Contacts of the helix formed by residues 136 - 163 (chain C) in PDB entry 6FF7
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 ASP 136 (chain C).
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
135C PRO* 1.3 81.7 - - - +
137C GLU* 1.3 66.5 + - - +
138C GLU* 3.2 10.1 - - + +
139C ALA* 3.6 12.0 + - + +
140C ILE* 3.7 11.6 + - - +
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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
----------------------------------------------------------
136C ASP* 1.3 73.9 - - - +
138C GLU* 1.3 60.1 + - - +
140C ILE* 3.6 4.4 + - - +
141C LYS* 2.9 31.9 + - - +
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Residues in contact with GLU 138 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
136C ASP* 3.2 7.2 - - + +
137C GLU* 1.3 78.6 - - - +
139C ALA* 1.3 57.1 + - - +
141C LYS* 3.8 4.9 - - - +
142C GLU* 2.9 31.2 + - - +
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Residues in contact with ALA 139 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
135C PRO* 4.2 17.9 - - + -
136C ASP* 3.6 11.3 + - + +
137C GLU 3.4 0.4 - - - -
138C GLU* 1.3 76.6 - - - +
140C ILE* 1.3 59.7 + - - +
142C GLU* 3.4 4.5 + - - +
143C ILE* 3.0 31.2 + - - +
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Residues in contact with ILE 140 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
135C PRO* 5.5 1.7 - - + +
136C ASP 3.7 11.2 + - - +
137C GLU* 3.6 5.2 + - - +
138C GLU 3.4 0.2 - - - -
139C ALA* 1.3 79.3 - - - +
141C LYS* 1.3 57.8 + - - +
143C ILE* 3.9 3.7 - - - +
144C THR* 2.9 31.1 + - - -
340D ALA* 4.6 15.9 - - + +
341D ALA* 4.9 20.9 - - + +
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Residues in contact with LYS 141 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
137C GLU 2.9 20.2 + - - +
138C GLU* 3.9 5.4 - - - +
140C ILE* 1.3 78.3 - - - +
142C GLU* 1.3 58.4 + - - +
144C THR* 3.3 6.1 + - - -
145C GLU* 2.9 28.2 + - - +
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Residues in contact with GLU 142 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
138C GLU 2.9 18.4 + - - +
139C ALA* 3.4 4.0 + - - +
141C LYS* 1.3 75.7 - - - +
143C ILE* 1.3 58.1 + - - +
145C GLU* 3.3 7.5 + - - +
146C LYS* 3.0 27.5 + - - +
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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
----------------------------------------------------------
139C ALA 3.0 17.4 + - - +
140C ILE* 4.3 4.0 - - - +
142C GLU* 1.3 77.6 - - - +
144C THR* 1.3 57.5 + - - +
146C LYS* 3.7 5.8 - - - +
147C THR* 2.9 29.6 + - - -
340D ALA 5.4 6.1 - - - +
341D ALA* 6.4 0.4 - - - -
342D GLU* 5.8 9.4 - - + +
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Residues in contact with THR 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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140C ILE 2.9 20.4 + - - -
141C LYS* 3.6 7.6 - - - -
142C GLU 3.2 0.2 - - - -
143C ILE* 1.3 75.0 - - - +
145C GLU* 1.3 60.0 + - - +
147C THR* 3.5 6.3 + - - -
148C ARG* 2.8 30.5 + - - +
299D THR* 5.1 15.7 - - - -
340D ALA* 5.0 13.6 + - - -
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Residues in contact with GLU 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 LYS 2.9 18.4 + - - +
142C GLU* 3.3 7.8 + - - +
144C THR* 1.3 77.1 - - - +
146C LYS* 1.3 56.6 + - - +
148C ARG* 3.8 5.9 - - - +
149C VAL* 2.9 31.2 + - - +
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Residues in contact with LYS 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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142C GLU 3.0 17.6 + - - +
143C ILE* 3.7 7.9 - - - +
144C THR 3.3 0.2 - - - -
145C GLU* 1.3 77.8 - - - +
147C THR* 1.3 57.1 + - - +
149C VAL* 3.5 3.6 + - - +
150C ALA* 3.0 29.3 + - - +
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Residues in contact with THR 147 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
143C ILE 2.9 18.7 + - - -
144C THR* 3.9 6.1 - - - -
146C LYS* 1.3 76.3 - - - +
148C ARG* 1.3 57.4 + - - +
150C ALA* 3.4 5.7 + - - +
151C LEU* 2.9 31.4 + - - +
359D LEU* 6.1 4.9 - - - -
360D VAL* 5.6 9.7 - - - +
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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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144C THR 2.8 19.5 + - - +
145C GLU* 3.8 6.7 - - - +
146C LYS 3.3 0.2 - - - -
147C THR* 1.3 77.0 - - - +
149C VAL* 1.3 58.4 + - - +
151C LEU* 3.5 3.3 + - - +
152C GLU* 2.8 30.8 + - - +
300D ILE* 5.0 15.7 - - + -
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Residues in contact with VAL 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 GLU 2.9 16.4 + - - +
146C LYS* 4.2 3.6 - - - +
148C ARG* 1.3 73.5 - - - +
150C ALA* 1.3 60.1 + - - +
152C GLU* 3.7 6.8 - - - +
153C LYS* 2.9 30.7 + - - +
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Residues in contact with ALA 150 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
146C LYS 3.0 19.2 + - - +
147C THR* 3.6 7.4 - - - +
149C VAL* 1.3 78.0 - - - +
151C LEU* 1.3 58.2 + - - +
153C LYS* 3.4 3.7 + - - +
154C SER* 3.0 28.1 + - - -
360D VAL* 4.7 18.6 - - + -
