Contacts of the helix formed by residues 144 - 157 (chain C) in PDB entry 4X4S
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 LYS 144 (chain C).
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Specific contacts
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Residue Dist Surf HB Arom Phob DC
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140C ARG 4.7 12.4 + - - +
141C ILE* 3.1 14.7 + - + +
142C LYS 4.5 6.1 - - - +
143C GLY* 1.3 78.0 - - - +
145C GLU* 1.3 62.7 + - - +
146C ASN 3.3 2.7 - - - -
147C GLU* 3.1 25.1 + - + +
148C VAL* 3.5 11.3 + - - +
179C ILE* 4.1 18.5 + - + +
180C VAL* 5.0 9.6 + - - +
183C GLY* 3.7 35.4 - - - +
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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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50C ARG 4.3 6.0 - - - +
51C ASN* 3.5 26.9 - - + +
52C THR* 4.0 15.4 - - + +
141C ILE* 3.4 8.7 + - + +
142C LYS* 3.4 22.2 + - - +
143C GLY* 2.5 39.1 + - - +
144C LYS* 1.3 78.0 - - - +
146C ASN* 1.3 74.5 + - - +
148C VAL* 3.2 18.2 + - - +
149C ARG* 3.3 17.0 + - - +
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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
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11C LEU* 4.2 14.0 - - + +
15C ILE* 3.4 32.0 - - - +
143C GLY 4.9 0.8 + - - -
144C LYS* 3.3 0.8 - - - +
145C GLU* 1.3 81.0 - - - +
147C GLU* 1.3 65.6 + - + +
148C VAL 3.1 1.8 - - - -
149C ARG* 3.3 26.8 + - - +
150C LEU* 3.1 28.3 + - - +
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Residues in contact with GLU 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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144C LYS* 3.1 19.5 + - + +
146C ASN* 1.3 78.6 - - + +
148C VAL* 1.3 61.1 + - - +
150C LEU* 3.6 11.8 + - - +
151C LEU 3.4 12.1 + - - -
179C ILE* 3.2 30.9 - - + +
183C GLY 3.8 13.0 - - - +
184C SER* 2.8 31.3 + - - -
185C PHE* 2.9 24.0 + - - +
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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
----------------------------------------------------------
52C THR* 4.2 11.2 - - + -
141C ILE* 3.7 24.7 - - + -
144C LYS 3.7 12.3 - - - +
145C GLU 3.2 8.9 + - - +
146C ASN 3.1 0.2 - - - -
147C GLU* 1.3 74.0 - - - +
149C ARG* 1.3 59.5 + - - +
150C LEU 3.1 1.8 - - - -
151C LEU* 2.9 3.7 + - - +
152C LYS* 2.8 60.1 + - + +
175C CYS 4.6 2.2 - - - -
176C GLU* 3.7 23.8 - - + +
179C ILE* 3.6 22.0 - - + -
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Residues in contact with ARG 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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14C VAL* 3.1 49.5 - - + +
15C ILE* 3.9 10.4 - - + +
16C PRO* 3.3 18.1 - - - +
51C ASN* 2.7 44.3 + - - +
52C THR 4.2 11.4 - - - +
53C TRP* 2.9 42.0 + - - +
54C LEU* 4.3 10.3 - - + +
145C GLU* 3.3 16.0 + - - +
146C ASN* 3.3 33.4 + - - +
148C VAL* 1.3 78.5 - - - +
150C LEU* 1.3 55.8 + - - +
152C LYS* 4.1 0.4 - - - -
153C GLY 3.2 16.8 + - - -
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Residues in contact with LEU 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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7C LEU* 4.1 30.5 - - + +
10C ALA* 4.3 14.8 - - + -
11C LEU* 3.8 29.4 - - + -
14C VAL* 4.3 9.0 - - + -
146C ASN 3.1 15.1 + - - +
147C GLU* 3.7 21.5 - - - +
148C VAL 3.1 0.8 - - - -
149C ARG* 1.3 78.9 - - - +
151C LEU* 1.3 61.0 + - - +
154C PHE* 3.2 24.4 + - - +
185C PHE* 3.5 31.7 - - + -
