Материалы к курсу «Трёхмерная структура биомолекул» в ЛНМО

10 – Molecular machines
ATP Synthase F0 subunit PDB ID: 1C17 \| info
ATP Synthase F1 subunit PDB ID: 1E79 \| info
26S Proteasome PDB ID: 4CR2 \| info
09 – Photosynthesis
Photosystem II Architecture of the oxygen-evolving center PDB ID: 1S5L \| info
Light-harvesting complex II Model description PDB ID: 2BHW \| info
Phycobiliprotein Model description PDB ID: 2BV8 \| info
Cytochrome b₆/f Model description PDB ID: 1UM3 \| info
Plastocyanin PDB ID: 2PCF \| info
Photosystem I Model description PDB ID: 1JB0 \| info
08 – Structural proteins
Actin PDB ID: 1ATN \| info
Actin and gelsolin complex PDB ID: 1YVN \| info
Actin and profilin complex PDB ID: 1HLU \| info
Actin in complex with myosin PDB ID: 1ALM \| info
Cadherin PDB ID: 1L3W \| info
Collagen PDB ID: 1BKV \| info
Бактериальный микрокомпартмент PDB ID: 2ZV5 \| info
GroES/GroEL shaperonine PDB ID: 1AON \| info
07 – Drug action
Estrogene receptor binded to tamoxifen Model of ligand binding domain of estradiol receptor, binded to drug tamoxifen PDB ID: 3ERT \| info
Serotonin receptor binded to ergotamine Model of ligand binding domain of serotonin receptor, binded to drug ergotamine PDB ID: 4IAR \| info
MDR-transporter PDB ID: 2ONJ \| info
06 – Hormone reception
Adrenergic receptor Model of adrenergic receptor chimeric molecule with lysozyme PDB ID: 2RH1 \| info
Rhodopsin Модель фоторецептора родопсина PDB ID: 1F88 \| info
TIR1 – Nuclear auxin receptor PDB ID: 2P1Q \| info
Estrogene receptor (ligand-binding domain) Model of ligand binding domain of estradiol receptor PDB ID: 1A52 \| info
Estrogene receptor (DNA-binding domain) Model of DNA-binding domain of estradiol receptor PDB ID: 1HCQ \| info
BRI1 – Brassinosteroid receptor BRI1 plant steroid receptor ectodomain in complex with brassinolide PDB ID: 3RJ0 \| info
05 – Biological signaling
Acetylcholine receptor Acetylcholine receptor from Torpedo marmorata PDB ID: 2BG9 \| info
Acetylcholine binding protein Acetylcholine binding protein from Lymnaea stagnalis PDB ID: 1UV6 \| info
Acetylcholine binding protein in complex with α-cobratoxin Acetylcholine binding protein in complex with α-cobratoxin PDB ID: 1YI5 \| info
Insulin Insulin from wild boar Sus scrofa PDB ID: 4INS \| info
Insulin receptor PDB ID: 2DTG \| info
Insulin receptor domain in complex with insulin PDB ID: 3W14 \| info
Insulin receptor transmembrane domain PDB ID: 2MFR \| info
Insulin receptor tyrosine kinase domain Human insulin receptor tyrosine kinase domain PDB ID: 1IRK \| info
Insulin receptor tyrosine kinase domain Human insulin receptor tyrosine kinase domain in complex with peptide substrate and ATP analog PDB ID: 1IR3 \| info
G-Protein G-Protein from Rattus norvegicus PDB ID: 1GG2 \| info
Calmodulin PDB ID: 1CLL \| info
Calmodulin in complex with CDPK PDB ID: 1CM1 \| info
04 – Biological membranes and transport proteins II
Cholesterol PDB ID: \| info
Lipid micelle PDB ID: \| info
Crystalline structure lipid bilayer 1-palmitoyl-2-oleoyl-sn-glycero-3-phosphatidylcholine PDB ID: \| info
