mono-prenylated peptide Ser-Cys(GG)-Ser-Cys derivated from Rab7 提交 2008-07-14	配体/离子不同实验环境不同结构质量不同	Assembly 1 蛋白异源复合物异源复合物；蛋白 × 2 PDB 声明：dimeric	链 B 1–331（331 aa）	未记录	ZN ZINC ION × 1 CA CALCIUM ION × 1 GER GERAN-8-YL GERAN × 1	X-RAY DIFFRACTION X-ray结晶条件 VAPOR DIFFUSION, HANGING DROP；pH 7.2；284 K；14% (w/v) PEG 3350, 0.2M Ca(OAc)2, 0.1M HEPES, pH 7.2, VAPOR DIFFUSION, HANGING DROP, temperature 284K	分辨率 2.15 Å R-free 0.232
3DSX Crystal structure of RabGGTase(DELTA LRR; DELTA IG)in complex with di-prenylated peptide Ser-Cys(GG)-Ser-Cys(GG) derivated from Rab7 提交 2008-07-14	配体/离子不同实验环境不同结构质量不同	Assembly 1 蛋白异源复合物异源复合物；蛋白 × 2 PDB 声明：dimeric	链 B 1–331（331 aa）	未记录	ZN ZINC ION × 1 CA CALCIUM ION × 1 GER GERAN-8-YL GERAN × 1	X-RAY DIFFRACTION X-ray结晶条件 VAPOR DIFFUSION, HANGING DROP；pH 7.2；284 K；14% (w/v) PEG 3350, 0.2M Ca(OAc)2, 2.5% (v/v)DMSO, 0.1M HEPES, pH 7.2, VAPOR DIFFUSION, HANGING DROP, temperature 284K	分辨率 2.10 Å R-free 0.229
3HXB Engineered RabGGTase in complex with a peptidomimetic inhibitor (compound 6) 提交 2009-06-20	构建体不同配体/离子不同实验环境不同结构质量不同	Assembly 1 蛋白异源复合物异源复合物；蛋白 × 2 PDB 声明：dimeric	链 B 1–331（331 aa）片段：RABGGTase BETA-subunit	未记录	BD5 N-[(benzyloxy)carbonyl]-D-tyrosyl-L-phenylalanyl-L-tyrosine × 1 ZN ZINC ION × 1	X-RAY DIFFRACTION X-ray结晶条件 VAPOR DIFFUSION, HANGING DROP；pH 7.2；284 K；14% (w/v) PEG3350, 0.2 M Ca(OAc)2, 0.1 M HEPES, pH 7.2, VAPOR DIFFUSION, HANGING DROP, temperature 284K	分辨率 2.25 Å R-free 0.278
3HXC Engineered RabGGTase in complex with a peptidomimetic inhibitor (compound 8) 提交 2009-06-20	构建体不同配体/离子不同实验环境不同结构质量不同	Assembly 1 蛋白异源复合物异源复合物；蛋白 × 2 PDB 声明：dimeric	链 B 1–331（331 aa）片段：RABGGTase BETA-subunit	未记录	ZN ZINC ION × 1 CA CALCIUM ION × 1 BD6 N-[(benzyloxy)carbonyl]-L-histidyl-N-methyl-L-phenylalanyl-N-hydroxy-L-tryptophanamide × 1	X-RAY DIFFRACTION X-ray结晶条件 VAPOR DIFFUSION, HANGING DROP；pH 7.2；284 K；14% (w/v) PEG3350, 0.2 M Ca(OAc)2, 0.1 M HEPES, pH 7.2, VAPOR DIFFUSION, HANGING DROP, temperature 284K	分辨率 1.95 Å R-free 0.218
3HXD Engineered RabGGTase in complex with a peptidomimetic inhibitor (compound 9) 提交 2009-06-20	构建体不同配体/离子不同实验环境不同结构质量不同	Assembly 1 蛋白异源复合物异源复合物；蛋白 × 2 PDB 声明：dimeric	链 B 1–331（331 aa）片段：RABGGTase BETA-subunit	未记录	ZN ZINC ION × 1 CA CALCIUM ION × 1 BD7 N-[(benzyloxy)carbonyl]-L-histidyl-N-methyl-L-phenylalanyl-N-hydroxy-L-tyrosinamide × 1	X-RAY DIFFRACTION X-ray结晶条件 VAPOR DIFFUSION, HANGING DROP；pH 7.2；284 K；14% (w/v) PEG3350, 0.2 M Ca(OAc)2, 0.1 M HEPES, pH 7.2, VAPOR DIFFUSION, HANGING DROP, temperature 284K	分辨率 1.95 Å R-free 0.222
