Contacts of the helix formed by residues 130 - 155 (chain B) in PDB entry 4FE1
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 130 (chain B).
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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73B PHE* 4.0 5.3 - - - -
74B GLU* 3.4 17.7 - - + +
129B ARG* 1.3 87.2 - - + +
131B ASN* 1.3 64.0 + - - +
132B GLY* 3.0 5.7 + - - -
133B ASP* 3.0 41.7 + - - +
134B LEU* 3.4 9.9 + - - +
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Residues in contact with ASN 131 (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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67B VAL 4.6 0.5 - - - +
68B ALA* 3.5 40.4 + - - +
71B GLY 5.5 3.0 + - - +
72B ASN* 5.5 0.4 - - - +
73B PHE* 3.5 25.5 + - - +
74B GLU* 3.1 38.4 + - - +
75B GLN* 5.1 3.6 + - - -
130B THR* 1.3 73.2 - - - +
132B GLY* 1.3 56.0 + - - +
134B LEU* 3.5 3.5 + - - -
135B TYR* 3.0 24.1 + - - +
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Residues in contact with GLY 132 (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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74B GLU* 4.7 0.4 + - - -
130B THR* 3.0 7.4 + - - -
131B ASN* 1.3 78.3 - - - +
133B ASP* 1.3 64.9 + - - +
135B TYR* 3.2 9.9 + - - +
136B GLN* 2.9 25.8 + - - +
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Residues in contact with ASP 133 (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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127B GLY 4.2 3.7 - - - +
128B MET* 3.5 30.7 - - + +
129B ARG* 3.1 28.0 + - - +
130B THR* 3.0 25.3 + - - +
132B GLY* 1.3 75.7 - - - +
134B LEU* 1.3 63.3 + - - +
136B GLN* 3.2 29.5 - - - +
137B GLY 3.2 3.6 + - - -
200B GLU* 5.4 0.5 - - - +
205B HIS* 4.7 16.8 - - - -
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Residues in contact with LEU 134 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
64B LEU* 3.8 19.7 - - + +
67B VAL* 3.5 32.1 - - + -
68B ALA* 3.6 21.3 - - + +
73B PHE* 3.5 25.4 - - + -
123B TRP* 3.8 23.8 - - + -
128B MET* 3.5 39.3 - - + -
130B THR 3.7 10.3 - - - +
131B ASN* 3.6 1.8 - - - +
132B GLY 3.2 0.2 - - - -
133B ASP* 1.3 77.5 - - - +
135B TYR* 1.3 62.5 + - - +
137B GLY* 3.0 12.8 + - - -
138B ALA* 3.0 10.0 + - - +
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Residues in contact with TYR 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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65B PHE* 4.2 30.5 - + - -
68B ALA* 4.0 8.8 - - + +
131B ASN 3.0 14.5 + - - +
132B GLY* 3.2 13.2 + - - +
134B LEU* 1.3 74.0 - - - +
136B GLN* 1.3 71.6 + - + +
138B ALA* 3.0 17.7 + - + +
139B ILE* 3.1 41.8 + - + +
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Residues in contact with GLN 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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128B MET* 5.9 0.8 - - + -
132B GLY 2.9 12.8 + - - +
133B ASP* 3.2 22.7 - - - +
135B TYR* 1.3 82.8 - - + +
137B GLY* 1.3 62.3 + - - +
139B ILE* 3.3 7.0 + - - +
140B PHE* 2.9 32.0 + - - +
208B TRP* 3.4 34.7 - - - +
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Residues in contact with GLY 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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64B LEU* 3.4 15.7 - - - -
128B MET* 5.0 4.0 - - - -
133B ASP 3.2 4.4 + - - -
134B LEU 3.0 9.1 + - - -
136B GLN* 1.3 84.4 - - - +
138B ALA* 1.3 65.2 + - - +
140B PHE* 3.2 7.7 + - - +
141B LEU* 2.9 29.5 + - - +
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Residues in contact with ALA 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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61B SER* 2.7 43.2 + - - +
