Contacts of the helix formed by residues 159 - 180 (chain A) in PDB entry 1H9T
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 PRO 159 (chain A).
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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154A PHE* 4.1 20.2 - - + +
157A GLY 3.0 13.0 - - - +
158A ASN* 1.3 84.0 - - - +
160A ILE* 1.3 59.6 + - + +
161A TYR 3.1 0.2 - - - -
162A GLY* 2.6 23.9 + - - +
163A LEU* 2.9 15.5 + - + +
75B TRP* 3.5 33.2 - - + -
96B GLN* 6.0 1.8 - - - +
97B LEU* 5.4 7.0 - - + -
100B ASN* 4.1 17.9 - - - +
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Residues in contact with ILE 160 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
158A ASN* 3.1 13.6 + - - +
159A PRO* 1.3 80.6 - - + +
161A TYR* 1.3 63.9 + - - +
162A GLY 2.9 1.2 + - - -
163A LEU* 3.1 10.0 + - - +
164A ILE* 3.0 24.7 + - + +
80B LEU* 3.9 17.7 - - + -
83B LEU* 4.0 23.1 - - + -
97B LEU* 4.5 5.8 - - + +
100B ASN* 3.8 5.2 - - + -
101B LEU* 3.1 50.9 - - + +
104B VAL* 4.0 24.2 - - + -
168B MET* 5.0 4.5 - - + -
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Residues in contact with TYR 161 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
108A ILE* 4.1 26.0 - - + -
111A ILE* 3.2 30.0 - - + +
112A PHE* 3.7 31.3 - + + -
115A THR* 6.2 1.8 - - + -
153A ALA* 3.6 21.9 - - + +
156A SER* 4.2 2.7 - - - -
158A ASN* 3.1 31.8 + - + +
160A ILE* 1.3 76.8 - - - +
162A GLY* 1.3 61.6 + - - +
164A ILE* 3.7 11.3 - - + +
165A LEU* 3.3 20.3 + - - +
103B SER 4.6 1.8 - - - -
104B VAL* 3.4 37.3 + - + +
107B ASN* 3.5 18.7 + - - +
108B ILE* 4.6 7.3 - - + +
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Residues in contact with GLY 162 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
150A ARG* 5.4 0.2 - - - -
153A ALA* 3.9 9.2 - - - +
154A PHE* 3.5 29.6 - - - +
158A ASN 4.1 0.6 + - - -
159A PRO* 2.6 12.5 + - - +
161A TYR* 1.3 76.0 - - - +
163A LEU* 1.3 53.6 + - - -
164A ILE 2.3 17.9 + - - -
165A LEU* 2.9 4.8 + - - +
166A ASN* 2.8 23.7 + - - +
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Residues in contact with LEU 163 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
80A LEU* 5.7 0.2 - - - +
154A PHE* 4.2 0.6 - - + -
159A PRO 2.9 15.5 + - - +
160A ILE* 3.1 8.5 + - + +
162A GLY* 1.3 72.8 - - - +
164A ILE* 1.3 59.9 + - - +
166A ASN* 3.3 22.3 - - - +
167A GLY* 3.3 6.2 + - - -
74B PHE 4.8 3.4 - - - +
75B TRP* 3.9 33.4 - - + +
78B SER 3.8 13.7 - - - +
79B GLY* 3.4 25.6 - - - +
80B LEU* 4.0 8.0 + - + +
82B ILE* 4.0 34.1 - - + -
83B LEU* 4.1 26.0 - - + -
86B LEU* 5.0 4.7 - - + -
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Residues in contact with ILE 164 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
80A LEU* 3.7 15.5 - - + +
108A ILE* 5.1 6.5 - - + -
160A ILE* 3.0 22.6 + - + +
161A TYR* 3.7 15.7 - - + +
162A GLY 2.3 13.3 + - - -
163A LEU* 1.3 66.6 - - - +
165A LEU* 1.3 71.7 + - + +
166A ASN 3.0 0.9 - - - -
167A GLY* 2.7 14.4 + - - -
168A MET* 3.0 34.8 + - + +
80B LEU* 3.5 21.5 - - + -
104B VAL* 5.2 1.8 - - + -
108B ILE* 4.3 14.1 - - + -
164B ILE* 3.5 36.6 - - + -
168B MET* 5.5 0.2 - - + -
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Residues in contact with LEU 165 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
105A ARG* 4.9 12.8 - - + -
108A ILE* 5.6 4.3 - - + -
112A PHE* 4.9 13.0 - - + -
146A TYR* 3.5 32.5 - - + -
149A PHE* 4.2 21.8 - - + -
150A ARG* 4.3 21.8 - - + +
153A ALA* 5.0 2.2 - - + -
161A TYR 3.3 12.5 + - - +
162A GLY* 2.9 8.1 + - - +
164A ILE* 1.3 77.5 - - + +
166A ASN* 1.3 65.8 + - - +
168A MET* 2.7 46.8 + - + +
169A LYS 2.9 12.5 + - - -
172A TYR* 5.0 5.6 - - + -
