Contacts of the helix formed by residues 146 - 163 (chain C) in PDB entry 2OQH
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 ASP 146 (chain C).
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Specific contacts
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Residue Dist Surf HB Arom Phob DC
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142C ALA* 4.1 13.2 - - + -
143C THR* 2.9 24.0 + - - +
145C ALA* 1.3 78.0 - - - +
147C LEU* 1.3 65.6 + - - +
148C PRO* 3.4 2.4 - - - -
149C LYS* 3.5 10.8 + - + +
150C ALA* 3.0 22.2 + - + +
364D HIS* 5.1 10.7 - - + +
368D VAL* 4.6 15.8 - - - +
371D ARG* 2.6 44.4 + - - -
372D ASP* 5.0 0.2 - - - +
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Residues in contact with LEU 147 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
136C ARG* 3.8 44.0 - - + +
139C ALA* 4.0 25.4 - - + +
142C ALA* 4.0 11.0 - - + +
143C THR 2.9 12.4 + - - +
144C PRO* 3.6 12.8 - - + +
146C ASP* 1.3 77.2 - - - +
148C PRO* 1.3 64.2 - - + +
150C ALA* 3.1 1.2 + - - +
151C MSE 2.8 50.6 + - + +
177C GLY* 5.7 1.3 - - - +
181C ILE* 3.8 18.4 - - + -
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Residues in contact with PRO 148 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
144C PRO 3.3 14.4 - - - +
145C ALA 3.9 8.1 - - - +
146C ASP 3.6 2.7 - - - -
147C LEU* 1.3 92.9 - - + +
149C LYS* 1.3 61.7 + - - +
151C MSE 3.3 2.3 + - - +
152C ALA 3.0 19.4 + - - -
177C GLY 5.1 0.2 - - - +
180C ALA* 3.5 43.3 - - + +
181C ILE* 4.1 14.9 - - + +
184C ALA* 3.3 19.9 - - + +
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Residues in contact with LYS 149 (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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145C ALA 5.4 2.0 + - - +
146C ASP* 3.5 14.1 + - - +
147C LEU 3.3 0.4 - - - -
148C PRO* 1.3 78.7 - - - +
150C ALA* 1.3 62.5 + - - +
152C ALA* 3.4 5.9 + - - +
153C GLU* 3.0 39.9 + - + +
184C ALA* 4.2 3.8 - - - +
364D HIS* 3.9 35.7 + - + -
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Residues in contact with ALA 150 (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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139C ALA* 3.6 24.4 - - + +
142C ALA* 4.2 9.9 - - + -
146C ASP* 3.0 18.8 + - + +
147C LEU 3.5 5.4 - - - +
149C LYS* 1.3 77.5 - - - +
151C MSE 1.3 62.5 + - - +
153C GLU* 3.2 7.5 + - - +
154C HIS* 3.0 22.0 + - - +
364D HIS* 6.4 0.2 - - - -
365D TYR* 6.1 0.7 - - - +
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Residues in contact with MSE 151 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
134C ILE* 4.0 15.4 - - + +
135C THR 3.3 43.3 - - - +
136C ARG* 3.8 11.9 - - - +
138C ASP* 4.4 6.5 - - - -
139C ALA* 4.1 14.6 - - - -
147C LEU* 2.8 37.2 + - + +
148C PRO 3.7 0.9 - - - +
150C ALA* 1.3 72.5 - - - +
152C ALA* 1.3 57.8 + - - +
154C HIS* 3.4 5.7 + - - +
155C ALA* 2.9 29.1 + - - +
169C LEU* 3.4 28.5 - - + -
181C ILE* 3.6 27.6 - - + -
185C VAL* 4.4 3.2 - - + +
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Residues in contact with ALA 152 (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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148C PRO 3.0 15.9 + - - +
149C LYS* 3.7 5.8 - - - +
151C MSE 1.3 73.8 - - - +
153C GLU* 1.3 72.2 + - - +
155C ALA* 3.2 2.5 + - - +
156C VAL* 2.9 29.0 + - - +
184C ALA* 3.5 33.0 - - + +
185C VAL* 3.8 13.4 - - - +
188C ALA* 3.9 9.1 - - + +
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Residues in contact with GLU 153 (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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149C LYS* 3.0 30.8 + - + +
150C ALA* 3.2 6.0 + - - +
152C ALA* 1.3 83.9 - - - +
154C HIS* 1.3 63.3 + - - +
156C VAL* 3.4 10.2 + - - +
157C ARG* 3.1 21.0 + - - +
188C ALA* 4.6 8.0 - - - +
361D LYS* 6.3 2.9 - - - -
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Residues in contact with HIS 154 (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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19C ASN* 6.1 0.4 + - - -
21C PHE* 3.1 30.3 - - - +
22C THR* 5.2 0.4 - - - -
23C SER* 4.8 4.4 + - - -
133C LEU 5.7 0.6 + - - -
134C ILE* 4.3 10.3 - - + +
138C ASP* 3.3 57.0 + - + +
150C ALA 3.0 13.8 + - - +
151C MSE 3.7 9.6 - - - +
153C GLU* 1.3 77.0 - - - +