64B LEU* 3.5 6.8 - - - +
65B PHE* 4.0 26.7 - - + +
134B LEU 3.0 10.7 + - - +
135B TYR* 3.0 9.6 + - - +
137B GLY* 1.3 77.5 - - - +
139B ILE* 1.3 65.9 + - + +
141B LEU 3.4 0.2 + - - -
142B LEU* 3.0 17.3 + - + +
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Residues in contact with ILE 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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135B TYR* 3.1 47.0 + - + +
136B GLN* 3.7 7.9 - - - +
138B ALA* 1.3 76.5 - - + +
140B PHE* 1.3 65.0 + - - +
142B LEU* 3.0 37.8 + - + +
143B ILE* 3.0 16.7 + - + +
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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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136B GLN* 2.9 19.0 + - + +
137B GLY* 3.2 8.7 + - - +
139B ILE* 1.3 78.7 - - - +
141B LEU* 1.3 64.2 + - + +
143B ILE* 3.0 16.5 + - + +
144B LEU* 3.0 59.2 + - + +
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Residues in contact with LEU 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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57B PHE* 3.6 42.9 - - + +
58B LEU* 5.5 0.2 - - - -
60B VAL* 3.6 29.2 - - + -
61B SER* 3.7 10.8 - - - +
64B LEU* 3.5 31.2 - - + -
137B GLY* 2.9 11.2 + - - +
140B PHE* 1.3 81.0 - - + +
142B LEU* 1.3 65.9 + - - +
144B LEU* 3.9 15.0 - - + +
145B ALA* 2.9 26.0 + - - +
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Residues in contact with LEU 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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58B LEU* 3.8 24.7 - - + +
61B SER* 3.5 20.0 - - - +
138B ALA* 3.0 11.3 + - + +
139B ILE* 3.0 36.6 - - + +
141B LEU* 1.3 78.7 - - - +
143B ILE* 1.3 62.3 + - + +
145B ALA* 3.5 4.3 - - - +
146B SER* 3.0 25.7 + - - -
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Residues in contact with ILE 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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139B ILE* 3.0 23.5 + - + +
140B PHE* 3.0 18.1 + - + +
142B LEU* 1.3 76.1 - - + +
144B LEU* 1.3 67.4 + - + +
146B SER* 3.1 12.4 + - - +
147B LEU* 2.9 34.5 + - + +
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Residues in contact with LEU 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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57B PHE* 3.7 33.5 - - + -
140B PHE* 3.0 51.2 + - + +
141B LEU* 3.3 16.1 + - + +
143B ILE* 1.3 76.9 - - + +
145B ALA* 1.3 62.7 + - - +
147B LEU* 3.2 26.6 + - + +
148B ALA* 3.0 19.4 + - - +
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Residues in contact with ALA 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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54B ALA* 3.7 19.2 - - + +
57B PHE* 3.7 12.9 - - + -
58B LEU* 3.6 29.2 - - + -
141B LEU 2.9 18.3 + - - +
142B LEU 3.5 4.7 - - - +
144B LEU* 1.3 75.4 - - - +
146B SER* 1.3 64.7 + - - +
148B ALA* 3.2 3.5 + - - +
149B LEU* 3.0 29.8 + - + +
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Residues in contact with SER 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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142B LEU 3.0 14.8 + - - -
143B ILE* 3.1 18.4 + - - +
145B ALA* 1.3 77.4 - - - +
147B LEU* 1.3 56.8 + - - +
149B LEU* 3.3 10.7 + - - +
150B PHE* 2.9 30.1 + - - +
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Residues in contact with LEU 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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143B ILE* 2.9 23.0 + - + +
144B LEU* 3.2 33.8 + - + +
