Contacts of the helix formed by residues 136 - 158 (chain A) 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 A).
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Specific contacts
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Residue Dist Surf HB Arom Phob DC
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134A PRO* 3.4 5.9 + - - +
135A LEU* 1.3 78.5 - - - +
137A GLU* 1.3 58.1 + - - -
138A GLY 3.3 3.4 - - - -
139A PRO* 4.0 3.4 - - - -
140A SER* 2.6 31.5 + - - -
231A MET 4.9 0.2 + - - -
232A VAL* 4.3 6.0 + - - +
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Residues in contact with GLU 137 (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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136A GLY* 1.3 70.8 - - - -
138A GLY* 1.3 69.3 + - - +
140A SER* 3.9 0.9 - - - -
141A ARG* 3.1 31.2 + - - +
232A VAL* 3.2 24.5 - - + +
254A HIS 3.9 4.3 - - - +
255A VAL* 3.4 10.2 - - - +
256A SER* 2.9 41.9 + - - -
259A CYS* 3.3 13.0 - - - +
285A TRP* 2.9 37.3 + - + +
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Residues in contact with GLY 138 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
136A GLY 3.3 0.2 - - - -
137A GLU* 1.3 82.9 - - - +
139A PRO* 1.3 70.2 - - - +
141A ARG* 3.1 17.4 + - - +
142A CYS* 3.1 17.9 + - - +
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Residues in contact with PRO 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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135A LEU* 3.4 30.5 - - + +
136A GLY* 4.0 3.4 - - - +
137A GLU 4.0 0.2 - - - -
138A GLY* 1.3 88.5 - - - +
140A SER* 1.3 58.4 + - - +
142A CYS* 2.8 25.4 + - + +
143A PHE* 3.0 28.5 + - + -
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Residues in contact with SER 140 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
135A LEU* 3.2 22.9 - - - +
136A GLY 2.6 24.2 + - - -
137A GLU* 4.1 2.7 - - - -
138A GLY 3.3 0.2 - - - -
139A PRO* 1.3 78.7 - - - +
141A ARG* 1.3 55.4 + - - +
142A CYS 3.2 0.2 + - - -
143A PHE 3.4 0.5 + - - -
144A PHE* 2.9 32.7 + - - +
228A LEU* 4.7 0.9 - - - -
231A MET* 3.5 24.9 - - - +
232A VAL* 3.6 20.6 + - - +
285A TRP* 4.0 7.9 - - - -
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Residues in contact with ARG 141 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
137A GLU* 3.1 34.4 + - - +
138A GLY* 3.1 17.2 + - - +
140A SER* 1.3 73.2 - - - +
142A CYS* 1.3 68.6 + - - +
145A GLY* 3.2 17.2 + - - -
285A TRP* 2.5 65.6 + - + +
286A MET* 2.8 54.0 - - + +
287A GLN 4.6 2.6 + - - -
288A THR 4.2 24.0 - - - +
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Residues in contact with CYS 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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138A GLY 3.1 5.8 + - - +
139A PRO* 2.8 19.3 + - + +
141A ARG* 1.3 83.7 - - - +
143A PHE* 1.3 69.7 - - - +
145A GLY* 4.1 0.5 - - - -
146A GLN* 2.4 50.0 + - - -
176A GLY 4.7 6.1 - - - -
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Residues in contact with PHE 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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125A LEU* 4.6 8.3 - - + -
128A TYR* 4.0 33.0 - + - -
135A LEU* 3.8 22.2 - - + -
139A PRO* 3.0 26.3 + - + -
140A SER 3.9 4.7 - - - +
142A CYS* 1.3 83.9 - - - +
144A PHE* 1.3 56.7 + - - +
146A GLN* 3.1 13.8 - - - +
147A VAL* 2.9 34.1 + - + +
171A ILE* 4.0 22.4 - - + -
176A GLY* 4.1 26.0 - - - -
177A CYS 4.7 0.2 - - - -
178A ALA* 3.8 20.8 - - + +
231A MET* 4.1 11.4 - - - -
