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SummaryStructural detailsExperimental detailsFunctional detailsSequence NeighborHistoryDownloads

7PKS

Structural basis of Integrator-mediated transcription regulation

This is a non-PDB format compatible entry.
Entity
Entity IDChain IDDescriptionTypeChain lengthFormula weightNumber of moleculesDB Name (Accession)Biological sourceDescriptive keywords
1ADNA-directed RNA polymerase subunitpolymer1970217450.11UniProt (A0A7M4DUC2)
Pfam (PF04997)
Pfam (PF05001)
Pfam (PF00623)
Pfam (PF04983)
Pfam (PF05000)
Pfam (PF04998)
Pfam (PF04992)
Pfam (PF04990)
In PDB		Sus scrofa domesticus (domestic pig)
2BDNA-directed RNA polymerase subunit betapolymer1174134041.41UniProt (A0A0B8RVL1)
Pfam (PF04563)
Pfam (PF04561)
Pfam (PF04565)
Pfam (PF04566)
Pfam (PF04567)
Pfam (PF00562)
Pfam (PF04560)
In PDB		Sus scrofa domesticus (domestic pig)
3CDNA-directed RNA polymerase II subunit RPB3polymer27531439.11UniProt (A0A481DF93)
Pfam (PF01193)
Pfam (PF01000)
In PDB		Sus scrofa domesticus (domestic pig)
4DRNA polymerase II subunit Dpolymer14216331.31UniProt (A0A287ADR4)
Pfam (PF03874)
In PDB		Sus scrofa domesticus (domestic pig)
5EDNA-directed RNA polymerase II subunit Epolymer21024644.31UniProt (I3LSI7)
Pfam (PF03871)
Pfam (PF01191)
In PDB		Sus scrofa domesticus (domestic pig)RPB5 homolog
6FDNA-directed RNA polymerase II subunit Fpolymer12714477.01UniProt (F1SKN8)
Pfam (PF01192)
UniProt (by SIFTS) (A0A4X1VEK9)
In PDB		Sus scrofa domesticus (domestic pig)DNA-directed RNA polymerases I,II,and III subunit RPABC2,RPB6 homolog
7GDNA-directed RNA polymerase II subunit RPB7polymer17219314.31UniProt (I3LJZ9)
In PDB		Sus scrofa domesticus (domestic pig)
8HDNA-directed RNA polymerases I, II, and III subunit RPABC3polymer15017162.31UniProt (A0A4X1ULF2)
Pfam (PF03870)
UniProt (by SIFTS) (I3LCB2)
In PDB		Sus scrofa domesticus (domestic pig)
9IDNA-directed RNA polymerase II subunit RPB9polymer12514541.21UniProt (P60899)
Pfam (PF02150)
Pfam (PF01096)
In PDB		Sus scrofa domesticus (domestic pig)RNA polymerase II subunit B9,DNA-directed RNA polymerase II subunit I,RNA polymerase II 14.5 kDa subunit,RPB14.5
10JDNA-directed RNA polymerases I, II, and III subunit RPABC5polymer677655.11UniProt (A0A7K6NXI9)
Pfam (PF01194)
In PDB		Sus scrofa domesticus (domestic pig)
11KRNA_pol_L_2 domain-containing proteinpolymer11713310.31UniProt (A0A4X1UK25)
Pfam (PF13656)
Pfam (PF01193)
UniProt (by SIFTS) (F1RKE4)
In PDB		Sus scrofa domesticus (domestic pig)
12LRNA polymerase II subunit Kpolymer587018.21UniProt (I3LN51)
Pfam (PF03604)
UniProt (by SIFTS) (A0A4X1TRS6)
In PDB		Sus scrofa domesticus (domestic pig)
13MRPBI C-terminal domain peptidepolymer131356.41UniProt (I3LJR4)
Pfam (PF05001)
In PDB		Sus scrofa domesticus (domestic pig)
14NNon-template DNApolymer4814712.51Human immunodeficiency virus 1
15PTAR RNApolymer175410.31Human immunodeficiency virus 1
16TDNA Templatepolymer4814910.61Human immunodeficiency virus 1
17UNegative elongation factor Apolymer52857343.61UniProt (Q9H3P2)
In PDB		Homo sapiens (Human)NELF-A,Wolf-Hirschhorn syndrome candidate 2 protein
18VNegative elongation factor Bpolymer61468672.81UniProt (Q8WX92)
Pfam (PF06209)
In PDB		Homo sapiens (Human)NELF-B,Cofactor of BRCA1
19WNegative elongation factor C/Dpolymer61668544.11UniProt (Q8IXH7)
Pfam (PF04858)
In PDB		Homo sapiens (Human)NELF-C/D,TH1-like protein
