Contacts of the helix formed by residues 147 - 164 (chain C) in PDB entry 5UHO
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 ASN 147 (chain C).
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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544B GLU* 3.2 35.6 + - - +
144C THR* 3.4 5.8 + - + +
146C SER* 1.4 76.6 + - - +
148C PRO* 1.4 70.5 - - - +
149C LYS* 3.1 52.1 + - - +
150C GLU* 3.1 39.7 + - + +
151C VAL* 3.3 8.4 + - - +
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Residues in contact with PRO 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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146C SER 3.2 10.5 - - - +
147C ASN* 1.4 87.0 - - - +
149C LYS* 1.4 55.1 + - + +
150C GLU 3.3 0.2 - - - -
151C VAL* 3.8 12.5 - - + +
152C SER* 2.7 34.5 + - - -
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Residues in contact with LYS 149 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
544B GLU* 5.6 0.4 - - - -
147C ASN* 3.1 31.1 - - - +
148C PRO* 1.4 74.8 - - + +
150C GLU* 1.4 54.5 + - - +
152C SER* 3.3 7.1 + - - -
153C THR* 2.7 42.8 + - - +
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Residues in contact with GLU 150 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
547B LEU* 4.4 6.0 - - - +
107C TRP* 3.7 10.4 - - - -
108C ARG* 2.9 41.4 + - - -
142C ASP 3.5 1.7 - - - +
143C ILE* 4.2 9.9 - - + -
144C THR* 3.0 50.7 + - - +
147C ASN* 3.1 28.1 + - + +
149C LYS* 1.4 72.4 - - - +
151C VAL* 1.4 55.5 + - - +
153C THR* 3.0 8.8 + - - -
154C LEU* 2.9 34.0 + - - +
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Residues in contact with VAL 151 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
144C THR 5.0 0.2 - - - +
145C PHE 4.0 16.6 - - - +
146C SER 5.3 0.4 - - - -
147C ASN 3.3 14.3 + - - +
148C PRO* 3.8 11.9 - - + +
150C GLU* 1.4 72.8 - - + +
152C SER* 1.4 56.3 + - - +
154C LEU* 3.3 4.0 + - - +
155C LYS* 3.0 40.1 + - - +
198C ILE* 3.8 38.1 - - + +
201C GLU* 3.4 29.8 - - + +
202C ILE* 4.5 4.0 - - + -
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Residues in contact with SER 152 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
148C PRO 2.7 22.1 + - - -
149C LYS* 3.4 8.5 - - - -
150C GLU 3.2 0.2 - - - -
151C VAL* 1.4 73.8 - - - +
153C THR* 1.4 50.5 + - - +
155C LYS* 3.0 16.8 + - - +
156C ARG* 2.8 61.6 + - - +
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Residues in contact with THR 153 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
107C TRP* 4.4 1.5 - - - -
108C ARG* 4.0 42.8 - - + +
110C MET* 4.0 6.8 - - + +
149C LYS* 2.7 28.4 + - - +
150C GLU* 3.0 8.4 + - - -
152C SER* 1.4 71.0 - - - +
154C LEU* 1.4 55.4 + - - +
156C ARG* 3.7 8.1 - - - +
157C LYS* 3.1 28.1 + - - +
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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
----------------------------------------------------------
107C TRP* 3.8 27.7 - - + -
137C ILE* 3.8 31.2 - - + -
139C PRO* 4.7 8.5 - - + -
143C ILE* 4.4 7.2 - - + -
150C GLU 2.9 12.7 + - - +
151C VAL* 3.5 9.2 - - - +
152C SER 3.2 0.2 - - - -
153C THR* 1.4 71.5 - - - +
155C LYS* 1.4 66.4 + - - +
157C LYS* 3.3 6.7 + - + +
158C LEU* 3.1 32.9 + - + +
171C LEU* 4.3 13.7 - - + -
198C ILE* 3.6 29.2 - - + -
202C ILE* 3.8 22.9 - - + -
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Residues in contact with LYS 155 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
151C VAL* 3.0 29.7 + - - +
152C SER* 3.2 15.0 - - - +
154C LEU* 1.4 75.6 - - - +
156C ARG* 1.4 62.5 + - - +
158C LEU* 3.4 7.3 + - - +
159C ASP* 3.1 29.1 + - - +
201C GLU* 3.5 34.1 + - - +
202C ILE* 3.4 17.0 - - + -
205C TYR* 3.6 56.6 - - + +
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Residues in contact with ARG 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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110C MET* 3.9 17.6 - - + +
152C SER* 2.8 56.5 + - - +
153C THR* 3.7 9.6 - - + +
154C LEU 3.4 0.2 - - - -
155C LYS* 1.4 73.0 - - - +
