Contacts of the helix formed by residues 137 - 157 (chain A) in PDB entry 1H9T
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 HIS 137 (chain A).
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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135A ALA* 3.3 26.6 - - + +
136A ASP* 1.3 77.4 + - + +
138A ALA* 1.3 69.9 + - - +
139A ASP* 3.3 5.2 + - + +
140A ALA* 2.8 29.0 + - + +
141A PHE* 3.1 6.9 + - - -
186A ARG* 4.5 3.1 - - - +
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Residues in contact with ALA 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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136A ASP 3.6 2.6 + - - -
137A HIS* 1.3 70.2 - - - +
139A ASP* 1.3 57.3 + - - +
141A PHE* 2.6 32.6 + - - +
142A ALA* 2.8 14.4 + - - +
177A ARG* 4.0 14.1 - - - +
180A PHE* 3.9 7.6 - - + +
181A ALA* 3.6 37.7 - - + +
186A ARG* 3.8 8.4 - - - +
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Residues in contact with ASP 139 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
137A HIS* 3.1 7.4 + - + +
138A ALA* 1.3 75.7 - - - +
140A ALA* 1.3 62.1 + - - +
142A ALA* 3.7 1.7 + - - +
143A GLU* 3.3 21.8 + - - +
177A ARG* 3.3 44.8 + - + +
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Residues in contact with ALA 140 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
134A VAL* 3.8 14.1 - - + +
135A ALA* 3.4 24.5 - - + +
137A HIS* 2.8 33.7 + - + +
139A ASP* 1.3 76.4 - - - +
141A PHE* 1.3 60.1 + - - +
143A GLU* 3.9 7.4 + - - +
144A LEU* 3.4 13.0 + - - +
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Residues in contact with PHE 141 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
134A VAL* 4.8 11.7 - - + -
135A ALA 4.2 15.7 + - - -
136A ASP* 4.6 2.7 - - - -
137A HIS 3.1 5.9 + - - +
138A ALA* 2.6 23.3 + - - +
140A ALA* 1.3 69.1 - - - +
142A ALA* 1.3 67.0 + - - +
143A GLU 3.1 1.1 - - - -
144A LEU* 2.7 23.1 + - + +
145A ASP* 2.8 15.4 + - + +
180A PHE* 3.3 38.4 - + + -
186A ARG* 3.2 63.9 - - + -
189A ALA* 4.0 9.0 - - + -
190A LEU* 4.6 18.2 - - + -
193A TYR* 4.8 8.1 - + - -
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Residues in contact with ALA 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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138A ALA 2.8 9.9 + - - +
139A ASP 4.0 4.3 - - - +
141A PHE* 1.3 76.6 - - - +
143A GLU* 1.3 64.5 + - - +
144A LEU 3.0 1.4 + - - -
145A ASP* 3.1 0.5 + - - +
146A TYR* 3.0 26.0 + - - +
173A THR* 4.3 12.3 - - - +
176A GLY* 3.5 12.3 - - - -
177A ARG* 3.4 34.8 - - + +
180A PHE* 3.4 15.6 - - + -
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Residues in contact with GLU 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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139A ASP 3.3 14.7 + - - +
140A ALA* 4.0 7.9 - - - +
141A PHE 3.1 0.6 - - - -
142A ALA* 1.3 79.0 - - - +
144A LEU* 1.3 57.7 + - - +
146A TYR* 4.6 5.1 - - - +
147A ASN* 2.9 37.5 + - - +
169A LYS* 4.3 25.4 + - - -
173A THR* 4.7 10.7 - - - +
177A ARG* 5.5 4.8 + - - +
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Residues in contact with LEU 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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130A THR* 3.2 31.0 - - - +
131A ALA* 3.9 21.5 - - + -
