Contacts of the helix formed by residues 136 - 158 (chain B) in PDB entry 2IWI
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 136 (chain B).
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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134B PRO* 3.4 6.1 + - - +
135B LEU* 1.3 79.2 - - - +
137B GLU* 1.3 59.6 + - - -
138B GLY 3.3 2.5 - - - -
139B PRO* 4.0 3.1 - - - -
140B SER* 2.6 38.3 + - - -
232B VAL* 5.0 5.0 + - - +
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Residues in contact with GLU 137 (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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136B GLY* 1.3 71.2 - - - -
138B GLY* 1.3 67.7 + - - +
140B SER* 3.9 6.3 - - - -
141B ARG* 3.1 31.7 + - - +
232B VAL* 4.4 13.5 - - + -
254B HIS* 4.4 7.6 - - + +
255B VAL* 3.5 6.4 - - - -
256B SER* 2.7 53.6 + - - -
259B CYS* 3.2 9.4 - - - +
285B TRP* 3.6 22.2 + - + +
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Residues in contact with GLY 138 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
137B GLU* 1.3 82.2 - - - +
139B PRO* 1.3 69.5 - - - +
141B ARG* 3.2 15.4 + - - +
142B CYS* 3.1 17.6 + - - +
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Residues in contact with PRO 139 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
135B LEU* 3.7 32.5 - - + +
136B GLY* 3.8 9.2 - - - +
138B GLY* 1.3 84.9 - - - +
140B SER* 1.3 64.2 + - - +
142B CYS* 3.0 10.7 + - + +
143B PHE* 3.0 34.0 + - + -
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Residues in contact with SER 140 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
135B LEU* 3.4 16.9 - - - +
136B GLY 2.6 25.5 + - - -
137B GLU* 4.0 4.3 - - - -
139B PRO* 1.3 74.7 - - - +
141B ARG* 1.3 55.0 + - - +
142B CYS 3.1 0.3 + - - -
143B PHE* 3.7 0.3 - - - -
144B PHE* 2.8 37.6 + - - +
231B MET* 3.7 22.2 - - - +
232B VAL* 3.3 31.1 + - - +
285B TRP* 4.0 6.1 - - - -
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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
----------------------------------------------------------
137B GLU* 3.1 35.7 + - - +
138B GLY* 3.3 11.7 + - - +
140B SER* 1.3 78.1 - - - +
142B CYS* 1.3 65.5 + - - +
144B PHE* 4.4 0.4 - - - -
145B GLY* 3.2 15.1 + - - -
285B TRP* 2.3 68.9 + - + +
286B MET* 3.3 41.3 - - + +
287B GLN 4.4 10.8 + - - -
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Residues in contact with CYS 142 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
138B GLY 3.1 7.6 + - - +
139B PRO* 3.0 17.7 + - + +
140B SER 3.0 0.6 - - - -
141B ARG* 1.3 83.9 - - - +
143B PHE* 1.3 71.7 + - + +
145B GLY* 3.5 0.5 + - - -
146B GLN* 3.4 40.3 + - - +
176B GLY 5.2 2.2 - - - -
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Residues in contact with PHE 143 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
125B LEU* 4.9 7.9 - - + -
128B TYR* 6.2 4.5 - + - -
135B LEU* 3.6 31.9 - - + -
139B PRO* 3.0 20.7 + - + +
140B SER 4.2 1.6 - - - +
142B CYS* 1.3 83.9 - - + +
144B PHE* 1.3 57.5 + - - +
146B GLN* 3.2 18.1 + - - +
147B VAL* 2.8 34.2 + - + +
171B ILE* 3.9 35.7 - - + -
176B GLY* 3.5 32.1 - - - -
177B CYS 4.3 0.2 - - - -
178B ALA* 4.0 18.4 - - + -
231B MET* 4.7 9.9 - - - -
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Residues in contact with PHE 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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140B SER 2.8 24.2 + - - +
