Contacts of the helix formed by residues 182 - 202 (chain A) in PDB entry 1H9T
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 182 (chain A).
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Specific contacts
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Residue Dist Surf HB Arom Phob DC
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179A TYR 3.1 3.5 + - - +
180A PHE 2.7 6.9 + - - +
181A ALA* 1.3 73.1 - - - +
183A PRO* 1.3 57.0 - - - +
184A GLU* 2.9 32.7 + - - +
185A ALA* 2.5 40.5 + - + +
222A ILE* 4.4 7.9 + - - +
226A MET* 3.2 43.2 - - + +
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Residues in contact with PRO 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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181A ALA 2.8 15.8 - - - +
182A ASN* 1.3 78.1 - - - +
184A GLU* 1.3 61.4 + - - +
186A ARG* 2.9 49.6 + - + +
187A SER* 3.1 12.5 + - - -
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Residues in contact with GLU 184 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
182A ASN* 2.6 28.1 + - - +
183A PRO* 1.3 75.8 - - - +
185A ALA* 1.3 58.4 + - - +
187A SER* 3.4 17.5 - - - -
188A LEU* 3.7 7.8 + - - +
222A ILE* 4.5 24.4 - - + +
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Residues in contact with ALA 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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179A TYR* 3.2 54.0 + - + +
180A PHE* 4.6 1.1 - - - -
182A ASN* 2.5 17.6 + - + +
184A GLU* 1.3 71.6 - - - +
186A ARG* 1.3 61.8 + - - +
187A SER 2.8 7.0 + - - -
188A LEU 3.3 1.3 + - - +
189A ALA* 3.0 25.6 + - - +
222A ILE* 3.9 18.2 - - + -
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Residues in contact with ARG 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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136A ASP* 2.5 57.8 + - - +
137A HIS* 4.5 1.6 - - - +
138A ALA 3.8 12.2 - - - +
141A PHE* 3.2 63.0 - - + -
180A PHE* 3.5 16.0 + - + +
181A ALA 3.4 24.2 + - - -
182A ASN 3.5 0.8 + - - -
183A PRO* 2.9 35.4 + - + +
185A ALA* 1.3 77.4 - - - +
187A SER* 1.3 60.2 + - - +
190A LEU* 3.2 16.3 + - - +
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Residues in contact with SER 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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183A PRO 3.1 8.7 + - - -
184A GLU* 3.4 14.6 - - - -
185A ALA 2.8 1.6 - - - -
186A ARG* 1.3 75.6 - - - +
188A LEU* 1.3 55.7 + - - -
190A LEU* 2.8 9.5 + - - +
191A GLY* 2.8 33.3 + - - -
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Residues in contact with LEU 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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179A TYR* 5.1 0.7 - - - +
184A GLU 3.7 7.7 + - - +
185A ALA 3.3 5.1 + - - +
187A SER* 1.3 81.2 + - - +
189A ALA* 1.3 51.7 + - - +
191A GLY* 3.8 1.1 - - - -
192A PHE* 2.8 38.0 + - + +
215A TYR* 3.7 25.4 - - + -
218A GLU* 3.5 44.4 - - + +
219A SER* 3.7 4.7 - - - +
222A ILE* 3.6 26.0 - - + -
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Residues in contact with ALA 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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141A PHE* 4.0 9.0 - - + -
179A TYR* 4.9 0.9 - - - +
180A PHE* 4.0 21.1 - - + -
185A ALA 3.0 16.9 + - - +
188A LEU* 1.3 73.8 - - - +
190A LEU* 1.3 56.9 + - - +
192A PHE* 3.1 4.9 - - - +
193A TYR* 2.7 49.0 + - + +
215A TYR* 3.2 26.2 + - - +
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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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131A ALA* 4.2 32.5 - - + +
134A VAL* 6.2 2.5 - - + -
141A PHE* 4.6 13.9 - - + -
186A ARG 3.2 17.0 + - - +
187A SER* 2.8 6.5 + - - +
189A ALA* 1.3 75.3 - - - +
191A GLY* 1.3 70.0 + - - +
192A PHE 2.9 1.1 - - - -
193A TYR* 2.6 26.7 + - + +
194A HIS* 3.0 23.8 + - + +
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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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187A SER 2.8 16.8 + - - -
188A LEU* 4.0 1.6 - - - -
190A LEU* 1.3 72.3 - - - +
192A PHE* 1.3 51.9 + - - +
194A HIS* 3.3 24.9 + - - -
195A LYS* 2.7 39.3 + - - +
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Residues in contact with PHE 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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113A ILE* 5.2 1.8 - - + -
148A ILE* 6.3 0.4 - - + -
149A PHE* 4.2 18.6 - + - -
188A LEU* 2.8 24.8 + - + +
189A ALA* 3.1 10.5 - - - +
191A GLY* 1.3 78.5 - - - +
193A TYR* 1.3 81.3 + + - +
195A LYS* 3.1 13.9 + - - +
