Contacts of the helix formed by residues 146 - 164 (chain C) in PDB entry 1SHZ
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 GLN 146 (chain C).
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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74C PRO* 3.5 44.2 - - + +
77C CYS* 4.4 15.0 - - - -
78C CYS* 4.3 6.7 - - - -
112C VAL* 3.7 13.1 - - - +
113C PRO* 2.8 42.7 + - - +
114C VAL* 4.6 0.6 - - - +
142C VAL* 3.0 27.6 + - - +
143C VAL* 2.7 13.7 + - - +
145C SER* 1.3 79.5 - - - +
147C GLN* 1.3 60.4 + - - +
148C VAL 3.4 1.6 - - - -
149C ALA* 3.4 5.3 + - - +
150C VAL* 3.0 30.9 + - - +
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Residues in contact with GLN 147 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
78C CYS* 4.0 9.2 - - - -
143C VAL* 3.3 21.0 + - - +
144C GLN* 3.3 48.2 + - - +
145C SER 3.3 1.0 - - - -
146C GLN* 1.3 79.2 - - - +
148C VAL* 1.3 59.3 + - + +
150C VAL* 3.4 5.0 + - - +
151C GLY* 2.8 30.5 + - - -
117D LEU* 4.0 25.5 - - + +
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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
----------------------------------------------------------
144C GLN 4.8 2.9 + - - +
145C SER 4.6 6.2 + - - +
146C GLN 3.4 0.4 - - - -
147C GLN* 1.3 76.7 - - + +
149C ALA* 1.3 58.0 + - - +
152C ARG* 3.2 27.2 + - + +
113D ASN* 3.7 33.7 - - + +
114D LYS* 4.3 13.7 - - + +
116D GLN* 5.0 1.3 - - + +
117D LEU* 3.5 29.6 - - + -
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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
----------------------------------------------------------
74C PRO* 3.7 30.5 - - + -
113C PRO* 6.3 1.1 - - + -
145C SER 5.1 1.5 + - - +
146C GLN* 3.4 7.7 + - - +
147C GLN 3.2 0.6 - - - -
148C VAL* 1.3 78.9 - - - +
150C VAL* 1.3 66.4 + - - +
152C ARG* 3.2 4.9 + - - +
153C GLN* 3.1 35.7 + - - +
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Residues in contact with VAL 150 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
49C LEU* 4.0 37.7 - - + -
74C PRO 3.9 19.7 - - - +
75C LEU* 4.1 13.0 - - + +
78C CYS* 3.7 24.9 - - - -
146C GLN 3.0 21.9 + - - +
147C GLN* 4.0 5.6 - - - +
149C ALA* 1.3 74.5 - - - +
151C GLY* 1.3 62.8 + - - +
153C GLN* 3.2 9.7 + - - +
154C LEU* 3.1 32.4 + - + +
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Residues in contact with GLY 151 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
147C GLN 2.8 17.4 + - - -
148C VAL* 4.2 1.1 - - - -
150C VAL* 1.3 79.5 - - - +
152C ARG* 1.3 58.3 + - - +
154C LEU* 3.5 10.6 + - - +
155C GLU* 3.3 22.3 + - - +
158C ARG* 4.0 3.0 + - - -
116D GLN* 3.9 13.3 + - - -
117D LEU* 5.8 2.5 - - - -
120D ASP* 4.5 9.2 - - - -
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Residues in contact with ARG 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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70C PHE* 5.4 0.9 - - - -
148C VAL* 3.2 20.9 + - + +
149C ALA* 3.2 6.3 + - - +
151C GLY* 1.3 75.2 - - - +
153C GLN* 1.3 61.1 + - + +
154C LEU 3.5 0.2 - - - -
155C GLU* 4.0 8.9 + - - +
156C ASP* 3.5 18.0 + - - +
103D ARG* 5.8 1.2 - - - +
110D TRP* 5.0 11.7 - - - +
113D ASN* 2.8 55.7 + - + +
116D GLN* 3.4 37.7 + - + +
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Residues in contact with GLN 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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62C LEU* 4.7 3.5 - - + +
65C HIS* 4.9 0.9 - - - -
66C VAL* 3.2 40.6 - - + +
70C PHE* 3.6 37.6 - - + +
71C GLU* 4.0 9.8 + - - +
74C PRO* 5.0 3.2 - - - +
75C LEU* 4.2 15.8 - - - +
149C ALA* 3.1 26.3 + - - +
150C VAL* 3.9 7.6 - - - +
152C ARG* 1.3 75.3 - - + +
154C LEU* 1.3 62.2 + - - +
155C GLU 3.1 1.6 - - - -
156C ASP* 3.2 7.5 + - - +
157C PHE* 2.9 28.2 + - - +
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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
----------------------------------------------------------
46C PHE* 4.1 25.4 - - + +
47C GLN 4.3 3.4 - - - +
48C SER* 3.7 14.8 - - - +
49C LEU* 3.6 30.3 - - + +
52C VAL* 4.9 4.3 - - + -
62C LEU* 3.5 37.0 - - + +
75C LEU* 6.2 0.4 - - + -
150C VAL* 3.1 31.8 + - + +
151C GLY* 3.8 7.9 - - - +
153C GLN* 1.3 76.2 - - - +
155C GLU* 1.3 58.1 + - - +
157C PHE* 3.3 5.8 + - - +
158C ARG* 2.9 41.1 + - - +
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Residues in contact with GLU 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 GLY 3.3 11.4 + - - +
152C ARG* 4.0 12.1 + - - +
153C GLN 3.1 0.6 - - - -
154C LEU* 1.3 81.4 - - - +
156C ASP* 1.3 65.6 + - - +
158C ARG* 3.2 19.1 + - - +
