Contacts of the helix formed by residues 137 - 160 (chain A) in PDB entry 1OVI
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 137 (chain A).
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
73A SER* 6.2 0.2 - - - -
74A SER* 3.6 13.8 + - - -
75A ALA 6.0 0.4 - - - -
134A LYS* 3.0 33.6 + - - -
135A GLU* 3.9 5.6 - - - -
136A TYR* 1.3 78.4 - - - +
138A ASP* 1.3 77.3 + - - +
139A CYS 3.5 0.9 - - - -
140A ALA* 2.8 14.4 + - - +
141A TRP* 3.0 12.0 + - - +
----------------------------------------------------------
Back to top of page
Residues in contact with ASP 138 (chain A).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
27A HIS* 2.8 49.6 + - + +
28A SER* 3.4 11.2 + - - +
29A CYS* 3.0 21.0 - - - -
74A SER* 3.4 11.6 + - - -
75A ALA 5.5 0.7 - - - +
134A LYS* 6.3 0.4 - - - +
137A SER* 1.3 80.2 + - - +
139A CYS* 1.3 60.4 + - - +
141A TRP* 3.1 4.5 + - - +
142A GLU* 3.0 26.0 + - - +
----------------------------------------------------------
Back to top of page
Residues in contact with CYS 139 (chain A).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
29A CYS* 2.0 52.3 - - + -
30A LEU 5.0 0.7 - - - -
31A GLN* 3.9 29.2 - - + -
130A TYR* 2.9 20.3 + - - +
134A LYS* 4.6 15.0 - - - +
137A SER* 3.5 1.6 - - - -
138A ASP* 1.3 80.5 - - - +
140A ALA* 1.3 64.7 + - - +
141A TRP 3.2 0.2 - - - -
142A GLU* 4.1 3.8 - - - +
143A ILE* 3.2 23.6 + - + +
----------------------------------------------------------
Back to top of page
Residues in contact with ALA 140 (chain A).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
130A TYR* 3.3 21.4 + - + -
131A LEU* 3.9 29.1 - - + +
134A LYS* 4.3 16.8 - - + +
136A TYR* 4.4 0.4 - - - -
137A SER 2.8 23.9 + - - +
139A CYS* 1.3 78.8 - - - +
141A TRP* 1.3 62.1 + - - +
144A VAL* 3.1 28.2 + - - +
----------------------------------------------------------
Back to top of page
Residues in contact with TRP 141 (chain A).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
27A HIS* 6.0 0.4 - - + +
67A LEU* 3.1 39.7 - - + -
68A PHE* 3.8 28.3 - + - -
70A THR* 3.9 15.3 - - - -
71A GLU 3.0 19.6 + - - -
72A ARG* 3.4 18.3 - - + +
75A ALA* 4.6 7.6 - - + -
77A TRP* 3.4 31.0 - + + -
131A LEU* 4.1 18.6 - - + +
136A TYR* 3.7 30.7 - - + +
137A SER 3.0 8.4 + - - +
138A ASP 3.7 6.1 - - - +
140A ALA* 1.3 77.6 - - - +
142A GLU* 1.3 67.6 + - - +
144A VAL* 2.8 37.8 + - + +
145A ARG* 2.8 13.8 + - - +
----------------------------------------------------------
Back to top of page
Residues in contact with GLU 142 (chain A).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
26A PRO* 3.6 1.4 - - - +
27A HIS* 3.0 43.7 + - + +
28A SER* 4.7 1.4 - - - -
29A CYS* 4.6 3.4 + - - +
32A ASP* 3.5 30.9 - - - +
77A TRP* 4.9 3.4 - - - -
138A ASP* 3.0 16.8 + - - +
139A CYS* 4.6 2.9 - - - +
141A TRP* 1.3 74.6 - - - +
143A ILE* 1.3 66.2 + - - +
145A ARG* 2.6 53.2 + - - +
146A VAL* 3.1 16.3 + - + +
----------------------------------------------------------
Back to top of page
Residues in contact with ILE 143 (chain A).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
31A GLN 3.7 9.6 - - - +
32A ASP* 3.3 19.5 - - + +
33A ARG 3.2 46.7 - - - +
34A LYS* 3.6 8.6 - - + +
36A PHE* 3.5 24.0 - - + -
130A TYR* 3.1 33.2 - - + +
139A CYS* 3.2 15.7 + - + +
141A TRP 3.2 0.4 - - - -
142A GLU* 1.3 76.9 - - - +
144A VAL* 1.3 56.5 + - - +
146A VAL* 3.2 12.2 - - + +
147A GLU* 2.9 27.2 + - - +
----------------------------------------------------------
Back to top of page
Residues in contact with VAL 144 (chain A).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
36A PHE* 5.1 3.1 - - + -
67A LEU* 3.7 30.5 - - + -
68A PHE* 6.1 0.7 - - + -
127A ILE* 3.7 22.9 - - + +
130A TYR* 4.2 14.1 - - + -
131A LEU* 4.1 10.8 - - + -
140A ALA 3.1 17.5 - - - +
