Contacts of the helix formed by residues 149 - 160 (chain B) in PDB entry 1UN6
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 PRO 149 (chain B).
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Specific contacts
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Residue Dist Surf HB Arom Phob DC
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120B ASN* 4.9 11.9 - - + +
124B VAL* 4.2 11.2 - - + -
135B TYR* 3.0 43.7 - - + +
148B LEU* 1.3 86.2 - - + +
150B SER* 1.3 68.1 + - - +
151B ARG 3.1 1.6 - - - -
152B LEU* 2.9 16.0 + - + +
153B LYS* 2.9 13.9 + - - +
100F A 6.2 0.4 - - - +
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Residues in contact with SER 150 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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148B LEU* 4.4 5.7 - - - +
149B PRO* 1.3 81.0 - - - +
151B ARG* 1.3 69.5 + - - +
153B LYS* 3.4 11.2 + - - +
154B ARG* 3.0 25.3 + - - +
69F U 4.0 15.6 + - - -
70F G 3.3 34.0 + - - -
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Residues in contact with ARG 151 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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146B PHE* 3.5 25.7 - - + -
147B SER* 3.6 16.4 + - - -
148B LEU* 3.4 30.9 + - + +
149B PRO 3.1 1.0 - - - -
150B SER* 1.3 85.1 + - - +
152B LEU* 1.3 62.0 + - - +
154B ARG* 3.6 20.5 + - - +
155B HIS* 3.3 16.8 + - - +
138D PRO 3.5 23.2 + - - -
139D HIS* 4.7 0.4 - - - +
140D GLU* 3.2 48.4 + - - +
162D TYR* 5.9 6.9 - - - -
177D TRP* 6.2 2.7 - - - -
69F U 5.7 0.9 - - - +
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Residues in contact with LEU 152 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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135B TYR* 3.9 26.7 - - + -
136B GLU 3.4 20.6 - - - +
137B CYS* 3.9 18.6 - - - -
138B PRO* 4.5 4.7 - - + -
146B PHE* 3.7 36.7 - - + -
148B LEU 3.5 5.5 + - - +
149B PRO* 2.9 9.3 + - + +
151B ARG* 1.3 77.0 - - - +
153B LYS* 1.3 64.9 + - - +
155B HIS* 2.9 18.5 + - + +
156B GLU* 3.0 33.4 + - + +
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Residues in contact with LYS 153 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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149B PRO 2.9 12.2 + - - +
150B SER* 3.7 13.2 - - - +
152B LEU* 1.3 79.0 - - - +
154B ARG* 1.3 60.4 + - - +
155B HIS 3.3 0.3 + - - -
156B GLU* 3.3 27.6 + - + +
157B LYS* 3.9 8.0 - - - +
101F A 3.2 25.8 + - - -
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Residues in contact with ARG 154 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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150B SER 3.0 16.5 + - - +
151B ARG* 4.0 22.7 + - - +
153B LYS* 1.3 78.0 - - - +
155B HIS* 1.3 60.1 + - - +
157B LYS* 3.2 31.0 + - - +
158B VAL 4.8 0.2 + - - -
140D GLU* 3.2 32.5 + - - -
9F C 5.8 2.0 + - - -
10F C 5.4 10.6 - - - +
11F A 4.7 16.0 + - - +
12F C 4.5 18.2 + - - -
68F C 3.3 36.0 + - - +
69F U 3.2 21.8 + - - +
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Residues in contact with HIS 155 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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137B CYS* 3.6 13.6 - - + +
142B CYS* 3.7 2.7 - - - -
144B LYS* 3.8 26.0 - - + +
146B PHE* 3.4 37.2 - + + -
151B ARG 3.3 7.3 + - - +
152B LEU* 2.9 12.3 + - + +
154B ARG* 1.3 78.9 - - - +
156B GLU* 1.3 65.7 + - - +
157B LYS 3.1 0.7 - - - -
158B VAL* 3.1 32.2 + - + +
159B HIS* 3.3 1.5 + + - -
205B ZN 2.4 35.2 - - - -
10F C 3.0 26.6 + - - +
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Residues in contact with GLU 156 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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137B CYS* 4.7 2.6 - - - -
138B PRO* 3.3 28.7 - - - +
139B HIS* 5.9 0.2 - - - +
152B LEU* 3.0 35.2 - - + +
153B LYS* 3.3 21.0 + - - +
155B HIS* 1.3 78.3 - - + +
157B LYS* 1.3 52.5 + - - +
159B HIS* 2.6 46.4 + - + +
160B ALA* 3.4 4.7 + - - +
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Residues in contact with LYS 157 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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153B LYS 3.9 6.7 - - - +
154B ARG* 3.2 30.3 - - - +
155B HIS 3.1 0.4 - - - -
156B GLU* 1.3 77.9 - - - +
158B VAL* 1.3 59.9 + - - +
160B ALA* 3.3 17.0 + - - +
161B GLY 3.8 14.4 + - - +
162B TYR* 3.7 9.8 + - + +
11F A 3.8 34.5 + - - +
12F C 5.2 1.4 + - - -
67F C 3.2 15.8 + - - -
68F C 2.8 31.9 + - - +
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Residues in contact with VAL 158 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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154B ARG 4.8 0.6 + - - +
155B HIS* 3.1 40.4 + - + +
156B GLU 2.8 0.6 + - - -
157B LYS* 1.3 79.2 - - - +
159B HIS* 1.3 78.3 + - + +
160B ALA 3.5 0.7 + - - -
161B GLY* 3.6 6.6 + - - -
162B TYR* 3.6 9.6 + - - +
175B LYS* 3.6 25.6 - - - +
176B THR* 5.1 2.2 - - - -
10F C 4.0 43.3 - - + +
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Residues in contact with HIS 159 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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137B CYS* 3.1 14.1 - - - -
139B HIS* 3.4 50.4 + + + +
142B CYS* 4.0 7.4 - - + -
155B HIS* 3.3 6.3 + + - -
156B GLU* 2.6 29.4 + - + +
158B VAL* 1.3 86.7 - - + +
160B ALA* 1.3 56.7 + - - -
161B GLY 3.3 1.0 + - - -
205B ZN 2.0 37.5 - - - -
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Residues in contact with ALA 160 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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156B GLU 3.4 4.4 + - - +
157B LYS* 3.3 14.9 + - - +
158B VAL 3.2 1.0 - - - -
159B HIS* 1.3 78.7 - - - +
161B GLY* 1.3 63.6 + - - +
163B PRO* 4.8 5.9 - - - +
173B VAL* 5.2 1.6 - - - +
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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