Contacts of the helix formed by residues 145 - 159 (chain I) in PDB entry 2ZHX
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 TRP 145 (chain I).
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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25I VAL* 5.0 8.3 - - + -
28I MET* 3.5 52.4 - - + +
29I GLY 5.4 0.4 - - - -
32I LEU* 4.3 8.0 - - + +
49I VAL* 3.7 29.6 - - + -
50I LEU* 4.2 11.9 - - + -
128I ARG 3.9 14.2 - - - +
129I VAL* 4.0 13.7 - - + -
130I LEU* 3.5 41.3 - - + +
131I THR* 2.7 35.1 + - + +
140I HIS* 4.7 6.1 - - + +
143I LYS 3.7 0.6 - - - +
144I GLY* 1.3 74.2 - - - +
146I GLU* 1.3 70.0 + - - +
147I ALA 3.1 2.5 - - - -
148I VAL* 2.9 37.9 + - + +
149I THR* 3.4 10.6 + - - +
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Residues in contact with GLU 146 (chain I).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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128I ARG* 4.0 29.3 + - + +
129I VAL* 3.4 26.7 - - + +
140I HIS 4.8 0.2 - - - +
141I ARG* 3.5 8.7 + - - +
142I GLY* 2.8 40.3 + - - -
144I GLY* 3.9 1.4 + - - -
145I TRP* 1.3 82.3 + - - +
147I ALA* 1.3 52.8 + - - +
149I THR* 3.0 8.9 + - - -
150I GLU* 2.8 46.0 + - - +
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Residues in contact with ALA 147 (chain I).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
21I VAL* 3.7 9.4 - - + +
24I GLN* 3.9 28.7 - - + +
144I GLY* 3.9 2.6 + - - +
145I TRP 3.0 1.0 + - - -
146I GLU* 1.3 79.6 - - - +
148I VAL* 1.3 55.1 + - - +
150I GLU* 3.6 11.6 - - - +
151I CYS* 3.3 24.1 + - - +
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Residues in contact with VAL 148 (chain I).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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18I LEU* 3.8 20.6 - - + +
21I VAL* 4.2 12.3 - - + -
24I GLN* 4.4 20.6 - - + +
25I VAL* 4.5 15.3 - - + +
28I MET* 4.6 1.6 - - + -
50I LEU* 5.7 1.6 - - + -
53I PHE* 5.0 12.6 - - + -
130I LEU* 5.5 0.2 - - + -
144I GLY 4.0 9.2 - - - +
145I TRP* 2.9 39.9 + - + +
147I ALA* 1.3 75.1 - - - +
149I THR* 1.3 56.4 + - + +
150I GLU 3.1 0.9 - - - -
151I CYS* 3.1 5.5 + - - +
152I ALA* 2.8 32.4 + - - +
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Residues in contact with THR 149 (chain I).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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53I PHE* 4.9 1.1 - - + -
126I LEU* 3.9 19.9 - - + +
127I ASN 3.2 24.5 - - - +
128I ARG* 3.0 35.0 + - - +
130I LEU* 4.1 18.6 - - + -
145I TRP 3.4 4.4 + - - +
146I GLU* 3.0 14.4 + - - -
148I VAL* 1.3 71.9 - - + +
150I GLU* 1.3 65.4 + - - +
152I ALA* 3.2 10.1 + - - +
153I ILE* 2.9 31.9 + - - +
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Residues in contact with GLU 150 (chain I).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
128I ARG* 4.1 19.4 + - - +
146I GLU* 2.8 30.9 + - - +
147I ALA* 3.6 11.4 + - - +
149I THR* 1.3 79.9 + - - +
151I CYS* 1.3 57.1 + - - +
153I ILE* 3.1 4.9 + - - +
154I ARG* 2.9 54.5 + - - +
178I MET* 3.8 29.9 - - + +
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Residues in contact with CYS 151 (chain I).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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17I ALA 3.7 20.4 - - - -
18I LEU* 4.4 1.3 - - - -
20I PRO* 4.4 15.5 - - - -
21I VAL* 3.7 30.3 - - + -
147I ALA 3.3 11.3 + - - +
148I VAL 3.1 8.9 + - - +
150I GLU* 1.3 78.7 - - - +
152I ALA* 1.3 52.8 + - - +
154I ARG* 3.5 11.8 - - - +
155I ALA* 2.8 37.5 + - - +
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Residues in contact with ALA 152 (chain I).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
14I TRP* 4.0 15.4 - - + -
18I LEU* 4.1 6.9 - - + +
