Contacts of the helix formed by residues 190 - 210 (chain I) in PDB entry 2I2X
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 CYS 190 (chain I).
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
185I LEU* 3.9 11.0 - - - -
186I TYR* 3.0 15.7 + - + +
189I GLY* 1.3 78.2 - - - +
191I LEU* 1.3 66.6 + - - +
192I GLY 3.1 0.9 - - - -
193I SER* 3.0 5.0 + - - -
194I ILE* 2.9 30.5 + - + +
389I ILE* 4.2 6.2 - - + +
390I TYR* 4.0 35.7 - - - -
436I MET* 5.4 0.7 - - - -
439I PHE* 4.1 7.4 - - - -
440I MET* 3.6 37.5 - - + -
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Residues in contact with LEU 191 (chain I).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
167I GLY 4.6 0.4 - - - -
168I GLY* 3.8 12.1 - - - -
170I GLU* 4.2 1.1 - - - +
171I VAL* 4.0 13.9 - - + -
186I TYR* 3.0 55.3 + - + +
187I SER* 3.5 16.4 - - - +
190I CYS* 1.3 77.0 - - + +
192I GLY* 1.3 63.7 + - - +
194I ILE* 3.2 6.3 + - + +
195I ASP* 3.1 20.4 + - - +
454I PHE* 3.9 18.4 - - + -
459I TYR* 3.7 36.4 - - + -
461I PHE* 4.1 19.3 - - + -
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Residues in contact with GLY 192 (chain I).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
167I GLY* 3.7 17.0 + - - -
187I SER 3.0 14.3 + - - -
188I ILE* 3.2 13.9 + - - -
190I CYS 3.1 0.8 - - - -
191I LEU* 1.3 76.6 - - - +
193I SER* 1.3 55.7 + - - +
195I ASP* 3.5 1.7 + - - +
196I MET* 2.9 32.7 + - - +
222I GLN* 4.9 0.2 - - - -
253I ARG* 3.8 14.6 - - - -
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Residues in contact with SER 193 (chain I).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
5I ARG* 5.4 0.8 + - - -
188I ILE 3.7 2.0 + - - -
189I GLY 2.7 26.2 + - - -
190I CYS 3.0 5.1 + - - -
192I GLY* 1.3 74.4 - - - +
194I ILE* 1.3 64.6 + - - +
196I MET* 3.2 4.2 + - - +
197I GLU* 2.9 22.2 + - - +
252I PRO 4.0 3.5 + - - -
253I ARG* 3.7 17.4 + - - +
256I VAL* 3.6 27.2 - - - +
389I ILE* 4.0 23.3 + - - +
392I ARG* 5.0 0.5 + - - -
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Residues in contact with ILE 194 (chain I).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
139I ARG* 3.6 22.8 + - - +
190I CYS 2.9 21.2 + - - +
191I LEU* 3.2 9.4 + - - +
193I SER* 1.3 76.1 - - - +
195I ASP* 1.3 64.2 + - - +
197I GLU* 3.1 18.1 + - - +
198I LEU* 3.3 11.1 + - - +
389I ILE* 4.0 16.8 - - + -
436I MET* 5.4 1.1 - - + -
440I MET* 4.0 16.2 - - + -
459I TYR* 3.7 17.5 - - + +
461I PHE* 3.7 31.0 - - + -
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Residues in contact with ASP 195 (chain I).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
130I ARG* 2.8 45.0 + - - -
138I LEU* 3.8 16.9 - - + +
139I ARG* 5.0 2.7 - - - +
165I SER* 4.3 7.8 + - - -
167I GLY* 3.7 23.2 + - - -
191I LEU 3.1 14.9 + - - +
192I GLY 4.1 0.7 - - - +
194I ILE* 1.3 77.3 - - - +
196I MET* 1.3 64.6 + - - +
198I LEU* 3.0 23.4 + - - +
199I ILE* 3.0 15.1 + - - +
458I ASN 4.7 1.4 - - - +
459I TYR* 4.4 9.4 - - + -
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Residues in contact with MET 196 (chain I).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
165I SER* 3.4 13.0 - - - +
192I GLY 2.9 25.2 + - - +
193I SER 3.2 6.0 + - - +
195I ASP* 1.3 77.1 + - - +
197I GLU* 1.3 61.0 + - - +
199I ILE* 4.4 2.2 - - - -
