Magnesium in PDB 5kfp: Human Dna Polymerase Eta-Dna Ternary Complex with Sp-Datp-Alpha-S: Reaction with 20 Mm MG2+ For 600S

Enzymatic activity of Human Dna Polymerase Eta-Dna Ternary Complex with Sp-Datp-Alpha-S: Reaction with 20 Mm MG2+ For 600S

Protein crystallography data

Other elements in 5kfp:

Magnesium Binding Sites:

Magnesium binding site 1 out of 3 in 5kfp

Magnesium Binding Sites List in 5kfp

Magnesium binding site 1 out of 3 in the Human Dna Polymerase Eta-Dna Ternary Complex with Sp-Datp-Alpha-S: Reaction with 20 Mm MG2+ For 600S


Mono view


Stereo pair view

A full contact list of Magnesium with other atoms in the Mg binding site number 1 of Human Dna Polymerase Eta-Dna Ternary Complex with Sp-Datp-Alpha-S: Reaction with 20 Mm MG2+ For 600S within 5.0Å range: probe atom residue distance (Å) B Occ A:Mg501 b:26.4 occ:0.45 OD2 A:ASP13 2.0 26.5 0.6 O A:HOH680 2.2 36.1 1.0 OE2 A:GLU116 2.3 39.7 1.0 OP1 P:AS9 2.4 27.3 0.3 OD1 A:ASP115 2.4 26.2 1.0 O2A A:STP508 2.5 27.4 0.6 O3' P:DT8 2.6 33.4 0.7 O3' P:DT8 2.7 32.7 0.3 MG A:MG504 2.8 26.5 0.5 OD1 A:ASP13 2.8 18.3 0.4 P P:AS9 3.0 32.2 0.3 CG A:ASP13 3.0 22.8 0.6 CD A:GLU116 3.1 35.8 1.0 CG A:ASP13 3.3 22.0 0.4 CG A:ASP115 3.3 24.0 1.0 OD2 A:ASP13 3.4 21.8 0.4 OD1 A:ASP13 3.4 20.2 0.6 C3' P:DT8 3.5 38.5 0.7 OD2 A:ASP115 3.6 23.1 1.0 MG A:MG503 3.6 21.9 0.8 CA A:CA502 3.6 21.9 0.1 PA A:STP508 3.7 30.4 0.6 CB A:GLU116 3.8 29.0 1.0 C3' P:DT8 3.9 36.9 0.3 OE1 A:GLU116 3.9 34.0 1.0 OG A:SER113 3.9 23.4 1.0 CG A:GLU116 3.9 24.2 1.0 C4' P:DT8 4.1 36.8 0.3 O5' A:STP508 4.1 28.8 0.6 C4' P:DT8 4.1 37.3 0.7 O5' P:AS9 4.2 28.8 0.3 C5' P:DT8 4.3 36.5 0.3 CB A:ASP13 4.3 15.6 0.6 NZ A:LYS224 4.3 27.8 0.7 O5 A:DPO509 4.3 20.8 0.3 C5' A:STP508 4.3 28.4 0.6 C5' P:AS9 4.4 28.2 0.3 CB A:ASP13 4.4 15.7 0.4 S2P P:AS9 4.4 41.1 0.3 O1 A:DPO509 4.4 23.3 0.3 C5' P:DT8 4.4 36.7 0.7 O P:HOH105 4.5 43.5 1.0 O1G A:STP508 4.5 20.9 0.6 O A:ASP115 4.5 16.8 1.0 C A:ASP115 4.5 20.4 1.0 S1A A:STP508 4.5 42.8 0.6 N A:GLU116 4.6 14.6 1.0 O A:HOH797 4.7 33.0 1.0 CB A:ASP115 4.7 18.8 1.0 C2' P:DT8 4.8 36.4 0.7 CA A:GLU116 4.8 19.8 1.0 O1B A:STP508 4.9 18.8 0.6 CA A:ASP13 4.9 16.3 0.4 O A:HOH618 4.9 39.0 1.0 CA A:ASP13 5.0 16.2 0.6 C2' P:DT8 5.0 34.5 0.3

Magnesium binding site 2 out of 3 in 5kfp

Magnesium Binding Sites List in 5kfp

Magnesium binding site 2 out of 3 in the Human Dna Polymerase Eta-Dna Ternary Complex with Sp-Datp-Alpha-S: Reaction with 20 Mm MG2+ For 600S


