Contacts of the helix formed by residues 149 - 166 (chain A) in PDB entry 4L5L
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 THR 149 (chain A).
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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81A MET* 3.8 31.9 - - + +
144A HIS* 4.3 16.2 + - + +
147A THR* 3.5 13.2 - - - +
148A PRO* 1.3 80.2 - - - +
150A HIS* 1.3 75.0 + - - +
151A LEU* 3.4 29.8 + - - +
152A ASP* 2.8 21.2 + - - +
153A PHE* 3.0 19.5 - - - -
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Residues in contact with HIS 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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20A LEU* 3.9 23.5 - - + +
72A LEU* 4.1 30.0 - - + +
73A ARG* 4.8 1.8 - - + +
76A ALA* 3.5 23.2 - - + +
81A MET* 3.4 32.1 + - - +
82A ILE* 4.2 4.0 - - + +
92A ILE* 3.9 12.6 - - + -
96A GLU* 2.7 33.6 + - + -
149A THR* 1.3 70.7 - - - +
151A LEU* 1.3 82.2 + - + +
153A PHE* 3.2 12.0 + - - +
154A MET* 3.0 26.3 + - - +
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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
----------------------------------------------------------
81A MET 5.9 0.4 - - - +
92A ILE* 3.8 18.6 - - + +
95A ILE* 4.0 28.7 - - + -
96A GLU* 3.7 32.3 - - + +
99A LEU* 3.3 14.3 - - + +
143A LEU* 4.1 19.7 - - + -
144A HIS* 3.7 29.6 - - + -
149A THR* 3.4 12.8 - - - +
150A HIS* 1.3 92.0 - - + +
152A ASP* 1.3 59.0 + - - +
154A MET* 3.4 2.9 + - - -
155A PHE* 3.0 25.1 + - - +
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Residues in contact with ASP 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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142A TYR* 3.5 22.4 - - + +
143A LEU* 3.0 32.3 + - - +
144A HIS 5.0 0.9 - - - +
147A THR 4.0 0.7 - - - +
148A PRO* 3.3 7.9 - - + +
149A THR* 2.8 36.9 + - - +
151A LEU* 1.3 76.1 - - - +
153A PHE* 1.3 55.3 + - + +
155A PHE* 4.3 1.1 - - - -
156A TYR* 2.6 36.6 + - - +
179A PHE* 3.5 24.3 - - + -
183A ILE* 4.0 13.0 - - + -
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Residues in contact with PHE 153 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
16A PRO* 3.9 22.3 - - - +
19A LEU* 3.8 25.7 - - + +
20A LEU* 3.9 18.8 - - + -
23A TYR* 3.4 45.8 - + + -
148A PRO* 4.1 13.5 - - + -
149A THR 3.0 30.1 - - - -
150A HIS* 3.2 6.1 + - - +
152A ASP* 1.3 76.3 - - + +
154A MET* 1.3 64.4 + - - +
156A TYR* 4.0 3.7 - - - +
157A GLU* 3.1 23.6 + - - +
183A ILE* 4.0 23.1 - - + -
186A LEU* 4.2 3.6 - - + -
189A ILE* 3.8 24.0 - - + -
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Residues in contact with MET 154 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
16A PRO* 3.8 17.0 - - + +
69A LEU* 4.1 16.8 - - + -
72A LEU* 3.3 30.1 - - + -
96A GLU* 3.8 32.3 - - - +
99A LEU* 3.9 20.0 - - + +
100A VAL* 4.0 18.6 - - + +
103A ARG* 5.7 0.7 - - - +
150A HIS* 3.0 17.4 + - - +
151A LEU* 3.6 11.9 - - - +
153A PHE* 1.3 74.0 - - - +
155A PHE* 1.3 64.3 + - - +
157A GLU* 3.2 3.1 + - - +
158A ALA* 3.0 24.3 + - - +
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Residues in contact with PHE 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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99A LEU* 3.4 20.0 - - + -
