Contacts of the helix formed by residues 151 - 170 (chain B) in PDB entry 3GUU
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 ALA 151 (chain B).
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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64B THR* 4.7 1.1 - - - +
148B ALA* 3.2 17.0 + - + +
149B PHE 3.2 2.0 + - - -
150B ILE* 1.3 75.8 - - - +
152B GLY* 1.3 58.9 + - - +
153B TYR 3.4 2.2 - - - -
154B GLU* 3.3 9.8 + - + -
155B GLU* 2.9 32.1 + - - +
240B GLY 4.3 1.6 - - - +
241B LEU* 3.7 15.2 - - + +
244B ALA* 3.4 32.8 - - + -
308B GLU* 3.9 4.0 - - - +
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Residues in contact with GLY 152 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
150B ILE 3.2 3.2 + - - -
151B ALA* 1.3 68.8 - - - +
153B TYR* 1.3 58.7 + - - +
155B GLU* 4.4 0.9 - - - -
156B GLY* 2.8 25.1 + - - -
188B HIS* 3.8 7.9 - - - -
192B TRP* 3.4 43.0 - - - +
196B LEU* 4.1 0.3 - - - +
308B GLU* 2.8 18.5 + - - -
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Residues in contact with TYR 153 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
64B THR* 4.0 19.5 - - + +
151B ALA 3.4 0.4 - - - -
152B GLY* 1.3 73.0 - - - +
154B GLU* 1.3 66.0 + - - +
157B MET* 3.1 44.7 + - + +
192B TRP* 3.5 24.8 - + - -
196B LEU* 3.9 23.7 - - + +
245B HIS* 5.3 1.1 - + - -
307B GLN* 2.7 48.5 + - + +
308B GLU* 3.7 19.3 + - - -
317B TYR* 3.7 20.5 - + - -
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Residues in contact with GLU 154 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
62B THR 4.8 3.4 - - - +
63B ASN* 3.4 21.6 - - - +
64B THR* 2.8 48.5 + - - +
65B GLN* 5.1 0.7 - - - +
69B VAL* 5.4 2.6 - - - +
142B HIS 3.9 0.7 - - - -
143B GLU 4.1 24.0 - - - +
144B GLY* 5.0 6.5 - - - -
145B PHE 5.6 0.3 + - - -
146B LYS* 4.9 12.0 + - - +
148B ALA* 4.4 13.0 - - + +
151B ALA* 3.3 17.3 - - + +
153B TYR* 1.3 78.0 - - - +
155B GLU* 1.3 63.1 + - + +
157B MET* 4.3 3.1 - - - +
158B ALA* 3.1 26.0 + - + +
244B ALA* 4.1 6.0 - - - +
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Residues in contact with GLU 155 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
142B HIS* 3.2 39.1 - - + +
143B GLU* 4.3 2.9 - - - +
148B ALA 4.5 5.2 - - - +
149B PHE* 4.0 8.5 - - - -
150B ILE* 2.9 26.7 + - - +
151B ALA 2.9 20.4 + - - +
152B GLY* 4.0 2.9 - - - +
154B GLU* 1.3 78.0 - - + +
156B GLY* 1.3 63.6 + - - +
158B ALA* 3.3 3.5 + - - +
159B ILE* 3.1 29.1 + - - +
185B GLY 5.0 2.8 - - - +
188B HIS* 2.6 32.0 + - - -
189B ALA* 3.3 23.5 + - + -
192B TRP* 5.1 0.4 - - + -
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Residues in contact with GLY 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 GLY 2.8 21.9 + - - -
155B GLU* 1.3 72.5 - - - +
157B MET* 1.3 60.3 + - - +
159B ILE* 3.5 2.4 + - - +
160B LEU* 3.1 33.9 + - - +
192B TRP* 3.9 4.3 - - - +
193B ALA* 3.8 28.6 - - - +
196B LEU* 4.2 4.3 - - - -
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Residues in contact with MET 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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61B THR* 3.6 3.1 - - - +
62B THR* 3.2 31.6 - - + +
63B ASN 3.0 32.8 - - - +
64B THR* 4.1 1.8 - - - +
66B ASN* 4.2 11.2 - - - +
153B TYR* 3.1 37.5 + - + +
156B GLY* 1.3 75.3 - - - +
158B ALA* 1.3 58.1 + - - +
