Contacts of the helix formed by residues 112 - 133 (chain E) in PDB entry 1ZWS
Residue contacts within the protein are
derived with the CSU software (Sobolev V., Sorokine A.,
Prilusky J., Abola E.E. and Edelman M. (1999) Automated
analysis of interatomic contacts in proteins.
Bioinformatics, 15, 327-332). A
short description of the analytical approach
is given at the end of the page.
Note:
Non-standard 3 letter residue
codes indicate a heterogroup. To identify
and analyse, use LPC software
Legend:
Dist - nearest distance (Å) between atoms of two residues
Surf - contact surface area (Å2) between two residues
HB - hydrophilic-hydrophilic contact (hydrogen bond)
Arom - aromatic-aromatic contact
Phob - hydrophobic-hydrophobic contact
DC - hydrophobic-hydrophilic contact (destabilizing contact)
+/- - indicates presence/absence of a specific contacts
* - indicates residues forming contacts by their side chain
(including CA atoms)
Residues in contact with SER 112 (chain E).
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Specific contacts
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Residue Dist Surf HB Arom Phob DC
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111E LEU* 1.3 74.8 - - - +
113E GLU* 1.3 54.0 + - - +
114E GLU* 3.6 11.9 + - - +
115E GLU* 2.8 34.9 + - - +
116E ALA* 2.7 33.4 + - - +
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Residues in contact with GLU 113 (chain E).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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111E LEU 3.8 1.8 + - - +
112E SER* 1.3 72.9 - - - +
114E GLU* 1.3 53.7 + - - +
116E ALA* 2.8 11.9 + - - +
117E THR* 2.6 39.6 + - - +
211E LEU* 5.1 7.4 - - + -
243E HIS 4.3 1.4 - - - +
244E THR* 3.2 14.0 - - - +
245E SER* 2.4 56.1 + - - -
248E ALA* 4.1 6.7 - - - -
274E TRP* 2.7 26.1 + - + +
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Residues in contact with GLU 114 (chain E).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
112E SER* 3.1 9.8 + - - +
113E GLU* 1.3 79.2 - - - +
115E GLU* 1.3 56.8 + - - +
117E THR* 2.5 25.5 + - - +
118E SER* 2.8 12.7 + - - -
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Residues in contact with GLU 115 (chain E).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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108E LYS* 3.6 25.5 + - - +
110E SER 3.9 5.5 - - - +
111E LEU* 3.5 22.3 - - + +
112E SER* 2.8 30.2 + - - +
114E GLU* 1.3 78.6 + - - +
116E ALA* 1.3 57.5 + - - +
118E SER* 2.4 25.1 + - - +
119E PHE* 2.8 31.9 - - + -
154E ILE* 4.2 16.2 - - + +
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Residues in contact with ALA 116 (chain E).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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111E LEU* 3.6 22.4 - - + +
112E SER 2.7 17.2 + - - +
113E GLU* 2.8 14.3 + - - +
115E GLU* 1.3 69.3 - - - +
117E THR* 1.3 67.0 + - - +
118E SER 3.0 3.2 + - - -
119E PHE* 3.1 23.8 + - - +
120E ILE* 3.1 16.8 + - - +
210E LEU* 3.7 14.3 - - + +
211E LEU* 4.0 9.6 - - + -
274E TRP* 4.7 1.8 - - + -
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Residues in contact with THR 117 (chain E).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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113E GLU 2.6 16.0 + - - +
114E GLU* 2.5 30.7 + - - +
116E ALA* 1.3 71.1 - - - +
118E SER* 1.3 51.3 + - - +
120E ILE* 3.6 9.1 - - - +
121E LYS* 2.6 39.4 + - - +
274E TRP* 3.3 63.6 + - + +
275E ILE* 4.4 9.4 - - - +
