1xbp

;Inhibition of peptide bond formation by pleuromutilins: The structure of the 50S ribosomal subunit from Deinococcus radiodurans in complex with Tiamulin ;

Method: X-RAY DIFFRACTION D_max: 263.7 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	1xbp
沉积日期 deposition_date	2004-08-31
结构标题 title	;Inhibition of peptide bond formation by pleuromutilins: The structure of the 50S ribosomal subunit from Deinococcus radiodurans in complex with Tiamulin ;
关键词 keywords	Tiamulin, Pleuromutilin, 50S RIBOSOME, RIBOSOME; RIBOSOME
实验方法 method	X-RAY DIFFRACTION

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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	68.55 Å
回转半径 Rg (电子) rg_electron	69.62 Å
零角强度 I(0) i0	57456500000.00
分子量 molecular_weight	1314300.0 kDa
排除体积 excluded_volume	1336400 Å³
包络体积 envelope_volume	2096900 Å³
水化壳体积 shell_volume	235170 Å³
包络直径 envelope_diameter	249.9 Å
壳层 Rg shell_rg	80.38 Å
包络 Rg envelope_rg	68.46 Å
形状 Rg shape_rg	66.84 Å
总 Rg total_rg	72.92 Å
总原子数 total_atoms	61909
残基数 n_residues	2884
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	263.7 Å
Rg (实空间) rg_real	72.21 Å
Rg 误差 (实空间) rg_real_error	1.73 Å
I(0) (实空间) i0_real	5.7760e+10
I(0) 误差 (实空间) i0_real_error	1.2420e+09
Rg (倒空间) rg_reciprocal	69.11 Å
I(0) (倒空间) i0_reciprocal	57530000000.0000
解质量估计 total_estimate	0.8634
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	80.3 Å
偏度 Skewness skewness	0.639
峰度 Kurtosis kurtosis	0.628
角度范围 angular_range	— – 0.1150 Å⁻¹
当前正则化参数 α current_alpha	0.8578
最高正则化参数 α highest_alpha	11400000000.0000
实空间数据点数 n_real_points	24
GNOM 版本 gnom_version	4.1.3
质量判据 quality_criteria	AN1: 0.000; Oscil: 0.574; Stabil: 0.870; Sysdev: 1.000; Positv: 1.000; Valcen: 1.000; Smooth: 0.913

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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 (32)

Entity 1 polymer

描述 description	23S RIBOSOMAL RNA
分子量 formula_weight	933405.0 kDa
来源方法 src_method	nat
拷贝数 entity_count	1

