Contacts of the helix formed by residues 148 - 165 (chain A) in PDB entry 1TU8
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 SER 148 (chain A).
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Specific contacts
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Residue Dist Surf HB Arom Phob DC
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76A LEU* 3.5 23.8 - - - -
78A GLY 5.0 0.2 - - - -
87A ILE* 3.6 24.3 - - - +
142A ILE* 4.7 2.1 - - - +
143A LEU* 3.9 23.3 - - - +
147A ILE* 1.3 76.7 - - - +
149A TYR* 1.3 66.6 + - - +
150A ALA* 3.6 8.8 + - - +
151A ASP* 2.9 30.1 + - - +
152A TYR* 3.8 7.1 - - - -
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Residues in contact with TYR 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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20A PHE* 4.0 11.0 - - + -
67A LEU* 3.6 37.5 - - + +
68A ARG* 3.9 28.5 - - + +
71A ALA* 3.2 31.4 - - + -
76A LEU* 3.2 12.0 + - - +
77A ASN* 3.4 23.3 + - - -
84A THR 4.7 0.2 + - - -
87A ILE* 3.5 19.6 - - + +
88A ASP* 3.4 31.5 + - - +
91A CYS* 3.8 24.5 - - + -
148A SER* 1.3 73.7 - - - +
150A ALA* 1.3 63.2 + - - +
152A TYR* 3.1 25.5 + - - +
153A ALA 3.6 6.9 + - - -
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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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87A ILE* 3.8 31.6 - - + +
90A PHE* 4.9 0.9 - - + -
91A CYS* 4.1 17.9 - - + +
94A VAL* 5.3 1.2 - - - +
142A ILE* 3.6 21.4 - - + +
148A SER* 3.1 10.2 + - - +
149A TYR* 1.3 88.4 - - + +
151A ASP* 1.3 62.1 + - - +
153A ALA* 3.3 2.6 + - - +
154A LEU* 3.0 20.3 + - - +
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Residues in contact with ASP 151 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
141A LEU* 3.5 11.9 - - - +
142A ILE* 2.9 38.1 + - - +
146A LYS 4.2 0.9 - - - +
147A ILE* 3.4 16.6 - - + -
148A SER* 2.9 37.3 + - - +
150A ALA* 1.3 78.6 - - - +
152A TYR* 1.3 55.9 + - - +
155A PHE* 2.9 30.5 + - - +
178A PHE* 3.3 17.9 - - + -
182A MET* 3.7 17.0 - - + +
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Residues in contact with TYR 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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16A PRO* 3.7 21.2 - - + +
19A LEU* 3.9 24.5 - - + +
20A PHE* 3.8 27.1 - + - -
23A ASP* 2.6 45.4 + - + +
24A GLN* 3.0 20.1 + - - -
67A LEU* 5.7 0.7 - - + -
76A LEU* 3.7 23.6 - - + -
147A ILE* 3.5 12.3 - - + +
148A SER 3.8 7.9 - - - -
149A TYR 3.1 13.2 + - - +
151A ASP* 1.3 76.5 - - - +
153A ALA* 1.3 61.6 + - - +
155A PHE* 3.5 3.1 + - - +
156A GLU* 3.1 24.9 + - - +
182A MET* 3.7 21.3 - - + -
188A LEU* 4.2 5.2 - - + -
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Residues in contact with ALA 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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16A PRO* 4.0 23.4 - - + +
67A LEU* 4.7 2.9 - - + -
91A CYS* 3.6 31.2 - - - -
94A VAL* 3.5 20.5 - - + +
95A ARG* 6.4 0.4 - - + -
149A TYR 3.6 3.8 + - - +
150A ALA 3.3 5.0 + - - +
152A TYR* 1.3 76.8 - - - +
154A LEU* 1.3 65.3 + - - +
156A GLU* 3.4 2.6 + - - +
157A GLU* 3.0 18.9 + - - +
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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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90A PHE* 3.8 27.4 - - + -
94A VAL* 4.0 25.8 - - + +
128A PHE* 4.4 13.0 - - + -
132A LEU* 4.8 3.1 - - + -
142A ILE* 3.8 14.8 - - + -
150A ALA 3.0 16.2 + - - +
151A ASP 3.9 2.9 - - - +
153A ALA* 1.3 75.2 - - - +
155A PHE* 1.3 58.5 + - - +
157A GLU* 3.3 3.1 + - + -
158A LEU* 2.9 54.7 + - + +
175A LEU* 4.4 14.1 - - + -
178A PHE* 3.7 29.2 - - + -
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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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19A LEU* 4.1 17.3 - - + -
151A ASP 2.9 19.2 + - - +
152A TYR* 3.7 3.4 - - - +
153A ALA 3.3 0.2 - - - -
154A LEU* 1.3 77.5 - - - +
156A GLU* 1.3 59.9 + - - +
158A LEU* 3.3 3.6 + - - +
159A ASP* 2.9 35.4 + - + +
178A PHE* 3.8 5.8 - - - -
179A HIS* 3.4 48.2 - + - -
182A MET* 3.5 27.1 - - + -
183A LYS* 3.8 23.6 - - + -
188A LEU* 4.3 20.2 - - + -
192A CYS* 4.1 27.1 - - + -
195A ARG* 5.7 1.1 - - - -
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Residues in contact with GLU 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* 2.9 47.1 + - - +
12A GLY 4.7 4.0 + - - +
15A GLU* 3.2 33.9 - - + +
16A PRO* 4.2 14.6 - - + -
19A LEU* 3.7 13.3 - - + +
98A HIS* 6.4 1.6 - - + -
152A TYR 3.1 18.0 + - - +
153A ALA 4.0 2.9 - - - +
