Contacts of the helix formed by residues 141 - 155 (chain C) in PDB entry 1UUG
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 TRP 141 (chain C).
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Specific contacts
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Residue Dist Surf HB Arom Phob DC
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20C PHE* 4.4 10.1 - + - -
23C THR* 3.7 24.8 - - + +
24C LEU* 3.9 15.3 - - + -
27C VAL* 4.5 11.0 - - + +
41C GLN* 6.2 0.2 - - - -
44C VAL* 4.4 4.9 - - + -
45C PHE* 3.9 25.8 - + - -
124C THR 3.7 13.7 - - - +
125C VAL* 3.9 28.7 - - + -
126C LEU* 3.6 38.8 - - + -
127C THR* 3.0 39.5 + - + +
136C HIS* 4.1 12.3 + - + +
139C LEU* 3.9 3.7 - - + +
140C GLY* 1.3 77.0 - - - +
142C GLU* 1.3 60.6 + - - +
144C PHE* 3.1 19.8 + + + +
145C THR* 2.9 30.0 + - - +
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Residues in contact with GLU 142 (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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124C THR* 4.0 7.6 - - - +
125C VAL* 3.8 19.7 - - + +
134C HIS* 5.0 1.7 + - - -
136C HIS 5.0 0.2 - - - +
137C ALA* 3.5 12.9 - - - +
138C SER* 3.0 39.0 + - - -
139C LEU 4.0 1.7 + - - -
140C GLY* 3.4 2.5 + - - -
141C TRP* 1.3 79.4 + - - +
143C THR* 1.3 61.0 + - + +
145C THR* 3.2 9.0 + - - -
146C ASP* 2.8 38.9 + - - +
167C HIS* 6.2 2.2 - - - +
171C LYS* 5.0 11.6 + - - +
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Residues in contact with THR 143 (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 TYR* 3.0 29.1 + - - -
140C GLY* 3.0 19.9 + - - +
142C GLU* 1.3 78.6 - - + +
144C PHE* 1.3 59.3 + - - +
146C ASP* 3.4 12.5 + - - +
147C LYS* 3.1 25.5 + - - +
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Residues in contact with PHE 144 (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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11C LEU* 4.3 28.9 - - + -
14C GLU* 4.8 12.3 - - + -
15C LYS* 5.8 2.9 - - + -
19C TYR* 3.3 14.8 - - - +
20C PHE* 3.4 37.2 - + + -
45C PHE* 3.9 26.2 - + - -
48C PHE* 4.1 20.6 - + - -
126C LEU* 4.1 4.3 - - + -
140C GLY 3.5 6.9 + - - +
141C TRP* 3.1 24.1 + + + +
143C THR* 1.3 81.5 + - - +
145C THR* 1.3 73.6 + - + +
147C LYS* 3.1 7.1 + - - +
148C VAL* 3.0 34.3 + - + +
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Residues in contact with THR 145 (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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122C LEU* 4.4 18.8 - - + +
123C ASN 3.6 16.2 - - - +
124C THR* 2.9 41.4 + - - +
126C LEU* 4.7 8.1 - - + -
141C TRP 2.9 12.4 + - - +
142C GLU* 3.2 9.0 + - - -
144C PHE* 1.3 87.5 - - + +
146C ASP* 1.3 63.8 + - - +
148C VAL* 3.3 8.2 + - + +
149C ILE* 3.2 30.9 + - - +
171C LYS* 5.8 1.4 + - - -
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Residues in contact with ASP 146 (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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142C GLU* 2.8 27.3 + - - +
143C THR* 3.5 13.3 - - - +
144C PHE 3.2 0.2 - - - -
145C THR* 1.3 74.2 + - - +
147C LYS* 1.3 66.0 + - - +
149C ILE* 3.4 8.5 + - - +
150C SER* 3.1 23.4 + - - -
171C LYS* 3.2 36.2 + - - +
174C ILE* 4.0 18.0 - - + +
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Residues in contact with LYS 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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11C LEU* 5.8 0.7 - - + -
14C GLU* 3.5 43.1 - - + +
143C THR 3.1 10.8 + - - +
144C PHE* 3.1 10.5 + - + +
146C ASP* 1.3 80.0 - - - +
148C VAL* 1.3 56.1 + - + +
150C SER* 3.1 14.5 + - - -
151C LEU* 2.8 52.4 + - + +
154C GLN* 6.1 1.4 - - - +
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Residues in contact with VAL 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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7C TRP* 3.9 26.6 - - + -
