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Iodine in PDB 2anx: Crystal Structure of Bacteriophage P22 Lysozyme Mutant L87M

Enzymatic activity of Crystal Structure of Bacteriophage P22 Lysozyme Mutant L87M

All present enzymatic activity of Crystal Structure of Bacteriophage P22 Lysozyme Mutant L87M:
3.2.1.17;

Protein crystallography data

The structure of Crystal Structure of Bacteriophage P22 Lysozyme Mutant L87M, PDB code: 2anx was solved by B.H.Mooers, B.W.Matthews, with X-Ray Crystallography technique. A brief refinement statistics is given in the table below:

Resolution Low / High (Å) 42.00 / 1.04
Space group C 1 2 1
Cell size a, b, c (Å), α, β, γ (°) 134.013, 50.415, 46.587, 90.00, 103.80, 90.00
R / Rfree (%) 11.7 / 15

Other elements in 2anx:

The structure of Crystal Structure of Bacteriophage P22 Lysozyme Mutant L87M also contains other interesting chemical elements:

Samarium (Sm) 3 atoms
Magnesium (Mg) 1 atom

Iodine Binding Sites:

The binding sites of Iodine atom in the Crystal Structure of Bacteriophage P22 Lysozyme Mutant L87M (pdb code 2anx). This binding sites where shown within 5.0 Angstroms radius around Iodine atom.
In total 9 binding sites of Iodine where determined in the Crystal Structure of Bacteriophage P22 Lysozyme Mutant L87M, PDB code: 2anx:
Jump to Iodine binding site number: 1; 2; 3; 4; 5; 6; 7; 8; 9;

Iodine binding site 1 out of 9 in 2anx

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Iodine binding site 1 out of 9 in the Crystal Structure of Bacteriophage P22 Lysozyme Mutant L87M


Mono view


Stereo pair view

A full contact list of Iodine with other atoms in the I binding site number 1 of Crystal Structure of Bacteriophage P22 Lysozyme Mutant L87M within 5.0Å range:
probe atom residue distance (Å) B Occ
A:I2811

b:14.5
occ:0.26
 O A:HOH3084 2.9 22.9 1.0
NZ A:LYS61 3.2 59.6 1.0
OG A:SER6 4.0 17.1 1.0
CE A:LYS61 4.1 32.7 1.0
CG2 A:ILE9 4.1 10.1 1.0
CB A:SER57 4.1 11.1 1.0
OG A:SER57 4.3 13.9 1.0
CB A:SER6 4.3 12.2 1.0
NE2 B:GLN3 4.3 29.3 1.0
CA A:SER6 4.3 9.8 1.0
CB A:ILE9 4.3 8.9 1.0
OE1 B:GLN3 4.3 24.7 1.0
O B:HOH3192 4.4 32.0 1.0
CG1 A:ILE9 4.5 9.9 1.0
CD B:GLN3 4.7 19.4 1.0
O A:SER6 4.9 10.0 1.0
CD A:LYS61 5.0 19.3 1.0

Iodine binding site 2 out of 9 in 2anx

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Iodine binding site 2 out of 9 in the Crystal Structure of Bacteriophage P22 Lysozyme Mutant L87M


Mono view


Stereo pair view

A full contact list of Iodine with other atoms in the I binding site number 2 of Crystal Structure of Bacteriophage P22 Lysozyme Mutant L87M within 5.0Å range:
probe atom residue distance (Å) B Occ
A:I2813

b:14.5
occ:0.29
 O B:HOH3041 3.1 20.5 1.0
OG1 A:THR10 3.4 11.2 1.0
O A:HOH2969 3.5 11.9 1.0
CA A:ASN7 3.8 9.6 1.0
O A:SER6 3.8 10.0 1.0
N A:ASN7 3.9 9.6 1.0
C A:SER6 4.0 9.2 1.0
CD B:LYS61 4.0 24.2 1.0
CB A:THR10 4.1 9.2 1.0
CB B:LYS61 4.1 13.9 1.0
O B:HOH3234 4.2 28.0 1.0
CB A:SER6 4.5 12.2 1.0
CB A:ASN7 4.5 10.4 1.0
CG B:LYS61 4.6 21.7 1.0
CG2 A:THR10 4.6 10.3 1.0
O B:HOH4677 4.7 42.1 1.0
OD1 A:ASN7 4.8 10.8 1.0
O A:HOH3084 4.8 22.9 1.0
CG B:GLU58 4.8 13.7 1.0
CA A:SER6 4.9 9.8 1.0
C A:ASN7 5.0 8.4 1.0
NZ B:LYS61 5.0 20.1 1.0

Iodine binding site 3 out of 9 in 2anx

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Iodine binding site 3 out of 9 in the Crystal Structure of Bacteriophage P22 Lysozyme Mutant L87M


