Macromolecule Annotations for the Entities in PDB 1XNR

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

Chains Domain Info Class Fold Superfamily Family Domain Species
B d1xnrb_ Alpha and beta proteins (a/b) Flavodoxin-like Ribosomal protein S2 Ribosomal protein S2 Ribosomal protein S2 Thermus thermophilus [TaxId: 274]
C2-106 d1xnrc1 Alpha and beta proteins (a+b) Alpha-lytic protease prodomain-like Prokaryotic type KH domain (KH-domain type II) Prokaryotic type KH domain (KH-domain type II) Ribosomal protein S3 N-terminal domain Thermus thermophilus [TaxId: 274]
C107-207 d1xnrc2 Alpha and beta proteins (a+b) Ribosomal protein S3 C-terminal domain Ribosomal protein S3 C-terminal domain Ribosomal protein S3 C-terminal domain Ribosomal protein S3 C-terminal domain Thermus thermophilus [TaxId: 274]
D d1xnrd_ Alpha and beta proteins (a+b) Alpha-L RNA-binding motif Alpha-L RNA-binding motif Ribosomal protein S4 Ribosomal protein S4 Thermus thermophilus [TaxId: 274]
E74-154 d1xnre1 Alpha and beta proteins (a+b) Ribosomal protein S5 domain 2-like Ribosomal protein S5 domain 2-like Translational machinery components Ribosomal protein S5, C-terminal domain Thermus thermophilus [TaxId: 274]
E5-73 d1xnre2 Alpha and beta proteins (a+b) dsRBD-like dsRNA-binding domain-like Ribosomal S5 protein, N-terminal domain Ribosomal S5 protein, N-terminal domain Thermus thermophilus [TaxId: 274]
F d1xnrf_ Alpha and beta proteins (a+b) Ferredoxin-like Ribosomal protein S6 Ribosomal protein S6 Ribosomal protein S6 Thermus thermophilus [TaxId: 274]
G d1xnrg_ All alpha proteins Ribosomal protein S7 Ribosomal protein S7 Ribosomal protein S7 Ribosomal protein S7 Thermus thermophilus [TaxId: 274]
H d1xnrh_ Alpha and beta proteins (a+b) Ribosomal protein S8 Ribosomal protein S8 Ribosomal protein S8 Ribosomal protein S8 Thermus thermophilus [TaxId: 274]
I d1xnri_ Alpha and beta proteins (a+b) Ribosomal protein S5 domain 2-like Ribosomal protein S5 domain 2-like Translational machinery components Ribosomal protein S9 Thermus thermophilus [TaxId: 274]
J d1xnrj_ Alpha and beta proteins (a+b) Ferredoxin-like Ribosomal protein S10 Ribosomal protein S10 Ribosomal protein S10 Thermus thermophilus [TaxId: 274]
K d1xnrk_ Alpha and beta proteins (a/b) Ribonuclease H-like motif Translational machinery components Ribosomal protein L18 and S11 Ribosomal protein S11 Thermus thermophilus [TaxId: 274]
L d1xnrl_ All beta proteins OB-fold Nucleic acid-binding proteins Cold shock DNA-binding domain-like Ribosomal protein S12 Thermus thermophilus [TaxId: 274]
M d1xnrm_ All alpha proteins S13-like H2TH domain S13-like H2TH domain Ribosomal protein S13 Ribosomal protein S13 Thermus thermophilus [TaxId: 274]
N d1xnrn_ Small proteins Glucocorticoid receptor-like (DNA-binding domain) Glucocorticoid receptor-like (DNA-binding domain) Ribosomal protein S14 Ribosomal protein S14 Thermus thermophilus [TaxId: 274]
O d1xnro_ All alpha proteins S15/NS1 RNA-binding domain S15/NS1 RNA-binding domain Ribosomal protein S15 Ribosomal protein S15 Thermus thermophilus [TaxId: 274]
P d1xnrp_ Alpha and beta proteins (a+b) Ribosomal protein S16 Ribosomal protein S16 Ribosomal protein S16 Ribosomal protein S16 Thermus thermophilus [TaxId: 274]
Q d1xnrq_ All beta proteins OB-fold Nucleic acid-binding proteins Cold shock DNA-binding domain-like Ribosomal protein S17 Thermus thermophilus [TaxId: 274]
R d1xnrr_ All alpha proteins DNA/RNA-binding 3-helical bundle Ribosomal protein S18 Ribosomal protein S18 Ribosomal protein S18 Thermus thermophilus [TaxId: 274]
S d1xnrs_ Alpha and beta proteins (a+b) Ribosomal protein S19 Ribosomal protein S19 Ribosomal protein S19 Ribosomal protein S19 Thermus thermophilus [TaxId: 274]
T d1xnrt_ All alpha proteins Spectrin repeat-like Ribosomal protein S20 Ribosomal protein S20 Ribosomal protein S20 Thermus thermophilus [TaxId: 274]
V d1xnrv_ Peptides Arg-rich RNA binding peptides 30S ribosomal protein THX 30S ribosomal protein THX 30S ribosomal protein THX Thermus thermophilus [TaxId: 274]

