Contacts of the helix formed by residues 170 - 187 (chain C) in PDB entry 1C2O
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 ASN 170 (chain C).
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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157C GLY 4.1 4.0 + - - -
158C PHE* 3.9 19.2 + - - +
169C GLY* 1.3 70.7 - - - +
171C VAL* 1.3 59.2 + - - +
172C GLY 3.1 2.7 - - - -
173C LEU* 2.7 29.3 + - + +
174C LEU* 3.0 13.7 + - + +
301C PRO* 3.0 15.2 - - - +
302C VAL* 2.7 48.5 + - - +
304C ASP* 2.5 33.1 + - - +
307C PHE* 4.0 18.5 - - + +
308C LEU* 5.1 1.7 - - - +
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Residues in contact with VAL 171 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
47C PHE* 3.6 15.3 - - - +
48C MET 3.6 2.7 - - - +
49C PRO* 3.5 32.5 - - + -
152C ARG* 3.5 25.6 - - - +
156C PHE 3.4 19.3 - - - +
157C GLY 3.2 14.9 + - - +
168C PRO* 4.4 6.1 - - + -
169C GLY* 3.0 13.2 - - - +
170C ASN* 1.3 79.5 - - - +
172C GLY* 1.3 55.4 + - - +
174C LEU* 3.2 9.3 + - + +
175C ASP* 2.8 34.1 + - - +
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Residues in contact with GLY 172 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
151C TYR* 3.2 16.0 - - - +
152C ARG 3.4 26.0 - - - -
157C GLY* 2.9 13.6 + - - -
158C PHE* 4.0 6.7 - - - -
170C ASN 3.0 0.8 + - - -
171C VAL* 1.3 77.8 - - - +
173C LEU* 1.3 60.4 + - - +
175C ASP* 3.3 9.1 - - - +
176C GLN* 3.2 21.7 + - - +
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Residues in contact with LEU 173 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
123C PHE* 4.5 11.9 - - + -
158C PHE* 4.0 12.3 - - + -
170C ASN* 2.7 15.8 + - + +
172C GLY* 1.3 75.8 - - - +
174C LEU* 1.3 55.5 + - - +
175C ASP 3.0 1.3 - - - -
176C GLN* 2.9 36.0 + - - +
177C ARG* 2.7 30.8 + - - +
208C SER* 3.8 21.5 - - - +
211C MET* 4.0 23.6 - - + -
212C HIS* 3.7 6.8 + - - +
301C PRO* 4.2 11.2 - - + -
307C PHE* 3.5 41.3 - - + -
308C LEU* 5.6 0.4 - - + -
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Residues in contact with LEU 174 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
49C PRO* 3.7 27.8 - - + -
50C PRO* 3.4 19.9 - - + +
168C PRO* 6.6 0.2 - - + -
169C GLY 5.2 3.1 - - - +
170C ASN* 3.0 15.7 + - + +
171C VAL* 3.5 9.0 - - + +
173C LEU* 1.3 74.6 - - - +
175C ASP* 1.3 66.4 + - - +
177C ARG* 3.7 21.4 - - - +
178C LEU* 2.8 25.6 + - - +
306C ASP* 6.2 0.2 - - - +
307C PHE* 3.3 33.9 - - + -
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Residues in contact with ASP 175 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
37C PHE* 3.3 13.9 - - + -
50C PRO* 3.2 14.4 - - - +
97C LEU* 3.3 17.6 - - + +
151C TYR* 3.7 11.7 - - + -
152C ARG* 2.9 65.9 + - - +
171C VAL 2.8 17.6 + - - +
172C GLY* 3.3 8.7 - - - +
173C LEU 3.0 0.4 - - - -
174C LEU* 1.3 78.6 - - - +
176C GLN* 1.3 64.0 + - - +
178C LEU* 2.9 3.3 + - - +
179C ALA 2.9 18.2 + - - -
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Residues in contact with GLN 176 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
118C ILE* 3.1 28.5 - - - +
149C MET* 3.3 28.8 - - + +
151C TYR* 3.5 29.6 - - + +
172C GLY 3.2 11.2 - - - +
173C LEU* 2.9 31.9 + - - +
175C ASP* 1.3 75.5 - - - +
177C ARG* 1.3 66.1 + - - +
179C ALA* 3.0 4.1 + - - +
180C LEU* 2.8 23.5 + - - +
208C SER* 3.2 17.6 + - - -
212C HIS* 3.1 22.9 - - + -
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Residues in contact with ARG 177 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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173C LEU 2.7 16.9 + - - +
174C LEU* 3.2 21.3 + - - +
176C GLN* 1.3 71.6 - - - +
178C LEU* 1.3 59.1 + - - +
180C LEU* 2.9 15.8 + - - +
181C GLN* 2.8 45.5 + - - +
212C HIS* 3.9 2.6 + - - +
215C SER* 3.0 23.8 + - - -
217C PRO* 3.5 27.0 - - - +
218C SER* 2.6 45.8 + - - +
221C LEU* 4.1 12.3 - - + -
306C ASP* 5.9 1.2 + - - -
307C PHE* 3.4 24.2 - - + +
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Residues in contact with LEU 178 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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37C PHE* 3.2 44.6 - - + +
38C ALA* 3.5 16.2 - - + -
50C PRO* 4.3 15.5 - - + +
51C GLU 4.3 5.6 - - - +
52C PRO* 4.5 17.5 - - + -
174C LEU 2.8 13.4 + - - +
175C ASP 3.2 8.7 - - - +
177C ARG* 1.3 76.9 - - - +
179C ALA* 1.3 63.6 + - - +
181C GLN* 3.0 25.2 + - + +
182C TRP* 2.9 23.7 + - + +
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Residues in contact with ALA 179 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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37C PHE* 3.7 17.1 - - + -
