Contacts of the helix formed by residues 167 - 189 (chain A) in PDB entry 3Q0U
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 PRO 167 (chain A).
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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157A ARG* 4.6 0.9 - - - +
165A THR 4.3 2.5 - - - +
166A LEU* 1.3 90.6 - - + +
168A ALA* 1.3 65.8 + - - +
169A HIS* 3.2 2.5 - - + +
170A GLU* 3.2 39.7 + - + +
171A LEU* 3.0 20.8 + - - +
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Residues in contact with ALA 168 (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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150A ALA* 4.0 13.5 - - + +
153A ILE* 3.9 23.9 - - + +
154A ASP* 3.3 28.7 - - - +
157A ARG* 3.7 10.2 - - - +
166A LEU 3.1 6.3 + - - -
167A PRO* 1.3 71.3 - - - +
169A HIS* 1.3 58.3 + - - +
171A LEU* 3.7 5.3 - - - +
172A ALA* 2.8 31.4 + - - +
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Residues in contact with HIS 169 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
143A GLN* 5.3 1.8 + - - -
146A ILE* 3.6 27.4 - - + +
147A ALA* 4.6 13.9 + - + +
150A ALA* 3.9 19.4 - - + +
167A PRO* 3.2 2.3 - - + -
168A ALA* 1.3 79.1 - - - +
170A GLU* 1.3 60.7 + - + +
172A ALA* 3.4 1.9 + - - +
173A THR* 2.8 39.6 + - - -
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Residues in contact with GLU 170 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
166A LEU* 5.5 4.3 - - + +
167A PRO* 3.2 39.1 + - + +
169A HIS* 1.3 76.7 - - + +
171A LEU* 1.3 65.9 - - - +
173A THR* 3.2 8.2 + - - -
174A ALA* 3.1 23.6 + - - +
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Residues in contact with LEU 171 (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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153A ILE* 4.2 15.9 - - + -
157A ARG* 4.1 20.6 - - - +
165A THR* 4.9 1.6 - - - +
166A LEU* 4.1 30.4 - - + +
167A PRO 3.0 15.6 + - - +
168A ALA* 3.7 4.3 - - - +
170A GLU* 1.3 76.3 - - - +
172A ALA* 1.3 62.6 + - - +
174A ALA* 3.3 5.7 + - + +
175A LEU* 3.0 51.2 + - + +
210A SER* 3.8 34.3 - - - +
211A ILE* 4.2 10.3 - - + -
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Residues in contact with ALA 172 (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 ILE* 3.6 21.3 - - + +
149A THR* 3.6 29.8 - - + -
150A ALA* 3.8 7.0 - - + +
153A ILE* 4.4 2.7 - - + +
168A ALA 2.8 22.3 + - - +
169A HIS 3.7 4.9 - - - +
171A LEU* 1.3 75.3 - - - +
173A THR* 1.3 57.0 + - - +
175A LEU* 3.4 2.6 + - - -
176A ASN* 2.9 36.9 + - - -
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Residues in contact with THR 173 (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 ILE* 3.4 30.8 - - + +
169A HIS* 2.8 30.6 + - - -
170A GLU* 3.2 9.2 + - - -
172A ALA* 1.3 76.2 - - - +
174A ALA* 1.3 58.4 + - - +
176A ASN* 3.3 1.4 + - - +
177A LEU* 2.9 47.9 + - + +
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Residues in contact with ALA 174 (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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170A GLU 3.1 12.2 + - - +
171A LEU* 3.8 10.3 - - + +
173A THR* 1.3 76.9 - - - +
175A LEU* 1.3 60.1 + - + +
177A LEU* 3.3 8.0 + - - +
178A MET* 2.9 30.3 + - - +
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Residues in contact with LEU 175 (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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153A ILE* 4.9 2.7 - - + -
171A LEU* 3.0 35.8 + - + +
172A ALA* 4.0 4.0 - - - +
174A ALA* 1.3 78.0 - - + +
176A ASN* 1.3 58.6 + - - +
178A MET* 3.4 24.6 + - + +
179A ASN* 3.0 32.9 + - - +
206A ILE* 4.3 9.2 - - + -
207A TRP* 3.6 32.4 + - + -
210A SER* 3.5 28.0 - - - +
211A ILE* 3.9 25.4 - - + -
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Residues in contact with ASN 176 (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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142A MET* 4.0 10.0 - - + +
145A TRP* 3.8 5.9 - - - +
146A ILE* 3.6 25.7 - - + +
149A THR* 3.2 26.8 + - - -
172A ALA 2.9 27.8 + - - +
173A THR 3.9 0.9 - - - +
175A LEU* 1.3 75.8 - - - +
177A LEU* 1.3 58.7 + - - +
179A ASN* 3.2 5.4 + - - +
180A GLU* 3.0 27.2 + - - +
207A TRP* 3.7 13.3 - - - -
217A LL3 3.3 42.0 - - - +
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Residues in contact with LEU 177 (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 ARG* 6.3 0.4 - - - +
142A MET* 4.1 9.9 - - + -
146A ILE* 5.4 2.7 - - + -
173A THR* 2.9 38.4 + - + +
174A ALA* 3.8 6.3 - - - +
176A ASN* 1.3 72.4 - - - +
178A MET* 1.3 66.1 + - - +
180A GLU* 3.4 25.2 + - - +
181A ARG* 3.1 24.4 + - - +
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Residues in contact with MET 178 (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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174A ALA 2.9 17.6 + - - +
175A LEU* 3.5 9.6 - - + +
177A LEU* 1.3 76.4 - - - +
179A ASN* 1.3 56.0 + - - +
181A ARG* 3.9 2.6 - - - +
182A THR* 2.8 52.4 + - - +
