Structural insights into branch site proofreading by human spliceosome
Zhang, X., Zhan, X., Bian, T., Yang, F., Li, P., Lu, Y., Xing, Z., Fan, R., Zhang, Q.C., Shi, Y.(2024) Nat Struct Mol Biol 
Experimental Data Snapshot
wwPDB Validation   3D Report Full Report
Entity ID: 2 | |||||
---|---|---|---|---|---|
Molecule | Chains | Sequence Length | Organism | Details | Image |
Splicing factor 3B subunit 1 | B [auth 1] | 1,304 | Homo sapiens | Mutation(s): 0  | |
UniProt & NIH Common Fund Data Resources | |||||
Find proteins for O75533 (Homo sapiens) Explore O75533  Go to UniProtKB:  O75533 | |||||
PHAROS:  O75533 GTEx:  ENSG00000115524  | |||||
Entity Groups   | |||||
Sequence Clusters | 30% Identity50% Identity70% Identity90% Identity95% Identity100% Identity | ||||
UniProt Group | O75533 | ||||
Sequence AnnotationsExpand | |||||
|
Entity ID: 3 | |||||
---|---|---|---|---|---|
Molecule | Chains | Sequence Length | Organism | Details | Image |
Splicing factor 3B subunit 2 | C [auth 2] | 895 | Homo sapiens | Mutation(s): 0  | |
UniProt & NIH Common Fund Data Resources | |||||
Find proteins for Q13435 (Homo sapiens) Explore Q13435  Go to UniProtKB:  Q13435 | |||||
PHAROS:  Q13435 GTEx:  ENSG00000087365  | |||||
Entity Groups   | |||||
Sequence Clusters | 30% Identity50% Identity70% Identity90% Identity95% Identity100% Identity | ||||
UniProt Group | Q13435 | ||||
Sequence AnnotationsExpand | |||||
|
Entity ID: 4 | |||||
---|---|---|---|---|---|
Molecule | Chains | Sequence Length | Organism | Details | Image |
Splicing factor 3B subunit 3 | D [auth 3] | 1,217 | Homo sapiens | Mutation(s): 0  | |
UniProt & NIH Common Fund Data Resources | |||||
Find proteins for Q15393 (Homo sapiens) Explore Q15393  Go to UniProtKB:  Q15393 | |||||
PHAROS:  Q15393 GTEx:  ENSG00000189091  | |||||
Entity Groups   | |||||
Sequence Clusters | 30% Identity50% Identity70% Identity90% Identity95% Identity100% Identity | ||||
UniProt Group | Q15393 | ||||
Sequence AnnotationsExpand | |||||
|
Entity ID: 5 | |||||
---|---|---|---|---|---|
Molecule | Chains | Sequence Length | Organism | Details | Image |
Splicing factor 3B subunit 4 | E [auth 4] | 424 | Homo sapiens | Mutation(s): 0  | |
UniProt & NIH Common Fund Data Resources | |||||
Find proteins for Q15427 (Homo sapiens) Explore Q15427  Go to UniProtKB:  Q15427 | |||||
PHAROS:  Q15427 GTEx:  ENSG00000143368  | |||||
Entity Groups   | |||||
Sequence Clusters | 30% Identity50% Identity70% Identity90% Identity95% Identity100% Identity | ||||
UniProt Group | Q15427 | ||||
Sequence AnnotationsExpand | |||||
|
Entity ID: 6 | |||||
---|---|---|---|---|---|
Molecule | Chains | Sequence Length | Organism | Details | Image |
Splicing factor 3B subunit 5 | F [auth 5] | 86 | Homo sapiens | Mutation(s): 0  | |
UniProt & NIH Common Fund Data Resources | |||||
Find proteins for Q9BWJ5 (Homo sapiens) Explore Q9BWJ5  Go to UniProtKB:  Q9BWJ5 | |||||
PHAROS:  Q9BWJ5 GTEx:  ENSG00000169976  | |||||
Entity Groups   | |||||
Sequence Clusters | 30% Identity50% Identity70% Identity90% Identity95% Identity100% Identity | ||||
UniProt Group | Q9BWJ5 | ||||
Sequence AnnotationsExpand | |||||
|
Entity ID: 7 | |||||
---|---|---|---|---|---|
