Contacts of the helix formed by residues 143 - 156 (chain B) in PDB entry 3EWS
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 GLY 143 (chain B).
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Specific contacts
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Residue Dist Surf HB Arom Phob DC
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116B SER* 4.2 0.2 - - - -
118B ILE* 4.4 2.2 - - - -
119B GLN* 2.8 34.1 + - - +
142B THR* 1.3 74.8 - - - +
144B LYS* 1.3 62.5 + - - +
146B ALA 3.5 0.3 + - - -
147B ALA* 2.9 18.8 + - - +
602B ADP 2.8 33.7 + - - -
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Residues in contact with LYS 144 (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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118B ILE* 4.6 8.3 - - + +
136B ALA* 4.2 7.0 - - + +
138B SER* 2.8 49.2 + - - +
139B GLN 3.4 6.1 + - - -
140B SER* 3.7 5.7 - - - +
142B THR* 3.8 1.6 - - - +
143B GLY* 1.3 71.9 - - - +
145B THR* 1.3 62.2 + - - +
147B ALA* 3.0 17.6 + - - +
148B PHE* 3.1 20.8 + - + -
242B ASP* 5.5 3.8 - - - +
243B GLU* 5.8 7.0 - - - -
273B PHE* 3.8 23.7 - - + -
274B SER* 3.7 31.2 - - - +
275B ALA* 4.4 3.1 - - - +
602B ADP 2.6 42.0 + - - +
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Residues in contact with THR 145 (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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64B LYS* 3.1 18.4 + - - +
144B LYS* 1.3 77.1 - - - +
146B ALA* 1.3 63.5 + - - +
147B ALA 3.2 0.2 + - - -
148B PHE* 3.3 25.4 + - + -
149B VAL* 3.1 26.4 + - + +
178B THR* 4.7 6.7 + - + -
181B VAL* 3.7 33.4 - - + -
242B ASP* 4.0 8.5 + - - -
602B ADP 2.8 36.3 + - - +
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Residues in contact with ALA 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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112B PHE* 3.9 26.9 - - + -
119B GLN* 3.6 20.0 - - - +
143B GLY 3.8 0.7 - - - +
145B THR* 1.3 78.8 - - - +
147B ALA* 1.3 62.7 + - - +
149B VAL* 3.7 3.4 - - - +
150B LEU* 3.0 23.7 + - - +
181B VAL* 4.4 5.2 - - + -
185B MET* 3.8 15.1 - - + +
602B ADP 3.0 17.2 + - + +
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Residues in contact with ALA 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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118B ILE* 6.1 0.4 - - + -
119B GLN* 3.9 16.8 - - + +
122B ALA* 4.5 14.1 - - + -
123B LEU* 3.9 22.3 - - + +
126B MET* 4.2 6.2 - - - +
143B GLY 2.9 15.0 + - - +
144B LYS* 3.0 13.2 + - - +
146B ALA* 1.3 76.4 - - - +
148B PHE* 1.3 58.8 + - - +
150B LEU* 2.9 20.6 + - - +
151B ALA* 3.0 10.6 + - - +
273B PHE* 4.6 3.1 - - + -
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Residues in contact with PHE 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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126B MET* 3.4 24.4 - - + +
144B LYS 3.1 21.3 + - - -
145B THR* 3.3 22.0 - - - -
147B ALA* 1.3 76.8 - - - +
149B VAL* 1.3 69.8 - - + +
151B ALA* 3.1 2.1 + - - +
152B MET* 2.9 39.2 + - - +
167B CYS* 3.9 11.9 - - - -
178B THR* 3.8 28.0 - - + -
240B VAL* 3.8 20.4 - - + +
242B ASP* 3.1 41.5 - - + -
273B PHE* 3.6 26.2 - + + -
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Residues in contact with VAL 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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145B THR* 3.1 23.7 + - + +
146B ALA 3.7 3.1 - - - +
148B PHE* 1.3 94.2 - - + +
150B LEU* 1.3 64.0 + - - +
152B MET* 3.5 6.3 + - - +
153B LEU* 3.2 30.6 + - + +
178B THR* 4.4 2.5 - - + -
181B VAL* 4.0 21.3 - - + -
182B ILE* 3.7 39.0 - - + +
185B MET* 3.6 26.7 - - + -
