Contacts of the helix formed by residues 134 - 157 (chain E) in PDB entry 1IES
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 LEU 134 (chain E).
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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123D PRO* 3.8 16.4 - - + -
124D HIS* 4.2 12.3 - - + +
127D ASP* 4.7 5.2 - - - +
107E ASN* 4.6 4.0 + - - +
110E LEU* 3.8 34.1 - - + +
111E LEU* 4.3 18.6 - - + -
114E HIS* 3.7 18.6 - - + -
129E LEU* 3.0 16.2 + - + +
130E GLU* 3.7 38.8 + - + +
133E PHE* 1.3 77.4 - - - +
135E ASP* 1.3 61.9 + - - +
137E GLU* 3.5 4.7 - - - +
138E VAL* 3.2 24.6 + - - +
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Residues in contact with ASP 135 (chain E).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
71D GLN* 4.5 2.9 + - - -
124D HIS* 3.0 30.3 + - + +
127D ASP* 4.5 8.7 - - - +
128D PHE* 6.1 0.3 - - - -
130E GLU 4.1 7.6 + - - +
131E SER 5.7 2.5 - - - +
132E HIS 5.3 0.2 - - - -
133E PHE 3.4 0.4 - - - -
134E LEU* 1.3 75.7 - - - +
136E GLU* 1.3 67.9 + - - +
138E VAL* 2.9 13.2 + - - +
139E LYS* 2.9 45.2 + - - +
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Residues in contact with GLU 136 (chain E).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
23E TYR* 5.6 4.5 + - - -
57E GLU* 4.2 27.8 - - - +
58E LYS* 4.7 12.0 + - - -
132E HIS 3.6 20.8 + - - +
133E PHE* 3.4 12.8 + - - +
135E ASP* 1.3 77.5 - - - +
137E GLU* 1.3 59.1 + - - +
139E LYS* 3.4 7.8 + - - +
140E LEU* 2.9 35.4 + - + +
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Residues in contact with GLU 137 (chain E).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
23E TYR* 3.8 12.8 + - - -
58E LYS* 3.4 13.7 + - - -
103E GLU* 2.7 47.0 - - - +
106E LEU* 4.7 2.9 - - - +
107E ASN* 3.3 37.5 - - + +
110E LEU* 3.8 8.7 - - + -
133E PHE 3.0 18.1 + - - +
134E LEU 3.5 6.1 - - - +
136E GLU* 1.3 81.4 - - - +
138E VAL* 1.3 60.4 + - - +
140E LEU* 4.0 3.6 - - - +
141E ILE* 3.1 32.9 + - + +
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Residues in contact with VAL 138 (chain E).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
71D GLN* 3.8 37.1 - - + +
72D ARG* 4.0 18.8 - - - +
124D HIS* 3.8 38.8 - - + +
107E ASN* 4.9 10.8 - - - +
134E LEU 3.2 13.4 + - - +
135E ASP* 2.9 8.7 + - - +
137E GLU* 1.3 76.9 - - - +
139E LYS* 1.3 58.6 + - - +
141E ILE* 3.7 5.9 + - - +
142E LYS* 3.2 25.6 + - - +
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Residues in contact with LYS 139 (chain E).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
67D LYS* 4.6 11.3 - - - +
71D GLN* 3.4 37.9 + - - +
135E ASP* 2.9 44.5 + - - +
136E GLU* 3.8 7.2 - - - +
138E VAL* 1.3 74.8 - - - +
140E LEU* 1.3 65.8 + - - +
142E LYS* 3.2 5.3 + - - +
143E LYS* 3.0 23.2 + - - +
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Residues in contact with LEU 140 (chain E).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
50E PHE* 5.0 1.3 - - + -
54E LEU* 3.7 31.6 - - + -
57E GLU* 4.7 7.9 - - - +
58E LYS* 4.1 9.4 - - - +
103E GLU* 3.5 33.7 - - + +
136E GLU* 2.9 25.0 + - + +
137E GLU* 4.0 5.4 - - - +
139E LYS* 1.3 72.9 - - - +
141E ILE* 1.3 64.4 + - - +
143E LYS* 3.0 31.2 + - + +
144E MET* 2.9 42.8 + - + +
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Residues in contact with ILE 141 (chain E).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
4D ILE* 3.5 36.3 - - + +
6D GLN* 4.2 7.0 - - + +
100E ILE* 4.1 14.8 - - + +
103E GLU* 3.7 29.2 - - + +
104E LYS* 4.2 7.4 - - + +
107E ASN* 4.1 26.7 - - + +
137E GLU* 3.1 29.8 + - - +
138E VAL* 4.1 4.9 - - - +
140E LEU* 1.3 74.4 - - - +
142E LYS* 1.3 57.6 + - - +
