Contacts of the helix formed by residues 184 - 201 (chain E) in PDB entry 6F0X
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 184 (chain E).
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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139E LEU* 3.6 0.6 - - - +
141E TYR* 3.5 4.2 + - - -
182E GLY 3.0 4.0 + - - -
183E THR* 1.3 74.1 - - - +
185E LYS* 1.3 56.6 + - - -
186E THR 3.6 0.7 - - - -
187E SER* 3.2 18.4 - - - -
188E LEU* 2.7 30.8 + - - +
901E AGS 2.2 39.0 + - - -
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Residues in contact with LYS 185 (chain E).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
141E TYR* 5.2 0.2 - - - -
177E LEU* 5.8 7.5 - - + +
178E HIS* 4.7 5.8 - - - +
179E GLY* 4.5 9.4 - - - +
180E PRO 3.3 10.7 + - - +
181E PRO 3.2 2.6 - - - -
182E GLY 2.6 11.9 - - - +
183E THR* 2.6 35.4 - - - +
184E GLY* 1.3 55.5 - - - +
186E THR* 1.3 66.3 + - - +
188E LEU* 2.8 18.9 + - - +
189E CYS* 3.0 14.6 + - - -
252E ASP* 5.1 1.3 - - - -
298E THR* 3.7 35.2 - - + +
299E SER 4.5 11.4 - - - +
300E ASN* 4.2 10.5 - - - -
319E ILE* 6.1 4.0 - - + +
901E AGS 1.3 82.4 + - - +
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Residues in contact with THR 186 (chain E).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
185E LYS* 1.3 76.7 - - - +
187E SER* 1.3 63.1 + - - +
189E CYS* 3.2 10.6 + - - +
190E LYS* 3.0 51.5 + - + +
211E GLU* 4.0 13.2 + - - +
250E LEU* 3.7 14.3 - - + +
252E ASP* 3.0 32.8 + - + +
298E THR* 4.6 1.7 + - - +
901E AGS 3.0 17.2 + - - -
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Residues in contact with SER 187 (chain E).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
135E LEU* 4.7 16.8 - - - +
139E LEU* 3.8 17.7 - - - -
184E GLY* 3.2 15.4 - - - -
186E THR* 1.3 78.0 - - - +
188E LEU* 1.3 62.8 + - - +
190E LYS* 3.1 9.5 + - - +
191E ALA* 2.9 22.5 + - - +
901E AGS 3.3 34.6 + - - -
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Residues in contact with LEU 188 (chain E).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
136E TRP* 5.6 5.2 - - + +
139E LEU* 3.4 14.1 - - + +
141E TYR* 3.8 34.5 - - + +
145E VAL* 5.4 10.5 - - + -
146E LYS* 4.6 18.2 - - + +
149E LEU* 4.9 14.6 - - + -
177E LEU* 3.7 29.4 - - + -
184E GLY 2.7 17.4 + - - +
185E LYS* 2.8 10.8 + - - +
187E SER* 1.3 71.6 - - - +
189E CYS* 1.3 66.5 + - - +
191E ALA* 3.2 8.8 + - + +
192E LEU* 3.0 23.0 + - - +
319E ILE* 5.8 2.5 - - + -
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Residues in contact with CYS 189 (chain E).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
149E LEU* 5.9 1.3 - - - -
177E LEU* 5.9 7.4 - - - -
185E LYS 3.0 17.9 + - - -
186E THR* 3.2 7.8 + - - +
188E LEU* 1.3 79.5 - - - +
190E LYS* 1.3 62.9 - - - +
192E LEU* 3.1 4.7 + - - +
193E ALA* 2.9 20.9 + - - +
209E LEU* 6.4 0.4 - - - -
250E LEU* 3.4 37.2 - - + -
296E LEU* 3.6 30.7 - - + +
297E THR 4.9 0.4 - - - -
298E THR* 4.1 17.9 - - - -
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Residues in contact with LYS 190 (chain E).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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125E TRP* 3.0 30.7 - - - -
132E PHE* 3.4 41.9 - - + -
135E LEU* 4.8 4.0 - - + -
186E THR* 3.0 33.4 + - + +
187E SER* 3.7 6.3 - - - +
189E CYS* 1.3 75.0 - - - +
191E ALA* 1.3 62.0 + - - +
193E ALA* 3.1 10.3 + - - +
194E GLN* 2.9 23.9 + - - +
209E LEU* 3.7 18.8 - - + -
211E GLU* 2.9 28.0 + - - -
250E LEU* 4.1 7.4 - - + -
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Residues in contact with ALA 191 (chain E).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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132E PHE 6.0 0.2 - - - -
135E LEU* 3.7 14.3 - - + +
136E TRP* 3.1 46.3 - - + +
139E LEU* 5.0 1.6 - - + -
187E SER 2.9 13.4 + - - +
188E LEU* 3.5 15.5 - - + +
189E CYS 3.1 0.2 - - - -
190E LYS* 1.3 74.6 - - - +
192E LEU* 1.3 67.7 + - - +
194E GLN* 3.2 6.8 + - - +
195E LYS* 2.9 19.1 + - - +
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Residues in contact with LEU 192 (chain E).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
136E TRP* 3.3 20.7 - - + -
149E LEU* 3.5 57.4 - - + +
150E LEU* 4.2 6.7 - - + -
152E TYR* 6.4 0.2 - - + -
153E VAL* 5.0 4.3 - - + -
188E LEU 3.0 12.6 + - - +
189E CYS 3.3 8.1 - - - +
191E ALA* 1.3 74.9 - - - +
193E ALA* 1.3 63.7 + - - +
195E LYS 3.1 0.2 + - - -
196E LEU* 2.9 53.1 + - + +
248E PHE* 4.1 4.9 - - + -
294E VAL* 5.2 0.4 - - + -
296E LEU* 3.7 26.7 - - + -