聚合体 Polymer

聚合体类型 type	polyribonucleotide
链编号 strand_id	0
原子数 atom_count	65328

GGUCAAGAUAGUAAGGGUCCACGGUGGAUGCCCUGGCGCUGGAGCCGAUGAAGGACGCGAUUACCUGCGAAAAGCCCCGACGAGCUGGAGAUACGCUUUGACUCGGGGAUGUCCGAAUGGGGAAACCCACCUCGUAAGAGGUAUCCGCAAGGAUGGGAACUCAGGGAACUGAAACAUCUCAGUACCUGAAGGAGAAGAAAGAGAAUUCGAUUCCGUUAGUAGCGGCGAGCGAACCCGGAUCAGCCCAAACCGAAACGCUUGCGUUUCGGGGUUGUAGGACCAGUUUUUAAGAUUCAACCCCUCAAGCCGAAGUGGCUGGAAAGCUACACCUCAGAAGGUGAGAGUCCUGUAGGCGAACGAGCGGUUGACUGUACUGGCACCUGAGUAGGUCGUUGUUCGUGAAACGAUGACUGAAUCCGCGCGGACCACCGCGCAAGGCUAAAUACUCCCAGUGACCGAUAGCGCAUAGUACCGUGAGGGAAAGGUGAAAAGAACCCCGGGAGGGGAGUGAAAGAGAACCUGAAACCGUGGACUUACAAGCAGUCAUGGCACCUUAUGCGUGUUAUGGCGUGCCUAUUGAAGCAUGAGCCGGCGACUUAGACCUGACGUGCGAGCUUAAGUUGAAAAACGGAGGCGGAGCGAAAGCGAGUCCGAAUAGGGCGGCAUUAGUACGUCGGGCUAGACUCGAAACCAGGUGAGCUAAGCAUGACCAGGUUGAAACCCCCGUGACAGGGGGCGGAGGACCGAACCGGUGCCUGCUGAAACAGUCUCGGAUGAGUUGUGUUUAGGAGUGAAAAGCUAACCGAACCUGGAGAUAGCUAGUUCUCCCCGAAAUGUAUUGAGGUACAGCCUCGGAUGUUGACCAUGUCCUGUAGAGCACUCACAAGGCUAGGGGGCCUACCAGCUUACCAAACCUUAUGAAACUCCGAAGGGGCACGCGUUUAGUCCGGGAGUGAGGCUGCGAGAGCUAACUUCCGUAGCCGAGAGGGAAACAACCCAGACCAUCAGCUAAGGUCCCUAAAUGAUCGCUCAGUGGUUAAGGAUGUGUCGUCGCAUAGACAGCCAGGAGGUUGGCUUAGAAGCAGCCACCCUUCAAAGAGUGCGUAAUAGCUCACUGGUCGAGUGACGAUGCGCCGAAAAUGAUCGGGGCUCAAGUGAUCUACCGAAGCUAUGGAUUCAACUCGCGAAGCGAGUUGUCUGGUAGGGGAGCGUUCAGUCCGCGGAGAAGCCAUACCGGAAGGAGUGGUGGAGCCGACUGAAGUGCGGAUGCCGGCAUGAGUAACGAUAAAAGAAGUGAGAAUCUUCUUCGCCGUAAGGACAAGGGUUCCUGGGGAAGGGUCGUCCGCCCAGGGAAAGUCGGGACCUAAGGUGAGGCCGAACGGCGCAGCCGAUGGACAGCAGGUCAAGAUUCCUGCACCGAUCAUGUGGAGUGAUGGAGGGACGCAUUACGCUAUCCAAUGCCAAGCUAUGGCUAUGCUGGUUGGUACGCUCAAGGGCGAUCGGGUCAGAAAAUCUACCGGUCACAUGCCUCAGACGUAUCGGGAGCUUCCUCGGAAGCGAAGUUGGAAACGCGACGGUGCCAAGAAAAGCUUCUAAACGUUGAAACAUGAUUGCCCGUACCGCAAACCGACACAGGUGUCCGAGUGUCAAUGCACUAAGGCGCGCGAGAGAACCCUCGUUAAGGAACUUUGCAAUCUCACCCCGUAACUUCGGAAGAAGGGGUCCCCACGCUUCGCGUGGGGCGCAGUGAAUAGGCCCAGGCGACUGUUUACCAAAAUCACAGCACUCUGCCAACACGAACAGUGGACGUAUAGGGUGUGACGCCUGCCCGGUGCCGGAAGGUCAAGUGGAGCGGUGCAAGCUGCGAAAUGAAGCCCCGGUGAACGGCGGCCGUAACUAUAACGGUCCUAAGGUAGCGAAAUUCCUUGUCGGGUAAGUUCCGACCUGCACGAAAGGCGUAACGAUCUGGGCGCUGUCUCAACGAGGGACUCGGUGAAAUUGAAUUGGCUGUAAAGAUGCGGCCUACCCGUAGCAGGACGAAAAGACCCCGUGGAGCUUUACUAUAGUCUGGCAUUGGGAUUCGGGUUUCUCUGCGUAGGAUAGGUGGGAGCCUGCGAAACUGGCCUUUUGGGGUCGGUGGAGGCAACGGUGAAAUACCACCCUGAGAAACUUGGAUUUCUAACCUGAAAAAUCACUUUCGGGGACCGUGCUUGGCGGGUAGUUUGACUGGGGCGGUCGCCUCCCAAAAUGUAACGGAGGCGCCCAAAGGUCACCUCAAGACGGUUGGAAAUCGUCUGUAGAGCGCAAAGGUAGAAGGUGGCUUGACUGCGAGACUGACACGUCGAGCAGGGAGGAAACUCGGGCUUAGUGAACCGGUGGUACCGUGUGGAAGGGCCAUCGAUCAACGGAUAAAAGUUACCCCGGGGAUAACAGGCUGAUCUCCCCCGAGAGUCCAUAUCGGCGGGGAGGUUUGGCACCUCGAUGUCGGCUCGUCGCAUCCUGGGGCUGAAGAAGGUCCCAAGGGUUGGGCUGUUCGCCCAUUAAAGCGGCACGCGAGCUGGGUUCAGAACGUCGUGAGACAGUUCGGUCUCUAUCCGCUACGGGCGCAGGAGAAUUGAGGGGAGUUGCUCCUAGUACGAGAGGACCGGAGUGAACGGACCGCUGGUCUCCCUGCUGUCGUACCAACGGCACAUGCAGGGUAGCUAUGUCCGGAACGGAUAACCGCUGAAAGCAUCUAAGCGGGAAGCCAGCCCCAAGAUGAGUUCUCCCACUGUUUAUCAGGUAAGACUCCCGGAAGACCACCGGGUUAAGAGGCCAGGCGUGCACGCAUAGCAAUGUGUUCAGCGGACUGGUGCUCAUCAGUCGAGGUCUUGACCACUC

