Contacts of the helix formed by residues 130 - 151 (chain B) in PDB entry 5AJQ
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
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Residue Dist Surf HB Arom Phob DC
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127B ARG* 5.8 7.2 - - - +
128B GLY 5.3 1.8 - - - +
129B LEU* 1.3 77.1 - - - +
131B GLU* 1.3 65.1 + - - +
132B PRO* 3.5 13.1 - - - +
133B GLN* 2.9 39.4 + - - +
134B ILE* 2.9 21.8 + - - +
263B TRP* 4.9 2.2 - - - -
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Residues in contact with GLU 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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130B THR* 1.3 70.7 - - - +
132B PRO* 1.4 66.7 - - + +
134B ILE* 3.0 7.5 + - - +
135B GLN* 2.7 38.7 + - - +
262B LYS 4.6 1.7 - - - +
263B TRP* 3.6 30.2 - - + -
264B SER* 2.3 51.8 + - - -
266B GLU* 5.0 0.3 - - - +
267B PHE* 3.9 10.9 - - + -
293B PHE* 3.4 23.5 - - + -
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Residues in contact with PRO 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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130B THR* 3.5 13.5 - - - +
131B GLU* 1.4 96.3 - - + +
133B GLN* 1.3 60.2 + - - +
135B GLN* 3.3 24.1 + - - +
136B VAL* 3.4 18.4 + - - +
297B ILE* 5.5 0.3 - - - +
302B ALA* 3.9 15.8 - - + +
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Residues in contact with GLN 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 ARG* 4.8 7.5 + - - +
128B GLY 4.8 0.2 - - - +
129B LEU* 3.3 24.9 - - + +
130B THR* 2.9 43.7 + - - +
132B PRO* 1.3 73.1 - - - +
134B ILE* 1.3 66.1 + - - +
136B VAL* 3.2 5.9 + - - +
137B VAL* 3.2 24.3 + - - +
302B ALA* 3.5 29.1 + - + +
303B LEU* 4.1 5.5 - - + +
305B GLU* 5.4 2.2 + - - +
306B LEU* 3.7 39.3 - - + +
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Residues in contact with ILE 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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129B LEU* 3.7 25.8 - - + +
130B THR 2.9 16.7 + - - +
131B GLU* 3.4 8.3 - - - +
133B GLN* 1.3 71.2 - - - +
135B GLN* 1.3 58.3 + - - +
137B VAL* 3.3 7.6 + - - +
138B CYS* 2.9 27.2 + - - +
227B LEU* 3.9 20.8 - - + +
230B MET* 3.9 11.4 - - + -
231B ALA* 3.6 41.3 - - + +
263B TRP* 4.4 4.0 - - + -
267B PHE* 3.9 28.7 - - + -
293B PHE* 3.9 11.4 - - + -
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Residues in contact with GLN 135 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
131B GLU* 2.7 22.9 + - - +
132B PRO* 3.5 28.8 - - - +
133B GLN 3.2 0.2 - - - -
134B ILE* 1.3 74.5 - - - +
136B VAL* 1.3 56.4 + - - +
138B CYS* 3.8 1.3 - - - +
139B ARG* 3.0 29.8 + - - +
266B GLU* 6.1 0.4 - - - +
292B PRO 4.7 2.4 + - - -
293B PHE* 2.7 63.5 + - + +
294B VAL* 3.9 3.5 - - - +
297B ILE* 3.7 26.8 - - + +
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Residues in contact with VAL 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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132B PRO 3.4 13.9 + - - +
133B GLN 3.2 8.1 + - - +
135B GLN* 1.3 76.4 - - + +
137B VAL* 1.3 65.4 + - - +
139B ARG* 3.4 1.6 + - - +
140B GLN* 3.0 43.3 + - + +
297B ILE* 4.2 13.9 - - + -
299B SER 3.6 21.8 - - - +
300B ASN* 3.9 15.3 - - - -
302B ALA* 4.3 13.9 - - + -
303B LEU* 3.5 28.9 - - + +
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Residues in contact with VAL 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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118B VAL* 5.0 6.3 - - + -
