Contacts of the helix formed by residues 144 - 160 (chain C) 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 C).
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Specific contacts
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Residue Dist Surf HB Arom Phob DC
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320A THR* 4.1 2.9 - - - -
139C VAL 3.4 14.8 - - - +
140C LEU* 3.5 4.9 - - - +
141C THR* 2.6 45.3 + - - +
143C GLN* 1.3 78.8 - - + +
145C ALA* 1.3 93.2 + - - +
146C CYS 3.2 2.0 + - - -
147C TYR* 3.3 32.6 + - + +
148C GLU* 3.0 35.1 + - + +
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Residues in contact with ALA 145 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
320A THR* 4.0 8.7 - - + +
7C VAL* 3.9 36.3 - - + -
140C LEU* 4.1 9.3 - - + +
141C THR 2.9 11.6 + - - +
142C GLU* 4.8 3.1 - - - +
143C GLN 3.8 0.6 - - - -
144C ASN* 1.3 89.8 - - - +
146C CYS* 1.3 59.9 + - - +
148C GLU* 3.8 2.1 - - - +
149C ILE* 2.9 33.0 + - - +
171C VAL* 4.7 4.5 - - + -
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Residues in contact with CYS 146 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
194A CYS* 6.3 1.1 - - - -
320A THR* 2.9 35.4 + - - +
321A GLY* 5.0 1.8 - - - +
7C VAL* 5.3 2.5 - - - -
10C TYR* 3.8 48.2 - - + +
145C ALA* 1.3 81.8 - - - +
147C TYR* 1.3 57.7 + - - +
149C ILE* 3.2 4.1 + - - +
150C ASP* 3.0 32.5 + - - -
176C ALA* 4.4 16.6 - - - -
177C THR* 5.6 1.8 - - - -
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Residues in contact with TYR 147 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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310A HIS* 3.5 57.3 + + + +
311A ALA* 4.4 0.8 - - + +
320A THR* 4.1 1.1 - - - -
321A GLY* 3.6 19.0 - - - +
143C GLN 3.6 10.6 + - - -
144C ASN* 3.3 33.8 + - + +
146C CYS* 1.3 79.6 - - - +
148C GLU* 1.3 82.7 + - + +
150C ASP* 3.8 7.8 - - - +
151C ARG* 2.9 28.5 + - + +
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Residues in contact with GLU 148 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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138C ALA* 3.5 13.4 - - + +
140C LEU* 3.9 17.0 - - + -
144C ASN* 3.0 43.8 + - + +
145C ALA 3.8 2.7 - - - +
147C TYR* 1.3 92.4 - - + +
149C ILE* 1.3 66.8 + - - +
151C ARG* 2.8 46.9 + - - +
152C VAL* 3.1 30.7 + - - +
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Residues in contact with ILE 149 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
7C VAL* 4.1 22.7 - - + -
10C TYR* 4.1 17.7 - - + -
11C LEU* 3.9 33.2 - - + -
14C ARG* 4.2 14.4 - - + -
140C LEU* 4.0 22.4 - - + -
145C ALA 2.9 26.3 + - - +
146C CYS* 3.2 6.9 + - - +
148C GLU* 1.3 76.7 - - - +
150C ASP* 1.3 62.7 + - - +
152C VAL* 3.6 1.4 - - - +
153C LEU* 3.3 37.2 + - + +
165C LEU* 4.4 13.2 - - + -
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Residues in contact with ASP 150 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
10C TYR* 2.6 24.5 + - - -
14C ARG* 2.8 38.0 + - - +
146C CYS 3.0 16.0 + - - +
147C TYR* 3.9 6.8 - - - +
149C ILE* 1.3 76.3 - - - +
151C ARG* 1.3 63.4 + - - +
153C LEU* 3.9 0.5 - - - +
154C THR* 2.8 31.9 + - - +
183C LEU* 3.4 24.1 - - + +
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Residues in contact with ARG 151 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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158A ARG* 4.6 17.7 - - - +
136C ALA* 4.1 23.0 - - - +
137C GLN 3.1 24.7 + - - +
138C ALA* 3.7 4.0 - - - +
147C TYR* 2.9 18.7 + - + +
148C GLU* 2.8 45.0 + - - +
150C ASP* 1.3 79.1 - - - +
152C VAL* 1.3 65.4 + - - +
154C THR* 3.6 5.2 - - - -
155C THR* 3.0 32.8 + - - +
158C ARG* 5.4 0.2 + - - -
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Residues in contact with VAL 152 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
97C LEU* 4.6 0.7 - - + -
136C ALA* 3.9 20.8 - - + +
137C GLN* 4.0 27.1 - - - +
138C ALA* 4.1 4.5 - - + -
148C GLU 3.1 12.7 + - - +
149C ILE 3.6 10.3 - - - +
151C ARG* 1.3 81.2 - - - +
