Macromolecule Annotations for the Entities in PDB 3CCM

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

Chains Domain Info Class Fold Superfamily Family Domain Species
11-56 d3ccm11 Low resolution protein structures Ribosome and ribosomal fragments Ribosome and ribosomal fragments Large subunit 50S subunit Archaeon Haloarcula marismortui [TaxId: 2238]
21-49 d3ccm21 All alpha proteins Non-globular all-alpha subunits of globular proteins Ribosomal protein L39e Ribosomal protein L39e Ribosomal protein L39e Archaeon Haloarcula marismortui [TaxId: 2238]
31-92 d3ccm31 Low resolution protein structures Ribosome and ribosomal fragments Ribosome and ribosomal fragments Large subunit 50S subunit Archaeon Haloarcula marismortui [TaxId: 2238]
B1-337 d3ccmb1 All beta proteins Reductase/isomerase/elongation factor common domain Translation proteins Ribosomal protein L3 Ribosomal protein L3 Archaeon Haloarcula marismortui [TaxId: 2238]
D10-174 d3ccmd1 Low resolution protein structures Ribosome and ribosomal fragments Ribosome and ribosomal fragments Large subunit 50S subunit Archaeon Haloarcula marismortui [TaxId: 2238]
F1-119 d3ccmf1 Alpha and beta proteins (a+b) Bacillus chorismate mutase-like L30e-like L30e/L7ae ribosomal proteins Ribosomal protein L7ae Archaeon Haloarcula marismortui [TaxId: 2238]
H4-166 d3ccmh1 Alpha and beta proteins (a+b) alpha/beta-Hammerhead Ribosomal protein L16p/L10e Ribosomal protein L10e Ribosomal protein L10e Archaeon Haloarcula marismortui [TaxId: 2238]
I66-129 d3ccmi1 All alpha proteins DNA/RNA-binding 3-helical bundle Ribosomal protein L11, C-terminal domain Ribosomal protein L11, C-terminal domain Ribosomal protein L11, C-terminal domain Archaeon Haloarcula marismortui [TaxId: 2238]
J4-145 d3ccmj1 Low resolution protein structures Ribosome and ribosomal fragments Ribosome and ribosomal fragments Large subunit 50S subunit Archaeon Haloarcula marismortui [TaxId: 2238]
K1-132 d3ccmk1 Low resolution protein structures Ribosome and ribosomal fragments Ribosome and ribosomal fragments Large subunit 50S subunit Archaeon Haloarcula marismortui [TaxId: 2238]
L1-150 d3ccml1 Low resolution protein structures Ribosome and ribosomal fragments Ribosome and ribosomal fragments Large subunit 50S subunit Archaeon Haloarcula marismortui [TaxId: 2238]
