Contacts of the helix formed by residues 137 - 156 (chain B) 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 B).
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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135B ALA* 3.5 27.0 - - + +
136B ASP* 1.3 92.5 + - + +
138B ALA* 1.3 69.6 + - - +
139B ASP* 3.3 7.2 + - + +
140B ALA* 3.5 11.9 + - + +
141B PHE 3.1 10.7 + - - -
186B ARG* 5.2 3.4 - - - +
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Residues in contact with ALA 138 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
136B ASP 3.5 0.4 + - - -
137B HIS* 1.3 69.7 - - - +
139B ASP* 1.3 56.9 + - - +
141B PHE* 2.5 31.0 + - - +
142B ALA* 2.7 15.2 + - - -
176B GLY 4.6 1.6 - - - +
177B ARG* 4.4 13.5 - - - +
180B PHE* 3.9 11.2 - - + +
181B ALA* 3.5 36.8 - - + +
186B ARG* 4.6 6.8 - - - +
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Residues in contact with ASP 139 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
137B HIS* 3.3 6.8 + - + +
138B ALA* 1.3 79.7 - - - +
140B ALA* 1.3 68.9 + - - +
142B ALA* 3.1 11.8 + - - +
143B GLU* 3.4 10.6 + - - +
177B ARG* 4.4 28.4 + - + +
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Residues in contact with ALA 140 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
134B VAL* 4.3 9.2 - - - +
135B ALA* 3.9 26.5 - - + -
137B HIS* 3.5 12.4 + - + +
138B ALA 3.4 0.4 - - - -
139B ASP* 1.3 85.6 + - - +
141B PHE* 1.3 60.1 + - - +
143B GLU* 3.5 9.7 - - - +
144B LEU* 3.3 19.4 + - - +
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Residues in contact with PHE 141 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
134B VAL* 4.4 9.8 - - + +
135B ALA 4.0 13.2 - - - -
136B ASP* 3.7 15.7 - - - +
137B HIS 3.1 12.3 + - - +
138B ALA* 2.5 22.5 + - - +
140B ALA* 1.3 70.2 - - - +
142B ALA* 1.3 64.4 + - - +
144B LEU* 3.1 18.8 + - + +
145B ASP* 2.9 23.1 + - + +
180B PHE* 3.4 47.1 - + + -
186B ARG* 3.6 38.1 - - + -
189B ALA* 3.9 7.6 - - + -
190B LEU* 4.0 26.0 - - + -
193B TYR* 4.6 7.9 - + - -
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Residues in contact with ALA 142 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
138B ALA 2.7 11.2 + - - +
139B ASP 3.1 9.2 + - - +
141B PHE* 1.3 72.4 - - - +
143B GLU* 1.3 64.9 + - - +
145B ASP* 3.0 4.7 + - - +
146B TYR* 3.0 24.6 + - - +
173B THR* 4.3 10.3 - - - +
176B GLY* 3.7 31.6 - - - -
177B ARG* 3.7 16.6 - - + +
180B PHE* 3.8 13.6 - - - -
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Residues in contact with GLU 143 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
139B ASP* 3.4 6.5 + - - +
140B ALA* 3.5 15.7 - - - +
142B ALA* 1.3 79.9 - - - +
144B LEU* 1.3 63.3 + - - +
146B TYR* 3.5 8.8 + - - +
147B ASN* 2.9 39.8 + - - +
169B LYS* 4.6 16.8 + - - -
173B THR* 5.3 6.5 - - - +
177B ARG* 5.9 1.3 - - - +
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Residues in contact with LEU 144 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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130B THR* 3.8 17.5 - - - +
131B ALA* 4.2 20.4 - - + +
134B VAL* 4.0 29.2 - - + -
140B ALA 3.3 8.7 + - - +
141B PHE* 3.1 26.5 + - + +
143B GLU* 1.3 80.1 - - - +
145B ASP* 1.3 57.0 + - - +
147B ASN* 3.0 8.5 + - + -
148B ILE* 2.8 59.0 + - + +
190B LEU* 5.4 1.1 - - + -
193B TYR* 4.5 9.2 - - + -
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Residues in contact with ASP 145 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
141B PHE* 2.9 7.2 + - + +
142B ALA* 3.0 8.4 + - - +
144B LEU* 1.3 78.1 - - - +
146B TYR* 1.3 64.6 + - - +
148B ILE* 3.3 6.1 + - - +
149B PHE* 3.0 34.7 + - - -
172B TYR* 3.4 31.4 + - - +
176B GLY* 5.6 1.7 - - - -
180B PHE* 3.3 35.9 - - + -
193B TYR* 2.7 31.8 + - - +
215B TYR* 4.3 7.4 + - - -
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Residues in contact with TYR 146 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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142B ALA 3.0 14.3 + - - +
143B GLU* 3.8 8.3 - - - +
145B ASP* 1.3 81.9 + - - +
147B ASN* 1.3 74.2 + - - +
148B ILE 3.0 1.9 + - - -
149B PHE* 3.1 4.6 + - - +
150B ARG* 3.1 44.5 + - + +
165B LEU* 2.7 41.9 + - + -
166B ASN* 3.3 13.9 + - - -
168B MET 4.8 0.2 - - - -
169B LYS* 3.1 54.2 - - + +
172B TYR* 3.7 29.4 - + + +
173B THR* 4.5 14.8 - - + -
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Residues in contact with ASN 147 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
127B VAL* 4.5 2.1 - - - +
143B GLU* 2.9 37.1 + - + +
144B LEU* 3.0 8.0 + - + +
146B TYR* 1.3 84.0 - - - +
148B ILE* 1.3 56.6 + - - +
150B ARG* 3.8 27.8 - - - +
