Manganese in PDB 4rb3: Crystal Structure of Magnetospirillum Gryphiswaldense Msr-1 Fur-MN2+- FEOAB1 Operator

The structure of Crystal Structure of Magnetospirillum Gryphiswaldense Msr-1 Fur-MN2+- FEOAB1 Operator, PDB code: 4rb3 was solved by Z.Deng, Z.Chen, with X-Ray Crystallography technique. A brief refinement statistics is given in the table below:

Resolution Low / High (Å)	44.56 / 2.60
Space group	C 1 2 1
Cell size a, b, c (Å), α, β, γ (°)	93.995, 68.642, 83.995, 90.00, 108.70, 90.00
R / Rfree (%)	23.2 / 26.5

The binding sites of Manganese atom in the Crystal Structure of Magnetospirillum Gryphiswaldense Msr-1 Fur-MN2+- FEOAB1 Operator (pdb code 4rb3). This binding sites where shown within 5.0 Angstroms radius around Manganese atom.
In total 4 binding sites of Manganese where determined in the Crystal Structure of Magnetospirillum Gryphiswaldense Msr-1 Fur-MN2+- FEOAB1 Operator, PDB code: 4rb3:
Jump to Manganese binding site number: 1; 2; 3; 4;

Manganese binding site 1 out of 4 in the Crystal Structure of Magnetospirillum Gryphiswaldense Msr-1 Fur-MN2+- FEOAB1 Operator


Mono view


Stereo pair view

A full contact list of Manganese with other atoms in the Mn binding site number 1 of Crystal Structure of Magnetospirillum Gryphiswaldense Msr-1 Fur-MN2+- FEOAB1 Operator within 5.0Å range: probe atom residue distance (Å) B Occ C:Mn200 b:54.8 occ:1.00 OE1 C:GLU108 2.0 60.3 1.0 O C:HOH306 2.0 36.8 1.0 NE2 C:HIS125 2.1 55.2 1.0 NE2 C:HIS87 2.2 59.1 1.0 OD2 C:ASP89 2.4 58.1 1.0 OD1 C:ASP89 2.5 58.9 1.0 CG C:ASP89 2.7 59.8 1.0 CE1 C:HIS125 2.8 56.6 1.0 CD C:GLU108 2.9 62.3 1.0 OE2 C:GLU108 3.1 62.3 1.0 CE1 C:HIS87 3.1 60.1 1.0 CD2 C:HIS87 3.2 63.8 1.0 CD2 C:HIS125 3.3 56.8 1.0 ND1 C:HIS125 4.0 56.3 1.0 CB C:ASP89 4.2 59.4 1.0 ND1 C:HIS87 4.3 62.8 1.0 CG C:HIS125 4.3 58.0 1.0 CG C:GLU108 4.3 65.8 1.0 CG C:HIS87 4.3 65.2 1.0 NE2 C:GLN111 4.4 56.8 1.0 O C:HOH303 4.5 38.2 1.0 OE1 C:GLN111 4.6 57.5 1.0 N C:ASP89 4.8 60.5 1.0 CA C:ASP89 4.9 58.9 1.0 CD C:GLN111 4.9 57.6 1.0 CB C:LEU127 4.9 53.1 1.0 C C:HIS88 4.9 63.1 1.0

Manganese binding site 2 out of 4 in the Crystal Structure of Magnetospirillum Gryphiswaldense Msr-1 Fur-MN2+- FEOAB1 Operator


Mono view


Stereo pair view

A full contact list of Manganese with other atoms in the Mn binding site number 2 of Crystal Structure of Magnetospirillum Gryphiswaldense Msr-1 Fur-MN2+- FEOAB1 Operator within 5.0Å range: probe atom residue distance (Å) B Occ C:Mn201 b:60.2 occ:1.00 NE2 C:HIS88 2.2 66.4 1.0 OE2 C:GLU101 2.3 65.4 1.0 NE2 C:HIS90 2.3 51.4 1.0 OE2 C:GLU81 2.3 56.8 1.0 OE1 C:GLU81 2.4 55.1 1.0 NE2 C:HIS33 2.4 63.4 1.0 CD C:GLU81 2.7 57.0 1.0 CD C:GLU101 3.0 63.4 1.0 CE1 C:HIS90 3.1 52.0 1.0 CE1 C:HIS88 3.1 67.1 1.0 CD2 C:HIS88 3.2 67.6 1.0 CD2 C:HIS33 3.4 64.1 1.0 CD2 C:HIS90 3.4 51.2 1.0 CG C:GLU101 3.4 60.0 1.0 CE1 C:HIS33 3.4 66.7 1.0 OE1 C:GLU101 3.9 67.3 1.0 CG C:GLU81 4.2 57.2 1.0 ND1 C:HIS88 4.3 69.1 1.0 CG C:HIS88 4.3 66.9 1.0 ND1 C:HIS90 4.3 52.2 1.0 CG C:HIS90 4.5 51.6 1.0 CG C:HIS33 4.5 65.6 1.0 ND1 C:HIS33 4.5 67.7 1.0 NE2 C:HIS71 4.7 64.5 1.0 CB C:GLU101 4.8 57.5 1.0 CB C:GLU81 4.9 56.5 1.0