Mono view


Stereo pair view

A full contact list of Iodine with other atoms in the I binding site number 3 of Crystal Structure of Bacteriophage P22 Lysozyme Mutant L87M within 5.0Å range:
probe atom residue distance (Å) B Occ
A:I2815

b:13.5
occ:0.29
 O B:HOH3609 2.2 31.1 1.0
O A:HOH3223 2.4 24.7 0.5
O A:HOH3055 2.5 19.5 1.0
O A:HOH3223 3.7 22.5 0.5
O3 B:SO42205 4.4 29.3 1.0
O B:HOH3351 4.4 23.0 1.0
OG A:SER146 4.6 28.3 1.0
CB A:ALA142 4.6 12.2 1.0
O B:HOH3313 4.6 44.6 1.0
O A:ALA142 4.6 11.2 1.0
O2 B:SO42205 4.6 25.2 1.0
O B:HOH3518 4.7 31.4 0.5
O B:HOH2978 4.8 11.9 0.5

Iodine binding site 4 out of 9 in 2anx

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Iodine binding site 4 out of 9 in the Crystal Structure of Bacteriophage P22 Lysozyme Mutant L87M


Mono view


Stereo pair view

A full contact list of Iodine with other atoms in the I binding site number 4 of Crystal Structure of Bacteriophage P22 Lysozyme Mutant L87M within 5.0Å range:
probe atom residue distance (Å) B Occ
A:I2817

b:15.5
occ:0.16
 O A:HOH3681 2.3 31.7 1.0
O A:HOH3299 3.3 31.8 1.0
O A:HOH3717 3.7 43.8 1.0
O A:HOH3097 3.9 31.9 1.0
O A:THR50 4.6 17.9 0.5
O A:THR50 4.6 18.2 0.5
O A:HOH2964 4.7 13.5 1.0

Iodine binding site 5 out of 9 in 2anx

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Iodine binding site 5 out of 9 in the Crystal Structure of Bacteriophage P22 Lysozyme Mutant L87M


Mono view


Stereo pair view

A full contact list of Iodine with other atoms in the I binding site number 5 of Crystal Structure of Bacteriophage P22 Lysozyme Mutant L87M within 5.0Å range:
probe atom residue distance (Å) B Occ
B:I2812

b:15.8
occ:0.44
 OG B:SER6 3.0 34.8 0.7
NZ B:LYS61 3.3 20.1 1.0
O A:HOH3169 3.3 15.9 1.0
CE B:LYS61 3.6 19.6 1.0
CA B:SER6 3.6 11.0 1.0
N B:SER6 3.8 9.7 1.0
CB B:SER6 3.8 14.8 0.7
CB B:SER6 3.9 9.4 0.3
CD A:ARG14 3.9 8.9 0.3
CD A:LYS13 4.0 21.1 1.0
CG2 A:THR10 4.0 10.3 1.0
CG A:ARG14 4.1 9.4 0.3
C B:SER5 4.3 9.5 1.0
O B:HOH3192 4.4 32.0 1.0
OG B:SER6 4.4 8.1 0.3
O B:SER5 4.5 9.7 1.0
CB A:LYS13 4.5 12.1 1.0
O A:THR10 4.5 8.5 1.0
CA A:THR10 4.6 8.5 1.0
CG1 B:ILE9 4.6 11.8 1.0
CB A:THR10 4.7 9.2 1.0
OG1 A:THR10 4.8 11.2 1.0
CG A:LYS13 4.9 14.5 1.0
O B:HOH3022 5.0 16.5 1.0
CD B:LYS61 5.0 24.2 1.0
CE A:LYS13 5.0 18.7 1.0

Iodine binding site 6 out of 9 in 2anx

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Iodine binding site 6 out of 9 in the Crystal Structure of Bacteriophage P22 Lysozyme Mutant L87M


Mono view


Stereo pair view

A full contact list of Iodine with other atoms in the I binding site number 6 of Crystal Structure of Bacteriophage P22 Lysozyme Mutant L87M within 5.0Å range:
probe atom residue distance (Å) B Occ
B:I2814

b:15.9
occ:0.34
 N B:SER47 3.6 34.4 1.0
OG B:SER24 3.6 24.0 1.0
C B:TYR23 3.7 9.7 1.0
O B:TYR23 3.8 13.7 1.0
C B:ALA46 4.0 27.2 1.0
CA B:SER47 4.0 31.5 1.0
CB B:PRO30 4.0 10.7 1.0
N B:SER24 4.1 12.5 1.0
CA B:TYR23 4.2 11.4 1.0
N B:TYR23 4.2 11.9 1.0
CA B:ALA46 4.3 25.5 1.0
CA B:PRO30 4.3 9.5 1.0
CB B:ALA22 4.4 14.9 1.0
CB B:SER47 4.4 40.2 1.0
C B:ALA22 4.5 11.8 1.0
CG B:PRO30 4.5 11.5 1.0
CA B:SER24 4.6 11.8 1.0
O B:ALA46 4.6 22.8 1.0
CB B:SER24 4.7 15.3 1.0
O B:ALA22 4.7 13.9 1.0
O B:HOH3338 4.8 21.8 1.0
N B:ALA46 4.9 25.6 1.0
O B:HOH3629 4.9 23.4 0.5

