Contacts of the helix formed by residues 150 - 176 (chain M) in PDB entry 2FJC
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 ASP 150 (chain M).
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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32M ILE* 6.0 1.0 - - - +
35M ILE* 3.8 13.0 - - + +
89M ARG* 2.9 27.1 + - - -
93M LEU* 4.1 13.4 - - - +
145M ALA* 2.8 22.3 + - + +
148M SER* 3.3 11.5 + - - +
149M GLY* 1.3 71.4 - - - +
151M ALA* 1.3 61.7 + - - +
152M VAL 3.7 1.2 + - - -
153M THR* 2.7 30.0 + - - -
154M ASP* 3.0 18.7 + - - +
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Residues in contact with ALA 151 (chain M).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
149M GLY 2.8 10.9 + - - +
150M ASP* 1.3 70.3 - - - +
152M VAL* 1.3 58.4 + - - +
154M ASP* 3.2 9.2 - - - +
155M GLY 2.9 24.9 + - - -
142O GLN* 3.5 39.9 - - + +
158O THR* 3.6 23.2 - - + +
161O LEU* 4.9 6.1 - - + -
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Residues in contact with VAL 152 (chain M).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
89M ARG* 3.4 39.0 - - - +
92M GLN* 4.6 3.1 - - - +
150M ASP* 3.3 1.0 + - - -
151M ALA* 1.3 74.5 - - + +
153M THR* 1.3 63.4 + - - +
155M GLY* 3.2 2.3 + - - -
156M ILE* 2.9 36.1 + - + +
158O THR* 4.3 7.4 - - + +
161O LEU* 3.8 45.8 - - + +
162O ARG* 3.8 20.1 + - + +
165O GLY* 6.0 0.9 - - - -
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Residues in contact with THR 153 (chain M).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
35M ILE* 4.0 21.3 - - + -
39M LEU* 4.3 9.0 - - + -
89M ARG* 2.8 26.8 + - + +
93M LEU* 4.1 2.9 - - - +
141M THR* 4.4 2.5 - - + -
145M ALA* 4.0 10.3 - - + -
150M ASP* 2.7 33.2 + - - -
152M VAL* 1.3 75.6 - - - +
154M ASP* 1.3 63.7 + - - +
156M ILE* 3.2 7.0 + - - +
157M ILE* 2.9 42.7 + - + +
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Residues in contact with ASP 154 (chain M).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
142M GLN* 2.9 27.9 - - - +
145M ALA* 3.8 10.9 - - + +
146M ALA* 3.5 25.7 - - - +
150M ASP 3.0 14.2 + - - +
151M ALA* 3.2 15.4 - - - +
153M THR* 1.3 78.5 - - - +
155M GLY* 1.3 56.5 + - - +
157M ILE* 3.8 1.4 - - - +
158M THR* 2.9 34.5 + - - -
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Residues in contact with GLY 155 (chain M).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
151M ALA 2.9 13.4 + - - -
152M VAL 3.2 1.8 + - - -
154M ASP* 1.3 77.2 + - - +
156M ILE* 1.3 62.2 + - - +
158M THR* 3.9 4.8 - - - -
159M ASP* 3.0 30.8 + - - +
158O THR* 5.0 6.3 - - - -
162O ARG* 3.3 17.3 - - - -
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Residues in contact with ILE 156 (chain M).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
85M THR* 4.0 28.0 - - - +
86M ILE* 4.4 7.6 - - + -
89M ARG* 3.9 35.7 - - + -
92M GLN* 5.4 2.5 - - - +
152M VAL* 2.9 28.4 + - + +
153M THR* 3.6 4.7 - - - +
155M GLY* 1.3 78.3 - - - +
157M ILE* 1.3 73.0 + - + +
159M ASP* 3.4 3.5 + - - +
160M ILE* 3.3 27.3 + - + +
162O ARG* 3.6 32.9 - - + +
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Residues in contact with ILE 157 (chain M).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
39M LEU* 4.2 10.8 - - + -
42M HIS* 4.9 0.9 - - + -
86M ILE* 4.8 7.9 - - + -
89M ARG* 6.0 0.9 - - + -
138M PHE* 3.3 47.3 - - + +
141M THR* 4.0 16.6 - - + -
142M GLN* 3.7 11.4 - - + +
153M THR* 2.9 41.6 + - + +
154M ASP 4.1 1.6 - - - +
156M ILE* 1.3 84.6 - - + +
158M THR* 1.3 62.0 + - - +
160M ILE* 3.1 8.9 + - - +
161M LEU* 2.7 40.5 + - + +
