Contacts of the helix formed by residues 149 - 166 (chain L) in PDB entry 5A0Q
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 VAL 149 (chain L).
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Specific contacts
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Residue Dist Surf HB Arom Phob DC
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8L PHE* 4.2 6.7 - - - -
10L HIS* 3.5 31.6 - - + +
148L GLU* 1.3 72.6 - - - +
150L GLU* 1.3 52.2 + - - +
152L ALA* 3.8 0.3 - - - +
153L TYR* 2.3 82.1 + - + +
178L HIS* 3.5 16.4 - - + -
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Residues in contact with GLU 150 (chain L).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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148L GLU* 3.2 11.3 - - + +
149L VAL* 1.3 79.3 - - - +
151L GLN* 1.4 64.0 + - + +
153L TYR* 3.0 31.1 + - - +
154L ASP* 2.8 36.4 + - - +
157L ARG* 3.9 7.6 + - - -
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Residues in contact with GLN 151 (chain L).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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146L ASP* 4.5 2.1 - - - +
147L LEU* 3.8 22.8 - - + +
148L GLU* 3.2 53.1 + - + +
150L GLU* 1.4 76.9 - - + +
152L ALA* 1.3 56.8 + - - +
154L ASP* 3.4 12.0 + - - +
155L LEU* 3.0 26.7 + - - +
158L ARG* 4.0 5.7 + - - +
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Residues in contact with ALA 152 (chain L).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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6L PHE* 3.6 9.2 - - + -
8L PHE* 3.3 37.5 - - + -
13L ILE* 3.6 7.1 - - + +
147L LEU* 3.7 18.6 - - + +
148L GLU 3.0 17.3 + - - +
149L VAL 3.8 1.3 - - - +
151L GLN* 1.3 74.9 - - - +
153L TYR* 1.3 58.9 + - - +
155L LEU* 4.2 2.2 - - - -
156L ALA* 3.0 27.0 + - - +
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Residues in contact with TYR 153 (chain L).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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13L ILE* 3.2 22.9 - - + -
149L VAL* 2.3 47.1 - - + +
150L GLU* 3.0 29.5 + - - +
152L ALA* 1.3 77.6 - - - +
154L ASP* 1.3 60.6 + - - +
156L ALA 3.5 0.3 + - - -
157L ARG* 3.1 40.5 + - - +
176L LEU* 3.7 13.3 - - + +
178L HIS* 2.7 28.8 + + - +
185L ILE* 4.5 5.2 - - - +
187L VAL* 2.7 38.2 - - + +
188L SER* 5.1 0.7 - - - -
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Residues in contact with ASP 154 (chain L).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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150L GLU* 2.8 37.6 + - - +
151L GLN* 3.5 10.8 - - - +
152L ALA 3.3 0.2 - - - -
153L TYR* 1.3 74.3 - - - +
155L LEU* 1.3 58.5 + - - +
157L ARG* 3.4 21.8 + - - +
158L ARG* 2.8 47.2 + - + +
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Residues in contact with LEU 155 (chain L).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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6L PHE* 3.9 23.1 - - + -
138L VAL* 3.8 27.1 - - + +
139L MET* 4.0 11.2 - - - +
142L GLY* 3.5 13.9 - - - +
143L TYR* 3.4 33.7 - - + +
147L LEU* 4.1 6.5 - - + -
151L GLN 3.0 16.4 + - - +
152L ALA* 3.7 6.3 - - - +
153L TYR 3.3 0.2 - - - -
154L ASP* 1.3 73.2 - - - +
156L ALA* 1.3 64.6 + - - +
158L ARG* 3.5 25.4 - - - +
159L ALA* 3.0 27.5 + - - +
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Residues in contact with ALA 156 (chain L).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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4L LEU* 3.7 17.5 - - + +
6L PHE* 4.0 9.3 - - + -
13L ILE* 3.6 30.7 - - + -
15L ALA* 4.1 9.2 - - + -
152L ALA 3.0 13.1 + - - +
153L TYR 3.9 3.8 - - - +
155L LEU* 1.3 76.5 - - - +
157L ARG* 1.4 57.8 + - - +
160L ILE* 3.0 34.5 + - - +
176L LEU* 4.1 4.9 - - + -
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Residues in contact with ARG 157 (chain L).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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150L GLU* 3.9 12.1 + - - -
153L TYR* 3.1 32.4 + - - +
154L ASP* 3.4 30.4 + - - +
156L ALA* 1.4 74.1 - - - +
158L ARG* 1.3 58.7 + - + +
160L ILE* 4.3 0.5 - - - +
161L TYR* 3.0 29.8 + - - +
174L VAL* 4.2 22.4 - - + +
176L LEU* 3.7 19.8 - - + +
188L SER* 3.1 30.3 + - - -
190L ASP* 4.7 18.8 + - - -
191L ASN 5.9 1.6 - - - -
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Residues in contact with ARG 158 (chain L).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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138L VAL* 4.4 7.2 - - + -
