Contacts of the helix formed by residues 166 - 184 (chain A) in PDB entry 1FQY
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 GLY 166 (chain A).
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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65A GLN* 5.6 8.5 - - - +
163A ASP* 2.9 35.0 - - - +
164A LEU 3.5 1.4 - - - -
165A GLY* 1.3 76.0 - - - +
167A SER* 1.3 62.4 + - - +
169A PRO* 3.8 2.3 - - - +
170A LEU* 2.9 25.2 + - - +
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Residues in contact with SER 167 (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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163A ASP* 4.5 2.4 - - - +
165A GLY 3.1 6.5 + - - -
166A GLY* 1.3 72.2 + - - +
168A ALA* 1.3 62.3 + - - +
170A LEU* 2.6 24.0 + - - +
171A ALA* 2.6 35.5 + - - +
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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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156A THR* 3.1 35.0 - - + -
162A ARG* 5.4 5.6 - - - +
163A ASP* 5.4 3.5 - - + +
167A SER* 1.3 79.8 + - - +
169A PRO* 1.3 63.6 - - + +
171A ALA* 2.7 10.4 + - - -
172A ILE* 2.5 43.2 + - + +
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Residues in contact with PRO 169 (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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61A ALA* 2.9 38.8 - - - +
64A ALA* 4.6 5.6 - - + -
65A GLN* 4.2 18.4 - - + +
162A ARG* 4.0 28.7 - - - +
163A ASP* 3.0 30.7 - - - +
166A GLY 3.8 4.3 - - - +
168A ALA* 1.3 88.3 - - + +
170A LEU* 1.3 66.3 + - - +
172A ILE* 4.2 7.4 - - + +
173A GLY 3.0 9.9 + - - -
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Residues in contact with LEU 170 (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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61A ALA* 4.0 8.2 - - - +
165A GLY 4.6 3.6 - - - +
166A GLY 2.9 25.3 + - - +
167A SER* 2.6 37.2 + - - +
169A PRO* 1.3 77.4 - - - +
171A ALA* 1.3 76.5 + - + +
173A GLY* 3.4 0.5 + - - -
174A LEU* 2.9 38.9 + - + +
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Residues in contact with ALA 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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156A THR* 5.7 2.2 - - - +
167A SER* 2.6 17.4 + - - +
168A ALA* 2.7 15.2 + - - +
170A LEU* 1.3 84.7 - - + +
172A ILE* 1.3 69.5 + - + +
173A GLY 2.8 0.2 + - - -
174A LEU* 2.8 14.1 + - - +
175A SER* 2.9 12.5 + - - -
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Residues in contact with ILE 172 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
60A ILE* 5.7 5.6 - - + -
61A ALA* 6.2 0.2 - - - -
64A ALA* 6.3 4.5 - - + -
149A LEU* 4.5 2.7 - - + -
152A CYS* 5.0 7.2 - - + +
153A VAL* 4.4 35.0 - - + +
156A THR* 4.4 19.3 - - + +
162A ARG* 4.1 22.2 - - - +
168A ALA* 2.5 30.0 + - + +
169A PRO* 4.2 5.6 - - + +
171A ALA* 1.3 72.5 - - + +
173A GLY* 1.3 58.8 + - - +
175A SER* 2.9 9.4 + - - -
176A VAL* 2.8 46.7 + - + +
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Residues in contact with GLY 173 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
57A GLY 3.0 21.9 - - - +
60A ILE* 4.7 2.7 - - - -
61A ALA* 3.5 29.1 - - - +
169A PRO 3.0 11.3 + - - -
171A ALA 2.8 4.2 + - - -
172A ILE* 1.3 75.3 - - - +
174A LEU* 1.3 56.4 + - - +
176A VAL* 3.3 8.9 + - - +
177A ALA 2.9 20.4 + - - -
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Residues in contact with LEU 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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57A GLY 5.4 0.2 - - - -
58A LEU* 3.6 33.9 - - + -
61A ALA* 5.4 2.9 - - + -
170A LEU* 2.9 36.3 - - + +
171A ALA* 2.8 7.3 + - - +
173A GLY* 1.3 71.7 - - - -
175A SER* 1.3 65.5 + - - +
177A ALA* 3.0 24.2 + - + +
178A LEU* 3.1 8.0 + - - +
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Residues in contact with SER 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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148A GLN* 4.9 7.1 + - - +
149A LEU* 4.1 7.5 + - - -
152A CYS* 3.0 29.3 - - - -
171A ALA 2.9 12.4 + - - -
172A ILE* 3.0 17.0 - - - -
174A LEU* 1.3 74.9 - - - +
176A VAL* 1.3 55.0 + - - +
178A LEU* 2.8 37.4 + - - +