129B LEU* 4.3 7.0 - - + -
133B GLN 3.2 13.3 + - - +
134B ILE 3.7 5.8 - - - +
136B VAL* 1.3 77.6 - - - +
138B CYS* 1.3 53.0 + - - +
140B GLN* 3.7 0.7 - - - -
141B MET* 2.7 64.1 + - + +
163B VAL* 4.1 13.5 - - + -
171B ILE* 3.8 12.1 - - + +
230B MET* 3.7 30.3 - - + -
303B LEU* 3.8 26.2 - - + -
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Residues in contact with CYS 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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134B ILE 2.9 18.4 + - - +
135B GLN 3.8 4.0 - - - +
137B VAL* 1.3 76.0 - - - +
139B ARG* 1.3 53.1 + - - +
141B MET* 3.1 7.4 + - - +
142B LEU* 2.8 43.2 + - - +
223B LEU* 4.6 4.0 - - - -
227B LEU* 3.7 24.4 - - + +
270B PHE* 3.4 39.3 - - - -
293B PHE* 4.2 7.6 - - + -
294B VAL* 3.7 15.0 - - + -
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Residues in contact with ARG 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 GLN 3.0 17.1 + - - +
136B VAL 3.6 4.7 - - - +
138B CYS* 1.3 78.5 - - - +
140B GLN* 1.3 65.9 + - + +
142B LEU* 3.5 6.0 + - - +
143B GLU* 2.8 53.8 + - - +
289B LEU* 3.8 26.8 + - - +
294B VAL* 3.2 36.8 + - + +
295B SER* 3.4 21.8 + - - +
297B ILE* 3.9 32.9 + - + +
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Residues in contact with GLN 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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92B TYR* 3.5 45.6 + - + +
136B VAL* 3.0 37.8 + - + +
137B VAL 4.5 0.2 - - - -
139B ARG* 1.3 79.3 - - + +
141B MET* 1.3 65.4 + - - +
143B GLU* 3.4 0.9 + - - +
144B ALA* 3.0 21.5 + - - +
170B ASP* 3.1 24.7 + - - +
171B ILE* 2.7 51.5 + - + +
300B ASN* 3.8 8.5 - - - +
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Residues in contact with MET 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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137B VAL* 2.7 42.3 + - + +
138B CYS 3.5 3.6 - - - +
140B GLN* 1.3 70.6 - - - +
142B LEU* 1.3 58.4 + - - +
144B ALA* 3.2 3.1 + - - +
145B LEU* 2.9 36.2 + - + +
158B LEU* 4.1 30.7 - - + -
163B VAL* 3.8 22.4 - - + -
171B ILE* 3.4 17.7 - - + +
173B LEU* 3.9 11.2 - - + -
223B LEU* 3.6 31.2 - - + -
226B THR* 4.1 20.9 - - + -
230B MET* 4.8 2.2 - - - -
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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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138B CYS* 2.8 34.6 + - - +
139B ARG 3.7 0.9 - - - +
141B MET* 1.3 73.8 - - - +
143B GLU* 1.3 56.9 + - - +
145B LEU* 4.4 3.6 - - + +
146B ASN* 2.8 31.4 + - - +
220B ILE* 4.9 1.1 - - + -
223B LEU* 3.2 29.4 - - + -
270B PHE* 4.0 1.6 - - + -
285B ALA* 3.6 21.0 - - + +
288B LEU* 3.8 33.4 - - + +
289B LEU* 3.5 22.4 - - + +
294B VAL* 3.8 28.0 - - + -
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Residues in contact with GLU 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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90B HIS* 3.9 11.4 + - + +
92B TYR* 3.5 28.4 + - + -
139B ARG* 2.8 49.7 + - - +
140B GLN* 3.8 4.2 - - - +
141B MET 3.3 0.2 - - - -
142B LEU* 1.3 73.2 - - - +
144B ALA* 1.3 66.4 + - - +
146B ASN* 3.4 6.7 + - - +
147B PHE* 3.0 22.9 + - - +
289B LEU* 4.1 17.9 - - + -
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Residues in contact with ALA 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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90B HIS* 4.1 10.6 - - - -
