Contacts of the helix formed by residues 133 - 152 (chain B) 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 B).
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Specific contacts
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Residue Dist Surf HB Arom Phob DC
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162A ASP* 3.8 7.6 - - - -
164A ILE* 3.7 20.4 - - + -
165A HIS* 3.4 37.0 - + - -
61B PHE* 4.1 10.1 - + - -
64B ARG* 3.8 15.9 - - - -
115B ASP* 3.8 20.9 - - - -
116B THR 4.5 0.9 - - - -
117B ALA* 3.7 21.1 - - + -
122B ILE* 4.0 7.9 - - + -
124B MSE 3.9 18.8 - - - -
128B GLU 3.5 0.2 + - - -
129B TYR* 3.3 31.7 + + - +
132B SER* 1.3 79.7 - - - +
134B VAL* 1.3 70.3 + - + +
136B PRO* 3.5 5.8 - - - +
137B ASN* 2.7 29.2 + - - -
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Residues in contact with VAL 134 (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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15B PHE* 3.7 10.1 - - + -
61B PHE* 3.0 49.1 - - + +
64B ARG* 4.8 0.4 - - + -
65B ALA* 3.6 19.7 - - + +
129B TYR* 2.9 47.9 + - + +
130B MSE 3.6 7.4 - - - +
133B PHE* 1.3 81.0 - - + +
135B LEU* 1.3 57.5 + - - +
137B ASN* 3.0 3.8 + - - +
138B PHE* 2.7 32.6 + - - +
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Residues in contact with LEU 135 (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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14A ILE* 5.1 2.0 - - + -
135A LEU* 3.6 23.1 - - + -
139A PHE* 5.0 4.7 - - + -
11B HIS* 3.6 39.9 - - + +
14B ILE* 4.4 12.3 - - + -
15B PHE* 4.0 26.7 - - + -
130B MSE 2.9 15.2 + - - +
131B SER 3.4 19.5 - - - +
134B VAL* 1.3 70.5 - - - +
136B PRO* 1.4 63.4 - - + +
138B PHE* 3.4 1.4 + - - +
139B PHE* 3.1 56.7 + - + -
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Residues in contact with PRO 136 (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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14A ILE* 5.4 1.3 - - + -
18A HIS* 3.6 22.4 - - + +
139A PHE* 3.7 34.7 - - + -
161A PHE* 3.2 25.8 - - + -
162A ASP* 4.9 2.2 - - + -
131B SER 3.8 6.5 - - - +
132B SER* 3.5 20.9 - - - +
133B PHE 3.5 14.6 - - - +
135B LEU* 1.4 92.7 - - + +
137B ASN* 1.4 56.6 + - - +
139B PHE* 3.4 3.3 + - - +
140B PHE 2.9 22.9 + - - -
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Residues in contact with ASN 137 (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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158A LYS* 2.8 39.6 + - - +
161A PHE* 4.2 7.2 - - - -
162A ASP* 2.8 27.7 + - - +
165A HIS* 3.6 3.0 - - - -
61B PHE* 3.6 29.4 - - + -
133B PHE* 2.7 28.5 + - - -
134B VAL 3.0 7.6 + - - +
136B PRO* 1.4 72.3 - - - +
138B PHE* 1.3 66.6 + - - +
140B PHE* 3.2 3.8 + - - +
141B HIS* 3.0 31.9 + - - -
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Residues in contact with PHE 138 (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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15B PHE* 3.7 48.5 - + + -
18B HIS* 3.7 32.5 - - + -
19B LEU* 3.9 18.2 - - + -
58B ALA* 3.1 30.1 - - - +
61B PHE* 4.2 12.2 - - + -
62B ALA* 4.0 10.3 - - + -
134B VAL 2.7 19.6 + - - +
135B LEU 3.5 3.4 - - - +
137B ASN* 1.3 73.2 - - - +
139B PHE* 1.3 79.8 + + - +
141B HIS* 3.4 1.9 + - - +
142B ILE* 3.0 50.7 + - + +
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Residues in contact with PHE 139 (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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135A LEU* 5.1 2.9 - - + -
136A PRO* 3.6 33.9 - - + -
