Contacts of the helix formed by residues 147 - 158 (chain A) in PDB entry 2WCO
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 A).
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Specific contacts
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Residue Dist Surf HB Arom Phob DC
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87A ILE* 3.4 10.4 - - - +
88A THR* 2.8 36.3 + - - +
91A TYR* 3.8 17.6 - - - -
130A TYR* 3.9 19.1 - - - -
142A GLU 2.9 16.9 + - - -
146A GLY* 1.3 75.1 - - - +
148A PRO* 1.4 62.1 - - - +
150A LEU* 3.1 5.6 + - - +
151A LEU* 2.9 29.4 + - - +
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Residues in contact with PRO 148 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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130A TYR* 3.3 15.9 - - + +
143A TRP 3.1 25.1 - - - +
144A GLN* 3.3 29.6 - - - +
145A ILE 3.7 4.7 - - - +
147A SER* 1.4 89.6 - - - +
149A ARG* 1.3 57.5 + - - +
151A LEU* 3.8 6.9 - - + +
152A MET* 2.9 35.0 + - - +
174A VAL* 4.2 13.0 - - + -
178A VAL* 4.3 6.5 - - + -
201A SER* 3.3 17.5 - - - +
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Residues in contact with ARG 149 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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141A TRP* 3.9 8.9 - - - -
145A ILE* 3.0 36.0 + - - +
146A GLY* 4.2 4.5 + - - +
147A SER 3.3 0.8 - - - -
148A PRO* 1.3 75.5 - - - +
150A LEU* 1.3 58.8 + - + +
152A MET* 3.5 4.6 + - - +
153A ASP* 2.9 36.1 + - - +
197A ASP* 2.8 49.4 + - - +
200A ARG* 3.8 41.0 - - + +
201A SER* 3.2 17.2 + - - +
256A VAL* 5.1 3.2 - - - +
259A ASP* 5.4 1.2 + - - -
2B GC4 3.2 36.1 + - - -
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Residues in contact with LEU 150 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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88A THR* 3.7 19.7 - - + +
91A TYR* 3.8 15.9 - - + +
92A GLY* 3.7 26.2 - - - +
95A TRP* 4.0 33.2 - - + -
146A GLY 3.4 18.1 + - - +
147A SER 3.1 5.9 + - - +
149A ARG* 1.3 76.4 - - + +
151A LEU* 1.3 60.6 + - - +
153A ASP* 3.2 9.3 + - - +
154A ILE* 2.9 37.3 + - + +
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Residues in contact with LEU 151 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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91A TYR* 3.8 31.0 - - + +
122A LEU* 4.1 15.0 - - + -
130A TYR* 3.9 31.2 - - + -
147A SER 2.9 16.3 + - - +
148A PRO* 3.8 4.9 - - + +
150A LEU* 1.3 76.4 - - - +
152A MET* 1.3 57.3 + - + +
154A ILE* 3.4 2.9 + - - +
155A THR* 2.8 47.3 + - - +
170A ALA* 4.0 37.0 - - + +
173A ALA* 4.5 2.0 - - + -
174A VAL* 4.6 3.1 - - + -
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Residues in contact with MET 152 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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148A PRO 2.9 21.7 + - - +
149A ARG* 4.0 4.9 - - - +
151A LEU* 1.3 78.4 - - + +
153A ASP* 1.4 61.2 + - - +
155A THR* 3.3 6.4 + - + +
156A ALA* 2.8 31.9 + - - +
170A ALA* 3.8 31.0 - - + +
171A CYS* 4.5 5.2 - - - +
174A VAL* 3.7 23.8 - - + -
201A SER* 3.8 19.1 - - - +
204A LEU* 3.7 19.5 - - + +
205A ARG* 3.6 34.3 - - - -
208A LEU* 3.4 14.1 - - + +
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Residues in contact with ASP 153 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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34A TRP* 2.8 38.3 + - - +
35A LEU* 4.7 1.1 - - - +
38A THR* 4.4 14.5 - - - +
95A TRP* 3.5 26.7 - - + -
149A ARG* 2.9 24.2 + - - +
150A LEU* 3.2 11.5 + - - +
152A MET* 1.4 74.7 - - - +
154A ILE* 1.3 61.6 + - - +
156A ALA* 3.4 7.5 + - - +
157A ALA* 3.0 24.6 + - - +
200A ARG* 5.3 5.9 + - - -
204A LEU* 5.0 1.7 - - - +
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Residues in contact with ILE 154 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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91A TYR* 3.7 36.6 - - + +
94A LEU* 3.8 16.2 - - + -
95A TRP* 3.9 27.6 - - + +
98A THR* 3.7 17.9 - - - +
118A ILE* 4.5 1.1 - - + -
122A LEU* 3.8 33.9 - - + -
150A LEU 2.9 25.0 + - - +
151A LEU* 3.8 4.0 - - - +
153A ASP* 1.3 74.8 - - - +
155A THR* 1.3 60.3 + - - +
157A ALA* 3.2 1.7 + - - +
158A LEU* 2.9 36.7 + - + +
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Residues in contact with THR 155 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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122A LEU* 5.8 0.9 - - - +
151A LEU* 2.8 27.4 + - - +
152A MET* 3.7 7.0 - - + -
154A ILE* 1.3 76.9 - - - +
156A ALA* 1.3 61.6 + - - +
158A LEU 3.7 0.2 - - - -
159A TYR* 3.0 27.3 + - + +
162A LEU* 3.6 21.5 - - + +
167A VAL* 4.3 30.3 - - + -
170A ALA* 3.8 20.2 - - + +
171A CYS* 6.2 0.4 - - - -
208A LEU* 3.9 19.1 - - + -
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Residues in contact with ALA 156 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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31A ARG* 3.7 12.4 + - + +
34A TRP* 4.3 17.7 - - + -
35A LEU* 3.6 25.1 - - + +
152A MET 2.8 20.7 + - - +
153A ASP 3.6 5.6 - - - +
155A THR* 1.3 75.8 - - - +
157A ALA* 1.3 62.3 + - - +
158A LEU 3.4 0.3 + - - -
159A TYR* 3.5 12.3 + - - +
204A LEU* 4.7 2.5 - - + -
208A LEU* 3.8 23.9 - - + +
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Residues in contact with ALA 157 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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35A LEU* 3.6 23.2 - - + +
39A LEU* 4.7 0.9 - - + -
95A TRP* 4.1 8.5 - - + -
98A THR* 3.6 26.2 - - + -
102A VAL* 4.0 20.3 - - + +
153A ASP 3.0 16.8 + - - +
154A ILE 3.8 0.2 - - - +
156A ALA* 1.3 75.9 - - - +
158A LEU* 1.3 64.7 + - - +
159A TYR 3.4 1.1 + - - -
161A HIS* 5.1 2.8 - - - -
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Residues in contact with LEU 158 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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98A THR* 3.7 17.3 - - + +
101A TYR* 3.8 31.4 - - + -
102A VAL* 4.1 6.5 - - + -
115A LEU* 3.8 10.8 - - + -
118A ILE* 3.6 34.8 - - + -
119A LEU* 4.2 12.8 - - + -
154A ILE* 2.9 23.4 + - + +
155A THR 3.7 0.9 - - - -
157A ALA* 1.3 83.4 - - - +
159A TYR* 1.3 67.1 + - - +
160A ASP 3.3 2.2 - - - -
161A HIS* 2.8 25.8 + - + -
162A LEU* 3.3 21.8 + - + +
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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