Contacts of the helix formed by residues 152 - 174 (chain B) in PDB entry 3QZS
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 SER 152 (chain B).
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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148B ASN* 3.5 11.1 - - - +
149B PRO* 2.8 35.0 + - - -
150B SER 4.3 1.0 - - - +
151B ASP* 1.3 83.2 + - - +
153B PRO* 1.3 73.9 - - - +
154B PHE* 3.7 10.1 + - - -
155B TYR* 3.3 14.6 + - - +
156B GLN* 3.1 20.5 + - - +
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Residues in contact with PRO 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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91B TRP* 4.5 17.7 - - + -
151B ASP 4.3 2.2 - - - +
152B SER* 1.3 90.7 - - - +
154B PHE* 1.3 70.2 + - + +
156B GLN* 3.3 15.6 + - + +
157B CYS* 3.0 34.1 + - - -
14D GLY* 4.3 24.5 - - - +
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Residues in contact with PHE 154 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
91B TRP* 3.5 32.3 - + - -
92B PRO* 3.8 19.5 - - + -
93B PHE* 4.0 0.5 - - - -
144B CYS* 3.3 15.2 - - - -
148B ASN* 3.7 33.0 - - - +
152B SER* 3.1 8.2 - - - +
153B PRO* 1.3 87.3 - - + +
155B TYR* 1.3 57.1 + - - +
157B CYS* 3.2 8.4 + - - +
158B ALA 3.0 24.1 + - - -
14D GLY 3.8 21.8 - - - -
15D ALA 3.8 22.9 - - - -
16D ALY 3.8 31.0 - - + -
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Residues in contact with TYR 155 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
144B CYS* 4.2 7.2 - - - -
145B ARG* 3.6 36.8 - - + +
148B ASN* 3.5 17.0 - - + +
149B PRO 3.2 16.2 - - - +
150B SER* 3.5 39.5 - - - +
152B SER* 3.3 8.5 + - - +
154B PHE* 1.3 78.9 - - - +
156B GLN* 1.3 63.1 + - - +
158B ALA* 3.2 5.4 + - - +
159B GLU* 3.1 47.6 + - + +
19D ARG* 3.6 21.5 + - - -
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Residues in contact with GLN 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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89B MET* 3.8 20.6 - - + +
150B SER 5.1 0.8 + - - -
152B SER 3.1 13.1 + - - +
153B PRO* 3.4 16.9 - - + +
155B TYR* 1.3 77.7 - - - +
157B CYS* 1.3 61.8 + - - +
159B GLU* 3.2 9.0 + - - +
160B VAL* 3.1 35.4 + - + +
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Residues in contact with CYS 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 MET* 3.3 48.4 - - - +
91B TRP* 3.5 27.8 - - - -
92B PRO* 3.7 18.6 - - + -
93B PHE* 3.8 3.8 - - + -
153B PRO* 3.0 19.3 + - - -
154B PHE 3.5 7.2 - - - +
156B GLN* 1.3 75.0 - - - +
158B ALA* 1.3 57.3 + - - +
160B VAL* 3.3 1.6 + - - +
161B LEU* 2.9 34.7 + - - +
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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
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93B PHE* 3.7 10.2 - - + -
141B PHE* 4.0 21.1 - - + +
144B CYS* 3.8 26.5 - - + -
145B ARG* 3.8 14.4 + - + -
154B PHE 3.0 12.2 + - - +
155B TYR 3.4 8.7 - - - +
157B CYS* 1.3 76.7 - - - +
159B GLU* 1.3 61.4 + - - +
162B GLU* 3.0 27.7 + - - +
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Residues in contact with GLU 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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145B ARG* 3.0 33.0 + - - +
155B TYR* 3.1 44.2 + - + +
156B GLN* 3.2 7.8 + - - +
158B ALA* 1.3 77.5 - - - +
160B VAL* 1.3 63.9 + - + +
162B GLU* 3.9 5.2 - - - +
163B SER* 3.4 19.4 + - - -
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Residues in contact with VAL 160 (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 HIS* 3.8 28.7 - - + +
89B MET* 3.8 22.7 - - + -
156B GLN* 3.1 24.3 + - + +
157B CYS 3.8 2.7 - - - +
159B GLU* 1.3 75.3 - - + +
161B LEU* 1.3 66.7 + - - +
163B SER* 3.1 11.9 + - - +
164B PHE* 3.1 20.0 + - + +
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Residues in contact with LEU 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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84B LEU* 4.1 24.9 - - + +
87B HIS* 3.5 42.4 - - + +
89B MET* 4.8 3.8 - - + +
90B ALA* 3.9 18.2 - - + +
93B PHE* 3.8 20.6 - - + -
115B LEU* 4.6 6.1 - - + -
141B PHE* 3.7 27.4 - - + -
157B CYS 2.9 20.6 + - - +
160B VAL* 1.3 74.9 - - - +
162B GLU* 1.3 58.4 + - - +
164B PHE* 3.4 5.6 + - + +
165B PHE* 2.9 28.1 + - - +
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Residues in contact with GLU 162 (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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138B THR* 5.5 5.6 - - + +
141B PHE* 3.7 29.7 - - + +
142B ASP* 4.4 1.2 - - - +
145B ARG* 2.6 38.2 + - - -
158B ALA 3.0 20.4 + - - +
159B GLU* 3.9 5.9 - - - +
161B LEU* 1.3 79.5 - - - +
163B SER* 1.3 62.6 + - - +
165B PHE* 3.2 4.4 + - + +
166B VAL* 3.0 31.8 + - + +
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Residues in contact with SER 163 (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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159B GLU 3.4 10.1 + - - -