160B LEU* 3.3 1.7 + - - +
161B ASP* 2.9 34.7 + - - +
196B LEU* 4.2 11.6 - - + +
200B TYR* 3.6 50.7 - - + -
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Residues in contact with ALA 158 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
59B TYR* 2.7 23.4 + - - +
61B THR* 3.5 16.7 + - + +
62B THR 5.1 0.4 + - - +
71B ASP* 3.5 24.2 - - - +
140B SER* 3.8 1.5 + - - -
142B HIS* 3.8 15.5 - - - +
144B GLY* 5.5 1.6 - - - +
154B GLU* 3.1 21.4 + - + +
155B GLU 3.3 3.6 + - - +
157B MET* 1.3 77.7 - - - +
159B ILE* 1.3 55.7 + - - +
162B GLY* 2.9 15.9 + - - -
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Residues in contact with ILE 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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89B SER* 3.7 10.2 + - - +
91B GLN* 3.5 39.5 - - + +
140B SER* 4.1 13.3 + - - +
142B HIS* 3.6 16.8 - - + -
155B GLU 3.1 18.0 + - - +
156B GLY 3.8 3.6 - - - +
158B ALA* 1.3 72.3 - - - +
160B LEU* 1.3 66.2 + - - +
162B GLY* 3.3 2.3 + - - -
163B ILE* 3.0 25.1 + - + +
180B LEU* 3.9 9.6 - - + -
189B ALA* 3.4 36.3 - - + +
193B ALA* 3.6 17.0 - - + -
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Residues in contact with LEU 160 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
156B GLY 3.1 18.5 + - - +
157B MET 3.9 2.7 - - - +
159B ILE* 1.3 75.1 - - - +
161B ASP* 1.3 59.1 + - - +
163B ILE* 3.3 15.1 + - + +
164B ARG* 3.1 29.5 + - - +
180B LEU* 5.3 0.7 - - + -
193B ALA* 3.6 32.3 - - + +
196B LEU* 3.9 14.6 - - + +
197B ALA* 3.8 21.1 - - + +
200B TYR* 4.1 21.5 - - + -
201B ALA* 4.2 9.6 - - + -
204B LEU* 3.7 21.6 - - + +
206B ILE* 4.3 14.4 - - + -
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Residues in contact with ASP 161 (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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33B LYS* 3.4 8.1 - - - +
34B GLY* 3.4 19.0 + - - +
59B TYR* 3.5 13.2 - - + -
61B THR* 2.6 30.5 + - - +
157B MET 2.9 12.5 + - - +
160B LEU* 1.3 73.4 - - - +
162B GLY* 1.3 56.1 + - - +
164B ARG* 2.9 34.7 + - - -
165B ALA* 2.7 33.8 + - - +
200B TYR* 2.6 25.0 + - - -
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Residues in contact with GLY 162 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
57B LEU* 5.4 0.2 - - - +
59B TYR* 3.3 13.2 - - - -
73B ALA* 4.7 0.6 - - - +
138B VAL* 3.7 19.5 - - - +
140B SER* 3.6 20.4 - - - -
158B ALA 2.9 12.2 + - - -
159B ILE 3.3 1.1 + - - -
161B ASP* 1.3 74.2 - - - +
163B ILE* 1.3 58.2 + - - +
165B ALA* 3.6 5.6 - - - +
166B LEU* 3.0 23.6 + - - +
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Residues in contact with ILE 163 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
87B ILE* 4.4 12.9 - - + +
89B SER* 3.9 28.5 - - - +
138B VAL* 4.0 11.9 - - + -
159B ILE* 3.0 25.5 + - + +
160B LEU* 3.6 17.7 - - + +
162B GLY* 1.3 71.2 - - - +
164B ARG* 1.3 65.8 + - - +
166B LEU* 3.3 4.5 + - - +
167B LYS* 3.1 23.7 + - + +
178B VAL* 3.8 45.1 - - + -
180B LEU* 4.1 14.6 - - + -
204B LEU* 3.8 16.4 - - + -
206B ILE* 5.8 0.2 - - + -
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Residues in contact with ARG 164 (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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33B LYS* 3.8 26.0 - - - +
34B GLY* 3.7 11.0 - - - -
160B LEU 3.1 14.3 + - - +
