Contacts of the helix formed by residues 148 - 165 (chain C) in PDB entry 1WUR
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 VAL 148 (chain C).
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
109C GLU* 3.3 35.4 - - + +
110C HIS* 4.2 13.5 - - + -
115C PHE* 4.3 0.4 - - - -
147C GLN* 1.3 80.1 + - - +
149C GLN* 1.3 64.2 + - - +
150C GLU* 3.1 32.1 - - + +
151C ARG* 3.0 29.2 + - + +
152C LEU* 3.1 11.1 + - - +
92D GLU* 4.3 9.6 - - + +
129D ILE* 4.4 6.3 - - + -
823D 8DG 3.3 16.4 - - + +
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Residues in contact with GLN 149 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
115C PHE* 4.0 21.1 - - + -
148C VAL* 1.3 72.3 - - - +
150C GLU* 1.3 63.6 + - - +
151C ARG 3.4 0.3 + - - -
152C LEU* 3.4 11.4 + - + +
153C ALA 3.4 7.3 + - - -
173C VAL* 2.9 40.6 + - + +
175C GLY* 3.8 8.9 + - - -
177C HIS* 2.7 32.3 + - + -
192C THR* 2.8 33.0 + - + +
194C THR* 3.0 35.4 + - + +
132D LEU* 5.4 0.7 - - + -
823D 8DG 2.7 18.1 + - + +
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Residues in contact with GLU 150 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
148C VAL* 3.1 5.4 - - - +
149C GLN* 1.3 76.3 + - - +
151C ARG* 1.3 60.8 + - - +
153C ALA* 3.8 3.3 + - - +
154C VAL* 3.3 25.3 + - - +
194C THR* 3.9 18.2 - - + -
195C SER 5.1 1.4 - - - +
92D GLU* 3.9 22.2 - - + +
93D GLY 5.3 2.2 + - - +
97D VAL* 3.7 37.2 - - + +
123D TYR* 4.4 1.6 + - - -
129D ILE* 4.0 16.4 - - + +
132D LEU* 4.3 3.8 - - - +
823D 8DG 2.6 46.3 + - - -
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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
----------------------------------------------------------
109C GLU* 2.9 39.4 + - - -
146C LEU 4.1 8.3 + - - -
147C GLN* 3.4 17.9 + - - +
148C VAL* 3.0 21.2 + - + +
150C GLU* 1.3 79.1 - - - +
152C LEU* 1.3 59.2 + - - +
154C VAL* 3.1 6.1 + - + +
155C GLN* 2.9 54.1 + - + +
92D GLU* 3.0 48.3 + - + +
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Residues in contact with LEU 152 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
104C PHE* 3.6 37.5 - - + -
106C SER* 4.8 1.6 - - - +
115C PHE* 4.2 13.9 - - + -
119C VAL* 5.3 0.4 - - + -
139C VAL 4.6 0.2 - - - +
142C PHE* 3.7 40.6 - - + +
143C ALA* 3.8 8.7 - - + +
147C GLN* 3.7 12.7 + - + +
148C VAL 3.1 12.0 + - - +
149C GLN* 3.4 10.3 + - - +
151C ARG* 1.3 76.6 - - - +
153C ALA* 1.3 61.7 + - - +
155C GLN* 3.5 1.9 + - - +
156C ILE* 3.1 45.7 + - + +
173C VAL* 4.2 13.2 - - + -
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Residues in contact with ALA 153 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
149C GLN 3.4 2.8 + - - -
150C GLU 4.0 5.8 - - - +
151C ARG 3.3 0.6 - - - -
152C LEU* 1.3 79.1 - - - +
154C VAL* 1.3 61.1 + - - +
156C ILE 3.6 0.2 + - - -
157C ALA* 3.1 18.4 + - - +
171C VAL* 3.8 11.4 - - + +
173C VAL* 3.7 25.1 - - + +
194C THR* 3.8 14.1 - - - +
195C SER* 3.9 27.6 - - - +
196C ALA* 3.4 10.1 - - - +
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Residues in contact with VAL 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 GLU 3.3 15.9 + - - +
151C ARG* 3.1 10.4 + - + +
153C ALA* 1.3 78.3 - - - +
155C GLN* 1.3 59.7 + - + +
157C ALA* 3.2 3.1 + - - +
158C GLU* 2.9 53.2 + - + +
195C SER 4.8 4.7 - - - +
196C ALA* 3.7 16.6 - - + -
92D GLU 3.6 25.8 - - - +
93D GLY* 4.1 12.1 - - - -
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Residues in contact with GLN 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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142C PHE* 3.5 38.7 - - + -
145C ARG* 4.1 11.4 + - - +
147C GLN* 2.7 33.4 + - - -
151C ARG* 2.9 38.6 + - + +
152C LEU 4.0 2.7 - - - +
154C VAL* 1.3 75.0 - - + +
156C ILE* 1.3 62.3 + - - +
158C GLU* 3.9 12.5 - - - +
159C ALA* 3.0 25.1 + - - +
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Residues in contact with ILE 156 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
119C VAL* 4.1 25.4 - - + -
121C ILE* 4.1 11.9 - - + -
138C ILE* 4.3 14.3 - - + +
139C VAL* 4.1 25.1 - - + -
142C PHE* 4.5 9.0 - - + -
152C LEU* 3.1 43.0 + - + +
153C ALA 3.9 3.8 - - - +
155C GLN* 1.3 75.4 - - - +