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Residues in contact with SER 118 (chain E).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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114E GLU 2.8 11.8 + - - -
115E GLU* 2.4 29.7 + - - +
116E ALA 3.0 0.2 + - - -
117E THR* 1.3 78.0 + - - +
119E PHE* 1.3 68.3 + - - +
121E LYS* 3.2 6.4 + - - +
122E GLN* 3.1 23.3 + - - +
154E ILE* 4.7 20.3 - - - +
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Residues in contact with PHE 119 (chain E).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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101E LEU* 3.8 28.9 - - + -
104E PHE* 4.5 3.4 - + - -
105E LEU* 3.9 14.4 - - + -
108E LYS* 4.6 10.1 - - - -
111E LEU* 3.8 11.2 - - + -
115E GLU* 2.8 50.5 - - + -
116E ALA* 3.1 11.2 + - - +
118E SER* 1.3 72.5 - - - +
120E ILE* 1.3 70.2 + - - +
122E GLN* 2.6 29.7 + - - +
123E ILE* 3.1 12.9 + - + +
154E ILE* 5.0 12.6 - - + -
155E PRO* 4.3 22.0 - - + -
157E ILE* 3.7 24.0 - - + -
210E LEU* 4.9 9.6 - - + -
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Residues in contact with ILE 120 (chain E).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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116E ALA* 3.3 16.4 - - + +
117E THR* 3.6 11.4 - - - +
119E PHE* 1.3 78.5 - - - +
121E LYS* 1.3 62.8 + - - +
123E ILE* 3.1 22.0 + - + +
124E LEU* 3.0 25.1 + - + +
203E ILE* 4.8 7.9 - - + +
206E ILE* 4.8 3.4 - - + -
207E THR* 3.4 29.8 - - + +
210E LEU* 3.4 28.0 - - + -
251E PHE* 4.1 25.8 - - + -
274E TRP* 4.5 9.0 - - + -
275E ILE* 4.2 8.7 - - + -
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Residues in contact with LYS 121 (chain E).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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117E THR 2.6 22.5 + - - +
118E SER* 3.3 7.6 - - - +
119E PHE 2.7 3.0 + - - -
120E ILE* 1.3 69.5 - - - +
122E GLN* 1.3 67.0 + - + +
124E LEU* 2.8 22.7 + - - +
125E ASP* 2.8 53.7 + - - +
270E LEU* 4.6 8.4 - - + +
275E ILE* 4.0 30.5 - - + +
276E THR* 4.5 10.1 - - - -
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Residues in contact with GLN 122 (chain E).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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74E HIS* 4.7 2.8 + - - +
75E ASN* 3.4 26.9 + - - +
118E SER 3.1 11.5 + - - +
119E PHE* 2.6 19.5 + - - +
121E LYS* 1.3 72.6 - - + +
123E ILE* 1.3 63.6 + - - +
125E ASP* 2.8 21.6 + - - +
126E GLY* 2.9 11.4 + - - -
154E ILE* 4.2 13.7 - - - +
155E PRO 2.8 25.2 + - - +
156E HIS* 3.5 5.2 + - - -
157E ILE* 3.1 41.8 + - + +
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Residues in contact with ILE 123 (chain E).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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75E ASN* 5.8 0.7 - - - -
101E LEU* 4.6 9.0 - - + -
119E PHE* 3.1 8.2 + - + +
120E ILE* 3.2 33.0 - - + +
122E GLN* 1.3 76.6 - - - +
124E LEU* 1.3 54.2 + - - +
126E GLY* 3.5 1.3 + - - -
127E VAL* 2.7 50.7 + - + +
140E LEU* 5.5 1.8 - - + -
145E ILE* 4.1 30.7 - - + -
157E ILE* 4.2 23.1 - - + -
159E LEU* 4.4 8.7 - - + +
203E ILE* 4.1 20.4 - - + -
206E ILE* 4.7 13.5 - - + -
210E LEU* 5.9 0.4 - - + -
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Residues in contact with LEU 124 (chain E).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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120E ILE* 3.0 19.2 + - + +
121E LYS* 2.8 16.9 + - - +
123E ILE* 1.3 74.4 - - - +
125E ASP* 1.3 53.0 + - - +
127E VAL* 3.5 1.5 - - - +
128E ASN* 2.6 37.7 + - - +
