Macromolecule Annotations for the Entities in PDB 2F4V

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

Chains Domain Info Class Fold Superfamily Family Domain Species
B7-243 d2f4vb1 Alpha and beta proteins (a/b) Flavodoxin-like Ribosomal protein S2 Ribosomal protein S2 Ribosomal protein S2 Thermus thermophilus [TaxId: 274]
C2-106 d2f4vc1 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 d2f4vc2 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]
D2-209 d2f4vd1 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 d2f4ve1 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 d2f4ve2 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]
F1-101 d2f4vf1 Alpha and beta proteins (a+b) Ferredoxin-like Ribosomal protein S6 Ribosomal protein S6 Ribosomal protein S6 Thermus thermophilus [TaxId: 274]
G2-156 d2f4vg1 All alpha proteins Ribosomal protein S7 Ribosomal protein S7 Ribosomal protein S7 Ribosomal protein S7 Thermus thermophilus [TaxId: 274]
H1-138 d2f4vh1 Alpha and beta proteins (a+b) Ribosomal protein S8 Ribosomal protein S8 Ribosomal protein S8 Ribosomal protein S8 Thermus thermophilus [TaxId: 274]
I2-128 d2f4vi1 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]
J3-100 d2f4vj1 Alpha and beta proteins (a+b) Ferredoxin-like Ribosomal protein S10 Ribosomal protein S10 Ribosomal protein S10 Thermus thermophilus [TaxId: 274]
K11-129 d2f4vk1 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]
L5-122 d2f4vl1 All beta proteins OB-fold Nucleic acid-binding proteins Cold shock DNA-binding domain-like Ribosomal protein S12 Thermus thermophilus [TaxId: 274]
M2-126 d2f4vm1 All alpha proteins S13-like H2TH domain S13-like H2TH domain Ribosomal protein S13 Ribosomal protein S13 Thermus thermophilus [TaxId: 274]
N2-61 d2f4vn1 Small proteins Glucocorticoid receptor-like (DNA-binding domain) Glucocorticoid receptor-like (DNA-binding domain) Ribosomal protein S14 Ribosomal protein S14 Thermus thermophilus [TaxId: 274]
O2-89 d2f4vo1 All alpha proteins S15/NS1 RNA-binding domain S15/NS1 RNA-binding domain Ribosomal protein S15 Ribosomal protein S15 Thermus thermophilus [TaxId: 274]
P1-83 d2f4vp1 Alpha and beta proteins (a+b) Ribosomal protein S16 Ribosomal protein S16 Ribosomal protein S16 Ribosomal protein S16 Thermus thermophilus [TaxId: 274]
Q2-105 d2f4vq1 All beta proteins OB-fold Nucleic acid-binding proteins Cold shock DNA-binding domain-like Ribosomal protein S17 Thermus thermophilus [TaxId: 274]
R16-88 d2f4vr1 All alpha proteins DNA/RNA-binding 3-helical bundle Ribosomal protein S18 Ribosomal protein S18 Ribosomal protein S18 Thermus thermophilus [TaxId: 274]
S2-85 d2f4vs1 Alpha and beta proteins (a+b) Ribosomal protein S19 Ribosomal protein S19 Ribosomal protein S19 Ribosomal protein S19 Thermus thermophilus [TaxId: 274]
T8-106 d2f4vt1 All alpha proteins Spectrin repeat-like Ribosomal protein S20 Ribosomal protein S20 Ribosomal protein S20 Thermus thermophilus [TaxId: 274]

