Contacts of the helix formed by residues 134 - 151 (chain A) in PDB entry 1ISN
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 134 (chain A).
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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132A TYR* 3.9 21.7 - - + +
133A CYS* 1.3 91.5 - - - +
135A PRO* 1.3 79.4 - - + +
136A GLU* 5.0 2.5 - - + +
137A ALA* 3.3 19.7 + - + +
138A SER* 3.0 18.2 + - - -
214A LEU* 4.1 11.4 - - + -
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Residues in contact with PRO 135 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
132A TYR* 4.6 6.7 - - - +
133A CYS 3.9 2.0 - - - +
134A PRO* 1.3 84.5 - - + +
136A GLU* 1.3 70.5 + - + +
137A ALA 2.9 0.2 + - - -
138A SER* 2.7 26.3 + - - +
139A VAL* 3.0 13.0 + - + +
173A VAL* 4.0 21.5 - - + -
176A LEU* 5.5 14.6 - - + -
184A TRP* 5.5 9.2 - - + -
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Residues in contact with GLU 136 (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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134A PRO* 3.6 1.7 - - + +
135A PRO* 1.3 83.3 - - + +
137A ALA* 1.3 62.6 + - - +
139A VAL* 3.3 10.0 + - - +
140A LEU* 3.0 20.8 + - - +
187A ARG* 2.6 36.4 + - - -
191A TRP* 4.9 8.1 + - - -
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Residues in contact with ALA 137 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
133A CYS* 3.7 10.8 - - - -
134A PRO* 3.3 29.8 + - + +
135A PRO 2.9 1.4 + - - -
136A GLU* 1.3 73.9 - - - +
138A SER* 1.3 52.2 + - - +
139A VAL 2.9 1.3 - - - -
140A LEU* 2.6 31.6 + - - +
141A LEU* 2.7 20.4 + - - +
210A ILE* 4.9 14.3 - - + +
214A LEU* 5.2 3.1 - - + -
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Residues in contact with SER 138 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
126A ILE* 5.2 1.3 - - - -
133A CYS* 3.2 21.6 - - - -
134A PRO 3.0 5.8 + - - -
135A PRO* 2.7 23.5 + - - +
137A ALA* 1.3 77.7 - - - +
139A VAL* 1.3 56.5 + - - +
141A LEU* 3.5 7.9 - - - +
142A ALA* 2.7 32.2 + - - +
168A LEU 4.8 1.0 - - - +
169A LEU* 3.6 4.1 - - - +
170A PRO* 3.7 27.6 - - - -
173A VAL* 3.7 16.5 - - - +
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Residues in contact with VAL 139 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
135A PRO* 3.0 20.5 + - + +
136A GLU* 3.3 13.2 - - - +
137A ALA 2.9 0.6 - - - -
138A SER* 1.3 78.0 - - - +
140A LEU* 1.3 65.5 + - - +
142A ALA* 3.4 2.3 + - - +
143A SER* 2.9 21.7 + - - -
169A LEU* 3.8 18.4 - - + -
173A VAL* 5.6 1.6 - - + -
184A TRP* 4.5 24.2 - - + -
187A ARG* 4.0 28.0 - - + +
188A ILE* 4.0 16.9 - - + +
191A TRP* 4.0 18.4 - - + +
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Residues in contact with LEU 140 (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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136A GLU 3.0 10.8 + - - +
137A ALA* 2.6 17.7 + - - +
139A VAL* 1.3 72.8 - - - +
141A LEU* 1.3 62.1 + - - +
143A SER* 2.5 30.0 + - - +
144A TYR* 3.1 22.7 + - + +
191A TRP* 3.4 55.2 - - + +
195A HIS* 4.4 0.2 - - + -
210A ILE* 3.5 29.2 - - + -
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Residues in contact with LEU 141 (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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126A ILE* 4.4 15.7 - - + -
133A CYS* 3.8 27.8 - - - -
137A ALA* 2.7 14.7 + - + +
138A SER* 3.5 7.9 - - - +
140A LEU* 1.3 70.2 - - - +
142A ALA* 1.3 68.3 + - - +
144A TYR* 2.8 15.1 + - - +
145A ALA 3.0 9.4 + - - -
207A TYR* 3.3 71.2 - - + +
210A ILE* 3.7 26.9 - - + -
211A ALA* 4.4 3.1 - - + +
214A LEU* 5.0 7.0 - - + -
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Residues in contact with ALA 142 (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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138A SER 2.7 21.4 + - - +
139A VAL 3.6 2.7 - - - +
141A LEU* 1.3 72.3 - - - +
143A SER* 1.3 62.4 + - - +
145A ALA* 3.1 16.8 + - - +
146A VAL* 3.2 20.4 + - - +
168A LEU* 3.5 22.7 - - + +
169A LEU* 3.5 22.7 - - + -
188A ILE* 3.8 15.0 - - + -
207A TYR* 4.5 1.1 - - - -
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Residues in contact with SER 143 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