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Residues in contact with PHE 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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140A SER 2.9 23.1 + - - +
141A ARG* 3.9 5.4 - - - +
142A CYS 3.2 0.6 + - - -
143A PHE* 1.3 74.8 - - - +
145A GLY* 1.3 57.5 + - - +
147A VAL* 3.6 4.8 + - - +
148A VAL* 3.0 31.0 + - + +
224A LEU* 3.4 44.4 - - + -
227A LEU* 4.3 6.5 - - + -
228A LEU* 3.2 44.9 - - + -
231A MET* 3.1 26.0 - - + -
262A LEU* 4.9 1.6 - - + -
266A CYS* 5.4 4.7 - - - -
280A ILE* 3.7 28.9 - - + -
286A MET* 3.7 15.5 - - + -
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Residues in contact with GLY 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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141A ARG 3.2 14.5 + - - -
142A CYS 4.1 0.4 - - - -
144A PHE* 1.3 74.3 - - - +
146A GLN* 1.4 66.6 + - - +
148A VAL* 3.9 2.2 - - - +
149A ALA* 3.0 26.5 + - - +
281A LEU* 4.4 21.0 - - - +
286A MET* 4.6 6.7 - - - -
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Residues in contact with GLN 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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98A GLY* 5.5 2.1 - - - -
142A CYS* 2.4 54.9 + - - -
143A PHE* 3.1 14.0 + - - +
145A GLY* 1.4 74.6 - - - +
147A VAL* 1.3 57.2 + - - +
149A ALA* 3.1 7.3 + - - +
150A ALA* 2.9 28.9 + - - +
176A GLY 3.3 16.9 - - - +
177A CYS* 3.5 6.9 - - - -
178A ALA* 3.2 37.9 + - + +
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Residues in contact with VAL 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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125A LEU* 5.7 1.6 - - + -
143A PHE* 2.9 23.8 + - + +
144A PHE* 3.7 7.2 - - - +
146A GLN* 1.3 74.8 - - - +
148A VAL* 1.3 62.6 + - - +
150A ALA* 3.3 9.1 - - - +
151A ILE* 3.0 29.0 + - + +
164A ILE* 4.6 4.7 - - + -
169A ILE* 3.7 40.4 - - + -
178A ALA* 4.5 6.7 - - + +
179A LYS 6.3 0.4 - - - -
180A LEU* 5.5 2.7 - - + -
224A LEU* 3.6 25.6 - - + -
227A LEU* 3.8 17.3 - - + -
231A MET* 6.0 0.9 - - + -
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Residues in contact with VAL 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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144A PHE* 3.0 43.7 + - + +
145A GLY 3.9 4.5 - - - +
146A GLN 3.3 0.4 - - - -
147A VAL* 1.3 77.7 - - - +
149A ALA* 1.3 58.6 + - - +
151A ILE* 3.5 4.5 + - - +
152A GLN* 2.8 36.4 + - + +
224A LEU* 3.9 16.8 - - + -
277A LEU* 3.4 39.9 - - + +
280A ILE* 4.4 8.7 - - + -
281A LEU* 4.0 19.1 - - + -
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Residues in contact with ALA 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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96A HIS* 4.0 11.3 - - - +
145A GLY 3.0 17.7 + - - +
146A GLN* 3.6 4.5 - - - +
148A VAL* 1.3 73.1 - - - +
150A ALA* 1.3 71.8 + - - +
152A GLN* 3.1 18.0 + - - +
153A HIS* 2.9 21.3 + - - +
281A LEU* 5.6 3.1 - - + -
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Residues in contact with ALA 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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96A HIS* 3.4 15.8 + - - +
98A GLY* 3.3 32.7 - - - +
99A VAL* 4.1 3.8 - - + -
146A GLN 2.9 12.7 + - - +
147A VAL* 3.3 15.0 - - - +
149A ALA* 1.3 80.7 - - - +
151A ILE* 1.3 62.8 + - - +
153A HIS* 3.0 16.5 + - - +
154A CYS* 3.3 12.1 + - - -
178A ALA 5.6 0.4 - - - +
180A LEU* 4.2 8.5 - - + -
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Residues in contact with ILE 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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147A VAL* 3.0 14.1 + - + +
148A VAL* 3.7 7.4 - - - +
150A ALA* 1.3 78.3 - - - +
