Contacts of the helix formed by residues 137 - 158 (chain B) in PDB entry 2QKW
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 137 (chain B).
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
135B SER 4.0 0.4 + - - -
136B MET* 1.3 76.4 - - - +
138B TRP* 1.3 60.7 + - - +
139B GLU* 4.2 11.3 + - - +
140B GLN* 3.3 20.8 + - - +
141B ARG* 2.9 33.6 + - - +
273B LEU* 5.4 0.4 - - - -
276B LYS* 6.2 4.3 - - - -
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Residues in contact with TRP 138 (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 SER* 1.3 71.1 - - - +
139B GLU* 1.3 73.0 + - - +
141B ARG* 3.3 17.4 + - + +
142B LEU* 2.9 47.4 + - + +
234B VAL* 5.1 0.9 - - + -
235B LEU* 3.8 28.0 - - + -
273B LEU* 3.8 29.6 - - + +
276B LYS* 4.6 9.9 - - + +
277B ILE* 3.7 33.1 - - + +
281B SER* 3.1 25.8 + - - -
282B LEU* 5.1 0.2 - - - -
285B PHE* 3.5 46.2 - + + -
313B ALA* 5.9 0.2 - - + -
317B GLN* 3.3 28.6 - - - +
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Residues in contact with GLU 139 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
137B SER* 3.4 9.3 - - - +
138B TRP* 1.3 84.6 + - + +
140B GLN* 1.3 51.8 + - - +
142B LEU* 2.8 8.6 + - - +
143B GLU* 2.8 41.2 + - + +
276B LYS 5.6 1.4 - - - +
314B LEU* 4.3 21.1 - - + -
317B GLN* 3.7 24.6 - - + +
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Residues in contact with GLN 140 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
136B MET* 3.4 25.4 - - + -
137B SER* 3.3 23.3 + - - +
138B TRP 3.4 0.2 - - - -
139B GLU* 1.3 77.3 - - - +
141B ARG* 1.3 61.4 + - - +
143B GLU* 3.4 14.3 + - - +
144B ILE* 3.0 46.9 + - - +
175B ASN 5.1 0.6 + - - +
176B PHE* 3.3 39.6 + - + +
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Residues in contact with ARG 141 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
122B LEU* 6.1 0.2 - - - -
125B HIS 5.0 1.6 + - - -
126B LEU* 3.6 17.2 - - - +
135B SER* 4.1 17.8 + - - -
136B MET* 2.5 61.6 + - + +
137B SER 2.9 20.5 + - - +
138B TRP* 3.4 16.4 - - + +
140B GLN* 1.3 75.7 - - - +
142B LEU* 1.3 58.2 + - - +
144B ILE* 3.4 4.9 + - - +
145B CYS* 3.1 32.9 + - - -
234B VAL* 3.4 38.7 + - + +
235B LEU 5.7 0.2 + - - -
237B ALA* 4.9 3.6 - - - +
271B PRO* 4.9 12.7 - - - +
272B ASN 6.0 0.6 + - - -
273B LEU* 3.5 39.8 - - - +
285B PHE* 6.2 0.2 - - - -
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Residues in contact with LEU 142 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
138B TRP* 2.9 46.6 + - + +
139B GLU 2.8 13.2 + - - +
141B ARG* 1.3 69.8 - - - +
143B GLU* 1.3 59.0 + - - +
144B ILE 3.1 0.4 - - - -
145B CYS* 3.1 3.7 + - - +
146B ILE* 2.8 37.2 + - + +
285B PHE* 3.5 35.7 - - + -
310B LEU* 3.9 22.7 - - + +
313B ALA* 3.9 7.6 - - + +
314B LEU* 3.6 42.4 - - + +
317B GLN* 5.3 0.9 - - + -
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Residues in contact with GLU 143 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
139B GLU* 2.8 27.0 + - + +
140B GLN* 3.5 18.8 - - - +
142B LEU* 1.3 71.3 - - - +
144B ILE* 1.3 62.1 + - - +
146B ILE* 3.6 9.1 + - - +
147B GLY* 3.1 19.4 + - - -
178B PRO* 4.3 4.8 - - - +
314B LEU* 3.8 26.7 - - + +
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Residues in contact with ILE 144 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
122B LEU* 3.7 28.5 - - + -
136B MET* 3.6 36.8 - - + -
140B GLN* 3.0 34.5 + - - +
141B ARG 3.6 5.6 - - - +
