Contacts of the helix formed by residues 147 - 162 (chain C) in PDB entry 3UGV
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 147 (chain C).
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Specific contacts
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Residue Dist Surf HB Arom Phob DC
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146C LYS* 1.3 76.4 - - - +
148C PRO* 1.3 77.9 - - - +
149C ALA* 3.4 13.5 + - - +
150C GLU* 2.9 31.4 + - - +
151C VAL* 2.9 21.0 + - - +
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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
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146C LYS 3.5 1.5 - - - +
147C SER* 1.3 89.0 - - - +
149C ALA* 1.3 56.2 + - - +
151C VAL* 3.4 2.3 + - - +
152C ALA* 3.0 28.4 + - - +
181C VAL* 3.7 32.5 - - + +
184C GLU* 3.8 25.4 - - - +
185C THR* 3.7 28.2 - - + +
188C ALA* 4.0 12.4 - - + +
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Residues in contact with ALA 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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147C SER* 3.2 9.1 + - - +
148C PRO* 1.3 76.4 - - - +
150C GLU* 1.3 68.0 + - + +
152C ALA* 3.3 6.8 + - - +
153C ALA* 3.0 24.8 + - - +
188C ALA* 5.5 1.1 - - - -
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Residues in contact with GLU 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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146C LYS* 3.9 29.6 + - + +
147C SER* 2.9 41.0 + - - +
149C ALA* 1.3 79.2 - - + +
151C VAL* 1.3 57.7 + - - +
153C ALA* 3.5 5.7 + - - +
154C GLU* 3.1 27.5 + - - +
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Residues in contact with VAL 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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143C LEU* 3.4 32.9 - - + +
144C TRP 3.5 22.9 - - - +
146C LYS* 3.6 21.8 - - + +
147C SER 2.9 20.2 + - - +
148C PRO 3.8 0.2 - - - +
150C GLU* 1.3 74.1 - - - +
152C ALA* 1.3 65.8 + - - +
154C GLU* 3.3 5.7 + - - -
155C ALA* 2.9 19.9 + - - +
172C LEU* 3.9 2.7 - - + -
176C ARG* 3.7 5.8 - - - +
185C THR* 3.5 24.9 - - + -
189C VAL* 3.6 9.4 - - + -
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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 18.1 + - - +
149C ALA* 3.3 8.0 + - - +
151C VAL* 1.3 77.1 - - - +
153C ALA* 1.3 61.8 + - - +
155C ALA* 3.2 15.2 + - - +
156C VAL* 3.5 11.6 + - - +
188C ALA* 3.5 29.8 - - + +
189C VAL* 4.1 12.1 - - - +
192C ALA* 3.8 11.1 - - + +
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Residues in contact with ALA 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 ALA 3.0 16.3 + - - +
150C GLU* 3.8 6.3 - - - +
152C ALA* 1.3 72.7 - - - +
154C GLU* 1.3 67.6 + - - +
156C VAL* 3.1 24.3 + - - +
157C GLU* 3.6 9.8 + - - +
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Residues in contact with GLU 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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21C ARG* 3.1 37.9 + - - +
142C GLY* 4.6 0.8 - - - -
143C LEU* 3.3 31.2 + - + -
144C TRP* 4.4 1.0 + - - -
146C LYS* 3.5 30.2 + - - +
150C GLU 3.1 14.8 + - - +
151C VAL* 3.7 6.0 - - - +
153C ALA* 1.3 77.9 - - - +
155C ALA* 1.3 63.5 + - - +
157C GLU* 3.1 24.4 + - - +
158C LEU* 2.9 32.2 + - + +
