Contacts of the helix formed by residues 157 - 175 (chain C) in PDB entry 3LOC
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 157 (chain C).
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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156C ILE* 1.3 72.4 - - - +
158C PRO* 1.3 74.8 - - - +
159C GLN* 3.1 40.3 + - - +
160C HIS* 3.7 14.9 - - + +
161C LEU* 3.2 20.3 + - - +
195D GLN* 3.5 18.8 - - - +
199D ASN* 3.0 33.7 + - - +
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Residues in contact with PRO 158 (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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141C SER* 3.5 36.3 - - - +
144C ILE* 3.6 33.0 - - + +
145C ALA* 4.1 13.0 - - + +
148C VAL* 5.8 0.4 - - + -
156C ILE* 3.1 8.0 - - + +
157C ASP* 1.3 94.5 - - - +
159C GLN* 1.3 56.6 + - + +
161C LEU* 3.4 4.7 + - + +
162C ILE* 3.0 33.9 + - - +
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Residues in contact with GLN 159 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
137C ILE* 4.7 7.0 - - + +
138C ASP* 4.7 9.5 + - - -
141C SER* 3.6 22.1 + - - +
157C ASP* 3.1 16.5 + - - +
158C PRO* 1.3 74.3 - - + +
160C HIS* 1.3 65.2 + - + +
162C ILE* 3.1 6.2 + - - +
163C PHE* 2.9 51.2 + - + -
182D VAL* 3.5 31.3 + - + +
183D THR* 4.1 13.2 + - - +
192D PHE* 5.9 1.0 - - - -
195D GLN* 5.7 0.5 - - - +
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Residues in contact with HIS 160 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
157C ASP* 3.6 20.7 + - + +
158C PRO 3.3 0.2 - - - -
159C GLN* 1.3 79.8 + - + +
161C LEU* 1.3 59.2 + - - +
163C PHE* 3.4 8.4 + + - +
164C MSE 2.9 29.3 + - - +
172D TYR* 2.8 30.8 + + - +
192D PHE* 3.8 22.4 - + - -
195D GLN* 3.7 14.9 + - - -
196D THR* 3.1 36.6 + - - +
199D ASN* 3.6 44.9 - - + -
200D VAL* 5.5 1.6 - - + +
203D ILE* 4.6 3.8 - - + +
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Residues in contact with LEU 161 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
93C ILE* 4.4 11.7 - - + -
144C ILE* 4.4 20.9 - - + -
153C LEU* 5.1 1.6 - - + -
156C ILE* 3.9 21.1 - - + -
157C ASP 3.2 14.4 + - - +
158C PRO 3.5 7.6 - - - +
159C GLN 3.2 0.2 - - - -
160C HIS* 1.3 76.2 - - - +
162C ILE* 1.3 63.7 + - + +
164C MSE 3.0 14.8 + - + +
165C ILE* 3.0 23.7 + - + +
204C ILE* 3.9 27.6 - - + -
208C ILE* 3.9 29.6 - - + -
203D ILE* 4.0 17.4 - - + +
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Residues in contact with ILE 162 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
80C LEU* 4.6 17.0 - - + -
96C TYR* 4.9 3.1 - - + +
137C ILE* 4.3 22.0 - - + -
140C LYS* 5.0 0.4 - - + -
141C SER* 4.2 21.5 - - - +
144C ILE* 3.8 25.1 - - + -
158C PRO 3.0 21.6 + - - +
159C GLN* 3.1 5.6 + - - +
161C LEU* 1.3 75.6 - - + +
163C PHE* 1.3 66.1 + - + +
165C ILE* 3.2 12.8 + - + +
166C TRP* 3.1 60.8 + - + +
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Residues in contact with PHE 163 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
137C ILE* 5.4 2.0 - - + -
159C GLN* 2.9 30.4 + - + +
160C HIS* 3.8 9.0 - + - +
162C ILE* 1.3 79.0 - - + +
164C MSE 1.3 57.8 + - - +
166C TRP* 3.6 34.6 - + - +
167C ALA* 2.9 32.3 + - - +
171D HIS* 4.0 19.7 + - + +
172D TYR* 3.7 31.0 - + + +
