Contacts of the helix formed by residues 137 - 151 (chain B) in PDB entry 2AG1
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 HIS 137 (chain B).
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Specific contacts
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Residue Dist Surf HB Arom Phob DC
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132B VAL* 4.2 1.1 - - + -
133B MSE 4.7 10.4 + - + +
134B ALA* 3.0 40.9 + - + +
136B GLU* 1.3 85.1 + - + +
138B ILE* 1.3 65.0 + - - +
139B PRO* 3.5 0.7 - - - -
140B ARG* 3.4 39.4 + - - +
141B LEU* 2.9 45.7 + - + +
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Residues in contact with ILE 138 (chain B).
Click here for Legend to table.
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Specific contacts
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Residue Dist Surf HB Arom Phob DC
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6B GLY* 3.6 31.4 - - - +
9B LEU* 3.8 5.2 - - + +
10B VAL* 3.5 40.8 - - + +
132B VAL* 4.1 20.0 - - + -
135B THR* 3.0 21.8 + - + +
137B HIS* 1.3 75.6 - - - +
139B PRO* 1.4 58.9 - - + +
141B LEU* 3.7 1.7 - - - +
142B VAL* 2.8 44.1 + - + +
159B LEU* 5.2 0.2 - - - +
161B LEU* 4.2 12.6 - - + -
165B ILE* 3.7 22.0 - - + +
166B LEU* 4.5 3.6 - - + -
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Residues in contact with PRO 139 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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9B LEU* 3.8 27.1 - - + -
13B THR* 3.3 28.1 - - + +
135B THR 4.1 1.3 - - - +
136B GLU 3.7 12.1 - - - +
137B HIS 3.7 0.2 - - - -
138B ILE* 1.4 95.7 - - + +
140B ARG* 1.3 63.1 + - - +
143B MSE 3.1 24.9 + - - +
175B VAL* 3.8 14.4 - - + -
176B ILE 3.8 7.9 - - - +
177B ILE* 4.3 5.6 - - + -
178B PRO* 3.7 21.3 - - + +
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Residues in contact with ARG 140 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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136B GLU 5.2 1.7 + - - +
137B HIS* 3.4 48.1 + - - +
139B PRO* 1.3 79.7 - - - +
141B LEU* 1.3 83.2 + - + +
143B MSE 3.9 2.5 - - - +
144B GLN* 3.0 38.1 + - - +
147B ARG* 4.8 2.6 + - - -
178B PRO* 4.3 16.3 - - + +
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Residues in contact with LEU 141 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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128B TRP* 4.1 16.8 - - + -
130B HIS* 4.5 14.4 - - + +
132B VAL* 4.1 31.2 - - + -
133B MSE 5.3 0.2 - - - +
137B HIS* 2.9 36.5 + - + +
138B ILE 4.0 1.3 - - - +
140B ARG* 1.3 110.2 - - + +
142B VAL* 1.3 60.5 + - - +
143B MSE 3.2 0.2 - - - -
144B GLN* 3.6 16.8 - - - +
145B ALA* 2.8 30.7 + - - +
159B LEU* 4.3 6.9 - - + +
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Residues in contact with VAL 142 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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10B VAL* 4.5 17.9 - - + +
13B THR* 3.8 20.4 - - + -
14B LEU* 3.9 17.3 - - + -
96B LEU* 4.4 6.9 - - + +
98B LEU* 4.9 2.0 - - + -
138B ILE* 2.8 40.5 + - + +
141B LEU* 1.3 71.1 - - - +
143B MSE 1.3 57.9 + - - +
145B ALA* 3.2 4.7 + - - +
146B ILE* 3.0 46.0 + - + +
159B LEU* 3.7 23.6 - - + -
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Residues in contact with MSE 143 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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13B THR* 4.2 16.2 - - + +
17B ALA* 3.8 15.9 - - + -
139B PRO 3.1 17.3 + - - +
140B ARG* 4.0 4.7 - - - +
142B VAL* 1.3 77.2 - - - +
144B GLN* 1.3 58.6 + - - +
146B ILE* 3.2 42.2 + - + +
147B ARG* 2.9 50.2 + - - +
178B PRO* 4.6 13.7 - - + +
179B ASP 3.6 18.2 - - - +
180B LEU* 3.2 48.7 - - + -
