Contacts of the helix formed by residues 147 - 167 (chain B) in PDB entry 5L4Q
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 THR 147 (chain B).
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Specific contacts
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Residue Dist Surf HB Arom Phob DC
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141B ARG* 4.7 4.0 - - - +
145B GLY 4.2 0.2 + - - -
146B PHE* 1.3 77.4 - - - +
148B GLU* 1.3 64.4 + - - +
149B ASN* 3.7 7.2 + - - +
150B GLU* 2.9 42.8 + - - +
151B VAL* 3.1 19.4 + - - +
281B ARG* 4.0 21.3 - - - +
282B TYR* 4.1 0.2 - - - -
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Residues in contact with GLU 148 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
146B PHE 3.9 0.6 + - - -
147B THR* 1.3 73.0 - - - +
149B ASN* 1.3 65.7 + - - +
151B VAL* 3.4 4.1 + - - +
152B LEU* 3.1 37.3 + - + +
281B ARG* 4.6 3.0 - - - +
282B TYR* 3.2 26.1 - - + -
283B SER* 2.4 52.9 + - - -
286B MET* 3.8 23.6 - - + +
314B LEU* 4.5 7.3 - - - +
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Residues in contact with ASN 149 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
147B THR* 3.2 6.8 + - - +
148B GLU* 1.3 79.6 - - - +
150B GLU* 1.3 59.5 + - + +
152B LEU* 3.2 14.0 + - - +
153B GLN* 2.9 37.5 + - + +
314B LEU 5.0 4.2 - - - +
315B LEU* 3.9 14.1 - - + +
316B LYS* 5.3 12.6 - - - +
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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
----------------------------------------------------------
141B ARG* 2.6 48.7 + - - -
146B PHE* 3.6 13.4 - - + -
147B THR* 2.9 45.4 + - - +
149B ASN* 1.3 76.8 - - + +
151B VAL* 1.3 62.0 + - - +
153B GLN* 3.5 18.6 + - - +
154B ILE* 3.3 30.3 + - + +
190B TYR* 5.0 2.7 + - - +
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Residues in contact with VAL 151 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
146B PHE* 3.4 26.9 - - + -
147B THR 3.1 8.1 + - - +
148B GLU 3.6 6.7 - - - +
149B ASN 3.2 0.2 - - - -
150B GLU* 1.3 77.1 - - - +
152B LEU* 1.3 58.1 + - - +
154B ILE* 3.2 10.2 + - - +
155B PHE* 2.9 25.5 + - - +
252B LEU* 3.4 30.7 - - + -
255B LEU* 3.8 29.2 - - + +
256B CYS* 4.0 4.3 - - - -
282B TYR* 4.1 15.9 - - + -
286B MET* 4.0 12.1 - - + -
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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
----------------------------------------------------------
148B GLU* 3.1 32.1 + - + +
149B ASN* 3.2 10.5 + - - +
151B VAL* 1.3 75.4 - - + +
153B GLN* 1.3 61.1 + - - +
155B PHE* 4.3 5.6 - - + +
156B CYS* 2.8 35.8 + - - +
252B LEU* 5.3 3.4 - - + -
286B MET* 3.7 23.6 - - + -
289B LEU* 4.7 9.2 - - + -
311B SER* 4.2 15.5 - - - +
314B LEU* 3.7 35.4 - - + +
315B LEU* 3.7 27.4 - - + +
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Residues in contact with GLN 153 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
149B ASN* 2.9 20.5 + - + +
150B GLU* 3.6 25.3 + - - +
152B LEU* 1.3 77.4 - - - +
154B ILE* 1.3 61.8 + - - +
156B CYS* 4.2 0.3 - - - +
157B ASP* 3.2 33.2 + - - +
190B TYR* 4.3 17.9 + - + -
315B LEU* 4.1 19.5 - - + +
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Residues in contact with ILE 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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134B VAL* 4.1 25.4 - - + -
137B LEU* 5.7 1.1 - - + -
146B PHE* 4.1 32.8 - - + -
150B GLU* 3.4 16.4 - - + +
151B VAL* 3.2 6.6 + - - +
