Contacts of the helix formed by residues 137 - 153 (chain B) in PDB entry 1UHG
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 ALA 137 (chain B).
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Specific contacts
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Residue Dist Surf HB Arom Phob DC
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133B ASN* 3.2 30.8 + - + +
134B PHE 3.7 0.4 + - - -
136B THR* 1.3 81.4 - - - +
138B ALA* 1.3 59.6 + - - +
139B ASP 3.3 2.2 - - - -
140B GLN* 3.2 17.4 + - + +
141B ALA 2.9 23.9 + - - -
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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
----------------------------------------------------------
134B PHE* 3.4 21.7 + - - +
136B THR 3.9 0.8 - - - -
137B ALA* 1.3 74.4 - - - +
139B ASP* 1.3 63.3 + - - +
141B ALA* 3.5 9.0 - - - +
142B ARG 2.9 23.6 + - - -
166B VAL* 3.6 17.4 - - + +
167B ASP* 3.5 34.8 - - - +
168B SER 4.3 0.4 - - - +
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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 ALA* 3.3 1.0 - - - -
138B ALA* 1.3 79.7 - - - +
140B GLN* 1.3 62.7 + - - +
142B ARG* 3.4 15.3 + - - +
143B GLU* 3.3 19.1 + - - +
164B DSN 5.6 3.3 + - - -
166B VAL* 4.9 5.9 - - - +
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Residues in contact with GLN 140 (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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187A ALA* 6.2 0.2 - - - +
189A LYS* 3.5 33.8 + - - +
191A GLU* 4.8 4.5 - - - +
341A VAL* 3.7 28.7 - - + +
344A SEP 4.8 3.4 + - - +
137B ALA* 3.2 21.8 + - + +
138B ALA 3.2 0.2 - - - -
139B ASP* 1.3 78.8 - - - +
141B ALA* 1.3 63.6 + - - +
143B GLU* 3.2 32.9 + - - +
144B LEU* 3.0 37.6 + - + +
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Residues in contact with ALA 141 (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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132B ILE* 3.7 21.8 - - + -
133B ASN 3.6 9.0 - - - +
134B PHE* 3.6 28.9 - - + -
137B ALA 2.9 14.7 + - - +
138B ALA 3.2 8.5 + - - +
140B GLN* 1.3 76.3 - - - +
142B ARG* 1.3 63.0 + - - +
144B LEU* 3.2 5.7 + - - +
145B ILE* 2.9 30.5 + - - +
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Residues in contact with ARG 142 (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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138B ALA 2.9 7.3 + - - +
139B ASP* 3.7 14.2 + - - +
140B GLN 3.3 0.2 - - - -
141B ALA* 1.3 76.1 - - - +
143B GLU* 1.3 57.3 + - - +
145B ILE* 3.3 5.4 + - - +
146B ASN* 2.9 40.4 + - - +
159B ASN* 5.4 3.6 + - - +
161B LEU* 2.7 48.8 + - + +
162B GLN* 3.2 19.7 - - - +
163B PRO* 3.6 38.9 - - - +
164B DSN 4.8 1.3 + - - -
165B SER* 3.9 5.8 - - - -
166B VAL* 3.6 23.7 - - + +
119D GLN* 5.8 0.2 - - - +
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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
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188A PHE 4.0 3.5 - - - +
189A LYS* 3.6 5.0 - - - +
190A ASP* 2.9 58.0 + - - +
191A GLU* 4.7 2.9 + - - +
139B ASP 3.3 8.5 + - - +
140B GLN* 3.2 32.3 + - - +
141B ALA 3.2 0.6 - - - -
142B ARG* 1.3 78.7 - - - +
144B LEU* 1.3 62.8 + - + +
146B ASN* 3.9 6.3 - - - +
147B SER* 2.8 38.5 + - - -
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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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187A ALA* 4.1 16.6 - - + -
338A GLY 3.6 24.5 - - - +
339A ARG 4.1 17.0 - - - +
340A GLU* 4.9 0.4 - - - -
341A VAL* 4.4 14.4 - - + +
106B TYR* 4.5 3.1 + - + -
132B ILE* 4.1 25.8 - - + -
140B GLN* 3.0 39.6 + - + +
141B ALA* 3.6 7.4 - - - +
143B GLU* 1.3 77.3 - - + +
145B ILE* 1.3 63.3 + - - +
147B SER* 2.9 19.7 + - - +
148B TRP* 3.0 13.7 + - - +
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Residues in contact with ILE 145 (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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106B TYR* 3.7 51.8 - - + -
132B ILE* 3.9 2.9 - - + -
134B PHE* 3.9 27.4 - - + -
141B ALA 2.9 20.4 + - - +
142B ARG* 3.7 3.8 - - - +
144B LEU* 1.3 77.0 - - - +
146B ASN* 1.3 63.4 + - - +
148B TRP* 3.2 12.1 + - - +
149B VAL* 3.2 14.8 + - + +
160B VAL* 4.7 2.2 - - + -
161B LEU* 3.7 30.1 - - + -
173B VAL* 4.5 4.5 - - + -
