7NKY

RNA Polymerase II-Spt4/5-nucleosome-FACT structure

Entity

Entity ID	Chain ID	Description	Type	Chain length	Formula weight	Number of molecules	DB Name (Accession)	Biological source	Descriptive keywords
1	A (P)	RNA (5'-R(P*UP*CP*UP*UP*UP*UP*AP*UP*UP*UP*UP*UP*UP*CP*UP*G)-3')	polymer	16	4913.8	1		synthetic RNA
2	B (N)	DNA (138-MER)	polymer	138	42792.2	1		synthetic construct
3	C (T)	DNA (148-MER)	polymer	148	45537.1	1		synthetic construct
4	D (A)	DNA-directed RNA polymerase II subunit RPB1	polymer	1733	191821.6	1	UniProt (P04050) Pfam (PF04997) Pfam (PF05001) Pfam (PF00623) Pfam (PF04983) Pfam (PF05000) Pfam (PF04998) Pfam (PF04992) Pfam (PF04990)	Saccharomyces cerevisiae (Baker's yeast)	RNA polymerase II subunit B1,DNA-directed RNA polymerase III largest subunit,RNA polymerase II subunit B220
5	E (B)	DNA-directed RNA polymerase II subunit RPB2	polymer	1224	138937.3	1	UniProt (P08518) Pfam (PF04563) Pfam (PF04561) Pfam (PF04565) Pfam (PF04566) Pfam (PF04567) Pfam (PF00562) Pfam (PF04560)	Saccharomyces cerevisiae (Baker's yeast)	RNA polymerase II subunit 2,B150,DNA-directed RNA polymerase II 140 kDa polypeptide
6	F (C)	DNA-directed RNA polymerase II subunit RPB3	polymer	318	35330.5	1	UniProt (P16370) Pfam (PF01193) Pfam (PF01000)	Saccharomyces cerevisiae (Baker's yeast)	RNA polymerase II subunit B3,B44.5,DNA-directed RNA polymerase II 45 kDa polypeptide
7	G (E)	DNA-directed RNA polymerases I, II, and III subunit RPABC1	polymer	215	25117.1	1	UniProt (P20434) Pfam (PF03871) Pfam (PF01191)	Saccharomyces cerevisiae (Baker's yeast)	RNA polymerases I,II,and III subunit ABC1,ABC27,DNA-directed RNA polymerases I,and III 27 kDa polypeptide
8	H (F)	DNA-directed RNA polymerases I, II, and III subunit RPABC2	polymer	155	17931.8	1	UniProt (P20435) Pfam (PF01192)	Saccharomyces cerevisiae (Baker's yeast)	RNA polymerases I,II,and III subunit ABC2,ABC23,DNA-directed RNA polymerases I,and III 23 kDa polypeptide
9	I (H)	DNA-directed RNA polymerases I, II, and III subunit RPABC3	polymer	146	16525.4	1	UniProt (P20436) Pfam (PF03870)	Saccharomyces cerevisiae (Baker's yeast)	RNA polymerases I,II,and III subunit ABC3,ABC14.4,ABC14.5,DNA-directed RNA polymerases I,and III 14.5 kDa polypeptide
10	J (I)	DNA-directed RNA polymerase II subunit RPB9	polymer	122	14308.2	1	UniProt (P27999) Pfam (PF02150) Pfam (PF01096)	Saccharomyces cerevisiae (Baker's yeast)	RNA polymerase II subunit B9,B12.6,DNA-directed RNA polymerase II 14.2 kDa polypeptide,DNA-directed RNA polymerase II subunit 9
11	K (J)	DNA-directed RNA polymerases I, II, and III subunit RPABC5	polymer	70	8290.7	1	UniProt (P22139) Pfam (PF01194)	Saccharomyces cerevisiae (Baker's yeast)	RNA polymerases I,II,and III subunit ABC5,ABC10-beta,ABC8,DNA-directed RNA polymerases I,and III 8.3 kDa polypeptide
12	L (K)	DNA-directed RNA polymerase II subunit RPB11	polymer	120	13633.5	1	UniProt (P38902) Pfam (PF13656)	Saccharomyces cerevisiae (Baker's yeast)	RNA polymerase II subunit B11,B13.6,DNA-directed RNA polymerase II 13.6 kDa polypeptide
