Iron in PDB 6d04: Cryo-Em Structure of A Plasmodium Vivax Invasion Complex Essential For Entry Into Human Reticulocytes; Two Molecules of Parasite Ligand, Subclass 1.

The structure of Cryo-Em Structure of A Plasmodium Vivax Invasion Complex Essential For Entry Into Human Reticulocytes; Two Molecules of Parasite Ligand, Subclass 1. 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; Two Molecules of Parasite Ligand, Subclass 1. (pdb code 6d04). 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; Two Molecules of Parasite Ligand, Subclass 1., PDB code: 6d04:
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; Two Molecules of Parasite Ligand, Subclass 1.


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; Two Molecules of Parasite Ligand, Subclass 1. within 5.0Å range: probe atom residue distance (Å) B Occ C:Fe701 b:73.1 occ:1.00 OH C:TYR517 2.0 64.0 1.0 OH C:TYR426 2.1 68.2 1.0 O3 C:CO3702 2.1 67.4 1.0 O1 C:CO3702 2.2 67.4 1.0 NE2 C:HIS585 2.2 57.4 1.0 C C:CO3702 2.5 67.4 1.0 CE1 C:HIS585 3.1 57.4 1.0 CZ C:TYR426 3.2 68.2 1.0 CD2 C:HIS585 3.2 57.4 1.0 CZ C:TYR517 3.3 64.0 1.0 CB C:ASP392 3.6 55.4 1.0 O2 C:CO3702 3.8 67.4 1.0 OG1 C:THR457 3.9 67.8 1.0 NH2 C:ARG456 3.9 62.0 1.0 CE2 C:TYR426 3.9 68.2 1.0 CE1 C:TYR426 4.0 68.2 1.0 NH2 C:ARG632 4.0 60.0 1.0 CE1 C:TYR517 4.0 64.0 1.0 OD2 C:ASP392 4.1 55.4 1.0 ND1 C:HIS585 4.2 57.4 1.0 CG C:HIS585 4.3 57.4 1.0 CE2 C:TYR517 4.3 64.0 1.0 CG C:ASP392 4.4 55.4 1.0 CZ C:ARG456 4.7 62.0 1.0 NE C:ARG456 4.8 62.0 1.0 CA C:ASP392 4.8 55.4 1.0 CG2 C:THR457 4.9 67.8 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; Two Molecules of Parasite Ligand, Subclass 1.


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; Two Molecules of Parasite Ligand, Subclass 1. within 5.0Å range: probe atom residue distance (Å) B Occ C:Fe703 b:60.0 occ:1.00 O3 C:CO3704 2.0 47.9 1.0 OH C:TYR95 2.0 47.1 1.0 OD1 C:ASP63 2.0 39.0 1.0 OH C:TYR188 2.0 56.4 1.0 CE1 C:HIS249 2.3 39.9 1.0 NE2 C:HIS249 2.5 39.9 1.0 CG C:ASP63 2.9 39.0 1.0 CZ C:TYR95 3.1 47.1 1.0 C C:CO3704 3.1 47.9 1.0 OD2 C:ASP63 3.2 39.0 1.0 ND1 C:HIS249 3.2 39.9 1.0 CZ C:TYR188 3.3 56.4 1.0 O2 C:CO3704 3.5 47.9 1.0 CD2 C:HIS249 3.6 39.9 1.0 CE1 C:TYR95 3.9 47.1 1.0 OG C:SER125 3.9 42.4 1.0 CG C:HIS249 4.0 39.9 1.0 CE2 C:TYR95 4.0 47.1 1.0 CE2 C:TYR188 4.0 56.4 1.0 CE1 C:TYR188 4.2 56.4 1.0 O1 C:CO3704 4.2 47.9 1.0 CB C:ASP63 4.3 39.0 1.0 NH2 C:ARG124 4.7 42.5 1.0 CA C:ASP63 4.9 39.0 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; Two Molecules of Parasite Ligand, Subclass 1.


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; Two Molecules of Parasite Ligand, Subclass 1. within 5.0Å range: probe atom residue distance (Å) B Occ D:Fe701 b:71.4 occ:1.00 OH D:TYR517 2.1 63.9 1.0 OH D:TYR426 2.1 68.0 1.0 O3 D:CO3702 2.1 67.8 1.0 O1 D:CO3702 2.1 67.8 1.0 NE2 D:HIS585 2.2 56.3 1.0 C D:CO3702 2.5 67.8 1.0 CE1 D:HIS585 3.1 56.3 1.0 CD2 D:HIS585 3.2 56.3 1.0 CZ D:TYR426 3.2 68.0 1.0 CZ D:TYR517 3.3 63.9 1.0 CB D:ASP392 3.6 55.1 1.0 O2 D:CO3702 3.8 67.8 1.0 OG1 D:THR457 3.9 67.5 1.0 NH2 D:ARG456 3.9 61.7 1.0 CE2 D:TYR426 4.0 68.0 1.0 CE1 D:TYR517 4.0 63.9 1.0 CE1 D:TYR426 4.0 68.0 1.0 NH2 D:ARG632 4.0 60.0 1.0 OD2 D:ASP392 4.1 55.1 1.0 ND1 D:HIS585 4.2 56.3 1.0 CG D:HIS585 4.3 56.3 1.0 CE2 D:TYR517 4.3 63.9 1.0 CG D:ASP392 4.4 55.1 1.0 CZ D:ARG456 4.7 61.7 1.0 NE D:ARG456 4.7 61.7 1.0 CA D:ASP392 4.8 55.1 1.0 CG2 D:THR457 4.9 67.5 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; Two Molecules of Parasite Ligand, Subclass 1.


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; Two Molecules of Parasite Ligand, Subclass 1. within 5.0Å range: probe atom residue distance (Å) B Occ D:Fe703 b:61.1 occ:1.00 O3 D:CO3704 2.0 48.1 1.0 OD1 D:ASP63 2.0 38.8 1.0 OH D:TYR95 2.0 46.2 1.0 OH D:TYR188 2.1 55.3 1.0 CE1 D:HIS249 2.2 39.2 1.0 NE2 D:HIS249 2.5 39.2 1.0 CG D:ASP63 2.9 38.8 1.0 C D:CO3704 3.1 48.1 1.0 CZ D:TYR95 3.1 46.2 1.0 OD2 D:ASP63 3.2 38.8 1.0 ND1 D:HIS249 3.2 39.2 1.0 CZ D:TYR188 3.3 55.3 1.0 O2 D:CO3704 3.5 48.1 1.0 CD2 D:HIS249 3.6 39.2 1.0 CE1 D:TYR95 3.9 46.2 1.0 OG D:SER125 3.9 42.9 1.0 CG D:HIS249 4.0 39.2 1.0 CE2 D:TYR95 4.0 46.2 1.0 CE2 D:TYR188 4.0 55.3 1.0 CE1 D:TYR188 4.2 55.3 1.0 O1 D:CO3704 4.2 48.1 1.0 CB D:ASP63 4.3 38.8 1.0 NH2 D:ARG124 4.7 42.0 1.0 CA D:ASP63 4.8 38.8 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