Contacts of the helix formed by residues 144 - 159 (chain A) in PDB entry 2P1Q
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 THR 144 (chain A).
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Specific contacts
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Residue Dist Surf HB Arom Phob DC
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142A ASP 4.0 0.4 + - - +
143A PHE* 1.3 77.7 - - - +
145A PRO* 1.4 74.5 - - - +
146A GLU* 3.6 7.6 + - - +
147A GLU* 2.8 50.8 + - - +
148A GLU* 3.0 19.9 + - - +
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Residues in contact with PRO 145 (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 PHE 3.9 2.2 - - - +
144A THR* 1.4 85.6 - - - +
146A GLU* 1.3 55.5 + - - +
148A GLU* 3.3 10.0 + - + +
149A GLU* 2.9 46.5 + - + +
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Residues in contact with GLU 146 (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 THR* 3.1 7.5 + - - +
145A PRO* 1.3 77.4 - - - +
147A GLU* 1.3 65.5 + - - +
149A GLU* 3.5 11.3 + - - +
150A GLU* 3.2 24.4 + - + +
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Residues in contact with GLU 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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142A ASP 4.1 4.2 - - - +
143A PHE* 3.7 19.3 - - + -
144A THR* 2.8 52.7 + - - +
146A GLU* 1.3 73.4 - - + +
148A GLU* 1.3 62.2 + - - +
150A GLU* 3.4 6.6 + - - +
151A VAL* 3.2 27.3 + - + +
35B LYS* 4.5 20.3 - - - +
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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
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130A PRO* 5.2 0.2 - - - +
134A ARG* 3.9 14.9 + - - -
141A ASN* 3.1 24.7 + - - -
143A PHE* 3.9 16.2 - - + +
144A THR 3.0 16.7 + - - +
145A PRO* 3.7 8.1 - - - +
147A GLU* 1.3 73.6 - - - +
149A GLU* 1.3 60.4 + - + +
151A VAL* 4.7 0.2 - - - -
152A ARG* 2.9 64.2 + - - +
32B LEU* 3.8 24.5 - - + +
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Residues in contact with GLU 149 (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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145A PRO* 2.9 39.2 + - + +
146A GLU* 3.8 8.8 + - - +
147A GLU 3.4 0.2 - - - -
148A GLU* 1.3 78.3 - - + +
150A GLU* 1.3 56.4 + - - +
152A ARG* 3.9 7.2 - - - +
153A ARG* 3.0 49.2 + - - +
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Residues in contact with GLU 150 (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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146A GLU* 3.2 11.7 + - + +
147A GLU* 3.6 11.8 - - - +
148A GLU 3.3 0.2 - - - -
149A GLU* 1.3 79.7 - - - +
151A VAL* 1.3 59.2 + - + +
153A ARG* 3.9 22.2 + - - +
154A GLU* 3.0 38.7 + - - +
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Residues in contact with VAL 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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143A PHE* 4.7 10.3 - - + -
147A GLU* 3.2 17.5 + - + +
150A GLU* 1.3 78.1 - - + +
152A ARG* 1.3 54.5 + - - +
154A GLU* 3.3 6.7 + - - +
155A ASN* 2.8 46.9 + - - +
31B SER* 4.2 7.2 - - - +
32B LEU* 3.5 30.7 - - + -
35B LYS* 5.0 3.4 - - - +
38B TYR* 3.9 35.7 - - + +
64B ARG* 4.2 1.8 - - - +
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Residues in contact with ARG 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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130A PRO* 4.1 18.2 - - - +
134A ARG* 5.6 1.0 - - - +
148A GLU* 2.9 60.6 + - - +
149A GLU* 3.9 6.5 - - - +
151A VAL* 1.3 75.3 - - - +
153A ARG* 1.3 63.2 + - - +
155A ASN* 3.6 2.5 - - + +
156A GLN* 3.0 51.7 + - + +
32B LEU* 3.9 30.6 - - + +
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Residues in contact with ARG 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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149A GLU* 3.0 37.2 + - - +
150A GLU* 3.9 25.3 + - - +
152A ARG* 1.3 77.4 - - - +
154A GLU* 1.3 58.4 + - - +
156A GLN* 5.0 1.6 - - - -
157A TRP* 2.8 91.8 + - + +
532B LYS* 3.9 31.8 - - - +
562B VAL* 4.0 10.4 - - + +
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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
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150A GLU* 3.0 27.4 + - - +
151A VAL* 3.5 7.4 - - - +
153A ARG* 1.3 79.6 - - - +
155A ASN* 1.3 63.9 + - - +
158A ALA* 3.0 29.8 + - + +
159A PHE* 3.5 17.1 - - + -
38B TYR* 4.9 1.9 + - - -
60B THR* 3.7 23.0 - - + +
64B ARG* 2.9 36.5 + - - +
562B VAL* 4.2 27.2 - - + +
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Residues in contact with ASN 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 VAL* 2.8 22.4 + - - +
152A ARG* 3.3 5.8 + - + +
154A GLU* 1.3 73.6 - - - +
156A GLN* 1.3 61.3 + - + +
159A PHE* 3.1 29.0 + - - -
160A GLU 3.6 0.2 + - - -
28B ASN* 3.0 51.3 + - + +
31B SER* 2.9 23.2 + - - -
32B LEU* 3.8 15.3 - - + +
64B ARG* 2.7 37.9 + - - -
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Residues in contact with GLN 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 ARG* 3.0 44.2 + - + +
153A ARG* 5.0 1.0 - - - -
155A ASN* 1.3 80.1 - - + +
157A TRP* 1.3 76.9 + - + +
160A GLU* 3.7 41.8 + - - +
560B ARG* 3.3 20.0 + - - +
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Residues in contact with TRP 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 ARG* 2.8 58.5 + - + +
156A GLN* 1.3 89.2 + - + +
158A ALA* 1.3 57.9 + - + +
160A GLU* 5.6 0.8 - - - +
52B ASN* 5.7 0.9 + - - +
55B ALA* 3.5 20.6 - - - +
506B GLU* 3.4 44.8 + - + -
532B LYS* 3.5 32.3 - - + -
560B ARG* 3.5 41.8 + - + +
561B THR 3.2 41.1 - - - -
562B VAL* 3.8 10.1 - - + -
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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 GLU* 3.0 20.5 + - + +
157A TRP* 1.3 79.6 - - - +
159A PHE* 1.3 71.2 + - + +
160A GLU* 3.8 2.7 - - - -
49B PHE 3.4 4.2 - - - +
50B ILE* 3.0 31.0 - - - +
51B GLY 4.7 1.5 + - - -
55B ALA* 4.5 9.2 - - - +
56B VAL* 3.6 33.0 - - + -
562B VAL* 4.8 2.5 - - + -
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Residues in contact with PHE 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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154A GLU* 3.5 35.0 - - + -
155A ASN* 3.1 13.0 + - - +
158A ALA* 1.3 84.4 - - + +
160A GLU* 1.3 60.6 + - - +
24B ASP* 3.7 17.0 - - - +
28B ASN* 3.6 10.2 + - - +
45B ARG* 4.0 15.4 + - - +
48B VAL* 4.4 7.0 - - + -
49B PHE 3.5 13.6 + - - +
50B ILE* 3.2 28.3 - - + -
56B VAL* 4.6 4.3 - - + -
60B THR* 5.1 1.3 - - + -
61B VAL* 3.6 34.8 - - + -
64B ARG* 3.8 21.5 - - - -
65B PHE* 3.6 36.8 - + - -
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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