PDB ID : 3dbl [ABC]

Color

ARa IRb





 a AR:All Residues
 b IR:Interface Residues

Style





Secondary Structure


Download

Slab plane

Direction Proportion
From front %
From back %
Move slab

Chain
Chain name Ribbon Spacefill Cαonly
OLIGAMI PDB
AG
BH
CL
Title
STRUCTURAL DISSECTION OF A GATING MECHANISM PREVENTING MISACTIVATION OF UBIQUITIN BY NEDD8___sq___S E1 (APPBP1-UBA3ARG190WT-NEDD8ALA72GLN)

Structure Summary
PDB ID Mutant OPM Pub Med Method/Resolution HETNAM
3dbl
18652489 X-RAY DIFFRACTION/2.9 ZN:ZINC ION
Chain Formula
Amino Acid sequence SCOPe Family Level CATH Homology Level
[ABC] [ABC] [ABC]

Structual Classification
SCOPe
SCOPe ID Chain Class Fold Superfamily Family Protein Domain Species
157473 A:Alpha and beta proteins (a/b)Activating enzymes of the ubiquitin-like proteinsActivating enzymes of the ubiquitin-like proteinsUbiquitin activating enzymes (UBA)Amyloid beta precursor protein-binding protein 1, APPBP1Human (Homo sapiens) [TaxId: 9606]
291503 B:11-11ArtifactsTagsTagsTagsN-terminal TagsSynthetic
157474 B:12-442Alpha and beta proteins (a/b)Activating enzymes of the ubiquitin-like proteinsActivating enzymes of the ubiquitin-like proteinsUbiquitin activating enzymes (UBA)UBA3Human (Homo sapiens) [TaxId: 9606]
157475 C:Alpha and beta proteins (a/b)Activating enzymes of the ubiquitin-like proteinsActivating enzymes of the ubiquitin-like proteinsUbiquitin activating enzymes (UBA)Amyloid beta precursor protein-binding protein 1, APPBP1Human (Homo sapiens) [TaxId: 9606]
291504 D:11-11ArtifactsTagsTagsTagsN-terminal TagsSynthetic
157476 D:12-442Alpha and beta proteins (a/b)Activating enzymes of the ubiquitin-like proteinsActivating enzymes of the ubiquitin-like proteinsUbiquitin activating enzymes (UBA)UBA3Human (Homo sapiens) [TaxId: 9606]
157477 E:Alpha and beta proteins (a/b)Activating enzymes of the ubiquitin-like proteinsActivating enzymes of the ubiquitin-like proteinsUbiquitin activating enzymes (UBA)Amyloid beta precursor protein-binding protein 1, APPBP1Human (Homo sapiens) [TaxId: 9606]
291505 F:11-11ArtifactsTagsTagsTagsN-terminal TagsSynthetic
157478 F:12-441Alpha and beta proteins (a/b)Activating enzymes of the ubiquitin-like proteinsActivating enzymes of the ubiquitin-like proteinsUbiquitin activating enzymes (UBA)UBA3Human (Homo sapiens) [TaxId: 9606]
157479 G:Alpha and beta proteins (a/b)Activating enzymes of the ubiquitin-like proteinsActivating enzymes of the ubiquitin-like proteinsUbiquitin activating enzymes (UBA)Amyloid beta precursor protein-binding protein 1, APPBP1Human (Homo sapiens) [TaxId: 9606]
291506 H:11-11ArtifactsTagsTagsTagsN-terminal TagsSynthetic
157480 H:12-441Alpha and beta proteins (a/b)Activating enzymes of the ubiquitin-like proteinsActivating enzymes of the ubiquitin-like proteinsUbiquitin activating enzymes (UBA)UBA3Human (Homo sapiens) [TaxId: 9606]
157481 I:101-176Alpha and beta proteins (a+b)beta-Grasp (ubiquitin-like)Ubiquitin-likeUbiquitin-relatedNedd8Human (Homo sapiens) [TaxId: 9606]
291507 I:91-100ArtifactsTagsTagsTagsN-terminal TagsSynthetic
161647 J:Alpha and beta proteins (a+b)beta-Grasp (ubiquitin-like)Ubiquitin-likeUbiquitin-relatedNedd8Human (Homo sapiens) [TaxId: 9606]
161648 K:Alpha and beta proteins (a+b)beta-Grasp (ubiquitin-like)Ubiquitin-likeUbiquitin-relatedNedd8Human (Homo sapiens) [TaxId: 9606]
161649 L:Alpha and beta proteins (a+b)beta-Grasp (ubiquitin-like)Ubiquitin-likeUbiquitin-relatedNedd8Human (Homo sapiens) [TaxId: 9606]

