Contacts of the helix formed by residues 145 - 163 (chain B) in PDB entry 2C1H
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 145 (chain B).
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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12A ARG* 3.3 15.0 - - - +
14A ARG* 3.3 26.9 + - - +
143B ILE 3.8 1.0 + - - -
144B LEU* 1.3 71.9 - - - +
146B ASP* 1.3 87.7 + - - +
147B GLU* 3.3 3.3 + - - -
148B THR* 3.1 6.9 + - - -
149B VAL* 3.1 25.7 + - - +
173B MET* 3.3 6.5 - - - +
174B ASP* 2.9 50.8 + - - +
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Residues in contact with ASP 146 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
12A ARG* 2.7 47.2 + - - -
145B ASN* 1.3 81.4 + - - +
147B GLU* 1.3 71.6 + - + +
149B VAL* 3.5 7.7 + - - +
150B GLU* 3.2 29.4 + - + +
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Residues in contact with GLU 147 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
137B LEU* 3.5 12.9 - - + +
144B LEU* 3.5 47.1 - - + +
145B ASN 4.0 1.4 + - - -
146B ASP* 1.3 84.8 + - + +
148B THR* 1.3 61.1 + - - +
150B GLU* 3.8 8.5 + - - +
151B VAL* 3.5 23.0 + - - +
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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
----------------------------------------------------------
126B LEU* 3.9 3.1 - - + -
135B ASP 3.9 3.1 - - - +
136B GLY* 3.4 21.2 - - - -
137B LEU* 3.1 25.6 + - - +
144B LEU 2.4 24.8 + - - -
145B ASN 3.1 10.4 + - - -
147B GLU* 1.3 77.1 - - - +
149B VAL* 1.3 59.5 + - - +
151B VAL* 2.9 23.5 + - - +
152B LEU* 2.9 30.4 + - + +
173B MET* 3.8 16.6 - - + -
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Residues in contact with VAL 149 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
145B ASN* 3.1 16.5 + - - +
146B ASP* 3.5 9.6 + - - +
148B THR* 1.3 74.7 - - - +
150B GLU* 1.3 53.6 + - + +
152B LEU* 2.9 10.9 + - + +
153B GLN* 2.7 37.8 + - + +
173B MET* 3.8 16.4 - - + -
174B ASP 4.0 10.1 - - - +
175B GLY 4.5 1.1 - - - +
176B ARG* 3.7 33.7 - - + +
179B ALA* 3.7 29.8 - - + -
180B ILE* 5.3 0.4 - - + -
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Residues in contact with GLU 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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146B ASP* 3.2 19.9 + - + +
147B GLU* 3.9 9.4 - - - +
148B THR 3.2 0.6 - - - -
149B VAL* 1.3 76.8 - - + +
151B VAL* 1.3 59.7 + - + +
153B GLN* 3.6 24.2 + - - +
154B LYS* 3.4 29.7 + - - +
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Residues in contact with VAL 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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93B ASP 4.4 8.3 - - - +
94B GLY 4.4 2.5 - - - +
97B ALA* 5.1 0.7 - - + -
98B TYR* 3.5 27.0 - - + +
126B LEU* 3.7 33.0 - - + -
137B LEU* 3.8 17.7 - - + -
147B GLU 3.5 15.9 - - - +
148B THR 2.9 8.5 + - - +
150B GLU* 1.3 74.6 - - + +
152B LEU* 1.3 60.1 + - - +
154B LYS* 3.4 18.7 + - - +
155B MET* 3.1 24.4 + - - +
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Residues in contact with LEU 152 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
124B VAL* 3.8 21.3 - - + +
125B ALA* 4.8 2.2 - - - -
126B LEU* 3.8 28.3 - - + +
135B ASP 4.6 3.4 - - - +
148B THR* 2.9 36.1 + - + +
149B VAL* 3.3 14.4 - - - +
151B VAL* 1.3 74.5 - - - +
153B GLN* 1.3 59.0 + - - +
155B MET* 3.1 7.5 + - - +
156B ALA* 2.9 31.7 + - - +
171B ASP* 3.2 42.2 - - + +
173B MET* 4.6 0.7 - - + -
176B ARG* 4.5 7.9 - - + -
180B ILE* 4.6 8.7 - - + -
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Residues in contact with GLN 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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149B VAL* 2.7 20.6 + - + +
150B GLU* 3.6 34.3 + - - +
152B LEU* 1.3 71.7 - - - +
154B LYS* 1.3 59.3 + - + +
156B ALA* 3.3 2.8 + - - +
157B VAL* 3.0 34.4 + - - +
179B ALA* 3.1 47.0 - - + +
180B ILE* 4.4 8.0 - - + +
182B GLU* 4.0 10.0 - - - +
183B ALA* 3.8 16.9 - - + +
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Residues in contact with LYS 154 (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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98B TYR* 3.6 50.4 + - + +
150B GLU* 3.4 22.0 + - - +
151B VAL* 3.4 18.0 + - - +
152B LEU 3.3 0.4 - - - -
153B GLN* 1.3 80.5 - - + +
155B MET* 1.3 56.2 + - - +