N1-186 d3ccmn1 Low resolution protein structures Ribosome and ribosomal fragments Ribosome and ribosomal fragments Large subunit 50S subunit Archaeon Haloarcula marismortui [TaxId: 2238]
O1-115 d3ccmo1 Low resolution protein structures Ribosome and ribosomal fragments Ribosome and ribosomal fragments Large subunit 50S subunit Archaeon Haloarcula marismortui [TaxId: 2238]
P1-143 d3ccmp1 All alpha proteins Ribosomal protein L19 (L19e) Ribosomal protein L19 (L19e) Ribosomal protein L19 (L19e) Ribosomal protein L19 (L19e) Archaeon Haloarcula marismortui [TaxId: 2238]
Q1-95 d3ccmq1 Low resolution protein structures Ribosome and ribosomal fragments Ribosome and ribosomal fragments Large subunit 50S subunit Archaeon Haloarcula marismortui [TaxId: 2238]
R1-150 d3ccmr1 Alpha and beta proteins (a+b) Ribosomal protein L22 Ribosomal protein L22 Ribosomal protein L22 Ribosomal protein L22 Archaeon Haloarcula marismortui [TaxId: 2238]
S1-81 d3ccms1 Alpha and beta proteins (a+b) Ribosomal proteins S24e, L23 and L15e Ribosomal proteins S24e, L23 and L15e L23p Ribosomal protein L23 Archaeon Haloarcula marismortui [TaxId: 2238]
T1-119 d3ccmt1 Low resolution protein structures Ribosome and ribosomal fragments Ribosome and ribosomal fragments Large subunit 50S subunit Archaeon Haloarcula marismortui [TaxId: 2238]
U4-56 d3ccmu1 Low resolution protein structures Ribosome and ribosomal fragments Ribosome and ribosomal fragments Large subunit 50S subunit Archaeon Haloarcula marismortui [TaxId: 2238]
V1-65 d3ccmv1 Low resolution protein structures Ribosome and ribosomal fragments Ribosome and ribosomal fragments Large subunit 50S subunit Archaeon Haloarcula marismortui [TaxId: 2238]
W1-154 d3ccmw1 Low resolution protein structures Ribosome and ribosomal fragments Ribosome and ribosomal fragments Large subunit 50S subunit Archaeon Haloarcula marismortui [TaxId: 2238]
X7-88 d3ccmx1 Low resolution protein structures Ribosome and ribosomal fragments Ribosome and ribosomal fragments Large subunit 50S subunit Archaeon Haloarcula marismortui [TaxId: 2238]
Y95-236 d3ccmy1 Alpha and beta proteins (a/b) Barstar-like Ribosomal protein L32e Ribosomal protein L32e Ribosomal protein L32e Archaeon Haloarcula marismortui [TaxId: 2238]
Z35-106 d3ccmz1 Small proteins Rubredoxin-like Zn-binding ribosomal proteins Ribosomal protein L37ae Ribosomal protein L37ae Archaeon Haloarcula marismortui [TaxId: 2238]