Gel structure lipid bilayer 1-palmitoyl-2-oleoyl-sn-glycero-3-phosphatidylcholine PDB ID: \| info
Fluid structure lipid bilayer 1-palmitoyl-2-oleoyl-sn-glycero-3-phosphatidylcholine PDB ID: \| info
Bacteriorhodopsin embedded into lipid bilayer 1-palmitoyl-2-oleoyl-sn-glycero-3-phosphatidylcholine PDB ID: \| info
FepA membrane protein Iron uptake transmembrane protein FepA from Escherichia coli PDB ID: 1FEP \| info
FauA membrane receptor for siderophore Siderophore receptor FauA from Bordetella pertussis PDB ID: 3EFM \| info
Maltoporin Maltoporin LamB from Escherichia coli PDB ID: 1MAL \| info
α-Hemolysin α-Hemolysin from Staphylococcus aureus PDB ID: 7AHL \| info
Calcium ATPase Calcium ATPase with bound Ca²⁺ ions PDB ID: 1SU4 \| info
Aquaporin Aquaporin Z from Escherichia coli PDB ID: 2ABM \| info
Sodium-potassium channel Sodium-potassium channel PDB ID: 2ZXE \| info
03 – Storage and transport proteins I
Myoglobin (X-Ray) Heme structure and its bounding with O₂ and apoprotein of myoglobin PDB ID: 1A6M \| info
Hemoglobin PDB ID: 1HHO \| info
Erythrocruorin PDB ID: 2GTL \| info
Ferritin PDB ID: 3IS7 \| info
Transferrin PDB ID: 1H76 \| info
Siderophore PDB ID: 4K19 \| info
Lipid storage protein lipovitellin PDB ID: 1LSH \| info
02 – Nucleic acids
Cytidine Structure of cytidine nucleoside PDB ID: \| info
Hydrogen bonds in B-form of DNA Hydrogen bonds in B-form of DNA PDB ID: \| info
A-form of DNA PDB ID: \| info
B-form of DNA PDB ID: 1BNA \| info
Z-form of DNA PDB ID: 3ZNA \| info
H-form of DNA DNA triple helix PDB ID: 1BCE \| info
DNA quadruplex structure Four DNA helices PDB ID: 1QDG \| info
RNA hairpin APOB mRNA hairpin PDB ID: 1YLG \| info
TT dimer Thymine dimer in DNA b-form PDB ID: 1TTD \| info
TT dimer reparation by photolyase Thymine dimer reparation PDB ID: 1TEZ \| info
tRNA PDB ID: 1TRA \| info
TATA-box binding protein PDB ID: 1TGH \| info
Enhanceosome component PDB ID: 1T2K \| info
Homeodomain in complex with DNA PDB ID: 1B8I \| info
Leucine zipper protein in complex with DNA PDB ID: 1NWQ \| info
bHLH-motif domain in complex with DNA PDB ID: 1A0A \| info
Zinc-finger TATA-motif in complex with DNA PDB ID: 1G2D \| info
EcoRI-DNA post-reactive complex PDB ID: 1QPS \| info
01 – Introduction
2 nucleosomes of Xenopus laevis Между нуклеосомами находится линкерная ДНК, связанная с гистоном H1, который на модели не показан. Длина межнуклеосомной ДНК составляет 57 пар оснований (обычно 50±10). Гистоны первой нуклеосомы окрашены как на предыдущей модели, на гистонах второй нуклеосомы показаны особенности структуры - α-спирали показаны пурпурным, β-слои - светло-жёлтым. PDB ID: 1ZBB \| info
Nucleosome of Xenopus laevis Кор гистоновых белков 2x(H2a, H2b, H3, H4) представлен в виде α-спиралей. Гистон H2a показан жёлтым, H2b - красным, H3 - голубым, H4 - зелёным. Сахарофосфатный остов ДНК окрашен светло-жёлтым и розовым, как на предыдущих моделях. Негативная суперспирализованная ДНК длиной 145 нуклеотидных пар делает 1.65 оборота левой спирали. PDB ID: 1AOI \| info