Domain Annotation: CATH CATH Database (version 4.0.0) Homepage

Chains Domain Class Architecture Topology Homology
B1 2f4vB01 Alpha Beta 3-Layer(aba) Sandwich Rossmann fold Glucose-6-phosphate isomerase like protein; domain 1
B2 2f4vB02 Mainly Alpha Orthogonal Bundle Helix Hairpins Helix hairpin bin
C1 2f4vC01 Alpha Beta 2-Layer Sandwich GMP Synthetase; Chain A, domain 3
C2 2f4vC02 Alpha Beta 2-Layer Sandwich Ribosomal protein S3 C-terminal domain
D1 2f4vD01 Mainly Alpha Orthogonal Bundle Ribosomal Protein S4 Delta 41; Chain A, domain 1 Ribosomal Protein S4 Delta 41; Chain A, domain 1
D2 2f4vD02 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 2f4vE01 Alpha Beta 2-Layer Sandwich Double Stranded RNA Binding Domain
E2 2f4vE02 Alpha Beta 2-Layer Sandwich Ribosomal Protein S5; domain 2
F 2f4vF00 Alpha Beta 2-Layer Sandwich Alpha-Beta Plaits
G 2f4vG00 Mainly Alpha Orthogonal Bundle Ribosomal Protein S7 Ribosomal Protein S7;
H1 2f4vH01 Alpha Beta 2-Layer Sandwich Ribosomal Protein S8; Chain: A, domain 1
H2 2f4vH02 Alpha Beta 2-Layer Sandwich Dna Ligase; domain 1
I 2f4vI00 Alpha Beta 2-Layer Sandwich Ribosomal Protein S5; domain 2
J 2f4vJ00 Alpha Beta 2-Layer Sandwich Alpha-Beta Plaits
K 2f4vK00 Alpha Beta 2-Layer Sandwich Nucleotidyltransferase; domain 5
L 2f4vL00 Mainly Beta Beta Barrel OB fold (Dihydrolipoamide Acetyltransferase, E2P) Nucleic acid-binding proteins
M1 2f4vM01 Mainly Alpha Orthogonal Bundle Helicase, Ruva Protein; domain 3
M2 2f4vM02 Few Secondary Structures Irregular 30s ribosomal protein s13; domain 2 30s ribosomal protein s13, domain 2
N 2f4vN00 Few Secondary Structures Irregular 30s Ribosomal Protein S14; Chain N 30s Ribosomal Protein S14; Chain N
O 2f4vO00 Mainly Alpha Orthogonal Bundle Helix Hairpins
P 2f4vP00 Alpha Beta 2-Layer Sandwich S16 Ribosomal Protein; Chain: A;
R 2f4vR00 Few Secondary Structures Irregular 30s Ribosomal Protein S18 30s Ribosomal Protein S18
S 2f4vS00 Alpha Beta 2-Layer Sandwich 30s Ribosomal Protein S19; Chain A 30s Ribosomal Protein S19; Chain A
T 2f4vT00 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
J PF00338 Ribosomal_S10 Ribosomal protein S10p/S20e Family
N PF00253 Ribosomal_S14 Ribosomal protein S14p/S29e Family
G PF00177 Ribosomal_S7 Ribosomal protein S7p/S5e Domain This family contains ribosomal protein S7 from prokaryotes and S5 from eukaryotes. PFAM PF00177
R PF01084 Ribosomal_S18 Ribosomal protein S18 Family
S PF00203 Ribosomal_S19 Ribosomal protein S19 Domain PFAM PF00203
P PF00886 Ribosomal_S16 Ribosomal protein S16 Family
Q PF00366 Ribosomal_S17 Ribosomal protein S17 Domain PFAM PF00366
E PF00333 Ribosomal_S5 Ribosomal protein S5, N-terminal domain Domain PFAM PF00333
T PF01649 Ribosomal_S20p Ribosomal protein S20 Family
K PF00411 Ribosomal_S11 Ribosomal protein S11 Family
H PF00410 Ribosomal_S8 Ribosomal protein S8 Domain PFAM PF00410
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
F PF01250 Ribosomal_S6 Ribosomal protein S6 Domain PFAM PF01250
E PF03719 Ribosomal_S5_C Ribosomal protein S5, C-terminal domain Domain PFAM PF03719
L PF00164 Ribosom_S12_S23 Ribosomal protein S12/S23 Family
M PF00416 Ribosomal_S13 Ribosomal protein S13/S18 Family
I PF00380 Ribosomal_S9 Ribosomal protein S9/S16 Family
B PF00318 Ribosomal_S2 Ribosomal protein S2 Family
D PF00163 Ribosomal_S4 Ribosomal protein S4/S9 N-terminal domain Family
O PF00312 Ribosomal_S15 Ribosomal protein S15 Domain PFAM PF00312
C PF07650 KH_2 KH domain Domain PFAM PF07650
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

Gene Product Annotation Gene Ontology Consortium Homepage

Chains Polymer Molecular Function Biological Process Cellular Component
A 16S ribosomal RNA (2F4V:A)
  • none
  • none
  • none
Z 5'-R(P*UP*UP*CP*U)-3' (2F4V:Z)
  • none
  • none
  • none
B 30S ribosomal protein S2 (2F4V:B)
C 30S ribosomal protein S3 (2F4V:C)
D 30S ribosomal protein S4 (2F4V:D)
E 30S ribosomal protein S5 (2F4V:E)
F 30S ribosomal protein S6 (2F4V:F)
G 30S ribosomal protein S7 (2F4V:G)
H 30S ribosomal protein S8 (2F4V:H)
I 30S ribosomal protein S9 (2F4V:I)
J 30S ribosomal protein S10 (2F4V:J)
K 30S ribosomal protein S11 (2F4V:K)
L 30S ribosomal protein S12 (2F4V:L)
M 30S ribosomal protein S13 (2F4V:M)
N 30S ribosomal protein S14 (2F4V:N)
O 30S ribosomal protein S15 (2F4V:O)
P 30S ribosomal protein S16 (2F4V:P)
Q 30S ribosomal protein S17 (2F4V:Q)
R 30S ribosomal protein S18 (2F4V:R)
S 30S ribosomal protein S19 (2F4V:S)
T 30S ribosomal protein S20 (2F4V:T)