Iron in PDB 6d03: Cryo-Em Structure of A Plasmodium Vivax Invasion Complex Essential For Entry Into Human Reticulocytes; One Molecule of Parasite Ligand.

The structure of Cryo-Em Structure of A Plasmodium Vivax Invasion Complex Essential For Entry Into Human Reticulocytes; One Molecule of Parasite Ligand. also contains other interesting chemical elements:

Calcium

(Ca)

2 atoms

The binding sites of Iron atom in the Cryo-Em Structure of A Plasmodium Vivax Invasion Complex Essential For Entry Into Human Reticulocytes; One Molecule of Parasite Ligand. (pdb code 6d03). This binding sites where shown within 5.0 Angstroms radius around Iron atom.
In total 4 binding sites of Iron where determined in the Cryo-Em Structure of A Plasmodium Vivax Invasion Complex Essential For Entry Into Human Reticulocytes; One Molecule of Parasite Ligand., PDB code: 6d03:
Jump to Iron binding site number: 1; 2; 3; 4;

Iron binding site 1 out of 4 in the Cryo-Em Structure of A Plasmodium Vivax Invasion Complex Essential For Entry Into Human Reticulocytes; One Molecule of Parasite Ligand.


Mono view


Stereo pair view

A full contact list of Iron with other atoms in the Fe binding site number 1 of Cryo-Em Structure of A Plasmodium Vivax Invasion Complex Essential For Entry Into Human Reticulocytes; One Molecule of Parasite Ligand. within 5.0Å range: probe atom residue distance (Å) B Occ C:Fe701 b:47.4 occ:1.00 O1 C:CO3702 2.0 41.0 1.0 OH C:TYR517 2.1 40.9 1.0 NE2 C:HIS585 2.3 31.7 1.0 O2 C:CO3702 2.3 41.0 1.0 C C:CO3702 2.3 41.0 1.0 OH C:TYR426 2.5 41.8 1.0 CE1 C:HIS585 2.8 31.7 1.0 CZ C:TYR517 3.3 40.9 1.0 O3 C:CO3702 3.4 41.0 1.0 CD2 C:HIS585 3.4 31.7 1.0 CB C:ASP392 3.5 32.4 1.0 OD2 C:ASP392 3.6 32.4 1.0 NH2 C:ARG456 3.7 37.6 1.0 CZ C:TYR426 3.7 41.8 1.0 CG C:ASP392 4.0 32.4 1.0 ND1 C:HIS585 4.0 31.7 1.0 CE1 C:TYR517 4.1 40.9 1.0 CE2 C:TYR517 4.1 40.9 1.0 OG1 C:THR457 4.3 43.7 1.0 CG C:HIS585 4.3 31.7 1.0 NH2 C:ARG632 4.4 35.8 1.0 CZ C:ARG456 4.4 37.6 1.0 CE2 C:TYR426 4.5 41.8 1.0 NE C:ARG456 4.6 37.6 1.0 CE1 C:TYR426 4.6 41.8 1.0 CA C:ASP392 4.8 32.4 1.0

Iron binding site 2 out of 4 in the Cryo-Em Structure of A Plasmodium Vivax Invasion Complex Essential For Entry Into Human Reticulocytes; One Molecule of Parasite Ligand.


Mono view


Stereo pair view

A full contact list of Iron with other atoms in the Fe binding site number 2 of Cryo-Em Structure of A Plasmodium Vivax Invasion Complex Essential For Entry Into Human Reticulocytes; One Molecule of Parasite Ligand. within 5.0Å range: probe atom residue distance (Å) B Occ C:Fe703 b:24.7 occ:1.00 O1 C:CO3704 2.0 22.7 1.0 OH C:TYR95 2.0 24.8 1.0 NE2 C:HIS249 2.1 19.8 1.0 OH C:TYR188 2.1 29.5 1.0 CE1 C:HIS249 3.0 19.8 1.0 CD2 C:HIS249 3.1 19.8 1.0 OD2 C:ASP63 3.1 17.8 1.0 C C:CO3704 3.2 22.7 1.0 CZ C:TYR95 3.2 24.8 1.0 CG C:ASP63 3.3 17.8 1.0 CZ C:TYR188 3.4 29.5 1.0 OG C:SER125 3.5 19.6 1.0 O2 C:CO3704 3.7 22.7 1.0 OD1 C:ASP63 3.8 17.8 1.0 CB C:ASP63 3.8 17.8 1.0 CE2 C:TYR95 3.9 24.8 1.0 CE1 C:TYR95 4.1 24.8 1.0 ND1 C:HIS249 4.1 19.8 1.0 O3 C:CO3704 4.2 22.7 1.0 CG C:HIS249 4.2 19.8 1.0 CE2 C:TYR188 4.3 29.5 1.0 CE1 C:TYR188 4.3 29.5 1.0 N C:ALA126 4.6 21.4 1.0 CB C:ALA126 4.7 21.4 1.0 CA C:ASP63 4.8 17.8 1.0 CB C:SER125 4.8 19.6 1.0 NH2 C:ARG124 5.0 18.9 1.0 N C:SER125 5.0 19.6 1.0

Iron binding site 3 out of 4 in the Cryo-Em Structure of A Plasmodium Vivax Invasion Complex Essential For Entry Into Human Reticulocytes; One Molecule of Parasite Ligand.