Synthetic protein Synthetic protein 1VYE used to validate structure prediciton algorithms by X-Ray crystallography PDB ID: 1VYE \| info
α-helix / ferritin-like protein α-helices only: bacterioferritin from Escherichia coli PDB ID: 1BCF \| info
Гомеодомен-подобный белок Гомеодомен engrailed из Drosophila melanogaster PDB ID: 1ENH \| info
Immunoglobulin-like β-sandwich PDB ID: 1CD8 \| info
Four-bladed β-propeller PDB ID: 1PEX \| info
Single-stranded left-handed β helix UDP-N-acetylglucosamine acyltransferase from Escherichia coli PDB ID: 1LXA \| info
β-prism II α-D-mannose specific lectin from snowdrop (Galanthus nivalis) PDB ID: 1JPC \| info
α/β structure ATP-dependent phosphofructokinase from Escherichia coli PDB ID: 1PFK \| info
α+β structure Pilin from Neisseria gonorrhoeae PDB ID: 2PIL \| info
α+β structure, GFP-like Green fluorescent protein from jellyfish Aequorea victoria PDB ID: 1EMA \| info

#	Name	ID	URL	Short URL
	Introduction to methods of resolving the biomolecule structure
1	Synthetic protein	1vye	open
2	Synthetic protein	1rik	open
3	Myoglobin (X-Ray)	1a6m	open
4	Myoglobin (NMR)	1myf	open
	Electron-transfer reactions in mitochondria
5	Respiratory complex I	4hea	open
6	Respiratory complex II	1nek	open
7	Respiratory complex III	1bgy	open
8	Respiratory complex IV	1qle	open
9	Cytochrome c	3cyt	open
10	Procaryotic ribosome large subunit	1ffk	open
	Molecular Structure of Plant Photosystems
11	Photosystem II	1s5l	open	goo.gl/mIjPy
12	Light-harvesting complex II	2bhw	open	goo.gl/s2f5d
13	Phycobiliprotein	2bv8	open	goo.gl/YgmsM
14	Cytochrome b₆/f	1um3	open	goo.gl/b3krl
15	Plastocyanin	2pcf	open	goo.gl/91PTW
16	Photosystem I	1jb0	open	goo.gl/YWXf2
17	Ferredoxin	1a70	open	goo.gl/ucHTe
18	ATP Synthase F0 subunit	1c17	open
19	ATP Synthase F1 subunit	1e79	open
20	Bacterial photosystem of the purple bacteria	1prc	open	goo.gl/KJd2Y
21	Ferredoxin	1a70	open	goo.gl/ucHTe
22	Photosystem II	1s5l	open	goo.gl/mIjPy
	Structure of Plant Receptor Molecules
23	Phytochrome B	1jnu	open	goo.gl/LbiVm
24	Cryptochrome	1u3d	open	goo.gl/hEQgU
25	TIR1 – Nuclear auxin receptor	2p1q	open	goo.gl/V3a3b
26	ABP1 – Cytoplasmic auxin receptor	1lrh	open	goo.gl/z3l4A
27	AHK4 – Cytokinin receptor	3t4l	open	goo.gl/PK1Mf
28	GID1 – Gibberellin receptor	2zsh	open	goo.gl/sUwqA
29	BRI1 – Brassinosteroid receptor	3rj0	open	goo.gl/vERQ6
30	Jasmonate receptor	3ogl	open	goo.gl/E3MoT
31	PYR1 – Abscisic acid receptor	3k90	open	goo.gl/7ApA6
32	Calmodulin	1cll	open	goo.gl/9ObY4
33	Calmodulin in complex with CDPK	1cm1	open
34	Homeodomain in complex with DNA	1b8i	open	goo.gl/Qlhwu
35	Leucine zipper protein in complex with DNA	1nwq	open	goo.gl/jgA28
36	bHLH-motif domain in complex with DNA	1a0a	open	goo.gl/ZlFLV
37	Zinc-finger TATA-motif in complex with DNA	1g2d	open	goo.gl/5G0G8
	Структура нуклеиновых кислот
38	A-form of DNA	molbio_dnaaform	open
39	B-form of DNA	molbio_dnabform	open
40	Z-form of DNA	molbio_dnazform	open
41	Hydrogen bonds in B-form of DNA	molbio_dnahbonds	open
42	H-form of DNA	molbio_dnahform	open
