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Europium in PDB 4lp1: Crystal Structure of Cyay Protein From Psychromonas Ingrahamii in Complex with Eu(III)

Protein crystallography data

The structure of Crystal Structure of Cyay Protein From Psychromonas Ingrahamii in Complex with Eu(III), PDB code: 4lp1 was solved by M.E.Noguera, E.A.Roman, A.Cousido-Siah, A.Mitschler, A.Podjarny, J.Santos, with X-Ray Crystallography technique. A brief refinement statistics is given in the table below:

Resolution Low / High (Å) 31.15 / 1.80
Space group P 1 21 1
Cell size a, b, c (Å), α, β, γ (°) 39.821, 49.992, 46.580, 90.00, 90.43, 90.00
R / Rfree (%) 21.3 / 26

Europium Binding Sites:

Pages:

>>> Page 1 <<< Page 2, Binding sites: 11 - 14;

Binding sites:

The binding sites of Europium atom in the Crystal Structure of Cyay Protein From Psychromonas Ingrahamii in Complex with Eu(III) (pdb code 4lp1). This binding sites where shown within 5.0 Angstroms radius around Europium atom.
In total 14 binding sites of Europium where determined in the Crystal Structure of Cyay Protein From Psychromonas Ingrahamii in Complex with Eu(III), PDB code: 4lp1:
Jump to Europium binding site number: 1; 2; 3; 4; 5; 6; 7; 8; 9; 10;

Europium binding site 1 out of 14 in 4lp1

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Europium binding site 1 out of 14 in the Crystal Structure of Cyay Protein From Psychromonas Ingrahamii in Complex with Eu(III)


Mono view


Stereo pair view

A full contact list of Europium with other atoms in the Eu binding site number 1 of Crystal Structure of Cyay Protein From Psychromonas Ingrahamii in Complex with Eu(III) within 5.0Å range:
probe atom residue distance (Å) B Occ
A:Eu201

b:36.2
occ:0.54
EU A:EU3201 0.0 36.2 0.5
O A:HOH311 2.7 24.5 1.0
OE1 A:GLU22 2.8 52.8 1.0
OE2 A:GLU22 2.9 38.5 1.0
EU A:EU3201 3.0 36.4 0.5
CD A:GLU22 3.2 44.4 1.0
O A:HOH314 4.3 35.7 1.0
HA A:GLU22 4.5 33.7 1.0
CG A:GLU22 4.7 32.0 1.0
HH A:TYR30 4.8 44.7 1.0
HE2 A:TYR30 4.9 38.3 1.0

Europium binding site 2 out of 14 in 4lp1

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Europium binding site 2 out of 14 in the Crystal Structure of Cyay Protein From Psychromonas Ingrahamii in Complex with Eu(III)


Mono view


Stereo pair view

A full contact list of Europium with other atoms in the Eu binding site number 2 of Crystal Structure of Cyay Protein From Psychromonas Ingrahamii in Complex with Eu(III) within 5.0Å range:
probe atom residue distance (Å) B Occ
A:Eu201

b:36.4
occ:0.46
EU A:EU3201 0.0 36.4 0.5
O A:HOH311 2.8 24.5 1.0
EU A:EU3201 3.0 36.2 0.5
OE2 A:GLU22 3.1 38.5 1.0
HD1 B:HIS68 3.7 20.8 1.0
HH A:TYR30 3.7 44.7 1.0
CD A:GLU22 4.0 44.4 1.0
OH A:TYR30 4.1 37.2 1.0
OE1 A:GLU22 4.2 52.8 1.0
HH11 B:ARG80 4.3 66.1 1.0
OD2 B:ASP79 4.4 25.0 1.0
ND1 B:HIS68 4.4 17.3 1.0
HE1 B:HIS68 4.6 24.9 1.0
HD2 B:ARG80 4.7 52.5 1.0
O B:HOH321 4.7 24.1 1.0
HE2 A:TYR30 4.9 38.3 1.0
CE1 B:HIS68 4.9 20.7 1.0
OD1 B:ASP79 4.9 22.8 1.0
CZ A:TYR30 4.9 35.9 1.0

Europium binding site 3 out of 14 in 4lp1

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Europium binding site 3 out of 14 in the Crystal Structure of Cyay Protein From Psychromonas Ingrahamii in Complex with Eu(III)


