Contacts of the helix formed by residues 144 - 157 (chain C) in PDB entry 2IHU
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 GLU 144 (chain C).
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Specific contacts
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Residue Dist Surf HB Arom Phob DC
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327A ARG* 3.1 44.0 + - - +
112B HIS* 3.8 7.6 - - - +
139C LEU* 4.3 3.4 - - + -
140C GLN* 5.2 1.4 + - - +
141C ARG* 2.9 64.3 + - - +
143C HIS* 1.3 95.5 + - + +
145C ILE* 1.3 63.3 + - - +
146C THR 3.1 2.9 - - - -
147C ASP* 3.0 18.8 + - - +
148C LEU* 3.0 24.6 + - + +
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Residues in contact with ILE 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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14C ALA* 3.9 10.3 - - + +
17C ALA* 3.6 30.7 - - + -
18C LEU* 3.8 35.9 - - + +
139C LEU* 3.8 17.9 - - + +
142C PRO 3.1 19.7 + - - +
143C HIS 4.5 1.8 - - - +
144C GLU* 1.3 76.5 - - - +
146C THR* 1.3 56.9 + - - +
148C LEU* 3.2 5.3 + - + -
149C VAL* 2.8 42.3 + - + +
166C ILE* 4.0 16.8 - - + -
168C LEU* 3.7 28.7 - - + -
173C LEU* 6.3 0.4 - - + -
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Residues in contact with THR 146 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
330A ARG* 4.4 9.6 - - - +
17C ALA* 4.4 14.0 + - - +
21C ARG* 3.6 38.1 - - + +
143C HIS 3.8 11.4 + - - -
144C GLU 3.1 0.4 - - - -
145C ILE* 1.3 86.0 - - - +
147C ASP* 1.3 57.3 + - - +
149C VAL* 3.5 2.4 + - - +
150C ASP* 3.1 31.7 + - - +
185C ASN* 4.1 19.1 + - - +
186C PRO* 5.0 6.1 - - + -
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Residues in contact with ASP 147 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
326A PRO* 4.0 4.2 - - + +
327A ARG* 2.8 74.4 + - - +
330A ARG* 3.9 17.5 - - - +
115B PHE* 5.5 1.2 - - - -
143C HIS* 5.0 0.7 + - - -
144C GLU* 3.0 22.8 + - - +
146C THR* 1.3 76.5 - - - +
148C LEU* 1.3 66.9 + - - +
150C ASP* 3.4 3.5 + - - +
151C SER* 2.9 34.1 + - - -
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Residues in contact with LEU 148 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
327A ARG* 3.5 26.0 - - - +
115B PHE* 6.1 0.7 - - + -
135C TYR* 3.5 23.1 + - - +
137C VAL* 4.1 26.7 - - + -
138C GLU 4.6 0.7 - - - +
139C LEU* 3.8 44.4 - - + +
140C GLN 5.1 0.7 - - - +
144C GLU* 3.0 14.6 + - + +
145C ILE* 3.5 8.7 - - + +
147C ASP* 1.3 82.0 + - - +
149C VAL* 1.3 59.1 + - - +
151C SER* 3.4 2.2 + - - +
152C ALA* 2.9 30.1 + - - +
166C ILE* 3.9 17.5 - - + +
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Residues in contact with VAL 149 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
18C LEU* 3.6 31.2 - - + +
21C ARG* 3.8 28.3 - - + -
22C LEU* 4.1 20.9 - - + -
25C HIS* 4.0 14.4 - - + -
103C ILE* 5.4 2.5 - - + -
145C ILE* 2.8 27.4 + - + +
146C THR 3.8 4.3 - - - +
148C LEU* 1.3 72.2 - - - +
150C ASP* 1.3 56.8 + - - +
152C ALA* 3.1 5.2 + - - +
153C VAL* 2.9 31.9 + - + +
166C ILE* 4.0 14.4 - - + -
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Residues in contact with ASP 150 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
326A PRO* 4.6 7.2 - - + -
330A ARG* 2.8 40.0 + - - +
21C ARG* 2.7 33.5 + - - +
25C HIS* 2.9 23.1 + - + -
146C THR 3.1 9.9 + - - +
147C ASP* 3.7 8.7 - - - +
148C LEU 3.3 0.2 - - - -
149C VAL* 1.3 76.3 - - - +
151C SER* 1.3 56.6 + - - +
153C VAL* 3.4 2.8 + - - +
154C ASN* 2.9 37.6 + - - +
188C ALA 5.2 2.9 - - - +