102A LEU* 3.9 15.9 - - + -
133A TRP* 3.9 27.8 - + + -
137A LEU* 4.6 6.1 - - + -
143A LEU* 3.6 29.4 - - + -
151A LEU 3.0 17.2 + - - +
152A ASP 3.7 2.9 - - - +
154A MET* 1.3 72.8 - - - +
156A TYR* 1.3 68.1 + - - +
157A GLU 3.2 0.3 + - - -
158A ALA* 3.3 2.3 + - - +
159A LEU* 2.9 56.9 + - + +
176A LEU* 3.6 22.7 - - + -
179A PHE* 3.4 30.1 - + + -
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Residues in contact with TYR 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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11A ARG* 5.4 0.7 - - - -
19A LEU* 3.9 20.2 - - + -
152A ASP 2.6 22.3 + - - +
153A PHE* 4.0 3.6 - - - +
154A MET 3.3 0.2 - - - -
155A PHE* 1.3 74.4 - - - +
157A GLU* 1.3 71.2 + - - +
159A LEU* 3.2 2.9 + - - +
160A ASP* 2.8 45.5 + - + +
179A PHE* 3.7 13.4 - - + -
180A ILE* 3.8 23.8 - - + -
183A ILE* 3.9 28.9 - - + -
184A GLU* 2.6 39.7 + - + -
193A MET* 3.1 33.7 - - + +
198A PHE* 5.6 0.3 - - - -
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Residues in contact with GLU 157 (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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11A ARG* 2.8 55.5 + - - +
12A GLY 4.6 3.8 + - - +
15A GLN* 3.4 28.0 + - + +
16A PRO* 4.2 14.1 - - + -
19A LEU* 4.6 3.4 - - + -
103A ARG* 4.4 14.9 + - - +
153A PHE 3.1 18.3 + - - +
154A MET 3.9 3.4 - - - +
156A TYR* 1.3 89.0 - - + +
158A ALA* 1.3 59.4 + - - +
160A ASP* 3.3 1.8 + - - +
161A VAL* 3.0 39.8 + - - +
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Residues in contact with ALA 158 (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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99A LEU* 4.8 3.1 - - + +
102A LEU* 3.8 29.8 - - + -
103A ARG* 4.1 32.0 - - + +
154A MET 3.0 16.1 + - - +
155A PHE* 3.7 4.5 - - - +
157A GLU* 1.3 77.3 - - - +
159A LEU* 1.3 60.8 + - - +
161A VAL* 3.4 2.3 + - - +
162A ILE* 3.0 32.4 + - + +
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Residues in contact with LEU 159 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
102A LEU* 4.7 4.5 - - + -
130A LEU* 4.2 16.4 - - + -
155A PHE* 2.9 58.6 + - + +
156A TYR* 3.8 2.9 - - - +
158A ALA* 1.3 72.9 - - - +
160A ASP* 1.3 57.5 + - - +
162A ILE* 3.4 3.6 + - + +
163A ARG* 2.8 31.2 + - - +
170A VAL* 4.4 9.5 - - + +
176A LEU* 4.1 38.1 - - + +
179A PHE* 3.6 27.6 - - + -
180A ILE* 4.0 16.3 - - + +
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Residues in contact with ASP 160 (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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11A ARG* 2.7 32.7 + - - +
156A TYR* 2.8 42.0 + - + +
157A GLU* 3.7 4.9 - - - +
158A ALA 3.3 0.2 - - - -
159A LEU* 1.3 76.7 - - - +
161A VAL* 1.3 62.1 + - - +
163A ARG* 2.8 38.7 + - - +
164A TYR* 3.1 22.2 + - - +
180A ILE* 4.7 3.3 - - - +
184A GLU* 4.4 0.2 - - - +
198A PHE* 6.1 0.2 - - - -
200A LYS* 5.1 5.2 + - - -
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Residues in contact with VAL 161 (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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11A ARG* 4.2 7.6 - - - +
