Contacts of the helix formed by residues 130 - 151 (chain A) 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 A).
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Specific contacts
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Residue Dist Surf HB Arom Phob DC
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127A ARG* 5.7 7.0 - - - +
128A GLY 5.3 1.8 - - - +
129A LEU* 1.3 77.0 - - - +
131A GLU* 1.3 64.8 - - - +
132A PRO* 3.5 12.7 - - - +
133A GLN* 2.9 45.8 + - - +
134A ILE* 2.9 22.5 + - - +
263A TRP* 4.9 1.8 - - - -
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Residues in contact with GLU 131 (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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130A THR* 1.3 69.4 - - - +
132A PRO* 1.4 62.7 - - + +
134A ILE* 3.0 7.2 + - - +
135A GLN* 2.7 43.8 + - - +
262A LYS 4.6 1.1 - - - +
263A TRP* 3.6 31.2 - - + -
264A SER* 2.4 53.1 + - - -
267A PHE* 3.9 10.2 - - + -
293A PHE* 3.4 24.7 - - + -
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Residues in contact with PRO 132 (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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130A THR* 3.5 14.6 - - - +
131A GLU* 1.4 93.2 - - + +
133A GLN* 1.3 59.8 + - - +
135A GLN* 3.3 17.9 + - - +
136A VAL* 3.3 25.5 + - - +
297A ILE* 5.5 0.7 - - + +
302A ALA* 3.9 15.3 - - + +
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Residues in contact with GLN 133 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
127A ARG* 4.8 7.4 + - - +
128A GLY 4.8 0.5 - - - +
129A LEU* 3.3 24.5 - - + +
130A THR* 2.9 44.5 + - - +
132A PRO* 1.3 73.8 - - - +
134A ILE* 1.3 65.9 + - - +
136A VAL* 3.2 5.7 + - - +
137A VAL* 3.2 25.1 + - - +
302A ALA* 3.5 29.3 + - + +
303A LEU* 4.1 5.8 - - + +
305A GLU* 5.4 2.4 + - - +
306A LEU* 3.8 40.0 - - + +
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Residues in contact with ILE 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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129A LEU* 3.7 26.2 - - + +
130A THR 2.9 13.7 + - - +
131A GLU* 3.4 8.1 - - - +
133A GLN* 1.3 75.4 - - - +
135A GLN* 1.3 58.4 + - - +
137A VAL* 3.3 6.6 + - - +
138A CYS* 2.9 27.9 + - - +
227A LEU* 3.9 23.1 - - + +
230A MET* 3.9 11.2 - - + -
231A ALA* 3.6 40.6 - - + +
263A TRP* 4.4 4.3 - - + -
267A PHE* 3.9 28.0 - - + -
293A PHE* 4.0 10.1 - - + -
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Residues in contact with GLN 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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131A GLU* 2.7 22.6 + - - +
132A PRO* 3.5 28.1 - - - +
133A GLN 3.2 0.4 - - - -
134A ILE* 1.3 73.6 - - - +
136A VAL* 1.3 56.4 + - - +
138A CYS* 3.8 1.0 - - - +
139A ARG* 3.0 29.8 + - - +
266A GLU* 6.1 0.4 - - - +
292A PRO 4.7 2.6 + - - -
293A PHE* 2.7 64.2 + - + +
294A VAL* 3.9 3.8 - - - +
297A ILE* 3.7 28.0 - - + +
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Residues in contact with VAL 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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132A PRO 3.3 14.1 + - - +
133A GLN 3.2 7.7 + - - +
135A GLN* 1.3 75.2 - - + +
137A VAL* 1.3 65.3 + - - +
139A ARG* 3.4 2.3 + - - +
140A GLN* 2.9 43.0 + - - +
297A ILE* 4.2 13.0 - - + -
299A SER 3.6 21.3 - - - +
300A ASN* 3.9 15.3 - - - -
302A ALA* 4.3 13.7 - - + -
303A LEU* 3.5 28.3 - - + +
1314A EDO 4.3 2.9 - - - +
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Residues in contact with VAL 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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118A VAL* 5.0 6.3 - - + -
