Contacts of the helix formed by residues 145 - 160 (chain A) in PDB entry 3MOK
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 SER 145 (chain A).
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Specific contacts
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Residue Dist Surf HB Arom Phob DC
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20A LEU* 3.5 35.5 + - - +
21A ALA* 5.2 0.3 - - - -
23A TRP* 4.9 2.7 - - - -
24A SER* 2.7 24.8 + - - -
140A LEU* 4.0 17.9 - - - -
143A GLY 3.5 2.0 + - - -
144A ASP* 1.3 72.0 + - - +
146A SER* 1.3 58.7 + - - +
147A ALA 3.4 2.2 - - - -
148A LEU* 3.4 6.5 + - - +
149A GLN* 2.8 31.9 + - - +
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Residues in contact with SER 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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144A ASP* 2.7 26.7 + - - -
145A SER* 1.3 77.4 + - - +
147A ALA* 1.3 63.7 + - - +
149A GLN* 3.3 8.5 + - - +
150A GLY* 3.0 19.8 + - - -
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Residues in contact with ALA 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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132A THR* 6.2 0.4 - - + -
135A LYS* 3.5 42.4 - - + +
136A VAL* 3.8 8.7 - - + +
139A GLY* 5.9 0.7 - - - -
144A ASP* 4.4 3.1 + - - +
145A SER 3.4 0.2 - - - -
146A SER* 1.3 77.8 + - - +
148A LEU* 1.3 67.7 + - - +
150A GLY* 3.3 3.4 + - - -
151A GLN* 3.1 26.4 + - + +
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Residues in contact with LEU 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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20A LEU* 4.1 24.5 - - + -
92A ILE* 4.1 41.7 - - + -
94A LEU* 4.2 7.4 - - + -
116A PHE* 4.5 4.5 - - + -
119A LEU* 4.9 9.9 - - + -
121A LEU* 6.2 1.1 - - + -
136A VAL* 4.0 23.9 + - + +
140A LEU* 4.3 15.7 - - + -
145A SER* 3.4 13.3 + - - +
147A ALA* 1.3 78.9 - - - +
149A GLN* 1.3 62.8 + - - +
151A GLN* 3.1 6.8 + - + +
152A ILE* 2.9 46.6 + - + +
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Residues in contact with GLN 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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17A ALA* 3.9 20.1 - - - +
20A LEU* 3.6 29.0 - - + +
21A ALA 5.3 0.3 + - - -
145A SER* 2.8 23.8 + - - +
146A SER* 3.5 8.7 - - - +
148A LEU* 1.3 73.6 - - - +
150A GLY* 1.3 57.7 + - - +
152A ILE* 3.2 4.6 + - - +
153A ASP* 2.8 29.3 + - + +
165A ILE* 3.4 40.1 - - + +
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Residues in contact with GLY 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 SER 3.0 14.0 + - - -
147A ALA* 3.3 3.3 + - - -
148A LEU 3.2 0.4 - - - -
149A GLN* 1.3 76.1 - - - +
151A GLN* 1.3 67.4 + - - +
153A ASP* 3.4 7.5 + - - +
154A ALA* 3.1 22.5 + - - +
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Residues in contact with GLN 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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119A LEU* 6.0 1.1 - - + -
121A LEU* 3.5 30.9 - - + +
132A THR* 3.6 30.8 + - + +
136A VAL* 4.0 7.4 - - + -
147A ALA 3.1 13.2 + - - +
148A LEU* 3.1 11.2 + - + +
150A GLY* 1.3 78.9 + - - +
152A ILE* 1.3 65.9 + - + +
154A ALA* 3.3 10.3 + - - +
155A LEU* 3.0 34.1 + - + +
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Residues in contact with ILE 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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3A ILE* 4.0 22.2 - - + -
5A ILE* 4.7 1.6 - - + -
16A VAL* 4.2 7.0 - - + -