155C ALA* 1.3 64.1 + - - +
157C ARG* 3.0 24.7 + - - +
158C VAL* 2.9 48.8 + - + +
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Residues in contact with ALA 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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134C ILE* 4.2 22.9 - - + -
151C MSE 2.9 18.9 + - - +
152C ALA 3.2 5.6 + - - +
154C HIS* 1.3 76.1 - - - +
156C VAL* 1.3 63.6 + - - +
158C VAL* 3.3 6.4 + - - +
159C VAL* 3.0 30.0 + - - +
167C VAL* 4.8 5.2 - - + -
185C VAL* 4.2 16.2 - - + -
189C LEU* 4.0 16.4 - - + -
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Residues in contact with VAL 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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152C ALA 2.9 21.8 + - - +
153C GLU* 3.6 12.8 - - - +
155C ALA* 1.3 76.9 - - - +
157C ARG* 1.3 62.2 + - - +
159C VAL* 3.4 0.9 + - - +
160C GLU* 3.0 53.5 + - + +
188C ALA* 3.7 27.8 - - + +
189C LEU* 4.0 23.1 - - + -
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Residues in contact with ARG 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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20C PRO 4.8 1.2 + - - -
21C PHE* 2.6 44.6 + - - +
22C THR 4.0 2.6 + - - -
23C SER* 4.0 18.8 - - - +
153C GLU 3.1 9.0 + - - +
154C HIS* 3.0 30.4 + - - +
156C VAL* 1.3 80.3 - - - +
158C VAL* 1.3 58.7 + - - +
160C GLU* 4.1 5.9 - - - +
161C GLU* 2.9 75.5 + - - +
332D ASP* 6.0 0.4 + - - -
336D GLU* 4.9 15.6 + - - -
337D PRO* 6.3 3.8 - - - -
361D LYS* 5.7 6.7 - - - +
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Residues in contact with VAL 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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21C PHE* 4.0 28.2 - - + -
132C ALA* 3.6 31.2 - - + -
133C LEU 5.8 2.0 - - - +
134C ILE* 5.0 6.3 - - + -
154C HIS* 2.9 51.3 + - + +
155C ALA* 3.7 6.5 - - - +
157C ARG* 1.3 78.5 - - + +
159C VAL* 1.3 56.0 + - + +
162C GLY* 2.8 29.1 + - - -
164C PHE* 3.4 13.4 - - + -
167C VAL* 6.0 0.4 - - + -
328C TYR* 6.3 0.2 - - + -
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Residues in contact with VAL 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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155C ALA 3.0 22.1 + - - +
156C VAL 3.9 2.7 - - - +
158C VAL* 1.3 74.7 - - + +
160C GLU* 1.3 63.7 + - + +
163C GLY* 2.8 30.7 + - - -
164C PHE* 3.6 28.7 - - + +
167C VAL* 3.5 31.0 - - + -
189C LEU* 3.6 24.5 - - + -
192C VAL* 4.8 7.6 - - + -
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Residues in contact with GLU 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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156C VAL* 3.0 36.0 + - + +
157C ARG* 4.1 5.2 - - - +
159C VAL* 1.3 81.9 - - + +
161C GLU* 1.3 64.4 + - + +
163C GLY* 3.9 3.8 + - - -
189C LEU* 5.9 2.5 - - + -
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Residues in contact with GLU 161 (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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20C PRO 4.9 2.1 - - - +
21C PHE* 3.8 19.3 - - + -
157C ARG* 2.9 61.5 + - - +
158C VAL 4.1 1.1 - - - +
160C GLU* 1.3 81.9 - - + +
162C GLY* 1.3 61.1 + - - +
163C GLY 3.7 0.2 + - - -
336D GLU* 5.0 5.9 - - - +
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Residues in contact with GLY 162 (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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21C PHE* 4.1 9.5 - - - -
158C VAL 2.8 18.3 + - - -
161C GLU* 1.3 75.0 - - - +
163C GLY* 1.3 64.5 + - - +
164C PHE* 3.2 21.7 + - - -
342C ASN* 3.6 2.7 + - - -
343C GLY* 3.1 24.3 + - - -
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Residues in contact with GLY 163 (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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159C VAL* 2.8 17.8 + - - -
160C GLU 3.9 3.7 + - - -
161C GLU 3.4 3.2 + - - -
162C GLY* 1.3 78.0 - - - +
164C PHE* 1.3 63.1 + - - +
165C ASP* 3.7 8.7 + - - +
342C ASN* 3.3 31.4 + - - +
343C GLY* 3.9 1.4 - - - -
344C ARG* 4.4 0.9 + - - -
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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
------------------------------------------------------------
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