159C SER* 2.9 46.7 + - - -
103D ARG* 3.3 22.7 + - - +
104D GLU* 3.7 30.5 - - + +
110D TRP* 5.4 0.2 - - + -
116D GLN* 3.4 28.7 - - - +
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Residues in contact with ASP 156 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
65C HIS* 2.9 28.9 + - - -
70C PHE* 3.3 28.1 - - + -
152C ARG 3.5 11.5 + - - +
153C GLN 3.2 8.2 + - - +
155C GLU* 1.3 85.6 + - - +
157C PHE* 1.3 64.9 + - - +
159C SER* 3.5 6.2 + - - -
160C LYS* 3.1 44.7 + - - +
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Residues in contact with PHE 157 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
46C PHE* 3.3 56.1 - + + -
61C ALA* 3.8 35.4 - - + -
62C LEU* 3.9 20.0 - - + -
65C HIS* 3.8 28.0 + + + -
153C GLN 2.9 13.3 + - - +
154C LEU 3.5 7.4 - - - +
155C GLU 3.2 0.2 - - - -
156C ASP* 1.3 74.3 + - - +
158C ARG* 1.3 55.6 + - - +
160C LYS* 3.1 3.9 + - - +
161C ARG* 2.7 43.4 + - - +
166C THR* 3.5 31.6 - - + -
167C PRO* 5.0 2.9 - - + -
172C LEU* 5.1 2.0 - - + -
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Residues in contact with ARG 158 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
46C PHE* 3.0 33.7 + - + +
47C GLN* 3.1 45.8 + - - +
151C GLY 4.0 1.0 + - - -
154C LEU* 2.9 23.4 + - - +
155C GLU* 3.3 35.4 - - - +
157C PHE* 1.3 76.9 - - - +
159C SER* 1.3 63.8 + - - +
161C ARG* 3.0 24.7 + - - +
162C LEU* 3.1 16.1 + - + +
104D GLU* 3.2 33.6 + - - +
116D GLN* 4.8 0.2 - - - +
120D ASP* 3.5 28.1 + - - -
123D MET* 5.9 1.6 - - - +
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Residues in contact with SER 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 GLU* 2.9 33.1 + - - -
156C ASP* 3.6 11.2 - - - -
158C ARG* 1.3 76.3 - - - +
160C LYS* 1.3 68.1 + - - +
162C LEU* 3.6 9.9 + - - +
163C MET* 3.3 25.2 + - - +
104D GLU* 4.4 9.4 + - - +
107D HIS* 3.9 26.8 - - - -
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Residues in contact with LYS 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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270A LYS 4.4 1.0 + - - -
273A ASP* 4.7 8.7 + - - -
274A SER* 3.1 45.3 - - - +
65C HIS* 3.7 20.9 - - + -
156C ASP* 3.1 29.4 - - - +
157C PHE 3.1 4.1 + - - +
159C SER* 1.3 76.9 - - - +
161C ARG* 1.3 67.5 + - - +
163C MET* 3.1 22.9 + - + +
164C GLY 2.9 4.5 + - - -
165C MET* 2.9 34.5 + - + +
166C THR* 3.4 18.4 - - + -
107D HIS* 4.3 7.5 + - - -
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Residues in contact with ARG 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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45C GLN* 4.3 15.6 - - - +
46C PHE* 3.5 37.1 - - - -
58C HIS* 5.3 0.6 - - - -
157C PHE* 2.7 26.5 + - + +
158C ARG* 3.0 16.7 - - - +
160C LYS* 1.3 70.9 - - - +
162C LEU* 1.3 63.0 + - + +
164C GLY* 2.8 20.4 + - - -
166C THR* 3.2 20.6 - - - +
169C GLU* 3.1 26.7 + - - +
172C LEU* 4.1 19.6 - - - +
176C GLU* 3.5 24.5 + - - -
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Residues in contact with LEU 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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227A ARG* 4.2 19.4 - - - +
37C THR* 5.6 9.4 - - + -
158C ARG* 3.1 13.9 + - + +
159C SER* 3.8 8.7 - - - +
161C ARG* 1.3 85.9 - - + +
163C MET* 1.3 60.2 + - + +
164C GLY* 2.9 6.1 + - - -
104D GLU* 5.8 3.8 - - + +
105D LYS* 3.5 37.5 - - + +
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Residues in contact with MET 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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227A ARG* 4.2 8.8 - - - +
230A ARG* 3.1 37.6 + - - +
267A GLU* 3.8 17.3 - - - +
270A LYS* 3.5 45.1 - - - +
271A LEU* 4.0 7.2 - - + -
274A SER* 4.2 5.2 - - - -
159C SER 3.3 9.3 + - - +
160C LYS* 3.1 47.1 + - + +
162C LEU* 1.3 79.2 - - + +
164C GLY* 1.3 58.2 + - - +
165C MET* 3.3 8.2 - - + +
107D HIS* 3.4 18.8 - - + +
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Residues in contact with GLY 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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227A ARG 4.5 11.0 - - - -
230A ARG* 3.6 24.5 - - - +
231A LYS* 3.9 1.9 + - - -
234A PHE* 3.9 3.1 - - - -
161C ARG 2.8 16.3 + - - -
162C LEU 2.9 3.0 - - - -
163C MET* 1.3 80.4 - - - +
165C MET* 1.3 58.3 + - - +
166C THR 3.3 7.2 + - - -
169C GLU* 3.4 22.0 - - - +
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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
------------------------------------------------------------
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