Contacts of the helix formed by residues 136 - 160 (chain B) in PDB entry 1UAZ
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 THR 136 (chain B).
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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135B HIS* 1.3 80.5 - - - +
137B PRO* 1.3 78.0 - - + +
138B LEU* 3.9 17.5 - - + +
139B ALA* 3.0 26.5 + - - +
140B ARG* 3.0 16.5 + - - +
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Residues in contact with PRO 137 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
77B VAL* 4.7 9.0 - - + -
135B HIS 3.9 6.2 - - - +
136B THR* 1.3 93.1 - - + +
138B LEU* 1.3 65.0 + - + +
140B ARG* 3.8 13.6 + - - +
141B TYR* 3.3 18.9 + - - +
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Residues in contact with LEU 138 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
136B THR* 3.1 11.6 - - + -
137B PRO* 1.3 80.3 - - + +
139B ALA* 1.3 54.7 + - - +
141B TYR* 2.9 18.7 + - + +
142B THR* 2.7 62.6 + - + +
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Residues in contact with ALA 139 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
134B SER* 3.7 16.4 - - - +
135B HIS 5.2 0.2 - - - +
136B THR* 3.0 26.2 + - - +
138B LEU* 1.3 78.9 - - - +
140B ARG* 1.3 53.0 + - - +
142B THR* 2.7 15.7 + - - -
143B TRP* 2.7 45.1 + - + +
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Residues in contact with ARG 140 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
75B VAL* 3.9 4.4 - - - +
77B VAL* 3.5 25.7 - - - +
82B LEU* 3.2 29.5 - - - +
84B ILE* 4.0 6.7 - - - +
131B GLY* 3.7 9.6 - - - +
132B ALA* 2.8 33.7 + - - +
134B SER* 2.6 58.2 + - - +
136B THR 3.0 9.8 + - - +
137B PRO* 3.9 9.9 - - - +
139B ALA* 1.3 77.3 - - - +
141B TYR* 1.3 58.3 + - - +
143B TRP* 4.0 1.0 - - - +
144B TRP* 2.8 31.8 + - - +
195B TRP* 4.5 12.6 - - + -
196B ILE* 5.8 0.2 - - - -
200B GLU* 3.3 30.2 + - - +
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Residues in contact with TYR 141 (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 PRO 3.3 10.7 + - - +
138B LEU* 2.9 21.3 + - + +
140B ARG* 1.3 78.7 - - - +
142B THR* 1.3 58.3 + - - +
144B TRP* 3.4 30.4 - + - +
145B LEU* 3.0 52.9 + - + +
196B ILE* 4.2 24.2 - - + -
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Residues in contact with THR 142 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
138B LEU* 2.7 44.2 + - + +
139B ALA* 2.7 17.2 + - - -
141B TYR* 1.3 67.6 - - - +
143B TRP* 1.3 68.0 + - + +
145B LEU* 2.8 35.4 + - + +
146B PHE* 3.1 8.1 + - + +
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Residues in contact with TRP 143 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
127B THR* 3.8 36.8 - - + +
128B GLY* 5.8 0.4 - - - -
130B VAL* 3.4 28.7 - - + +
131B GLY* 3.6 21.8 - - - +
134B SER* 3.0 25.1 + - - -
139B ALA* 2.7 31.5 + - + +
142B THR* 1.3 77.8 - - + +
144B TRP* 1.3 58.2 + - - +
145B LEU 2.9 0.5 + - - -
146B PHE* 3.1 17.9 + + + +
147B SER* 2.8 34.8 + - - -
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Residues in contact with TRP 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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128B GLY* 6.0 0.9 - - - -
131B GLY* 5.0 1.4 - - - -
140B ARG 2.8 21.2 + - - +
141B TYR* 3.4 35.9 - + - +
143B TRP* 1.3 76.5 - - - +
145B LEU* 1.3 77.2 + - + +
147B SER* 3.9 6.5 - - - -
148B THR* 2.6 49.7 + - + -
192B PRO* 2.8 40.5 + - + +
