Contacts of the helix formed by residues 151 - 170 (chain A) 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 A).
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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64A THR* 4.5 0.9 - - - +
148A ALA* 3.1 17.7 + - + +
149A PHE 3.2 1.6 + - - -
150A ILE* 1.3 76.4 - - - +
152A GLY* 1.3 57.5 + - - +
153A TYR 3.5 2.0 - - - -
154A GLU* 3.3 10.9 - - + +
155A GLU* 3.0 30.2 + - - +
240A GLY 4.4 1.1 - - - +
241A LEU* 3.8 12.3 - - + +
244A ALA* 3.4 33.0 - - + -
308A GLU* 3.8 7.0 - - - +
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Residues in contact with GLY 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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150A ILE 3.1 5.7 + - - -
151A ALA* 1.3 68.5 - - - +
153A TYR* 1.3 58.7 + - - -
155A GLU* 4.4 1.6 - - - -
156A GLY* 2.9 24.8 + - - -
188A HIS* 3.6 7.8 - - - -
192A TRP* 3.3 46.7 - - - +
308A GLU* 3.0 13.5 + - - -
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Residues in contact with TYR 153 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
64A THR* 4.2 25.4 - - + +
151A ALA 3.5 0.4 - - - -
152A GLY* 1.3 70.5 - - - +
154A GLU* 1.3 67.7 + - - +
157A MET* 3.1 41.5 + - + +
192A TRP* 3.6 21.3 - + - -
196A LEU* 3.8 24.2 - - + -
245A HIS* 5.5 1.6 - + - -
307A GLN* 2.7 47.0 + - + +
308A GLU* 3.9 17.0 - - - -
317A TYR* 3.3 27.3 - + - -
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Residues in contact with GLU 154 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
62A THR 4.7 4.9 - - - +
63A ASN* 3.5 23.7 - - - +
64A THR* 2.6 47.1 + - - +
69A VAL* 5.4 2.4 - - - +
142A HIS 4.0 3.4 - - - +
143A GLU 4.0 22.2 - - - +
144A GLY* 5.1 4.7 - - - +
146A LYS* 5.0 11.1 + - - +
148A ALA* 4.4 7.6 - - + +
151A ALA* 3.3 19.8 + - + +
153A TYR* 1.3 79.9 - - - +
155A GLU* 1.3 62.2 + - + +
157A MET* 4.2 1.2 - - - +
158A ALA* 3.1 26.1 + - + +
243A LEU 5.4 0.5 - - - +
244A ALA* 3.8 13.1 - - - +
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Residues in contact with GLU 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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142A HIS* 3.3 46.5 - - + +
143A GLU* 4.3 4.6 - - - +
148A ALA 4.8 1.3 - - - +
149A PHE* 4.3 7.1 - - - -
150A ILE* 3.0 24.7 + - - +
151A ALA 3.0 20.3 + - - +
152A GLY 4.0 2.7 - - - +
153A TYR 3.3 0.2 - - - -
154A GLU* 1.3 70.9 - - - +
156A GLY* 1.3 66.4 + - - +
158A ALA* 3.4 1.4 + - - +
159A ILE* 3.1 31.6 + - - +
185A GLY 4.9 2.9 - - - +
188A HIS* 2.4 37.8 + - - +
189A ALA* 3.3 18.6 - - + -
192A TRP* 5.0 0.7 - - + -
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Residues in contact with GLY 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 GLY 2.9 16.8 + - - -
153A TYR 3.9 0.4 - - - -
155A GLU* 1.3 79.0 - - - +
157A MET* 1.3 60.9 + - - +
159A ILE* 3.6 1.9 - - - +
160A LEU* 3.1 34.6 + - - +
192A TRP* 3.9 4.9 - - - +
193A ALA* 3.8 27.2 - - - +
196A LEU* 4.1 4.3 - - - -
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Residues in contact with MET 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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61A THR* 3.5 2.9 - - - +
62A THR* 3.6 35.0 - - + +
63A ASN 4.4 5.2 - - - +
66A ASN* 4.3 17.0 - - - +
153A TYR* 3.1 29.5 + - + +
156A GLY* 1.3 72.0 - - - +
158A ALA* 1.3 65.8 + - - +
160A LEU 3.4 0.7 + - - -
161A ASP* 2.9 28.1 + - - +
196A LEU* 4.2 15.7 - - + +
