Contacts of the helix formed by residues 143 - 157 (chain A) in PDB entry 2CG2
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 PRO 143 (chain A).
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Specific contacts
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Residue Dist Surf HB Arom Phob DC
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142A THR* 1.4 90.8 - - - +
144A ALA* 1.3 55.8 + - - +
146A ALA 3.4 0.5 + - - -
147A ARG* 2.8 31.9 + - - +
176A GLY 3.6 5.6 - - - +
177A GLY* 3.5 11.4 - - - +
179A ARG* 4.0 7.9 - - + +
180A GLY* 3.4 23.8 - - - +
247A PRO* 3.3 20.6 - - + +
249A SER* 3.8 23.8 - - - +
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Residues in contact with ALA 144 (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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65A ILE* 3.4 13.1 - - + +
66A ARG 3.4 26.0 - - - +
67A ASN* 3.6 21.3 - - - +
68A PRO* 4.9 6.2 - - + +
73A ALA* 4.3 2.9 - - + -
142A THR* 3.2 2.8 + - + +
143A PRO* 1.3 78.6 - - - +
145A THR* 1.3 58.0 + - - +
147A ARG* 3.8 4.9 - - - +
148A ALA* 2.8 29.8 + - - +
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Residues in contact with THR 145 (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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65A ILE* 4.0 14.6 - - + -
73A ALA* 4.2 2.0 - - + -
74A TRP* 3.9 12.8 - - + -
120A PHE* 3.2 29.9 - - - +
121A ASP* 2.8 17.1 + - - -
140A LEU* 3.4 13.2 - - - +
142A THR* 3.0 18.7 + - + +
144A ALA* 1.3 73.8 - - - +
146A ALA* 1.3 60.8 + - - +
148A ALA* 3.3 2.3 + - - +
149A ALA* 2.8 30.5 + - - +
244A ALA* 3.5 25.4 - - + -
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Residues in contact with ALA 146 (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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125A ILE* 4.6 1.8 - - + -
139A THR 3.1 26.0 - - - +
140A LEU* 3.7 10.5 - - - +
142A THR 3.4 1.9 + - - +
143A PRO 3.6 3.1 - - - +
145A THR* 1.3 81.6 + - - +
147A ARG* 1.3 63.4 + - - +
149A ALA* 3.1 4.7 + - - +
150A TYR* 2.9 24.1 + - - +
177A GLY 3.2 20.9 - - - +
180A GLY* 4.5 0.7 - - - -
181A LEU* 3.7 21.7 - - + +
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Residues in contact with ARG 147 (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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143A PRO 2.8 22.5 + - - +
144A ALA* 3.8 5.6 - - - +
146A ALA* 1.3 73.3 - - - +
148A ALA* 1.3 64.6 + - - +
150A TYR* 3.1 38.3 + - - +
151A GLU* 2.9 47.7 + - - +
179A ARG 5.1 1.8 + - - -
180A GLY* 2.8 35.3 + - - +
181A LEU 3.6 13.7 + - - -
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Residues in contact with ALA 148 (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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63A LEU* 5.6 0.4 - - + -
65A ILE* 3.7 31.2 - - + -
120A PHE* 3.6 13.3 - - + -
144A ALA 2.8 22.5 + - - +
145A THR 3.6 4.5 - - - +
147A ARG* 1.3 73.3 - - - +
149A ALA* 1.3 62.5 + - - +
151A GLU* 3.4 12.8 + - - +
152A LEU* 3.1 17.8 + - - +
155A ARG* 5.1 1.4 + - - -
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Residues in contact with ALA 149 (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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117A VAL* 3.7 16.3 - - + +
120A PHE* 3.6 13.6 - - + -
125A ILE* 3.6 33.2 - - + -
127A PHE* 4.5 1.1 - - + -
140A LEU* 4.2 3.1 - - + -
145A THR 2.8 16.7 + - - +
146A ALA 3.1 5.6 + - - +
148A ALA* 1.3 73.9 - - - +
150A TYR* 1.3 65.4 + - - +
