Contacts of the helix formed by residues 136 - 156 (chain A) in PDB entry 1FQY
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 136 (chain A).
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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134A ASN* 3.8 0.2 + - - -
135A SER* 1.3 79.3 - - - +
137A GLN* 1.3 67.2 + - - +
138A GLY 3.2 2.5 - - - -
139A LEU* 3.2 34.3 + - - +
140A GLY 4.2 0.9 + - - -
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Residues in contact with GLN 137 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
134A ASN* 2.7 40.3 + - - +
135A SER* 4.7 1.1 - - - +
136A GLY* 1.3 78.6 - - - +
138A GLY* 1.3 62.0 + - - +
139A LEU 2.8 1.9 + - - -
140A GLY* 3.3 11.1 + - - -
141A ILE* 3.3 18.8 + - + +
186A TYR* 4.3 19.7 - - + -
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Residues in contact with GLY 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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134A ASN* 2.8 19.7 - - - +
135A SER 4.7 2.4 + - - -
136A GLY* 3.2 2.0 - - - -
137A GLN* 1.3 75.7 - - - +
139A LEU* 1.3 64.8 + - - +
141A ILE* 3.2 29.2 - - - +
142A GLU* 4.2 4.7 + - - +
187A THR* 4.4 16.7 + - - -
208A ASN* 5.3 7.6 - - - -
212A PHE* 5.2 5.0 - - - -
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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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135A SER 5.2 2.9 - - - +
136A GLY* 3.2 25.8 - - - +
137A GLN 2.8 1.4 + - - -
138A GLY* 1.3 80.1 - - - +
140A GLY* 1.3 65.3 + - - +
142A GLU* 3.7 10.5 + - - +
143A ILE* 3.0 18.5 - - - +
208A ASN* 3.5 23.3 - - - +
211A ILE* 3.3 43.3 - - + +
212A PHE* 5.4 1.6 - - + -
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Residues in contact with GLY 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 GLY 4.2 1.2 + - - -
137A GLN 3.3 5.0 + - - -
139A LEU* 1.3 79.6 - - - +
141A ILE* 1.3 54.8 - - - +
143A ILE* 2.6 53.1 + - - +
144A ILE* 3.2 12.2 + - - +
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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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137A GLN* 3.3 23.0 + - + +
138A GLY* 3.2 17.0 - - - +
140A GLY* 1.3 71.0 - - - +
142A GLU* 1.3 78.0 + - + +
144A ILE* 3.6 12.5 + - - +
145A GLY* 3.5 13.7 + - - -
182A LEU* 5.0 18.4 - - + +
183A ALA* 4.2 20.4 - - - +
186A TYR* 4.0 36.3 - - + -
187A THR* 3.9 18.6 - - - +
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Residues in contact with GLU 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 GLY 4.8 2.4 - - - +
139A LEU* 3.7 14.2 + - - +
140A GLY 2.9 1.6 + - - -
141A ILE* 1.3 85.9 - - + +
143A ILE* 1.3 68.6 + - - +
145A GLY* 3.0 13.4 + - - +
146A THR* 3.1 14.5 + - - +
183A ALA* 6.0 6.1 - - + +
190A GLY* 2.9 32.7 - - - +
195A ARG* 3.4 9.0 + - - -
211A ILE 4.4 1.2 - - - +
212A PHE* 3.3 47.1 - - - +
215A GLY* 4.3 0.5 - - - -
216A PRO* 3.2 25.4 - - + +
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Residues in contact with ILE 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 LEU 3.0 24.0 - - - +
140A GLY* 2.6 28.7 + - - +
142A GLU* 1.3 76.5 - - - +
144A ILE* 1.3 66.2 + - + +
146A THR 4.4 0.9 - - - -
147A LEU* 3.9 8.5 + - - +
211A ILE 5.8 0.4 - - - +
215A GLY* 3.9 36.1 - - - +
216A PRO* 4.9 1.1 - - - -
218A ILE* 4.9 12.3 - - + -
219A GLY* 3.2 25.0 - - - -
222A LEU* 6.6 0.2 - - + -
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Residues in contact with ILE 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 GLY* 3.2 21.0 + - - +
141A ILE* 4.0 9.2 - - - +
142A GLU 3.1 0.6 - - - -
143A ILE* 1.3 83.9 - - + +
145A GLY* 1.3 62.6 + - - +
147A LEU* 2.9 32.6 - - + +
148A GLN* 3.9 9.6 + - - +
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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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141A ILE 3.5 7.9 + - - -
142A GLU* 3.0 6.8 + - - -
144A ILE* 1.3 75.5 - - - +
146A THR* 1.3 62.0 + - - +
147A LEU 2.9 4.9 - - - -
148A GLN* 3.0 34.5 + - - +
149A LEU* 3.4 3.8 + - - +
179A GLY* 5.4 12.9 - - - -
182A LEU* 6.4 1.6 - - - -
191A ILE* 5.3 3.9 - - - +
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Residues in contact with THR 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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78A ALA* 4.3 5.6 - - + -
142A GLU 3.1 13.1 + - - -
143A ILE 4.4 2.2 - - - -
145A GLY* 1.3 76.2 - - - +
147A LEU* 1.3 57.6 + - - +
148A GLN 3.1 0.2 - - - -
149A LEU* 3.6 13.9 - - + -
150A VAL* 2.8 49.3 + - + +
