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Magnesium in PDB 6t0v: Bat Influenza A Polymerase Elongation Complex with Incoming Utp Analogue (Complete Polymerase)

Enzymatic activity of Bat Influenza A Polymerase Elongation Complex with Incoming Utp Analogue (Complete Polymerase)

All present enzymatic activity of Bat Influenza A Polymerase Elongation Complex with Incoming Utp Analogue (Complete Polymerase):
2.7.7.48;

Magnesium Binding Sites:

The binding sites of Magnesium atom in the Bat Influenza A Polymerase Elongation Complex with Incoming Utp Analogue (Complete Polymerase) (pdb code 6t0v). This binding sites where shown within 5.0 Angstroms radius around Magnesium atom.
In total 5 binding sites of Magnesium where determined in the Bat Influenza A Polymerase Elongation Complex with Incoming Utp Analogue (Complete Polymerase), PDB code: 6t0v:
Jump to Magnesium binding site number: 1; 2; 3; 4; 5;

Magnesium binding site 1 out of 5 in 6t0v

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Magnesium binding site 1 out of 5 in the Bat Influenza A Polymerase Elongation Complex with Incoming Utp Analogue (Complete Polymerase)


Mono view


Stereo pair view

A full contact list of Magnesium with other atoms in the Mg binding site number 1 of Bat Influenza A Polymerase Elongation Complex with Incoming Utp Analogue (Complete Polymerase) within 5.0Å range:
probe atom residue distance (Å) B Occ
A:Mg802

b:66.6
occ:1.00
 O11 A:M4H801 1.9 59.6 1.0
OE2 A:GLU119 1.9 54.9 1.0
OD2 A:ASP108 1.9 50.1 1.0
O A:ILE120 1.9 56.7 1.0
C A:ILE120 2.8 56.7 1.0
CD A:GLU119 2.9 54.9 1.0
CG A:ASP108 3.0 50.1 1.0
NE2 A:HIS41 3.0 59.8 1.0
N A:ILE120 3.0 56.7 1.0
C2 A:M4H801 3.1 59.6 1.0
CA A:ILE120 3.5 56.7 1.0
CG A:GLU119 3.5 54.9 1.0
OD1 A:ASP108 3.7 50.1 1.0
N A:GLY121 3.8 61.2 1.0
CE1 A:HIS41 3.8 59.8 1.0
OE1 A:GLU119 3.8 54.9 1.0
C A:GLU119 4.0 54.9 1.0
C3 A:M4H801 4.0 59.6 1.0
O10 A:M4H801 4.0 59.6 1.0
CB A:ASP108 4.0 50.1 1.0
C1 A:M4H801 4.0 59.6 1.0
CD2 A:HIS41 4.1 59.8 1.0
CA A:GLY121 4.1 61.2 1.0
CB A:ILE120 4.3 56.7 1.0
CA A:GLU119 4.4 54.9 1.0
CB A:GLU119 4.5 54.9 1.0
MG A:MG803 4.6 61.6 1.0
NZ A:LYS134 4.7 67.0 1.0
O A:GLU119 4.9 54.9 1.0

Magnesium binding site 2 out of 5 in 6t0v

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Magnesium binding site 2 out of 5 in the Bat Influenza A Polymerase Elongation Complex with Incoming Utp Analogue (Complete Polymerase)


Mono view


Stereo pair view

A full contact list of Magnesium with other atoms in the Mg binding site number 2 of Bat Influenza A Polymerase Elongation Complex with Incoming Utp Analogue (Complete Polymerase) within 5.0Å range:
probe atom residue distance (Å) B Occ
A:Mg803

