Contacts of the helix formed by residues 151 - 172 (chain A) in PDB entry 1LAN
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 GLN 151 (chain A).
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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145A LEU* 4.1 15.7 - - + -
148A SER* 2.8 44.8 + - - +
150A ASP* 1.3 71.9 - - - +
152A GLU* 1.3 60.6 + - - +
154A TRP* 3.3 3.9 + - - +
155A GLN* 2.9 29.7 + - - +
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Residues in contact with GLU 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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150A ASP* 3.4 5.7 + - - +
151A GLN* 1.3 75.0 - - - +
153A ALA* 1.3 60.1 + - - +
155A GLN* 3.4 5.9 + - + +
156A ARG* 2.9 48.9 + - - +
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Residues in contact with ALA 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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116A ALA* 3.9 13.7 - - + +
117A GLN* 3.3 21.6 - - + +
150A ASP* 3.3 32.0 + - - +
151A GLN 3.3 0.2 - - - -
152A GLU* 1.3 78.2 - - - +
154A TRP* 1.3 63.4 + - - +
156A ARG* 3.1 24.5 + - - +
157A GLY 3.1 17.3 + - - -
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Residues in contact with TRP 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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110A VAL* 3.6 44.0 - - + -
116A ALA* 3.7 29.3 - - + +
119A ALA* 4.1 5.2 - - + -
120A ALA* 3.2 38.1 - - + +
123A ALA* 4.4 6.1 - - + -
124A VAL* 5.7 2.0 - - + -
143A ALA* 4.2 12.0 + - + -
144A LYS* 3.7 20.5 - - - +
145A LEU* 3.7 43.5 - - + +
150A ASP 3.5 10.2 + - - +
151A GLN* 3.3 8.9 + - - +
152A GLU 3.3 0.2 - - - -
153A ALA* 1.3 79.1 - - - +
155A GLN* 1.3 80.4 + - - +
157A GLY 3.1 3.3 + - - -
158A VAL* 3.1 31.7 + - + +
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Residues in contact with GLN 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 GLN 2.9 16.7 + - - +
152A GLU* 3.9 6.5 - - + +
154A TRP* 1.3 92.4 - - - +
156A ARG* 1.3 65.2 + - - +
158A VAL* 3.2 23.8 + - - +
159A LEU* 3.0 24.7 + - + +
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Residues in contact with ARG 156 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
117A GLN* 3.1 29.1 - - - +
150A ASP* 5.3 0.8 + - - -
152A GLU* 2.9 43.4 + - - +
153A ALA* 3.1 30.0 + - - +
155A GLN* 1.3 75.3 - - - +
157A GLY* 1.3 58.5 + - - +
159A LEU* 3.2 7.7 + - - +
160A PHE* 3.0 54.0 + - + -
290A LEU* 5.6 9.2 - - + -
480A PHE* 5.9 9.9 - - - -
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Residues in contact with GLY 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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117A GLN* 3.4 33.1 - - - +
120A ALA* 3.9 6.1 - - - -
121A GLU* 3.4 9.7 - - - +
153A ALA 3.1 6.3 + - - -
154A TRP 3.1 7.8 + - - -
156A ARG* 1.3 74.9 - - - +
158A VAL* 1.3 62.8 + - - +
161A ALA* 3.0 27.2 + - - +
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Residues in contact with VAL 158 (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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120A ALA* 4.1 6.5 - - + -
124A VAL* 4.2 25.7 - - + +
143A ALA 6.1 0.2 - - - +
154A TRP* 3.1 39.7 + - + +
155A GLN* 3.6 25.1 - - - +
157A GLY* 1.3 74.6 - - - +
159A LEU* 1.3 52.4 + - - +
161A ALA* 3.8 0.7 - - - +
162A SER* 2.6 51.0 + - - +
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Residues in contact with LEU 159 (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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155A GLN* 3.0 14.4 + - + +
