Contacts of the helix formed by residues 186 - 200 (chain A) in PDB entry 2FWN
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 ASN 186 (chain A).
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Specific contacts
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Residue Dist Surf HB Arom Phob DC
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184A ARG* 3.4 5.8 + - - +
185A LEU* 1.3 79.6 - - - +
187A ASP* 1.3 59.2 + - - +
188A GLN* 3.1 12.3 + - - +
189A ASP* 2.9 50.5 + - - +
190A LEU* 2.8 26.5 + - - +
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Residues in contact with ASP 187 (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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184A ARG* 2.7 42.0 + - - +
186A ASN* 1.3 73.0 - - - +
188A GLN* 1.3 62.7 + - - +
190A LEU* 3.7 4.4 - - - +
191A ASP* 2.9 35.3 + - - +
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Residues in contact with GLN 188 (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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186A ASN* 3.1 9.1 + - - +
187A ASP* 1.3 79.0 - - - +
189A ASP* 1.3 72.6 + - - +
191A ASP* 3.4 8.1 + - - +
192A ILE* 3.3 30.4 + - + +
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Residues in contact with ASP 189 (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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185A LEU* 3.6 23.5 - - + +
186A ASN* 2.9 34.5 + - - +
188A GLN* 1.3 83.5 - - - +
190A LEU* 1.3 66.4 + - - +
192A ILE* 3.3 21.9 + - - +
193A LEU* 3.1 18.4 + - - +
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Residues in contact with LEU 190 (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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184A ARG* 3.7 30.3 - - - +
185A LEU* 3.5 14.5 - - + +
186A ASN 2.8 18.4 + - - +
187A ASP* 3.7 4.9 - - - +
189A ASP* 1.3 78.8 - - - +
191A ASP* 1.3 57.2 + - - +
193A LEU* 3.3 6.8 + - + +
194A VAL* 2.9 33.9 + - + +
321A MET* 4.3 20.4 - - + -
324A ALA* 4.1 11.9 - - + -
325A LEU* 3.9 28.0 - - + -
328A LEU* 3.7 29.4 - - + -
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Residues in contact with ASP 191 (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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187A ASP* 2.9 25.8 + - - +
188A GLN* 3.6 8.0 - - - +
190A LEU* 1.3 77.9 - - - +
192A ILE* 1.3 60.2 + - + +
194A VAL* 3.4 7.4 + - - +
195A LYS* 2.9 49.8 + - - +
328A LEU* 5.2 11.3 - - - +
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Residues in contact with ILE 192 (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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188A GLN* 3.3 23.9 + - + +
189A ASP* 3.5 24.5 - - - +
190A LEU 3.2 0.4 - - - -
191A ASP* 1.3 78.2 - - + +
193A LEU* 1.3 62.7 + - - +
195A LYS* 3.4 10.5 + - + +
196A ALA* 3.0 23.5 + - + +
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Residues in contact with LEU 193 (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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185A LEU* 4.6 2.0 - - + -
189A ASP 3.1 13.4 + - - +
190A LEU* 3.5 11.0 - - + +
192A ILE* 1.3 77.5 - - - +
194A VAL* 1.3 65.0 + - - +
196A ALA* 3.0 5.5 + - + +
197A LEU* 3.0 32.8 + - + +
271A LEU* 4.8 3.1 - - + -
296A ILE* 3.8 37.7 - - + -
298A VAL* 4.9 3.8 - - + -
314A ILE* 3.6 27.1 - - + -
321A MET* 4.3 11.9 - - + -
325A LEU* 4.0 28.5 - - + -
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Residues in contact with VAL 194 (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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190A LEU* 2.9 22.1 + - + +
191A ASP* 3.8 9.6 - - - +
193A LEU* 1.3 76.2 - - - +
195A LYS* 1.3 60.6 + - + +
197A LEU* 3.2 8.5 + - - +
198A ASN* 2.8 43.5 + - - +
325A LEU* 3.9 20.9 - - + -
328A LEU* 3.9 46.0 - - + +
329A VAL* 4.1 9.6 - - + -
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Residues in contact with LYS 195 (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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191A ASP* 2.9 35.5 + - - +
192A ILE* 3.7 8.7 - - + +
194A VAL* 1.3 77.2 - - + +
196A ALA* 1.3 61.1 + - - +
198A ASN* 3.7 11.2 - - - +
199A SER* 2.9 33.7 + - - +
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Residues in contact with ALA 196 (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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192A ILE* 3.0 14.9 + - + +
193A LEU* 3.0 12.3 + - - +
195A LYS* 1.3 75.8 - - - +
197A LEU* 1.3 61.9 + - - +
199A SER* 3.5 4.7 + - - -
200A ALA* 3.2 20.8 + - - +
269A VAL* 4.3 10.5 - - + +
294A ARG* 3.9 25.1 - - - +
296A ILE* 4.8 8.3 - - + -
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Residues in contact with LEU 197 (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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193A LEU* 3.0 32.3 + - + +
194A VAL* 3.6 5.4 - - - +
196A ALA* 1.3 73.2 - - - +
198A ASN* 1.3 66.4 + - - +
199A SER 3.3 0.5 + - - -
200A ALA* 3.3 19.4 + - - +
203A PRO* 5.0 5.7 - - + +
223A LEU* 5.0 1.3 - - + -
227A LEU* 3.8 33.1 - - + +
269A VAL* 4.1 22.0 - - + -
271A LEU* 4.0 38.1 - - + -
296A ILE* 5.1 0.4 - - + -
325A LEU* 4.1 24.2 - - + -
329A VAL* 4.1 13.9 - - + -
334A ARG* 5.3 1.2 + - - -
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Residues in contact with ASN 198 (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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194A VAL* 2.8 34.1 + - - +
195A LYS* 3.7 11.3 - - - +
197A LEU* 1.3 78.4 - - - +
199A SER* 1.3 59.4 + - - +
200A ALA 3.7 4.3 + - - +
227A LEU* 4.6 4.5 - - - +
328A LEU 5.0 0.6 + - - -
329A VAL* 3.6 10.4 - - - +
330A GLU* 2.8 66.2 + - - +
334A ARG* 5.2 4.3 + - - -
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Residues in contact with SER 199 (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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195A LYS* 2.9 23.5 + - - +
196A ALA* 3.9 4.9 - - - -
197A LEU 3.2 0.4 - - - -
198A ASN* 1.3 74.4 - - - +
200A ALA* 1.3 66.0 + - - +
201A SER* 3.5 3.3 + - - -
268A ASP* 4.6 0.9 - - - +
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Residues in contact with ALA 200 (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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196A ALA 3.2 13.3 + - - +
197A LEU* 3.3 14.6 + - - +
198A ASN 4.2 3.3 - - - +
199A SER* 1.3 79.1 - - - +
201A SER* 1.3 59.1 + - - +
203A PRO* 4.0 15.7 - - + -
268A ASP* 3.3 20.0 - - - +
269A VAL* 3.8 19.5 - - + -
334A ARG* 3.3 22.9 + - - -
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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