Contacts of the helix formed by residues 194 - 214 (chain A) in PDB entry 2FJX
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 194 (chain A).
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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50A ILE* 5.7 0.2 - - - +
122A VAL* 4.0 15.4 - - - +
123A GLU 3.5 22.6 + - - -
124A ASP* 5.1 0.2 - - - -
125A ILE* 3.6 42.3 + - + +
192A PHE* 3.1 18.9 + - + -
193A LYS* 1.3 96.8 - - - +
195A SER* 1.3 65.1 + - - +
196A PRO* 3.4 2.6 - - - -
197A THR* 3.5 5.1 + - - +
198A LEU* 3.0 31.3 + - + +
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Residues in contact with SER 195 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
155A PHE* 3.5 28.3 - - - -
188A LEU* 3.2 26.8 - - - +
189A PRO 2.8 20.7 + - - -
191A GLY 5.8 0.2 - - - -
192A PHE* 3.1 18.3 + - - +
194A ASN* 1.3 77.6 - - - +
196A PRO* 1.3 72.2 - - - +
199A PHE* 2.8 27.0 + - - +
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Residues in contact with PRO 196 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
129A VAL* 4.0 5.8 - - + +
155A PHE* 3.8 22.7 - - + -
192A PHE 3.9 4.3 - - - +
193A LYS 3.9 12.1 - - - +
194A ASN 3.6 2.9 - - - -
195A SER* 1.3 92.8 - - - +
197A THR* 1.3 58.9 + - - +
199A PHE* 3.8 1.6 - - - +
200A ASP* 2.9 30.3 + - - +
223A VAL* 4.0 19.7 - - + +
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Residues in contact with THR 197 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
125A ILE* 3.6 27.3 - - + +
126A HIS 3.7 10.3 - - - +
127A PRO* 4.2 12.5 - - - +
128A THR* 3.5 11.4 - - - +
129A VAL* 3.8 15.8 - - - +
193A LYS 5.4 1.4 + - - -
194A ASN* 3.5 5.9 + - - -
195A SER 3.3 0.4 - - - -
196A PRO* 1.3 78.1 - - - +
198A LEU* 1.3 60.5 + - - +
200A ASP* 3.3 1.4 + - - +
201A GLU* 2.9 52.5 + - - +
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Residues in contact with LEU 198 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
48A LEU* 4.4 20.4 - - + +
50A ILE* 4.0 26.7 - - + -
125A ILE* 3.9 22.4 - - + -
158A LEU* 4.0 2.4 - - - +
188A LEU* 4.2 15.9 - - + -
192A PHE* 4.1 5.6 - - + -
194A ASN* 3.0 32.1 + - + +
195A SER 4.0 2.0 - - - +
197A THR* 1.3 76.2 - - - +
199A PHE* 1.3 62.0 + - - +
201A GLU* 3.9 13.6 - - + +
202A ALA* 3.0 24.3 + - - +
205A ARG* 5.0 1.4 + - - -
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Residues in contact with PHE 199 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
151A LEU* 3.8 16.8 - - + -
154A ALA* 3.2 46.7 - - + -
155A PHE* 3.8 16.4 - + + -
158A LEU* 3.7 24.1 - - + +
188A LEU* 4.5 0.2 - - + -
195A SER 2.8 18.4 + - - +
196A PRO 3.8 2.5 - - - +
198A LEU* 1.3 78.7 - - - +
200A ASP* 1.3 64.1 + - - +
202A ALA* 3.0 2.8 + - - +
203A LEU* 2.9 35.9 + - + +
223A VAL* 3.2 39.5 - - + -
224A ASP* 4.2 2.0 - - - -
252A TYR* 3.8 26.0 - + - -
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Residues in contact with ASP 200 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
128A THR* 4.5 5.1 + - - +
129A VAL* 3.7 32.9 + - + +
130A PRO* 4.2 5.9 - - - +
196A PRO 2.9 19.2 + - - +
197A THR 3.7 2.0 - - - +
199A PHE* 1.3 82.7 - - - +
201A GLU* 1.3 63.8 + - + +
203A LEU* 3.5 2.7 + - - +
204A HIS* 3.1 49.8 + - - -