156A ARG* 3.3 11.9 - - - +
157A GLY 3.2 0.2 - - - -
158A VAL* 1.3 75.1 - - - +
160A PHE* 1.3 71.1 + - + +
162A SER* 3.3 5.5 + - - -
163A GLY* 3.0 19.8 + - - -
286A SER* 3.7 35.7 + - - +
289A LYS* 3.6 43.5 - - + +
290A LEU* 3.7 32.1 - - + -
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Residues in contact with PHE 160 (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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117A GLN* 4.1 8.1 - - - -
121A GLU* 3.5 25.1 - - - +
156A ARG* 3.0 46.8 + - + +
157A GLY 3.9 0.9 - - - +
159A LEU* 1.3 80.5 - - + +
161A ALA* 1.3 62.6 + - - +
163A GLY* 3.1 10.9 + - - -
164A GLN 3.2 9.7 + - - -
290A LEU* 4.3 12.6 - - + -
393A THR* 4.8 4.5 - - + -
473A ARG* 3.6 47.2 - - + +
476A ILE* 3.7 36.1 - - + +
477A GLU* 3.5 30.3 - - + -
480A PHE* 5.1 7.0 - + + -
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Residues in contact with ALA 161 (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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121A GLU* 4.1 9.2 - - + +
124A VAL* 3.4 29.6 - - + -
125A LEU* 3.7 26.0 - - + +
157A GLY 3.0 18.2 + - - +
160A PHE* 1.3 74.1 - - - +
162A SER* 1.3 60.8 + - - +
164A GLN* 3.2 3.4 + - - +
165A ASN* 2.9 32.2 + - - +
473A ARG* 4.4 3.8 - - - +
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Residues in contact with SER 162 (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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124A VAL* 4.1 7.9 - - - +
158A VAL* 2.6 40.4 + - - +
159A LEU* 3.7 6.3 - - - -
161A ALA* 1.3 74.0 - - - +
163A GLY* 1.3 62.2 + - - +
165A ASN* 3.4 7.4 + - - +
166A LEU* 3.1 24.1 + - - +
289A LYS* 6.3 2.2 - - - -
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Residues in contact with GLY 163 (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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159A LEU 3.0 9.9 + - - -
160A PHE 3.1 4.2 + - - -
161A ALA 3.1 0.4 - - - -
162A SER* 1.3 78.6 - - - +
164A GLN* 1.3 61.9 + - - +
166A LEU* 3.3 11.8 + - - +
167A ALA 3.4 1.0 + - - -
282A SER* 3.3 26.1 - - - -
285A VAL* 6.5 0.4 - - - -
286A SER* 3.4 24.2 - - - -
472A THR* 3.8 8.7 - - - -
476A ILE* 4.7 0.2 - - - -
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Residues in contact with GLN 164 (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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125A LEU* 3.7 15.4 - - + +
160A PHE 3.2 11.8 + - - +
161A ALA 3.7 6.5 - - - +
163A GLY* 1.3 75.5 - - - +
165A ASN* 1.3 56.2 + - - +
167A ALA* 3.2 4.7 + - - +
168A ARG* 3.0 31.6 + - - +
395A ASP* 4.5 5.8 + - - +
462A TYR* 5.6 0.6 - - - -
463A LEU* 3.6 25.9 - - - +
468A ALA 3.0 22.5 + - - +
469A GLY 3.5 16.4 - - - +
470A ARG* 4.0 9.5 - - - +
472A THR* 3.9 17.7 - - - +
473A ARG* 2.8 39.2 + - + +
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Residues in contact with ASN 165 (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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124A VAL* 3.1 40.4 + - - +
125A LEU* 3.5 7.9 - - - +
128A TYR* 3.4 30.6 - - + +
161A ALA 2.9 14.7 + - - +
162A SER* 3.8 7.2 - - - +
163A GLY 3.3 0.2 - - - -
164A GLN* 1.3 73.2 - - - +
166A LEU* 1.3 60.7 + - - +
168A ARG* 2.9 34.2 + - - +
169A ARG* 3.0 27.5 + - - +
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Residues in contact with LEU 166 (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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162A SER 3.1 13.3 + - - +
163A GLY* 3.6 9.6 - - - +
165A ASN* 1.3 74.4 - - - +
167A ALA* 1.3 59.4 + - - +
