Contacts of the helix formed by residues 178 - 199 (chain A) in PDB entry 1FX8
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 178 (chain A).
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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57A TYR* 4.3 1.8 - - - -
175A ARG* 3.1 24.0 + - + +
177A PRO* 1.3 81.5 - - + +
179A ALA* 1.3 65.6 + - - +
180A PRO 3.4 0.2 - - - -
181A LEU* 3.2 30.1 + - + +
182A LEU* 2.9 40.8 + - + +
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Residues in contact with ALA 179 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
166A LEU* 4.2 19.9 - - - +
167A THR* 4.6 15.5 - - + -
175A ARG* 3.8 11.6 - - + +
176A GLY 3.3 12.6 + - - +
178A LEU* 1.3 77.3 - - - +
180A PRO* 1.3 71.5 - - + +
182A LEU* 3.2 6.7 + - - +
183A ILE* 2.9 30.1 + - + +
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Residues in contact with PRO 180 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
53A ALA* 3.6 14.6 - - - +
56A ILE* 3.6 33.0 - - + -
57A TYR* 3.5 32.1 - - + -
60A ALA* 5.7 2.9 - - + -
176A GLY 4.3 1.8 - - - +
177A PRO* 3.5 16.8 - - + +
179A ALA* 1.3 94.3 - - + +
181A LEU* 1.3 61.7 + - - +
183A ILE* 3.1 11.4 + - + +
184A GLY 3.0 18.5 + - - -
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Residues in contact with LEU 181 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
50A LEU* 3.8 27.6 - - + -
53A ALA* 4.0 9.4 - - + -
54A MET* 5.9 3.6 - - + -
57A TYR* 3.5 17.6 + - + +
178A LEU* 3.2 29.7 + - + +
180A PRO* 1.3 79.1 - - - +
182A LEU* 1.3 67.8 + - + +
184A GLY* 3.0 4.0 + - - -
185A LEU* 3.0 37.2 + - + +
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Residues in contact with LEU 182 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
166A LEU* 3.9 26.9 - - + +
175A ARG* 3.5 31.9 - - + -
178A LEU* 2.9 37.4 + - + +
179A ALA* 3.6 6.3 - - - +
181A LEU* 1.3 79.2 - - + +
183A ILE* 1.3 57.4 + - - +
185A LEU* 3.2 21.0 + - + +
186A LEU* 2.9 28.2 + - - +
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Residues in contact with ILE 183 (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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52A VAL* 4.9 0.9 - - + -
56A ILE* 4.1 29.6 - - + -
159A LEU* 5.0 0.2 - - + -
163A ILE* 4.1 37.5 - - + -
166A LEU* 3.9 20.6 - - + -
167A THR* 4.4 21.1 - - + -
179A ALA* 2.9 24.6 + - + +
180A PRO* 3.1 8.0 + - + +
182A LEU* 1.3 76.3 - - - +
184A GLY* 1.3 64.2 + - - +
186A LEU* 3.2 7.0 + - + +
187A ILE* 3.1 34.6 + - + +
663A GOL 5.6 1.1 - - - -
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Residues in contact with GLY 184 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
49A GLY* 3.1 40.3 - - - -
50A LEU* 4.7 1.6 - - - -
52A VAL* 5.1 0.4 - - - +
53A ALA* 4.3 6.5 - - - +
180A PRO 3.0 12.3 + - - -
181A LEU 3.0 4.9 + - - -
183A ILE* 1.3 77.4 - - - +
185A LEU* 1.3 56.5 + - - +
187A ILE* 3.2 5.4 + - - -
188A ALA* 3.0 22.9 + - - +
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Residues in contact with LEU 185 (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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42A TRP* 5.3 6.3 - - + -
46A VAL* 4.7 19.3 - - + -
50A LEU* 4.8 12.6 - - + -
181A LEU* 3.0 29.3 + - + +
182A LEU* 3.2 24.7 + - + +
184A GLY* 1.3 73.7 - - - +
186A LEU* 1.3 64.2 - - - +
188A ALA* 3.2 6.7 + - + +
189A VAL* 3.0 30.5 + - + +
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Residues in contact with LEU 186 (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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158A ILE* 4.6 6.7 - - + -
159A LEU* 3.9 28.7 - - + +
162A LEU* 3.4 45.8 - - + -
163A ILE* 4.4 5.2 - - + +
166A LEU* 4.6 8.5 - - + -
182A LEU 2.9 13.8 + - - +
183A ILE* 3.3 10.8 - - - +
185A LEU* 1.3 77.4 - - - +
187A ILE* 1.3 62.3 + - - +
189A VAL* 3.0 30.7 - - + +
190A ILE* 3.0 25.7 + - + +
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Residues in contact with ILE 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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48A TRP 4.6 0.9 - - - -
49A GLY* 3.9 16.2 - - - +
52A VAL* 3.5 36.8 - - + -
159A LEU* 3.9 18.8 - - + -
183A ILE* 3.1 17.9 + - + +
184A GLY* 3.2 6.7 + - - +
186A LEU* 1.3 76.2 - - - +
188A ALA* 1.3 58.7 + - - +
190A ILE* 3.3 8.8 + - - +
191A GLY* 2.9 27.2 + - - -
200A PHE* 4.0 12.9 - - + -
202A MET* 4.3 9.6 - - + -
662A GOL 4.1 18.2 - - - +
663A GOL 3.7 20.4 - - - -
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Residues in contact with ALA 188 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
42A TRP* 4.0 19.2 - - + -
45A SER* 3.3 29.8 - - - +
46A VAL* 3.8 18.6 - - + -
184A GLY 3.0 13.0 + - - +
185A LEU* 3.3 14.6 - - + +
187A ILE* 1.3 78.6 - - - +
189A VAL* 1.3 57.6 + - - +
192A ALA* 3.0 26.3 + - - +
