Contacts of the helix formed by residues 149 - 165 (chain B) in PDB entry 2H6C
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 PRO 149 (chain B).
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Specific contacts
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Residue Dist Surf HB Arom Phob DC
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147B TYR* 3.9 7.2 - - + +
148B ASN* 1.4 93.8 - - + +
150B THR* 1.3 66.9 + - - +
152B ARG* 3.5 25.8 - - + +
153B ILE* 3.3 20.1 - - - +
188B GLY 4.7 5.8 - - - +
189B ALA* 3.9 26.1 - - + +
193B THR* 4.8 8.5 - - + +
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Residues in contact with THR 150 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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148B ASN 3.8 5.6 - - - +
149B PRO* 1.3 86.0 - - - +
151B ILE* 1.3 73.6 + - + +
152B ARG 3.0 1.1 - - - -
153B ILE* 3.2 17.1 + - - +
154B LEU* 3.3 22.4 + - + +
193B THR* 3.3 28.9 - - - +
197B VAL* 3.4 20.7 - - + +
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Residues in contact with ILE 151 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
185A GLU 5.6 2.2 - - - +
148B ASN* 3.2 30.2 + - + +
150B THR* 1.3 84.7 - - + +
152B ARG* 1.3 60.9 + - - +
154B LEU* 4.1 15.0 - - + +
155B ARG* 3.3 30.3 + - - +
225B LEU* 5.0 4.3 - - - +
226B SER* 4.6 20.8 - - - -
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Residues in contact with ARG 152 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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152A ARG* 3.4 20.4 - - - +
185A GLU 3.1 19.1 - - - +
186A ILE* 3.1 31.4 - - - +
187A THR 3.9 0.4 - - - -
188A GLY* 3.6 24.7 + - - +
145B ASN 4.7 1.4 + - - -
147B TYR* 4.5 9.3 - - - +
148B ASN* 3.4 35.7 - - + +
149B PRO* 3.5 21.4 - - - +
150B THR 3.0 2.6 - - - +
151B ILE* 1.3 77.2 - - - +
153B ILE* 1.3 65.9 + - - +
155B ARG* 3.3 4.6 - - - +
156B LEU* 3.1 20.8 + - - +
187B THR* 2.5 42.3 + - - +
188B GLY 3.8 9.3 + - - -
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Residues in contact with ILE 153 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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149B PRO 3.3 17.3 - - - +
150B THR* 3.2 10.5 + - - +
152B ARG* 1.3 77.1 - - - +
154B LEU* 1.3 64.5 + - + +
156B LEU* 3.2 6.4 - - - +
157B PHE* 3.1 45.2 + - + -
183B ILE* 3.9 13.7 - - + -
187B THR* 4.2 16.8 - - + +
189B ALA* 4.3 4.3 - - + -
193B THR* 5.8 0.2 - - - -
194B VAL* 3.6 42.4 - - + +
197B VAL* 4.1 24.9 - - + -
198B LEU* 6.0 0.9 - - + -
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Residues in contact with LEU 154 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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150B THR* 3.3 21.3 + - + +
151B ILE* 4.1 15.9 - - + +
152B ARG 3.3 0.2 - - - -
153B ILE* 1.3 73.6 - - + +
155B ARG* 1.3 59.6 + - - +
157B PHE* 2.7 28.0 + - - +
158B TYR* 2.8 13.3 + - - +
197B VAL* 4.6 8.3 - - + -
201B LEU* 3.9 34.8 - - + -
222B LEU* 4.1 21.8 - - + +
225B LEU* 3.0 47.3 - - + +
226B SER* 4.3 2.0 - - - +
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Residues in contact with ARG 155 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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182A SER* 4.8 2.2 - - - +
185A GLU* 3.3 51.5 + - + +
186A ILE* 3.9 16.8 - - + -
151B ILE* 3.3 19.8 + - - +
152B ARG* 3.3 13.2 - - - +
154B LEU* 1.3 76.7 - - - +
156B LEU* 1.3 63.5 + - - +
158B TYR* 3.3 15.2 + - + +
159B GLU* 2.9 26.8 + - + +
223B LYS* 4.4 4.8 + - - +
226B SER* 3.1 52.4 + - - -
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Residues in contact with LEU 156 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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156A LEU* 4.3 17.0 - - + -
160A LEU* 6.0 0.7 - - + -
186A ILE* 3.8 33.0 - - + +
152B ARG 3.1 10.1 + - - +
153B ILE 3.2 10.8 - - - +
154B LEU 3.1 0.4 - - - -
155B ARG* 1.3 80.3 - - - +
157B PHE* 1.3 63.6 + - + +
159B GLU* 3.0 2.6 + - + +
160B LEU* 2.8 56.4 + - + +
178B LEU* 4.8 5.2 - - + -
183B ILE* 4.1 38.1 - - + -
186B ILE* 4.5 10.1 - - + -
187B THR* 4.4 10.5 - - + -
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Residues in contact with PHE 157 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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153B ILE* 3.1 43.4 + - + -
