Contacts of the helix formed by residues 162 - 180 (chain B) in PDB entry 4UFT
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 GLY 162 (chain B).
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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156B GLU* 5.6 7.7 - - - +
161B GLU* 1.3 73.1 - - - +
163B PHE* 1.3 64.0 + - - +
164B ASN* 3.2 15.6 + - - -
165B MET* 3.2 19.6 + - - +
166B ILE* 3.1 24.8 + - - +
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Residues in contact with PHE 163 (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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45B ILE* 3.7 42.0 - - + -
48B ARG* 3.8 30.5 - - + -
49B SER* 4.1 28.0 - - - -
52B LEU* 5.7 7.2 - - + -
79B LEU* 4.9 14.1 - - + -
156B GLU* 5.8 3.8 - - - +
159B ASP 5.0 1.5 + - - +
160B PRO 3.4 16.8 + - - +
161B GLU 3.4 1.0 + - - -
162B GLY* 1.3 77.4 - - - +
164B ASN* 1.3 63.4 + - - +
166B ILE* 3.4 14.7 - - + +
167B LEU* 3.1 43.5 + - + +
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Residues in contact with ASN 164 (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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160B PRO 4.7 1.4 + - - -
161B GLU* 4.9 1.0 - - - -
162B GLY 3.4 11.1 + - - -
163B PHE* 1.3 79.1 - - + +
165B MET* 1.3 93.9 + - - +
167B LEU* 4.1 2.9 - - - +
168B GLY* 3.1 22.5 + - - -
249B ARG* 3.4 31.8 + - - +
250B ILE* 4.6 21.3 - - + +
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Residues in contact with MET 165 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
161B GLU* 6.1 0.9 - - + -
162B GLY* 3.2 21.0 + - - +
164B ASN* 1.3 118.4 + - - +
166B ILE* 1.3 54.8 - - - +
168B GLY* 3.2 1.8 + - - -
169B THR* 2.7 39.1 + - - +
205B VAL* 3.9 11.0 - - + +
206B VAL* 4.2 35.7 - - + +
249B ARG* 3.6 25.6 - - - +
253B MET* 6.6 0.2 - - - -
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Residues in contact with ILE 166 (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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52B LEU* 4.8 16.5 - - + +
147B PHE* 6.2 2.2 - - + -
152B ILE* 5.9 1.1 - - + -
155B ILE* 4.5 13.5 - - + +
156B GLU* 3.8 32.3 - - + -
162B GLY 3.1 11.2 + - - +
163B PHE* 3.4 26.2 - - + +
165B MET* 1.3 79.0 - - - +
167B LEU* 1.3 63.5 + - - +
169B THR* 3.8 15.8 - - - -
170B ILE* 4.0 14.8 + - + +
209B PHE* 3.8 42.6 - - + -
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Residues in contact with LEU 167 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
52B LEU* 4.1 18.2 - - + -
76B ILE 4.6 0.9 - - - +
79B LEU* 3.9 45.5 - - + +
80B PHE* 4.5 2.5 - - + -
163B PHE* 3.1 34.7 + - + +
164B ASN* 4.1 2.9 - - - +
166B ILE* 1.3 78.2 - - + +
168B GLY* 1.3 66.9 + - - +
169B THR 3.3 0.7 + - - -
170B ILE* 3.4 11.4 + - + +
171B LEU* 3.4 42.1 - - + +
250B ILE* 4.1 23.6 - - + -
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Residues in contact with GLY 168 (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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164B ASN 3.1 14.6 + - - -
165B MET* 3.6 3.6 - - - -
167B LEU* 1.3 82.5 - - - +
169B THR* 1.3 59.2 + - - +
171B LEU* 3.9 5.8 - - - +
172B ALA* 3.0 32.7 + - - +
205B VAL* 4.7 1.3 - - - -
250B ILE* 5.4 9.4 - - - -
253B MET* 3.8 19.0 - - - +
