Manganese in PDB 8jyj: Crystal Structure of Engineered Hiv-1 Reverse Transcriptase Rnase H Domain Complexed with Laccaic Acid A

All present enzymatic activity of Crystal Structure of Engineered Hiv-1 Reverse Transcriptase Rnase H Domain Complexed with Laccaic Acid A:
3.1.26.13;

The structure of Crystal Structure of Engineered Hiv-1 Reverse Transcriptase Rnase H Domain Complexed with Laccaic Acid A, PDB code: 8jyj was solved by Y.Ito, H.Lu, M.Kitajima, H.Ishikawa, Y.Nakata, Y.Iwatani, T.Hoshino, with X-Ray Crystallography technique. A brief refinement statistics is given in the table below:

Resolution Low / High (Å)	43.72 / 2.01
Space group	P 41 21 2
Cell size a, b, c (Å), α, β, γ (°)	61.836, 61.836, 83.624, 90, 90, 90
R / Rfree (%)	24.3 / 29.8

The structure of Crystal Structure of Engineered Hiv-1 Reverse Transcriptase Rnase H Domain Complexed with Laccaic Acid A also contains other interesting chemical elements:

Zinc

(Zn)

2 atoms

The binding sites of Manganese atom in the Crystal Structure of Engineered Hiv-1 Reverse Transcriptase Rnase H Domain Complexed with Laccaic Acid A (pdb code 8jyj). This binding sites where shown within 5.0 Angstroms radius around Manganese atom.
In total 2 binding sites of Manganese where determined in the Crystal Structure of Engineered Hiv-1 Reverse Transcriptase Rnase H Domain Complexed with Laccaic Acid A, PDB code: 8jyj:
Jump to Manganese binding site number: 1; 2;

Manganese binding site 1 out of 2 in the Crystal Structure of Engineered Hiv-1 Reverse Transcriptase Rnase H Domain Complexed with Laccaic Acid A


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 Engineered Hiv-1 Reverse Transcriptase Rnase H Domain Complexed with Laccaic Acid A within 5.0Å range: probe atom residue distance (Å) B Occ A:Mn201 b:109.8 occ:1.00 OAZ A:VA9203 2.0 212.1 1.0 OD1 A:ASP139 2.1 77.8 1.0 OAY A:VA9203 2.1 208.8 1.0 OD2 A:ASP23 2.4 61.2 1.0 CAL A:VA9203 2.6 212.6 1.0 CAK A:VA9203 2.7 211.1 1.0 CG A:ASP139 3.0 86.6 1.0 OD2 A:ASP78 3.2 64.0 1.0 CG A:ASP23 3.3 56.8 1.0 OD1 A:ASP23 3.5 38.7 1.0 CB A:ASP139 3.6 75.0 1.0 MN A:MN202 3.8 46.3 1.0 OD2 A:ASP139 3.9 104.1 1.0 CAM A:VA9203 4.0 225.8 1.0 CAH A:VA9203 4.0 213.4 1.0 CA A:ASP139 4.1 59.9 1.0 CG A:ASP78 4.3 77.1 1.0 CB A:ALA128 4.4 83.6 1.0 CBB A:VA9203 4.4 214.8 1.0 OAX A:VA9203 4.6 207.7 1.0 CB A:ASP23 4.6 41.3 1.0 CBA A:VA9203 4.7 222.6 1.0 ND2 A:ASN135 4.8 49.6 1.0 CAG A:VA9203 4.8 210.0 1.0 OD1 A:ASN135 4.8 48.5 1.0 NH1 A:ARG147 4.8 97.5 1.0 CAN A:VA9203 4.9 235.0 1.0 O A:ASN135 4.9 50.5 1.0 CAI A:VA9203 4.9 231.8 1.0 OD1 A:ASP78 4.9 85.5 1.0

Manganese binding site 2 out of 2 in the Crystal Structure of Engineered Hiv-1 Reverse Transcriptase Rnase H Domain Complexed with Laccaic Acid A


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 Engineered Hiv-1 Reverse Transcriptase Rnase H Domain Complexed with Laccaic Acid A within 5.0Å range: probe atom residue distance (Å) B Occ A:Mn202 b:46.3 occ:1.00 OAX A:VA9203 1.9 207.7 1.0 OD1 A:ASP23 2.0 38.7 1.0 OAY A:VA9203 2.1 208.8 1.0 OE2 A:GLU58 2.1 57.3 1.0 OD1 A:ASP78 2.4 85.5 1.0 CG A:ASP78 2.8 77.1 1.0 OD2 A:ASP78 2.8 64.0 1.0 CAG A:VA9203 2.9 210.0 1.0 CD A:GLU58 2.9 61.1 1.0 OE1 A:GLU58 3.0 51.9 1.0 CAK A:VA9203 3.1 211.1 1.0 CG A:ASP23 3.1 56.8 1.0 CAH A:VA9203 3.4 213.4 1.0 O A:HOH301 3.6 50.2 1.0 O A:GLY24 3.7 54.9 1.0 OD2 A:ASP23 3.7 61.2 1.0 MN A:MN201 3.8 109.8 1.0 N A:GLY24 4.0 49.9 1.0 CAD A:VA9203 4.1 210.7 1.0 CB A:ASP78 4.1 64.7 1.0 CAC A:VA9203 4.3 208.7 1.0 CB A:ASP23 4.3 41.3 1.0 CA A:ASP23 4.3 36.7 1.0 CAL A:VA9203 4.4 212.6 1.0 CG A:GLU58 4.4 35.9 1.0 C A:GLY24 4.6 52.8 1.0 OAZ A:VA9203 4.7 212.1 1.0 C A:ASP23 4.7 54.5 1.0 CAI A:VA9203 4.7 231.8 1.0 CA A:GLY24 4.9 40.6 1.0 CA A:ASP78 5.0 47.9 1.0 C A:ASP78 5.0 53.8 1.0

Y.Ito, H.Lu, M.Kitajima, H.Ishikawa, Y.Nakata, Y.Iwatani, T.Hoshino. Crystal Structure of Engineered Hiv-1 Reverse Transcriptase Rnase H Domain Complexed with Laccaic Acid A To Be Published.