Contacts of the helix formed by residues 164 - 185 (chain C) in PDB entry 3HW4
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 164 (chain C).
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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162C THR 4.2 0.4 + - - -
163C LEU* 1.3 79.9 - - - +
165C GLU* 1.3 63.5 + - - +
166C GLU* 2.8 29.3 + - - +
167C SER* 2.9 29.4 + - - -
168C ARG* 3.2 20.1 + - - +
170C ARG* 5.3 0.5 + - - -
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Residues in contact with GLU 165 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
154C GLU* 4.7 1.6 - - - +
164C ASP* 1.3 73.6 - - - +
166C GLU* 1.3 69.6 + - + +
168C ARG* 3.0 37.3 + - - +
169C ALA* 3.0 24.8 + - - +
172C LYS* 4.8 7.8 + - - -
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Residues in contact with GLU 166 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
10B ASN* 5.6 3.5 + - - -
11B PRO* 6.2 0.3 - - - +
12B MET* 5.8 4.2 - - - +
164C ASP* 2.8 31.8 + - - +
165C GLU* 1.3 80.0 - - + +
167C SER* 1.3 64.5 + - - +
169C ALA* 3.3 7.8 + - - +
170C ARG* 3.2 42.7 + - - +
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Residues in contact with SER 167 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
47C MET 5.0 5.7 + - - -
48C TYR 5.4 0.2 + - - -
163C LEU* 3.5 29.9 - - - +
164C ASP* 2.9 20.7 + - - -
166C GLU* 1.3 78.8 - - - +
168C ARG* 1.3 58.9 + - - +
170C ARG* 3.4 27.0 + - - +
171C ILE* 3.4 23.9 + - - +
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Residues in contact with ARG 168 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
146C HIS* 3.6 12.8 - - + -
148C PHE* 3.9 13.2 - - + -
154C GLU* 2.3 60.2 + - - +
161C TYR* 3.5 28.3 + - - +
163C LEU* 2.7 39.3 + - + -
164C ASP* 3.2 14.6 + - - +
165C GLU* 3.0 41.4 + - - +
167C SER* 1.3 72.2 - - - +
169C ALA* 1.3 60.7 + - - +
171C ILE* 3.3 8.2 + - - +
172C LYS* 2.8 40.8 + - - +
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Residues in contact with ALA 169 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
165C GLU 3.0 18.9 + - - +
166C GLU* 3.6 8.5 - - - +
168C ARG* 1.3 76.3 - - - +
170C ARG* 1.3 52.2 + - + +
172C LYS* 3.8 10.9 - - - +
173C THR* 2.7 39.3 + - - +
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Residues in contact with ARG 170 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
10B ASN* 4.7 14.5 + - - +
51B PHE* 6.3 2.5 - - - -
47C MET* 4.5 4.9 - - - +
164C ASP* 5.3 0.6 + - - -
166C GLU* 3.2 27.2 + - - +
167C SER* 3.4 32.3 - - - +
168C ARG 3.2 0.4 - - - -
169C ALA* 1.3 76.8 - - + +
171C ILE* 1.3 57.2 + - + +
173C THR* 3.3 12.0 - - + +
174C ARG* 3.1 27.7 + - - +
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Residues in contact with ILE 171 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
44C VAL* 3.9 24.2 - - + +
47C MET* 3.8 31.2 - - + +
48C TYR* 4.0 35.9 - - + +
148C PHE* 3.9 35.0 - - + -
163C LEU* 4.2 7.6 - - + -
167C SER* 3.4 13.4 + - - +
168C ARG* 3.3 7.8 + - - +
170C ARG* 1.3 74.3 - - + +
172C LYS* 1.3 66.9 + - - +
174C ARG* 3.1 3.6 + - - +
175C LEU* 3.0 30.6 + - + +
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Residues in contact with LYS 172 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
148C PHE* 4.3 13.2 - - + -
149C SER 5.6 1.1 - - - +
152C GLY* 3.5 39.6 + - - +
153C GLU 5.5 0.2 - - - +
154C GLU* 3.0 41.3 + - - +
165C GLU* 4.8 8.5 + - - -
168C ARG* 2.8 31.9 + - - +
169C ALA* 3.9 9.0 - - - +
171C ILE* 1.3 73.7 - - - +
173C THR* 1.3 57.8 + - - +
175C LEU* 3.4 10.5 + - + +
176C PHE* 2.9 32.6 + - + +
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Residues in contact with THR 173 (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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169C ALA 2.7 29.7 + - - +
170C ARG* 3.3 19.7 - - + +
172C LYS* 1.3 74.5 - - - +
174C ARG* 1.3 58.3 + - - +
176C PHE* 3.6 8.8 - - - +
177C THR* 2.6 39.6 + - - -
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Residues in contact with ARG 174 (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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8C CYS* 3.1 32.7 + - - -
9C PHE* 3.9 9.7 - - - +
10C ASN 5.5 0.4 - - - +
43C GLU* 2.7 44.1 + - + +
47C MET* 4.0 21.3 - - + -
170C ARG 3.1 17.5 + - - +
171C ILE 3.1 5.4 + - - +
173C THR* 1.3 79.4 - - - +
175C LEU* 1.4 57.3 + - + +
177C THR* 3.1 20.5 + - - +
178C ILE* 3.0 54.3 + - + +
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Residues in contact with LEU 175 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