Molecule | Chains | Sequence Length | Organism | Details | Image |
PHD finger-like domain-containing protein 5A | G [auth 6] | 110 | Homo sapiens | Mutation(s): 0  | |
UniProt & NIH Common Fund Data Resources | |||||
Find proteins for Q7RTV0 (Homo sapiens) Explore Q7RTV0  Go to UniProtKB:  Q7RTV0 | |||||
PHAROS:  Q7RTV0 GTEx:  ENSG00000100410  | |||||
Entity Groups   | |||||
Sequence Clusters | 30% Identity50% Identity70% Identity90% Identity95% Identity100% Identity | ||||
UniProt Group | Q7RTV0 | ||||
Sequence AnnotationsExpand | |||||
|
Entity ID: 8 | |||||
---|---|---|---|---|---|
Molecule | Chains | Sequence Length | Organism | Details | Image |
Splicing factor 3A subunit 1 | H [auth A] | 793 | Homo sapiens | Mutation(s): 0  | |
UniProt & NIH Common Fund Data Resources | |||||
Find proteins for Q15459 (Homo sapiens) Explore Q15459  Go to UniProtKB:  Q15459 | |||||
PHAROS:  Q15459 GTEx:  ENSG00000099995  | |||||
Entity Groups   | |||||
Sequence Clusters | 30% Identity50% Identity70% Identity90% Identity95% Identity100% Identity | ||||
UniProt Group | Q15459 | ||||
Sequence AnnotationsExpand | |||||
|
Entity ID: 9 | |||||
---|---|---|---|---|---|
Molecule | Chains | Sequence Length | Organism | Details | Image |
Splicing factor 3A subunit 2 | I [auth B] | 464 | Homo sapiens | Mutation(s): 0  | |
UniProt & NIH Common Fund Data Resources | |||||
Find proteins for Q15428 (Homo sapiens) Explore Q15428  Go to UniProtKB:  Q15428 | |||||
PHAROS:  Q15428 GTEx:  ENSG00000104897  | |||||
Entity Groups   | |||||
Sequence Clusters | 30% Identity50% Identity70% Identity90% Identity95% Identity100% Identity | ||||
UniProt Group | Q15428 | ||||
Sequence AnnotationsExpand | |||||
|
Entity ID: 10 | |||||
---|---|---|---|---|---|
Molecule | Chains | Sequence Length | Organism | Details | Image |
Splicing factor 3A subunit 3 | J [auth C] | 501 | Homo sapiens | Mutation(s): 0  | |
UniProt & NIH Common Fund Data Resources | |||||
Find proteins for Q12874 (Homo sapiens) Explore Q12874  Go to UniProtKB:  Q12874 | |||||
PHAROS:  Q12874 GTEx:  ENSG00000183431  | |||||
Entity Groups   | |||||
Sequence Clusters | 30% Identity50% Identity70% Identity90% Identity95% Identity100% Identity | ||||
UniProt Group | Q12874 | ||||
Sequence AnnotationsExpand | |||||
|
Entity ID: 11 | |||||
---|---|---|---|---|---|
Molecule | Chains | Sequence Length | Organism | Details | Image |
HIV Tat-specific factor 1 | K [auth D] | 755 | Homo sapiens | Mutation(s): 0  | |
UniProt & NIH Common Fund Data Resources | |||||
Find proteins for O43719 (Homo sapiens) Explore O43719  Go to UniProtKB:  O43719 | |||||
PHAROS:  O43719 GTEx:  ENSG00000102241  | |||||
Entity Groups   | |||||
Sequence Clusters | 30% Identity50% Identity70% Identity90% Identity95% Identity100% Identity | ||||
UniProt Group | O43719 | ||||
Sequence AnnotationsExpand | |||||
|
Entity ID: 12 | |||||
---|---|---|---|---|---|
Molecule | Chains | Sequence Length | Organism | Details | Image |
RNA helicase | L [auth E] | 1,052 | Homo sapiens | Mutation(s): 0  Gene Names: DDX46 EC: 3.6.4.13 | |
UniProt & NIH Common Fund Data Resources | |||||
Find proteins for Q7L014 (Homo sapiens) Explore Q7L014  Go to UniProtKB:  Q7L014 | |||||
PHAROS:  Q7L014 GTEx:  ENSG00000145833  | |||||