Mono view


Stereo pair view

A full contact list of Europium with other atoms in the Eu binding site number 3 of Crystal Structure of Cyay Protein From Psychromonas Ingrahamii in Complex with Eu(III) within 5.0Å range:
probe atom residue distance (Å) B Occ
A:Eu202

b:41.4
occ:0.47
EU A:EU3202 0.0 41.4 0.5
OD1 A:ASP29 2.8 34.4 1.0
EU A:EU3202 3.5 62.8 0.5
HA A:ASP27 3.8 47.2 1.0
CG A:ASP29 4.0 43.5 1.0
O A:HOH314 4.4 35.7 1.0
OD2 A:ASP29 4.5 38.4 1.0
HB3 A:ASP27 4.5 41.8 1.0
CA A:ASP27 4.6 39.4 1.0
HA A:ASP29 4.7 37.5 1.0
OD2 A:ASP27 4.8 42.3 1.0
H A:VAL28 4.8 32.1 1.0
C A:ASP27 4.9 38.1 1.0
N A:VAL28 4.9 26.7 1.0

Europium binding site 4 out of 14 in 4lp1

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Europium binding site 4 out of 14 in the Crystal Structure of Cyay Protein From Psychromonas Ingrahamii in Complex with Eu(III)


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Stereo pair view

A full contact list of Europium with other atoms in the Eu binding site number 4 of Crystal Structure of Cyay Protein From Psychromonas Ingrahamii in Complex with Eu(III) within 5.0Å range:
probe atom residue distance (Å) B Occ
A:Eu202

b:62.8
occ:0.53
EU A:EU3202 0.0 62.8 0.5
OD2 A:ASP29 2.8 38.4 1.0
OD1 A:ASP29 3.1 34.4 1.0
CG A:ASP29 3.3 43.5 1.0
EU A:EU3202 3.5 41.4 0.5
HG2 A:GLU42 4.7 75.0 1.0
CB A:ASP29 4.7 37.1 1.0
HB2 A:ASP29 4.8 44.5 1.0

Europium binding site 5 out of 14 in 4lp1

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Europium binding site 5 out of 14 in the Crystal Structure of Cyay Protein From Psychromonas Ingrahamii in Complex with Eu(III)


Mono view


Stereo pair view

A full contact list of Europium with other atoms in the Eu binding site number 5 of Crystal Structure of Cyay Protein From Psychromonas Ingrahamii in Complex with Eu(III) within 5.0Å range:
probe atom residue distance (Å) B Occ
A:Eu203

b:66.7
occ:0.50
EU A:EU3203 0.0 66.7 0.5
O A:HOH303 1.9 48.5 1.0
EU A:EU3203 2.7 71.9 0.5
O A:GLN32 2.9 36.4 1.0
OD1 A:ASP31 2.9 52.0 1.0
CG A:ASP31 3.8 48.9 1.0
O B:GLU64 4.0 65.5 1.0
C A:GLN32 4.0 32.4 1.0
OD2 A:ASP31 4.0 64.2 1.0
H A:GLN32 4.1 25.6 1.0
HA A:ASN33 4.2 56.3 1.0
N A:GLN32 4.5 21.4 1.0
HA B:ASN65 4.5 38.4 1.0
HB2 A:ASN33 4.7 58.2 1.0
HB3 A:GLN32 4.9 40.6 1.0
N A:ASN33 4.9 38.6 1.0
CA A:GLN32 4.9 26.5 1.0
CA A:ASN33 4.9 46.9 1.0
HA A:ASP31 5.0 34.2 1.0

Europium binding site 6 out of 14 in 4lp1

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Europium binding site 6 out of 14 in the Crystal Structure of Cyay Protein From Psychromonas Ingrahamii in Complex with Eu(III)


Mono view


Stereo pair view

A full contact list of Europium with other atoms in the Eu binding site number 6 of Crystal Structure of Cyay Protein From Psychromonas Ingrahamii in Complex with Eu(III) within 5.0Å range:
probe atom residue distance (Å) B Occ
A:Eu203

b:71.9
occ:0.50
EU A:EU3203 0.0 71.9 0.5
EU A:EU3203 2.7 66.7 0.5
OD1 A:ASP31 3.7 52.0 1.0
O A:HOH303 3.8 48.5 1.0
H A:GLN32 4.0 25.6 1.0
HA A:ASP31 4.2 34.2 1.0
CG A:ASP31 4.2 48.9 1.0
H B:GLY66 4.3 29.9 1.0
HA B:ASN65 4.4 38.4 1.0
OD2 A:ASP31 4.5 64.2 1.0
O A:GLN32 4.5 36.4 1.0
N A:GLN32 4.7 21.4 1.0
CA A:ASP31 4.9 28.5 1.0

Europium binding site 7 out of 14 in 4lp1

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Europium binding site 7 out of 14 in the Crystal Structure of Cyay Protein From Psychromonas Ingrahamii in Complex with Eu(III)


