Contacts of the strand formed by residues 171 - 180 (chain A) in PDB entry 2O6C
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 171 (chain A).
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Specific contacts
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Residue Dist Surf HB Arom Phob DC
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39A VAL* 3.7 38.4 - - + +
40A GLY* 4.4 9.6 - - - -
41A PRO* 3.8 11.0 - - + -
42A LEU* 3.7 19.7 - - + -
142A PHE 3.6 0.5 - - - +
143A GLU* 3.4 3.8 - - - -
144A ILE* 2.7 42.7 + - + +
167A TRP* 3.6 46.2 - - + -
169A GLU* 4.5 7.6 - - - +
170A PRO* 1.3 75.1 - - - +
172A VAL* 1.3 59.0 + - - +
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Residues in contact with VAL 172 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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37A ARG* 5.7 0.3 - - - +
39A VAL* 3.6 23.8 - - - +
141A ARG* 3.6 56.3 - - + +
142A PHE 3.3 2.5 - - - -
143A GLU* 4.4 9.9 - - + +
144A ILE* 5.6 0.2 - - - -
170A PRO* 4.1 9.2 - - + +
171A LEU* 1.3 79.1 - - - +
173A ALA* 1.3 62.6 + - - +
174A GLU* 4.0 17.2 + - + -
302A CL 4.6 5.6 - - + -
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Residues in contact with ALA 173 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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37A ARG* 4.0 23.3 - - + -
39A VAL* 4.8 2.0 - - + -
44A VAL* 3.9 33.9 - - + -
142A PHE* 2.7 38.0 + - + +
144A ILE* 4.9 2.4 - - + +
172A VAL* 1.3 73.8 - - - +
174A GLU* 1.3 61.1 + - - +
175A TRP* 4.0 9.9 - - + -
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Residues in contact with GLU 174 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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37A ARG* 2.9 35.5 + - - +
139A LYS* 2.9 35.6 + - - -
140A VAL 3.2 11.9 - - - +
141A ARG* 3.0 34.1 + - + -
172A VAL* 4.0 10.8 - - + +
173A ALA* 1.3 78.5 - - - +
175A TRP* 1.3 60.3 + - - +
176A ASP* 4.3 7.7 - - - +
403A EDO 4.2 1.3 + - - -
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Residues in contact with TRP 175 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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33A ILE* 3.8 30.5 - - + +
34A GLY* 3.4 21.2 - - - -
35A GLU 2.8 28.7 + - - -
37A ARG* 3.3 39.3 - - + +
44A VAL* 4.6 5.8 - - + -
45A GLY 4.5 1.8 - - - -
46A GLY* 4.1 20.4 - - - -
138A TYR 4.0 1.4 - - - +
139A LYS* 3.4 1.3 - - - +
140A VAL* 2.8 44.9 + - + +
142A PHE* 3.6 46.2 - + - -
173A ALA* 4.0 17.0 - - + -
174A GLU* 1.3 73.9 - - - +
176A ASP* 1.3 64.9 + - - +
177A ASP 3.6 2.6 + - - +
178A PHE* 4.5 4.6 + - + +
403A EDO 3.4 16.4 - - - +
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Residues in contact with ASP 176 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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104A HIS* 2.7 33.6 + - + +
138A TYR 3.5 4.6 - - - +
139A LYS* 3.7 33.8 + - + +
174A GLU* 4.4 10.4 - - - +
175A TRP* 1.3 76.0 - - - +
177A ASP* 1.3 61.7 + - - +
178A PHE 3.8 1.1 - - - -
403A EDO 2.8 22.6 + - - +
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Residues in contact with ASP 177 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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104A HIS* 3.0 25.0 - - - -
137A THR* 3.7 13.2 - - + +
175A TRP* 3.4 2.1 - - - -
176A ASP* 1.3 90.8 - - - +
178A PHE* 1.3 63.8 + - - +
179A GLU* 3.4 4.5 + - - +
403A EDO 4.4 13.9 - - - -
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Residues in contact with PHE 178 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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32A PRO 4.0 1.8 - - - -
33A ILE* 3.5 43.3 - - + +
48A TYR* 3.5 46.7 - + - -
71A ILE* 5.9 1.3 - - + -
131A PHE* 3.6 31.4 - + - -
137A THR* 3.3 3.0 - - - -
138A TYR* 2.8 46.5 + - + +
140A VAL* 3.8 27.6 - - + -
175A TRP* 4.5 4.1 + - + +
177A ASP* 1.3 74.7 - - - +
179A GLU* 1.3 79.4 + - - +
180A TRP* 3.7 10.9 + + - -
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Residues in contact with GLU 179 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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48A TYR* 4.5 2.8 + - - -
136A GLY* 3.7 19.9 + - - -
137A THR* 2.7 30.2 + - - +
177A ASP 3.4 4.7 + - - +
178A PHE* 1.3 88.8 - - - +
180A TRP* 1.3 59.9 + - - +
181A LYS* 3.3 43.3 + - + +
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Residues in contact with TRP 180 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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48A TYR* 4.3 22.2 - + - -
68A ASP* 3.6 45.6 + - + -
69A CYS* 4.6 2.7 - - + -
131A PHE* 3.5 38.5 - + + +
134A GLY* 3.3 33.0 + - - -
135A LEU* 3.5 17.4 - - + +
136A GLY* 2.8 37.8 + - - +
138A TYR* 4.1 10.1 - - + -
178A PHE* 3.7 14.9 + + + -
179A GLU* 1.3 73.2 - - - +
181A LYS* 1.3 56.8 + - - +
182A GLY* 3.5 42.6 - - - -
183A PRO* 3.6 11.2 - - + -
185A TRP* 4.5 4.3 - + - -
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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