3HXE Engineered RabGGTase in complex with a peptidomimetic inhibitor (compound 37) 提交 2009-06-20	构建体不同配体/离子不同实验环境不同结构质量不同	Assembly 1 蛋白异源复合物异源复合物；蛋白 × 2 PDB 声明：dimeric	链 B 1–331（331 aa）片段：RABGGTase BETA-subunit	未记录	ZN ZINC ION × 1 CA CALCIUM ION × 1 BD8 N-undecanoyl-L-histidyl-L-phenylalanyl-N-methyl-N-(2-pyridin-2-ylethyl)-L-tyrosinamide × 1	X-RAY DIFFRACTION X-ray结晶条件 VAPOR DIFFUSION, HANGING DROP；pH 7.2；284 K；14% (w/v) PEG3350, 0.2 M Ca(OAc)2, 0.1 M HEPES, pH 7.2, VAPOR DIFFUSION, HANGING DROP, temperature 284K	分辨率 1.95 Å R-free 0.215
3HXF Engineered RabGGTase in complex with a peptidomimetic inhibitor (compound 32) 提交 2009-06-20	构建体不同配体/离子不同实验环境不同结构质量不同	Assembly 1 蛋白异源复合物异源复合物；蛋白 × 2 PDB 声明：dimeric	链 B 1–331（331 aa）片段：RABGGTase BETA-subunit	未记录	ZN ZINC ION × 1 CA CALCIUM ION × 1 BD9 N-undecanoyl-L-histidyl-L-histidyl-N-methyl-N-(2-pyridin-2-ylethyl)-L-tyrosinamide × 1	X-RAY DIFFRACTION X-ray结晶条件 VAPOR DIFFUSION, HANGING DROP；pH 7.2；284 K；14% (w/v) PEG3350, 0.2 M Ca(OAc)2, 0.1 M HEPES, pH 7.2, VAPOR DIFFUSION, HANGING DROP, temperature 284K	分辨率 1.90 Å R-free 0.212
3PZ1 Crystal structure of RabGGTase(DELTA LRR; DELTA IG) in Complex with BMS3 提交 2010-12-14	构建体不同配体/离子不同实验环境不同结构质量不同	Assembly 1 蛋白异源复合物异源复合物；蛋白 × 2 PDB 声明：dimeric	链 B 2–331（330 aa）片段：UNP residues 10-339	未记录	3PZ (3R)-3-benzyl-4-[(4-methoxyphenyl)sulfonyl]-1-[(1-methyl-1H-imidazol-5-yl)methyl]-2,3,4,5-tetrahydro-1H-1,4-benzodiazepine-7-carbonitrile × 1 ZN ZINC ION × 1 CA CALCIUM ION × 1 DMS DIMETHYL SULFOXIDE × 4	X-RAY DIFFRACTION X-ray结晶条件 VAPOR DIFFUSION, HANGING DROP；pH 7.2；284 K；14% (w/v) PEG3350, 0.2 M Ca(OAc)2, 0.1 M HEPES, pH 7.2, VAPOR DIFFUSION, HANGING DROP, temperature 284K	分辨率 1.95 Å R-free 0.232
3PZ2 Crystal structure of RabGGTase(DELTA LRR; DELTA IG) in Complex with BMS3 and lipid substrate GGPP 提交 2010-12-14	构建体不同配体/离子不同实验环境不同结构质量不同	Assembly 1 蛋白异源复合物异源复合物；蛋白 × 2 PDB 声明：dimeric	链 B 2–331（330 aa）片段：UNP residues 10-339	未记录	ZN ZINC ION × 1 CA CALCIUM ION × 1 3PZ (3R)-3-benzyl-4-[(4-methoxyphenyl)sulfonyl]-1-[(1-methyl-1H-imidazol-5-yl)methyl]-2,3,4,5-tetrahydro-1H-1,4-benzodiazepine-7-carbonitrile × 1 GRG GERANYLGERANYL DIPHOSPHATE × 1	X-RAY DIFFRACTION X-ray结晶条件 VAPOR DIFFUSION, HANGING DROP；pH 7.2；284 K；14% (w/v) PEG3350, 0.2 M Ca(OAc)2, 0.1 M HEPES, pH 7.2, VAPOR DIFFUSION, HANGING DROP, temperature 284K	分辨率 2.35 Å R-free 0.256
3PZ3 Crystal structure of RabGGTase(DELTA LRR; DELTA IG) in Complex with BMS-analogue 14 提交 2010-12-14	构建体不同配体/离子不同实验环境不同结构质量不同	Assembly 1 蛋白异源复合物异源复合物；蛋白 × 2 PDB 声明：dimeric	链 B 2–331（330 aa）片段：UNP residues 10-339	未记录	ZN ZINC ION × 1 CA CALCIUM ION × 1 PZ3 4-({(3R)-7-(5-formylfuran-2-yl)-4-[(4-methoxyphenyl)sulfonyl]-1-[(1-methyl-1H-imidazol-5-yl)methyl]-2,3,4,5-tetrahydro-1H-1,4-benzodiazepin-3-yl}methyl)phenyl benzylcarbamate × 1	X-RAY DIFFRACTION X-ray结晶条件 VAPOR DIFFUSION, HANGING DROP；pH 7.2；284 K；14% (w/v) PEG3350, 0.2 M Ca(OAc)2, 0.1 M HEPES, pH 7.2, VAPOR DIFFUSION, HANGING DROP, temperature 284K	分辨率 2.00 Å R-free 0.224
