Zinc in PDB 4q7r: Crystal Structure of Large Stokes Shift Fluorescent Protein Lssmorange

The structure of Crystal Structure of Large Stokes Shift Fluorescent Protein Lssmorange, PDB code: 4q7r was solved by S.Pletnev, Z.Dauter, with X-Ray Crystallography technique. A brief refinement statistics is given in the table below:

Resolution Low / High (Å)	55.33 / 1.40
Space group	P 1 21 1
Cell size a, b, c (Å), α, β, γ (°)	37.436, 107.364, 56.602, 90.00, 102.15, 90.00
R / Rfree (%)	14.7 / 17.5

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>>> Page 1 <<< Page 2, Binding sites: 11 - 17;

Binding sites:

The binding sites of Zinc atom in the Crystal Structure of Large Stokes Shift Fluorescent Protein Lssmorange (pdb code 4q7r). This binding sites where shown within 5.0 Angstroms radius around Zinc atom.
In total 17 binding sites of Zinc where determined in the Crystal Structure of Large Stokes Shift Fluorescent Protein Lssmorange, PDB code: 4q7r:
Jump to Zinc binding site number: 1; 2; 3; 4; 5; 6; 7; 8; 9; 10;

Zinc binding site 1 out of 17 in the Crystal Structure of Large Stokes Shift Fluorescent Protein Lssmorange


Mono view


Stereo pair view

A full contact list of Zinc with other atoms in the Zn binding site number 1 of Crystal Structure of Large Stokes Shift Fluorescent Protein Lssmorange within 5.0Å range: probe atom residue distance (Å) B Occ A:Zn301 b:26.7 occ:1.00 OE2 B:GLU206 1.9 27.5 1.0 O B:HOH474 1.9 35.4 1.0 OE1 A:GLU10 2.0 24.1 1.0 O A:HOH478 2.0 29.9 1.0 CD A:GLU10 2.7 24.2 1.0 OE2 A:GLU10 2.8 29.4 1.0 CD B:GLU206 2.8 24.8 1.0 OE1 B:GLU206 3.1 24.2 1.0 NH2 A:ARG36 4.0 19.6 1.0 CG A:GLU10 4.2 20.2 1.0 CG B:GLU206 4.2 23.3 1.0 O B:HOH422 4.2 23.2 1.0 O A:HOH492 4.3 26.9 1.0 CB A:GLU10 4.7 15.8 1.0

Zinc binding site 2 out of 17 in the Crystal Structure of Large Stokes Shift Fluorescent Protein Lssmorange


Mono view


Stereo pair view

A full contact list of Zinc with other atoms in the Zn binding site number 2 of Crystal Structure of Large Stokes Shift Fluorescent Protein Lssmorange within 5.0Å range: probe atom residue distance (Å) B Occ A:Zn302 b:15.9 occ:1.00 OE1 B:GLU39 1.9 17.0 1.0 O A:HOH479 2.0 24.2 1.0 O A:ACT313 2.0 21.0 1.0 NE2 A:HIS204 2.0 13.2 1.0 CD B:GLU39 2.7 14.7 1.0 OE2 B:GLU39 2.8 20.8 1.0 C A:ACT313 2.9 23.5 1.0 CE1 A:HIS204 2.9 12.6 1.0 CD2 A:HIS204 3.1 12.0 1.0 OXT A:ACT313 3.1 28.9 1.0 OH A:TYR208 3.2 26.7 1.0 ND1 A:HIS204 4.1 13.7 1.0 CG B:GLU39 4.2 13.9 1.0 CE2 B:PHE41 4.2 13.4 1.0 CG A:HIS204 4.2 11.2 1.0 CZ B:PHE41 4.2 14.7 1.0 O B:HOH427 4.2 25.1 1.0 CH3 A:ACT313 4.3 26.0 1.0 NE B:ARG36 4.3 13.5 1.0 CZ A:TYR208 4.3 19.6 1.0 CD B:ARG36 4.3 15.1 1.0 O B:HOH475 4.3 44.9 1.0 CB B:GLU39 4.8 10.6 1.0 CE1 A:TYR208 4.9 23.2 1.0

Zinc binding site 3 out of 17 in the Crystal Structure of Large Stokes Shift Fluorescent Protein Lssmorange


Mono view


Stereo pair view

A full contact list of Zinc with other atoms in the Zn binding site number 3 of Crystal Structure of Large Stokes Shift Fluorescent Protein Lssmorange within 5.0Å range: probe atom residue distance (Å) B Occ A:Zn303 b:22.2 occ:1.00 OE2 A:GLU206 2.0 23.0 1.0 O B:HOH476 2.0 25.6 1.0 O A:HOH480 2.0 27.7 1.0 OE2 B:GLU10 2.0 19.5 1.0 CD B:GLU10 2.6 17.7 1.0 OE1 B:GLU10 2.7 23.3 1.0 CD A:GLU206 2.8 21.0 1.0 OE1 A:GLU206 3.0 19.9 1.0 NH2 B:ARG36 4.0 16.5 1.0 CG B:GLU10 4.1 17.1 1.0 O A:HOH426 4.1 19.9 1.0 O B:HOH417 4.2 20.3 1.0 CG A:GLU206 4.3 21.6 1.0 O B:HOH475 4.5 44.9 1.0 CB B:GLU10 4.6 13.5 1.0

