Contacts of the helix formed by residues 137 - 151 (chain A) in PDB entry 1Q2L
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 ALA 137 (chain A).
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Specific contacts
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Residue Dist Surf HB Arom Phob DC
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110A TYR* 2.7 33.3 + - - +
114A HIS* 3.4 45.1 - - + -
133A VAL* 3.9 7.0 - - + -
134A GLU* 3.0 18.0 + - - +
136A ASP* 1.3 75.3 - - - +
138A LEU* 1.3 63.1 + - - +
139A PRO* 3.4 3.9 - - - -
141A ALA* 3.4 2.6 + - - +
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Residues in contact with LEU 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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66A SER* 3.5 28.9 - - - +
67A LEU 4.5 6.1 - - - +
131A LEU* 4.4 12.3 - - + -
133A VAL* 3.7 22.0 - - + -
134A GLU 3.3 3.0 + - - +
135A ASN 3.3 18.8 - - - +
137A ALA* 1.3 77.3 - - - +
139A PRO* 1.3 66.3 - - + +
141A ALA 3.2 0.5 + - - -
142A VAL* 3.0 43.7 + - + +
235A ILE* 3.9 15.3 - - + -
236A TYR 4.9 0.4 - - - +
237A SER* 4.6 6.3 - - - +
239A LYS* 6.3 0.2 - - - -
247A MET* 3.2 39.0 - - + -
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Residues in contact with PRO 139 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
135A ASN 4.5 0.7 - - - +
136A ASP 3.4 17.9 - - - +
137A ALA 3.4 1.6 - - - -
138A LEU* 1.3 95.4 - - + +
140A GLY* 1.3 57.7 + - - +
142A VAL* 3.5 1.9 + - - +
143A ASP* 3.0 29.5 + - - +
239A LYS* 4.3 12.3 - - - +
247A MET* 3.3 35.0 - - + -
251A THR* 4.4 3.6 - - - +
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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
----------------------------------------------------------
101A TYR* 5.5 0.4 - - - -
110A TYR* 3.6 16.5 + - - -
137A ALA 3.5 4.2 + - - -
138A LEU 3.4 0.2 - - - -
139A PRO* 1.3 76.8 - - - +
141A ALA* 1.3 63.2 + - - +
143A ASP* 3.9 5.3 - - - +
144A ARG* 3.0 46.1 + - - +
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Residues in contact with ALA 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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107A LEU* 3.6 13.6 - - - +
110A TYR* 3.4 9.6 - - + -
111A LEU* 3.7 28.5 - - + -
131A LEU* 3.9 12.3 - - + +
133A VAL* 3.9 11.4 - - + -
137A ALA 3.4 12.3 + - - +
138A LEU* 3.2 8.5 + - + +
139A PRO 3.2 0.4 - - - -
140A GLY* 1.3 76.0 - - - +
142A VAL* 1.3 64.6 + - - +
144A ARG 3.3 1.7 + - - -
145A LEU* 3.1 20.6 + - - +
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Residues in contact with VAL 142 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
68A SER* 3.9 15.0 - - - +
131A LEU* 5.0 1.8 - - - -
138A LEU* 3.0 45.9 + - + +
139A PRO 3.9 3.1 - - - +
141A ALA* 1.3 77.3 - - + +
143A ASP* 1.3 56.1 + - - +
145A LEU* 3.6 5.4 - - - +
146A ALA* 2.8 29.1 + - - +
235A ILE* 4.5 8.7 - - + -
247A MET* 3.9 8.3 - - - -
251A THR* 3.2 25.4 - - + +
252A PHE* 3.6 25.7 - - + -
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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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100A LYS* 2.8 32.2 + - - +
101A TYR* 2.6 26.9 + - - +
139A PRO 3.0 19.0 + - - +
140A GLY* 4.0 7.0 - - - +
141A ALA 3.3 0.2 - - - -
142A VAL* 1.3 77.0 - - - +
144A ARG* 1.3 57.4 + - - +
146A ALA* 3.9 1.4 - - - +
147A ASP* 3.0 28.6 + - - +
250A ASP 4.3 8.0 - - - +
251A THR* 3.5 23.0 - - + +
254A ARG* 4.6 6.1 + - - -
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Residues in contact with ARG 144 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
98A SER* 5.2 0.7 + - - -
101A TYR* 3.5 49.0 + - + -