4EHM RabGGTase in complex with covalently bound Psoromic acid 提交 2012-04-02	构建体不同配体/离子不同实验环境不同结构质量不同	Assembly 1 蛋白异源复合物异源复合物；蛋白 × 2 PDB 声明：dimeric	链 B 2–331（330 aa）	未记录	PJA 4-formyl-3-hydroxy-8-methoxy-1,9-dimethyl-11-oxo-11H-dibenzo[b,e][1,4]dioxepine-6-carboxylic acid × 1 ZN ZINC ION × 1 CA CALCIUM ION × 1	X-RAY DIFFRACTION X-ray结晶条件 VAPOR DIFFUSION, HANGING DROP；pH 7.2；285 K；20mM Hepes pH7.2, 100mM NaCl, 2mM DTT, 15% PEG 3350, 0.2M Ca Acetate, 0.1M Hepes pH7.2, VAPOR DIFFUSION, HANGING DROP, temperature 285K	分辨率 2.20 Å R-free 0.251
4GTS Engineered RabGGTase in complex with BMS analogue 16 提交 2012-08-29	构建体不同配体/离子不同实验环境不同结构质量不同	Assembly 1 蛋白异源复合物异源复合物；蛋白 × 2 PDB 声明：dimeric	链 B 2–331（330 aa）	未记录	ZN ZINC ION × 1 CA CALCIUM ION × 1 7TP 5-{(3R)-3-(4-hydroxybenzyl)-4-[(4-methoxyphenyl)sulfonyl]-1-[(1-methyl-1H-imidazol-5-yl)methyl]-2,3,4,5-tetrahydro-1H-1,4-benzodiazepin-7-yl}furan-2-carbaldehyde × 1	X-RAY DIFFRACTION X-ray结晶条件 VAPOR DIFFUSION, HANGING DROP；pH 7.2；285 K；RabGGTase in 20mM Hepes pH7.2, 100mM NaCl and 2mM DTT was mixed with 15% PEG3350, 0.2M Ca Acetate, 0.1M Hepes pH7.2. The obtained crystals was soaked with 20% PEG3350, 0.2M Ca Acetate, 5% Glycerol in the presence of 1mM inhibitor for 12 hour, VAPOR DIFFUSION, HANGING DROP, temperature 285K	分辨率 2.45 Å R-free 0.248
4GTT Engineered RabGGTase in complex with BMS analogue 12 提交 2012-08-29	构建体不同配体/离子不同实验环境不同结构质量不同	Assembly 1 蛋白异源复合物异源复合物；蛋白 × 2 PDB 声明：dimeric	链 B 2–331（330 aa）	未记录	ZN ZINC ION × 1 CA CALCIUM ION × 1 7TQ 4-({(3R)-7-cyano-4-[(4-methoxyphenyl)sulfonyl]-1-[(1-methyl-1H-imidazol-5-yl)methyl]-2,3,4,5-tetrahydro-1H-1,4-benzodiazepin-3-yl}methyl)phenyl benzylcarbamate × 1	X-RAY DIFFRACTION X-ray结晶条件 VAPOR DIFFUSION, HANGING DROP；pH 7.2；285 K；RabGGTase in 20mM Hepes pH7.2, 100mM NaCl and 2mM DTT was mixed with 15% PEG3350, 0.2M Ca Acetate, 0.1M Hepes pH7.2. The obtained crystals was soaked with 20% PEG3350, 0.2M Ca Acetate, 5% Glycerol in the presence of 1mM inhibitor for 12 hour., VAPOR DIFFUSION, HANGING DROP, temperature 285K	分辨率 2.05 Å R-free 0.233
4GTV Engineered RabGGTase in complex with BMS analogue 13 提交 2012-08-29	构建体不同配体/离子不同实验环境不同结构质量不同	Assembly 1 蛋白异源复合物异源复合物；蛋白 × 2 PDB 声明：dimeric	链 B 2–331（330 aa）	未记录	ZN ZINC ION × 1 CA CALCIUM ION × 1 7TR 4-({(3R)-7-cyano-4-[(4-methoxyphenyl)sulfonyl]-1-[(1-methyl-1H-imidazol-5-yl)methyl]-2,3,4,5-tetrahydro-1H-1,4-benzodiazepin-3-yl}methyl)phenyl diethylcarbamate × 1	X-RAY DIFFRACTION X-ray结晶条件 VAPOR DIFFUSION, HANGING DROP；pH 7.2；285 K；RabGGTase in 20mM Hepes pH7.2, 100mM NaCl and 2mM DTT was mixed with 15% PEG3350, 0.2M Ca Acetate, 0.1M Hepes pH7.2. The obtained crystals was soaked with 20% PEG3350, 0.2M Ca Acetate, 5% Glycerol in the presence of 1mM inhibitor for 12 hour, VAPOR DIFFUSION, HANGING DROP, temperature 285K	分辨率 1.95 Å R-free 0.211