143B GLU* 1.3 73.7 - - - +
145B CYS* 1.3 60.9 + - - +
147B GLY 3.1 2.6 + - - -
148B ALA* 2.9 28.1 + - + +
170B ILE* 4.6 5.6 - - + -
172B LEU* 3.7 20.9 - - + -
176B PHE* 4.1 12.6 - - + +
178B PRO* 3.5 21.1 - - + +
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Residues in contact with CYS 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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122B LEU* 5.7 0.7 - - - -
141B ARG 3.1 20.4 + - - -
142B LEU* 3.1 7.8 + - - +
144B ILE* 1.3 78.0 - - - +
146B ILE* 1.3 56.5 + - - +
148B ALA* 3.5 3.1 + - - -
149B ALA* 3.0 24.4 + - - +
227B PHE* 3.3 15.6 - - - -
230B VAL* 5.8 2.2 - - - -
231B LEU* 4.1 17.5 - - + -
234B VAL* 3.7 35.2 - - - -
285B PHE* 4.1 7.6 - - - -
310B LEU* 3.8 22.6 - - + +
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Residues in contact with ILE 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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142B LEU 2.8 23.7 + - - +
143B GLU* 3.9 8.1 - - - +
145B CYS* 1.3 73.0 - - - +
147B GLY* 1.3 61.1 + - - +
149B ALA* 3.1 8.4 + - - +
150B ARG* 2.9 45.3 + - - +
307B LEU* 3.6 11.9 - - + +
310B LEU* 3.7 29.2 - - + +
311B GLU* 3.7 39.5 - - + -
314B LEU* 4.0 26.2 - - + -
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Residues in contact with GLY 147 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
96B HIS* 3.2 38.4 - - - +
143B GLU 3.1 9.5 + - - -
144B ILE 3.1 3.2 + - - -
146B ILE* 1.3 77.7 - - - +
148B ALA* 1.3 60.8 + - - +
150B ARG* 3.2 4.7 + - - +
151B GLY 3.2 10.9 + - - -
178B PRO* 3.5 22.4 - - - -
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Residues in contact with ALA 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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96B HIS* 5.3 0.4 - - - -
144B ILE* 2.9 16.1 + - + +
145B CYS* 3.8 2.9 - - - +
147B GLY* 1.3 75.0 - - - +
149B ALA* 1.3 62.5 + - - +
151B GLY* 3.4 2.1 + - - +
152B LEU* 3.1 26.7 + - - +
170B ILE* 4.2 28.7 - - + -
178B PRO* 3.8 5.4 - - + +
180B ILE* 4.0 15.5 - - + +
227B PHE* 3.7 21.5 - - + -
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Residues in contact with ALA 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 CYS 3.0 16.0 + - - +
146B ILE 3.1 8.9 + - - +
148B ALA* 1.3 77.0 - - - +
150B ARG* 1.3 52.8 + - - +
151B GLY 3.3 0.2 + - - -
152B LEU* 3.3 1.9 + - - +
153B HIS* 2.7 38.1 + - - +
227B PHE* 3.9 6.8 - - + -
303B MET* 3.5 24.9 - - + +
307B LEU* 3.9 27.1 - - + +
310B LEU* 4.3 6.1 - - + -
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Residues in contact with ARG 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 HIS* 3.8 10.5 + - + +
96B HIS* 3.7 24.6 + - + -
146B ILE* 2.9 26.3 + - - +
147B GLY* 3.4 11.1 - - - +
149B ALA* 1.3 76.3 - - - +
151B GLY* 1.3 62.0 + - - +
153B HIS* 3.8 8.1 + - - +
154B TYR* 3.2 22.9 + - - +
307B LEU* 3.9 21.4 - - + +
311B GLU* 2.5 33.3 + - - -
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Residues in contact with GLY 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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94B HIS* 4.0 3.1 - - - -
96B HIS* 3.8 16.5 - - - +
97B LEU* 3.7 22.2 - - - +
147B GLY 3.2 7.3 + - - -
148B ALA 3.4 3.1 + - - -
149B ALA 3.2 0.4 - - - -
150B ARG* 1.3 76.2 - - - +
152B LEU* 1.3 63.5 + - - +
154B TYR* 3.2 6.2 + - - +
155B LEU* 3.1 26.5 + - - +
180B ILE* 4.6 2.5 - - - -
