Contacts of the helix formed by residues 160 - 177 (chain A) in PDB entry 4QBT
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 160 (chain A).
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Specific contacts
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Residue Dist Surf HB Arom Phob DC
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82A ASN* 3.9 39.8 + - - +
83A MET* 5.7 5.4 - - + -
156A VAL* 5.0 2.3 - - + +
158A HIS 4.2 11.2 - - - +
159A PRO* 1.3 77.4 - - - +
161A LEU* 1.3 66.7 + - - +
162A SER* 3.2 19.1 - - - +
163A GLY* 3.3 11.8 + - - +
164A LEU* 3.8 10.6 + - - +
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Residues in contact with LEU 161 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
159A PRO 4.0 0.6 + - - -
160A LEU* 1.3 73.5 - - - +
162A SER* 1.3 62.9 + - - +
164A LEU* 3.0 33.4 + - + +
165A LEU* 3.3 26.8 + - + +
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Residues in contact with SER 162 (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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80A LEU* 3.1 46.0 + - - +
82A ASN* 4.9 0.9 + - - -
160A LEU* 3.6 19.3 - - - +
161A LEU* 1.3 75.3 - - - +
163A GLY* 1.3 58.4 + - - +
165A LEU* 2.9 31.2 + - - +
166A TYR* 3.1 14.2 + - - +
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Residues in contact with GLY 163 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
80A LEU 4.4 6.1 - - - -
145A SER 4.8 1.0 - - - +
149A GLY* 5.6 0.5 - - - -
153A VAL* 4.1 24.3 - - - +
160A LEU* 3.3 10.4 + - - +
161A LEU 3.1 0.8 - - - -
162A SER* 1.3 83.6 + - - +
164A LEU* 1.3 62.4 + - - +
166A TYR* 3.7 6.6 - - - +
167A PRO* 3.4 18.0 - - - +
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Residues in contact with LEU 164 (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 GLN* 4.2 26.2 - - + +
145A SER* 3.5 36.9 - - - +
146A LYS* 3.8 36.8 - - + +
159A PRO* 5.9 5.6 - - + -
160A LEU 3.8 8.2 + - - +
161A LEU* 3.0 28.5 + - + +
163A GLY* 1.3 78.4 - - - +
165A LEU* 1.3 65.2 + - + +
166A TYR 3.3 0.2 - - - -
167A PRO* 3.6 8.2 - - - +
168A GLY 4.7 1.9 + - - -
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Residues in contact with LEU 165 (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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80A LEU* 4.6 12.8 - - + -
133A VAL* 4.8 17.9 - - + -
137A SER* 6.0 6.3 - - - -
161A LEU* 3.7 31.0 - - + +
162A SER* 2.9 17.5 + - - +
164A LEU* 1.3 79.8 - - + +
166A TYR* 1.3 65.7 - - - +
168A GLY* 3.1 14.0 + - - -
169A LEU* 3.2 25.7 + - + +
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Residues in contact with TYR 166 (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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43A ALA* 4.7 5.7 - - + +
77A HIS* 3.1 71.0 + + + +
80A LEU* 4.6 10.1 - - + -
81A ASP* 3.9 24.8 + - + -
152A VAL* 3.5 23.6 - - + +
153A VAL* 3.7 17.3 - - + -
162A SER 3.1 10.6 + - - +
163A GLY* 3.7 9.6 - - - +
165A LEU* 1.3 75.8 - - - +
167A PRO* 1.3 71.6 - - + +
169A LEU* 3.3 1.9 + - - -
170A GLN* 3.1 25.8 + - - +
191A ILE* 4.0 6.3 - - + -
506A TYR* 2.7 31.7 + - - +
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Residues in contact with PRO 167 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
145A SER* 3.6 24.9 - - - +
148A ALA* 4.1 20.6 - - + -
149A GLY* 4.3 9.6 - - - +
153A VAL* 5.0 1.1 - - + -
163A GLY 3.4 11.9 - - - +
164A LEU 3.6 6.3 - - - +
165A LEU 3.5 3.4 - - - -
166A TYR* 1.3 105.1 - - + +
168A GLY* 1.3 56.8 + - - +
170A GLN* 3.5 5.9 + - + +
171A ALA* 3.0 22.7 + - - +
191A ILE* 4.4 12.4 - - + +
194A PHE* 3.6 20.9 - - + -
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Residues in contact with GLY 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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136A LEU* 3.3 32.3 - - - +
164A LEU 4.7 2.0 + - - -
165A LEU 3.1 7.9 + - - -
167A PRO* 1.3 80.3 - - - +
169A LEU* 1.3 58.6 + - - +
171A ALA* 3.4 1.0 + - - +
172A LEU* 3.0 25.6 + - - +
194A PHE* 3.7 13.5 - - - -
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Residues in contact with LEU 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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76A LEU* 3.7 30.7 - - + -
77A HIS* 3.4 21.1 - - + +
80A LEU* 4.1 11.9 - - + -
124A GLN* 4.8 1.1 - - - +
129A TYR* 3.0 37.8 + - + +
133A VAL* 4.2 24.0 - - + -