共 20 个其他 PDB 条目、20 个 assembly。打开独立比较页并筛选聚集状态

查看构建体与数据证据

UniProt名称	PGTB_RAT
Isoform	—
PDB实体	2
链与序列区间	作者链 B； PDB构建体 1–331； UniProt 1–331 作者链 D； PDB构建体 1–331； UniProt 1–331

页面优先展示蛋白身份、当前 assembly、共同组分、聚集状态和跨 PDB 结构链接。链映射与序列区间收在“数据证据”中；数据库内部编号、导入时间和 assembly 操作表达式仅用于维护，因此不在读者页面展示。

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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2. 结构基本信息 2. Structure Basics

条目编号 entry_id	1dce
沉积日期 deposition_date	1999-11-04
结构标题 title	CRYSTAL STRUCTURE OF RAB GERANYLGERANYLTRANSFERASE FROM RAT BRAIN
关键词 keywords	RAB GERANYLGERANYLTRANSFERASE, 2.0 A RESOLUTION, N-FORMYLMETHIONINE, ALPHA SUBUNIT, BETA SUBUNIT, TRANSFERASE; TRANSFERASE
实验方法 method	X-RAY DIFFRACTION

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3. SAXS 参数 (CRYSOL 理论计算) 3. SAXS Parameters (CRYSOL)

回转半径 Rg (Guinier) rg_guinier	43.16 Å
回转半径 Rg (电子) rg_electron	42.81 Å
零角强度 I(0) i0	607054000.00
分子量 molecular_weight	201580.0 kDa
排除体积 excluded_volume	251730 Å³
包络体积 envelope_volume	336780 Å³
水化壳体积 shell_volume	65564 Å³
包络直径 envelope_diameter	139.6 Å
壳层 Rg shell_rg	47.74 Å
包络 Rg envelope_rg	42.11 Å
形状 Rg shape_rg	42.82 Å
总 Rg total_rg	43.03 Å
总原子数 total_atoms	14153
残基数 n_residues	1790
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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4. P(r) 距离分布 (GNOM 反演) 4. P(r) Analysis (GNOM)