134A VAL* 3.8 33.0 - - + -
140A ALA 3.4 12.2 + - - +
141A PHE* 2.7 22.9 + - + +
143A GLU* 1.3 70.9 - - - +
145A ASP* 1.3 70.4 + - - +
147A ASN* 2.6 20.5 + - + +
148A ILE* 2.7 24.3 + - + -
193A TYR* 4.9 8.5 - - + -
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Residues in contact with ASP 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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105A ARG* 5.2 0.9 + - - -
141A PHE* 2.8 12.0 + - + +
142A ALA 3.6 0.9 - - - +
144A LEU* 1.3 71.0 - - - +
146A TYR* 1.3 56.6 + - - +
148A ILE* 2.4 28.8 + - - +
149A PHE* 3.2 25.7 + - - -
172A TYR* 3.2 26.4 + - - -
180A PHE* 3.3 41.3 - - + -
193A TYR* 2.5 31.2 + - - +
215A TYR* 4.1 10.4 + - - -
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Residues in contact with TYR 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 ALA 3.0 12.7 + - - +
143A GLU* 4.6 6.5 - - - +
145A ASP* 1.3 84.8 + - - +
147A ASN* 1.3 72.8 + - - +
148A ILE 3.2 0.7 + - - -
149A PHE* 4.8 2.0 - - - +
150A ARG* 3.2 49.0 + - + +
165A LEU* 3.5 35.4 - - + -
166A ASN* 3.5 21.8 + - - -
169A LYS* 3.6 46.0 - - + +
172A TYR* 3.7 32.1 - + + -
173A THR* 4.1 14.6 - - + -
76B GLU 5.0 0.2 + - - -
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Residues in contact with ASN 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 VAL* 4.7 2.1 - - - +
143A GLU* 2.9 34.5 + - - +
144A LEU* 2.6 22.9 + - + +
146A TYR* 1.3 87.3 - - - +
148A ILE* 1.3 57.5 + - - +
150A ARG* 4.6 10.5 - - - +
151A GLY* 3.2 20.4 + - - -
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Residues in contact with ILE 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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127A VAL* 3.8 16.9 - - + +
128A LEU* 4.3 17.0 - - + -
130A THR* 4.1 7.9 - - - +
131A ALA* 4.5 6.1 - - + -
144A LEU* 2.7 32.5 + - + -
145A ASP 2.4 20.3 + - - +
147A ASN* 1.3 71.4 - - - +
149A PHE* 1.3 76.7 + - + +
151A GLY* 2.9 3.1 + - - -
152A LEU* 2.8 38.3 + - + +
192A PHE* 6.3 0.4 - - + -
193A TYR* 3.5 48.2 - - + -
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Residues in contact with PHE 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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105A ARG* 3.1 37.0 - - + -
109A SER* 4.0 28.3 - - - -
112A PHE* 3.4 19.0 - + + -
113A ILE* 4.5 9.9 - - + -
145A ASP* 3.2 37.8 + - - -
146A TYR* 4.4 3.8 - - - +
148A ILE* 1.3 83.8 - - + +
150A ARG* 1.3 66.2 + - - +
152A LEU* 3.0 7.5 + - + +
153A ALA* 2.7 19.9 + - - +
165A LEU* 4.2 16.8 - - + -
172A TYR* 4.7 4.0 - + + -
192A PHE* 4.2 21.3 - + - -
193A TYR* 4.4 11.7 - + - -
212A VAL* 5.9 1.1 - - + -
215A TYR* 4.5 4.3 - + - -
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Residues in contact with ARG 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 TYR* 3.2 48.0 + - + +
147A ASN* 4.3 12.1 - - - +
149A PHE* 1.3 78.2 - - - +
151A GLY* 1.3 71.5 + - - +
153A ALA* 2.9 22.8 + - - +
154A PHE* 3.1 34.2 + - + -
165A LEU* 4.3 13.6 - - + +
166A ASN* 3.2 14.9 + - - +
75B TRP* 2.4 39.4 + - - +
76B GLU* 3.2 19.5 + - - +
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Residues in contact with GLY 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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123A LYS* 5.7 3.3 + - - -
