Macromolecule Annotations for the Entities in PDB 1KYI

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

Chains Domain Info Class Fold Superfamily Family Domain Species
A d1kyia_ Alpha and beta proteins (a/b) P-loop containing nucleoside triphosphate hydrolases P-loop containing nucleoside triphosphate hydrolases Extended AAA-ATPase domain HslU Haemophilus influenzae [TaxId: 727]
B d1kyib_ Alpha and beta proteins (a/b) P-loop containing nucleoside triphosphate hydrolases P-loop containing nucleoside triphosphate hydrolases Extended AAA-ATPase domain HslU Haemophilus influenzae [TaxId: 727]
C d1kyic_ Alpha and beta proteins (a/b) P-loop containing nucleoside triphosphate hydrolases P-loop containing nucleoside triphosphate hydrolases Extended AAA-ATPase domain HslU Haemophilus influenzae [TaxId: 727]
D d1kyid_ Alpha and beta proteins (a/b) P-loop containing nucleoside triphosphate hydrolases P-loop containing nucleoside triphosphate hydrolases Extended AAA-ATPase domain HslU Haemophilus influenzae [TaxId: 727]
E d1kyie_ Alpha and beta proteins (a/b) P-loop containing nucleoside triphosphate hydrolases P-loop containing nucleoside triphosphate hydrolases Extended AAA-ATPase domain HslU Haemophilus influenzae [TaxId: 727]
F d1kyif_ Alpha and beta proteins (a/b) P-loop containing nucleoside triphosphate hydrolases P-loop containing nucleoside triphosphate hydrolases Extended AAA-ATPase domain HslU Haemophilus influenzae [TaxId: 727]
G d1kyig_ Alpha and beta proteins (a+b) Ntn hydrolase-like N-terminal nucleophile aminohydrolases (Ntn hydrolases) Proteasome subunits HslV (ClpQ) protease Haemophilus influenzae [TaxId: 727]
H d1kyih_ Alpha and beta proteins (a+b) Ntn hydrolase-like N-terminal nucleophile aminohydrolases (Ntn hydrolases) Proteasome subunits HslV (ClpQ) protease Haemophilus influenzae [TaxId: 727]
I d1kyii_ Alpha and beta proteins (a+b) Ntn hydrolase-like N-terminal nucleophile aminohydrolases (Ntn hydrolases) Proteasome subunits HslV (ClpQ) protease Haemophilus influenzae [TaxId: 727]
J d1kyij_ Alpha and beta proteins (a+b) Ntn hydrolase-like N-terminal nucleophile aminohydrolases (Ntn hydrolases) Proteasome subunits HslV (ClpQ) protease Haemophilus influenzae [TaxId: 727]
K d1kyik_ Alpha and beta proteins (a+b) Ntn hydrolase-like N-terminal nucleophile aminohydrolases (Ntn hydrolases) Proteasome subunits HslV (ClpQ) protease Haemophilus influenzae [TaxId: 727]
L d1kyil_ Alpha and beta proteins (a+b) Ntn hydrolase-like N-terminal nucleophile aminohydrolases (Ntn hydrolases) Proteasome subunits HslV (ClpQ) protease Haemophilus influenzae [TaxId: 727]
M d1kyim_ Alpha and beta proteins (a+b) Ntn hydrolase-like N-terminal nucleophile aminohydrolases (Ntn hydrolases) Proteasome subunits HslV (ClpQ) protease Haemophilus influenzae [TaxId: 727]
N d1kyin_ Alpha and beta proteins (a+b) Ntn hydrolase-like N-terminal nucleophile aminohydrolases (Ntn hydrolases) Proteasome subunits HslV (ClpQ) protease Haemophilus influenzae [TaxId: 727]
O d1kyio_ Alpha and beta proteins (a+b) Ntn hydrolase-like N-terminal nucleophile aminohydrolases (Ntn hydrolases) Proteasome subunits HslV (ClpQ) protease Haemophilus influenzae [TaxId: 727]
P d1kyip_ Alpha and beta proteins (a+b) Ntn hydrolase-like N-terminal nucleophile aminohydrolases (Ntn hydrolases) Proteasome subunits HslV (ClpQ) protease Haemophilus influenzae [TaxId: 727]
Q d1kyiq_ Alpha and beta proteins (a+b) Ntn hydrolase-like N-terminal nucleophile aminohydrolases (Ntn hydrolases) Proteasome subunits HslV (ClpQ) protease Haemophilus influenzae [TaxId: 727]
R d1kyir_ Alpha and beta proteins (a+b) Ntn hydrolase-like N-terminal nucleophile aminohydrolases (Ntn hydrolases) Proteasome subunits HslV (ClpQ) protease Haemophilus influenzae [TaxId: 727]
S d1kyis_ Alpha and beta proteins (a/b) P-loop containing nucleoside triphosphate hydrolases P-loop containing nucleoside triphosphate hydrolases Extended AAA-ATPase domain HslU Haemophilus influenzae [TaxId: 727]
T d1kyit_ Alpha and beta proteins (a/b) P-loop containing nucleoside triphosphate hydrolases P-loop containing nucleoside triphosphate hydrolases Extended AAA-ATPase domain HslU Haemophilus influenzae [TaxId: 727]
U d1kyiu_ Alpha and beta proteins (a/b) P-loop containing nucleoside triphosphate hydrolases P-loop containing nucleoside triphosphate hydrolases Extended AAA-ATPase domain HslU Haemophilus influenzae [TaxId: 727]
V d1kyiv_ Alpha and beta proteins (a/b) P-loop containing nucleoside triphosphate hydrolases P-loop containing nucleoside triphosphate hydrolases Extended AAA-ATPase domain HslU Haemophilus influenzae [TaxId: 727]
W d1kyiw_ Alpha and beta proteins (a/b) P-loop containing nucleoside triphosphate hydrolases P-loop containing nucleoside triphosphate hydrolases Extended AAA-ATPase domain HslU Haemophilus influenzae [TaxId: 727]
X d1kyix_ Alpha and beta proteins (a/b) P-loop containing nucleoside triphosphate hydrolases P-loop containing nucleoside triphosphate hydrolases Extended AAA-ATPase domain HslU Haemophilus influenzae [TaxId: 727]