203A LEU* 4.0 11.2 - - + -
206A ILE* 3.6 46.0 - - + -
207A TRP* 3.6 36.6 - - + +
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Residues in contact with ASN 179 (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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107A ILE* 4.0 14.1 - - - +
175A LEU 3.0 9.2 + - - +
176A ASN 3.2 8.0 + - - +
178A MET* 1.3 75.6 - - - +
180A GLU* 1.3 56.4 + - - +
183A LEU* 2.8 43.2 + - + +
203A LEU* 3.5 28.1 - - - +
207A TRP* 2.9 38.1 + - - +
217A LL3 2.8 37.6 + - + +
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Residues in contact with GLU 180 (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* 4.1 2.2 + - - +
128A ARG* 2.9 30.5 + - - -
138A TRP* 2.9 22.6 + - + +
142A MET* 3.5 12.8 - - - +
176A ASN 3.0 9.3 + - - +
177A LEU* 3.5 20.4 - - - +
179A ASN* 1.3 77.8 - - - +
181A ARG* 1.3 67.4 + - - +
184A PHE* 3.2 47.2 + - + +
217A LL3 3.4 22.1 - - + -
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Residues in contact with ARG 181 (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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177A LEU 3.1 13.7 + - - +
178A MET* 4.0 3.6 - - - +
180A GLU* 1.3 82.8 - - + +
182A THR* 1.3 60.7 + - - +
184A PHE* 5.0 3.4 - - - +
185A ALA* 2.9 39.4 + - + +
190A GLU* 2.8 41.1 + - - -
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Residues in contact with THR 182 (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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178A MET* 2.8 35.9 + - - +
181A ARG* 1.3 77.8 - - - +
183A LEU* 1.3 63.9 + - - +
185A ALA* 3.9 3.9 - - - +
186A SER* 3.0 28.2 + - - -
194A VAL* 4.0 21.0 + - + +
199A VAL* 3.5 23.3 - - + -
202A THR* 5.7 1.6 - - + -
203A LEU* 3.8 17.0 - - + -
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Residues in contact with LEU 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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107A ILE* 5.1 4.7 - - + -
110A PHE* 4.5 12.8 - - + +
111A PHE* 3.9 38.1 - - + +
114A PHE* 5.4 0.2 - - + -
179A ASN* 2.8 30.7 + - + +
182A THR* 1.3 73.9 - - - +
184A PHE* 1.3 72.0 + - + +
186A SER* 3.2 6.2 + - - -
187A PHE* 2.9 40.5 + - + -
199A VAL* 4.0 9.4 - - + -
200A LEU* 5.6 0.4 - - - +
203A LEU* 3.7 24.2 - - + -
217A LL3 3.8 29.2 - - + +
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Residues in contact with PHE 184 (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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114A PHE* 3.7 28.0 - + + -
121A THR* 3.5 28.5 - - + -
125A GLN* 3.5 43.3 - - + -
138A TRP* 3.6 28.7 - + - -
180A GLU* 3.2 28.6 + - + +
181A ARG* 4.4 4.3 - - - +
183A LEU* 1.3 87.1 - - + +
185A ALA* 1.3 63.6 + - - +
187A PHE* 3.4 10.1 + + - +
188A ALA* 3.0 26.2 + - - +
190A GLU* 4.4 3.0 - - - +
217A LL3 3.8 8.1 - + - -
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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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181A ARG* 2.9 27.5 + - + +
182A THR* 3.9 4.7 - - - +
184A PHE* 1.3 75.2 - - - +
186A SER* 1.3 62.1 + - - +
188A ALA 3.4 0.5 + - - -
189A GLY 3.1 3.5 + - - -
190A GLU* 3.0 56.4 + - + +
192A PRO 4.2 4.9 - - - +
193A SER* 3.5 17.4 - - - -
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Residues in contact with SER 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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182A THR 3.0 17.4 + - - -
183A LEU 3.4 9.4 - - - -
185A ALA* 1.3 74.9 - - - +
187A PHE* 1.3 67.2 + - - +
189A GLY* 3.2 12.1 + - - -
193A SER* 3.9 4.3 + - - -
194A VAL 2.5 34.1 + - - +
196A GLU* 4.3 17.6 + - - +
199A VAL* 3.4 27.8 - - - +
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Residues in contact with PHE 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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110A PHE 4.8 0.7 - - - -
111A PHE* 3.4 48.2 - + - -
114A PHE* 3.8 18.6 - - + -
115A GLY* 3.5 24.5 - - - -
118A LYS* 3.6 45.7 - - + +
121A THR* 4.6 7.0 - - + -
183A LEU* 2.9 30.5 + - + +
184A PHE* 3.9 21.8 - + - +
185A ALA 3.4 0.2 - - - -
186A SER* 1.3 77.4 - - - +
188A ALA* 1.3 59.8 + - - +
189A GLY 3.2 0.9 + - - -
196A GLU* 3.8 20.7 - - + +
199A VAL* 5.3 1.1 - - + -
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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
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122A ARG* 5.4 15.7 - - + +
184A PHE 3.0 18.2 + - - +
186A SER 3.2 0.2 - - - -
187A PHE* 1.3 76.9 - - - +
189A GLY* 1.3 62.7 + - - +
190A GLU* 3.4 22.6 + - + +
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Residues in contact with GLY 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 ALA 3.1 5.2 + - - -
186A SER 3.2 11.9 + - - -
187A PHE 3.2 1.6 + - - -
188A ALA* 1.3 78.3 - - - +
190A GLU* 1.3 67.4 + - - +
191A GLN* 3.7 1.4 + - - +
193A SER* 3.9 5.6 - - - -
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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