Contacts of the helix formed by residues 144 - 160 (chain C) in PDB entry 2W93
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 144 (chain C).
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Specific contacts
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Residue Dist Surf HB Arom Phob DC
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141C ASP* 2.6 34.5 + - - +
143C ALA* 1.3 80.5 - - + +
145C ALA* 1.3 65.8 + - - +
146C PRO* 3.4 3.4 - - - -
147C ALA* 3.3 11.2 + - - +
148C GLU* 3.2 30.4 + - - +
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Residues in contact with ALA 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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6C LEU* 3.6 28.7 - - + -
139C ILE* 3.7 29.6 - - + -
141C ASP 3.2 16.7 + - - +
142C ILE* 3.5 7.2 + - - +
144C THR* 1.3 76.5 - - - +
146C PRO* 1.4 68.3 - - + +
148C GLU* 3.1 2.9 + - - +
149C ILE* 2.9 26.8 + - + +
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Residues in contact with PRO 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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6C LEU* 4.3 2.2 - - + -
9C TYR* 3.7 31.9 - - + +
142C ILE 3.5 13.5 - - - +
143C ALA 4.0 7.6 - - - +
144C THR 3.6 3.1 - - - -
145C ALA* 1.4 90.8 - - + +
147C ALA* 1.3 55.9 + - - +
149C ILE* 3.4 3.4 + - + +
150C ASP* 3.0 34.2 + - - +
176C VAL* 3.8 32.1 - - + -
177C PRO* 5.1 0.9 - - + -
180C LEU* 3.8 20.9 - - + -
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Residues in contact with ALA 147 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
144C THR* 3.3 12.9 + - - +
145C ALA 3.3 0.8 - - - -
146C PRO* 1.3 78.8 - - - +
148C GLU* 1.3 59.7 + - + +
150C ASP* 3.4 9.0 + - - +
151C ARG* 2.9 29.2 + - - +
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Residues in contact with GLU 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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137C ALA* 3.4 11.2 - - + +
139C ILE* 3.4 28.9 - - + +
144C THR* 3.2 23.3 + - - +
145C ALA 3.1 4.6 + - - +
147C ALA* 1.3 76.3 - - + +
149C ILE* 1.3 59.7 + - - +
151C ARG* 2.8 49.3 + - - +
152C CYS* 2.9 36.5 + - - -
165C LEU* 5.1 0.2 - - - -
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Residues in contact with ILE 149 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
6C LEU* 3.5 40.2 - - + +
9C TYR* 3.9 25.4 - - + -
10C LEU* 3.9 24.2 - - + -
13C ARG* 4.6 0.4 - - + -
139C ILE* 4.9 1.1 - - + +
145C ALA* 2.9 12.9 + - + +
146C PRO 3.5 7.2 - - - +
148C GLU* 1.3 75.0 - - - +
150C ASP* 1.3 65.4 + - - +
152C CYS* 3.1 7.1 + - - +
153C ILE* 2.9 43.3 + - + +
165C LEU* 4.1 22.2 - - + -
167C LEU* 4.8 11.0 - - + -
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Residues in contact with ASP 150 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
9C TYR* 2.7 28.7 + - - -
13C ARG* 2.9 39.0 + - - +
146C PRO 3.0 11.7 + - - +
147C ALA* 3.7 7.7 - - - +
149C ILE* 1.3 74.2 - - - +
151C ARG* 1.3 57.5 + - - +
153C ILE 3.8 0.3 - - - -
154C ARG* 2.8 31.5 + - - +
185C ILE* 3.7 25.0 - - + +
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Residues in contact with ARG 151 (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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135C THR* 3.0 35.5 + - - +
136C THR 3.1 22.4 + - - -
137C ALA* 3.6 6.6 - - - +
147C ALA 2.9 17.4 + - - +
148C GLU* 2.8 45.0 + - - +
150C ASP* 1.3 76.2 - - - +
152C CYS* 1.3 60.4 + - - +
154C ARG* 3.4 7.5 + - - +
155C THR* 2.9 41.6 + - - +
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Residues in contact with CYS 152 (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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96C LEU* 4.0 11.2 - - + -
135C THR* 4.9 1.3 - - - -
136C THR 4.8 0.4 - - - -
137C ALA* 3.6 29.4 - - - -
148C GLU 2.9 19.5 + - - +
149C ILE* 3.5 6.7 - - - +
151C ARG* 1.3 85.3 - - - +
153C ILE* 1.3 53.4 + - - +
155C THR* 3.4 1.9 + - - -
156C THR* 2.8 38.0 + - - -
163C VAL* 3.6 30.1 - - + +
164C TYR 4.3 2.2 - - - -
165C LEU* 4.1 13.5 - - + -
