Contacts of the strand formed by residues 174 - 182 (chain L) in PDB entry 2IG2
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 TYR 174 (chain L).
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Specific contacts
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Residue Dist Surf HB Arom Phob DC
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104L LYS* 5.5 6.6 - - - +
140L ASP* 3.5 9.0 + - - -
141L PHE* 2.6 59.7 + - + +
142L TYR* 4.5 16.4 - + - -
143L PRO 4.4 0.4 - - - -
144L GLY* 3.2 38.4 - - - -
166L PRO* 3.5 23.1 - - + -
167L SER 2.9 23.3 - - - -
168L LYS* 5.4 13.3 - - + +
169L GLN* 4.4 2.0 - - - +
172L ASN 5.4 1.3 - - - -
173L LYS* 1.3 80.6 - - - +
175L ALA* 1.3 60.5 + - - +
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Residues in contact with ALA 175 (chain L).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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169H HIS* 4.7 4.7 - - + +
171H PHE* 4.5 15.0 - - + -
172H PRO* 4.9 13.7 - - + +
138L ILE 3.5 9.9 - - - +
139L SER* 5.0 0.7 - - - -
141L PHE* 3.8 4.3 - - - -
165L LYS 3.9 2.3 - - - +
166L PRO* 3.2 4.9 - - - +
167L SER* 2.9 28.9 + - - +
168L LYS 5.2 3.4 - - - +
169L GLN* 3.9 22.7 - - + +
174L TYR* 1.3 75.3 - - - +
176L ALA* 1.3 61.3 + - - +
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Residues in contact with ALA 176 (chain L).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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171H PHE* 3.3 11.2 - - - -
172H PRO* 5.9 1.6 - - - -
138L ILE* 2.8 57.0 + - + +
141L PHE* 3.7 12.9 - - + -
146L VAL* 4.1 8.3 - - + -
163L THR* 5.4 1.6 - - + -
164L THR* 3.3 21.5 - - - +
166L PRO* 4.5 4.9 - - + -
175L ALA* 1.3 77.5 - - - +
177L SER* 1.3 60.2 + - - +
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Residues in contact with SER 177 (chain L).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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171H PHE* 3.7 15.1 - - - +
172H PRO* 4.0 3.6 + - - +
136L CYS 3.3 11.7 - - - -
137L LEU* 3.7 15.6 - - - +
138L ILE* 4.9 3.6 - - - -
163L THR* 3.1 6.5 - - - +
164L THR* 2.8 51.7 + - - +
176L ALA* 1.3 76.7 + - - +
178L SER* 1.3 61.8 + - - +
179L TYR* 3.6 20.2 + - - -
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Residues in contact with SER 178 (chain L).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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135L VAL* 3.9 0.2 - - - -
136L CYS* 2.8 36.6 + - - -
138L ILE* 5.5 0.2 - - - -
148L VAL* 3.8 19.2 - - - +
150L TRP* 3.0 31.6 + - - -
161L VAL* 3.6 6.8 - - - +
162L GLU 3.6 3.8 - - - -
163L THR* 2.8 25.3 + - - -
177L SER* 1.3 78.1 - - - +
179L TYR* 1.3 63.4 + - - +
180L LEU 3.9 0.4 - - - -
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Residues in contact with TYR 179 (chain L).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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146H LEU* 3.5 24.5 - - + -
148H LYS* 6.3 0.4 - - + -
171H PHE* 5.4 0.2 - - - +
172H PRO 5.0 1.6 + - - -
174H VAL* 3.5 31.2 - - + -
176H GLN* 5.8 4.5 - - + +
182H SER* 3.6 15.9 + - - -
183H LEU* 3.3 15.2 - - - -
184H SER* 2.8 20.8 + - - -
133L THR* 4.1 13.5 - - + -
134L LEU 3.5 4.3 - - - +
135L VAL* 3.5 30.0 - - + +
137L LEU* 4.7 0.2 - - - +
160L GLY 2.9 12.9 - - - +
161L VAL* 4.5 0.7 - - - -
162L GLU* 2.8 30.1 + - + +
164L THR* 4.8 0.7 - - + -
177L SER* 3.6 26.9 + - - -
178L SER* 1.3 75.1 + - - +
180L LEU* 1.3 60.9 + - - +
181L SER* 3.1 9.5 + - - +
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Residues in contact with LEU 180 (chain L).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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132L ALA 3.8 1.0 - - - +
133L THR* 3.6 4.9 - - - +
134L LEU* 2.9 54.0 + - + +
150L TRP* 3.4 41.8 - - + -
157L VAL* 3.9 18.2 - - + -
159L ALA* 4.7 0.9 - - + -
160L GLY 3.0 18.8 - - - +
161L VAL* 3.6 22.0 - - + +
178L SER 3.8 3.6 + - - -
179L TYR* 1.3 70.4 - - - +
181L SER* 1.3 61.6 + - - +
182L LEU* 3.9 15.8 + - + +
193L TYR* 3.7 20.0 - - + -
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Residues in contact with SER 181 (chain L).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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176H GLN* 5.6 1.6 + - - -
132L ALA 3.7 3.8 - - - -
133L THR* 4.5 10.6 + - - +
159L ALA* 4.8 3.5 - - - +
160L GLY* 2.7 36.1 + - - -
162L GLU* 5.9 0.9 - - - +
179L TYR* 3.1 11.8 + - - +
180L LEU* 1.3 73.6 - - - +
182L LEU* 1.3 66.1 + - - +
186L GLN* 4.9 1.0 - - - +
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Residues in contact with LEU 182 (chain L).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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131L LYS* 4.8 1.9 - - - +
132L ALA* 3.0 38.4 + - + +
134L LEU* 3.4 32.1 - - + -
157L VAL* 5.4 3.8 - - + -
159L ALA* 5.9 2.5 - - + -
180L LEU* 3.9 24.2 - - + -
181L SER* 1.3 78.3 - - - +
183L THR* 1.3 65.3 + - - +
184L PRO* 4.2 0.5 - - - +
186L GLN* 3.6 15.3 - - + +
187L TRP* 3.7 19.1 - - + -
193L TYR* 3.7 29.2 - - + +
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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