Structure of the Thermus thermophilus 30S ribosomal subunit complexed with a human mitochondrial anticodon stem loop (ASL) of transfer RNA Methionine (TRNAMET) bound to an mRNA with an AUA-codon in the A-site and paromomycin

Macromolecule Annotations for the Entities in PDB 4GKK

Protein Family Annotation Pfam Database Homepage

Chains Pfam Accession Pfam Identifier Pfam Description Type Source
C PF07650 KH_2 KH domain Domain PFAM PF07650
O PF00312 Ribosomal_S15 Ribosomal protein S15 Domain PFAM PF00312
N PF00253 Ribosomal_S14 Ribosomal protein S14p/S29e Family
I PF00380 Ribosomal_S9 Ribosomal protein S9/S16 Family
D PF01479 S4 S4 domain Domain The S4 domain is a small domain consisting of 60-65 amino acid residues that was detected in the bacterial ribosomal protein S4, eukaryotic ribosomal S9, two families of pseudouridine synthases, a novel family of predicted RNA methylases, a yeast protein containing a pseudouridine synthetase and a deaminase domain, bacterial tyrosyl-tRNA synthetases, and a number of uncharacterized, small proteins that may be involved in translation regulation [1]. The S4 domain probably mediates binding to RNA. PFAM PF01479
B PF00318 Ribosomal_S2 Ribosomal protein S2 Family
C PF00189 Ribosomal_S3_C Ribosomal protein S3, C-terminal domain Domain This family contains a central domain Pfam:PF00013, hence the amino and carboxyl terminal domains are stored separately. This is a minimal carboxyl-terminal domain. Some are much longer. PFAM PF00189
D PF00163 Ribosomal_S4 Ribosomal protein S4/S9 N-terminal domain Family
Q PF00366 Ribosomal_S17 Ribosomal protein S17 Domain PFAM PF00366
K PF00411 Ribosomal_S11 Ribosomal protein S11 Family
L PF00164 Ribosom_S12_S23 Ribosomal protein S12/S23 Family
F PF01250 Ribosomal_S6 Ribosomal protein S6 Domain PFAM PF01250
T PF01649 Ribosomal_S20p Ribosomal protein S20 Family
E PF00333 Ribosomal_S5 Ribosomal protein S5, N-terminal domain Domain PFAM PF00333
R PF01084 Ribosomal_S18 Ribosomal protein S18 Family
G PF00177 Ribosomal_S7 Ribosomal protein S7p/S5e Domain This family contains ribosomal protein S7 from prokaryotes and S5 from eukaryotes. PFAM PF00177
P PF00886 Ribosomal_S16 Ribosomal protein S16 Family
E PF03719 Ribosomal_S5_C Ribosomal protein S5, C-terminal domain Domain PFAM PF03719
J PF00338 Ribosomal_S10 Ribosomal protein S10p/S20e Family
H PF00410 Ribosomal_S8 Ribosomal protein S8 Domain PFAM PF00410
S PF00203 Ribosomal_S19 Ribosomal protein S19 Domain PFAM PF00203
M PF00416 Ribosomal_S13 Ribosomal protein S13/S18 Family

Gene Product Annotation Gene Ontology Consortium Homepage

Chains Polymer Molecular Function Biological Process Cellular Component
A 16S rRNA (4GKK:A)
  • none
  • none
  • none
B 30S ribosomal protein S2 (4GKK:B)
C 30S ribosomal protein S3 (4GKK:C)
D 30S ribosomal protein S4 (4GKK:D)
E 30S ribosomal protein S5 (4GKK:E)
F 30S ribosomal protein S6 (4GKK:F)
G 30S ribosomal protein S7 (4GKK:G)
H 30S ribosomal protein S8 (4GKK:H)
I 30S ribosomal protein S9 (4GKK:I)
J 30S ribosomal protein S10 (4GKK:J)
K 30S ribosomal protein S11 (4GKK:K)
L 30S ribosomal protein S12 (4GKK:L)
M 30S ribosomal protein S13 (4GKK:M)
N 30S ribosomal protein S14 type Z (4GKK:N)
O 30S ribosomal protein S15 (4GKK:O)
P 30S ribosomal protein S16 (4GKK:P)
Q 30S ribosomal protein S17 (4GKK:Q)
R 30S ribosomal protein S18 (4GKK:R)
S 30S ribosomal protein S19 (4GKK:S)
T 30S ribosomal protein S20 (4GKK:T)
V 30S ribosomal protein Thx (4GKK:V)
  • none
  • none
W mRNA A-site fragment (4GKK:W)
  • none
  • none
  • none
X tRNA ASL human mitochondrial Met (4GKK:X)
  • none
  • none
  • none

Protein Modification Annotation

Type PDB Residue Nr. Description