Contacts of the helix formed by residues 146 - 164 (chain A) in PDB entry 3KQ4
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 ASN 146 (chain A).
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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114A GLN* 4.9 8.3 - - - +
142A LEU 2.8 11.2 + - - +
143A CYS 3.5 3.1 - - - -
145A LYS* 1.3 79.9 - - + +
147A SER* 1.3 60.2 + - - +
148A GLU* 3.2 8.0 + - - +
149A ALA* 2.8 39.4 + - + +
150A THR* 2.6 28.9 + - - +
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Residues in contact with SER 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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143A CYS* 3.2 23.9 + - - +
146A ASN* 1.3 71.7 + - - +
148A GLU* 1.3 67.6 + - - +
150A THR* 2.8 24.3 + - - -
151A LEU* 3.3 8.5 + - - -
183A MET* 3.8 11.1 - - - +
186A LYS* 3.1 48.2 + - - +
188A PRO* 4.8 0.9 - - - +
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Residues in contact with GLU 148 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
146A ASN* 3.2 6.1 + - - +
147A SER* 1.3 82.6 + - - +
149A ALA* 1.3 62.6 + - - +
150A THR 3.1 1.1 + - - -
151A LEU* 3.5 19.5 + - + +
152A PRO* 4.1 3.5 - - - +
188A PRO* 3.4 37.4 - - + +
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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
----------------------------------------------------------
114A GLN* 3.8 18.6 + - - +
146A ASN* 2.8 38.3 + - + +
148A GLU* 1.3 79.7 - - - +
150A THR* 1.3 60.9 + - - +
151A LEU 3.4 0.4 - - - -
152A PRO* 4.0 8.5 - - - +
153A ILE* 5.1 3.6 - - - +
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Residues in contact with THR 150 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
114A GLN* 3.9 8.7 + - - +
139A ILE* 4.2 18.4 - - + +
142A LEU* 3.4 24.9 + - + +
143A CYS* 4.0 17.0 - - + +
146A ASN* 2.6 21.0 + - - +
147A SER 2.8 7.7 + - - -
149A ALA* 1.3 79.0 - - - +
151A LEU* 1.3 63.4 + - - +
152A PRO* 3.3 3.4 - - - -
153A ILE* 3.3 14.1 + - + +
154A ALA* 3.0 14.9 + - + +
183A MET* 3.9 15.3 - - - -
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Residues in contact with LEU 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 SER 3.3 5.4 + - - +
148A GLU* 3.7 12.1 - - + +
149A ALA 3.4 0.2 - - - -
150A THR* 1.3 76.9 - - - +
152A PRO* 1.3 59.8 - - + +
154A ALA* 3.1 2.6 + - - +
155A VAL* 2.7 40.0 + - - +
183A MET* 3.3 25.4 - - + -
187A ILE* 4.6 3.1 - - + -
188A PRO* 4.0 31.2 - - + -
191A SER* 4.9 3.4 - - - +
195A TYR* 3.3 52.0 - - + +
199A PHE* 3.7 13.2 - - + -
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Residues in contact with PRO 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 GLU 4.1 4.5 - - - +
149A ALA* 4.0 10.5 - - - +
150A THR 3.4 4.3 - - - -
151A LEU* 1.3 93.9 - - + +
153A ILE* 1.3 61.9 + - + +
155A VAL* 3.0 10.8 + - + +
156A ARG* 2.9 35.2 + - - +
195A TYR* 6.0 0.7 - - + -
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Residues in contact with ILE 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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114A GLN* 4.6 18.6 - - - +
117A MET* 3.3 60.6 - - + +
118A GLU* 4.1 7.9 - - + +
120A TRP* 4.6 9.2 - - + -
139A ILE* 4.0 16.6 - - + -
142A LEU* 4.7 4.7 - - + -
149A ALA 5.1 2.2 - - - +
150A THR* 3.5 15.7 - - + +
152A PRO* 1.3 73.9 - - + +
154A ALA* 1.3 68.4 - - - +
156A ARG* 3.7 17.0 - - - +
157A PHE* 3.0 26.3 + - - +
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Residues in contact with ALA 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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139A ILE* 4.0 19.3 - - + +
150A THR* 3.0 11.5 + - - +
151A LEU 3.5 6.7 - - - +
153A ILE* 1.3 80.1 - - - +
155A VAL* 1.3 63.1 + - - +
157A PHE* 3.4 4.5 + - - +
158A ALA* 3.1 23.6 + - - +
180A LEU* 4.7 2.6 - - + +
183A MET* 3.6 37.2 - - + -
199A PHE* 3.7 11.4 - - + -
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Residues in contact with VAL 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 LEU 2.7 21.7 + - - +
152A PRO* 3.4 8.5 - - + +
154A ALA* 1.3 73.6 - - - +
156A ARG* 1.3 66.3 + - - +
157A PHE 3.0 1.2 + - - -
158A ALA* 3.1 2.4 + - - +
159A LYS* 3.1 39.2 + - + +
195A TYR* 3.5 35.7 - - + -
198A LEU* 3.9 19.1 - - + -
199A PHE* 4.0 14.4 - - + -
1148B ILE* 5.2 10.1 - - + -
1149B ASP* 6.0 1.1 - - - +
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Residues in contact with ARG 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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117A MET 3.7 12.1 + - - -