Domain Annotation: CATH CATH Database (version 4.0.0) Homepage

Chains Domain Class Architecture Topology Homology
1 3ccm100 Mainly Beta Single Sheet N-terminal domain of TfIIb
2 3ccm200 Mainly Alpha Orthogonal Bundle Atp Synthase Epsilon Chain; Chain: I; Ribosomal protein L39e
3 3ccm300 Alpha Beta Roll Nuclear Transport Factor 2; Chain: A,
A1 3ccmA01 Mainly Beta Beta Barrel OB fold (Dihydrolipoamide Acetyltransferase, E2P) Nucleic acid-binding proteins
A2 3ccmA02 Mainly Beta Roll SH3 type barrels.
A3 3ccmA03 Few Secondary Structures Irregular Ribosomal protein L2; domain 3 Ribosomal protein L2, domain 3
B1 3ccmB01 Few Secondary Structures Irregular Ribosomal protein L3; domain 3 Ribosomal protein L3, domain 3
B2 3ccmB02 Mainly Beta Beta Barrel Elongation Factor Tu (Ef-tu); domain 3 Translation factors
B3 3ccmB03 Alpha Beta 2-Layer Sandwich Ribosomal Protein L3; Chain: B; domain 2,
C 3ccmC00 Alpha Beta 3-Layer(aba) Sandwich Ribosomal Protein L4; Chain: A;
D 3ccmD00 Alpha Beta 2-Layer Sandwich 50s Ribosomal Protein L5; Chain: A,
E1 3ccmE01 Alpha Beta Alpha-Beta Complex Outer Surface Protein A; domain 3
E2 3ccmE02 Alpha Beta Alpha-Beta Complex Outer Surface Protein A; domain 3
F 3ccmF00 Alpha Beta 2-Layer Sandwich 60s Ribosomal Protein L30; Chain: A;
H 3ccmH00 Alpha Beta Alpha-Beta Complex Aldehyde Oxidoreductase; domain 3
I 3ccmI00 Mainly Alpha Orthogonal Bundle Arc Repressor Mutant, subunit A
J 3ccmJ00 Alpha Beta Alpha-Beta Complex Ribosomal Protein L13p; Chain: A;
K 3ccmK00 Mainly Beta Beta Barrel Ribosomal Protein L14 Ribosomal Protein L14;
L1 3ccmL01 Few Secondary Structures Irregular Molecule: Ribosomal Protein L15; Chain: K; domain 1
L2 3ccmL02 Alpha Beta Ribosomal Protein L15; Chain: K; domain 2 Ribosomal Protein L15; Chain: K; domain 2
M 3ccmM00 Alpha Beta 3-Layer(aba) Sandwich Ribosomal protein L15e Ribosomal protein l15e
N 3ccmN00 Alpha Beta 2-Layer Sandwich Nucleotidyltransferase; domain 5
O 3ccmO00 Alpha Beta Ribosomal Protein L15; Chain: K; domain 2 Ribosomal Protein L15; Chain: K; domain 2
P1 3ccmP01 Mainly Alpha Orthogonal Bundle 50s Ribosomal Protein L19e, Chain O, domain 1
P2 3ccmP02 Mainly Alpha Up-down Bundle Single alpha-helices involved in coiled-coils or other helix- helix interfaces Single Heli x bin
P3 3ccmP03 Mainly Alpha Orthogonal Bundle Non-ribosomal Peptide Synthetase Peptidyl Carrier Protein; Chain A
Q 3ccmQ00 Mainly Beta Roll SH3 type barrels. Myosin S1 fragment SH3-like barrel
R 3ccmR00 Alpha Beta Alpha-Beta Complex Ribosomal Protein L22; Chain A Ribosomal Protein L22; Chain A
S 3ccmS00 Alpha Beta 2-Layer Sandwich Alpha-Beta Plaits
T 3ccmT00 Mainly Beta Roll SH3 type barrels.
U 3ccmU00 Mainly Beta Roll Ribosomal Protein L24e; Chain: T;
V 3ccmV00 Mainly Alpha Orthogonal Bundle Helix Hairpins
W1 3ccmW01 Alpha Beta 2-Layer Sandwich Ribosomal Protein L30; Chain: A,
W2 3ccmW02 Mainly Alpha Orthogonal Bundle 3-methyladenine DNA Glycosylase II; Chain A, domain 3
X 3ccmX00 Alpha Beta Roll Ribosomal Protein L31e; Chain: W;
Z 3ccmZ00 Mainly Beta Single Sheet N-terminal domain of TfIIb