99C LEU* 4.4 10.1 - - + +
116C ILE* 6.0 0.2 - - - -
147C VAL* 5.9 2.4 - - + +
149C MET* 3.7 40.2 - - + -
175C ASP 2.9 9.9 + - - +
176C GLN 3.0 7.4 + - - +
178C LEU* 1.3 75.8 - - - +
180C LEU* 1.3 60.9 + - + +
182C TRP* 3.1 6.3 + - - +
183C VAL* 2.9 28.9 + - - +
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Residues in contact with LEU 180 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
116C ILE* 3.5 24.9 - - + -
118C ILE* 5.4 0.7 - - + -
149C MET* 4.4 6.7 - - + -
176C GLN 2.8 15.3 + - - +
177C ARG* 2.9 19.7 + - + +
179C ALA* 1.3 77.7 - - - +
181C GLN* 1.3 61.4 + - - +
183C VAL* 3.0 11.3 + - - +
184C GLN* 2.9 20.6 + - - +
199C LEU* 3.4 36.6 - - + -
212C HIS* 4.1 25.6 - - + +
218C SER* 5.0 3.8 - - - +
221C LEU* 3.5 33.7 - - + +
222C PHE* 5.2 0.4 - - + -
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Residues in contact with GLN 181 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
177C ARG* 2.8 40.1 + - - +
178C LEU* 3.0 24.3 + - + +
180C LEU* 1.3 71.7 - - - +
182C TRP* 1.3 60.2 + - - +
184C GLN* 3.2 9.3 - - + +
185C GLU* 3.0 34.1 + - + +
221C LEU* 3.6 23.3 - - + +
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Residues in contact with TRP 182 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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12C VAL* 4.1 21.0 - - + +
35C ILE* 3.7 40.8 - - + +
36C PRO 4.4 9.5 + - - -
37C PHE* 4.3 19.3 - - + +
56C TRP* 5.8 0.8 - - - -
99C LEU* 3.5 30.3 - - + -
101C VAL* 4.3 8.7 - - + -
147C VAL* 5.4 0.7 - - + -
178C LEU* 2.9 14.9 + - + +
179C ALA* 3.5 10.1 - - - +
180C LEU 3.0 0.2 - - - -
181C GLN* 1.3 76.1 - - - +
183C VAL* 1.3 98.8 + - + +
185C GLU* 2.8 22.1 + - - -
186C ASN* 3.0 41.2 + - + +
187C ILE* 4.9 3.6 - - + -
190C PHE* 4.0 19.1 - + - -
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Residues in contact with VAL 183 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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114C VAL* 5.1 3.1 - - + -
116C ILE* 3.3 32.8 - - + -
147C VAL* 3.6 32.3 - - + -
179C ALA 2.9 13.0 + - - +
180C LEU* 3.0 13.9 + - - +
182C TRP* 1.3 83.8 - - + +
184C GLN* 1.3 66.4 + - - +
187C ILE* 2.7 58.1 + - + +
197C VAL* 4.2 14.8 - - + -
221C LEU 4.9 0.9 - - - +
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Residues in contact with GLN 184 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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180C LEU 2.9 6.1 + - - +
181C GLN* 3.2 16.2 - - - +
182C TRP 2.9 0.2 + - - -
183C VAL* 1.3 85.5 - - - +
185C GLU* 1.3 60.6 + - + +
186C ASN 3.2 2.9 + - - -
187C ILE* 4.2 1.4 + - - +
188C ALA* 5.0 2.9 + - - +
194C PRO* 3.4 48.6 + - + +
195C MET* 4.9 6.5 - - - +
197C VAL* 4.0 7.1 - - - +
220C SER 3.6 22.5 + - - +
221C LEU* 3.9 23.7 - - + +
223C HIS* 4.9 3.8 + - - -
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Residues in contact with GLU 185 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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13C ARG* 3.2 54.8 + - - +
181C GLN* 3.0 21.9 - - - +
182C TRP* 2.8 10.6 + - - +
184C GLN* 1.3 76.5 - - + +
186C ASN* 1.3 79.1 + - - +
188C ALA* 5.7 2.0 - - - -
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Residues in contact with ASN 186 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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12C VAL* 3.1 17.1 - - + +
13C ARG* 2.7 41.2 + - - +
182C TRP* 3.0 43.9 + - + +
184C GLN 3.2 2.0 + - - -
185C GLU* 1.3 105.6 + - - +
187C ILE* 1.3 69.5 + - - +
188C ALA* 3.0 5.8 + - - +
189C ALA* 3.3 12.1 + - - +
190C PHE* 3.2 17.7 - - - -
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Residues in contact with ILE 187 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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101C VAL* 4.2 8.5 - - + -
114C VAL* 3.5 26.2 - - + -
145C VAL* 3.5 24.0 - - + -
147C VAL* 3.7 19.7 - - + -
182C TRP* 4.9 2.5 - - + -
183C VAL* 2.7 42.6 + - + +
184C GLN 4.2 0.4 + - - +
186C ASN* 1.3 80.0 - - - +
188C ALA* 1.3 57.5 + - - +
190C PHE* 2.7 38.9 + - + +
192C GLY* 3.0 24.0 + - - +
193C ASP 4.4 1.1 - - - -
194C PRO* 4.1 21.8 - - + -
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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
------------------------------------------------------------
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