Contacts of the helix formed by residues 146 - 164 (chain B) in PDB entry 4KEU
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 146 (chain B).
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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99B TYR 3.9 14.1 - - - +
100B ILE* 2.7 40.5 + - + +
101B ASP* 5.1 2.2 - - - -
143B PRO* 4.2 15.3 - - + +
144B GLY 3.2 7.7 + - - +
145B ILE* 1.3 74.9 - - - +
147B LYS* 1.3 60.1 + - - +
148B ASP 3.6 1.3 + - - -
149B VAL* 3.0 18.0 + - - +
150B GLU* 2.9 28.5 + - - +
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Residues in contact with LYS 147 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
145B ILE 5.7 0.2 - - - +
146B THR* 1.3 76.6 - - - +
148B ASP* 1.3 63.4 + - - +
150B GLU* 3.4 20.7 + - - +
151B LYS* 3.1 34.8 + - + +
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Residues in contact with ASP 148 (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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98B ILE* 3.8 5.6 - - + -
100B ILE 3.5 15.7 - - - +
101B ASP* 3.3 15.3 + - - +
102B LEU* 2.7 44.3 + - + +
146B THR* 3.3 1.8 + - - -
147B LYS* 1.3 78.8 - - - +
149B VAL* 1.3 65.8 + - - +
151B LYS* 3.3 25.0 + - - +
152B VAL* 3.1 26.7 + - - +
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Residues in contact with VAL 149 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
98B ILE* 3.9 20.4 - - + +
99B TYR* 3.5 28.5 - - - +
100B ILE 4.2 1.8 - - - +
139B ALA 3.6 18.6 - - - +
140B ALA* 3.9 17.9 - - + -
144B GLY 4.2 4.9 - - - +
145B ILE* 4.2 10.8 - - + -
146B THR* 3.0 26.7 + - - +
148B ASP* 1.3 75.6 - - - +
150B GLU* 1.3 62.5 + - - +
152B VAL* 3.3 6.5 + - - +
153B ILE* 3.0 33.9 + - + +
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Residues in contact with GLU 150 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
145B ILE* 3.9 11.6 - - + +
146B THR 2.9 18.8 + - - +
147B LYS* 3.6 24.8 + - - +
149B VAL* 1.3 74.2 - - - +
151B LYS* 1.3 67.9 + - + +
153B ILE* 3.2 12.5 + - - +
154B ARG* 2.8 61.5 + - + +
184B ILE* 4.4 14.8 - - + -
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Residues in contact with LYS 151 (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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102B LEU* 4.5 7.4 - - + +
106B PHE* 4.3 11.5 + - - +
107B LEU* 6.0 0.2 - - - +
108B ASN 5.6 1.4 - - - +
109B ARG 3.9 21.6 + - - +
111B ILE* 3.8 36.3 - - + +
114B ILE* 4.3 18.5 - - + +
147B LYS* 3.1 21.0 + - + +
148B ASP* 3.3 26.5 + - - +
150B GLU* 1.3 78.1 - - + +
152B VAL* 1.4 56.9 + - - +
154B ARG 3.3 1.0 + - - -
155B ALA* 3.0 28.8 + - - +
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Residues in contact with VAL 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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96B ILE* 3.9 33.0 - - + +
98B ILE* 4.2 10.1 - - + -
102B LEU* 3.7 28.9 - - + -
114B ILE* 4.9 4.7 - - + -
118B PHE* 4.3 8.5 - - + -
138B ILE* 3.6 24.2 - - + -
139B ALA 5.4 2.2 - - - +
148B ASP 3.1 14.4 + - - +
149B VAL* 3.6 8.1 - - - +
150B GLU 3.2 0.2 - - - -
151B LYS* 1.4 71.5 - - - +
153B ILE* 1.3 66.3 - - - +
155B ALA* 3.3 6.9 + - - +
156B ALA* 3.1 20.6 + - - +
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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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138B ILE* 3.7 25.8 - - + -
139B ALA 5.4 1.1 - - - +
145B ILE* 4.1 16.8 - - + -
149B VAL* 3.0 33.6 + - + +
150B GLU* 3.2 13.2 + - - +
152B VAL* 1.3 76.5 - - - +
154B ARG* 1.3 60.6 + - - +
156B ALA* 3.2 3.6 + - - +
157B ALA 3.1 15.9 + - - -
181B GLN* 4.1 17.3 - - + +
184B ILE* 3.5 36.8 - - + -
185B LEU* 3.3 29.5 - - + +
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Residues in contact with ARG 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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111B ILE* 4.0 30.1 - - + -
150B GLU* 2.8 49.1 + - - +
151B LYS 3.9 4.0 - - - +
153B ILE* 1.3 74.5 - - - +
155B ALA* 1.3 64.9 + - - +
157B ALA* 3.2 9.8 + - - +
158B ILE* 3.1 25.7 + - + +
183B ARG* 5.5 2.0 - - - +
184B ILE* 4.0 25.6 + - + +
187B GLU* 5.2 10.3 + - - +
188B GLU* 2.5 51.0 + - - +
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Residues in contact with ALA 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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111B ILE* 3.6 20.3 - - - +
114B ILE* 3.5 33.0 - - + -
115B ALA* 3.6 15.5 - - - +