141A TRP* 2.8 34.6 + - + +
143A ILE* 1.3 70.9 - - + +
145A ARG* 1.3 60.4 + - - +
147A GLU* 3.8 7.1 - - + +
148A MET* 2.9 28.5 + - + +
----------------------------------------------------------
Back to top of page
Residues in contact with ARG 145 (chain A).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
18A LEU* 3.9 18.4 + - + +
22A ASN* 3.7 43.6 - - + +
23A ARG* 4.5 17.0 - - - +
26A PRO* 3.7 18.5 - - - +
68A PHE* 6.2 4.3 - - - -
77A TRP* 4.8 5.4 - - + -
141A TRP* 2.8 13.2 + - - +
142A GLU* 2.6 60.9 + - - +
144A VAL* 1.3 76.9 - - - +
146A VAL* 1.3 72.0 + - - +
148A MET* 3.0 16.9 + - - +
149A MET 3.0 9.5 + - - -
----------------------------------------------------------
Back to top of page
Residues in contact with VAL 146 (chain A).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
34A LYS* 3.7 27.8 - - + -
142A GLU* 3.1 11.2 + - + +
143A ILE* 3.2 20.4 - - + +
145A ARG* 1.3 88.5 - - + +
147A GLU* 1.3 56.9 + - - +
149A MET* 2.9 17.5 + - + +
150A ARG* 2.9 30.9 + - + +
----------------------------------------------------------
Back to top of page
Residues in contact with GLU 147 (chain A).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
34A LYS* 3.1 19.1 - - - +
36A PHE* 3.5 25.5 - - + +
38A LEU* 3.4 12.1 - - - +
123A TYR* 2.9 34.8 + - + +
127A ILE* 4.3 10.5 - - + -
143A ILE 2.9 19.0 + - - +
144A VAL* 3.8 9.0 - - + +
146A VAL* 1.3 76.9 - - - +
148A MET* 1.3 63.6 + - - +
150A ARG* 2.7 45.5 + - - +
151A ALA* 2.9 23.4 + - - +
----------------------------------------------------------
Back to top of page
Residues in contact with MET 148 (chain A).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
14A ASN* 3.3 31.9 - - - +
18A LEU* 3.7 25.1 - - + -
64A SER* 3.0 31.0 - - - +
67A LEU* 5.4 10.1 - - + +
68A PHE* 3.2 33.2 - - + -
85A LEU* 4.7 1.6 - - + -
89A LEU* 5.7 0.7 - - + -
124A PHE* 6.4 1.1 - - + -
127A ILE* 6.1 0.4 - - - +
144A VAL 2.9 22.0 + - - +
145A ARG* 3.4 6.5 - - - +
147A GLU* 1.3 72.6 - - - +
149A MET* 1.3 58.2 + - - +
151A ALA* 3.3 8.4 + - + +
152A LEU* 2.8 33.6 + - + +
----------------------------------------------------------
Back to top of page
Residues in contact with MET 149 (chain A).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
15A LEU* 3.9 31.9 - - + -
18A LEU* 3.9 17.1 - - + +
145A ARG 3.0 6.8 + - - +
146A VAL* 2.9 19.1 + - + +
148A MET* 1.3 76.5 - - - +
150A ARG* 1.3 62.1 + - - +
152A LEU* 3.2 6.3 + - + +
153A SER* 2.8 47.2 + - - +
----------------------------------------------------------
Back to top of page
Residues in contact with ARG 150 (chain A).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
34A LYS* 3.5 40.1 + - + +
35A ASP* 5.0 0.2 - - - +
36A PHE 4.5 4.8 - - - +
38A LEU* 3.6 26.4 - - + +
123A TYR* 5.2 0.7 - - - +
146A VAL* 2.9 20.3 + - + +
147A GLU* 2.7 56.5 + - - +
149A MET* 1.3 81.5 - - - +
151A ALA* 1.3 64.9 + - - +
153A SER* 3.0 14.9 + - - -
154A SER* 3.2 15.4 + - - -
----------------------------------------------------------
Back to top of page
Residues in contact with ALA 151 (chain A).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
38A LEU* 4.9 7.6 - - - +
60A MET* 3.4 36.1 - - + +
123A TYR* 4.1 18.1 + - + +
124A PHE* 5.2 2.7 - - + -
147A GLU 2.9 15.4 + - - +
148A MET* 3.5 12.1 - - + +
150A ARG* 1.3 72.4 - - - +
152A LEU* 1.3 63.3 + - - +
154A SER* 3.7 2.2 + - - -
155A SER* 3.1 25.6 + - - -
----------------------------------------------------------
Back to top of page
Residues in contact with LEU 152 (chain A).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
11A ALA* 3.6 37.7 - - + +
14A ASN* 3.3 30.7 - - - +
15A LEU* 3.7 29.2 - - + +
18A LEU* 5.2 1.6 - - + -
57A LEU* 6.1 1.3 - - + -
60A MET* 5.3 0.4 - - - -
61A LEU* 5.3 13.2 - - + -
92A GLN* 5.8 0.4 - - - +
