Contacts of the helix formed by residues 136 - 157 (chain C) in PDB entry 3LEE
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 ALA 136 (chain C).
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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64C GLU* 4.9 4.3 - - - +
134C ASN 3.8 1.2 + - - -
135C LEU* 1.3 76.3 - - - +
137C GLU* 1.3 60.2 + - - +
138C LYS* 4.3 16.2 - - + -
139C TYR* 2.8 45.0 + - + +
140C GLN 3.0 7.8 + - - -
134D ASN 5.4 4.7 + - - -
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Residues in contact with GLU 137 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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135C LEU 3.5 2.0 + - - -
136C ALA* 1.3 69.1 - - - +
138C LYS* 1.3 71.0 + - - +
139C TYR 2.8 1.4 + - - -
140C GLN* 4.0 17.3 - - + +
141C THR* 2.9 33.6 + - - +
37D SER* 3.2 42.5 + - - -
40D LEU* 5.9 3.3 - - - +
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Residues in contact with LYS 138 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
64C GLU* 4.1 9.7 + - - +
136C ALA* 4.3 13.7 - - + -
137C GLU* 1.3 78.4 + - - +
139C TYR* 1.3 83.2 + - + +
141C THR* 3.7 5.2 + - - -
142C VAL* 3.4 24.1 + - - +
189C ALA* 2.6 40.6 + - + +
190C SER* 4.1 4.9 + - - +
191C GLU* 4.9 8.3 + - - +
63D GLY* 6.1 2.8 - - - -
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Residues in contact with TYR 139 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
64C GLU* 2.8 52.6 + - + +
65C MET* 5.2 0.9 - - + -
68C ALA* 4.2 20.9 - - + -
135C LEU* 4.3 15.3 - - + -
136C ALA* 2.8 34.5 + - + +
138C LYS* 1.3 85.5 + - + +
140C GLN* 1.3 66.7 + - - +
141C THR 3.2 1.3 - - - -
142C VAL* 3.2 2.1 + - - +
143C ILE* 3.0 30.0 + - + +
186C LEU* 3.7 30.5 - - + -
189C ALA* 3.8 22.7 - - + -
190C SER* 3.2 24.9 - - - -
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Residues in contact with GLN 140 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
105C TYR* 3.1 31.0 + - - +
132C PHE* 3.0 39.7 + - + +
133C ARG* 2.9 34.5 + - - +
135C LEU* 3.2 12.5 + - + +
136C ALA 3.0 16.4 + - - +
137C GLU* 3.6 16.6 - - + +
139C TYR* 1.3 77.0 - - - +
141C THR* 1.3 62.0 + - - +
144C ALA* 2.9 29.4 + - - +
134D ASN* 5.9 0.2 + - - -
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Residues in contact with THR 141 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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105C TYR* 5.7 0.2 - - - -
137C GLU* 2.9 30.9 + - - +
138C LYS* 3.8 5.8 - - - -
140C GLN* 1.3 76.3 - - - +
142C VAL* 1.3 63.6 + - + +
144C ALA* 4.0 4.1 - - - +
145C ASP* 3.3 24.2 + - + +
185C ARG* 5.0 2.2 + - - +
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Residues in contact with VAL 142 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
72C PHE* 6.2 0.2 - - + -
138C LYS 3.4 17.7 - - - +
139C TYR 3.2 1.0 + - - +
140C GLN 3.2 0.4 - - - -
141C THR* 1.3 77.6 - - + +
143C ILE* 1.3 67.0 + - - +
145C ASP* 3.4 1.6 + - - +
146C ILE* 3.2 24.3 + - - +
182C GLY* 3.7 21.3 - - - +
185C ARG* 3.4 54.7 - - + +
186C LEU* 3.6 26.0 - - + -
189C ALA* 4.9 3.8 - - + -
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Residues in contact with ILE 143 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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68C ALA* 3.6 26.2 - - - +
72C PHE* 3.6 43.7 - - + +
75C VAL* 4.4 17.9 - - + -
104C LEU* 4.4 1.3 - - + -
132C PHE* 3.5 24.9 - - + -
135C LEU* 3.7 23.3 - - + -
139C TYR* 3.0 16.1 + - + +
142C VAL* 1.3 75.8 - - - +
144C ALA* 1.3 57.5 + - - +