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Residues in contact with THR 158 (chain M).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
142M GLN* 3.9 11.4 + - - +
154M ASP* 2.9 37.0 + - - -
155M GLY* 3.9 6.1 - - - -
157M ILE* 1.3 77.0 - - - +
159M ASP* 1.3 61.0 + - - +
161M LEU* 3.1 12.9 + - + +
162M ARG* 2.8 38.1 + - + +
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Residues in contact with ASP 159 (chain M).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
155M GLY* 3.0 18.6 + - - +
156M ILE* 3.6 5.8 - - - +
158M THR* 1.3 78.2 - - - +
160M ILE* 1.3 64.5 + - + +
162M ARG* 3.2 30.5 + - - +
163M THR* 3.3 18.5 + - - +
162O ARG* 3.1 31.0 + - - +
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Residues in contact with ILE 160 (chain M).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
46M LEU* 6.2 0.2 - - + -
82M ALA* 3.8 28.5 - - + -
85M THR* 4.3 2.5 - - - +
86M ILE* 3.5 36.1 - - + -
138M PHE* 3.8 31.0 - - + -
156M ILE* 3.3 22.4 + - + +
157M ILE* 3.1 9.1 + - - +
159M ASP* 1.3 74.5 - - + +
161M LEU* 1.3 66.8 + - - +
163M THR* 3.1 12.8 + - - +
164M LEU* 2.9 27.5 + - + +
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Residues in contact with LEU 161 (chain M).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
135M SER* 3.7 31.1 + - - +
138M PHE* 3.4 27.1 - - + -
139M SER* 4.0 22.4 - - - +
142M GLN* 4.2 12.6 - - + -
157M ILE* 2.7 30.7 + - + +
158M THR* 3.3 15.3 - - + +
160M ILE* 1.3 77.2 - - - +
162M ARG* 1.3 56.4 + - - +
164M LEU* 3.4 5.9 + - + +
165M GLY* 2.9 26.5 + - - -
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Residues in contact with ARG 162 (chain M).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
158M THR* 2.8 22.3 + - + +
159M ASP* 3.4 24.3 + - - +
160M ILE 3.1 0.2 - - - -
161M LEU* 1.3 76.7 - - - +
163M THR* 1.3 63.3 + - + +
165M GLY* 3.3 2.5 + - - -
166M LYS* 3.2 21.4 + - + +
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Residues in contact with THR 163 (chain M).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
78M SER* 4.4 15.6 + - - +
159M ASP 3.3 14.1 + - - +
160M ILE* 3.1 14.6 + - - +
162M ARG* 1.3 77.6 - - + +
164M LEU* 1.3 67.0 + - - +
166M LYS* 3.4 8.7 + - - +
167M ALA* 3.1 22.9 + - - +
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Residues in contact with LEU 164 (chain M).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
131M PHE* 3.8 46.0 - - + +
134M LEU* 4.0 7.2 - - + -
135M SER* 3.9 23.6 - - - +
138M PHE* 3.5 37.0 - - + -
160M ILE* 2.9 22.8 + - + +
161M LEU* 3.7 8.3 - - + +
163M THR* 1.3 76.1 + - - +
165M GLY* 1.3 59.9 + - - +
167M ALA* 3.2 4.6 + - + +
168M ILE* 2.8 41.2 + - + +
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Residues in contact with GLY 165 (chain M).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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135M SER* 5.6 2.2 + - - -
161M LEU 2.9 16.4 + - - -
162M ARG* 3.3 2.4 + - - -
164M LEU* 1.3 78.1 - - - +
166M LYS* 1.3 60.5 + - - +
168M ILE* 3.5 9.4 + - - +
169M TRP* 3.0 25.1 + - - +
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Residues in contact with LYS 166 (chain M).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
162M ARG* 3.2 13.0 + - + +
163M THR* 3.8 10.3 - - - +
165M GLY* 1.3 76.2 - - - +
167M ALA* 1.3 57.7 + - - +
169M TRP* 3.4 20.1 + - + +
170M MET* 3.0 60.7 + - + +
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Residues in contact with ALA 167 (chain M).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
75M TYR* 4.0 18.6 + - + -
131M PHE* 3.8 26.7 - - + -
163M THR 3.1 17.5 + - - +
164M LEU* 3.7 5.4 - - + +
166M LYS* 1.3 74.3 - - - +