CATH
CATH ID Node Class Architecture Topology Homology
3dblA013.40.50.720:3-Layer(aba) Sandwich:Rossmann fold:NAD(P)-binding Rossmann-like Domain
3dblB013.40.50.720:3-Layer(aba) Sandwich:Rossmann fold:NAD(P)-binding Rossmann-like Domain
3dblB021.10.10.520:Orthogonal Bundle:Arc Repressor Mutant, subunit A:Ubiquitin activating enzymes (Uba3). Chain: B, domain 2
3dblB033.10.20.260:Roll:Ubiquitin-like (UB roll):NEDD8-activating enzyme E1, catalytic subunit
3dblC013.40.50.720:3-Layer(aba) Sandwich:Rossmann fold:NAD(P)-binding Rossmann-like Domain
3dblD013.40.50.720:3-Layer(aba) Sandwich:Rossmann fold:NAD(P)-binding Rossmann-like Domain
3dblD021.10.10.520:Orthogonal Bundle:Arc Repressor Mutant, subunit A:Ubiquitin activating enzymes (Uba3). Chain: B, domain 2
3dblD033.10.20.260:Roll:Ubiquitin-like (UB roll):NEDD8-activating enzyme E1, catalytic subunit
3dblE013.40.50.720:3-Layer(aba) Sandwich:Rossmann fold:NAD(P)-binding Rossmann-like Domain
3dblF013.40.50.720:3-Layer(aba) Sandwich:Rossmann fold:NAD(P)-binding Rossmann-like Domain
3dblF021.10.10.520:Orthogonal Bundle:Arc Repressor Mutant, subunit A:Ubiquitin activating enzymes (Uba3). Chain: B, domain 2
3dblF033.10.20.260:Roll:Ubiquitin-like (UB roll):NEDD8-activating enzyme E1, catalytic subunit
3dblG013.40.50.720:3-Layer(aba) Sandwich:Rossmann fold:NAD(P)-binding Rossmann-like Domain
3dblH013.40.50.720:3-Layer(aba) Sandwich:Rossmann fold:NAD(P)-binding Rossmann-like Domain
3dblH021.10.10.520:Orthogonal Bundle:Arc Repressor Mutant, subunit A:Ubiquitin activating enzymes (Uba3). Chain: B, domain 2
3dblH033.10.20.260:Roll:Ubiquitin-like (UB roll):NEDD8-activating enzyme E1, catalytic subunit
3dblI003.10.20.90:Roll:Ubiquitin-like (UB roll):Phosphatidylinositol 3-kinase Catalytic Subunit; Chain A, domain 1
3dblJ003.10.20.90:Roll:Ubiquitin-like (UB roll):Phosphatidylinositol 3-kinase Catalytic Subunit; Chain A, domain 1
3dblK003.10.20.90:Roll:Ubiquitin-like (UB roll):Phosphatidylinositol 3-kinase Catalytic Subunit; Chain A, domain 1
3dblL003.10.20.90:Roll:Ubiquitin-like (UB roll):Phosphatidylinositol 3-kinase Catalytic Subunit; Chain A, domain 1