Entity 2 polymer

描述 description	5S RIBOSOMAL RNA
分子量 formula_weight	39911.9 kDa
来源方法 src_method	nat
拷贝数 entity_count	1

聚合体 Polymer

聚合体类型 type	polyribonucleotide
链编号 strand_id	9

ACACCCCCGUGCCCAUAGCACUGUGGAACCACCCCACCCCAUGCCGAACUGGGUCGUGAAACACAGCAGCGCCAAUGAUACUCGGACCGCAGGGUCCCGGAAAAGUCGGUCAGCGCGGGGGUUU

Entity 3 polymer

描述 description	50S ribosomal protein L2
分子量 formula_weight	29976.6 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	A

AVKKYRPYTPSRRQMTTADFSGLTKKRPEKALTEALPKTGGRNNRGRITSRFIGGGHKRLYRIIDFKRRDKSGVNAKVAAIEYDPNRSARIALLHYADGEKRYILAPEGLTVGATVNAGPEAEPKLGNALPLRFVPVGAVVHALELVPGKGAQLARSAGTSVQVQGKESDYVIVRLPSGELRRVHSECYATIGAVGNAEHKNIVLGKAGRSRWLGRKPHQRGSAMNPVDHPHGGGEGRTGAGRVPVTPWGKPTKGLKTRRKRKTSDRFIVTRRK

Entity 4 polymer

描述 description	50S ribosomal protein L3
分子量 formula_weight	22477.2 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	B

MKGILGTKIGMTQIWKNDRAIPVTVVLAGPCPIVQRKTAQTDGYEAVQIGYAPKAERKVNKPMQGHFAKAGVAPTRILREFRGFAPDGDSVNVDIFAEGEKIDATGTSKGKGTQGVMKRWNFAGGPASHGSKKWHRRPGSIGQRKTPGRVYKGKRMAGHMGMERVTVQNLEVVEIRAGENLILVKGAIPGANGGLVVLRSAAKASAAKGGK

Entity 5 polymer

描述 description	50S ribosomal protein L4
分子量 formula_weight	22177.0 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	C

AQINVIGQNGGRTIELPLPEVNSGVLHEVVTWQLASRRRGTASTRTRAQVSKTGRKMYGQKGTGNARHGDRSVPTFVGGGVAFGPKPRSYDYTLPRQVRQLGLAMAIASRQEGGKLVAVDGFDIADAKTKNFISWAKQNGLDGTEKVLLVTDDENTRRAARNVSWVSVLPVAGVNVYDILRHDRLVIDAAALEIVEEEAGEEQQ

Entity 6 polymer

描述 description	50S ribosomal protein L5
分子量 formula_weight	20379.9 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	D

MQQLKTKYNDQVRPALMQQFGYSSVMAVPRIEKIVVNEGLGSSKEDSKAIDKAAKELALITLQKPIITKAKKSISNFKLRQGMPVGIKVTLRGERMYVFLEKLINIGLPRIRDFRGINPNAFDGRGNYNLGIKEQLIFPEITYDMVDKTRGMDITIVTTAKTDEEARALLQSMGLPFRKQ

Entity 7 polymer

描述 description	50S ribosomal protein L6
分子量 formula_weight	19613.6 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	E