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Residues in contact with THR 169 (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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147B PHE* 5.8 0.2 - - + -
165B MET* 2.7 25.8 + - - +
166B ILE* 3.8 11.0 - - - -
167B LEU 3.2 0.4 - - - -
168B GLY* 1.3 79.0 - - - +
170B ILE* 1.3 65.2 + - + +
172B ALA* 3.6 8.7 + - - +
173B GLN* 3.7 18.3 + - - +
196B TRP* 4.0 15.1 - - + -
205B VAL* 3.3 20.0 - - + +
206B VAL* 4.8 1.7 + - - +
208B GLU 3.9 8.1 - - - +
209B PHE* 3.7 42.0 - - + +
211B LEU* 5.2 1.1 - - + -
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Residues in contact with ILE 170 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
52B LEU* 4.1 33.7 - - + -
56B VAL* 5.0 14.1 - - + -
76B ILE* 4.5 20.9 - - + -
147B PHE* 5.2 11.9 - - + -
155B ILE* 6.1 0.9 - - + -
166B ILE* 4.1 16.4 - - + +
167B LEU 3.4 6.3 + - - +
169B THR* 1.3 76.0 - - + +
171B LEU* 1.3 71.1 + - + +
173B GLN* 3.3 13.5 + - - +
174B ILE* 3.4 17.8 + - + +
211B LEU* 4.8 21.5 - - + -
215B TRP* 4.5 23.5 - - + -
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Residues in contact with LEU 171 (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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76B ILE* 3.3 25.1 - - + +
77B LEU* 3.5 33.9 - - + +
80B PHE* 3.9 21.8 - - + -
167B LEU* 3.4 36.5 + - + +
168B GLY* 4.0 5.4 - - - +
169B THR 3.4 0.2 - - - -
170B ILE* 1.3 86.0 - - + +
172B ALA* 1.3 63.5 + - - +
174B ILE* 3.1 18.3 + - + +
175B TRP* 3.2 22.0 + - + +
250B ILE* 4.8 3.6 - - + -
253B MET* 6.4 0.2 - - - -
254B ILE* 4.2 21.3 - - + -
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Residues in contact with ALA 172 (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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168B GLY 3.0 20.0 + - - +
169B THR* 3.8 7.2 - - - +
170B ILE 3.3 0.2 - - - -
171B LEU* 1.3 77.2 - - - +
173B GLN* 1.3 62.5 + - + +
175B TRP* 3.9 1.9 + - - -
176B VAL* 3.3 25.2 + - - +
196B TRP* 5.8 4.5 - - + -
199B TYR* 6.5 0.9 - - + -
205B VAL* 5.8 5.4 - - + -
253B MET* 4.0 21.0 - - + -
254B ILE* 5.5 2.0 - - - +
257B ILE* 4.2 18.0 - - + +
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Residues in contact with GLN 173 (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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169B THR* 3.7 11.2 + - - +
170B ILE 3.3 7.1 + - - +
171B LEU 3.2 0.4 - - - -
172B ALA* 1.3 75.5 - - + +
174B ILE* 1.3 66.4 + - + +
176B VAL* 3.4 14.7 + - - +
177B LEU* 3.4 21.3 + - - +
192B GLU* 4.9 6.5 - - - +
196B TRP* 3.5 36.2 - - + -
209B PHE 4.0 1.8 + - - -
210B ARG* 3.9 18.5 + - - +
211B LEU* 3.4 43.9 - - + +
215B TRP* 5.6 3.0 - - + -
216B LEU* 3.6 25.5 - - + +
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Residues in contact with ILE 174 (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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59B ILE* 6.5 0.2 - - + -
73B LEU* 5.1 15.3 - - + -
76B ILE* 5.6 8.5 - - + -
77B LEU* 4.5 18.8 - - + -
170B ILE* 3.4 22.4 - - + +
171B LEU* 3.1 11.8 + - + +
173B GLN* 1.3 77.9 - - + +
175B TRP* 1.3 66.0 + - + +
177B LEU* 3.2 22.6 + - + +
178B VAL* 3.5 7.4 + - - +
215B TRP* 3.9 31.6 - - + -
219B VAL* 3.9 19.3 - - + -
223B ILE* 4.8 6.8 - - + +
233B MET* 4.6 17.0 - - - -
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Residues in contact with TRP 175 (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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77B LEU* 3.6 34.4 - - + +
