6FSZ

Structure of the nuclear RNA exosome

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 (2)	RNA (5'-R(P*AP*AP*AP*AP*UP*UP*UP*AP*AP*AP*UP*UP*UP*UP*UP*UP*UP*UP*UP*UP*UP*UP*U)-3')	polymer	23	7158.1	1		Saccharomyces cerevisiae
2	B (AA)	Exosome complex component RRP45	polymer	303	33799.6	1	UniProt (Q05636) Pfam (PF01138) Pfam (PF03725)	Saccharomyces cerevisiae (strain ATCC 204508 / S288c) (Baker's yeast)	Ribosomal RNA-processing protein 45
3	C (BB)	Exosome complex component SKI6	polymer	248	27794.9	1	UniProt (P46948) Pfam (PF01138) Pfam (PF03725)	Saccharomyces cerevisiae (strain ATCC 204508 / S288c) (Baker's yeast)	Extracellular mutant protein 20,Ribosomal RNA-processing protein 41,Superkiller protein 6
4	D (CC)	Exosome complex component RRP43	polymer	393	43977.8	1	UniProt (P25359) Pfam (PF01138)	Saccharomyces cerevisiae (strain ATCC 204508 / S288c) (Baker's yeast)	Ribosomal RNA-processing protein 43
5	E (DD)	Exosome complex component RRP46	polymer	245	26914.0	1	UniProt (P53256) Pfam (PF01138) Pfam (PF03725)	Saccharomyces cerevisiae (strain ATCC 204508 / S288c) (Baker's yeast)	Ribosomal RNA-processing protein 46
6	F (EE)	Exosome complex component RRP42	polymer	267	29294.4	1	UniProt (Q12277)	Saccharomyces cerevisiae (strain ATCC 204508 / S288c) (Baker's yeast)	Ribosomal RNA-processing protein 42
7	G (FF)	Exosome complex component MTR3	polymer	250	27559.9	1	UniProt (P48240) Pfam (PF01138)	Saccharomyces cerevisiae (Baker's yeast)	mRNA transport regulator 3
8	H (GG)	Exosome complex component RRP40	polymer	242	26778.6	1	UniProt (Q08285) Pfam (PF21262) Pfam (PF15985) Pfam (PF18311)	Saccharomyces cerevisiae (strain ATCC 204508 / S288c) (Baker's yeast)	Ribosomal RNA-processing protein 40
9	I (HH)	Exosome complex component RRP4	polymer	361	39714.4	1	UniProt (P38792) Pfam (PF14382) Pfam (PF21266) Pfam (PF15985)	Saccharomyces cerevisiae (strain ATCC 204508 / S288c) (Baker's yeast)	Ribosomal RNA-processing protein 4
10	J (II)	Exosome complex component CSL4	polymer	301	32805.6	1	UniProt (P53859) Pfam (PF21551) Pfam (PF10447)	Saccharomyces cerevisiae (strain ATCC 204508 / S288c) (Baker's yeast)	CEP1 synthetic lethal protein 4
11	K (JJ)	Exosome complex exonuclease DIS3	polymer	1003	113983.9	1	UniProt (Q08162) Pfam (PF13638) Pfam (PF17216) Pfam (PF17849) Pfam (PF00773) Pfam (PF17215)	Saccharomyces cerevisiae (strain ATCC 204508 / S288c) (Baker's yeast)	Chromosome disjunction protein 3,Ribosomal RNA-processing protein 44
12	L (KK)	Exosome complex exonuclease RRP6	polymer	733	84159.6	1	UniProt (Q12149) Pfam (PF08066) Pfam (PF01612) Pfam (PF00570)	Saccharomyces cerevisiae (strain ATCC 204508 / S288c) (Baker's yeast)	Ribosomal RNA-processing protein 6
13	M (LL)	Exosome complex protein LRP1	polymer	184	21086.3	1	UniProt (P38801) Pfam (PF04000)	Saccharomyces cerevisiae (strain ATCC 204508 / S288c) (Baker's yeast)	Like an rRNA processing protein 1,Yeast C1D domain-containing protein,rRNA processing protein 47
14	N (MM)	ATP-dependent RNA helicase DOB1	polymer	1073	122260.1	1	UniProt (P47047) Pfam (PF00270) Pfam (PF00271) Pfam (PF21408) Pfam (PF13234) Pfam (PF08148)	Saccharomyces cerevisiae (strain ATCC 204508 / S288c) (Baker's yeast)	mRNA transport regulator MTR4
15	O (NN)	M-phase phosphoprotein 6 homolog,M-phase phosphoprotein 6 homolog,Nuclear exosome-associated RNA binding protein,M-phase phosphoprotein 6 homolog	polymer	40	4101.7	1	UniProt (P53725)	Saccharomyces cerevisiae (Baker's yeast)	Exosome-associated RNA-binding protein MPP6,Exosome-associated RNA-binding protein MPP6,Exosome-associated RNA-binding protein MPP6