Entity Groups   | |||||
Sequence Clusters | 30% Identity50% Identity70% Identity90% Identity95% Identity100% Identity | ||||
UniProt Group | Q7L014 | ||||
Sequence AnnotationsExpand | |||||
|
Entity ID: 13 | |||||
---|---|---|---|---|---|
Molecule | Chains | Sequence Length | Organism | Details | Image |
U2 small nuclear ribonucleoprotein A' | M [auth F] | 255 | Homo sapiens | Mutation(s): 0  | |
UniProt & NIH Common Fund Data Resources | |||||
Find proteins for P09661 (Homo sapiens) Explore P09661  Go to UniProtKB:  P09661 | |||||
GTEx:  ENSG00000131876  | |||||
Entity Groups   | |||||
Sequence Clusters | 30% Identity50% Identity70% Identity90% Identity95% Identity100% Identity | ||||
UniProt Group | P09661 | ||||
Sequence AnnotationsExpand | |||||
|
Entity ID: 14 | |||||
---|---|---|---|---|---|
Molecule | Chains | Sequence Length | Organism | Details | Image |
U2 small nuclear ribonucleoprotein B'' | N [auth G] | 225 | Homo sapiens | Mutation(s): 0  | |
UniProt & NIH Common Fund Data Resources | |||||
Find proteins for P08579 (Homo sapiens) Explore P08579  Go to UniProtKB:  P08579 | |||||
PHAROS:  P08579 GTEx:  ENSG00000125870  | |||||
Entity Groups   | |||||
Sequence Clusters | 30% Identity50% Identity70% Identity90% Identity95% Identity100% Identity | ||||
UniProt Group | P08579 | ||||
Sequence AnnotationsExpand | |||||
|
Entity ID: 15 | |||||
---|---|---|---|---|---|
Molecule | Chains | Sequence Length | Organism | Details | Image |
Small nuclear ribonucleoprotein Sm D2 | O [auth a] | 118 | Homo sapiens | Mutation(s): 0  | |
UniProt & NIH Common Fund Data Resources | |||||
Find proteins for P62316 (Homo sapiens) Explore P62316  Go to UniProtKB:  P62316 | |||||
PHAROS:  P62316 GTEx:  ENSG00000125743  | |||||
Entity Groups   | |||||
Sequence Clusters | 30% Identity50% Identity70% Identity90% Identity95% Identity100% Identity | ||||
UniProt Group | P62316 | ||||
Sequence AnnotationsExpand | |||||
|
Entity ID: 16 | |||||
---|---|---|---|---|---|
Molecule | Chains | Sequence Length | Organism | Details | Image |
Small nuclear ribonucleoprotein F | P [auth b] | 86 | Homo sapiens | Mutation(s): 0  | |
UniProt & NIH Common Fund Data Resources | |||||
Find proteins for P62306 (Homo sapiens) Explore P62306  Go to UniProtKB:  P62306 | |||||
PHAROS:  P62306 GTEx:  ENSG00000139343  | |||||
Entity Groups   | |||||
Sequence Clusters | 30% Identity50% Identity70% Identity90% Identity95% Identity100% Identity | ||||
UniProt Group | P62306 | ||||
Sequence AnnotationsExpand | |||||
|
Entity ID: 17 | |||||
---|---|---|---|---|---|
Molecule | Chains | Sequence Length | Organism | Details | Image |
Small nuclear ribonucleoprotein E | Q [auth c] | 92 | Homo sapiens | Mutation(s): 0  | |
UniProt & NIH Common Fund Data Resources | |||||
Find proteins for P62304 (Homo sapiens) Explore P62304  Go to UniProtKB:  P62304 | |||||
PHAROS:  P62304 GTEx:  ENSG00000182004  | |||||
Entity Groups   | |||||
Sequence Clusters | 30% Identity50% Identity70% Identity90% Identity95% Identity100% Identity | ||||
UniProt Group | P62304 | ||||
Sequence AnnotationsExpand | |||||
|
Entity ID: 18 | |||||
---|---|---|---|---|---|
Molecule | Chains | Sequence Length | Organism | Details | Image |
