Contacts of the helix formed by residues 184 - 200 (chain C) 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 C).
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Specific contacts
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Residue Dist Surf HB Arom Phob DC
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139C LEU* 4.4 7.1 - - - +
183C THR* 1.3 80.3 - - - +
185C LYS* 1.3 55.1 + - - +
187C SER* 3.2 3.8 - - - -
188C LEU* 2.4 40.4 + - - +
901C AGS 2.3 38.1 + - - -
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Residues in contact with LYS 185 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
177C LEU* 3.3 15.9 - - + +
178C HIS* 3.1 23.2 + - - +
179C GLY* 2.7 42.6 - - - +
180C PRO 4.6 0.9 - - - +
183C THR* 4.6 12.1 - - + -
184C GLY* 1.3 64.3 - - - +
186C THR* 1.3 61.8 + - - +
188C LEU* 3.1 0.6 + - - -
189C CYS* 2.9 29.1 + - - -
298C THR* 3.5 15.3 - - + -
299C SER* 2.3 51.9 + - - +
300C ASN* 3.8 11.4 - - - +
319C ILE* 5.4 5.2 - - + -
901C AGS 1.3 52.9 + - - +
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Residues in contact with THR 186 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
185C LYS* 1.3 68.9 - - - +
187C SER* 1.3 61.7 + - - -
189C CYS* 3.1 11.2 + - - +
190C LYS* 3.0 46.3 + - + +
211C GLU* 5.8 2.2 - - - +
250C LEU* 4.8 13.0 - - + -
252C ASP* 3.4 38.3 + - + +
298C THR* 4.0 5.5 + - - +
901C AGS 2.4 43.7 + - - +
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Residues in contact with SER 187 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
135C LEU* 4.8 15.9 - - - +
138C SER* 5.3 8.5 - - - -
139C LEU* 5.7 0.9 - - - -
184C GLY* 3.3 7.0 - - - -
186C THR* 1.3 61.6 - - - +
188C LEU* 1.3 61.6 + - - +
190C LYS* 3.2 15.4 + - - +
191C ALA* 2.9 23.3 + - - +
901C AGS 1.3 88.9 + - - -
288D LYS* 5.4 1.0 + - - -
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Residues in contact with LEU 188 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
136C TRP* 4.0 28.9 - - + -
138C SER* 5.6 0.2 - - - -
139C LEU* 3.4 36.0 - - + +
145C VAL* 5.9 3.8 - - + -
146C LYS* 4.9 9.6 - - + -
149C LEU* 4.1 21.8 - - + -
177C LEU* 3.5 22.9 - - + -
184C GLY 2.4 30.5 + - - +
185C LYS* 3.5 4.9 - - - +
187C SER* 1.3 65.4 - - - +
189C CYS* 1.3 67.6 + - - +
191C ALA* 4.5 3.6 - - + +
192C LEU* 2.8 24.1 + - + +
317C GLN* 6.4 0.7 - - + -
319C ILE* 5.3 13.2 - - + -
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Residues in contact with CYS 189 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
149C LEU* 6.0 0.2 - - - -
177C LEU* 3.8 11.9 - - - -
185C LYS 2.9 26.5 + - - -
186C THR* 3.2 10.1 - - - +
188C LEU* 1.3 78.0 - - - +
190C LYS* 1.3 63.0 + - - +
192C LEU* 3.2 5.8 + - - +
193C ALA* 3.0 19.2 + - - +
209C LEU* 6.4 0.2 - - - -
250C LEU* 3.7 17.0 - - + -
296C LEU* 3.4 43.3 - - + +
297C THR 4.9 0.2 - - - -
298C THR* 3.5 25.1 - - - -
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Residues in contact with LYS 190 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
125C TRP* 4.2 14.4 - - - -
132C PHE* 3.4 49.1 - - + -
135C LEU* 5.1 5.6 - - + -
186C THR* 3.0 33.1 + - - +
187C SER* 3.2 13.9 + - - +
189C CYS* 1.3 76.7 - - - +
191C ALA* 1.3 62.8 + - - +
193C ALA* 3.0 11.1 + - - +
194C GLN* 3.0 21.0 + - - +
209C LEU* 4.8 4.5 - - + -
211C GLU* 4.7 3.4 + - - -
250C LEU* 4.5 17.2 - - + +
901C AGS 5.8 0.6 + - - -
289D ARG* 4.0 19.2 - - - +
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Residues in contact with ALA 191 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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132C PHE* 5.6 1.6 - - - -
135C LEU* 4.2 13.0 - - + +
136C TRP* 3.7 44.3 - - + +
138C SER* 5.1 3.4 - - - +
187C SER 2.9 16.2 + - - +
188C LEU* 3.9 6.1 - - + +
190C LYS* 1.3 76.6 - - - +
192C LEU* 1.3 62.8 + - - +
194C GLN* 3.2 8.2 + - - +
195C LYS* 2.9 25.1 + - - +
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Residues in contact with LEU 192 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
136C TRP* 4.2 12.9 - - + -
149C LEU* 3.5 57.9 - - + +
150C LEU* 3.9 18.4 - - + -
153C VAL* 5.2 3.6 - - + -
175C VAL* 5.2 1.3 - - + -
188C LEU* 2.8 20.1 + - + +
189C CYS* 3.3 4.7 - - - +
