Contacts of the helix formed by residues 135 - 149 (chain C) in PDB entry 8ATC
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 PRO 135 (chain C).
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Specific contacts
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Residue Dist Surf HB Arom Phob DC
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9C ILE* 3.9 29.8 - - + +
10C ILE 3.7 22.0 - - - +
11C SER 4.6 1.3 - - - -
12C ILE* 3.9 31.1 - - + +
126C ASN* 3.5 20.2 - - + +
133C GLN* 3.6 7.6 - - + +
134C HIS* 1.3 86.5 - - - +
136C THR* 1.3 63.9 + - + +
137C GLN 3.0 5.4 - - - -
138C THR* 3.3 4.6 + - - +
139C LEU* 3.2 26.9 + - - +
171C SER* 3.8 2.2 - - - +
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Residues in contact with THR 136 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
9C ILE* 5.1 3.8 - - + -
55C THR* 4.4 0.7 - - - +
59C PHE* 3.5 28.5 - - + -
125C LEU* 5.2 2.0 - - + -
126C ASN 3.9 20.2 + - - +
134C HIS* 3.4 7.0 + - - -
135C PRO* 1.3 80.0 - - + +
137C GLN* 1.3 63.8 + - - +
139C LEU* 3.5 17.3 + - + +
140C LEU* 3.5 12.1 + - - +
295C ALA* 5.3 0.3 - - - +
296C ARG* 3.2 40.5 + - - +
299C LEU* 3.7 20.9 - - + -
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Residues in contact with GLN 137 (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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54C ARG* 6.2 0.8 - - - +
55C THR* 4.5 1.0 + - - -
134C HIS* 3.0 42.6 + - + +
135C PRO 3.0 1.0 - - - -
136C THR* 1.3 76.3 + - - +
138C THR* 1.3 67.0 + - - +
139C LEU 2.9 3.1 + - - -
140C LEU* 3.1 21.3 + - - +
141C ASP* 3.0 44.5 + - - +
168C THR* 3.9 17.9 - - + +
226C TYR* 4.1 0.9 - - - +
266C PRO* 3.5 27.4 + - - +
288C GLN* 4.1 0.5 + - - -
296C ARG* 4.0 12.1 - - - +
311C PAL 3.6 16.6 + - - +
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Residues in contact with THR 138 (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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12C ILE* 3.8 16.8 - - + -
20C LEU* 5.2 0.7 - - + -
134C HIS 3.2 2.2 + - - -
135C PRO 3.5 8.3 - - - -
137C GLN* 1.3 77.2 - - - +
139C LEU* 1.3 55.4 + - + +
141C ASP* 3.2 10.7 + - - +
142C LEU* 2.7 43.8 + - + +
168C THR 4.1 1.2 + - - -
171C SER* 2.8 37.2 - - - -
172C LEU* 3.0 8.4 + - + +
175C ALA* 3.2 34.8 - - + -
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Residues in contact with LEU 139 (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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9C ILE* 5.0 7.0 - - + -
12C ILE* 5.4 1.6 - - + -
15C LEU* 5.3 4.9 - - + -
20C LEU* 4.3 27.6 - - + +
23C VAL* 3.8 31.9 - - + -
24C LEU* 3.6 9.7 - - + +
135C PRO* 3.2 16.4 + - + +
136C THR* 3.7 15.5 - - - +
137C GLN 2.9 2.2 + - - -
138C THR* 1.3 79.8 - - + +
140C LEU* 1.3 55.9 + - - +
142C LEU* 3.4 8.8 + - + +
143C PHE* 2.8 28.4 + - - +
295C ALA* 4.1 14.1 - - + +
299C LEU* 3.9 32.1 - - + -
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Residues in contact with LEU 140 (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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136C THR 3.5 3.4 + - - +
137C GLN* 3.1 22.6 + - - +
139C LEU* 1.3 75.0 - - - +
141C ASP* 1.3 70.4 + - - +
143C PHE* 3.7 4.7 - - - +
144C THR* 2.7 33.1 + - - -
288C GLN* 3.1 44.0 - - + +
289C ALA* 4.9 3.8 - - - +
291C ASN* 4.2 1.5 - - - +
292C GLY* 3.6 24.2 - - - +
295C ALA* 3.8 14.7 - - + +
296C ARG* 3.3 38.6 - - - +
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Residues in contact with ASP 141 (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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137C GLN* 3.0 32.9 + - - +
138C THR* 3.4 12.4 - - - +
139C LEU 3.1 0.2 - - - -
140C LEU* 1.3 79.5 - - - +
142C LEU* 1.3 63.3 - - - +
144C THR* 3.0 15.0 + - - -
145C ILE* 3.1 19.8 + - + +
168C THR 5.0 0.5 - - - +
172C LEU* 4.1 17.7 - - + +
226C TYR* 2.8 30.7 + - + -
264C LEU* 4.5 3.3 - - + +
288C GLN* 2.3 38.0 + - - +
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Residues in contact with LEU 142 (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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20C LEU* 3.4 40.6 - - + -