b:61.6
occ:1.00
 OD1 A:ASP108 1.9 50.1 1.0
O10 A:M4H801 1.9 59.6 1.0
OE1 A:GLU80 2.2 51.1 1.0
CG A:ASP108 2.9 50.1 1.0
C1 A:M4H801 2.9 59.6 1.0
CD A:GLU80 3.4 51.1 1.0
OD2 A:ASP108 3.5 50.1 1.0
O8 A:M4H801 3.6 59.6 1.0
O A:LEU106 3.7 42.3 1.0
O A:PRO107 3.7 44.4 1.0
C2 A:M4H801 3.8 59.6 1.0
O11 A:M4H801 3.8 59.6 1.0
C6 A:M4H801 4.0 59.6 1.0
C A:PRO107 4.1 44.4 1.0
OE2 A:GLU80 4.1 51.1 1.0
CB A:ASP108 4.1 50.1 1.0
CA A:ASP108 4.2 50.1 1.0
C7 A:M4H801 4.3 59.6 1.0
N A:ASP108 4.3 50.1 1.0
CG A:GLU80 4.4 51.1 1.0
C A:LEU106 4.5 42.3 1.0
CB A:GLU80 4.6 51.1 1.0
OE2 A:GLU119 4.6 54.9 1.0
MG A:MG802 4.6 66.6 1.0
OE1 A:GLU119 4.7 54.9 1.0
CA A:PRO107 4.9 44.4 1.0
CE1 A:HIS41 4.9 59.8 1.0
CB A:LEU106 4.9 42.3 1.0

Magnesium binding site 3 out of 5 in 6t0v

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Magnesium binding site 3 out of 5 in the Bat Influenza A Polymerase Elongation Complex with Incoming Utp Analogue (Complete Polymerase)


Mono view


Stereo pair view

A full contact list of Magnesium with other atoms in the Mg binding site number 3 of Bat Influenza A Polymerase Elongation Complex with Incoming Utp Analogue (Complete Polymerase) within 5.0Å range:
probe atom residue distance (Å) B Occ
B:Mg802

b:22.5
occ:1.00
 O1B B:2KH801 2.1 26.8 1.0
O2A B:2KH801 2.1 26.8 1.0
O2G B:2KH801 2.1 26.8 1.0
O B:ASN306 2.3 20.2 1.0
OD2 B:ASP445 2.8 20.5 1.0
OD2 B:ASP305 2.8 20.4 1.0
OD1 B:ASP305 3.2 20.4 1.0
PB B:2KH801 3.2 26.8 1.0
CG B:ASP305 3.3 20.4 1.0
PA B:2KH801 3.3 26.8 1.0
PG B:2KH801 3.4 26.8 1.0
CG B:ASP445 3.4 20.5 1.0
C B:ASN306 3.5 20.2 1.0
N3A B:2KH801 3.6 26.8 1.0
OD1 B:ASP445 3.7 20.5 1.0
O3B B:2KH801 3.7 26.8 1.0
C5' B:2KH801 4.0 26.8 1.0
MG B:MG804 4.0 21.5 1.0
N B:ASN306 4.1 20.2 1.0
O5' B:2KH801 4.2 26.8 1.0
O1G B:2KH801 4.3 26.8 1.0
CA B:ASN306 4.4 20.2 1.0
O1A B:2KH801 4.4 26.8 1.0
O2B B:2KH801 4.4 26.8 1.0
N B:THR307 4.4 21.1 1.0
O3G B:2KH801 4.5 26.8 1.0
CA B:THR307 4.5 21.1 1.0
CB B:TRP309 4.5 21.2 1.0
N B:LYS308 4.6 23.7 1.0
CB B:ASP445 4.6 20.5 1.0
NZ B:LYS481 4.7 19.5 1.0
CB B:ASP305 4.7 20.4 1.0
N B:TRP309 4.8 21.2 1.0
C B:ASP305 4.9 20.4 1.0
C B:THR307 4.9 21.1 1.0

Magnesium binding site 4 out of 5 in 6t0v

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Magnesium binding site 4 out of 5 in the Bat Influenza A Polymerase Elongation Complex with Incoming Utp Analogue (Complete Polymerase)