221A GLN* 3.9 14.4 + - - +
223A VAL* 2.9 31.1 + - - +
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Residues in contact with GLU 201 (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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125A ILE* 5.2 1.7 - - - +
126A HIS 4.2 1.6 - - - +
128A THR* 2.7 40.4 + - - +
197A THR* 2.9 33.5 + - - +
198A LEU* 3.9 15.1 - - - +
200A ASP* 1.3 76.1 - - + +
202A ALA* 1.3 63.6 + - - +
204A HIS* 3.4 9.0 + - + +
205A ARG* 3.2 41.1 + - - +
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Residues in contact with ALA 202 (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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45A GLN* 3.8 12.0 + - + +
48A LEU* 6.1 1.8 - - + -
158A LEU* 3.8 27.8 - - + -
198A LEU 3.0 19.3 + - - +
199A PHE 3.5 3.8 - - - +
201A GLU* 1.3 77.8 - - - +
203A LEU* 1.3 62.2 + - - +
205A ARG* 3.1 28.5 + - - +
206A ASP* 3.0 21.5 + - - +
252A TYR* 4.3 2.9 - - - +
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Residues in contact with LEU 203 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
151A LEU* 3.7 23.1 - - + -
199A PHE* 2.9 23.3 + - + +
200A ASP* 4.1 1.8 - - - +
202A ALA* 1.3 73.7 - - - +
204A HIS* 1.3 60.7 + - - +
206A ASP* 3.2 1.6 + - + +
207A LEU* 2.8 48.6 + - + +
221A GLN* 3.6 19.5 - - - +
223A VAL 3.9 10.8 - - - +
226A LEU* 3.8 19.3 - - + -
247A LEU* 4.2 6.5 - - + -
252A TYR* 3.6 41.6 + - + +
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Residues in contact with HIS 204 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
130A PRO* 5.8 3.4 - - - +
200A ASP* 3.1 46.2 + - - +
201A GLU* 3.6 9.0 - - + +
202A ALA 3.2 0.2 - - - -
203A LEU* 1.3 75.9 - - - +
205A ARG* 1.3 63.3 + - + +
207A LEU 3.4 0.9 + - - -
208A ALA* 3.1 24.9 + - - +
211A ARG* 3.7 20.1 + - - -
221A GLN* 3.3 42.3 + - + +
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Residues in contact with ARG 205 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
45A GLN* 2.7 33.8 + - - +
48A LEU* 4.9 13.9 - - - +
198A LEU 5.0 1.4 + - - -
201A GLU* 3.2 32.7 + - - +
202A ALA* 3.1 24.1 + - - +
204A HIS* 1.3 81.1 - - + +
206A ASP* 1.3 62.9 + - - +
207A LEU 3.4 0.2 + - - -
208A ALA* 3.5 16.4 + - - +
209A ASP 4.9 0.5 + - - -
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Residues in contact with ASP 206 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
42A ALA* 4.4 2.3 - - - +
44A ARG* 3.6 18.3 + - - +
45A GLN* 3.0 31.7 + - - +
202A ALA 3.0 8.5 + - - +
203A LEU* 3.2 6.5 + - + +
205A ARG* 1.3 78.8 - - - +
207A LEU* 1.3 59.3 + - - +
208A ALA 3.4 0.6 + - - -
209A ASP* 4.8 4.9 + - - +
210A PHE 5.2 1.0 + - - -
246A THR* 4.9 2.6 - - - +
250A LEU* 3.4 41.2 - - + +
252A TYR* 2.6 34.6 + - + +
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Residues in contact with LEU 207 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
203A LEU* 2.8 45.0 + - + +
204A HIS 3.8 0.9 - - - +
206A ASP* 1.3 74.4 - - - +
208A ALA* 1.3 64.8 + - - +
209A ASP 3.3 2.9 - - - -
210A PHE* 3.2 9.9 + - + +
211A ARG* 3.1 24.9 + - - +
219A LEU* 4.0 18.4 - - + -
221A GLN* 3.8 24.5 - - + +
226A LEU* 4.8 4.9 - - + -
243A LEU* 4.4 12.8 - - + -