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Residues in contact with LEU 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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147C THR 2.9 16.8 + - - +
148C ARG* 4.3 3.4 - - - +
150C ALA* 1.3 75.9 - - - +
152C GLU* 1.3 57.4 + - - +
154C SER* 3.6 8.0 - - - -
155C VAL* 2.9 31.0 + - - +
359D LEU 5.8 3.4 - - - +
360D VAL* 6.1 2.8 - - - +
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Residues in contact with GLU 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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148C ARG 2.8 19.6 + - - +
149C VAL* 3.7 9.0 - - - +
150C ALA 3.2 0.2 - - - -
151C LEU* 1.3 75.3 - - - +
153C LYS* 1.3 61.4 + - - +
155C VAL* 3.4 3.9 + - - +
156C SER* 2.9 29.9 + - - -
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Residues in contact with LYS 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 VAL 2.9 17.7 + - - +
150C ALA* 4.1 3.4 - - - +
152C GLU* 1.3 73.7 - - - +
154C SER* 1.3 60.0 + - - +
156C SER* 3.8 6.2 - - - -
157C GLN* 3.0 30.1 + - - +
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Residues in contact with SER 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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150C ALA 3.0 17.9 + - - -
151C LEU* 3.6 9.4 - - - -
152C GLU 3.2 0.2 - - - -
153C LYS* 1.3 75.9 - - - +
155C VAL* 1.3 57.8 + - - +
157C GLN* 3.4 6.9 + - - +
158C LYS* 2.9 27.0 + - - +
323D VAL* 6.0 5.4 - - - -
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Residues in contact with VAL 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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151C LEU 2.9 18.7 + - - +
152C GLU* 4.2 3.6 - - - +
154C SER* 1.3 74.3 - - - +
156C SER* 1.3 60.4 + - - +
158C LYS* 3.5 8.7 - - + +
159C VAL* 2.9 29.6 + - - +
316D ASP* 5.3 13.7 - - + -
319D THR* 5.6 7.2 - - - -
323D VAL* 5.6 8.7 - - + -
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Residues in contact with SER 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 GLU 2.9 19.0 + - - -
153C LYS* 3.8 7.4 - - - -
155C VAL* 1.3 76.2 - - - +
157C GLN* 1.3 59.0 + - - +
159C VAL* 3.5 3.6 + - - +
160C ALA* 2.9 31.9 + - - +
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Residues in contact with GLN 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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153C LYS 3.0 18.0 + - - +
154C SER* 3.7 7.0 - - - +
156C SER* 1.3 76.5 - - - +
158C LYS* 1.3 56.7 + - - +
160C ALA* 3.5 5.0 - - - -
161C ALA* 2.9 31.5 + - - +
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Residues in contact with LYS 158 (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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154C SER 2.9 17.7 + - - +
155C VAL* 3.5 10.3 - - + +
156C SER 3.2 0.2 - - - -
157C GLN* 1.3 77.4 - - - +
159C VAL* 1.3 54.2 + - - +
161C ALA* 3.0 4.0 + - - -
162C ALA* 2.5 42.5 + - + +
321D ALA* 6.0 5.6 - - + -
323D VAL* 6.5 1.1 - - - -
24R SER* 4.6 8.9 - - - +
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Residues in contact with VAL 159 (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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155C VAL 2.9 17.4 + - - +
156C SER* 4.1 4.7 - - - +
158C LYS* 1.3 75.4 - - - +
160C ALA* 1.3 58.0 + - - +
162C ALA* 4.5 2.0 - - - +
163C MET* 3.1 38.4 + - + +
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Residues in contact with ALA 160 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
156C SER 2.9 19.4 + - - +
157C GLN* 3.5 7.4 - - - +
159C VAL* 1.3 74.6 - - - +
161C ALA* 1.3 55.9 + - - +
163C MET 4.7 0.2 - - - -
164C PRO* 3.3 22.7 - - + +
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Residues in contact with ALA 161 (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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157C GLN 2.9 19.0 + - - +
158C LYS* 3.6 4.0 - - - +
160C ALA* 1.3 79.2 - - - +
162C ALA* 1.3 64.7 + - - +
163C MET 3.5 0.2 - - - -
164C PRO* 4.4 8.4 - - - +
24R SER* 3.1 25.0 - - - +
25R GLN* 4.5 12.7 - - + +
27R SER 5.4 2.3 - - - +
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Residues in contact with ALA 162 (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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158C LYS* 2.5 21.7 + - + +
159C VAL* 5.0 1.8 - - - -
161C ALA* 1.3 74.4 - - - +
163C MET* 1.3 60.4 + - + +
164C PRO 3.8 1.4 - - - -
23R LEU 3.4 21.1 - - - +
24R SER* 3.2 6.8 + - - +
27R SER 5.0 8.1 - - - +
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Residues in contact with MET 163 (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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159C VAL* 3.1 20.9 + - + +
160C ALA* 4.7 0.3 - - - -
162C ALA* 1.3 79.1 - - + +
164C PRO* 1.3 58.3 - - - +
165C VAL* 3.3 7.6 + - - -
166C ARG* 4.8 2.1 + - - +
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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
------------------------------------------------------------
Atomic class I II III IV V VI VII VIII
------------------------------------------------------------
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