Contacts of the helix formed by residues 147 - 165 (chain C) in PDB entry 1I0E
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 SER 147 (chain C).
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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145C HIS 3.7 2.2 + - - -
146C CYS* 1.3 74.6 - - - +
148C ARG* 1.3 67.9 + - - +
149C GLY* 2.9 7.9 + - - -
150C GLU* 2.9 26.8 + - - +
151C ARG* 2.7 22.0 + - - +
209C ARG* 5.0 4.0 - - - +
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Residues in contact with ARG 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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146C CYS 4.1 0.2 + - - -
147C SER* 1.3 72.9 - - - +
149C GLY* 1.3 67.7 + - - +
151C ARG* 3.7 14.6 - - - +
152C ARG* 2.9 56.8 + - - +
209C ARG* 5.4 0.8 - - - +
210C ASP* 3.2 43.7 + - + +
213C ASP* 4.8 3.8 - - - +
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Residues in contact with GLY 149 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
147C SER* 2.8 9.5 + - - -
148C ARG* 1.3 84.3 - - - +
150C GLU* 1.3 62.0 + - - +
152C ARG* 3.1 14.2 + - - +
153C ALA* 3.2 11.1 + - - +
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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
----------------------------------------------------------
139C GLY 4.2 2.6 - - - +
140C TYR* 3.2 24.0 - - + -
141C THR* 2.3 52.6 + - - +
145C HIS 4.5 0.7 - - - +
146C CYS* 3.4 15.4 - - + -
147C SER* 2.9 22.9 + - - +
149C GLY* 1.3 69.6 - - - -
151C ARG* 1.3 65.0 + - - +
153C ALA* 2.8 21.5 + - - +
154C VAL* 3.0 16.1 + - + +
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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
----------------------------------------------------------
143C PRO* 4.8 3.6 + - - +
146C CYS* 3.8 34.1 + - - -
147C SER 2.7 19.2 + - - +
148C ARG* 3.7 14.6 - - - +
150C GLU* 1.3 73.0 - - - +
152C ARG* 1.3 60.2 + - - +
154C VAL* 3.5 3.2 + - - +
155C GLU* 3.2 17.3 + - - +
207C MET 5.5 2.0 + - - -
209C ARG* 3.0 24.4 + - - +
210C ASP* 2.5 35.0 + - - +
213C ASP* 3.7 12.0 + - - -
214C ALA* 3.3 16.0 - - + +
215C ARG* 3.0 41.8 - - - +
230C ASN* 3.3 30.0 + - - -
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Residues in contact with ARG 152 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
148C ARG* 2.9 44.1 + - - +
149C GLY* 3.4 6.9 - - - +
151C ARG* 1.3 72.6 - - - +
153C ALA* 1.3 56.5 + - - +
155C GLU* 3.0 8.4 + - - +
156C LYS* 2.7 35.0 + - - +
213C ASP* 2.6 45.7 + - - +
214C ALA* 3.9 11.0 - - + -
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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
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140C TYR* 4.0 28.8 + - + +
149C GLY 3.2 7.3 + - - +
150C GLU* 2.8 11.1 + - - +
152C ARG* 1.3 77.1 - - - +
154C VAL* 1.3 63.3 + - - +
156C LYS* 3.3 8.0 + - - +
157C LEU* 2.9 28.0 + - - +
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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
----------------------------------------------------------
137C ILE* 4.3 7.0 - - + -
140C TYR* 3.8 37.0 - - + -
146C CYS* 6.0 0.9 - - - -
150C GLU* 3.0 15.1 + - + +
151C ARG* 3.5 3.8 - - - +
153C ALA* 1.3 76.5 - - - +
155C GLU* 1.3 50.7 + - - +
157C LEU* 3.7 3.9 - - - +
158C SER* 2.6 50.5 + - - +
230C ASN* 3.3 28.3 - - - +
234C HIS* 4.1 34.3 - - + +
264C PHE* 5.3 0.2 - - - -
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Residues in contact with GLU 155 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
151C ARG 3.2 4.9 + - - +
152C ARG* 3.0 11.3 + - - +
154C VAL* 1.3 77.0 - - - +
156C LYS* 1.3 57.7 + - - +
159C VAL* 2.6 38.3 + - + +
173C TYR* 2.5 46.4 + - + +
175C PRO* 4.5 5.5 - - - +
214C ALA* 3.7 28.7 - - - +
215C ARG 3.8 2.6 + - - +
229C VAL* 3.6 13.0 - - + -
230C ASN* 3.6 13.9 - - - +
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Residues in contact with LYS 156 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
152C ARG 2.7 16.4 + - - +
153C ALA* 3.5 11.9 - - - +
155C GLU* 1.3 77.4 + - - +
157C LEU* 1.3 66.6 + - - +
