Contacts of the helix formed by residues 148 - 165 (chain C) in PDB entry 3E5X
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 ASN 148 (chain C).
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Specific contacts
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Residue Dist Surf HB Arom Phob DC
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146C THR 4.4 0.4 + - - -
147C TYR* 1.3 76.6 - - - +
149C PRO* 1.3 76.3 - - + +
150C THR* 3.1 13.5 + - - -
151C ILE* 3.1 39.2 + - - +
152C ARG* 3.0 19.0 + - - +
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Residues in contact with PRO 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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148C ASN* 1.3 88.7 - - + +
150C THR* 1.3 62.4 - - - +
152C ARG* 3.3 21.8 + - - +
153C ILE* 3.2 20.6 + - - +
188C GLY 5.4 1.3 - - - +
189C VAL* 3.5 42.0 - - + +
193C THR* 4.5 8.1 - - + +
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Residues in contact with THR 150 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
148C ASN* 3.1 9.7 + - - -
149C PRO* 1.3 74.8 - - - +
151C ILE* 1.3 73.0 + - + +
153C ILE* 3.0 14.1 + - - +
154C LEU* 3.2 32.4 + - + +
193C THR* 4.0 8.1 - - - +
196C ARG* 4.0 11.2 + - - +
197C VAL* 3.6 29.3 - - + +
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Residues in contact with ILE 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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147C TYR* 3.9 30.5 - - + -
148C ASN* 3.1 37.2 + - - +
150C THR* 1.3 83.8 - - + +
152C ARG* 1.3 56.9 + - - +
154C LEU* 3.1 17.6 + - + +
155C ARG* 2.8 44.1 + - + +
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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
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140C GLN* 4.8 0.4 - - - +
143C GLU* 3.8 37.4 - - - +
144C MET* 3.7 44.0 + - - +
147C TYR* 2.7 40.8 + - + +
148C ASN* 3.0 15.0 + - - +
149C PRO* 3.7 35.0 - - - +
150C THR 3.2 0.2 - - - -
151C ILE* 1.3 74.0 - - - +
153C ILE* 1.3 63.0 + - - +
155C ARG* 3.7 2.4 - - - +
156C LEU* 3.1 22.2 + - - +
187C THR* 3.1 38.0 + - + +
188C GLY* 3.4 18.0 + - - -
145D ASN* 4.9 0.2 + - - -
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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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149C PRO 3.2 14.8 + - - +
150C THR* 3.0 6.3 + - - +
152C ARG* 1.3 77.0 - - - +
154C LEU* 1.3 62.6 + - + +
156C LEU* 3.2 14.1 + - - +
157C PHE* 3.3 39.7 + - + -
183C ILE* 4.2 13.0 - - + -
187C THR* 4.1 21.5 - - - +
189C VAL* 3.9 21.3 - - + -
193C THR* 4.4 0.7 - - + -
194C VAL* 4.0 22.7 - - + -
197C VAL* 3.9 31.4 - - + -
198C LEU* 4.1 7.2 - - + -
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Residues in contact with LEU 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 THR* 3.3 25.6 - - + +
151C ILE* 3.1 19.9 + - + +
153C ILE* 1.3 75.4 - - - +
155C ARG* 1.3 55.7 + - + +
157C PHE* 3.4 4.1 + - - -
158C TYR* 2.9 30.2 + - - +
197C VAL* 3.9 22.4 - - + -
201C LEU* 4.4 18.4 - - + -
221C GLU 6.0 0.9 - - - +
222C LEU* 3.6 35.1 - - + +
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Residues in contact with ARG 155 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
139C ARG* 3.3 21.6 - - - +
143C GLU* 3.1 30.1 + - - +
147C TYR* 3.4 48.4 + - - -
151C ILE* 2.8 31.7 + - + +
152C ARG 3.7 1.6 - - - +
154C LEU* 1.3 69.1 - - + +
156C LEU* 1.3 59.9 + - - +
158C TYR* 3.4 6.6 + - - +
159C GLU* 2.8 51.0 + - - +
67D PHE* 3.5 15.2 - - - -
68D GLU* 3.1 37.0 + - - +
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Residues in contact with LEU 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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14C ILE* 3.6 17.0 - - + +
15C ILE* 3.5 29.6 - - + -
152C ARG 3.1 12.9 + - - +
153C ILE 3.2 8.7 + - - +
155C ARG* 1.3 78.5 - - - +
157C PHE* 1.3 60.8 + - + +
159C GLU* 3.4 6.6 + - - +
160C LEU* 2.9 41.7 + - + +
178C LEU* 4.2 20.2 - - + -
183C ILE* 4.5 13.9 - - + -
186C ILE* 4.5 17.0 - - + -
187C THR* 4.0 22.4 - - + -
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Residues in contact with PHE 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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153C ILE* 3.3 38.1 + - + -