129A LEU* 4.3 7.0 - - + -
133A GLN 3.2 13.9 + - - +
134A ILE 3.8 5.8 - - - +
136A VAL* 1.3 76.8 - - - +
138A CYS* 1.3 53.9 + - - +
140A GLN* 3.7 0.9 - - - -
141A MET* 2.7 63.8 + - + +
163A VAL* 4.1 13.9 - - + -
171A ILE* 3.8 13.0 - - + +
230A MET* 3.7 30.5 - - + -
303A LEU* 3.7 26.2 - - + -
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Residues in contact with CYS 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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134A ILE 2.9 18.4 + - - +
135A GLN 3.8 4.7 - - - +
137A VAL* 1.3 76.2 - - - +
139A ARG* 1.3 54.5 + - - +
141A MET* 3.1 7.3 + - - +
142A LEU* 2.8 42.9 + - - +
223A LEU* 4.6 4.5 - - - -
227A LEU* 3.7 24.2 - - + +
270A PHE* 3.4 38.8 - - - -
293A PHE* 4.2 6.7 - - + -
294A VAL* 3.7 15.0 - - + -
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Residues in contact with ARG 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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135A GLN 3.0 16.9 + - - +
136A VAL 3.6 4.5 - - - +
138A CYS* 1.3 78.5 - - - +
140A GLN* 1.3 60.6 + - - +
142A LEU* 3.5 5.5 + - - +
143A GLU* 2.8 53.4 + - - +
289A LEU* 3.7 28.8 + - - +
294A VAL* 3.2 35.4 + - + +
295A SER* 3.4 22.0 + - - +
297A ILE* 3.9 21.9 + - + +
1314A EDO 4.0 22.8 - - - -
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Residues in contact with GLN 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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92A TYR* 3.5 40.9 + - + +
136A VAL* 2.9 34.2 + - - +
137A VAL 4.5 0.2 - - - -
139A ARG* 1.3 75.0 - - - +
141A MET* 1.3 65.9 + - - +
143A GLU 3.4 0.5 + - - -
144A ALA* 3.0 21.1 + - - +
170A ASP* 3.1 23.3 + - - +
171A ILE* 2.7 49.5 + - + +
300A ASN* 3.8 3.6 - - - +
1314A EDO 3.0 28.0 + - - +
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Residues in contact with MET 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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137A VAL* 2.7 42.5 + - + +
138A CYS 3.5 3.8 - - - +
140A GLN* 1.3 71.8 - - - +
142A LEU* 1.3 58.9 + - - +
144A ALA* 3.2 2.9 + - - +
145A LEU* 2.9 36.8 + - + +
158A LEU* 4.1 29.8 - - + -
163A VAL* 3.8 22.7 - - + -
171A ILE* 3.4 17.9 - - + -
173A LEU* 3.9 12.3 - - + -
223A LEU* 3.6 31.2 - - + -
226A THR* 4.1 20.9 - - + -
230A MET* 4.8 2.2 - - - -
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Residues in contact with LEU 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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138A CYS* 2.8 34.4 + - - +
139A ARG 3.7 0.9 - - - +
141A MET* 1.3 73.2 - - - +
143A GLU* 1.3 56.3 + - - +
145A LEU* 3.3 3.0 + - + +
146A ASN* 2.8 31.2 + - - +
220A ILE* 4.9 1.6 - - + -
223A LEU* 3.2 28.7 - - + -
270A PHE* 4.0 4.3 - - + -
285A ALA* 3.6 21.4 - - + +
288A LEU* 3.8 29.4 - - + +
289A LEU* 3.5 22.6 - - + +
294A VAL* 3.8 28.9 - - + -
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Residues in contact with GLU 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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90A HIS* 4.0 11.7 + - + +
92A TYR* 3.5 26.2 - - + -
139A ARG* 2.8 47.1 + - - +
140A GLN 3.8 4.5 - - - +
141A MET 3.3 0.2 - - - -
142A LEU* 1.3 76.9 - - - +
144A ALA* 1.3 62.8 + - - +
146A ASN* 3.5 6.4 + - - +
147A PHE* 3.0 22.7 + - - +
289A LEU* 4.1 16.8 - - + -
1314A EDO 3.5 13.0 + - - -
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Residues in contact with ALA 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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90A HIS* 4.1 10.9 - - - -