MSRIGKQPIAVPSGVTVNAQDGVFKVKGPKGELTVPYNTELTVRQDGDQLLVERPSDAQKHRALHGLTRTLVANAVKGVSDGYTINLELRGVGFRAKLTGKALEMNIGYSHPVIIEPPAGVTFAVPEPTRIDVSGIDKQLVGQVAANVRKVRKPDAYHGKGVRFVGEQIALKAGKAGATGGKGKK

Entity 8 polymer

描述 description	50S ribosomal protein L9
分子量 formula_weight	16089.5 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	F

MQVILLEPSRLGKTGEVVSVKDGYARNWLIPQGLAVSATRTNMKTLEAQLRSIEKRQAQEKAVAEDLASRLNGVAVELSVRAGEGKIYGAVTHQDVANSLDQLGFDVDRRKIDMPKTVKEVGEYDIAYRAHPEVTIPMKLVVHAAK

Entity 9 polymer

描述 description	50S ribosomal protein L11
分子量 formula_weight	14889.2 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	G

MKKVAGIVKLQLPAGKATPAPPVGPALGQYGANIMEFTKAFNAQTADKGDAIIPVEITIYADRSFTFITKTPPMSYLIRKAAGIGKGSSTPNKAKVGKLNWDQVLEIAKTKMPDLNAGSVEAAANTVAGTARSMGVTVEGGPNA

Entity 10 polymer

描述 description	50S ribosomal protein L13
分子量 formula_weight	19223.2 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	H

MAFPDTDVSPPRGGPSSPAKSPLLRSFKVKTYIPKNDEQNWVVVDASGVPLGRLATLIASRIRGKHRPDFTPNMIQGDFVVVINAAQVALTGKKLDDKVYTRYTGYQGGLKTETAREALSKHPERVIEHAVFGMLPKGRQGRAMHTRLKVYAGETHPHSAQKPQVLKTQPLEVK

Entity 11 polymer

描述 description	50S ribosomal protein L14
分子量 formula_weight	14256.5 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	I

MIMPQSRLDVADNSGAREIMCIRVLNSGIGGKGLTTGGGGNKRYAHVGDIIVASVKDAAPRGAVKAGDVVKAVVVRTSHAIKRADGSTIRFDRNAAVIINNQGEPRGTRVFGPVARELRDRRFMKIVSLAPEVL

Entity 12 polymer

描述 description	50S ribosomal protein L15
分子量 formula_weight	16894.2 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	J

MKLHDLKPTPGSRKDRKRVGRGPGGTDKTAGRGHKGQKSRSGAGKGAFFEGGRSRLIARLPKRGFNNVGTTYEVVKLSQLQDLEDTTFDRDTLEAYRLVRRKNRPVKLLASGEISRAVTVHVDAASAAAIKAVEAAGGRVVLPEVQTQQDDAQKAE

Entity 13 polymer

描述 description	ribosomal protein L16
分子量 formula_weight	16126.0 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	K

MLLPKRTKFRKQFRGRMTGDAKGGDYVAFGDYGLIAMEPAWIKSNQIEACRIVMSRHFRRGGKIYIRIFPDKPVTKKPAETRMGKGKGAVEYWVSVVKPGRVMFEVAGVTEEQAKEAFRLAGHKLPIQTKMVKREVYDEAQ

Entity 14 polymer

描述 description	50S ribosomal protein L17
分子量 formula_weight	12926.1 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	L

MRHGKAGRKLNRNSSARVALARAQATALLREGRIQTTLTKAKELRPFVEQLITTAKGGDLHSRRLVAQDIHDKDVVRKVMDEVAPKYAERPGGYTRILRVGTRRGDGVTMALIELV

Entity 15 polymer

描述 description	50S ribosomal protein L18
分子量 formula_weight	12032.7 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	M

ATATTIRRKLRTRRKVRTTTAASGRLRLSVYRSSKHIYAQIIDDSRGQTLAAASSAALKSGNKTDTAAAVGKALAAAAAEKGIKQVVFDRGSYKYHGRVKALADAAREGGLDF

Entity 16 polymer

描述 description	50S ribosomal protein L19
分子量 formula_weight	18347.8 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	N

