Contacts of the helix formed by residues 158 - 176 (chain I) in PDB entry 5M32
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 158 (chain I).
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Specific contacts
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Residue Dist Surf HB Arom Phob DC
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16I LYS* 4.0 17.3 - - + +
18I CYS* 4.2 0.2 - - - -
156I ASN 4.2 0.6 + - - -
157I MET* 1.3 75.6 - - - +
159I PRO* 1.3 77.5 - - + +
160I ASP* 3.0 21.5 + - - +
161I HIS* 3.0 29.1 - - - +
162I LEU* 3.1 17.8 + - - +
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Residues in contact with PRO 159 (chain I).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
16I LYS* 5.7 1.8 - - + -
18I CYS* 3.6 28.9 - - + -
158I ASP* 1.3 87.4 - - + +
160I ASP* 1.3 49.1 + - - +
162I LEU* 3.9 2.9 - - + -
163I PHE* 2.7 38.2 + - - +
188I ILE* 4.1 14.1 - - + +
190I GLU* 3.4 36.6 - - + +
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Residues in contact with ASP 160 (chain I).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
205H GLU* 2.8 34.0 - - - +
206H LYS* 5.6 2.0 + - + -
158I ASP* 3.0 25.9 - - - +
159I PRO* 1.3 73.6 - - - +
161I HIS* 1.3 68.7 + - - +
163I PHE* 3.1 12.8 - - + +
164I GLU* 3.1 27.5 + - - +
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Residues in contact with HIS 161 (chain I).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
203H ARG* 4.9 15.3 + - + +
204H CYS 4.2 13.7 + - - -
205H GLU* 3.0 27.9 + - + +
154I GLU* 5.0 9.8 + - - +
157I MET* 3.6 19.7 - - + -
158I ASP* 3.0 30.7 + - - +
160I ASP* 1.3 87.4 + - - +
162I LEU* 1.3 56.8 + - - +
164I GLU* 3.2 6.8 + - - +
165I THR* 2.9 33.7 + - + +
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Residues in contact with LEU 162 (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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13I MET* 3.6 56.3 - - + +
14I LYS 4.4 6.1 - - - -
15I GLY 3.9 10.5 - - - +
18I CYS* 3.7 24.7 - - - -
19I VAL 3.9 6.3 - - - +
20I ALA* 3.7 16.6 - - + -
157I MET* 3.8 18.3 - - + +
158I ASP 3.1 15.7 + - - +
159I PRO* 4.1 4.5 - - + +
161I HIS* 1.3 72.0 - - - +
163I PHE* 1.3 57.7 + - - +
165I THR* 3.1 4.5 + - - +
166I ILE* 2.9 37.5 + - - +
188I ILE* 4.8 1.8 - - + -
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Residues in contact with PHE 163 (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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206H LYS* 5.6 17.9 - - + -
209H THR* 4.1 20.6 - - + -
211H VAL* 4.4 6.3 - - + -
214H GLU* 3.6 22.4 - - - -
159I PRO 2.7 23.6 + - - +
160I ASP* 3.1 16.4 - - + +
162I LEU* 1.3 72.5 - - - +
164I GLU* 1.3 70.1 + - + +
166I ILE* 3.6 0.2 - - - +
167I SER* 3.1 11.8 + - - -
188I ILE* 4.0 20.7 - - + +
195I THR* 4.4 8.3 - - + -
197I ARG* 2.5 62.0 + - - +
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Residues in contact with GLU 164 (chain I).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
203H ARG* 3.4 19.4 - - + +
204H CYS 2.8 45.8 + - - +
205H GLU* 3.9 9.9 - - - +
206H LYS* 3.9 4.5 + - - -
207H GLY 3.7 19.5 - - - +
208H THR* 3.6 20.1 + - - +
209H THR* 4.3 0.7 - - - -
160I ASP 3.1 14.2 + - - +
161I HIS* 3.2 7.8 + - - +
163I PHE* 1.3 86.9 - - + +
165I THR* 1.3 58.6 + - - +
167I SER* 2.3 26.7 + - - +
168I GLN* 3.0 13.4 + - + +