Domain Annotation: CATH CATH Database (version 4.0.0) Homepage

Chains Domain Class Architecture Topology Homology
A1 1kyiA01 Alpha Beta 3-Layer(aba) Sandwich Rossmann fold P-loop containing nucleotide triphosphate hydrolases
A2 1kyiA02 Mainly Alpha Orthogonal Bundle Helicase, Ruva Protein; domain 3 DNA helicase RuvA subunit, C-terminal domain
A3 1kyiA03 Mainly Alpha Orthogonal Bundle Helicase, Ruva Protein; domain 3
B1 1kyiB01 Alpha Beta 3-Layer(aba) Sandwich Rossmann fold P-loop containing nucleotide triphosphate hydrolases
B2 1kyiB02 Mainly Alpha Orthogonal Bundle Helicase, Ruva Protein; domain 3 DNA helicase RuvA subunit, C-terminal domain
B3 1kyiB03 Mainly Alpha Orthogonal Bundle Helicase, Ruva Protein; domain 3
C1 1kyiC01 Alpha Beta 3-Layer(aba) Sandwich Rossmann fold P-loop containing nucleotide triphosphate hydrolases
C2 1kyiC02 Mainly Alpha Orthogonal Bundle Helicase, Ruva Protein; domain 3 DNA helicase RuvA subunit, C-terminal domain
C3 1kyiC03 Mainly Alpha Orthogonal Bundle Helicase, Ruva Protein; domain 3
D1 1kyiD01 Alpha Beta 3-Layer(aba) Sandwich Rossmann fold P-loop containing nucleotide triphosphate hydrolases
D2 1kyiD02 Mainly Alpha Orthogonal Bundle Helicase, Ruva Protein; domain 3 DNA helicase RuvA subunit, C-terminal domain
D3 1kyiD03 Mainly Alpha Orthogonal Bundle Helicase, Ruva Protein; domain 3
E1 1kyiE01 Alpha Beta 3-Layer(aba) Sandwich Rossmann fold P-loop containing nucleotide triphosphate hydrolases
E2 1kyiE02 Mainly Alpha Orthogonal Bundle Helicase, Ruva Protein; domain 3 DNA helicase RuvA subunit, C-terminal domain
E3 1kyiE03 Mainly Alpha Orthogonal Bundle Helicase, Ruva Protein; domain 3
F1 1kyiF01 Alpha Beta 3-Layer(aba) Sandwich Rossmann fold P-loop containing nucleotide triphosphate hydrolases
F2 1kyiF02 Mainly Alpha Orthogonal Bundle Helicase, Ruva Protein; domain 3 DNA helicase RuvA subunit, C-terminal domain
F3 1kyiF03 Mainly Alpha Orthogonal Bundle Helicase, Ruva Protein; domain 3
G 1kyiG00 Alpha Beta 4-Layer Sandwich Glutamine Phosphoribosylpyrophosphate, subunit 1, domain 1 Glutamine Phosphoribosylpyrophosphate, subunit 1, domain 1
H 1kyiH00 Alpha Beta 4-Layer Sandwich Glutamine Phosphoribosylpyrophosphate, subunit 1, domain 1 Glutamine Phosphoribosylpyrophosphate, subunit 1, domain 1
I 1kyiI00 Alpha Beta 4-Layer Sandwich Glutamine Phosphoribosylpyrophosphate, subunit 1, domain 1 Glutamine Phosphoribosylpyrophosphate, subunit 1, domain 1
J 1kyiJ00 Alpha Beta 4-Layer Sandwich Glutamine Phosphoribosylpyrophosphate, subunit 1, domain 1 Glutamine Phosphoribosylpyrophosphate, subunit 1, domain 1
K 1kyiK00 Alpha Beta 4-Layer Sandwich Glutamine Phosphoribosylpyrophosphate, subunit 1, domain 1 Glutamine Phosphoribosylpyrophosphate, subunit 1, domain 1
L 1kyiL00 Alpha Beta 4-Layer Sandwich Glutamine Phosphoribosylpyrophosphate, subunit 1, domain 1 Glutamine Phosphoribosylpyrophosphate, subunit 1, domain 1