193B ILE* 4.8 1.8 - - + -
195B TRP* 3.3 32.8 - + + -
196B ILE* 3.4 24.7 - - + +
255B RET 3.6 15.0 - + - -
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Residues in contact with LEU 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 TYR* 3.0 42.6 + - + +
142B THR* 2.8 17.0 + - + +
144B TRP* 1.3 94.8 - - + +
146B PHE* 1.3 67.8 + - - +
147B SER 3.1 0.9 - - - -
148B THR* 2.6 18.0 + - + -
149B ILE* 2.7 23.7 + - + +
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Residues in contact with PHE 146 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
123B LEU* 3.6 26.7 - - + -
127B THR* 3.8 20.6 - - + -
142B THR* 3.1 8.7 + - + +
143B TRP* 3.7 22.9 - + + +
145B LEU* 1.3 76.9 - - - +
147B SER* 1.3 56.9 + - - +
149B ILE* 2.7 50.0 + - + +
150B CYS* 2.8 20.5 + - - -
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Residues in contact with SER 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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124B MET* 3.2 25.9 + - - +
127B THR* 3.4 17.4 + - - -
128B GLY* 3.6 9.7 + - - -
143B TRP 2.8 22.3 + - - -
144B TRP 3.9 1.6 - - - -
146B PHE* 1.3 72.5 - - - +
148B THR* 1.3 56.9 + - - +
150B CYS* 3.1 9.4 - - - +
151B MET* 2.9 23.4 + - - +
255B RET 3.1 31.2 - - - -
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Residues in contact with THR 148 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
144B TRP* 2.6 33.0 + - + -
145B LEU* 2.6 20.2 + - + -
147B SER* 1.3 71.5 - - - +
149B ILE* 1.3 66.5 + - - +
151B MET* 3.2 6.7 + - - +
152B ILE* 2.9 42.2 + - + +
192B PRO* 3.8 16.6 - - + +
255B RET 3.5 20.4 - - + +
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Residues in contact with ILE 149 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
145B LEU* 2.7 26.9 + - + +
146B PHE* 2.7 41.9 + - + +
148B THR* 1.3 69.5 - - - +
150B CYS* 1.3 65.8 + - - +
152B ILE* 2.7 25.8 + - + +
153B VAL* 2.9 23.9 + - + +
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Residues in contact with CYS 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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120B VAL* 4.1 14.1 - - + -
123B LEU* 3.3 36.1 - - - -
124B MET* 3.9 16.2 - - + +
146B PHE* 2.8 29.4 + - - -
147B SER* 3.1 10.5 - - - +
149B ILE* 1.3 75.2 - - - +
151B MET* 1.3 57.4 + - - +
153B VAL* 2.5 34.5 + - - +
154B VAL* 2.9 14.9 + - - +
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Residues in contact with MET 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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124B MET* 3.3 28.6 - - + -
147B SER 2.9 2.6 + - - -
148B THR* 3.4 13.0 - - - +
150B CYS* 1.3 78.7 - - - +
152B ILE* 1.3 61.5 + - - +
154B VAL* 3.7 5.3 - - - +
155B LEU* 2.9 58.8 + - + +
188B TRP* 3.1 21.5 - - + +
189B THR* 3.2 11.4 - - - -
192B PRO* 2.9 46.9 - - + -
255B RET 3.6 22.7 - - + -
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Residues in contact with ILE 152 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
148B THR* 2.9 35.8 + - + +
149B ILE* 2.7 15.8 + - + +
150B CYS 2.7 4.0 + - - -
151B MET* 1.3 74.1 - - - +
153B VAL* 1.3 55.0 + - + +
155B LEU* 3.1 9.3 + - + +
156B TYR* 2.4 40.9 + - + +
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Residues in contact with VAL 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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120B VAL* 4.3 19.3 - - + -
