Contacts of the helix formed by residues 195 - 211 (chain C) in PDB entry 1ESQ
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 195 (chain C).
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Specific contacts
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Residue Dist Surf HB Arom Phob DC
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28C VAL* 3.2 28.7 - - - -
31C PHE* 4.2 7.1 - - - -
32C THR* 5.4 0.2 + - - -
194C THR* 1.3 75.9 + - - +
196C ALA* 1.3 56.8 + - - +
197C GLY 3.0 3.4 - - - -
198C SER* 2.8 1.2 + - - -
199C LEU* 2.6 36.2 + - - +
330C TZP 3.2 19.0 + - - -
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Residues in contact with ALA 196 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
31C PHE* 4.3 7.7 - - - -
190C LEU* 3.2 41.5 - - + +
193C VAL* 3.4 14.5 + - + +
194C THR 3.2 5.3 + - - -
195C GLY* 1.3 75.0 - - - +
197C GLY* 1.3 57.3 + - - +
200C LEU* 3.1 17.0 + - - +
225C TYR* 2.7 29.9 + - - +
248C LEU* 5.6 0.4 - - + -
310C ATP 4.4 9.0 - - - -
330C TZP 4.0 0.4 + - - -
355C MG 4.5 3.1 - - - -
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Residues in contact with GLY 197 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
121C ARG* 3.3 24.2 + - - -
195C GLY 3.0 0.4 - - - -
196C ALA* 1.3 77.7 - - - +
198C SER* 1.3 57.9 + - - +
199C LEU 3.1 1.6 - - - -
200C LEU* 3.1 3.2 + - - -
201C THR* 2.8 31.9 + - - -
310C ATP 3.7 23.0 + - - -
330C TZP 3.4 7.7 + - - -
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Residues in contact with SER 198 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
24C THR* 4.6 1.1 - - - -
25C ASN* 3.6 11.4 + - - -
28C VAL* 3.6 25.6 - - - +
32C THR* 4.5 2.4 + - - -
63C VAL* 5.5 0.5 - - - +
65C ASN* 2.9 26.8 + - - +
94C ASP* 3.7 10.3 + - - -
96C VAL* 4.5 0.9 - - - +
195C GLY 2.8 5.4 + - - -
197C GLY* 1.3 69.4 - - - -
199C LEU* 1.3 65.5 + - - +
201C THR* 3.5 2.6 + - - -
202C SER* 3.1 25.3 + - - -
330C TZP 2.7 26.4 + - - -
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Residues in contact with LEU 199 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
31C PHE* 3.6 32.1 - - + -
32C THR* 3.6 35.6 + - + +
35C GLY* 3.7 16.2 - - - -
36C LEU* 4.0 7.9 - - + +
195C GLY 2.6 21.1 + - - +
198C SER* 1.3 74.3 - - - +
200C LEU* 1.3 56.2 + - - +
202C SER* 3.0 7.6 + - - -
203C VAL* 2.9 32.0 + - + +
225C TYR* 3.3 32.8 - - + +
248C LEU* 4.8 1.1 - - + -
252C LEU* 4.0 16.4 - - + -
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Residues in contact with LEU 200 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
121C ARG* 3.7 22.2 - - - -
168C THR* 3.8 10.8 - - + -
196C ALA 3.1 12.7 + - - +
197C GLY* 3.1 9.5 + - - +
199C LEU* 1.3 77.0 - - - +
201C THR* 1.3 66.9 + - - +
203C VAL* 3.0 7.1 + - + +
204C VAL* 2.9 28.2 + - + +
221C ALA 4.3 2.0 - - - +
222C ILE* 4.0 23.3 - - + +
225C TYR* 3.5 37.9 - - + -
310C ATP 3.6 35.4 - - - +
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Residues in contact with THR 201 (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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63C VAL* 3.5 17.5 - - + +
65C ASN* 5.7 0.2 - - - -
92C ILE* 3.2 31.6 - - + +
93C LEU 4.4 1.8 - - - +
94C ASP* 2.6 43.0 + - + +
121C ARG* 2.7 24.7 + - + +
197C GLY 2.8 7.4 + - - -
198C SER 3.8 4.7 - - - -
199C LEU 3.3 0.2 - - - -
200C LEU* 1.3 75.4 - - - +
202C SER* 1.3 63.6 + - - +
204C VAL* 3.0 21.5 + - - +
205C GLY* 3.0 9.4 + - - -
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Residues in contact with SER 202 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
20C VAL* 4.0 5.7 - - - +
22C SER* 4.3 12.8 + - - -
24C THR* 6.1 0.7 - - - -
32C THR* 3.1 31.5 - - - +
36C LEU* 3.9 21.4 - - - +
63C VAL* 4.2 12.1 - - - +
198C SER 3.1 11.3 + - - -
199C LEU* 3.0 11.1 + - - -
201C THR* 1.3 77.6 - - - +
203C VAL* 1.3 57.6 + - - +
205C GLY* 2.8 17.7 + - - -
206C ALA 3.1 9.2 + - - -
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Residues in contact with VAL 203 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
35C GLY 5.7 0.9 - - - +
36C LEU* 4.3 9.0 - - + -
39C LEU* 4.0 20.0 - - + -
199C LEU* 2.9 29.2 + - + +
200C LEU* 3.0 12.5 + - + +
202C SER* 1.3 75.0 - - - +
204C VAL* 1.3 61.7 + - - +