Manganese binding site 3 out of 4 in the Crystal Structure of Magnetospirillum Gryphiswaldense Msr-1 Fur-MN2+- FEOAB1 Operator


Mono view


Stereo pair view

A full contact list of Manganese with other atoms in the Mn binding site number 3 of Crystal Structure of Magnetospirillum Gryphiswaldense Msr-1 Fur-MN2+- FEOAB1 Operator within 5.0Å range: probe atom residue distance (Å) B Occ D:Mn201 b:54.2 occ:1.00 OD1 D:ASP89 2.0 54.6 1.0 OE1 D:GLU108 2.0 54.4 1.0 NE2 D:HIS87 2.1 54.5 1.0 O D:HOH304 2.1 48.2 1.0 NE2 D:HIS125 2.2 54.0 1.0 OD2 D:ASP89 2.4 56.1 1.0 CG D:ASP89 2.5 57.8 1.0 CE1 D:HIS87 2.9 53.5 1.0 CE1 D:HIS125 3.1 53.1 1.0 CD D:GLU108 3.1 61.4 1.0 CD2 D:HIS87 3.2 55.6 1.0 CD2 D:HIS125 3.3 53.7 1.0 OE2 D:GLU108 3.6 68.7 1.0 CB D:ASP89 4.0 56.6 1.0 ND1 D:HIS87 4.1 53.1 1.0 CG D:HIS87 4.3 54.4 1.0 ND1 D:HIS125 4.3 56.5 1.0 O D:HOH306 4.3 58.9 1.0 CG D:GLU108 4.3 60.1 1.0 CG D:HIS125 4.4 56.9 1.0 NE2 D:GLN111 4.5 54.3 1.0 N D:ASP89 4.6 55.6 1.0 OE1 D:GLN111 4.7 54.7 1.0 CA D:ASP89 4.8 56.8 1.0 C D:HIS88 4.8 53.1 1.0 CB D:LEU127 5.0 54.1 1.0 O D:HIS88 5.0 53.0 1.0

Manganese binding site 4 out of 4 in the Crystal Structure of Magnetospirillum Gryphiswaldense Msr-1 Fur-MN2+- FEOAB1 Operator


Mono view


Stereo pair view

A full contact list of Manganese with other atoms in the Mn binding site number 4 of Crystal Structure of Magnetospirillum Gryphiswaldense Msr-1 Fur-MN2+- FEOAB1 Operator within 5.0Å range: probe atom residue distance (Å) B Occ D:Mn202 b:62.2 occ:1.00 NE2 D:HIS88 2.1 47.4 1.0 NE2 D:HIS33 2.3 65.3 1.0 NE2 D:HIS90 2.3 57.0 1.0 OE1 D:GLU81 2.4 64.0 1.0 OE2 D:GLU101 2.6 75.8 1.0 OE2 D:GLU81 2.6 60.6 1.0 CD D:GLU81 2.8 63.0 1.0 CE1 D:HIS33 2.9 68.5 1.0 CE1 D:HIS88 2.9 48.5 1.0 CE1 D:HIS90 3.2 57.0 1.0 CD2 D:HIS90 3.2 56.2 1.0 CD2 D:HIS88 3.3 49.6 1.0 CD D:GLU101 3.3 72.9 1.0 CG D:GLU101 3.5 67.4 1.0 CD2 D:HIS33 3.5 69.2 1.0 ND1 D:HIS88 4.1 49.1 1.0 ND1 D:HIS33 4.2 68.5 1.0 CG D:HIS88 4.3 50.5 1.0 CG D:GLU81 4.3 61.9 1.0 ND1 D:HIS90 4.3 56.0 1.0 OE1 D:GLU101 4.4 73.6 1.0 CG D:HIS90 4.4 55.6 1.0 CG D:HIS33 4.5 67.6 1.0 NE2 D:HIS71 4.5 61.7 1.0 CB D:GLU101 4.7 64.6 1.0 CB D:GLU81 4.9 61.7 1.0

Z.Deng, Q.Wang, Z.Liu, M.Zhang, A.C.Machado, T.P.Chiu, C.Feng, Q.Zhang, L.Yu, L.Qi, J.Zheng, X.Wang, X.Huo, X.Qi, X.Li, W.Wu, R.Rohs, Y.Li, Z.Chen. Mechanistic Insights Into Metal Ion Activation and Operator Recognition By the Ferric Uptake Regulator. Nat Commun V. 6 7642.
ISSN: ESSN 2041-1723
PubMed: 26134419
DOI: 10.1038/NCOMMS8642