Contacts of the strand formed by residues 158 - 168 (chain C) in PDB entry 6CU0
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 SER 158 (chain C).
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Specific contacts
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Residue Dist Surf HB Arom Phob DC
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157C GLY* 1.3 75.6 - - - -
159C GLY* 1.3 60.6 + - - +
185C LEU* 3.7 21.1 - - - +
187C PRO* 4.1 23.8 - - - -
219C GLU 4.0 1.2 - - - +
220C ALA* 4.9 0.3 - - - -
221C ARG* 3.1 42.6 + - - +
222C ALA 5.1 0.5 + - - -
223C ARG* 6.1 0.2 - - - -
226C TRP* 4.2 1.6 - - - +
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Residues in contact with GLY 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 SER* 1.3 77.6 - - - +
160C SER* 1.3 63.6 + - - -
184C ASP* 3.7 5.0 - - - +
185C LEU* 2.8 34.1 + - - +
219C GLU* 3.7 9.9 - - - -
221C ARG* 5.2 2.2 - - - -
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Residues in contact with SER 160 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
159C GLY* 1.3 75.1 - - - -
161C VAL* 1.3 71.3 + - - +
162C SER* 4.0 4.9 + - - -
182C THR* 3.3 22.4 - - - +
183C VAL 3.5 8.7 - - - -
184C ASP* 4.9 6.1 - - - -
185C LEU* 4.2 4.2 - - - +
218C THR* 3.4 2.9 + - - -
219C GLU* 3.0 43.5 + - - +
192F ALA 6.0 2.2 - - - -
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Residues in contact with VAL 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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102C LEU* 4.0 26.0 - - + -
147C LEU* 4.0 16.3 - - + +
149C LEU* 3.9 20.2 - - + -
160C SER* 1.3 80.7 + - - +
162C SER* 1.3 65.7 + - - +
182C THR* 3.4 2.3 - - - +
183C VAL* 2.9 32.4 + - - +
185C LEU* 3.8 25.8 - - + -
216C LEU* 3.5 26.5 - - + -
217C HIS 3.4 7.0 - - - +
218C THR* 4.2 6.7 - - - +
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Residues in contact with SER 162 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
147C LEU* 4.9 0.4 - - - -
160C SER* 4.0 4.2 + - - -
161C VAL* 1.3 80.0 + - - +
163C LEU* 1.3 66.3 + - - +
181C LEU 3.2 12.3 - - - -
182C THR* 3.6 17.0 + - - +
215C HIS 3.5 1.2 - - - +
216C LEU* 3.3 7.7 - - - +
217C HIS* 2.7 53.0 + - - +
218C THR* 5.4 0.2 - - - -
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Residues in contact with LEU 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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107C LEU* 3.8 19.3 - - + -
109C TRP* 5.7 2.0 - - + -
145C PHE* 3.7 43.7 - - + -
146C GLN 4.1 17.0 - - - +
147C LEU* 3.9 25.4 - - + +
162C SER* 1.3 75.9 - - - +
164C ALA* 1.3 63.1 + - - +
180C ALA* 3.6 3.3 - - - +
181C LEU* 3.1 32.5 + - + +
214C VAL* 4.1 9.9 - - + -
215C HIS 3.5 1.8 - - - -
216C LEU* 3.5 32.1 - - + -
233C THR* 4.3 8.3 - - + -
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Residues in contact with ALA 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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145C PHE* 4.2 2.9 - - - -
162C SER* 6.3 0.2 - - - -
163C LEU* 1.3 77.6 - - - +
165C LEU* 1.3 61.4 + - - +
166C HIS* 3.7 22.6 + - + +
177C ALA* 4.1 12.8 - - + -
179C LEU 3.5 6.3 - - - -
180C ALA* 4.5 2.9 - - + +
214C VAL* 3.4 2.4 - - - -
215C HIS* 2.8 39.5 + - + +
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Residues in contact with LEU 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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143C VAL* 4.1 13.5 - - + -
145C PHE* 3.8 7.4 - - + -
164C ALA* 1.3 71.0 - - - +
166C HIS* 1.3 62.9 + - - +
167C LEU* 4.5 6.7 - - + -
177C ALA* 3.6 4.5 - - - -
178C ALA* 2.9 35.1 + - + +
179C LEU* 2.8 32.0 + - + +
204C LEU* 3.7 30.1 - - + -
212C LEU* 4.1 22.2 - - + -
213C GLY 3.5 7.9 - - - +
214C VAL* 3.7 23.8 - - + +
235C LEU* 4.2 15.0 - - + -
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Residues in contact with HIS 166 (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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164C ALA* 3.7 21.8 + - + +
165C LEU* 1.3 75.5 + - - +
167C LEU* 1.3 65.4 + - - +
168C GLN* 4.0 0.5 + - - +
176C ALA 4.4 7.5 + - - -
177C ALA* 3.9 30.4 - - + -
178C ALA 5.0 0.9 - - - +
211C ARG 3.9 1.0 - - - +
212C LEU* 3.7 2.1 - - - -
213C GLY* 2.8 36.1 + - - +
215C HIS* 4.2 16.9 - - + +
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Residues in contact with LEU 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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165C LEU* 4.5 7.9 - - + -
166C HIS* 1.3 78.1 - - - +
168C GLN* 1.3 63.5 + - - +
169C PRO 3.5 14.1 - - - +
178C ALA* 4.0 27.7 - - + +
204C LEU* 4.9 3.8 - - + -
205C HIS 5.1 4.9 - - - +
206C LEU* 4.2 25.4 - - + -
210C GLN* 3.9 31.0 - - + +
211C ARG 3.9 1.3 - - - -
212C LEU* 4.3 17.0 - - + -
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Residues in contact with GLN 168 (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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132C GLU* 3.8 17.0 - - - +
166C HIS 4.0 0.8 + - - -
167C LEU* 1.3 74.3 - - - +
169C PRO* 1.3 80.9 - - + +
209C GLY 4.7 0.2 - - - +
210C GLN* 3.4 3.8 - - - +
211C ARG* 2.9 44.3 + - + +
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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