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Residues in contact with SER 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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323A ASN 5.0 0.5 + - - -
324A PRO* 4.4 6.7 + - - +
326A PRO* 3.5 23.4 - - - +
135C TYR* 3.5 32.4 - - - -
147C ASP* 2.9 20.5 + - - -
148C LEU* 3.9 0.8 - - - +
150C ASP* 1.3 73.0 - - - +
152C ALA* 1.3 65.6 + - - +
154C ASN* 3.5 11.4 + - - +
155C ALA* 3.1 24.9 + - - +
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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
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103C ILE* 3.9 13.9 - - + -
135C TYR* 3.7 12.7 - - + -
148C LEU 2.9 14.3 + - - +
149C VAL* 3.1 10.1 + - - +
151C SER* 1.3 76.5 - - - +
153C VAL* 1.3 56.1 + - - +
155C ALA 3.4 0.5 + - - -
156C ALA* 2.9 16.3 + - - +
164C SER* 2.7 42.1 + - - -
166C ILE* 4.1 15.5 - - + -
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Residues in contact with VAL 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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22C LEU* 6.1 0.4 - - + -
25C HIS* 3.8 46.0 - - + +
74C PRO* 4.1 23.3 - - + -
103C ILE* 3.9 22.4 - - + -
149C VAL* 2.9 21.9 + - + +
150C ASP 3.8 4.3 - - - +
152C ALA* 1.3 71.7 - - - +
154C ASN* 1.3 69.6 + - - +
156C ALA* 3.2 1.9 + - - +
157C MET* 3.0 31.6 + - + +
190C THR* 4.3 6.3 - - + -
191C PRO* 4.4 8.1 - - + -
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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
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322A VAL* 3.5 25.9 - - + +
323A ASN* 3.6 25.2 + - - +
326A PRO* 5.0 6.5 - - - +
150C ASP* 2.9 27.7 + - - +
151C SER* 3.6 11.1 + - - +
153C VAL* 1.3 81.1 - - - +
155C ALA* 1.3 57.6 + - - +
157C MET* 3.5 7.5 + - - +
158C THR* 2.8 23.2 + - - -
189C ASN 5.5 1.6 - - - +
191C PRO* 5.3 10.3 - - - +
195C VAL* 5.6 1.0 - - - +
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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
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134C LYS* 2.9 42.6 + - + +
135C TYR* 3.6 29.6 - - + -
151C SER 3.1 15.5 + - - +
154C ASN* 1.3 77.0 - - - +
156C ALA* 1.3 62.5 + - - +
157C MET 3.4 0.2 + - - -
158C THR* 3.6 7.1 + - - -
164C SER* 3.7 1.8 - - - +
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Residues in contact with ALA 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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74C PRO* 5.9 0.7 - - + -
101C PRO* 3.7 18.6 - - + +
102C VAL 4.4 1.6 - - - +
103C ILE* 4.2 14.8 - - + -
152C ALA 2.9 19.5 + - - +
153C VAL* 3.7 4.7 - - - +
155C ALA* 1.3 75.8 - - - +
157C MET* 1.3 59.5 + - + +
158C THR 3.4 0.4 - - - -
161C VAL* 3.3 26.0 - - - +
162C GLY 3.2 28.7 + - - +
164C SER* 3.5 7.3 + - - +
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Residues in contact with MET 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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72C GLY 4.2 14.8 - - - +
74C PRO* 4.1 24.0 - - + -
101C PRO* 3.5 29.8 - - + -
153C VAL* 3.0 24.1 + - + +
154C ASN 3.5 2.2 + - - +
155C ALA 3.3 0.2 - - - -
156C ALA* 1.3 76.7 - - + +
158C THR* 1.3 61.2 + - - +
161C VAL* 4.0 8.3 - - - -
191C PRO* 3.5 44.2 - - + +
193C LYS* 3.9 24.9 - - - -
194C PRO* 3.2 12.5 - - + +
195C VAL* 2.8 26.9 + - - +
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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
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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