118B PHE* 3.8 6.3 - - + -
151B LYS 3.0 15.1 + - - +
152B VAL 3.6 4.0 - - - +
153B ILE 3.3 0.2 - - - -
154B ARG* 1.3 73.8 - - - +
156B ALA* 1.3 61.1 + - - +
158B ILE* 3.3 3.9 + - - +
159B ALA* 3.0 25.8 + - - +
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Residues in contact with ALA 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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118B PHE* 3.9 2.4 - - + -
136B VAL* 3.8 21.5 - - + +
138B ILE* 3.7 21.5 - - + -
152B VAL 3.1 12.6 + - - +
153B ILE* 3.3 11.0 - - - +
155B ALA* 1.3 75.4 - - - +
157B ALA* 1.3 60.1 + - - +
159B ALA* 3.2 2.9 + - - +
160B ASN* 2.9 30.1 + - - +
167B ILE* 3.7 19.1 - - + +
185B LEU* 4.6 1.8 - - + -
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Residues in contact with ALA 157 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
153B ILE 3.1 12.0 + - - +
154B ARG 3.2 10.3 + - - +
156B ALA* 1.3 75.5 - - - +
158B ILE* 1.4 57.1 + - + +
160B ASN* 3.2 2.8 + - - +
161B LYS* 2.9 38.7 + - + +
185B LEU* 4.0 6.0 - - + +
188B GLU* 3.6 34.8 - - + +
190B VAL* 3.6 21.8 - - + -
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Residues in contact with ILE 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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111B ILE* 3.9 26.0 - - + -
112B ASP* 3.3 26.2 - - - +
115B ALA* 3.6 21.3 - - + -
119B ILE* 4.6 9.2 - - + -
154B ARG* 3.1 10.3 + - + +
155B ALA 3.6 6.3 - - - +
156B ALA 3.3 0.2 - - - -
157B ALA* 1.4 76.0 - - + +
159B ALA* 1.3 57.6 + - - +
161B LYS* 3.9 10.7 - - + +
162B GLU* 3.0 34.7 + - + +
188B GLU* 5.8 3.6 - - - +
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Residues in contact with ALA 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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115B ALA 4.8 0.4 - - - +
118B PHE* 3.9 19.3 - - + -
119B ILE* 4.2 15.9 - - + -
122B ILE* 4.2 6.3 - - + -
136B VAL* 3.9 21.8 - - + -
155B ALA 3.0 14.0 + - - +
156B ALA 3.6 7.6 - - - +
158B ILE* 1.3 77.4 - - - +
160B ASN* 1.3 54.5 + - - +
162B GLU* 3.3 0.7 + - - -
163B THR* 2.7 41.3 + - - +
165B VAL* 4.8 0.9 - - - -
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Residues in contact with ASN 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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136B VAL* 5.1 0.2 - - - +
156B ALA 2.9 16.5 + - - +
157B ALA 3.6 3.6 - - - +
159B ALA* 1.3 76.8 - - - +
161B LYS* 1.3 63.6 + - - +
163B THR* 4.4 0.4 - - - -
164B LYS* 2.6 42.8 + - - +
165B VAL* 2.8 34.4 + - - +
166B PRO* 4.5 0.6 - - - +
167B ILE* 3.8 13.8 - - + +
189B GLY 5.0 0.2 - - - +
190B VAL* 3.3 32.5 - - + +
191B ASP* 4.5 2.1 + - - +
194B LYS* 4.1 19.6 - - - +
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Residues in contact with LYS 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 ALA* 2.9 29.9 + - + +
158B ILE* 4.0 8.6 - - + +
160B ASN* 1.3 83.1 - - - +
162B GLU* 1.3 61.6 + - + +
164B LYS* 3.5 23.5 + - - +
188B GLU* 3.1 35.5 + - + +
189B GLY* 4.3 16.8 - - - +
190B VAL* 4.7 0.4 - - + -
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Residues in contact with GLU 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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119B ILE* 3.9 26.6 - - + +
123B LYS* 4.8 11.1 + - - +
158B ILE* 3.0 25.6 + - + +
159B ALA 3.7 3.4 - - - +
160B ASN 3.1 0.2 - - - -
161B LYS* 1.3 80.0 - - - +
163B THR* 1.3 63.6 + - + +
164B LYS* 3.7 6.1 - - - +
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Residues in contact with THR 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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2B ARG* 4.0 9.4 + - - -
119B ILE* 4.5 8.1 - - + -
122B ILE* 3.5 33.8 - - + +
123B LYS* 4.2 22.7 - - + -
159B ALA 2.7 25.7 + - - +
162B GLU* 1.3 81.8 - - + +
164B LYS* 1.3 73.5 + - - +
165B VAL* 3.1 26.7 + - - +
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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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2B ARG* 4.1 19.5 + - - +
160B ASN* 2.6 27.9 + - - +
161B LYS* 3.5 20.7 + - - +
162B GLU 4.9 5.2 - - - +
163B THR* 1.3 76.6 + - - +
165B VAL* 1.3 65.4 + - - +
194B LYS* 3.4 26.5 + - - +
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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
------------------------------------------------------------
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