141B ARG* 4.1 4.0 - - - +
142B CYS 3.2 0.2 - - - -
143B PHE* 1.3 73.1 - - - +
145B GLY* 1.3 57.1 + - - +
147B VAL* 3.5 4.0 + - + +
148B VAL* 3.1 37.9 + - + +
224B LEU* 3.3 57.4 - - + -
225B GLY* 5.3 0.9 - - - -
227B LEU* 4.4 8.5 - - + -
228B LEU* 3.7 32.1 - - + -
231B MET* 3.3 25.3 - - + +
262B LEU* 4.3 4.0 - - + -
266B CYS* 5.4 3.8 - - - -
280B ILE* 4.0 23.3 - - + -
286B MET* 3.8 18.6 - - - -
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Residues in contact with GLY 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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141B ARG 3.2 11.7 + - - -
142B CYS 4.1 0.9 - - - -
144B PHE* 1.3 74.3 - - - +
146B GLN* 1.3 64.8 + - - +
148B VAL* 3.3 3.9 + - - +
149B ALA* 3.0 24.4 + - - +
281B LEU* 4.3 16.1 - - - +
286B MET* 3.9 19.6 - - - +
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Residues in contact with GLN 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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98B GLY* 5.4 2.7 - - - -
142B CYS* 3.4 38.2 + - - +
143B PHE* 3.3 17.7 - - - +
145B GLY* 1.3 75.8 - - - +
147B VAL* 1.3 64.0 + - - +
149B ALA* 3.1 8.7 + - - +
150B ALA* 2.9 22.7 + - - +
176B GLY 3.9 8.1 + - - -
177B CYS* 3.4 12.2 - - - -
178B ALA* 2.9 41.8 + - + +
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Residues in contact with VAL 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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125B LEU* 6.2 0.7 - - + -
143B PHE* 2.8 24.7 + - + +
144B PHE* 3.7 6.3 - - - +
146B GLN* 1.3 73.1 - - - +
148B VAL* 1.3 56.8 + - - +
150B ALA* 3.3 9.3 - - - +
151B ILE* 3.0 47.2 + - + +
164B ILE* 4.6 1.6 - - + -
169B ILE* 3.8 35.4 - - + -
178B ALA* 4.4 6.5 - - + +
180B LEU* 4.6 11.0 - - + +
224B LEU* 3.6 15.9 - - + -
227B LEU* 4.1 16.6 - - + -
231B MET* 6.4 0.9 - - - -
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Residues in contact with VAL 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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144B PHE* 3.1 36.4 + - + +
145B GLY* 3.7 5.6 - - - +
146B GLN 3.3 0.2 - - - -
147B VAL* 1.3 75.2 - - - +
149B ALA* 1.3 57.2 + - - +
151B ILE* 3.6 9.0 - - - +
152B GLN* 2.9 36.4 + - - +
224B LEU* 3.7 27.6 - - + -
277B LEU* 4.1 22.8 - - + +
280B ILE* 4.5 8.7 - - + -
281B LEU* 4.0 26.7 - - + -
286B MET* 6.2 0.2 - - - -
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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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96B HIS* 4.1 11.1 - - - +
145B GLY 3.0 12.8 + - - +
146B GLN* 3.4 10.5 - - - +
148B VAL* 1.3 75.2 - - - +
150B ALA* 1.3 66.7 + - - +
152B GLN* 3.1 15.7 + - - +
153B HIS* 3.0 23.9 + - - +
281B LEU* 5.7 3.1 - - + -
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Residues in contact with ALA 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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96B HIS* 3.4 17.2 + - - +
98B GLY* 3.1 33.0 - - - +
99B VAL* 3.9 4.3 - - + -
146B GLN 2.9 12.5 + - - +
147B VAL* 3.3 13.5 - - - +
149B ALA* 1.3 77.7 - - - +
151B ILE* 1.3 63.3 + - - +
153B HIS* 3.1 11.3 + - - +
154B CYS* 3.2 18.5 + - - -
180B LEU* 4.4 9.0 - - + -
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Residues in contact with ILE 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 VAL* 3.0 40.9 + - + +