最大尺寸 Dmax dmax	142.6 Å
Rg (实空间) rg_real	43.15 Å
Rg 误差 (实空间) rg_real_error	1.18 Å
I(0) (实空间) i0_real	6.0710e+08
I(0) 误差 (实空间) i0_real_error	1.0450e+07
Rg (倒空间) rg_reciprocal	43.16 Å
I(0) (倒空间) i0_reciprocal	607100000.0000
解质量估计 total_estimate	0.8973
解质量评级 solution_quality	GOOD a GOOD solution
P(r) 峰数 n_peaks	1
主峰位置 r_peak_primary	46.2 Å
偏度 Skewness skewness	0.278
峰度 Kurtosis kurtosis	-0.607
角度范围 angular_range	— – 0.1850 Å⁻¹
当前正则化参数 α current_alpha	0.0000
最高正则化参数 α highest_alpha	89960000.0000
实空间数据点数 n_real_points	38
GNOM 版本 gnom_version	4.1.3
质量判据 quality_criteria	AN1: 0.000; Oscil: 0.905; Stabil: 1.000; Sysdev: 1.000; Positv: 1.000; Valcen: 0.996; Smooth: 0.949

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5. 晶体学与实验 5. Crystallography & Experiment

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6. 实体与聚合物信息 Entities & Polymers (4)

实体 1 Entity 1 polymer

描述 description	PROTEIN (RAB GERANYLGERANYLTRANSFERASE ALPHA SUBUNIT)
分子量 formula_weight	65009.2 kDa
EC 编号 ec_number	2.5.1.-
来源方法 src_method	nat
拷贝数 entity_count	2

聚合物 Polymer

聚合物类型 type	polypeptide(L)
链编号 strand_id	A,C
原子数 atom_count	14982

MHGRLKVKTSEEQAEAKRLEREQKLKLYQSATQAVFQKRQAGELDESVLELTSQILGANPDFATLWNCRREVLQHLETEKSPEESAALVKAELGFLESCLRVNPKSYGTWHHRCWLLSRLPEPNWARELELCARFLEADERNFHCWDYRRFVAAQAAVAPAEELAFTDSLITRNFSNYSSWHYRSCLLPQLHPQPDSGPQGRLPENVLLKELELVQNAFFTDPNDQSAWFYHRWLLGRAEPHDVLCCVHVSREEACLSVCFSRPLTVGSRMGTLLLMVDEAPLSVEWRTPDGRNRPSHVWLCDLPAASLNDQLPQHTFRVIWTGSDSQKECVLLKDRPECWCRDSATDEQLFRCELSVEKSTVLQSELESCKELQELEPENKWCLLTIILLMRALDPLLYEKETLQYFSTLKAVDPMRAAYLDDLRSKFLLENSVLKMEYADVRVLHLAHKDLTVLCHLEQLLLVTHLDLSHNRLRALPPALAALRCLEVLQASDNALENVDGVANLPRLQELLLCNNRLQQSAAIQPLVSCPRLVLLNLQGNSLCQEEGIQERLAEMLPSVSSILT

实体 2 Entity 2 polymer

描述 description	PROTEIN (RAB GERANYLGERANYLTRANSFERASE BETA SUBUNIT)
分子量 formula_weight	36892.2 kDa
EC 编号 ec_number	2.5.1.-
来源方法 src_method	nat
拷贝数 entity_count	2

聚合物 Polymer

聚合物类型 type	polypeptide(L)
链编号 strand_id	B,D

MGTQQKDVTIKSDAPDTLLLEKHADYIASYGSKKDDYEYCMSEYLRMSGVYWGLTVMDLMGQLHRMNKEEILVFIKSCQHECGGVSASIGHDPHLLYTLSAVQILTLYDSIHVINVDKVVAYVQSLQKEDGSFAGDIWGEIDTRFSFCAVATLALLGKLDAINVEKAIEFVLSCMNFDGGFGCRPGSESHAGQIYCCTGFLAITSQLHQVNSDLLGWWLCERQLPSGGLNGRPEKLPDVCYSWWVLASLKIIGRLHWIDREKLRSFILACQDEETGGFADRPGDMVDPFHTLFGIAGLSLLGEEQIKPVSPVFCMPEEVLQRVNVQPELVS