106A SER* 3.4 27.7 + - - +
107A LEU* 4.0 18.2 - - + +
110A TYR* 3.5 48.8 - - - +
140A GLY* 3.0 34.5 + - - +
141A ALA 3.8 3.8 - - - +
142A VAL 3.3 0.2 - - - -
143A ASP* 1.3 74.8 - - - +
145A LEU* 1.3 64.9 + - - +
147A ASP* 3.6 1.6 + - - +
148A ALA* 3.2 23.2 + - - +
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Residues in contact with LEU 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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68A SER* 4.2 10.3 - - - +
69A ALA* 4.7 3.4 - - - -
70A LEU* 4.5 14.8 - - + +
95A LEU* 5.8 1.8 - - + -
107A LEU* 4.2 22.8 - - + +
129A PHE* 3.7 33.0 - - + +
130A TYR* 5.4 0.9 - - - +
131A LEU* 4.1 17.3 - - + -
141A ALA 3.1 16.8 + - - +
142A VAL* 3.6 4.0 - - - +
144A ARG* 1.3 77.2 - - - +
146A ALA* 1.3 64.8 + - - +
148A ALA* 3.1 15.1 + - + +
149A ILE* 3.2 26.6 + - + +
252A PHE* 4.0 26.5 - - + -
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Residues in contact with ALA 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 VAL 2.8 17.7 + - - +
143A ASP* 3.9 3.8 - - - +
145A LEU* 1.3 77.5 - - - +
147A ASP* 1.3 58.2 + - - +
149A ILE* 3.2 7.5 + - - +
150A ALA* 2.8 30.6 + - - +
251A THR* 3.4 38.1 - - - +
252A PHE* 3.6 21.8 - - + +
254A ARG* 5.4 1.6 - - - +
255A VAL* 3.9 2.4 - - + +
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Residues in contact with ASP 147 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
98A SER* 2.5 33.7 + - - +
99A LYS* 3.6 3.0 + - - +
100A LYS* 2.8 38.4 + - + +
101A TYR* 4.3 8.1 - - + -
143A ASP* 3.0 18.7 + - - +
144A ARG 4.1 3.1 - - - +
145A LEU 3.3 0.2 - - - -
146A ALA* 1.3 73.8 - - - +
148A ALA* 1.3 61.1 + - - +
150A ALA* 4.1 5.1 - - - +
151A GLU* 2.9 30.1 + - - +
254A ARG* 2.7 32.9 + - - +
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Residues in contact with ALA 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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94A SER* 3.3 31.2 + - - +
95A LEU* 4.2 16.4 - - + -
98A SER* 4.0 10.5 + - - +
107A LEU* 6.1 2.5 - - + -
144A ARG 3.2 14.2 + - - +
145A LEU* 3.1 12.8 + - + +
147A ASP* 1.3 75.5 - - - +
149A ILE* 1.3 61.7 + - + +
152A PRO* 3.3 28.1 - - - +
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Residues in contact with ILE 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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70A LEU* 4.0 18.8 - - + -
94A SER* 5.3 1.3 - - - -
129A PHE* 3.5 47.8 - - + -
145A LEU* 3.3 20.6 - - + +
146A ALA* 3.2 8.7 + - - +
147A ASP 3.1 0.2 - - - -
148A ALA* 1.3 83.6 - - + +
150A ALA* 1.3 57.9 + - - +
222A HIS* 3.0 28.9 + - - -
226A TYR* 4.2 11.3 - - + +
231A MET* 3.6 37.2 - - + -
252A PHE* 6.2 0.2 - - + -
255A VAL* 4.2 11.9 - - + +
256A PRO* 5.4 0.3 - - - +
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Residues in contact with ALA 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 ALA 2.8 20.7 + - - +
147A ASP* 4.0 7.0 - - - +
149A ILE* 1.3 76.4 - - - +
151A GLU* 1.3 70.4 + - + +
152A PRO* 3.8 2.6 - - - +
222A HIS* 4.1 6.1 + - - -
254A ARG* 4.1 17.0 - - + +
255A VAL* 3.8 27.8 - - + +
256A PRO* 3.8 22.5 - - + +
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Residues in contact with GLU 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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98A SER* 3.2 0.9 - - - -
99A LYS* 3.0 73.1 + - + +
147A ASP* 2.9 19.9 + - - +
150A ALA* 1.3 85.2 - - + +
152A PRO* 1.3 69.0 - - - +
153A LEU* 4.5 0.9 - - - +
254A ARG* 4.9 7.8 + - - +
256A PRO* 5.7 2.2 - - + -
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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