Biological Assembly 1  

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Global Symmetry: Cyclic - C2  (3D View)
Global Stoichiometry: Homo 2-mer - A2 

Biological assembly 1 assigned by authors.

Macromolecule Content

• Total Structure Weight: 18369.84 
• Atom Count: 1292 
• Residue Count: 159 
• Unique protein chains: 1

1HLM

AMINO ACID SEQUENCE OF A GLOBIN FROM THE SEA CUCUMBER CAUDINA (MOLPADIA) ARENICOLA

• DOI: 10.2210/pdb1HLM/pdb

• Classification: OXYGEN TRANSPORT
• Organism(s): Molpadia arenicola


• Deposited: 1994-08-26 Released: 1995-02-07 
• Deposition Author(s): Hackert, M.L., Mitchell, D.T., Ernst, S.R.

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Experimental Data Snapshot

• Method: X-RAY DIFFRACTION
• Resolution: 2.9 Å
• R-Value Work: 0.190 

Literature

Amino acid sequence of a globin from the sea cucumber Caudina (Molpadia) arenicola.

Mauri, F., Omnaas, J., Davidson, L., Whitfill, C., Kitto, G.B.

(1991) Biochim.Biophys.Acta 1078: 63-67

• PubMed: 2049384 


• PubMed Abstract: 
  

Coelomic cells from the sea cucumber Caudina (Molpadia) arenicola contain four major globins, A, B, C and D. The hemoglobins from this organism show unusual ligand-linked dissociation properties. The complete amino acid sequence of the D globin has been established. It is N-acetylated, consists of 158 residues and has a 10 amino acid N-terminal extension similar to that found in some other invertebrate globins. The C. arenicola D globin has an equal sequence identity (28%) with both alpha and beta human globins and as anticipated, is more closely related to these vertebrate proteins than are molluscan globins. The C. arenicola D globin shows a 59% identity with the globin I from the sea cucumber Paracaudina chilensis. The availability of the C. arenicola D globin sequence will aid the X-ray analysis of this protein and facilitate an understanding of the changes in subunit interactions that occur with cooperative ligand binding.

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Related Citations: 

• N-Terminal Substitution of Some Sea Cucumber Hemoglobins
  Kitto, G.B.,Erwin, D.,West, R.,Omnaas, J.
  (1976) COMP.BIOCHEM.PHYSIOL. B: BIOCHEM.MOL.BIOL. 55: 105
• Preliminary Crystallographic Data on Monomeric and Dimeric Hemoglobins from the Sea Cucumber, Molpadia Arenicola
  Carson, W.M.,Bowers, T.R.,Kitto, G.B.,Hackert, M.L.
  (1979) J.Biol.Chem. 254: 7400




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Organizational Affiliation: 

Clayton Foundation Biochemical Institute, Department of Chemistry and Biochemistry, University of Texas, Austin.

Macromolecules

Find similar proteins by: Sequence  |  Structure

Entity ID: 1
Molecule	Chains	Sequence Length	Organism	Details
HEMOGLOBIN (CYANO MET)	A	159	Molpadia arenicola	Mutation(s): 0
Find proteins for P80017 (Molpadia arenicola) Go to UniProtKB:  P80017

Small Molecules

Ligands 2 Unique
ID	Chains	Name / Formula / InChI Key	2D Diagram & Interactions
CYN	A	CYANIDE ION C N XFXPMWWXUTWYJX-UHFFFAOYSA-N
HEM	A	PROTOPORPHYRIN IX CONTAINING FE HEME C34 H32 Fe N4 O4 KABFMIBPWCXCRK-RGGAHWMASA-L

Modified Residues  1 Unique
ID	Chains	Type	Formula	2D Diagram	Parent
ACE	A	NON-POLYMER	C2 H4 O		--

Experimental Data & Validation

Experimental Data

• Method: X-RAY DIFFRACTION
• Resolution: 2.9 Å
• R-Value Work: 0.190 
• Space Group: P 4₁ 2₁ 2

Unit Cell:

Length (Å)	Angle (°)
a = 77.000	α = 90.00
b = 77.000	β = 90.00
c = 61.500	γ = 90.00

Software Package:

Software Name	Purpose
X-PLOR	refinement
X-PLOR	model building
X-PLOR	phasing

Structure Validation

Entry History 

Deposition Data

• Deposited Date: 1994-08-26 
• Released Date: 1995-02-07 
• Deposition Author(s): Hackert, M.L., Mitchell, D.T., Ernst, S.R.

Revision History 

• Version 1.0: 1995-02-07
  Type: Initial release
• Version 1.1: 2008-03-03
  Type: Version format compliance
• Version 1.2: 2011-07-13
  Type: Version format compliance
• Version 1.3: 2017-11-29
  Type: Derived calculations, Other