Zinc binding site 4 out of 17 in the Crystal Structure of Large Stokes Shift Fluorescent Protein Lssmorange


Mono view


Stereo pair view

A full contact list of Zinc with other atoms in the Zn binding site number 4 of Crystal Structure of Large Stokes Shift Fluorescent Protein Lssmorange within 5.0Å range: probe atom residue distance (Å) B Occ A:Zn304 b:21.7 occ:1.00 OXT A:ACT315 1.8 35.3 1.0 OD2 A:ASP227 2.0 20.0 1.0 O A:HOH481 2.1 17.9 1.0 O A:HOH482 2.1 30.8 1.0 C A:ACT315 2.6 38.2 1.0 O A:ACT315 2.7 44.7 1.0 CG A:ASP227 3.0 17.1 1.0 OD1 A:ASP227 3.3 17.3 1.0 CG A:GLU228 3.8 25.3 1.0 CH3 A:ACT315 4.1 44.8 1.0 NZ A:LYS231 4.1 55.4 1.0 OE2 A:GLU228 4.2 22.4 1.0 CB A:ASP227 4.4 15.7 1.0 CD A:GLU228 4.4 26.2 1.0 CE A:LYS231 4.7 55.8 1.0 N A:GLU228 5.0 16.3 1.0

Zinc binding site 5 out of 17 in the Crystal Structure of Large Stokes Shift Fluorescent Protein Lssmorange


Mono view


Stereo pair view

A full contact list of Zinc with other atoms in the Zn binding site number 5 of Crystal Structure of Large Stokes Shift Fluorescent Protein Lssmorange within 5.0Å range: probe atom residue distance (Å) B Occ A:Zn305 b:31.4 occ:1.00 OD1 A:ASP78 1.9 27.6 1.0 NE2 A:HIS221 2.0 20.7 1.0 O A:ACT314 2.1 37.4 1.0 OXT A:ACT314 2.2 34.1 1.0 C A:ACT314 2.5 31.6 1.0 CG A:ASP78 2.6 24.1 1.0 OD2 A:ASP78 2.7 21.8 1.0 CE1 A:HIS221 3.0 21.7 1.0 CD2 A:HIS221 3.0 21.6 1.0 CH3 A:ACT314 3.9 35.1 1.0 CB A:ASP78 4.1 19.9 1.0 ND1 A:HIS221 4.1 21.0 1.0 CG A:HIS221 4.2 20.8 1.0 O A:HOH460 4.4 25.3 1.0 CB A:PRO76 4.9 19.6 1.0

Zinc binding site 6 out of 17 in the Crystal Structure of Large Stokes Shift Fluorescent Protein Lssmorange


Mono view


Stereo pair view

A full contact list of Zinc with other atoms in the Zn binding site number 6 of Crystal Structure of Large Stokes Shift Fluorescent Protein Lssmorange within 5.0Å range: probe atom residue distance (Å) B Occ A:Zn306 b:15.8 occ:1.00 OXT B:ACT308 2.0 16.2 1.0 OXT A:ACT311 2.0 18.2 1.0 OE2 B:GLU212 2.0 14.8 1.0 OE2 A:GLU34 2.0 19.2 1.0 CD A:GLU34 2.6 19.4 1.0 OE1 A:GLU34 2.7 20.0 1.0 CD B:GLU212 2.9 15.8 1.0 C A:ACT311 3.0 17.3 1.0 C B:ACT308 3.0 19.8 1.0 OE1 B:GLU212 3.1 21.9 1.0 CH3 A:ACT311 3.4 21.0 1.0 CH3 B:ACT308 3.5 23.0 1.0 NZ B:LYS45 4.0 15.9 1.0 O A:ACT311 4.1 23.6 1.0 O B:ACT308 4.1 18.8 1.0 CG A:GLU34 4.1 16.4 1.0 CE B:LYS45 4.1 14.3 1.0 OG B:SER203 4.2 16.8 1.0 CG B:GLU212 4.2 14.5 1.0 CD B:LYS45 4.5 13.1 1.0 CB B:SER203 4.5 13.6 1.0 NH2 A:ARG13 4.7 18.4 0.5 NH1 A:ARG13 4.9 16.7 0.5 CZ A:PHE11 4.9 17.1 1.0

Zinc binding site 7 out of 17 in the Crystal Structure of Large Stokes Shift Fluorescent Protein Lssmorange