146B SER* 1.3 77.3 - - - +
148B ALA* 1.3 57.6 + - - +
150B PHE* 3.2 14.4 + - + +
151B ALA* 2.9 30.5 + - - +
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Residues in contact with ALA 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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50B PHE* 3.1 42.5 - - + +
53B LEU* 4.4 9.0 - - + -
54B ALA* 4.0 13.0 - - + +
57B PHE* 4.5 8.5 - - + -
144B LEU 3.0 12.4 + - - +
145B ALA 3.2 7.2 + - - +
147B LEU* 1.3 75.0 - - - +
149B LEU* 1.3 61.9 + - - +
151B ALA* 3.4 1.3 + - - -
152B GLY 3.0 17.8 + - - -
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Residues in contact with LEU 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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50B PHE* 5.0 1.8 - - - -
51B GLY* 4.2 15.5 - - - +
54B ALA* 3.5 22.2 - - + -
55B ILE* 6.3 0.9 - - + -
58B LEU* 5.4 9.9 - - + -
145B ALA* 3.0 24.0 + - + +
146B SER* 3.6 8.1 - - - +
148B ALA* 1.3 73.5 - - - +
150B PHE* 1.3 65.8 + - - +
152B GLY* 3.2 2.5 + - - -
153B TRP* 3.0 23.9 + - - +
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Residues in contact with PHE 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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146B SER 2.9 17.9 + - - +
147B LEU* 3.2 16.6 + - + +
149B LEU* 1.3 76.9 - - - +
151B ALA* 1.3 60.5 + - + +
153B TRP* 3.2 24.2 + + - +
154B LEU* 2.9 57.7 + - + +
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Residues in contact with ALA 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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50B PHE* 3.4 30.5 - - + -
147B LEU 2.9 15.7 + - - +
148B ALA* 4.3 0.9 - - - -
150B PHE* 1.3 79.7 - - + +
152B GLY* 1.3 63.3 + - - +
154B LEU* 3.2 8.2 + - - +
155B HIS* 3.0 37.9 + - + +
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Residues in contact with GLY 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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47B ALA* 3.6 26.5 - - - +
50B PHE* 3.4 30.2 - - - -
148B ALA 3.0 10.5 + - - -
149B LEU* 3.2 3.1 + - - -
151B ALA* 1.3 79.0 - - - +
153B TRP* 1.3 63.2 + - - +
155B HIS* 3.7 6.3 + - - +
156B LEU* 3.7 7.0 + - - +
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Residues in contact with TRP 153 (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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149B LEU 3.0 13.1 + - - +
150B PHE* 3.6 27.1 - + + +
152B GLY* 1.3 76.7 - - - +
154B LEU* 1.3 96.8 + - + +
156B LEU* 3.3 23.0 + - + +
157B GLN* 3.8 41.9 + - + +
159B LYS* 6.4 0.2 - - - -
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Residues in contact with LEU 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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150B PHE* 2.9 44.5 + - + +
151B ALA* 3.2 8.7 + - - +
153B TRP* 1.3 90.5 - - + +
155B HIS* 1.3 73.7 + - + +
156B LEU 2.9 10.2 + - - -
157B GLN* 3.2 9.6 + - - +
160B PHE* 3.0 67.4 - - + +
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Residues in contact with HIS 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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43B GLN* 5.0 4.3 - - - +
46B PHE* 3.7 38.2 - + + -
47B ALA* 5.9 0.9 - - + -
50B PHE* 4.3 8.9 - + + -
151B ALA* 3.0 33.4 + - + +
152B GLY* 3.7 3.5 + - - +
153B TRP 3.5 0.4 - - - -
154B LEU* 1.3 91.1 - - + +
156B LEU* 1.3 62.9 + - - +
157B GLN 3.6 0.2 - - - -
160B PHE* 2.9 31.6 + + + +
161B ARG* 3.3 18.2 - - - +
162B PRO* 3.6 11.6 - - + +
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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