157C LYS* 1.4 60.4 + - - +
159C ASP* 3.3 31.2 + - - +
160C GLN* 3.5 9.0 + - - +
205C TYR* 2.8 40.4 + - - -
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Residues in contact with LYS 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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102C LYS* 3.3 13.3 + - - +
107C TRP* 3.4 19.2 + - + +
108C ARG 4.2 1.8 - - - +
109C GLU 3.2 31.2 + - - +
110C MET* 3.7 15.4 - - + +
111C TYR* 3.2 31.3 - - - -
135C TYR* 3.0 26.2 + - + +
137C ILE* 3.8 15.8 - - + +
153C THR 3.1 14.6 + - - +
154C LEU* 3.3 13.7 + - + +
156C ARG* 1.4 76.4 - - - +
158C LEU* 1.3 62.7 + - + +
160C GLN* 3.3 15.9 - - - +
161C VAL* 3.3 17.9 - - + +
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Residues in contact with LEU 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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135C TYR* 4.5 9.4 - - + +
137C ILE* 4.2 19.7 - - + -
154C LEU* 3.1 39.7 + - + +
155C LYS* 3.4 5.1 + - - +
157C LYS* 1.3 75.5 - - + +
159C ASP* 1.4 58.4 + - - +
161C VAL* 3.1 10.6 + - + +
162C SER* 2.9 30.5 + - - -
169C PHE* 3.4 36.8 - - + -
170C ALA 5.7 0.4 - - - +
171C LEU* 4.9 2.9 - - + -
202C ILE* 3.6 28.0 - - + -
206C LEU* 4.2 18.4 - - + -
212C PHE* 6.0 0.2 - - + -
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Residues in contact with ASP 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 LYS 3.1 19.1 + - - +
156C ARG* 3.3 27.6 + - - +
158C LEU* 1.4 74.3 - - - +
160C GLN* 1.3 56.9 + - - +
162C SER* 3.3 11.1 + - - -
163C GLN* 3.1 37.4 + - - +
205C TYR* 2.6 43.9 + - - -
206C LEU* 4.7 3.0 - - - +
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Residues in contact with GLN 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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110C MET* 3.1 37.7 - - - +
111C TYR* 2.7 48.3 + - - +
156C ARG 3.5 6.5 + - - +
157C LYS* 3.3 12.5 + - - +
159C ASP* 1.3 75.1 - - - +
161C VAL* 1.3 66.6 + - + +
163C GLN* 3.3 25.1 - - + +
164C PHE* 3.4 25.4 - - + -
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Residues in contact with VAL 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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111C TYR* 4.7 9.9 - - + -
119C LEU* 6.0 0.7 - - + -
123C ILE* 4.9 3.6 - - + -
135C TYR* 3.6 60.3 - - + +
157C LYS* 3.3 17.9 - - - +
158C LEU* 3.1 12.5 + - - +
160C GLN* 1.3 74.1 - - - +
162C SER* 1.4 65.9 + - - +
164C PHE* 3.0 34.4 + - + +
165C GLY 3.6 3.1 + - - -
166C CYS* 3.8 17.8 + - + -
169C PHE* 3.9 7.2 - - + -
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Residues in contact with SER 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 LEU 2.9 15.5 + - - -
159C ASP* 3.4 13.7 - - - -
161C VAL* 1.4 73.3 - - - +
163C GLN* 1.4 62.8 + - - +
165C GLY* 3.2 14.7 + - - -
166C CYS 3.5 15.2 + - - +
169C PHE* 3.5 17.9 - - - -
206C LEU* 4.6 8.3 - - - +
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Residues in contact with GLN 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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120C MET* 5.2 6.0 - - + +
159C ASP* 3.1 27.9 + - - +
160C GLN* 3.3 17.7 - - + +
161C VAL 3.1 0.4 - - - -
162C SER* 1.4 77.4 - - - +
164C PHE* 1.4 64.7 + - + +
165C GLY* 3.4 1.0 + - - -
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Residues in contact with PHE 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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111C TYR* 4.1 11.7 - + + -
116C ALA* 3.5 36.8 - - + -
119C LEU* 3.9 30.5 - - + -
120C MET* 3.6 50.9 - - + +
123C ILE* 3.6 21.9 - - + +
124C SER* 4.9 1.2 + - - -
127C ARG* 3.9 8.5 + - - -
160C GLN* 3.4 40.8 - - + -
161C VAL* 3.0 21.5 + - + +
163C GLN* 1.4 77.3 - - + +
165C GLY* 1.3 57.6 + - - +
166C CYS 3.8 0.4 - - - -
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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
------------------------------------------------------------
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