Crystal Structure of PA-TM-RING E3 ligase RNF13 RING domain in complex with E2~Ub
Sarkar, S., Datta, A.B.To be published.
Experimental Data Snapshot
Starting Models: experimental
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wwPDB Validation   3D Report Full Report
Entity ID: 1 | |||||
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Molecule | Chains | Sequence Length | Organism | Details | Image |
Ubiquitin-conjugating enzyme E2 D2 | A [auth C], B | 148 | Homo sapiens | Mutation(s): 1  Gene Names: UBE2D2, PUBC1, UBC4, UBC5B, UBCH4, UBCH5B EC: 2.3.2.23 (PDB Primary Data), 2.3.2.24 (PDB Primary Data) | ![]() |
UniProt & NIH Common Fund Data Resources | |||||
Find proteins for P62837 (Homo sapiens) Explore P62837  Go to UniProtKB:  P62837 | |||||
PHAROS:  P62837 GTEx:  ENSG00000131508  | |||||
Entity Groups   | |||||
Sequence Clusters | 30% Identity50% Identity70% Identity90% Identity95% Identity100% Identity | ||||
UniProt Group | P62837 | ||||
Sequence AnnotationsExpand | |||||
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Entity ID: 2 | |||||
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Molecule | Chains | Sequence Length | Organism | Details | Image |
E3 ubiquitin-protein ligase RNF13 | C [auth A], D | 76 | Homo sapiens | Mutation(s): 0  Gene Names: RNF13, RZF EC: 2.3.2.27 | ![]() |
UniProt & NIH Common Fund Data Resources | |||||
Find proteins for O43567 (Homo sapiens) Explore O43567  Go to UniProtKB:  O43567 | |||||
PHAROS:  O43567 GTEx:  ENSG00000082996  | |||||
Entity Groups   | |||||
Sequence Clusters | 30% Identity50% Identity70% Identity90% Identity95% Identity100% Identity | ||||
UniProt Group | O43567 | ||||
Sequence AnnotationsExpand | |||||
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Entity ID: 3 | |||||
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Molecule | Chains | Sequence Length | Organism | Details | Image |
Ubiquitin | 76 | Homo sapiens | Mutation(s): 0  | ![]() | |
UniProt & NIH Common Fund Data Resources | |||||
Find proteins for P0CG47 (Homo sapiens) Explore P0CG47  Go to UniProtKB:  P0CG47 | |||||
PHAROS:  P0CG47 GTEx:  ENSG00000170315  | |||||
Entity Groups   | |||||
Sequence Clusters | 30% Identity50% Identity70% Identity90% Identity95% Identity100% Identity | ||||
UniProt Group | P0CG47 | ||||
Sequence AnnotationsExpand | |||||
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Ligands 1 Unique | |||||
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ID | Chains | Name / Formula / InChI Key | 2D Diagram | 3D Interactions | |
ZN Query on ZN | F [auth A], G [auth A], H [auth D], I [auth D] | ZINC ION Zn PTFCDOFLOPIGGS-UHFFFAOYSA-N |
Length ( Å ) | Angle ( ˚ ) |
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a = 56.559 | α = 90 |
b = 105.74 | β = 115.49 |
c = 60.79 | γ = 90 |
Software Name | Purpose |
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PHENIX | refinement |
XDS | data reduction |
Aimless | data scaling |
PHASER | phasing |
Funding Organization | Location | Grant Number |
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Wellcome Trust-DBT India Alliance | India | 500241/Z/11/Z |