157C ALA* 1.3 63.0 + - - +
159C ALA* 3.3 3.1 + - - +
160C ILE* 3.1 34.4 + - + +
171C VAL* 4.0 20.6 - - + -
173C VAL* 4.6 1.3 - - + -
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Residues in contact with ALA 157 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
153C ALA 3.1 13.9 + - - +
154C VAL 3.6 4.3 - - - +
156C ILE* 1.3 79.7 - - - +
158C GLU* 1.3 56.5 + - - +
160C ILE* 3.3 3.8 + - - +
161C GLN* 3.0 28.2 + - - +
169C VAL* 4.5 9.3 - - + +
171C VAL* 3.6 20.8 - - + +
196C ALA* 3.7 19.3 - - + +
198C LEU* 3.6 19.9 - - + +
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Residues in contact with GLU 158 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
154C VAL* 2.9 39.7 + - + +
155C GLN* 3.9 12.3 - - - +
157C ALA* 1.3 75.7 - - - +
159C ALA* 1.3 58.3 + - - +
161C GLN* 3.3 3.6 + - - +
162C GLU* 2.9 32.4 + - - +
198C LEU* 4.1 17.9 - - + -
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Residues in contact with ALA 159 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
80C LEU* 3.9 22.4 - - + -
138C ILE* 3.7 13.0 - - + -
142C PHE* 3.7 23.8 - - + -
155C GLN 3.0 18.6 + - - +
156C ILE 3.6 5.2 - - - +
157C ALA 3.3 0.2 - - - -
158C GLU* 1.3 77.1 - - - +
160C ILE* 1.3 62.3 + - - +
162C GLU* 3.3 3.7 + - - +
163C VAL* 3.0 29.6 + - - +
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Residues in contact with ILE 160 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
121C ILE* 3.5 38.8 - - + -
123C TYR* 5.1 3.1 - - + -
130C LEU* 5.4 0.9 - - + -
135C PHE* 3.7 29.4 - - + -
138C ILE* 4.2 15.0 - - + -
156C ILE* 3.1 22.9 + - + +
157C ALA 3.7 5.6 - - - +
159C ALA* 1.3 75.0 - - - +
161C GLN* 1.3 57.6 + - - +
163C VAL* 3.3 5.6 + - - +
164C LEU* 2.9 45.1 + - + +
166C PRO* 4.1 0.2 - - - +
169C VAL* 3.7 26.7 - - + -
171C VAL* 4.3 1.8 - - + -
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Residues in contact with GLN 161 (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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157C ALA 3.0 17.7 + - - +
158C GLU* 3.5 5.8 - - - +
160C ILE* 1.3 75.3 - - - +
162C GLU* 1.3 58.7 + - - +
165C GLU* 2.8 53.3 + - - +
166C PRO* 3.7 21.2 + - - +
168C GLY* 4.6 4.3 - - - -
169C VAL* 4.0 13.9 - - + +
198C LEU* 3.8 27.6 - - + +
199C GLY* 4.8 3.5 + - - -
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Residues in contact with GLU 162 (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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80C LEU* 3.5 23.7 - - + +
81C GLU* 4.0 11.8 - - - +
158C GLU 2.9 17.3 + - - +
159C ALA* 3.6 5.6 - - - +
161C GLN* 1.3 78.9 - - - +
163C VAL* 1.3 61.3 - - + +
165C GLU* 4.0 13.4 - - - +
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Residues in contact with VAL 163 (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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80C LEU* 3.8 20.4 - - + -
84C VAL* 3.7 47.6 - - + -
88C VAL* 4.0 15.0 - - + +
128C LYS* 3.7 17.0 + - - -
130C LEU* 4.2 9.0 - - + -
138C ILE* 4.9 2.2 - - + -
159C ALA 3.0 18.4 + - - +
160C ILE* 3.3 4.9 + - - +
162C GLU* 1.3 78.9 - - + +
164C LEU* 1.3 63.2 + - + +
165C GLU* 5.2 1.4 - - - +
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Residues in contact with LEU 164 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
88C VAL* 4.1 17.3 - - + -
123C TYR* 3.6 34.1 - - + -
126C ASP* 5.1 3.3 + - - +
128C LYS* 3.8 37.3 - - + +
129C ILE 3.7 9.6 - - - +
130C LEU* 3.6 42.6 - - + +
135C PHE* 4.5 0.9 - - + -
160C ILE* 2.9 27.9 + - + +
163C VAL* 1.3 80.5 - - + +
165C GLU* 1.3 75.3 + - - +
166C PRO* 3.2 10.0 - - + +
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Residues in contact with GLU 165 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
126C ASP* 3.6 17.3 - - - +
128C LYS* 4.6 13.7 + - - +
161C GLN* 2.8 34.1 + - - +
162C GLU* 4.0 13.3 - - - +
163C VAL 5.2 0.7 - - - +
164C LEU* 1.3 74.8 - - - +
166C PRO* 1.3 69.4 - - - +
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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
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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