Contacts of the strand formed by residues 156 - 163 (chain C) in PDB entry 3TS8
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 ARG 156 (chain C).
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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154C GLY 3.5 13.0 - - - +
155C THR* 1.3 78.6 - - - +
157C VAL* 1.3 63.2 + - - +
158C ARG* 4.5 11.7 - - - +
204C GLU* 3.1 37.0 + - - +
217C VAL* 3.4 27.9 + - + +
218C VAL 3.2 14.0 - - - +
219C PRO* 4.8 5.5 - - + +
220C TYR 4.0 0.2 - - - +
257C LEU* 3.5 6.8 - - - +
258C GLU* 2.8 46.7 + - + +
259C ASP 4.8 8.1 - - - -
260C SER* 5.2 8.4 + - - +
262C GLY* 6.3 0.6 - - - -
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Residues in contact with VAL 157 (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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109C PHE* 5.0 0.7 - - + -
145C LEU* 3.5 31.9 - - + -
156C ARG* 1.3 77.9 - - - +
158C ARG* 1.3 63.4 - - - +
216C VAL 3.9 0.5 - - - +
217C VAL* 3.2 3.8 - - - -
218C VAL* 2.7 45.9 + - + +
219C PRO 4.8 0.2 - - - +
220C TYR* 4.1 19.1 - - + -
232C ILE* 4.0 12.8 - - + -
234C PHE* 5.9 1.6 - - + -
255C ILE* 3.6 27.6 - - + -
256C THR 3.4 7.4 - - - +
257C LEU* 3.8 14.4 - - + -
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Residues in contact with ARG 158 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
156C ARG* 4.5 9.7 - - - +
157C VAL* 1.3 78.0 - - - +
159C ALA* 1.3 64.6 + - - +
160C MET* 4.5 14.1 - - + +
206C LEU* 3.7 20.5 - - - +
215C SER* 3.0 32.8 + - - -
216C VAL 3.4 5.6 - - - +
217C VAL* 3.0 37.6 - - + +
234C PHE* 5.9 0.2 - - - -
254C ILE 3.3 1.7 - - - +
255C ILE* 3.3 6.6 - - - +
256C THR* 2.9 44.2 + - - +
258C GLU* 2.8 38.5 + - - +
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Residues in contact with ALA 159 (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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158C ARG* 1.3 73.6 - - - +
160C MET* 1.3 59.7 + - - +
195C ILE* 4.4 15.3 - - + +
215C SER* 3.3 6.9 - - - -
216C VAL* 2.9 38.3 + - + +
234C PHE* 3.6 36.8 - - + -
253C VAL* 4.8 1.8 - - + -
254C ILE 3.4 4.3 - - - -
255C ILE* 3.9 9.9 - - + -
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Residues in contact with MET 160 (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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98C PRO* 3.9 34.1 - - + -
158C ARG* 4.5 13.9 - - + -
159C ALA* 1.3 76.9 - - - +
161C ALA* 1.3 70.3 + - - +
162C ILE* 4.6 1.6 - - + -
195C ILE* 4.2 5.6 - - - +
206C LEU* 6.4 0.9 - - + -
208C ASP* 6.6 0.2 - - + -
213C ARG* 4.4 22.4 - - + +
214C HIS 3.6 16.6 - - - +
215C SER* 4.0 18.6 - - - +
253C VAL* 3.6 1.0 - - - +
254C ILE* 2.7 49.7 + - + +
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Residues in contact with ALA 161 (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 MET* 1.3 78.0 - - - +
162C ILE* 1.3 67.6 + - - +
173C VAL* 3.7 28.1 + - + +
194C LEU* 4.4 3.6 - - + -
195C ILE* 3.9 20.7 - - + +
213C ARG* 4.2 6.1 + - - -
214C HIS 4.9 2.0 + - - +
251C ILE* 4.3 20.9 - - + -
252C LEU 3.2 10.3 - - - +
253C VAL* 4.4 2.9 - - + -
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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
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97C VAL* 4.9 0.2 - - + -
98C PRO* 3.4 40.2 - - + +
100C GLN* 3.7 15.5 - - + +
160C MET* 4.6 7.0 - - + -
161C ALA* 1.3 78.6 - - - +
163C TYR* 1.3 65.6 + - - +
169C MET* 3.4 33.2 - - + +
173C VAL* 3.9 10.1 - - - -
213C ARG* 3.5 16.2 - - - +
251C ILE* 3.4 3.3 - - - -
252C LEU* 2.8 51.7 + - + +
254C ILE* 4.7 9.4 - - + -
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Residues in contact with TYR 163 (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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162C ILE* 1.3 84.7 - - - +
164C LYS* 1.3 64.3 + - - +
165C GLN* 4.4 1.6 - - + +
168C HIS* 3.6 37.5 - - + +
169C MET* 3.5 19.7 + - - +
171C GLU* 3.2 34.8 + - + -
172C VAL 4.2 3.2 + - - -
173C VAL* 3.5 22.1 - - + +
174C ARG 4.9 1.6 + - - -
245C GLY 3.5 2.4 + - - -
246C MET* 3.1 23.1 + - - +
249C ARG* 2.9 56.1 + - + -
250C PRO 3.6 15.0 - - - +
251C ILE* 3.8 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
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Atomic class I II III IV V VI VII VIII
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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