9Y3D

Extended cryo-EM structure of the human SRCAP-nucleosome complex in the fully-engaged state, with H4-bound GAS41

This is a non-PDB format compatible entry.

Entity

Entity ID	Chain ID	Description	Type	Chain length	Formula weight	Number of molecules	DB Name (Accession)	Biological source	Descriptive keywords
1	A (A)	Helicase SRCAP	polymer	3230	343915.3	1	UniProt (Q6ZRS2)	Homo sapiens (human)	Domino homolog 2,Snf2-related CBP activator
2	B (B)	Vacuolar protein sorting-associated protein 72 homolog	polymer	364	40658.4	1	UniProt (Q15906)	Homo sapiens (human)	Protein YL-1,Transcription factor-like 1
3	C (C)	Actin-related protein 6	polymer	396	45857.9	1	UniProt (Q9GZN1)	Homo sapiens (human)	hArp6,hARPX
4	D (D)	Zinc finger HIT domain-containing protein 1	polymer	154	17567.0	1	UniProt (O43257)	Homo sapiens (human)	Cyclin-G1-binding protein 1,Zinc finger protein subfamily 4A member 1,p18 Hamlet
5	E, G, I (E, G, I)	RuvB-like 1	polymer	456	50296.9	3	UniProt (Q9Y265)	Homo sapiens (human)	49 kDa TATA box-binding protein-interacting protein,49 kDa TBP-interacting protein,54 kDa erythrocyte cytosolic protein,ECP-54,INO80 complex subunit H,Nuclear matrix protein 238,NMP 238,Pontin 52,TIP49a,TIP60-associated protein 54-alpha,TAP54-alpha
6	F, H, J (F, H, J)	RuvB-like 2	polymer	463	51222.5	3	UniProt (Q9Y230)	Homo sapiens (human)	48 kDa TATA box-binding protein-interacting protein,48 kDa TBP-interacting protein,51 kDa erythrocyte cytosolic protein,ECP-51,INO80 complex subunit J,Repressing pontin 52,Reptin 52,TIP49b,TIP60-associated protein 54-beta,TAP54-beta
7	K, M (K, M)	Actin-like protein 6A	polymer	429	47509.8	2	UniProt (O96019)	Homo sapiens (human)	53 kDa BRG1-associated factor A,Actin-related protein Baf53a,ArpNbeta,BRG1-associated factor 53A,BAF53A,INO80 complex subunit K
8	L (L)	Actin, cytoplasmic 1	polymer	375	41782.7	1	UniProt (P60709)	Homo sapiens (human)	Beta-actin
9	N (N)	DNA methyltransferase 1-associated protein 1	polymer	467	53090.7	1	UniProt (Q9NPF5)	Homo sapiens (human)	DNMAP1,DNMT1-associated protein 1
10	O (O)	YEATS domain-containing protein 4	polymer	227	26541.5	1	UniProt (O95619)	Homo sapiens (human)	Glioma-amplified sequence 41,Gas41,NuMA-binding protein 1,NuBI-1,NuBI1
11	P, R (Q, S)	Histone H2A type 1	polymer	128	13907.2	2	UniProt (P06897)	Xenopus laevis (African clawed frog)
12	Q, S (R, T)	Histone H2B 1.1	polymer	125	13848.1	2	UniProt (P02281)	Xenopus laevis (African clawed frog)	H2B1.1
13	T, V (U, W)	Histone H3.2	polymer	135	15303.9	2	UniProt (P84233)	Xenopus laevis (African clawed frog)	Histone H3
14	U, W (V, X)	Histone H4	polymer	102	11263.2	2	UniProt (P62799)	Xenopus laevis (African clawed frog)
15	X (Y)	DNA (285-MER)	polymer	285	87851.7	1		synthetic construct
16	Y (Z)	DNA (285-MER)	polymer	285	88190.9	1		synthetic construct
17	BA, OA, Z (C, K, A)	PHOSPHOTHIOPHOSPHORIC ACID-ADENYLATE ESTER	non-polymer		523.2	3	Chemie (AGS)
18	AA, CA, HA, KA, NA... (A, C, F, H, J...)	MAGNESIUM ION	non-polymer		24.3	6	Chemie (MG) PubChem (888)
19	DA, EA (D)	ZINC ION	non-polymer		65.4	2	Chemie (ZN) PubChem (32051)
20	FA, GA, IA, JA, LA... (E, F, G, H, I...)	ADENOSINE-5'-DIPHOSPHATE	non-polymer		427.2	6	Chemie (ADP)

Sequence modifications

Q, S: 1 - 122 (UniProt: P06897)

PDB	External Database	Details
Arg 99	Gly 100	conflict
Ser 123	-	expression tag
Lys 124	-	expression tag
Ser 125	-	expression tag
Lys 126	-	expression tag
Ser 127	-	expression tag
Lys 128	-	expression tag

R, T: 1 - 125 (UniProt: P02281)

PDB	External Database	Details
Thr 32	Ser 33	conflict

U, W: 1 - 135 (UniProt: P84233)

PDB	External Database	Details
Ala 102	Gly 103	variant

Contents of the asymmetric unit

Polymers	Number of chains	25
	Total formula weight	1253678.6
Non-Polymers*	Number of molecules	17
	Total formula weight	4409.6
All*	Total formula weight	1258088.2

*Water molecules are not included.