139A PHE* 3.5 37.9 - + + -
143A SER* 4.2 1.6 - - - -
14B ILE* 3.7 23.1 - - + -
18B HIS* 3.7 26.2 - + + -
135B LEU* 3.1 47.8 + - + +
136B PRO 3.9 1.3 - - - +
137B ASN 3.3 0.2 - - - -
138B PHE* 1.3 89.6 - + - +
140B PHE* 1.3 55.6 + - - +
142B ILE* 3.8 4.5 - - + +
143B SER* 2.6 39.8 + - - +
161B PHE* 4.2 18.8 - + - -
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Residues in contact with PHE 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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143A SER* 3.3 29.3 + - - +
146A TYR* 3.5 37.7 - + - -
158A LYS* 3.7 16.2 - - + -
161A PHE* 3.9 21.1 - + + -
180A GOL 4.8 1.6 - - - -
48B MSE 4.2 11.4 - - + -
136B PRO 2.9 14.4 + - - +
137B ASN* 3.2 9.6 + - - +
139B PHE* 1.3 77.1 - - - +
141B HIS* 1.4 84.1 + + - +
143B SER* 3.3 3.8 + - - -
144B MSE 3.1 60.8 + - + +
177B CL 4.5 9.4 - - + -
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Residues in contact with HIS 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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158A LYS* 3.1 27.3 + - - -
180A GOL 5.7 0.2 - - - -
49B PHE* 5.2 1.3 - + - -
54B GLN* 2.6 43.2 + - - +
57B ILE* 3.5 39.4 - - + +
58B ALA* 3.9 11.7 - - + +
61B PHE* 3.8 8.6 - + - -
137B ASN 3.0 26.2 + - - +
140B PHE* 1.4 88.8 - + - +
142B ILE* 1.3 66.0 + - - +
144B MSE 3.2 3.9 + - - +
145B VAL* 3.1 27.3 + - - +
177B CL 4.4 9.2 - - + -
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Residues in contact with ILE 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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18B HIS* 4.4 12.6 - - + +
19B LEU* 5.1 0.2 - - + -
22B LEU* 3.8 35.2 - - + -
58B ALA* 3.7 18.8 - - + +
138B PHE* 3.0 51.4 + - + +
139B PHE* 3.8 9.6 - - + +
141B HIS* 1.3 73.5 - - - +
143B SER* 1.4 61.9 + - - +
145B VAL* 3.1 16.0 + - + +
146B TYR* 3.0 41.4 + - + -
161B PHE* 3.6 18.2 - - + -
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Residues in contact with SER 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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140A PHE* 3.4 42.6 + - - +
143A SER* 3.8 9.6 + - - -
144A MSE 3.6 16.3 - - - +
139B PHE 2.6 24.0 + - - -
140B PHE 3.4 5.6 - - - -
142B ILE* 1.4 75.3 - - - +
144B MSE 1.3 57.5 + - - +
146B TYR* 3.4 3.7 + - - +
147B ALA* 3.0 29.3 + - - +
161B PHE* 4.1 5.9 - - - -
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Residues in contact with MSE 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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143A SER* 3.7 24.2 - - - +
144A MSE 3.4 31.9 - - + -
147A ALA* 3.7 19.1 - - + -
44B LEU* 4.8 14.8 - - - -
48B MSE 4.6 11.2 - - - +
54B GLN* 3.5 32.1 - - + +
140B PHE* 3.1 42.3 + - + +
141B HIS 3.2 8.7 + - - +
143B SER* 1.3 72.5 - - - +
145B VAL* 1.4 58.4 + - - +
147B ALA* 3.5 1.9 + - - +
148B ILE* 2.9 40.5 + - + +
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Residues in contact with VAL 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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22B LEU* 3.7 20.0 - - + -
25B LEU* 3.6 19.1 - - + -
51B PHE* 3.5 35.8 - - + +
54B GLN* 3.7 6.7 - - + +
55B ALA* 3.5 35.2 - - + +
58B ALA* 5.4 0.4 - - + -
141B HIS 3.1 16.9 + - - +
142B ILE* 3.1 9.3 + - - +
144B MSE 1.4 74.3 - - - +
146B TYR* 1.3 56.4 + - - +
148B ILE* 3.5 1.1 + - - -
149B ALA* 3.0 27.9 + - - +
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Residues in contact with TYR 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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48A MSE 4.8 1.8 - - - -
