Zinc in PDB 1ete: Crystal Structure of the FLT3 Ligand

The structure of Crystal Structure of the FLT3 Ligand, PDB code: 1ete was solved by S.N.Savvides, T.Boone, P.A.Karplus, with X-Ray Crystallography technique. A brief refinement statistics is given in the table below:

Resolution Low / High (Å)	20.00 / 2.20
Space group	P 21 21 2
Cell size a, b, c (Å), α, β, γ (°)	137.080, 159.410, 26.250, 90.00, 90.00, 90.00
R / Rfree (%)	23.9 / 28.7

The binding sites of Zinc atom in the Crystal Structure of the FLT3 Ligand (pdb code 1ete). This binding sites where shown within 5.0 Angstroms radius around Zinc atom.
In total 9 binding sites of Zinc where determined in the Crystal Structure of the FLT3 Ligand, PDB code: 1ete:
Jump to Zinc binding site number: 1; 2; 3; 4; 5; 6; 7; 8; 9;

Zinc binding site 1 out of 9 in the Crystal Structure of the FLT3 Ligand


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 the FLT3 Ligand within 5.0Å range: probe atom residue distance (Å) B Occ A:Zn135 b:54.8 occ:1.00 O A:HOH4068 2.0 75.5 1.0 NE2 A:HIS80 2.1 56.1 1.0 O A:HOH4067 2.1 50.8 1.0 OE2 A:GLU58 2.7 54.1 1.0 CE1 A:HIS80 2.9 43.8 1.0 CD2 A:HIS80 3.2 45.9 1.0 CD A:GLU58 3.3 44.4 1.0 OE1 A:GLU58 3.4 59.6 1.0 ND1 A:HIS80 4.0 41.7 1.0 ND2 A:ASN76 4.0 21.9 1.0 O A:HOH4020 4.1 39.0 1.0 CG A:HIS80 4.2 35.0 1.0 NE2 A:GLN54 4.5 15.4 1.0 CG A:GLU58 4.6 40.6 1.0 NZ A:LYS61 4.9 37.7 1.0

Zinc binding site 2 out of 9 in the Crystal Structure of the FLT3 Ligand


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 the FLT3 Ligand within 5.0Å range: probe atom residue distance (Å) B Occ A:Zn136 b:69.8 occ:1.00 NE2 A:HIS8 2.0 84.0 1.0 CE1 A:HIS8 2.8 79.0 1.0 CD2 A:HIS8 3.1 68.9 1.0 ND1 A:HIS8 3.9 66.9 1.0 CG A:HIS8 4.1 64.4 1.0

Zinc binding site 3 out of 9 in the Crystal Structure of the FLT3 Ligand


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 the FLT3 Ligand within 5.0Å range: probe atom residue distance (Å) B Occ A:Zn137 b:0.0 occ:1.00 OD2 A:ASP3 2.3 68.6 1.0 CG A:ASP3 3.2 44.1 1.0 OD1 A:ASP3 3.3 61.4 1.0 CB A:ASP3 4.6 51.3 1.0 O A:HOH4070 4.8 37.4 1.0 O A:HOH4056 5.0 41.9 1.0

Zinc binding site 4 out of 9 in the Crystal Structure of the FLT3 Ligand


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 the FLT3 Ligand within 5.0Å range: probe atom residue distance (Å) B Occ B:Zn1135 b:63.9 occ:1.00 NE2 B:HIS80 2.0 48.0 1.0 CD2 B:HIS80 3.0 37.4 1.0 CE1 B:HIS80 3.1 42.9 1.0 OE2 B:GLU58 4.0 56.7 1.0 CG B:HIS80 4.1 43.1 1.0 ND1 B:HIS80 4.2 40.2 1.0 OG1 B:THR83 4.3 32.5 1.0 CG2 B:THR83 4.7 31.4 1.0 CB B:THR83 4.9 25.8 1.0

Zinc binding site 5 out of 9 in the Crystal Structure of the FLT3 Ligand


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 the FLT3 Ligand within 5.0Å range: probe atom residue distance (Å) B Occ B:Zn1136 b:65.5 occ:1.00 OD1 B:ASP14 2.0 28.1 1.0 OE2 B:GLU78 2.1 49.6 1.0 CG B:ASP14 2.8 40.9 1.0 OD2 B:ASP14 2.9 28.6 1.0 CD B:GLU78 3.0 52.1 1.0 OG B:SER12 3.3 67.7 1.0 OE1 B:GLU78 3.4 52.9 1.0 CE B:LYS18 3.5 67.6 1.0 CD B:LYS18 4.0 70.6 1.0 CB B:SER12 4.0 57.8 1.0 NZ B:LYS18 4.0 74.0 1.0 O B:ASP14 4.2 57.1 1.0 CB B:ASP14 4.3 35.4 1.0 C B:ASP14 4.4 49.6 1.0 CG B:GLU78 4.4 43.1 1.0 CG B:LYS18 4.4 57.0 1.0 CA B:ASP14 4.7 45.2 1.0 O D:SER36 4.9 0.0 1.0 N B:PHE15 4.9 50.0 1.0 N B:ASP14 4.9 45.6 1.0