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Residues in contact with ASN 166 (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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146A TYR* 3.5 8.8 + - - -
150A ARG* 3.2 19.9 + - - +
162A GLY 2.8 17.2 + - - +
163A LEU* 3.3 14.2 - - - +
165A LEU* 1.3 78.4 - - - +
167A GLY* 1.3 63.6 + - - +
169A LYS* 3.4 17.5 + - - +
74B PHE 3.7 0.8 + - - -
75B TRP 2.9 25.0 + - - -
76B GLU 2.7 33.6 - - - +
77B THR* 4.7 0.2 - - - -
78B SER 2.6 24.9 + - - +
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Residues in contact with GLY 167 (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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80A LEU* 4.1 29.5 - - - +
81A ASN* 4.8 8.8 + - - -
83A LEU* 4.8 0.9 - - - +
163A LEU 3.3 6.5 + - - -
164A ILE 2.7 13.7 + - - -
166A ASN* 1.3 77.1 - - - +
168A MET* 1.3 61.8 + - - +
170A GLY* 4.4 2.9 + - - -
78B SER 4.7 1.0 + - - -
79B GLY* 5.1 7.4 - - - -
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Residues in contact with MET 168 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
80A LEU* 4.0 12.6 - - + -
83A LEU* 4.9 9.7 - - + +
101A LEU* 3.7 25.8 - - + -
104A VAL* 4.0 24.2 - - + -
105A ARG* 3.9 22.2 - - + -
108A ILE* 4.6 3.6 - - + -
164A ILE* 3.4 35.2 - - + +
165A LEU* 2.7 35.1 + - + +
167A GLY* 1.3 74.4 - - - +
169A LYS* 1.3 69.3 + - - +
170A GLY* 2.6 4.3 + - - -
171A LEU* 3.3 7.4 + - - +
172A TYR* 3.2 23.9 + - + -
160B ILE* 5.9 0.2 - - + -
164B ILE* 5.1 0.7 - - + -
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Residues in contact with LYS 169 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
143A GLU* 4.3 23.8 + - - -
146A TYR* 3.6 44.7 - - + +
165A LEU 2.9 7.3 + - - -
166A ASN 3.4 14.6 - - - +
168A MET* 1.3 74.5 - - - +
170A GLY* 1.3 57.9 + - - +
172A TYR* 2.6 25.9 + - - +
173A THR* 2.7 26.7 + - + +
76B GLU* 5.2 9.6 + - - +
77B THR* 6.2 1.8 - - - +
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Residues in contact with GLY 170 (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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84A GLU* 3.7 27.6 - - - -
167A GLY 4.4 3.3 + - - -
168A MET 2.6 5.8 + - - -
169A LYS* 1.3 81.9 - - - +
171A LEU* 1.3 59.6 + - - -
173A THR* 3.3 4.6 + - - -
174A ARG* 3.3 22.2 + - - +
177A ARG* 4.5 0.5 + - - -
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Residues in contact with LEU 171 (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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83A LEU* 3.8 27.1 - - + +
84A GLU* 3.4 23.1 - - + +
87A ALA* 4.6 13.9 - - + -
94A VAL* 5.9 0.2 - - + -
97A LEU* 3.9 24.9 - - + -
98A ILE* 3.9 28.3 - - + -
101A LEU* 3.6 24.2 - - + -
168A MET 3.3 4.3 + - - +
170A GLY* 1.3 72.9 - - - +
172A TYR* 1.3 58.3 + - - +
173A THR 3.4 0.4 + - - -
174A ARG* 4.0 14.4 - - + -
175A ILE* 3.0 25.1 + - + +
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Residues in contact with TYR 172 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
101A LEU* 4.3 14.0 - - + +
102A LEU* 4.0 22.9 - - + -
105A ARG* 3.3 50.5 + - + -
145A ASP* 3.2 29.4 + - - -
146A TYR* 3.7 34.5 - + + -
149A PHE* 4.5 4.2 - + - -
165A LEU* 5.0 7.0 - - + -
168A MET* 3.2 25.7 + - + +
169A LYS 2.6 18.0 + - - +
171A LEU* 1.3 74.9 - - - +
173A THR* 1.3 57.9 + - - -
175A ILE* 4.0 4.7 + - + +
176A GLY* 3.6 11.6 + - - -
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Residues in contact with THR 173 (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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142A ALA* 4.7 10.3 - - - +
143A GLU* 4.7 9.4 - - - +
146A TYR* 4.1 23.1 - - + -
169A LYS* 2.7 39.8 + - + +
170A GLY* 3.6 5.9 + - - -
172A TYR* 1.3 72.4 - - - +