20XNegative elongation factor Epolymer221890.31Homo sapiens (Human)
21ZTranscription elongation factor SPT5polymer1087121145.51UniProt (O00267)
Pfam (PF11942)
Pfam (PF03439)
Pfam (PF00467)
In PDB		Homo sapiens (Human)hSPT5,DRB sensitivity-inducing factor 160 kDa subunit,DSIF p160,DRB sensitivity-inducing factor large subunit,DSIF large subunit,Tat-cotransactivator 1 protein,Tat-CT1 protein
22aIntegrator complex subunit 1polymer2190244574.91UniProt (Q8N201)
Pfam (PF12432)
In PDB		Homo sapiens (Human)Int1
23bIntegrator complex subunit 2polymer1204134451.61UniProt (Q9H0H0)
Pfam (PF14750)
In PDB		Homo sapiens (Human)Int2
24dIntegrator complex subunit 4polymer963108306.81UniProt (Q96HW7)
Pfam (PF20168)
Pfam (PF13646)
In PDB		Homo sapiens (Human)Int4
25eIntegrator complex subunit 5polymer1019108115.21UniProt (Q6P9B9)
Pfam (PF14837)
Pfam (PF14838)
In PDB		Homo sapiens (Human)Int5
26fIntegrator complex subunit 6polymer887100527.11UniProt (Q9UL03)
Pfam (PF13519)
Pfam (PF15300)
In PDB		Homo sapiens (Human)Int6,DBI-1,Protein DDX26,Protein deleted in cancer 1,DICE1
27gIntegrator complex subunit 7polymer962106952.61UniProt (Q9NVH2)
In PDB		Homo sapiens (Human)Int7
28hIntegrator complex subunit 8polymer995113219.91UniProt (Q75QN2)
In PDB		Homo sapiens (Human)Int8,Protein kaonashi-1
29iIntegrator complex subunit 9polymer65873891.21UniProt (Q9NV88)
Pfam (PF16661)
Pfam (PF10996)
Pfam (PF21382)
In PDB		Homo sapiens (Human)Int9,Protein related to CPSF subunits of 74 kDa,RC-74
30kIntegrator complex subunit 11polymer60067770.61UniProt (Q5TA45)
Pfam (PF16661)
Pfam (PF10996)
Pfam (PF07521)
Pfam (PF21386)
In PDB		Homo sapiens (Human)Int11,Cleavage and polyadenylation-specific factor 3-like protein,CPSF3-like protein,Protein related to CPSF subunits of 68 kDa,RC-68
31pSerine/threonine-protein phosphatase 2A 65 kDa regulatory subunit A alpha isoformpolymer58965378.31UniProt (P30153)
Pfam (PF02985)
In PDB		Homo sapiens (Human)Medium tumor antigen-associated 61 kDa protein,PP2A subunit A isoform PR65-alpha,PP2A subunit A isoform R1-alpha
32qSerine/threonine-protein phosphatase 2A catalytic subunit alpha isoformpolymer30935635.21UniProt (P67775)
Pfam (PF00149)
In PDB		Homo sapiens (Human)PP2A-alpha,Replication protein C,RP-C
33uUnknownpolymer272417.01Homo sapiens (Human)
34AMAGNESIUM IONnon-polymer24.31Chemie (MG)
35A, B, C, I, J...ZINC IONnon-polymer65.410Chemie (ZN)
36qMANGANESE (II) IONnon-polymer54.92Chemie (MN)
Sequence modifications
A: 1 - 1970 (UniProt: A0A7M4DUC2)
PDBExternal DatabaseDetails
-Tyr 1636deletion
-Ser 1637deletion
-Pro 1638deletion
-Thr 1639deletion
-Ser 1640deletion
-Pro 1641deletion
-Ser 1642deletion
-Tyr 1643deletion
-Ser 1644deletion
-Pro 1645deletion
-Thr 1646deletion
-Ser 1647deletion
-Pro 1648deletion
-Ser 1649deletion
V: 4 - 36 (PDB: 7PKS)
V: 36 - 580 (UniProt: Q8WX92)
W: 57 - 73 (PDB: 7PKS)
W: 74 - 87 (PDB: 7PKS)
W: 87 - 590 (UniProt: Q8IXH7)
k: 1 - 600 (UniProt: Q5TA45)
PDBExternal DatabaseDetails
Glu 487Asp 487conflict
q: 1 - 309 (UniProt: P67775)
PDBExternal DatabaseDetails
Asn 88Asp 88conflict
Sequence viewer
Contents of the asymmetric unit
PolymersNumber of chains33
Total formula weight2032610.9
Non-Polymers*Number of molecules13
Total formula weight788.3
All*Total formula weight2033399.2
*Water molecules are not included.

219869

PDB entries from 2024-05-15

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