Zinc binding site 6 out of 9 in the Crystal Structure of the FLT3 Ligand


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 the FLT3 Ligand within 5.0Å range: probe atom residue distance (Å) B Occ B:Zn1137 b:55.6 occ:1.00 OE2 B:GLU42 1.8 52.4 1.0 OD2 B:ASP40 2.3 50.7 1.0 O B:HOH5017 2.3 36.8 1.0 CD B:GLU42 2.7 50.2 1.0 OE1 B:GLU42 2.9 44.0 1.0 CG B:ASP40 3.2 54.4 1.0 OD1 B:ASP40 3.3 66.8 1.0 CG B:GLU42 4.1 50.4 1.0 CB B:ASP40 4.6 42.6 1.0 O B:ASP40 4.7 39.2 1.0 O B:HOH5073 4.7 34.3 1.0 N B:GLU42 4.8 48.9 1.0 C B:ASP40 4.8 29.4 1.0 O B:HOH5046 4.8 32.4 1.0

Zinc binding site 7 out of 9 in the Crystal Structure of the FLT3 Ligand


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 the FLT3 Ligand within 5.0Å range: probe atom residue distance (Å) B Occ C:Zn2135 b:63.7 occ:1.00 OE2 C:GLU58 2.2 62.9 1.0 NE2 C:HIS80 2.5 60.0 1.0 O C:HOH6033 2.8 31.1 1.0 CD C:GLU58 3.3 61.7 1.0 CD2 C:HIS80 3.3 48.0 1.0 CE1 C:HIS80 3.6 62.1 1.0 OE1 C:GLU58 4.0 70.5 1.0 NE2 C:GLN54 4.0 22.4 1.0 ND2 C:ASN76 4.3 32.2 1.0 CG C:GLU58 4.3 41.8 1.0 CG C:HIS80 4.6 50.1 1.0 ND1 C:HIS80 4.7 52.7 1.0 O C:HOH6049 4.7 32.5 1.0

Zinc binding site 8 out of 9 in the Crystal Structure of the FLT3 Ligand


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 the FLT3 Ligand within 5.0Å range: probe atom residue distance (Å) B Occ C:Zn2136 b:40.2 occ:1.00 OE2 C:GLU78 1.9 25.5 1.0 OD1 C:ASP14 1.9 32.4 1.0 CG C:ASP14 2.9 34.7 1.0 CE C:LYS18 2.9 47.7 1.0 CD C:GLU78 3.0 24.9 1.0 O C:HOH6042 3.1 36.9 1.0 OD2 C:ASP14 3.2 38.4 1.0 NZ C:LYS18 3.5 76.1 1.0 CD C:LYS18 3.5 36.3 1.0 OE1 C:GLU78 3.5 18.7 1.0 OG C:SER12 3.6 21.8 1.0 CG C:LYS18 3.9 31.4 1.0 O C:HOH6019 4.1 31.4 1.0 O C:ASP14 4.1 32.5 1.0 CB C:SER12 4.1 20.3 1.0 C C:ASP14 4.3 33.7 1.0 CB C:ASP14 4.3 30.8 1.0 CG C:GLU78 4.3 15.7 1.0 N C:PHE15 4.6 30.5 1.0 CA C:ASP14 4.7 33.6 1.0 CA C:PHE15 4.8 27.9 1.0 CB C:LYS18 4.9 29.9 1.0

Zinc binding site 9 out of 9 in the Crystal Structure of the FLT3 Ligand


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 the FLT3 Ligand within 5.0Å range: probe atom residue distance (Å) B Occ D:Zn3135 b:82.0 occ:1.00 NE2 D:HIS80 2.7 70.6 1.0 OE2 D:GLU58 2.9 49.0 1.0 CD2 D:HIS80 3.2 64.6 1.0 CE1 D:HIS80 3.6 74.8 1.0 CD D:GLU58 3.7 47.8 1.0 OE1 D:GLU58 3.8 43.7 1.0 ND2 D:ASN76 4.0 50.9 1.0 NE2 D:GLN54 4.3 48.9 1.0 CG D:HIS80 4.3 65.6 1.0 ND1 D:HIS80 4.5 70.7 1.0 NZ D:LYS61 4.9 46.4 1.0 O D:HOH7001 4.9 47.2 1.0

S.N.Savvides, T.Boone, P.Andrew Karplus. FLT3 Ligand Structure and Unexpected Commonalities of Helical Bundles and Cystine Knots. Nat.Struct.Biol. V. 7 486 2000.
ISSN: ISSN 1072-8368
PubMed: 10881197
DOI: 10.1038/75896