Contacts of the helix formed by residues 150 - 163 (chain A) in PDB entry 1MUK
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 150 (chain A).
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Specific contacts
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Residue Dist Surf HB Arom Phob DC
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39A ARG* 3.5 38.8 - - - +
147A ILE* 4.8 0.2 - - + -
149A ALA* 1.3 91.8 - - + +
151A LEU* 1.3 67.5 + - - +
152A GLU* 3.6 3.4 - - - +
153A LYS* 3.0 33.0 + - + +
154A PHE* 3.7 4.2 - - - -
209A TYR* 3.9 37.6 - - + +
849A PHE* 5.3 0.7 - - + -
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Residues in contact with LEU 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 ILE* 4.3 12.6 - - + +
149A ALA 3.4 1.8 + - - +
150A PRO* 1.3 72.5 - - - +
152A GLU* 1.3 68.8 + - - +
154A PHE* 3.0 8.9 + - - +
155A VAL* 3.0 23.7 + - - +
190A PHE* 4.1 15.3 - - + -
207A TYR* 3.6 29.3 + - + +
230A LEU* 3.7 40.6 - - + +
231A SER* 3.8 8.3 - - - +
234A VAL* 4.2 11.4 - - + +
801A VAL* 4.0 37.0 - - + -
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Residues in contact with GLU 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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39A ARG* 2.8 52.5 + - + +
42A VAL* 4.1 18.2 - - + +
43A TYR* 2.5 42.2 + - + +
150A PRO* 3.6 8.1 - - - +
151A LEU* 1.3 81.9 + - - +
153A LYS* 1.3 56.4 + - - +
155A VAL* 3.8 8.6 - - - +
156A LEU* 2.9 31.9 + - - +
190A PHE* 5.6 1.3 - - + -
205A ALA* 3.7 10.4 - - - +
207A TYR 4.6 5.2 - - - +
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Residues in contact with LYS 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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34A PHE* 4.4 21.1 + - + +
35A SER* 4.7 7.9 - - - +
39A ARG* 5.9 1.1 - - - +
150A PRO* 3.0 27.9 + - + +
152A GLU* 1.3 77.2 - - + +
154A PHE* 1.3 60.1 + - + +
156A LEU* 3.8 6.2 - - + +
157A ALA* 2.9 30.4 + - - +
845A LEU* 4.7 3.3 - - + +
848A ALA* 2.9 36.0 + - + +
849A PHE* 3.6 41.0 - - + +
851A ARG 5.9 1.2 + - - -
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Residues in contact with PHE 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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148A LYS* 4.4 9.2 - - + -
149A ALA* 4.1 29.8 - - + -
150A PRO 3.7 11.2 - - - -
151A LEU* 3.0 8.8 + - - +
153A LYS* 1.3 79.0 - - + +
155A VAL* 1.3 55.6 + - - +
157A ALA* 3.6 2.0 + - - -
158A LEU* 3.0 25.1 + - - +
234A VAL* 3.9 16.8 - - + -
238A ILE* 4.1 3.7 - - + +
800A ILE* 3.6 30.7 - - + -
801A VAL* 3.5 26.5 - - + -
821A ILE* 4.3 16.6 - - + -
824A VAL* 5.5 0.2 - - + -
841A TYR* 3.2 26.5 + - - +
845A LEU* 3.8 25.6 - - + -
849A PHE* 4.7 4.9 - + - -
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Residues in contact with VAL 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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42A VAL* 3.9 18.8 - - + -
46A LEU* 3.9 28.9 - - + -
151A LEU 3.0 20.4 + - - +
152A GLU* 4.0 4.7 - - - +
154A PHE* 1.3 75.4 - - - +
156A LEU* 1.3 67.7 + - - +
158A LEU* 3.0 10.1 + - + +
159A LEU* 2.8 24.3 + - + +
187A LEU* 4.4 11.4 - - + -
190A PHE* 4.3 17.0 - - + -
234A VAL* 3.8 28.0 - - + -
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Residues in contact with LEU 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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5A ILE* 3.7 30.1 - - + -
9A PHE* 4.7 1.1 - - + -
34A PHE* 3.4 35.0 - - + +
37A PHE* 3.8 46.0 - - + -
42A VAL* 4.2 14.6 - - + +
152A GLU 2.9 20.5 + - - +
153A LYS* 3.8 7.0 - - + +
155A VAL* 1.3 76.3 - - - +
157A ALA* 1.3 64.8 + - - +
159A LEU* 3.0 11.7 + - + +
