7EVN

The cryo-EM structure of the DDX42-SF3b complex

Entity

Entity ID	Chain ID	Description	Type	Chain length	Formula weight	Number of molecules	DB Name (Accession)	Biological source	Descriptive keywords
1	B	Splicing factor 3B subunit 5	polymer	86	10149.4	1	UniProt (Q9BWJ5) Pfam (PF07189) In PDB	Homo sapiens (Human)	SF3b5,Pre-mRNA-splicing factor SF3b 10 kDa subunit
2	C	Splicing factor 3B subunit 1	polymer	872	98747.9	1	UniProt (O75533) Pfam (PF22646) In PDB	Homo sapiens (Human)	Pre-mRNA-splicing factor SF3b 155 kDa subunit,SF3b155,Spliceosome-associated protein 155,SAP 155
3	D	PHD finger-like domain-containing protein 5A	polymer	110	12427.5	1	UniProt (Q7RTV0) Pfam (PF03660) In PDB	Homo sapiens (Human)	PHD finger-like domain protein 5A,Splicing factor 3B-associated 14 kDa protein,SF3b14b
4	A	Splicing factor 3B subunit 3	polymer	1250	138949.2	1	UniProt (Q15393) Pfam (PF10433) Pfam (PF03178) In PDB	Homo sapiens (Human)	Pre-mRNA-splicing factor SF3b 130 kDa subunit,SF3b130,STAF130,Spliceosome-associated protein 130,SAP 130
5	E	ATP-dependent RNA helicase DDX42	polymer	958	105261.6	1	UniProt (Q86XP3) Pfam (PF00270) Pfam (PF00271) In PDB	Homo sapiens (Human)	DEAD box protein 42,RNA helicase-like protein,RHELP,RNA helicase-related protein,RNAHP,SF3b DEAD box protein,Splicing factor 3B-associated 125 kDa protein,SF3b125
6	D	ZINC ION	non-polymer		65.4	3	Chemie (ZN)

Sequence modifications

C: 452 - 1304 (UniProt: O75533)

PDB	External Database	Details
Met 433	-	initiating methionine
Ala 434	-	expression tag
Ser 435	-	expression tag
Asp 436	-	expression tag
Tyr 437	-	expression tag
Lys 438	-	expression tag
Asp 439	-	expression tag
Asp 440	-	expression tag
Asp 441	-	expression tag
Asp 442	-	expression tag
Lys 443	-	expression tag
Ala 444	-	expression tag
Ser 445	-	expression tag
Asp 446	-	expression tag
Glu 447	-	expression tag
Val 448	-	expression tag
Asp 449	-	expression tag
Ala 450	-	expression tag
Gly 451	-	expression tag

A: 1 - 1217 (UniProt: Q15393)

PDB	External Database	Details
Trp -32	-	expression tag
Ser -31	-	expression tag
His -30	-	expression tag
Pro -29	-	expression tag
Gln -28	-	expression tag
Phe -27	-	expression tag
Glu -26	-	expression tag
Lys -25	-	expression tag
Gly -24	-	expression tag
Gly -23	-	expression tag
Gly -22	-	expression tag
Ser -21	-	expression tag
Gly -20	-	expression tag
Gly -19	-	expression tag
Gly -18	-	expression tag
Ser -17	-	expression tag
Gly -16	-	expression tag
Gly -15	-	expression tag
Ser -14	-	expression tag
Ala -13	-	expression tag
Trp -12	-	expression tag
Ser -11	-	expression tag
His -10	-	expression tag
Pro -9	-	expression tag
Gln -8	-	expression tag
Phe -7	-	expression tag
Glu -6	-	expression tag
Lys -5	-	expression tag
Gly -4	-	expression tag
Ser -3	-	expression tag
Ala -2	-	expression tag
Ala -1	-	expression tag
Ala 0	-	expression tag

E: 1 - 938 (UniProt: Q86XP3)

PDB	External Database	Details
Met -19	-	initiating methionine
Ala -18	-	expression tag
Ser -17	-	expression tag
Asp -16	-	expression tag
Tyr -15	-	expression tag
Lys -14	-	expression tag
Asp -13	-	expression tag
Asp -12	-	expression tag
Asp -11	-	expression tag
Asp -10	-	expression tag
Lys -9	-	expression tag
Ala -8	-	expression tag
Ser -7	-	expression tag
Asp -6	-	expression tag
Glu -5	-	expression tag
Val -4	-	expression tag
Asp -3	-	expression tag
Ala -2	-	expression tag
Gly -1	-	expression tag
Thr 0	-	expression tag

Contents of the asymmetric unit

Polymers	Number of chains	5
	Total formula weight	365535.6
Non-Polymers*	Number of molecules	3
	Total formula weight	196.2
All*	Total formula weight	365731.8

*Water molecules are not included.