Contacts of the helix formed by residues 133 - 152 (chain A) in PDB entry 3QTH
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 PHE 133 (chain A).
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Specific contacts
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Residue Dist Surf HB Arom Phob DC
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61A PHE* 4.1 11.9 - + - -
64A ARG* 3.7 29.4 - - - -
115A ASP* 3.7 9.9 - - - -
116A THR 4.6 0.2 - - - -
117A ALA* 3.6 24.2 - - + -
122A ILE* 3.9 8.1 - - + -
124A MSE 4.1 14.4 - - - -
128A GLU 3.4 0.2 + - - -
129A TYR* 3.3 33.7 + + - +
132A SER* 1.3 80.0 - - - +
134A VAL* 1.3 71.7 + - + +
135A LEU 3.6 0.2 - - - -
136A PRO* 3.5 5.1 - - - +
137A ASN* 2.7 32.1 + - - -
164B ILE* 3.6 26.9 - - + -
165B HIS* 3.5 31.6 - + - -
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Residues in contact with VAL 134 (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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15A PHE* 3.6 18.4 - - + -
61A PHE* 3.0 46.4 - - + +
64A ARG* 4.7 0.7 - - + -
65A ALA* 3.7 12.3 - - + +
129A TYR* 2.9 47.8 + - + +
130A MSE 3.6 6.7 - - - +
133A PHE* 1.3 82.3 - - + +
135A LEU* 1.3 56.8 + - - +
137A ASN* 3.1 4.5 + - - +
138A PHE 2.7 31.9 + - - -
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Residues in contact with LEU 135 (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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11A HIS* 3.8 24.9 - - + +
14A ILE* 4.0 18.2 - - + -
15A PHE* 3.6 30.5 - - + -
130A MSE 2.9 20.0 + - - +
131A SER 3.5 14.6 - - - +
134A VAL* 1.3 71.7 - - - +
136A PRO* 1.4 63.8 - - + +
138A PHE* 3.4 0.9 + - + +
139A PHE* 3.1 52.9 + - + -
11B HIS* 4.2 4.3 - - + +
14B ILE* 5.5 0.4 - - + -
135B LEU* 3.6 31.4 - - + -
139B PHE* 5.1 2.9 - - + -
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Residues in contact with PRO 136 (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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131A SER 3.5 13.2 - - - +
132A SER* 3.4 27.4 - - - +
133A PHE 3.5 8.1 - - - +
135A LEU* 1.4 87.4 - - + +
137A ASN* 1.4 57.1 + - - +
139A PHE* 3.4 2.9 + - - +
140A PHE 2.9 23.0 + - - -
14B ILE* 4.9 2.0 - - + -
18B HIS* 3.6 24.7 - - + +
139B PHE* 3.6 35.8 - - + -
161B PHE* 3.3 19.9 - - + -
162B ASP* 5.0 2.2 - - + -
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Residues in contact with ASN 137 (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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61A PHE* 3.6 26.7 - - + -
133A PHE* 2.7 29.8 + - - +
134A VAL 3.1 6.8 + - - +
136A PRO* 1.4 73.3 - - - +
138A PHE* 1.3 65.5 + - - +
140A PHE* 3.2 2.9 + - - +
141A HIS* 3.0 31.2 + - - -
158B LYS* 2.8 31.9 + - - +
161B PHE* 4.2 7.6 - - - -
162B ASP* 2.7 35.4 + - - +
165B HIS* 3.6 4.2 - - - -
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Residues in contact with PHE 138 (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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14A ILE 4.7 0.2 - - - -
15A PHE* 3.7 47.6 - + + -
18A HIS* 3.6 32.3 - - + -
19A LEU* 3.9 18.4 - - + -
58A ALA* 3.2 31.7 - - - +
61A PHE* 4.2 11.4 - - + -
62A ALA* 4.0 9.6 - - + -
134A VAL 2.7 19.9 + - - +
135A LEU 3.5 3.4 - - - +
137A ASN* 1.3 73.2 - - - +
139A PHE* 1.3 79.5 + + - +
141A HIS* 3.4 1.0 + - - -
142A ILE* 3.0 49.6 + - + +
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Residues in contact with PHE 139 (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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14A ILE* 3.7 22.7 - - + -