154B LEU* 2.7 14.4 + - - +
156B LEU* 1.3 75.7 - - + +
158B TYR* 1.3 65.4 + - - +
160B LEU* 4.0 4.1 - - + +
161B CYS* 3.0 25.8 + - - +
178B LEU* 4.5 15.3 - - + -
183B ILE* 3.9 22.9 - - + -
198B LEU* 3.7 30.3 - - + -
201B LEU* 5.0 9.2 - - + -
207B LEU* 3.8 11.7 - - + -
209B LYS* 4.6 7.6 - - + -
214B PHE* 3.2 40.6 - + - -
222B LEU* 4.2 16.7 - - + +
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Residues in contact with TYR 158 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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154B LEU 2.8 15.7 + - - +
155B ARG* 3.8 20.2 - - + +
157B PHE* 1.3 71.9 - - - +
159B GLU* 1.3 76.0 + - + +
161B CYS* 2.9 5.9 + - - +
162B SER* 2.8 47.7 + - - -
219B LEU* 3.6 26.5 - - + -
222B LEU* 4.2 15.6 - - + +
223B LYS* 3.6 64.3 + - + +
226B SER* 5.1 3.4 - - - +
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Residues in contact with GLU 159 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
176A MET* 4.4 6.5 - - + +
177A PRO* 3.4 26.7 - - - +
178A LEU* 3.6 23.1 - - + +
179A SER 5.3 0.2 + - - -
182A SER* 2.9 26.5 + - - -
186A ILE* 4.3 12.1 - - + -
155B ARG* 2.9 16.0 + - + +
156B LEU* 3.2 9.6 - - + +
158B TYR* 1.3 89.1 - - + +
160B LEU* 1.3 65.6 + - + +
162B SER* 3.6 13.2 + - - +
163B SER* 3.4 13.5 + - - -
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Residues in contact with LEU 160 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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160A LEU* 4.1 7.6 - - + -
164A GLN* 6.0 0.2 - - + -
176A MET* 3.9 21.8 - - + -
156B LEU* 2.8 56.1 + - + +
157B PHE* 4.0 2.9 - - + +
159B GLU* 1.3 76.2 - - + +
161B CYS* 1.3 66.3 + - - +
163B SER* 3.5 0.7 + - - -
164B GLN* 2.9 31.5 + - + +
176B MET* 3.5 38.4 - - + -
178B LEU* 4.4 16.2 - - + -
214B PHE* 3.6 22.2 - - + -
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Residues in contact with CYS 161 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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157B PHE 3.0 17.9 + - - +
158B TYR* 2.9 6.9 + - - +
160B LEU* 1.3 80.3 - - - +
162B SER* 1.3 55.7 - - - +
163B SER 3.3 0.3 + - - -
165B GLY* 2.9 27.5 + - - -
172B TYR* 4.4 14.6 - - - -
174B ILE* 4.0 15.7 - - + -
214B PHE* 4.5 0.7 - - + -
216B VAL* 3.5 37.5 - - + -
219B LEU* 3.8 24.5 - - + -
222B LEU* 5.2 0.2 - - + -
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Residues in contact with SER 162 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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177A PRO* 5.1 1.2 - - - +
158B TYR* 2.8 53.0 + - - -
159B GLU* 3.7 7.3 + - - +
161B CYS* 1.3 71.0 - - - +
163B SER* 1.3 64.4 + - - +
219B LEU* 4.5 15.0 - - - -
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Residues in contact with SER 163 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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175A THR 4.5 5.5 - - - +
176A MET* 4.0 7.1 - - - +
177A PRO* 3.8 31.2 + - - +
159B GLU* 3.4 15.3 + - - -
160B LEU 3.5 0.9 + - - -
161B CYS 3.3 1.6 + - - -
162B SER* 1.3 75.2 - - - +
164B GLN* 1.3 85.7 + - - +
165B GLY 3.8 2.1 + - - +
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Residues in contact with GLN 164 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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164A GLN* 3.8 36.6 - - + +
174A ILE* 5.3 1.2 - - - +
175A THR 4.3 16.0 + - - +
176A MET* 3.9 21.0 - - - +
160B LEU* 2.9 22.5 + - + +
163B SER* 1.3 104.7 + - - +
165B GLY* 1.3 60.1 + - - +
166B LYS* 4.0 1.0 + - - +
173B GLU 3.7 6.1 - - - +
174B ILE* 3.7 26.1 - - + +
175B THR 5.1 0.7 + - - -
176B MET* 4.7 3.6 - - - -
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Residues in contact with GLY 165 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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161B CYS 2.9 19.5 + - - -
163B SER 4.3 1.5 + - - +
164B GLN* 1.3 78.8 - - - +
166B LYS* 1.3 59.6 + - - -
167B ARG 4.1 1.3 + - - -
172B TYR* 4.3 15.8 - - - -
173B GLU 2.9 15.7 - - - -
174B ILE* 4.0 3.8 - - - -
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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