Contacts of the helix formed by residues 163 - 184 (chain C) in PDB entry 4TZQ
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 GLY 163 (chain C).
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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16C ALA* 3.1 16.8 - - - -
17C ASP* 3.9 2.2 - - - -
161C TYR* 3.5 28.5 - - - -
162C GLU* 1.3 77.9 - - - +
164C GLY* 1.3 62.8 + - - -
165C ASP 3.5 1.8 - - - -
166C SER* 2.6 24.3 + - - -
167C VAL* 3.4 8.8 - - - +
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Residues in contact with GLY 164 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
16C ALA 2.9 13.5 + - - -
17C ASP 3.2 25.2 + - - -
19C ILE* 3.3 23.6 - - - +
32C VAL* 5.0 2.0 - - - -
161C TYR* 3.6 4.8 + - - -
163C GLY* 1.3 71.3 - - - -
165C ASP* 1.3 55.5 + - - -
167C VAL* 3.1 10.7 + - - +
168C ARG 3.0 21.3 + - - -
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Residues in contact with ASP 165 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
16C ALA 4.4 3.9 + - - +
18C SER 5.1 3.8 + - - -
19C ILE* 3.9 16.8 - - - +
20C ASP* 4.3 10.4 - - - +
163C GLY 3.5 0.6 - - - -
164C GLY* 1.3 72.6 - - - +
166C SER* 1.3 60.4 + - - +
168C ARG* 3.1 39.5 + - - +
169C ASP* 2.8 39.8 + - - +
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Residues in contact with SER 166 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
162C GLU* 3.4 42.6 + - - +
163C GLY 2.6 22.5 + - - -
165C ASP* 1.3 77.4 - - - +
167C VAL* 1.3 61.3 + - - +
169C ASP* 3.3 9.3 + - - +
170C GLN* 2.8 42.2 + - - +
236C ARG 5.0 0.3 + - - -
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Residues in contact with VAL 167 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
19C ILE* 4.8 0.7 - - + -
24C TRP* 4.8 2.7 - - + -
32C VAL* 3.9 27.8 - - + -
41C PHE* 3.3 40.0 - - + -
161C TYR* 4.0 2.7 - - + -
163C GLY 3.4 15.7 - - - +
164C GLY 3.1 8.0 + - - +
166C SER* 1.3 80.4 + - - +
168C ARG* 1.3 65.0 + - - +
170C GLN* 3.2 13.3 + - + +
171C MET* 3.0 22.7 + - - +
236C ARG 3.4 26.0 - - - +
237C PRO* 4.9 2.0 - - + -
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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
----------------------------------------------------------
19C ILE* 4.0 21.3 - - + +
21C ASP* 4.2 15.5 - - - +
24C TRP* 4.1 18.5 - - + -
71C THR* 3.6 33.8 - - + +
164C GLY 3.0 11.5 + - - +
165C ASP* 3.1 47.2 + - - +
167C VAL* 1.3 76.3 - - - +
169C ASP* 1.3 79.1 + - - +
171C MET* 3.2 3.8 + - - +
172C VAL* 2.9 30.7 + - + +
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Residues in contact with ASP 169 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
165C ASP* 2.8 25.9 + - - +
166C SER* 3.6 8.0 - - - +
168C ARG* 1.3 99.0 + - - +
170C GLN* 1.3 53.3 + - - +
172C VAL* 3.8 7.8 - - - +
173C THR* 2.6 39.3 + - - +
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Residues in contact with GLN 170 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
162C GLU* 5.4 5.7 + - - +
166C SER* 2.8 34.8 + - - +
167C VAL* 3.4 15.4 - - - +
168C ARG 3.2 0.2 - - - -
169C ASP* 1.3 75.6 - - + +
171C MET* 1.3 65.1 + - - +
173C THR* 3.3 7.4 + - - -
174C ILE* 3.1 27.2 + - - +
234C HIS* 3.2 40.0 + - + +
235C LEU* 3.4 7.0 - - + -
236C ARG* 2.7 41.9 + - - +
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Residues in contact with MET 171 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
24C TRP* 4.0 15.9 - - + -
28C PHE* 3.8 31.2 - - + -
41C PHE* 4.5 4.9 - - + -
45C ALA* 3.8 39.7 - - + +
48C VAL* 4.3 8.7 - - + -
49C ALA* 4.5 3.1 - - + +
70C ILE* 4.3 9.2 - - + -
167C VAL 3.0 12.9 + - - +
168C ARG 3.6 7.2 - - - +
170C GLN* 1.3 75.6 - - - +
172C VAL* 1.3 63.5 + - - +
174C ILE* 3.5 21.8 + - + -
175C VAL* 3.4 37.7 + - + +
235C LEU* 4.1 8.0 - - + +
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Residues in contact with VAL 172 (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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70C ILE* 4.2 8.1 - - + -
71C THR* 3.8 32.5 - - + +
73C LYS* 6.4 0.7 - - + -
74C LEU* 4.1 14.1 - - + -
168C ARG* 2.9 24.7 + - + +
169C ASP* 3.8 8.7 - - - +
170C GLN 3.2 0.2 - - - -
171C MET* 1.3 73.8 - - - +
173C THR* 1.3 66.5 + - - +
175C VAL* 3.4 3.7 + - - +
176C ARG* 3.1 56.6 + - + +
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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
----------------------------------------------------------
169C ASP* 2.6 23.7 + - - +
170C GLN* 3.3 8.8 + - - -
172C VAL* 1.3 77.8 - - - +
174C ILE* 1.3 53.7 + - - +
176C ARG* 3.4 5.9 + - - +
177C SER* 2.8 45.8 + - - +
232C ILE 4.3 7.2 - - - +
233C GLY* 5.0 6.3 - - - -