200A TYR* 3.4 58.4 - - + +
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Residues in contact with ALA 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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59A TYR* 2.6 24.0 + - - +
61A THR* 3.5 16.7 + - + +
62A THR 5.0 0.4 + - - -
71A ASP* 3.4 24.9 - - - +
140A SER* 3.7 1.6 + - - -
141A ASP 4.3 0.2 - - - +
142A HIS* 4.0 16.4 - - - +
144A GLY* 5.2 1.8 - - - +
154A GLU* 3.1 20.4 + - + +
155A GLU 3.8 3.8 - - - +
157A MET* 1.3 75.0 - - - +
159A ILE* 1.3 57.2 + - - +
162A GLY 2.9 13.7 + - - -
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Residues in contact with ILE 159 (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 SER* 3.9 19.6 + - - +
91A GLN* 3.6 15.9 - - + +
140A SER* 4.1 14.1 + - - +
142A HIS* 3.8 15.0 - - + +
155A GLU 3.1 22.5 + - - +
156A GLY 3.6 3.1 - - - +
157A MET 3.2 0.2 - - - -
158A ALA* 1.3 74.8 - - - +
160A LEU* 1.3 65.4 + - - +
162A GLY* 3.3 1.9 + - - -
163A ILE* 3.1 25.2 + - + +
180A LEU* 3.9 11.2 - - + -
189A ALA* 3.3 47.1 - - + +
193A ALA* 3.6 17.9 - - + -
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Residues in contact with LEU 160 (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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156A GLY 3.1 17.8 + - - +
157A MET 3.9 2.5 - - - +
159A ILE* 1.3 79.1 - - - +
161A ASP* 1.3 58.2 - - - +
163A ILE* 3.3 12.7 + - + +
164A ARG* 3.1 25.2 + - - +
180A LEU* 5.3 0.9 - - + -
193A ALA* 3.6 33.7 - - + +
196A LEU* 3.7 30.7 - - + +
197A ALA* 3.8 15.0 - - + +
200A TYR* 3.9 18.4 - - + -
201A ALA* 3.9 13.0 - - + -
204A LEU* 3.6 25.1 - - + +
206A ILE* 4.6 7.4 - - + -
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Residues in contact with ASP 161 (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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33A LYS* 3.6 4.3 - - - +
34A GLY* 3.5 13.6 - - - +
59A TYR* 3.5 14.1 - - + -
60A ARG 3.9 3.6 - - - +
61A THR* 2.7 29.1 + - - +
157A MET 2.9 14.1 + - - +
160A LEU* 1.3 74.5 - - - +
162A GLY* 1.3 58.9 + - - +
164A ARG* 3.0 39.5 + - - +
165A ALA* 2.9 28.1 + - - +
200A TYR* 2.5 27.7 + - - -
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Residues in contact with GLY 162 (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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57A LEU* 5.3 0.3 - - - +
59A TYR* 3.3 15.8 - - - -
73A ALA* 4.5 3.1 - - - +
138A VAL* 3.7 16.3 - - - +
140A SER* 3.4 21.5 - - - -
158A ALA 2.9 15.4 + - - -
159A ILE 3.3 1.0 + - - -
161A ASP* 1.3 70.5 - - - +
163A ILE* 1.3 57.6 + - - +
165A ALA* 3.3 4.5 + - - +
166A LEU 3.0 23.6 + - - -
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Residues in contact with ILE 163 (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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87A ILE* 4.4 8.9 - - + +
89A SER* 3.7 29.8 - - - +
138A VAL* 3.8 15.9 - - + -
159A ILE* 3.1 29.9 + - + +
160A LEU* 3.5 14.4 - - + +
161A ASP 3.3 0.2 - - - -
162A GLY* 1.3 70.5 - - - +
164A ARG* 1.3 66.8 + - - +
166A LEU* 3.3 5.8 + - - +
167A LYS* 3.1 26.0 + - + +
178A VAL* 3.9 31.2 - - + -
180A LEU* 4.1 11.4 - - + -
204A LEU* 3.8 26.5 - - + -
206A ILE* 6.0 0.2 - - + -
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Residues in contact with ARG 164 (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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33A LYS* 3.6 29.6 + - - +