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Residues in contact with ALA 193 (chain E).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
127E LEU* 5.0 4.9 - - + -
132E PHE* 6.4 0.2 - - + -
189E CYS 2.9 13.1 + - - +
190E LYS* 3.1 13.9 + - - +
192E LEU* 1.3 76.4 - - - +
194E GLN* 1.3 57.9 + - - +
197E THR* 2.5 34.6 + - - +
209E LEU* 5.1 10.5 - - + -
248E PHE* 3.4 42.6 - - + -
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Residues in contact with GLN 194 (chain E).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
100E PHE* 4.6 9.7 - - - -
102E LEU* 4.8 4.4 - - - +
127E LEU* 5.7 0.2 - - - -
128E PRO* 3.0 52.8 + - - +
129E ALA 4.2 3.1 - - - +
132E PHE* 4.2 30.3 - - + +
133E HIS* 5.5 2.9 + - - -
134E GLY 6.0 0.4 - - - +
136E TRP* 5.8 5.4 - - + +
190E LYS 2.9 12.2 + - - +
191E ALA* 3.7 8.3 - - - +
193E ALA* 1.3 76.1 - - - +
195E LYS* 1.3 63.2 + - - +
197E THR* 2.9 22.8 - - - +
198E ILE* 3.0 33.1 + - + +
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Residues in contact with LYS 195 (chain E).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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24E GLU* 2.1 49.9 + - - +
76E ILE* 3.7 21.4 - - + +
136E TRP* 3.4 71.0 - - + +
150E LEU* 4.2 14.8 - - + -
191E ALA 2.9 6.4 + - - +
192E LEU 3.8 0.2 - - - +
194E GLN* 1.3 75.6 - - - +
196E LEU* 1.3 67.2 + - - +
198E ILE* 3.1 11.7 + - + +
199E ARG* 3.0 31.3 + - + +
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Residues in contact with LEU 196 (chain E).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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150E LEU* 3.6 27.1 - - + +
153E VAL* 3.6 47.6 - - + -
154E MET* 4.9 5.6 - - + +
192E LEU* 2.9 34.8 + - + +
193E ALA 4.0 2.2 - - - +
195E LYS* 1.3 75.2 - - - +
197E THR* 1.3 63.7 + - - +
199E ARG* 2.8 22.1 + - + +
200E LEU* 2.8 21.7 + - + +
246E LEU* 4.7 7.0 - - + -
248E PHE* 3.6 26.7 - - + -
294E VAL* 5.7 0.2 - - + -
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Residues in contact with THR 197 (chain E).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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100E PHE* 5.7 2.7 - - + -
127E LEU* 3.1 50.0 - - + +
128E PRO* 3.6 24.7 - - + -
193E ALA 2.5 21.6 + - - -
194E GLN* 2.9 14.3 - - - +
196E LEU* 1.3 73.6 - - - +
198E ILE* 1.3 58.5 + - + +
200E LEU* 2.6 27.0 + - - -
201E SER* 3.1 14.2 + - - -
246E LEU* 5.1 3.0 - - - +
248E PHE* 4.7 0.7 - - - -
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Residues in contact with ILE 198 (chain E).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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24E GLU* 3.5 52.7 - - + +
98E HIS* 3.2 41.4 + - + +
100E PHE* 4.1 28.7 - - + -
194E GLN* 3.0 37.8 + - + +
195E LYS* 3.1 14.6 + - - +
197E THR* 1.3 77.1 - - + +
199E ARG* 1.3 61.5 + - + +
200E LEU 3.3 0.9 + - - -
201E SER* 4.1 6.3 + - - +
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Residues in contact with ARG 199 (chain E).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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22E HIS* 4.9 27.0 - - - +
24E GLU* 5.0 6.2 + - - +
76E ILE* 4.6 24.7 + - - +
77E ASP 5.0 3.2 + - - -
98E HIS* 4.5 21.6 - - - -
150E LEU* 4.0 36.1 - - + +
154E MET* 5.0 21.6 - - - +
195E LYS* 3.0 21.9 + - + +
196E LEU* 2.8 20.4 + - + +
198E ILE* 1.3 79.3 - - - +
200E LEU* 1.3 69.2 + - + +
201E SER 3.9 0.2 - - - -
202E SER* 3.5 9.9 + - - -
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Residues in contact with LEU 200 (chain E).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
127E LEU* 6.5 0.4 - - + -
153E VAL* 5.1 6.5 - - + -
154E MET* 6.5 1.1 - - - -
157E LEU* 3.5 31.9 - - + -
196E LEU* 2.8 16.8 + - + +
197E THR* 2.6 16.6 + - - +
199E ARG* 1.3 85.0 - - + +
201E SER* 1.3 53.1 + - - +
202E SER* 3.0 4.7 - - - +
203E ARG* 2.8 22.8 + - + +
204E TYR* 2.4 64.6 + - + +
246E LEU* 3.6 24.0 - - + -
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Residues in contact with SER 201 (chain E).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
35E LYS* 3.8 25.3 + - - -
98E HIS* 4.2 13.3 + - - +
99E ILE 4.4 18.1 + - - -
100E PHE* 5.9 3.1 - - - -
197E THR* 3.1 10.7 + - - -
198E ILE* 4.1 10.2 + - - -
200E LEU* 1.3 76.8 - - - +
202E SER* 1.3 63.9 + - - +
203E ARG 3.1 0.5 + - - -
204E TYR 3.1 24.1 + - - +
205E ARG 5.8 1.1 - - - -
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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