Contacts of the helix formed by residues 149 - 168 (chain C) in PDB entry 3IFS
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 149 (chain C).
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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82C ILE* 4.0 5.6 - - + -
144C SER* 3.9 9.0 + - - -
146C SER* 3.6 12.5 + - - -
147C GLY 3.6 1.4 - - - -
148C THR* 1.3 73.3 - - - +
150C THR* 1.3 70.1 + - - +
151C GLU* 3.3 15.9 + - - +
152C PRO* 3.3 18.7 - - + +
153C ALA* 3.0 21.7 + - - +
426C LYS* 5.3 9.6 + - - +
312D HIS* 3.7 22.0 - - + +
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Residues in contact with THR 150 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
121C ILE* 5.2 3.6 - - + -
148C THR 3.0 7.2 + - - -
149C THR* 1.3 73.0 - - - +
151C GLU* 1.3 70.8 + - - +
153C ALA* 3.9 2.9 - - - +
154C LEU* 3.0 32.4 + - + +
429C MSE 3.4 31.1 - - + +
430C PHE* 3.5 16.8 - - - -
433C LEU* 5.0 6.5 - - + +
351D LEU* 4.7 16.4 - - + +
354D LEU* 5.7 3.4 - - + -
362D VAL* 4.3 24.2 - - + -
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Residues in contact with GLU 151 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
82C ILE* 3.4 13.6 - - + +
118C GLY* 3.2 15.8 - - - +
120C ASN 3.9 13.6 - - - +
121C ILE* 3.5 23.6 - - + +
126C MSE 5.2 0.7 - - - +
149C THR* 3.7 12.5 - - - +
150C THR* 1.3 82.4 + - - +
152C PRO* 1.3 68.1 - - + +
154C LEU* 3.8 4.8 - - - +
155C ALA* 3.1 23.9 + - - +
425C TYR* 4.3 4.5 + - - -
429C MSE 5.5 4.7 - - - +
308D SER* 2.7 34.6 + - - +
312D HIS* 2.9 24.5 + - - -
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Residues in contact with PRO 152 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
80C VAL* 3.5 10.2 - - + +
81C GLY* 4.0 18.4 - - - -
82C ILE* 3.8 20.9 - - + +
118C GLY* 3.4 19.7 - - - +
142C VAL* 5.2 3.8 - - + +
143C ILE 4.9 3.8 - - - +
144C SER* 5.0 11.4 - - - -
149C THR* 3.3 26.7 - - + +
151C GLU* 1.3 94.2 - - + +
153C ALA* 1.3 57.5 + - - -
156C PHE* 2.8 33.0 + - - +
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Residues in contact with ALA 153 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
147C GLY* 3.5 25.3 - - - +
148C THR* 4.5 2.7 - - - -
149C THR 3.0 20.6 + - - +
150C THR* 3.9 1.6 - - - +
152C PRO* 1.3 77.8 - - - +
154C LEU* 1.3 61.4 + - - +
156C PHE* 3.9 5.8 - - - +
157C ARG* 3.1 27.7 + - - +
349D ASP* 4.1 8.3 - - + +
351D LEU* 3.8 19.3 - - + -
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Residues in contact with LEU 154 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
121C ILE* 4.3 24.2 - - + -
126C MSE 5.5 4.3 - - + -
150C THR* 3.0 22.1 + - + +
151C GLU* 3.8 4.3 - - - +
153C ALA* 1.3 75.2 - - - +
155C ALA* 1.3 63.4 + - - +
157C ARG* 3.3 12.0 + - + +
158C ILE* 3.2 36.9 + - + +
341D ILE* 3.8 42.0 - - + -
351D LEU* 4.0 15.6 - - + +
354D LEU* 5.5 4.9 - - + -
359D VAL* 4.3 15.9 - - + -
362D VAL* 4.4 13.2 - - + -
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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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80C VAL* 4.3 5.8 - - + -
117C VAL* 4.2 13.2 - - + -
118C GLY* 3.5 37.2 - - - +
126C MSE 4.3 15.4 - - + +
151C GLU 3.1 8.5 + - - +
152C PRO 4.1 1.6 - - - +
154C LEU* 1.3 73.8 - - - +