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Residues in contact with THR 165 (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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203H ARG* 3.4 39.3 - - + +
13I MET* 3.7 18.3 - - - +
149I CYS* 5.2 0.4 - - - -
152I LEU* 3.9 25.2 - - + +
157I MET* 3.6 15.8 - - + +
161I HIS* 2.9 17.7 + - - +
162I LEU* 3.1 14.0 + - - -
164I GLU* 1.3 74.2 - - - +
166I ILE* 1.3 61.9 + - - +
168I GLN* 3.9 1.1 - - - -
169I ALA* 2.9 29.5 + - - +
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Residues in contact with ILE 166 (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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11I MET* 4.1 20.2 - - + -
13I MET* 3.6 26.0 - - + +
20I ALA* 3.3 39.5 - - + +
21I ILE 4.3 0.4 - - - -
22I ALA* 3.7 26.2 - - + -
162I LEU 2.9 22.4 + - - +
163I PHE* 3.6 5.8 - - - +
165I THR* 1.3 74.8 + - - +
167I SER* 1.3 67.8 + - - +
169I ALA* 4.3 2.0 - - - -
170I MET* 3.0 23.6 + - - +
186I VAL* 3.8 23.7 - - + +
197I ARG* 4.2 0.4 - - - +
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Residues in contact with SER 167 (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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208H THR 3.9 4.3 + - - -
209H THR* 3.3 21.2 - - - +
163I PHE 3.1 15.4 + - - -
164I GLU 2.3 28.2 + - - -
166I ILE* 1.3 79.9 - - - +
168I GLN* 1.3 58.5 + - - +
170I MET* 3.9 1.0 - - - +
171I LEU* 3.0 37.9 + - - +
186I VAL* 4.9 0.4 - - - -
197I ARG* 3.7 10.5 - - - +
199I LEU* 3.7 27.3 - - - +
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Residues in contact with GLN 168 (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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203H ARG* 5.7 4.0 - - + -
208H THR* 2.3 53.1 + - + +
148I MET* 3.4 5.5 - - - +
152I LEU* 4.1 15.5 - - + -
164I GLU* 3.0 18.2 + - + +
165I THR* 4.0 3.4 - - - +
167I SER* 1.3 81.6 + - - +
169I ALA* 1.3 57.9 + - - +
171I LEU* 4.4 9.7 - - - +
172I ASN* 2.9 54.1 + - - +
151Z ASN* 3.2 18.1 + - - +
157Z ASN 3.1 24.2 + - - +
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Residues in contact with ALA 169 (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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11I MET* 4.5 8.3 - - - -
145I MET* 5.5 0.9 - - - +
148I MET* 4.0 13.1 - - + +
149I CYS* 3.8 37.2 - - + +
152I LEU* 4.5 4.2 - - + +
165I THR 2.9 19.0 + - - +
166I ILE* 4.1 5.4 - - - +
168I GLN* 1.3 75.8 - - - +
170I MET* 1.3 53.3 + - - +
173I ALA* 2.6 40.9 + - - +
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Residues in contact with MET 170 (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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9I ALA 4.0 10.1 - - - +
11I MET* 3.6 27.4 - - - +
22I ALA* 3.7 22.2 - - + +
23I ALA 3.7 31.0 - - - +
24I ASP 4.3 0.4 - - - +
145I MET* 3.6 15.9 - - + +
166I ILE 3.0 22.3 + - - +
167I SER* 3.9 2.9 - - - +
169I ALA* 1.3 77.0 - - - +
171I LEU* 1.3 57.7 + - - +
173I ALA* 4.3 0.2 - - - -
174I VAL* 2.9 58.3 + - + +
184I VAL* 4.1 20.4 - - + -
186I VAL* 5.1 0.7 - - + -
199I LEU* 5.4 0.4 - - + -
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Residues in contact with LEU 171 (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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210H ALA* 4.7 16.8 - - + +