MQTHIKINRGELLRGIEQDHTRQLPDFRPGDTVRVDTKVREGNRTRSQAFEGVVIAINGSGSRKSFTVRKISFGEGVERVFPFASPLVNQVTIVERGKVRRAKLYYLRELRGKAARIKSDRSRVMKDAARAQQDKANASASQAAAAQADVTVISAAPEVAPETQGE

Entity 17 polymer

描述 description	50S ribosomal protein L20
分子量 formula_weight	13991.3 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	O

MPRAKTGIVRRRRHKKVLKRAKGFWGSRSKQYRNAFQTLLNAATYEYRDRRNKKRDFRRLWIQRINAGARLHGMNYSTFINGLKRANIDLNRKVLADIAAREPEAFKALVDASRNARQ

Entity 18 polymer

描述 description	50S ribosomal protein L21
分子量 formula_weight	11165.7 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	P

MFAIIQTGGKQYRVSEGDVIRVESLQGEAGDKVELKALFVGGEQTVFGEDAGKYTVQAEVVEHGRGKKIYIRKYKSGVQYRRRTGHRQNFTAIKILGIQG

Entity 19 polymer

描述 description	50S ribosomal protein L22
分子量 formula_weight	15190.9 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	Q

MTAPEQTFRNKKQRKQQVKLRKPGFAVAKYVRMSPRKVRLVVDVIRGKSVQDAEDLLRFIPRSASEPVAKVLNSAKANALHNDEMLEDRLFVKEAYVDAGPTLKRLIPRARGSANIIKKRTSHITIIVAEKGNK

Entity 20 polymer

描述 description	50S ribosomal protein L23
分子量 formula_weight	10408.0 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	R

SHYDILQAPVISEKAYSAMERGVYSFWVSPKATKTEIKDAIQQAFGVRVIGISTMNVPGKRKRVGRFIGQRNDRKKAIVRLAEGQSIEALAGQA

Entity 21 polymer

描述 description	50S ribosomal protein L24
分子量 formula_weight	12384.4 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	S

MPRPSAGSHHNDKLHFKKGDTVIVLSGKHKGQTGKVLLALPRDQKVVVEGVNVITKNVKPSMTNPQGGQEQRELALHASKVALVDPETGKATRVRKQIVDGKKVRVAVASGKTID

Entity 22 polymer

描述 description	50S ribosomal protein L25
分子量 formula_weight	25415.4 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	T

MELTAKPRTPKQKLDESMIAAVAYNKENNVSFALDRKAFDRAFRQQSTTGLFDITVEGGETFPALVKAVQMDKRKRAPIHVDFYMVTYGEPVEVSVPVHTTGRSQGEVQGGLVDIVVHNLQIVAPGPRRIPQELVVDVTKMNIGDHITAGDIKLPEGCTLAADPELTVVSVLPPRLTAEELEAEVQAAQVAGLVAAGELSEEAAEAVLEGDASLEEVKAEASEDNAGTDSEDNSDAQ

Entity 23 polymer

描述 description	50S ribosomal protein L27
分子量 formula_weight	9609.1 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	U

MAHKKGVGSSKNGRDSNPKYLGVKKFGGEVVKAGNILVRQRGTKFKAGQGVGMGRDHTLFALSDGKVVFINKGKGARFISIEAAQTEVAAD

Entity 24 polymer

描述 description	50S ribosomal protein L29
分子量 formula_weight	7775.0 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	W

MKPSEMRNLQATDFAKEIDARKKELMELRFQAAAGQLAQPHRVRQLRREVAQLNTVKAELARKGEQQ

Entity 25 polymer

描述 description	50S ribosomal protein L30
分子量 formula_weight	6079.2 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	X

MKIKLVRSVIGRPGNQVKTVQALGLRKIGDSREVSDTPAVRGMVKTVKHLLEVQE

Entity 26 polymer

描述 description	50S ribosomal protein L31
分子量 formula_weight	8597.8 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	Y

MQKDLHPKAVPCKIIYQGQVVMETMSTRPEIHVDVWSGVHPFWTGEERFLDTEGRVDKFNKRFGDSYRRGSKK

Entity 27 polymer

描述 description	50S ribosomal protein L32
分子量 formula_weight	6678.8 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	Z

