Contacts of the helix formed by residues 144 - 162 (chain C) in PDB entry 1JT0
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 144 (chain C).
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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177A LYS* 6.3 1.8 - - - -
142C ILE* 2.9 8.0 + - + +
143C ASN* 1.3 90.6 + - - +
145C VAL* 1.3 59.4 + - - +
146C ASN* 3.2 12.3 + - - +
147C ALA* 3.2 31.5 + - + +
148C VAL* 3.3 24.2 + - + +
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Residues in contact with VAL 145 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
128C HIS* 3.5 31.4 - - + +
131C PHE* 3.3 27.1 - - + -
132C LYS* 3.7 22.9 - - + +
135C ASN* 4.3 5.6 - - + +
142C ILE* 3.6 29.8 - - + +
143C ASN 4.0 1.2 + - - -
144C ASP* 1.3 70.2 - - - +
146C ASN* 1.3 61.2 + - - +
148C VAL* 3.9 2.0 - - - -
149C SER* 2.4 40.2 + - - +
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Residues in contact with ASN 146 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
124C ILE* 5.2 0.2 - - - +
128C HIS* 2.9 34.2 + - - -
144C ASP* 3.2 9.6 + - - +
145C VAL* 1.3 76.6 - - - +
147C ALA* 1.3 58.5 + - - +
149C SER* 2.7 27.4 + - - -
150C LYS* 3.1 31.4 + - - +
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Residues in contact with ALA 147 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
170A GLU* 6.0 0.4 - - - +
174A LEU* 3.5 23.9 - - + +
177A LYS* 5.2 11.9 - - + -
144C ASP* 3.2 24.9 + - + +
146C ASN* 1.3 78.8 - - - +
148C VAL* 1.3 54.6 + - + +
150C LYS* 3.4 7.6 + - - +
151C ILE* 2.7 40.0 + - + +
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Residues in contact with VAL 148 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
177A LYS* 4.9 7.2 - - + -
181A ILE* 4.2 14.8 - - + -
131C PHE* 3.1 31.4 - - + -
142C ILE* 3.5 26.7 - - + -
144C ASP* 3.3 19.4 + - + +
145C VAL* 4.3 2.2 - - - +
146C ASN 3.1 0.6 - - - -
147C ALA* 1.3 77.6 - - + +
149C SER* 1.3 60.6 + - - +
150C LYS 3.2 0.4 - - - -
151C ILE* 4.0 5.4 - - + -
152C ALA 3.0 21.7 + - - -
182C PHE* 3.7 19.5 - - + -
186C LEU* 4.3 12.3 - - + -
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Residues in contact with SER 149 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
124C ILE* 3.7 13.9 - - - +
127C TYR* 3.5 8.3 - - - +
128C HIS* 3.0 41.3 + - - -
131C PHE* 3.2 15.4 - - - -
145C VAL* 2.4 23.1 + - - +
146C ASN* 2.7 10.5 + - - -
148C VAL* 1.3 72.5 - - - +
150C LYS* 1.3 58.9 + - - +
153C ALA* 3.1 27.4 + - - +
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Residues in contact with LYS 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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163A THR* 6.1 1.1 - - + -
165A GLU* 5.4 7.9 - - - +
166A GLN* 4.3 21.3 - - + +
170A GLU* 5.5 0.7 - - - -
174A LEU* 4.4 20.2 - - + -
124C ILE* 3.6 27.7 - - + +
146C ASN* 3.1 36.3 + - - +
147C ALA* 3.7 11.2 - - - +
149C SER* 1.3 76.5 - - - +
151C ILE* 1.3 66.7 + - - +
153C ALA* 2.9 3.3 + - - +
154C ASN* 2.8 39.4 + - - +
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Residues in contact with ILE 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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159A ILE* 4.2 11.3 - - + +
174A LEU* 2.7 50.7 - - + +
177A LYS* 4.6 5.2 - - + -
178A PHE* 3.4 44.0 - - + +
181A ILE* 5.5 1.6 - - + -
147C ALA* 2.7 27.5 + - + +
148C VAL* 3.9 8.5 - - + +
150C LYS* 1.3 76.3 - - - +
152C ALA* 1.3 65.3 + - - +
154C ASN* 4.2 4.2 - - - +
155C ALA* 2.9 27.9 + - + +
182C PHE* 4.0 13.7 - - + -
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Residues in contact with ALA 152 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
79C PHE* 4.1 11.4 - - + -
127C TYR* 4.1 9.9 - - + -
131C PHE* 3.8 22.7 - - + -
148C VAL 3.0 16.8 + - - +
149C SER 4.0 2.5 - - - +
151C ILE* 1.3 78.8 - - - +
153C ALA* 1.3 57.5 + - - +
155C ALA* 3.8 4.2 - - - +
156C VAL* 3.0 37.6 + - - +
178C PHE* 5.2 1.1 - - - -
182C PHE* 3.8 16.3 - - + -
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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
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93C TYR* 5.6 1.9 + - - -
123C TYR* 5.2 1.8 - - + -
124C ILE* 3.3 30.7 - - + +
127C TYR* 3.2 23.6 - - + -
149C SER 3.1 18.6 + - - +
150C LYS 2.9 6.1 + - - +
152C ALA* 1.3 81.7 - - - +
154C ASN* 1.3 62.8 + - - +
156C VAL* 4.0 2.3 - - - +
157C ASN* 3.1 22.2 + - - +
