Contacts of the helix formed by residues 150 - 167 (chain B) in PDB entry 1QO0
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 TYR 150 (chain B).
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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84B MET* 3.7 21.7 - - + +
85B SER 4.0 2.7 - - - -
86B HIS* 3.4 29.8 - + + +
148B SER* 3.0 10.1 + - - +
149B ASP* 1.3 75.4 + - - +
151B ILE* 1.3 74.2 + - + +
152B TYR* 3.7 11.1 - - + +
153B PRO* 3.3 35.0 - - + +
154B ARG* 3.5 19.5 + - - +
179B LEU* 3.9 33.2 - - + -
206B VAL* 3.6 17.5 - - + +
500B BMD 2.7 45.0 + - - +
62E GLN* 5.8 0.4 - - - -
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Residues in contact with ILE 151 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
85B SER* 3.8 17.5 - - - -
86B HIS* 4.5 3.4 - - + +
109B GLU* 4.8 2.9 - - - +
150B TYR* 1.3 79.3 - - + +
152B TYR* 1.3 62.1 + - - +
154B ARG* 3.3 5.4 + - + +
155B GLU* 2.7 47.6 + - + +
62E GLN* 3.8 23.6 + - + +
88E TYR* 3.5 52.0 - - + +
90E SER* 4.6 0.2 - - - +
92E ALA* 5.7 0.4 - - + -
93E VAL* 3.7 29.4 - - + -
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Residues in contact with TYR 152 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
85B SER* 4.2 1.1 - - - +
107B PRO* 4.4 5.3 - - - +
108B TYR* 3.5 29.4 + - - -
109B GLU* 3.5 30.5 - - - +
124B PRO* 6.0 1.1 - - + -
127B ASN* 4.1 15.9 + - - -
128B SER* 4.9 0.9 + - - -
150B TYR* 3.5 5.2 - - + -
151B ILE* 1.3 81.0 - - - +
153B PRO* 1.3 69.0 - - + +
155B GLU* 3.8 1.7 - - - -
156B SER* 2.7 53.2 + - - -
204B THR* 5.4 0.2 - - + -
232B LEU* 3.0 25.3 + - + +
233B THR* 3.8 26.7 - - + -
500B BMD 3.4 44.9 - - + +
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Residues in contact with PRO 153 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
147B GLY* 4.2 1.6 - - - -
148B SER 3.1 27.1 - - - +
150B TYR* 3.3 33.2 - - + +
152B TYR* 1.3 98.9 - - + +
154B ARG* 1.3 49.8 + - - +
156B SER* 3.6 2.9 - - - -
157B ASN* 2.7 41.3 + - - +
176B TYR* 4.4 2.0 - - + -
204B THR* 3.3 44.6 - - - +
206B VAL* 4.4 2.2 - - + -
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Residues in contact with ARG 154 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
149B ASP* 2.6 37.2 + - - -
150B TYR 3.5 20.8 + - - +
151B ILE* 3.3 7.6 + - + +
152B TYR 3.2 0.8 - - - -
153B PRO* 1.3 73.1 - - - +
155B GLU* 1.3 60.0 + - - +
157B ASN* 3.4 2.4 + - - +
158B HIS* 2.9 28.2 + - - +
161B ARG* 4.7 2.1 + - - -
174B GLU* 5.2 0.4 + - - -
176B TYR* 3.2 58.5 + - + +
62E GLN* 3.4 53.4 + - + +
63E ASN* 4.3 4.9 - - - +
92E ALA* 4.7 5.5 - - + +
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Residues in contact with GLU 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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109B GLU* 3.8 23.3 - - + +
151B ILE* 2.7 34.3 + - + +
152B TYR 3.9 0.7 - - - +
154B ARG* 1.3 69.5 - - - +
156B SER* 1.3 67.8 + - - +
158B HIS* 3.0 14.0 + - - +
159B VAL* 3.1 18.0 + - - +
90E SER* 2.5 38.0 + - - +
91E PRO* 3.5 10.6 - - + +
92E ALA* 2.8 28.5 + - - +
93E VAL* 3.2 25.8 + - - +
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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
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109B GLU* 5.4 1.3 - - - +
128B SER* 5.0 6.2 + - - -
152B TYR* 2.7 51.9 + - - -
153B PRO* 3.7 4.0 - - - -
155B GLU* 1.3 78.1 - - - +
157B ASN* 1.3 61.8 + - - +
159B VAL* 3.4 6.6 + - - +
160B MET* 3.1 23.8 + - - +
202B PHE* 4.7 2.7 - - - -
204B THR* 4.1 10.3 - - - -
232B LEU* 3.6 21.1 - - - +
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Residues in contact with ASN 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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145B PHE* 3.3 36.7 - - + +
146B ILE 5.0 0.2 - - - +
147B GLY 4.7 3.2 - - - +
153B PRO 2.7 21.7 + - - +
154B ARG 3.8 0.9 - - - +
156B SER* 1.3 69.8 - - - +
158B HIS* 1.4 59.8 + - - +
160B MET* 4.4 0.7 - - - +
161B ARG* 2.7 39.9 + - - +
174B GLU* 3.7 10.1 + - - +
175B ILE 5.1 0.4 + - - -
176B TYR* 3.0 37.2 + - - +
202B PHE* 3.4 22.3 - - - -
204B THR* 3.6 13.6 + - - -
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Residues in contact with HIS 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 ARG 2.9 15.7 + - - +
155B GLU* 3.0 10.5 + - - +
157B ASN* 1.4 77.4 - - - +
159B VAL* 1.3 65.5 + - + +
161B ARG* 3.5 23.6 + - - +
162B HIS* 2.7 55.3 + + - -