200E MET* 5.2 0.4 - - + -
203E ILE* 4.2 26.7 - - + -
251E PHE* 4.3 8.5 - - + -
266E ILE* 3.5 24.7 - - + +
269E ALA* 4.3 15.3 - - + +
270E LEU* 3.5 29.2 - - + -
275E ILE* 4.0 28.9 - - + -
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Residues in contact with ASP 125 (chain E).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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73E HIS* 3.1 16.7 + - - +
74E HIS* 5.6 1.1 - - + -
75E ASN* 3.9 11.0 - - - +
121E LYS* 2.8 59.9 + - - +
122E GLN* 2.8 9.2 + - - +
124E LEU* 1.3 71.2 - - - +
126E GLY* 1.3 62.3 + - - +
128E ASN* 3.4 9.8 + - - +
129E TYR 3.3 14.7 + - - -
270E LEU* 4.5 9.6 - - - +
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Residues in contact with GLY 126 (chain E).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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73E HIS* 3.5 21.6 + - - -
75E ASN* 3.9 8.7 - - - -
76E VAL* 4.3 12.4 - - - +
122E GLN 2.9 11.3 + - - -
123E ILE 3.9 2.2 - - - -
125E ASP* 1.3 75.6 - - - +
127E VAL* 1.3 65.5 + - - +
129E TYR* 3.1 15.4 + - - +
130E LEU* 3.3 14.0 + - - +
159E LEU* 4.7 3.4 - - - -
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Residues in contact with VAL 127 (chain E).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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123E ILE* 2.7 43.4 + - + +
124E LEU* 3.6 3.8 - - - +
126E GLY* 1.3 75.4 - - - +
128E ASN* 1.3 65.4 + - - +
130E LEU* 3.1 13.5 + - + +
131E HIS* 3.0 52.1 + - + +
140E LEU* 4.4 7.4 - - + -
159E LEU* 4.0 13.9 - - + +
199E ASP* 5.0 4.3 - - + -
200E MET* 5.1 1.6 - - - -
203E ILE* 4.1 16.2 - - + -
266E ILE* 3.9 16.2 - - + -
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Residues in contact with ASN 128 (chain E).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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124E LEU 2.6 21.8 + - - +
125E ASP* 3.4 11.7 + - - +
126E GLY 3.1 0.2 - - - -
127E VAL* 1.3 74.4 - - - +
129E TYR* 1.3 66.1 + - - +
131E HIS* 3.4 2.0 + - - +
132E THR* 2.8 35.5 + - - -
266E ILE* 3.8 25.8 - - + +
267E GLN* 3.7 22.8 + - - +
270E LEU* 4.1 15.0 - - + +
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Residues in contact with TYR 129 (chain E).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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70E GLN 3.7 3.0 + - - -
71E VAL* 3.6 14.8 - - + -
72E LEU* 2.9 52.7 + - - +
73E HIS* 3.3 41.3 - + + -
125E ASP 3.3 2.6 + - - -
126E GLY 3.1 6.3 + - - +
128E ASN* 1.3 81.1 - - - +
130E LEU* 1.3 74.0 + - + +
132E THR* 3.0 13.0 + - - -
133E LYS* 3.2 40.5 + - + +
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Residues in contact with LEU 130 (chain E).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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71E VAL* 3.3 32.5 - - + -
76E VAL* 4.6 8.1 - - + -
126E GLY 3.7 9.2 - - - +
127E VAL* 3.1 19.3 + - + +
129E TYR* 1.3 78.9 - - + +
131E HIS* 1.3 59.6 + - + +
133E LYS* 2.4 38.5 + - - +
134E LYS 3.1 4.5 + - - -
135E ILE* 3.8 23.1 - - + +
137E HIS* 4.2 28.9 - - + +
159E LEU* 4.7 12.8 - - + -
162E PHE* 4.1 20.6 - - + -
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Residues in contact with HIS 131 (chain E).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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127E VAL* 3.0 38.7 + - + +
128E ASN 3.7 3.1 - - - +
130E LEU* 1.3 80.6 - - + +
132E THR* 1.3 55.2 + - - +
134E LYS* 2.6 27.9 + - - +
135E ILE 3.5 15.7 + - - +
137E HIS 5.3 0.2 - - - -