191C ALA* 1.3 76.7 - - - +
193C ALA* 1.3 64.5 + - - +
195C LYS* 3.2 2.2 + - + -
196C LEU* 2.9 51.5 + - + +
248C PHE* 5.9 0.2 - - + -
294C VAL* 5.8 1.1 - - + -
296C LEU* 4.0 24.0 - - + -
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Residues in contact with ALA 193 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
127C LEU* 5.7 3.8 - - + -
189C CYS 3.0 12.0 + - - +
190C LYS* 3.0 12.6 + - - +
192C LEU* 1.3 76.5 - - - +
194C GLN* 1.3 64.1 + - - +
196C LEU* 3.4 2.6 + - - +
197C THR* 2.9 27.3 + - - -
209C LEU* 4.7 20.0 - - + -
248C PHE* 4.1 35.7 - - + -
296C LEU* 4.9 1.8 - - + -
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Residues in contact with GLN 194 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
102C LEU* 3.5 12.3 - - - +
128C PRO* 2.7 53.9 + - - +
129C ALA 4.1 1.2 - - - +
132C PHE* 4.1 38.1 - - + +
133C HIS* 5.4 1.7 - - - +
134C GLY 5.9 0.7 - - - +
136C TRP* 6.4 1.3 - - + -
190C LYS 3.0 11.6 + - - +
191C ALA* 3.2 12.1 + - - +
193C ALA* 1.3 76.9 - - - +
195C LYS* 1.3 63.2 + - - +
197C THR* 3.0 8.9 - - - -
198C ILE* 3.0 35.7 + - + +
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Residues in contact with LYS 195 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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24C GLU* 2.4 33.9 + - + +
76C ILE* 5.5 7.8 + - - +
136C TRP* 3.8 47.6 - - + +
150C LEU* 3.6 26.9 - - + -
191C ALA 2.9 15.6 + - - +
192C LEU* 3.9 3.4 - - - +
194C GLN* 1.3 73.6 - - - +
196C LEU* 1.3 67.1 + - - +
198C ILE* 3.1 16.2 + - + +
199C ARG* 2.9 47.9 + - - +
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Residues in contact with LEU 196 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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150C LEU* 3.6 30.5 - - + +
153C VAL* 3.6 36.3 - - + -
154C MET* 5.0 2.5 - - + +
192C LEU* 2.9 43.9 + - + +
193C ALA 3.6 3.1 - - - +
195C LYS* 1.3 75.3 - - - +
197C THR* 1.3 64.3 + - - +
199C ARG* 3.3 6.1 + - + +
200C LEU* 2.9 39.2 + - + +
246C LEU* 5.9 0.7 - - - -
248C PHE* 3.6 33.0 - - + -
294C VAL* 5.8 0.4 - - + -
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Residues in contact with THR 197 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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100C PHE* 5.2 1.8 - - + -
127C LEU* 3.1 40.7 - - + +
128C PRO* 3.3 37.1 - - + +
193C ALA 2.9 15.7 + - - -
194C GLN* 3.0 12.9 - - - -
196C LEU* 1.3 75.4 - - - +
198C ILE* 1.3 69.8 + - + +
199C ARG 3.0 1.4 + - - -
200C LEU* 3.0 13.1 + - - -
201C SER* 3.6 10.0 + - - -
204C TYR 5.3 0.7 - - - +
246C LEU* 6.5 0.4 - - - -
248C PHE* 5.3 3.4 - - - -
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Residues in contact with ILE 198 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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22C HIS* 6.5 0.2 - - + -
23C VAL 4.3 4.0 - - - +
24C GLU* 3.8 33.4 - - + +
98C HIS* 3.1 30.2 + - + +
99C ILE 6.1 0.2 - - - -
100C PHE* 3.6 53.8 - - + -
194C GLN* 3.0 28.2 + - + +
195C LYS* 3.1 19.9 + - + +
197C THR* 1.3 81.3 - - + +
199C ARG* 1.3 65.2 + - - +
201C SER* 4.1 5.7 + - - -
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Residues in contact with ARG 199 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
22C HIS* 3.0 63.8 + - + +
76C ILE 5.1 8.3 + - - -
77C ASP 6.2 1.4 - - - -
98C HIS* 3.5 22.9 + - - -
150C LEU* 3.3 44.0 - - + +
151C ASP* 6.2 0.8 - - - +
154C MET* 5.5 7.4 - - - +
195C LYS* 2.9 37.9 + - + +
196C LEU* 3.6 11.2 - - + +
197C THR 3.0 0.2 + - - -
198C ILE* 1.3 84.4 - - - +
200C LEU* 1.3 70.1 + - + +
201C SER 3.0 7.7 + - - -
202C SER* 4.2 4.7 + - - -
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Residues in contact with LEU 200 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
153C VAL* 4.4 12.1 - - + -
154C MET* 4.0 29.6 - - + +
157C LEU* 3.8 24.0 - - + -
196C LEU* 2.9 24.0 + - + +
197C THR* 3.0 5.5 + - - +
199C ARG* 1.3 81.8 - - + +
201C SER* 1.3 52.1 + - - +
202C SER* 3.1 7.4 - - - +
203C ARG* 3.0 11.4 + - + +
204C TYR* 2.5 52.2 + - + +
246C LEU* 3.7 27.4 - - + -
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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