171B LEU* 3.2 25.5 + - - +
172B ALA* 3.9 3.3 + - - +
174B ILE* 1.3 77.6 - - + +
176B VAL* 1.3 62.4 + - - +
178B VAL* 3.4 32.0 - - + +
179B ALA* 3.9 3.3 + - - +
233B MET* 3.2 51.1 - - + -
236B LEU* 3.6 27.1 - - + -
237B ILE* 3.6 17.0 - - + -
254B ILE* 3.4 38.5 - - + +
257B ILE* 3.6 28.4 - - + +
258B ASP* 3.7 17.7 - - - +
261B ILE* 6.0 0.2 - - - +
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Residues in contact with VAL 176 (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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172B ALA 3.3 17.5 + - - +
173B GLN* 3.4 10.5 + - - +
174B ILE 3.1 0.4 - - - -
175B TRP* 1.3 74.9 - - - +
177B LEU* 1.3 65.6 + - - +
179B ALA* 3.1 22.5 + - + +
180B LYS* 3.7 6.2 + - + +
191B SER 5.5 0.7 - - - +
192B GLU* 3.3 32.8 - - - +
195B ARG* 3.9 35.4 - - + +
257B ILE* 3.9 25.6 - - + -
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Residues in contact with LEU 177 (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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173B GLN 3.4 15.0 - - - +
174B ILE* 3.2 14.4 + - + +
176B VAL* 1.3 77.4 - - - +
178B VAL* 1.3 61.8 + - - +
179B ALA 3.2 0.2 - - - -
180B LYS* 3.1 27.5 - - - +
181B ALA* 3.4 6.6 - - - +
192B GLU* 3.7 26.7 - - - +
215B TRP* 6.2 0.2 - - + -
216B LEU* 3.4 48.2 - - + +
219B VAL* 4.1 13.9 - - + -
220B ARG* 3.8 29.3 - - + +
223B ILE* 4.2 9.6 - - + +
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Residues in contact with VAL 178 (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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174B ILE 3.7 13.5 - - - +
175B TRP* 3.4 27.8 - - + +
176B VAL 3.1 1.0 - - - -
177B LEU* 1.3 77.8 - - - +
179B ALA* 1.3 62.3 + - - +
180B LYS 3.4 0.5 + - - -
181B ALA* 3.7 16.3 + - + +
182B VAL* 4.6 7.8 + - - +
223B ILE* 5.1 6.5 - - + -
230B ARG* 6.3 2.2 - - - -
233B MET* 3.7 38.6 - - + -
234B VAL* 5.9 4.3 - - + -
237B ILE* 5.9 4.3 - - + -
261B ILE* 3.9 20.6 - - + +
312B TYR* 6.4 0.7 - - + -
315B ILE* 5.0 11.5 - - + +
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Residues in contact with ALA 179 (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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175B TRP 3.9 3.0 + - - +
176B VAL* 3.1 14.4 + - + +
178B VAL* 1.3 81.1 - - - +
180B LYS* 1.3 70.0 + - + +
181B ALA 3.7 0.5 + - - -
182B VAL* 5.6 0.5 - - - +
183B THR* 3.5 24.6 + - - +
195B ARG* 5.8 5.2 - - - +
257B ILE* 6.5 0.4 - - + -
260B TYR* 5.2 17.9 - - + +
261B ILE* 3.8 17.6 - - + +
264B ALA* 4.5 6.9 - - + +
12R C 6.1 0.9 - - - +
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Residues in contact with LYS 180 (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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176B VAL* 3.7 6.6 + - + +
177B LEU* 3.1 15.1 + - - +
179B ALA* 1.3 89.3 - - + +
181B ALA* 1.3 56.9 + - - +
183B THR* 3.8 13.5 + - - +
184B ALA 4.2 9.5 - - - +
185B PRO 4.9 1.2 - - - +
186B ASP* 4.7 19.1 - - + +
190B ASP* 5.5 8.7 - - + +
191B SER* 4.6 17.0 - - - +
192B GLU* 5.9 3.6 - - - +
195B ARG* 5.4 7.6 - - - +
220B ARG* 3.6 22.4 - - - -
10R C 3.1 43.3 + - - +
11R C 4.5 8.0 + - - -
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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