Contacts of the helix formed by residues 185 - 204 (chain A) in PDB entry 2X8I
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 HIS 185 (chain A).
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Specific contacts
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Residue Dist Surf HB Arom Phob DC
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161A GLU* 2.7 35.4 + - - +
163A LEU* 3.5 24.6 - - + +
177A GLU* 5.0 0.7 - - - +
184A PHE* 1.3 74.7 - - - +
186A ALA* 1.3 64.6 + - - +
187A GLU 4.7 0.2 - - - +
188A PRO* 3.6 25.4 - - + +
189A VAL* 3.5 18.9 - - - +
250A PRO* 6.0 4.5 - - + +
251A SER* 5.5 7.0 - - - -
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Residues in contact with ALA 186 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
127A THR* 3.9 19.7 + - + -
155A PHE* 3.5 38.6 - - + -
161A GLU* 4.3 4.8 + - - -
162A ARG 5.3 2.0 + - - +
164A LEU* 3.7 21.4 - - + +
184A PHE* 3.7 3.1 + - - -
185A HIS* 1.3 71.3 - - - +
187A GLU* 1.3 67.0 + - - +
189A VAL* 3.1 24.0 + - - +
190A ASP* 3.5 4.0 + - - +
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Residues in contact with GLU 187 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
122A HIS* 3.6 37.6 + - + +
155A PHE* 3.6 27.0 - - + -
156A ARG* 4.0 3.6 + - - -
161A GLU* 4.6 5.8 + - - +
185A HIS* 4.7 0.4 - - - +
186A ALA* 1.3 75.9 - - - +
188A PRO* 1.3 69.8 - - + +
189A VAL 3.2 0.3 + - - -
190A ASP* 3.3 5.4 + - - +
191A VAL* 3.0 26.7 + - + +
1273A GOL 2.7 34.7 + - - -
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Residues in contact with PRO 188 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
177A GLU* 4.4 0.9 - - - +
185A HIS* 3.6 29.2 - - + +
187A GLU* 1.3 95.0 - - + +
189A VAL* 1.3 55.8 + - - +
191A VAL* 3.6 10.0 - - + +
192A TRP 2.9 23.7 + - - -
250A PRO* 4.0 30.7 - - + +
253A ARG* 3.0 32.1 + - + +
254A ILE 5.8 1.1 - - - +
255A THR* 6.6 0.2 - - + -
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Residues in contact with VAL 189 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
127A THR* 5.8 0.2 - - - +
129A ARG* 5.6 10.8 - - + +
173A TYR 5.0 0.9 - - - +
174A VAL* 5.8 1.8 - - - -
175A ALA* 4.2 11.6 - - + +
177A GLU* 3.6 14.4 - - - +
178A LEU* 3.5 40.6 - - + -
184A PHE* 3.8 12.1 - - + -
185A HIS 3.5 19.3 - - - +
186A ALA* 3.1 9.3 + - - +
188A PRO* 1.3 76.1 - - - +
190A ASP* 1.3 65.6 + - - +
192A TRP* 3.3 5.7 + - - +
193A SER* 3.2 21.2 + - - -
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Residues in contact with ASP 190 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
118A VAL* 4.5 3.0 - - + +
122A HIS* 2.9 34.8 + - + +
127A THR* 2.7 24.1 + - - -
128A HIS 3.4 9.8 + - - -
129A ARG* 3.3 25.6 + - - -
131A ILE* 3.8 21.4 - - + +
186A ALA 3.5 1.9 + - - +
187A GLU 3.3 1.8 + - - +
189A VAL* 1.3 78.4 - - - +
191A VAL* 1.3 66.1 + - - +
193A SER* 3.0 18.3 + - - -
194A CYS* 3.0 18.5 + - - -
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Residues in contact with VAL 191 (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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115A MET* 5.9 0.4 - - - -
122A HIS* 5.1 1.3 - - + -
187A GLU* 3.0 22.0 + - + +
188A PRO* 3.6 11.2 - - + +
189A VAL 3.3 0.2 - - - -
190A ASP* 1.3 75.7 - - - +
192A TRP* 1.3 63.7 + - - +
194A CYS* 3.2 10.5 + - - +
195A GLY 3.1 16.6 + - - -
245A ILE* 3.4 19.2 - - + +