43	Переход B-формы ДНК в ДНК Z-формы	molbio_dnaz2b	open
44	Topoisomerase I	molbio_top1	open
45	Topoisomerase IIa	molbio_top2	open
46	Topoisomerase IV	molbio_gyrase	open
47	Gyrase B	molbio_gyraseb	open
48	EcoRI	molbio_ecori	open
49	Cas9	molbio_cas9	open
	Организация бактериальных и эукариотических геномов
	Молекулярные механизмы копирования полинуклеотидов
	Процессинг первичных РНК-транскриптов
	Трансляция - рибосомальный синтез белка
50	Aminoacyl-tRNA synthetase type I	1qrs	open
51	Aminoacyl-tRNA synthetase type II	1asz	open
52	Structure of the 30S procaryotic ribosomal subunit	1j5e	open
53	Structure of the 50S procaryotic ribosomal subunit	1q7y	open
54	Structure of the 50S procaryotic ribosomal subunit	1jgo	open
55	Распознавание последовательности SD в 70S рибосоме	4v4j	open
56	Распознавание последовательности SD в 70S рибосоме	4v5g	open
57	Факторы инициации IF-1, IF-2 и тРНК	1zo1	open
58	Комплекс EF-Tu с тРНК и ГТФ	1b23	open
59	Фактор терминации RF-1	1zbt	open
60	Фактор терминации RF-2	1gqe	open
61	Фактор терминации RRF	1ek8	open
62	Шаперонин GroEL/GroES	1aon	open
	01 – Introduction
63	2 nucleosomes of Xenopus laevis	lnmo_1zbb	open
64	Nucleosome of Xenopus laevis	lnmo_1aoi	open
65	Synthetic protein	lnmo_1vye	open
66	α-helix / ferritin-like protein	lnmo_1bcf	open
67	Гомеодомен-подобный белок	lnmo_1enh	open
68	Immunoglobulin-like β-sandwich	lnmo_1cd8	open
69	Four-bladed β-propeller	lnmo_1pex	open
70	Single-stranded left-handed β helix	lnmo_1lxa	open
71	β-prism II	lnmo_1jpc	open
72	α/β structure	lnmo_1pfk	open
73	α+β structure	lnmo_2pil	open
74	α+β structure, GFP-like	lnmo_1ema	open
	02 – Nucleic acids
75	Cytidine	lnmo_cytidine	open
76	Hydrogen bonds in B-form of DNA	lnmo_dnahbonds	open
77	A-form of DNA	lnmo_dnaaform	open
78	B-form of DNA	lnmo_dnabform	open
79	Z-form of DNA	lnmo_dnazform	open
80	H-form of DNA	lnmo_dnahform	open
81	DNA quadruplex structure	lnmo_dnaqform	open
82	RNA hairpin	lnmo_1ylg	open
83	TT dimer	lnmo_1ttd	open
84	TT dimer reparation by photolyase	lnmo_1tez	open
85	tRNA	lnmo_1tra	open
86	TATA-box binding protein	lnmo_1tgh	open
87	Enhanceosome component	lnmo_1t2k	open
88	Homeodomain in complex with DNA	lnmo_1b8i	open	goo.gl/Qlhwu
89	Leucine zipper protein in complex with DNA	lnmo_1nwq	open	goo.gl/jgA28
90	bHLH-motif domain in complex with DNA	lnmo_1a0a	open	goo.gl/ZlFLV
91	Zinc-finger TATA-motif in complex with DNA	lnmo_1g2d	open
92	EcoRI-DNA post-reactive complex	lnmo_1qps	open
	03 – Storage and transport proteins I
93	Myoglobin (X-Ray)	lnmo_1a6m	open
94	Hemoglobin	lnmo_1hho	open
95	Erythrocruorin	lnmo_2gtl	open
96	Ferritin	lnmo_3is7	open
97	Transferrin	lnmo_1h76	open
98	Siderophore	lnmo_4k19	open
99	Lipid storage protein lipovitellin	lnmo_1lsh	open
	04 – Biological membranes and transport proteins II
100	Cholesterol	lnmo_cholesterol	open
101	Lipid micelle	lnmo_m65	open
102	Crystalline structure lipid bilayer	lnmo_popc-crystal	open
103	Gel structure lipid bilayer	lnmo_popc-gel	open
104	Fluid structure lipid bilayer	lnmo_popc-fluid	open
105	Bacteriorhodopsin embedded into lipid bilayer	lnmo_popc-br	open