165A LEU* 3.2 39.0 + - + +
166A TYR 3.7 2.2 - - - +
167A PRO 3.2 0.2 - - - -
168A GLY* 1.3 75.0 - - - +
170A GLN* 1.3 60.3 + - - +
172A LEU* 3.2 2.4 + - - -
173A ASP* 2.8 29.1 + - - -
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Residues in contact with GLN 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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39A TYR* 3.6 5.2 + - - -
77A HIS* 3.2 6.1 + - - +
166A TYR* 3.1 27.0 + - - +
167A PRO* 3.7 5.2 - - + +
169A LEU* 1.3 74.9 - - - +
171A ALA* 1.3 63.8 + - - +
173A ASP* 3.3 23.5 - - - +
174A GLU* 3.7 4.2 + - - +
182A GLN* 3.0 27.3 + - - +
188A GLN* 3.2 20.8 + - - -
191A ILE* 3.6 21.2 - - + +
192A PHE* 3.8 10.5 - - - -
506A TYR* 2.9 44.7 + - + +
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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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136A LEU* 5.1 3.4 - - + -
167A PRO 3.0 14.9 + - - +
168A GLY* 3.6 8.3 - - - +
169A LEU 3.2 0.2 - - - -
170A GLN* 1.3 77.3 - - - +
172A LEU* 1.3 62.0 + - - +
174A GLU* 3.0 24.3 + - - +
175A GLU 3.9 0.3 + - - -
191A ILE* 5.2 1.5 - - - +
194A PHE* 4.4 9.0 - - + -
195A ALA* 3.6 35.7 - - + -
198A TYR* 6.0 1.1 - - + -
199A LEU* 3.6 20.1 - - + +
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Residues in contact with LEU 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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129A TYR* 3.8 16.2 - - + +
132A ASP* 3.7 18.4 - - + +
133A VAL* 3.6 45.1 - - + +
136A LEU* 3.9 7.9 - - + -
168A GLY 3.0 20.5 + - - +
169A LEU 3.2 4.0 + - - +
171A ALA* 1.3 76.6 - - - +
173A ASP* 1.3 64.8 + - - +
175A GLU* 3.0 11.9 + - + +
176A TYR* 3.0 21.2 + - + -
199A LEU* 4.3 15.0 - - + -
202A LEU* 3.7 27.6 - - + -
204A TYR* 4.4 7.9 - - + -
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Residues in contact with ASP 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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39A TYR* 3.4 8.3 - - + +
72A LEU* 3.5 2.2 - - + +
77A HIS* 3.4 16.8 - - - -
123A TYR* 2.6 35.6 + - - +
124A GLN* 3.1 8.1 + - - -
129A TYR* 3.0 18.0 + - - -
169A LEU 2.8 21.0 + - - +
170A GLN 3.3 5.4 - - - +
171A ALA 3.1 0.2 - - - -
172A LEU* 1.3 76.5 - - - +
174A GLU* 1.3 55.7 + - - +
176A TYR 4.4 0.7 - - - +
177A LEU* 2.8 38.3 + - + +
506A TYR* 2.4 31.4 + - - +
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Residues in contact with GLU 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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39A TYR* 4.0 7.9 - - + -
170A GLN 4.0 2.9 - - - +
171A ALA* 3.0 11.9 + - - +
173A ASP* 1.3 77.0 - - - +
175A GLU* 1.3 62.4 + - - +
178A LYS 3.3 1.7 + - - -
179A VAL* 3.3 33.4 + - + +
182A GLN* 2.9 30.5 + - + +
192A PHE* 4.7 0.7 - - - -
195A ALA* 3.8 17.7 - - - +
199A LEU* 3.5 14.3 - - + +
207A ARG* 3.2 42.2 + - + +
209A HIS* 2.6 31.2 + - - -
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Residues in contact with GLU 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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171A ALA 3.9 1.3 + - - +
172A LEU* 3.0 12.1 + - - +
174A GLU* 1.3 79.8 - - - +
176A TYR* 1.3 67.8 + - + +
178A LYS* 2.9 34.0 + - - +
199A LEU* 5.0 2.0 - - + -
204A TYR* 3.3 57.1 - - + +
205A SER* 4.6 1.0 + - - -
207A ARG* 2.9 34.2 + - - +
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Residues in contact with TYR 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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123A TYR* 3.9 30.5 - + + -
126A SER* 5.0 1.3 - - - -
128A GLU* 3.0 52.0 + - + +
129A TYR* 3.6 33.7 - + + -
132A ASP* 2.6 33.0 + - + -
172A LEU* 3.0 25.5 + - + +
175A GLU* 1.3 90.5 - - + +
177A LEU* 1.3 63.3 + - - +
178A LYS* 3.2 12.2 + - - +
204A TYR* 4.1 3.0 + - - -
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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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39A TYR* 3.7 37.7 - - + -
70A THR* 4.4 16.0 + - + -
72A LEU* 4.2 10.1 - - + -
116A LYS* 5.1 9.3 + - + -
118A ILE* 4.0 25.4 - - + -
123A TYR* 3.8 36.6 - - + +
173A ASP 2.8 20.9 + - - +
174A GLU 4.5 0.4 - - - +
176A TYR* 1.3 77.0 - - - +
178A LYS* 1.3 71.6 + - - +
179A VAL* 3.3 18.3 + - + +
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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