Contacts of the helix formed by residues 138 - 152 (chain A) in PDB entry 1HTI
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 ILE 138 (chain A).
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Specific contacts
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Residue Dist Surf HB Arom Phob DC
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133A GLU* 3.3 20.1 + - + +
136A ALA* 3.7 26.7 - - + +
137A GLY* 1.4 72.3 - - - +
139A THR* 1.3 65.4 + - - +
140A GLU* 2.9 5.5 + - - -
141A LYS* 3.0 47.2 + - + +
142A VAL* 3.5 23.1 + - + -
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Residues in contact with THR 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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129A GLU* 3.0 43.1 + - - +
133A GLU 3.0 5.4 + - - -
134A ARG* 3.4 23.3 + - - +
137A GLY 3.3 5.2 + - - -
138A ILE* 1.3 72.0 - - - +
140A GLU* 1.3 58.1 - - + +
142A VAL* 3.1 3.5 + - - +
143A VAL* 2.9 41.8 + - + +
184A VAL* 4.2 23.3 - - + -
187A LYS* 5.4 7.2 - - + +
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Residues in contact with GLU 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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137A GLY 4.6 9.4 - - - +
138A ILE 4.1 3.6 - - - +
139A THR* 1.3 76.2 - - - +
141A LYS* 1.3 57.0 + - + +
143A VAL* 3.2 5.1 + - - +
144A PHE* 2.8 74.5 + - + +
187A LYS* 3.1 47.5 + - + +
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Residues in contact with LYS 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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138A ILE* 3.0 45.9 + - + +
140A GLU* 1.3 77.2 - - + +
142A VAL* 1.3 56.3 + - - +
144A PHE* 3.6 4.6 - - - +
145A GLU* 2.8 62.5 + - - +
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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
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128A GLY 4.6 0.2 - - - +
129A GLU* 4.2 13.2 - - + -
130A LYS* 6.2 0.2 - - - +
133A GLU* 3.5 39.7 - - + +
138A ILE* 3.5 29.2 - - + +
139A THR 3.1 5.1 + - - +
141A LYS* 1.3 81.0 - - + +
143A VAL* 1.3 64.6 + - - +
145A GLU* 3.5 10.3 - - + +
146A GLN* 3.0 55.4 + - + +
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Residues in contact with VAL 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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127A ILE* 4.4 8.3 - - + +
128A GLY* 4.2 10.3 - - - +
129A GLU* 3.3 35.0 - - + +
139A THR* 2.9 23.5 + - + +
140A GLU* 3.7 4.3 - - - +
142A VAL* 1.3 79.0 - - - +
144A PHE* 1.3 57.8 + - + +
146A GLN* 3.5 6.4 + - - +
147A THR* 2.7 36.6 + - - -
164A TYR* 4.4 4.3 - - + -
184A VAL* 4.5 6.1 - - + -
187A LYS* 6.0 0.7 - - + -
188A LEU* 3.2 35.9 - - + -
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Residues in contact with PHE 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 GLU* 2.8 58.4 + - + +
141A LYS* 3.6 4.9 - - - +
143A VAL* 1.3 81.0 - - + +
145A GLU* 1.3 54.0 + - - +
147A THR* 3.4 5.0 + - - -
148A LYS* 2.8 36.0 + - - +
187A LYS* 3.6 29.6 - - + -
188A LEU* 4.4 6.7 - - + -
191A TRP* 3.3 51.4 + + + +
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Residues in contact with GLU 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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106A ASP* 5.0 4.5 - - - +
141A LYS* 2.8 55.1 + - - +
142A VAL* 3.5 10.9 - - - +
144A PHE* 1.3 72.2 - - - +
146A GLN* 1.3 69.1 + - + +
148A LYS* 3.2 25.1 - - + +
149A VAL* 3.2 19.3 - - + +
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Residues in contact with GLN 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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99A ARG* 4.0 23.4 - - - +
100A HIS* 5.9 3.0 + - - -
106A ASP* 3.6 28.6 + - - +
127A ILE* 3.6 15.9 - - + +
128A GLY 3.1 36.4 + - - +
142A VAL* 3.0 38.1 + - - +
143A VAL* 3.6 4.0 - - - +
145A GLU* 1.3 82.0 - - + +
147A THR* 1.3 68.3 + - - +
148A LYS 3.2 0.3 + - - -
149A VAL* 3.4 5.4 + - - +
150A ILE* 3.4 18.0 - - - +
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Residues in contact with THR 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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127A ILE* 4.0 18.8 - - - +
143A VAL* 2.7 23.2 + - - +
144A PHE* 3.9 6.7 - - - -
146A GLN* 1.3 69.1 - - - +
148A LYS* 1.3 51.3 + - - +
150A ILE* 2.8 12.6 + - - +
151A ALA* 2.7 34.8 + - + +
157A TRP* 5.0 2.5 - - + -
162A LEU* 3.9 31.6 - - + -
188A LEU* 4.6 9.5 - - + +
191A TRP* 4.1 30.1 - - + -
192A LEU* 4.8 4.5 - - + -
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Residues in contact with LYS 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 PHE 2.8 19.8 + - - +
145A GLU* 3.2 17.0 - - + +
147A THR* 1.3 74.4 - - - +
149A VAL* 1.3 58.1 + - + +
151A ALA* 2.9 7.3 + - - +
152A ASP* 2.7 59.6 + - - +
191A TRP* 3.8 21.9 - - + -
195A ASN* 6.0 0.2 - - - +
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Residues in contact with VAL 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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106A ASP* 3.3 39.5 - - + +
107A GLU* 3.8 23.3 - - - +
110A GLY* 3.8 4.9 - - - -
145A GLU* 3.2 19.7 + - + +
146A GLN 4.0 3.6 - - - +
147A THR 3.3 0.6 - - - -
148A LYS* 1.3 85.4 - - + +
150A ILE* 1.3 60.9 + - + +
152A ASP* 3.8 12.0 + - + +
153A ASN* 2.7 35.4 + - - +
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Residues in contact with ILE 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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99A ARG* 4.1 14.8 - - - +
106A ASP* 4.7 4.3 - - - +
109A ILE* 3.9 25.6 - - + -
110A GLY* 4.9 2.7 - - - +
113A VAL* 3.7 19.2 - - + +
125A ALA* 3.7 31.0 - - + -
126A CYS 5.2 0.2 - - - +
127A ILE* 4.9 4.9 - - + -
146A GLN 3.4 15.0 - - - +
147A THR* 2.8 14.8 + - - +
149A VAL* 1.3 72.8 - - + +
151A ALA* 1.3 56.1 + - - +
153A ASN* 2.8 26.0 + - - +
154A VAL* 2.9 28.9 - - + +
157A TRP* 4.6 7.9 - - + -
160A VAL* 4.7 6.7 - - + -
162A LEU* 4.8 7.0 - - + -
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Residues in contact with ALA 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 THR 2.7 11.1 + - - +
148A LYS 2.9 10.3 + - - +
150A ILE* 1.3 71.1 - - - +
152A ASP* 1.3 54.2 + - - +
153A ASN 2.7 11.6 + - - -
154A VAL* 3.1 16.5 + - - +
157A TRP* 3.4 33.0 + - + -
191A TRP* 3.6 26.2 - - + -
196A VAL* 4.3 6.1 - - + -
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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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148A LYS* 2.7 49.7 + - - +
149A VAL* 3.8 16.6 - - + +
150A ILE 3.4 0.4 - - - -
151A ALA* 1.3 69.1 - - - +
153A ASN* 1.3 67.0 + - - +
154A VAL 3.8 0.2 - - - -
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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