Contacts of the helix formed by residues 137 - 158 (chain A) in PDB entry 3ES3
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 TYR 137 (chain A).
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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27A GLU* 3.3 26.7 - - - -
65A HIS* 2.5 50.0 + + + -
68A LYS* 3.6 8.9 - - + +
69A LEU* 3.5 28.7 + - + +
114A LEU* 3.9 25.8 - - + -
132A PHE* 3.6 31.2 - + - -
133A ILE* 2.9 20.1 + - + +
135A THR 3.6 1.4 - - - -
136A HIS* 1.3 104.0 - - + +
138A LEU* 1.3 66.7 + - - +
139A ASN 3.3 1.1 - - - +
140A CYS* 3.2 6.7 + - - +
141A GLN* 2.9 31.0 + - + +
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Residues in contact with LEU 138 (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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111A ASN* 4.1 9.9 - - - +
114A LEU* 3.6 31.9 - - + -
115A LEU* 3.8 32.8 - - + -
118A HIS* 3.9 29.2 - - + -
133A ILE* 3.1 21.5 + - + +
134A GLU* 4.1 11.0 - - + +
137A TYR* 1.3 77.2 - - - +
139A ASN* 1.3 66.0 + - - +
141A GLN* 3.1 13.2 + - - +
142A VAL* 3.2 19.8 + - - +
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Residues in contact with ASN 139 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
134A GLU* 2.7 27.5 + - - +
135A THR* 3.8 15.9 + - - +
137A TYR 3.3 0.4 - - - -
138A LEU* 1.3 79.3 - - - +
140A CYS* 1.3 63.4 + - - +
141A GLN 3.2 1.0 + - - -
142A VAL* 3.4 14.5 + - - +
143A CYS* 3.5 15.8 + - - -
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Residues in contact with CYS 140 (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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65A HIS* 4.7 8.9 - - + +
135A THR 5.6 3.1 + - - -
136A HIS 5.0 0.9 - - - +
137A TYR* 3.2 10.2 + - - +
139A ASN* 1.3 80.5 - - - +
141A GLN* 1.3 59.8 + - - +
142A VAL 3.6 0.2 - - - -
143A CYS* 4.0 14.6 - - - +
144A ALA* 3.4 22.2 + - - +
732A AU 2.9 29.6 - - - -
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Residues in contact with GLN 141 (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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27A GLU* 5.0 1.0 - - - +
62A GLU* 3.9 12.6 - - - +
65A HIS* 5.3 7.8 + - + -
107A GLU* 2.7 50.0 + - - +
110A VAL* 4.1 7.8 - - - +
111A ASN* 3.6 24.4 - - - +
114A LEU* 3.6 25.1 - - + +
137A TYR* 2.9 24.6 + - + +
138A LEU 3.1 5.3 + - - +
140A CYS* 1.3 80.4 - - - +
142A VAL* 1.3 66.0 + - - +
144A ALA* 3.9 3.0 - - - +
145A ILE* 3.1 32.6 + - - +
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Residues in contact with VAL 142 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
111A ASN* 5.3 9.0 - - - +
138A LEU 3.2 13.8 + - - +
139A ASN* 3.4 9.6 + - - +
141A GLN* 1.3 73.4 - - - +
143A CYS* 1.3 68.7 + - - +
145A ILE* 3.2 10.3 + - + +
146A LYS* 3.1 21.6 + - + +
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Residues in contact with CYS 143 (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 ASN 3.5 12.6 + - - +
140A CYS* 4.0 16.8 - - + +
141A GLN 3.3 0.2 - - - -
142A VAL* 1.3 80.2 - - - +
144A ALA* 1.3 65.9 + - - +
146A LYS* 3.0 7.5 + - - +
147A CYS* 2.9 29.4 + - - +
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Residues in contact with ALA 144 (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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58A GLN* 5.5 6.7 - - - +
107A GLU* 4.2 24.2 - - + +
140A CYS 3.4 15.7 + - - +
141A GLN* 3.9 5.6 - - - +
142A VAL 3.4 0.6 - - - -
143A CYS* 1.3 78.3 - - - +
145A ILE* 1.3 56.9 + - - +
147A CYS* 3.2 10.7 + - - +
148A LEU* 3.0 35.0 + - + +
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Residues in contact with ILE 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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104A LEU* 3.6 21.4 - - + +
107A GLU* 4.0 25.4 - - + +
108A LYS* 4.3 21.8 - - + -
111A ASN* 3.6 36.6 - - + +
141A GLN* 3.1 23.1 + - - +
142A VAL* 3.6 7.4 - - + +
144A ALA* 1.3 74.5 - - - +
146A LYS* 1.3 61.2 + - - +
148A LEU* 3.5 0.6 + - - -
149A GLY* 2.9 24.6 + - - -
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Residues in contact with LYS 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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142A VAL* 3.1 12.3 + - + +
143A CYS* 3.0 9.4 + - - +
145A ILE* 1.3 74.1 - - - +
147A CYS* 1.3 67.8 + - - +
149A GLY* 3.7 2.0 - - - -
150A ASP* 2.9 61.1 + - - +
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Residues in contact with CYS 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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54A TYR* 4.9 5.6 - - - +
143A CYS* 2.9 19.7 + - - +