Mono view


Stereo pair view

A full contact list of Europium with other atoms in the Eu binding site number 7 of Crystal Structure of Cyay Protein From Psychromonas Ingrahamii in Complex with Eu(III) within 5.0Å range:
probe atom residue distance (Å) B Occ
A:Eu204

b:79.2
occ:0.40
OE2 A:GLU5 3.0 64.3 1.0
OE1 A:GLU5 3.3 50.1 1.0
CD A:GLU5 3.5 52.6 1.0
H A:ASN2 4.3 47.2 1.0
HD22 A:ASN2 4.4 79.0 1.0
HA A:MET1 4.4 45.5 1.0
HB3 A:ASN2 4.4 57.8 1.0
ND2 A:ASN2 4.5 65.8 1.0
HD21 A:ASN2 4.7 79.0 1.0
N A:ASN2 4.9 39.4 1.0
CG A:ASN2 4.9 56.6 1.0
H2 A:MET1 4.9 57.6 1.0

Europium binding site 8 out of 14 in 4lp1

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Europium binding site 8 out of 14 in the Crystal Structure of Cyay Protein From Psychromonas Ingrahamii in Complex with Eu(III)


Mono view


Stereo pair view

A full contact list of Europium with other atoms in the Eu binding site number 8 of Crystal Structure of Cyay Protein From Psychromonas Ingrahamii in Complex with Eu(III) within 5.0Å range:
probe atom residue distance (Å) B Occ
B:Eu201

b:41.0
occ:0.59
EU B:EU3201 0.0 41.0 0.6
O B:HOH305 2.2 54.5 1.0
OG1 B:THR104 2.4 58.4 1.0
HG22 B:THR104 2.7 39.8 1.0
OD1 B:ASP102 2.7 35.2 1.0
OD2 B:ASP102 2.7 25.0 1.0
EU B:EU3201 3.0 36.0 0.4
CG B:ASP102 3.0 25.6 1.0
CB B:THR104 3.1 53.1 1.0
CG2 B:THR104 3.2 33.1 1.0
HB B:THR104 3.3 63.7 1.0
HG21 B:THR104 3.4 39.8 1.0
H B:THR104 4.0 37.9 1.0
HG23 B:THR104 4.1 39.8 1.0
CA B:THR104 4.4 49.1 1.0
CB B:ASP102 4.5 27.3 1.0
N B:THR104 4.6 31.6 1.0
O B:THR104 4.7 54.6 1.0
HB2 B:ASP102 4.9 32.8 1.0
HB3 B:ASP102 4.9 32.8 1.0

Europium binding site 9 out of 14 in 4lp1

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Europium binding site 9 out of 14 in the Crystal Structure of Cyay Protein From Psychromonas Ingrahamii in Complex with Eu(III)


Mono view


Stereo pair view

A full contact list of Europium with other atoms in the Eu binding site number 9 of Crystal Structure of Cyay Protein From Psychromonas Ingrahamii in Complex with Eu(III) within 5.0Å range:
probe atom residue distance (Å) B Occ
B:Eu201

b:36.0
occ:0.41
EU B:EU3201 0.0 36.0 0.4
EU B:EU3201 3.0 41.0 0.6
OD1 B:ASP102 3.0 35.2 1.0
OG1 B:THR104 3.4 58.4 1.0
CG B:ASP102 3.7 25.6 1.0
OD2 B:ASP102 4.1 25.0 1.0
O B:THR104 4.4 54.6 1.0
HB B:THR104 4.5 63.7 1.0
CB B:THR104 4.5 53.1 1.0
HB3 B:ASP102 4.7 32.8 1.0
CB B:ASP102 4.8 27.3 1.0
O B:HOH305 5.0 54.5 1.0

Europium binding site 10 out of 14 in 4lp1

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Europium binding site 10 out of 14 in the Crystal Structure of Cyay Protein From Psychromonas Ingrahamii in Complex with Eu(III)


Mono view


Stereo pair view

A full contact list of Europium with other atoms in the Eu binding site number 10 of Crystal Structure of Cyay Protein From Psychromonas Ingrahamii in Complex with Eu(III) within 5.0Å range:
probe atom residue distance (Å) B Occ
B:Eu202

b:48.7
occ:0.71
O B:HOH304 2.2 44.6 1.0
OD2 B:ASP31 2.8 31.6 1.0
OD1 B:ASP31 2.8 30.2 1.0
OD2 B:ASP29 2.9 51.3 1.0
O B:HOH312 3.0 42.6 1.0
CG B:ASP31 3.1 37.6 1.0
OD1 B:ASP29 3.5 42.2 1.0
CG B:ASP29 3.6 44.4 1.0
CB B:ASP31 4.5 18.8 1.0
O B:TYR30 4.8 18.1 1.0
HB3 B:ASP31 4.9 22.5 1.0
HB2 B:ASP31 4.9 22.5 1.0

Reference:

M.E.Noguera, E.A Roman, A.Cousido-Siah, A.Mitschler, A.Podjarny, J.Santos. Crystal Structures of Frataxin From Psychromonas Ingrahamii in Complex with Co(II) and Eu(III): Insights Into the Metal Binding Properties and Conformational Flexibility To Be Published.
Page generated: Sun Dec 13 11:27:54 2020

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