Contacts of the helix formed by residues 131 - 149 (chain B) 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 B).
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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68B VAL* 3.3 18.8 - - - -
72B ILE* 4.2 9.3 - - - +
101B VAL* 6.1 0.4 - - - -
127B TYR 3.4 11.5 + - - -
128B ASN 3.7 1.7 + - - -
129B ALA 3.5 2.2 - - - -
130B ASN* 1.3 78.3 - - - +
132B ILE* 1.3 54.1 - - - -
133B GLU 3.0 5.6 - - - -
134B ARG* 2.8 34.5 + - - +
135B SER* 3.4 4.7 + - - -
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Residues in contact with ILE 132 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
72B ILE* 5.1 0.8 - - - +
97B ILE* 3.8 28.9 - - + -
101B VAL* 4.6 19.8 - - + +
128B ASN* 5.0 8.0 + - - +
131B GLY* 1.3 70.2 - - - -
133B GLU* 1.3 54.3 + - + +
135B SER* 3.2 7.3 + - - -
136B ARG* 2.7 55.9 + - - +
166B LEU* 4.2 20.9 - - + -
170B ILE* 4.4 12.3 - - + -
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Residues in contact with GLU 133 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
128B ASN* 3.3 33.0 + - - +
129B ALA* 4.7 7.2 - - - +
131B GLY 2.9 0.4 + - - -
132B ILE* 1.3 83.7 - - + +
134B ARG* 1.3 60.8 + - - +
136B ARG* 3.5 27.6 + - - +
137B ARG* 3.1 45.3 + - - +
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Residues in contact with ARG 134 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
137A ARG* 3.4 32.9 - - - +
141A ARG* 4.4 3.2 - - - +
69B GLU* 4.7 12.3 + - - +
72B ILE* 3.9 26.9 - - + +
73B ALA* 5.1 7.5 - - - +
129B ALA 3.3 22.0 - - - +
130B ASN* 3.7 16.5 + - - +
131B GLY 2.8 12.3 + - - +
133B GLU* 1.3 77.0 - - - +
135B SER* 1.3 61.0 + - - +
137B ARG* 3.1 17.4 + - - +
138B GLU* 2.9 54.9 + - - +
208B SO4 3.0 39.0 + - - -
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Residues in contact with SER 135 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
72B ILE* 3.4 34.8 + - - +
75B ILE* 4.6 1.2 - - - +
76B PHE* 4.1 6.8 - - - -
97B ILE* 4.2 26.5 - - - +
131B GLY 3.4 1.4 + - - -
132B ILE* 3.2 21.0 + - - -
134B ARG* 1.3 78.9 - - - +
136B ARG* 1.3 58.5 + - - +
138B GLU* 3.4 7.3 + - - +
139B LEU* 2.8 32.6 + - - +
166B LEU* 4.4 1.8 - - - -
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Residues in contact with ARG 136 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
128B ASN* 5.7 3.8 - - - +
132B ILE* 2.7 38.4 + - - +
133B GLU* 3.5 28.5 - - - +
135B SER* 1.3 78.9 - - - +
137B ARG* 1.3 57.3 + - - +
139B LEU 3.3 0.2 + - - -
140B ALA* 2.9 30.1 + - + +
159B GLU* 4.9 3.1 - - - +
162B ALA* 3.7 6.2 - - + +
163B ASP* 4.2 48.2 + - + +
166B LEU* 3.9 15.1 - - + +
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Residues in contact with ARG 137 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
69A GLU* 4.4 4.5 + - - -
130A ASN* 5.3 0.2 + - - -
134A ARG* 3.4 44.6 - - - +
137A ARG* 4.1 5.1 - - - +
129B ALA 4.8 3.0 + - - -
133B GLU* 3.1 37.9 + - - +
134B ARG* 3.1 20.8 + - - +
136B ARG* 1.3 75.6 - - - +
138B GLU* 1.3 61.9 + - - +
140B ALA* 3.2 8.2 + - + +
141B ARG* 3.1 46.9 + - + +
208B SO4 2.8 38.6 + - - +
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Residues in contact with GLU 138 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
141A ARG* 3.3 28.7 + - - -
76B PHE* 3.5 46.4 - - + +
134B ARG* 2.9 35.4 + - - +
135B SER* 3.7 0.4 - - - +
137B ARG* 1.3 74.2 - - - +
139B LEU* 1.3 65.6 + - - +
141B ARG* 3.2 27.7 + - - +
142B TRP* 3.1 21.3 + - - +
208B SO4 4.2 2.7 - - - +
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Residues in contact with LEU 139 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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76B PHE* 3.6 10.2 - - + -
90B LEU* 3.7 24.7 - - + -
93B ILE* 3.9 20.0 - - + -
94B VAL* 4.5 8.5 - - + -
97B ILE* 4.8 2.5 - - + -
135B SER 2.8 17.9 + - - +
136B ARG 3.8 3.4 - - - +
138B GLU* 1.3 76.9 - - - +
140B ALA* 1.3 58.1 + - - +
142B TRP* 3.2 9.6 + - + -
143B LEU* 2.9 40.5 + - + +
162B ALA* 4.0 15.5 - - + -
165B LEU* 4.6 6.5 - - + -
166B LEU* 3.7 35.4 - - + -
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Residues in contact with ALA 140 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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136B ARG 2.9 17.9 + - - +
137B ARG* 3.5 9.6 - - + +
138B GLU 3.2 0.2 - - - -