Mono view


Stereo pair view

A full contact list of Magnesium with other atoms in the Mg binding site number 4 of Bat Influenza A Polymerase Elongation Complex with Incoming Utp Analogue (Complete Polymerase) within 5.0Å range:
probe atom residue distance (Å) B Occ
B:Mg803

b:17.0
occ:1.00
 O B:GLY304 2.8 17.6 1.0
CB B:ASP446 2.9 19.1 1.0
OD2 B:ASP446 3.4 19.1 1.0
CG B:ASP446 3.6 19.1 1.0
CA B:ASP446 3.7 19.1 1.0
C B:GLY304 4.0 17.6 1.0
N B:THR493 4.0 17.2 1.0
N B:PHE447 4.2 16.8 1.0
C B:ASP446 4.3 19.1 1.0
O B:GLU491 4.4 16.2 1.0
CA B:PHE492 4.5 16.9 1.0
OE2 B:GLU491 4.5 16.2 1.0
O B:PHE447 4.6 16.8 1.0
N B:GLY304 4.7 17.6 1.0
N B:ASP305 4.8 20.4 1.0
C B:PHE492 4.8 16.9 1.0
CD1 B:PHE492 4.8 16.9 1.0
MG B:MG804 4.8 21.5 1.0
CB B:ASP305 4.8 20.4 1.0
OD1 B:ASP446 4.8 19.1 1.0
CA B:ASP305 4.8 20.4 1.0
CA B:THR493 4.8 17.2 1.0
OD1 B:ASP305 4.8 20.4 1.0
N B:ASP446 4.9 19.1 1.0
CA B:GLY304 4.9 17.6 1.0

Magnesium binding site 5 out of 5 in 6t0v

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Magnesium binding site 5 out of 5 in the Bat Influenza A Polymerase Elongation Complex with Incoming Utp Analogue (Complete Polymerase)


Mono view


Stereo pair view

A full contact list of Magnesium with other atoms in the Mg binding site number 5 of Bat Influenza A Polymerase Elongation Complex with Incoming Utp Analogue (Complete Polymerase) within 5.0Å range:
probe atom residue distance (Å) B Occ
B:Mg804

b:21.5
occ:1.00
 OD1 B:ASP305 2.1 20.4 1.0
OD1 B:ASP445 2.4 20.5 1.0
OD2 B:ASP446 2.7 19.1 1.0
O3' M:G26 2.7 22.7 1.0
O2A B:2KH801 3.1 26.8 1.0
CG B:ASP305 3.2 20.4 1.0
CG B:ASP446 3.4 19.1 1.0
CG B:ASP445 3.4 20.5 1.0
OD2 B:ASP445 3.8 20.5 1.0
OD2 B:ASP305 3.9 20.4 1.0
OD1 B:ASP446 3.9 19.1 1.0
C3' M:G26 4.0 22.7 1.0
MG B:MG802 4.0 22.5 1.0
PA B:2KH801 4.0 26.8 1.0
O1A B:2KH801 4.2 26.8 1.0
CB B:ASP446 4.3 19.1 1.0
CB B:ASP305 4.3 20.4 1.0
N B:ASP446 4.3 19.1 1.0
O5' B:2KH801 4.4 26.8 1.0
C5' B:2KH801 4.5 26.8 1.0
CA B:ASP446 4.5 19.1 1.0
C4' M:G26 4.7 22.7 1.0
C5' M:G26 4.7 22.7 1.0
CB B:ASP445 4.7 20.5 1.0
MG B:MG803 4.8 17.0 1.0
C B:ASP445 4.8 20.5 1.0
CA B:ASP305 4.9 20.4 1.0

Reference:

J.M.Wandzik, T.Kouba, M.Karuppasamy, A.Pflug, P.Drncova, J.Provaznik, N.Azevedo, S.Cusack. A Structure-Based Model For the Complete Transcription Cycle of Influenza Polymerase Cell(Cambridge,Mass.) 2020.
ISSN: ISSN 0092-8674
Page generated: Tue Oct 1 18:34:26 2024

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