Contacts of the helix formed by residues 149 - 166 (chain Z) in PDB entry 5A0Q
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 VAL 149 (chain Z).
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Specific contacts
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Residue Dist Surf HB Arom Phob DC
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8Z PHE* 4.2 6.1 - - - -
10Z HIS* 3.5 32.1 - - + +
148Z GLU* 1.3 70.9 - - - +
150Z GLU* 1.3 53.3 + - - +
152Z ALA* 3.8 0.7 - - - +
153Z TYR* 2.3 81.1 + - + +
178Z HIS* 3.5 16.4 - - + -
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Residues in contact with GLU 150 (chain Z).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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148Z GLU* 3.2 10.8 - - + +
149Z VAL* 1.3 78.6 - - - +
151Z GLN* 1.4 63.5 + - + +
153Z TYR* 3.0 32.0 + - - +
154Z ASP* 2.8 37.8 + - - +
157Z ARG* 3.9 7.8 + - - -
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Residues in contact with GLN 151 (chain Z).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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146Z ASP* 4.5 1.9 - - - +
147Z LEU* 3.8 22.4 - - + +
148Z GLU* 3.2 54.1 + - + +
150Z GLU* 1.4 77.1 - - + +
152Z ALA* 1.3 57.3 - - - +
154Z ASP* 3.4 12.2 + - - +
155Z LEU* 3.0 26.6 + - - +
158Z ARG* 4.0 5.6 + - - +
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Residues in contact with ALA 152 (chain Z).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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6Z PHE* 3.6 8.7 - - + -
8Z PHE* 3.3 36.3 - - + -
13Z ILE* 3.5 7.1 - - + +
147Z LEU* 3.7 19.0 - - + +
148Z GLU 3.0 17.3 + - - +
149Z VAL 3.8 1.3 - - - +
151Z GLN* 1.3 75.3 - - - +
153Z TYR* 1.3 59.1 + - - +
154Z ASP 3.3 0.2 - - - -
155Z LEU* 3.4 2.2 + - - -
156Z ALA* 3.0 26.9 + - - +
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Residues in contact with TYR 153 (chain Z).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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13Z ILE* 3.2 21.8 - - + -
149Z VAL* 2.3 46.8 - - + +
150Z GLU* 3.0 29.0 + - - +
152Z ALA* 1.3 76.1 - - - +
154Z ASP* 1.3 60.5 + - - +
156Z ALA 3.5 0.3 + - - -
157Z ARG* 3.1 40.4 + - - +
176Z LEU* 3.7 13.6 - - + +
178Z HIS* 2.7 28.2 + + - +
185Z ILE* 4.5 5.4 - - - +
187Z VAL* 2.7 39.6 - - + +
188Z SER* 5.1 0.2 - - - -
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Residues in contact with ASP 154 (chain Z).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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150Z GLU* 2.8 37.6 + - - +
151Z GLN* 3.5 10.7 - - - +
153Z TYR* 1.3 75.1 - - - +
155Z LEU* 1.3 58.3 + - - +
157Z ARG* 3.4 22.4 + - - +
158Z ARG* 2.8 46.4 + - + +
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Residues in contact with LEU 155 (chain Z).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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6Z PHE* 3.9 23.1 - - + -
138Z VAL* 3.8 26.9 - - + +
139Z MET* 4.0 10.8 - - - +
142Z GLY* 3.5 13.7 - - - +
143Z TYR* 3.4 33.0 - - + +
147Z LEU* 4.1 7.0 - - + -
151Z GLN 3.0 15.6 + - - +
152Z ALA* 3.7 6.1 - - - +
153Z TYR 3.3 0.4 - - - -
154Z ASP* 1.3 73.8 - - - +
156Z ALA* 1.3 63.9 + - - +
158Z ARG* 3.5 25.5 - - - +
159Z ALA* 3.0 27.5 + - - +
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Residues in contact with ALA 156 (chain Z).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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4Z LEU* 3.7 17.9 - - + +
6Z PHE* 4.0 9.6 - - + -
13Z ILE* 3.6 31.0 - - + -
15Z ALA* 4.1 9.2 - - + -
152Z ALA 3.0 13.3 + - - +
153Z TYR 3.9 3.6 - - - +
155Z LEU* 1.3 74.4 - - - +
157Z ARG* 1.4 58.2 + - - +
159Z ALA 3.6 0.2 + - - -
160Z ILE* 3.0 35.8 + - - +
176Z LEU* 4.1 4.9 - - + -
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Residues in contact with ARG 157 (chain Z).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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150Z GLU* 3.9 12.5 + - - -
153Z TYR* 3.1 32.9 + - - +
154Z ASP* 3.4 30.6 + - - +
156Z ALA* 1.4 74.4 - - - +
158Z ARG* 1.3 59.2 + - + +
160Z ILE* 4.2 0.9 - - - +
161Z TYR* 3.0 29.3 + - - +
174Z VAL* 4.2 22.5 - - + +
176Z LEU* 3.7 18.7 - - + +
188Z SER* 3.1 30.3 + - - -
190Z ASP* 4.7 19.5 + - - -
191Z ASN 5.9 1.1 - - - -
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Residues in contact with ARG 158 (chain Z).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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145K ARG* 3.7 47.4 - - - +