106	FepA membrane protein	lnmo_1fep	open
107	FauA membrane receptor for siderophore	lnmo_3efm	open
108	Maltoporin	lnmo_1mal	open
109	α-Hemolysin	lnmo_7ahl	open
110	Calcium ATPase	lnmo_1su4	open
111	Aquaporin	lnmo_2abm	open
112	Sodium-potassium channel	lnmo_2zxe	open
	05 – Biological signaling
113	Acetylcholine receptor	lnmo_2bg9	open
114	Acetylcholine binding protein	lnmo_1uv6	open
115	Acetylcholine binding protein in complex with α-cobratoxin	lnmo_1yi5	open
116	Insulin	lnmo_4ins	open
117	Insulin receptor	lnmo_2dtg	open
118	Insulin receptor domain in complex with insulin	lnmo_3w14	open
119	Insulin receptor transmembrane domain	lnmo_2mfr	open
120	Insulin receptor tyrosine kinase domain	lnmo_1irk	open
121	Insulin receptor tyrosine kinase domain	lnmo_1ir3	open
122	G-Protein	lnmo_1gg2	open
123	Calmodulin	lnmo_1cll	open
124	Calmodulin in complex with CDPK	lnmo_1cm1	open
	06 – Hormone reception
125	Adrenergic receptor	lnmo_2rh1	open
126	Rhodopsin	lnmo_1f88	open
127	TIR1 – Nuclear auxin receptor	lnmo_2p1q	open	goo.gl/V3a3b
128	Estrogene receptor (ligand-binding domain)	lnmo_1a52	open
129	Estrogene receptor (DNA-binding domain)	lnmo_1hcq	open
130	BRI1 – Brassinosteroid receptor	lnmo_3rj0	open	goo.gl/vERQ6
	07 – Drug action
131	Estrogene receptor binded to tamoxifen	lnmo_3ert	open
132	Serotonin receptor binded to ergotamine	lnmo_4iar	open
133	MDR-transporter	lnmo_2onj	open
	08 – Structural proteins
134	Actin	lnmo_1atn	open
135	Actin and gelsolin complex	lnmo_1yvn	open
136	Actin and profilin complex	lnmo_1hlu	open
137	Actin in complex with myosin	lnmo_1alm	open
138	Cadherin	lnmo_1l3w	open
139	Collagen	lnmo_1bkv	open
140	Бактериальный микрокомпартмент	lnmo_2zv5	open
141	GroES/GroEL shaperonine	lnmo_1aon	open
	09 – Photosynthesis
142	Photosystem II	lnmo_1s5l	open	goo.gl/mIjPy
143	Light-harvesting complex II	lnmo_2bhw	open	goo.gl/s2f5d
144	Phycobiliprotein	lnmo_2bv8	open	goo.gl/YgmsM
145	Cytochrome b₆/f	lnmo_1um3	open	goo.gl/b3krl
146	Plastocyanin	lnmo_2pcf	open	goo.gl/91PTW
147	Photosystem I	lnmo_1jb0	open	goo.gl/YWXf2
	10 – Molecular machines
148	ATP Synthase F0 subunit	lnmo_1c17	open
149	ATP Synthase F1 subunit	lnmo_1e79	open
150	26S Proteasome	lnmo_4cr2	open

10 – Molecular machines
ATP Synthase F0 subunit PDB ID: 1C17 \| info
ATP Synthase F1 subunit PDB ID: 1E79 \| info
26S Proteasome PDB ID: 4CR2 \| info
09 – Photosynthesis
Photosystem II Architecture of the oxygen-evolving center PDB ID: 1S5L \| info
Light-harvesting complex II Model description PDB ID: 2BHW \| info
Phycobiliprotein Model description PDB ID: 2BV8 \| info
Cytochrome b₆/f Model description PDB ID: 1UM3 \| info
Plastocyanin PDB ID: 2PCF \| info
Photosystem I Model description PDB ID: 1JB0 \| info
08 – Structural proteins
Actin PDB ID: 1ATN \| info
Actin and gelsolin complex PDB ID: 1YVN \| info
Actin and profilin complex PDB ID: 1HLU \| info
Actin in complex with myosin PDB ID: 1ALM \| info
Cadherin PDB ID: 1L3W \| info
Collagen PDB ID: 1BKV \| info
Бактериальный микрокомпартмент PDB ID: 2ZV5 \| info