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Residues in contact with ILE 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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49C ALA* 4.2 15.0 - - + -
170C GLN 3.1 8.2 + - - +
171C MET* 3.7 15.5 - - + +
172C VAL 3.3 0.2 - - - -
173C THR* 1.3 78.8 - - - +
175C VAL* 1.3 63.2 + - - +
177C SER 3.3 0.5 + - - -
178C VAL* 3.0 26.8 + - + +
232C ILE* 3.5 11.3 - - + +
233C GLY* 3.8 35.9 - - - +
234C HIS 4.2 0.2 - - - +
235C LEU* 3.6 42.6 - - + -
244C MET* 3.8 31.2 - - + -
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Residues in contact with VAL 175 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
48C VAL* 4.1 17.0 - - + +
49C ALA* 5.6 0.7 - - - -
52C ALA* 4.6 9.4 - - + -
56C ASN* 6.2 0.2 - - - +
70C ILE* 3.1 37.9 - - + -
74C LEU* 3.8 14.6 - - + -
76C CYS* 4.0 18.2 - - + -
171C MET* 3.4 18.0 + - + +
172C VAL 3.8 0.9 - - - +
173C THR 3.4 0.4 - - - -
174C ILE* 1.3 76.8 - - + +
176C ARG* 1.3 58.8 + - - +
178C VAL* 3.4 8.5 + - - +
179C GLN* 3.0 44.4 + - + +
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Residues in contact with ARG 176 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
73C LYS* 3.1 33.9 + - - +
74C LEU* 3.5 31.3 - - + +
172C VAL* 3.1 40.7 + - - +
173C THR* 3.9 5.2 - - - +
175C VAL* 1.3 74.1 - - - +
177C SER* 1.3 59.4 + - - +
179C GLN* 3.4 15.5 + - - +
180C PHE* 2.8 29.5 + - - +
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Residues in contact with SER 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 THR* 2.8 28.3 + - - +
174C ILE 3.6 3.6 - - - -
176C ARG* 1.3 74.7 - - - +
178C VAL* 1.3 56.0 - - - +
180C PHE* 3.5 9.7 - - - +
181C LEU* 2.8 42.0 + - - +
231C THR 5.0 1.7 + - - -
232C ILE* 3.0 35.9 + - - -
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Residues in contact with VAL 178 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
49C ALA 4.6 3.8 - - - +
52C ALA* 3.7 38.8 - - + +
53C VAL* 3.7 25.6 - - + +
56C ASN* 4.4 2.9 - - + +
125C PHE* 5.5 1.8 - - + -
174C ILE* 3.0 22.6 + - + +
175C VAL 3.5 7.9 - - - +
177C SER* 1.3 76.3 - - - +
179C GLN* 1.3 62.1 + - - +
181C LEU* 3.6 4.3 + - - +
182C CYS* 3.1 33.3 + - - -
232C ILE* 3.8 22.7 - - + -
244C MET* 4.2 5.2 - - + -
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Residues in contact with GLN 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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56C ASN* 3.8 32.8 + - - +
74C LEU* 4.4 8.5 - - - +
75C LYS 4.2 12.3 + - - -
76C CYS* 5.5 2.8 - - - +
175C VAL* 3.0 32.3 + - + +
176C ARG* 3.4 25.5 + - - +
178C VAL* 1.3 77.2 - - + +
180C PHE* 1.3 61.3 + - - +
182C CYS* 4.0 1.4 - - - +
183C THR* 3.1 29.9 + - + +
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Residues in contact with PHE 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 ARG 2.8 20.6 + - - +
177C SER* 3.1 10.7 + - - +
179C GLN* 1.3 71.3 - - - +
181C LEU* 1.3 69.1 + - + +
183C THR* 3.3 5.3 + - - -
184C LYS* 2.9 60.7 + - + +
185C VAL* 3.6 27.1 - - + -
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Residues in contact with LEU 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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125C PHE* 5.3 2.2 - - + -
177C SER* 2.8 22.9 + - - +
178C VAL* 4.0 4.3 - - - +
180C PHE* 1.3 81.3 - - + +
182C CYS* 1.3 61.0 + - - +
185C VAL* 3.3 36.6 + - + -
186C LEU* 2.8 43.8 + - + +
230C ALA* 4.0 24.0 - - + -
231C THR 5.5 0.9 - - - +
232C ILE* 4.1 20.9 - - + -
246C CYS* 3.8 32.3 - - + -
251C MET* 5.4 1.8 - - + -
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Residues in contact with CYS 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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53C VAL 4.7 1.3 - - - -
56C ASN* 3.6 30.1 - - + +
57C ARG* 3.7 44.0 + - - +
125C PHE* 4.9 8.1 - - - -
178C VAL* 3.1 32.1 + - - +
179C GLN 4.0 1.8 - - - +
181C LEU* 1.3 79.1 - - - +
183C THR* 1.3 60.1 + - - +
186C LEU* 4.1 22.6 - - - +
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Residues in contact with THR 183 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
56C ASN* 6.0 1.1 - - - -
179C GLN 3.1 20.6 + - - +
180C PHE* 3.6 3.1 - - - +
182C CYS* 1.3 81.4 - - - +
184C LYS* 1.3 88.5 + - + +
186C LEU 5.3 1.8 - - - -
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Residues in contact with LYS 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 PHE* 2.9 40.3 + - + +
183C THR* 1.3 104.4 - - + +
185C VAL* 1.3 63.8 + - + +
186C LEU 3.7 2.2 - - - +
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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