6J51

RNA polymerase II elongation complex bound with Spt4/5 and foreign DNA, stalled at SHL(-1) of the nucleosome, weak Elf1 (+1 position)

Entity

Entity ID	Chain ID	Description	Type	Chain length	Formula weight	Number of molecules	DB Name (Accession)	Biological source	Descriptive keywords
1	A (A)	DNA-directed RNA polymerase subunit	polymer	1743	194107.4	1	UniProt (C4R4Y0) Pfam (PF04997) Pfam (PF05001) Pfam (PF00623) Pfam (PF04983) Pfam (PF05000) Pfam (PF04998) Pfam (PF04992) Pfam (PF04990)	Komagataella phaffii (strain GS115 / ATCC 20864) (Yeast)
2	B (B)	DNA-directed RNA polymerase subunit beta	polymer	1227	139746.1	1	UniProt (C4QZQ7) Pfam (PF04563) Pfam (PF04561) Pfam (PF04565) Pfam (PF04566) Pfam (PF04567) Pfam (PF00562) Pfam (PF04560)	Komagataella phaffii (strain GS115 / ATCC 20864) (Yeast)
3	C (C)	RNA polymerase II third largest subunit B44, part of central core	polymer	304	34216.3	1	UniProt (C4R7L2) Pfam (PF01193) Pfam (PF01000)	Komagataella phaffii (strain GS115 / ATCC 20864) (Yeast)
4	D (D)	RNA polymerase II subunit B32	polymer	186	20623.0	1	UniProt (C4R2U9) Pfam (PF03874)	Komagataella phaffii (strain GS115 / ATCC 20864) (Yeast)
5	E (E)	RNA polymerase subunit ABC27, common to RNA polymerases I, II, and III	polymer	214	24962.7	1	UniProt (C4R3P8) Pfam (PF03871) Pfam (PF01191)	Komagataella phaffii (strain GS115 / ATCC 20864) (Yeast)
6	F (F)	RNA polymerase subunit ABC23, common to RNA polymerases I, II, and III	polymer	155	17803.6	1	UniProt (C4R1V1) Pfam (PF01192)	Komagataella phaffii (strain GS115 / ATCC 20864) (Yeast)
7	G (G)	RNA polymerase II subunit	polymer	171	18802.6	1	UniProt (C4R9A1) Pfam (PF03876) Pfam (PF00575)	Komagataella phaffii (strain GS115 / ATCC 20864) (Yeast)
8	H (H)	DNA-directed RNA polymerases I, II, and III subunit RPABC3	polymer	145	16249.2	1	UniProt (C4R273) Pfam (PF03870)	Komagataella phaffii (strain GS115 / ATCC 20864) (Yeast)
9	I (I)	DNA-directed RNA polymerase subunit	polymer	115	13612.3	1	UniProt (F2QPE6) Pfam (PF02150) Pfam (PF01096)	Komagataella phaffii (strain ATCC 76273 / CBS 7435 / CECT 11047 / NRRL Y-11430 / Wegner 21-1) (Yeast)
10	J (J)	RNA polymerase subunit ABC10-beta, common to RNA polymerases I, II, and III	polymer	72	8554.1	1	UniProt (C4R009) Pfam (PF01194)	Komagataella phaffii (strain GS115 / ATCC 20864) (Yeast)
11	K (K)	RNA polymerase II subunit B12.5	polymer	118	13832.9	1	UniProt (C4R3Z5) Pfam (PF13656)	Komagataella phaffii (strain GS115 / ATCC 20864) (Yeast)
12	L (L)	RNA polymerase subunit ABC10-alpha	polymer	72	7862.0	1	UniProt (F2QMI1) Pfam (PF03604)	Komagataella phaffii (strain ATCC 76273 / CBS 7435 / CECT 11047 / NRRL Y-11430 / Wegner 21-1) (Yeast)
13	M (P)	RNA (5'-R(P*CP*CP*UP*GP*GP*UP*GP*UP*CP*UP*UP*GP*GP*GP*UP*G)-3')	polymer	16	5124.0	1		synthetic construct
14	N (T)	DNA (198-MER)	polymer	198	60870.0	1		synthetic construct
15	O (N)	DNA (198-MER)	polymer	198	61381.9	1		synthetic construct
16	P (M)	Transcription elongation factor 1 homolog	polymer	113	12606.9	1	UniProt (C4QZ45) Pfam (PF05129)	Komagataella phaffii (strain GS115 / ATCC 20864) (Yeast)	Elf1
17	Q (V)	Transcription elongation factor SPT4	polymer	108	12039.6	1	UniProt (C4R0E6) Pfam (PF06093)	Komagataella phaffii (strain GS115 / ATCC 20864) (Yeast)
18	R (W)	Protein that forms a complex with Spt4p	polymer	911	101459.4	1	UniProt (C4R370) Pfam (PF11942) Pfam (PF03439) Pfam (PF00467) Pfam (PF12815)	Komagataella phaffii (strain GS115 / ATCC 20864) (Yeast)	Spt5
19	S, W (a, e)	Histone H3.3	polymer	139	15643.3	2	UniProt (P84243) Pfam (PF00125)	Homo sapiens (Human)
20	T, X (b, f)	Histone H4	polymer	106	11676.7	2	UniProt (P62805) Pfam (PF15511)	Homo sapiens (Human)
21	U, Y (c, g)	Histone H2A type 1-B/E	polymer	133	14447.8	2	UniProt (P04908) Pfam (PF00125) Pfam (PF16211)	Homo sapiens (Human)	Histone H2A.2,Histone H2A/a,Histone H2A/m
22	V, Z (d, h)	Histone H2B type 1-J	polymer	129	14217.5	2	UniProt (P06899) Pfam (PF00125)	Homo sapiens (Human)	Histone H2B.1,Histone H2B.r,H2B/r
23	AA (0)	DNA (36-MER)	polymer	36	11053.2	1		synthetic construct
24	BA (1)	DNA (36-MER)	polymer	36	11100.1	1		synthetic construct
25	CA, DA, FA, GA, HA... (A, B, C, I, J...)	ZINC ION	non-polymer		65.4	10	Chemie (ZN)
26	EA (A)	MAGNESIUM ION	non-polymer		24.3	1	Chemie (MG)