157B VAL* 3.5 7.5 + - - +
158B SER* 2.8 29.5 + - - -
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Residues in contact with MET 155 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
97B ALA* 3.6 30.5 - - + +
98B TYR* 4.0 8.5 - - - +
104B LEU* 5.8 1.3 - - + -
123B ASP* 3.7 18.2 - - - +
124B VAL* 3.8 10.1 - - + -
125B ALA* 3.5 39.7 - - - +
126B LEU* 4.9 3.6 - - - -
129B PHE* 3.6 25.8 - - + -
151B VAL 3.1 14.5 + - - +
152B LEU* 3.3 12.3 - - - +
154B LYS* 1.3 77.2 - - - +
156B ALA* 1.3 62.2 + - - +
158B SER* 3.1 6.7 + - - -
159B HIS* 3.1 44.2 + - + +
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Residues in contact with ALA 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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124B VAL* 4.3 9.8 - - + +
152B LEU 2.9 14.6 + - - +
153B GLN 3.7 4.0 - - - +
155B MET* 1.3 73.1 - - - +
157B VAL* 1.3 66.4 + - - +
159B HIS* 3.3 13.5 + - - +
160B ALA* 3.1 22.2 + - - +
167B VAL* 4.0 16.9 - - + +
180B ILE* 3.7 28.7 - - + -
183B ALA* 6.3 0.2 - - + -
184B LEU* 3.8 8.2 - - + +
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Residues in contact with VAL 157 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
153B GLN 3.0 22.2 + - - +
154B LYS* 3.7 7.6 - - - +
156B ALA* 1.3 74.8 - - - +
158B SER* 1.3 64.1 + - - +
160B ALA* 3.3 4.3 + - - +
161B GLU* 2.9 38.3 + - + +
183B ALA* 3.6 34.1 - - + +
184B LEU* 4.2 10.1 - - + +
187B THR* 3.6 27.6 - - + +
189B HIS* 4.9 0.7 - - + -
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Residues in contact with SER 158 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
98B TYR* 3.6 15.8 + - - -
100B ASP* 3.3 22.0 + - - +
105B GLN* 2.7 32.9 + - - +
154B LYS 2.8 15.2 + - - -
155B MET 3.2 10.5 - - - -
157B VAL* 1.3 77.3 - - - +
159B HIS* 1.3 61.3 + - - +
161B GLU* 3.3 9.5 + - - +
162B ALA* 3.1 21.3 + - - +
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Residues in contact with HIS 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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97B ALA 4.5 0.4 + - - -
104B LEU* 3.4 33.1 - - + +
105B GLN* 4.0 15.2 + - - -
108B ILE* 3.8 9.6 - - + +
122B THR* 3.3 25.3 + - - +
123B ASP 3.5 21.3 - - - -
124B VAL* 3.6 13.2 - - + +
155B MET* 3.1 46.5 + - + +
156B ALA* 3.3 5.9 + - - +
158B SER* 1.3 71.9 - - - +
160B ALA* 1.3 66.3 + - - +
162B ALA* 3.0 13.7 + - - +
163B GLY 3.0 9.7 + - - -
164B ALA* 3.0 16.1 + - + +
167B VAL* 4.2 2.0 - - + -
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Residues in contact with ALA 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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156B ALA 3.1 13.0 + - - +
157B VAL 3.6 7.9 - - - +
159B HIS* 1.3 75.5 - - - +
161B GLU* 1.3 62.4 + - - +
163B GLY* 3.2 13.3 + - - -
164B ALA* 4.1 13.9 + - - +
167B VAL* 5.1 0.8 - - - +
184B LEU* 3.8 11.9 - - + -
189B HIS* 3.6 41.3 + - + +
192B VAL* 4.1 11.6 - - + +
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Residues in contact with GLU 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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100B ASP* 4.8 15.5 - - - +
109B ARG* 5.0 3.7 + - - -
157B VAL* 2.9 26.2 + - + +
158B SER* 3.4 12.6 - - - +
159B HIS 3.1 0.2 - - - -
160B ALA* 1.3 77.6 - - - +
162B ALA* 1.3 61.4 + - - +
163B GLY* 3.6 0.5 + - - -
187B THR* 4.8 4.7 - - - +
189B HIS* 3.4 27.3 + - - -
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Residues in contact with ALA 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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105B GLN* 3.5 33.2 - - + +
108B ILE* 3.7 16.8 - - + +
109B ARG* 3.4 42.6 - - - +
112B LYS* 5.2 1.4 - - - +
158B SER 3.1 11.8 + - - +
159B HIS 3.0 9.9 + - - +
161B GLU* 1.3 77.1 - - - +
163B GLY* 1.3 55.8 + - - +
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Residues in contact with GLY 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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108B ILE* 3.6 7.0 - - - -
112B LYS* 3.5 32.5 - - - +
120B ILE* 5.0 0.2 - - - +
159B HIS 3.0 1.2 + - - -
160B ALA 3.2 10.3 + - - -
161B GLU 3.3 0.4 - - - -
162B ALA* 1.3 79.8 - - - +
164B ALA* 1.3 69.0 + - - +
165B ASP* 4.3 1.7 - - - +
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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