179A GLY 3.5 2.3 + - - -
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Residues in contact with VAL 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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60A ILE* 3.5 28.9 - - + -
149A LEU* 3.6 26.0 - - + -
172A ILE* 2.8 28.9 + - + +
173A GLY* 3.3 8.7 - - - +
175A SER* 1.3 76.2 - - - +
177A ALA* 1.3 55.6 + - - +
179A GLY* 3.1 10.5 + - - +
180A HIS* 2.5 45.6 + - + +
191A ILE* 3.5 25.0 - - + +
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Residues in contact with ALA 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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53A SER* 3.2 7.9 + - - +
54A LEU* 5.8 4.7 - - + -
57A GLY* 3.7 18.8 - - - -
58A LEU* 6.3 0.4 - - + -
173A GLY 2.9 8.4 + - - +
174A LEU* 3.0 26.9 - - + +
176A VAL* 1.3 78.0 - - - +
178A LEU* 1.3 61.1 + - - +
180A HIS* 2.9 19.9 + - - -
181A LEU* 3.1 22.3 - - + +
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Residues in contact with LEU 178 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
148A GLN* 3.1 30.7 - - - +
174A LEU 3.1 8.5 + - - +
175A SER* 2.8 17.8 + - - +
177A ALA* 1.3 77.0 - - - +
179A GLY* 1.3 65.8 + - - +
180A HIS 3.2 0.3 + - - -
181A LEU* 3.3 40.8 + - + +
182A LEU* 3.8 7.5 + - + +
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Residues in contact with GLY 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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145A GLY* 5.4 14.4 - - - -
148A GLN* 5.8 3.5 + - - -
175A SER 3.5 2.4 + - - -
176A VAL* 3.1 11.0 + - - +
178A LEU* 1.3 83.3 - - - +
180A HIS* 1.3 51.0 + - - +
182A LEU* 3.4 3.9 + - - +
183A ALA* 2.7 39.6 + - - +
191A ILE* 5.5 11.0 - - - -
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Residues in contact with HIS 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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24A PHE* 5.7 1.8 - - - -
53A SER* 3.2 18.3 - - - +
56A PHE* 3.4 36.9 - + + +
57A GLY 4.3 3.7 + - - -
60A ILE* 4.7 2.6 - - + +
176A VAL* 2.5 52.8 + - + +
177A ALA* 2.9 11.7 + - - -
179A GLY* 1.3 71.9 - - - +
181A LEU* 1.3 69.1 + - - +
182A LEU 2.9 3.5 + - - -
183A ALA* 3.7 6.7 - - - -
184A ILE* 2.9 30.0 + - + +
189A CYS* 3.4 33.0 - - + -
191A ILE* 4.1 14.7 - - + +
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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
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49A ASN* 5.4 4.2 - - - +
50A VAL* 5.8 11.0 - - + +
53A SER* 2.9 41.6 + - - +
54A LEU* 6.5 0.7 - - + -
177A ALA* 3.1 16.8 - - + +
178A LEU* 3.3 38.8 - - + +
180A HIS* 1.3 73.4 - - - +
182A LEU* 1.3 58.8 + - - +
184A ILE* 3.7 14.8 - - - +
185A ASP* 5.9 0.3 - - - +
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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
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141A ILE* 5.0 18.8 - - + +
178A LEU* 3.8 5.8 + - + +
179A GLY* 3.4 7.1 + - - +
180A HIS 2.9 0.8 - - - -
181A LEU* 1.3 78.4 - - + +
183A ALA* 1.3 71.1 + - - +
184A ILE 2.7 4.0 + - - -
185A ASP* 3.5 11.6 + - - +
186A TYR* 3.8 32.1 - - + +
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Residues in contact with ALA 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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141A ILE* 4.2 17.9 - - - +
142A GLU* 6.0 5.6 - - + +
179A GLY* 2.7 31.0 + - - +
180A HIS* 3.7 2.2 - - + -
182A LEU* 1.3 76.1 - - - +
184A ILE* 1.3 54.8 + - - +
186A TYR 4.4 0.9 + - - -
187A THR 2.8 27.6 + - - +
188A GLY 3.8 0.2 - - - +
189A CYS* 3.6 22.2 - - + -
190A GLY 3.9 10.3 - - - +
191A ILE* 6.3 1.3 - - + -
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Residues in contact with ILE 184 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
49A ASN* 3.8 35.9 - - + +
52A VAL* 5.2 12.1 - - + -
53A SER* 6.1 2.5 - - - +
56A PHE* 4.9 15.5 - - + -
180A HIS* 2.9 17.5 + - + +
181A LEU* 3.7 15.7 - - - +
182A LEU 2.7 4.9 + - - -
183A ALA* 1.3 73.3 - - - +
185A ASP* 1.3 84.7 + - + +
188A GLY* 3.2 25.9 + - - -
189A CYS* 3.2 37.2 - - + +
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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