Contacts of the helix formed by residues 137 - 156 (chain A) in PDB entry 4CGS
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 ASP 137 (chain A).
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Specific contacts
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Residue Dist Surf HB Arom Phob DC
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50A HIS* 4.1 14.5 + - - -
57A ARG* 4.9 7.6 + - - +
135A TYR 3.7 2.2 + - - +
136A LEU* 1.3 74.7 - - - +
138A GLU* 1.3 65.0 + - - +
139A VAL* 3.2 10.6 + - - +
140A GLN* 2.9 42.9 + - - +
141A ARG* 2.8 24.4 + - - +
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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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137A ASP* 1.3 76.3 - - - +
139A VAL* 1.3 59.1 + - + +
141A ARG* 3.4 29.3 + - - +
142A GLN* 3.0 44.2 + - + +
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Residues in contact with VAL 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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50A HIS* 4.1 18.2 - - + +
137A ASP* 3.2 9.3 + - - +
138A GLU* 1.3 77.3 - - + +
140A GLN* 1.3 58.4 + - - +
142A GLN* 3.3 7.1 + - - +
143A ASP* 2.9 46.7 + - - +
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Residues in contact with GLN 140 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
45A HIS 4.9 2.5 - - - -
46A ILE* 2.9 35.3 + - - +
50A HIS* 3.5 23.5 - - + +
57A ARG* 4.3 9.0 + - - +
58A TYR* 3.0 28.9 + - - -
135A TYR* 4.4 1.9 - - - +
136A LEU* 3.5 22.4 - - + +
137A ASP* 2.9 49.1 + - - +
139A VAL* 1.3 76.5 - - - +
141A ARG* 1.3 62.0 + - - +
143A ASP* 4.5 3.8 - - - +
144A VAL* 2.9 31.4 + - - +
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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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128A MET* 3.8 36.4 - - + +
133A ARG* 3.4 26.1 + - - +
134A GLU 5.5 0.2 + - - -
136A LEU* 2.8 45.6 + - + -
137A ASP* 2.8 29.6 + - - +
138A GLU* 3.5 33.4 - - + +
140A GLN* 1.3 71.8 - - - +
142A GLN* 1.3 54.1 + - + +
144A VAL* 4.8 0.7 - - - -
145A THR* 2.7 43.2 + - - +
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Residues in contact with GLN 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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138A GLU* 3.0 32.0 + - + +
139A VAL* 3.6 7.4 - - - +
141A ARG* 1.3 78.0 - - + +
143A ASP* 1.3 60.1 + - - +
145A THR* 3.6 8.7 + - - -
146A ASN* 2.9 55.4 + - - +
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Residues in contact with ASP 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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45A HIS* 3.8 39.4 + - + +
48A ASP* 4.9 9.3 - - - +
50A HIS* 4.9 3.3 + - - -
139A VAL* 2.9 36.4 + - - +
140A GLN* 3.3 2.8 + - - +
142A GLN* 1.3 80.4 - - - +
144A VAL* 1.3 63.0 + - - +
146A ASN* 4.1 6.9 + - - +
147A PHE* 3.2 22.5 + - - +
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Residues in contact with VAL 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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42A VAL* 4.1 23.3 - - + +
45A HIS* 3.9 22.2 - - + -
46A ILE* 4.0 25.4 - - + +
122A VAL* 4.4 12.6 - - + -
128A MET* 5.7 0.7 - - + -
136A LEU* 4.6 9.9 - - + -
140A GLN 2.9 22.2 + - - +
141A ARG* 4.1 2.9 - - - +
143A ASP* 1.3 77.4 - - - +
145A THR* 1.3 65.4 + - + +
147A PHE* 3.3 5.0 + - - +
148A LEU* 3.0 41.6 + - + +
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Residues in contact with THR 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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126A GLY* 3.7 23.3 - - - +
128A MET* 3.8 30.1 - - + -
141A ARG 2.7 24.9 + - - +
142A GLN* 3.2 14.2 + - - -
144A VAL* 1.3 76.8 - - + +
146A ASN* 1.3 73.9 + - - +
148A LEU* 3.2 7.5 + - + +
149A VAL* 2.9 32.2 + - - +
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Residues in contact with ASN 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 GLN* 2.9 49.4 + - - +
143A ASP* 4.1 7.4 + - - +
145A THR* 1.3 82.5 + - - +
147A PHE* 1.3 56.1 + - - +
149A VAL* 3.6 5.3 + - - +
150A THR* 2.7 34.7 + - - +
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Residues in contact with PHE 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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8A SER* 3.5 25.4 - - - -
9A ILE* 3.9 17.3 - - + -
38A ILE* 3.8 28.7 - - + -
