Macromolecule Annotations for the Entities in PDB 1R4N

Domain Annotation: SCOP Classification SCOP Database (version: 1.75) Homepage

Chains Domain Info Class Fold Superfamily Family Domain Species
A d1r4na_ Alpha and beta proteins (a/b) Activating enzymes of the ubiquitin-like proteins Activating enzymes of the ubiquitin-like proteins Ubiquitin activating enzymes (UBA) Amyloid beta precursor protein-binding protein 1, APPBP1 Human (Homo sapiens) [TaxId: 9606]
B d1r4nb_ Alpha and beta proteins (a/b) Activating enzymes of the ubiquitin-like proteins Activating enzymes of the ubiquitin-like proteins Ubiquitin activating enzymes (UBA) UBA3 Human (Homo sapiens) [TaxId: 9606]
C d1r4nc_ Alpha and beta proteins (a/b) Activating enzymes of the ubiquitin-like proteins Activating enzymes of the ubiquitin-like proteins Ubiquitin activating enzymes (UBA) Amyloid beta precursor protein-binding protein 1, APPBP1 Human (Homo sapiens) [TaxId: 9606]
D d1r4nd_ Alpha and beta proteins (a/b) Activating enzymes of the ubiquitin-like proteins Activating enzymes of the ubiquitin-like proteins Ubiquitin activating enzymes (UBA) UBA3 Human (Homo sapiens) [TaxId: 9606]
E d1r4ne_ Alpha and beta proteins (a/b) Activating enzymes of the ubiquitin-like proteins Activating enzymes of the ubiquitin-like proteins Ubiquitin activating enzymes (UBA) Amyloid beta precursor protein-binding protein 1, APPBP1 Human (Homo sapiens) [TaxId: 9606]
F d1r4nf_ Alpha and beta proteins (a/b) Activating enzymes of the ubiquitin-like proteins Activating enzymes of the ubiquitin-like proteins Ubiquitin activating enzymes (UBA) UBA3 Human (Homo sapiens) [TaxId: 9606]
G d1r4ng_ Alpha and beta proteins (a/b) Activating enzymes of the ubiquitin-like proteins Activating enzymes of the ubiquitin-like proteins Ubiquitin activating enzymes (UBA) Amyloid beta precursor protein-binding protein 1, APPBP1 Human (Homo sapiens) [TaxId: 9606]
H d1r4nh_ Alpha and beta proteins (a/b) Activating enzymes of the ubiquitin-like proteins Activating enzymes of the ubiquitin-like proteins Ubiquitin activating enzymes (UBA) UBA3 Human (Homo sapiens) [TaxId: 9606]
I d1r4ni_ Alpha and beta proteins (a+b) beta-Grasp (ubiquitin-like) Ubiquitin-like Ubiquitin-related Nedd8 Human (Homo sapiens) [TaxId: 9606]
J d1r4nj_ Alpha and beta proteins (a+b) beta-Grasp (ubiquitin-like) Ubiquitin-like Ubiquitin-related Nedd8 Human (Homo sapiens) [TaxId: 9606]
K d1r4nk_ Alpha and beta proteins (a+b) beta-Grasp (ubiquitin-like) Ubiquitin-like Ubiquitin-related Nedd8 Human (Homo sapiens) [TaxId: 9606]
L d1r4nl_ Alpha and beta proteins (a+b) beta-Grasp (ubiquitin-like) Ubiquitin-like Ubiquitin-related Nedd8 Human (Homo sapiens) [TaxId: 9606]