40C THR* 3.3 34.1 - - + -
44C VAL* 3.8 16.6 - - + -
122C VAL* 3.9 9.9 - - + -
148C PHE* 3.7 24.5 - - + -
149C SER 3.4 27.6 - - - +
150C PHE* 3.3 22.8 - - + -
171C ILE* 3.0 27.8 + - + +
172C LYS* 3.7 9.0 - - + +
174C ARG* 1.4 73.3 - - + +
176C PHE* 1.3 66.5 + - - +
178C ILE* 3.4 6.7 + - + -
179C ARG* 3.0 19.9 + - - +
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Residues in contact with PHE 176 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
150C PHE 3.3 13.5 - - - -
151C THR 3.6 24.7 - - - -
152C GLY* 3.8 5.8 - - - -
172C LYS 2.9 21.1 + - - +
173C THR* 3.6 11.7 - - - +
175C LEU* 1.3 78.4 - - - +
177C THR* 1.3 56.6 + - - +
179C ARG* 3.3 32.4 + - - +
180C GLN* 3.0 44.8 + - + +
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Residues in contact with THR 177 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
173C THR* 2.6 26.1 + - - -
174C ARG* 3.1 23.0 + - - +
176C PHE* 1.3 74.2 - - - +
178C ILE* 1.3 66.0 + - - +
180C GLN* 3.3 8.3 + - - +
181C GLU* 2.8 47.3 + - + +
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Residues in contact with ILE 178 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
4C PHE* 4.1 7.8 - - + -
8C CYS* 4.1 5.2 - - - -
9C PHE* 3.7 34.1 - - + -
40C THR* 4.1 16.2 - - + +
43C GLU* 5.0 1.8 - - + +
150C PHE* 4.1 12.3 - - + -
174C ARG* 3.0 51.0 + - + +
175C LEU* 3.8 9.6 - - + +
177C THR* 1.3 75.6 - - - +
179C ARG* 1.3 58.3 + - - +
181C GLU* 3.3 5.7 + - - +
182C MET* 2.9 59.1 + - + +
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Residues in contact with ARG 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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150C PHE* 3.4 20.6 + - + -
151C THR* 4.0 16.6 - - - +
175C LEU 3.0 17.1 + - - +
176C PHE* 3.3 44.9 + - - +
177C THR 3.2 0.2 - - - -
178C ILE* 1.3 80.1 - - - +
180C GLN* 1.3 67.1 + - - +
182C MET* 3.4 2.8 + - - +
183C ALA* 2.9 31.1 + - - +
188C TRP* 3.6 51.1 - - + +
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Residues in contact with GLN 180 (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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176C PHE* 3.0 29.7 + - + +
177C THR* 3.8 8.5 - - - +
179C ARG* 1.3 84.5 - - - +
181C GLU* 1.3 70.8 + - + +
183C ALA* 3.7 7.6 - - + +
184C SER* 2.9 25.1 + - - -
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Residues in contact with GLU 181 (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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4C PHE* 3.9 19.5 - - + -
8C CYS* 5.9 2.2 - - - -
177C THR* 2.8 39.0 + - + +
178C ILE* 3.8 4.7 - - - +
180C GLN* 1.3 80.8 - - + +
182C MET* 1.3 60.8 + - - +
184C SER* 3.0 23.6 + - - -
185C ARG* 3.3 21.8 + - - +
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Residues in contact with MET 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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1C MET* 4.2 8.5 - - + -
4C PHE* 3.6 36.1 - - + -
9C PHE* 5.5 1.1 - - + -
36C ALA* 4.2 15.3 - - + -
40C THR* 5.3 2.2 - - - +
178C ILE* 2.9 34.9 + - + +
179C ARG 3.8 3.8 - - - +
180C GLN 3.2 0.2 - - - -
181C GLU* 1.3 76.2 - - - +
183C ALA* 1.3 58.2 + - - +
185C ARG* 3.0 12.8 + - - -
186C GLY 3.0 0.2 + - - -
187C LEU* 2.9 34.1 + - + -
188C TRP* 3.7 22.7 - - + +
191C PHE* 3.4 51.6 - - + -
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Residues in contact with ALA 183 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
179C ARG* 2.9 23.4 + - - +
180C GLN* 3.7 8.7 - - + +
182C MET* 1.3 76.3 - - - +
184C SER* 1.3 61.6 + - - +
185C ARG 3.2 0.9 + - - -
186C GLY* 3.2 11.7 + - - -
188C TRP* 3.6 21.2 - - + +
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Residues in contact with SER 184 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
180C GLN 2.9 15.6 + - - -
181C GLU* 3.0 21.1 + - - -
182C MET 3.3 0.2 - - - -
183C ALA* 1.3 75.2 - - - +
185C ARG* 1.3 64.4 + - - +
186C GLY 3.5 0.6 + - - -
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Residues in contact with ARG 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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-3C PRO 4.9 3.8 - - - +
-2C LEU* 3.6 17.0 - - - +
-1C GLY* 4.7 6.8 + - - +
0C SER 5.5 0.2 + - - -
3C ASP* 5.7 0.6 - - - +
4C PHE* 3.4 50.9 - - - +
7C GLN* 2.5 37.7 + - - +
181C GLU* 3.3 18.0 + - - +
182C MET 3.0 8.9 + - - +
184C SER* 1.3 85.5 + - - +
186C GLY* 1.3 60.1 + - - +
187C LEU* 3.3 16.9 + - + +
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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