Contacts of the helix formed by residues 150 - 169 (chain A) in PDB entry 2I2Z
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 150 (chain A).
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Specific contacts
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Residue Dist Surf HB Arom Phob DC
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148A TYR 3.3 5.5 + - - -
149A PHE* 1.3 72.3 - - - +
151A ALA* 1.3 63.0 + - - +
152A PRO* 3.4 34.5 - - + -
153A GLU* 2.9 38.3 - - + +
154A LEU 3.0 5.0 + - - -
156A PHE* 5.8 2.2 - + - -
196A GLN* 3.6 17.7 + - - +
250A LEU* 4.2 10.8 - - + -
253A CYS* 3.6 30.7 - - - -
254A ALA* 3.4 24.1 - - - -
257A ARG* 3.5 37.6 - - - +
1002A MYR 2.8 28.8 + - - +
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Residues in contact with ALA 151 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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22A LEU* 4.0 16.6 - - + +
25A ILE* 3.8 26.3 - - + +
29A GLN* 4.7 1.7 + - - +
149A PHE 3.0 8.1 + - - +
150A TYR* 1.3 68.1 - - - +
152A PRO* 1.3 75.8 - - + +
154A LEU* 2.8 20.8 + - - +
155A LEU* 2.8 12.5 + - - +
250A LEU* 4.1 25.0 - - + +
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Residues in contact with PRO 152 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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22A LEU* 3.9 17.5 - - + -
150A TYR* 3.4 43.1 - - + +
151A ALA* 1.3 94.9 - - + +
153A GLU* 1.3 58.9 + - - +
155A LEU* 3.2 8.3 - - + +
156A PHE* 3.2 36.6 + - + -
250A LEU* 4.3 4.3 - - + -
284A LEU* 4.5 17.5 - - + +
1002A MYR 4.4 23.1 - - + +
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Residues in contact with GLU 153 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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149A PHE* 3.5 21.3 - - + -
150A TYR* 2.9 32.1 + - + +
152A PRO* 1.3 76.3 - - - +
154A LEU* 1.3 63.0 + - - +
155A LEU 3.0 1.3 - - - -
156A PHE* 3.0 23.1 + - - +
157A PHE* 3.3 33.3 + - - -
192A SER* 4.2 10.0 + - - +
196A GLN* 4.3 6.3 - - - +
257A ARG* 5.2 4.7 + - - -
288A HIS* 3.0 40.0 + - - +
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Residues in contact with LEU 154 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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25A ILE* 3.9 20.0 - - + -
29A GLN* 4.8 1.6 - - - +
139A LEU* 4.2 8.0 - - + +
142A ILE* 3.5 26.9 - - + +
143A ALA* 3.6 38.8 - - + +
146A HIS* 5.2 0.4 - - + +
149A PHE* 3.5 38.3 - - + -
150A TYR 3.0 6.1 + - - +
151A ALA* 2.8 9.3 + - - +
153A GLU* 1.3 76.9 - - - +
155A LEU* 1.3 61.7 + - - +
157A PHE* 3.4 7.1 + - + +
158A ALA* 3.2 18.9 + - - +
1001A MYR 3.7 14.2 - - + +
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Residues in contact with LEU 155 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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18A ASN* 3.9 12.6 - - + +
21A ALA* 3.9 24.9 - - + -
22A LEU* 4.1 22.2 - - + -
25A ILE* 4.3 7.6 - - + +
139A LEU* 4.8 6.5 - - + -
151A ALA 2.8 11.1 + - - +
152A PRO* 3.2 13.7 - - + +
154A LEU* 1.3 77.7 - - - +
156A PHE* 1.3 63.8 + - + +
158A ALA* 3.3 13.0 + - + -
159A LYS* 3.0 45.3 + - + +
284A LEU* 3.7 28.9 - - + -
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Residues in contact with PHE 156 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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150A TYR* 5.8 2.2 - + - -
152A PRO* 3.2 27.0 + - + -
153A GLU* 3.0 22.7 + - - +
155A LEU* 1.3 77.9 - - + +
157A PHE* 1.3 63.4 + - + +
159A LYS* 3.5 12.9 + - + +
160A ARG* 3.3 30.2 + - - +
284A LEU* 2.8 36.3 - - + -
285A GLU* 3.4 39.9 - - + -
288A HIS* 3.3 45.8 - + + +
1002A MYR 5.9 0.9 - - - -
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Residues in contact with PHE 157 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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149A PHE* 3.9 24.5 - + - -
153A GLU* 3.3 38.2 + - - -
154A LEU* 3.6 9.0 - - + +
155A LEU 3.2 0.6 - - - -
156A PHE* 1.3 78.0 - - + +
158A ALA* 1.3 64.8 + - - +
160A ARG* 3.1 32.5 + - - +
161A TYR* 2.9 39.1 + + + -
185A LEU* 4.2 10.3 - - + -
188A GLU* 3.8 17.5 - - + -
189A GLY* 3.7 34.8 - - - -
192A SER* 4.2 7.6 - - - -
1001A MYR 4.0 14.1 - - + -
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Residues in contact with ALA 158 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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135A LEU* 5.2 7.6 - - + +
139A LEU* 3.9 23.6 - - + -
154A LEU 3.2 10.3 + - - +
155A LEU* 3.4 19.5 - - + +
157A PHE* 1.3 78.2 - - - +
159A LYS* 1.3 58.2 + - + +
161A TYR* 3.1 4.9 + - - +
162A LYS* 2.9 27.6 + - - +
1001A MYR 3.6 18.9 - - + +
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Residues in contact with LYS 159 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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17A GLU* 5.7 4.4 - - - +
18A ASN* 3.1 24.0 + - - +
21A ALA* 6.2 0.4 - - - +
155A LEU* 3.0 41.8 - - + +
156A PHE* 3.6 14.8 - - + +
157A PHE 3.3 0.2 - - - -
158A ALA* 1.3 76.2 - - + +