178D GLN* 5.5 1.1 - - - -
179D VAL* 3.9 34.3 - - + -
182D VAL* 3.6 34.5 - - + -
183D THR* 4.2 9.2 - - - -
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Residues in contact with MSE 164 (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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160C HIS 2.9 15.0 + - - +
161C LEU* 3.0 16.6 + - + +
163C PHE* 1.3 74.1 - - - +
165C ILE* 1.3 61.5 + - - +
167C ALA* 4.5 3.4 - - - -
168C SER* 2.8 32.6 + - - -
204C ILE* 4.0 21.8 - - + -
164D MSE 4.1 24.2 - - - +
168D SER* 3.8 21.8 - - - -
200D VAL* 4.1 21.1 - - + -
203D ILE* 3.7 38.4 - - + -
204D ILE* 4.0 15.0 - - + -
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Residues in contact with ILE 165 (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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93C ILE* 3.7 29.6 - - + -
96C TYR* 3.8 39.0 - - + -
97C ILE* 4.0 21.5 - - + -
100C LYS* 4.5 6.5 - - + -
161C LEU* 3.0 28.7 + - + +
162C ILE* 3.2 11.0 + - + +
164C MSE 1.3 74.2 - - - +
166C TRP* 1.3 56.4 + - + +
168C SER* 3.6 4.2 + - - -
169C THR* 2.6 44.1 + - + +
204C ILE* 4.3 15.9 - - + -
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Residues in contact with TRP 166 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
77C LEU* 4.6 1.8 - - + -
80C LEU* 4.5 2.7 - - + -
96C TYR* 2.9 28.9 + + - -
100C LYS* 3.9 6.3 - - - -
133C LEU* 4.4 7.2 - - + -
137C ILE* 4.1 26.5 - - + -
162C ILE* 3.1 32.0 + - + +
163C PHE* 3.6 34.1 - + - +
165C ILE* 1.3 76.3 - - + +
167C ALA* 1.3 57.4 + - - +
169C THR* 3.3 2.2 + - - -
170C GLN* 2.8 52.8 + - - +
212C URA 3.2 54.2 + + + +
171D HIS* 4.6 5.6 - - + -
178D GLN* 3.5 27.8 - - + -
182D VAL* 5.6 0.9 - - + -
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Residues in contact with ALA 167 (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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163C PHE 2.9 22.5 + - - +
164C MSE 4.0 2.5 - - - +
166C TRP* 1.3 73.2 - - - +
168C SER* 1.3 58.4 - - - +
170C GLN* 3.9 2.1 - - - +
171C HIS* 3.0 31.7 + - - +
167D ALA* 3.5 31.7 - - - +
168D SER* 3.9 7.4 - - - -
171D HIS* 3.6 23.7 + - + +
175D PHE* 6.4 0.2 - - - -
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Residues in contact with SER 168 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
101C LEU* 4.8 0.2 - - - +
164C MSE 2.8 23.8 + - - -
165C ILE 3.6 3.3 + - - -
167C ALA* 1.3 78.8 - - - +
169C THR* 1.3 60.0 + - - +
171C HIS* 3.8 2.6 - - - +
172C TYR* 3.1 31.7 - - - -
200C VAL* 3.8 9.5 - - - +
204C ILE* 3.7 16.8 - - - +
164D MSE 4.0 36.3 - - - +
167D ALA* 4.0 10.1 - - - -
168D SER 5.9 0.2 - - - -
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Residues in contact with THR 169 (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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97C ILE* 3.9 25.8 - - + +
100C LYS* 3.4 40.1 + - + +
101C LEU* 3.9 22.1 - - + +
104C SER* 2.5 28.1 + - - -
165C ILE* 2.6 27.7 + - + +
166C TRP 3.3 2.9 + - - -
168C SER* 1.3 81.8 - - - +
170C GLN* 1.3 61.6 + - - +
171C HIS 3.2 2.0 + - - -
172C TYR 3.5 5.9 + - - -
200C VAL* 4.4 1.8 - - + -
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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