Sequence modifications

BB: 1 - 246 (UniProt: P46948)

PDB	External Database	Details
Gly -1	-	expression tag
His 0	-	expression tag

CC: 2 - 394 (UniProt: P25359)

PDB	External Database	Details
Ser 102	Ala 102	conflict
Met 363	Val 363	conflict

DD: 1 - 223 (UniProt: P53256)

PDB	External Database	Details
Gly -21	-	expression tag
His -20	-	expression tag
Gly -19	-	expression tag
Asn -18	-	expression tag
Asn -17	-	expression tag
Lys -16	-	expression tag
Glu -15	-	expression tag
Pro -14	-	expression tag
Asn -13	-	expression tag
Thr -12	-	expression tag
Lys -11	-	expression tag
Asn -10	-	expression tag
Arg -9	-	expression tag
Leu -8	-	expression tag
Asp -7	-	expression tag
Ser -6	-	expression tag
Ala -5	-	expression tag
Glu -4	-	expression tag
Lys -3	-	expression tag
Lys -2	-	expression tag
Lys -1	-	expression tag
Lys 0	-	expression tag

EE: 1 - 265 (UniProt: Q12277)

PDB	External Database	Details
Gly -1	-	expression tag
His 0	-	expression tag
Ile 138	Val 138	conflict

FF: 1 - 250 (UniProt: P48240)

PDB	External Database	Details
Ser 75	Thr 75	conflict
Thr 161	Met 161	conflict

GG: 1 - 240 (UniProt: Q08285)

PDB	External Database	Details
Gly -1	-	expression tag
His 0	-	expression tag

HH: 1 - 359 (UniProt: P38792)

PDB	External Database	Details
Arg -1	-	expression tag
Ser 0	-	expression tag

II: 1 - 292 (UniProt: P53859)

PDB	External Database	Details
Met -8	-	initiating methionine
Lys -7	-	expression tag
His -6	-	expression tag
His -5	-	expression tag
His -4	-	expression tag
His -3	-	expression tag
His -2	-	expression tag
His -1	-	expression tag
Pro 0	-	expression tag

JJ: 1 - 1001 (UniProt: Q08162)

PDB	External Database	Details
Gly -1	-	expression tag
Ala 0	-	expression tag
Asn 171	Asp 171	conflict
Asn 551	Asp 551	conflict

KK: 1 - 733 (UniProt: Q12149)

PDB	External Database	Details
Asn 296	Asp 296	engineered mutation

MM: 1 - 1073 (UniProt: P47047)

PDB	External Database	Details
Met 80	Val 80	conflict

NN: 1 - 11 (PDB: 6FSZ)
NN: 90 - 118 (UniProt: P53725)

Contents of the asymmetric unit

Polymers	Number of chains	15
	Total formula weight	641388.9
All*	Total formula weight	641388.9

*Water molecules are not included.