196A LEU* 3.2 40.2 + - + +
211A THR* 3.7 25.6 - - + -
212A VAL* 3.9 18.4 - - + -
215A TYR* 3.1 57.0 - + + -
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Residues in contact with TYR 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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128A LEU* 3.2 23.6 - - + +
131A ALA* 4.6 14.4 - - + -
141A PHE* 4.8 9.9 - + - -
144A LEU* 4.9 7.4 - - + -
145A ASP* 2.5 51.5 + - - +
148A ILE* 3.5 44.2 - - + -
149A PHE* 4.4 9.9 - + - -
189A ALA* 2.7 40.1 + - + +
190A LEU* 2.6 23.0 + - + +
192A PHE* 1.3 83.3 - + - +
194A HIS* 1.3 58.9 + - - +
196A LEU* 3.1 6.3 + - - +
197A SER 3.0 20.3 + - - -
215A TYR* 5.4 0.2 - - - -
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Residues in contact with HIS 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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128A LEU 5.8 2.5 - - - +
131A ALA* 6.4 0.7 - - + -
190A LEU* 3.0 17.9 + - + +
191A GLY* 3.3 26.6 + - - -
193A TYR* 1.3 74.0 - - - +
195A LYS* 1.3 75.9 + - + +
196A LEU 3.1 2.8 + - - -
197A SER* 3.3 18.2 + - - -
198A ALA* 3.5 12.6 + - - +
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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 GLY 2.7 24.7 + - - +
192A PHE* 3.2 8.1 - - - +
194A HIS* 1.3 81.7 - - + +
196A LEU* 1.3 66.7 + - + +
198A ALA* 3.9 6.9 - - - +
199A LEU* 3.7 29.2 - - - +
207A GLN* 4.7 14.1 + - - -
211A THR* 4.7 19.1 - - + -
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Residues in contact with LEU 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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113A ILE* 4.8 17.3 - - + -
117A PHE* 3.6 17.0 - - + -
128A LEU* 4.9 8.1 - - + -
192A PHE* 3.3 49.8 - - + +
193A TYR* 3.1 8.2 + - - +
194A HIS 3.1 0.4 - - - -
195A LYS* 1.3 79.7 - - + +
197A SER* 1.3 68.8 + - - +
198A ALA 2.9 2.7 - - - -
199A LEU* 2.7 28.4 + - + +
200A CYS 3.6 2.1 + - - -
207A GLN 4.4 11.2 - - - +
208A VAL* 5.4 6.5 - - + -
211A THR* 4.3 25.6 - - + +
212A VAL* 5.4 2.5 - - + -
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Residues in contact with SER 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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117A PHE* 5.6 0.4 - - - -
125A GLN* 2.5 46.7 + - - -
128A LEU* 4.0 26.0 + - - +
193A TYR 3.0 10.4 + - - -
194A HIS* 3.7 15.3 - - - -
196A LEU* 1.3 77.2 - - - +
198A ALA* 1.3 61.9 + - - +
200A CYS 3.1 6.1 + - - -
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Residues in contact with ALA 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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125A GLN* 4.8 0.7 - - - +
194A HIS 3.5 7.6 + - - +
195A LYS 3.9 12.1 - - - +
196A LEU 2.9 0.8 + - - -
197A SER* 1.3 79.8 - - - +
199A LEU* 1.3 53.3 + - + +
200A CYS 3.3 0.2 - - - -
201A SER* 3.5 8.5 + - - +
202A GLU* 2.7 55.2 + - - +
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Residues in contact with LEU 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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117A PHE* 3.2 16.1 - - + -
195A LYS* 3.7 28.0 - - - +
196A LEU* 2.7 31.9 + - + +
198A ALA* 1.3 76.0 - - + +
200A CYS* 1.3 59.9 + - - +
201A SER 3.0 2.0 - - - -
202A GLU* 3.3 19.1 - - + +
203A GLY* 2.6 29.8 + - - -
204A ALA* 4.5 16.6 - - + +
205A HIS* 5.0 0.7 - - - +
207A GLN* 3.1 48.2 - - + +
208A VAL* 5.1 3.1 - - + -
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Residues in contact with CYS 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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117A PHE* 2.9 23.0 - - + -
121A PRO* 2.7 49.7 - - - +
124A ALA* 4.9 2.7 - - + -
125A GLN* 3.3 25.6 - - + +
197A SER 3.1 2.6 + - - -
199A LEU* 1.3 79.8 - - - +
201A SER* 1.3 60.4 + - - +
203A GLY* 3.9 5.4 + - - -
1240A AU 2.6 27.4 - - - -
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Residues in contact with SER 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 GLN* 3.6 15.4 + - - -
197A SER 3.9 0.4 + - - -
198A ALA* 3.5 10.8 + - - -
200A CYS* 1.3 78.8 - - - +
202A GLU* 1.3 59.9 + - - +
203A GLY 3.3 4.3 + - - -
1240A AU 3.8 8.4 - - - -
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Residues in contact with GLU 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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198A ALA* 2.7 39.3 + - - +
199A LEU* 3.0 16.9 + - + +
201A SER* 1.3 80.5 - - - +
203A GLY* 1.3 49.8 + - - +
204A ALA* 2.3 32.5 + - + +
207A GLN* 5.9 0.7 + - - -
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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