161B ASP* 2.9 34.7 + - - +
162B GLY 3.4 0.2 - - - -
163B ILE* 1.3 76.7 - - - +
165B ALA* 1.3 55.9 + - - +
167B LYS* 3.2 10.2 + - - +
168B ASN* 2.9 36.0 + - - +
200B TYR* 2.9 40.4 + - - -
201B ALA* 3.3 10.1 - - - +
202B PRO* 4.9 0.6 - - - +
203B GLU* 2.7 40.3 + - - +
204B LEU* 4.2 10.5 - - + -
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Residues in contact with ALA 165 (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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34B GLY 3.2 17.0 + - - +
36B VAL* 3.5 7.6 - - + +
57B LEU* 3.9 15.5 - - + -
59B TYR* 3.7 28.0 - - + -
73B ALA* 5.7 0.4 - - + -
161B ASP 2.7 21.5 + - - +
162B GLY* 3.6 7.6 - - - +
163B ILE 3.3 0.2 - - - -
164B ARG* 1.3 71.8 - - - +
166B LEU* 1.3 57.1 + - - +
168B ASN 3.4 0.2 + - - -
169B TYR* 2.9 31.4 + - - +
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Residues in contact with LEU 166 (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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57B LEU* 4.1 4.4 - - - +
75B VAL* 4.0 27.6 - - + -
76B TRP 5.6 0.2 - - - +
77B ILE* 4.2 7.0 - - + -
87B ILE* 3.8 27.4 - - + -
136B TYR* 3.8 22.4 - - + -
137B VAL 4.1 9.2 - - - +
138B VAL* 3.8 17.7 - - + -
162B GLY 3.0 17.0 + - - +
163B ILE* 3.8 4.3 - - - +
165B ALA* 1.3 74.2 - - - +
167B LYS* 1.3 56.3 + - - +
169B TYR* 4.3 4.9 - - + -
170B GLN* 3.0 50.5 + - + +
172B LEU* 4.5 7.4 - - + -
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Residues in contact with LYS 167 (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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87B ILE* 3.2 33.9 - - + -
163B ILE* 3.1 13.7 + - + +
164B ARG* 3.2 12.7 + - - +
166B LEU* 1.3 72.9 - - - +
168B ASN* 1.3 67.2 + - - +
171B ASN* 3.1 6.1 + - - -
172B LEU* 3.0 42.8 + - + +
173B PRO 3.6 22.2 - - - +
174B SER* 3.8 22.3 + - - +
176B SER* 4.4 4.7 - - - +
178B VAL* 5.2 2.9 - - + -
203B GLU* 4.9 9.5 + - - +
204B LEU* 3.6 28.7 - - + +
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Residues in contact with ASN 168 (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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33B LYS 5.0 1.4 + - - -
34B GLY* 2.9 32.3 + - - +
35B GLN* 3.9 8.2 - - - +
36B VAL* 4.3 8.7 - - + +
164B ARG* 2.9 19.0 + - - +
165B ALA 3.5 4.9 - - - +
167B LYS* 1.3 76.7 - - - +
169B TYR* 1.3 64.3 + - - +
171B ASN* 3.1 22.0 + - - -
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Residues in contact with TYR 169 (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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36B VAL* 4.2 12.5 - - + +
39B SER* 3.8 25.3 + - - -
55B PHE* 3.3 48.2 - + - -
57B LEU* 3.6 28.7 - - + -
75B VAL* 4.5 11.0 - - + -
165B ALA 2.9 20.7 + - - +
166B LEU* 3.7 4.3 - - + +
168B ASN* 1.3 73.9 - - - +
170B GLN* 1.3 90.2 + - + +
171B ASN* 3.7 6.6 + - - +
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Residues in contact with GLN 170 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
55B PHE* 5.2 1.6 - - - -
77B ILE* 3.5 38.8 - - + +
136B TYR* 4.1 15.0 + - + -
166B LEU* 3.0 23.6 + - + +
169B TYR* 1.3 105.8 + - + +
171B ASN* 1.3 72.3 + - - +
172B LEU* 3.2 25.5 + - + +
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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