Contacts of the helix formed by residues 133 - 155 (chain A) in PDB entry 1GWG
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 PHE 133 (chain A).
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Specific contacts
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Residue Dist Surf HB Arom Phob DC
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23A TYR* 3.4 30.3 - + - -
61A GLY* 3.5 40.4 - - - -
64A ARG* 4.3 6.1 - - + -
65A LEU* 3.8 15.0 - - + -
110A LEU* 3.8 21.4 - - + +
128A PHE* 3.4 43.3 - + - -
129A LEU* 3.0 16.2 + - + +
130A GLU 4.4 0.4 + - - -
131A SER 3.7 0.8 - - - -
132A HIS* 1.3 99.2 - - + +
134A LEU* 1.4 60.0 + - + +
135A ASP 3.4 2.0 - - - +
136A GLU* 3.4 10.0 + - - +
137A GLU* 2.9 34.2 + - - +
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Residues in contact with LEU 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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107A ASN* 4.6 5.8 + - - +
110A LEU* 4.0 33.0 - - + +
111A LEU* 4.7 15.9 - - + -
114A HIS* 4.1 15.7 - - + +
129A LEU* 3.1 25.5 + - + +
130A GLU* 3.6 36.8 - - + +
133A PHE* 1.4 76.3 - - + +
135A ASP* 1.3 58.4 + - - +
137A GLU* 3.7 4.9 - - - +
138A VAL* 3.1 31.2 + - - +
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Residues in contact with ASP 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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130A GLU 4.3 11.0 + - - +
133A PHE 3.4 0.6 - - - +
134A LEU* 1.3 76.7 - - - +
136A GLU* 1.3 60.8 + - - +
138A VAL* 3.7 12.9 - - - +
139A LYS* 2.9 58.0 + - - +
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Residues in contact with GLU 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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23A TYR* 5.0 4.5 + - - -
57A GLU* 5.1 22.5 - - - +
58A LYS* 4.9 7.5 + - - +
61A GLY* 5.6 1.4 - - - -
64A ARG* 4.5 13.3 + - - -
132A HIS 3.6 25.3 - - - +
133A PHE* 3.4 19.1 + - - +
135A ASP* 1.3 78.0 - - - +
137A GLU* 1.3 65.8 + - - +
139A LYS* 3.5 15.8 + - - +
140A LEU* 2.9 35.5 + - + +
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Residues in contact with GLU 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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23A TYR* 3.8 10.4 + - - -
58A LYS* 3.3 13.9 + - - -
103A GLU* 2.4 52.0 - - - +
106A LEU* 4.5 3.8 - - - +
107A ASN* 3.4 42.0 - - + +
110A LEU* 3.9 6.1 - - + -
133A PHE 2.9 18.4 + - - +
134A LEU 3.7 1.6 - - - +
136A GLU* 1.3 81.0 - - - +
138A VAL* 1.3 65.2 + - - +
140A LEU* 3.3 5.1 + - - +
141A ILE* 2.9 34.1 + - + +
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Residues in contact with VAL 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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107A ASN* 5.0 11.7 - - - +
134A LEU 3.1 21.5 + - - +
135A ASP* 3.2 16.1 + - - +
137A GLU* 1.3 75.4 - - - +
139A LYS* 1.3 63.7 + - + +
141A ILE* 3.4 7.0 + - + +
142A LYS* 3.0 29.4 + - + +
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Residues in contact with LYS 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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135A ASP* 2.9 45.2 + - - +
136A GLU* 3.9 13.6 - - - +
138A VAL* 1.3 79.4 - - + +
140A LEU* 1.3 61.7 + - - +
142A LYS* 3.4 7.0 + - - +
143A LYS* 3.1 22.9 + - - +
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Residues in contact with LEU 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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50A PHE* 5.1 1.8 - - + -
54A LEU* 3.7 30.3 - - + -
57A GLU* 4.6 8.3 - - - +
58A LYS* 3.7 12.6 - - - +
103A GLU* 3.5 34.8 - - + +
136A GLU* 2.9 22.2 + - + +
137A GLU* 3.3 6.9 + - - +
139A LYS* 1.3 76.1 - - - +
141A ILE* 1.3 63.6 + - - +
143A LYS* 3.3 19.5 + - + +
144A MET* 3.0 36.9 + - + +
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Residues in contact with ILE 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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100A ILE* 4.0 16.4 - - + +
103A GLU* 3.8 28.0 - - + +
104A LYS* 4.2 19.7 - - + +
107A ASN* 3.9 28.3 - - + +
137A GLU* 2.9 34.0 + - + +
138A VAL* 3.8 5.8 - - + +
140A LEU* 1.3 76.2 - - - +
142A LYS* 1.3 57.8 + - - +
144A MET* 3.4 6.6 + - - +
145A GLY* 3.0 25.5 + - - -
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Residues in contact with LYS 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 VAL* 3.0 19.1 + - + +
139A LYS* 3.8 7.9 - - - +
140A LEU 3.3 0.2 - - - -
141A ILE* 1.3 74.5 - - - +
143A LYS* 1.3 59.0 + - - +
145A GLY* 3.3 2.1 + - - -
146A ASP* 2.7 66.2 + - - +
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Residues in contact with LYS 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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50A PHE* 4.0 30.2 - - + -
139A LYS 3.1 10.7 + - - +
140A LEU* 3.5 19.1 - - + +
142A LYS* 1.3 80.6 - - - +
144A MET* 1.3 57.1 + - - +
146A ASP* 3.2 12.7 + - - +
147A HIS* 2.9 51.3 + - + +
