Contacts of the helix formed by residues 147 - 164 (chain B) in PDB entry 5AIS
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 THR 147 (chain B).
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
77B LEU* 3.2 22.4 - - - +
78B ALA 3.9 12.8 - - - +
79B GLY* 4.7 3.4 - - - -
80B ASN* 5.8 1.8 - - - +
84B GLU* 5.4 1.8 - - - +
88B VAL* 3.9 20.6 - - + +
142B ILE* 4.0 18.0 - - + +
145B SER* 3.8 10.8 - - - +
146B VAL* 1.3 84.4 - - - +
148B TRP* 1.3 57.9 + - - +
149B ALA* 3.1 20.7 + - - +
150B ASP* 2.9 35.6 + - - +
151B PHE* 3.5 4.2 + - - -
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Residues in contact with TRP 148 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
17B ILE* 3.7 15.3 - - + +
21B ILE* 4.4 10.5 - - + -
65B LEU* 4.0 24.7 - - + -
68B ALA* 3.5 26.2 - - + -
69B ARG* 4.2 24.0 - - + +
72B THR* 3.6 37.1 + - + -
77B LEU* 3.1 32.6 + - + +
78B ALA* 4.6 4.3 - - - +
88B VAL* 3.4 23.8 - - + +
89B ASP* 4.0 18.8 + - - -
92B VAL* 3.8 33.2 - - + -
147B THR* 1.3 71.7 - - - +
149B ALA* 1.3 59.5 + - - +
150B ASP 3.3 0.2 - - - -
151B PHE* 3.4 13.7 - - + +
152B TYR* 2.9 28.9 + + + +
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Residues in contact with ALA 149 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
88B VAL* 4.1 14.8 - - + +
91B ILE* 4.5 9.0 - - + -
92B VAL* 3.9 18.2 - - + -
95B LEU* 4.5 3.3 - - - +
141B LEU* 3.8 6.1 - - + +
142B ILE* 3.5 24.0 - - + -
147B THR* 3.1 14.1 + - - +
148B TRP* 1.3 81.8 - - - +
150B ASP* 1.3 57.3 + - - +
152B TYR* 3.3 1.9 + - - +
153B TRP* 2.9 27.9 + - - +
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Residues in contact with ASP 150 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
140B TRP* 3.6 18.3 - - + +
141B LEU* 2.9 40.6 + - - +
142B ILE 4.9 0.3 + - - -
145B SER 4.2 0.2 - - - +
146B VAL* 3.6 13.0 - - + -
147B THR* 2.9 34.6 + - - +
149B ALA* 1.3 74.4 - - - +
151B PHE* 1.3 64.9 + - - +
153B TRP* 3.4 4.3 + - - +
154B GLU* 3.0 24.1 + - - +
177B LEU* 3.7 8.9 - - + +
181B VAL* 3.6 23.6 - - + +
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Residues in contact with PHE 151 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
17B ILE* 3.7 9.4 - - + -
20B TYR* 3.7 34.5 - + + -
21B ILE* 4.5 9.2 - - + -
24B TYR* 3.7 43.3 - + + -
77B LEU* 3.8 17.9 - - + -
146B VAL* 3.9 21.5 - - + -
147B THR 3.5 6.2 + - - -
148B TRP* 3.4 19.5 + - - +
150B ASP* 1.3 76.3 - - - +
152B TYR* 1.3 57.3 + - - +
154B GLU* 3.2 4.5 + - - +
155B ILE* 3.0 33.7 + - - +
181B VAL* 4.0 15.9 - - + -
184B ILE* 4.0 8.1 - - + -
187B VAL* 3.8 18.4 - - + -
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Residues in contact with TYR 152 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
14B ARG* 5.7 2.5 - - - +
17B ILE* 3.8 33.2 - - + +
64B SER* 5.2 2.0 + - - -
65B LEU* 3.9 18.4 - - + +
92B VAL* 3.6 39.9 - - + -
95B LEU* 3.8 13.2 - - + -
96B ASP* 2.6 33.7 + - + -
148B TRP* 2.9 17.6 + - + +
149B ALA 3.3 5.4 + - - +
151B PHE* 1.3 72.1 - - - +
153B TRP* 1.3 60.6 + - - +
155B ILE* 3.3 6.5 + - + +