实体 3 Entity 3 non-polymer

描述 description	ZINC ION
分子量 formula_weight	65.4 kDa
来源方法 src_method	syn
拷贝数 entity_count	2

实体 4 Entity 4 water

描述 description	water
分子量 formula_weight	18.0 kDa
来源方法 src_method	nat
拷贝数 entity_count	829

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7. 折叠分类 (SCOP + CATH) 16 domains

SCOP 2.08 (8 domains)

结构域编号 domain_id	d1dcea1
类 Class class	a — All alpha proteins
折叠类型 Fold fold	a.118 — alpha-alpha superhelix
超家族 Superfamily superfamily	a.118.6 — Protein prenylyltransferase
家族 Family family	a.118.6.1 — Protein prenylyltransferase

结构域编号 domain_id	d1dcea2
类 Class class	b — All beta proteins
折叠类型 Fold fold	b.7 — C2 domain-like
超家族 Superfamily superfamily	b.7.4 — Rab geranylgeranyltransferase alpha-subunit, insert domain
家族 Family family	b.7.4.1 — Rab geranylgeranyltransferase alpha-subunit, insert domain

结构域编号 domain_id	d1dcea3
类 Class class	c — Alpha and beta proteins (a/b)
折叠类型 Fold fold	c.10 — Leucine-rich repeat, LRR (right-handed beta-alpha superhelix)
超家族 Superfamily superfamily	c.10.2 — L domain-like
家族 Family family	c.10.2.2 — Rab geranylgeranyltransferase alpha-subunit, C-terminal domain

结构域编号 domain_id	d1dceb_
类 Class class	a — All alpha proteins
折叠类型 Fold fold	a.102 — alpha/alpha toroid
超家族 Superfamily superfamily	a.102.4 — Terpenoid cyclases/Protein prenyltransferases
家族 Family family	a.102.4.3 — Protein prenyltransferases

结构域编号 domain_id	d1dcec1
类 Class class	a — All alpha proteins
折叠类型 Fold fold	a.118 — alpha-alpha superhelix
超家族 Superfamily superfamily	a.118.6 — Protein prenylyltransferase
家族 Family family	a.118.6.1 — Protein prenylyltransferase

结构域编号 domain_id	d1dcec2
类 Class class	b — All beta proteins
折叠类型 Fold fold	b.7 — C2 domain-like
超家族 Superfamily superfamily	b.7.4 — Rab geranylgeranyltransferase alpha-subunit, insert domain
家族 Family family	b.7.4.1 — Rab geranylgeranyltransferase alpha-subunit, insert domain

结构域编号 domain_id	d1dcec3
类 Class class	c — Alpha and beta proteins (a/b)
折叠类型 Fold fold	c.10 — Leucine-rich repeat, LRR (right-handed beta-alpha superhelix)
超家族 Superfamily superfamily	c.10.2 — L domain-like
家族 Family family	c.10.2.2 — Rab geranylgeranyltransferase alpha-subunit, C-terminal domain

结构域编号 domain_id	d1dced_
类 Class class	a — All alpha proteins
折叠类型 Fold fold	a.102 — alpha/alpha toroid
超家族 Superfamily superfamily	a.102.4 — Terpenoid cyclases/Protein prenyltransferases
家族 Family family	a.102.4.3 — Protein prenyltransferases

CATH v4.4 (8 domains)

结构域编号 domain_id	1dceA01
类 Class class	1 — Mainly Alpha
架构 Architecture architecture	25 — Alpha Horseshoe
拓扑 Topology topology	40 — Serine Threonine Protein Phosphatase 5, Tetratricopeptide repeat
同源超家族 H-superfamily homologous superfamily	120 — Protein prenylyltransferase

结构域编号 domain_id	1dceA02
类 Class class	2 — Mainly Beta
架构 Architecture architecture	60 — Sandwich
拓扑 Topology topology	40 — Immunoglobulin-like
同源超家族 H-superfamily homologous superfamily	1130 — Rab geranylgeranyltransferase alpha-subunit, insert domain

