Contacts of the helix formed by residues 167 - 182 (chain C) in PDB entry 6C9G
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 THR 167 (chain C).
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Specific contacts
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Residue Dist Surf HB Arom Phob DC
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69C ARG* 6.4 1.1 - - - -
144C LEU* 4.5 3.1 - - - -
150C HIS 3.7 14.8 - - - +
151C ARG* 3.9 18.8 - - - +
165C ILE* 3.8 11.6 + - + +
166C LEU* 1.3 82.3 - - - +
168C HIS* 1.3 64.6 + - - +
169C LYS* 3.5 9.1 + - - +
170C ARG* 3.3 22.5 + - - +
171C ILE* 3.2 28.2 + - - +
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Residues in contact with HIS 168 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
144C LEU* 3.9 29.5 - - + +
145C ILE* 5.4 5.4 - - + -
149C ILE 3.4 19.5 + - - -
150C HIS* 3.6 38.3 - + + -
167C THR* 1.3 73.6 - - - +
169C LYS* 1.3 58.4 + - - +
171C ILE* 3.3 3.2 + - - +
172C LEU* 3.0 30.5 + - - +
297C HIS* 4.1 7.9 - + + +
314C LEU* 3.7 22.9 - - + -
315C SER* 3.6 33.4 - - - -
318C LEU* 3.9 21.0 - - + +
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Residues in contact with LYS 169 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
69C ARG* 4.9 14.8 - - - +
167C THR* 3.2 9.7 + - - +
168C HIS* 1.3 77.5 - - - +
170C ARG* 1.3 65.1 + - - +
172C LEU* 4.3 2.5 - - - +
173C LYS* 3.1 27.6 + - + +
295C GLU* 3.4 41.2 + - + +
296C VAL 5.4 0.9 - - - +
297C HIS* 5.4 5.6 - - + +
314C LEU* 3.6 20.9 - - + -
1102C AMP 4.7 10.7 + - - -
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Residues in contact with ARG 170 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
339A ALA* 5.0 11.3 + - - +
342A PHE* 4.0 31.4 + - - +
224B ASP* 5.9 1.8 + - - +
227B LEU* 5.5 8.9 - - - +
40C LEU* 2.8 45.3 + - + +
42C PRO* 3.3 31.4 - - - +
164C TYR* 3.3 25.5 + - + +
166C LEU* 4.4 7.2 - - + -
167C THR* 3.3 25.2 + - - +
169C LYS* 1.3 78.3 - - - +
171C ILE* 1.3 63.6 + - + +
173C LYS* 3.4 6.7 + - - +
174C PHE* 3.1 21.5 + - - +
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Residues in contact with ILE 171 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
32C MET* 5.1 2.5 - - - -
40C LEU* 3.7 26.0 - - + -
137C LEU* 5.1 9.6 - - + +
140C ALA* 4.9 5.6 - - + -
141C VAL* 4.0 31.9 - - + -
144C LEU* 4.2 19.3 - - + -
166C LEU* 4.2 19.7 - - + -
167C THR 3.2 16.4 - - - +
168C HIS* 3.3 8.1 + - - +
170C ARG* 1.3 74.6 - - - +
172C LEU* 1.3 60.2 + - - +
174C PHE* 3.2 5.1 + - - +
175C LEU* 3.0 40.2 + - + +
318C LEU* 4.4 9.4 - - + -
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Residues in contact with LEU 172 (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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168C HIS 3.0 16.5 + - - +
169C LYS* 4.3 3.8 - - - +
171C ILE* 1.3 73.5 - - - +
173C LYS* 1.3 60.7 + - - +
175C LEU* 4.4 9.4 - - + +
176C LYS* 2.9 30.1 + - - +
179C ILE* 5.1 1.8 - - + -
288C ILE* 4.0 25.1 - - + -
291C LEU* 5.0 2.2 - - + -
292C VAL* 3.7 22.2 - - + -
314C LEU* 3.7 31.0 - - + -
317C ILE* 4.6 21.5 - - + -
318C LEU* 4.1 24.0 - - + +
321C LEU* 4.9 4.9 - - + -
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Residues in contact with LYS 173 (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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341A ASP* 5.5 2.2 - - - -
342A PHE* 2.9 58.8 - - + +
169C LYS* 3.1 21.8 + - + +
170C ARG* 3.5 8.5 - - - +
172C LEU* 1.3 77.3 - - - +
174C PHE* 1.3 63.3 + - - +
176C LYS* 3.4 14.7 + - + +
177C LEU* 3.7 13.9 + - - +
292C VAL* 3.4 38.5 + - + +
293C GLU* 5.9 0.8 - - - +
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Residues in contact with PHE 174 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
335A ILE* 6.1 3.6 - - + -
338A GLU* 4.2 23.1 - - + -
342A PHE* 3.1 25.5 - + + -
31C PHE* 3.2 36.3 - + - -
35C HIS* 3.8 21.5 - + + -
39C ASP* 5.0 6.7 - - + -
40C LEU* 3.3 30.3 - - + -
137C LEU* 3.4 26.7 - - + -