156B CYS* 2.9 54.5 + - - -
1200B CWC 2.9 28.2 + + - -
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Residues in contact with TRP 153 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
95B LEU* 3.9 20.5 - - + +
128B MET* 3.6 31.6 - - + -
131B LEU* 3.5 30.5 - - + -
141B LEU* 3.9 13.5 - - + -
149B ALA 2.9 17.7 + - - +
150B ASP 3.6 4.7 - - - +
152B TYR* 1.3 76.1 - - - +
154B GLU* 1.3 52.8 - - + +
156B CYS* 4.7 0.4 - - + -
157B SER* 2.8 64.7 + - - -
160B LEU* 5.4 2.7 - - + -
167B LEU* 5.6 0.7 - - + -
168B LEU* 4.0 11.2 - - + -
174B LEU* 3.4 45.0 + - + +
177B LEU* 3.4 32.3 - - + +
178B ARG* 3.6 10.5 - - + +
181B VAL* 5.8 0.2 - - + -
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Residues in contact with GLU 154 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
20B TYR* 2.6 37.6 + - - -
150B ASP 3.0 14.2 + - - +
151B PHE 3.5 7.0 - - - +
153B TRP* 1.3 79.7 - - + +
155B ILE* 1.3 54.1 + - - +
157B SER* 3.0 14.9 + - - -
158B THR* 2.7 41.0 + - - -
178B ARG* 3.3 17.4 + - - +
181B VAL* 3.7 24.0 - - + -
182B GLN* 2.8 38.6 + - + +
191B ILE* 4.5 2.7 - - - +
194B ARG* 5.4 2.3 + - - -
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Residues in contact with ILE 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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12B ARG* 5.4 6.0 + - + +
13B GLY 4.5 2.2 - - - +
16B GLU* 3.8 20.9 - - + -
17B ILE* 3.5 42.8 - - + +
20B TYR* 3.7 40.8 - - + -
151B PHE 3.0 21.0 + - - +
152B TYR* 3.7 7.9 - - + +
154B GLU* 1.3 75.8 - - - +
156B CYS* 1.3 67.3 + - - +
158B THR* 3.5 6.0 + - - -
159B THR* 3.4 21.7 + - - +
1200B CWC 4.4 19.2 - - + -
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Residues in contact with CYS 156 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
95B LEU* 4.1 19.5 - - + -
99B MET* 3.6 37.0 - - - +
152B TYR* 2.9 54.2 + - - +
153B TRP* 3.9 2.7 - - + +
155B ILE* 1.3 76.2 - - - +
157B SER* 1.3 63.0 + - - +
159B THR* 3.3 5.0 + - - -
160B LEU* 3.0 29.8 + - + +
1200B CWC 4.1 6.5 - - - -
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Residues in contact with SER 157 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
153B TRP* 2.8 53.4 + - - -
154B GLU* 3.0 5.0 + - - -
156B CYS* 1.3 77.2 - - - +
158B THR* 1.3 55.9 + - - +
160B LEU* 3.3 8.0 + - - +
161B LEU* 2.9 36.5 + - - +
167B LEU* 5.6 1.8 - - - -
168B LEU* 4.7 4.3 - - - -
178B ARG* 2.7 37.9 + - - +
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Residues in contact with THR 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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12B ARG* 4.1 24.9 - - - +
20B TYR* 5.3 0.3 + - - -
154B GLU* 2.7 36.9 + - - -
155B ILE* 3.6 7.0 - - - -
157B SER* 1.3 78.1 + - - +
159B THR* 1.3 61.9 + - - +
161B LEU* 3.5 5.9 + - - +
162B VAL* 3.4 21.9 + - + +
178B ARG* 3.0 20.3 + - - +
182B GLN* 4.4 0.3 + - - -
194B ARG* 4.7 11.9 - - - +
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Residues in contact with THR 159 (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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12B ARG* 3.4 23.7 + - - +
