Domain ID e1yjnB1

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  • A: beta barrels
  • X: cradle loop barrel
  • H: RIFT-related
  • T: Alanine racemase-C
  • F: Ribosomal_L3
UID: 000021742
Type: Automatic domain
Parent: e1vqoB1
Range: B:1-337
Ligands: CL MG NA
PDB: 1yjn
PDB Description: 50S ribosomal protein L3P
UniProt: P20279
Hsap BLAST neighbor: P39023
Species: Haloarcula marismortui

Structure of domain e1yjnB1

Domains in the same chain:

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e1yjnB1 B:1-337 cradle loop barrel RIFT-related Alanine racemase-C

Domains in the same PDB:

e1yjn11 1:1-56 Rubredoxin-like Rubredoxin-related Rubredoxin-related
e1yjn21 2:1-49 Ribosomal protein L39e Ribosomal protein L39e Ribosomal protein L39e
e1yjn31 3:1-92 Rubredoxin-like Rubredoxin-related Rubredoxin-related
e1yjnA1 A:1-90 OB-fold Nucleic acid-binding proteins Nucleic acid-binding proteins
e1yjnA2 A:91-237 SH3 SH3 SH3
e1yjnB1 B:1-337 cradle loop barrel RIFT-related Alanine racemase-C
e1yjnC1 C:1-246 Ribosomal protein L4 Ribosomal protein L4 Ribosomal protein L4
e1yjnD1 D:10-174 Ribosomal protein L5 Ribosomal protein L5 Ribosomal protein L5
e1yjnE1 E:1-79 Ribosomal protein L6 Ribosomal protein L6 Ribosomal protein L6
e1yjnE2 E:80-172 Ribosomal protein L6 Ribosomal protein L6 Ribosomal protein L6
e1yjnF1 F:1-119 Bacillus chorismate mutase-like L30e-like L30e-like
e1yjnG1 G:12-29,G:63-73 Alpha-beta plaits Ribosomal protein L10-like Ribosomal protein L10-like
e1yjnH1 H:4-166 alpha/beta-Hammerhead/Barrel-sandwich hybrid alpha/beta-Hammerhead/Barrel-sandwich hybrid Ribosomal protein L10e
e1yjnI1 I:66-135 HTH HTH Ribosomal protein L11, C-terminal domain
e1yjnJ1 J:9-145 Ribosomal protein L13/L15p/L18e/L32e Ribosomal protein L13 and L16-A Ribosomal protein L13 and L16-A
e1yjnK1 K:1-132 Ribosomal protein L14-like Ribosomal protein L14-related Ribosomal protein L14-related
e1yjnL1 L:1-150 Ribosomal protein L13/L15p/L18e/L32e Ribosomal proteins L15p and L18e Ribosomal proteins L15p and L18e
e1yjnM1 M:1-193 Alpha-beta plaits Ribosomal proteins S24e, L23 and L15e Ribosomal proteins S24e, L23 and L15e
e1yjnN1 N:1-186 Ribonuclease H-like Ribonuclease H-like Ribonuclease H-like
e1yjnO1 O:1-115 Ribosomal protein L13/L15p/L18e/L32e Ribosomal proteins L15p and L18e Ribosomal proteins L15p and L18e
e1yjnP1 P:1-54 Ribosomal protein L19 (L19e) N-terminal domain Ribosomal protein L19 (L19e) N-terminal domain Ribosomal protein L19 (L19e) N-terminal domain
e1yjnP2 P:55-142 Ribosomal protein L19 (L19e) C-terminal domain Ribosomal protein L19 (L19e) C-terminal domain Ribosomal protein L19 (L19e) C-terminal domain
e1yjnQ1 Q:1-95 SH3 SH3 SH3
e1yjnR1 R:1-150 Enolase-N/ribosomal protein Ribosomal protein L22 Ribosomal protein L22
e1yjnS1 S:1-81 Alpha-beta plaits Ribosomal proteins S24e, L23 and L15e Ribosomal proteins S24e, L23 and L15e
e1yjnT1 T:1-119 SH3 SH3 SH3
e1yjnU1 U:4-56 Glucocorticoid receptor-like LIM domain-like LIM domain-like
e1yjnV1 V:1-65 Long alpha-hairpin Ribosomal protein L29 (L29p) Ribosomal protein L29 (L29p)
e1yjnW1 W:1-154 Ribosomal protein L30p/L7e Ribosomal protein L30p/L7e Ribosomal protein L30p/L7e
e1yjnX1 X:7-88 Ribosomal protein L31e-like Ribosomal protein L31e/gp120 outer domain Ribosomal protein L31e/gp120 outer domain
e1yjnY1 Y:95-236 Ribosomal protein L13/L15p/L18e/L32e Ribosomal protein L32e Ribosomal protein L32e
e1yjnZ1 Z:10-82 Rubredoxin-like Rubredoxin-related Rubredoxin-related

Structural contacts of domain e1yjnB1 of H-group "RIFT-related":

The domain and its neighboring domains (both within the asymmetric unit and to crystallographic symmetry mates) are represented by spheres and linked by lines. Distances between the center of the domain and interfaces are shown for each contact.

Domain IDSymmetry operatorH-groupVisualization
e1yjnK1 B:X,Y,Z->K:x,y,z Ribosomal protein L14-related Interaction Interface Pymol
e1yjnJ1 B:X,Y,Z->J:x,y,z Ribosomal protein L13 and L16-A Interaction Interface Pymol
e1yjnU1 B:X,Y,Z->U:x,y,z LIM domain-like Interaction Interface Pymol
e1yjnD1 B:-X+1/2,Y-1/2,-Z+1/2->D:x,y,z Ribosomal protein L5 Interaction Interface Pymol