Contacts of the helix formed by residues 211 - 225 (chain A) in PDB entry 2FW0
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 211 (chain A).
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Specific contacts
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Residue Dist Surf HB Arom Phob DC
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158A ARG* 4.4 1.3 - - - +
183A TRP* 3.2 39.8 + - + +
209A ALA* 3.2 7.5 - - - +
210A ASN* 1.3 80.5 - - - +
212A ASP* 1.3 59.7 + - - +
213A ALA* 3.7 9.7 - - - +
214A MET* 2.9 36.6 + - - +
215A ALA* 3.1 20.3 + - - +
235A VAL 3.2 19.1 - - - +
236A ASP* 3.8 10.2 + - - +
314A CIT 2.7 26.0 + - - +
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Residues in contact with ASP 212 (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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211A ASN* 1.3 73.3 - - - +
213A ALA* 1.3 60.7 + - - +
215A ALA* 3.2 5.4 + - - +
216A MET* 2.8 35.6 + - + +
234A GLY* 3.4 4.0 - - - -
235A VAL 2.7 23.4 + - - +
236A ASP* 3.5 1.1 + - + +
237A ALA 2.9 24.8 + - - -
238A LEU* 2.9 28.8 + - + -
241A ALA* 3.3 24.1 - - + +
250A LEU* 4.5 2.0 - - - +
253A THR* 2.6 25.9 + - - -
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Residues in contact with ALA 213 (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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183A TRP 3.4 22.0 - - - +
184A ASP* 4.7 0.2 - - - -
185A THR* 3.0 34.4 + - - +
211A ASN* 3.4 8.7 + - - +
212A ASP* 1.3 76.9 - - - +
214A MET* 1.3 64.3 + - - +
216A MET* 3.2 11.1 + - + +
217A GLY 3.1 15.6 + - - -
236A ASP* 5.3 0.4 + - - -
238A LEU* 4.9 7.1 - - + +
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Residues in contact with MET 214 (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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146A LEU* 3.4 28.2 - - + +
147A LYS 3.3 28.5 - - - +
148A GLY* 3.7 7.9 - - - +
181A ALA* 3.6 13.5 - - - -
183A TRP* 3.5 17.9 - - + -
184A ASP 3.6 24.2 - - - +
188A ALA* 3.3 20.6 - - + +
209A ALA* 4.0 10.1 - - + -
210A ASN* 3.8 3.1 - - + +
211A ASN* 2.9 35.5 + - - +
213A ALA* 1.3 72.0 - - - +
215A ALA* 1.3 66.2 + - - +
217A GLY 3.3 0.9 + - - -
218A ALA* 3.0 21.7 + - - +
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Residues in contact with ALA 215 (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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209A ALA* 3.4 9.9 - - + +
211A ASN 3.1 15.1 + - - +
212A ASP* 3.2 8.9 + - - +
214A MET* 1.3 76.2 - - - +
216A MET* 1.3 56.5 + - + +
218A ALA* 3.2 6.0 + - - +
219A VAL* 2.9 32.0 + - - +
232A VAL* 3.6 22.4 - - + +
234A GLY* 3.8 20.6 - - - -
250A LEU* 3.9 10.5 - - + -
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Residues in contact with MET 216 (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 THR* 4.1 10.8 - - + +
212A ASP* 2.8 32.1 + - + +
213A ALA* 3.7 16.6 - - + +
214A MET 3.2 0.2 - - - -
215A ALA* 1.3 73.2 - - + +
217A GLY* 1.3 65.9 + - - +
219A VAL* 3.2 9.5 + - - +
220A GLU* 3.0 26.8 + - + +
238A LEU* 4.5 3.8 - - + -
240A GLU* 3.6 43.1 - - + +
241A ALA* 3.9 20.4 - - + -
244A LEU* 3.6 22.2 - - + +
250A LEU* 5.3 2.5 - - + -
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Residues in contact with GLY 217 (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 THR* 3.3 31.9 - - - +
189A LYS* 3.4 23.6 - - - +
213A ALA 3.1 12.1 + - - -
214A MET 3.3 2.2 + - - -
216A MET* 1.3 74.0 - - - +
218A ALA* 1.4 62.5 + - - +
220A GLU* 3.2 5.3 + - - +
221A ALA 3.1 17.5 + - - -
