Contacts of the helix formed by residues 151 - 171 (chain A) in PDB entry 2Q1V
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 151 (chain A).
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Specific contacts
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Residue Dist Surf HB Arom Phob DC
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55A ASN 4.6 1.8 + - - -
56A LEU* 3.8 21.6 - - - -
57A HIS* 3.0 28.0 + - - +
60A ASP* 2.8 12.7 + - - -
149A LEU* 4.5 1.3 - - - -
150A LYS* 1.3 81.0 + - - +
152A GLN* 1.3 64.2 + - - -
153A ALA* 3.3 3.4 - - - -
154A SER* 2.9 11.2 + - - -
155A PHE* 2.8 21.4 + - - +
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Residues in contact with GLN 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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144A VAL* 5.6 3.3 - - - +
148A GLY* 3.5 9.9 - - - -
149A LEU* 2.6 52.0 + - - +
150A LYS 3.6 2.0 + - - -
151A SER* 1.3 74.5 - - - +
153A ALA* 1.3 55.4 + - - +
155A PHE* 2.9 11.2 + - - +
156A ASP* 2.7 65.1 + - - +
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Residues in contact with ALA 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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151A SER 3.3 1.0 - - - -
152A GLN* 1.3 77.3 - - - +
154A SER* 1.3 63.3 + - - +
156A ASP* 3.5 7.9 + - - +
157A GLU* 3.1 25.0 + - - +
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Residues in contact with SER 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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52A GLY 4.8 0.9 + - - -
55A ASN* 3.8 27.1 + - - +
56A LEU* 3.7 16.4 - - - +
151A SER* 2.9 16.5 + - - -
153A ALA* 1.3 75.5 - - - +
155A PHE* 1.3 59.9 + - - +
157A GLU* 3.3 11.3 + - - +
158A MET* 2.9 29.6 + - - +
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Residues in contact with PHE 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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56A LEU* 3.5 11.6 - - + +
64A LEU* 3.9 22.9 - - + -
141A LEU* 3.3 54.7 - - + -
144A VAL* 3.6 17.0 - - + -
149A LEU* 3.4 25.4 - - + -
151A SER 2.8 12.7 + - - +
152A GLN* 3.3 11.7 - - - +
154A SER* 1.3 74.7 - - - +
156A ASP* 1.3 75.5 + - - +
158A MET* 3.0 9.5 + - + +
159A ARG* 2.8 39.5 + - - +
242A LEU* 3.8 17.7 - - + -
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Residues in contact with ASP 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 GLN* 2.7 47.2 + - - +
153A ALA* 3.8 7.3 + - - +
155A PHE* 1.3 82.7 - - - +
157A GLU* 1.3 62.5 + - - +
159A ARG* 3.8 4.7 - - - +
160A MET* 3.2 28.6 + - - +
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Residues in contact with GLU 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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153A ALA 3.1 18.0 + - - +
154A SER* 3.5 10.9 - - - +
156A ASP* 1.3 78.4 - - - +
158A MET* 1.3 61.5 + - - +
160A MET* 3.4 4.9 + - - +
161A ASN* 2.8 40.8 + - - +
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Residues in contact with MET 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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50A LEU* 6.0 2.5 - - - -
51A PRO 4.3 4.5 - - - +
52A GLY* 3.6 33.4 - - - +
53A PHE* 3.6 10.5 - - + -
56A LEU* 3.2 34.1 - - + -
137A VAL* 6.0 0.7 - - - -
140A LEU* 6.5 0.2 - - - -
141A LEU* 3.3 31.6 - - + -
154A SER* 2.9 13.4 + - - +
155A PHE* 3.4 10.3 - - + +
157A GLU* 1.3 76.5 - - - +
159A ARG* 1.3 63.5 + - - +
161A ASN* 3.1 19.3 + - - +
162A TYR* 3.1 40.2 + - + -
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Residues in contact with ARG 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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138A LEU* 4.1 6.3 + - + +
141A LEU* 2.9 44.9 + - + +
142A SER* 3.2 15.8 + - - -
155A PHE* 2.8 27.5 + - + +
156A ASP* 3.8 7.2 - - - +
158A MET* 1.3 73.5 - - - +
160A MET* 1.3 64.1 + - + +
162A TYR* 3.1 5.2 + - - +
163A ILE* 2.9 48.0 + - + +
242A LEU* 3.1 49.7 + - - +
243A LEU 5.2 2.2 + - - -
244A PHE* 3.6 22.8 - - - -
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Residues in contact with MET 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 ASP 3.2 17.9 + - - +
157A GLU* 3.9 5.2 - - - +
159A ARG* 1.3 79.2 - - + +
161A ASN* 1.3 60.0 + - - +
163A ILE* 3.2 20.1 + - + -
164A LYS* 2.8 68.4 + - + +
249A GOL 3.8 18.6 - - - +
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Residues in contact with ASN 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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1A LEU* 4.6 13.5 - - + +
157A GLU* 2.8 40.3 + - - +
158A MET* 3.1 11.2 + - - +
160A MET* 1.3 76.7 - - - +
162A TYR* 1.3 63.1 + - + +
164A LYS* 3.3 10.9 + - - +
165A GLU* 2.9 26.7 + - - +
168A ARG* 5.8 0.2 + - - -