151B GLY* 2.7 27.7 + - - +
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Residues in contact with ILE 148 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
127B VAL* 3.8 10.0 - - + +
128B LEU* 4.1 14.8 - - + -
130B THR* 4.1 10.5 - - - +
131B ALA* 4.2 10.3 - - + -
144B LEU* 2.8 45.0 + - + +
145B ASP 3.7 5.2 - - - +
146B TYR 3.0 0.8 + - - -
147B ASN* 1.3 70.8 - - - +
149B PHE* 1.3 57.6 + - + +
151B GLY* 3.0 1.9 + - - -
152B LEU* 2.6 66.7 + - + +
193B TYR* 3.5 43.1 - - + -
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Residues in contact with PHE 149 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
105B ARG* 3.5 40.8 - - + -
109B SER* 4.0 25.1 - - - -
112B PHE* 3.4 15.7 - + + -
113B ILE* 4.4 11.0 - - + -
145B ASP* 3.0 44.4 - - - -
146B TYR* 3.1 5.5 + - - +
148B ILE* 1.3 78.8 - - + +
150B ARG* 1.3 52.9 + - - +
152B LEU* 2.8 14.0 + - + +
153B ALA* 2.6 33.4 + - - +
165B LEU* 4.5 14.1 - - + -
172B TYR* 4.1 13.9 - + + -
192B PHE* 4.5 20.2 - + - -
193B TYR* 4.7 8.7 - + - -
215B TYR* 4.8 5.4 - + - -
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Residues in contact with ARG 150 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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75A TRP 3.5 3.8 + - - -
76A GLU* 3.0 50.7 + - - +
146B TYR* 3.1 49.3 + - + +
147B ASN* 3.8 23.7 - - - +
149B PHE* 1.3 75.0 - - - +
151B GLY* 1.3 67.5 + - - +
153B ALA* 3.1 8.7 + - - +
154B PHE* 3.0 45.4 + - + -
162B GLY* 5.2 1.3 - - - +
165B LEU* 4.4 12.4 - - + +
166B ASN* 3.1 19.5 + - - +
169B LYS* 6.1 0.2 - - - +
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Residues in contact with GLY 151 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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123B LYS* 4.8 6.1 + - - -
127B VAL* 4.2 14.7 - - - +
147B ASN* 2.7 25.7 + - - +
148B ILE 3.3 1.1 - - - -
150B ARG* 1.3 75.9 - - - +
152B LEU* 1.3 58.7 + - - +
154B PHE* 3.4 6.1 + - - +
155B ALA* 2.9 30.1 + - - +
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Residues in contact with LEU 152 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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112B PHE* 3.5 11.0 - - + -
113B ILE* 3.6 36.3 - - + -
116B ALA* 3.4 11.4 - - + +
124B ALA* 4.4 9.9 - - + +
127B VAL* 3.7 11.7 - - + -
128B LEU* 3.3 35.7 - - + -
148B ILE* 2.6 43.0 + - + +
149B PHE* 2.8 16.3 + - + +
151B GLY* 1.3 68.1 - - - -
153B ALA* 1.3 53.2 + - - +
155B ALA* 3.1 7.0 + - - +
156B SER 2.6 32.4 + - - -
192B PHE* 6.5 0.2 - - + -
196B LEU* 5.3 3.6 - - + -
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Residues in contact with ALA 153 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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112B PHE* 3.0 27.0 - - + -
149B PHE 2.6 14.9 + - - +
150B ARG* 3.4 11.9 - - - +
152B LEU* 1.3 69.8 - - - +
154B PHE* 1.3 65.7 + - - +
156B SER* 2.4 30.3 + - - -
158B ASN 4.5 3.6 + - - +
161B TYR* 4.0 21.5 - - + +
162B GLY* 4.0 13.0 - - - +
165B LEU* 5.0 2.2 - - + -
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Residues in contact with PHE 154 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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75A TRP* 3.1 59.2 - + + -
76A GLU* 5.8 0.4 - - + -
238A GLY* 4.1 24.5 - - - +
239A ARG* 3.8 22.4 - - - +
123B LYS* 5.1 2.5 - - - +
150B ARG* 3.0 49.1 + - + -
151B GLY* 3.8 6.5 - - - +
153B ALA* 1.3 79.0 - - - +
155B ALA* 1.3 52.3 + - - +
156B SER 2.3 15.6 + - - -
157B GLY* 2.4 23.0 + - - -
159B PRO* 3.8 27.8 - - + -
162B GLY* 3.9 15.5 - - - -
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Residues in contact with ALA 155 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
239A ARG 3.8 10.4 + - - -
116B ALA* 4.1 6.4 - - + -
119B GLN 3.6 2.3 - - - +
120B HIS* 3.3 28.5 - - + +
123B LYS* 4.0 27.5 - - + +
124B ALA* 4.5 14.4 - - - +
127B VAL* 5.0 1.1 - - + -
151B GLY 2.9 21.7 + - - +
152B LEU* 3.4 9.0 - - - +
154B PHE* 1.3 72.3 - - - +
156B SER* 1.3 55.8 + - - +
157B GLY* 2.9 6.7 + - - -
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Residues in contact with SER 156 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
112B PHE* 3.4 27.8 - - - -
115B THR* 2.9 27.8 - - - +
116B ALA* 3.4 13.9 - - - +
119B GLN* 4.9 3.8 - - - +
120B HIS* 4.6 2.5 - - - -
152B LEU 2.6 8.0 + - - -
153B ALA* 2.4 27.8 + - - -
154B PHE 2.3 9.7 + - - -
155B ALA* 1.3 67.7 - - - +
157B GLY* 1.3 55.1 + - - -
158B ASN* 3.2 21.5 + - - +
161B TYR* 4.1 6.4 - - - -
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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