149B ILE* 2.9 31.7 + - + +
150B CYS* 2.5 16.7 + - - +
152B ILE* 1.3 72.2 - - + +
154B VAL* 1.3 59.0 + - - +
156B TYR* 2.9 29.6 - - + +
157B PHE* 3.0 31.2 + - + -
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Residues in contact with VAL 154 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
100B LEU* 3.9 24.9 - - + -
117B LEU* 4.3 13.6 - - + +
120B VAL* 3.3 31.2 - - + -
121B ASP* 3.5 38.4 - - + +
124B MET* 5.4 0.9 - - - -
150B CYS* 2.9 11.1 + - + +
151B MET* 3.7 10.3 - - - +
153B VAL* 1.3 76.0 - - - +
155B LEU* 1.3 62.2 + - - +
156B TYR 3.3 0.3 + - - -
157B PHE* 3.6 3.0 + - - +
158B LEU* 3.3 24.5 + - + +
188B TRP* 4.3 9.4 - - + -
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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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151B MET* 2.9 42.6 + - + +
152B ILE* 3.5 8.7 - - + +
154B VAL* 1.3 74.1 - - - +
156B TYR* 1.3 69.3 + - - +
158B LEU* 3.7 10.5 + - + +
159B ALA* 3.4 18.5 + - - +
184B VAL* 3.7 30.7 - - + +
185B LEU* 3.5 34.4 - - + +
188B TRP* 4.6 7.9 - - + -
189B THR* 3.5 32.5 - - + +
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Residues in contact with TYR 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 ILE* 2.4 26.3 + - + +
153B VAL* 2.9 18.6 + - + +
155B LEU* 1.3 72.4 - - - +
157B PHE* 1.3 88.5 + + - +
159B ALA* 2.7 19.1 + - + +
160B THR* 3.0 38.7 + - + +
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Residues in contact with PHE 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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113B SER 5.9 0.4 - - - -
116B THR* 3.7 28.0 - - + -
117B LEU* 3.6 32.8 - - + -
120B VAL* 5.4 2.7 - - + -
153B VAL* 3.0 24.7 + - + -
154B VAL* 3.9 2.9 - - - +
156B TYR* 1.3 100.0 - + - +
158B LEU* 1.3 64.0 + - - +
160B THR* 3.0 16.5 + - - -
161B SER* 3.3 14.2 + - - +
162B LEU* 3.1 24.6 + - + -
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Residues in contact with LEU 158 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
100B LEU* 3.6 24.0 - - + -
103B LEU* 3.5 28.9 - - + -
117B LEU* 4.0 3.4 - - + -
154B VAL* 3.3 20.3 + - + +
155B LEU* 3.8 15.0 - - + +
156B TYR 3.0 1.0 + - - -
157B PHE* 1.3 77.9 - - - +
159B ALA* 1.3 57.1 + - - +
162B LEU* 3.4 27.4 - - + -
163B ARG* 3.2 19.1 + - - +
177B PHE* 3.6 15.8 - - + -
181B THR* 3.8 13.2 - - + +
184B VAL* 3.9 31.9 - - + -
185B LEU* 5.9 0.7 - - + -
188B TRP* 5.5 0.4 - - + -
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Residues in contact with ALA 159 (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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155B LEU 3.8 8.1 - - - +
156B TYR* 2.7 16.9 + - + +
158B LEU* 1.3 73.7 - - - +
160B THR* 1.3 58.0 + - + +
163B ARG* 2.8 40.3 + - - +
181B THR* 4.7 3.6 - - + -
185B LEU* 4.3 21.8 - - + -
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Residues in contact with THR 160 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
156B TYR* 3.0 49.8 + - + +
157B PHE* 3.0 5.2 + - - -
159B ALA* 1.3 80.2 - - + +
161B SER* 1.3 71.3 + - - +
162B LEU 3.3 0.7 - - - -
163B ARG* 3.2 2.3 + - - +
164B ALA* 3.0 25.1 + - - +
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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
------------------------------------------------------------
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