Contacts of the helix formed by residues 144 - 159 (chain C) in PDB entry 3H90
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 SER 144 (chain C).
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Specific contacts
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Residue Dist Surf HB Arom Phob DC
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11C ARG* 3.2 24.2 + - - +
14C ILE* 4.2 3.0 - - - +
79C GLU* 2.9 17.0 + - - -
139C VAL* 4.9 1.1 - - - +
142C THR* 2.5 14.2 + - - -
143C GLN* 1.3 69.5 - - - +
145C GLN* 1.3 62.2 + - - +
146C ALA* 3.3 1.7 + - - +
147C VAL* 2.9 44.9 + - - +
148C ARG* 3.0 25.0 + - - +
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Residues in contact with GLN 145 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
79C GLU* 3.6 20.9 + - + +
80C SER* 3.3 16.3 + - - +
83C ALA* 4.0 6.3 - - + +
143C GLN 3.0 8.6 + - - +
144C SER* 1.3 69.0 - - - +
146C ALA* 1.3 62.9 + - - +
148C ARG* 3.5 19.5 + - - +
149C ALA* 3.2 23.6 + - - +
197C MET* 3.4 28.8 - - - +
200C GLU* 3.7 3.7 - - - +
201C ALA* 3.6 17.5 - - - +
204C SER* 2.7 28.9 + - - -
240C GLY* 5.8 6.1 - - - +
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Residues in contact with ALA 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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14C ILE* 5.2 0.4 - - + -
56C ASN* 3.9 8.7 + - - +
60C VAL* 4.0 21.1 - - + -
79C GLU* 3.2 41.9 + - + +
82C ALA* 4.7 1.6 - - + -
83C ALA 4.8 4.5 - - - +
86C GLN* 3.7 8.5 + - - -
144C SER* 3.2 4.4 + - - +
145C GLN* 1.3 83.9 - - - +
147C VAL* 1.3 61.2 + - + +
149C ALA* 3.5 3.6 + - - +
150C ASP* 3.3 17.5 + - - +
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Residues in contact with VAL 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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14C ILE* 3.8 17.9 - - + +
17C THR* 3.6 36.8 - - + +
56C ASN* 5.0 2.2 - - - +
60C VAL* 5.3 4.0 - - + -
135C GLN* 4.3 5.6 - - + +
138C VAL* 4.7 4.3 - - + -
139C VAL* 3.5 29.8 - - + +
144C SER* 2.9 37.8 + - - +
146C ALA* 1.3 73.6 - - + +
148C ARG* 1.3 59.3 + - - +
150C ASP* 3.4 7.5 + - - +
151C MET* 2.8 34.7 + - - +
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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
----------------------------------------------------------
139C VAL* 4.0 26.5 - - + -
143C GLN 5.2 4.5 + - - -
144C SER 3.0 16.9 + - - +
145C GLN* 3.6 27.9 - - - +
147C VAL* 1.3 78.1 - - - +
149C ALA* 1.3 57.5 + - - +
151C MET* 3.2 18.1 + - + +
152C LEU* 2.9 27.5 + - + +
197C MET* 3.6 23.6 - - - +
200C GLU* 2.9 41.6 + - - -
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Residues in contact with ALA 149 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
83C ALA* 3.8 24.7 - - - +
86C GLN* 3.9 17.9 - - + +
87C SER 5.0 0.9 - - - +
90C ILE* 3.4 9.3 - - + +
145C GLN 3.2 11.4 + - - +
146C ALA 3.7 7.9 - - - +
148C ARG* 1.3 76.6 - - - +
150C ASP* 1.3 66.5 + - - +
152C LEU* 2.9 20.2 + - - +
153C HIS 3.4 5.0 + - - -
197C MET* 3.7 19.7 - - + -
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Residues in contact with ASP 150 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
17C THR* 5.2 2.6 + - - +
18C ALA* 5.3 2.6 - - - -
21C SER* 3.5 24.4 - - - -
52C ALA* 6.0 0.2 - - - +
53C SER* 3.2 22.8 + - - +
56C ASN* 3.2 31.7 + - - +
86C GLN* 3.4 16.8 - - - +
135C GLN* 3.6 8.1 - - - +
146C ALA 3.3 4.5 + - - +
147C VAL* 3.7 9.2 - - - +
149C ALA* 1.3 78.9 - - - +
151C MET* 1.3 61.4 + - - +
153C HIS* 3.8 6.6 + - - +
154C TYR* 3.0 33.9 + - - -
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Residues in contact with MET 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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132C VAL* 4.3 4.3 - - + +
135C GLN* 3.2 29.3 + - + +
136C ARG* 3.6 42.8 - - + +
139C VAL* 3.8 22.9 - - + -
147C VAL 2.8 14.8 + - - +
148C ARG* 3.3 23.6 - - + +
149C ALA 3.1 0.2 - - - -
150C ASP* 1.3 76.5 - - - +
152C LEU* 1.3 65.2 - - - +
154C TYR* 2.8 5.7 + - - +