138Z VAL* 4.4 7.6 - - + -
142Z GLY* 5.1 6.7 - - - -
151Z GLN* 4.0 7.1 + - - +
154Z ASP* 2.8 31.4 + - + +
155Z LEU* 3.5 43.0 - - - +
156Z ALA 3.4 0.2 - - - -
157Z ARG* 1.3 71.7 - - + +
159Z ALA* 1.3 58.6 + - - +
161Z TYR* 3.2 6.4 + - - +
162Z GLN* 3.0 34.7 + - - +
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Residues in contact with ALA 159 (chain Z).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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4Z LEU* 3.4 21.8 - - + -
135Z ALA* 3.9 24.2 - - - +
138Z VAL* 4.0 19.0 - - + +
139Z MET* 4.5 9.6 - - + +
155Z LEU* 3.0 16.8 + - + +
156Z ALA* 4.8 0.2 - - - -
158Z ARG* 1.3 80.2 - - - +
160Z ILE* 1.4 59.3 + - - +
162Z GLN* 3.6 1.7 + - - +
163Z ALA* 3.4 20.6 + - - +
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Residues in contact with ILE 160 (chain Z).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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2Z THR* 3.7 30.1 - - + +
4Z LEU* 3.7 19.3 - - + +
15Z ALA* 3.5 33.7 - - + +
16Z ALA* 4.3 3.4 - - - +
17Z ASP* 4.2 13.7 - - + +
156Z ALA 3.0 21.3 + - - +
157Z ARG 4.3 0.2 - - - +
159Z ALA* 1.4 71.8 - - - +
161Z TYR* 1.3 65.8 + - - +
163Z ALA* 3.1 3.3 + - - +
164Z THR* 3.1 37.7 + - + +
174Z VAL* 3.7 28.0 - - + +
192Z VAL* 5.1 0.4 - - + -
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Residues in contact with TYR 161 (chain Z).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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145K ARG* 4.0 17.0 - - - -
157Z ARG 3.0 21.3 + - - +
158Z ARG* 3.2 4.5 + - - +
160Z ILE* 1.3 79.2 - - - +
162Z GLN* 1.3 82.5 + - - +
164Z THR* 3.3 11.5 + - - -
165Z TYR* 3.4 28.9 - + + +
174Z VAL* 5.0 1.1 - - + +
192Z VAL* 3.9 45.8 - - + -
194Z ASP* 5.3 4.5 - - - -
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Residues in contact with GLN 162 (chain Z).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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141K SER* 3.5 12.5 + - - +
144K ASP* 2.8 30.2 + - - +
145K ARG* 3.4 47.0 + - - +
134Z TYR* 4.1 9.4 - - - +
138Z VAL* 3.8 25.1 - - + -
158Z ARG 3.0 20.1 + - - +
159Z ALA 4.1 2.0 - - - +
160Z ILE 3.2 0.2 - - - -
161Z TYR* 1.3 98.9 - - + +
163Z ALA* 1.3 62.5 + - - +
165Z TYR* 3.8 12.9 - - - +
166Z ARG* 4.1 9.4 + - - +
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Residues in contact with ALA 163 (chain Z).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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2Z THR* 4.1 23.8 - - + +
131Z GLY 3.7 20.9 - - - +
134Z TYR* 3.9 14.2 - - + +
135Z ALA* 4.2 3.8 - - + -
159Z ALA 3.4 12.1 + - - +
160Z ILE 3.1 8.9 + - - +
162Z GLN* 1.3 76.9 - - - +
164Z THR* 1.3 60.6 + - + +
165Z TYR 3.1 2.0 - - - -
166Z ARG 3.3 2.3 + - - -
167Z ASP* 3.0 30.7 + - - +
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Residues in contact with THR 164 (chain Z).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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182J MET* 5.4 2.4 - - - +
17Z ASP* 3.5 40.2 - - + +
160Z ILE* 3.1 21.2 + - + +
161Z TYR* 3.3 11.8 + - - -
163Z ALA* 1.3 74.2 - - + +
165Z TYR* 1.3 64.5 + - - +
166Z ARG 3.2 0.4 - - - -
167Z ASP 3.3 7.0 - - - +
170Z SER* 3.1 30.9 - - - +
171Z GLY* 4.4 6.6 - - - +
172Z GLY 4.7 4.5 - - - +
192Z VAL* 3.9 19.7 - - + +
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Residues in contact with TYR 165 (chain Z).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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33J MET* 3.7 10.4 - - + +
36J THR* 2.9 27.8 + - + -
182J MET* 3.4 40.3 - - - +
129K PHE* 5.6 1.7 - - - -
144K ASP* 3.0 38.6 + - - -
161Z TYR* 3.4 34.3 + + + +
162Z GLN* 3.8 8.3 - - - +
164Z THR* 1.3 82.7 + - - +
166Z ARG* 1.3 87.5 + - + +
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Residues in contact with ARG 166 (chain Z).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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26J ARG* 4.1 1.8 + - - -
31J ALA 3.2 6.8 - - - +
32J GLN* 3.3 27.1 - - + +
33J MET* 3.1 71.1 + - - +
34J VAL* 4.3 6.9 + - - +
182J MET* 5.5 0.7 - - - -
129K PHE* 3.5 30.1 - - - -
140K LEU* 3.8 24.7 + - + +
141K SER* 6.0 3.8 - - - +
144K ASP* 3.9 15.5 + - + +
134Z TYR* 4.0 28.0 - - + -
162Z GLN 4.2 7.9 - - - +
163Z ALA 3.3 3.9 + - - +
165Z TYR* 1.3 101.8 + - + +
167Z ASP* 1.3 65.7 + - - +
168Z ALA 3.3 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