140A PHE* 4.6 9.2 - - + -
18B HIS* 4.9 0.7 + - - -
21B LEU* 3.4 27.5 + - - +
22B LEU* 3.8 7.1 + - + -
25B LEU* 3.6 32.1 - - + -
142B ILE* 3.0 41.6 + - + -
143B SER 3.8 6.5 - - - +
144B MSE 3.4 0.2 - - - -
145B VAL* 1.3 75.6 - - + +
147B ALA* 1.3 59.0 + - - +
149B ALA* 3.3 4.2 + - - +
150B LYS* 2.9 30.6 + - - +
156B VAL* 4.3 6.2 - - + +
160B ASP* 2.8 43.4 + - + -
161B PHE* 3.6 21.7 + + + -
179B GOL 3.6 24.0 - - - +
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Residues in contact with ALA 147 (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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44A LEU* 4.6 0.2 - - + -
45A VAL* 3.5 5.8 - - + +
48A MSE 3.9 20.1 - - + +
144A MSE 3.9 23.8 - - + -
44B LEU* 3.4 22.7 - - + -
143B SER 3.0 18.1 + - - +
144B MSE 3.9 3.4 - - - +
146B TYR* 1.3 76.8 - - - +
148B ILE* 1.4 55.7 + - - +
150B LYS* 3.4 0.9 + - - +
151B ASN* 3.0 29.1 + - - +
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Residues in contact with ILE 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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39B LEU* 4.7 1.8 - - + +
42B ALA* 3.5 28.7 - - + +
43B ARG* 4.6 4.0 - - - +
44B LEU* 3.8 28.3 - - + +
49B PHE 4.1 6.3 - - - +
51B PHE* 3.7 40.2 - - + +
54B GLN* 4.0 17.5 - - + +
144B MSE 2.9 26.6 + - + +
145B VAL 3.9 3.6 - - - +
147B ALA* 1.4 71.5 - - - +
149B ALA* 1.3 65.4 + - - +
151B ASN* 3.2 2.7 + - - +
152B ASN* 2.9 42.3 + - - +
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Residues in contact with ALA 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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25B LEU* 4.2 13.2 - - + -
29B VAL* 4.1 24.9 - - + -
39B LEU* 5.6 2.2 - - - -
51B PHE* 4.2 7.1 - - + -
145B VAL 3.0 18.0 + - - +
146B TYR 3.3 6.0 + - - +
148B ILE* 1.3 75.5 - - - +
150B LYS* 1.4 61.2 + - - +
152B ASN* 3.2 10.2 + - - -
154B VAL* 3.1 36.1 + - + +
156B VAL* 4.7 2.9 - - + -
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Residues in contact with LYS 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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45A VAL* 4.1 11.8 - - + +
47A ASP* 3.0 54.8 + - + +
48A MSE 3.7 26.7 - - + +
146B TYR 2.9 16.1 + - - +
147B ALA 3.7 5.2 - - - +
148B ILE 3.4 0.2 - - - -
149B ALA* 1.4 74.8 - - - +
151B ASN* 1.3 61.0 + - - +
153B GLY* 3.3 13.7 + - - -
154B VAL 3.9 12.6 - - - +
156B VAL* 3.7 31.6 - - + +
179B GOL 3.6 20.9 + - - +
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Residues in contact with ASN 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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44A LEU 4.3 4.3 - - - +
45A VAL* 3.7 23.9 - - + +
46A ASP 5.3 0.5 + - - -
43B ARG 4.0 11.1 + - - -
44B LEU* 3.6 24.0 - - + +
147B ALA 3.0 18.4 + - - +
148B ILE 3.2 6.0 + - - +
150B LYS* 1.3 75.2 - - - +
152B ASN* 1.3 67.9 + - - +
153B GLY 3.3 2.9 + - - -
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Residues in contact with ASN 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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34B LEU* 5.5 5.4 - - - +
38B GLU 5.4 0.9 - - - +
39B LEU* 3.9 25.2 - - + +
42B ALA* 3.7 29.8 - - - +
43B ARG 5.1 0.6 + - - -
148B ILE* 2.9 28.9 + - - +
149B ALA 3.2 4.6 + - - +
151B ASN* 1.3 90.2 + - - +
153B GLY* 1.3 60.5 + - - +
154B VAL* 3.3 8.6 + - - +
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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