Contacts of the helix formed by residues 141 - 161 (chain A) in PDB entry 1I6P
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 ARG 141 (chain A).
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Specific contacts
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Residue Dist Surf HB Arom Phob DC
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137A MET* 5.4 5.6 - - + -
138A PRO* 3.0 34.0 + - + +
139A GLN 3.0 1.0 - - - -
140A GLU* 1.3 85.7 - - + +
142A ARG* 1.3 53.8 + - - +
143A LEU 3.5 1.8 - - - -
144A ASP* 3.5 9.9 + - + +
145A THR* 2.7 41.5 + - - +
215A LYS* 4.4 38.3 + - - +
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Residues in contact with ARG 142 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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134A LEU* 3.1 38.6 + - + +
135A GLY* 3.6 23.9 + - - -
137A MET* 3.0 25.4 + - + +
138A PRO 3.6 8.1 - - - +
139A GLN* 3.1 39.2 + - - +
141A ARG* 1.3 74.9 - - - +
143A LEU* 1.3 59.9 + - - +
145A THR* 3.3 6.5 + - - -
146A LEU* 2.9 28.2 + - - +
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Residues in contact with LEU 143 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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100A GLY* 5.9 8.1 - - - +
104A VAL* 4.1 17.5 - - + +
105A GLN* 3.9 38.8 - - + +
108A VAL* 3.8 32.5 - - + -
139A GLN 4.6 1.6 + - - -
140A GLU 5.0 3.5 + - - +
141A ARG 3.5 0.4 - - - -
142A ARG* 1.3 78.5 - - - +
144A ASP* 1.3 67.3 + - - +
146A LEU* 3.2 6.9 + - + +
147A CYS* 3.1 20.6 + - - +
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Residues in contact with ASP 144 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
99A TYR* 3.6 38.7 - - + +
100A GLY* 4.3 7.1 + - - -
140A GLU 5.3 6.0 + - - +
141A ARG* 3.5 13.0 + - + +
142A ARG 3.3 0.2 - - - -
143A LEU* 1.3 81.5 - - - +
145A THR* 1.3 62.2 + - - +
147A CYS* 3.2 8.1 - - - +
148A GLU* 3.2 25.1 + - - +
215A LYS* 5.5 4.9 - - - +
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Residues in contact with THR 145 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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133A LEU* 4.2 7.6 - - + -
134A LEU* 3.7 20.9 - - + -
137A MET* 4.1 18.5 - - - -
141A ARG* 2.7 24.8 + - - +
142A ARG* 3.5 6.2 - - - -
143A LEU 3.2 0.2 - - - -
144A ASP* 1.3 74.3 - - - +
146A LEU* 1.3 59.9 + - - +
148A GLU* 3.0 11.5 + - - +
149A LEU* 2.8 35.2 + - + +
212A LEU* 4.2 20.9 - - + -
215A LYS* 3.8 13.6 + - - +
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Residues in contact with LEU 146 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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104A VAL* 3.9 15.9 - - + -
108A VAL* 3.4 33.2 - - + -
123A ILE* 4.5 13.7 - - + +
126A ILE* 4.1 19.7 - - + +
127A TRP* 4.1 37.2 - - + +
134A LEU* 4.4 9.6 - - + +
142A ARG 2.9 13.8 + - - +
143A LEU* 3.2 11.6 + - + +
145A THR* 1.3 75.6 - - - +
147A CYS* 1.3 57.9 + - - +
149A LEU* 4.2 9.4 - - + -
150A ASN* 2.8 31.7 + - + +
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Residues in contact with CYS 147 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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97A GLY* 4.5 3.6 - - - -
98A HIS 3.1 45.8 - - - +
99A TYR* 3.8 12.6 - - + -
100A GLY 5.5 1.6 - - - +
101A CYS* 5.1 0.7 - - + -
104A VAL* 4.3 20.4 - - + +
143A LEU 3.1 13.5 + - - +
144A ASP* 3.2 15.5 - - - +
146A LEU* 1.3 79.1 - - - +
148A GLU* 1.3 59.7 + - - +
150A ASN* 3.6 6.9 + - - +
151A VAL* 3.4 21.0 + - - +
180A ALA* 5.1 3.6 - - - -
