Contacts of the helix formed by residues 144 - 160 (chain A) in PDB entry 1OVM
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 ASN 144 (chain A).
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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139A VAL 3.3 18.1 - - - +
140A LEU* 3.5 3.8 - - - +
141A THR* 2.6 39.6 + - - +
143A GLN* 1.3 79.2 - - + +
145A ALA* 1.3 97.4 + - - +
146A CYS 3.2 2.4 + - - -
147A TYR* 3.2 32.0 + - + +
148A GLU* 3.0 35.8 + - + +
320C THR* 4.1 2.2 - - - -
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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
----------------------------------------------------------
7A VAL* 3.9 35.2 - - + -
140A LEU* 4.1 8.2 - - - +
141A THR 2.9 11.2 + - - +
142A GLU* 4.8 3.1 - - - +
143A GLN 3.8 0.4 - - - -
144A ASN* 1.3 89.4 - - - +
146A CYS* 1.3 60.8 + - - +
148A GLU* 3.8 1.7 - - - +
149A ILE* 2.9 33.8 + - - +
171A VAL* 4.7 4.0 - - + -
320C THR* 4.0 9.6 - - + +
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Residues in contact with CYS 146 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
7A VAL* 5.3 2.2 - - - -
10A TYR* 3.8 48.0 - - + +
145A ALA* 1.3 82.4 - - - +
147A TYR* 1.3 62.3 + - - +
149A ILE* 3.2 3.9 + - - +
150A ASP* 3.0 29.3 + - - +
176A ALA* 4.3 16.8 - - - -
177A THR* 5.5 1.8 - - - -
320C THR* 2.8 37.6 + - - +
321C GLY* 4.8 1.6 - - - +
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Residues in contact with TYR 147 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
143A GLN 3.5 10.0 + - - -
144A ASN* 3.2 36.3 + - + +
146A CYS* 1.3 78.7 - - - +
148A GLU* 1.3 80.6 + - + +
150A ASP* 3.5 8.5 + - - +
151A ARG* 3.0 27.9 + - + +
310C HIS* 3.5 57.8 + + + +
311C ALA* 4.4 0.4 - - + -
320C THR* 4.3 1.1 - - - -
321C GLY* 3.8 19.7 - - - +
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Residues in contact with GLU 148 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
138A ALA* 3.5 11.5 - - + +
140A LEU* 3.9 16.2 - - + -
144A ASN* 3.0 43.6 + - + +
145A ALA 3.8 2.0 - - - +
147A TYR* 1.3 93.2 - - + +
149A ILE* 1.3 66.9 + - - +
151A ARG* 2.7 48.2 + - - +
152A VAL* 3.1 31.0 + - - +
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Residues in contact with ILE 149 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
7A VAL* 4.2 17.9 - - + -
10A TYR* 4.1 18.4 - - + -
11A LEU* 3.9 36.3 - - + -
14A ARG* 4.2 14.4 - - + -
140A LEU* 4.0 22.4 - - + +
145A ALA 2.9 26.6 + - - +
146A CYS* 3.5 5.2 - - - +
148A GLU* 1.3 77.8 - - - +
150A ASP* 1.3 63.1 + - - +
152A VAL* 3.6 1.9 + - - +
153A LEU* 3.3 35.9 + - + +
165A LEU* 4.3 12.3 - - + -
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Residues in contact with ASP 150 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
10A TYR* 2.7 27.5 + - - -
14A ARG* 2.8 33.1 + - - +
146A CYS 3.0 15.4 + - - +
147A TYR* 3.9 7.2 - - - +
149A ILE* 1.3 77.5 - - - +
151A ARG* 1.3 57.3 + - - +
153A LEU* 3.9 0.5 - - - +
154A THR* 2.7 35.9 + - - +
183A LEU* 3.6 24.6 - - + +
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Residues in contact with ARG 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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136A ALA* 4.1 22.0 - - - +
137A GLN 3.1 24.7 + - - +
138A ALA* 3.8 4.0 - - - +
147A TYR* 3.0 18.5 + - + +
148A GLU* 2.7 44.6 + - - +
150A ASP* 1.3 78.3 - - - +
152A VAL* 1.3 66.1 + - - +
154A THR* 3.7 4.5 - - - -
155A THR* 3.0 35.2 + - - +
158C ARG* 4.6 17.7 - - - +
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Residues in contact with VAL 152 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
97A LEU* 4.5 0.7 - - + -
136A ALA* 3.8 21.4 - - + +
137A GLN* 4.0 15.5 - - - +
138A ALA* 4.0 14.8 - - + -
148A GLU 3.1 14.1 + - - +
149A ILE 3.7 7.2 - - - +
151A ARG* 1.3 84.5 - - - +
153A LEU* 1.3 64.3 + - + +
155A THR* 3.2 2.8 + - - -