Protein Family Annotation Pfam Database Homepage

Chains Pfam Accession Pfam Identifier Pfam Description Type Source
X PF01198 Ribosomal_L31e Ribosomal protein L31e Family
U PF01246 Ribosomal_L24e Ribosomal protein L24e Family
P PF01280 Ribosomal_L19e Ribosomal protein L19e Family
2 PF00832 Ribosomal_L39 Ribosomal L39 protein Family
K PF00238 Ribosomal_L14 Ribosomal protein L14p/L23e Domain PFAM PF00238
S PF00276 Ribosomal_L23 Ribosomal protein L23 Family
J PF00572 Ribosomal_L13 Ribosomal protein L13 Family
R PF00237 Ribosomal_L22 Ribosomal protein L22p/L17e Domain This family includes L22 from prokaryotes and chloroplasts and L17 from eukaryotes. PFAM PF00237
D PF00281 Ribosomal_L5 Ribosomal protein L5 Domain PFAM PF00281
A PF03947 Ribosomal_L2_C Ribosomal Proteins L2, C-terminal domain Domain PFAM PF03947
E PF00347 Ribosomal_L6 Ribosomal protein L6 Domain PFAM PF00347
I PF00298 Ribosomal_L11 Ribosomal protein L11, RNA binding domain Domain PFAM PF00298
A PF00181 Ribosomal_L2 Ribosomal Proteins L2, RNA binding domain Domain PFAM PF00181
N PF00861 Ribosomal_L18p Ribosomal L18p/L5e family Family
Q PF01157 Ribosomal_L21e Ribosomal protein L21e Family
G PF00466 Ribosomal_L10 Ribosomal protein L10 Family
M PF00827 Ribosomal_L15e Ribosomal L15 Family
Z PF01780 Ribosomal_L37ae Ribosomal L37ae protein family Family
T PF00467 KOW KOW motif Family
W PF00327 Ribosomal_L30 Ribosomal protein L30p/L7e Domain This family includes prokaryotic L30 and eukaryotic L7. PFAM PF00327
Y PF01655 Ribosomal_L32e Ribosomal protein L32 Family
H PF00252 Ribosomal_L16 Ribosomal protein L16p/L10e Family
O PF00828 Ribosomal_L18e Ribosomal protein L18e/L15 Family
F PF01248 Ribosomal_L7Ae Ribosomal protein L7Ae/L30e/S12e/Gadd45 family Domain This family includes: Ribosomal L7A from metazoa, Ribosomal L8-A and L8-B from fungi, 30S ribosomal protein HS6 from archaebacteria, 40S ribosomal protein S12 from eukaryotes, Ribosomal protein L30 from eukaryotes and archaebacteria. Gadd45 and MyD118 [1]. PFAM PF01248
E PF00347 Ribosomal_L6 Ribosomal protein L6 Domain PFAM PF00347
V PF00831 Ribosomal_L29 Ribosomal L29 protein Family
D PF00673 Ribosomal_L5_C ribosomal L5P family C-terminus Domain This region is found associated with Pfam:PF00281. PFAM PF00673
1 PF01907 Ribosomal_L37e Ribosomal protein L37e Family
C PF00573 Ribosomal_L4 Ribosomal protein L4/L1 family Family
3 PF00935 Ribosomal_L44 Ribosomal protein L44 Family
L PF00828 Ribosomal_L18e Ribosomal protein L18e/L15 Family
B PF00297 Ribosomal_L3 Ribosomal protein L3 Family

Gene Product Annotation Gene Ontology Consortium Homepage

Chains Polymer Molecular Function Biological Process Cellular Component
A 50S ribosomal protein L2P (3CCM:A)
B 50S ribosomal protein L3P (3CCM:B)
C 50S ribosomal protein L4P (3CCM:C)
D 50S ribosomal protein L5P (3CCM:D)
E 50S ribosomal protein L6P (3CCM:E)
F 50S ribosomal protein L7Ae (3CCM:F)
G 50S ribosomal protein L10E (3CCM:G)
H 50S ribosomal protein L10e (3CCM:H)
I 50S ribosomal protein L11P (3CCM:I)
J 50S ribosomal protein L13P (3CCM:J)
K 50S ribosomal protein L14P (3CCM:K)
L 50S ribosomal protein L15P (3CCM:L)
M 50S ribosomal protein L15e (3CCM:M)
N 50S ribosomal protein L18P (3CCM:N)
O 50S ribosomal protein L18e (3CCM:O)
P 50S ribosomal protein L19e (3CCM:P)
Q 50S ribosomal protein L21e (3CCM:Q)
R 50S ribosomal protein L22P (3CCM:R)
S 50S ribosomal protein L23P (3CCM:S)
T 50S ribosomal protein L24P (3CCM:T)
U 50S ribosomal protein L24e (3CCM:U)
V 50S ribosomal protein L29P (3CCM:V)
W 50S ribosomal protein L30P (3CCM:W)
X 50S ribosomal protein L31e (3CCM:X)
Y 50S ribosomal protein L32e (3CCM:Y)
Z 50S ribosomal protein L37Ae (3CCM:Z)
1 50S ribosomal protein L37e (3CCM:1)
2 50S ribosomal protein L39e (3CCM:2)
3 50S ribosomal protein L44E (3CCM:3)
0 23S RIBOSOMAL RNA (3CCM:0)
  • none
  • none
  • none
9 5S RIBOSOMAL RNA (3CCM:9)
  • none
  • none
  • none