153B GLN* 1.3 77.8 - - - +
155B PHE* 1.3 52.2 + - - +
157B ASP* 3.6 2.8 - - - +
158B THR* 2.7 38.9 + - - +
182B ILE* 4.1 14.1 - - + -
190B TYR* 3.4 39.9 - - + +
251B LEU* 5.2 0.2 - - + -
255B LEU* 3.8 25.1 - - + -
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Residues in contact with PHE 155 (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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151B VAL 2.9 16.4 + - - +
152B LEU* 4.0 7.2 - - + +
154B ILE* 1.3 75.4 - - - +
156B CYS* 1.3 54.6 + - - +
158B THR* 3.1 5.9 + - - -
159B CYS* 2.7 51.5 + - - -
248B LEU* 3.3 40.8 - - + -
251B LEU* 4.2 14.4 - - + -
252B LEU* 3.8 32.3 - - + -
255B LEU* 4.4 2.5 - - + -
289B LEU* 4.5 2.0 - - + -
293B MET* 3.4 32.8 - - + -
307B VAL* 3.7 8.1 - - + -
311B SER* 3.1 31.2 - - - -
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Residues in contact with CYS 156 (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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152B LEU* 2.8 29.0 + - - +
153B GLN 4.2 1.1 - - - +
155B PHE* 1.3 68.8 - - - +
157B ASP* 1.3 68.4 + - - +
159B CYS* 3.1 10.4 + - - +
160B GLU* 3.0 26.9 + - - +
311B SER* 3.5 41.1 - - - -
312B PHE* 3.7 26.5 - - + -
315B LEU* 3.7 24.0 - - + -
317B LYS* 5.5 0.9 - - - +
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Residues in contact with ASP 157 (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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101B LYS* 4.7 1.7 + - - -
102B ASN* 3.4 34.6 + - - +
153B GLN* 3.2 21.2 + - - +
154B ILE 3.6 3.8 - - - +
156B CYS* 1.3 76.3 - - - +
158B THR* 1.3 61.5 + - - +
160B GLU* 3.4 5.6 + - - +
161B ALA* 3.3 16.1 + - - +
189B HIS* 3.5 12.3 - - - +
190B TYR* 3.0 42.8 + - + +
315B LEU* 6.1 0.2 - - - +
317B LYS* 4.2 16.6 + - - -
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Residues in contact with THR 158 (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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154B ILE* 2.7 23.1 + - - +
155B PHE* 3.4 11.9 - - - -
157B ASP* 1.3 77.1 - - - +
159B CYS* 1.3 58.3 + - - +
161B ALA* 3.1 7.7 + - + +
162B VAL* 2.9 33.0 + - + +
177B LEU* 4.9 4.5 - - + -
182B ILE* 3.8 39.5 - - + +
190B TYR* 5.5 0.4 - - - +
192B LEU* 5.0 3.1 - - + +
248B LEU* 3.7 26.2 - - + -
251B LEU* 4.7 8.4 - - + +
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Residues in contact with CYS 159 (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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155B PHE* 2.7 54.3 + - - +
156B CYS* 3.1 11.9 + - - +
158B THR* 1.3 72.5 - - - +
160B GLU* 1.3 56.9 + - - +
162B VAL* 3.2 3.7 + - - +
163B ALA* 2.8 31.6 + - - +
248B LEU* 4.7 3.1 - - - -
304B ILE* 3.8 12.1 - - + +
307B VAL* 4.0 13.2 - - - -
308B SER* 3.5 24.9 - - - +
311B SER* 4.0 7.0 - - - -
312B PHE* 4.5 3.8 - - + -
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Residues in contact with GLU 160 (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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100B HIS* 3.9 17.6 + - + +
101B LYS* 2.9 35.9 + - - -
102B ASN* 3.4 13.9 - - - +
156B CYS 3.0 17.3 + - - +
157B ASP* 3.7 5.0 - - - +
159B CYS* 1.3 75.0 - - - +
161B ALA* 1.3 63.2 + - - +
163B ALA* 3.4 1.7 + - - +
164B ARG* 3.1 22.9 + - - +
312B PHE* 3.6 25.3 - - + -
317B LYS* 4.3 7.3 + - - -
320B PRO* 3.6 26.0 - - + +
321B ILE* 4.0 13.7 - - + +