----------------------------------------------------------
76C TRP* 3.8 23.7 - - + +
100C LYS* 2.7 24.7 + - - +
104C SER* 3.7 7.9 - - - +
111C SER* 4.1 4.9 + - - +
166C TRP* 2.8 30.6 + - - +
167C ALA* 4.3 2.0 - - - +
169C THR* 1.3 71.0 - - - +
171C HIS* 1.3 60.2 + - - +
173C ALA* 3.0 4.5 + - - +
174C ASP* 2.8 42.7 + - - +
212C URA 2.6 41.9 + - - +
171D HIS* 5.4 1.0 - - - -
175D PHE* 3.7 21.2 - - + -
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Residues in contact with HIS 171 (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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167C ALA 3.0 19.1 + - - +
168C SER 3.8 8.3 - - - +
169C THR 3.2 0.2 - - - -
170C GLN* 1.3 77.6 - - - +
172C TYR* 1.3 62.5 + + + +
174C ASP* 4.5 1.3 - - - +
175C PHE* 2.9 76.6 + + + +
178C GLN* 4.4 7.4 + - - -
179C VAL* 4.2 13.6 - - + +
163D PHE* 3.9 41.8 + - + +
166D TRP* 4.5 12.3 - - + -
167D ALA* 3.6 20.9 - - + +
170D GLN* 5.4 0.4 - - - -
212D URA 4.9 0.2 - - - -
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Residues in contact with TYR 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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101C LEU* 4.1 6.5 - - + -
168C SER* 3.1 29.4 - - - -
169C THR 4.1 4.3 - - - +
170C GLN 3.1 1.2 - - - -
171C HIS* 1.3 83.4 - + + +
173C ALA* 1.3 57.6 + - - +
176C ALA* 3.7 18.6 - - - +
179C VAL* 4.1 20.8 - - + +
187C LEU* 3.6 36.8 - - + +
192C PHE* 4.4 3.1 - + - -
196C THR* 3.6 37.7 - - + +
200C VAL* 4.3 9.8 - - + +
160D HIS* 3.0 32.5 + + - +
163D PHE* 3.6 37.6 - + + +
164D MSE 5.1 3.6 + - + +
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Residues in contact with ALA 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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104C SER* 3.7 32.8 - - - +
108C PRO* 4.0 22.4 - - + +
111C SER* 4.0 6.7 - - - +
112C ARG* 3.6 12.7 + - - -
170C GLN 3.0 7.3 + - - +
172C TYR* 1.3 76.5 - - - +
174C ASP* 1.3 74.8 + - - +
175C PHE 3.2 1.8 - - - -
176C ALA* 3.0 20.2 + - - +
177C PRO* 4.7 0.3 - - - +
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Residues in contact with ASP 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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111C SER* 2.5 39.1 + - - +
112C ARG* 3.6 10.5 + - - +
115C CYS* 3.8 27.4 - - - +
170C GLN* 2.8 30.7 + - - +
171C HIS* 4.8 0.2 - - - -
173C ALA* 1.3 72.5 - - - +
175C PHE* 1.3 73.5 + - + +
176C ALA 3.4 0.6 + - - -
177C PRO* 4.4 0.7 - - - +
118D MSE 3.6 27.7 - - - +
119D LEU* 3.8 15.3 + - + +
175D PHE* 4.1 8.3 - - - -
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Residues in contact with PHE 175 (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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115C CYS* 5.8 0.7 - - - -
171C HIS* 2.9 50.4 + + + +
174C ASP* 1.3 90.7 - - + +
176C ALA* 1.3 63.7 + - - +
177C PRO* 3.2 4.0 - - - -
178C GLN* 2.9 31.5 + - + +
179C VAL* 3.0 11.9 + - - +
76D TRP* 5.9 0.2 - + - -
114D PHE* 4.0 6.1 - + - -
115D CYS* 3.9 35.2 - - - -
118D MSE 3.6 26.5 - - + -
170D GLN* 3.7 17.3 - - + -
174D ASP* 4.2 7.9 - - - -
175D PHE* 6.5 0.7 - + - -
212D URA 3.5 17.5 - - - -
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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