结构域编号 domain_id	1dceA03
类 Class class	3 — Alpha Beta
架构 Architecture architecture	80 — Alpha-Beta Horseshoe
拓扑 Topology topology	10 — Leucine-rich repeat, LRR (right-handed beta-alpha superhelix)
同源超家族 H-superfamily homologous superfamily	10 — Ribonuclease Inhibitor

结构域编号 domain_id	1dceB00
类 Class class	1 — Mainly Alpha
架构 Architecture architecture	50 — Alpha/alpha barrel
拓扑 Topology topology	10 — Glycosyltransferase
同源超家族 H-superfamily homologous superfamily	20 —

结构域编号 domain_id	1dceC01
类 Class class	1 — Mainly Alpha
架构 Architecture architecture	25 — Alpha Horseshoe
拓扑 Topology topology	40 — Serine Threonine Protein Phosphatase 5, Tetratricopeptide repeat
同源超家族 H-superfamily homologous superfamily	120 — Protein prenylyltransferase

结构域编号 domain_id	1dceC02
类 Class class	2 — Mainly Beta
架构 Architecture architecture	60 — Sandwich
拓扑 Topology topology	40 — Immunoglobulin-like
同源超家族 H-superfamily homologous superfamily	1130 — Rab geranylgeranyltransferase alpha-subunit, insert domain

结构域编号 domain_id	1dceC03
类 Class class	3 — Alpha Beta
架构 Architecture architecture	80 — Alpha-Beta Horseshoe
拓扑 Topology topology	10 — Leucine-rich repeat, LRR (right-handed beta-alpha superhelix)
同源超家族 H-superfamily homologous superfamily	10 — Ribonuclease Inhibitor

结构域编号 domain_id	1dceD00
类 Class class	1 — Mainly Alpha
架构 Architecture architecture	50 — Alpha/alpha barrel
拓扑 Topology topology	10 — Glycosyltransferase
同源超家族 H-superfamily homologous superfamily	20 —

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8. 引用文献 (1)

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晶胞边长 a length_a	57.864 Å
晶胞边长 b length_b	77.439 Å
晶胞边长 c length_c	121.775 Å
晶胞夹角 α angle_alpha	74.60 °
晶胞夹角 β angle_beta	79.91 °
晶胞夹角 γ angle_gamma	67.89 °
晶胞分子数 Z z_pdb	2

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

分辨率 resolution	2.000 Å
最低分辨率 resolution_low	20.000 Å
R 因子 r_factor	—
R_work r_work	0.2147
R_free r_free	0.2634

fit	/app/data/saxs_computation/dc/1dce/1dce.fit
pddf	/app/data/pr_computation/dc/1dce/1dce.pr.out
profile	/app/data/saxs_computation/dc/1dce/1dce.dat

CRYSTAL STRUCTURE OF RAB GERANYLGERANYLTRANSFERASE FROM RAT BRAIN

1. 蛋白身份与相关结构 Protein Identity & Related Structures

PROTEIN (RAB GERANYLGERANYLTRANSFERASE ALPHA SUBUNIT)

当前结构中的状态

数据库中的同蛋白其他状态

PROTEIN (RAB GERANYLGERANYLTRANSFERASE BETA SUBUNIT)

当前结构中的状态

数据库中的同蛋白其他状态

SAXS 散射曲线 SAXS Profile

P(r) 距离分布 P(r) Distribution

2. 结构基本信息 2. Structure Basics

3. SAXS 参数 (CRYSOL 理论计算) 3. SAXS Parameters (CRYSOL)

4. P(r) 距离分布 (GNOM 反演) 4. P(r) Analysis (GNOM)

5. 晶体学与实验 5. Crystallography & Experiment

晶胞参数 Unit Cell

对称性 Symmetry

精修参数 Refinement

6. 实体与聚合物信息 Entities & Polymers (4)

实体 1 Entity 1 polymer

聚合物 Polymer

实体 2 Entity 2 polymer

聚合物 Polymer

实体 3 Entity 3 non-polymer

实体 4 Entity 4 water

7. 折叠分类 (SCOP + CATH) 16 domains

SCOP 2.08 (8 domains)

CATH v4.4 (8 domains)

8. 引用文献 (1)

9. 文件与曲线 (10)

Files (7)

Curves (3)