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Residues in contact with LEU 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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94B PHE* 4.7 7.6 - - + -
97B LEU* 4.7 3.4 - - + -
99B LEU* 3.9 20.0 - - + -
103B LEU* 3.5 35.6 - - + +
107B VAL* 3.7 12.6 - - + -
123B LEU* 3.4 38.8 - - + -
127B LEU* 5.4 4.3 - - + -
146B ALA 3.0 13.8 + - - +
147B ALA* 2.9 12.7 + - - +
149B VAL* 1.3 77.9 - - - +
151B ALA* 1.3 57.6 + - - +
153B LEU* 3.7 1.3 + - - -
154B SER* 3.0 30.2 + - - +
185B MET* 3.7 15.9 - - - -
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Residues in contact with ALA 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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123B LEU* 5.6 1.1 - - + +
126B MET* 3.4 44.4 - - + +
127B LEU* 5.0 6.4 - - - +
147B ALA 3.0 6.5 + - - +
148B PHE 3.1 8.0 + - - +
150B LEU* 1.3 75.6 - - - +
152B MET* 1.3 66.9 + - - +
154B SER* 3.1 16.4 + - - -
155B GLN* 3.3 18.4 + - - +
238B VAL* 5.2 1.6 - - + -
269B GLN* 5.0 4.3 - - - +
271B LEU* 4.4 8.7 - - + -
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Residues in contact with MET 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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148B PHE* 2.9 27.3 + - + +
149B VAL* 3.8 5.8 - - - +
151B ALA* 1.3 76.0 - - - +
153B LEU* 1.3 62.6 - - + +
155B GLN* 3.2 11.9 + - - +
156B VAL* 3.2 20.8 + - - +
165B CYS* 3.6 22.8 - - + -
166B LEU 3.9 8.1 - - - +
167B CYS* 3.3 38.6 - - + +
182B ILE* 4.6 13.5 - - + -
213B ILE* 4.5 22.4 - - + -
238B VAL* 4.0 19.3 - - + -
240B VAL* 3.5 25.8 - - + -
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Residues in contact with LEU 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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103B LEU* 4.0 24.2 - - + +
149B VAL* 3.2 22.7 + - + +
150B LEU 4.1 0.9 - - - +
152B MET* 1.3 79.8 - - + +
154B SER* 1.3 60.4 + - - +
155B GLN 3.5 0.5 + - - -
156B VAL* 4.1 11.9 + - + +
182B ILE* 4.3 9.0 - - + +
185B MET* 3.9 16.8 - - + -
186B GLY* 3.7 30.1 - - - +
189B TYR* 3.8 27.8 + - + -
192B LEU* 3.4 33.9 - - + -
213B ILE* 3.8 18.2 - - + -
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Residues in contact with SER 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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99B LEU* 3.7 10.0 - - - +
100B LYS* 3.5 38.8 + - - +
103B LEU* 3.1 16.2 - - - +
127B LEU* 3.7 20.1 - - - +
150B LEU* 3.0 19.8 + - - +
151B ALA 3.1 7.6 + - - -
153B LEU* 1.3 78.7 - - - +
155B GLN* 1.3 63.0 + - - +
156B VAL 4.8 0.7 - - - +
189B TYR* 5.4 0.3 + - - -
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Residues in contact with GLN 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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126B MET 4.5 7.3 + - - -
127B LEU* 5.9 3.4 - - + +
131B PRO* 4.6 17.1 - - - +
151B ALA* 3.4 15.4 - - - +
152B MET 3.2 4.1 + - - +
154B SER* 1.3 81.1 - - - +
156B VAL* 1.3 72.5 + - - +
157B GLU* 3.4 5.7 + - - +
165B CYS* 4.7 2.0 - - - -
237B LYS* 3.3 32.7 + - + +
238B VAL* 3.6 21.5 - - + +
269B GLN* 3.3 25.9 + - - +
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Residues in contact with VAL 156 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
152B MET 3.2 19.1 - - - +
153B LEU* 4.3 12.0 - - - +
154B SER 3.8 1.4 - - - +
155B GLN* 1.3 85.0 - - - +
157B GLU* 1.3 64.5 + - - +
158B PRO* 3.3 26.9 - - + +
164B GLN* 3.5 9.9 - - + +
165B CYS* 3.6 18.6 - - + -
189B TYR* 5.1 4.8 + - + -
192B LEU* 3.6 24.2 - - + -
212B GLN* 4.0 15.9 - - + +
213B ILE* 4.2 19.3 - - + -
237B LYS* 3.8 1.3 - - - +
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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