24C LEU* 3.9 19.1 - - + -
138C THR* 2.7 30.0 + - + +
139C LEU* 3.7 8.3 - - + +
141C ASP* 1.3 73.8 - - - +
143C PHE* 1.3 64.4 + - - +
144C THR 3.0 0.9 + - - -
145C ILE* 3.3 6.1 + - + +
146C GLN* 3.2 23.2 + - - +
152C LEU* 4.0 14.6 - - + +
172C LEU* 4.1 12.1 - - + -
175C ALA* 3.8 10.1 - - + -
176C LEU* 4.0 28.5 - - + -
179C PHE* 4.5 8.3 - - + -
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Residues in contact with PHE 143 (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 LEU* 3.3 34.4 - - + +
27C ALA* 3.5 29.8 - - + -
28C ALA* 3.8 20.6 - - + -
31C LYS* 4.2 20.2 - - + -
139C LEU 2.8 13.2 + - - +
140C LEU* 3.7 9.6 - - - +
141C ASP 3.2 0.2 - - - -
142C LEU* 1.3 77.3 - - - +
144C THR* 1.3 53.7 + - - +
146C GLN* 4.0 11.8 + - - +
147C GLN* 3.0 41.7 + - + +
291C ASN* 3.7 40.2 - - + -
294C PHE* 4.5 6.1 - - + -
295C ALA* 4.7 5.2 - - + -
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Residues in contact with THR 144 (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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140C LEU 2.7 21.5 + - - -
141C ASP* 3.0 6.6 + - - -
143C PHE* 1.3 75.3 - - - +
145C ILE* 1.3 52.7 + - - +
147C GLN* 3.7 4.4 - - - -
148C THR* 2.8 41.8 + - - +
264C LEU* 3.7 19.3 - - + -
284C TRP* 3.3 35.4 - - + +
288C GLN* 3.9 19.6 - - + -
291C ASN* 3.2 23.7 + - - +
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Residues in contact with ILE 145 (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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141C ASP* 3.1 19.7 + - + +
142C LEU* 3.3 5.1 + - + +
144C THR* 1.3 71.6 - - - +
146C GLN* 1.3 59.2 + - - +
148C THR* 3.8 5.6 - - - -
149C GLU* 2.6 48.6 + - + +
151C ARG 3.8 0.2 - - - +
152C LEU* 3.6 12.8 - - + -
155C LEU* 3.0 37.5 - - + -
157C VAL* 5.6 1.1 - - + -
172C LEU* 4.5 20.6 - - + -
176C LEU* 4.8 14.6 - - + -
224C ILE* 4.2 21.1 - - + -
264C LEU* 4.0 20.4 - - + -
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Residues in contact with GLN 146 (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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21C ASN* 5.2 4.0 + - - -
24C LEU* 4.0 31.6 + - - +
28C ALA* 5.7 4.2 - - - +
142C LEU 3.2 13.6 + - - +
143C PHE* 4.0 13.7 + - - +
145C ILE* 1.3 76.4 - - - +
147C GLN* 1.3 66.6 + - - +
150C GLY* 2.8 38.1 + - - +
151C ARG* 3.6 12.8 - - - +
152C LEU* 3.8 17.9 - - + +
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Residues in contact with GLN 147 (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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31C LYS* 3.4 25.5 + - - -
143C PHE* 3.0 26.3 + - + +
144C THR* 3.8 2.3 + - - +
145C ILE 3.3 0.2 - - - -
146C GLN* 1.3 85.9 - - - +
148C THR* 1.3 59.9 + - + +
150C GLY* 4.4 1.9 + - - -
284C TRP* 3.1 41.6 - - - +
287C GLN* 5.1 2.2 - - - +
291C ASN* 3.5 21.8 + - - +
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Residues in contact with THR 148 (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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144C THR* 2.8 27.3 + - - +
145C ILE* 3.6 5.7 + - - -
147C GLN* 1.3 81.1 - - + +
149C GLU* 1.3 74.7 + - - +
224C ILE* 4.5 1.6 - - - +
260C ASN* 4.3 7.6 - - - +
262C LYS* 3.7 24.8 - - + +
264C LEU* 5.4 0.5 - - - +
284C TRP* 3.0 50.1 - - + +
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Residues in contact with GLU 149 (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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145C ILE* 2.6 24.7 + - + +
148C THR* 1.3 88.7 + - - +
150C GLY* 1.3 57.2 + - - +
151C ARG* 3.3 17.0 + - + +
155C LEU* 3.9 29.5 - - + +
223C ASP* 3.6 13.6 - - + +
224C ILE* 3.7 16.8 - - + +
260C ASN* 2.4 55.1 + - - +
262C LYS* 3.7 3.8 - - - +
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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
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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