170C ARG 3.1 13.8 + - - +
171C ILE 3.3 8.3 - - - +
173C LYS* 1.3 78.5 - - - +
175C LEU* 1.3 65.5 + - + +
177C LEU* 3.4 10.7 + - - +
178C PHE* 3.5 7.6 + - + +
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Residues in contact with LEU 175 (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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28C TYR* 4.8 11.4 - - + -
31C PHE* 3.4 32.3 - - + -
32C MET* 4.0 36.3 - - + -
137C LEU* 4.9 1.6 - - + -
171C ILE* 3.0 29.3 + - + +
172C LEU* 3.3 9.4 + - + +
174C PHE* 1.3 84.2 - - + +
176C LYS* 1.3 51.1 + - - +
178C PHE* 2.7 11.1 + - + +
179C ILE* 2.6 47.8 + - + +
318C LEU* 5.0 7.0 - - + -
321C LEU* 4.7 16.6 - - + -
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Residues in contact with LYS 176 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
172C LEU* 2.9 18.1 + - - +
173C LYS* 3.6 9.2 - - - +
174C PHE 3.3 0.4 - - - -
175C LEU* 1.3 76.0 - - - +
177C LEU* 1.3 77.5 + - + +
179C ILE* 3.2 21.8 + - + +
180C THR* 3.2 41.9 + - - +
288C ILE* 4.7 9.2 - - + -
289C ASN* 3.5 28.5 - - - +
292C VAL* 4.2 30.5 - - + -
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Residues in contact with LEU 177 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
338A GLU* 2.9 32.5 - - - +
341A ASP* 3.5 30.3 - - + +
342A PHE* 3.3 32.5 - - + -
173C LYS* 3.9 10.8 - - - +
174C PHE 3.4 5.3 + - - +
175C LEU 3.2 0.4 - - - -
176C LYS* 1.3 93.2 - - + +
178C PHE* 1.3 61.4 + - - +
180C THR* 3.5 12.7 + - - -
181C GLU* 3.6 17.8 + - - +
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Residues in contact with PHE 178 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
334A ARG* 3.8 25.1 - - - +
338A GLU* 5.2 1.0 + - - -
27C VAL* 4.7 7.6 - - + -
28C TYR* 4.5 20.6 - + - -
30C SER* 5.7 0.9 - - - -
31C PHE* 3.2 74.0 - + + -
174C PHE* 3.5 4.5 + - + +
175C LEU* 2.7 16.3 + - + +
177C LEU* 1.3 74.4 - - - +
179C ILE* 1.3 64.3 + - + +
181C GLU* 3.3 7.3 + - + +
182C PHE* 3.2 35.9 + + + +
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Residues in contact with ILE 179 (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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28C TYR* 3.2 47.5 + - + +
172C LEU* 5.1 1.6 - - + -
175C LEU* 2.6 33.9 + - + +
176C LYS* 3.2 13.9 + - + +
178C PHE* 1.3 74.1 - - + +
180C THR* 1.3 57.8 + - - +
182C PHE* 3.1 23.0 + - - +
184C LYS* 5.8 0.9 - - - +
185C PRO* 5.7 0.5 - - - +
188C MET* 4.7 12.3 - - + -
285C GLU* 6.2 2.5 - - + -
288C ILE* 4.7 18.6 - - + -
321C LEU* 4.2 23.1 - - + -
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Residues in contact with THR 180 (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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176C LYS* 3.2 35.1 + - - +
177C LEU* 3.8 9.2 - - - -
178C PHE 3.2 0.6 - - - -
179C ILE* 1.3 76.9 - - - +
181C GLU* 1.3 68.1 + - - +
182C PHE 3.4 5.7 - - - +
184C LYS* 6.2 0.2 - - - +
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Residues in contact with GLU 181 (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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334A ARG* 4.1 23.6 - - - +
338A GLU* 5.8 1.2 - - - +
177C LEU 3.6 14.9 - - - +
178C PHE* 3.3 10.7 + - + +
180C THR* 1.3 79.6 - - - +
182C PHE* 1.3 63.5 + - - +
183C PRO* 3.6 4.9 - - - +
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Residues in contact with PHE 182 (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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27C VAL* 3.3 50.5 - - + -
28C TYR* 4.8 5.6 - - + -
178C PHE* 3.2 29.3 + + + +
179C ILE 3.1 18.2 + - - +
180C THR 3.4 5.4 - - - +
181C GLU* 1.3 80.5 - - - +
183C PRO* 1.3 112.6 - - + +
184C LYS* 3.6 4.0 + - - +
185C PRO* 3.9 14.8 - - + -
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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
------------------------------------------------------------
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