153C LEU* 1.3 64.5 + - + +
155C THR* 3.1 3.1 + - - -
156C MET* 2.8 49.4 + - + +
164C TYR 4.9 1.1 - - - +
165C LEU* 3.7 37.0 - - + -
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Residues in contact with LEU 153 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
11C LEU* 4.9 0.9 - - + -
14C ARG* 3.4 35.7 - - + -
15C LEU* 4.7 5.8 - - + +
18C CYS* 4.0 13.7 - - - -
68C PHE* 3.4 26.2 - - + -
97C LEU* 3.9 11.9 - - + -
149C ILE* 3.3 26.2 + - + +
152C VAL* 1.3 84.2 - - + +
154C THR* 1.3 62.4 + - - +
156C MET* 3.2 26.9 + - + +
157C LEU* 3.1 29.7 + - - +
165C LEU* 5.4 0.4 - - + -
183C LEU* 3.6 15.5 - - + -
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Residues in contact with THR 154 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
150C ASP* 2.8 24.3 + - - +
151C ARG* 3.6 5.2 - - - -
153C LEU* 1.3 75.3 - - - +
155C THR* 1.3 65.6 + - - +
157C LEU* 3.2 11.6 + - - +
158C ARG* 3.1 35.5 + - + +
183C LEU* 3.9 18.7 - - - +
184C THR 4.8 10.7 + - - +
185C HIS* 5.8 2.7 - - - +
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Residues in contact with THR 155 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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135C VAL* 3.7 33.0 - - + +
136C ALA* 3.7 12.4 - - + +
151C ARG* 3.0 23.2 + - - +
152C VAL 3.5 7.2 - - - -
154C THR* 1.3 77.1 - - - +
156C MET* 1.3 57.6 + - - +
158C ARG* 3.3 34.6 + - - +
159C GLU* 2.9 33.7 + - + +
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Residues in contact with MET 156 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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68C PHE* 4.2 9.6 - - + -
95C PRO* 4.4 4.5 - - + +
96C VAL 4.1 4.0 - - - +
97C LEU* 3.2 46.0 - - + -
135C VAL* 4.3 5.8 - - + -
136C ALA* 5.5 0.2 - - + -
152C VAL* 2.8 22.9 + - + +
153C LEU* 3.3 33.4 - - + +
155C THR* 1.3 77.6 - - - +
157C LEU* 1.3 59.8 + - + +
160C ARG* 2.6 36.7 + - - -
161C ARG 3.3 21.8 + - - +
162C PRO 4.0 1.1 - - - +
163C GLY* 3.4 31.0 - - - +
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Residues in contact with LEU 157 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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18C CYS* 3.9 21.8 - - + +
68C PHE* 3.6 38.4 - - + -
95C PRO* 5.2 0.7 - - + -
153C LEU 3.1 20.3 + - - +
154C THR* 3.2 10.1 + - - +
156C MET* 1.3 78.3 - - - +
158C ARG* 1.3 61.8 + - - +
160C ARG* 3.0 46.0 + - - +
183C LEU* 4.8 6.7 - - + +
184C THR 5.4 2.7 - - - +
185C HIS* 3.5 42.0 - - + +
187C GLN* 4.2 5.3 + - - -
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Residues in contact with ARG 158 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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151A ARG* 4.6 19.2 - - - +
154C THR* 3.1 22.9 + - + +
155C THR* 3.4 44.5 + - - +
156C MET 3.2 0.2 - - - -
157C LEU* 1.3 80.3 - - - +
159C GLU* 1.3 83.5 + - - +
187C GLN* 4.0 20.5 + - + +
223C HIS* 3.9 14.9 + - - -
310C HIS* 4.3 16.4 - - + -
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Residues in contact with GLU 159 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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93C HIS* 3.6 16.3 - - - -
135C VAL* 4.0 28.7 - - + -
155C THR* 2.9 26.7 + - + +
158C ARG* 1.3 107.1 + - - +
160C ARG* 1.3 74.3 + - - +
161C ARG* 3.5 2.8 + - + +
223C HIS* 4.6 3.6 - - - -
309C PRO* 5.8 0.2 - - - +
310C HIS* 3.2 27.9 + - - -
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Residues in contact with ARG 160 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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67C GLY* 3.3 27.7 + - - -
93C HIS* 2.9 38.7 - - + +
95C PRO* 4.1 18.6 - - + +
156C MET 2.6 18.0 + - - -
157C LEU* 3.0 41.2 + - - +
158C ARG 3.4 0.2 - - - -
159C GLU* 1.3 75.0 - - - +
161C ARG* 1.3 55.2 + - - +
185C HIS* 5.6 8.1 - - - +
187C GLN* 5.5 4.0 - - - +
222C ARG* 3.0 30.4 + - + +
223C HIS* 3.6 37.2 - - + +
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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