Contacts of the helix formed by residues 134 - 157 (chain A) in PDB entry 5LXG
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 GLU 134 (chain A).
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Specific contacts
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Residue Dist Surf HB Arom Phob DC
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110A LEU* 5.0 6.1 - - - +
115A ARG* 3.6 30.3 - - - +
132A HIS* 3.2 8.7 + - + +
133A THR* 1.3 94.0 + - - +
135A THR* 1.4 58.3 + - - +
136A GLY 3.3 2.5 - - - -
137A ASN* 3.1 20.5 + - - +
138A ILE* 2.9 34.8 + - + +
191A HIS* 2.8 38.4 + - - +
194A TYR* 4.1 25.6 - - + -
335A GLN* 4.7 2.3 + - - -
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Residues in contact with THR 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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128A ILE 4.1 4.7 - - - +
130A ARG 2.7 30.9 + - - +
131A ILE* 4.4 7.2 - - + -
132A HIS* 2.8 33.5 + - - -
134A GLU* 1.4 73.0 - - - +
136A GLY* 1.3 61.6 + - - +
138A ILE* 3.3 9.2 + - - +
139A TRP* 3.2 46.5 + - + +
332A ILE* 4.0 6.5 - - - -
333A TRP* 4.5 13.9 - - + -
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Residues in contact with GLY 136 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
132A HIS 4.7 0.6 + - - -
133A THR 4.8 1.4 + - - -
134A GLU 3.3 0.6 - - - -
135A THR* 1.3 77.5 - - - +
137A ASN* 1.3 56.9 + - - +
138A ILE 3.4 0.2 + - - -
139A TRP* 3.6 2.9 + - - +
140A THR* 3.0 39.0 + - - +
332A ILE* 4.8 2.4 - - - +
333A TRP* 3.8 20.9 - - - -
338A GLN* 3.5 23.6 - - - +
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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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133A THR 4.1 1.8 + - - -
134A GLU* 3.1 24.5 + - - +
136A GLY* 1.3 72.3 - - - +
138A ILE* 1.4 66.0 + - - +
140A THR* 3.3 13.7 + - - -
141A HIS* 3.8 5.9 + - - +
188A TRP* 4.8 1.4 - - - -
191A HIS* 3.3 24.8 - - + +
335A GLN* 2.5 31.7 - - - +
337A HIS* 2.8 32.8 - - + +
338A GLN* 3.3 19.2 + - - +
341A HIS* 3.5 13.7 + - + -
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Residues in contact with ILE 138 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
115A ARG* 4.6 5.2 - - - +
128A ILE* 3.7 33.4 - - + -
132A HIS* 4.5 4.5 - - + -
134A GLU* 2.9 30.0 + - + +
135A THR* 3.4 9.4 - - - +
136A GLY 3.3 0.2 - - - -
137A ASN* 1.4 78.9 - - - +
139A TRP* 1.3 61.1 + - + +
142A LEU* 2.9 31.0 + - + +
188A TRP* 3.4 15.9 - - + +
191A HIS* 3.4 15.3 - - + +
192A THR* 3.4 54.1 - - + +
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Residues in contact with TRP 139 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
128A ILE* 2.9 43.1 + - + +
129A PHE* 4.0 29.4 - + - +
135A THR* 3.2 34.4 + - + +
136A GLY* 4.1 3.6 - - - +
138A ILE* 1.3 81.9 - - + +
140A THR* 1.4 58.8 + - + +
142A LEU* 3.7 26.2 - - + -
143A LEU* 2.8 65.7 + - + +
333A TRP* 6.4 0.2 - + - -
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Residues in contact with THR 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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136A GLY* 3.0 25.8 + - - +
137A ASN* 3.3 10.0 + - - -
139A TRP* 1.4 73.5 - - - +
141A HIS* 1.3 64.9 + - - +
143A LEU* 3.6 8.8 + - + +
144A GLY* 3.0 22.2 + - - -
338A GLN* 4.5 8.5 - - + +
341A HIS* 3.5 22.1 - - - +
342A VAL* 3.8 28.0 - - + -
345A VAL* 4.4 5.7 - - - +
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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
