Contacts of the helix formed by residues 145 - 157 (chain G) 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 G).
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Specific contacts
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Residue Dist Surf HB Arom Phob DC
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144G PRO* 1.3 79.5 - - + +
146G VAL* 1.3 63.1 + - - +
147G ASP 3.4 2.5 - - - -
148G GLU* 3.3 34.1 - - + +
149G PHE* 3.0 21.9 + - - +
242G ASP 4.0 10.3 - - - -
243G THR* 3.7 27.2 - - + +
245G LEU* 4.4 0.9 - - + -
246G LEU* 3.3 53.7 - - + +
249G ILE* 5.3 1.6 - - + +
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Residues in contact with VAL 146 (chain G).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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112G LEU* 4.0 24.7 - - + +
142G LYS* 3.7 30.1 - - + -
143G ARG 3.3 17.9 + - - +
144G PRO 3.3 1.8 - - - -
145G TYR* 1.3 74.8 - - - +
147G ASP* 1.3 67.5 + - - +
148G GLU* 4.0 0.2 + - - -
149G PHE* 2.9 16.2 + - + +
150G LEU* 3.1 24.5 + - + +
177G LEU* 3.9 26.9 - - + -
245G LEU* 3.8 23.1 - - + -
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Residues in contact with ASP 147 (chain G).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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142G LYS* 2.9 35.8 + - - -
146G VAL* 1.3 82.8 - - - +
148G GLU* 1.3 72.9 + - - +
149G PHE 3.1 0.9 + - - -
150G LEU* 3.7 5.7 + - - +
151G ARG* 3.4 21.7 + - - +
177G LEU* 4.3 9.5 - - - +
179G ARG* 3.3 41.0 + - + +
180G CYS* 5.1 3.5 - - - -
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Residues in contact with GLU 148 (chain G).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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145G TYR* 3.3 45.8 - - + +
146G VAL 4.0 0.2 + - - -
147G ASP* 1.3 94.4 + - - +
149G PHE* 1.3 60.1 - - - +
151G ARG* 4.1 16.8 + - - +
152G ARG* 3.6 19.9 + - - +
246G LEU* 5.7 1.6 - - + -
249G ILE* 4.1 10.2 - - + +
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Residues in contact with PHE 149 (chain G).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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106G ILE* 4.3 7.0 - - + -
112G LEU* 4.6 4.9 - - + -
145G TYR 3.0 14.0 + - - +
146G VAL* 2.9 15.1 + - - +
148G GLU* 1.3 80.4 - - - +
150G LEU* 1.3 78.3 + - + +
152G ARG* 3.8 2.6 + - - +
153G MET* 3.0 65.0 + - + +
216G LEU* 4.0 28.3 - - + -
245G LEU* 3.0 45.8 - - + +
248G LEU* 3.7 19.3 - - + -
249G ILE* 3.9 14.2 - - + +
252G PHE* 4.4 4.5 - + - -
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Residues in contact with LEU 150 (chain G).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
106G ILE* 4.7 7.4 - - + -
112G LEU* 4.3 17.0 - - + -
146G VAL* 3.1 21.2 + - + +
147G ASP* 4.5 5.2 - - - +
149G PHE* 1.3 96.1 - - + +
151G ARG* 1.3 59.5 + - - +
153G MET* 4.3 5.6 - - + -
154G GLY 2.9 20.8 + - - -
159G CYS* 5.6 0.4 - - - -
177G LEU* 4.4 20.9 - - + +
178G ASP* 4.8 8.1 - - - +
179G ARG 5.8 0.2 - - - +
180G CYS* 5.3 3.4 - - - -
182G VAL* 3.0 29.2 - - + +
183G PHE* 4.2 35.9 - - + -
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Residues in contact with ARG 151 (chain G).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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147G ASP 3.4 16.8 + - - +
148G GLU* 4.3 15.6 + - - +
149G PHE 3.3 0.4 - - - -
150G LEU* 1.3 78.9 - - - +
152G ARG* 1.3 93.8 + - - +
154G GLY* 3.5 2.1 + - - -
155G GLU* 2.7 60.5 + - - +
180G CYS* 4.4 21.5 - - + -
182G VAL* 4.5 1.1 - - - +
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Residues in contact with ARG 152 (chain G).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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148G GLU 3.6 16.4 + - - +
149G PHE 3.8 3.1 - - - +
151G ARG* 1.3 101.3 - - - +
153G MET* 1.4 55.1 + - + +
155G GLU* 2.1 66.6 + - - +
156G LEU* 3.2 44.6 + - + +
249G ILE* 4.0 22.4 - - + -
253G GLU* 2.8 32.9 + - - +
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Residues in contact with MET 153 (chain G).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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104G VAL* 4.3 12.3 - - + -
106G ILE* 4.7 4.3 - - + -
149G PHE* 3.0 55.3 + - + +
150G LEU* 4.3 4.0 - - + -
152G ARG* 1.4 78.2 - - + +
154G GLY* 1.3 56.8 + - - +
156G LEU* 3.1 4.6 + - - +
157G PHE* 2.9 56.0 + - + +
159G CYS* 3.8 14.1 - - - -
249G ILE* 5.5 5.6 - - + -
252G PHE* 3.4 57.4 - - + -
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Residues in contact with GLY 154 (chain G).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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97G GLU* 5.3 0.5 - - - +
101G ARG* 3.7 1.9 + - - -
150G LEU 2.9 21.7 + - - -
151G ARG 3.7 4.0 - - - -
152G ARG 3.2 0.2 + - - -
153G MET* 1.3 74.7 - - - +
155G GLU* 1.3 59.1 + - - +
157G PHE 4.4 2.7 - - - -
159G CYS* 4.3 2.9 - - - -
182G VAL* 3.6 21.9 - - - +
184G ARG* 3.6 25.4 + - - -
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Residues in contact with GLU 155 (chain G).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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101G ARG* 2.6 31.8 + - - +
151G ARG* 2.7 41.9 + - - +
152G ARG* 2.1 59.9 + - - +
154G GLY* 1.3 72.7 - - - -
156G LEU* 1.3 62.3 + - + +
157G PHE 3.3 0.4 - - - -
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Residues in contact with LEU 156 (chain G).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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101G ARG* 3.5 15.6 - - - +
152G ARG* 3.2 41.9 + - + +
153G MET* 3.1 4.0 + - - +
155G GLU* 1.3 79.1 - - - +
157G PHE* 1.3 87.6 + - + +
252G PHE* 5.6 0.4 - - + -
253G GLU* 3.5 42.0 - - + +
256G SER* 3.8 26.8 - - - +
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Residues in contact with PHE 157 (chain G).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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101G ARG* 3.6 11.8 + - - +
102G ILE* 3.4 36.3 - - + +
104G VAL* 3.5 20.9 - - + -
153G MET* 2.9 57.2 + - + +
154G GLY 4.0 2.4 - - - +
155G GLU 3.3 3.6 + - - -
156G LEU* 1.3 93.3 - - + +
158G GLU* 1.3 64.0 + - - +
159G CYS* 3.3 10.0 + - - -
184G ARG* 3.5 18.7 + - - -
214G LEU* 5.0 2.5 - - + -
252G PHE* 3.4 40.4 - + + -
255G LEU* 4.9 1.6 - - + -
256G SER* 3.9 22.0 - - - -
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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