169A ARG* 3.2 25.3 + - - +
170A LEU* 2.9 54.2 + - + +
186A ILE* 4.6 0.7 - - + -
187A VAL* 6.1 3.4 - - + -
190A ASN* 4.0 43.3 - - + +
282A SER* 3.6 23.8 - - - +
285A VAL* 4.6 12.6 - - + -
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Residues in contact with ALA 167 (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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163A GLY 3.4 2.1 + - - +
164A GLN 3.2 9.5 + - - +
166A LEU* 1.3 78.7 - - - +
168A ARG* 1.3 58.7 + - - +
170A LEU* 3.5 2.0 + - - +
171A MET* 3.0 36.4 + - - +
278A ALA* 3.9 21.5 - - + +
279A THR* 4.4 2.2 - - + +
282A SER* 3.3 17.1 + - - +
469A GLY* 3.9 9.9 - - - -
472A THR* 3.6 22.4 - - - +
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Residues in contact with ARG 168 (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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125A LEU* 3.2 22.2 + - - +
128A TYR* 3.5 36.3 + - + +
164A GLN* 3.0 21.0 + - - +
165A ASN* 2.9 34.7 + - - +
166A LEU 3.2 0.2 - - - -
167A ALA* 1.3 74.5 - - - +
169A ARG* 1.3 54.6 + - - +
171A MET* 3.2 5.1 + - - +
172A GLU* 2.8 39.5 + - + +
463A LEU* 3.6 20.3 - - - +
464A ARG* 3.6 33.9 + - - +
466A GLY* 6.3 0.2 - - - -
467A MET* 3.4 20.6 + - - +
468A ALA* 3.3 32.2 + - - +
469A GLY* 4.5 2.5 - - - +
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Residues in contact with ARG 169 (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 TYR* 3.3 25.0 + - + +
130A TYR* 4.3 11.2 - - + -
132A ASP* 5.2 7.2 + - - -
165A ASN 3.0 10.8 + - - +
166A LEU* 3.5 23.6 - - - +
168A ARG* 1.3 76.7 - - - +
170A LEU* 1.3 63.0 + - - +
172A GLU* 4.1 2.9 - - - +
173A THR* 2.7 43.2 + - - +
178A MET* 5.3 4.0 - - - +
186A ILE* 3.7 45.7 - - - +
189A GLU* 4.9 4.2 + - - -
190A ASN* 4.7 4.6 + - - +
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Residues in contact with LEU 170 (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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166A LEU* 2.9 38.3 + - + +
167A ALA 3.8 4.3 - - - +
169A ARG* 1.3 80.9 - - - +
171A MET* 1.3 57.2 + - - +
173A THR 3.9 0.9 + - - -
178A MET* 3.5 36.0 - - + +
183A PHE* 3.7 21.5 - - + +
186A ILE* 3.9 27.4 - - + -
187A VAL* 4.2 14.8 - - + -
274A MET* 3.3 19.7 - - + +
278A ALA* 4.1 11.2 - - + +
281A CYS* 5.7 0.2 - - + -
282A SER* 4.3 6.7 - - - +
490A ZN 2.8 21.5 - - - -
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Residues in contact with MET 171 (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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167A ALA* 3.0 23.3 + - - +
168A ARG 3.7 2.7 - - - +
170A LEU* 1.3 75.5 - - - +
172A GLU* 1.3 60.3 + - - +
271A ARG* 3.8 11.6 - - - +
272A ALA* 3.8 13.0 - - + +
274A MET* 3.7 10.3 - - - -
275A GLY* 3.8 34.1 - - - +
278A ALA* 4.0 8.7 - - + -
279A THR* 4.9 2.9 - - - -
359A THR* 5.0 1.3 - - + -
450A ILE* 5.4 3.6 - - + -
453A VAL 5.4 0.2 - - - +
454A MET* 3.6 48.5 - - + +
467A MET* 3.7 12.9 - - + +
469A GLY* 3.9 25.6 - - - +
470A ARG 5.7 1.6 - - - +
490A ZN 2.9 15.4 - - - -
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Residues in contact with GLU 172 (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 TYR* 6.0 1.6 - - + -
130A TYR* 3.8 36.5 - - + +
168A ARG* 2.8 21.9 + - + +
169A ARG 4.1 1.8 - - - +
171A MET* 1.3 72.2 - - - +
173A THR* 1.3 62.3 + - - +
174A PRO* 3.4 4.4 - - - +
271A ARG* 2.8 51.9 + - - +
465A LYS 4.7 0.9 - - - +
466A GLY* 3.4 11.0 - - - -
467A MET* 2.9 36.6 + - + +
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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