20A LEU* 4.1 14.1 - - + -
116A PHE* 3.4 43.7 - - + -
119A LEU* 5.0 2.9 - - + -
148A LEU* 2.9 43.3 + - + +
149A GLN 3.7 5.4 - - - +
151A GLN* 1.3 74.4 - - - +
153A ASP* 1.3 65.1 + - - +
155A LEU* 3.1 2.4 + - - +
156A LEU* 2.9 42.5 + - + +
165A ILE* 4.0 9.2 - - + -
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Residues in contact with ASP 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 GLN 2.8 17.0 + - - +
150A GLY* 3.6 8.3 - - - +
151A GLN 3.3 0.2 - - - -
152A ILE* 1.3 77.2 - - - +
154A ALA* 1.3 61.9 + - - +
156A LEU* 3.3 3.1 + - - +
157A LYS* 2.8 54.9 + - - +
164A SER* 3.3 15.1 - - - -
165A ILE* 2.9 45.3 + - + +
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Residues in contact with ALA 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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150A GLY 3.1 16.7 + - - +
151A GLN* 3.7 14.4 - - - +
153A ASP* 1.3 76.2 + - - +
155A LEU* 1.3 59.5 + - + +
157A LYS* 3.4 9.6 + - - +
158A ALA* 3.0 26.9 + - - +
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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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2A SER* 5.9 2.0 - - - -
3A ILE* 4.0 30.8 + - + +
118A ASN 4.8 2.9 - - - +
119A LEU* 3.6 54.1 - - + +
121A LEU* 5.6 1.8 - - + -
151A GLN* 3.0 29.6 + - + +
152A ILE 3.7 3.4 - - - +
154A ALA* 1.3 78.4 - - + +
156A LEU* 1.3 62.8 + - - +
158A ALA* 3.4 16.7 + - + +
159A VAL* 3.4 17.3 + - - +
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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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3A ILE* 3.9 19.5 - - + -
5A ILE* 4.2 6.5 - - + -
16A VAL* 4.6 2.0 - - + -
152A ILE* 2.9 38.3 + - + +
153A ASP 3.8 3.8 - - - +
155A LEU* 1.3 77.1 - - - +
157A LYS* 1.3 56.8 + - - +
159A VAL* 3.0 22.3 + - - +
160A ASP 3.2 11.3 + - - +
163A LEU* 3.7 15.9 - - + +
164A SER* 3.5 33.0 - - - +
165A ILE* 4.1 3.8 - - - +
172A LEU* 3.9 31.2 - - + -
177A VAL* 3.9 17.5 - - + -
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Residues in contact with LYS 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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153A ASP* 2.8 52.1 + - - +
154A ALA* 3.8 7.2 - - - +
155A LEU 3.4 0.2 - - - -
156A LEU* 1.3 74.2 - - - +
158A ALA* 1.3 60.6 + - - +
159A VAL 3.4 0.2 + - - -
160A ASP 3.4 22.5 + - - +
161A PRO* 3.8 16.0 - - + +
163A LEU 3.3 13.2 - - - +
164A SER* 4.3 9.9 - - - -
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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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154A ALA 3.0 13.8 + - - +
155A LEU* 3.5 16.8 - - + +
156A LEU 3.2 0.4 - - - -
157A LYS* 1.3 77.5 - - - +
159A VAL* 1.3 62.0 - - + +
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Residues in contact with VAL 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* 4.0 26.2 - - - -
3A ILE* 4.4 7.4 - - + -
155A LEU 3.6 13.2 - - - +
156A LEU* 3.0 9.2 + - - +
158A ALA* 1.3 81.2 - - + +
160A ASP* 1.3 62.1 + - + +
163A LEU* 3.9 18.4 - - + -
175A ALA* 5.0 7.4 - - + +
177A VAL* 3.9 22.4 - - + -
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Residues in contact with ASP 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 LEU 3.2 10.0 + - - +
157A LYS* 3.4 9.6 + - - +
159A VAL* 1.3 84.3 - - + +
161A PRO* 1.4 80.8 - - - +
162A SER* 2.3 45.7 + - - +
163A LEU* 3.0 26.7 + - + -
175A ALA* 6.2 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