Mono view


Stereo pair view

A full contact list of Zinc with other atoms in the Zn binding site number 7 of Crystal Structure of Large Stokes Shift Fluorescent Protein Lssmorange within 5.0Å range: probe atom residue distance (Å) B Occ A:Zn307 b:14.5 occ:1.00 OE2 A:GLU212 1.9 16.6 1.0 O B:ACT309 1.9 16.2 1.0 OXT A:ACT312 2.0 15.8 1.0 OE2 B:GLU34 2.0 18.4 1.0 OE1 B:GLU34 2.5 21.6 1.0 CD B:GLU34 2.6 17.2 1.0 CD A:GLU212 2.8 14.5 1.0 C B:ACT309 2.9 16.6 1.0 C A:ACT312 3.0 18.8 1.0 OE1 A:GLU212 3.0 18.8 1.0 CH3 A:ACT312 3.3 21.0 1.0 CH3 B:ACT309 3.3 20.4 1.0 OXT B:ACT309 4.0 23.3 1.0 NZ A:LYS45 4.0 16.3 1.0 O A:ACT312 4.1 19.8 1.0 CG B:GLU34 4.1 14.6 1.0 CE A:LYS45 4.1 15.5 1.0 OG A:SER203 4.1 16.2 1.0 CG A:GLU212 4.2 12.7 1.0 NH2 B:ARG13 4.4 14.9 0.5 NH1 B:ARG13 4.5 18.1 0.5 CD A:LYS45 4.5 13.9 1.0 CB A:SER203 4.6 14.0 1.0 CZ B:ARG13 5.0 15.2 0.5 CZ B:PHE11 5.0 15.8 1.0 O A:HOH493 5.0 25.4 1.0

Zinc binding site 8 out of 17 in the Crystal Structure of Large Stokes Shift Fluorescent Protein Lssmorange


Mono view


Stereo pair view

A full contact list of Zinc with other atoms in the Zn binding site number 8 of Crystal Structure of Large Stokes Shift Fluorescent Protein Lssmorange within 5.0Å range: probe atom residue distance (Å) B Occ A:Zn308 b:49.2 occ:1.00 ND1 A:HIS172 2.3 33.9 1.0 O A:HOH518 2.4 42.8 1.0 CE1 A:HIS172 3.2 23.3 1.0 CG A:HIS172 3.3 29.9 1.0 CB A:HIS172 3.6 26.1 1.0 NH1 A:ARG164 4.1 47.3 1.0 NE2 A:HIS172 4.4 30.2 1.0 CD2 A:HIS172 4.4 27.3 1.0 N A:HIS172 4.5 26.4 1.0 CA A:HIS172 4.7 24.3 1.0 CD A:ARG164 4.9 29.9 1.0

Zinc binding site 9 out of 17 in the Crystal Structure of Large Stokes Shift Fluorescent Protein Lssmorange


Mono view


Stereo pair view

A full contact list of Zinc with other atoms in the Zn binding site number 9 of Crystal Structure of Large Stokes Shift Fluorescent Protein Lssmorange within 5.0Å range: probe atom residue distance (Å) B Occ A:Zn309 b:38.9 occ:1.00 CD A:LYS50 4.5 27.8 1.0

Zinc binding site 10 out of 17 in the Crystal Structure of Large Stokes Shift Fluorescent Protein Lssmorange


Mono view


Stereo pair view

A full contact list of Zinc with other atoms in the Zn binding site number 10 of Crystal Structure of Large Stokes Shift Fluorescent Protein Lssmorange within 5.0Å range: probe atom residue distance (Å) B Occ A:Zn310 b:30.3 occ:1.00 O A:HOH546 1.8 31.6 1.0 O A:HOH556 1.9 45.5 1.0 ND1 A:HIS25 2.0 20.3 1.0 O A:HOH547 2.3 40.2 1.0 CE1 A:HIS25 3.0 25.4 1.0 CG A:HIS25 3.1 17.3 1.0 CB A:HIS25 3.5 16.3 1.0 CA A:HIS25 4.1 17.5 1.0 NE2 A:HIS25 4.2 20.7 1.0 CD2 A:HIS25 4.2 19.8 1.0 O A:HOH440 4.4 32.4 1.0 CG A:PRO55 4.5 28.2 1.0 N A:HIS25 4.9 16.4 1.0

S.Pletnev, D.M.Shcherbakova, O.M.Subach, N.V.Pletneva, V.N.Malashkevich, S.C.Almo, Z.Dauter, V.V.Verkhusha. Orange Fluorescent Proteins: Structural Studies of Lssmorange, Psmorange and PSMORANGE2. Plos One V. 9 99136 2014.
ISSN: ESSN 1932-6203
PubMed: 24960050
DOI: 10.1371/JOURNAL.PONE.0099136