Chlorine in PDB 5ltp: Structure of the Yellow-Green Fluorescent Protein Mneongreen From Branchiostoma Lanceolatum at the Acidic pH 4.5

Protein crystallography data

The structure of Structure of the Yellow-Green Fluorescent Protein Mneongreen From Branchiostoma Lanceolatum at the Acidic pH 4.5, PDB code: 5ltp was solved by D.Clavel, G.Gotthard, A.Royant, with X-Ray Crystallography technique. A brief refinement statistics is given in the table below:

Resolution Low / High (Å) 46.34 / 1.70
Space group P 21 21 21
Cell size a, b, c (Å), α, β, γ (°) 75.870, 127.600, 146.840, 90.00, 90.00, 90.00
R / Rfree (%) 18.6 / 21.1

Chlorine Binding Sites:

The binding sites of Chlorine atom in the Structure of the Yellow-Green Fluorescent Protein Mneongreen From Branchiostoma Lanceolatum at the Acidic pH 4.5 (pdb code 5ltp). This binding sites where shown within 5.0 Angstroms radius around Chlorine atom.
In total 6 binding sites of Chlorine where determined in the Structure of the Yellow-Green Fluorescent Protein Mneongreen From Branchiostoma Lanceolatum at the Acidic pH 4.5, PDB code: 5ltp:
Jump to Chlorine binding site number: 1; 2; 3; 4; 5; 6;

Chlorine binding site 1 out of 6 in 5ltp

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Chlorine binding site 1 out of 6 in the Structure of the Yellow-Green Fluorescent Protein Mneongreen From Branchiostoma Lanceolatum at the Acidic pH 4.5


Mono view


Stereo pair view

A full contact list of Chlorine with other atoms in the Cl binding site number 1 of Structure of the Yellow-Green Fluorescent Protein Mneongreen From Branchiostoma Lanceolatum at the Acidic pH 4.5 within 5.0Å range:
probe atom residue distance (Å) B Occ
A:Cl301

b:18.5
occ:0.70
O A:HOH495 0.7 21.9 0.3
O A:HOH412 2.0 13.1 0.3
OH A:TYR175 2.9 19.7 1.0
OG A:SER153 3.2 22.2 1.0
NH2 A:ARG88 3.3 17.4 1.0
NE2 A:HIS62 3.4 18.9 1.0
CB A:SER153 3.6 22.0 1.0
OG1 A:THR173 3.6 18.4 1.0
CB A:THR173 3.8 18.7 1.0
CZ A:TYR175 3.9 19.5 1.0
CE2 A:PHE155 3.9 19.9 1.0
CE1 A:TYR175 4.0 19.7 1.0
CG2 A:THR173 4.0 18.4 1.0
CD2 A:CR259 4.2 17.9 1.0
CZ A:ARG88 4.3 17.4 1.0
NE A:ARG88 4.3 17.4 1.0
CD2 A:HIS62 4.3 18.6 1.0
CE1 A:HIS62 4.4 18.8 1.0
O A:HOH411 4.4 24.5 1.0
NZ A:LYS143 4.5 27.2 1.0
CB2 A:CR259 4.5 17.5 1.0
CD2 A:PHE155 4.6 20.5 1.0
NH1 A:ARG195 4.8 21.1 1.0
OG A:SER141 4.9 23.1 0.7
CG2 A:CR259 4.9 17.7 1.0
CZ A:PHE155 4.9 19.7 1.0
CA A:SER153 5.0 22.1 1.0
O A:HOH414 5.0 17.1 1.0

Chlorine binding site 2 out of 6 in 5ltp

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Chlorine binding site 2 out of 6 in the Structure of the Yellow-Green Fluorescent Protein Mneongreen From Branchiostoma Lanceolatum at the Acidic pH 4.5


Mono view


Stereo pair view

A full contact list of Chlorine with other atoms in the Cl binding site number 2 of Structure of the Yellow-Green Fluorescent Protein Mneongreen From Branchiostoma Lanceolatum at the Acidic pH 4.5 within 5.0Å range:
probe atom residue distance (Å) B Occ
B:Cl301