11C LEU* 4.4 12.6 - - + -
48C PHE* 4.2 13.7 - - + -
120C LEU* 5.1 0.4 - - + -
122C LEU* 4.0 21.3 - - + -
144C PHE* 3.0 38.6 + - + +
145C THR* 3.5 15.0 - - + +
146C ASP 3.2 0.2 - - - -
147C LYS* 1.3 76.3 - - - +
149C ILE* 1.3 62.0 + - - +
151C LEU* 3.3 10.1 + - - +
152C ILE* 3.0 27.5 + - + +
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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
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59C VAL* 6.1 1.1 - - + -
61C LEU* 4.1 27.8 - - + -
122C LEU* 4.7 7.9 - - + -
124C THR* 5.7 2.7 - - + -
145C THR* 3.2 19.6 + - - +
146C ASP* 3.7 9.2 - - - +
147C LYS 3.3 0.2 - - - -
148C VAL* 1.3 76.8 - - - +
150C SER* 1.3 57.7 + - - +
152C ILE* 3.3 10.8 + - + +
153C ASN* 2.9 27.9 + - - +
161C PHE* 4.5 10.3 - - + -
171C LYS* 4.1 37.9 - - + +
174C ILE* 4.5 11.2 - - + -
175C ILE* 4.0 30.7 - - + -
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Residues in contact with SER 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 ASP 3.1 14.0 + - - -
147C LYS* 3.1 23.8 + - - -
149C ILE* 1.3 77.8 - - - +
151C LEU* 1.3 59.1 + - - +
153C ASN* 3.4 7.2 + - - +
154C GLN* 3.0 40.2 + - - +
174C ILE* 4.2 21.0 - - - +
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Residues in contact with LEU 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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7C TRP* 5.4 3.8 - - + -
10C VAL* 3.7 30.3 - - + +
11C LEU* 3.6 30.7 - - + -
14C GLU* 5.5 2.7 - - + -
53C LEU* 5.3 3.4 - - + +
147C LYS* 2.8 40.4 + - + +
148C VAL* 3.7 5.6 - - - +
150C SER* 1.3 74.4 - - - +
152C ILE* 1.3 61.6 + - + +
154C GLN* 4.4 7.4 - - - +
155C HIS* 2.9 59.0 + - + +
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Residues in contact with ILE 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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7C TRP* 3.9 20.6 - - + -
53C LEU* 4.6 7.4 - - + -
56C VAL* 4.8 7.0 - - + -
59C VAL* 4.2 13.2 - - + -
120C LEU* 3.9 28.3 - - + -
122C LEU* 5.6 1.3 - - + -
148C VAL* 3.0 24.6 + - + +
149C ILE* 3.3 11.0 + - + +
151C LEU* 1.3 74.6 - - - +
153C ASN* 1.3 64.7 + - - +
156C ARG* 3.1 40.8 + - + +
159C VAL* 4.5 12.1 - - + -
161C PHE* 3.7 25.8 - - + -
180C HIS* 3.8 2.2 + - + -
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Residues in contact with ASN 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 ILE 2.9 16.8 + - - +
150C SER* 3.4 10.5 + - - +
152C ILE* 1.3 79.0 - - - +
154C GLN* 1.3 57.9 + - - +
156C ARG 3.7 0.7 - - - +
161C PHE* 5.3 1.3 - - + -
174C ILE* 3.5 21.7 + - - +
175C ILE* 3.7 9.3 - - + -
176C ASP* 3.0 34.4 + - - +
179C ARG* 2.5 30.9 + - - +
180C HIS* 3.0 32.7 + - + -
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Residues in contact with GLN 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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147C LYS* 6.1 1.6 - - - +
150C SER* 3.0 27.1 + - - +
151C LEU* 3.9 8.7 - - - +
152C ILE 3.3 0.2 - - - -
153C ASN* 1.3 83.8 - - - +
155C HIS* 1.3 83.2 + - + +
156C ARG 3.5 1.0 + - - +
179C ARG* 3.1 20.2 + - - +
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Residues in contact with HIS 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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5C LEU* 3.7 25.4 - - + +
10C VAL* 3.8 24.3 - - + +
53C LEU* 4.8 6.1 - - + -
151C LEU* 2.9 45.6 + - + +
154C GLN* 1.3 92.1 + - + +
156C ARG* 1.3 70.3 + - + +
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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
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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