AKHPVPKKKTSKSKRDMRRSHHALTAPNLTECPQCHGKKLSHHICPNCGYYDGRQVLAV

Entity 28 polymer

描述 description	50S ribosomal protein L33
分子量 formula_weight	6374.5 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	1

MAKDGPRIIVKMESSAGTGFYYTTTKNRRNTQAKLELKKYDPVAKKHVVFREKKV

Entity 29 polymer

描述 description	50S ribosomal protein L34
分子量 formula_weight	5626.6 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	2

MKRTYQPNNRKRAKTHGFRARMKTKSGRNILARRRAKGRHQLTVSDE

Entity 30 polymer

描述 description	50S ribosomal protein L35
分子量 formula_weight	7316.9 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	3

PKMKTHKMAKRRIKITGTGKVMAFKSGKRHQNTGKSGDEIRGKGKGFVLAKAEWARMKLMLPRGK

Entity 31 polymer

描述 description	50S ribosomal protein L36
分子量 formula_weight	4322.3 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	4

MKVRSSVKKMCDNCKVVRRHGRVLVICSNVKHKQRQG

Entity 32 non-polymer

描述 description	TIAMULIN
分子量 formula_weight	493.7 kDa
来源方法 src_method	syn
拷贝数 entity_count	1

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6. 折叠分类 (SCOP + CATH) 29 domains

SCOP 2.08 (29 domains)

结构域编号 domain_id	d1xbp11
类 Class class	g — Small proteins
折叠类型 Fold fold	g.41 — Rubredoxin-like
超家族 Superfamily superfamily	g.41.8 — Zn-binding ribosomal proteins
家族 Family family	g.41.8.6 — Ribosomal protein L33p

结构域编号 domain_id	d1xbp21
类 Class class	j — Peptides
折叠类型 Fold fold	j.118 — Ribosomal protein L34p
超家族 Superfamily superfamily	j.118.1 — Ribosomal protein L34p
家族 Family family	j.118.1.1 — Ribosomal protein L34p

结构域编号 domain_id	d1xbp31
类 Class class	d — Alpha and beta proteins (a+b)
折叠类型 Fold fold	d.301 — L35p-like
超家族 Superfamily superfamily	d.301.1 — L35p-like
家族 Family family	d.301.1.1 — Ribosomal protein L35p

结构域编号 domain_id	d1xbp41
类 Class class	g — Small proteins
折叠类型 Fold fold	g.42 — Ribosomal protein L36
超家族 Superfamily superfamily	g.42.1 — Ribosomal protein L36
家族 Family family	g.42.1.1 — Ribosomal protein L36

结构域编号 domain_id	d1xbpa1
类 Class class	b — All beta proteins
折叠类型 Fold fold	b.34 — SH3-like barrel
超家族 Superfamily superfamily	b.34.5 — Translation proteins SH3-like domain
家族 Family family	b.34.5.3 — C-terminal domain of ribosomal protein L2

结构域编号 domain_id	d1xbpa2
类 Class class	b — All beta proteins
折叠类型 Fold fold	b.40 — OB-fold
超家族 Superfamily superfamily	b.40.4 — Nucleic acid-binding proteins
家族 Family family	b.40.4.5 — Cold shock DNA-binding domain-like

结构域编号 domain_id	d1xbpb1
类 Class class	b — All beta proteins
折叠类型 Fold fold	b.43 — Reductase/isomerase/elongation factor common domain
超家族 Superfamily superfamily	b.43.3 — Translation proteins
家族 Family family	b.43.3.2 — Ribosomal protein L3

结构域编号 domain_id	d1xbpc1
类 Class class	c — Alpha and beta proteins (a/b)
折叠类型 Fold fold	c.22 — Ribosomal protein L4
超家族 Superfamily superfamily	c.22.1 — Ribosomal protein L4
家族 Family family	c.22.1.1 — Ribosomal protein L4

结构域编号 domain_id	d1xbpd1
类 Class class	d — Alpha and beta proteins (a+b)
折叠类型 Fold fold	d.77 — RL5-like
超家族 Superfamily superfamily	d.77.1 — RL5-like
家族 Family family	d.77.1.1 — Ribosomal protein L5

结构域编号 domain_id	d1xbpe1
类 Class class	d — Alpha and beta proteins (a+b)
折叠类型 Fold fold	d.141 — Ribosomal protein L6
超家族 Superfamily superfamily	d.141.1 — Ribosomal protein L6
家族 Family family	d.141.1.1 — Ribosomal protein L6