254C PHE* 3.7 12.6 - - + -
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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 GLU 3.4 10.4 + - - +
148C VAL* 2.9 7.2 + - - +
150C LEU* 1.3 77.6 - - - +
152C LYS* 1.3 65.0 + - - +
154C PHE* 3.3 3.4 + - + +
155C LEU* 3.2 33.7 + - + +
175C CYS* 3.4 44.6 - - + +
178C LEU* 4.0 19.3 - - + -
179C ILE* 4.0 12.3 - - + -
185C PHE* 3.5 22.8 - - + -
188C THR* 4.5 9.9 - - + -
189C VAL* 5.5 0.9 - - + -
238C PHE* 4.5 22.4 - - + -
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Residues in contact with LYS 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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47C SER* 4.0 3.8 - - - -
52C THR* 3.4 38.6 + - - +
54C LEU* 3.5 23.6 - - + +
148C VAL* 2.8 33.4 + - + +
151C LEU* 1.3 73.3 - - - +
153C GLY* 1.3 57.2 + - - +
155C LEU* 3.4 2.1 + - - +
156C LYS* 3.0 29.6 + - - +
161C TYR* 3.4 41.3 + - + +
172C GLY* 3.1 28.3 + - - -
175C CYS* 3.9 12.1 - - + -
176C GLU* 4.2 2.8 - - - -
501C CTP 3.9 16.3 + - - +
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Residues in contact with GLY 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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14C VAL* 3.9 13.0 - - - -
54C LEU* 3.7 13.4 - - - +
149C ARG 3.2 19.9 + - - -
150C LEU 4.2 0.2 - - - -
152C LYS* 1.3 74.6 - - - +
154C PHE* 1.3 64.7 + - - +
156C LYS* 3.9 3.1 - - - +
157C ALA* 3.2 24.3 + - - +
254C PHE* 4.2 10.2 - - - +
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Residues in contact with PHE 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 LEU 3.2 18.9 + - - +
151C LEU* 3.5 6.1 - - + +
152C LYS 3.3 0.2 - - - -
153C GLY* 1.3 77.5 - - - +
155C LEU* 1.3 58.9 + - + +
157C ALA 3.8 0.5 + - - -
158C ASN* 2.7 35.1 + - - -
185C PHE* 3.7 25.8 - + + -
189C VAL* 5.2 2.9 - - + -
238C PHE* 3.9 34.1 - + - -
241C LEU* 3.9 36.3 - - + -
242C CYS* 4.8 5.8 - - - -
245C PHE* 4.5 12.3 - + + -
253C PHE* 3.5 45.3 - + + +
254C PHE* 3.9 15.2 - + + -
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Residues in contact with LEU 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* 3.2 24.3 + - + +
152C LYS 3.9 1.6 - - - +
154C PHE* 1.3 76.3 - - + +
156C LYS* 1.3 65.1 + - - +
157C ALA 3.1 1.8 - - - -
158C ASN* 3.0 11.6 + - - -
159C GLY 3.1 9.4 + - - -
160C ILE* 3.2 39.2 + - + -
161C TYR* 3.9 19.3 - - + +
170C PHE* 3.5 29.6 - - + -
175C CYS* 3.4 33.9 - - - -
178C LEU* 6.4 0.4 - - + -
238C PHE* 3.6 22.0 - - + -
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Residues in contact with LYS 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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54C LEU* 4.4 14.9 - - + +
55C LYS 5.4 1.2 + - - -
57C SER* 2.8 30.2 + - - -
152C LYS 3.0 18.0 + - - +
153C GLY* 3.9 8.3 - - - +
155C LEU* 1.3 77.5 - - - +
157C ALA* 1.3 59.6 + - - +
158C ASN 3.5 0.5 + - - -
159C GLY* 3.5 10.0 + - - -
161C TYR* 3.6 32.0 - - + +
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Residues in contact with ALA 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 GLY 3.2 13.4 + - - +
154C PHE 3.9 1.1 - - - +
155C LEU 3.1 0.8 - - - -
156C LYS* 1.3 77.1 - - - +
158C ASN* 1.3 58.9 + - - +
159C GLY 3.5 1.0 + - - -
253C PHE 3.4 22.2 - - - +
254C PHE 3.4 29.8 - - - +
255C LYS 4.1 7.1 - - - +
256C PRO* 4.4 8.8 - - - +
257C LYS* 3.9 27.0 + - - +
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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