175B VAL* 3.8 23.8 - - + -
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Residues in contact with ASN 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 ARG* 2.9 38.2 + - - +
143B GLU* 4.0 4.6 - - - +
145B ILE* 1.3 73.5 - - - +
147B SER* 1.3 58.5 + - - +
149B VAL* 3.4 1.9 + - - +
150B GLU* 3.0 32.3 + - - +
157B ILE 4.8 1.0 - - - +
159B ASN* 3.8 29.0 + - - +
160B VAL* 3.2 15.7 + - - +
161B LEU* 2.8 49.9 + - - +
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Residues in contact with SER 147 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
183A LEU* 5.1 0.2 - - - +
190A ASP* 6.0 2.0 - - - -
337A ALA* 4.0 27.6 - - - +
338A GLY 4.5 5.7 + - - -
143B GLU* 2.8 21.7 + - - -
144B LEU* 2.9 21.8 + - - +
146B ASN* 1.3 78.9 - - - +
148B TRP* 1.3 55.3 + - - +
150B GLU* 3.8 10.9 - - - +
151B SER* 2.8 31.5 + - - -
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Residues in contact with TRP 148 (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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95A ASP* 2.8 34.8 + - + -
183A LEU* 3.9 27.4 - - + -
338A GLY 6.0 0.7 - - - +
101B LEU 5.7 0.2 - - - -
102B ALA* 3.8 33.4 - - + -
103B SER 3.8 3.8 - - - -
104B ARG* 3.4 53.3 - - + +
106B TYR* 3.4 30.1 - + - +
127B GLY 5.1 0.7 - - - -
144B LEU 3.0 14.7 + - - +
145B ILE 3.2 1.8 + - - +
147B SER* 1.3 75.2 + - - +
149B VAL* 1.3 78.8 + - + +
151B SER* 3.3 4.0 + - - -
152B GLN* 2.9 54.6 + - + +
175B VAL* 4.0 12.3 - - + -
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Residues in contact with VAL 149 (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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102B ALA* 4.6 7.4 - - + -
145B ILE 3.2 13.0 + - - +
146B ASN 4.0 5.4 - - - +
148B TRP* 1.3 96.2 - - + +
150B GLU* 1.3 60.5 + - - +
152B GLN* 3.5 0.7 + - - +
153B THR* 2.9 30.5 + - + +
157B ILE* 3.8 23.6 - - + +
160B VAL* 4.2 22.4 - - + -
175B VAL* 4.0 19.7 - - + -
177B ALA* 3.7 28.5 - - + -
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Residues in contact with GLU 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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335A ASN* 5.5 6.4 + - - +
402A SO4 4.6 8.5 + - - -
146B ASN* 3.0 19.9 + - - +
147B SER* 3.8 9.2 - - - +
149B VAL* 1.3 75.1 - - - +
151B SER* 1.3 63.9 + - - +
153B THR* 3.3 6.0 + - - -
155B GLY* 2.7 48.3 + - - -
157B ILE 3.3 18.1 + - - +
158B ARG* 3.2 41.7 + - + +
159B ASN 5.4 1.0 + - - -
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Residues in contact with SER 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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98A SER* 5.1 2.4 - - - -
181A LYS* 2.9 53.5 + - - +
182A GLY 4.3 9.0 + - - -
183A LEU* 4.5 6.0 + - - -
335A ASN* 6.3 0.2 - - - +
337A ALA* 4.1 11.2 - - - +
147B SER 2.8 19.9 + - - -
148B TRP* 3.7 5.6 - - - -
150B GLU* 1.3 78.6 - - - +
152B GLN* 1.3 71.6 + - - +
154B ASN* 3.4 10.6 + - - +
155B GLY 4.9 0.2 - - - +
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Residues in contact with GLN 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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94A ASN 3.0 26.0 - - - +
95A ASP* 3.6 10.9 + - - -
96A VAL 3.5 26.1 + - - -
97A TYR* 3.6 13.4 - - - +
98A SER* 4.8 10.0 + - - +
181A LYS 5.2 1.0 + - - -
183A LEU* 5.2 2.0 - - - +
100B SER* 4.4 12.6 + - - -
101B LEU 5.8 0.7 - - - +
102B ALA* 4.1 17.7 - - + +
148B TRP* 2.9 46.6 + - + +
149B VAL 4.0 2.9 - - - +
151B SER* 1.3 85.9 + - - +
153B THR* 1.3 58.9 + - - +
154B ASN* 3.3 6.5 + - - -
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Residues in contact with THR 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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154A ASN* 5.6 0.9 - - - -
100B SER* 5.2 8.1 - - - +
102B ALA* 4.6 11.7 - - + +
149B VAL* 2.9 26.9 + - + +
150B GLU 3.4 4.9 + - - -
151B SER 3.3 0.6 - - - -
152B GLN* 1.3 80.0 - - - +
154B ASN* 1.3 71.7 + - - +
156B ILE* 3.0 18.2 + - - +
157B ILE* 3.0 39.6 + - + +
177B ALA* 4.7 4.7 - - + +
179B VAL* 3.7 30.4 - - + +
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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
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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