190A GLY 4.5 0.3 + - - -
191A ILE* 3.2 36.0 + - - +
216A PRO* 3.8 32.9 - - + +
220A GLY 4.4 2.9 - - - +
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Residues in contact with LEU 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 ILE* 3.9 12.7 + - + +
144A ILE* 2.9 30.4 - - + +
145A GLY 2.9 0.2 - - - -
146A THR* 1.3 79.5 - - - +
148A GLN* 1.3 55.4 + - + +
151A LEU* 2.9 29.1 + - + +
219A GLY* 3.0 28.0 + - - +
222A LEU* 4.4 8.1 - - + -
223A ALA* 3.2 27.9 - - + +
226A ILE* 4.1 19.3 - - + -
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Residues in contact with GLN 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 ILE* 3.9 7.9 + - - +
145A GLY* 3.0 31.2 + - - +
147A LEU* 1.3 77.6 - - - +
149A LEU* 1.3 59.6 + - - +
151A LEU* 3.0 13.6 - - + +
152A CYS* 2.6 38.7 + - - +
175A SER* 5.2 7.4 + - - +
178A LEU* 3.1 35.1 - - - +
179A GLY* 5.8 3.8 - - - -
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Residues in contact with LEU 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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76A ASN* 4.1 21.1 - - - +
79A VAL* 4.3 8.7 - - + -
145A GLY 3.4 2.0 + - - +
146A THR* 3.4 19.7 - - + +
148A GLN* 1.3 83.6 - - + +
150A VAL* 1.3 53.6 + - + +
152A CYS* 2.6 20.8 - - - -
153A VAL* 2.6 44.7 + - + +
172A ILE* 4.5 5.2 - - + -
175A SER* 4.1 5.4 - - - +
176A VAL* 3.6 31.0 - - + -
191A ILE* 3.2 39.5 - - + +
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Residues in contact with VAL 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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78A ALA* 4.5 17.7 - - + +
79A VAL* 4.7 7.9 - - - +
82A GLY* 4.8 8.3 - - - -
146A THR* 2.8 41.1 + - + +
149A LEU* 1.3 75.1 - - + +
151A LEU* 1.3 66.7 + - - +
153A VAL* 3.5 10.8 - - + +
154A LEU* 3.1 23.8 + - + +
220A GLY* 4.1 11.9 - - - -
223A ALA* 4.2 19.7 - - + -
224A VAL* 4.5 16.8 - - + -
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Residues in contact with LEU 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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147A LEU* 2.9 23.6 + - + +
148A GLN* 3.0 15.3 - - + +
150A VAL* 1.3 77.4 - - - +
152A CYS* 1.3 62.4 + - - +
154A LEU* 3.1 5.0 + - - +
155A ALA* 2.8 28.5 + - - +
223A ALA* 3.6 20.2 - - - +
226A ILE* 4.5 17.0 - - + -
227A TYR* 2.9 42.3 - - + -
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Residues in contact with CYS 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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148A GLN 2.6 19.9 + - - +
149A LEU* 2.6 32.3 - - - -
151A LEU* 1.3 72.4 - - - +
153A VAL* 1.3 64.8 + - - +
155A ALA* 3.9 9.0 - - - -
156A THR* 2.5 38.8 + - - +
172A ILE* 5.0 8.3 - - + -
175A SER* 3.0 34.1 - - - +
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Residues in contact with VAL 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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74A HIS* 6.1 2.7 - - + -
79A VAL* 4.2 24.2 - - + +
149A LEU* 2.6 55.5 + - + +
150A VAL* 3.5 10.8 - - + +
151A LEU 3.1 0.2 - - - -
152A CYS* 1.3 75.5 - - - +
154A LEU* 1.3 58.4 + - + +
156A THR* 4.2 3.3 - - - -
157A THR* 3.1 23.3 + - + +
172A ILE* 4.4 23.0 - - + +
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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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82A GLY 4.8 5.8 - - - +
83A LEU* 5.8 5.6 - - - -
150A VAL* 3.1 15.6 + - + +
151A LEU* 3.1 4.7 + - - +
153A VAL* 1.3 75.0 - - + +
155A ALA* 1.3 65.7 + - - +
156A THR 3.2 2.0 - - - -
157A THR* 2.4 37.3 + - + +
158A ASP* 2.8 18.9 - - - +
224A VAL* 4.1 33.0 - - + -
227A TYR* 4.3 22.4 - - + -
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Residues in contact with ALA 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 LEU 2.8 16.8 + - - +
152A CYS* 3.5 10.3 - - - +
154A LEU* 1.3 77.7 - - - +
156A THR* 1.3 57.4 + - - +
157A THR 2.8 9.5 + - - -
158A ASP* 3.4 17.1 + - - +
159A ARG* 5.7 2.6 + - - -
227A TYR* 3.0 34.6 + - + +
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Residues in contact with THR 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 CYS* 2.5 26.1 + - - +
153A VAL* 4.2 7.0 - - - -
155A ALA* 1.3 77.5 - - - +
157A THR* 1.3 62.9 + - + +
160A ARG 3.8 9.4 - - - +
161A ARG 5.2 1.0 - - - +
162A ARG* 6.2 0.4 - - - +
168A ALA* 3.1 38.1 - - + -
171A ALA* 5.7 2.6 - - + +
172A ILE* 4.4 13.9 - - + +
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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