253A ARG* 4.3 6.7 - - + -
254A ILE* 3.6 26.2 - - + +
255A THR* 5.0 1.3 - - - -
256A ILE* 3.8 35.4 - - + +
259A ILE* 4.2 14.8 - - + -
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Residues in contact with TRP 192 (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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173A TYR 3.3 20.1 + - - -
174A VAL 3.2 11.9 + - - -
175A ALA* 3.6 16.8 - - + -
176A PRO* 3.6 24.9 - - + -
188A PRO 2.9 14.2 + - - +
189A VAL 3.4 9.0 - - - +
190A ASP 3.3 0.2 - - - -
191A VAL* 1.3 76.2 - - - +
193A SER* 1.3 57.2 + - - +
195A GLY* 2.9 17.2 + - - -
196A ILE* 3.1 25.2 + - + +
208A TRP* 3.5 24.7 - + - +
211A PRO* 4.0 8.5 - - + -
218A TYR* 3.8 21.1 - + - -
245A ILE* 3.8 8.3 - - - -
246A LEU* 3.4 40.5 - - + +
247A VAL 3.4 20.2 - - - -
253A ARG* 3.6 24.8 - - - +
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Residues in contact with SER 193 (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 ARG 6.0 0.5 - - - -
131A ILE* 3.5 35.6 + - - +
173A TYR* 3.4 24.8 - - - -
189A VAL* 3.2 9.6 + - - -
190A ASP* 3.0 19.8 + - - -
192A TRP* 1.3 79.1 - - - +
194A CYS* 1.3 55.4 + - - +
196A ILE* 3.1 6.7 + - - +
197A VAL* 2.9 34.3 + - - +
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Residues in contact with CYS 194 (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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111A PHE* 3.7 10.2 - - + -
114A LEU* 3.7 25.5 - - + +
115A MET* 3.7 32.8 - - + -
118A VAL* 3.8 17.9 - - - -
131A ILE* 3.9 9.6 - - - +
190A ASP 3.0 23.2 + - - -
191A VAL* 3.2 11.6 + - - +
193A SER* 1.3 77.4 + - - +
195A GLY* 1.3 57.1 + - - +
197A VAL* 3.3 5.9 + - - +
198A LEU* 2.9 26.9 + - - +
245A ILE* 5.9 0.4 - - + -
259A ILE* 6.3 0.4 - - + -
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Residues in contact with GLY 195 (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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191A VAL 3.1 6.5 + - - -
192A TRP 2.9 9.3 + - - -
194A CYS* 1.3 72.8 - - - +
196A ILE* 1.3 60.9 + - - +
198A LEU* 3.3 1.6 + - - -
199A THR* 2.9 31.7 + - - -
242A LEU* 3.4 15.7 - - - +
245A ILE* 3.7 24.8 - - - +
246A LEU* 4.3 5.6 - - - -
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Residues in contact with ILE 196 (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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172A PRO 3.6 19.7 - - - +
173A TYR* 3.5 29.6 - - + -
192A TRP* 3.1 31.9 + - + +
193A SER 3.1 6.5 + - - +
195A GLY* 1.3 73.1 - - - +
197A VAL* 1.3 65.9 + - - +
199A THR* 3.2 5.7 + - - -
200A ALA* 3.0 21.8 + - - +
206A LEU* 3.8 14.5 - - + +
207A PRO* 3.9 17.5 - - + -
208A TRP* 3.8 29.4 - - + -
246A LEU* 3.9 11.4 - - + -
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Residues in contact with VAL 197 (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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92A LEU* 4.0 16.4 - - + -
114A LEU* 4.2 9.6 - - + -
131A ILE* 4.1 15.7 - - + +
132A LYS* 3.9 27.8 - - - -
133A PRO* 4.2 9.0 - - + -
136A LEU* 3.8 21.3 - - + -
173A TYR* 4.3 3.8 - - + -
193A SER 2.9 18.1 + - - +
194A CYS* 3.5 9.9 - - - +
196A ILE* 1.3 76.7 - - - +
198A LEU* 1.3 58.0 + - - +
200A ALA* 3.2 8.3 + - - +
201A MET* 2.9 35.0 + - + +