246A THR* 4.2 12.8 - - + -
247A LEU* 4.1 19.1 - - + -
250A LEU* 3.8 22.2 - - + -
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Residues in contact with ALA 208 (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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204A HIS 3.1 11.5 + - - +
205A ARG* 3.6 15.7 - - - +
206A ASP 3.4 1.2 - - - -
207A LEU* 1.3 77.7 - - - +
209A ASP* 1.3 63.3 + - - +
211A ARG* 3.3 14.5 + - - +
212A ILE* 3.2 28.6 + - + +
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Residues in contact with ASP 209 (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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205A ARG 4.9 0.4 + - - -
206A ASP 4.8 4.8 + - - +
207A LEU* 3.3 0.6 - - - +
208A ALA* 1.3 75.1 - - - +
210A PHE* 1.3 62.0 + - - +
212A ILE* 3.0 14.6 + - - +
213A GLN* 2.8 62.7 + - - +
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Residues in contact with PHE 210 (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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206A ASP 5.2 0.6 + - - -
207A LEU* 3.2 17.3 + - + +
209A ASP* 1.3 80.0 + - - +
211A ARG* 1.3 67.9 + - + +
213A GLN* 3.2 3.4 + - - -
214A HIS* 3.0 64.6 + + + +
217A LEU* 4.1 13.0 - - + -
219A LEU* 4.2 20.4 - - + -
228A LEU* 4.2 18.8 - - + -
239A GLY 4.0 6.5 - - - -
242A ALA* 3.8 2.9 - - + -
243A LEU* 3.4 48.7 - - + -
246A THR* 3.8 29.8 - - + +
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Residues in contact with ARG 211 (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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204A HIS* 3.7 18.6 + - - -
207A LEU 3.1 18.0 + - - +
208A ALA* 3.4 14.1 - - - +
210A PHE* 1.3 80.5 - - + +
212A ILE* 1.3 63.5 + - + +
214A HIS 3.2 23.6 + - - +
215A PRO* 3.6 4.5 - - - +
219A LEU* 3.0 52.5 + - + +
221A GLN* 3.0 39.4 + - - +
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Residues in contact with ILE 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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208A ALA* 3.2 17.9 + - + +
209A ASP* 3.0 15.5 + - - +
211A ARG* 1.3 79.4 - - + +
213A GLN* 1.3 71.1 + - - +
214A HIS 3.4 0.5 + - - -
215A PRO* 3.5 16.8 - - - +
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Residues in contact with GLN 213 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
209A ASP* 2.8 45.4 + - - +
210A PHE* 3.8 6.3 - - - +
212A ILE* 1.3 85.4 + - - +
214A HIS* 1.3 78.4 + - + +
215A PRO* 3.4 6.9 - - - +
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Residues in contact with HIS 214 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
210A PHE* 3.0 56.9 + + + +
211A ARG* 3.3 10.5 - - - +
213A GLN* 1.3 95.5 + - + +
215A PRO* 1.3 64.9 - - - +
216A ASP 3.2 2.9 - - - -
217A LEU* 3.1 46.7 + - + +
238A GLN 5.7 0.7 - - - -
239A GLY* 5.4 2.0 - - - -
242A ALA* 3.8 22.0 - - + +
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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
------------------------------------------------------------
Atomic class I II III IV V VI VII VIII
------------------------------------------------------------
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