168M ILE* 1.3 60.2 + - - +
170M MET* 3.3 8.7 + - - +
171M LEU* 2.9 36.0 + - - +
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Residues in contact with ILE 168 (chain M).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
128M LYS* 3.7 14.2 - - + +
131M PHE* 3.6 45.1 - - + +
132M GLU* 3.8 33.0 - - + +
135M SER* 4.0 14.1 - - - +
164M LEU* 2.8 29.5 + - + +
165M GLY* 3.8 7.2 - - - +
167M ALA* 1.3 72.6 - - - +
169M TRP* 1.3 58.9 + - - +
171M LEU* 3.4 6.5 + - - +
172M GLY* 2.9 24.3 + - - -
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Residues in contact with TRP 169 (chain M).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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165M GLY 3.0 17.7 + - - +
166M LYS* 3.8 20.0 - - + -
168M ILE* 1.3 79.3 - - - +
170M MET* 1.3 93.3 - - + +
172M GLY* 3.2 3.0 + - - -
173M ALA* 3.0 33.4 + - + +
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Residues in contact with MET 170 (chain M).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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75M TYR* 5.2 4.9 - - - +
166M LYS* 3.0 58.9 + - + +
167M ALA* 3.8 7.9 - - - +
169M TRP* 1.3 99.3 - - + +
171M LEU* 1.3 56.4 + - - +
173M ALA* 3.1 6.9 + - - +
174M THR* 2.6 39.0 + - + +
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Residues in contact with LEU 171 (chain M).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
71M LEU* 4.5 5.6 - - + -
75M TYR* 3.5 19.5 - - + +
124M LEU* 3.9 39.9 - - + -
127M VAL* 3.3 27.4 - - + -
128M LYS* 3.6 29.6 - - + -
131M PHE* 3.7 15.0 - - + -
167M ALA 2.9 21.1 + - - +
168M ILE* 3.7 3.6 - - - +
170M MET* 1.3 76.2 - - - +
172M GLY* 1.3 64.1 + - - +
174M THR* 3.2 6.6 + - + +
175M LEU* 2.9 30.4 + - + +
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Residues in contact with GLY 172 (chain M).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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128M LYS* 3.5 22.6 - - - +
168M ILE 2.9 11.6 + - - -
169M TRP* 3.2 4.5 + - - -
170M MET 3.2 0.2 - - - -
171M LEU* 1.3 78.2 - - - +
173M ALA* 1.3 55.4 + - - +
175M LEU* 3.8 2.9 - - - +
176M LYS* 2.9 30.9 + - - +
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Residues in contact with ALA 173 (chain M).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
169M TRP* 3.0 28.4 + - + +
170M MET* 3.1 11.6 + - - +
172M GLY* 1.3 78.6 - - - +
174M THR* 1.3 61.5 + - + +
175M LEU 3.5 0.2 + - - -
176M LYS* 3.6 20.3 + - - +
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Residues in contact with THR 174 (chain M).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
121M VAL* 6.1 0.3 - - - +
124M LEU* 3.8 23.5 - - + +
170M MET* 2.6 33.0 + - + +
171M LEU* 3.8 9.8 + - + +
173M ALA* 1.3 78.0 - - + +
175M LEU* 1.3 63.7 + - - +
176M LYS 3.4 3.0 - - - +
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Residues in contact with LEU 175 (chain M).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
121M VAL* 3.7 41.3 - - + +
124M LEU* 3.8 17.7 - - + +
125M ALA* 3.5 35.4 - - + +
128M LYS* 4.2 15.3 - - + -
171M LEU* 2.9 20.5 + - + +
172M GLY* 3.8 3.8 - - - +
174M THR* 1.3 83.0 - - - +
176M LYS* 1.3 66.7 + - - +
177M ALA* 3.4 5.7 + - - +
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Residues in contact with LYS 176 (chain M).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
172M GLY 2.9 17.6 + - - +
173M ALA* 3.7 16.5 - - - +
174M THR 3.4 3.8 - - - +
175M LEU* 1.3 79.3 - - - +
177M ALA* 1.3 73.0 + - - +
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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