200I TRP* 3.2 35.8 + - + +
217I ASP* 3.4 42.8 - - + +
253I ARG* 3.5 44.9 - - - +
254I SER* 3.9 5.4 - - - -
256I VAL* 3.5 18.3 - - + +
257I ALA* 3.7 23.3 - - + +
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Residues in contact with GLU 197 (chain I).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
3I ALA* 3.6 33.3 + - - +
5I ARG* 4.1 15.0 + - - +
193I SER 2.9 13.0 + - - +
194I ILE* 3.1 11.2 + - - +
196I MET* 1.3 75.2 - - - +
198I LEU* 1.3 61.3 + - - +
201I THR* 2.6 41.0 + - - +
256I VAL* 3.3 13.4 - - + +
260I ALA* 4.3 3.9 - - + +
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Residues in contact with LEU 198 (chain I).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
130I ARG* 4.2 0.7 - - - +
139I ARG* 3.8 43.7 - - + +
143I TYR* 3.1 46.2 + - + +
194I ILE 3.3 8.5 + - - +
195I ASP* 3.0 24.6 + - - +
197I GLU* 1.3 83.5 - - - +
199I ILE* 1.3 63.8 + - + +
201I THR* 3.5 9.0 + - - -
202I ASP* 3.6 13.5 + - - +
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Residues in contact with ILE 199 (chain I).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
130I ARG* 3.2 37.0 - - - +
143I TYR* 3.4 20.0 - - + +
146I PHE* 4.0 16.2 - - + -
147I LEU* 5.2 0.4 - - - +
163I VAL* 4.2 10.8 - - + -
165I SER* 3.4 36.1 - - - +
195I ASP* 3.0 19.7 + - - +
196I MET* 4.4 1.3 - - - -
198I LEU* 1.3 77.2 - - + +
200I TRP* 1.3 82.4 + - + +
202I ASP* 3.1 5.5 + - - +
203I ILE* 2.9 32.1 + - + +
217I ASP* 3.9 0.2 - - - +
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Residues in contact with TRP 200 (chain I).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
161I LEU 3.8 11.2 - - - -
162I SER* 4.0 4.3 - - - -
163I VAL* 3.6 20.4 - - + -
196I MET* 3.2 40.8 + - + +
199I ILE* 1.3 84.5 - - + +
201I THR* 1.3 63.5 + - - +
203I ILE* 3.5 26.6 - - + +
204I SER* 2.8 31.9 + - - -
214I SER* 3.5 26.7 - - - -
216I GLY* 3.2 47.3 - - - -
217I ASP* 2.7 27.8 + - + +
257I ALA* 3.9 14.6 - - + +
260I ALA* 3.4 16.3 - - + +
262I ALA* 4.1 7.9 - - + -
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Residues in contact with THR 201 (chain I).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
3I ALA* 5.2 4.7 - - + +
197I GLU* 2.6 32.0 + - - +
198I LEU* 3.7 4.9 - - - -
200I TRP* 1.3 79.0 - - - +
202I ASP* 1.3 64.4 + - - +
204I SER* 3.8 2.6 - - - -
205I LYS* 3.2 39.2 + - + +
260I ALA* 4.0 17.8 + - - +
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Residues in contact with ASP 202 (chain I).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
143I TYR* 2.7 32.5 + - - +
147I LEU* 3.7 27.0 - - + +
198I LEU* 3.6 9.7 + - - +
199I ILE 3.1 9.2 + - - +
201I THR* 1.3 80.0 - - - +
203I ILE* 1.3 62.5 + - - +
205I LYS* 3.3 26.1 + - - +
206I ILE* 3.1 27.9 + - + +
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Residues in contact with ILE 203 (chain I).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
146I PHE* 4.8 0.7 - - + -
147I LEU* 5.0 5.2 - - + -
150I PHE* 3.4 56.1 - - + -
161I LEU* 4.5 13.0 - - + -
163I VAL* 4.0 15.7 - - + -
199I ILE* 2.9 29.5 + - + +
200I TRP* 3.5 39.7 - - + +
202I ASP* 1.3 73.9 - - - +
204I SER* 1.3 60.3 + - - +
206I ILE* 3.2 9.2 + - - +
207I ALA* 2.9 26.5 + - - +
214I SER* 4.1 4.5 - - - +