152A GLN* 1.3 64.0 + - - +
154A CYS* 3.0 21.1 + - + +
155A HIS* 3.0 42.7 + - + +
161A HIS* 5.6 2.5 - - + +
164A ILE* 3.7 30.3 - - + -
180A LEU* 4.2 7.6 - - + +
220A THR* 3.5 25.8 - - + -
224A LEU* 3.8 25.4 - - + -
277A LEU* 3.8 8.7 - - + -
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Residues in contact with GLN 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 VAL* 2.8 29.9 + - + +
149A ALA* 3.2 17.0 - - - +
151A ILE* 1.3 74.4 - - - +
153A HIS* 1.3 61.6 + - - +
155A HIS* 3.4 6.3 + - - +
156A SER* 3.1 19.6 + - - -
277A LEU* 4.0 16.8 - - + +
278A GLU* 2.8 41.0 + - - +
281A LEU* 3.5 32.4 - - - +
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Residues in contact with HIS 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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90A VAL* 3.0 34.7 + - + -
94A GLY 3.8 13.4 + - - -
95A GLY* 4.4 2.2 - - - -
96A HIS* 3.6 28.8 - - + -
99A VAL* 5.1 0.4 - - + -
149A ALA 2.9 6.3 + - - +
150A ALA 3.2 10.8 - - - +
152A GLN* 1.3 72.0 - - - +
154A CYS* 1.3 71.4 + - - +
156A SER* 2.3 32.3 + - - -
157A ARG* 2.9 47.9 + - + +
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Residues in contact with CYS 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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90A VAL* 3.8 31.9 - - + -
99A VAL* 4.0 9.0 - - - -
150A ALA 3.4 13.9 - - - -
151A ILE* 3.0 9.3 + - + +
153A HIS* 1.3 77.6 - - - +
155A HIS* 1.3 55.1 + - + +
157A ARG* 2.9 5.6 + - - +
158A GLY 2.7 30.7 + - - -
159A VAL* 2.9 24.1 + - + +
160A VAL* 5.4 0.7 - - - -
161A HIS* 5.6 3.1 - - + +
180A LEU* 3.9 25.6 - - - -
183A PHE* 4.2 7.4 - - + -
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Residues in contact with HIS 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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151A ILE* 3.0 33.1 + - + +
152A GLN* 3.4 9.2 - - - +
153A HIS 3.1 0.2 - - - -
154A CYS* 1.3 76.3 - - + +
156A SER* 1.3 62.4 + - - +
158A GLY* 2.9 15.5 + - - +
159A VAL 3.2 17.7 + - - +
160A VAL* 4.3 19.1 - - + +
161A HIS 5.1 1.8 - - - -
189A LEU* 5.2 4.3 - - - +
216A ALA* 5.5 1.5 - - + +
217A LEU* 3.9 25.0 - - + +
220A THR* 3.9 21.4 + - + +
277A LEU* 3.6 26.3 - - + +
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Residues in contact with SER 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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152A GLN 3.1 8.3 + - - -
153A HIS* 2.3 43.8 + - - -
155A HIS* 1.3 72.8 - - - +
157A ARG* 1.3 63.2 + - - +
158A GLY* 4.5 0.3 - - - -
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Residues in contact with ARG 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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89A LYS* 3.1 52.3 + - + +
90A VAL* 3.8 7.1 + - - +
92A ALA* 2.7 33.2 + - - +
93A GLY* 4.6 1.8 - - - -
94A GLY 4.0 4.6 + - - +
153A HIS* 2.9 53.2 + - + +
154A CYS* 2.9 9.2 + - - +
156A SER* 1.3 79.1 - - - +
158A GLY* 1.3 58.2 + - - +
159A VAL* 4.1 12.8 - - + -
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Residues in contact with GLY 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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89A LYS* 4.7 4.3 + - - -
154A CYS 2.7 5.9 + - - -
155A HIS 2.9 13.3 + - - -
157A ARG* 1.3 75.4 - - - +
159A VAL* 1.3 64.0 + - - +
188A LEU* 3.4 13.7 - - - +
189A LEU* 2.8 33.7 + - - +
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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
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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