103A ARG* 3.8 34.1 - - - +
106A VAL* 4.0 32.1 - - + -
157A GLU* 3.0 34.5 + - - +
158A ALA* 3.8 4.7 - - - +
160A ASP* 1.3 76.5 - - - +
162A ILE* 1.3 56.4 + - - +
164A TYR* 3.2 7.9 + - - +
165A LEU* 3.0 25.1 + - - +
203A LEU* 4.4 18.6 - - + -
210A PHE* 4.0 10.4 - - + -
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Residues in contact with ILE 162 (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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102A LEU* 3.7 42.6 - - + +
103A ARG* 5.8 0.2 - - - -
106A VAL* 3.8 12.3 - - + -
122A TYR* 3.7 21.1 - - + +
126A LEU* 3.8 30.3 - - + -
130A LEU* 4.6 6.5 - - + -
158A ALA* 3.0 21.9 + - - +
159A LEU* 3.8 4.9 - - + +
161A VAL* 1.3 73.7 - - - +
163A ARG* 1.3 60.9 + - - +
165A LEU* 3.0 9.3 + - + +
166A ASP 2.9 28.1 + - - +
170A VAL* 3.6 19.3 - - + -
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Residues in contact with ARG 163 (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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159A LEU 2.8 22.0 + - - +
160A ASP* 2.8 29.5 + - - +
161A VAL 3.4 0.2 - - - -
162A ILE* 1.3 72.9 - - - +
164A TYR* 1.3 59.2 + - - +
166A ASP 4.0 0.2 - - - -
167A PRO* 3.3 38.7 - - + +
170A VAL* 3.8 18.8 - - + +
171A GLU* 5.9 1.1 - - - -
177A MET* 4.2 24.3 - - - +
180A ILE* 3.7 35.5 - - + +
181A HIS* 4.2 19.8 + - - -
184A GLU* 3.8 10.5 + - - -
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Residues in contact with TYR 164 (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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160A ASP 3.1 14.3 + - - +
161A VAL 3.6 8.1 - - - +
162A ILE 3.2 0.4 - - - -
163A ARG* 1.3 76.6 - - - +
165A LEU* 1.3 63.9 + - - +
166A ASP 3.5 0.2 + - - -
167A PRO* 4.3 4.7 - - - +
200A LYS* 6.2 2.0 - - - -
201A TRP* 3.7 25.4 - + - -
203A LEU* 3.9 15.0 - - + -
210A PHE* 3.7 25.0 - + - -
216A PRO* 3.9 10.3 - - + +
217A PRO* 3.3 31.4 + - + +
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Residues in contact with LEU 165 (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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106A VAL* 4.3 16.8 - - + -
109A ILE* 5.1 2.2 - - + -
115A PHE* 3.9 19.3 - - + -
119A LYS* 3.6 45.3 + - + +
122A TYR* 3.9 30.1 - - + -
123A LEU* 4.8 1.3 - - + -
126A LEU* 6.1 0.2 - - + -
161A VAL 3.0 9.8 + - - +
162A ILE* 3.0 12.8 + - + +
164A TYR* 1.3 78.5 - - - +
166A ASP* 1.3 63.1 + - + +
167A PRO* 4.2 0.7 - - - +
210A PHE* 3.5 35.6 - - + -
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Residues in contact with ASP 166 (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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119A LYS* 4.8 4.2 + - - -
123A LEU* 3.8 37.9 - - + +
126A LEU* 5.4 0.7 - - + -
162A ILE 2.9 12.6 + - - +
163A ARG 3.8 1.3 - - - -
164A TYR 3.3 0.4 - - - -
165A LEU* 1.3 81.7 - - + +
167A PRO* 1.3 72.2 - - - +
168A THR* 3.4 12.7 + - - +
169A SER* 2.5 49.1 + - - +
170A VAL* 3.8 2.8 + - - +
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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
------------------------------------------------------------
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