Contacts of the strand formed by residues 171 - 185 (chain A) in PDB entry 2X6B
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 ILE 171 (chain A).
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Specific contacts
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Residue Dist Surf HB Arom Phob DC
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140A ALA* 4.1 6.7 - - + +
142A VAL* 3.9 18.2 - - + -
165A ASN* 4.1 8.1 - - - +
170A ALA* 1.3 74.1 - - - +
172A ILE* 1.3 65.1 + - - +
174A ALA* 3.9 12.2 - - + +
207A ILE* 3.5 1.7 - - - -
208A PHE* 2.8 51.3 + - + +
243A PHE* 3.8 22.4 - - + -
245A GLY* 3.7 13.9 - - - +
246A HIS 3.6 28.3 - - - +
247A HIS* 3.5 31.4 - - + +
254A VAL* 4.5 0.9 - - + -
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Residues in contact with ILE 172 (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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170A ALA* 5.0 1.8 - - + -
171A ILE* 1.3 79.2 - - - +
173A GLU* 1.3 70.8 + - + +
174A ALA 2.9 6.1 + - - -
206A PRO 3.3 7.2 - - - +
207A ILE* 3.8 21.5 - - + -
246A HIS* 2.9 66.3 + - + +
248A GLU* 4.8 23.3 - - + +
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Residues in contact with GLU 173 (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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172A ILE* 1.3 74.6 - - + +
174A ALA* 1.3 65.2 + - - +
175A ASP* 3.6 3.1 + - - +
204A ARG* 3.5 39.3 + - - +
205A SER 3.4 4.5 - - - -
206A PRO* 2.6 47.1 + - - +
245A GLY* 4.6 2.9 - - - -
246A HIS* 5.9 1.3 - - + -
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Residues in contact with ALA 174 (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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171A ILE* 3.9 14.6 - - + +
172A ILE 2.9 2.2 - - - -
173A GLU* 1.3 78.4 - - - +
175A ASP* 1.3 56.7 + - - +
204A ARG* 3.7 0.2 - - - -
205A SER* 2.8 40.0 + - - +
208A PHE* 4.3 15.5 - - + -
212A TRP* 4.3 4.0 - - + -
243A PHE* 3.7 31.0 - - + -
244A THR 3.3 7.0 - - - +
245A GLY* 3.8 3.8 - - - -
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Residues in contact with ASP 175 (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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173A GLU 4.1 2.9 - - - +
174A ALA* 1.3 75.7 - - - +
176A VAL* 1.3 67.0 + - - +
177A HIS* 4.0 17.3 + - - -
203A SER* 3.1 20.4 + - - +
204A ARG* 2.6 38.9 + - + +
212A TRP* 4.1 2.9 - - - -
242A LEU 3.7 0.5 - - - +
243A PHE* 3.6 0.3 - - - -
244A THR* 2.8 48.7 + - - +
245A GLY* 5.3 0.2 - - - -
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Residues in contact with VAL 176 (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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163A LEU* 4.1 13.2 - - + -
175A ASP* 1.3 81.2 - - - +
177A HIS* 1.3 71.3 + - - +
200A LEU* 3.5 18.9 - - + +
203A SER* 3.2 27.7 + - - +
212A TRP* 3.5 24.9 - - + -
214A VAL* 3.5 26.5 - - + -
241A VAL* 4.9 5.8 - - + -
242A LEU 3.1 9.4 - - - +
243A PHE* 3.7 20.4 - - + -
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Residues in contact with HIS 177 (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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175A ASP* 4.0 18.9 + - - -
176A VAL* 1.3 85.5 + - - +
178A LEU* 1.3 62.2 + - - +
179A VAL* 4.0 13.7 - - + -
197A ASP* 3.6 22.2 + - - +
198A LEU 5.7 0.2 - - - -
200A LEU* 4.5 2.2 - - - -
203A SER* 5.2 5.7 + - - -
240A LEU 3.2 6.1 - - - +
241A VAL* 3.5 4.0 - - - +
242A LEU* 2.9 52.0 + - + -
244A THR* 5.3 4.7 + - + -
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Residues in contact with LEU 178 (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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148A MET* 4.6 9.9 - - + -
159A LEU* 4.4 27.8 - - + +