M 1kyiM00 Alpha Beta 4-Layer Sandwich Glutamine Phosphoribosylpyrophosphate, subunit 1, domain 1 Glutamine Phosphoribosylpyrophosphate, subunit 1, domain 1
N 1kyiN00 Alpha Beta 4-Layer Sandwich Glutamine Phosphoribosylpyrophosphate, subunit 1, domain 1 Glutamine Phosphoribosylpyrophosphate, subunit 1, domain 1
O 1kyiO00 Alpha Beta 4-Layer Sandwich Glutamine Phosphoribosylpyrophosphate, subunit 1, domain 1 Glutamine Phosphoribosylpyrophosphate, subunit 1, domain 1
P 1kyiP00 Alpha Beta 4-Layer Sandwich Glutamine Phosphoribosylpyrophosphate, subunit 1, domain 1 Glutamine Phosphoribosylpyrophosphate, subunit 1, domain 1
Q 1kyiQ00 Alpha Beta 4-Layer Sandwich Glutamine Phosphoribosylpyrophosphate, subunit 1, domain 1 Glutamine Phosphoribosylpyrophosphate, subunit 1, domain 1
R 1kyiR00 Alpha Beta 4-Layer Sandwich Glutamine Phosphoribosylpyrophosphate, subunit 1, domain 1 Glutamine Phosphoribosylpyrophosphate, subunit 1, domain 1
S1 1kyiS01 Alpha Beta 3-Layer(aba) Sandwich Rossmann fold P-loop containing nucleotide triphosphate hydrolases
S2 1kyiS02 Mainly Alpha Orthogonal Bundle Helicase, Ruva Protein; domain 3 DNA helicase RuvA subunit, C-terminal domain
S3 1kyiS03 Mainly Alpha Orthogonal Bundle Helicase, Ruva Protein; domain 3
T1 1kyiT01 Alpha Beta 3-Layer(aba) Sandwich Rossmann fold P-loop containing nucleotide triphosphate hydrolases
T2 1kyiT02 Mainly Alpha Orthogonal Bundle Helicase, Ruva Protein; domain 3 DNA helicase RuvA subunit, C-terminal domain
T3 1kyiT03 Mainly Alpha Orthogonal Bundle Helicase, Ruva Protein; domain 3
U1 1kyiU01 Alpha Beta 3-Layer(aba) Sandwich Rossmann fold P-loop containing nucleotide triphosphate hydrolases
U2 1kyiU02 Mainly Alpha Orthogonal Bundle Helicase, Ruva Protein; domain 3 DNA helicase RuvA subunit, C-terminal domain
U3 1kyiU03 Mainly Alpha Orthogonal Bundle Helicase, Ruva Protein; domain 3
V1 1kyiV01 Alpha Beta 3-Layer(aba) Sandwich Rossmann fold P-loop containing nucleotide triphosphate hydrolases
V2 1kyiV02 Mainly Alpha Orthogonal Bundle Helicase, Ruva Protein; domain 3 DNA helicase RuvA subunit, C-terminal domain
V3 1kyiV03 Mainly Alpha Orthogonal Bundle Helicase, Ruva Protein; domain 3
W1 1kyiW01 Alpha Beta 3-Layer(aba) Sandwich Rossmann fold P-loop containing nucleotide triphosphate hydrolases
W2 1kyiW02 Mainly Alpha Orthogonal Bundle Helicase, Ruva Protein; domain 3 DNA helicase RuvA subunit, C-terminal domain
W3 1kyiW03 Mainly Alpha Orthogonal Bundle Helicase, Ruva Protein; domain 3
X1 1kyiX01 Alpha Beta 3-Layer(aba) Sandwich Rossmann fold P-loop containing nucleotide triphosphate hydrolases
X2 1kyiX02 Mainly Alpha Orthogonal Bundle Helicase, Ruva Protein; domain 3 DNA helicase RuvA subunit, C-terminal domain
X3 1kyiX03 Mainly Alpha Orthogonal Bundle Helicase, Ruva Protein; domain 3