160A VAL* 2.9 24.4 + - + +
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Residues in contact with ALA 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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34A PHE* 4.0 12.5 - - + -
153A LYS 2.9 19.3 + - - +
154A PHE 3.9 3.6 - - - +
156A LEU* 1.3 77.6 - - - +
158A LEU* 1.3 63.3 + - - +
160A VAL* 3.1 1.6 + - - -
161A ALA* 2.9 24.9 + - - +
841A TYR* 3.9 9.4 - - + -
844A ALA* 3.6 8.8 - - + +
845A LEU* 3.9 37.2 - - + +
848A ALA* 4.6 1.3 - - + -
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Residues in contact with LEU 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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154A PHE 3.0 17.5 + - - +
155A VAL* 3.0 11.2 + - + +
157A ALA* 1.3 75.8 - - - +
159A LEU* 1.3 62.1 + - + +
162A GLU* 3.0 53.4 + - + +
181A LEU* 4.5 15.5 - - + -
187A LEU* 5.1 7.0 - - + -
234A VAL* 6.3 0.2 - - + -
237A ALA* 3.9 16.2 - - + +
238A ILE* 3.7 36.6 - - + +
241A GLN* 4.2 13.5 - - + -
242A THR* 5.3 2.0 - - + -
841A TYR* 3.5 24.4 - - + -
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Residues in contact with LEU 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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2A SER* 5.6 2.4 + - - +
5A ILE* 4.0 23.5 - - + +
42A VAL* 4.3 4.3 - - + +
45A ALA* 3.7 30.5 - - + +
46A LEU* 3.8 20.4 - - + -
49A ILE* 3.5 32.5 - - + -
155A VAL* 2.8 22.3 + - + +
156A LEU* 3.5 13.0 - - + +
158A LEU* 1.3 77.2 - - + +
160A VAL* 1.3 63.4 + - - +
162A GLU* 3.9 0.7 - - - +
163A ALA* 3.1 25.1 + - - +
181A LEU* 3.8 16.9 - - + +
187A LEU* 4.5 2.0 - - + -
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Residues in contact with VAL 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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5A ILE* 3.8 11.7 - - + -
9A PHE* 3.5 45.3 - - + -
12A PHE* 3.9 31.0 - - + -
13A ILE* 3.6 21.8 - - + +
16A ILE* 4.8 1.6 - - + -
34A PHE* 3.7 21.3 - - + -
156A LEU* 2.9 18.2 + - + +
157A ALA* 3.1 6.0 + - - +
159A LEU* 1.3 79.8 - - - +
161A ALA* 1.3 64.1 + - - +
163A ALA* 3.4 6.2 + - - +
844A ALA* 4.5 2.9 - - + -
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Residues in contact with ALA 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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13A ILE* 5.2 0.2 - - - +
16A ILE* 4.4 6.1 - - - -
157A ALA 2.9 15.8 + - - +
158A LEU 4.0 2.9 - - - +
160A VAL* 1.3 79.1 - - - +
162A GLU* 1.3 62.6 + - - +
164A GLY* 3.4 4.9 + - - -
840A ARG* 3.0 45.3 + - + +
841A TYR* 3.9 34.1 - - + -
844A ALA* 4.0 6.3 - - + +
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Residues in contact with GLU 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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158A LEU* 3.0 37.4 + - + +
159A LEU 3.9 0.2 - - - -
161A ALA* 1.3 76.1 - - - +
163A ALA* 1.3 58.0 + - - +
164A GLY 2.8 10.7 + - - -
165A GLY* 3.0 14.4 + - - -
180A ASP* 5.3 3.1 - - - +
181A LEU* 3.9 28.1 + - + +
241A GLN* 2.8 29.2 + - + +
242A THR* 5.4 2.4 - - - +
837A ARG* 2.6 34.6 + - - +
840A ARG* 3.3 19.8 + - - +
841A TYR* 6.0 1.2 - - - +
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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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2A SER* 4.0 19.7 - - - +
5A ILE* 4.4 3.6 - - + -
6A LEU* 3.8 21.3 - - + +
13A ILE* 3.6 29.3 - - + +
159A LEU 3.1 18.0 + - - +
160A VAL 3.7 0.9 - - - +
161A ALA 3.3 0.8 - - - -
162A GLU* 1.3 77.2 - - - +
164A GLY* 1.3 58.8 + - - +
165A GLY 3.2 2.1 + - - -
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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