144A ALA* 3.4 12.1 - - - +
146A LYS* 1.3 80.2 - - - +
148A LEU* 1.3 64.0 + - - +
150A ASP* 3.1 7.8 + - - +
151A HIS* 3.1 40.1 + - + +
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Residues in contact with LEU 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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34A TYR* 4.3 4.5 - - + +
54A TYR* 3.4 28.0 - - + +
58A GLN* 6.1 0.9 - - + -
100A MET* 3.7 24.0 - - - +
103A ALA* 3.6 44.2 - - + +
104A LEU* 3.6 18.8 - - + +
107A GLU* 3.7 21.5 - - + -
144A ALA* 3.0 18.8 + - + +
147A CYS* 1.3 73.1 - - - +
149A GLY* 1.3 66.9 + - - +
151A HIS* 3.0 5.5 + - - +
152A VAL* 3.0 29.5 + - - +
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Residues in contact with GLY 149 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
104A LEU* 4.2 16.5 - - - +
145A ILE 2.9 17.7 + - - -
146A LYS* 3.7 2.9 - - - -
147A CYS 3.3 0.2 - - - -
148A LEU* 1.3 77.5 - - - +
150A ASP* 1.3 64.1 + - - +
152A VAL* 3.4 4.6 + - - +
153A THR* 3.1 25.2 + - - -
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Residues in contact with ASP 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 LYS* 2.9 57.1 + - - +
147A CYS* 3.4 9.6 - - - +
149A GLY* 1.3 77.3 - - - +
151A HIS* 1.3 67.2 + - + +
153A THR* 2.9 9.5 + - - -
154A ASN* 2.9 36.1 + - - +
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Residues in contact with HIS 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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54A TYR* 3.5 28.5 + - - -
100A MET* 3.4 40.6 - - + -
147A CYS* 3.1 27.3 + - + +
148A LEU* 3.0 6.4 + - - +
150A ASP* 1.3 80.2 - - + +
152A VAL* 1.3 57.7 + - - +
154A ASN* 3.3 3.6 + - - +
155A LEU* 2.9 37.8 + - + +
170A PHE* 3.9 22.0 - + + -
174A THR* 4.4 19.7 - - + +
175A LEU* 4.4 4.2 - - + +
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Residues in contact with VAL 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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97A LEU* 4.0 9.6 - - + +
100A MET* 3.8 32.3 - - + +
101A GLU* 3.9 17.9 - - + -
104A LEU* 4.5 12.8 - - + -
148A LEU 3.0 19.4 + - - +
149A GLY* 3.6 8.3 - - - +
151A HIS* 1.3 76.0 - - - +
153A THR* 1.3 61.1 + - - +
155A LEU* 4.7 1.8 - - - -
156A ARG* 3.2 62.5 + - - +
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Residues in contact with THR 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 GLY 3.1 13.9 + - - -
150A ASP* 2.9 13.1 + - - +
152A VAL* 1.3 79.3 - - - +
154A ASN* 1.3 66.1 + - - +
156A ARG* 3.9 11.1 + - - +
157A LYS* 3.3 41.3 + - + +
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Residues in contact with ASN 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 ASP* 2.9 29.9 + - - +
151A HIS* 3.8 2.2 + - - +
153A THR* 1.3 79.6 - - - +
155A LEU* 1.3 63.6 + - - +
157A LYS* 3.4 4.1 + - - +
158A MET* 2.9 36.9 + - - +
170A PHE* 3.7 25.9 - - + -
174A THR* 5.5 4.1 + - - +
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Residues in contact with LEU 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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51A PHE* 4.2 6.7 - - + -
97A LEU* 4.0 29.8 - - + +
100A MET* 4.1 19.7 - - + -
151A HIS 2.9 20.8 + - - +
152A VAL* 4.2 3.1 - - - +
154A ASN* 1.3 77.6 - - - +
156A ARG* 1.3 62.9 + - - +
158A MET* 3.1 10.7 + - - +
159A GLY 3.4 0.2 + - - -
160A ALA* 3.0 41.6 + - + +
166A ALA* 4.7 1.3 - - + +
167A GLU* 4.2 23.1 - - + +
170A PHE* 3.8 44.2 - - + -
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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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97A LEU* 4.3 15.4 - - + +
101A GLU* 3.1 24.7 + - - +
152A VAL* 3.2 41.8 + - - +
153A THR* 3.9 11.5 + - - +
155A LEU* 1.3 75.8 - - - +
157A LYS* 1.3 61.2 + - + +
159A GLY* 2.8 23.4 + - - -
160A ALA 3.8 11.5 + - - +
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Residues in contact with LYS 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 THR* 3.3 29.4 + - + +
154A ASN* 3.4 4.9 + - - +
156A ARG* 1.3 80.5 - - + +
158A MET* 1.3 59.7 + - + +
159A GLY* 3.3 1.0 + - - -
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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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154A ASN* 2.9 29.2 + - + +
155A LEU* 3.5 7.9 - - - +
156A ARG 2.9 1.6 + - - -
157A LYS* 1.3 78.5 - - + +
159A GLY* 1.3 57.5 + - - +
160A ALA 3.5 0.4 - - - -
163A SER* 4.3 3.6 + - - -
166A ALA* 3.3 39.6 - - + +
169A LEU* 4.1 22.9 - - + -
170A PHE* 4.0 32.1 - - - +
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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