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Residues in contact with ILE 153 (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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10C LEU* 4.4 4.9 - - + -
13C ARG* 3.6 30.5 - - + -
14C LEU* 4.1 18.6 - - + +
17C VAL* 3.9 18.2 - - + -
67C MET* 4.1 8.8 - - + +
96C LEU* 4.0 19.5 - - + -
149C ILE* 2.9 30.8 + - + +
150C ASP 3.9 2.9 - - - +
152C CYS* 1.3 73.5 - - - +
154C ARG* 1.3 65.2 + - - +
156C THR* 3.3 6.8 + - - -
157C TYR* 3.1 21.1 + - - +
185C ILE* 3.9 7.0 - - + -
187C MET* 3.3 25.1 - - + -
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Residues in contact with ARG 154 (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 ASP 2.8 22.7 + - - +
151C ARG* 3.7 7.2 - - - +
153C ILE* 1.3 75.8 - - - +
155C THR* 1.3 67.2 + - - +
157C TYR* 3.2 1.0 + - - +
158C VAL* 2.9 45.0 + - + +
185C ILE* 3.8 11.9 - - + -
186C ASP* 2.8 52.9 + - - +
187C MET* 3.9 11.2 - - - +
188C SER 2.8 31.9 + - - +
189C LEU* 4.5 0.8 - - - +
190C LYS* 3.9 33.8 - - - +
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Residues in contact with THR 155 (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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134C GLU* 3.6 30.3 - - + -
135C THR* 3.9 23.4 - - + +
151C ARG* 2.9 32.8 + - - +
152C CYS 3.9 2.9 - - - -
154C ARG* 1.3 75.9 - - - +
156C THR* 1.3 60.7 + - - +
158C VAL* 3.9 7.6 - - - -
159C THR* 2.7 41.5 + - + +
163C VAL* 4.0 3.6 - - + -
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Residues in contact with THR 156 (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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67C MET* 3.7 15.9 - - + -
94C GLY* 3.2 37.5 - - - +
95C VAL 3.5 5.6 - - - +
96C LEU* 3.7 19.1 - - - +
152C CYS 2.8 22.9 + - - -
153C ILE 3.6 4.5 - - - -
154C ARG 3.2 0.2 - - - -
155C THR* 1.3 75.6 - - - +
157C TYR* 1.3 58.8 + - - +
160C GLN* 3.0 30.8 + - - -
161C ARG 3.7 10.5 + - - +
163C VAL* 3.2 18.2 - - - +
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Residues in contact with TYR 157 (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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17C VAL* 6.4 0.9 - - + -
66C GLY* 3.7 28.7 - - - -
67C MET* 3.8 22.0 - - + -
153C ILE 3.1 9.0 + - - +
154C ARG 3.9 1.8 - - - +
156C THR* 1.3 80.9 - - - +
158C VAL* 1.3 64.5 + - + +
160C GLN* 2.9 41.6 + - - +
187C MET* 3.4 49.8 - - + -
226C ASP* 4.5 20.1 + - + +
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Residues in contact with VAL 158 (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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154C ARG* 2.9 57.1 + - + +
155C THR* 3.8 9.9 - - - +
157C TYR* 1.3 80.0 - - + +
159C THR* 1.3 70.8 + - + +
160C GLN* 4.9 0.5 - - - +
187C MET* 3.7 28.9 - - - +
188C SER 4.1 5.6 - - - +
189C LEU* 3.5 31.6 - - + +
225C HIS* 4.4 9.2 + - - -
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Residues in contact with THR 159 (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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92C HIS* 4.6 0.2 + - - -
134C GLU* 3.5 40.8 - - + +
155C THR* 2.7 30.2 + - + +
158C VAL* 1.3 85.7 - - + +
160C GLN* 1.3 66.8 + - - +
161C ARG* 3.3 18.0 + - - +
189C LEU* 6.3 0.4 - - + -
225C HIS* 3.0 22.1 - - - -
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Residues in contact with GLN 160 (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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62C ALA* 5.0 1.2 - - - +
66C GLY 2.9 27.6 + - - +
67C MET* 4.6 0.2 - - - +
92C HIS* 2.8 36.8 - - - +
93C VAL* 4.9 0.9 - - - +
94C GLY* 3.1 24.8 + - - +
156C THR 3.0 12.9 + - - -
157C TYR* 2.9 39.2 + - - +
158C VAL 4.9 0.7 - - - +
159C THR* 1.3 80.1 - - - +
161C ARG* 1.3 57.4 + - - +
224C ARG* 3.3 33.7 + - - +
225C HIS* 3.8 15.3 - - + +
226C ASP* 6.4 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
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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