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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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148B ALA 3.1 16.6 + - - +
149B ALA 3.7 3.4 - - - +
151B GLY* 1.3 71.4 - - - +
153B HIS* 1.3 66.3 + - - +
155B LEU* 3.3 15.2 + - + +
156B HIS* 3.2 28.9 + - + -
162B HIS* 4.2 16.2 - - + -
165B VAL* 3.6 34.8 - - + -
180B ILE* 4.3 17.2 - - + +
223B ASP* 4.8 8.3 - - + +
227B PHE* 3.5 35.7 - - + -
303B MET* 3.7 20.4 - - + -
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Residues in contact with HIS 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 ALA 2.7 22.5 + - - +
150B ARG* 3.8 8.0 + - - +
152B LEU* 1.3 73.1 - - - +
154B TYR* 1.3 59.3 + - - +
156B HIS* 3.0 11.1 + - + +
157B THR* 3.0 41.3 + - - -
302B SER* 6.2 0.2 - - - -
303B MET* 4.0 17.0 - - + +
304B GLY* 3.5 33.3 - - - +
307B LEU* 4.9 13.1 - - + +
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Residues in contact with TYR 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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91B PHE* 3.8 15.0 + - + +
93B ARG* 3.3 23.0 + - - +
94B HIS* 3.4 28.7 - + + +
97B LEU* 3.9 35.4 - - + -
150B ARG 3.2 11.2 + - - +
151B GLY 3.2 7.4 + - - +
153B HIS* 1.3 77.5 + - - +
155B LEU* 1.3 68.5 + - + +
157B THR* 2.9 26.9 + - + -
158B ARG* 3.0 53.1 + - + +
160B ILE* 6.4 0.4 - - + -
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Residues in contact with LEU 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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88B THR* 6.0 0.2 - - + -
97B LEU* 3.6 36.3 - - + -
151B GLY 3.1 22.1 + - - +
152B LEU* 3.4 20.4 - - + +
154B TYR* 1.3 79.6 - - + +
156B HIS* 1.3 55.1 + - + +
158B ARG* 3.2 5.6 + - - +
159B ALA 3.2 5.4 + - - -
160B ILE* 2.7 66.9 + - + +
162B HIS* 3.8 28.0 - - + +
180B ILE* 5.2 2.0 - - + -
183B PHE* 3.8 23.6 - - + -
223B ASP* 5.4 0.2 - - - +
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Residues in contact with HIS 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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152B LEU* 3.2 14.1 + - + +
153B HIS* 3.0 13.2 + - + +
155B LEU* 1.3 73.5 - - + +
157B THR* 1.3 64.5 + - - +
158B ARG 3.1 1.6 - - - -
159B ALA* 3.1 13.5 + - - +
160B ILE 3.4 18.2 - - - +
161B ILE* 4.6 0.4 - - + -
193B ASP* 4.2 16.5 + - - -
220B GLU* 3.2 55.0 + - + +
223B ASP* 3.0 28.6 + - + +
224B VAL* 4.7 1.6 - - + -
303B MET* 3.4 38.1 + - + +
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Residues in contact with THR 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 HIS* 3.0 30.6 + - - -
154B TYR* 3.0 20.6 + - + -
156B HIS* 1.3 76.5 - - - +
158B ARG* 1.3 60.9 + - + +
159B ALA 3.3 2.1 + - - -
192B LEU* 4.2 13.7 - - - +
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Residues in contact with ARG 158 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
91B PHE* 3.3 47.4 - - - -
154B TYR* 3.0 55.3 + - + +
155B LEU* 3.2 5.1 + - - +
156B HIS 3.1 0.4 - - - -
157B THR* 1.3 83.0 - - + +
159B ALA* 1.3 60.2 + - - +
160B ILE* 2.9 29.4 + - + +
188B LYS* 3.8 18.2 - - - +
192B LEU* 4.3 6.7 - - - -
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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
------------------------------------------------------------
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