----------------------------------------------------------
137A ASN 4.2 5.4 - - - +
138A ILE 3.5 2.0 + - - -
140A THR* 1.3 79.3 + - - +
142A LEU* 1.4 60.4 + - - +
143A LEU 3.3 0.4 - - - -
144A GLY 3.7 1.6 - - - +
145A PHE* 3.0 28.4 + - - +
183A CYS* 5.1 6.3 - - - -
184A LEU* 3.5 41.5 - - + +
187A SER* 3.3 26.2 - - - -
188A TRP* 4.2 7.4 - - + +
340A PHE* 6.4 0.4 - + - -
341A HIS* 2.8 66.4 + + + +
344A VAL* 4.1 18.4 - - + +
345A VAL* 4.2 4.9 - - + -
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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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128A ILE* 4.6 12.1 - - + -
138A ILE* 2.9 21.5 + - + +
139A TRP* 3.2 45.1 + - + +
141A HIS* 1.4 76.2 - - - +
143A LEU* 1.4 62.0 - - + +
145A PHE* 3.6 8.1 + - + +
146A VAL* 3.4 20.8 + - - +
188A TRP* 3.6 48.2 - - + +
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Residues in contact with LEU 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 TRP* 2.8 53.2 + - + +
140A THR* 3.8 6.7 - - - +
142A LEU* 1.4 76.3 - - + +
144A GLY* 1.3 61.0 + - - +
146A VAL* 3.0 28.3 - - + +
147A LEU* 3.3 17.4 + - + +
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Residues in contact with GLY 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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140A THR 3.0 16.7 + - - -
141A HIS 3.6 2.0 + - - -
142A LEU 3.4 0.4 - - - -
143A LEU* 1.3 76.4 - - - +
145A PHE* 1.4 55.0 + - - +
147A LEU* 3.4 15.6 - - - +
148A PHE* 3.0 33.1 + - - +
184A LEU* 3.8 7.9 - - - -
345A VAL* 4.1 20.4 - - - -
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Residues in contact with PHE 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 HIS 3.0 19.1 + - - +
142A LEU* 3.7 11.2 - - + +
143A LEU 3.3 0.2 - - - -
144A GLY* 1.4 72.9 - - - +
146A VAL* 1.4 61.6 + - + +
148A PHE* 3.5 1.6 + - - +
149A LEU* 2.8 62.2 + - + +
181A VAL* 3.7 40.8 - - + +
184A LEU* 3.9 16.9 - - + +
185A SER* 3.8 16.2 - - - -
188A TRP* 4.2 21.5 - + + -
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Residues in contact with VAL 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 3.4 11.1 + - - +
143A LEU* 3.0 33.7 - - + +
145A PHE* 1.4 85.7 - - + +
147A LEU* 1.3 57.1 + - + +
149A LEU* 3.2 14.6 - - + +
150A PHE* 3.0 54.3 + - + -
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Residues in contact with LEU 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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143A LEU* 3.3 18.6 + - + +
144A GLY* 3.4 16.4 - - - +
146A VAL* 1.3 82.0 - - + +
148A PHE* 1.4 85.7 + - + +
150A PHE* 3.1 16.0 + - - +
151A LEU* 3.0 36.7 - - + +
345A VAL* 4.3 10.8 - - + -
349A PHE* 4.9 10.3 - - + -
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Residues in contact with PHE 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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144A GLY 3.0 19.1 + - - +
145A PHE 4.1 1.3 - - - +
147A LEU* 1.4 101.9 - - + +
149A LEU* 1.3 56.0 + - - +
151A LEU* 3.6 8.6 + - + -
152A GLY* 3.1 23.0 + - - -
176A PHE* 3.8 26.7 - + - -
177A PHE* 3.4 28.7 - + - -
180A ALA* 3.7 17.0 - - + -
181A VAL* 3.9 10.8 - - + +
184A LEU* 3.8 21.5 - - + -
345A VAL* 3.9 23.3 - - + -
348A ALA* 3.7 9.2 - - + -
349A PHE* 3.5 35.4 - + + -
352A PHE* 5.0 2.0 - - + -
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Residues in contact with LEU 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 PHE* 2.8 50.3 + - + +