92A TYR* 4.0 20.9 - - + +
93A ILE* 4.2 7.5 - - + +
140A GLN 3.0 14.0 + - - +
141A MET 3.5 5.4 - - - +
143A GLU* 1.3 77.4 - - - +
145A LEU* 1.3 57.4 + - - +
147A PHE* 3.3 5.3 + - - +
148A LEU* 2.8 32.3 + - - +
173A LEU* 3.5 27.4 - - + -
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Residues in contact with LEU 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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141A MET* 2.9 28.9 + - + +
142A LEU* 3.9 4.0 - - - +
144A ALA* 1.3 70.0 - - - +
146A ASN* 1.3 57.4 + - - +
148A LEU* 4.3 11.0 - - + +
149A HIS* 2.7 51.0 + - + +
155A HIS* 4.4 2.7 - - + -
158A LEU* 3.7 29.6 - - + -
173A LEU* 4.2 16.2 - - + -
219A ASP* 3.7 27.6 - - + +
220A ILE* 4.6 9.0 - - + -
223A LEU* 4.4 24.2 - - + -
285A ALA* 4.2 5.2 - - + -
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Residues in contact with ASN 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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142A LEU 2.8 19.3 + - - +
143A GLU* 3.7 7.8 - - - +
145A LEU* 1.3 74.5 - - - +
147A PHE* 1.3 63.3 + - - +
149A HIS* 4.2 2.9 - - - +
150A SER* 3.0 28.4 + - - -
285A ALA* 3.7 11.0 - - + +
286A ALA* 3.7 28.4 + - - +
289A LEU* 4.3 14.2 - - + +
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Residues in contact with PHE 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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87A THR 4.9 0.4 - - - -
88A CYS* 3.9 27.4 - - + -
89A ASP* 4.0 28.3 - - + -
90A HIS* 3.6 32.5 - + + -
93A ILE* 3.5 18.2 - - + -
143A GLU 3.0 14.6 + - - +
144A ALA 3.3 7.2 - - - +
146A ASN* 1.3 76.3 - - - +
148A LEU* 1.3 66.4 + - + +
150A SER* 2.7 25.2 + - - -
151A LYS* 3.4 35.2 + - + +
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Residues in contact with LEU 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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88A CYS* 3.8 22.7 - - - -
93A ILE* 3.6 22.0 - - + -
144A ALA 2.8 23.3 + - - +
145A LEU* 3.8 15.5 - - + +
147A PHE* 1.3 75.1 - - + +
149A HIS* 1.3 63.6 + - + +
151A LYS* 3.1 11.1 + - - -
153A ILE* 2.9 46.7 + - + +
155A HIS* 4.4 9.2 - - + +
173A LEU* 4.1 18.6 - - + -
176A PHE* 3.6 33.2 - - + -
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Residues in contact with HIS 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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145A LEU* 2.7 40.9 + - + +
146A ASN* 4.2 3.6 - - - +
148A LEU* 1.3 71.9 - - + +
150A SER* 1.3 59.7 + - - +
152A ARG* 2.9 23.1 + - - +
153A ILE 3.2 20.4 - - - +
154A ILE* 4.5 0.2 - - - -
216A TYR* 3.5 58.4 + + + +
219A ASP* 2.8 33.8 + - + +
220A ILE* 4.2 13.9 - - + +
285A ALA* 4.6 5.5 + - - +
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Residues in contact with SER 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 ASN* 3.0 18.3 + - - -
147A PHE* 2.7 26.4 + - - -
149A HIS* 1.3 75.3 - - - +
151A LYS* 1.3 61.7 + - - +
152A ARG* 3.5 13.7 + - - +
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Residues in contact with LYS 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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87A THR* 3.0 42.2 + - - -
88A CYS* 4.8 0.2 - - - +
147A PHE* 3.7 40.2 - - + +
148A LEU 3.1 9.8 + - - +
150A SER* 1.3 79.9 + - - +
152A ARG* 1.3 73.8 + - - +
153A ILE* 3.2 24.3 + - + +
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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
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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