Contacts of the helix formed by residues 138 - 155 (chain A) in PDB entry 4OWW
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 GLN 138 (chain A).
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Specific contacts
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Residue Dist Surf HB Arom Phob DC
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35A ARG* 3.6 29.0 + - - +
36A LEU 3.0 21.8 + - - +
37A LEU 3.1 25.1 + - - -
38A LEU* 3.2 28.1 - - + +
136A LYS 3.3 0.4 + - - -
137A LEU* 1.3 76.2 - - - +
139A ASP* 1.3 60.7 + - - +
140A THR* 3.4 11.2 - - + +
141A CYS* 3.2 13.2 + - - +
142A ARG* 2.8 25.8 + - - +
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Residues in contact with ASP 139 (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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38A LEU* 5.1 3.5 - - - +
137A LEU 4.8 0.7 - - - +
138A GLN* 1.3 74.1 + - - +
140A THR* 1.3 57.9 + - - +
142A ARG* 3.3 17.9 + - - +
143A THR* 3.0 32.7 + - - -
179A LYS* 2.9 39.5 + - - +
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Residues in contact with THR 140 (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 ARG 5.9 0.7 - - - +
98A LEU 4.3 5.0 + - - -
99A THR* 5.2 3.2 + - - +
101A PRO* 4.1 21.5 - - - +
138A GLN* 4.5 15.0 - - + +
139A ASP* 1.3 75.7 - - - +
141A CYS* 1.3 62.6 + - - +
143A THR* 3.5 8.2 - - - -
144A GLN* 3.0 29.9 + - - +
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Residues in contact with CYS 141 (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 ARG 3.6 23.6 - - - -
36A LEU* 3.7 26.9 - - + +
98A LEU* 3.5 26.1 - - + +
99A THR* 4.2 4.3 - - - -
137A LEU* 4.0 21.2 - - + +
138A GLN* 3.2 14.5 + - - +
140A THR* 1.3 80.0 - - - +
142A ARG* 1.3 59.1 + - - +
144A GLN* 3.3 1.6 + - - +
145A LEU* 2.9 31.0 + - - +
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Residues in contact with ARG 142 (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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134A TYR* 2.9 67.0 + - + -
135A LEU* 3.5 23.0 + - - +
137A LEU* 3.1 28.5 + - + +
138A GLN 2.8 13.3 + - - +
139A ASP* 3.4 17.9 + - - +
141A CYS* 1.3 72.8 - - - +
143A THR* 1.3 64.8 + - - +
145A LEU* 3.2 4.5 + - - +
146A VAL* 3.1 27.2 + - - +
167A PHE* 5.0 1.5 - - - -
179A LYS* 3.4 40.0 + - - +
182A TRP* 3.8 18.1 - - + -
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Residues in contact with THR 143 (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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139A ASP 3.0 14.5 + - - -
140A THR* 3.5 12.8 - - - -
142A ARG* 1.3 77.5 - - - +
144A GLN* 1.3 71.4 + - - +
146A VAL* 3.5 4.3 + - - +
147A TRP* 3.1 20.8 + - + +
182A TRP* 3.9 21.9 + - + -
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Residues in contact with GLN 144 (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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97A ILE* 3.1 31.8 + - - +
98A LEU* 3.4 20.4 - - + +
101A PRO* 3.7 31.5 - - + +
104A ALA* 3.5 21.6 - - - +
140A THR 3.0 21.5 + - - +
141A CYS 3.7 3.4 - - - +
142A ARG 3.2 0.2 - - - -
143A THR* 1.3 88.8 - - - +
145A LEU* 1.3 58.2 + - - +
147A TRP* 3.2 21.0 + - - +
148A LEU* 2.8 29.3 + - - +
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Residues in contact with LEU 145 (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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94A PHE* 4.3 4.0 - - + -
98A LEU* 3.6 19.7 - - + +
126A ILE* 4.1 31.6 - - + -
129A ILE* 4.4 10.3 - - + -
130A LEU* 3.6 33.9 - - + -
134A TYR* 5.6 0.2 - - + -
137A LEU* 4.0 18.4 - - + -
141A CYS 2.9 17.1 + - - +
142A ARG* 3.2 5.8 + - - +
144A GLN* 1.3 75.7 - - - +
146A VAL* 1.3 60.4 + - - +
148A LEU* 3.7 10.8 - - + +
149A VAL* 3.0 34.5 + - + +
167A PHE* 4.0 13.2 - - + -
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Residues in contact with VAL 146 (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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142A ARG 3.1 8.7 + - - +
143A THR 3.7 7.9 - - - +
145A LEU* 1.3 72.5 - - - +
147A TRP* 1.3 66.1 + - - +
149A VAL* 3.5 1.1 + - - +
150A ARG* 3.1 29.3 + - - +
167A PHE* 3.8 22.9 - - + -
182A TRP* 3.5 33.2 - - + -
183A LEU* 4.3 7.4 - - + -
186A SER* 4.1 23.1 - - - +
187A VAL* 5.6 2.9 - - + -
190A ILE* 3.7 17.6 - - + +