18A HIS* 3.6 33.7 - + + -
135A LEU* 3.1 50.3 + - + +
136A PRO 3.9 1.3 - - - +
137A ASN 3.3 0.2 - - - -
138A PHE* 1.3 87.2 - + - +
140A PHE* 1.4 55.8 + - - +
142A ILE* 3.9 4.6 - - + +
143A SER* 2.6 39.4 + - - +
161A PHE* 4.2 11.9 - + - -
135B LEU* 5.0 3.6 - - + -
136B PRO* 3.7 32.3 - - + +
139B PHE* 3.5 34.5 - + + -
143B SER* 4.4 1.8 - - - -
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Residues in contact with PHE 140 (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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48A MSE 3.6 23.8 - - + -
136A PRO 2.9 14.2 + - - +
137A ASN* 3.2 9.8 + - - +
139A PHE* 1.4 77.1 - - - +
141A HIS* 1.3 86.7 + + - +
143A SER* 3.3 3.8 + - - -
144A MSE 3.1 57.3 + - + +
178A CL 4.1 9.6 - - + -
143B SER* 3.4 33.4 + - - -
146B TYR* 4.6 6.7 - - + -
158B LYS* 3.8 7.6 - - - -
161B PHE* 3.7 21.7 - + + -
179B GOL 3.2 25.4 - - - -
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Residues in contact with HIS 141 (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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49A PHE* 5.2 0.9 - + - -
54A GLN* 2.7 43.2 + - - +
57A ILE* 3.5 39.6 - - + +
58A ALA* 3.9 10.8 - - + +
61A PHE* 3.8 7.2 - + - -
137A ASN 3.0 26.8 + - - +
140A PHE* 1.3 87.8 - + - +
142A ILE* 1.3 65.0 + - - +
144A MSE 3.2 4.3 + - - +
145A VAL* 3.1 26.9 + - - +
178A CL 4.3 8.5 - - + -
158B LYS* 2.9 30.8 + - - -
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Residues in contact with ILE 142 (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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18A HIS* 4.3 13.2 - - + +
19A LEU* 5.1 0.2 - - + -
22A LEU* 3.9 35.9 - - + -
25A LEU* 5.5 0.3 - - - +
58A ALA* 3.7 19.5 - - + -
138A PHE* 3.0 50.8 + - + +
139A PHE* 3.9 9.0 - - + +
140A PHE 3.4 0.2 - - - -
141A HIS* 1.3 73.9 - - - +
143A SER* 1.4 62.6 + - - +
145A VAL* 3.1 18.6 + - - +
146A TYR* 3.2 12.1 + - - +
161A PHE* 3.6 28.7 - - + +
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Residues in contact with SER 143 (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 PHE 2.6 24.0 + - - -
140A PHE 3.4 5.6 - - - -
141A HIS 3.3 0.2 - - - -
142A ILE* 1.4 74.5 - - - +
144A MSE 1.3 56.8 - - - +
146A TYR* 3.4 5.1 + - - +
147A ALA* 3.0 29.8 + - - +
161A PHE* 4.0 6.7 - - - -
140B PHE* 3.3 42.5 + - - +
143B SER* 3.8 18.4 + - - -
144B MSE 3.7 7.4 - - - +
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Residues in contact with MSE 144 (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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44A LEU* 3.7 23.3 - - - -
48A MSE 4.5 9.2 - - - +
54A GLN* 3.4 41.3 - - + +
140A PHE* 3.1 36.3 + - + +
141A HIS 3.2 3.1 + - - +
143A SER* 1.3 73.8 - - - +
145A VAL* 1.4 58.1 + - - +
147A ALA* 3.4 2.3 + - - +
148A ILE* 3.0 39.1 + - + +
143B SER* 3.6 31.4 - - - +
144B MSE 3.4 30.7 - - + -
147B ALA* 3.9 11.4 - - + -
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Residues in contact with VAL 145 (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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22A LEU* 3.7 19.7 - - + -
25A LEU* 3.6 18.8 - - + -
51A PHE* 3.4 39.4 - - + +
54A GLN* 3.6 9.2 - - + +
55A ALA* 3.5 35.4 - - + +
58A ALA* 5.5 0.4 - - + -
141A HIS 3.1 15.9 + - - +
142A ILE* 3.1 9.3 + - - +
144A MSE 1.4 75.0 - - - +
146A TYR* 1.4 57.4 + - - +
148A ILE* 4.8 0.7 - - - -