b:22.1
occ:0.70
O B:HOH409 0.8 13.5 0.3
O B:HOH446 2.1 20.6 0.3
OH B:TYR175 3.0 20.7 1.0
OG B:SER153 3.3 24.6 1.0
NH2 B:ARG88 3.4 20.8 1.0
NE2 B:HIS62 3.4 17.9 1.0
CB B:SER153 3.7 24.1 1.0
OG1 B:THR173 3.7 24.0 1.0
CE1 B:PHE155 3.8 24.8 1.0
CB B:THR173 4.0 23.9 1.0
CZ B:TYR175 4.0 20.6 1.0
CD2 B:CR259 4.0 20.4 1.0
CE1 B:TYR175 4.1 21.5 1.0
CG2 B:THR173 4.2 22.9 1.0
CZ B:ARG88 4.2 21.4 1.0
NE B:ARG88 4.2 22.1 1.0
CE1 B:HIS62 4.3 17.4 1.0
CB2 B:CR259 4.4 18.5 1.0
CD2 B:HIS62 4.4 17.5 1.0
O B:HOH412 4.4 31.6 1.0
NZ B:LYS143 4.4 24.6 1.0
CD1 B:PHE155 4.5 25.7 1.0
NH1 B:ARG195 4.7 20.9 1.0
CG2 B:CR259 4.7 19.3 1.0
CZ B:PHE155 4.8 24.8 1.0
CE2 B:CR259 5.0 21.2 1.0
O B:HOH428 5.0 17.7 1.0
O2 B:CR259 5.0 17.5 1.0
OG B:SER141 5.0 25.4 0.7

Chlorine binding site 3 out of 6 in 5ltp

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Chlorine binding site 3 out of 6 in the Structure of the Yellow-Green Fluorescent Protein Mneongreen From Branchiostoma Lanceolatum at the Acidic pH 4.5


Mono view


Stereo pair view

A full contact list of Chlorine with other atoms in the Cl binding site number 3 of Structure of the Yellow-Green Fluorescent Protein Mneongreen From Branchiostoma Lanceolatum at the Acidic pH 4.5 within 5.0Å range:
probe atom residue distance (Å) B Occ
C:Cl301

b:18.3
occ:0.70
O C:HOH463 0.9 11.8 0.3
O C:HOH407 2.1 9.6 0.3
OH C:TYR175 2.9 20.5 1.0
NH2 C:ARG88 3.3 16.9 1.0
OG C:SER153 3.3 18.9 1.0
NE2 C:HIS62 3.4 20.1 1.0
CB C:SER153 3.7 18.5 1.0
OG1 C:THR173 3.7 17.8 1.0
CE2 C:PHE155 3.9 16.1 1.0
CZ C:TYR175 3.9 20.2 1.0
CB C:THR173 3.9 17.9 1.0
CE1 C:TYR175 4.1 20.4 1.0
CD2 C:CR259 4.1 16.2 1.0
CG2 C:THR173 4.2 17.9 1.0
CZ C:ARG88 4.2 16.5 1.0
CD2 C:HIS62 4.3 19.9 1.0
CE1 C:HIS62 4.3 19.9 1.0
NE C:ARG88 4.3 16.7 1.0
CB2 C:CR259 4.4 16.4 1.0
NZ C:LYS143 4.4 21.9 1.0
O C:HOH405 4.4 25.6 1.0
CD2 C:PHE155 4.6 16.3 1.0
NH1 C:ARG195 4.7 17.3 1.0
CG2 C:CR259 4.8 16.2 1.0
CZ C:PHE155 4.9 15.9 1.0
O2 C:CR259 4.9 17.3 1.0
O C:HOH420 5.0 18.9 1.0

Chlorine binding site 4 out of 6 in 5ltp

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Chlorine binding site 4 out of 6 in the Structure of the Yellow-Green Fluorescent Protein Mneongreen From Branchiostoma Lanceolatum at the Acidic pH 4.5


Mono view


Stereo pair view

A full contact list of Chlorine with other atoms in the Cl binding site number 4 of Structure of the Yellow-Green Fluorescent Protein Mneongreen From Branchiostoma Lanceolatum at the Acidic pH 4.5 within 5.0Å range:
probe atom residue distance (Å) B Occ
D:Cl301

b:17.3
occ:0.70
O D:HOH440 0.9 17.6 0.3
O D:HOH418 2.0 10.8 0.3
OH D:TYR175 2.9 17.8 1.0
OG D:SER153 3.3 19.6 1.0
NH2 D:ARG88 3.3 16.7 1.0
NE2 D:HIS62 3.4 18.8 1.0
OG1 D:THR173 3.6 17.6 1.0
CB D:SER153 3.7 18.4 1.0
CE2 D:PHE155 3.9 17.5 1.0
CB D:THR173 3.9 17.2 1.0
CZ D:TYR175 3.9 17.1 1.0
CD2 D:CR259 4.0 16.2 1.0
CE1 D:TYR175 4.1 17.1 1.0
CG2 D:THR173 4.2 17.0 1.0
CZ D:ARG88 4.2 16.6 1.0
CD2 D:HIS62 4.3 18.6 1.0
NE D:ARG88 4.3 16.5 1.0
CE1 D:HIS62 4.3 18.8 1.0
CB2 D:CR259 4.3 16.2 1.0
NZ D:LYS143 4.4 22.8 1.0
O D:HOH401 4.4 27.1 1.0
CD2 D:PHE155 4.5 17.6 1.0
NH1 D:ARG195 4.7 17.1 1.0
CG2 D:CR259 4.7 16.2 1.0
CZ D:PHE155 4.9 17.4 1.0
CE2 D:CR259 4.9 16.8 1.0
O D:HOH406 5.0 18.0 1.0
O2 D:CR259 5.0 16.3 1.0