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Residues in contact with GLU 148 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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99A TYR* 2.7 34.7 + - + +
144A ASP 3.4 13.0 - - - +
145A THR* 3.0 8.0 + - - +
147A CYS* 1.3 74.8 - - - +
149A LEU* 1.3 65.0 + - - +
151A VAL* 3.2 5.7 + - - +
152A MET* 3.1 28.3 + - + +
180A ALA* 5.0 2.2 - - + -
189A ARG* 4.1 11.1 + - - -
191A LEU* 3.6 31.1 - - + +
212A LEU* 3.6 22.8 - - + +
215A LYS* 3.1 30.9 + - - +
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Residues in contact with LEU 149 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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126A ILE* 4.4 4.9 - - + -
130A HIS* 3.7 43.3 - - + +
133A LEU* 4.1 7.6 - - + -
134A LEU* 4.0 14.6 - - + -
145A THR* 2.8 32.3 + - + +
146A LEU* 3.6 9.6 - - + +
148A GLU* 1.3 76.2 - - - +
150A ASN* 1.3 63.5 + - - +
152A MET* 3.2 5.7 + - - +
153A GLU* 2.9 29.3 + - - +
209A ILE* 3.6 26.5 - - + -
212A LEU* 3.5 25.1 - - + -
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Residues in contact with ASN 150 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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67A ALA* 3.1 28.3 + - - +
68A ASN* 3.7 12.7 + - - +
69A LEU* 3.4 9.7 - - - +
104A VAL* 4.4 17.0 - - + +
123A ILE* 4.3 8.4 - - + +
126A ILE* 3.2 21.3 - - + +
146A LEU* 2.8 19.3 + - + +
147A CYS* 3.6 8.4 + - - +
149A LEU* 1.3 76.5 - - - +
151A VAL* 1.3 61.4 + - - +
153A GLU 3.2 1.7 + - - -
154A GLN* 3.0 51.6 + - - +
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Residues in contact with VAL 151 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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68A ASN* 4.0 8.7 - - - +
95A ILE* 3.7 26.6 - - + +
96A CYS 4.5 0.2 - - - -
97A GLY* 3.6 32.5 - - - +
147A CYS 3.4 13.9 + - - +
148A GLU* 3.2 7.7 + - - +
150A ASN* 1.3 77.3 - - - +
152A MET* 1.3 63.4 + - - +
154A GLN* 3.1 9.6 + - - +
155A VAL* 3.0 21.5 + - - +
178A GLY* 3.7 20.9 - - - -
179A TRP 3.7 8.7 - - - +
180A ALA* 5.0 1.6 - - + -
191A LEU* 3.7 11.4 - - + -
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Residues in contact with MET 152 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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148A GLU* 3.1 16.1 + - + +
149A LEU* 3.6 8.1 - - - +
151A VAL* 1.3 75.8 - - - +
153A GLU* 1.3 62.6 + - + +
155A VAL* 3.3 9.6 + - - +
156A TYR* 3.0 21.7 + - - +
191A LEU* 3.5 37.9 - - + +
193A VAL* 3.7 16.4 - - + +
205A TYR* 4.2 16.8 - - + +
208A GLY* 3.4 45.5 - - - +
209A ILE* 4.1 16.2 - - + -
211A ASN* 6.1 0.4 - - + -
212A LEU* 4.4 18.8 - - + -
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Residues in contact with GLU 153 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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126A ILE* 3.9 34.4 - - + +
129A LYS* 2.9 25.2 + - - +
130A HIS* 2.6 28.2 + - - +
149A LEU 2.9 20.3 + - - +
150A ASN 3.7 4.7 - - - +
152A MET* 1.3 77.2 - - + +
154A GLN* 1.3 59.4 + - - +
156A TYR* 3.3 9.7 + - - +
157A ASN* 2.8 37.8 + - - +
205A TYR* 2.7 26.9 + - + -
209A ILE* 4.7 1.2 - - - +
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Residues in contact with GLN 154 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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68A ASN 3.5 20.2 - - - +
69A LEU* 3.6 12.7 - - - +
70A VAL* 2.7 43.5 + - + +
71A ILE* 5.0 0.3 - - - +
95A ILE* 3.6 17.6 - - + +
122A HIS* 6.2 0.4 - - - +
126A ILE* 3.4 17.2 - - - +
150A ASN* 3.0 39.8 + - - +
151A VAL* 3.1 6.7 + - - +
153A GLU* 1.3 76.6 - - - +
155A VAL* 1.3 61.6 + - - +
