Contacts of the helix formed by residues 131 - 149 (chain A) in PDB entry 3CWR
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 GLY 131 (chain A).
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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68A VAL* 3.3 17.5 - - - -
72A ILE* 4.3 9.0 - - - +
101A VAL* 6.0 0.7 - - - -
127A TYR 3.3 12.2 + - - -
128A ASN 3.7 1.0 + - - -
129A ALA 3.5 1.8 - - - -
130A ASN* 1.3 79.2 - - - +
132A ILE* 1.3 58.9 + - - -
133A GLU 3.1 2.7 - - - -
134A ARG* 2.8 28.6 + - - +
135A SER* 3.2 12.1 + - - -
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Residues in contact with ILE 132 (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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72A ILE* 5.1 0.8 - - - +
97A ILE* 3.9 27.4 - - + -
101A VAL* 4.5 22.1 - - + +
128A ASN* 4.8 8.4 + - - +
131A GLY* 1.3 70.4 - - - -
133A GLU* 1.3 56.2 + - + +
135A SER* 3.1 6.4 + - - -
136A ARG* 2.7 54.0 + - - +
166A LEU* 4.2 22.7 - - + -
170A ILE* 4.5 10.5 - - + -
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Residues in contact with GLU 133 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
128A ASN* 3.2 44.4 + - - +
129A ALA* 3.7 20.5 - - - +
131A GLY 3.1 0.2 - - - -
132A ILE* 1.3 84.4 - - + +
134A ARG* 1.3 62.0 + - - +
136A ARG* 3.7 23.2 + - - +
137A ARG* 3.0 41.9 + - - +
129B ALA* 5.7 1.7 - - - +
130B ASN* 5.2 8.7 + - - +
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Residues in contact with ARG 134 (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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69A GLU* 2.8 36.7 + - - +
72A ILE* 3.8 23.5 - - + +
73A ALA* 5.1 5.9 - - - +
129A ALA 3.2 24.0 - - - +
130A ASN* 3.2 26.4 + - - +
131A GLY 2.8 14.6 + - - +
133A GLU* 1.3 72.8 - - - +
135A SER* 1.3 64.4 + - - +
137A ARG* 3.2 24.3 + - - +
138A GLU* 3.0 29.2 + - + +
137B ARG* 3.4 43.9 - - - +
141B ARG* 5.0 3.0 - - - +
208B SO4 3.6 13.0 + - - +
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Residues in contact with SER 135 (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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72A ILE* 3.4 33.1 + - - +
75A ILE* 4.7 2.1 - - - +
76A PHE* 4.2 7.4 - - - -
97A ILE* 4.2 32.9 - - - +
131A GLY 3.2 1.9 + - - -
132A ILE* 3.1 14.9 + - - +
134A ARG* 1.3 79.0 - - - +
136A ARG* 1.3 57.7 + - - +
138A GLU* 3.3 7.2 + - - +
139A LEU* 2.8 32.2 + - - +
166A LEU* 4.5 1.6 - - - -
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Residues in contact with ARG 136 (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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132A ILE* 2.7 40.3 + - - +
133A GLU* 3.7 25.1 + - - +
135A SER* 1.3 72.3 - - - +
137A ARG* 1.3 57.1 + - - +
139A LEU* 3.3 2.2 + - - +
140A ALA* 2.8 32.1 + - + +
159A GLU 5.0 2.9 - - - +
162A ALA* 3.8 15.9 - - + +
163A ASP* 4.1 38.8 + - - +
166A LEU* 3.8 20.1 - - + +
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Residues in contact with ARG 137 (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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129A ALA 4.7 3.2 + - - -
133A GLU* 3.0 41.5 + - - +
134A ARG* 3.2 28.7 + - - +
136A ARG* 1.3 76.6 - - - +
138A GLU* 1.3 62.6 + - - +
140A ALA* 3.4 7.1 + - - +
141A ARG* 3.1 44.1 + - + +
69B GLU* 4.7 12.0 + - - -
129B ALA 5.4 1.0 + - - -
130B ASN* 5.0 5.9 + - - -
134B ARG* 3.4 37.9 - - - +
137B ARG* 4.1 3.0 - - - +
208B SO4 2.8 29.9 + - - +
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Residues in contact with GLU 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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76A PHE* 3.3 53.4 - - + +
77A PRO* 5.5 0.5 - - - +
134A ARG* 3.0 20.4 + - + +
135A SER* 3.7 1.1 - - - +
137A ARG* 1.3 75.3 - - - +
139A LEU* 1.3 63.8 + - - +
141A ARG* 2.5 39.8 + - - +
142A TRP* 3.1 22.3 + - - +
141B ARG* 3.5 23.8 + - - +
208B SO4 4.0 6.1 - - - +
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Residues in contact with LEU 139 (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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76A PHE* 3.7 10.1 - - + -
90A LEU* 3.7 26.0 - - + -
93A ILE* 4.0 19.1 - - + -
94A VAL* 4.5 9.6 - - + -
97A ILE* 4.6 3.4 - - + -
135A SER 2.8 18.5 + - - +
136A ARG 3.7 3.6 - - - +
138A GLU* 1.3 75.0 - - - +
140A ALA* 1.3 59.7 + - - +
142A TRP* 3.2 8.4 + - + +
143A LEU* 2.8 38.6 + - + +
162A ALA* 4.0 13.5 - - + +
165A LEU* 4.5 8.1 - - + -
166A LEU* 3.8 37.2 - - + -
