Contacts of the helix formed by residues 137 - 151 (chain C) 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 C).
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Specific contacts
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Residue Dist Surf HB Arom Phob DC
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104A LEU 3.3 26.7 - - - -
105A ARG* 3.9 1.8 - - - -
106A ASP* 3.3 22.3 + - - -
107A ASP* 3.7 18.9 + - + +
132C VAL* 4.4 1.3 - - + -
133C MSE 4.8 0.8 - - - +
134C ALA* 3.0 36.4 + - + +
136C GLU* 1.3 86.0 + - + +
138C ILE* 1.3 65.0 + - - +
139C PRO* 3.5 0.7 - - - -
140C ARG* 3.3 34.7 + - - +
141C LEU* 3.0 41.1 + - + +
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Residues in contact with ILE 138 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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6C GLY* 3.7 30.5 - - - +
9C LEU* 3.8 6.3 - - + -
10C VAL* 3.6 38.4 - - + +
132C VAL* 4.1 17.7 - - + -
135C THR* 3.0 24.5 + - - +
137C HIS* 1.3 77.9 - - - +
139C PRO* 1.3 61.0 - - + +
141C LEU* 4.0 2.1 - - - +
142C VAL* 2.8 40.4 + - + +
161C LEU* 4.2 12.1 - - + -
165C ILE* 3.7 22.9 - - + +
166C LEU* 4.6 3.1 - - + -
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Residues in contact with PRO 139 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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9C LEU* 3.9 23.3 - - + -
13C THR* 3.3 28.3 - - + +
135C THR 4.2 0.2 - - - +
136C GLU 3.6 14.1 - - - +
137C HIS 3.7 0.4 - - - -
138C ILE* 1.3 93.3 - - + +
140C ARG* 1.3 62.4 + - - +
143C MSE 3.0 25.5 + - - +
175C VAL* 3.8 17.0 - - + -
176C ILE 3.9 6.7 - - - +
177C ILE* 4.3 6.1 - - + -
178C PRO* 3.7 21.5 - - + -
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Residues in contact with ARG 140 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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106A ASP* 4.3 0.4 - - - +
107A ASP 2.6 24.4 + - - -
108A GLU* 3.1 23.6 + - - +
109A THR* 3.6 12.7 - - - +
310B ARG 3.8 21.0 + - - +
311B LEU* 3.8 18.3 - - - +
136C GLU 5.3 1.8 + - - +
137C HIS* 3.3 42.6 + - - +
139C PRO* 1.3 79.4 - - - +
141C LEU* 1.3 83.1 + - + +
143C MSE 3.8 2.5 - - - +
144C GLN* 2.9 32.4 + - - +
147C ARG* 4.7 2.8 + - - -
178C PRO* 4.3 15.9 - - + +
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Residues in contact with LEU 141 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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107A ASP* 4.2 17.9 - - - +
108A GLU* 4.0 15.5 - - + -
128C TRP* 4.1 16.8 - - + -
130C HIS* 4.5 5.8 - - + -
132C VAL* 4.2 28.9 - - + -
137C HIS* 3.0 34.0 + - + +
138C ILE 4.0 2.0 - - - +
140C ARG* 1.3 107.7 - - + +
142C VAL* 1.3 65.2 + - - +
143C MSE 3.2 0.2 - - - -
144C GLN* 3.8 12.1 - - - +
145C ALA* 2.9 25.8 + - - +
159C LEU* 4.3 7.0 - - + +
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Residues in contact with VAL 142 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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10C VAL* 4.6 17.7 - - + -
13C THR* 3.8 18.2 - - + -
14C LEU* 3.9 18.6 - - + -
96C LEU* 4.5 5.4 - - + -
98C LEU* 4.9 2.7 - - + -
138C ILE* 2.8 38.7 + - + +
139C PRO 3.9 2.7 - - - +
141C LEU* 1.3 72.0 - - - +
143C MSE 1.3 64.0 + - - +
145C ALA* 3.2 3.7 + - - +
146C ILE* 3.1 46.9 + - + +
159C LEU* 3.7 22.9 - - + -
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Residues in contact with MSE 143 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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13C THR* 4.0 19.0 - - + +
17C ALA* 3.7 21.3 - - + -
139C PRO 3.0 17.4 + - - +
140C ARG* 3.8 5.6 - - - +
142C VAL* 1.3 78.4 - - - +
144C GLN* 1.3 56.2 + - - +
146C ILE* 3.3 39.5 + - + -
147C ARG* 3.0 48.0 + - - +
178C PRO* 4.6 14.4 - - + +
179C ASP 3.7 20.4 - - - +
180C LEU* 3.2 42.8 - - + -
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Residues in contact with GLN 144 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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108A GLU* 3.2 22.8 - - - +
