Contacts of the helix formed by residues 180 - 198 (chain C) in PDB entry 3G4C
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 GLN 180 (chain C).
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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90B ARG* 3.4 28.0 - - - +
144B GLU* 3.0 44.8 + - - +
145B VAL* 4.8 0.8 - - - +
147B ARG* 2.9 25.4 + - - -
308B UMP 4.4 1.8 + - - -
71C PHE* 3.3 19.7 - - + -
75C GLN* 3.1 21.8 + - - +
105C ARG* 4.1 0.8 - - - +
179C ALA* 1.3 74.0 - - - +
181C TRP* 1.3 68.4 + - - +
182C GLU* 3.0 30.2 + - + +
183C ILE* 2.9 16.8 + - - +
184C GLN* 3.2 7.1 + - - +
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Residues in contact with TRP 181 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
144B GLU* 4.2 5.3 + - - +
6C LEU* 3.6 26.7 - - + -
99C TYR* 3.8 12.6 - + - -
102C SER* 6.1 0.9 - - - -
105C ARG* 3.7 39.3 - - + +
179C ALA 3.3 3.0 + - - -
180C GLN* 1.3 73.0 - - - +
182C GLU* 1.3 77.3 + - - +
184C GLN* 3.2 33.5 + - - +
185C GLN* 3.1 46.8 + - + +
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Residues in contact with GLU 182 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
145B VAL* 4.7 3.1 - - - +
6C LEU* 4.0 12.7 - - + +
71C PHE* 3.7 9.4 - - + -
72C VAL* 3.6 20.2 - - + -
99C TYR* 2.6 47.4 + - + +
101C PRO* 5.2 0.3 - - - +
105C ARG* 2.7 30.2 + - - +
180C GLN* 3.0 29.3 + - + +
181C TRP* 1.3 82.7 - - + +
183C ILE* 1.3 61.4 + - - +
185C GLN* 3.3 9.7 + - - +
186C TYR* 3.2 21.6 - - - -
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Residues in contact with ILE 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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72C VAL* 3.6 23.9 - - + +
75C GLN* 3.7 24.9 - - + +
76C TRP* 4.2 37.5 - - + +
170C PHE* 4.4 4.3 - - + -
174C ARG* 3.9 37.7 - - + +
179C ALA* 3.8 21.3 - - + -
180C GLN* 2.9 14.4 + - - +
182C GLU* 1.3 75.2 - - - +
184C GLN* 1.3 70.5 + - - +
186C TYR* 3.0 4.4 + - + +
187C ALA* 2.8 20.6 + - - +
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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
----------------------------------------------------------
174C ARG 3.6 15.5 - - - +
176C ASP 3.5 18.6 - - - +
177C SER* 3.4 24.2 + - - +
179C ALA 2.9 21.6 + - - +
180C GLN 3.2 12.4 + - - +
181C TRP* 3.3 27.6 - - - +
183C ILE* 1.3 77.6 - - - +
185C GLN* 1.3 63.4 + - - +
187C ALA* 2.8 18.7 + - - +
188C LEU* 2.9 18.0 + - - +
214C ILE* 3.8 24.8 - - + +
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Residues in contact with GLN 185 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
5C ILE* 3.5 29.3 - - + +
6C LEU* 4.2 3.8 - - + +
181C TRP* 3.1 67.3 + - + +
182C GLU 3.5 8.1 - - - +
183C ILE 3.2 0.6 - - - -
184C GLN* 1.3 81.7 - - - +
186C TYR* 1.3 64.0 + - - +
188C LEU* 3.5 21.1 + - - +
189C ALA 3.4 12.8 + - - -
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Residues in contact with TYR 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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5C ILE* 3.7 26.1 + - + -
6C LEU* 3.6 26.6 - - + +
9C GLY* 3.6 11.8 - - - -
10C PHE 4.0 7.9 - - - -
11C VAL* 3.6 17.5 - - + +
66C VAL* 4.2 2.0 - - + -
67C LYS 2.5 30.1 + - - -
68C ALA* 3.2 23.3 - - + -
69C PRO* 3.8 4.2 - - + +
72C VAL* 3.9 13.2 - - + -
76C TRP* 3.4 28.3 - + + -
155C TYR* 3.9 1.7 - - - -
170C PHE* 5.6 0.2 - - + -
182C GLU 3.2 19.5 - - - -
183C ILE* 3.0 8.1 + - + +
185C GLN* 1.3 79.4 - - - +
187C ALA* 1.3 57.3 + - - +
189C ALA* 3.0 7.8 + - - +
190C ILE* 2.9 29.2 + - - +
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Residues in contact with ALA 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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170C PHE* 4.0 19.7 - - + -
171C LEU* 3.2 14.4 - - + +
174C ARG* 3.8 11.9 - - + -
175C ALA* 3.6 33.9 - - + +
183C ILE 2.8 12.6 + - - +
184C GLN 2.8 7.6 + - - +
186C TYR* 1.3 77.2 - - - +
188C LEU* 1.3 56.7 + - - +
190C ILE* 4.1 0.7 - - - -
191C ALA* 2.8 24.3 + - - +
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Residues in contact with LEU 188 (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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184C GLN 2.9 16.5 + - - +
185C GLN* 3.8 30.7 - - - +
187C ALA* 1.3 76.0 - - - +
189C ALA* 1.3 57.6 + - - +
191C ALA* 3.3 5.9 + - - +
192C ARG* 3.0 28.9 + - - +
214C ILE* 4.1 22.4 - - + -
215C LEU* 4.0 16.4 - - + -
218C VAL* 3.3 42.8 - - + -
220C VAL* 3.9 15.4 - - - +
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Residues in contact with ALA 189 (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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3C ILE* 4.0 21.7 - - + +