Mono view


Stereo pair view

A full contact list of Magnesium with other atoms in the Mg binding site number 2 of Human Dna Polymerase Eta-Dna Ternary Complex with Sp-Datp-Alpha-S: Reaction with 20 Mm MG2+ For 600S within 5.0Å range: probe atom residue distance (Å) B Occ A:Mg503 b:21.9 occ:0.85 CA A:CA502 0.0 21.9 0.1 O1 A:DPO509 1.6 23.3 0.3 O5 A:DPO509 1.9 20.8 0.3 O1B A:STP508 2.0 18.8 0.6 O1G A:STP508 2.0 20.9 0.6 OD2 A:ASP115 2.2 23.1 1.0 OD1 A:ASP13 2.2 20.2 0.6 OD1 A:ASP13 2.2 18.3 0.4 O A:MET14 2.3 18.2 1.0 O2A A:STP508 2.4 27.4 0.6 OP1 P:AS9 2.4 27.3 0.3 P1 A:DPO509 3.0 24.4 0.3 PB A:STP508 3.1 24.5 0.6 P2 A:DPO509 3.1 24.4 0.3 MG A:MG504 3.1 26.5 0.5 CG A:ASP13 3.2 22.0 0.4 CG A:ASP13 3.2 22.8 0.6 PG A:STP508 3.2 23.8 0.6 CG A:ASP115 3.3 24.0 1.0 C A:MET14 3.4 17.8 1.0 O4 A:DPO509 3.4 24.8 0.3 PA A:STP508 3.5 30.4 0.6 O3B A:STP508 3.6 25.1 0.6 MG A:MG501 3.6 26.4 0.5 OD2 A:ASP13 3.6 21.8 0.4 O3A A:STP508 3.6 30.9 0.6 OD2 A:ASP13 3.6 26.5 0.6 OD1 A:ASP115 3.7 26.2 1.0 O2 A:DPO509 3.8 30.7 0.3 P P:AS9 3.8 32.2 0.3 O7 A:DPO509 3.8 22.1 0.3 O2G A:STP508 3.9 22.4 0.6 C5' A:STP508 3.9 28.4 0.6 N A:MET14 4.0 13.9 1.0 O3 A:DPO509 4.0 23.2 0.3 C5' P:AS9 4.0 28.2 0.3 NZ A:LYS231 4.1 21.2 1.0 O5' P:AS9 4.1 28.8 0.3 N A:CYS16 4.2 16.4 1.0 O5' A:STP508 4.2 28.8 0.6 CA A:MET14 4.2 13.9 1.0 C A:ASP13 4.2 12.8 1.0 O6 A:DPO509 4.3 27.4 0.3 N A:ASP15 4.3 13.8 1.0 O2B A:STP508 4.4 18.2 0.6 O A:HOH797 4.4 33.0 1.0 CA A:ASP15 4.4 15.0 1.0 O3G A:STP508 4.4 27.6 0.6 CB A:ASP13 4.5 15.6 0.6 C A:ASP15 4.5 18.8 1.0 CB A:ASP13 4.5 15.7 0.4 CB A:ASP115 4.5 18.8 1.0 O A:HOH680 4.5 36.1 1.0 N A:PHE17 4.6 13.8 1.0 O A:ASP13 4.6 14.2 1.0 CB A:MET14 4.7 15.3 1.0 CA A:ASP13 4.8 16.3 0.4 CA A:ASP13 4.8 16.2 0.6 O3' P:DT8 4.8 32.7 0.3 CB A:PHE17 4.8 14.3 1.0 O A:ASP115 4.8 16.8 1.0 CA A:CYS16 5.0 15.7 1.0

Magnesium binding site 3 out of 3 in 5kfp

Magnesium Binding Sites List in 5kfp

Magnesium binding site 3 out of 3 in the Human Dna Polymerase Eta-Dna Ternary Complex with Sp-Datp-Alpha-S: Reaction with 20 Mm MG2+ For 600S


Mono view


Stereo pair view

A full contact list of Magnesium with other atoms in the Mg binding site number 3 of Human Dna Polymerase Eta-Dna Ternary Complex with Sp-Datp-Alpha-S: Reaction with 20 Mm MG2+ For 600S within 5.0Å range: probe atom residue distance (Å) B Occ A:Mg504 b:26.5 occ:0.45 O A:HOH797 2.0 33.0 1.0 O A:HOH680 2.0 36.1 1.0 O2A A:STP508 2.0 27.4 0.6 OP1 P:AS9 2.1 27.3 0.3 OD2 A:ASP13 2.4 21.8 0.4 O5 A:DPO509 2.5 20.8 0.3 O1G A:STP508 2.5 20.9 0.6 MG A:MG501 2.8 26.4 0.5 OD2 A:ASP13 2.9 26.5 0.6 OD1 A:ASP13 2.9 20.2 0.6 P P:AS9 3.0 32.2 0.3 PA A:STP508 3.1 30.4 0.6 CA A:CA502 3.1 21.9 0.1 MG A:MG503 3.1 21.9 0.8 CG A:ASP13 3.1 22.0 0.4 OD1 A:ASP13 3.1 18.3 0.4 CG A:ASP13 3.2 22.8 0.6 S1A A:STP508 3.4 42.8 0.6 S2P P:AS9 3.4 41.1 0.3 P2 A:DPO509 3.6 24.4 0.3 O6 A:DPO509 3.7 27.4 0.3 PG A:STP508 3.7 23.8 0.6 O1 A:DPO509 3.8 23.3 0.3 O3A A:STP508 3.8 30.9 0.6 O3G A:STP508 3.8 27.6 0.6 O3' P:DT8 3.8 32.7 0.3 O A:HOH618 4.0 39.0 1.0 O2 A:DPO509 4.0 30.7 0.3 P1 A:DPO509 4.3 24.4 0.3 O4 A:DPO509 4.3 24.8 0.3 NZ A:LYS224 4.3 27.8 0.7 O1B A:STP508 4.3 18.8 0.6 O3' P:DT8 4.4 33.4 0.7 PB A:STP508 4.4 24.5 0.6 O5' P:AS9 4.4 28.8 0.3 O5' A:STP508 4.4 28.8 0.6 O3B A:STP508 4.5 25.1 0.6 C3' P:DT8 4.6 38.5 0.7 CB A:ASP13 4.6 15.6 0.6 OE2 A:GLU116 4.6 39.7 1.0 CB A:ASP13 4.6 15.7 0.4 OD2 A:ASP115 4.6 23.1 1.0 OD1 A:ASP115 4.7 26.2 1.0 O A:HOH606 4.7 42.3 1.0 O A:HOH628 4.7 35.8 1.0 O7 A:DPO509 4.8 22.1 0.3 NZ A:LYS231 4.8 21.2 1.0 C3' P:DT8 4.8 36.9 0.3 O2G A:STP508 4.9 22.4 0.6 CE A:LYS231 5.0 40.8 1.0

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