Domain Annotation: CATH CATH Database (version 4.0.0) Homepage

Chains Domain Class Architecture Topology Homology
A1 1r4nA01 Alpha Beta 3-Layer(aba) Sandwich Rossmann fold NAD(P)-binding Rossmann-like Domain
B1 1r4nB01 Alpha Beta 3-Layer(aba) Sandwich Rossmann fold NAD(P)-binding Rossmann-like Domain
B2 1r4nB02 Mainly Alpha Orthogonal Bundle Arc Repressor Mutant, subunit A Ubiquitin activating enzymes (Uba3). Chain: B, domain 2
B3 1r4nB03 Alpha Beta Roll Ubiquitin-like (UB roll) Ubiquitin activating enzymes (Uba3). Chain: B, domain 3
C1 1r4nC01 Alpha Beta 3-Layer(aba) Sandwich Rossmann fold NAD(P)-binding Rossmann-like Domain
D1 1r4nD01 Alpha Beta 3-Layer(aba) Sandwich Rossmann fold NAD(P)-binding Rossmann-like Domain
D2 1r4nD02 Mainly Alpha Orthogonal Bundle Arc Repressor Mutant, subunit A Ubiquitin activating enzymes (Uba3). Chain: B, domain 2
D3 1r4nD03 Alpha Beta Roll Ubiquitin-like (UB roll) Ubiquitin activating enzymes (Uba3). Chain: B, domain 3
E1 1r4nE01 Alpha Beta 3-Layer(aba) Sandwich Rossmann fold NAD(P)-binding Rossmann-like Domain
F1 1r4nF01 Alpha Beta 3-Layer(aba) Sandwich Rossmann fold NAD(P)-binding Rossmann-like Domain
F2 1r4nF02 Mainly Alpha Orthogonal Bundle Arc Repressor Mutant, subunit A Ubiquitin activating enzymes (Uba3). Chain: B, domain 2
F3 1r4nF03 Alpha Beta Roll Ubiquitin-like (UB roll) Ubiquitin activating enzymes (Uba3). Chain: B, domain 3
G1 1r4nG01 Alpha Beta 3-Layer(aba) Sandwich Rossmann fold NAD(P)-binding Rossmann-like Domain
H1 1r4nH01 Alpha Beta 3-Layer(aba) Sandwich Rossmann fold NAD(P)-binding Rossmann-like Domain
H2 1r4nH02 Mainly Alpha Orthogonal Bundle Arc Repressor Mutant, subunit A Ubiquitin activating enzymes (Uba3). Chain: B, domain 2
H3 1r4nH03 Alpha Beta Roll Ubiquitin-like (UB roll) Ubiquitin activating enzymes (Uba3). Chain: B, domain 3
I 1r4nI00 Alpha Beta Roll Ubiquitin-like (UB roll) Phosphatidylinositol 3-kinase Catalytic Subunit; Chain A, domain 1
J 1r4nJ00 Alpha Beta Roll Ubiquitin-like (UB roll) Phosphatidylinositol 3-kinase Catalytic Subunit; Chain A, domain 1
K 1r4nK00 Alpha Beta Roll Ubiquitin-like (UB roll) Phosphatidylinositol 3-kinase Catalytic Subunit; Chain A, domain 1
L 1r4nL00 Alpha Beta Roll Ubiquitin-like (UB roll) Phosphatidylinositol 3-kinase Catalytic Subunit; Chain A, domain 1

Protein Family Annotation Pfam Database Homepage

Chains Pfam Accession Pfam Identifier Pfam Description Type Source
I PF00240 ubiquitin Ubiquitin family Domain This family contains a number of ubiquitin-like proteins: SUMO (smt3 homologue) (see Swiss:Q02724), Nedd8 (see Swiss:P29595), Elongin B (see Swiss:Q15370), Rub1 (see Swiss:Q9SHE7), and Parkin (see Swiss:O60260). A number of them are thought to carry a distinctive five-residue motif termed the proteasome-interacting motif (PIM), which may have a biologically significant role in protein delivery to proteasomes and recruitment of proteasomes to transcription sites [5]. PFAM PF00240
A PF00899 ThiF ThiF family Family
B PF08825 E2_bind E2 binding domain Domain E1 and E2 enzymes play a central role in ubiquitin and ubiquitin-like protein transfer cascades. This is an E2 binding domain that is found on NEDD8 activating E1 enzyme. The domain resembles ubiquitin, and recruits the catalytic core of the E2 enzyme Ubc12 in a similar manner to that in which ubiquitin interacts with ubiquitin binding domains [1]. PFAM PF08825
B PF00899 ThiF ThiF family Family

Gene Product Annotation Gene Ontology Consortium Homepage

Chains Polymer Molecular Function Biological Process Cellular Component
A,C,E,G amyloid beta precursor protein-binding protein 1 (1R4N:A,C,E,G)
B,D,F,H ubiquitin-activating enzyme E1C (1R4N:B,D,F,H)
I,J,K,L Ubiquitin-like protein NEDD8 (1R4N:I,J,K,L)

Protein Modification Annotation

Type PDB Residue Nr. Description