2GTL Oxygen Storage Transport date Apr 28, 2006
title Lumbricus Erythrocruorin At 3.5a Resolution
authors W.E.Royer Jr., H.Sharma, K.Strand, J.E.Knapp, B.Bhyravbhatla
compound source
Molecule: Extracellular Globin 4
Chain: A, E, I
Synonym: Globin Iv, Erythrocruorin, Globin A
 Organism_scientific: Lumbricus Terrestris
Organism_common: Common Earthworm
Organism_taxid: 6398

Molecule: Extracellular Globin 2
Chain: B, F, J
Synonym: Globin II, Erythrocruorin, Globin Aiii, Globin B
Organism_scientific: Lumbricus Terrestris
Organism_common: Common Earthworm
Organism_taxid: 6398

Molecule: Extracellular Globin-3
Chain: C, G, K
Synonym: Extracellular Globin III, Erythrocruorin, Globin C;
Organism_scientific: Lumbricus Terrestris
Organism_common: Common Earthworm
Organism_taxid: 6398

Molecule: Hemoglobin Chain D1
Chain: D, H, L
Organism_scientific: Lumbricus Terrestris
Organism_common: Common Earthworm
Organism_taxid: 6398

Molecule: Hemoglobin Linker Chain L1
Chain: M
Organism_scientific: Lumbricus Terrestris
Organism_common: Common Earthworm
Organism_taxid: 6398

Molecule: Extracellular Hemoglobin Linker L2 Subunit
Chain: N
Organism_scientific: Lumbricus Terrestris
Organism_common: Common Earthworm
Organism_taxid: 6398

Molecule: Extracellular Hemoglobin Linker L3 Subunit
Chain: O
Organism_scientific: Lumbricus Terrestris
Organism_common: Common Earthworm
Organism_taxid: 6398
symmetry Space Group: P 1
R_factor 0.288 R_Free 0.297
crystal
cell
length a length b length c angle alpha angle beta angle gamma
176.080 257.960 436.530 89.69 97.15 90.98
method X-Ray Diffractionresolution 3.50 Å
ligand CA, CMO, HEM, ZN enzyme
note 2GTL (Molecule of the Month:pdb159)is a representative structure
Gene
Ontology
ChainFunctionProcessComponent
A, K, E, C, I, G


F, J, B


H, D, L


O, M


Primary referenceLumbricus erythrocruorin at 3.5 A resolution: architecture of a megadalton respiratory complex., Royer WE Jr, Sharma H, Strand K, Knapp JE, Bhyravbhatla B, Structure. 2006 Jul;14(7):1167-77. PMID:16843898
Data retrieval
  • Asymmetric unit, PDB entry: [header only] [complete with coordinates] (383 Kb) [Save to disk]
  • Biological Unit Coordinates (2gtl.pdb1.gz) 4327 Kb
  • LPC: Ligand-Protein Contacts for 2GTL
  • CSU: Contacts of Structural Units for 2GTL
  • Likely Quarternary Molecular Structure file(s) for 2GTL
  • Structure Factors (13551 Kb)
  • Retrieve 2GTL in mmCIF format [Save to disk]
  • SEQRES to COORDINATES correlation for 2GTL from S2C, [Save to disk]
  • Re-refined 2gtl structure from PDB_REDO, a databank with updated and optimised macromolecular X-ray diffraction structure models
    • View 2GTL in 3D
  • Proteopedia, because life has more than 2D.
  • On Jmol, a nice Rasmol like molecule viewer. This is good for easiest viewing of basic structure.
  • On FirstGlance, an excellent tool for a guided tour on the structure components, by E. Martz.
    • Visual 3D analysis of 2GTL
  • Ramachandran plot from PDBSum
    • Structure-derived information
  • Dipole moment, from Dipole Server at Weizmann Institute
  • 3D motif for 2GTL, from MSDmotif at EBI
    • Sequence-derived information
  • View one-letter amino acid or nucleotide sequence for each chain: [2gtl_O] [2gtl_L] [2gtl_E] [2gtl_F] [2gtl_I] [2gtl_J] [2gtl_A] [2gtl_C] [2gtl_B] [2gtl_D] [2gtl_H] [2gtl] [2gtl_N] [2gtl_M] [2gtl_G] [2gtl_K]
  • SWISS-PROT database: [P02218] [P11069] [P13579] [O61233] [Q2I742] [Q2I743] [Q9GV76]
  • Domain organization of [GLB2_LUMTE] [GLB3_LUMTE] [GLB4_LUMTE] [O61233_LUMTE] [Q2I742_LUMTE] [Q2I743_LUMTE] [Q9GV76_LUMTE] by SWISSPFAM
  • Domain found in 2GTL: [LDLa ] by SMART
    • Other resources with information on 2GTL
  • Community annotation for 2GTL at PDBWiki (http://pdbwiki.org)
  • MMDB (Entrez's Structure Database)
    • Movements, Movies and Images
  • Images from IMB Jena Image Library of Biological Macromolecules.

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