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Residues in contact with MET 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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30A TYR* 3.6 23.1 - - - +
50A PHE* 4.3 9.2 - - + -
54A LEU* 3.7 24.7 - - + -
96A MET* 4.0 15.7 - - + +
99A ALA* 3.9 24.9 - - + +
100A ILE* 3.6 21.1 - - + -
103A GLU* 3.6 24.2 - - + -
140A LEU* 3.0 29.8 + - + +
141A ILE* 3.8 2.2 - - - +
142A LYS 3.3 0.2 - - - -
143A LYS* 1.3 72.9 - - - +
145A GLY* 1.3 61.3 + - - +
147A HIS* 3.3 8.6 + - - +
148A LEU* 2.8 31.9 + - - +
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Residues in contact with GLY 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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100A ILE* 3.6 12.0 - - - +
141A ILE 3.0 15.0 + - - -
142A LYS* 3.7 3.6 - - - -
144A MET* 1.3 75.5 - - - +
146A ASP* 1.3 63.4 + - - +
148A LEU* 3.2 7.1 + - - +
149A THR* 3.1 27.1 + - - -
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Residues in contact with ASP 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 LYS* 2.7 55.7 + - - +
143A LYS* 3.3 13.5 - - - +
145A GLY* 1.3 77.5 - - - +
147A HIS* 1.3 66.7 + - + +
149A THR* 3.3 5.6 + - - -
150A ASN* 3.0 33.5 + - - +
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Residues in contact with HIS 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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50A PHE* 3.9 30.6 - + - -
96A MET* 4.0 18.4 - - + -
143A LYS* 2.9 40.1 + - + +
144A MET 3.6 6.5 - - - +
145A GLY 3.3 0.2 - - - -
146A ASP* 1.3 77.6 - - + +
148A LEU* 1.3 55.5 + - - +
150A ASN* 3.1 3.5 + - - +
151A ILE* 2.7 41.0 + - - +
166A PHE* 3.7 21.7 - + + -
170A THR* 3.6 25.3 - - + +
171A LEU* 3.8 15.8 - - + +
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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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93A LEU* 3.5 28.0 - - + -
96A MET* 3.8 12.7 - - + +
97A LYS* 3.7 29.2 - - + +
100A ILE* 3.9 37.5 - - + -
144A MET 2.8 18.6 + - - +
145A GLY* 3.2 6.9 + - - +
147A HIS* 1.3 72.7 - - - +
149A THR* 1.3 54.5 + - - +
151A ILE* 3.8 4.5 - - - +
152A GLN* 2.8 53.4 + - - +
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Residues in contact with THR 149 (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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145A GLY 3.1 11.6 + - - -
146A ASP* 3.6 10.3 - - - -
148A LEU* 1.3 79.0 - - - +
150A ASN* 1.3 59.7 + - - +
152A GLN* 3.4 12.8 + - - +
153A ARG* 2.9 53.9 + - - +
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Residues in contact with ASN 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 ASP* 3.0 27.3 + - - +
147A HIS* 3.1 6.5 + - - +
149A THR* 1.3 76.5 - - - +
151A ILE* 1.3 66.6 + - - +
153A ARG* 3.0 34.0 + - - +
154A LEU* 3.0 31.2 + - + +
166A PHE* 3.8 20.2 - - + -
170A THR* 5.4 4.9 - - - +
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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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92A THR* 3.6 25.4 - - + +
93A LEU* 3.6 32.1 - - + -
96A MET* 4.2 22.0 - - + -
147A HIS 2.7 27.9 + - - +
148A LEU* 3.8 5.2 - - - +
150A ASN* 1.3 72.0 - - - +
152A GLN* 1.3 62.6 + - - +
154A LEU* 3.2 15.5 + - - +
155A VAL* 3.2 15.5 + - + +
163A GLU* 6.4 0.4 - - - -
166A PHE* 3.7 35.4 - - + -
1172A IOD 4.0 15.9 - - + -
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Residues in contact with GLN 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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93A LEU* 4.0 19.3 - - + +
97A LYS* 4.4 21.6 - - - +
148A LEU* 2.8 43.9 + - - +
149A THR* 3.6 13.0 + - - +
151A ILE* 1.3 71.2 - - - +
153A ARG* 1.3 63.9 + - - +
154A LEU 3.3 0.5 + - - -
155A VAL* 3.4 26.0 + - - +
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Residues in contact with ARG 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 THR* 2.9 40.7 + - - +
150A ASN* 3.0 41.7 + - - +
152A GLN* 1.3 76.1 - - - +
154A LEU* 1.3 65.2 + - + +
155A VAL 3.6 3.5 + - - +
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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 ASN* 3.0 18.9 + - + +
151A ILE* 3.6 9.2 - - - +
152A GLN 3.2 0.6 - - - -
153A ARG* 1.3 81.1 - - + +
155A VAL* 1.3 61.0 + - + +
158A GLN 3.9 6.1 - - - +
162A GLY* 3.5 48.4 - - - +
165A LEU* 4.7 15.5 - - + -
166A PHE* 3.7 29.2 - - + +
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Residues in contact with VAL 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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93A LEU* 4.8 11.0 - - + -
151A ILE* 3.2 20.6 - - + +
152A GLN* 3.4 18.6 + - - +
153A ARG 4.5 3.3 - - - +
154A LEU* 1.3 80.1 - - + +
158A GLN 4.7 15.9 - - - -
159A ALA* 4.5 23.6 - - + +
163A GLU 6.2 1.1 - - - +
1172A IOD 4.5 22.0 - - + -
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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
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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