Mono view


Stereo pair view

A full contact list of Iron with other atoms in the Fe binding site number 3 of Cryo-Em Structure of A Plasmodium Vivax Invasion Complex Essential For Entry Into Human Reticulocytes; One Molecule of Parasite Ligand. within 5.0Å range: probe atom residue distance (Å) B Occ D:Fe701 b:38.0 occ:1.00 OH D:TYR426 2.1 32.2 1.0 OH D:TYR517 2.1 30.7 1.0 O2 D:CO3702 2.1 26.9 1.0 NE2 D:HIS585 2.2 26.1 1.0 NH1 D:ARG632 2.2 31.3 1.0 C D:CO3702 2.2 26.9 1.0 O1 D:CO3702 2.7 26.9 1.0 O3 D:CO3702 2.7 26.9 1.0 CE1 D:HIS585 2.9 26.1 1.0 CZ D:TYR426 2.9 32.2 1.0 CD2 D:HIS585 3.1 26.1 1.0 CZ D:ARG632 3.4 31.3 1.0 CZ D:TYR517 3.4 30.7 1.0 CE1 D:TYR426 3.6 32.2 1.0 CE2 D:TYR426 3.7 32.2 1.0 ND1 D:HIS585 3.9 26.1 1.0 NE D:ARG632 4.0 31.3 1.0 CG D:HIS585 4.0 26.1 1.0 CE2 D:TYR517 4.2 30.7 1.0 OG1 D:THR457 4.3 28.7 1.0 CE1 D:TYR517 4.3 30.7 1.0 NH2 D:ARG632 4.4 31.3 1.0 OD1 D:ASP392 4.5 20.6 1.0 CD1 D:TYR426 4.8 32.2 1.0 CD2 D:TYR426 4.9 32.2 1.0 CG D:ASP392 5.0 20.6 1.0

Iron binding site 4 out of 4 in the Cryo-Em Structure of A Plasmodium Vivax Invasion Complex Essential For Entry Into Human Reticulocytes; One Molecule of Parasite Ligand.


Mono view


Stereo pair view

A full contact list of Iron with other atoms in the Fe binding site number 4 of Cryo-Em Structure of A Plasmodium Vivax Invasion Complex Essential For Entry Into Human Reticulocytes; One Molecule of Parasite Ligand. within 5.0Å range: probe atom residue distance (Å) B Occ D:Fe703 b:34.9 occ:1.00 OD1 D:ASP63 2.0 19.0 1.0 O3 D:CO3704 2.0 26.4 1.0 OH D:TYR188 2.0 34.5 1.0 OH D:TYR95 2.1 24.4 1.0 CE1 D:HIS249 2.2 21.0 1.0 NE2 D:HIS249 2.5 21.0 1.0 O2 D:CO3704 2.6 26.4 1.0 C D:CO3704 2.7 26.4 1.0 CZ D:TYR95 3.0 24.4 1.0 CG D:ASP63 3.2 19.0 1.0 CZ D:TYR188 3.3 34.5 1.0 ND1 D:HIS249 3.3 21.0 1.0 CE2 D:TYR95 3.5 24.4 1.0 OG D:SER125 3.6 23.7 1.0 CD2 D:HIS249 3.7 21.0 1.0 OD2 D:ASP63 3.9 19.0 1.0 O1 D:CO3704 3.9 26.4 1.0 CE1 D:TYR95 4.0 24.4 1.0 CE1 D:TYR188 4.0 34.5 1.0 CG D:HIS249 4.1 21.0 1.0 CE2 D:TYR188 4.2 34.5 1.0 CB D:ASP63 4.3 19.0 1.0 NH2 D:ARG124 4.6 22.4 1.0 CD2 D:TYR95 4.7 24.4 1.0 CB D:SER125 4.9 23.7 1.0 CA D:ASP63 4.9 19.0 1.0 N D:ALA126 4.9 23.6 1.0 N D:SER125 5.0 23.7 1.0

J.Gruszczyk, R.K.Huang, L.J.Chan, S.Menant, C.Hong, J.M.Murphy, Y.F.Mok, M.D.W.Griffin, R.D.Pearson, W.Wong, A.F.Cowman, Z.Yu, W.H.Tham. Cryo-Em Structure of An Essential Plasmodium Vivax Invasion Complex. Nature V. 559 135 2018.
ISSN: ISSN 0028-0836
PubMed: 29950717
DOI: 10.1038/S41586-018-0249-1