Contacts of the strand formed by residues 182 - 189 (chain C) in PDB entry 2FPO
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 VAL 182 (chain C).
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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34C PRO* 4.5 11.4 - - + -
157C GLU* 3.8 14.1 - - + +
158C SER* 3.7 12.3 - - - +
159C GLU* 5.2 2.9 - - + +
160C VAL* 4.1 2.9 - - - -
177C LYS 3.8 0.7 - - - +
178C VAL* 3.3 2.9 - - - +
179C ALA 2.9 37.1 + - - +
180C GLY 3.4 0.6 - - - -
181C GLN* 1.3 87.0 - - + +
183C ALA* 1.3 66.4 + - - +
184C TYR* 3.6 39.8 - - + +
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Residues in contact with ALA 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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156C VAL 3.6 1.4 - - - +
157C GLU* 3.4 3.3 - - - -
158C SER 2.8 39.1 + - - +
160C VAL* 4.0 10.2 - - + +
176C GLU* 3.9 7.2 - - - +
177C LYS 3.5 3.6 - - - -
178C VAL* 4.0 9.4 - - + -
182C VAL* 1.3 74.6 - - - +
184C TYR* 1.3 61.2 + - - +
185C ARG* 3.5 40.7 + - - +
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Residues in contact with TYR 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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34C PRO* 3.0 25.7 - - + +
35C THR* 2.9 26.2 + - - -
39C VAL* 4.1 13.5 - - + -
46C TRP* 3.5 10.6 - - + -
155C TYR* 3.1 29.8 - - + +
156C VAL 3.6 3.4 - - - -
157C GLU* 3.4 33.7 - - + -
176C GLU* 3.3 2.8 - - - -
177C LYS* 2.7 66.8 + - + +
179C ALA* 4.1 12.5 + - + +
182C VAL* 3.6 23.1 - - + +
183C ALA* 1.3 72.1 - - - +
185C ARG* 1.3 60.4 + - - +
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Residues in contact with ARG 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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46C TRP* 4.3 2.9 - - - -
154C ILE 3.7 0.4 - - - +
155C TYR* 3.2 9.5 - - - -
156C VAL* 2.7 46.7 + - + +
158C SER* 4.1 12.1 + - - -
159C GLU 5.0 2.8 + - - -
160C VAL* 5.2 8.1 - - - +
161C GLU* 4.9 2.2 + - - +
163C GLY 4.4 5.5 + - - -
164C LEU* 3.3 23.4 - - - +
165C PRO* 3.3 32.5 - - - +
173C LEU* 3.7 17.0 - - + -
175C ARG 3.5 2.5 - - - -
176C GLU* 2.4 35.4 + - + +
178C VAL* 5.3 1.4 - - - +
183C ALA* 3.5 23.1 + - + +
184C TYR* 1.3 81.5 - - - +
186C LEU* 1.3 60.8 + - - +
187C TYR* 3.4 30.5 - - + -
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Residues in contact with LEU 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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43C LEU* 4.4 5.2 - - + -
46C TRP* 3.7 43.5 - - + +
47C LEU* 4.3 17.7 - - + -
123C ILE* 6.2 0.9 - - + -
153C LEU* 4.1 36.8 - - + -
154C ILE 3.5 14.4 - - - +
155C TYR* 3.8 20.6 - - + +
173C LEU* 3.8 1.0 - - - +
174C HIS* 2.9 30.0 + - + +
175C ARG* 2.8 28.1 + - + +
185C ARG* 1.3 71.7 - - - +
187C TYR* 1.3 63.3 + - - +
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Residues in contact with TYR 187 (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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139C ILE* 5.7 0.4 - - + -
153C LEU* 3.2 11.0 - - - +
154C ILE* 2.9 46.0 + - + +
156C VAL* 3.8 27.9 - - + +
164C LEU* 5.2 2.1 - - - +
165C PRO* 4.0 16.3 + - - +
167C VAL* 3.7 34.2 - - + +
171C TRP* 3.8 36.3 - + + -
172C SER 3.4 6.1 - - - +
173C LEU* 3.8 37.7 - - + +
185C ARG* 3.4 30.7 - - + -
186C LEU* 1.3 74.5 - - - +
188C GLN* 1.3 62.1 + - - +
189C ARG 4.1 0.2 - - - -
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Residues in contact with GLN 188 (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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151C GLU* 2.7 49.1 + - - +
152C ALA 3.3 5.2 - - - +
153C LEU* 3.8 20.3 - - + +
170C ASN 3.7 0.9 - - - +
171C TRP* 3.5 1.7 - - - -
172C SER* 2.8 38.8 + - - +
174C HIS* 3.6 41.9 + - + +
186C LEU 4.2 0.2 + - - -
187C TYR* 1.3 76.6 - - - +
189C ARG* 1.3 71.7 + - - +
190C GLU* 5.2 5.5 - - + +
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Residues in contact with ARG 189 (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 GLU* 2.8 42.3 + - - +
148C LEU* 3.6 38.5 + - - +
149C ALA 3.4 18.4 + - - -
150C ASP* 3.6 24.0 + - - +
151C GLU* 3.7 4.5 - - - +
152C ALA 2.8 23.5 + - - +
154C ILE* 4.1 9.3 - - + +
170C ASN* 3.5 12.5 - - - +
171C TRP* 4.1 9.4 - - + +
187C TYR 4.1 0.4 - - - -
188C GLN* 1.3 91.1 - - - +
190C GLU* 1.3 73.3 + - - +
191C ALA* 3.7 11.7 - - - +
192C GLN* 3.7 21.0 - - - +
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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