157A ASN* 3.3 12.3 + - - +
158A LEU* 2.8 29.8 + - - +
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Residues in contact with VAL 155 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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95A ILE* 3.8 17.0 - - + -
151A VAL 3.0 17.5 + - - +
152A MET 3.5 8.3 - - - +
154A GLN* 1.3 75.3 - - - +
156A TYR* 1.3 58.6 + - - +
158A LEU* 3.4 2.6 + - - +
159A GLY* 2.9 26.0 + - - -
176A ILE* 3.8 22.9 - - + +
177A HIS 3.9 8.7 - - - +
178A GLY* 3.8 27.6 - - - -
193A VAL* 4.1 28.5 - - + +
195A ALA* 5.2 0.7 - - + -
201A LEU* 4.0 11.6 - - + +
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Residues in contact with TYR 156 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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129A LYS* 5.2 4.5 - - - -
152A MET 3.0 13.8 + - - +
153A GLU* 3.3 16.2 - - - +
155A VAL* 1.3 79.0 - - - +
157A ASN* 1.3 67.1 + - - +
159A GLY* 3.3 2.3 + - - -
160A HIS* 3.0 57.7 + + - -
201A LEU* 4.2 14.8 - - + +
202A GLU* 2.6 31.2 + - - -
205A TYR* 3.6 55.4 - + + -
206A ARG* 4.4 4.5 + - - -
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Residues in contact with ASN 157 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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70A VAL* 3.1 29.4 + - + +
71A ILE* 4.9 2.4 - - - +
72A HIS* 3.2 37.2 + - + +
126A ILE* 6.1 0.2 - - - +
153A GLU* 2.8 24.7 + - - +
154A GLN* 3.4 22.5 + - - +
156A TYR* 1.3 82.0 - - - +
158A LEU* 1.3 62.1 + - - +
160A HIS* 3.1 14.5 + - - +
161A SER* 3.2 12.5 + - - -
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Residues in contact with LEU 158 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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40A ILE* 4.4 6.7 - - + -
70A VAL* 3.9 17.9 - - + +
78A LEU* 5.6 2.0 - - + -
81A VAL* 3.7 34.8 - - + -
93A ILE* 3.6 36.1 - - + -
95A ILE* 4.2 10.3 - - + -
154A GLN 2.8 20.3 + - - +
155A VAL* 3.7 3.8 - - - +
157A ASN* 1.3 73.2 - - - +
159A GLY* 1.3 62.2 + - - +
161A SER* 2.7 32.7 + - - +
164A MET* 3.1 19.1 - - + +
176A ILE* 4.1 17.5 - - + -
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Residues in contact with GLY 159 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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155A VAL 2.9 14.7 + - - -
156A TYR 3.7 0.7 - - - -
158A LEU* 1.3 76.9 - - - +
160A HIS* 1.3 52.0 + - - +
161A SER 3.4 0.4 + - - -
164A MET* 3.7 10.6 - - - +
165A GLN* 2.6 30.5 + - - +
168A TRP* 3.8 4.7 - - - -
176A ILE* 4.0 15.7 - - - +
201A LEU* 3.6 23.1 - - - -
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Residues in contact with HIS 160 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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72A HIS* 5.7 6.5 - - + +
156A TYR* 3.0 58.1 + + - +
157A ASN* 3.1 7.3 + - - +
159A GLY* 1.3 75.4 - - - +
161A SER* 1.3 65.5 + - - +
162A THR* 3.6 2.3 + - - +
165A GLN* 3.8 19.1 + - - +
201A LEU* 3.6 8.3 - - + +
202A GLU* 2.8 30.6 + - - -
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Residues in contact with SER 161 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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70A VAL* 6.1 0.4 - - - -
72A HIS 6.0 0.7 - - - -
78A LEU* 4.4 23.8 - - - -
157A ASN 3.2 8.9 + - - -
158A LEU* 2.7 27.6 + - - +
159A GLY 4.0 0.2 - - - +
160A HIS* 1.3 81.3 - - - +
162A THR* 1.3 63.7 + - - +
163A ILE* 3.6 10.4 + - - +
164A MET* 3.3 14.6 + - - +
165A GLN* 3.1 19.8 + - - +
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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