13	M (L)	DNA-directed RNA polymerases I, II, and III subunit RPABC4	polymer	70	7730.0	1	UniProt (P40422) Pfam (PF03604)	Saccharomyces cerevisiae (Baker's yeast)	RNA polymerases I,II,and III subunit ABC4,ABC10-alpha
14	N (Y)	Chromatin elongation factor SPT4	polymer	102	11168.8	1	UniProt (A0A6A5PX04) Pfam (PF06093) UniProt (by SIFTS) (P32914)	Saccharomyces cerevisiae (Baker's yeast)	Transcription elongation factor SPT4
15	O (Z)	Transcription elongation factor SPT5	polymer	1064	115929.1	1	UniProt (A0A6L0ZFJ2) Pfam (PF11942) Pfam (PF03439) Pfam (PF00467) Pfam (PF12815) UniProt (by SIFTS) (P27692)	Saccharomyces cerevisiae (Baker's yeast)
16	P (D)	DNA-directed RNA polymerase II subunit RPB4	polymer	221	25451.2	1	UniProt (P20433) Pfam (PF03874)	Saccharomyces cerevisiae (Baker's yeast)	RNA polymerase II subunit B4,B32,DNA-directed RNA polymerase II 32 kDa polypeptide
17	Q (G)	DNA-directed RNA polymerase II subunit RPB7	polymer	171	19081.1	1	UniProt (P34087) Pfam (PF03876) Pfam (PF00575)	Saccharomyces cerevisiae (Baker's yeast)	RNA polymerase II subunit B7,B16
18	R (O)	FACT complex subunit POB3	polymer	552	63068.6	1	UniProt (A0A6A5PUM6) Pfam (PF17292) Pfam (PF03531) Pfam (PF21103) Pfam (PF08512) UniProt (by SIFTS) (Q04636)	Saccharomyces cerevisiae (Baker's yeast)
19	S (Q)	FACT complex subunit SPT16	polymer	1035	118777.0	1	UniProt (P32558) Pfam (PF14826) Pfam (PF00557) Pfam (PF08644) Pfam (PF08512) Pfam (PF21091)	Saccharomyces cerevisiae (strain ATCC 204508 / S288c) (Baker's yeast)	Cell division control protein 68,Facilitates chromatin transcription complex subunit SPT16,Suppressor of Ty protein 16
20	T, X (a, e)	Histone H3.2	polymer	136	15435.1	2	UniProt (P84233) Pfam (PF00125)	Xenopus laevis (African clawed frog)
21	U, Y (b, f)	Histone H4	polymer	103	11394.4	2	UniProt (P62799) Pfam (PF15511)	Xenopus laevis (African clawed frog)
22	V, Z (c, g)	Histone H2A type 1	polymer	130	14109.4	2	UniProt (P06897) Pfam (PF00125) Pfam (PF16211)	Xenopus laevis (African clawed frog)
23	AA, W (d, h)	Histone H2B 1.1	polymer	123	13655.9	2	UniProt (P02281) Pfam (PF00125)	Xenopus laevis (African clawed frog)	H2B1.1
24	BA, CA, EA, FA, GA... (A, B, C, I, J...)	ZINC ION	non-polymer		65.4	9	Chemie (ZN)
25	DA (A)	MAGNESIUM ION	non-polymer		24.3	1	Chemie (MG)

Sequence modifications

Z: 1 - 1063 (UniProt: A0A6L0ZFJ2)

PDB	External Database	Details
Phe 18	Val 18	conflict
Thr 98	Ser 98	conflict
Glu 176	Asp 176	conflict
Leu 376	Lys 376	conflict
Phe 1064	-	expression tag

a, e: 0 - 135 (UniProt: P84233)

PDB	External Database	Details
Ala 102	Gly 103	conflict

c, g: 0 - 129 (UniProt: P06897)

PDB	External Database	Details
Arg 99	Gly 100	conflict
Ser 123	Ala 124	conflict

d, h: 1 - 122 (UniProt: P02281)

PDB	External Database	Details
Met 0	-	initiating methionine
Thr 29	Ser 33	conflict

Contents of the asymmetric unit

Polymers	Number of chains	27
	Total formula weight	1025534.7
Non-Polymers*	Number of molecules	10
	Total formula weight	613.0
All*	Total formula weight	1026147.7

*Water molecules are not included.