92B TYR* 4.0 20.4 - - + +
93B ILE* 4.2 8.1 - - + +
140B GLN 3.0 14.7 + - - +
141B MET 3.5 5.4 - - - +
143B GLU* 1.3 78.0 - - - +
145B LEU* 1.3 56.8 + - - +
147B PHE* 3.3 5.6 + - - +
148B LEU* 2.9 32.3 + - - +
173B LEU* 3.5 27.1 - - + -
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Residues in contact with LEU 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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141B MET* 2.9 27.0 + - + +
142B LEU* 3.9 3.8 - - - +
144B ALA* 1.3 69.2 - - - +
146B ASN* 1.3 61.1 + - - +
148B LEU* 4.3 9.9 - - + +
149B HIS* 2.8 49.5 + - + +
155B HIS* 4.4 2.7 - - + -
158B LEU* 3.7 29.6 - - + -
173B LEU* 4.2 16.6 - - + -
219B ASP* 3.7 27.8 - - + +
220B ILE* 4.6 9.6 - - + -
223B LEU* 4.4 26.0 - - + -
285B ALA* 4.2 5.4 - - + -
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Residues in contact with ASN 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 2.8 18.7 + - - +
143B GLU* 3.7 7.6 - - - +
145B LEU* 1.3 76.8 - - - +
147B PHE* 1.3 62.4 + - - +
149B HIS* 4.0 3.3 - - - +
150B SER* 3.0 28.0 + - - -
285B ALA* 3.7 11.7 - - + +
286B ALA* 3.7 29.1 + - - +
289B LEU* 4.3 15.0 - - + +
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Residues in contact with PHE 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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87B THR 4.8 0.2 - - - -
88B CYS* 3.9 30.3 - - + -
89B ASP 4.0 27.6 - - - -
90B HIS* 3.6 30.3 - + + -
93B ILE* 3.6 17.3 - - + -
143B GLU 3.0 14.2 + - - +
144B ALA 3.3 6.5 - - - +
146B ASN* 1.3 77.0 - - - +
148B LEU* 1.3 65.1 + - + +
150B SER* 2.7 26.1 + - - -
151B LYS* 3.4 36.7 + - + +
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Residues in contact with LEU 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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88B CYS* 3.8 22.9 - - - -
93B ILE* 3.6 20.0 - - + -
144B ALA 2.9 23.2 + - - +
145B LEU* 3.9 14.6 - - + +
147B PHE* 1.3 75.8 - - + +
149B HIS* 1.3 63.9 + - + +
151B LYS* 3.1 11.5 + - - -
153B ILE* 2.9 45.5 + - + +
155B HIS* 4.4 8.3 - - + +
173B LEU* 4.1 18.8 - - + -
176B PHE* 3.6 33.9 - - + -
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Residues in contact with HIS 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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145B LEU* 2.8 40.7 + - + +
146B ASN* 4.2 3.8 - - - +
148B LEU* 1.3 75.4 - - + +
150B SER* 1.3 57.2 + - - +
152B ARG* 2.9 22.6 + - - +
153B ILE 3.3 18.8 - - - +
154B ILE* 4.5 0.2 - - - -
216B TYR* 3.5 56.4 + + + +
219B ASP* 2.8 34.6 + - + +
220B ILE* 4.2 14.1 - - + +
285B ALA* 4.6 4.9 + - - +
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Residues in contact with SER 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 ASN* 3.0 18.8 + - - -
147B PHE* 2.7 25.6 + - - -
149B HIS* 1.3 74.5 - - - +
151B LYS* 1.3 63.0 + - - +
152B ARG* 3.3 9.2 + - - +
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Residues in contact with LYS 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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87B THR* 2.9 42.4 + - - -
147B PHE* 3.7 39.8 - - + +
148B LEU 3.1 8.9 + - - +
150B SER* 1.3 80.4 + - - +
152B ARG* 1.3 72.7 + - - +
153B ILE* 3.2 23.7 + - + +
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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