146C ILE* 3.4 2.9 + - - +
147C CYS* 2.9 28.0 + - + +
186C LEU* 4.4 11.4 - - + -
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Residues in contact with ALA 144 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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101C HIS* 3.5 19.3 - - + +
104C LEU* 5.0 2.5 - - - -
105C TYR* 4.6 15.3 - - + +
132C PHE* 4.5 11.2 - - + -
140C GLN 2.9 19.4 + - - +
141C THR* 4.0 4.9 - - - +
143C ILE* 1.3 81.0 - - - +
145C ASP* 1.3 56.3 + - - +
147C CYS* 3.4 4.6 + - - -
148C ARG* 2.9 29.3 + - - +
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Residues in contact with ASP 145 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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141C THR* 3.3 18.6 + - + +
142C VAL 3.9 3.1 - - - +
143C ILE 3.3 0.2 - - - -
144C ALA* 1.3 75.4 - - - +
146C ILE* 1.3 62.6 + - - +
148C ARG* 2.8 35.8 + - - +
149C ARG* 2.9 63.2 + - - -
185C ARG* 3.3 14.5 + - - +
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Residues in contact with ILE 146 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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72C PHE* 3.6 28.9 - - + -
76C LEU* 4.4 10.8 - - + -
142C VAL 3.2 15.5 + - - +
143C ILE 3.9 1.6 - - - +
145C ASP* 1.3 79.3 - - - +
147C CYS* 1.3 59.8 + - - +
149C ARG* 4.2 9.9 - - - +
150C MET* 2.9 37.7 + - - +
178C LEU* 3.3 36.6 - - + +
181C ILE* 4.6 5.6 - - + -
182C GLY* 3.8 21.5 - - - +
185C ARG* 3.3 30.3 - - - +
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Residues in contact with CYS 147 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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75C VAL* 4.1 13.7 - - + -
76C LEU* 4.4 10.1 - - + -
79C LEU* 3.7 10.9 - - - +
97C LEU 5.2 1.6 - - - +
100C PHE* 3.2 37.6 - - - +
101C HIS* 3.8 18.4 + - + +
104C LEU* 4.2 3.1 - - + -
143C ILE* 2.9 19.8 + - + +
144C ALA* 3.6 6.7 - - - +
146C ILE* 1.3 80.8 - - - +
148C ARG* 1.3 61.5 + - - +
150C MET* 3.7 4.1 - - - +
151C GLY* 3.3 17.8 + - - -
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Residues in contact with ARG 148 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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97C LEU 5.3 0.6 - - - +
98C HIS 5.3 0.7 - - - -
101C HIS* 3.5 44.6 - - + +
144C ALA 2.9 18.5 + - - +
145C ASP* 2.8 29.9 + - - +
147C CYS* 1.3 76.2 - - - +
149C ARG* 1.3 86.3 + - - +
150C MET 3.1 0.3 + - - -
151C GLY* 3.3 0.7 + - - -
152C ILE* 2.9 45.5 + - + +
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Residues in contact with ARG 149 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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145C ASP* 2.9 51.6 + - - +
146C ILE* 4.2 4.3 - - - +
148C ARG* 1.3 94.0 - - - +
150C MET* 1.3 61.8 + - - +
152C ILE* 3.6 9.8 + - - +
153C GLY 3.1 15.8 + - - -
173C HIS* 5.1 5.1 + - - -
174C TYR* 3.8 13.8 - - + -
178C LEU* 3.7 38.3 - - + +
181C ILE* 5.1 8.1 - - - +
185C ARG* 3.6 14.7 - - - +
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Residues in contact with MET 150 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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76C LEU* 4.1 41.7 - - + +
79C LEU* 4.3 9.6 - - + -
80C ASP* 5.8 6.1 - - + -
146C ILE* 2.9 24.0 + - - +
147C CYS 3.7 4.9 - - - +
148C ARG 3.1 0.2 - - - -
149C ARG* 1.3 77.2 - - - +
151C GLY* 1.3 52.4 + - - +
153C GLY* 3.0 3.5 + - - -
154C MET* 2.7 52.9 + - + +
174C TYR* 2.9 26.4 - - - +
175C VAL* 3.4 37.0 - - + +