GroES/GroEL shaperonine PDB ID: 1AON \| info
07 – Drug action
Estrogene receptor binded to tamoxifen Model of ligand binding domain of estradiol receptor, binded to drug tamoxifen PDB ID: 3ERT \| info
Serotonin receptor binded to ergotamine Model of ligand binding domain of serotonin receptor, binded to drug ergotamine PDB ID: 4IAR \| info
MDR-transporter PDB ID: 2ONJ \| info
06 – Hormone reception
Adrenergic receptor Model of adrenergic receptor chimeric molecule with lysozyme PDB ID: 2RH1 \| info
Rhodopsin Модель фоторецептора родопсина PDB ID: 1F88 \| info
TIR1 – Nuclear auxin receptor PDB ID: 2P1Q \| info
Estrogene receptor (ligand-binding domain) Model of ligand binding domain of estradiol receptor PDB ID: 1A52 \| info
Estrogene receptor (DNA-binding domain) Model of DNA-binding domain of estradiol receptor PDB ID: 1HCQ \| info
BRI1 – Brassinosteroid receptor BRI1 plant steroid receptor ectodomain in complex with brassinolide PDB ID: 3RJ0 \| info
05 – Biological signaling
Acetylcholine receptor Acetylcholine receptor from Torpedo marmorata PDB ID: 2BG9 \| info
Acetylcholine binding protein Acetylcholine binding protein from Lymnaea stagnalis PDB ID: 1UV6 \| info
Acetylcholine binding protein in complex with α-cobratoxin Acetylcholine binding protein in complex with α-cobratoxin PDB ID: 1YI5 \| info
Insulin Insulin from wild boar Sus scrofa PDB ID: 4INS \| info
Insulin receptor PDB ID: 2DTG \| info
Insulin receptor domain in complex with insulin PDB ID: 3W14 \| info
Insulin receptor transmembrane domain PDB ID: 2MFR \| info
Insulin receptor tyrosine kinase domain Human insulin receptor tyrosine kinase domain PDB ID: 1IRK \| info
Insulin receptor tyrosine kinase domain Human insulin receptor tyrosine kinase domain in complex with peptide substrate and ATP analog PDB ID: 1IR3 \| info
G-Protein G-Protein from Rattus norvegicus PDB ID: 1GG2 \| info
Calmodulin PDB ID: 1CLL \| info
Calmodulin in complex with CDPK PDB ID: 1CM1 \| info
04 – Biological membranes and transport proteins II
Cholesterol PDB ID: \| info
Lipid micelle PDB ID: \| info
Crystalline structure lipid bilayer 1-palmitoyl-2-oleoyl-sn-glycero-3-phosphatidylcholine PDB ID: \| info
Gel structure lipid bilayer 1-palmitoyl-2-oleoyl-sn-glycero-3-phosphatidylcholine PDB ID: \| info
Fluid structure lipid bilayer 1-palmitoyl-2-oleoyl-sn-glycero-3-phosphatidylcholine PDB ID: \| info
Bacteriorhodopsin embedded into lipid bilayer 1-palmitoyl-2-oleoyl-sn-glycero-3-phosphatidylcholine PDB ID: \| info
FepA membrane protein Iron uptake transmembrane protein FepA from Escherichia coli PDB ID: 1FEP \| info
FauA membrane receptor for siderophore Siderophore receptor FauA from Bordetella pertussis PDB ID: 3EFM \| info
Maltoporin Maltoporin LamB from Escherichia coli PDB ID: 1MAL \| info
α-Hemolysin α-Hemolysin from Staphylococcus aureus PDB ID: 7AHL \| info
Calcium ATPase Calcium ATPase with bound Ca²⁺ ions PDB ID: 1SU4 \| info
Aquaporin Aquaporin Z from Escherichia coli PDB ID: 2ABM \| info
Sodium-potassium channel Sodium-potassium channel PDB ID: 2ZXE \| info