结构域编号 domain_id	d1xbpe2
类 Class class	d — Alpha and beta proteins (a+b)
折叠类型 Fold fold	d.141 — Ribosomal protein L6
超家族 Superfamily superfamily	d.141.1 — Ribosomal protein L6
家族 Family family	d.141.1.1 — Ribosomal protein L6

结构域编号 domain_id	d1xbpg1
类 Class class	a — All alpha proteins
折叠类型 Fold fold	a.4 — DNA/RNA-binding 3-helical bundle
超家族 Superfamily superfamily	a.4.7 — Ribosomal protein L11, C-terminal domain
家族 Family family	a.4.7.1 — Ribosomal protein L11, C-terminal domain

结构域编号 domain_id	d1xbpg2
类 Class class	d — Alpha and beta proteins (a+b)
折叠类型 Fold fold	d.47 — Ribosomal L11/L12e N-terminal domain
超家族 Superfamily superfamily	d.47.1 — Ribosomal L11/L12e N-terminal domain
家族 Family family	d.47.1.1 — Ribosomal L11/L12e N-terminal domain

结构域编号 domain_id	d1xbph1
类 Class class	c — Alpha and beta proteins (a/b)
折叠类型 Fold fold	c.21 — Ribosomal protein L13
超家族 Superfamily superfamily	c.21.1 — Ribosomal protein L13
家族 Family family	c.21.1.1 — Ribosomal protein L13

结构域编号 domain_id	d1xbpi1
类 Class class	b — All beta proteins
折叠类型 Fold fold	b.39 — Ribosomal protein L14
超家族 Superfamily superfamily	b.39.1 — Ribosomal protein L14
家族 Family family	b.39.1.1 — Ribosomal protein L14

结构域编号 domain_id	d1xbpj1
类 Class class	c — Alpha and beta proteins (a/b)
折叠类型 Fold fold	c.12 — Ribosomal proteins L15p and L18e
超家族 Superfamily superfamily	c.12.1 — Ribosomal proteins L15p and L18e
家族 Family family	c.12.1.1 — Ribosomal proteins L15p and L18e

结构域编号 domain_id	d1xbpl1
类 Class class	d — Alpha and beta proteins (a+b)
折叠类型 Fold fold	d.188 — Prokaryotic ribosomal protein L17
超家族 Superfamily superfamily	d.188.1 — Prokaryotic ribosomal protein L17
家族 Family family	d.188.1.1 — Prokaryotic ribosomal protein L17

结构域编号 domain_id	d1xbpm1
类 Class class	c — Alpha and beta proteins (a/b)
折叠类型 Fold fold	c.55 — Ribonuclease H-like motif
超家族 Superfamily superfamily	c.55.4 — Translational machinery components
家族 Family family	c.55.4.1 — Ribosomal protein L18 and S11

结构域编号 domain_id	d1xbpn1
类 Class class	b — All beta proteins
折叠类型 Fold fold	b.34 — SH3-like barrel
超家族 Superfamily superfamily	b.34.5 — Translation proteins SH3-like domain
家族 Family family	b.34.5.6 — Ribosomal protein L19

结构域编号 domain_id	d1xbpo1
类 Class class	a — All alpha proteins
折叠类型 Fold fold	a.144 — PABP domain-like
超家族 Superfamily superfamily	a.144.2 — Ribosomal protein L20
家族 Family family	a.144.2.1 — Ribosomal protein L20

结构域编号 domain_id	d1xbpp1
类 Class class	b — All beta proteins
折叠类型 Fold fold	b.155 — L21p-like
超家族 Superfamily superfamily	b.155.1 — L21p-like
家族 Family family	b.155.1.1 — Ribosomal protein L21p

结构域编号 domain_id	d1xbpq1
类 Class class	d — Alpha and beta proteins (a+b)
折叠类型 Fold fold	d.55 — Ribosomal protein L22
超家族 Superfamily superfamily	d.55.1 — Ribosomal protein L22
家族 Family family	d.55.1.1 — Ribosomal protein L22