174A ARG* 1.3 66.6 + - - +
175A ILE 2.9 2.0 - - - -
176A GLY* 2.7 13.9 + - - +
177A ARG* 2.7 48.5 + - - -
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Residues in contact with ARG 174 (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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84A GLU* 4.0 22.8 + - - +
170A GLY 3.3 12.6 + - - +
171A LEU* 4.3 17.5 - - + +
172A TYR 3.5 0.2 - - - -
173A THR* 1.3 81.6 + - - +
175A ILE* 1.3 60.3 + - + +
177A ARG* 3.3 23.2 + - - +
178A HIS* 2.7 39.8 + - + -
1242A CL 3.4 29.3 - - - +
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Residues in contact with ILE 175 (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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98A ILE* 3.3 54.1 - - + -
101A LEU* 4.6 4.9 - - + -
102A LEU* 4.0 24.5 - - + -
171A LEU* 3.0 26.5 - - + +
172A TYR* 4.1 7.6 - - + +
173A THR 2.9 0.2 - - - -
174A ARG* 1.3 76.7 - - + +
176A GLY* 1.3 53.2 + - - +
178A HIS* 2.7 10.9 + - - +
179A TYR* 2.7 40.0 + - + +
223A TRP* 4.3 24.9 - - + -
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Residues in contact with GLY 176 (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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142A ALA* 3.5 11.9 - - - -
172A TYR 3.6 6.6 + - - -
173A THR 2.7 9.4 + - - -
175A ILE* 1.3 76.6 - - - +
177A ARG* 1.3 54.6 + - - -
178A HIS 2.4 17.1 + - - -
179A TYR* 4.6 2.9 - - - -
180A PHE* 3.2 42.1 + - - +
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Residues in contact with ARG 177 (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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138A ALA* 4.0 14.7 - - - +
139A ASP* 3.3 45.7 + - - +
142A ALA* 3.4 11.0 - - + +
143A GLU* 5.5 5.1 + - - +
170A GLY 4.5 0.4 + - - -
173A THR* 2.7 51.6 + - - +
174A ARG* 3.3 32.7 - - - +
176A GLY* 1.3 69.1 - - - -
178A HIS* 1.3 72.0 + - + +
181A ALA* 4.4 3.5 + - - +
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Residues in contact with HIS 178 (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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174A ARG* 2.7 34.7 + - + +
175A ILE* 2.7 7.7 + - - +
176A GLY 2.4 14.5 + - - -
177A ARG* 1.3 82.8 + - + +
179A TYR* 1.3 69.5 + - - +
181A ALA* 3.0 21.1 + - - +
223A TRP* 4.1 18.6 - + + -
226A MET* 4.2 4.4 - - - +
1242A CL 4.5 12.7 - - - +
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Residues in contact with TYR 179 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
102A LEU* 6.4 0.7 - - + -
175A ILE* 2.7 21.6 + - + +
176A GLY* 5.0 1.6 - - - -
178A HIS* 1.3 74.6 - - - +
180A PHE* 1.3 115.0 + + - +
181A ALA 2.8 2.4 + - - -
182A ASN* 3.1 11.6 + - - +
185A ALA* 3.2 32.6 + - + +
188A LEU* 5.1 0.2 - - - +
189A ALA 5.1 0.2 + - - -
215A TYR* 4.3 8.9 + - - -
219A SER* 3.3 46.5 - - - -
222A ILE* 3.9 9.1 - - + +
223A TRP* 3.3 47.8 - - + -
226A MET* 3.2 17.1 - - - +
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Residues in contact with PHE 180 (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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138A ALA* 3.9 13.2 - - + -
141A PHE* 3.3 32.3 - + + -
142A ALA* 3.4 38.6 - - + -
145A ASP* 3.3 36.6 - - + -
172A TYR* 6.5 0.2 - + - -
176A GLY* 3.2 25.9 + - - +
179A TYR* 1.3 104.4 - + - +
181A ALA* 1.3 68.1 + - - +
182A ASN* 2.7 10.9 + - - +
185A ALA* 4.6 5.4 - - + -
186A ARG* 3.5 17.1 + - + +
189A ALA* 4.0 12.1 - - + -
215A TYR* 5.0 1.1 - - - -
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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) + - + + + + + -
------------------------------------------------------------
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