142L GLY* 5.1 6.9 - - - -
151L GLN* 4.0 7.7 + - - +
154L ASP* 2.8 31.5 + - + +
155L LEU* 3.5 42.0 - - - +
157L ARG* 1.3 72.5 - - + +
159L ALA* 1.3 59.4 + - - +
161L TYR* 3.2 5.7 + - - +
162L GLN* 3.0 34.7 + - - +
145Y ARG* 3.7 49.3 - - - +
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Residues in contact with ALA 159 (chain L).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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4L LEU* 3.4 22.2 - - + -
135L ALA* 3.9 25.7 - - - +
138L VAL* 4.0 19.1 - - + -
139L MET* 4.5 10.1 - - + +
155L LEU* 3.0 16.8 + - + +
158L ARG* 1.3 81.6 - - - +
160L ILE* 1.4 59.0 + - - +
162L GLN* 3.6 2.1 + - - +
163L ALA* 3.4 20.6 + - - +
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Residues in contact with ILE 160 (chain L).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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2L THR* 3.7 30.3 - - + +
4L LEU* 3.7 20.0 - - + +
15L ALA* 3.5 33.4 - - + +
16L ALA* 4.3 3.1 - - - +
17L ASP* 4.2 13.0 - - + +
156L ALA 3.0 22.2 + - - +
157L ARG 4.3 0.2 - - - +
159L ALA* 1.4 71.5 - - - +
161L TYR* 1.3 65.8 + - - +
163L ALA* 3.1 3.8 + - + +
164L THR* 3.1 37.4 + - + +
174L VAL* 3.7 27.8 - - + +
192L VAL* 5.1 0.7 - - + -
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Residues in contact with TYR 161 (chain L).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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157L ARG 3.0 21.0 + - - +
158L ARG* 3.2 5.1 + - - +
160L ILE* 1.3 77.9 - - - +
162L GLN* 1.3 82.7 + - - +
164L THR* 3.3 12.7 + - - -
165L TYR* 3.4 28.6 - + + +
174L VAL* 5.0 1.1 - - + +
192L VAL* 3.9 43.7 - - + -
194L ASP* 5.3 4.0 - - - -
145Y ARG* 4.0 16.8 - - - -
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Residues in contact with GLN 162 (chain L).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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134L TYR* 4.1 9.4 - - - +
138L VAL* 3.8 25.8 - - + -
158L ARG 3.0 20.3 + - - +
159L ALA 4.1 2.0 - - - +
161L TYR* 1.3 98.1 - - - +
163L ALA* 1.3 63.7 + - - +
165L TYR* 3.8 13.1 - - - +
166L ARG* 4.1 9.7 + - - +
141Y SER* 3.5 11.9 + - - +
144Y ASP* 2.8 31.2 + - - +
145Y ARG* 3.4 47.9 + - - +
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Residues in contact with ALA 163 (chain L).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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2L THR* 4.1 24.7 - - + +
131L GLY 3.7 21.5 - - - +
134L TYR* 3.9 13.5 - - + -
135L ALA* 4.2 3.4 - - + -
159L ALA 3.4 11.9 + - - +
160L ILE 3.1 8.9 + - - +
162L GLN* 1.3 76.5 - - - +
164L THR* 1.3 59.7 + - - +
165L TYR 3.1 1.6 - - - -
166L ARG 3.3 2.4 + - - -
167L ASP* 3.0 31.4 + - - +
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Residues in contact with THR 164 (chain L).
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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17L ASP* 3.5 40.6 - - + +
160L ILE* 3.1 21.3 + - + +
161L TYR* 3.3 11.1 + - - -
163L ALA* 1.3 74.5 - - + +
165L TYR* 1.3 63.7 + - - +
167L ASP 3.3 7.5 - - - +
170L SER* 3.1 29.9 - - - +
171L GLY* 4.4 7.1 - - - +
172L GLY 4.7 4.0 - - - +
192L VAL* 3.9 19.6 - - + +
182X MET* 5.4 2.8 - - - +
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Residues in contact with TYR 165 (chain L).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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161L TYR* 3.4 32.5 + + + +
162L GLN* 3.8 9.2 - - - +
163L ALA 3.1 0.2 - - - -
164L THR* 1.3 81.4 + - - +
166L ARG* 1.4 87.0 + - + +
33X MET* 3.7 10.0 - - + +
36X THR* 2.9 28.2 + - + +
182X MET* 3.4 41.0 - - + +
129Y PHE* 5.6 1.9 - - - -
144Y ASP* 3.0 38.9 + - - -
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Residues in contact with ARG 166 (chain L).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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134L TYR* 4.0 27.6 - - + -
162L GLN 4.2 7.6 - - - +
163L ALA 3.3 4.2 + - - +
165L TYR* 1.4 100.8 - - + +
167L ASP* 1.3 64.9 + - - +
168L ALA 3.3 0.5 + - - -
26X ARG* 4.1 2.4 + - - -
31X ALA 3.2 6.2 - - - +
32X GLN* 3.3 26.3 - - + +
33X MET* 3.1 70.6 + - - +
34X VAL* 4.3 7.2 + - - +
182X MET* 5.5 0.4 - - - -
129Y PHE* 3.5 30.3 - - - -
140Y LEU* 3.8 25.2 + - + +
141Y SER* 6.0 3.8 - - - +
144Y ASP* 3.9 14.9 + - + +
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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