Chlorine binding site 5 out of 6 in 5ltp

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Chlorine binding site 5 out of 6 in the Structure of the Yellow-Green Fluorescent Protein Mneongreen From Branchiostoma Lanceolatum at the Acidic pH 4.5


Mono view


Stereo pair view

A full contact list of Chlorine with other atoms in the Cl binding site number 5 of Structure of the Yellow-Green Fluorescent Protein Mneongreen From Branchiostoma Lanceolatum at the Acidic pH 4.5 within 5.0Å range:
probe atom residue distance (Å) B Occ
E:Cl301

b:22.1
occ:0.70
O E:HOH490 0.8 30.9 0.3
O E:HOH404 2.2 18.5 0.3
OH E:TYR175 3.0 25.0 1.0
NH2 E:ARG88 3.3 20.5 1.0
OG E:SER153 3.3 26.9 1.0
NE2 E:HIS62 3.4 24.9 1.0
OG1 E:THR173 3.7 22.1 1.0
CB E:SER153 3.7 26.2 1.0
CE1 E:PHE155 3.8 23.1 1.0
CB E:THR173 4.0 22.0 1.0
CD2 E:CR259 4.0 23.0 1.0
CZ E:TYR175 4.0 24.2 1.0
CZ E:ARG88 4.2 20.2 1.0
NZ E:LYS143 4.2 32.2 1.0
CE1 E:TYR175 4.2 24.0 1.0
CG2 E:THR173 4.2 21.7 1.0
NE E:ARG88 4.2 19.6 1.0
CB2 E:CR259 4.3 22.8 1.0
CE1 E:HIS62 4.3 25.0 1.0
CD2 E:HIS62 4.4 25.0 1.0
O E:HOH405 4.4 31.2 1.0
CD1 E:PHE155 4.5 23.5 1.0
CG2 E:CR259 4.7 23.1 1.0
CZ E:PHE155 4.7 23.1 1.0
NH1 E:ARG195 4.8 25.2 1.0
O2 E:CR259 4.9 22.5 1.0
CE2 E:CR259 5.0 23.3 1.0

Chlorine binding site 6 out of 6 in 5ltp

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Chlorine binding site 6 out of 6 in the Structure of the Yellow-Green Fluorescent Protein Mneongreen From Branchiostoma Lanceolatum at the Acidic pH 4.5


Mono view


Stereo pair view

A full contact list of Chlorine with other atoms in the Cl binding site number 6 of Structure of the Yellow-Green Fluorescent Protein Mneongreen From Branchiostoma Lanceolatum at the Acidic pH 4.5 within 5.0Å range:
probe atom residue distance (Å) B Occ
F:Cl301

b:21.0
occ:0.70
O F:HOH441 0.8 26.6 0.3
O F:HOH463 2.1 16.4 0.3
OH F:TYR175 2.9 22.6 1.0
NH2 F:ARG88 3.2 23.8 1.0
OG F:SER153 3.3 25.5 1.0
NE2 F:HIS62 3.5 22.5 1.0
OG1 F:THR173 3.6 23.8 1.0
CB F:SER153 3.6 24.1 1.0
CE1 F:PHE155 3.9 23.3 1.0
CB F:THR173 3.9 23.6 1.0
CZ F:TYR175 3.9 22.4 1.0
CE1 F:TYR175 4.1 22.2 1.0
CG2 F:THR173 4.1 23.5 1.0
CD2 F:CR259 4.1 22.1 1.0
CZ F:ARG88 4.2 23.9 1.0
NE F:ARG88 4.3 23.6 1.0
NZ F:LYS143 4.3 24.4 1.0
CE1 F:HIS62 4.3 22.4 1.0
CB2 F:CR259 4.4 21.9 1.0
CD2 F:HIS62 4.4 22.1 1.0
O F:HOH412 4.4 30.2 1.0
CD1 F:PHE155 4.6 23.3 1.0
CZ F:PHE155 4.8 23.8 1.0
NH1 F:ARG195 4.8 20.6 1.0
CG2 F:CR259 4.8 22.3 1.0
O2 F:CR259 5.0 22.1 1.0
O F:HOH437 5.0 20.6 1.0

Reference:

D.Clavel, G.Gotthard, D.Von Stetten, D.De Sanctis, H.Pasquier, G.G.Lambert, N.C.Shaner, A.Royant. Structural Analysis of the Bright Monomeric Yellow-Green Fluorescent Protein Mneongreen Obtained By Directed Evolution. Acta Crystallogr D Struct V. 72 1298 2016BIOL.
ISSN: ISSN 2059-7983
PubMed: 27917830
DOI: 10.1107/S2059798316018623
Page generated: Sat Dec 12 12:04:10 2020

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