5C ILE* 3.5 29.8 - - + -
11C VAL* 3.7 17.9 - - + -
185C GLN 3.4 2.4 + - - -
186C TYR 3.0 10.6 + - - +
188C LEU* 1.3 75.8 - - - +
190C ILE* 1.3 65.8 + - - +
192C ARG* 3.6 0.4 + - - -
193C ILE* 3.3 29.5 + - - +
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Residues in contact with ILE 190 (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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11C VAL* 3.6 24.9 - - + -
64C PHE* 3.7 23.9 - - + -
76C TRP* 4.0 15.0 - - + -
160C TRP* 4.0 11.2 - - + -
167C LEU* 3.0 42.0 - - + -
170C PHE* 3.9 17.7 - - + -
171C LEU* 4.1 8.7 - - + -
186C TYR 2.9 15.8 + - - +
187C ALA* 3.5 10.1 - - - +
189C ALA* 1.3 75.9 - - - +
191C ALA* 1.3 59.3 + - - +
193C ILE* 3.4 2.4 + - - +
194C PHE* 3.0 26.3 + - - +
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Residues in contact with ALA 191 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
171C LEU* 3.8 17.3 - - + -
187C ALA 2.8 18.1 + - - +
188C LEU 3.5 5.2 - - - +
189C ALA 3.2 0.2 - - - -
190C ILE* 1.3 75.1 - - - +
192C ARG* 1.3 60.5 + - - +
194C PHE* 3.6 2.2 - - - +
195C LYS* 2.8 30.7 + - - +
202C PHE* 3.6 13.9 - - + -
215C LEU* 3.6 28.0 - - + -
220C VAL 3.9 6.3 - - - +
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Residues in contact with ARG 192 (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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1C MET* 4.7 9.2 - - + -
3C ILE* 4.1 20.2 - - + -
188C LEU 3.0 16.9 + - - +
189C ALA* 4.0 4.3 - - - +
190C ILE 3.4 0.2 - - - -
191C ALA* 1.3 75.5 - - - +
193C ILE* 1.3 58.5 + - - +
195C LYS* 3.4 4.3 + - - +
196C GLU* 3.0 27.9 + - - +
220C VAL* 3.3 49.1 + - + +
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Residues in contact with ILE 193 (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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1C MET* 3.8 31.2 - - + +
3C ILE* 4.2 9.6 - - + -
11C VAL* 4.0 26.2 - - + +
13C LEU* 4.1 39.7 - - + +
62C PHE* 4.5 4.3 - - + -
64C PHE* 3.8 30.1 - - + -
189C ALA 3.3 17.8 + - - +
190C ILE 3.7 3.1 - - - +
191C ALA 3.3 0.4 - - - -
192C ARG* 1.3 74.1 - - - +
194C PHE* 1.3 64.3 + - - +
196C GLU* 3.2 2.6 + - - +
197C LYS* 3.0 24.8 + - + +
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Residues in contact with PHE 194 (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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62C PHE* 3.7 25.3 - + - -
64C PHE* 5.4 0.6 - - - -
164C ALA* 4.1 21.8 - - + -
167C LEU* 4.2 15.7 - - + -
168C MET* 3.6 34.1 - - + -
171C LEU* 3.8 16.8 - - + -
190C ILE 3.0 17.5 + - - +
191C ALA* 3.6 3.8 - - - +
193C ILE* 1.3 74.9 - - - +
195C LYS* 1.3 57.3 + - - +
197C LYS 3.8 0.2 - - - -
198C CYS* 2.9 49.3 + - + +
201C THR* 3.9 19.7 - - + -
202C PHE* 3.7 27.8 - + - -
205C PHE* 4.6 2.7 - + - -
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Residues in contact with LYS 195 (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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191C ALA 2.8 21.7 + - - +
192C ARG* 3.5 6.3 - - - +
194C PHE* 1.3 77.8 - - - +
196C GLU* 1.3 62.1 + - - +
199C PRO* 3.2 28.9 - - + +
202C PHE* 3.7 41.2 - - + -
203C GLU* 5.5 8.0 - - - +
219C GLN* 4.9 8.3 - - - +
220C VAL* 3.5 43.6 - - + +
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Residues in contact with GLU 196 (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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1C MET* 4.1 28.7 - - + -
192C ARG* 3.0 20.3 + - - +
193C ILE 3.2 5.3 + - - +
195C LYS* 1.3 77.4 - - - +
197C LYS* 1.3 68.6 + - + +
199C PRO* 3.8 8.7 - - - +
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Residues in contact with LYS 197 (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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1C MET* 4.2 18.0 - - - +
13C LEU* 4.0 24.4 - - + +
16C VAL* 4.2 24.0 - - + +
18C GLY 4.9 0.9 - - - +
19C ASN* 4.0 17.8 - - - +
20C ASP 4.5 0.2 + - - -
62C PHE* 3.8 26.5 - - + -
193C ILE 3.0 16.2 + - - +
196C GLU* 1.3 88.1 - - - +
198C CYS* 1.3 63.6 + - - +
199C PRO* 3.5 5.0 - - - +
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Residues in contact with CYS 198 (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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16C VAL* 5.7 0.2 - - - -
18C GLY 5.3 0.4 - - - -
19C ASN* 4.3 7.9 - - - -
20C ASP* 3.2 15.9 - - - +
60C ILE* 3.8 39.7 - - - -
62C PHE* 3.9 13.9 - - - -
194C PHE* 2.9 28.2 + - + +
197C LYS* 1.3 84.1 - - - +
199C PRO* 1.3 67.2 - - - +
200C TRP 3.3 3.1 + - - -
201C THR* 3.5 3.3 + - - -
202C PHE* 3.0 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