139A VAL 2.9 13.1 + - - -
140A LEU* 2.5 20.9 + - - +
141A LEU 3.0 0.4 - - - -
142A ALA* 1.3 77.7 - - - +
144A TYR* 1.3 58.1 + - - +
146A VAL* 3.8 6.9 + - - +
147A GLN* 3.5 12.8 + - - +
188A ILE* 3.7 18.6 - - - +
191A TRP* 3.3 29.6 - - - +
192A TYR* 4.0 2.7 - - - +
195A HIS* 2.6 36.5 + - - -
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Residues in contact with TYR 144 (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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140A LEU* 3.1 30.1 + - + +
141A LEU* 2.8 11.4 + - - +
143A SER* 1.3 74.7 + - - +
145A ALA* 1.3 65.5 + - - +
147A GLN* 3.1 14.6 + - + +
148A ALA* 3.1 11.4 + - - +
191A TRP* 5.6 2.1 - - - -
195A HIS* 3.2 36.4 + + + -
198A ARG* 5.4 8.8 + - + -
203A ALA* 3.7 28.7 - - + +
206A GLU* 3.1 46.2 + - + +
207A TYR* 4.3 10.1 - - + -
210A ILE* 3.4 31.0 - - + -
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Residues in contact with ALA 145 (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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119A PHE* 4.0 27.6 - - + -
123A LYS* 4.5 11.4 - - + -
141A LEU 3.0 11.0 + - - +
142A ALA* 3.1 13.9 + - - +
144A TYR* 1.3 76.7 - - - +
146A VAL* 1.3 60.5 + - + +
148A ALA* 3.6 4.2 + - - +
149A LYS* 3.2 26.7 + - - +
168A LEU* 5.4 4.0 - - + -
207A TYR* 4.4 8.0 - - + -
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Residues in contact with VAL 146 (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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142A ALA 3.2 16.4 + - - +
143A SER* 3.8 7.9 - - - +
145A ALA* 1.3 76.6 - - - +
147A GLN* 1.3 60.9 - - - +
148A ALA 3.3 0.2 - - - -
149A LYS* 4.3 2.2 - - + -
150A TYR* 2.8 51.1 + - + +
151A GLY 3.7 1.2 + - - +
162A PHE* 6.2 0.2 - - + -
163A LEU* 4.4 15.5 - - + -
166A GLU* 5.5 0.2 - - - +
168A LEU* 3.5 30.1 - - + -
188A ILE* 4.8 6.5 - - + -
192A TYR* 3.7 36.3 - - + -
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Residues in contact with GLN 147 (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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143A SER 3.5 10.9 + - - +
144A TYR* 3.1 11.3 + - + +
146A VAL* 1.3 78.5 - - - +
148A ALA* 1.3 62.5 + - - +
151A GLY* 3.0 31.2 + - - +
152A ASP* 3.5 29.3 + - - +
192A TYR* 2.9 33.3 - - + +
195A HIS* 3.4 40.3 + - + +
198A ARG* 3.1 37.1 + - + +
200A ARG* 5.1 0.9 - - - -
203A ALA* 4.0 8.5 - - + -
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Residues in contact with ALA 148 (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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119A PHE* 4.8 7.0 - - + -
144A TYR 3.1 9.8 + - - +
145A ALA* 3.7 10.1 - - - +
147A GLN* 1.3 81.1 - - - +
149A LYS* 1.3 62.3 + - - +
151A GLY* 4.4 1.7 + - - -
200A ARG* 3.2 56.8 + - + +
203A ALA* 3.9 3.8 - - + +
204A GLU* 4.0 16.8 - - + +
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Residues in contact with LYS 149 (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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145A ALA 3.2 14.6 + - - +
146A VAL* 4.3 1.8 - - + -
148A ALA* 1.3 82.5 - - - +
150A TYR* 1.3 85.2 + - + +
151A GLY 3.7 0.3 + - - -
166A GLU* 2.9 32.5 + - - +
200A ARG* 6.2 1.3 - - - -
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Residues in contact with TYR 150 (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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146A VAL* 2.8 33.0 + - + +
149A LYS* 1.3 106.2 + - + +
151A GLY* 1.3 58.4 + - - +
152A ASP 4.3 2.1 - - - +
158A HIS* 4.0 26.4 + + + -
162A PHE* 4.0 30.7 + + + -
163A LEU* 4.5 11.9 - - + -
166A GLU* 2.9 31.3 + - - +
192A TYR* 3.9 16.0 + - + +
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Residues in contact with GLY 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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147A GLN* 3.0 26.6 + - - +
148A ALA 4.4 2.0 + - - -
149A LYS 3.5 2.4 + - - -
150A TYR* 1.3 76.1 - - - +
152A ASP* 1.3 59.2 + - - -
192A TYR* 2.5 34.8 + - - -
198A ARG 5.7 0.4 - - - -
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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