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Residues in contact with VAL 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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42A TRP* 4.8 12.3 - - + -
185A LEU* 3.0 16.6 + - + +
186A LEU* 3.0 28.3 - - + +
188A ALA* 1.3 72.9 - - + +
190A ILE* 1.3 58.5 + - + +
192A ALA* 4.0 6.1 - - - +
193A SER* 2.7 36.7 + - - -
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Residues in contact with ILE 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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155A ILE* 3.8 39.7 - - + +
158A ILE* 4.2 14.1 - - + -
159A LEU* 4.2 11.4 - - + -
186A LEU* 3.0 43.3 + - + +
187A ILE* 3.7 5.2 - - - +
189A VAL* 1.3 77.4 - - + +
191A GLY* 1.3 58.6 + - - +
193A SER* 3.5 5.1 + - - -
194A MET* 2.8 28.8 + - + +
195A GLY 3.5 2.8 + - - -
200A PHE* 4.2 4.9 - - + -
202A MET* 3.8 35.2 - - + -
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Residues in contact with GLY 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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41A GLN* 2.9 21.7 + - - -
45A SER* 3.0 14.6 - - - -
187A ILE 2.9 12.4 + - - -
188A ALA 3.8 0.2 - - - -
190A ILE* 1.3 78.7 - - - +
192A ALA* 1.3 56.4 + - - +
195A GLY 2.9 14.0 + - - -
200A PHE* 3.5 31.6 - - - -
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Residues in contact with ALA 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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41A GLN* 4.1 15.3 - - + +
42A TRP* 4.1 27.8 - - + +
45A SER* 3.2 6.9 + - - +
188A ALA 3.0 16.8 + - - +
189A VAL* 4.0 5.4 - - - +
190A ILE 3.3 0.2 - - - -
191A GLY* 1.3 78.6 - - - +
193A SER* 1.3 59.8 + - - +
196A PRO* 4.2 5.9 - - - +
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Residues in contact with SER 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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189A VAL 2.7 22.7 + - - -
190A ILE* 3.5 5.9 + - - -
192A ALA* 1.3 80.5 - - - +
194A MET* 1.3 84.5 + - - +
196A PRO* 4.6 3.6 - - - +
197A LEU* 5.8 0.2 - - - +
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Residues in contact with MET 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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151A VAL* 4.5 9.4 - - + +
154A VAL* 6.3 2.5 - - - -
155A ILE* 3.6 33.2 - - + -
190A ILE* 2.8 16.0 + - + +
193A SER* 1.3 99.0 - - - +
195A GLY* 1.3 67.6 + - - +
196A PRO* 3.3 4.0 - - - -
197A LEU* 3.0 43.9 + - + +
198A THR* 3.9 3.5 + - - -
200A PHE* 5.0 2.3 + - - -
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Residues in contact with GLY 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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41A GLN* 3.8 6.5 - - - -
190A ILE 3.5 2.8 + - - -
191A GLY 2.9 20.5 + - - -
194A MET* 1.3 76.7 - - - +
196A PRO* 1.3 65.9 - - - +
199A GLY* 2.9 24.7 + - - -
200A PHE* 3.6 25.6 - - - -
661A GOL 3.7 5.5 - - - -
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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
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41A GLN* 3.9 24.0 - - + +
140A ASN* 3.3 24.8 + - - +
191A GLY 3.9 7.0 - - - +
192A ALA 4.2 10.1 - - - +
193A SER 4.6 2.2 - - - +
194A MET* 3.4 5.6 - - - -
195A GLY* 1.3 88.1 - - - +
197A LEU* 1.3 63.5 + - + +
661A GOL 3.4 20.9 - - - -
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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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140A ASN* 3.0 33.1 + - + +
143A ILE* 3.3 27.2 - - + +
151A VAL* 3.9 30.7 - - + -
193A SER 5.8 0.4 - - - +
194A MET* 3.0 33.6 + - - +
195A GLY 2.9 2.8 + - - -
196A PRO* 1.3 85.6 - - + +
198A THR* 1.3 65.6 + - + +
199A GLY 3.9 0.2 - - - -
661A GOL 4.3 0.7 - - - -
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Residues in contact with THR 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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137A THR* 3.2 19.9 + - - -
138A TYR 4.0 13.8 - - - +
139A PRO* 4.6 0.4 - - + -
143A ILE* 3.9 2.0 - - + -
148A ALA* 3.7 34.8 - - + +
151A VAL* 3.6 20.3 - - + +
152A GLU* 2.7 31.4 + - - +
155A ILE* 4.7 0.3 - - - +
194A MET 3.9 2.3 + - - -
195A GLY 3.5 0.2 + - - -
197A LEU* 1.3 84.6 - - - +
199A GLY* 1.3 63.4 + - - +
200A PHE* 3.9 4.7 + - - -
232A TYR* 3.5 20.0 + - - +
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Residues in contact with GLY 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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137A THR* 3.1 10.2 - - - +
195A GLY 2.9 16.3 + - - -
198A THR* 1.3 77.9 - - - +
200A PHE* 1.3 73.8 + - - +
201A ALA 3.0 1.8 + - - -
661A GOL 3.5 17.1 + - - -
662A GOL 2.5 28.5 + - - -
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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
------------------------------------------------------------
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