148B VAL* 3.6 4.9 - - - +
150B ALA* 1.3 77.5 - - - +
152B GLN* 1.3 65.5 + - - +
154B CYS* 2.8 20.9 + - - +
155B HIS* 3.0 42.2 + - + +
161B HIS* 5.7 2.2 - - + -
164B ILE* 3.8 26.7 - - + -
180B LEU* 4.0 5.6 - - + +
220B THR* 3.9 11.7 - - + -
224B LEU* 3.5 26.7 - - + -
277B LEU* 3.6 17.0 - - + -
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Residues in contact with GLN 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 VAL* 2.9 28.0 + - - +
149B ALA* 3.1 12.6 + - - +
151B ILE* 1.3 71.6 - - - +
153B HIS* 1.3 62.0 + - - +
155B HIS* 3.3 6.5 + - - +
156B SER* 3.1 23.5 + - - -
277B LEU* 3.5 26.9 - - + -
278B GLU* 3.1 46.5 + - - +
281B LEU* 3.5 23.5 - - - +
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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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90B VAL* 2.7 45.6 + - + +
94B GLY 3.8 13.5 - - - -
95B GLY* 4.3 3.7 - - - -
96B HIS* 3.6 29.2 - - + -
149B ALA 3.0 8.5 + - - +
150B ALA 3.3 9.0 - - - +
152B GLN* 1.3 73.1 - - - +
154B CYS* 1.3 69.7 + - - +
156B SER* 2.9 20.5 + - - -
157B ARG* 3.0 53.5 + - + +
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Residues in contact with CYS 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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90B VAL* 3.9 15.7 - - + -
99B VAL* 3.9 21.5 - - - -
150B ALA 3.3 16.4 - - - -
151B ILE* 2.8 14.0 + - - +
153B HIS* 1.3 75.5 - - - +
155B HIS* 1.3 53.9 + - + +
157B ARG* 2.9 8.3 + - - +
158B GLY 2.8 30.5 + - - -
159B VAL* 2.9 30.3 + - + +
160B VAL* 5.5 0.9 - - - -
161B HIS* 5.6 2.5 - - - +
180B LEU* 4.7 4.9 - - - -
183B PHE* 4.2 15.5 - - + -
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Residues in contact with HIS 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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151B ILE* 3.0 36.0 + - + +
152B GLN* 3.5 10.1 - - - +
154B CYS* 1.3 77.9 - - + +
156B SER* 1.3 61.8 + - - +
158B GLY* 3.0 14.0 + - - +
159B VAL 3.4 17.2 + - - -
160B VAL* 4.1 20.4 - - + +
161B HIS 5.0 2.7 - - - -
189B LEU* 4.0 29.1 - - + +
217B LEU* 3.7 34.6 + - + +
220B THR* 3.9 18.1 + - + -
277B LEU* 4.7 4.0 - - + +
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Residues in contact with SER 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 GLN 3.1 15.6 + - - -
153B HIS* 2.9 12.9 + - - -
155B HIS* 1.3 76.7 - - - +
157B ARG* 1.3 71.9 + - - +
158B GLY* 3.5 0.3 + - - -
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Residues in contact with ARG 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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89B LYS* 3.1 58.2 + - + +
90B VAL* 3.9 6.3 - - + +
92B ALA* 2.7 34.9 + - - +
93B GLY* 4.7 1.6 - - - -
94B GLY 4.2 4.4 + - - +
153B HIS* 3.0 52.3 + - - +
154B CYS* 2.9 9.7 + - - +
156B SER* 1.3 83.9 - - - +
158B GLY* 1.3 57.5 + - - +
159B VAL 3.7 1.3 - - - +
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Residues in contact with GLY 158 (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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89B LYS* 3.3 16.5 + - - -
154B CYS 2.8 2.4 + - - -
155B HIS 3.0 13.7 + - - -
156B SER 4.5 0.4 - - - -
157B ARG* 1.3 77.9 - - - +
159B VAL* 1.3 55.9 + - - +
188B LEU* 3.4 5.2 - - - +
189B LEU* 2.8 39.2 + - - +
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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