146A VAL* 3.2 17.7 - - + +
148A PHE* 1.3 75.4 - - - +
150A PHE* 1.4 64.8 + - + +
152A GLY* 3.4 1.8 + - - -
153A ILE* 3.1 49.6 + - + +
181A VAL* 3.7 17.0 - - + +
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Residues in contact with PHE 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 VAL* 3.0 46.0 + - + -
147A LEU* 3.3 12.1 - - - +
149A LEU* 1.4 78.4 - - + +
151A LEU* 1.3 57.9 + - + +
153A ILE* 3.2 5.2 + - - +
154A LEU* 2.6 53.2 + - + +
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Residues in contact with LEU 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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147A LEU* 3.0 34.5 + - + +
148A PHE* 3.8 14.6 - - + +
150A PHE* 1.3 83.0 - - + +
152A GLY* 1.3 56.2 + - - +
154A LEU* 4.3 8.5 - - + -
155A THR* 2.6 43.9 + - - +
177A PHE* 3.4 22.4 - - + -
349A PHE* 4.5 19.3 - - + -
352A PHE* 4.2 29.2 - - + -
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Residues in contact with GLY 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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148A PHE 3.1 12.6 + - - -
149A LEU* 3.8 3.6 - - - -
150A PHE 3.3 0.2 - - - -
151A LEU* 1.3 74.1 - - - +
153A ILE* 1.3 49.3 + - - +
155A THR* 4.2 0.3 - - - -
156A MET* 2.8 44.0 + - - +
177A PHE* 3.5 33.1 - - - -
181A VAL* 6.2 0.2 - - - -
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Residues in contact with ILE 153 (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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149A LEU* 3.1 40.0 + - + +
150A PHE* 3.9 3.1 - - - +
152A GLY* 1.3 73.4 - - - +
154A LEU* 1.3 54.1 + - - +
156A MET* 3.2 5.2 + - + +
157A LEU* 2.7 53.4 + - + +
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Residues in contact with LEU 154 (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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150A PHE* 2.6 38.5 + - + +
151A LEU* 4.0 5.6 - - + +
153A ILE* 1.3 67.7 - - - +
155A THR* 1.4 67.5 + - - +
157A LEU* 2.7 30.7 - - - +
158A ARG* 4.1 7.8 - - - +
159A PRO* 5.3 0.5 - - - +
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Residues in contact with THR 155 (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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151A LEU* 2.6 34.0 + - - +
152A GLY 4.3 1.1 - - - -
154A LEU* 1.4 79.6 - - - +
156A MET* 1.4 50.2 + - + +
158A ARG* 3.1 25.6 + - - +
164A MET* 4.8 16.2 - - + -
170A LYS* 2.6 24.6 + - - +
173A PHE* 4.5 26.7 - - + -
177A PHE* 4.4 8.7 - - + -
352A PHE* 4.2 17.9 - - + -
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Residues in contact with MET 156 (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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152A GLY* 2.8 35.9 + - - +
153A ILE* 3.2 8.0 + - - +
155A THR* 1.4 68.4 - - + +
157A LEU* 1.3 67.2 + - + +
158A ARG 3.1 0.2 + - - -
170A LYS* 2.8 60.0 + - + +
173A PHE* 4.7 5.8 - - + -
174A GLY* 3.7 30.7 - - - +
177A PHE* 5.0 4.0 - - + -
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Residues in contact with LEU 157 (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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153A ILE* 2.7 37.6 + - + +
154A LEU* 2.7 18.4 - - - +
156A MET* 1.3 77.4 - - + +
158A ARG* 1.4 61.1 + - - +
159A PRO* 3.6 4.5 - - - +
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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