148A MET* 2.8 23.6 + - + +
149A MET* 3.6 5.6 - - - +
151A ALA* 1.3 77.0 - - - +
153A SER* 1.3 52.2 + - - +
155A SER* 3.9 7.6 - - - -
156A THR* 2.7 34.4 + - + +
----------------------------------------------------------
Back to top of page
Residues in contact with SER 153 (chain A).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
149A MET* 2.8 39.5 + - - +
150A ARG* 3.0 6.9 + - - -
152A LEU* 1.3 74.9 - - - +
154A SER* 1.3 69.2 + - - +
156A THR* 2.6 22.4 + - - -
157A SER* 3.0 13.7 + - - -
----------------------------------------------------------
Back to top of page
Residues in contact with SER 154 (chain A).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
38A LEU* 5.7 7.9 - - - -
42A MET* 4.8 12.8 + - - +
43A VAL* 4.4 19.4 - - - +
150A ARG 3.2 11.1 + - - -
151A ALA* 4.5 2.0 - - - -
153A SER* 1.3 77.8 - - - +
155A SER* 1.3 64.3 + - - +
157A SER* 3.2 7.2 + - - +
158A LEU* 3.1 27.6 + - - +
----------------------------------------------------------
Back to top of page
Residues in contact with SER 155 (chain A).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
57A LEU* 2.3 53.0 - - - +
60A MET* 4.5 12.3 - - - +
151A ALA 3.1 20.5 + - - -
152A LEU* 3.9 10.8 - - - -
154A SER* 1.3 78.7 - - - +
156A THR* 1.3 64.3 + - - +
158A LEU* 4.3 2.2 - - - +
159A GLN* 3.0 26.9 + - - +
----------------------------------------------------------
Back to top of page
Residues in contact with THR 156 (chain A).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
8A MET* 4.8 16.2 - - + +
11A ALA* 3.6 31.9 - - + -
12A ARG 5.6 0.2 - - - +
152A LEU* 2.7 14.6 + - + +
153A SER* 2.6 23.9 + - - -
155A SER* 1.3 77.4 - - - +
157A SER* 1.3 64.4 + - - +
159A GLN* 3.0 31.3 - - - +
160A GLU* 3.7 9.2 + - - +
----------------------------------------------------------
Back to top of page
Residues in contact with SER 157 (chain A).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
153A SER* 3.0 14.1 + - - -
154A SER* 3.2 10.0 + - - -
156A THR* 1.3 78.0 + - - +
158A LEU* 1.3 66.4 + - - +
160A GLU* 3.0 22.2 + - - +
161A ARG* 4.1 3.1 + - - +
----------------------------------------------------------
Back to top of page
Residues in contact with LEU 158 (chain A).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
41A GLU 4.8 0.2 - - - +
42A MET* 2.4 35.9 - - - +
43A VAL* 3.4 15.0 - - - +
44A GLU 3.2 26.2 - - - +
45A GLY* 4.5 5.8 - - - -
53A ALA* 6.4 3.6 - - + -
56A VAL* 6.4 1.6 - - + -
154A SER* 3.1 15.5 + - - +
155A SER* 4.4 2.7 - - - +
157A SER* 1.3 79.1 - - - +
159A GLN* 1.3 64.2 + - - +
161A ARG* 3.0 42.3 + - + +
----------------------------------------------------------
Back to top of page
Residues in contact with GLN 159 (chain A).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
3A LEU 5.3 4.1 - - - +
4A SER* 3.9 11.1 + - - +
7A LEU* 3.1 50.0 - - + +
8A MET* 3.3 22.3 + - - +
11A ALA* 6.0 0.4 - - - +
53A ALA* 6.3 3.4 - - + -
54A PHE* 5.9 4.3 - - + -
57A LEU* 3.7 13.7 - - + +
155A SER* 3.0 22.4 + - - +
156A THR* 3.0 30.1 - - - +
158A LEU* 1.3 81.8 - - - +
160A GLU* 1.3 65.2 + - + +
161A ARG 3.1 0.9 + - - -
162A LEU* 3.4 18.0 + - - +
----------------------------------------------------------
Back to top of page
Residues in contact with GLU 160 (chain A).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
4A SER* 5.5 5.1 + - - +
8A MET* 3.4 34.5 - - + +
156A THR 4.0 8.7 - - - +
157A SER* 3.0 13.6 + - - +
159A GLN* 1.3 76.9 - - + +
161A ARG* 1.3 54.2 + - - +
162A LEU* 2.6 26.6 + - - +
----------------------------------------------------------
Back to top of page
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) + - + + + + + -
------------------------------------------------------------
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