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Residues in contact with ASN 154 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
158A GLY* 3.2 26.0 - - - +
159A ILE* 3.6 10.9 - - + +
162A PHE* 3.2 23.4 + - + +
163A THR* 2.6 28.4 + - - +
165A GLU* 5.8 0.2 + - - -
174A LEU* 5.7 1.4 - - - +
124C ILE* 4.7 7.3 - - - +
150C LYS* 2.8 35.5 + - - +
151C ILE* 4.2 2.5 - - - +
153C ALA* 1.3 74.3 - - - +
155C ALA* 1.3 56.8 + - - +
157C ASN* 3.0 7.4 + - - +
158C GLY 2.7 31.7 + - - -
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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
----------------------------------------------------------
155A ALA* 3.5 33.3 - - + +
159A ILE* 3.9 11.0 - - + +
178A PHE* 4.5 3.8 - - + -
151C ILE* 2.9 20.7 + - + +
152C ALA* 3.8 2.9 - - - +
154C ASN* 1.3 76.9 - - - +
156C VAL* 1.3 56.7 + - - +
158C GLY* 2.7 23.0 + - - -
159C ILE* 2.9 17.3 + - - +
178C PHE* 3.9 16.2 - - + -
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Residues in contact with VAL 156 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
79C PHE* 5.3 0.2 - - + -
83C ASN* 3.1 31.6 - - - +
86C SER* 3.8 18.6 - - - +
93C TYR* 5.2 2.9 - - - +
127C TYR* 3.7 12.3 - - + +
152C ALA* 3.0 22.0 + - + +
153C ALA 4.0 0.9 - - - +
155C ALA* 1.3 79.9 - - - +
157C ASN* 1.3 61.4 + - - +
159C ILE* 3.3 10.2 + - - +
160C VAL* 2.9 30.3 + - + +
175C MET* 3.9 14.4 - - + -
178C PHE* 3.4 27.6 - - + -
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Residues in contact with ASN 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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162A PHE* 2.7 33.6 - - + -
93C TYR* 2.9 39.3 + - - -
96C GLN* 2.9 24.6 + - - +
153C ALA 3.1 15.3 + - - +
154C ASN* 3.0 10.2 + - - +
156C VAL* 1.3 76.5 - - - +
158C GLY* 1.3 59.6 + - - +
160C VAL* 3.0 3.9 + - - +
161C THR* 2.8 35.0 + - - +
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Residues in contact with GLY 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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154A ASN* 3.3 20.1 - - - +
158A GLY* 3.4 17.0 - - - -
162A PHE* 4.5 0.2 - - - -
154C ASN 2.7 14.6 + - - -
155C ALA 2.7 4.8 + - - -
157C ASN* 1.3 72.7 - - - +
159C ILE* 1.3 61.0 + - - +
162C PHE* 2.9 39.3 + - - +
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Residues in contact with ILE 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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151A ILE* 3.6 31.2 - - + +
154A ASN* 3.9 8.3 - - + -
155A ALA* 3.5 32.8 - - + +
87C LEU* 5.7 1.6 - - + -
155C ALA 2.9 17.8 + - - +
156C VAL* 3.4 13.0 - - - +
158C GLY* 1.3 76.2 - - - +
160C VAL* 1.3 63.3 + - - +
163C THR* 3.0 33.6 + - + +
171C ARG* 4.2 1.2 + - - +
174C LEU* 5.2 6.1 - - + -
175C MET* 3.4 34.8 - - + +
178C PHE* 4.6 12.1 - - + -
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Residues in contact with VAL 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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86C SER* 3.2 33.2 - - - +
87C LEU* 3.8 21.1 - - + +
93C TYR* 4.3 23.3 - - + +
156C VAL* 2.9 18.9 + - + +
157C ASN* 3.0 7.5 + - - +
159C ILE* 1.3 76.1 - - - +
161C THR* 1.3 65.8 + - + +
163C THR* 3.7 0.5 + - - -
164C HIS* 4.2 5.2 + - - +
171C ARG* 3.1 24.3 + - - +
175C MET* 3.9 14.8 - - + -
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Residues in contact with THR 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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100A ILE* 5.8 3.8 - - - +
162A PHE* 3.5 16.4 - - + -
96C GLN* 3.4 41.5 - - + -
97C ASN* 4.9 14.7 + - - +
100C ILE* 6.2 0.9 - - - -
157C ASN* 2.8 20.4 + - - +
160C VAL* 1.3 72.9 - - + +
162C PHE* 1.3 84.6 + - - +
163C THR 3.1 10.3 + - - -
164C HIS* 4.0 19.7 + - - +
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Residues in contact with PHE 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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96A GLN* 3.7 17.0 - - + -
100A ILE* 4.1 22.9 - - + -
120A GLU* 5.6 5.6 - - - +
154A ASN* 3.4 24.3 + - + +
157A ASN* 3.0 44.4 - - + -
161A THR* 3.6 26.7 - - + -
162A PHE* 3.8 19.3 - + - -
158C GLY* 2.9 29.3 + - - +
161C THR* 1.3 102.3 + - - +
163C THR* 1.3 58.0 + - - +
164C HIS 4.0 0.4 - - - -
165C GLU* 5.0 2.9 - - - +
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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