结构域编号 domain_id	d1xbpr1
类 Class class	d — Alpha and beta proteins (a+b)
折叠类型 Fold fold	d.12 — Ribosomal proteins S24e, L23 and L15e
超家族 Superfamily superfamily	d.12.1 — Ribosomal proteins S24e, L23 and L15e
家族 Family family	d.12.1.1 — L23p

结构域编号 domain_id	d1xbps1
类 Class class	b — All beta proteins
折叠类型 Fold fold	b.34 — SH3-like barrel
超家族 Superfamily superfamily	b.34.5 — Translation proteins SH3-like domain
家族 Family family	b.34.5.1 — Ribosomal proteins L24p and L21e

结构域编号 domain_id	d1xbpt1
类 Class class	b — All beta proteins
折叠类型 Fold fold	b.53 — Ribosomal protein L25-like
超家族 Superfamily superfamily	b.53.1 — Ribosomal protein L25-like
家族 Family family	b.53.1.1 — Ribosomal protein L25-like

结构域编号 domain_id	d1xbpu1
类 Class class	b — All beta proteins
折叠类型 Fold fold	b.84 — Barrel-sandwich hybrid
超家族 Superfamily superfamily	b.84.4 — Ribosomal L27 protein-like
家族 Family family	b.84.4.1 — Ribosomal L27 protein

结构域编号 domain_id	d1xbpw1
类 Class class	a — All alpha proteins
折叠类型 Fold fold	a.2 — Long alpha-hairpin
超家族 Superfamily superfamily	a.2.2 — Ribosomal protein L29 (L29p)
家族 Family family	a.2.2.1 — Ribosomal protein L29 (L29p)

结构域编号 domain_id	d1xbpx1
类 Class class	d — Alpha and beta proteins (a+b)
折叠类型 Fold fold	d.59 — Ribosomal protein L30p/L7e
超家族 Superfamily superfamily	d.59.1 — Ribosomal protein L30p/L7e
家族 Family family	d.59.1.1 — Ribosomal protein L30p/L7e

结构域编号 domain_id	d1xbpz1
类 Class class	g — Small proteins
折叠类型 Fold fold	g.41 — Rubredoxin-like
超家族 Superfamily superfamily	g.41.8 — Zn-binding ribosomal proteins
家族 Family family	g.41.8.5 — Ribosomal protein L32p

▶

7. 引用文献 (1)

▶

晶胞边长 a length_a	168.700 Å
晶胞边长 b length_b	405.000 Å
晶胞边长 c length_c	693.000 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	8

空间群 space_group	I 2 2 2
空间群编号 int_tables_number	23
晶系 crystal_system	—

分辨率 resolution	3.500 Å
最低分辨率 resolution_low	15.000 Å
R 因子 r_factor	0.2900
R_work r_work	0.2900
R_free r_free	0.3600

fit	/app/data/saxs_computation/xb/1xbp/1xbp.fit
pddf	/app/data/pr_computation/xb/1xbp/1xbp.pr.out
profile	/app/data/saxs_computation/xb/1xbp/1xbp.dat

;Inhibition of peptide bond formation by pleuromutilins: The structure of the 50S ribosomal subunit from Deinococcus radiodurans in complex with Tiamulin ;

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

精修参数 Refinement

5. 实体与聚合体信息 (32)

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

Entity 16 polymer

聚合体 Polymer

Entity 17 polymer

聚合体 Polymer

Entity 18 polymer

聚合体 Polymer

Entity 19 polymer

聚合体 Polymer

Entity 20 polymer

聚合体 Polymer

Entity 21 polymer

聚合体 Polymer

Entity 22 polymer

聚合体 Polymer

Entity 23 polymer

聚合体 Polymer

Entity 24 polymer

聚合体 Polymer

Entity 25 polymer

聚合体 Polymer

Entity 26 polymer

聚合体 Polymer

Entity 27 polymer

聚合体 Polymer

Entity 28 polymer

聚合体 Polymer

Entity 29 polymer

聚合体 Polymer

Entity 30 polymer

聚合体 Polymer

Entity 31 polymer

聚合体 Polymer

Entity 32 non-polymer

6. 折叠分类 (SCOP + CATH) 29 domains

SCOP 2.08 (29 domains)

7. 引用文献 (1)

8. 文件与曲线 (10)

Files (7)

Curves (3)