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Residues in contact with ALA 218 (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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146A LEU* 3.8 20.0 - - + -
188A ALA* 4.4 1.0 - - - +
192A MET* 3.9 20.1 - - + +
207A VAL* 3.9 19.5 - - + -
214A MET 3.0 13.7 + - - +
215A ALA 3.4 8.7 - - - +
217A GLY* 1.4 76.5 - - - +
219A VAL* 1.3 62.8 + - - +
221A ALA* 3.2 2.6 + - - +
222A LEU* 2.9 29.1 + - - +
232A VAL* 4.4 4.9 - - + -
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Residues in contact with VAL 219 (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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215A ALA 2.9 20.9 + - - +
216A MET* 3.4 11.9 - - - +
218A ALA* 1.3 75.0 - - - +
220A GLU* 1.3 65.2 + - + +
222A LEU* 3.3 10.5 + - + +
223A LYS* 3.0 29.4 + - + +
228A SER* 4.9 1.3 + - - +
232A VAL* 3.9 18.8 - - + -
244A LEU* 4.5 13.2 - - + -
249A ALA* 3.4 43.7 - - + +
250A LEU* 4.3 7.4 - - + -
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Residues in contact with GLU 220 (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 THR* 6.1 1.3 - - + -
189A LYS* 4.2 27.6 + - + +
216A MET 3.0 16.5 + - - +
217A GLY* 3.6 9.2 - - - +
218A ALA 3.2 0.2 - - - -
219A VAL* 1.3 80.2 - - + +
221A ALA* 1.3 64.8 + - - +
223A LYS* 3.3 25.0 + - - +
224A ALA* 3.0 22.7 + - - +
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Residues in contact with ALA 221 (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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189A LYS* 3.6 30.6 - - + +
192A MET* 3.6 25.4 - - + -
193A ASP* 3.7 14.1 - - + +
196A LEU* 3.8 2.5 - - + -
217A GLY 3.1 8.5 + - - +
218A ALA 3.2 1.3 + - - +
220A GLU* 1.3 75.8 - - - +
222A LEU* 1.3 64.4 + - - +
224A ALA* 3.2 6.5 + - - +
225A HIS* 3.1 30.1 + - - -
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Residues in contact with LEU 222 (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 MET* 4.1 8.7 - - + -
196A LEU* 3.8 19.3 - - + -
207A VAL* 4.5 6.3 - - + -
218A ALA 2.9 19.2 + - - +
219A VAL* 3.6 6.5 - - + +
221A ALA* 1.3 76.4 - - - +
223A LYS* 1.3 61.2 + - - +
225A HIS 3.2 2.6 + - - -
226A ASN 3.1 4.2 + - - -
227A LYS* 2.8 54.8 + - + +
228A SER* 3.9 5.4 - - - +
230A ILE* 3.7 38.4 - - + +
232A VAL* 3.4 33.0 - - + -
312A NA 4.7 2.2 - - - -
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Residues in contact with LYS 223 (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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219A VAL* 3.0 15.9 + - + +
220A GLU* 3.6 27.4 + - - +
221A ALA 3.3 0.2 - - - -
222A LEU* 1.3 76.3 - - - +
224A ALA* 1.3 64.3 + - - +
226A ASN* 3.0 21.9 + - - +
227A LYS 4.9 0.2 - - - +
228A SER* 3.4 16.7 + - - +
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Residues in contact with ALA 224 (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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189A LYS* 5.7 5.6 - - - -
193A ASP* 5.6 1.6 - - - +
220A GLU 3.0 14.7 + - - +
221A ALA* 3.2 11.2 + - - +
223A LYS* 1.3 79.2 - - - +
225A HIS* 1.3 64.9 + - + +
226A ASN* 3.4 8.4 + - - +
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Residues in contact with HIS 225 (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 ASP* 2.6 32.6 + - - -
196A LEU* 3.7 39.3 + - + +
197A SER* 3.5 21.8 - - - -
221A ALA* 3.1 27.9 + - - +
222A LEU 3.2 2.9 + - - +
223A LYS 3.2 0.4 - - - -
224A ALA* 1.3 79.8 - - + +
226A ASN* 1.3 74.1 + - - +
227A LYS* 3.2 15.8 + - + +
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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