156C PHE* 1.3 65.9 + - - +
158C ILE* 3.3 5.9 + - - -
159C PHE* 2.9 29.7 + - + +
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Residues in contact with PHE 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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80C VAL* 3.9 12.3 - - + +
140C ILE* 4.1 17.0 - - + -
142C VAL* 3.7 43.3 - - + -
152C PRO 2.8 23.2 + - - +
153C ALA* 3.9 6.1 - - - +
154C LEU 3.3 0.2 - - - -
155C ALA* 1.3 74.0 - - - +
157C ARG* 1.3 60.2 + - + +
159C PHE* 5.2 0.4 - - - -
160C ARG* 2.8 77.1 + - + +
176C ILE* 4.1 20.2 - - + -
187C LEU* 4.7 4.7 - - + -
190C LEU* 3.7 21.1 - - + -
196C TYR* 4.3 6.3 - + - -
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Residues in contact with ARG 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 ALA 3.1 19.5 + - - +
154C LEU* 3.4 15.9 - - + +
155C ALA 3.3 0.2 - - - -
156C PHE* 1.3 82.9 - - + +
158C ILE* 1.3 63.2 + - + +
160C ARG* 4.1 4.6 - - - +
161C LYS* 3.3 24.3 + - - +
341D ILE* 4.8 5.6 - - - +
342D GLU 3.2 23.6 + - - -
343D SER* 4.1 0.2 - - - +
344D GLU* 3.3 42.5 - - + +
346D ASN 4.8 0.2 + - - -
347D ASP* 3.0 20.2 + - - +
349D ASP* 2.5 40.6 + - - +
351D LEU* 3.7 19.3 + - - +
352D ASN* 3.0 28.1 + - - +
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Residues in contact with ILE 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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126C MSE 4.1 16.4 - - - -
130C MSE 3.5 32.8 - - + -
154C LEU* 3.2 23.0 + - + +
155C ALA 3.7 6.3 - - - +
156C PHE 3.3 0.2 - - - -
157C ARG* 1.3 80.5 - - + +
159C PHE* 1.3 71.3 + - + +
161C LYS* 3.5 8.2 + - - +
162C LEU* 3.3 20.4 + - - +
339D LEU* 4.5 10.3 - - + -
340D THR 5.9 4.0 - - - +
341D ILE* 5.7 4.9 - - + -
359D VAL* 4.0 27.6 - - + -
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Residues in contact with PHE 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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78C LEU* 3.7 27.6 - - + -
80C VAL* 5.4 1.8 - - + -
117C VAL* 3.7 25.8 - - + -
126C MSE 3.7 36.6 - - + -
129C LEU* 3.9 18.6 - - + -
130C MSE 3.9 11.7 - - + -
133C LEU* 3.8 17.7 - - + -
138C PHE* 4.7 2.7 - + + -
140C ILE* 3.7 10.9 - - + +
155C ALA 2.9 22.3 + - - +
156C PHE* 4.6 1.3 - - - +
158C ILE* 1.3 84.8 - - + +
160C ARG* 1.3 65.7 + - - +
161C LYS 3.2 1.1 - - - -
162C LEU* 3.3 26.6 + - + +
163C LEU* 3.0 23.0 + - - +
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Residues in contact with ARG 160 (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* 4.1 10.4 - - - +
156C PHE* 2.8 50.8 + - + +
157C ARG* 4.1 3.7 - - - +
159C PHE* 1.3 76.2 - - - +
161C LYS* 1.3 58.3 + - - +
163C LEU* 3.2 3.9 + - - +
164C GLU* 2.9 60.7 + - - +
169C LYS* 5.9 1.4 - - - +
176C ILE* 4.1 9.4 - - + -
190C LEU* 4.4 22.9 - - - +
194C GLU* 4.9 8.3 - - - -
196C TYR* 3.2 25.9 + - - -
344D GLU* 3.0 37.6 + - - -
346D ASN 5.9 0.2 + - - -
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Residues in contact with LYS 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 ARG 3.3 16.4 + - - +
158C ILE* 3.6 7.9 - - - +
159C PHE 3.2 0.4 - - - -
160C ARG* 1.3 80.7 - - - +
162C LEU* 1.3 56.0 + - - +
164C GLU* 3.4 14.6 + - - +
165C GLU* 2.9 54.2 + - + +