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Residues in contact with ALA 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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136A ARG* 2.8 18.7 + - + +
137A ARG* 3.7 8.5 - - + +
139A LEU* 1.3 75.3 - - - +
141A ARG* 1.3 57.9 + - + +
143A LEU* 3.4 1.9 + - - -
144A ASP* 2.9 30.9 + - - +
158A ALA* 3.5 8.8 - - - +
159A GLU* 3.7 40.2 - - + +
162A ALA* 3.8 9.8 - - + +
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Residues in contact with ARG 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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137A ARG* 3.1 31.6 + - + +
138A GLU* 2.5 41.0 + - - +
140A ALA* 1.3 77.6 - - + +
142A TRP* 1.3 62.7 + - - +
144A ASP* 3.3 6.4 + - - +
145A GLN* 3.1 37.1 + - - +
77B PRO* 6.6 0.2 - - - -
134B ARG* 4.4 3.2 - - - +
138B GLU* 3.3 24.8 + - - -
141B ARG* 3.3 16.3 - - - +
208B SO4 3.1 28.1 + - - -
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Residues in contact with TRP 142 (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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76A PHE* 4.4 11.0 - + + -
79A PHE* 4.9 11.3 - - + +
80A GLU 3.1 23.4 + - - -
81A ALA* 4.9 1.6 - - - -
83A PRO* 4.1 6.3 - - + -
86A ALA 3.4 24.5 - - - -
89A ALA* 3.8 20.4 - - + -
90A LEU* 3.8 31.2 - - + -
93A ILE* 3.7 22.5 - - + +
138A GLU 3.1 11.2 + - - +
139A LEU* 3.6 8.5 - - + +
141A ARG* 1.3 76.8 - - - +
143A LEU* 1.3 82.6 + - + +
145A GLN* 3.1 17.7 + - - +
146A GLN* 3.0 60.5 + - + +
152A LEU* 4.1 2.9 - - + -
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Residues in contact with LEU 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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90A LEU* 4.1 21.8 - - + -
139A LEU* 2.8 34.0 + - + +
140A ALA 3.7 3.6 - - - +
142A TRP* 1.3 91.7 - - + +
144A ASP* 1.3 63.4 + - - +
146A GLN* 3.2 3.4 + - - +
147A ALA* 2.9 24.9 + - - +
152A LEU* 4.3 10.0 - - + +
154A LEU* 4.0 15.9 - - + +
158A ALA* 3.9 13.0 - - + +
161A VAL* 3.9 17.3 - - + +
162A ALA* 3.8 33.4 - - + +
165A LEU* 5.1 2.9 - - + -
201A ILE* 5.9 0.2 - - + -
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Residues in contact with ASP 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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140A ALA 2.9 17.6 + - - +
141A ARG* 3.6 7.4 - - - +
142A TRP 3.2 0.2 - - - -
143A LEU* 1.3 76.6 - - - +
145A GLN* 1.3 58.6 + - + +
147A ALA* 3.3 6.4 + - - +
148A SER* 2.9 44.0 + - - -
158A ALA* 3.6 18.4 + - + +
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Residues in contact with GLN 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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81A ALA* 4.7 15.8 - - - +
141A ARG* 3.1 27.9 + - - +
142A TRP* 3.1 26.7 + - - +
144A ASP* 1.3 76.6 - - + +
146A GLN* 1.3 71.0 + - - +
148A SER* 3.4 5.6 + - - -
149A ALA* 3.1 25.5 + - - +
151A ARG* 4.4 2.4 + - - +
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Residues in contact with GLN 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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81A ALA* 3.1 20.1 + - - +
83A PRO* 3.4 8.5 - - - +
86A ALA* 4.5 1.6 - - + -
142A TRP* 3.0 72.4 + - + +
143A LEU 3.2 3.3 + - - +
145A GLN* 1.3 81.9 - - - +
147A ALA* 1.3 59.4 + - - +
149A ALA* 3.6 1.0 + - - -
150A GLY 3.2 2.1 + - - -
151A ARG* 2.7 66.8 + - + +
152A LEU* 3.1 26.0 + - + +
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Residues in contact with ALA 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 LEU 2.9 16.8 + - - +
144A ASP* 3.7 8.5 - - - +
146A GLN* 1.3 73.1 - - - +
148A SER* 1.3 68.1 + - - +
150A GLY* 2.9 15.4 + - - -
152A LEU 3.3 21.0 + - - +
153A PRO* 4.6 3.8 - - + +
154A LEU* 4.1 21.1 - - + +
158A ALA* 5.8 0.4 - - + -
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Residues in contact with SER 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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144A ASP* 2.9 30.6 + - - -
145A GLN* 3.9 6.5 - - - -
147A ALA* 1.3 78.0 - - - +
149A ALA* 1.3 59.6 + - - +
150A GLY 3.5 0.5 + - - -
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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 GLN 3.1 18.3 + - - +
146A GLN 4.1 2.7 - - - +
147A ALA 3.1 0.2 - - - -
148A SER* 1.3 76.0 - - - +
150A GLY* 1.3 58.5 + - - +
151A ARG* 3.2 40.7 + - - +
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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