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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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143C LEU* 3.7 13.2 - - + +
151C VAL 2.9 13.9 + - - +
152C ALA* 3.3 11.9 - - - +
153C ALA 3.1 0.4 - - - -
154C GLU* 1.3 77.7 - - - +
156C VAL* 1.3 58.3 + - - +
158C LEU* 3.3 5.3 + - - +
159C LYS* 3.0 28.6 + - - +
170C LEU* 3.8 10.3 - - + +
189C VAL* 3.8 29.2 - - + -
193C VAL* 3.8 10.1 - - + +
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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 3.6 15.0 - - - +
153C ALA* 3.1 11.8 + - - +
155C ALA* 1.3 73.9 - - - +
157C GLU* 1.3 67.6 + - + +
159C LYS* 3.3 5.7 + - + +
160C ALA* 3.2 21.3 + - + +
192C ALA* 4.0 26.7 - - + +
193C VAL* 4.1 8.1 - - + -
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Residues in contact with GLU 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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21C ARG* 4.3 21.8 + - - +
153C ALA 3.8 10.8 - - - +
154C GLU* 3.1 26.8 + - - +
156C VAL* 1.3 78.0 - - + +
158C LEU* 1.3 62.4 + - - +
160C ALA* 3.2 7.6 + - - +
161C GLU* 3.1 26.0 + - + +
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Residues in contact with LEU 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 ARG* 3.7 29.4 - - - +
139C ASN* 3.0 35.0 + - - +
141C ASN* 4.0 3.8 - - + -
142C GLY* 3.9 19.3 - - - +
143C LEU* 3.7 35.0 - - + +
154C GLU* 2.9 22.4 + - + +
155C ALA* 3.7 6.1 - - - +
156C VAL 3.2 0.4 - - - -
157C GLU* 1.3 73.9 - - - +
159C LYS* 1.3 65.7 + - - +
160C ALA 3.2 0.5 + - - -
161C GLU* 3.2 25.5 + - - +
167C PHE* 3.1 11.1 - - - -
170C LEU* 3.8 10.3 - - + -
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Residues in contact with LYS 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 16.2 + - - +
156C VAL* 3.3 5.6 + - - +
158C LEU* 1.3 75.6 - - - +
160C ALA* 1.3 61.2 + - - +
162C GLY 3.2 5.9 + - - -
165C THR 3.9 16.8 + - - -
166C GLY* 3.2 7.8 + - - -
167C PHE* 2.7 65.9 + - + +
168C LYS* 4.4 4.4 - - - +
170C LEU* 4.0 6.8 - - + +
193C VAL* 4.2 29.2 - - + +
196C ASP* 5.8 2.6 - - - +
197C THR* 3.2 25.9 + - + +
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Residues in contact with ALA 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* 3.2 10.8 + - + +
157C GLU* 3.6 11.9 - - - +
158C LEU 3.1 1.0 - - - -
159C LYS* 1.3 76.3 - - - +
161C GLU* 1.3 63.8 + - - +
162C GLY 3.0 2.5 - - - -
163C GLN* 3.0 21.4 + - - +
164C GLY 6.0 0.9 - - - -
166C GLY* 5.1 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 GLN* 4.9 4.0 + - - +
21C ARG* 3.4 26.0 + - - +
139C ASN* 2.9 25.6 + - - -
141C ASN* 3.0 20.4 + - - -
157C GLU* 3.1 13.7 + - + +
158C LEU* 3.2 15.0 + - - +
160C ALA* 1.3 75.5 - - - +
162C GLY* 1.3 59.9 + - - +
163C GLN* 3.1 16.7 + - - +
167C PHE* 3.8 8.7 - - + -
325C TRP* 4.2 11.0 - - + -
327C SER* 4.8 2.4 + - - -
339C LEU* 3.2 17.2 - - - +
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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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159C LYS 3.2 8.6 + - - -
160C ALA 3.0 1.8 - - - -
161C GLU* 1.3 77.1 - - - +
163C GLN* 1.3 75.2 + - - +
166C GLY* 4.4 0.7 - - - -
167C PHE* 3.3 36.7 - - - -
339C LEU* 3.7 10.4 - - - +
341C ASP 3.3 3.1 + - - -
342C GLY 3.2 16.2 + - - -
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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