144E MET* 3.4 7.5 + - - +
145E GLY 2.8 23.2 + - - -
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Residues in contact with LYS 142 (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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4D ILE* 3.9 19.7 - - + +
70D ASN* 3.3 37.4 - - - +
71D GLN* 3.6 27.4 - - + +
75D ARG* 6.1 0.9 - - - +
138E VAL 3.2 15.8 + - - +
139E LYS* 3.7 8.1 - - - +
140E LEU 3.2 0.6 - - - -
141E ILE* 1.3 75.4 - - - +
143E LYS* 1.3 56.8 + - - +
145E GLY* 2.9 2.2 + - - +
146E ASP* 2.8 61.3 + - - +
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Residues in contact with LYS 143 (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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50E PHE* 4.0 22.0 - - + -
54E LEU* 5.6 2.0 - - - +
57E GLU* 5.9 0.6 + - - -
139E LYS 3.0 12.0 + - - +
140E LEU* 3.4 25.8 - - + +
142E LYS* 1.3 74.7 - - - +
144E MET* 1.3 57.7 + - - +
146E ASP* 3.3 10.5 + - + +
147E HIS* 2.9 60.2 + - + +
174E ASP* 6.0 0.7 - - - +
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Residues in contact with MET 144 (chain E).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
30E TYR* 3.7 15.3 - - - +
50E PHE* 4.1 15.7 - - + -
54E LEU* 3.5 32.3 - - + -
96E MET* 4.7 9.2 - - - +
99E ALA* 3.9 11.0 - - + -
100E ILE* 4.0 32.5 - - + -
103E GLU* 4.0 20.4 - - + -
140E LEU* 2.9 30.7 + - + +
141E ILE* 3.7 5.8 - - - +
143E LYS* 1.3 73.2 - - - +
145E GLY* 1.3 61.0 + - - +
147E HIS* 3.2 8.4 + - - +
148E LEU* 2.9 33.4 + - + +
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Residues in contact with GLY 145 (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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3D GLN* 2.8 33.6 + - - -
4D ILE* 3.7 14.4 - - - -
100E ILE* 4.2 5.0 - - - +
141E ILE 2.8 15.3 + - - -
142E LYS 2.9 4.0 + - - -
144E MET* 1.3 74.8 - - - +
146E ASP* 1.3 63.4 + - - +
148E LEU* 3.4 0.8 + - - -
149E THR* 3.2 15.3 + - - +
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Residues in contact with ASP 146 (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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142E LYS* 2.8 52.2 + - - +
143E LYS* 3.4 11.2 - - + +
145E GLY* 1.3 75.1 - - - +
147E HIS* 1.3 69.4 + - + +
149E THR* 3.3 7.2 + - - -
150E ASN* 3.1 32.8 + - - +
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Residues in contact with HIS 147 (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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50E PHE* 3.8 28.7 - + - -
96E MET* 3.9 22.7 - - + -
143E LYS* 2.9 46.2 + - + +
144E MET 3.2 6.9 + - - +
146E ASP* 1.3 76.4 - - + +
148E LEU* 1.3 57.9 - - - +
150E ASN* 3.1 5.1 + - - +
151E ILE* 2.9 32.8 + - - +
166E PHE* 3.7 21.2 - + + -
170E THR* 4.0 21.5 - - + +
171E LEU* 4.0 10.4 - - + +
174E ASP* 4.3 9.6 - - - -
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Residues in contact with LEU 148 (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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3D GLN* 4.1 20.6 - - + +
93E LEU* 3.5 28.3 - - + -
96E MET* 3.9 16.8 - - + +
97E LYS* 3.5 27.1 - - + -
100E ILE* 4.0 36.1 - - + -
144E MET 2.9 17.4 + - - +
145E GLY 3.7 7.0 - - - +
146E ASP 3.3 0.2 - - - -
147E HIS* 1.3 74.6 - - - +
149E THR* 1.3 58.3 + - - +
151E ILE* 3.4 5.8 + - - +
152E GLN* 2.9 38.9 + - - +
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Residues in contact with THR 149 (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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3D GLN* 3.4 19.3 - - - +
145E GLY 3.2 16.4 + - - +
146E ASP* 3.4 10.3 + - - -