155A PHE* 1.3 78.1 - - - +
157A GLU* 1.3 67.7 + - - +
159A ASP* 3.2 3.6 + - - +
160A VAL* 3.0 35.9 + - + +
195A ARG* 3.8 4.7 + - - -
202A VAL* 5.2 0.2 - - - +
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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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16A PRO* 6.1 0.7 - - - +
94A VAL* 3.7 24.3 - - + +
97A LEU* 4.0 18.4 - - + -
98A HIS* 2.8 53.3 + - - +
101A TYR* 4.2 0.7 - - - +
128A PHE* 6.2 0.2 - - + -
153A ALA 3.0 17.2 + - - +
154A LEU* 3.8 5.8 - - + +
156A GLU* 1.3 80.7 - - - +
158A LEU* 1.3 63.1 + - + +
160A VAL* 3.4 5.6 - - - +
161A HIS* 2.9 55.9 + - + -
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Residues in contact with LEU 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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97A LEU* 6.1 1.6 - - + -
125A LEU* 4.0 18.6 - - + -
128A PHE* 6.0 0.7 - - + -
154A LEU* 2.9 38.7 + - + +
155A PHE* 3.7 3.8 - - - +
157A GLU* 1.3 76.7 - - + +
159A ASP* 1.3 57.5 + - - +
161A HIS* 3.4 5.4 + - + +
162A GLN* 3.0 31.4 + - - +
168A CYS* 4.9 0.5 - - - -
169A LEU* 3.9 27.7 - - + +
175A LEU* 3.7 37.9 - - + +
178A PHE* 3.9 21.8 - - + -
179A HIS* 4.1 14.8 - - + +
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Residues in contact with ASP 159 (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 31.4 + - - +
155A PHE* 2.9 27.6 + - + +
156A GLU* 3.2 7.4 + - - +
158A LEU* 1.3 76.8 - - - +
160A VAL* 1.3 62.0 + - - +
162A GLN* 3.1 7.9 + - - +
163A ILE* 3.1 27.8 + - - +
179A HIS* 2.9 32.9 + - + -
195A ARG* 3.8 8.6 + - - -
196A ASP* 4.7 3.3 - - - +
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Residues in contact with VAL 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* 3.9 7.4 - - - +
98A HIS* 5.0 4.5 - - + +
101A TYR* 4.0 22.4 + - + +
156A GLU* 3.0 44.1 + - + +
157A GLU* 3.4 23.6 - - - +
159A ASP* 1.3 74.7 - - - +
161A HIS* 1.3 76.0 + - + +
163A ILE* 3.4 12.8 + - - +
164A LEU* 3.1 20.4 + - - +
202A VAL* 3.6 28.3 - - + -
208A GLN 5.8 0.2 - - - -
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Residues in contact with HIS 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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97A LEU* 3.8 13.1 - - + +
101A TYR* 3.6 17.4 - + - +
116A TYR* 2.7 38.7 + + - -
121A LEU* 3.3 30.5 - - + +
125A LEU* 5.6 4.3 - - + -
157A GLU* 2.9 48.7 + - + +
158A LEU* 3.8 5.6 - - - +
159A ASP 3.2 0.2 - - - -
160A VAL* 1.3 86.7 - - + +
162A GLN* 1.3 53.2 + - - +
164A LEU* 3.3 8.2 + - - +
165A ASP* 2.8 34.5 + - - +
168A CYS* 3.6 16.1 - - - -
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Residues in contact with GLN 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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158A LEU 3.0 17.5 + - - +
159A ASP* 3.1 11.0 + - - +
161A HIS* 1.3 73.4 - - - +
163A ILE* 1.3 61.4 + - + +
165A ASP 3.6 6.3 - - - -
166A PRO* 3.1 45.5 + - + +
168A CYS* 4.0 4.0 - - - -
169A LEU* 3.7 39.3 - - + +
176A LYS* 5.3 9.5 - - - +
179A HIS* 3.2 29.7 + - - -
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Residues in contact with ILE 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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11A ARG* 3.7 28.3 - - - +
159A ASP* 3.1 20.2 + - - +
160A VAL* 3.5 9.2 - - - +
162A GLN* 1.3 78.8 - - - +
164A LEU* 1.3 63.8 + - - +
166A PRO* 4.3 7.2 - - - +
196A ASP* 6.1 1.1 - - - +
202A VAL* 3.9 15.3 - - + -
208A GLN* 4.0 42.3 - - + +
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Residues in contact with LEU 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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101A TYR* 4.4 9.2 - - + -
104A MET* 3.8 21.1 - - + -
105A ILE* 4.4 4.3 - - + -
109A TYR* 4.2 6.1 - - + -
113A LYS* 4.0 29.3 + - + -
116A TYR* 3.7 35.9 - - + -
117A ILE* 3.9 24.9 - - + +
121A LEU* 5.0 2.5 - - + -
160A VAL 3.1 13.7 + - - +
161A HIS* 3.3 13.7 + - - +
163A ILE* 1.3 79.9 - - - +
165A ASP* 1.3 56.6 - - - +
166A PRO* 4.0 4.0 - - - +
208A GLN 4.0 24.9 - - - +
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Residues in contact with ASP 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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117A ILE* 3.4 41.7 - - + +
121A LEU* 4.9 3.4 - - + +
161A HIS 2.8 20.0 + - - +
162A GLN* 3.3 3.5 - - - +
164A LEU* 1.3 74.7 - - + +
166A PRO* 1.3 69.0 - - - +
167A HIS* 2.9 20.3 + - - +
168A CYS* 3.0 38.9 + - + +
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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