152A LEU* 3.3 4.2 + - - +
153A VAL* 3.1 26.7 + - - +
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Residues in contact with TYR 150 (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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127A PHE* 3.7 22.6 - + + -
134A TRP* 3.9 15.9 - + - -
146A ALA 2.9 15.9 + - - +
147A ARG* 3.3 35.9 - - - +
149A ALA* 1.3 76.2 - - - +
151A GLU* 1.3 59.0 + - + +
153A VAL* 3.3 2.0 + - + +
154A SER* 2.9 48.4 + - - -
159A GLU* 4.7 6.1 - - + +
160A ARG 2.6 31.4 + - - -
161A PRO* 3.9 7.1 - - - +
162A ILE* 3.6 25.8 + - + +
181A LEU* 3.9 12.8 - - + -
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Residues in contact with GLU 151 (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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147A ARG* 2.9 47.0 + - + +
148A ALA* 3.7 10.2 - - - +
150A TYR* 1.3 75.0 - - + +
152A LEU* 1.3 59.8 + - - +
154A SER* 3.3 7.0 + - - +
155A ARG* 2.9 51.1 + - + +
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Residues in contact with LEU 152 (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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58A ARG* 4.1 17.7 - - + -
60A PRO* 3.9 11.4 - - + -
106A GLY 4.1 0.7 - - - -
107A LEU* 3.9 32.1 - - + +
117A VAL* 4.5 4.3 - - + -
120A PHE* 3.4 32.8 - - + -
148A ALA 3.1 14.0 + - - +
149A ALA 3.3 8.7 + - - +
151A GLU* 1.3 74.3 - - - +
153A VAL* 1.3 63.4 + - - +
155A ARG* 3.2 28.5 + - - +
156A GLU* 3.0 46.7 + - + +
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Residues in contact with VAL 153 (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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107A LEU* 3.7 30.5 - - + -
117A VAL* 3.8 3.1 - - + -
127A PHE* 3.8 33.9 - - + -
134A TRP* 3.5 42.2 - - + +
149A ALA 3.1 13.1 + - - +
150A TYR* 3.4 10.5 - - + +
152A LEU* 1.3 76.7 - - - +
154A SER* 1.3 54.9 + - - +
157A LEU* 2.7 40.7 + - + +
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Residues in contact with SER 154 (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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150A TYR* 2.9 44.3 + - - -
151A GLU* 3.8 7.6 - - - -
152A LEU 3.3 0.2 - - - -
153A VAL* 1.3 72.1 - - - +
155A ARG* 1.3 59.6 + - - +
158A GLY* 2.9 35.6 + - - -
159A GLU* 3.5 25.7 + - - +
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Residues in contact with ARG 155 (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 PRO* 4.7 11.1 - - - +
120A PHE* 5.9 0.4 - - - -
148A ALA 5.1 1.0 + - - -
151A GLU* 2.9 44.7 + - + +
152A LEU* 3.4 37.2 - - - +
154A SER* 1.3 77.4 - - - +
156A GLU* 1.3 71.6 + - - +
158A GLY 4.7 0.5 + - - -
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Residues in contact with GLU 156 (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 ILE* 3.8 14.4 - - + +
58A ARG* 2.9 55.3 + - + +
107A LEU* 3.5 29.2 - - + -
152A LEU* 3.0 24.8 + - + +
155A ARG* 1.3 89.2 + - - +
157A LEU* 1.3 65.1 + - + +
158A GLY 3.6 0.7 - - - -
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Residues in contact with LEU 157 (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 ILE* 4.3 13.2 - - + -
107A LEU* 4.2 13.2 - - + -
115A TYR* 3.6 58.6 - - + +
134A TRP* 3.9 21.6 - - + -
153A VAL* 2.7 27.3 + - + +
156A GLU* 1.3 82.4 - - + +
158A GLY* 1.3 61.0 + - - +
160A ARG* 5.4 2.8 - - - +
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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