Iodine binding site 7 out of 9 in 2anx

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Iodine binding site 7 out of 9 in the Crystal Structure of Bacteriophage P22 Lysozyme Mutant L87M


Mono view


Stereo pair view

A full contact list of Iodine with other atoms in the I binding site number 7 of Crystal Structure of Bacteriophage P22 Lysozyme Mutant L87M within 5.0Å range:
probe atom residue distance (Å) B Occ
B:I2816

b:19.1
occ:0.34
 O B:HOH3013 3.2 17.8 0.5
NZ B:LYS111 3.3 33.6 1.0
O B:HOH3013 3.9 21.3 0.5
CD B:PRO78 4.0 16.5 1.0
CE B:LYS111 4.2 30.9 1.0
CG1 B:VAL77 4.2 16.1 1.0
O B:ARG76 4.2 17.1 1.0
CD B:LYS111 4.3 26.1 1.0
CA B:VAL77 4.3 13.4 1.0
CB B:VAL77 4.5 13.9 1.0
O B:HOH3301 4.7 32.4 1.0
CG B:PRO78 4.9 22.1 1.0

Iodine binding site 8 out of 9 in 2anx

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Iodine binding site 8 out of 9 in the Crystal Structure of Bacteriophage P22 Lysozyme Mutant L87M


Mono view


Stereo pair view

A full contact list of Iodine with other atoms in the I binding site number 8 of Crystal Structure of Bacteriophage P22 Lysozyme Mutant L87M within 5.0Å range:
probe atom residue distance (Å) B Occ
B:I2818

b:19.2
occ:0.25
 I B:IOD2818 0.0 19.2 0.2
OE1 B:GLU62 1.9 53.5 1.0
O B:HOH3294 2.1 24.6 0.5
O B:HOH3294 2.6 20.4 0.5
I B:IOD2818 2.6 62.6 0.2
CD B:GLU62 2.9 37.4 1.0
OE2 B:GLU62 3.1 34.0 1.0
O B:HOH2910 3.3 17.2 0.5
CG B:GLU62 4.2 25.6 1.0
O B:LYS39 4.6 19.3 1.0
O B:HOH3210 4.8 36.8 1.0
O B:HOH4631 4.8 55.4 1.0
O B:HOH2910 4.8 24.7 0.5
O B:HOH4621 4.8 37.1 1.0

Iodine binding site 9 out of 9 in 2anx

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Iodine binding site 9 out of 9 in the Crystal Structure of Bacteriophage P22 Lysozyme Mutant L87M


Mono view


Stereo pair view

A full contact list of Iodine with other atoms in the I binding site number 9 of Crystal Structure of Bacteriophage P22 Lysozyme Mutant L87M within 5.0Å range:
probe atom residue distance (Å) B Occ
B:I2818

b:62.6
occ:0.25
 I B:IOD2818 0.0 62.6 0.2
I B:IOD2818 2.6 19.2 0.2
OE1 B:GLU62 2.8 53.5 1.0
O B:HOH2910 2.9 17.2 0.5
O B:HOH3294 2.9 20.4 0.5
NE2 B:HIS36 3.2 20.3 1.0
O B:LYS39 3.3 19.3 1.0
O B:HOH4631 3.4 55.4 1.0
CE1 B:HIS36 3.5 18.6 1.0
CD B:GLU62 3.6 37.4 1.0
O B:HOH3294 3.6 24.6 0.5
N B:LYS39 3.7 18.1 1.0
OE2 B:GLU62 3.8 34.0 1.0
CA B:GLY38 3.9 16.0 1.0
C B:GLY38 4.0 14.5 1.0
O B:HOH4508 4.1 34.5 1.0
C B:LYS39 4.2 16.0 1.0
CD2 B:HIS36 4.4 15.4 1.0
CA B:LYS39 4.5 19.1 1.0
N B:GLY38 4.7 14.5 1.0
O B:HOH2910 4.7 24.7 0.5
O B:GLY38 4.8 16.6 1.0
ND1 B:HIS36 4.8 16.4 1.0
O B:HOH3111 4.8 26.2 1.0
CG B:GLU62 4.8 25.6 1.0
CB B:LYS39 4.9 23.9 1.0
OD2 B:ASP63 4.9 20.5 1.0

Reference:

B.H.Mooers, B.W.Matthews. Extension to 2268 Atoms of Direct Methods in the Ab Initio Determination of the Unknown Structure of Bacteriophage P22 Lysozyme. Acta Crystallogr.,Sect.D V. 62 165 2006.
ISSN: ISSN 0907-4449
PubMed: 16421448
DOI: 10.1107/S0907444905037212
Page generated: Sun Aug 11 13:15:04 2024

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