Small nuclear ribonucleoprotein G | R [auth d] | 76 | Homo sapiens | Mutation(s): 0  | |
UniProt & NIH Common Fund Data Resources | |||||
Find proteins for P62308 (Homo sapiens) Explore P62308  Go to UniProtKB:  P62308 | |||||
PHAROS:  P62308 GTEx:  ENSG00000143977  | |||||
Entity Groups   | |||||
Sequence Clusters | 30% Identity50% Identity70% Identity90% Identity95% Identity100% Identity | ||||
UniProt Group | P62308 | ||||
Sequence AnnotationsExpand | |||||
|
Entity ID: 19 | |||||
---|---|---|---|---|---|
Molecule | Chains | Sequence Length | Organism | Details | Image |
Small nuclear ribonucleoprotein Sm D3 | S [auth e] | 126 | Homo sapiens | Mutation(s): 0  | |
UniProt & NIH Common Fund Data Resources | |||||
Find proteins for P62318 (Homo sapiens) Explore P62318  Go to UniProtKB:  P62318 | |||||
PHAROS:  P62318 GTEx:  ENSG00000100028  | |||||
Entity Groups   | |||||
Sequence Clusters | 30% Identity50% Identity70% Identity90% Identity95% Identity100% Identity | ||||
UniProt Group | P62318 | ||||
Sequence AnnotationsExpand | |||||
|
Entity ID: 20 | |||||
---|---|---|---|---|---|
Molecule | Chains | Sequence Length | Organism | Details | Image |
Small nuclear ribonucleoprotein-associated proteins B and B' | T [auth f] | 240 | Homo sapiens | Mutation(s): 0  | |
UniProt & NIH Common Fund Data Resources | |||||
Find proteins for P14678 (Homo sapiens) Explore P14678  Go to UniProtKB:  P14678 | |||||
PHAROS:  P14678 GTEx:  ENSG00000125835  | |||||
Entity Groups   | |||||
Sequence Clusters | 30% Identity50% Identity70% Identity90% Identity95% Identity100% Identity | ||||
UniProt Group | P14678 | ||||
Sequence AnnotationsExpand | |||||
|
Entity ID: 21 | |||||
---|---|---|---|---|---|
Molecule | Chains | Sequence Length | Organism | Details | Image |
Small nuclear ribonucleoprotein Sm D1 | U [auth g] | 119 | Homo sapiens | Mutation(s): 0  | |
UniProt & NIH Common Fund Data Resources | |||||
Find proteins for P62314 (Homo sapiens) Explore P62314  Go to UniProtKB:  P62314 | |||||
PHAROS:  P62314 GTEx:  ENSG00000167088  | |||||
Entity Groups   | |||||
Sequence Clusters | 30% Identity50% Identity70% Identity90% Identity95% Identity100% Identity | ||||
UniProt Group | P62314 | ||||
Sequence AnnotationsExpand | |||||
|
Entity ID: 1 | |||||
---|---|---|---|---|---|
Molecule | Chains | Length | Organism | Image | |
U2 snRNA | A [auth H] | 188 | Homo sapiens | ||
Sequence AnnotationsExpand | |||||
|
Ligands 2 Unique | |||||
---|---|---|---|---|---|
ID | Chains | Name / Formula / InChI Key | 2D Diagram | 3D Interactions | |
9B0 (Subject of Investigation/LOI) Query on 9B0 | V [auth 1] | [(2~{S},3~{S},4~{E},6~{S},7~{R},10~{R})-3,7-dimethyl-2-[(2~{E},4~{E},6~{R})-6-methyl-6-oxidanyl-7-[(2~{R},3~{R})-3-[(2~{R},3~{S})-3-oxidanylpentan-2-yl]oxiran-2-yl]hepta-2,4-dien-2-yl]-7,10-bis(oxidanyl)-12-oxidanylidene-1-oxacyclododec-4-en-6-yl] 4-cycloheptylpiperazine-1-carboxylate C40 H66 N2 O9 MNOMBFWMICHMKG-MGYWSNOQSA-N | |||
ZN (Subject of Investigation/LOI) Query on ZN | W [auth 6], X [auth 6], Y [auth 6], Z [auth C] | ZINC ION Zn PTFCDOFLOPIGGS-UHFFFAOYSA-N |
Funding Organization | Location | Grant Number |
---|---|---|
National Natural Science Foundation of China (NSFC) | China | -- |