154C LEU* 3.8 6.7 - - - +
156C LEU* 1.3 76.2 - - + +
158C TYR* 1.3 60.6 + - - +
160C LEU* 3.4 10.1 + - + +
161C CYS* 2.8 31.0 + - - +
174C ILE* 3.8 6.3 - - + +
178C LEU* 4.4 5.4 - - + -
183C ILE* 3.8 17.3 - - + -
198C LEU* 3.7 24.2 - - + -
201C LEU* 3.9 13.5 - - + -
207C LEU* 3.5 33.0 - - + -
209C LYS* 3.8 26.5 - - + -
214C ILE* 4.3 22.9 - - + -
222C LEU* 4.1 5.2 - - + -
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Residues in contact with TYR 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 LEU 2.9 18.4 + - - +
155C ARG* 3.7 6.5 - - - +
157C PHE* 1.3 77.0 - - - +
159C GLU* 1.3 69.8 + - + +
161C CYS* 3.1 2.5 + - - +
162C SER* 2.7 57.8 + - - -
219C LEU* 3.9 34.8 - - + -
222C LEU* 3.8 24.3 - - + +
68D GLU* 5.4 8.7 - - - -
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Residues in contact with GLU 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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14C ILE* 3.6 28.4 - - + +
139C ARG* 3.5 29.3 + - - +
143C GLU* 5.1 2.8 - - - +
155C ARG* 2.8 49.6 + - - +
156C LEU* 3.8 6.5 - - - +
158C TYR* 1.3 83.1 - - + +
160C LEU* 1.3 57.2 + - - +
162C SER* 3.5 6.0 + - - -
163C SER* 3.0 30.1 + - - -
68D GLU* 4.6 3.6 - - - +
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Residues in contact with LEU 160 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
14C ILE* 3.8 27.8 - - + -
15C ILE* 4.1 15.7 - - + -
156C LEU* 2.9 31.4 + - + +
157C PHE* 3.7 10.5 - - + +
159C GLU* 1.3 74.1 - - - +
161C CYS* 1.3 61.7 + - - +
163C SER* 4.5 0.4 - - - -
164C GLN* 2.9 45.6 + - - +
165C GLY 3.4 1.0 + - - -
174C ILE* 4.0 16.9 - - + +
176C MET* 4.0 22.7 - - + -
178C LEU* 3.7 29.6 - - + -
214C ILE* 5.0 1.1 - - + -
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Residues in contact with CYS 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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24A LYS* 4.7 1.7 + - - -
157C PHE 2.8 19.5 + - - +
158C TYR* 3.1 4.2 + - - +
160C LEU* 1.3 77.2 - - - +
162C SER* 1.3 57.8 + - - +
165C GLY* 2.9 27.7 + - - +
172C TYR* 3.4 36.9 - - - -
174C ILE* 3.6 15.7 - - + +
216C VAL* 3.9 14.8 - - + -
219C LEU* 3.6 30.3 - - + -
222C LEU* 4.8 0.2 - - + -
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Residues in contact with SER 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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24A LYS* 4.3 8.1 + - - +
158C TYR* 2.7 53.2 + - - -
159C GLU* 3.7 7.6 - - - -
161C CYS* 1.3 73.1 - - - +
163C SER* 1.3 58.2 + - - +
219C LEU* 5.4 3.8 - - - +
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Residues in contact with SER 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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24A LYS* 3.7 12.1 + - - +
27A ASN* 3.5 14.4 + - - -
14C ILE* 3.6 20.7 - - - +
159C GLU 3.0 17.7 + - - -
160C LEU* 4.0 2.2 - - - -
161C CYS 3.3 0.2 - - - -
162C SER* 1.3 79.2 - - - +
164C GLN* 1.3 69.0 + - - +
165C GLY 3.7 0.4 - - - -
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Residues in contact with GLN 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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24A LYS* 4.3 0.9 - - - +
27A ASN* 3.9 16.1 + - - +
28A TYR* 5.0 0.9 + - - -
14C ILE* 5.7 0.9 - - - +
160C LEU* 2.9 27.9 + - - +
163C SER* 1.3 87.6 + - - +
165C GLY* 1.3 67.4 + - - +
166C LYS* 3.6 15.8 + - - +
173C GLU 3.9 3.8 - - - +
174C ILE* 3.7 23.4 - - + +
175C THR 4.0 14.8 + - - +
176C MET* 3.7 27.5 - - - +
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Residues in contact with GLY 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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24A LYS* 3.0 24.6 + - - -
119A ASP* 4.0 2.4 - - - +
160C LEU 3.4 3.2 + - - -
161C CYS* 2.9 31.4 + - - -
163C SER 3.7 0.2 - - - -
164C GLN* 1.3 77.3 - - - +
166C LYS* 1.3 60.3 + - - +
167C ARG 4.1 1.0 + - - -
172C TYR* 4.1 9.5 - - - -
173C GLU 3.3 12.8 - - - -
174C ILE* 4.3 2.7 - - - -
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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