127A VAL* 4.1 20.9 - - - +
147A ASN 3.2 13.1 + - - -
148A ILE 2.9 11.5 + - - -
150A ARG* 1.3 81.0 - - - +
152A LEU* 1.3 62.7 + - - +
154A PHE* 3.3 8.1 + - - +
155A ALA* 3.0 14.2 + - - +
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Residues in contact with LEU 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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112A PHE* 3.4 15.3 - - + -
113A ILE* 4.0 29.2 - - + -
116A ALA* 4.5 8.7 - - + -
117A PHE* 6.0 3.8 - - + -
124A ALA* 4.2 20.9 - - + +
127A VAL* 4.1 7.8 - - + +
128A LEU* 3.5 30.7 - - + -
148A ILE* 2.8 33.6 + - + +
149A PHE* 3.3 11.2 - - + +
151A GLY* 1.3 66.5 - - - -
153A ALA* 1.3 59.1 + - - +
155A ALA* 2.0 42.3 + - - +
156A SER 2.8 2.0 + - - -
196A LEU* 5.9 4.3 - - + -
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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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112A PHE* 2.9 24.5 - - + -
149A PHE 2.7 14.9 + - - +
150A ARG* 2.9 16.6 - - - +
152A LEU* 1.3 83.9 - - - +
154A PHE* 1.3 63.6 + - - +
155A ALA 2.5 0.2 + - - -
156A SER* 2.7 20.0 + - - -
158A ASN 4.2 5.0 - - - +
161A TYR* 3.6 31.6 - - + +
162A GLY* 3.9 4.0 - - - +
165A LEU* 5.0 1.8 - - + -
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Residues in contact with PHE 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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120A HIS* 5.4 0.3 - - - -
123A LYS* 5.6 8.7 - - - +
150A ARG* 3.1 51.4 + - + -
151A GLY* 3.8 6.1 - - - +
152A LEU 2.8 0.4 + - - -
153A ALA* 1.3 80.1 - - - +
155A ALA* 1.3 54.3 - - - +
157A GLY* 2.9 22.9 + - - -
158A ASN 4.8 5.2 - - - -
159A PRO* 4.1 20.7 - - + +
162A GLY* 3.5 27.1 - - - -
163A LEU* 4.2 1.6 - - + -
75B TRP* 3.4 52.9 - + + -
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Residues in contact with ALA 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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116A ALA* 3.9 10.3 - - + +
119A GLN 3.5 5.9 - - - +
120A HIS* 3.2 25.3 - - + +
123A LYS* 5.1 15.7 - - + +
124A ALA* 4.6 19.7 - - + +
127A VAL* 5.5 1.8 - - + -
151A GLY 3.0 8.0 + - - +
152A LEU* 2.0 39.7 + - - +
154A PHE* 1.3 63.8 - - - +
156A SER* 1.3 53.1 + - - +
157A GLY 2.5 15.8 + - - -
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Residues in contact with SER 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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112A PHE* 3.1 32.5 - - - -
115A THR* 2.8 33.6 - - - +
116A ALA* 3.1 19.8 - - - +
119A GLN* 4.6 5.9 - - - +
120A HIS* 4.5 1.3 - - - -
152A LEU 2.8 3.8 + - - -
153A ALA 2.7 16.1 + - - -
155A ALA* 1.3 70.2 - - - +
157A GLY* 1.3 56.8 + - - +
158A ASN* 3.0 23.9 + - - +
161A TYR* 4.2 5.1 - - - -
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Residues in contact with GLY 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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119A GLN* 5.7 0.4 - - - -
120A HIS* 4.0 17.0 - - - -
154A PHE 2.9 12.7 + - - -
155A ALA 2.5 8.4 + - - -
156A SER* 1.3 78.7 + - - +
158A ASN* 1.3 58.7 + - - +
159A PRO* 3.0 14.6 - - - +
96B GLN* 5.4 4.9 + - - -
100B ASN* 4.8 2.6 - - - +
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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