Zinc in PDB 5zwn: Cryo-Em Structure of the Yeast Pre-B Complex at An Average Resolution of 3.3 Angstrom (Part II: U1 Snrnp Region)

All present enzymatic activity of Cryo-Em Structure of the Yeast Pre-B Complex at An Average Resolution of 3.3 Angstrom (Part II: U1 Snrnp Region):
3.6.4.13;

The binding sites of Zinc atom in the Cryo-Em Structure of the Yeast Pre-B Complex at An Average Resolution of 3.3 Angstrom (Part II: U1 Snrnp Region) (pdb code 5zwn). This binding sites where shown within 5.0 Angstroms radius around Zinc atom.
In total 3 binding sites of Zinc where determined in the Cryo-Em Structure of the Yeast Pre-B Complex at An Average Resolution of 3.3 Angstrom (Part II: U1 Snrnp Region), PDB code: 5zwn:
Jump to Zinc binding site number: 1; 2; 3;

Zinc binding site 1 out of 3 in the Cryo-Em Structure of the Yeast Pre-B Complex at An Average Resolution of 3.3 Angstrom (Part II: U1 Snrnp Region)


Mono view


Stereo pair view

A full contact list of Zinc with other atoms in the Zn binding site number 1 of Cryo-Em Structure of the Yeast Pre-B Complex at An Average Resolution of 3.3 Angstrom (Part II: U1 Snrnp Region) within 5.0Å range: probe atom residue distance (Å) B Occ R:Zn500 b:85.3 occ:1.00 SG R:CYS6 2.4 37.4 1.0 ND1 R:HIS30 2.4 58.0 1.0 NE2 R:HIS24 2.4 59.7 1.0 CE1 R:HIS24 2.5 61.8 1.0 SG R:CYS9 2.6 64.4 1.0 CE1 R:HIS30 3.1 54.7 1.0 CG R:HIS30 3.1 54.1 1.0 CB R:CYS9 3.2 65.0 1.0 CB R:CYS6 3.3 44.0 1.0 CD2 R:HIS24 3.4 54.6 1.0 ND1 R:HIS24 3.5 56.5 1.0 CB R:HIS30 3.5 62.0 1.0 CG R:HIS24 3.9 53.5 1.0 NE2 R:HIS30 4.0 48.2 1.0 CD2 R:HIS30 4.0 48.0 1.0 N R:CYS9 4.1 64.6 1.0 CA R:CYS9 4.3 63.5 1.0 CA R:HIS30 4.4 67.5 1.0 CA R:CYS6 4.7 41.7 1.0 O R:CYS6 4.8 51.3 1.0 OG R:SER11 4.9 69.3 1.0 C R:CYS6 5.0 43.4 1.0

Zinc binding site 2 out of 3 in the Cryo-Em Structure of the Yeast Pre-B Complex at An Average Resolution of 3.3 Angstrom (Part II: U1 Snrnp Region)


Mono view


Stereo pair view

A full contact list of Zinc with other atoms in the Zn binding site number 2 of Cryo-Em Structure of the Yeast Pre-B Complex at An Average Resolution of 3.3 Angstrom (Part II: U1 Snrnp Region) within 5.0Å range: probe atom residue distance (Å) B Occ Y:Zn500 b:88.8 occ:1.00 SG Y:CYS204 2.3 0.1 1.0 CB Y:CYS201 2.7 0.2 1.0 NE2 Y:HIS220 2.7 0.0 1.0 SG Y:CYS201 2.9 0.7 1.0 NE2 Y:HIS226 3.0 0.1 1.0 CD2 Y:HIS226 3.1 0.0 1.0 CD2 Y:HIS220 3.4 0.8 1.0 CE1 Y:HIS226 3.4 91.9 1.0 CG Y:HIS226 3.5 1.0 1.0 ND1 Y:HIS226 3.7 0.9 1.0 CE1 Y:HIS220 3.8 0.8 1.0 CE1 Y:PHE221 3.9 1.0 1.0 CB Y:CYS204 4.1 0.9 1.0 CD1 Y:LEU208 4.1 0.2 1.0 N Y:CYS204 4.1 0.2 1.0 CA Y:CYS201 4.2 0.2 1.0 CD1 Y:PHE221 4.2 0.1 1.0 CD2 Y:LEU208 4.4 0.6 1.0 CB Y:VAL203 4.4 0.2 1.0 CB Y:HIS226 4.5 0.3 1.0 CG Y:HIS220 4.6 0.6 1.0 C Y:CYS201 4.7 0.2 1.0 CA Y:CYS204 4.7 0.3 1.0 O Y:CYS201 4.8 0.9 1.0 ND1 Y:HIS220 4.8 0.2 1.0 CG Y:LEU208 4.9 0.4 1.0 N Y:VAL203 4.9 0.9 1.0 N Y:CYS201 5.0 0.5 1.0

Zinc binding site 3 out of 3 in the Cryo-Em Structure of the Yeast Pre-B Complex at An Average Resolution of 3.3 Angstrom (Part II: U1 Snrnp Region)


Mono view


Stereo pair view

A full contact list of Zinc with other atoms in the Zn binding site number 3 of Cryo-Em Structure of the Yeast Pre-B Complex at An Average Resolution of 3.3 Angstrom (Part II: U1 Snrnp Region) within 5.0Å range: probe atom residue distance (Å) B Occ Y:Zn501 b:0.2 occ:1.00 SG Y:CYS53 2.4 0.7 1.0 SG Y:CYS68 2.7 0.1 1.0 SG Y:CYS45 3.0 0.5 1.0 CD2 Y:HIS72 3.2 0.9 1.0 NE2 Y:HIS72 3.2 0.4 1.0 CB Y:CYS53 4.0 0.3 1.0 CG Y:HIS72 4.0 0.4 1.0 CE1 Y:HIS72 4.0 0.7 1.0 CB Y:CYS68 4.2 0.8 1.0 CB Y:TYR55 4.2 0.3 1.0 CD Y:LYS46 4.3 0.8 1.0 O Y:PRO69 4.3 0.4 1.0 ND1 Y:HIS72 4.5 0.4 1.0 CD2 Y:TYR55 4.6 0.7 1.0 CB Y:CYS45 4.6 0.8 1.0 NZ Y:LYS46 4.8 0.8 1.0 CG Y:TYR55 4.8 0.6 1.0 CB Y:HIS72 5.0 0.1 1.0

R.Bai, R.Wan, C.Yan, J.Lei, Y.Shi. Structures of the Fully Assembledsaccharomyces Cerevisiaespliceosome Before Activation Science V. 360 1423 2018.
ISSN: ESSN 1095-9203
PubMed: 29794219
DOI: 10.1126/SCIENCE.AAU0325