149A ALA* 3.1 24.4 + - - +
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Residues in contact with TYR 146 (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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25A LEU* 4.1 16.8 - - + +
142A ILE* 3.2 9.0 + - + +
143A SER* 3.6 8.5 - - - +
145A VAL* 1.4 76.2 - - - +
147A ALA* 1.3 63.0 + - - +
149A ALA* 3.3 4.6 + - - +
150A LYS* 3.0 30.0 + - + +
156A VAL* 3.6 22.8 + - + +
157A THR* 3.0 36.8 - - - -
158A LYS* 4.2 3.6 - - + -
160A ASP* 4.7 2.9 - - + -
161A PHE* 3.9 30.5 - - + -
180A GOL 2.4 30.2 + - - -
48B MSE 3.8 19.3 - - + -
140B PHE* 3.5 27.4 - + + -
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Residues in contact with ALA 147 (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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44A LEU* 3.6 31.5 - - + +
143A SER 3.0 18.7 + - - +
144A MSE 3.9 1.3 - - - +
146A TYR* 1.3 76.1 - - - +
148A ILE* 1.4 55.8 + - - +
150A LYS* 3.4 2.3 + - - +
151A ASN* 3.0 29.8 + - - +
48B MSE 3.9 21.4 - - + +
144B MSE 3.7 20.6 - - + -
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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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39A LEU 4.6 0.7 - - - +
42A ALA* 3.5 36.3 - - + +
43A ARG 4.6 1.1 - - - +
44A LEU* 3.7 33.9 - - + +
49A PHE 4.1 6.7 - - - +
51A PHE* 3.7 40.8 - - + +
54A GLN* 4.0 16.8 - - + +
144A MSE 3.0 25.2 + - + +
145A VAL 3.9 3.6 - - - +
147A ALA* 1.4 71.3 - - - +
149A ALA* 1.3 64.1 + - - +
151A ASN* 3.2 3.5 + - - +
152A ASN* 2.9 33.5 + - - +
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Residues in contact with ALA 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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25A LEU* 4.3 12.8 - - + -
29A VAL* 4.0 26.5 - - + -
51A PHE* 4.1 6.7 - - + -
145A VAL 3.1 18.4 + - - +
146A TYR 3.5 5.8 - - - +
148A ILE* 1.3 76.5 - - - +
150A LYS* 1.4 60.6 + - - +
152A ASN* 3.2 10.2 + - - -
154A VAL* 3.2 35.9 + - + +
156A VAL* 4.6 2.9 - - + -
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Residues in contact with LYS 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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146A TYR* 3.0 18.4 + - + +
147A ALA 3.7 4.3 - - - +
149A ALA* 1.4 76.0 - - - +
151A ASN* 1.3 60.5 + - - +
153A GLY* 3.3 13.7 + - - -
154A VAL 4.0 5.6 - - - +
156A VAL* 3.7 33.1 - - + +
180A GOL 3.3 34.1 - - - +
45B VAL* 5.4 1.1 - - + -
47B ASP* 3.4 35.1 - - - +
48B MSE 3.8 25.4 - - + -
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Residues in contact with ASN 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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43A ARG 4.0 16.6 + - - -
44A LEU* 4.0 18.2 + - + +
147A ALA 3.0 19.6 + - - +
148A ILE* 3.2 5.8 + - - +
150A LYS* 1.3 74.5 - - - +
152A ASN* 1.3 69.0 + - - +
153A GLY 3.3 2.7 + - - -
44B LEU 4.4 11.1 - - - +
45B VAL* 4.4 15.2 - - + +
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Residues in contact with ASN 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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34A LEU* 3.4 36.2 - - + +
38A GLU 5.3 1.4 - - - +
39A LEU* 5.4 5.3 - - - -
42A ALA* 3.6 29.3 - - - +
43A ARG 5.1 0.8 + - - -
148A ILE* 2.9 28.5 + - - +
149A ALA* 3.2 6.1 + - - +
151A ASN* 1.3 88.9 - - - +
153A GLY* 1.3 57.9 + - - +
154A VAL* 3.3 7.7 + - + -
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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