Contacts of the helix formed by residues 145 - 157 (chain C) in PDB entry 2Q5E
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 TYR 145 (chain C).
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Specific contacts
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Residue Dist Surf HB Arom Phob DC
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143C ARG 3.4 0.6 + - - -
144C PRO* 1.3 96.7 - - + +
146C VAL* 1.3 58.9 + - - +
147C ASP* 3.6 2.9 + - - -
148C GLU* 3.6 10.6 + - + +
149C PHE* 2.8 31.8 + - - +
242C ASP 4.3 1.1 - - - -
243C THR* 3.8 30.1 - - + -
245C LEU* 4.2 1.6 - - + -
246C LEU* 4.4 41.3 - - + +
249C ILE* 5.7 1.1 - - + +
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Residues in contact with VAL 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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112C LEU* 3.7 40.4 - - + +
142C LYS* 3.9 22.0 - - + -
143C ARG 3.2 18.8 + - - +
144C PRO 3.4 0.2 - - - -
145C TYR* 1.3 75.1 - - - +
147C ASP* 1.3 70.6 + - - +
149C PHE* 3.1 0.5 + - - +
150C LEU* 2.7 48.6 + - + +
177C LEU* 4.1 15.0 - - + +
245C LEU* 3.7 16.4 - - + -
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Residues in contact with ASP 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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142C LYS* 2.7 35.5 + - - +
145C TYR* 5.8 1.1 + - - -
146C VAL* 1.3 80.8 + - - +
148C GLU* 1.3 62.4 + - + +
150C LEU* 3.4 6.4 + - - +
151C ARG* 3.0 29.0 + - - +
177C LEU 4.5 10.9 - - - +
179C ARG* 3.2 32.3 + - - +
180C CYS* 5.3 2.4 - - - -
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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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145C TYR* 3.6 12.2 + - + +
146C VAL 3.3 0.4 - - - -
147C ASP* 1.3 79.2 - - + +
149C PHE* 1.3 67.5 + - - +
151C ARG* 2.8 47.1 + - - +
152C ARG* 3.1 45.5 + - - +
249C ILE* 5.1 3.4 - - + -
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Residues in contact with PHE 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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106C ILE* 4.6 2.7 - - + -
112C LEU* 4.2 18.6 - - + -
145C TYR 2.8 23.8 + - - +
146C VAL* 3.3 7.0 - - - +
148C GLU* 1.3 73.2 - - - +
150C LEU* 1.3 78.1 + - + +
152C ARG* 3.3 1.6 + - - +
153C MET* 2.9 59.7 + - + +
216C LEU* 3.7 31.4 - - + -
245C LEU* 3.3 45.8 - - + -
248C LEU* 4.2 13.7 - - + -
249C ILE* 3.9 19.4 - - + +
252C PHE* 4.6 4.0 - + - -
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Residues in contact with LEU 150 (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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106C ILE* 4.5 7.6 - - + -
112C LEU* 4.2 11.0 - - + -
146C VAL* 2.7 29.7 + - + +
147C ASP* 3.8 4.7 - - - +
149C PHE* 1.3 90.2 - - + +
151C ARG* 1.3 62.7 + - - +
153C MET* 3.3 4.7 + - + +
154C GLY 2.9 19.6 + - - -
177C LEU* 4.2 37.7 - - + +
178C ASP* 4.5 15.7 - - - +
180C CYS* 5.9 2.5 - - + -
182C VAL* 3.5 21.6 - - + +
183C PHE* 4.1 26.9 - - + -
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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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147C ASP 3.0 17.3 + - - +
148C GLU* 2.8 43.2 + - - +
149C PHE 3.3 0.4 - - - -
150C LEU* 1.3 74.9 - - - +
152C ARG* 1.3 82.0 + - - +
154C GLY* 3.1 13.3 + - - -
155C GLU* 3.2 49.2 + - - +
180C CYS* 3.5 31.6 - - + -
182C VAL* 4.5 4.4 - - - +
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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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148C GLU* 3.1 29.7 + - - +
149C PHE* 3.9 2.2 - - - +
151C ARG* 1.3 111.4 - - - +
153C MET* 1.3 65.4 + - - +
155C GLU* 3.2 19.6 + - - +
156C LEU* 3.7 21.0 + - + +
246C LEU* 5.6 4.4 - - - +
249C ILE* 3.7 43.2 - - + +
253C GLU* 3.3 27.6 + - - +
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Residues in contact with MET 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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104C VAL* 4.2 16.6 - - + -
106C ILE* 4.6 8.7 - - + -
149C PHE* 2.9 53.7 + - + +
150C LEU* 3.7 6.3 - - + +
152C ARG* 1.3 75.3 - - - +
154C GLY* 1.3 57.4 + - - +
156C LEU* 3.1 4.2 + - - -
157C PHE* 3.1 56.1 + - + +
159C CYS* 3.6 13.6 - - - -
216C LEU* 5.4 0.4 - - + -
249C ILE* 5.8 4.7 - - - -
252C PHE* 3.8 48.9 - - + -
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Residues in contact with GLY 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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101C ARG* 3.3 17.0 + - - -
150C LEU 2.9 9.9 + - - -
151C ARG 3.1 4.2 + - - -
153C MET* 1.3 78.1 - - - +
155C GLU* 1.3 59.2 + - - +
156C LEU 3.3 0.2 - - - -
157C PHE 4.1 2.6 - - - +
159C CYS* 4.0 8.1 - - - -
182C VAL* 3.3 28.5 - - - +
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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
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101C ARG* 3.8 16.2 + - - +
151C ARG* 3.2 47.1 + - - +
152C ARG* 3.2 14.8 + - - +
153C MET 3.2 1.2 - - - -
154C GLY* 1.3 78.1 - - - +
156C LEU* 1.3 70.4 + - + +
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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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101C ARG* 4.0 15.6 - - - +
102C ILE 5.0 0.3 + - - -
152C ARG* 3.7 16.2 - - + +
153C MET* 3.1 3.9 + - - +
155C GLU* 1.3 90.3 - - + +
157C PHE* 1.3 87.0 + - + +
249C ILE* 6.2 1.1 - - + -
252C PHE* 5.7 0.7 - - + -
253C GLU* 3.8 31.6 - - + +
256C SER* 3.9 33.7 - - - +
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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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98C ASP* 4.0 0.5 - - - +
101C ARG* 3.3 22.5 + - - +
102C ILE* 3.4 35.2 - - + +
104C VAL* 3.4 24.5 - - + -
153C MET* 3.1 32.2 + - + +
154C GLY* 4.1 3.5 - - - +
156C LEU* 1.3 96.8 - - + +
158C GLU* 1.3 61.8 + - - +
159C CYS* 3.7 10.8 + - - -
214C LEU* 4.6 3.1 - - + -
252C PHE* 3.2 57.0 - + + -
255C LEU* 4.6 1.3 - - + -
256C SER* 3.6 20.6 - - - -
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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