Domain Annotation: CATH CATH Database (version 4.0.0) Homepage

Chains Domain Class Architecture Topology Homology
B2 1xnrB02 Mainly Alpha Orthogonal Bundle Helix Hairpins Helix hairpin bin
C1 1xnrC01 Alpha Beta 2-Layer Sandwich GMP Synthetase; Chain A, domain 3
C2 1xnrC02 Alpha Beta 2-Layer Sandwich Ribosomal protein S3 C-terminal domain
D1 1xnrD01 Mainly Alpha Orthogonal Bundle Ribosomal Protein S4 Delta 41; Chain A, domain 1 Ribosomal Protein S4 Delta 41; Chain A, domain 1
D2 1xnrD02 Alpha Beta Roll Structural Genomics Hypothetical 15.5 Kd Protein In mrcA- pckA Intergenic Region; Chain A Structural Genomics Hypothetical 15.5 Kd Protein In Mrca- pcka Intergenic Region; Chain
E1 1xnrE01 Alpha Beta 2-Layer Sandwich Double Stranded RNA Binding Domain
E2 1xnrE02 Alpha Beta 2-Layer Sandwich Ribosomal Protein S5; domain 2
F 1xnrF00 Alpha Beta 2-Layer Sandwich Alpha-Beta Plaits
G 1xnrG00 Mainly Alpha Orthogonal Bundle Ribosomal Protein S7 Ribosomal Protein S7;
H1 1xnrH01 Alpha Beta 2-Layer Sandwich Ribosomal Protein S8; Chain: A, domain 1
H2 1xnrH02 Alpha Beta 2-Layer Sandwich Dna Ligase; domain 1
I 1xnrI00 Alpha Beta 2-Layer Sandwich Ribosomal Protein S5; domain 2
J 1xnrJ00 Alpha Beta 2-Layer Sandwich Alpha-Beta Plaits
K 1xnrK00 Alpha Beta 2-Layer Sandwich Nucleotidyltransferase; domain 5
L 1xnrL00 Mainly Beta Beta Barrel OB fold (Dihydrolipoamide Acetyltransferase, E2P) Nucleic acid-binding proteins
M1 1xnrM01 Mainly Alpha Orthogonal Bundle Helicase, Ruva Protein; domain 3
M2 1xnrM02 Few Secondary Structures Irregular 30s ribosomal protein s13; domain 2 30s ribosomal protein s13, domain 2
N 1xnrN00 Few Secondary Structures Irregular 30s Ribosomal Protein S14; Chain N 30s Ribosomal Protein S14; Chain N
O 1xnrO00 Mainly Alpha Orthogonal Bundle Helix Hairpins
P 1xnrP00 Alpha Beta 2-Layer Sandwich S16 Ribosomal Protein; Chain: A;
Q 1xnrQ00 Mainly Beta Beta Barrel OB fold (Dihydrolipoamide Acetyltransferase, E2P) Nucleic acid-binding proteins
R 1xnrR00 Few Secondary Structures Irregular 30s Ribosomal Protein S18 30s Ribosomal Protein S18
S 1xnrS00 Alpha Beta 2-Layer Sandwich 30s Ribosomal Protein S19; Chain A 30s Ribosomal Protein S19; Chain A
T 1xnrT00 Mainly Alpha Up-down Bundle Methane Monooxygenase Hydroxylase; Chain G, domain 1