Sequence modifications

M: 1 - 110 (UniProt: C4QZ45)

PDB	External Database	Details
Gly -2	-	expression tag
Pro -1	-	expression tag
Gly 0	-	expression tag

V: 8 - 114 (UniProt: C4R0E6)

PDB	External Database	Details
Met 7	-	expression tag

W: 1 - 908 (UniProt: C4R370)

PDB	External Database	Details
Gly -2	-	expression tag
Pro -1	-	expression tag
Gly 0	-	expression tag

a, e: 0 - 135 (UniProt: P84243)

PDB	External Database	Details
Gly -3	-	expression tag
Ser -2	-	expression tag
His -1	-	expression tag

b, f: 0 - 102 (UniProt: P62805)

PDB	External Database	Details
Gly -3	-	expression tag
Ser -2	-	expression tag
His -1	-	expression tag

c, g: 0 - 129 (UniProt: P04908)

PDB	External Database	Details
Gly -3	-	expression tag
Ser -2	-	expression tag
His -1	-	expression tag

d, h: -3 - 122 (UniProt: P06899)

PDB	External Database	Details
Gly -6	-	expression tag
Ser -5	-	expression tag
His -4	-	expression tag

Contents of the asymmetric unit

Polymers	Number of chains	28
	Total formula weight	897977.9
Non-Polymers*	Number of molecules	11
	Total formula weight	678.4
All*	Total formula weight	898656.3

*Water molecules are not included.