156A MET* 2.8 50.0 + - + +
164A TYR 4.8 2.2 - - - +
165A LEU* 3.7 36.6 - - + -
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Residues in contact with LEU 153 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
11A LEU* 4.9 4.9 - - + -
14A ARG* 3.4 39.9 - - + -
15A LEU* 4.7 2.5 - - + +
18A CYS* 4.2 5.6 - - - -
68A PHE* 3.5 27.1 - - + -
97A LEU* 3.8 12.3 - - + -
149A ILE* 3.3 25.6 + - + +
152A VAL* 1.3 83.8 - - + +
154A THR* 1.3 62.3 + - - +
156A MET* 3.1 28.2 + - + +
157A LEU* 3.0 26.9 + - - +
165A LEU* 5.6 0.4 - - + -
183A LEU* 3.6 20.4 - - + -
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Residues in contact with THR 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 ASP* 2.7 24.2 + - - +
151A ARG* 3.7 5.4 - - - -
152A VAL 3.2 0.2 - - - -
153A LEU* 1.3 77.4 - - - +
155A THR* 1.3 61.2 + - - +
157A LEU* 3.3 9.8 + - - +
158A ARG* 3.1 36.5 + - + +
183A LEU* 3.9 18.6 - - - +
184A THR 4.9 10.4 + - - +
185A HIS* 5.8 3.1 - - - +
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Residues in contact with THR 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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135A VAL* 3.7 29.4 - - + +
136A ALA* 3.7 15.6 - - + +
151A ARG* 3.0 26.5 + - - +
152A VAL 3.6 4.5 - - - -
154A THR* 1.3 75.8 - - - +
156A MET* 1.3 57.6 + - - +
158A ARG* 3.2 35.1 + - - +
159A GLU* 3.0 33.3 + - + +
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Residues in contact with MET 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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68A PHE* 4.2 11.2 - - + -
95A PRO* 4.3 4.0 - - + +
96A VAL 4.1 3.4 - - - +
97A LEU* 3.2 46.2 - - + -
135A VAL* 4.3 5.6 - - + -
136A ALA* 5.5 0.2 - - + -
152A VAL* 2.8 23.3 + - + +
153A LEU* 3.1 32.5 + - + +
155A THR* 1.3 77.8 - - - +
157A LEU* 1.3 61.5 + - + +
160A ARG* 2.7 36.0 + - - -
161A ARG 3.2 21.3 + - - +
162A PRO 4.0 1.3 - - - +
163A GLY* 3.4 29.6 - - - -
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Residues in contact with LEU 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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18A CYS* 3.7 24.7 - - + +
68A PHE* 3.5 38.1 - - + -
95A PRO* 5.1 0.9 - - + -
153A LEU 3.0 16.0 + - - +
154A THR* 3.7 9.9 - - - +
156A MET* 1.3 79.0 - - - +
158A ARG* 1.3 63.1 + - - +
160A ARG* 2.9 47.1 + - - +
183A LEU* 4.9 6.3 - - + +
184A THR 5.4 2.5 - - - +
185A HIS* 3.5 39.7 - - + +
187A GLN* 4.4 4.7 + - - -
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Residues in contact with ARG 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 THR* 3.1 25.6 + - + +
155A THR* 3.2 41.9 + - - +
157A LEU* 1.3 80.0 - - - +
159A GLU* 1.3 82.3 + - - +
160A ARG 3.6 0.2 + - - -
187A GLN* 4.0 21.2 + - + +
223A HIS* 3.9 16.1 + - - -
310A HIS* 4.4 15.5 - - + -
151C ARG* 4.6 18.2 - - - +
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Residues in contact with GLU 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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93A HIS* 3.6 17.0 - - - -
135A VAL* 4.1 26.0 - - + -
155A THR* 3.0 28.1 + - + +
158A ARG* 1.3 106.8 + - - +
160A ARG* 1.3 71.2 + - - +
161A ARG* 3.9 3.2 - - - +
223A HIS* 4.8 3.3 - - - -
310A HIS* 3.3 27.3 + - - -
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Residues in contact with ARG 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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67A GLY* 3.4 27.3 + - - -
93A HIS* 2.9 39.6 - - + +
95A PRO* 4.1 18.0 - - - +
156A MET 2.7 19.6 + - - -
157A LEU* 2.9 40.8 + - - +
158A ARG 3.4 0.2 - - - -
159A GLU* 1.3 78.7 - - - +
161A ARG* 1.3 55.0 + - - +
185A HIS* 5.5 8.1 + - - +
187A GLN* 5.4 4.2 - - - +
222A ARG* 3.2 30.9 + - + +
223A HIS* 3.8 34.3 - - + +
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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