Contacts of the helix formed by residues 144 - 159 (chain A) in PDB entry 4EZJ
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 144 (chain A).
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Specific contacts
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Residue Dist Surf HB Arom Phob DC
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143A MET* 1.4 71.6 - - - +
145A GLU* 1.4 56.9 + - - +
146A GLU* 4.2 5.2 - - - -
147A SER* 2.9 28.3 + - - -
148A GLN* 2.8 33.9 + - - +
319A ARG* 5.3 1.5 + - - -
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Residues in contact with GLU 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 MET 3.7 5.1 + - - +
144A SER* 1.4 73.5 - - - +
146A GLU* 1.4 55.4 + - - +
148A GLN* 3.6 16.6 - - - +
149A ALA* 3.2 23.6 + - - +
152A ARG* 3.5 10.0 + - - +
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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 SER* 3.1 5.1 - - - -
145A GLU* 1.4 75.7 - - - +
147A SER* 1.4 60.3 + - - +
148A GLN 3.4 0.2 - - - -
149A ALA* 3.6 9.0 + - + +
150A PHE* 3.0 22.9 + - - +
153A GLN* 5.6 3.6 + - - -
319A ARG* 2.7 40.1 + - - +
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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 MET* 5.8 1.3 - - - -
144A SER* 2.9 31.2 + - - -
146A GLU* 1.4 75.3 - - - +
148A GLN* 1.4 59.5 + - - +
150A PHE* 3.3 8.9 + - - +
151A GLN* 3.1 27.0 + - - +
319A ARG* 3.3 19.6 + - - +
722A ARG* 5.6 3.3 + - - -
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Residues in contact with GLN 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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143A MET* 4.5 20.7 - - + +
144A SER 2.8 14.6 + - - +
145A GLU* 3.6 21.9 + - - +
147A SER* 1.4 75.9 - - - +
149A ALA* 1.4 60.3 + - - +
151A GLN* 3.4 7.2 + - - +
152A ARG* 3.3 49.9 + - - +
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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
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145A GLU 3.2 15.8 + - - +
146A GLU* 3.6 13.7 - - + +
147A SER 3.3 0.2 - - - -
148A GLN* 1.4 76.9 - - - +
150A PHE* 1.4 56.9 + - - +
152A ARG* 3.3 23.2 + - - +
153A GLN* 3.0 34.4 + - - +
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Residues in contact with PHE 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* 3.0 19.5 + - - +
147A SER* 3.3 10.5 + - - +
149A ALA* 1.4 77.2 - - - +
151A GLN* 1.3 56.1 + - - +
153A GLN* 3.4 23.2 - - - +
154A LEU* 3.1 55.0 + - + +
319A ARG* 3.6 46.2 - - + +
722A ARG* 3.6 45.5 - - + -
729A LEU* 3.8 27.6 - - + -
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Residues in contact with GLN 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 3.1 14.5 + - - +
148A GLN* 3.4 7.2 + - - +
149A ALA 3.3 0.6 - - - -
150A PHE* 1.3 73.5 - - - +
152A ARG* 1.4 54.4 + - - +
153A GLN 3.2 0.4 - - - -
154A LEU* 3.3 16.1 + - - +
155A THR* 2.7 49.2 + - - +
158A ILE* 5.2 1.4 - - - +
161A ASP* 4.7 2.6 + - - +
162A VAL* 4.0 10.1 - - - +
163A THR* 3.7 20.6 - - + +
177A ARG* 3.0 13.2 + - - -
718A GLU* 2.9 18.7 + - - +
722A ARG* 2.7 26.6 + - - +
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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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145A GLU* 3.5 12.3 + - - +
148A GLN* 3.3 30.4 + - - +
149A ALA* 3.3 39.3 - - - +
151A GLN* 1.4 71.5 - - + +
153A GLN* 1.4 64.8 + - - +
155A THR* 3.8 8.7 - - - -
156A ALA* 3.4 19.1 + - - +
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Residues in contact with GLN 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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146A GLU* 5.6 4.0 + - - -
149A ALA* 3.0 18.4 + - - +
150A PHE* 3.4 30.0 - - - +
152A ARG* 1.4 71.9 - - - +
154A LEU* 1.4 68.4 + - + +
156A ALA* 3.0 10.2 + - - +
157A LEU* 3.0 30.7 + - + +
729A LEU* 4.9 15.4 - - - +
730A HIS* 5.6 5.2 + - - -
733A THR* 4.9 13.3 + - + +
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Residues in contact with LEU 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 PHE* 3.1 45.2 + - + +
151A GLN* 3.6 13.9 - - - +
153A GLN* 1.4 79.9 - - + +
155A THR* 1.4 51.8 + - - +
157A LEU* 3.0 9.4 + - + +
158A ILE* 2.8 47.4 + - + +
718A GLU* 3.9 11.7 - - + +
721A LEU* 3.8 26.7 - - + -
722A ARG* 3.7 43.7 - - + +
729A LEU* 4.5 11.0 - - + -
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Residues in contact with THR 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 GLN* 2.7 34.8 + - - +
152A ARG* 3.8 9.4 - - - -
153A GLN 3.3 0.2 - - - -
154A LEU* 1.4 70.0 - - - +
156A ALA* 1.4 53.7 + - - +
158A ILE* 3.3 1.5 + - - +
159A GLY* 2.8 32.7 + - - -
160A TYR 3.5 24.9 + - - +
161A ASP* 3.7 35.3 + - + +
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Residues in contact with ALA 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 3.4 10.1 + - - +
153A GLN* 3.0 10.2 + - - +
155A THR* 1.4 75.9 - - - +
157A LEU* 1.3 67.1 + - + +
159A GLY* 4.0 2.9 + - - +
700A ARG* 3.2 18.0 + - - -
736A VAL* 3.9 8.5 - - + +
740A GLU* 4.2 8.5 - - - +
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Residues in contact with LEU 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 GLN* 3.0 21.9 + - + +
154A LEU* 3.0 14.4 + - + +
156A ALA* 1.3 78.4 - - + +
158A ILE* 1.3 53.0 + - - +
696A PHE* 3.7 10.9 - - + -
700A ARG* 2.6 33.0 + - - +
721A LEU* 3.8 17.3 - - + -
729A LEU* 4.0 31.6 - - + +
732A PHE* 3.9 10.3 - - + -
733A THR* 3.7 44.0 - - + +
736A VAL* 3.8 18.2 - - + -
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Residues in contact with ILE 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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151A GLN* 5.2 2.2 - - - +
154A LEU* 2.8 34.9 + - + +
155A THR* 3.8 3.6 - - - +
157A LEU* 1.3 76.8 - - - +
159A GLY* 1.3 56.4 + - - +
160A TYR 3.6 21.5 - - - +
162A VAL* 5.0 3.8 - - + -
700A ARG* 3.7 18.8 + - - +
703A ILE* 3.6 26.7 - - + +
704A ALA* 5.4 1.2 + - - +
714A ALA* 3.8 25.8 - - + +
717A LEU* 3.6 22.9 - - + -
718A GLU* 3.8 35.0 - - + +
721A LEU* 3.8 8.5 - - + -
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Residues in contact with GLY 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 THR 2.8 12.7 + - - -
156A ALA* 4.0 3.5 + - - -
157A LEU 3.7 1.2 - - - -
158A ILE* 1.3 73.7 - - - +
160A TYR* 1.3 65.8 + - - +
700A ARG* 4.4 10.5 - - - -
703A ILE* 4.2 9.2 - - - +
704A ALA* 5.6 3.5 - - - -
710A GLN* 5.3 0.7 + - - -
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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
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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