Contacts of the helix formed by residues 145 - 156 (chain B) in PDB entry 2WOE
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 145 (chain B).
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Specific contacts
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Residue Dist Surf HB Arom Phob DC
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139B THR* 3.6 14.6 - - + -
142B HIS* 2.6 40.0 + - - +
144B ALA* 1.3 81.4 - - - +
146B LEU* 1.3 64.5 + - - +
147B GLU 3.4 1.3 - - - -
148B PRO* 3.4 7.9 - - - +
149B TRP* 2.9 48.2 + - - +
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Residues in contact with LEU 146 (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 ALA 4.2 0.4 - - - +
136B ALA* 3.7 20.0 - - + -
139B THR* 3.5 26.2 - - - +
143B PRO* 3.1 16.3 + - + +
145B ASP* 1.3 77.2 - - - +
147B GLU* 1.3 61.0 + - - +
149B TRP* 3.9 0.6 - - - +
150B VAL* 2.9 60.4 + - + +
168B LEU* 5.0 3.1 - - + -
171B GLY* 3.7 24.5 - - - -
172B ARG* 3.8 20.9 - - + +
175B HIS* 3.6 23.6 - - + +
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Residues in contact with GLU 147 (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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143B PRO 4.5 1.0 + - - -
144B ALA 4.4 1.9 + - - +
146B LEU* 1.3 79.5 - - - +
148B PRO* 1.3 66.0 - - + +
151B LEU* 2.9 37.3 + - + +
168B LEU* 3.5 39.1 - - + +
172B ARG* 3.8 21.6 + - - +
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Residues in contact with PRO 148 (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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78B LEU* 4.4 1.2 - - + +
144B ALA 3.4 20.6 - - - +
145B ASP* 3.4 14.8 - - - +
147B GLU* 1.3 96.5 - - + +
149B TRP* 1.3 63.7 + - + +
151B LEU* 4.2 3.3 - - + +
152B ALA* 3.0 30.5 + - - +
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Residues in contact with TRP 149 (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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72B LEU* 4.0 24.9 - - + -
76B GLY 5.0 2.0 - - - -
77B THR* 3.7 19.1 - - - -
78B LEU* 3.6 51.1 - - + +
135B ALA* 4.3 13.0 - - + +
138B ALA* 3.9 23.3 - - + -
139B THR* 3.5 17.9 - - + -
142B HIS* 3.8 15.5 - + - -
145B ASP* 2.9 53.5 + - + +
146B LEU* 4.0 1.3 - - - +
148B PRO* 1.3 78.1 - - + +
150B VAL* 1.3 67.5 + - - +
152B ALA* 3.4 1.6 + - - +
153B GLN* 3.1 25.8 + - - +
290B LEU* 4.8 4.5 - - + -
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Residues in contact with VAL 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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132B CYS* 3.9 15.0 - - + +
135B ALA* 3.8 20.0 - - + -
136B ALA 4.5 2.9 - - - +
146B LEU* 2.9 44.2 + - + +
147B GLU 4.1 1.8 - - - +
149B TRP* 1.3 76.5 - - - +
151B LEU* 1.3 62.6 + - - +
153B GLN* 3.4 6.5 - - - +
154B ALA* 3.1 21.7 + - - +
167B CYS* 3.7 40.8 - - + +
168B LEU* 4.0 9.4 - - + +
171B GLY* 4.8 6.5 - - - -
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Residues in contact with LEU 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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147B GLU* 2.9 22.3 + - + +
148B PRO* 4.2 3.6 - - + +
150B VAL* 1.3 77.8 - - - +
152B ALA* 1.3 53.8 + - - +
154B ALA* 3.2 3.5 + - + +
155B ARG* 2.8 89.0 + - + +
164B ASP* 3.7 28.7 - - + +
167B CYS* 4.8 4.5 - - + -
168B LEU* 3.7 33.7 - - + -
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Residues in contact with ALA 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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78B LEU* 3.6 26.0 - - + -
80B VAL* 3.8 18.7 - - + +
115B THR 4.8 1.0 - - - +
116B THR* 5.5 0.2 + - - -
148B PRO 3.0 20.4 + - - +
149B TRP 3.7 1.8 - - - +
150B VAL 3.3 0.2 - - - -
151B LEU* 1.3 77.7 - - - +
153B GLN* 1.3 62.6 + - - +
155B ARG* 3.5 5.2 + - - +
156B ILE* 3.3 21.9 + - - +
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Residues in contact with GLN 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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68B LEU* 3.7 42.2 - - + +
78B LEU* 4.9 1.2 - - + +
83B ILE* 4.8 6.1 - - + -
87B PHE* 4.4 1.6 - - - -
128B ALA 3.4 21.6 + - - -
131B ARG* 2.7 50.6 + - - -
132B CYS* 3.6 20.0 - - - +
135B ALA* 4.7 4.0 - - + -
149B TRP 3.1 12.3 + - - +
150B VAL* 3.4 16.3 + - - +
152B ALA* 1.3 79.0 - - - +
154B ALA* 1.3 72.7 + - - +
156B ILE* 3.3 25.2 + - + +
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Residues in contact with ALA 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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128B ALA* 3.7 19.4 - - + +
131B ARG* 3.3 9.4 + - - +
150B VAL 3.1 15.9 + - - +
151B LEU* 3.6 9.6 - - + +
153B GLN* 1.3 90.6 - - - +
155B ARG* 1.3 60.0 - - + +
157B THR* 3.1 7.6 + - - -
158B HIS 3.0 26.0 + - - +
163B SER* 5.1 2.0 - - - +
164B ASP* 5.5 2.7 - - - +
167B CYS* 3.8 15.0 - - + -
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Residues in contact with ARG 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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115B THR 4.4 0.2 - - - -
116B THR* 3.4 20.6 + - - +
117B ALA* 2.7 35.2 + - - +
151B LEU* 2.8 45.0 + - + +
152B ALA* 4.0 5.4 - - - +
153B GLN 3.3 0.2 - - - -
154B ALA* 1.3 71.6 - - + +
156B ILE* 1.3 60.6 + - - +
157B THR 3.1 2.4 + - - -
158B HIS 3.3 17.5 - - - +
159B ASN* 3.6 36.1 + - - +
164B ASP* 2.9 36.0 + - - +
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Residues in contact with ILE 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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80B VAL* 3.8 9.6 - - + -
83B ILE* 3.4 35.9 - - + -
84B CYS* 3.8 29.2 - - + +
87B PHE* 3.9 21.5 - - + -
105B GLY 3.9 5.6 - - - +
106B ILE* 5.4 3.1 - - + -
108B ARG* 2.9 30.0 + - - +
109B TYR* 5.6 2.0 - - + -
115B THR 3.6 19.0 + - - +
131B ARG* 4.4 1.8 - - - +
152B ALA 3.3 12.3 + - - +
153B GLN* 3.3 20.6 + - - +
154B ALA 3.2 0.2 - - - -
155B ARG* 1.3 77.0 - - - +
157B THR* 1.3 62.1 + - + +
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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