13B GLY 5.5 1.0 + - - -
99B MET* 4.1 12.8 - - + -
104B TRP* 3.7 30.7 - - + -
155B ILE* 3.4 10.9 + - - +
156B CYS* 3.3 8.7 + - - -
158B THR* 1.3 75.7 - - - +
160B LEU* 1.3 66.1 + - + +
162B VAL* 3.2 19.1 + - - +
163B PHE* 3.4 8.3 - - + -
199B LEU* 4.3 20.8 + - + -
1200B CWC 4.5 11.2 + - - +
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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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95B LEU* 6.4 1.1 - - + -
98B PHE* 3.9 21.3 - - + -
99B MET* 3.9 23.6 - - + -
102B PHE* 3.9 28.7 - - + -
104B TRP* 6.1 1.1 - - + -
120B LEU* 4.0 11.7 - - + +
124B ALA* 5.4 0.4 - - + -
127B LEU* 5.4 1.1 - - + -
128B MET* 4.5 12.8 - - + -
153B TRP* 5.4 2.5 - - + -
156B CYS* 3.0 25.5 + - + +
157B SER* 3.7 6.3 - - - +
159B THR* 1.3 76.5 - - + +
161B LEU* 1.3 58.7 + - - +
163B PHE* 3.2 8.8 + - + +
164B LYS* 2.9 29.4 + - - +
167B LEU* 3.8 28.3 - - + -
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Residues in contact with LEU 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 SER* 2.9 21.6 + - - +
158B THR* 3.8 5.2 - - - +
159B THR 3.3 0.2 - - - -
160B LEU* 1.3 72.9 - - - +
162B VAL* 1.3 65.3 + - - +
164B LYS 3.6 10.3 - - - +
165B PRO* 3.2 48.2 - - + +
167B LEU* 4.0 17.0 - - + +
168B LEU* 4.4 17.7 - - + +
178B ARG* 3.5 41.1 - - - +
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Residues in contact with VAL 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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12B ARG* 4.5 2.9 - - - +
158B THR* 3.4 17.5 + - + +
159B THR* 3.3 14.1 - - - +
160B LEU 3.2 0.4 - - - -
161B LEU* 1.3 79.4 - - - +
163B PHE* 1.3 69.5 + - + +
165B PRO* 4.5 6.1 - - - +
198B LYS* 3.8 51.4 - - + +
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Residues in contact with PHE 163 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
102B PHE* 6.0 0.4 - + - -
104B TRP* 4.1 9.2 - + - -
116B PHE* 3.7 40.2 - + + -
120B LEU* 3.4 24.6 - - + +
159B THR* 3.4 18.2 - - + -
160B LEU* 3.2 7.4 + - + +
162B VAL* 1.3 82.9 - - + +
164B LYS* 1.3 60.9 + - - +
165B PRO* 3.7 6.0 - - - +
198B LYS* 4.2 23.6 - - - -
199B LEU* 3.6 34.8 - - + -
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Residues in contact with LYS 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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120B LEU* 3.3 47.3 - - + +
121B THR* 5.0 6.7 + - - +
125B PRO* 4.6 10.2 - - - +
160B LEU 2.9 10.3 + - - +
161B LEU* 3.5 9.9 - - - -
163B PHE* 1.3 79.1 - - - +
165B PRO* 1.3 64.6 - - - +
166B ASP* 3.0 37.1 + - - +
167B LEU* 3.2 43.8 + - + +
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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
------------------------------------------------------------
Atomic class I II III IV V VI VII VIII
------------------------------------------------------------
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