342D GLU* 3.6 44.5 + - + +
343D SER 5.2 6.1 - - - -
344D GLU* 5.7 7.4 - - - +
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Residues in contact with LEU 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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130C MSE 3.7 40.6 - - + -
133C LEU* 4.6 5.8 - - + -
138C PHE* 4.6 9.4 - - + -
158C ILE* 3.3 10.0 + - + +
159C PHE* 3.3 36.0 + - + +
160C ARG 3.3 0.4 - - - -
161C LYS* 1.3 78.4 - - + +
163C LEU* 1.3 62.5 + - - +
165C GLU* 3.2 20.0 + - - +
166C LYS* 3.0 24.1 + - - +
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Residues in contact with LEU 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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138C PHE* 3.6 37.8 - - + +
140C ILE* 3.9 11.9 - - + -
159C PHE 3.0 13.8 + - - +
160C ARG 3.5 7.0 - - - +
162C LEU* 1.3 75.8 - - - +
164C GLU* 1.3 58.5 + - - +
166C LYS* 3.1 3.0 + - - -
167C TYR* 2.8 66.5 + - + +
172C ALA* 3.8 20.0 - - + +
175C ARG* 4.1 11.7 - - + +
176C ILE* 3.5 36.3 - - + -
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Residues in contact with GLU 164 (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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160C ARG* 2.9 56.0 + - + +
161C LYS* 3.7 14.3 - - + +
163C LEU* 1.3 76.1 - - - +
165C GLU* 1.3 59.9 + - + +
168C GLY* 2.7 31.8 + - - -
169C LYS* 4.1 40.6 + - + +
172C ALA* 3.8 22.7 - - + -
176C ILE* 5.5 1.0 - - + +
194C GLU* 5.6 1.0 - - - +
196C TYR* 4.7 1.9 + - - -
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Residues in contact with GLU 165 (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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161C LYS* 2.9 48.9 + - + +
162C LEU* 3.2 22.1 + - - +
164C GLU* 1.3 77.4 - - + +
166C LYS* 1.3 62.0 + - - +
168C GLY 4.6 0.9 + - - -
342D GLU* 5.7 0.5 - - - +
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Residues in contact with LYS 166 (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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133C LEU 5.1 2.0 - - - +
135C GLY* 5.1 5.8 - - - +
136C LYS 3.1 31.3 + - - +
137C ASP* 3.4 11.7 + - - +
138C PHE* 4.1 12.3 - - + -
162C LEU 3.0 16.4 + - - +
163C LEU* 3.6 4.3 - - - +
165C GLU* 1.3 80.6 - - - +
167C TYR* 1.3 101.8 + - + +
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Residues in contact with TYR 167 (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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137C ASP* 2.5 44.1 + - - +
138C PHE* 3.2 7.1 + + - -
163C LEU* 2.8 50.6 + - + +
166C LYS* 1.3 108.9 + - + +
168C GLY* 1.3 61.5 + - - +
171C GLU* 3.6 39.5 + - + +
172C ALA* 4.0 3.8 - - - +
175C ARG* 3.4 25.8 + - - -
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Residues in contact with GLY 168 (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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164C GLU* 2.7 24.6 + - - -
165C GLU 4.5 1.2 + - - -
166C LYS 3.8 0.4 - - - -
167C TYR* 1.3 78.5 - - - +
169C LYS* 1.3 64.8 + - - -
170C GLU 3.4 2.8 + - - -
171C GLU 3.6 0.6 + - - -
172C ALA* 3.1 19.4 + - - +
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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