155C GLN* 2.7 53.0 + - + +
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Residues in contact with LEU 152 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
87C SER* 6.0 0.2 - - - -
90C ILE* 4.1 13.6 - - + +
148C ARG* 2.9 13.2 + - + +
149C ALA* 2.9 12.5 + - - +
151C MET* 1.3 73.9 - - - +
153C HIS* 1.3 63.7 + - - +
155C GLN* 3.1 27.2 + - + +
156C SER* 3.1 18.5 + - - -
189C TYR* 5.8 0.9 - - + -
190C ILE* 4.0 20.2 - - + +
193C SER* 3.7 23.8 - - - +
194C ALA* 3.4 43.1 - - + +
197C MET* 4.2 13.9 - - + -
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Residues in contact with HIS 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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45C ASP* 3.8 9.2 - - - -
48C VAL* 6.4 0.7 - - + -
49C ASP* 2.8 18.8 + - - -
53C SER* 6.0 0.4 - - - -
86C GLN* 5.5 1.6 - - - +
90C ILE* 3.7 31.6 - - + +
93C SER* 5.9 5.4 + - - -
149C ALA 3.4 3.8 + - - +
150C ASP* 4.0 10.1 - - - +
151C MET 3.1 1.0 - - - -
152C LEU* 1.3 79.4 - - - +
154C TYR* 1.3 70.1 + + - +
156C SER* 2.9 26.5 + - - -
157C ASP* 2.8 26.5 + - - +
291C ZN 2.4 33.2 - - - -
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Residues in contact with TYR 154 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
21C SER* 2.9 18.8 + - - -
24C LEU* 3.9 15.3 - - + +
49C ASP* 3.3 25.0 - - - +
53C SER* 2.7 21.8 + - - -
128C THR* 3.7 13.5 - - + +
131C LEU* 3.7 25.8 - - + -
132C VAL* 3.7 19.3 - - + -
135C GLN* 3.5 15.0 - - - +
150C ASP* 3.0 44.4 + - - -
151C MET 2.8 9.8 + - - +
153C HIS* 1.3 78.3 - + - +
155C GLN* 1.3 52.0 + - - +
157C ASP* 2.9 16.8 + - + +
158C VAL* 2.7 34.5 + - - +
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Residues in contact with GLN 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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132C VAL* 3.8 20.6 - - + +
136C ARG* 3.9 24.0 + - - +
151C MET* 2.7 39.6 + - - +
152C LEU* 3.2 48.0 - - + +
154C TYR* 1.3 73.2 - - - +
156C SER* 1.3 56.1 + - - +
158C VAL* 3.6 9.1 + - + +
159C MET* 3.1 31.6 + - + +
189C TYR* 6.1 0.2 - - - -
190C ILE* 4.8 5.2 - - + -
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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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90C ILE* 5.8 1.6 - - - -
152C LEU 3.1 6.3 + - - -
153C HIS* 2.9 17.6 + - - -
155C GLN* 1.3 72.6 - - - +
157C ASP* 1.3 65.6 + - - +
158C VAL 3.2 0.4 - - - -
159C MET* 3.1 31.5 + - - +
186C ILE* 4.6 4.9 - - - +
190C ILE* 3.2 41.8 - - - +
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Residues in contact with ASP 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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27C LYS* 5.9 2.8 + - - +
45C ASP* 3.9 7.1 - - - +
49C ASP* 3.1 5.5 - - - +
124C ALA 6.0 0.2 - - - -
125C LEU* 5.7 0.9 - - - -
128C THR* 4.1 16.6 + - + +
153C HIS* 2.8 26.9 + - - +
154C TYR* 2.9 14.8 + - - +
156C SER* 1.3 78.8 - - - +
158C VAL* 1.3 62.0 + - - +
159C MET 3.4 0.7 + - - -
160C MET* 3.4 30.7 - - - +
291C ZN 1.9 38.4 - - - -
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Residues in contact with VAL 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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125C LEU* 4.2 12.7 - - + +
128C THR* 3.7 24.2 - - + -
129C ILE* 3.8 42.6 - - + +
132C VAL* 3.9 13.2 - - + -
154C TYR 2.7 15.4 + - - +
155C GLN* 3.8 10.5 - - + +
156C SER 3.2 0.2 - - - -
157C ASP* 1.3 68.9 - - - +
159C MET* 1.3 57.3 + - - +
160C MET* 2.7 24.7 + - - +
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Residues in contact with MET 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 GLN* 3.1 25.2 + - + +
156C SER* 3.1 20.9 + - - +
157C ASP 3.8 0.8 - - - +
158C VAL* 1.3 78.1 - - - +
160C MET* 1.3 58.0 + - - +
161C ASN* 4.3 3.3 + - - -
186C ILE* 3.6 53.6 - - + +
189C TYR* 4.0 32.5 - - + -
190C ILE* 4.7 2.2 - - + -
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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