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Residues in contact with LEU 198 (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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107A ALA* 4.5 2.0 - - + +
111A PHE* 4.0 22.0 - - + -
194A CYS 2.9 13.8 + - - +
195A GLY 3.6 8.1 - - - +
196A ILE 3.3 0.2 - - - -
197A VAL* 1.3 76.0 - - - +
199A THR* 1.3 63.9 + - - +
201A MET* 3.2 23.2 + - + +
202A LEU* 3.0 46.8 + - + +
238A PRO 4.9 1.6 - - - +
241A LEU* 3.9 28.7 - - + -
242A LEU* 3.7 22.2 - - + -
245A ILE* 4.8 1.1 - - + -
264A TRP* 3.9 24.5 - - + -
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Residues in contact with THR 199 (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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195A GLY 2.9 15.3 + - - -
196A ILE* 3.2 11.9 + - - -
198A LEU* 1.3 76.5 - - - +
200A ALA* 1.3 56.8 + - - +
202A LEU* 3.3 1.9 + - - +
203A ALA* 2.9 30.1 + - - +
205A GLU 4.0 7.6 - - - +
207A PRO* 4.1 9.6 - - + -
230A PRO* 4.0 18.8 - - + -
231A TRP* 3.6 35.8 - - + -
234A ILE* 4.2 11.9 - - + -
242A LEU* 3.5 13.4 - - - +
246A LEU* 4.0 3.1 - - - +
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Residues in contact with ALA 200 (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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93A PHE* 5.5 4.0 - - + -
96A ILE* 3.4 22.8 - - + +
133A PRO* 4.8 7.9 - - + -
196A ILE 3.0 13.1 + - - +
197A VAL* 3.6 10.8 - - - +
199A THR* 1.3 75.8 - - - +
201A MET* 1.3 58.0 + - - +
204A GLY* 2.8 29.4 + - - -
205A GLU 3.8 15.2 + - - +
206A LEU* 4.2 19.3 - - + -
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Residues in contact with MET 201 (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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92A LEU* 4.0 19.3 - - + -
96A ILE* 4.2 14.1 - - + -
101A GLY* 3.1 3.3 - - - -
102A MET* 2.8 48.4 + - + +
107A ALA* 3.6 31.9 - - + +
110A PHE* 3.7 31.0 - - + -
111A PHE* 4.2 15.3 - - + +
114A LEU* 5.6 1.3 - - + -
197A VAL* 2.9 22.5 + - + +
198A LEU* 3.2 28.7 + - + +
200A ALA* 1.3 76.6 - - - +
202A LEU* 1.3 57.9 + - - +
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Residues in contact with LEU 202 (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 ILE 3.5 11.5 - - - +
102A MET 4.7 5.8 - - - +
104A GLU* 3.9 27.6 - - + -
107A ALA* 3.5 24.9 - - + -
198A LEU* 3.0 38.8 + - + +
199A THR 4.1 2.0 - - - +
201A MET* 1.3 77.8 - - - +
203A ALA* 1.3 57.5 + - - +
233A LYS* 4.2 13.9 - - - +
234A ILE* 3.9 24.0 - - + -
238A PRO* 3.5 31.0 - - + -
242A LEU* 4.7 4.3 - - + -
264A TRP* 4.7 1.6 - - + -
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Residues in contact with ALA 203 (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 ASP 3.2 8.3 - - - +
100A ILE 3.7 8.4 - - - -
199A THR 2.9 13.7 + - - +
202A LEU* 1.3 77.3 - - - +
204A GLY* 1.3 62.6 + - - +
205A GLU 4.4 1.8 - - - +
230A PRO* 3.6 41.3 - - + +
233A LYS* 3.1 31.8 + - + +
234A ILE* 4.1 8.1 - - + -
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Residues in contact with GLY 204 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
96A ILE* 3.7 9.8 - - - +
97A GLU 3.7 7.9 - - - -
98A PRO* 3.8 4.5 - - - +
99A ASP* 2.8 21.3 + - - +
101A GLY 3.4 18.4 - - - +
200A ALA* 2.8 18.5 + - - -
203A ALA* 1.3 78.1 - - - +
205A GLU* 1.3 58.6 + - - +
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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