147E HIS 3.3 0.4 - - - -
148E LEU* 1.3 76.3 - - - +
150E ASN* 1.3 61.9 + - - +
152E GLN* 3.4 10.4 + - - +
153E ARG* 3.0 40.5 + - - +
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Residues in contact with ASN 150 (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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146E ASP* 3.1 20.0 + - - +
147E HIS* 3.1 7.8 + - - +
149E THR* 1.3 75.4 + - - +
151E ILE* 1.3 65.4 + - - +
153E ARG* 2.6 41.5 + - - +
154E LEU* 3.2 29.6 + - + +
166E PHE* 4.1 16.8 - - + -
170E THR* 5.6 3.4 - - - +
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Residues in contact with ILE 151 (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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92E THR* 3.7 25.6 - - + +
93E LEU* 4.1 26.2 - - + +
96E MET* 3.4 33.7 - - + -
147E HIS 2.9 25.2 + - - +
148E LEU* 3.9 4.3 - - - +
150E ASN* 1.3 70.2 - - - +
152E GLN* 1.3 64.3 + - - +
154E LEU* 3.0 9.4 + - + +
155E VAL* 2.8 43.6 + - + +
163E GLU* 5.5 2.7 - - + -
166E PHE* 3.6 29.8 - - + -
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Residues in contact with GLN 152 (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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3D GLN* 4.5 9.9 - - - +
93E LEU* 3.7 19.5 - - + +
97E LYS* 3.7 30.1 - - - +
148E LEU* 2.9 27.8 + - - +
149E THR* 3.7 10.8 - - - +
151E ILE* 1.3 75.0 - - - +
153E ARG* 1.3 61.7 + - - +
155E VAL* 4.6 5.8 - - - +
156E GLY* 2.9 21.8 + - - -
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Residues in contact with ARG 153 (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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149E THR* 3.0 24.9 + - - +
150E ASN* 2.6 57.8 + - - +
152E GLN* 1.3 74.8 - - - +
154E LEU* 1.3 66.3 + - + +
156E GLY* 4.2 0.9 - - - -
157E SER* 3.2 24.1 + - - -
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Residues in contact with LEU 154 (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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150E ASN* 3.2 19.2 + - + +
151E ILE* 3.0 6.6 + - - +
153E ARG* 1.3 82.8 - - + +
155E VAL* 1.3 59.9 - - - +
157E SER* 3.2 8.1 + - - -
158E GLN 3.2 28.6 + - - +
162E GLY* 3.7 24.4 - - - +
165E LEU* 5.0 15.5 - - + -
166E PHE* 3.7 40.8 - - + +
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Residues in contact with VAL 155 (chain E).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
93E LEU* 4.4 24.2 - - + +
151E ILE* 2.8 32.3 + - + +
152E GLN* 4.3 3.1 - - - +
154E LEU* 1.3 76.2 - - - +
156E GLY* 1.3 64.2 + - - +
157E SER 4.4 0.2 - - - -
159E ALA* 3.7 45.1 + - + +
162E GLY 4.5 1.1 - - - -
163E GLU* 4.2 18.4 - - + +
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Residues in contact with GLY 156 (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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152E GLN 2.9 18.3 + - - -
153E ARG 4.2 1.3 - - - -
154E LEU 3.2 0.2 - - - -
155E VAL* 1.3 79.0 - - - +
157E SER* 1.3 61.1 + - - +
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Residues in contact with SER 157 (chain E).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
153E ARG 3.2 13.7 + - - -
154E LEU* 3.2 11.3 + - - -
155E VAL 4.4 0.2 - - - -
156E GLY* 1.3 80.4 - - - +
158E GLN* 1.3 68.1 + - - +
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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
------------------------------------------------------------
Atomic class I II III IV V VI VII VIII
------------------------------------------------------------
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