160B VAL* 3.1 15.3 + - - +
162B GLU* 1.3 79.8 + - - +
164B PHE* 1.3 63.7 + - - +
166B VAL* 3.3 8.8 + - - +
167B GLN* 3.1 32.1 + - - +
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Residues in contact with PHE 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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83B SER* 3.5 39.7 - - - -
84B LEU* 3.9 14.1 - - + -
87B HIS* 3.7 31.2 - + + +
160B VAL* 3.1 9.2 + - + +
161B LEU* 3.5 16.6 - - + +
163B SER* 1.3 82.8 + - - +
165B PHE* 1.3 62.7 + - - +
167B GLN* 3.2 21.8 + - + +
168B LYS* 3.1 50.6 + - + +
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Residues in contact with PHE 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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80B VAL* 3.9 18.6 - - + -
84B LEU* 4.0 22.4 - - + -
133B PHE* 3.9 24.9 - + - -
134B VAL* 4.3 18.6 - - + -
137B MET* 3.6 38.4 - - + -
138B THR* 4.6 8.1 - - + -
141B PHE* 4.1 13.7 - + + -
161B LEU 2.9 17.7 + - - +
162B GLU* 3.2 7.8 + - + +
164B PHE* 1.3 77.2 - - - +
166B VAL* 1.3 64.5 + - + +
168B LYS* 3.2 1.0 + - - +
169B LEU* 2.8 61.9 + - + +
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Residues in contact with VAL 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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162B GLU* 3.0 29.6 + - + +
163B SER* 3.3 8.7 + - - +
164B PHE 3.2 0.2 - - - -
165B PHE* 1.3 81.8 - - + +
167B GLN* 1.3 63.8 + - + +
169B LEU* 3.8 11.3 - - + +
170B LYS* 3.0 48.9 + - + +
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Residues in contact with GLN 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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163B SER* 3.1 19.9 + - - +
164B PHE* 3.2 28.4 + - + +
166B VAL* 1.3 78.8 - - + +
168B LYS* 1.3 63.3 + - + +
170B LYS* 3.7 8.2 + - - +
171B GLY* 3.3 16.6 + - - -
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Residues in contact with LYS 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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111A GLU* 5.9 0.8 + - - -
79B ARG* 5.5 9.9 - - - +
80B VAL* 4.1 26.3 - - + +
83B SER* 3.5 32.0 - - - +
84B LEU* 4.8 1.1 - - + -
164B PHE* 3.1 48.0 + - + +
165B PHE* 3.9 4.5 - - - +
167B GLN* 1.3 78.3 - - + +
169B LEU* 1.3 61.6 + - - +
171B GLY* 3.2 3.6 + - - +
172B PHE* 2.9 27.0 + - - +
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Residues in contact with LEU 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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77B LEU* 6.0 0.9 - - + -
80B VAL* 5.3 3.4 - - + -
130B LEU* 4.2 17.3 - - + -
133B PHE* 5.6 2.0 - - + -
134B VAL* 3.9 35.4 - - + -
165B PHE* 2.8 42.2 + - + +
166B VAL* 3.8 10.5 - - + +
168B LYS* 1.3 74.8 - - - +
170B LYS* 1.3 67.1 + - + +
172B PHE* 3.0 12.3 + - + +
173B LYS* 2.9 52.4 + - + +
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Residues in contact with LYS 170 (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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166B VAL* 3.0 39.4 + - + +
167B GLN* 3.8 7.0 - - - +
169B LEU* 1.3 78.3 - - + +
171B GLY* 1.3 60.3 + - - +
173B LYS* 3.3 11.6 + - + +
174B ALA* 3.3 26.2 + - - +
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Residues in contact with GLY 171 (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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79B ARG* 6.2 0.4 - - - -
167B GLN 3.3 9.2 + - - -
168B LYS* 3.2 9.3 + - - -
169B LEU 3.2 0.8 - - - -
170B LYS* 1.3 77.2 - - - +
172B PHE* 1.3 59.1 + - - +
174B ALA* 3.4 17.9 + - - +
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Residues in contact with PHE 172 (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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69B LEU* 4.3 6.1 - - + -
73B ASP* 3.5 45.8 - - + -
76B GLY* 3.6 29.2 - - - -
77B LEU* 3.6 13.0 - - + -
79B ARG* 4.7 10.5 - - - +
80B VAL* 4.3 12.8 - - + -
130B LEU* 3.8 39.3 - - + -
168B LYS 2.9 12.1 + - - +
169B LEU* 3.0 12.1 + - + +
171B GLY* 1.3 76.7 - - - +
173B LYS* 1.3 65.4 + - + +
174B ALA* 3.1 2.8 + - - -
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Residues in contact with LYS 173 (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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130B LEU* 3.8 31.9 - - + -
134B VAL* 5.4 2.6 - - - +
169B LEU* 2.9 45.1 + - + +
170B LYS* 3.3 10.7 + - + +
172B PHE* 1.3 76.5 - - - +
174B ALA* 1.3 68.3 + - - +
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Residues in contact with ALA 174 (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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170B LYS 3.3 12.3 + - - +
171B GLY* 3.8 13.8 - - - +
172B PHE 3.1 5.0 - - - -
173B LYS* 1.3 85.1 - - - +
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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
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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