167I SER* 3.0 24.6 + - - +
168I GLN* 4.2 15.7 - - - +
170I MET* 1.3 76.7 - - - +
172I ASN* 1.3 58.7 + - - +
174I VAL* 3.9 3.5 - - - +
175I ASP* 3.0 32.9 + - - +
184I VAL* 4.1 8.1 - - + -
199I LEU* 4.1 26.9 - - + -
200I LYS 4.1 7.4 - - - +
201I ALA* 3.7 34.5 - - + -
157Z ASN* 4.2 30.0 - - + +
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Residues in contact with ASN 172 (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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148I MET* 3.6 15.0 - - + -
168I GLN* 2.9 41.4 + - - +
171I LEU* 1.3 75.7 - - - +
173I ALA* 1.3 61.4 + - - +
175I ASP* 4.1 8.2 + - - +
176I ARG* 3.9 11.4 + - - +
147Z PRO* 3.4 24.9 - - + +
150Z ASP* 4.8 8.3 + - - +
151Z ASN* 3.3 22.0 + - - +
156Z LYS* 3.0 26.6 + - - +
157Z ASN* 3.3 17.8 + - - +
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Residues in contact with ALA 173 (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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141I CYS* 4.9 1.9 - - - -
144I GLN* 4.1 15.8 - - + +
145I MET* 3.7 39.7 - - + +
148I MET* 4.3 2.2 - - + -
169I ALA 2.6 24.7 + - - +
170I MET* 3.8 2.7 - - - +
172I ASN* 1.3 79.4 - - - +
174I VAL* 1.3 63.9 + - + +
176I ARG* 3.3 22.5 + - - +
177I ASP* 4.5 1.6 - - - +
147Z PRO* 4.6 3.1 - - - -
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Residues in contact with VAL 174 (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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9I ALA* 4.6 8.5 - - + -
24I ASP* 4.6 7.4 - - + +
141I CYS* 4.4 16.4 - - - -
145I MET* 5.0 1.1 - - - -
170I MET* 2.9 46.4 + - + +
171I LEU* 3.9 5.2 - - - +
173I ALA* 1.3 75.5 - - + +
175I ASP* 1.3 66.6 + - - +
176I ARG 3.3 0.2 - - - -
177I ASP* 3.6 16.4 + - - +
180I SER* 3.6 15.8 - - - +
181I GLY* 3.7 26.0 - - - +
182I MET 5.1 0.4 - - - +
184I VAL* 4.0 14.6 - - + -
201I ALA* 5.3 5.8 - - + -
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Residues in contact with ASP 175 (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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171I LEU 3.0 20.7 + - - +
172I ASN* 4.3 5.4 + - - -
173I ALA 3.2 0.2 - - - -
174I VAL* 1.3 80.4 - - + +
176I ARG* 1.3 57.1 + - - +
177I ASP 3.0 12.0 + - - +
202I ARG* 4.1 32.8 + - + +
204I ASP* 5.6 0.7 - - - +
19Y ARG* 4.7 2.4 + - - -
26Y ILE* 3.9 7.4 - - - +
29Y GLN* 4.0 24.7 + - - +
150Z ASP* 3.7 19.2 - - - +
156Z LYS* 5.0 5.7 - - - +
157Z ASN* 3.2 19.6 - - - +
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Residues in contact with ARG 176 (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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144I GLN* 3.8 16.6 + - + +
172I ASN 3.9 11.7 + - - +
173I ALA 3.3 13.7 + - - +
174I VAL 3.3 0.4 - - - -
175I ASP* 1.3 75.8 - - - +
177I ASP* 1.3 61.0 + - - +
25Y TYR* 3.6 22.6 - - + -
26Y ILE* 3.3 40.4 + - - +
27Y ALA 2.7 33.0 + - - -
28Y SER* 3.9 5.3 - - - +
29Y GLN* 4.6 12.6 - - - +
135Z PHE* 4.6 4.9 - - - -
146Z GLN* 3.3 39.1 - - + +
147Z PRO* 4.3 15.5 - - + -
150Z ASP* 3.6 26.7 + - - +
156Z LYS* 6.1 0.4 - - - +
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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
------------------------------------------------------------
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