159C VAL* 3.6 4.0 - - - +
160C GLU* 2.7 54.7 + - - +
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Residues in contact with LEU 157 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
137C ILE* 4.3 2.0 - - + -
140C TYR* 4.2 17.0 - - + +
153C ALA 2.9 15.9 + - - +
154C VAL* 3.7 3.4 - - - +
156C LYS* 1.3 75.6 - - - +
158C SER* 1.3 59.5 + - - +
160C GLU* 3.3 9.7 + - + +
161C ALA* 2.8 33.7 + - + +
263C ILE* 5.6 2.2 - - + -
264C PHE* 3.3 29.6 - - + -
267C ALA* 4.6 17.3 - - + -
269C HIS* 3.7 40.6 - - + +
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Residues in contact with SER 158 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
137C ILE* 4.3 1.2 - - - +
154C VAL* 2.6 36.1 + - - +
155C GLU* 3.4 7.9 - - - -
157C LEU* 1.3 72.7 - - - +
159C VAL* 1.3 57.4 + - - +
161C ALA* 3.3 1.9 - - - +
162C LEU* 2.8 37.6 + - - +
229C VAL* 4.0 11.3 - - - +
235C LEU* 3.6 29.4 - - - +
264C PHE* 3.6 18.6 - - - -
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Residues in contact with VAL 159 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
155C GLU* 2.6 27.6 + - + +
156C LYS* 3.6 3.4 - - - +
158C SER* 1.3 70.8 - - - +
160C GLU* 1.3 69.9 + - - +
162C LEU* 3.0 9.7 + - - +
163C ASN* 2.7 41.7 + - - +
173C TYR* 3.3 62.1 - - + -
229C VAL* 5.1 0.4 - - + -
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Residues in contact with GLU 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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156C LYS* 2.7 58.8 + - - +
157C LEU* 3.4 9.1 + - + +
159C VAL* 1.3 77.6 - - - +
161C ALA* 1.3 67.4 + - - +
163C ASN* 2.9 14.6 + - - +
164C SER* 3.2 9.9 + - - -
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Residues in contact with ALA 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 LEU* 2.8 23.7 + - + +
158C SER 3.3 4.7 - - - +
160C GLU* 1.3 70.9 - - - +
162C LEU* 1.3 63.4 + - + +
164C SER* 2.6 27.1 + - - -
165C LEU* 3.6 5.2 + - - +
260C ILE* 5.0 3.8 - - + +
263C ILE* 3.8 32.4 - - + +
264C PHE* 4.0 25.4 - - + -
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Residues in contact with LEU 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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158C SER* 2.8 29.4 + - - +
159C VAL* 3.4 7.4 - - - +
161C ALA* 1.3 72.8 - - + +
163C ASN* 1.3 65.4 - - - +
165C LEU* 2.8 33.5 + - + +
173C TYR* 5.1 0.7 - - + -
218C TRP* 3.1 67.2 - - + +
227C VAL* 4.2 21.3 - - + -
229C VAL* 4.7 8.7 - - + -
235C LEU* 5.6 1.1 - - + -
260C ILE* 3.5 29.4 - - + +
264C PHE* 6.2 0.9 - - + -
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Residues in contact with ASN 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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159C VAL* 2.7 34.3 + - - +
160C GLU* 3.4 11.6 - - - +
162C LEU* 1.3 72.1 - - - +
164C SER* 1.3 63.7 + - - +
165C LEU 3.7 6.3 - - - +
171C GLY 5.0 4.0 + - - -
172C LYS* 4.9 4.2 - - - +
173C TYR* 4.6 8.9 - - - +
218C TRP* 4.1 15.9 - - - +
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Residues in contact with SER 164 (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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160C GLU 3.2 6.9 + - - -
161C ALA* 2.6 22.9 + - - -
162C LEU 3.0 0.4 + - - -
163C ASN* 1.3 75.3 - - - +
165C LEU* 1.3 69.6 + - - +
166C THR* 3.0 18.9 + - - +
263C ILE* 3.6 26.0 - - - +
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Residues in contact with LEU 165 (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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161C ALA 4.0 6.1 - - - +
162C LEU* 2.8 28.2 + - + +
163C ASN 3.7 7.1 - - - +
164C SER* 1.3 83.9 + - - +
166C THR* 1.3 61.2 + - - +
169C PHE* 3.3 30.0 - - + +
170C LYS* 3.6 9.2 - - - +
171C GLY 4.7 0.9 + - - -
218C TRP* 4.1 13.0 - - + -
225C PHE* 5.0 4.0 - - + -
256C GLY* 5.0 1.1 - - - +
259C LYS* 3.7 42.0 - - + +
260C ILE* 3.3 33.2 - - + -
263C ILE* 5.1 4.0 - - + -
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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