Protein Family Annotation Pfam Database Homepage

Chains Pfam Accession Pfam Identifier Pfam Description Type Source
Q PF00366 Ribosomal_S17 Ribosomal protein S17 Domain PFAM PF00366
L PF00164 Ribosom_S12_S23 Ribosomal protein S12/S23 Family
I PF00380 Ribosomal_S9 Ribosomal protein S9/S16 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
E PF00333 Ribosomal_S5 Ribosomal protein S5, N-terminal domain Domain PFAM PF00333
F PF01250 Ribosomal_S6 Ribosomal protein S6 Domain PFAM PF01250
P PF00886 Ribosomal_S16 Ribosomal protein S16 Family
M PF00416 Ribosomal_S13 Ribosomal protein S13/S18 Family
H PF00410 Ribosomal_S8 Ribosomal protein S8 Domain PFAM PF00410
D PF00163 Ribosomal_S4 Ribosomal protein S4/S9 N-terminal domain Family
N PF00253 Ribosomal_S14 Ribosomal protein S14p/S29e Family
S PF00203 Ribosomal_S19 Ribosomal protein S19 Domain PFAM PF00203
C PF07650 KH_2 KH domain Domain PFAM PF07650
K PF00411 Ribosomal_S11 Ribosomal protein S11 Family
R PF01084 Ribosomal_S18 Ribosomal protein S18 Family
O PF00312 Ribosomal_S15 Ribosomal protein S15 Domain PFAM PF00312
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
E PF03719 Ribosomal_S5_C Ribosomal protein S5, C-terminal domain Domain PFAM PF03719
B PF00318 Ribosomal_S2 Ribosomal protein S2 Family
T PF01649 Ribosomal_S20p Ribosomal protein S20 Family
G PF00177 Ribosomal_S7 Ribosomal protein S7p/S5e Domain This family contains ribosomal protein S7 from prokaryotes and S5 from eukaryotes. PFAM PF00177

Gene Product Annotation Gene Ontology Consortium Homepage

Chains Polymer Molecular Function Biological Process Cellular Component
A 16S Ribosomal RNA (1XNR:A)
  • none
  • none
  • none
X Anticodon tRNA (1XNR:X)
  • none
  • none
  • none
W mRNA (1XNR:W)
  • none
  • none
  • none
B 16S Ribosomal protein S2 (1XNR:B)
C 16S Ribosomal protein S3 (1XNR:C)
D 16S Ribosomal protein S4 (1XNR:D)
E 16S Ribosomal protein S5 (1XNR:E)
F 16S Ribosomal protein S6 (1XNR:F)
G 16S Ribosomal protein S7 (1XNR:G)
H 16S Ribosomal protein S8 (1XNR:H)
I 16S Ribosomal protein S9 (1XNR:I)
J 16S Ribosomal protein S10 (1XNR:J)
K 16S Ribosomal protein S11 (1XNR:K)
L 16S Ribosomal protein S12 (1XNR:L)
M 16S Ribosomal protein S13 (1XNR:M)
N 16S Ribosomal protein S14 (1XNR:N)
O 16S Ribosomal protein S15 (1XNR:O)
P 16S Ribosomal protein S16 (1XNR:P)
Q 16S Ribosomal protein S17 (1XNR:Q)
R 16S Ribosomal protein S18 (1XNR:R)
S 16S Ribosomal protein S19 (1XNR:S)
T 16S Ribosomal protein S20 (1XNR:T)
V 16S Ribosomal protein THX (1XNR:V)
  • none