Contacts of the strand formed by residues 176 - 186 (chain C) in PDB entry 6D6Q
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 LEU 176 (chain C).
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Specific contacts
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Residue Dist Surf HB Arom Phob DC
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170C ILE* 3.6 5.1 - - - -
171C ASN* 2.9 31.7 + - - +
174C THR* 3.1 34.4 - - + +
175C ALA* 1.3 85.1 - - - +
177C ALA* 1.3 66.1 + - - +
178C GLU* 5.3 7.0 - - - +
20F TYR* 5.2 17.9 - - + -
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Residues in contact with ALA 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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66C PHE* 5.6 5.6 - - + -
126C ILE* 5.8 0.2 - - + -
131C LEU* 4.2 25.1 - - + -
168C VAL* 4.9 8.7 - - + -
169C THR 2.9 18.8 - - - +
170C ILE* 4.3 9.4 - - + +
176C LEU* 1.3 78.2 - - - +
178C GLU* 1.3 71.7 + - - +
179C VAL* 5.7 0.4 - - - -
20F TYR* 3.8 24.9 - - + +
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Residues in contact with GLU 178 (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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168C VAL* 3.1 5.0 - - - +
169C THR* 2.9 41.1 + - - +
171C ASN* 3.8 17.9 + - - +
174C THR* 5.9 1.9 - - - +
176C LEU* 5.2 8.1 - - - +
177C ALA* 1.3 80.4 - - - +
179C VAL* 1.3 67.5 + - - +
20F TYR* 2.8 21.8 - - - +
21F ALA* 3.8 2.4 - - - +
22F ALA* 3.6 26.8 + - + +
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Residues in contact with VAL 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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66C PHE* 4.1 6.3 - - + -
166C PRO* 5.1 3.6 - - + -
167C GLU 3.5 6.1 - - - +
168C VAL* 3.6 22.7 - - + -
177C ALA 5.7 0.7 - - - -
178C GLU* 1.3 78.9 - - - +
180C ASN* 1.3 62.5 + - - +
181C LEU* 3.9 23.0 + - + -
17F PRO* 3.8 33.9 - - + +
20F TYR* 3.9 5.6 + - + -
21F ALA* 3.6 36.1 - - + +
22F ALA 5.2 1.9 + - - -
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Residues in contact with ASN 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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166C PRO* 4.0 6.3 - - - +
167C GLU* 2.9 43.4 + - + +
169C THR* 6.5 0.4 - - + -
179C VAL* 1.3 73.7 - - - +
181C LEU* 1.3 52.8 + - - +
182C LYS* 3.0 32.5 + - - +
183C LYS* 2.6 40.1 - - - +
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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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166C PRO* 3.9 26.5 - - + -
179C VAL* 3.9 16.5 + - + -
180C ASN* 1.3 69.4 + - - +
182C LYS* 1.3 62.2 + - + +
183C LYS 4.0 2.5 - - - -
184C LYS* 3.7 21.1 - - - +
17F PRO* 5.3 9.0 - - + -
18F GLN* 4.9 16.6 - - + -
21F ALA* 4.5 19.7 - - + -
23F ASP* 5.3 7.4 - - - +
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Residues in contact with LYS 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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180C ASN* 3.0 14.7 + - - +
181C LEU* 1.3 80.7 - - + +
183C LYS* 1.3 64.9 + - - +
184C LYS* 3.9 8.3 + - - +
23F ASP* 5.2 12.3 + - - +
26F GLU* 6.0 1.1 + - - -
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Residues in contact with LYS 183 (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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166C PRO* 3.7 5.2 - - - +
167C GLU* 3.2 42.8 + - - +
180C ASN* 2.6 31.8 + - - +
182C LYS* 1.3 80.3 - - - +
184C LYS* 1.3 82.2 + - - +
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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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164C GLN* 3.6 43.6 + - + +
165C LEU 2.9 17.9 - - - +
166C PRO* 4.1 8.3 - - + -
167C GLU* 5.7 1.6 - - - +
181C LEU* 3.7 22.0 - - - +
182C LYS 3.9 7.2 + - - +
183C LYS* 1.3 97.9 - - - +
185C SER* 1.3 65.8 + - - +
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Residues in contact with SER 185 (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 GLN* 4.0 3.6 - - - +
165C LEU* 2.6 47.5 + - - +
166C PRO 4.0 8.6 + - - -
167C GLU* 6.2 1.6 - - - -
184C LYS* 1.3 80.3 - - - +
186C TYR* 1.3 70.6 + - - +
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Residues in contact with TYR 186 (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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161C LYS 4.4 11.7 - - - +
162C ASN* 4.5 7.0 - - - -
163C VAL 3.9 10.1 - - - -
164C GLN* 4.0 23.5 - - + +
165C LEU* 5.6 1.4 - - - +
185C SER* 1.3 85.7 + - - +
187C LEU* 1.3 66.4 + - - +
188C ASN 4.1 0.9 + - - -
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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