Contacts of the helix formed by residues 143 - 158 (chain A) in PDB entry 4WLU
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 PRO 143 (chain A).
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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110A ARG* 3.6 32.5 - - + +
111A ASP* 3.9 14.8 - - + +
114A PHE* 3.9 28.5 - - + +
117A ASN* 4.9 0.4 - - + -
142A ASN* 1.3 85.8 - - + +
144A VAL* 1.3 66.0 + - - +
145A ASN* 3.2 6.1 - - + +
146A SER* 2.9 24.8 + - - +
147A THR* 2.9 27.3 + - + -
200A HIS 5.8 0.9 - - - +
326A SER* 6.1 0.9 - - - +
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Residues in contact with VAL 144 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
139A VAL 4.2 7.9 - - - +
140A ILE 3.6 19.7 - - - +
141A ALA 3.8 3.8 - - - +
142A ASN* 3.2 19.7 + - - +
143A PRO* 1.3 69.9 - - - +
145A ASN* 1.3 63.1 + - - +
146A SER 3.0 1.6 + - - -
147A THR* 3.2 7.9 - - - +
148A ILE* 3.2 24.5 + - + +
168A GLY* 3.7 29.6 - - - -
169A VAL 4.5 2.0 - - - +
170A THR* 5.0 0.7 - - + -
200A HIS* 4.2 21.5 + - + -
277A PHE* 3.8 17.2 - - + -
402A NAD 3.7 13.0 - - - +
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Residues in contact with ASN 145 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
143A PRO* 3.1 5.0 + - + +
144A VAL* 1.3 74.5 - - - +
146A SER* 1.3 58.5 + - - +
149A PRO* 3.5 16.7 - - - +
199A GLY* 3.4 5.4 - - - -
200A HIS* 2.8 27.7 + - - +
201A ALA* 3.5 19.5 - - + +
204A THR* 3.3 27.1 + - - +
277A PHE* 3.7 16.8 - - - -
322A GLU* 4.9 0.6 + - - -
323A LEU* 3.6 20.0 - - + +
326A SER* 3.7 31.4 + - - +
327A ILE* 3.9 5.4 + - - +
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Residues in contact with SER 146 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
111A ASP* 4.6 4.3 + - - -
114A PHE* 3.7 31.5 - - - -
143A PRO* 2.9 16.0 + - - +
145A ASN* 1.3 75.7 - - - +
147A THR* 1.3 58.6 + - - +
148A ILE 3.3 2.2 - - - -
149A PRO* 3.3 8.5 - - - +
150A ILE* 3.1 28.8 + - - +
326A SER* 2.7 35.9 + - - -
329A LYS* 4.3 2.6 - - - +
330A GLY* 3.7 3.4 - - - -
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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
----------------------------------------------------------
114A PHE* 5.6 0.9 - - + -
117A ASN* 4.7 5.4 - - + +
118A ALA* 5.2 0.9 - - - -
121A VAL* 3.7 28.7 - - + +
139A VAL* 3.8 7.8 - - - +
141A ALA 2.9 26.6 + - - +
142A ASN 4.0 12.8 - - - +
143A PRO* 2.9 22.3 + - + +
144A VAL* 3.2 9.5 - - - +
146A SER* 1.3 75.5 - - - +
148A ILE* 1.3 56.4 + - - +
150A ILE* 3.5 15.5 - - + +
151A THR* 2.7 36.4 + - - -
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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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139A VAL* 3.7 21.5 - - + -
144A VAL* 3.2 15.8 + - + +
147A THR* 1.3 75.8 + - - +
149A PRO* 1.3 76.3 - - + +
151A THR* 3.1 3.0 + - - -
152A ALA* 2.9 22.7 + - - +
166A ILE* 3.9 19.5 - - + +
167A PHE 3.4 10.3 - - - +
168A GLY* 3.1 41.1 - - - +
277A PHE* 3.8 20.6 - - + +
278A VAL* 4.9 2.5 - - - -
287A TYR* 3.8 22.9 - - + -
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Residues in contact with PRO 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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145A ASN 3.5 21.3 - - - +
146A SER 3.3 14.1 - - - +
148A ILE* 1.3 97.4 - - + +
150A ILE* 1.3 60.9 + - - +
152A ALA* 3.4 1.6 + - - +
153A GLU* 3.0 29.9 + - - +
277A PHE* 4.2 4.0 - - + -
287A TYR* 3.8 34.3 - - + -
327A ILE* 3.9 26.9 - - + +
330A GLY 4.9 1.1 - - - -
331A GLU* 4.4 9.4 - - + +
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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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114A PHE* 3.9 14.1 - - + -
118A ALA* 3.7 34.5 - - + -
121A VAL* 4.2 5.4 - - + -
122A ALA* 4.0 35.7 - - + +
146A SER 3.1 17.1 + - - +
147A THR* 3.5 16.6 - - + +
148A ILE 3.2 0.2 - - - -