161A MET* 4.2 14.1 - - + -
177A HIS* 1.3 72.3 - - - +
179A VAL* 1.3 55.1 + - - +
197A ASP* 3.4 2.5 + - - +
198A LEU* 2.7 47.6 + - + +
200A LEU* 3.8 23.2 - - + +
214A VAL* 3.9 28.0 - - + -
215A MET* 5.1 0.4 - - - -
216A HIS* 4.4 6.5 - - + +
239A PHE* 5.1 6.3 - - + -
240A LEU 4.2 4.5 - - - +
241A VAL* 3.5 33.0 - - + -
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Residues in contact with VAL 179 (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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177A HIS* 4.0 10.8 - - + -
178A LEU* 1.3 76.8 - - - +
180A LEU* 1.3 70.3 + - - +
181A VAL* 3.5 8.3 + - + +
195A PHE* 3.3 41.3 - - + -
196A HIS 3.3 15.9 - - - +
197A ASP* 4.1 10.5 - - + +
198A LEU* 4.6 0.2 - - - -
239A PHE* 4.5 1.1 - - - +
240A LEU* 3.1 38.2 + - + +
242A LEU* 3.5 31.0 - - + -
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Residues in contact with LEU 180 (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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179A VAL* 1.3 74.4 - - - +
181A VAL* 1.3 74.6 + - - +
182A ARG* 4.0 20.9 - - + +
195A PHE 3.9 0.3 - - - -
196A HIS* 2.9 41.2 + - + +
198A LEU* 3.7 19.8 - - + +
223A PRO* 3.3 34.5 - - + -
224A ILE* 4.1 9.6 - - + -
232A LEU* 5.0 0.9 - - + -
237A SER* 3.5 33.9 - - - +
238A GLU 3.5 7.2 - - - +
239A PHE* 3.9 24.0 - - + -
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Residues in contact with VAL 181 (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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14A ILE* 5.8 9.0 - - + -
15A LEU* 5.1 16.2 - - + -
179A VAL* 3.7 10.3 - - + +
180A LEU* 1.3 82.2 - - - +
182A ARG* 1.3 64.2 + - - +
193A ARG* 4.2 25.6 - - + -
194A ARG 3.5 5.4 - - - +
195A PHE* 4.4 26.2 - - + -
236A HIS 3.8 1.6 - - - +
237A SER* 3.1 2.4 - - - -
238A GLU* 2.7 50.9 + - + +
240A LEU* 5.3 3.8 - - + -
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Residues in contact with ARG 182 (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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180A LEU* 4.0 17.2 - - + +
181A VAL* 1.3 79.2 - - - +
183A SER* 1.3 57.5 + - - +
184A GLU* 2.7 36.1 + - + +
193A ARG* 3.7 6.3 - - - -
194A ARG 2.7 31.8 + - - +
196A HIS* 4.6 3.0 + - - -
223A PRO* 2.8 37.3 + - - +
224A ILE* 4.8 0.6 - - - +
227A GLU* 3.2 36.8 + - - +
232A LEU* 4.6 2.4 - - - +
235A SER* 3.2 22.3 + - - +
236A HIS 4.2 2.7 - - - -
237A SER* 3.0 29.9 + - - +
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Residues in contact with SER 183 (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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182A ARG* 1.3 73.1 - - - +
184A GLU* 1.3 63.0 + - - +
185A ILE* 5.9 0.8 - - - +
191A VAL* 5.1 13.5 - - - -
192A PHE 3.6 9.4 - - - -
193A ARG* 3.8 15.6 - - - +
235A SER* 3.0 28.9 + - - +
236A HIS* 4.8 11.9 + - - +
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Residues in contact with GLU 184 (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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182A ARG* 2.7 46.1 + - + +
183A SER* 1.3 81.5 - - - +
185A ILE* 1.3 70.3 + - - +
186A SER 3.4 1.6 + - - -
191A VAL* 4.5 1.5 - - - +
192A PHE* 2.8 42.4 + - + +
194A ARG* 3.5 20.5 - - + +
196A HIS* 3.0 29.6 + - - -
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Residues in contact with ILE 185 (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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183A SER 5.9 0.7 - - - +
184A GLU* 1.3 74.6 - - - +
186A SER* 1.3 79.4 + - - +
189A GLY 4.7 8.1 - - - +
190A MET 5.6 0.2 - - - -
191A VAL* 3.4 30.3 - - + +
192A PHE* 4.5 1.3 - - - -
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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