34A GLY* 3.8 10.1 - - - +
160A LEU 3.1 13.3 + - - +
161A ASP* 3.0 36.3 + - - +
163A ILE* 1.3 76.2 - - - +
165A ALA* 1.3 55.7 + - - +
167A LYS* 3.2 12.1 + - + +
168A ASN* 2.9 33.6 + - - +
200A TYR* 3.0 40.1 + - - -
201A ALA* 3.3 9.5 - - - +
202A PRO* 4.5 1.8 - - - +
203A GLU* 2.9 41.7 + - - +
204A LEU* 4.1 9.0 - - + -
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Residues in contact with ALA 165 (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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34A GLY 3.2 16.4 + - - +
36A VAL* 3.6 9.9 - - + +
57A LEU* 3.9 11.0 - - + -
59A TYR* 3.8 26.2 - - + -
73A ALA* 5.8 0.4 - - + -
161A ASP 2.9 16.5 + - - +
162A GLY* 3.5 7.0 - - - +
163A ILE 3.3 0.2 - - - -
164A ARG* 1.3 72.5 - - - +
166A LEU* 1.3 56.7 + - - +
168A ASN* 3.5 1.3 - - - +
169A TYR* 2.7 37.9 + - - +
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Residues in contact with LEU 166 (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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57A LEU* 4.0 8.3 - - - +
75A VAL* 3.9 28.0 - - + -
77A ILE* 4.4 7.4 - - + -
87A ILE* 3.7 31.6 - - + -
136A TYR* 3.9 22.4 - - + -
137A VAL 4.2 7.0 - - - +
138A VAL* 3.8 17.7 - - + -
162A GLY 3.0 13.2 + - - +
163A ILE 3.3 7.6 + - - +
165A ALA* 1.3 76.0 - - - +
167A LYS* 1.3 57.3 + - - +
169A TYR* 4.3 1.1 - - + -
170A GLN* 2.9 49.1 + - + +
172A LEU* 4.4 5.3 - - + +
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Residues in contact with LYS 167 (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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87A ILE* 3.5 25.8 - - + -
163A ILE* 3.1 19.5 + - + +
164A ARG* 3.2 8.7 + - - +
166A LEU* 1.3 75.2 - - - +
168A ASN* 1.3 58.7 + - - +
171A ASN* 3.0 8.3 + - - -
172A LEU* 2.9 41.4 + - + +
173A PRO 3.6 15.7 - - - -
174A SER* 2.8 36.1 + - - +
176A SER* 4.7 4.9 - - - +
178A VAL* 5.3 2.5 - - + -
203A GLU* 4.3 12.7 + - - +
204A LEU* 3.8 32.5 - - + +
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Residues in contact with ASN 168 (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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33A LYS 5.0 2.2 + - - -
34A GLY* 2.8 32.1 + - - +
35A GLN* 3.9 8.3 - - - +
36A VAL* 4.4 9.2 - - + +
164A ARG* 2.9 15.5 + - - +
165A ALA* 3.5 7.4 - - - +
167A LYS* 1.3 75.1 - - - +
169A TYR* 1.3 66.3 + - - +
171A ASN* 3.2 21.9 + - - +
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Residues in contact with TYR 169 (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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36A VAL* 4.2 14.1 - - + +
39A SER* 3.7 22.8 + - - -
55A PHE* 3.2 48.3 - + + -
57A LEU* 3.5 32.3 - - + -
75A VAL* 4.4 7.4 - - + -
77A ILE* 5.1 0.2 - - + -
165A ALA 2.7 22.1 + - - +
166A LEU* 3.9 2.9 - - + +
168A ASN* 1.3 76.3 - - - +
170A GLN* 1.3 88.1 + - + +
171A ASN* 3.7 6.8 + - - +
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Residues in contact with GLN 170 (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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55A PHE* 5.2 1.8 - - - -
77A ILE* 3.6 38.1 - - + +
136A TYR* 3.9 17.3 + - + -
166A LEU* 2.9 26.7 + - + +
169A TYR* 1.3 106.2 + - + +
171A ASN* 1.3 74.2 + - - +
172A LEU* 3.2 22.8 + - + +
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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