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Residues in contact with ALA 161 (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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100B HIS* 4.8 0.9 - - - -
102B ASN* 3.3 28.9 - - + +
103B ILE* 4.0 11.2 - - + -
157B ASP 3.3 7.3 + - - +
158B THR* 3.1 10.9 + - - +
160B GLU* 1.3 79.1 - - - +
162B VAL* 1.3 62.3 + - - +
164B ARG* 3.2 11.6 + - - +
165B LEU* 3.1 23.2 - - - +
192B LEU* 3.7 23.3 - - + -
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Residues in contact with VAL 162 (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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158B THR* 2.9 25.2 + - + +
159B CYS 3.7 3.4 - - - +
161B ALA* 1.3 75.0 - - - +
163B ALA* 1.3 58.3 + - - +
165B LEU* 3.0 11.2 + - + +
166B HIS* 2.8 62.0 + - + +
174B HIS* 5.9 0.9 - - + -
177B LEU* 3.8 34.5 - - + -
192B LEU* 4.6 4.0 - - + -
244B ASP* 4.6 4.5 - - + +
248B LEU* 4.2 13.7 - - + -
304B ILE* 3.7 15.7 - - + -
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Residues in contact with ALA 163 (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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159B CYS 2.8 21.4 + - - +
160B GLU 3.8 2.2 - - - +
161B ALA 3.3 0.2 - - - -
162B VAL* 1.3 73.1 - - - +
164B ARG* 1.3 57.6 + - - +
167B GLN* 2.9 41.8 + - - +
304B ILE* 3.8 24.6 - - + +
321B ILE* 3.6 36.8 - - + -
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Residues in contact with ARG 164 (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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96B ASP 3.8 18.4 + - - -
97B LEU* 3.4 40.6 + - + +
98B SER 4.5 3.6 + - - -
99B GLY* 5.2 0.8 - - - -
100B HIS* 3.5 42.2 - - + +
103B ILE* 3.8 10.1 - - + -
160B GLU 3.1 14.1 + - - +
161B ALA 3.2 11.2 - - - +
163B ALA* 1.3 77.4 - - - +
165B LEU* 1.3 59.2 + - - +
167B GLN* 4.2 1.0 - - - -
168B CYS* 3.5 20.8 + - - +
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Residues in contact with LEU 165 (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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93B ILE* 5.4 0.2 - - + -
97B LEU* 3.2 28.3 - - + -
103B ILE* 4.2 3.4 - - + -
161B ALA 3.1 24.5 - - - +
162B VAL* 3.0 10.2 + - + +
164B ARG* 1.3 75.9 - - - +
166B HIS* 1.3 65.9 + - + +
167B GLN 3.4 0.5 + - - -
168B CYS* 3.5 11.1 - - - +
172B ILE* 2.9 57.2 + - + +
174B HIS* 3.8 41.5 - - + +
192B LEU* 4.5 5.8 - - + -
195B PHE* 4.1 17.9 - - + -
244B ASP* 5.1 0.4 - - - +
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Residues in contact with HIS 166 (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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162B VAL* 2.8 42.9 + - + +
163B ALA 4.2 2.0 - - - +
165B LEU* 1.3 75.5 - - + +
167B GLN* 1.3 59.6 + - + +
168B CYS 3.3 0.9 - - - -
171B PRO* 3.5 22.0 - - - +
172B ILE 3.3 19.1 - - - +
241B THR* 3.2 45.3 + - + +
244B ASP* 2.9 29.9 + - + +
245B ILE* 4.1 11.5 - - + +
304B ILE* 3.9 26.0 + - + +
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Residues in contact with GLN 167 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
163B ALA* 2.9 21.7 + - - +
164B ARG* 4.2 2.2 - - - +
166B HIS* 1.3 77.6 - - - +
168B CYS* 1.3 65.5 + - - +
169B LYS* 3.7 1.4 + - - -
304B ILE* 3.7 18.0 - - + +
305B TYR* 4.6 3.2 - - - +
321B ILE* 3.6 16.5 - - - +
322B PRO* 3.0 48.8 + - - +
324B VAL* 3.8 33.3 - - + +
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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