196E LEU* 3.4 52.5 + - + +
199E ASP* 3.2 29.7 - - + +
200E MET* 4.6 7.0 - - + -
266E ILE* 4.2 30.7 - - + -
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Residues in contact with THR 132 (chain E).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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128E ASN* 2.8 31.4 + - - -
129E TYR* 3.3 11.0 - - - -
130E LEU 2.6 5.3 + - - -
131E HIS* 1.3 69.1 - - - +
133E LYS* 1.3 58.4 - - + -
134E LYS* 2.8 21.4 + - - +
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Residues in contact with LYS 133 (chain E).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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70E GLN* 3.4 47.1 + - - +
71E VAL* 5.5 0.4 - - + -
129E TYR* 3.5 39.9 + - + +
130E LEU* 2.4 17.5 + - - +
132E THR* 1.3 74.0 - - + +
134E LYS* 1.3 72.0 + - - +
135E ILE* 3.6 21.7 - - + +
167E GLU* 4.7 3.5 - - - +
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A short description of the
analytical approach
The contact analysis used in this page
is based upon the approach
developed in:
Sobolev V., Wade R.C., Vriend G.
and Edelman M. PROTEINS (1996)
25, 120-129.
Contact legitimacy depends on the hydrophobic-hydrophilic
properties of the contacting atoms. In order to
define it, for each inter-atomic contact,
eight atom classes have been introduced:
I Hydrophilic - N and O that can donate and accept hydrogen bonds
(e.g., oxygen of hydroxyl group of Ser. or Thr)
II Acceptor - N or O that can only accept a hydrogen bond
III Donor - N that can only donate a hydrogen bond
IV Hydrophobic - Cl, Br, I and all C atoms that are not in
aromatic rings and do not have a covalent bond to
a N or O atom
V Aromatic - C in aromatic rings irrespective of any other
bonds formed by the atom
VI Neutral - C atoms that have a covalent bond to at least one
atom of class I or two or more atoms from class II
or III; atoms; S, F, P, and metal atoms in all cases
VII Neutral-donor - C atoms that have a covalent bond with only one
atom of class III
VIII Neutral-acceptor - C atoms that have a covalent bond with only
one atom of class II
For each pair of contacts the state of legitimacy
is shown below:
Legend:
+, legitimate
-, illegitimate
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Atomic class I II III IV V VI VII VIII
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I (Hydrophilic) + + + - + + + +
II (Acceptor) + - + - + + + -
III (Donor) + + - - + + - +
IV (Hydrophobic) - - - + + + + +
V (Aromatic) + + + + + + + +
VI (Neutral) + + + + + + + +
VII (Neutral-donor) + + - + + + - +
VIII (Neutral-acceptor) + - + + + + + -
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Warning!
Atom classes for heterogroups are automatically
assigned based on the atomic coordinates. However, in
three cases (see below) the automatic assignment
is currently ambiguous. In these
cases, the user is advised to manually analyse
the full list of contacts using
LPC software.
1. Carbon atoms belonging to a 4-, 5- or 6-member ring are
considered "aromatic" (Class V) if the ring is approximately
planar, and "hydrophobic" (Class IV) or "neutral" (Classes
VI, VII, VIII) if the ring is non-planar.
2. The oxygen atom of a carbonyl or hydroxy group is considered
"hydroxy" (Class I) if the CO bond is longer than 1.29 Å, and
"carbonyl" (Class II) if shorter.
3. All nitrogen atoms are considered "hydrophilic" (Class I).
Please E-mail any
questions and/or suggestions concerning this page to
Vladimir.Sobolev@weizmann.ac.il