160A ARG* 1.3 58.3 + - + +
162A LYS* 3.2 13.1 + - + +
163A ALA* 3.1 26.5 + - - +
284A LEU* 5.7 1.6 - - - -
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Residues in contact with ARG 160 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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156A PHE* 3.3 18.6 - - - +
157A PHE* 3.1 32.9 + - - +
159A LYS* 1.3 75.6 - - + +
161A TYR* 1.3 65.1 + - - +
163A ALA* 3.4 9.0 + - - +
164A ALA* 3.3 19.9 + - - +
184A GLU* 5.7 2.8 + - - +
185A LEU* 3.9 29.5 - - + +
188A GLU* 2.4 43.2 + - - -
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Residues in contact with TYR 161 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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157A PHE* 2.9 31.0 + + - -
158A ALA* 3.4 9.0 - - - +
160A ARG* 1.3 74.4 - - - +
162A LYS* 1.3 66.9 + - - +
164A ALA* 3.1 10.9 + - - +
165A PHE* 3.1 23.7 + + - -
182A LEU* 3.3 34.5 + - + -
185A LEU* 3.3 44.0 - - + +
186A ARG* 3.6 13.5 + - - -
1001A MYR 3.5 75.8 + - + +
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Residues in contact with LYS 162 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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127A PHE* 4.3 2.0 - - + -
131A GLU* 3.1 34.6 + - - +
135A LEU* 3.8 32.1 - - + +
158A ALA 2.9 11.7 + - - +
159A LYS* 3.2 18.4 - - + +
161A TYR* 1.3 75.6 - - - +
163A ALA* 1.3 59.8 + - - +
165A PHE* 3.0 6.5 + - - +
166A THR* 2.9 33.2 + - - +
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Residues in contact with ALA 163 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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159A LYS 3.1 10.1 + - - +
160A ARG* 3.8 9.9 - - - +
161A TYR 3.3 0.4 - - - -
162A LYS* 1.3 78.8 - - - +
164A ALA* 1.3 59.9 + - - +
165A PHE 3.4 0.2 - - - -
166A THR* 4.1 7.6 - - - -
167A GLU* 3.3 28.1 + - - +
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Residues in contact with ALA 164 (chain A).
Click here for Legend to table.
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Specific contacts
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Residue Dist Surf HB Arom Phob DC
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160A ARG 3.3 11.6 + - - +
161A TYR* 3.1 12.3 + - - +
162A LYS 3.1 0.8 - - - -
163A ALA* 1.3 74.9 - - - +
165A PHE* 1.3 61.6 + - - +
167A GLU* 4.8 0.7 - - - -
168A CYS* 3.0 34.3 + - - +
178A LEU* 3.8 16.6 - - + +
181A LYS* 4.3 29.2 - - + +
182A LEU* 5.2 2.7 - - + -
185A LEU* 4.8 7.6 - - + -
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Residues in contact with PHE 165 (chain A).
Click here for Legend to table.
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Specific contacts
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Residue Dist Surf HB Arom Phob DC
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123A MET* 3.7 35.4 - - + -
127A PHE* 3.5 32.7 - + + -
134A PHE* 3.9 16.6 - + - -
135A LEU* 4.8 3.4 - - + -
161A TYR* 3.1 29.0 + + - -
162A LYS 3.0 4.5 + - - +
164A ALA* 1.3 76.7 - - - +
166A THR* 1.3 68.0 + - - +
169A CYS* 2.9 48.6 + - - +
178A LEU* 3.5 29.6 - - + -
182A LEU* 4.4 4.5 - - + -
1001A MYR 3.6 36.3 - - + -
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Residues in contact with THR 166 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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127A PHE* 3.5 21.8 - - - -
131A GLU* 4.1 7.8 + - - -
162A LYS* 2.9 20.8 + - - +
163A ALA* 4.2 7.4 - - - +
165A PHE* 1.3 77.5 - - - +
167A GLU* 1.3 62.8 + - + +
169A CYS* 5.1 0.3 - - - +
170A GLN* 3.4 29.5 + - - +
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Residues in contact with GLU 167 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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163A ALA 3.3 18.8 + - - +
164A ALA* 4.2 1.8 - - - +
165A PHE 3.1 0.4 - - - -
166A THR* 1.3 84.5 - - + +
168A CYS* 1.3 62.6 + - - +
170A GLN* 3.7 6.0 + - - +
171A ALA* 3.7 15.2 + - - +
177A CYS* 4.0 7.9 - - - -
181A LYS* 2.6 34.4 + - - -
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Residues in contact with CYS 168 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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164A ALA 3.0 20.9 + - - +
165A PHE* 5.0 0.4 - - - -
167A GLU* 1.3 74.7 - - - +
169A CYS* 1.3 57.6 + - - +
170A GLN 2.9 5.6 - - - -
171A ALA* 2.9 21.6 + - - +
174A LYS* 3.6 14.8 - - - +
177A CYS* 2.0 64.6 - - + -
178A LEU* 3.2 22.0 - - + +
181A LYS* 3.9 14.6 - - - -
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Residues in contact with CYS 169 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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124A CYS* 2.0 61.4 - - + +
127A PHE* 4.1 12.6 - - + -
128A HIS* 6.4 0.7 - - + -
165A PHE* 2.9 39.3 + - - +
166A THR 5.1 0.7 - - - +
168A CYS* 1.3 75.1 - - - +
170A GLN* 1.3 57.0 + - - +
171A ALA 3.4 0.4 - - - -
174A LYS* 4.0 17.5 - - - -
178A LEU* 5.0 1.1 - - - -
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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