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Residues in contact with TRP 147 (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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97A ILE* 3.9 24.0 - - + -
104A ALA* 3.9 22.9 - - + -
105A GLN* 4.1 29.0 - - + +
108A TYR* 4.0 17.5 - + + -
143A THR* 3.1 15.0 + - + +
144A GLN* 3.3 28.0 - - - +
146A VAL* 1.3 78.9 - - - +
148A LEU* 1.3 81.4 + - + +
150A ARG* 3.4 12.9 + - - +
151A GLU* 3.1 52.9 + - + +
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Residues in contact with LEU 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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94A PHE* 3.6 37.2 - - + -
97A ILE* 4.3 23.1 - - + -
98A LEU* 4.7 1.6 - - + -
108A TYR* 3.8 33.0 - - + -
111A LEU* 5.5 3.1 - - + -
122A VAL* 4.8 2.9 - - + -
126A ILE* 3.8 13.7 - - + -
144A GLN 2.8 19.1 + - - +
145A LEU* 3.7 10.5 - - + +
146A VAL 3.3 0.2 - - - -
147A TRP* 1.3 82.4 - - + +
149A VAL* 1.3 60.2 + - - +
151A GLU* 3.1 5.0 + - - +
152A LEU* 2.8 45.0 + - + +
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Residues in contact with VAL 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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126A ILE* 4.8 6.7 - - + -
145A LEU* 3.0 23.2 + - + +
146A VAL 3.9 4.0 - - - +
148A LEU* 1.3 75.0 - - - +
150A ARG* 1.3 57.3 + - - +
152A LEU* 3.1 12.8 + - + +
153A VAL* 2.9 31.5 + - + +
160A ALA* 5.3 0.9 - - + +
163A VAL* 3.7 23.6 - - + -
164A CYS* 4.1 26.0 - - - -
167A PHE* 3.5 29.4 - - + -
190A ILE* 4.2 13.0 - - + -
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Residues in contact with ARG 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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146A VAL* 3.1 19.6 + - - +
147A TRP* 3.6 15.1 - - - +
148A LEU 3.3 0.2 - - - -
149A VAL* 1.3 76.0 - - - +
151A GLU* 1.3 58.5 + - + +
153A VAL* 3.4 6.7 + - - +
154A LYS* 3.0 53.9 + - + +
186A SER* 4.1 3.6 + - - +
189A ASP* 3.9 13.3 - - - +
190A ILE* 3.4 46.0 - - + +
193A GLU* 2.3 53.9 + - - +
194A GLN* 5.3 2.2 - - + +
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Residues in contact with GLU 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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108A TYR* 3.7 30.7 - - + -
147A TRP* 3.1 53.3 + - + +
148A LEU* 3.1 10.0 + - - +
150A ARG* 1.3 77.0 - - - +
152A LEU* 1.3 57.6 + - - +
154A LYS* 2.9 35.3 + - - +
155A SER* 2.9 34.0 + - - -
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Residues in contact with LEU 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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108A TYR* 3.9 11.6 + - + +
119A MET* 3.8 22.2 - - - -
122A VAL* 5.5 2.2 - - + -
123A LEU* 3.9 21.1 - - + -
126A ILE* 3.6 31.0 - - + -
148A LEU* 2.8 31.5 + - + +
149A VAL* 3.1 13.9 + - + +
151A GLU* 1.3 71.4 - - - +
153A VAL* 1.3 63.5 + - - +
155A SER 3.3 0.2 + - - -
156A GLY 3.1 3.6 + - - -
157A VAL* 3.1 53.1 + - + +
160A ALA* 4.3 9.9 - - + +
163A VAL* 5.3 3.8 - - + -
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Residues in contact with VAL 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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149A VAL* 2.9 25.1 + - + +
150A ARG* 3.6 5.4 - - - +
152A LEU* 1.3 76.2 - - - +
154A LYS* 1.3 59.4 + - - +
156A GLY* 3.0 18.4 + - - -
160A ALA* 4.4 9.6 - - + -
164A CYS* 4.0 27.4 - - - -
190A ILE* 4.3 7.9 - - + -
194A GLN* 3.7 28.3 - - + +
197A TRP* 3.6 46.3 - - + +
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Residues in contact with LYS 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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150A ARG* 3.0 39.7 + - + +
151A GLU* 2.9 38.7 + - - +
153A VAL* 1.3 76.4 - - - +
155A SER* 1.3 59.3 + - - +
156A GLY 3.2 0.8 + - - -
193A GLU* 5.1 2.0 + - - +
194A GLN* 3.5 31.2 - - - +
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Residues in contact with SER 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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108A TYR* 2.9 31.2 + - - -
119A MET* 5.5 2.7 - - - -
151A GLU* 2.9 12.4 + - - -
152A LEU 3.8 4.3 - - - -
154A LYS* 1.3 77.1 - - - +
156A GLY* 1.3 63.0 + - - +
157A VAL* 3.3 10.1 + - - +
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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