53I PHE* 3.7 31.2 - - + -
124I LEU* 5.6 0.4 - - + -
126I LEU* 4.3 6.7 - - + -
148I VAL 2.8 16.7 + - - +
149I THR* 3.2 14.8 - - - +
150I GLU 3.1 0.2 - - - -
151I CYS* 1.3 74.7 - - - +
153I ILE* 1.3 62.7 + - - +
155I ALA* 3.2 4.0 + - - +
156I LEU* 3.1 26.2 + - - +
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Residues in contact with ILE 153 (chain I).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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63I LEU* 3.9 29.8 - - + -
65I VAL* 4.6 2.9 - - + -
126I LEU* 4.1 17.2 - - + +
128I ARG* 5.5 2.5 - - + -
149I THR 2.9 23.7 + - - +
150I GLU* 3.6 5.8 - - - +
152I ALA* 1.3 68.0 - - - +
154I ARG* 1.3 67.9 + - - +
156I LEU* 3.2 14.2 + - + +
157I ALA* 2.9 20.8 + - - +
163I LEU* 5.1 3.0 - - + +
175I LEU* 3.4 37.0 - - + +
178I MET* 4.6 13.7 - - + -
179I LEU* 4.2 27.4 - - + -
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Residues in contact with ARG 154 (chain I).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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150I GLU* 2.9 43.4 + - - +
151I CYS* 3.5 15.7 - - - +
153I ILE* 1.3 75.2 - - - +
155I ALA* 1.3 63.0 + - - +
157I ALA* 3.0 19.6 + - - +
158I ALA* 3.1 14.5 + - - +
178I MET* 3.6 45.3 + - + +
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Residues in contact with ALA 155 (chain I).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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17I ALA* 3.7 39.0 - - + +
57I PHE* 3.6 6.3 - - + -
151I CYS* 2.8 21.7 + - - +
152I ALA* 3.6 4.9 - - - +
153I ILE 3.2 0.2 - - - -
154I ARG* 1.3 69.8 - - - +
156I LEU* 1.3 66.5 - - - +
158I ALA* 3.0 18.2 + - - +
159I ARG* 3.4 12.3 + - - +
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Residues in contact with LEU 156 (chain I).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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14I TRP* 4.3 3.1 - - + -
57I PHE* 3.7 22.7 - - + -
60I VAL* 3.7 27.1 - - + -
63I LEU* 4.5 10.1 - - + -
124I LEU* 3.6 27.6 - - + -
152I ALA 3.1 14.5 + - - +
153I ILE* 3.3 14.8 - - - +
155I ALA* 1.3 73.4 - - - +
157I ALA* 1.3 64.0 + - - +
159I ARG* 3.1 54.6 + - - +
161I ALA 5.0 1.9 - - - +
163I LEU* 3.8 23.4 - - + +
183I ASN* 5.2 0.2 + - - -
184I CYS* 5.3 0.2 - - - -
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Residues in contact with ALA 157 (chain I).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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153I ILE 2.9 13.1 + - - +
154I ARG* 3.1 16.6 - - - +
156I LEU* 1.3 75.9 - - - +
158I ALA* 1.3 59.1 + - - +
159I ARG 3.2 2.9 + - - +
163I LEU* 4.6 1.5 - - - +
178I MET 4.3 1.6 - - - +
179I LEU* 4.1 27.1 - - + -
180I ALA* 4.2 9.9 - - + +
183I ASN* 3.3 23.7 + - - +
184I CYS* 3.8 17.3 - - - -
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Residues in contact with ALA 158 (chain I).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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154I ARG 3.1 10.0 + - - +
155I ALA* 3.0 13.4 + - - +
157I ALA* 1.3 73.2 - - - +
159I ARG* 1.3 66.8 + - - +
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Residues in contact with ARG 159 (chain I).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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57I PHE* 2.9 56.7 + - + -
58I ASP* 3.3 16.2 + - - +
60I VAL* 2.7 33.3 + - - +
155I ALA 3.4 10.5 + - - +
156I LEU* 3.1 26.7 + - - +
157I ALA 3.5 0.7 - - - +
158I ALA* 1.3 83.2 - - - +
160I ALA* 1.3 60.1 + - - +
161I ALA* 4.0 19.7 + - + +
162I PRO 3.5 17.6 + - - -
163I LEU* 4.0 15.8 - - - +
183I ASN* 2.8 22.2 + - - -
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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