03 – Storage and transport proteins I
Myoglobin (X-Ray) Heme structure and its bounding with O₂ and apoprotein of myoglobin PDB ID: 1A6M \| info
Hemoglobin PDB ID: 1HHO \| info
Erythrocruorin PDB ID: 2GTL \| info
Ferritin PDB ID: 3IS7 \| info
Transferrin PDB ID: 1H76 \| info
Siderophore PDB ID: 4K19 \| info
Lipid storage protein lipovitellin PDB ID: 1LSH \| info
02 – Nucleic acids
Cytidine Structure of cytidine nucleoside PDB ID: \| info
Hydrogen bonds in B-form of DNA Hydrogen bonds in B-form of DNA PDB ID: \| info
A-form of DNA PDB ID: \| info
B-form of DNA PDB ID: 1BNA \| info
Z-form of DNA PDB ID: 3ZNA \| info
H-form of DNA DNA triple helix PDB ID: 1BCE \| info
DNA quadruplex structure Four DNA helices PDB ID: 1QDG \| info
RNA hairpin APOB mRNA hairpin PDB ID: 1YLG \| info
TT dimer Thymine dimer in DNA b-form PDB ID: 1TTD \| info
TT dimer reparation by photolyase Thymine dimer reparation PDB ID: 1TEZ \| info
tRNA PDB ID: 1TRA \| info
TATA-box binding protein PDB ID: 1TGH \| info
Enhanceosome component PDB ID: 1T2K \| info
Homeodomain in complex with DNA PDB ID: 1B8I \| info
Leucine zipper protein in complex with DNA PDB ID: 1NWQ \| info
bHLH-motif domain in complex with DNA PDB ID: 1A0A \| info
Zinc-finger TATA-motif in complex with DNA PDB ID: 1G2D \| info
EcoRI-DNA post-reactive complex PDB ID: 1QPS \| info
01 – Introduction
2 nucleosomes of Xenopus laevis Между нуклеосомами находится линкерная ДНК, связанная с гистоном H1, который на модели не показан. Длина межнуклеосомной ДНК составляет 57 пар оснований (обычно 50±10). Гистоны первой нуклеосомы окрашены как на предыдущей модели, на гистонах второй нуклеосомы показаны особенности структуры - α-спирали показаны пурпурным, β-слои - светло-жёлтым. PDB ID: 1ZBB \| info
Nucleosome of Xenopus laevis Кор гистоновых белков 2x(H2a, H2b, H3, H4) представлен в виде α-спиралей. Гистон H2a показан жёлтым, H2b - красным, H3 - голубым, H4 - зелёным. Сахарофосфатный остов ДНК окрашен светло-жёлтым и розовым, как на предыдущих моделях. Негативная суперспирализованная ДНК длиной 145 нуклеотидных пар делает 1.65 оборота левой спирали. PDB ID: 1AOI \| info
Synthetic protein Synthetic protein 1VYE used to validate structure prediciton algorithms by X-Ray crystallography PDB ID: 1VYE \| info
α-helix / ferritin-like protein α-helices only: bacterioferritin from Escherichia coli PDB ID: 1BCF \| info
Гомеодомен-подобный белок Гомеодомен engrailed из Drosophila melanogaster PDB ID: 1ENH \| info
Immunoglobulin-like β-sandwich PDB ID: 1CD8 \| info
Four-bladed β-propeller PDB ID: 1PEX \| info
Single-stranded left-handed β helix UDP-N-acetylglucosamine acyltransferase from Escherichia coli PDB ID: 1LXA \| info
β-prism II α-D-mannose specific lectin from snowdrop (Galanthus nivalis) PDB ID: 1JPC \| info
α/β structure ATP-dependent phosphofructokinase from Escherichia coli PDB ID: 1PFK \| info
α+β structure Pilin from Neisseria gonorrhoeae PDB ID: 2PIL \| info
α+β structure, GFP-like Green fluorescent protein from jellyfish Aequorea victoria PDB ID: 1EMA \| info