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Residues in contact with GLN 144 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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128B TRP* 3.5 32.0 - - + -
140B ARG* 3.0 25.7 + - - +
141B LEU* 3.6 21.6 - - - +
143B MSE 1.3 75.8 - - - +
145B ALA* 1.3 62.3 + - - +
147B ARG* 3.4 27.5 + - - +
148B ALA* 3.1 22.9 + - + +
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Residues in contact with ALA 145 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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96B LEU* 4.2 17.0 - - + -
128B TRP* 4.0 13.6 - - + -
141B LEU 2.8 18.2 + - - +
142B VAL 3.5 5.4 - - - +
144B GLN* 1.3 78.3 - - - +
146B ILE* 1.3 56.1 + - - +
148B ALA* 3.4 1.3 + - - -
149B ALA* 3.0 27.9 + - - +
157B VAL* 3.6 31.6 - - + +
159B LEU* 4.2 9.0 - - + -
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Residues in contact with ILE 146 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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13B THR 5.0 0.7 - - - +
14B LEU* 4.1 13.0 - - + -
17B ALA* 3.8 17.3 - - + -
19B VAL* 5.0 0.2 - - + -
67B LEU* 3.8 20.9 - - + -
96B LEU* 3.9 16.6 - - + -
142B VAL* 3.0 36.8 + - + +
143B MSE 3.4 33.0 - - + +
145B ALA* 1.3 74.8 - - - +
147B ARG* 1.3 65.8 + - - +
149B ALA* 3.2 6.0 + - - +
150B LEU* 3.0 45.6 + - + +
180B LEU* 4.5 3.1 - - + -
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Residues in contact with ARG 147 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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140B ARG 4.8 2.0 + - - -
143B MSE 2.9 41.2 + - - +
144B GLN* 3.5 37.9 - - + +
146B ILE* 1.3 77.6 - - - +
148B ALA* 1.3 61.5 + - - +
150B LEU* 4.0 1.2 - - - +
151B SER* 3.2 26.8 + - - -
178B PRO* 6.0 0.6 - - - +
179B ASP 5.3 1.4 + - - -
180B LEU* 3.9 18.8 - - + -
181B VAL 4.1 21.0 - - - +
182B LEU* 4.0 23.7 - - + +
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Residues in contact with ALA 148 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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127B LYS* 2.7 39.6 + - + +
128B TRP* 4.6 14.4 - - + -
144B GLN* 3.1 14.0 + - + +
145B ALA* 3.7 8.7 - - - +
146B ILE 3.3 0.2 - - - -
147B ARG* 1.3 76.0 - - - +
149B ALA* 1.3 59.2 - - - +
150B LEU 3.4 0.2 + - - -
151B SER* 3.6 5.9 + - - -
157B VAL* 4.0 13.7 - - + -
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Residues in contact with ALA 149 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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67B LEU* 4.0 22.9 - - + -
94B PRO* 3.5 11.7 - - + +
95B VAL 4.4 7.6 - - - +
96B LEU* 4.9 1.6 - - - +
145B ALA 3.0 17.5 + - - +
146B ILE* 3.6 6.1 - - - +
148B ALA* 1.3 78.1 - - - +
150B LEU* 1.3 60.2 + - - +
154B ARG* 3.6 3.3 - - - -
155B GLY 3.3 40.4 + - - +
157B VAL* 3.8 8.4 - - + +
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Residues in contact with LEU 150 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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66B LYS 4.8 1.3 - - - -
67B LEU* 3.9 37.9 - - + +
94B PRO* 4.3 10.1 - - + -
146B ILE* 3.0 39.8 + - + +
147B ARG 3.3 2.2 + - - +
149B ALA* 1.3 78.5 - - - +
151B SER* 1.3 58.4 + - - +
154B ARG* 3.0 32.2 + - + +
180B LEU* 4.2 18.2 - - + -
182B LEU* 4.4 14.6 - - + -
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Residues in contact with SER 151 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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127B LYS* 2.7 28.3 + - - -
147B ARG 3.2 17.6 + - - -
148B ALA* 3.7 7.4 + - - -
149B ALA 3.4 0.4 - - - -
150B LEU* 1.3 79.6 - - - +
152B ALA* 1.3 60.2 + - - +
153B PRO 3.0 7.7 - - - +
154B ARG* 3.5 4.4 + - - +
182B LEU* 5.0 15.3 - - - -
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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