149A PRO* 1.3 73.5 - - - +
151A THR* 1.3 58.8 - - - +
153A GLU* 3.2 2.9 + - - +
154A VAL* 2.9 30.3 + - + +
330A GLY 3.4 19.3 - - - +
333A PHE* 4.1 7.4 - - + -
334A VAL* 3.9 15.7 - - + +
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Residues in contact with THR 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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121A VAL* 3.4 15.2 - - - +
125A THR* 3.5 31.3 - - + +
137A ILE* 4.2 15.0 - - + -
139A VAL* 3.6 11.5 - - + +
147A THR 2.7 19.7 + - - -
148A ILE* 3.1 10.1 + - - -
150A ILE* 1.3 76.6 - - - +
152A ALA* 1.3 57.2 + - - +
154A VAL* 3.3 1.2 + - - +
155A PHE* 3.0 33.6 + - + -
166A ILE* 4.0 25.4 - - + -
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Residues in contact with ALA 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 ILE 2.9 15.2 + - - +
149A PRO 3.7 1.1 - - - +
151A THR* 1.3 77.0 - - - +
153A GLU* 1.3 58.5 + - - +
155A PHE* 3.3 3.6 + - - +
156A LYS* 3.0 33.8 + - - +
161A TYR* 3.6 33.3 - - + +
166A ILE* 4.3 5.5 - - + +
287A TYR* 3.2 30.3 - - + +
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Residues in contact with GLU 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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149A PRO 3.0 20.5 + - - +
150A ILE 3.8 2.0 - - - +
152A ALA* 1.3 73.4 - - + +
154A VAL* 1.3 65.1 + - - +
156A LYS* 3.0 39.0 + - - +
157A LYS* 3.1 23.4 + - - +
287A TYR* 4.6 3.4 + - - +
331A GLU* 4.2 34.8 - - + +
334A VAL* 3.7 27.5 - - + +
335A LYS* 3.9 22.9 + - - -
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Residues in contact with VAL 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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122A ALA* 4.0 21.8 - - + +
125A THR* 3.7 17.0 - - - +
126A ALA* 3.5 42.2 - - + +
129A ALA* 4.9 0.2 - - + -
150A ILE* 2.9 24.8 + - + +
151A THR 3.6 4.5 - - - +
153A GLU* 1.3 76.6 - - - +
155A PHE* 1.3 61.2 + - + +
157A LYS* 3.4 10.1 + - + +
158A HIS* 2.9 35.3 + - + +
334A VAL* 4.6 11.4 - - + -
337A LEU* 6.3 1.1 - - + -
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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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125A THR* 3.3 33.2 - - - -
128A CYS* 4.0 4.5 - - + -
129A ALA* 3.6 27.6 - - + -
133A PRO* 4.0 21.1 - - + -
137A ILE* 3.6 35.2 - - + -
151A THR* 3.0 29.0 + - + +
152A ALA 3.3 4.5 + - - +
154A VAL* 1.3 74.3 - - - +
156A LYS* 1.3 63.4 + - - +
158A HIS* 3.2 3.3 + - - -
159A GLY 3.1 4.3 + - - -
160A VAL* 3.1 47.4 + - + +
161A TYR* 3.9 17.7 - - + -
162A ASN 5.0 1.1 - - - -
166A ILE* 4.0 11.4 - - + -
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Residues in contact with LYS 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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152A ALA 3.0 17.9 + - - +
153A GLU* 3.0 43.7 + - - +
155A PHE* 1.3 76.2 - - - +
157A LYS* 1.3 56.3 + - - +
159A GLY* 2.8 23.7 + - - -
161A TYR* 3.7 39.9 - - + +
279A LYS* 6.3 1.8 - - - +
287A TYR* 4.7 8.3 + - - -
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Residues in contact with LYS 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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153A GLU 3.1 12.9 + - - +
154A VAL* 3.5 12.6 - - + +
156A LYS* 1.3 75.2 - - - +
158A HIS* 1.3 84.3 + - + +
159A GLY 3.5 0.7 + - - -
334A VAL* 5.9 6.3 - - + -
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Residues in contact with HIS 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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126A ALA* 3.8 29.6 + - + +
129A ALA* 3.9 19.6 - - + +
130A GLN* 3.2 43.1 + - + +
154A VAL* 2.9 23.0 + - + -
155A PHE 3.2 7.8 + - - +
156A LYS 3.1 0.8 - - - -
157A LYS* 1.3 97.8 - - + +
159A GLY* 1.3 62.5 + - - +
160A VAL* 3.3 13.1 + - + +
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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