Contacts of the helix formed by residues 145 - 157 (chain E) 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 E).
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Specific contacts
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Residue Dist Surf HB Arom Phob DC
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143E ARG 3.4 0.8 + - - -
144E PRO* 1.3 87.8 - - + +
146E VAL* 1.3 59.8 + - - +
147E ASP 3.5 1.3 - - - -
148E GLU* 3.6 32.0 + - + -
149E PHE* 2.9 30.7 + - - +
242E ASP 3.8 17.9 - - - -
243E THR* 3.8 26.6 - - + +
245E LEU* 4.3 1.1 - - + +
246E LEU* 3.5 49.3 - - + +
249E ILE* 5.9 0.2 - - + -
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Residues in contact with VAL 146 (chain E).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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112E LEU* 4.3 18.6 - - + +
142E LYS* 3.7 33.4 - - + -
143E ARG 2.7 28.7 - - - +
144E PRO 3.3 0.4 - - - -
145E TYR* 1.3 76.5 - - - +
147E ASP* 1.3 60.5 + - - +
148E GLU* 4.5 0.2 + - - -
149E PHE* 3.1 1.4 + - - +
150E LEU* 2.6 48.2 + - + +
177E LEU* 3.9 21.1 - - + -
245E LEU* 3.7 21.8 - - + -
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Residues in contact with ASP 147 (chain E).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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142E LYS* 3.1 37.7 + - - +
146E VAL* 1.3 78.0 + - - +
148E GLU* 1.3 64.2 + - - +
150E LEU* 3.6 5.5 + - - +
151E ARG* 3.0 44.7 + - - +
177E LEU* 4.5 12.7 - - - +
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Residues in contact with GLU 148 (chain E).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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145E TYR* 3.6 42.5 + - + +
146E VAL 4.5 0.2 + - - -
147E ASP* 1.3 82.2 - - - +
149E PHE* 1.3 59.9 + - - +
151E ARG* 3.0 40.6 + - - +
152E ARG* 2.9 30.3 + - - +
246E LEU* 5.6 3.8 - - + -
249E ILE* 4.4 8.8 - - + +
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Residues in contact with PHE 149 (chain E).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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106E ILE* 4.7 5.8 - - + -
112E LEU* 4.3 12.6 - - + -
145E TYR 2.9 22.3 + - - +
146E VAL* 3.3 6.7 - - - +
148E GLU* 1.3 72.7 - - - +
150E LEU* 1.3 86.5 + - + +
151E ARG 3.0 4.5 + - - -
152E ARG* 3.2 10.6 + - - +
153E MET* 3.2 51.5 + - + +
216E LEU* 3.7 25.1 - - + -
245E LEU* 3.4 47.3 - - + +
248E LEU* 4.4 12.3 - - + -
249E ILE* 3.9 18.1 - - + +
252E PHE* 4.5 2.9 - + - -
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Residues in contact with LEU 150 (chain E).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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106E ILE* 4.7 7.6 - - + -
112E LEU* 4.1 9.4 - - + -
146E VAL* 2.6 29.6 + - + +
147E ASP* 4.2 5.2 - - - +
149E PHE* 1.3 94.0 - - + +
151E ARG* 1.3 60.6 + - - +
153E MET* 4.1 4.7 - - + -
154E GLY 3.2 8.8 + - - -
177E LEU* 4.3 30.5 - - + +
178E ASP* 4.5 10.8 - - - +
182E VAL* 3.1 32.5 - - + +
183E PHE* 4.0 37.5 - - + -
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Residues in contact with ARG 151 (chain E).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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147E ASP* 3.0 25.4 + - - +
148E GLU* 3.0 66.3 + - - +
149E PHE 3.0 0.4 - - - -
150E LEU* 1.3 79.0 - - - +
152E ARG* 1.3 68.2 + - - +
154E GLY* 3.5 5.5 + - - -
155E GLU* 3.8 20.0 + - - +
180E CYS* 5.9 6.7 - - - -
182E VAL* 5.1 3.4 - - - +
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Residues in contact with ARG 152 (chain E).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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148E GLU 2.9 13.7 + - - +
149E PHE 3.8 3.6 - - - +
151E ARG* 1.3 77.0 - - - +
153E MET* 1.3 59.1 + - + +
155E GLU* 2.4 74.3 + - - +
156E LEU* 3.4 32.3 + - + +
249E ILE* 3.3 36.6 - - + -
253E GLU* 2.7 32.1 + - + +
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Residues in contact with MET 153 (chain E).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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104E VAL* 4.2 15.9 - - + -
106E ILE* 4.7 2.7 - - + -
149E PHE* 3.2 47.0 + - + +
150E LEU* 4.4 4.5 - - + +
152E ARG* 1.3 78.6 - - + +
154E GLY* 1.3 55.8 + - - +
155E GLU 3.1 0.4 - - - -
156E LEU* 4.4 3.1 - - - +
157E PHE* 2.9 47.2 + - + +
159E CYS* 3.6 21.6 - - - -
216E LEU* 5.8 0.2 - - + -
249E ILE* 5.4 5.8 - - + +
252E PHE* 3.7 54.7 - - + -
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Residues in contact with GLY 154 (chain E).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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101E ARG* 4.3 0.9 + - - -
150E LEU 3.2 11.5 + - - -
151E ARG 3.5 2.9 + - - -
152E ARG 3.2 0.6 + - - -
153E MET* 1.3 76.9 - - - +
155E GLU* 1.3 58.7 + - - +
157E PHE 4.4 1.3 - - - -
159E CYS* 4.2 2.4 - - - -
182E VAL* 3.8 31.9 - - - -
184E ARG* 2.7 33.1 + - - -
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Residues in contact with GLU 155 (chain E).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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101E ARG* 2.4 32.3 + - - +
151E ARG* 3.8 21.0 + - - +
152E ARG* 2.4 51.2 + - - +
154E GLY* 1.3 78.1 - - - +
156E LEU* 1.3 62.9 + - + +
157E PHE 3.5 0.2 - - - -
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Residues in contact with LEU 156 (chain E).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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101E ARG* 4.0 12.0 + - - +
152E ARG* 3.4 42.3 + - + +
153E MET* 3.2 2.1 + - - -
155E GLU* 1.3 83.3 - - + +
157E PHE* 1.4 85.1 + - + +
249E ILE 5.3 0.4 - - - +
252E PHE* 5.4 0.4 - - + -
253E GLU* 3.5 36.8 - - + +
256E SER* 3.8 34.6 - - - +
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Residues in contact with PHE 157 (chain E).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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101E ARG* 3.6 18.7 + - - -
102E ILE* 3.3 32.8 - - + +
104E VAL* 3.2 27.6 - - + -
153E MET* 2.9 38.7 + - + +
154E GLY* 4.4 0.3 - - - -
155E GLU 3.5 0.8 + - - -
156E LEU* 1.4 95.2 - - + +
158E GLU* 1.3 64.0 + - - +
159E CYS* 3.6 5.6 + - - -
184E ARG* 3.6 17.8 + - - -
214E LEU* 4.7 6.1 - - + -
252E PHE* 3.4 49.6 - + + -
255E LEU 4.6 0.2 - - - -
256E SER* 3.7 19.3 - - - -
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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