118A GLU* 3.1 25.0 + - - +
119A ASN 5.0 0.2 - - - -
120A TRP* 2.4 38.0 + - + +
121A ALA* 4.9 2.2 - - - +
152A PRO* 2.9 17.8 + - - +
153A ILE* 3.7 23.1 - - - +
155A VAL* 1.3 79.9 - - - +
157A PHE* 1.3 54.2 + - - +
159A LYS* 3.8 3.8 + - - +
160A THR* 2.7 36.5 + - - +
1099B ILE* 3.4 45.7 - - + +
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Residues in contact with PHE 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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120A TRP* 3.7 27.1 - + + -
132A PHE* 3.9 19.3 - + - -
135A PRO* 4.1 15.0 - - + -
136A SER* 3.4 31.4 - - - -
139A ILE* 3.6 24.5 - - + -
153A ILE 3.0 17.4 + - - +
154A ALA 3.5 6.1 - - - +
156A ARG* 1.3 75.9 - - - +
158A ALA* 1.3 62.6 + - - +
160A THR* 2.5 22.6 + - - -
161A LEU* 2.8 26.6 + - + +
176A ALA* 4.2 13.7 - - + -
179A ALA* 4.9 3.1 - - + -
180A LEU* 3.6 33.2 - - + -
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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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154A ALA 3.1 13.2 + - - +
155A VAL 3.1 4.3 + - - +
157A PHE* 1.3 82.4 - - - +
159A LYS* 1.3 68.3 + - - +
161A LEU* 4.3 3.8 - - - -
162A LEU* 3.0 26.3 + - - +
180A LEU* 4.2 11.2 - - + -
198A LEU* 4.1 15.0 - - + -
199A PHE* 4.2 12.6 - - + -
202A VAL* 3.7 21.2 - - + +
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Residues in contact with LYS 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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155A VAL* 3.1 28.1 + - + +
156A ARG 3.9 4.5 - - - +
158A ALA* 1.3 79.1 - - - +
160A THR* 1.3 65.8 + - + +
162A LEU* 3.5 6.2 - - - +
163A ALA* 3.1 22.2 + - - +
198A LEU* 4.3 15.9 - - + +
1096B GLU* 2.7 27.4 + - - +
1099B ILE* 4.9 5.2 - - + -
1104B THR* 3.3 17.7 - - + -
1146B ASP* 2.9 30.6 + - - +
1147B GLN* 4.5 9.6 - - - +
1148B ILE* 3.1 38.7 + - - +
1149B ASP* 4.1 2.8 - - - +
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Residues in contact with THR 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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122A PRO* 3.9 18.0 - - + +
132A PHE* 3.2 15.3 - - - -
156A ARG 2.7 22.2 + - - +
157A PHE* 2.5 23.9 + - - -
159A LYS* 1.3 74.3 - - - +
161A LEU* 1.3 62.2 + - - +
163A ALA* 3.1 1.6 + - - -
164A ASN* 2.8 27.5 + - - +
1099B ILE* 3.0 39.3 - - + -
1102B TYR* 3.1 24.5 - - + -
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Residues in contact with LEU 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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129A ALA 5.5 0.7 - - - +
132A PHE* 3.6 46.2 - - + -
157A PHE* 2.8 28.7 + - + +
158A ALA 3.8 2.0 - - - +
160A THR* 1.3 78.8 + - - +
162A LEU* 1.3 63.5 + - - +
164A ASN* 3.3 15.5 + - + +
172A THR* 5.1 4.7 - - + -
173A GLY* 6.5 0.2 - - - -
176A ALA* 3.9 18.2 - - + -
180A LEU* 4.4 0.7 - - + -
202A VAL* 3.9 16.6 - - + -
206A ILE* 3.6 30.5 - - + -
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Residues in contact with LEU 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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158A ALA 3.0 16.7 + - - +
159A LYS* 3.5 5.8 - - - +
161A LEU* 1.3 78.7 - - - +
163A ALA* 1.3 63.3 + - - +
164A ASN 3.1 10.2 - - - +
198A LEU* 5.0 1.8 - - + -
201A GLN* 3.4 29.2 - - + +
202A VAL* 3.6 26.5 - - + -
205A ASP* 3.1 34.1 - - + +
209A LYS* 5.8 1.2 + - - -
1147B GLN* 4.0 12.8 - - - +
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Residues in contact with ALA 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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125A PRO* 4.0 10.9 - - + +
159A LYS 3.1 14.4 + - - +
160A THR* 3.1 0.6 + - - -
162A LEU* 1.3 76.1 - - - +
164A ASN* 1.3 69.1 + - - +
165A SER* 3.4 6.1 + - - -
1102B TYR* 3.7 23.1 - - + -
1103B TYR 5.6 5.4 - - - +
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Residues in contact with ASN 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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125A PRO 3.3 12.5 + - - -
127A ALA* 2.7 29.2 + - - +
128A GLU 4.2 4.7 + - - -
129A ALA* 4.5 7.0 - - - +
132A PHE* 4.1 15.4 - - + -
160A THR 2.8 8.8 + - - +
161A LEU* 3.4 14.6 - - + +
162A LEU 3.1 11.5 - - - +
163A ALA* 1.3 79.6 - - - +
165A SER* 1.3 67.7 + - - +
166A SER* 3.0 19.4 + - - +
209A LYS* 5.2 6.9 + - - -
1102B TYR* 3.0 30.2 + - - +
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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