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Residues in contact with TYR 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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1A LEU* 3.3 33.7 - - + +
5A LEU* 4.0 14.6 - - + -
50A LEU* 4.0 6.3 - - + +
51A PRO* 2.9 54.3 + - + +
134A CYS* 4.5 7.8 - - - +
137A VAL* 3.6 36.3 - - + -
138A LEU* 3.9 20.6 - - + +
141A LEU* 4.4 1.6 - - + -
158A MET* 3.1 39.4 + - + -
159A ARG* 3.1 7.4 + - - +
161A ASN* 1.3 77.0 - - + +
163A ILE* 1.3 61.1 + - - +
165A GLU* 3.3 8.5 + - + +
166A LEU* 3.0 25.3 + - - +
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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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138A LEU* 3.7 17.5 - - + -
159A ARG* 2.9 39.6 + - + +
160A MET* 3.6 25.1 - - + +
162A TYR* 1.3 74.3 - - - +
164A LYS* 1.3 67.2 + - - +
166A LEU* 3.1 16.4 + - - +
167A ARG* 3.1 11.6 + - - +
184A PHE* 4.0 20.4 - - + -
244A PHE* 3.7 25.4 - - + -
249A GOL 3.2 31.5 + - - +
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Residues in contact with LYS 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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160A MET* 2.8 38.8 + - + +
161A ASN* 3.4 11.9 - - - +
163A ILE* 1.3 78.1 - - - +
165A GLU* 1.3 62.3 + - - +
167A ARG* 3.2 7.8 + - - +
168A ARG* 3.0 34.4 + - - +
249A GOL 3.0 40.4 - - - +
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Residues in contact with GLU 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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0A PHE 5.4 0.7 + - - -
1A LEU* 3.5 39.3 + - + +
2A ILE* 3.8 23.9 + - + +
5A LEU* 5.0 1.6 - - + -
134A CYS* 3.6 19.0 - - - -
161A ASN 2.9 13.9 + - - +
162A TYR* 3.5 14.8 - - + +
163A ILE 3.2 0.2 - - - -
164A LYS* 1.3 76.8 - - - +
166A LEU* 1.3 62.4 + - - +
168A ARG* 3.0 51.6 + - - +
169A ALA* 2.9 22.5 + - - +
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Residues in contact with LEU 166 (chain A).
Click here for Legend to table.
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Specific contacts
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Residue Dist Surf HB Arom Phob DC
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131A GLU* 3.9 24.0 - - + +
134A CYS* 3.9 24.2 - - + -
135A MET* 4.0 14.6 - - + -
138A LEU* 4.0 21.3 - - + -
162A TYR 3.0 12.5 + - - +
163A ILE* 3.1 10.7 + - - +
165A GLU* 1.3 78.0 - - - +
167A ARG* 1.3 57.6 + - - +
169A ALA* 3.1 3.4 + - + +
170A ILE* 2.8 40.3 + - + +
184A PHE* 4.4 20.6 - - + -
187A LEU* 4.2 17.5 - - + -
188A THR* 4.6 10.1 - - + -
191A LEU* 4.9 1.1 - - + -
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Residues in contact with ARG 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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163A ILE 3.1 11.3 + - - +
164A LYS* 3.2 8.9 + - - +
166A LEU* 1.3 80.0 - - - +
168A ARG* 1.3 57.2 + - - +
170A ILE* 3.3 11.6 + - + +
171A ALA* 2.9 29.5 + - - +
180A ASN* 4.7 2.9 + - - +
181A TRP* 4.2 23.6 - - - +
184A PHE* 3.3 63.8 - - + +
249A GOL 2.9 49.5 + - - +
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Residues in contact with ARG 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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0A PHE 5.4 6.2 - - - +
1A LEU* 5.2 3.6 - - - +
2A ILE* 6.1 1.3 - - - -
161A ASN 5.8 0.2 + - - -
164A LYS* 3.0 25.4 + - - +
165A GLU* 3.0 44.0 + - - +
167A ARG* 1.3 76.1 - - - +
169A ALA* 1.3 63.8 + - - +
171A ALA* 3.1 23.5 + - - +
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Residues in contact with ALA 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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2A ILE* 5.6 0.9 - - + -
128A THR* 5.1 2.9 + - - +
130A GLU* 3.9 50.0 - - + +
131A GLU* 4.1 16.0 - - + +
134A CYS* 4.4 5.2 - - - -
165A GLU* 2.9 12.7 + - - +
166A LEU 3.1 8.7 + - - +
168A ARG* 1.3 77.3 - - - +
170A ILE* 1.3 61.5 + - - +
171A ALA 4.3 3.3 - - - -
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Residues in contact with ILE 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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131A GLU* 4.0 9.1 - - - +
166A LEU* 2.8 29.6 + - + +
167A ARG* 3.4 15.5 - - + +
169A ALA* 1.3 78.6 - - - +
171A ALA* 1.3 59.9 + - - +
175A ASN* 4.7 3.8 + - - -
180A ASN* 3.8 28.7 - - + +
183A ARG* 3.7 24.7 - - + +
184A PHE* 3.7 36.8 - - + +
187A LEU* 3.9 26.5 - - + -
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Residues in contact with ALA 171 (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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167A ARG 2.9 15.6 + - - +
168A ARG* 3.1 15.8 + - - +
169A ALA 4.3 2.9 - - - -
170A ILE* 1.3 81.3 - - - +
175A ASN* 4.0 17.5 + - - +
180A ASN* 3.9 23.6 - - - +
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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