139B LEU* 1.3 74.9 - - - +
141B ARG* 1.3 57.8 + - + +
143B LEU* 3.2 1.9 + - - -
144B ASP* 2.9 28.1 + - - +
158B ALA* 3.4 15.9 - - + +
159B GLU* 3.7 33.7 - - + +
162B ALA* 3.9 7.1 - - + +
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Residues in contact with ARG 141 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
134A ARG* 5.0 3.0 - - - +
138A GLU* 3.5 26.4 + - - -
141A ARG* 3.3 10.1 - - - +
137B ARG* 3.1 31.0 + - + +
138B GLU* 3.3 34.7 + - - +
140B ALA* 1.3 76.7 - - + +
142B TRP* 1.3 61.2 + - - +
144B ASP* 3.2 16.0 + - - +
145B GLN* 3.2 27.3 + - - +
208B SO4 3.1 39.8 + - - -
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Residues in contact with TRP 142 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
76B PHE* 4.4 12.3 - + + -
80B GLU 3.0 21.7 + - - -
81B ALA* 4.7 2.7 - - + -
83B PRO* 4.0 6.1 - - + -
86B ALA 3.4 24.2 - - - -
89B ALA* 3.8 19.3 - - + -
90B LEU* 3.9 23.8 - - + -
93B ILE* 3.8 24.3 - - + +
138B GLU 3.1 9.6 + - - +
139B LEU* 3.6 13.0 - - + +
141B ARG* 1.3 80.1 - - - +
143B LEU* 1.3 75.9 + - + +
145B GLN* 3.1 28.8 + - - +
146B GLN* 3.2 51.1 + - + +
152B LEU* 3.8 13.9 - - + -
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Residues in contact with LEU 143 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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90B LEU* 4.0 21.5 - - + -
139B LEU* 2.9 30.1 + - + +
140B ALA 3.2 4.2 + - - +
142B TRP* 1.3 102.0 - - + +
144B ASP* 1.3 62.2 + - - +
146B GLN* 3.2 4.9 + - - +
147B ALA* 3.0 23.6 + - - +
152B LEU* 4.3 10.1 - - + +
154B LEU* 4.1 15.0 - - + +
158B ALA* 3.9 15.9 - - + +
161B VAL* 4.0 17.0 - - + -
162B ALA* 3.7 32.8 - - - +
165B LEU* 5.3 2.0 - - + -
202B ALA* 5.3 0.2 - - + -
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Residues in contact with ASP 144 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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140B ALA 2.9 11.0 + - - +
141B ARG* 3.2 11.3 + - - +
143B LEU* 1.3 75.5 - - - +
145B GLN* 1.3 58.1 + - + +
147B ALA* 3.2 9.3 + - - +
148B SER* 2.9 35.7 + - - +
154B LEU* 5.3 0.7 - - - +
158B ALA* 3.5 23.9 + - - +
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Residues in contact with GLN 145 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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81B ALA* 3.6 33.4 - - - +
141B ARG* 3.2 28.0 + - - +
142B TRP* 3.3 16.1 - - - +
144B ASP* 1.3 78.4 - - + +
146B GLN* 1.3 68.9 + - - +
148B SER* 3.2 8.2 + - - -
149B ALA* 3.1 23.4 + - - +
151B ARG* 4.6 1.8 + - - +
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Residues in contact with GLN 146 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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81B ALA 3.2 21.4 + - - -
83B PRO* 3.4 11.6 - - - +
86B ALA* 4.3 1.2 - - + +
142B TRP* 3.2 66.1 + - + +
143B LEU 3.2 4.4 + - - +
145B GLN* 1.3 81.8 + - - +
147B ALA* 1.3 60.9 + - - +
149B ALA* 3.3 1.5 + - - -
150B GLY 3.3 1.7 + - - -
151B ARG* 2.7 70.7 + - + +
152B LEU* 2.9 26.6 + - + +
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Residues in contact with ALA 147 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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143B LEU 3.0 15.9 + - - +
144B ASP* 3.6 10.1 - - - +
146B GLN* 1.3 77.5 - - - +
148B SER* 1.3 60.0 + - - +
150B GLY* 3.0 19.2 + - - -
152B LEU 3.2 24.3 + - - +
153B PRO* 4.7 5.4 - - + +
154B LEU* 4.4 15.9 - - + +
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Residues in contact with SER 148 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
144B ASP* 2.9 24.4 + - - +
145B GLN* 3.5 8.7 - - - -
147B ALA* 1.3 79.8 - - - +
149B ALA* 1.3 56.4 + - - +
150B GLY 3.1 3.0 + - - -
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Residues in contact with ALA 149 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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82B ASP* 5.3 0.2 - - - +
145B GLN 3.1 14.9 + - - +
146B GLN 3.3 3.3 + - - +
147B ALA 3.1 0.4 - - - -
148B SER* 1.3 76.8 - - - +
150B GLY* 1.3 59.6 - - - +
151B ARG* 2.9 41.0 + - - +
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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
------------------------------------------------------------
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