178C LEU* 4.2 6.7 - - + -
179C VAL* 4.5 3.1 - - + -
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Residues in contact with GLY 151 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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79C LEU* 4.2 6.6 - - - +
97C LEU* 3.7 25.2 - - - +
98C HIS* 4.7 0.7 - - - -
147C CYS 3.3 10.1 + - - -
148C ARG 3.9 1.6 - - - -
150C MET* 1.3 75.4 - - - +
152C ILE* 1.3 66.9 + - - +
153C GLY 2.9 1.7 + - - -
154C MET* 3.0 12.9 + - - +
155C ALA* 2.9 27.7 + - - +
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Residues in contact with ILE 152 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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98C HIS* 3.8 47.7 + - + +
101C HIS* 5.8 0.2 - - + -
148C ARG* 2.9 38.7 + - + +
149C ARG* 3.7 9.9 - - - +
151C GLY* 1.3 76.5 - - - +
153C GLY* 1.3 62.2 + - - +
155C ALA* 4.0 3.1 + - - +
156C GLU* 3.6 14.6 + - - +
174C TYR* 5.5 5.8 - - + +
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Residues in contact with GLY 153 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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149C ARG 3.1 6.5 + - - -
150C MET 3.0 7.2 + - - -
151C GLY 2.9 1.6 - - - -
152C ILE* 1.3 73.8 - - - +
154C MET* 1.3 56.1 + - - -
155C ALA 3.1 2.0 - - - -
156C GLU* 2.7 32.4 + - - +
157C PHE* 3.4 7.6 + - - -
174C TYR* 3.5 39.9 - - - -
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Residues in contact with MET 154 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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79C LEU* 3.1 51.1 - - + +
80C ASP* 4.9 2.7 - - - +
83C GLU* 3.5 40.6 - - + +
97C LEU* 3.4 25.6 - - + -
150C MET* 2.7 52.6 + - + +
151C GLY* 3.0 5.1 + - - +
153C GLY* 1.3 70.2 - - - +
155C ALA* 1.3 61.4 + - - +
157C PHE* 3.3 14.6 + - - +
158C LEU* 3.5 15.4 + - - +
171C TYR* 5.6 2.7 - - - -
174C TYR* 4.7 3.7 - - + +
175C VAL* 4.7 10.3 - - + -
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Residues in contact with ALA 155 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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94C VAL* 3.9 24.7 - - + +
97C LEU* 3.6 8.6 - - + +
98C HIS* 3.9 23.6 - - + +
151C GLY 2.9 15.5 + - - +
152C ILE 4.1 1.8 - - - +
154C MET* 1.3 75.2 - - - +
156C GLU* 1.3 66.4 + - - +
157C PHE 3.3 0.5 + - - -
158C LEU* 3.4 26.7 + - - +
159C ASP* 4.5 5.0 - - - +
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Residues in contact with GLU 156 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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152C ILE 3.6 8.2 + - - +
153C GLY* 2.7 22.7 + - - +
155C ALA* 1.3 75.2 - - - +
157C PHE* 1.3 64.0 + - + +
158C LEU 3.3 3.0 + - - -
159C ASP* 4.3 8.7 - - - +
160C LYS* 3.0 35.4 + - - +
170C LYS* 2.9 31.1 + - - -
174C TYR* 3.1 29.5 + - - -
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Residues in contact with PHE 157 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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83C GLU* 5.7 0.4 - - - +
153C GLY 4.0 5.8 - - - +
154C MET 3.3 8.9 + - - +
155C ALA 3.2 0.6 - - - -
156C GLU* 1.3 104.4 - - + +
158C LEU* 1.3 62.8 + - - +
159C ASP 3.5 1.6 - - - -
160C LYS* 3.3 48.7 - - + +
161C HIS 4.8 1.6 - - - -
162C VAL* 4.4 16.8 - - + -
167C GLU* 3.8 24.9 - - + -
170C LYS* 4.0 7.2 - - + -
171C TYR* 3.7 53.1 - + + -
174C TYR* 4.0 20.2 - + - -
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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