Protein Family Annotation Pfam Database Homepage

Chains Pfam Accession Pfam Identifier Pfam Description Type Source
G PF00227 Proteasome Proteasome subunit Domain The proteasome is a multisubunit structure that degrades proteins. Protein degradation is an essential component of regulation because proteins can become misfolded, damaged, or unnecessary. Proteasomes and their homologues vary greatly in complexity: from HslV (heat shock locus v), which is encoded by 1 gene in bacteria, to the eukaryotic 20S proteasome, which is encoded by more than 14 genes [1]. Recently evidence of two novel groups of bacterial proteasomes was proposed. The first is Anbu, which is sparsely distributed among cyanobacteria and proteobacteria [1]. The second is call beta-proteobacteria proteasome homologue (BPH) [1]. PFAM PF00227
A PF00004 AAA ATPase family associated with various cellular activities (AAA) Family
A PF10431 ClpB_D2-small C-terminal, D2-small domain, of ClpB protein Domain This is the C-terminal domain of ClpB protein, referred to as the D2-small domain, and is a mixed alpha-beta structure. Compared with the D1-small domain (included in AAA, Pfam:PF00004) it lacks the long coiled-coil insertion, and instead of helix C4 contains a beta-strand (e3) that is part of a three stranded beta-pleated sheet. In Thermophilus the whole protein forms a hexamer with the D1-small and D2-small domains located on the outside of the hexamer, with the long coiled-coil being exposed on the surface. The D2-small domain is essential for oligomerisation, forming a tight interface with the D2-large domain of a neighbouring subunit and thereby providing enough binding energy to stabilise the functional assembly [1]. The domain is associated with two Clp_N, Pfam:PF02861, at the N-terminus as well as AAA, Pfam:PF00004 and AAA_2, Pfam:PF07724. PFAM PF10431
A PF07724 AAA_2 AAA domain (Cdc48 subfamily) Domain This Pfam entry includes some of the AAA proteins not detected by the Pfam:PF00004 model. PFAM PF07724

Protein Modification Annotation

Type PDB Residue Nr. Description