41A THR* 3.6 37.5 - - + -
42A VAL* 4.2 12.6 - - + -
45A HIS* 3.5 28.5 - + + +
143A ASP 3.2 6.9 + - - +
144A VAL 3.6 6.1 - - - +
145A THR 3.2 0.2 - - - -
146A ASN* 1.3 76.9 - - - +
148A LEU* 1.3 70.1 + - + +
150A THR* 3.1 9.8 + - + -
151A ILE* 3.1 34.9 + - + +
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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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38A ILE* 3.6 31.4 - - + -
42A VAL* 4.0 13.0 - - + -
101A VAL* 5.0 1.1 - - + -
122A VAL* 3.8 26.9 - - + -
123A SER 3.6 21.1 - - - +
124A LEU* 3.4 17.8 - - + +
126A GLY* 4.0 15.5 - - - -
144A VAL* 3.0 33.1 + - + +
145A THR* 3.8 5.8 - - + +
147A PHE* 1.3 76.8 - - + +
149A VAL* 1.3 57.0 + - - +
151A ILE* 3.4 6.8 + - + +
152A TYR* 2.9 30.8 + - - +
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Residues in contact with VAL 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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124A LEU 4.9 0.2 - - - -
125A SER 4.1 18.6 - - - +
126A GLY* 4.4 5.8 - - - -
145A THR* 2.9 24.0 + - - +
146A ASN* 4.0 5.8 - - - +
148A LEU* 1.3 76.1 - - - +
150A THR* 1.3 60.1 + - - +
152A TYR* 4.1 8.3 - - + -
153A ASN* 2.9 47.4 + - - +
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Residues in contact with THR 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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8A SER* 3.5 19.1 - - - +
146A ASN* 2.7 20.0 + - - +
147A PHE* 3.1 13.7 + - + -
149A VAL* 1.3 79.8 - - - +
151A ILE* 1.3 57.9 + - - +
153A ASN* 3.4 3.5 + - - +
154A GLU* 3.0 26.7 + - - +
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Residues in contact with ILE 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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6A PRO* 4.1 12.1 - - + -
8A SER* 3.7 19.7 - - - +
9A ILE* 3.6 37.9 - - + -
34A ILE* 4.2 7.6 - - + -
38A ILE* 3.7 32.1 - - + -
124A LEU* 5.4 2.9 - - + +
147A PHE* 3.1 26.6 + - + +
148A LEU* 3.4 16.8 - - + +
150A THR* 1.3 73.6 - - - +
152A TYR* 1.3 58.6 + - - +
154A GLU* 3.3 4.9 + - - +
155A SER* 2.7 47.5 + - - +
164A MET* 5.5 0.2 - - + -
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Residues in contact with TYR 152 (chain A).
Click here for Legend to table.
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Specific contacts
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Residue Dist Surf HB Arom Phob DC
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104A ASP 5.6 1.1 - - - -
105A ASN* 6.0 1.9 - - - +
124A LEU* 3.3 23.6 - - + +
125A SER* 3.8 30.9 - - - -
148A LEU 2.9 19.1 + - - +
149A VAL* 3.7 7.6 - - + +
151A ILE* 1.3 78.2 - - - +
153A ASN* 1.3 76.0 + - - +
155A SER* 3.1 8.5 + - - -
156A LEU* 3.1 40.4 + - + +
161A LEU* 3.2 45.2 - - + +
165A GLN* 5.3 3.6 - - - -
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Residues in contact with ASN 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 VAL* 2.9 43.4 + - - +
150A THR* 4.0 3.8 - - - +
152A TYR* 1.3 84.1 - - - +
154A GLU* 1.3 62.2 + - - +
156A LEU* 3.5 29.7 + - - +
157A GLU* 3.7 14.9 - - - +
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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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6A PRO* 3.4 16.1 - - - +
7A LYS* 2.8 30.6 + - - +
8A SER* 2.6 41.7 + - - +
150A THR 3.0 13.8 + - - +
151A ILE* 3.6 7.9 - - - +
152A TYR 3.2 0.2 - - - -
153A ASN* 1.3 75.8 - - - +
155A SER* 1.3 64.4 + - - +
157A GLU* 3.0 24.9 + - + +
158A SER* 4.2 2.6 + - - -
160A LEU* 5.7 3.9 - - + +
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Residues in contact with SER 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 ILE* 2.7 27.0 + - - +
152A TYR* 3.1 7.8 + - - -
154A GLU* 1.3 75.3 - - - +
156A LEU* 1.3 60.4 + - - +
157A GLU 3.3 0.3 + - - -
158A SER* 3.3 16.3 + - - +
160A LEU* 3.3 26.8 - - - +
161A LEU* 3.2 36.8 + - - -
164A MET* 3.4 18.9 - - - +
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Residues in contact with LEU 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 TYR* 3.1 35.7 + - + +
153A ASN* 3.6 29.8 - - - +
154A GLU 3.2 0.4 - - - -
155A SER* 1.3 76.2 - - - +
157A GLU* 1.3 64.8 + - - +
158A SER 3.2 8.5 + - - +
161A LEU* 3.5 27.8 - - + -
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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