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Residues in contact with SER 204 (chain I).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
200I TRP* 2.8 22.8 + - - -
201I THR 3.8 3.1 - - - -
203I ILE* 1.3 76.4 - - - +
205I LYS* 1.3 57.8 + - - +
207I ALA* 3.2 2.6 + - - +
208I LYS* 2.9 31.9 + - - +
214I SER* 3.2 17.3 + - - -
260I ALA 3.2 9.8 + - - -
261I GLY* 3.1 33.9 - - - -
262I ALA 3.6 0.7 + - - -
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Residues in contact with LYS 205 (chain I).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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201I THR* 3.2 24.2 + - + +
202I ASP* 3.4 31.2 + - - +
203I ILE 3.2 0.2 - - - -
204I SER* 1.3 78.8 - - - +
206I ILE* 1.3 61.8 + - + +
208I LYS* 3.5 11.8 + - + +
209I LYS* 3.1 25.0 + - - +
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Residues in contact with ILE 206 (chain I).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
147I LEU* 3.6 47.8 - - + +
150I PHE* 4.1 14.6 - - + +
151I GLU* 3.6 44.9 - - + +
161I LEU* 4.6 5.4 - - + -
202I ASP 3.1 19.4 + - - +
203I ILE* 3.2 8.0 + - - +
205I LYS* 1.3 77.2 - - + +
207I ALA* 1.3 58.5 + - - +
209I LYS* 3.3 8.7 + - + +
210I THR* 2.9 37.3 + - + +
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Residues in contact with ALA 207 (chain I).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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161I LEU* 4.0 9.2 - - + +
203I ILE 2.9 13.8 + - - +
204I SER 3.2 7.8 + - - +
206I ILE* 1.3 74.4 - - - +
208I LYS* 1.3 56.8 + - - +
210I THR* 3.3 0.7 + - - -
211I GLY* 2.9 9.0 + - - -
212I THR* 2.8 51.9 + - - +
213I ILE 4.0 2.9 - - - -
214I SER* 3.6 27.1 - - - +
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Residues in contact with LYS 208 (chain I).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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208A LYS* 3.8 31.9 - - + +
209A LYS 4.9 4.7 - - - -
210A THR 4.6 2.0 + - - -
211A GLY* 3.4 33.3 - - - +
204I SER 2.9 16.4 + - - +
205I LYS* 3.9 10.3 - - + +
207I ALA* 1.3 73.4 - - - +
209I LYS* 1.3 65.7 + - + +
211I GLY* 3.3 9.7 + - - -
212I THR 5.0 0.7 - - - -
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Residues in contact with LYS 209 (chain I).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
208A LYS* 4.6 6.8 - - - -
151I GLU* 2.8 29.9 + - - +
155I GLU* 4.5 12.0 + - - -
205I LYS* 3.1 17.2 + - + +
206I ILE* 3.5 10.1 - - + +
208I LYS* 1.3 84.3 - - + +
210I THR* 1.3 62.3 + - + +
211I GLY 3.5 0.7 + - - -
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Residues in contact with THR 210 (chain I).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
208A LYS* 4.7 2.6 + - - -
151I GLU* 4.3 11.7 - - + +
154I ALA* 3.3 25.2 - - + +
155I GLU* 3.9 32.5 - - + +
206I ILE 2.9 22.3 + - - +
207I ALA 3.3 0.3 + - - -
208I LYS 3.3 0.2 - - - -
209I LYS* 1.3 82.7 - - + +
211I GLY* 1.3 61.6 + - - +
212I THR* 2.8 31.2 + - - +
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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
------------------------------------------------------------
Atomic class I II III IV V VI VII VIII
------------------------------------------------------------
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