206C ALA* 3.3 4.2 + - - +
207C PHE* 3.1 45.9 + - + -
221C ALA* 4.0 17.7 - - + +
224C SER* 6.0 0.7 - - - -
225C TYR* 4.0 22.2 - - + +
252C LEU* 5.3 6.1 - - + -
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Residues in contact with VAL 204 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
92C ILE* 4.0 22.2 - - + -
119C ALA* 4.7 7.0 - - + -
121C ARG* 4.9 9.9 - - + -
200C LEU* 2.9 28.9 + - + +
201C THR* 3.0 16.8 - - - +
203C VAL* 1.3 73.1 - - - +
205C GLY* 1.3 60.3 + - - +
207C PHE* 3.5 2.4 + - - +
208C CYS* 2.9 36.2 + - - -
217C ALA* 4.9 0.2 - - - +
218C ALA* 4.5 18.6 - - + -
221C ALA* 3.7 19.5 - - + -
222C ILE* 4.5 10.3 - - + -
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Residues in contact with GLY 205 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
20C VAL* 4.5 0.7 - - - -
61C ALA* 3.1 27.9 - - - +
63C VAL* 4.1 7.6 - - - -
92C ILE* 3.9 15.3 - - - -
201C THR 3.0 8.1 + - - -
202C SER 2.8 9.2 + - - -
204C VAL* 1.3 75.0 - - - +
206C ALA* 1.3 65.1 + - - +
208C CYS* 3.1 2.8 + - - +
209C ALA 3.0 17.8 + - - -
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Residues in contact with ALA 206 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
13C VAL* 4.1 12.3 - - + -
18C PRO* 3.6 19.2 - - + +
20C VAL* 3.7 24.6 - - + +
36C LEU* 4.6 1.3 - - + -
39C LEU* 4.5 5.4 - - + -
41C ALA* 4.2 11.7 - - + -
202C SER 3.1 8.7 + - - +
203C VAL* 3.3 12.8 + - - +
205C GLY* 1.3 75.1 - - - +
207C PHE* 1.3 61.9 + - - +
209C ALA* 3.1 18.9 + - - +
210C VAL* 3.5 6.6 + - - +
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Residues in contact with PHE 207 (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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9C CYS* 3.5 34.3 - - + -
10C LEU* 3.7 26.7 - - + -
13C VAL* 3.7 13.9 - - + -
39C LEU* 4.3 10.1 - - + -
203C VAL* 3.1 43.3 + - + +
204C VAL 3.9 1.8 - - - +
206C ALA* 1.3 76.9 - - + +
208C CYS* 1.3 61.6 + - - +
210C VAL* 3.1 10.4 + - - +
211C GLU* 2.8 30.1 + - - +
217C ALA* 3.5 18.2 - - + +
220C ALA* 3.5 25.4 - - + -
221C ALA* 3.6 12.6 - - + -
224C SER* 3.6 21.3 - - - -
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Residues in contact with CYS 208 (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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-10C ARG* 3.4 13.9 - - - -
90C PRO* 4.0 20.9 - - + +
92C ILE* 4.2 13.7 - - + -
118C ALA* 4.7 4.7 - - - -
119C ALA* 5.1 2.9 - - - -
204C VAL* 2.9 36.7 + - - +
205C GLY 3.1 5.1 + - - +
207C PHE* 1.3 77.3 - - - +
209C ALA* 1.3 61.5 + - - +
211C GLU 3.1 16.6 - - - +
214C PRO* 4.2 22.4 - - - -
217C ALA* 3.6 19.7 - - - -
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Residues in contact with ALA 209 (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 MET* 3.1 22.5 - - - +
-10C ARG* 3.3 13.6 - - - +
18C PRO* 3.5 24.5 - - + -
60C GLY* 3.3 33.9 - - - +
61C ALA* 4.2 0.7 - - + -
90C PRO* 4.4 1.1 - - - +
205C GLY 3.0 9.1 + - - +
206C ALA 3.2 13.0 - - - +
207C PHE 3.1 0.4 - - - -
208C CYS* 1.3 78.9 - - - +
210C VAL* 1.3 56.8 + - - +
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Residues in contact with VAL 210 (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 MET* 3.8 8.7 - - - +
-10C ARG* 3.9 0.2 - - - -
-9C GLY 3.0 19.9 + - - +
-7C HIS* 2.8 21.9 + - + +
9C CYS* 4.1 6.3 - - - +
12C ALA* 3.8 24.7 - - + +
13C VAL* 3.5 35.0 - - + +
16C HIS* 3.8 28.0 - - + +
18C PRO* 4.5 6.5 - - + -
206C ALA 3.8 4.5 - - - +
207C PHE* 3.1 15.3 - - + +
209C ALA* 1.3 81.1 - - - +
211C GLU* 1.3 60.6 + - + +
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Residues in contact with GLU 211 (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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-10C ARG* 3.8 3.9 - - - -
-9C GLY 3.2 0.2 - - - -
-8C SER* 3.5 9.4 - - - -
-7C HIS* 2.7 47.7 + - + +
-6C HIS 4.9 0.4 - - - -
9C CYS* 4.2 8.2 - - + -
207C PHE 2.8 14.2 + - - +
208C CYS* 3.1 17.9 + - - +
210C VAL* 1.3 79.3 - - + +
212C GLU* 1.3 67.6 + - - +
213C ASN* 2.9 49.0 + - - +
214C PRO 4.4 0.5 - - - -
216C PHE* 3.8 14.6 - - + -
217C ALA* 3.4 18.6 - - + +
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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