306B CYS* 3.8 30.7 - - + +
310B ARG* 3.4 41.5 + - - +
128C TRP* 3.5 21.1 - - + -
140C ARG* 2.9 20.6 + - - +
141C LEU* 3.8 21.2 - - - +
142C VAL 3.3 0.2 - - - -
143C MSE 1.3 71.3 - - - +
145C ALA* 1.3 67.3 + - - +
147C ARG* 3.3 16.1 + - - +
148C ALA* 2.9 23.0 + - - +
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Residues in contact with ALA 145 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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96C LEU* 4.2 16.4 - - + -
128C TRP* 3.9 18.1 - - + -
141C LEU 2.9 18.3 + - - +
142C VAL* 3.5 4.9 - - - +
144C GLN* 1.3 76.2 - - - +
146C ILE* 1.3 57.5 + - - +
148C ALA* 3.2 1.6 + - - -
149C ALA* 2.9 25.5 + - - +
157C VAL* 3.6 31.9 - - + +
159C LEU* 4.2 8.5 - - + -
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Residues in contact with ILE 146 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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14C LEU* 4.2 10.8 - - + -
17C ALA* 3.8 17.0 - - + -
19C VAL* 5.0 0.2 - - + -
67C LEU* 3.9 24.2 - - + -
96C LEU* 4.0 16.2 - - + -
142C VAL* 3.1 30.2 + - + +
143C MSE 3.4 34.5 - - + +
144C GLN 3.2 0.2 - - - -
145C ALA* 1.3 73.1 - - - +
147C ARG* 1.3 66.9 + - - +
149C ALA* 3.2 7.6 + - - +
150C LEU* 3.0 45.4 + - + +
180C LEU* 4.4 4.3 - - + -
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Residues in contact with ARG 147 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
305B ALA* 2.9 35.5 + - + +
306B CYS 2.7 23.6 + - - +
308B LEU* 3.1 24.0 + - - -
309B GLY 4.7 4.4 + - - -
310B ARG* 3.8 13.9 - - - +
140C ARG 4.7 2.0 + - - -
143C MSE 3.0 48.4 + - - +
144C GLN* 3.3 24.5 + - - +
146C ILE* 1.3 77.1 - - - +
148C ALA* 1.3 62.6 + - - +
150C LEU* 3.3 0.9 + - - +
151C SER* 3.1 27.8 + - - -
178C PRO* 6.1 0.8 - - - +
179C ASP 5.3 1.4 + - - -
180C LEU* 3.8 19.7 - - + -
181C VAL 4.2 17.2 - - - +
182C LEU* 4.0 17.3 - - + +
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Residues in contact with ALA 148 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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304B ASP* 5.7 0.2 - - - -
305B ALA* 5.2 0.7 - - - -
306B CYS* 3.3 28.4 - - - -
127C LYS* 2.8 37.7 + - + +
128C TRP* 4.6 12.1 - - + -
144C GLN 2.9 8.8 + - - +
145C ALA* 3.6 8.5 - - - +
146C ILE 3.2 0.2 - - - -
147C ARG* 1.3 77.5 - - - +
149C ALA* 1.3 59.5 + - - +
150C LEU 3.4 0.3 + - - -
151C SER* 3.7 5.2 + - - -
157C VAL* 4.0 14.1 - - + -
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Residues in contact with ALA 149 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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67C LEU* 4.0 22.9 - - + -
94C PRO* 3.4 9.8 - - + +
95C VAL 4.5 10.1 - - - +
96C LEU* 4.8 1.3 - - - +
145C ALA 2.9 13.8 + - - +
146C ILE* 3.5 9.9 - - - +
148C ALA* 1.3 77.2 - - - +
150C LEU* 1.3 60.1 + - - +
154C ARG* 3.5 2.8 - - - -
155C GLY 3.3 39.7 + - - +
157C VAL* 3.7 9.7 - - + +
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Residues in contact with LEU 150 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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66C LYS 4.8 1.3 - - - -
67C LEU* 4.0 35.0 - - + +
94C PRO* 4.4 11.0 - - + -
146C ILE* 3.0 38.6 + - + +
147C ARG 4.2 2.0 - - - +
148C ALA 3.3 0.2 - - - -
149C ALA* 1.3 75.9 - - - +
151C SER* 1.3 60.2 + - - +
154C ARG* 2.9 33.4 + - + +
180C LEU* 4.2 17.9 - - + -
182C LEU* 4.5 15.9 - - + -
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Residues in contact with SER 151 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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304B ASP* 5.6 0.3 + - - -
305B ALA* 3.2 29.2 + - - +
319B VAL* 4.8 14.8 - - - -
127C LYS* 2.8 26.2 + - - -
147C ARG 3.1 14.8 + - - -
148C ALA* 3.8 6.6 + - - -
149C ALA 3.4 0.8 - - - -
150C LEU* 1.3 80.8 - - - +
152C ALA* 1.3 60.3 + - - +
153C PRO 2.9 8.4 - - - +
154C ARG* 3.3 5.7 + - - +
182C LEU* 5.1 4.7 - - - -
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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