4D ASN* 5.0 6.0 + - + +
7D LEU* 5.6 0.8 - - - +
91E PRO* 3.8 27.1 - - + +
92E ALA* 3.7 31.9 - - + +
95E SER* 4.0 17.5 + - - -
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Residues in contact with VAL 159 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
111B PHE* 6.3 2.2 - - + -
124B PRO* 5.3 8.5 - - + -
128B SER* 5.0 14.8 - - - -
155B GLU* 3.1 12.9 + - - +
156B SER* 3.7 8.7 - - - +
158B HIS* 1.3 81.5 - - + +
160B MET* 1.3 61.8 + - + +
162B HIS* 3.2 6.8 + - - +
163B LEU* 2.9 49.9 + - + +
368B VAL 5.9 1.1 - - - +
370B HIS* 3.8 28.3 - - + +
91E PRO* 5.5 9.4 - - + -
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Residues in contact with MET 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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128B SER* 3.7 34.1 - - - +
131B LEU* 4.9 4.5 - - + -
132B ALA* 3.6 28.0 - - + +
135B LEU* 5.2 2.5 - - + -
145B PHE* 3.8 17.9 - - + -
156B SER 3.1 14.8 + - - +
157B ASN 4.0 0.7 - - - +
159B VAL* 1.3 77.6 - - + +
161B ARG* 1.3 65.8 + - - +
163B LEU* 3.2 4.3 + - + +
164B TYR* 3.0 52.6 + - + -
202B PHE* 3.7 45.3 - - + -
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Residues in contact with ARG 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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145B PHE* 3.5 18.2 - - + -
154B ARG 4.7 2.0 + - - -
157B ASN* 2.7 18.4 + - - +
158B HIS* 3.5 46.4 + - - +
160B MET* 1.3 74.0 - - - +
162B HIS* 1.3 79.2 + - + +
164B TYR* 3.9 2.1 - - - +
165B ARG* 3.2 59.9 + - - +
171B VAL* 4.1 8.4 - - + +
174B GLU* 2.8 37.8 + - - +
176B TYR* 4.7 0.6 + - - -
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Residues in contact with HIS 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 HIS* 2.7 53.9 + + - +
159B VAL* 3.2 9.5 + - - +
161B ARG* 1.3 96.9 + - + +
163B LEU* 1.3 65.1 + - + +
165B ARG* 3.5 7.1 + - - +
166B GLN* 3.0 24.7 + - - +
4D ASN* 3.3 37.5 + - - +
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Residues in contact with LEU 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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128B SER 5.1 0.4 - - - +
129B ALA* 5.0 4.3 - - - -
132B ALA* 3.8 24.7 - - + -
136B ILE* 4.1 3.5 - - + +
159B VAL* 2.9 39.9 + - + +
160B MET* 3.7 9.4 - - + +
162B HIS* 1.3 79.4 - - + +
164B TYR* 1.3 61.7 + - - +
166B GLN* 3.4 13.5 + - - +
167B HIS* 2.9 32.2 + - - +
370B HIS* 4.1 33.7 - - + +
372B LEU* 3.9 25.6 - - + -
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Residues in contact with TYR 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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135B LEU* 3.5 33.9 + - + +
136B ILE* 4.1 28.7 - - + -
140B GLY 4.6 2.0 + - - -
141B GLU* 3.9 27.8 - - + -
143B VAL* 3.8 43.9 - - + +
145B PHE* 4.5 0.9 - + - -
160B MET* 3.0 50.9 + - + +
161B ARG 3.9 3.4 - - - +
163B LEU* 1.3 74.3 - - - +
165B ARG* 1.3 58.8 + - - +
167B HIS 3.1 8.7 + - - -
168B GLY 3.4 0.2 + - - -
169B GLY* 2.8 35.6 + - - -
170B THR 4.8 0.2 - - - -
171B VAL* 4.0 12.6 - - + -
200B VAL* 4.5 9.9 - - - +
202B PHE* 5.7 0.7 - - + -
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Residues in contact with ARG 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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161B ARG* 3.2 50.2 + - - +
162B HIS* 4.0 6.5 - - - +
164B TYR* 1.3 75.9 - - - +
166B GLN* 1.3 63.5 + - - +
167B HIS 3.4 0.3 + - - -
168B GLY* 3.6 8.5 + - - -
169B GLY 4.1 13.4 - - - +
170B THR* 5.7 0.4 - - - -
171B VAL* 4.5 28.9 + - + +
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Residues in contact with GLN 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 HIS 3.0 17.8 + - - +
163B LEU* 3.7 17.3 - - - +
164B TYR 3.2 0.2 - - - -
165B ARG* 1.3 79.8 - - - +
167B HIS* 1.3 81.9 + - + +
168B GLY 3.4 1.9 + - - -
369B VAL* 5.4 11.3 - - - +
370B HIS 5.2 3.1 + - - +
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Residues in contact with HIS 167 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
136B ILE* 4.1 29.3 - - + +
141B GLU* 5.5 2.3 - - - +
163B LEU* 2.9 27.8 + - - +
164B TYR 3.1 5.1 + - - +
166B GLN* 1.3 107.4 + - + +
168B GLY* 1.3 58.9 + - - +
169B GLY 3.5 2.4 + - - -
370B HIS 5.5 1.4 + - - -
372B LEU* 3.4 43.3 + - + +
373B ASP* 5.4 6.3 - - - -
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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