Contacts of the helix formed by residues 136 - 151 (chain H) in PDB entry 2I2X
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 HIS 136 (chain H).
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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130H VAL* 3.8 17.6 - - + +
134H ASP* 2.5 32.0 + - - +
135H VAL* 1.3 73.3 - - - +
137H ASP* 1.3 64.8 + - - +
138H ILE 3.3 2.8 + - - -
139H GLY 4.2 4.3 + - - -
140H LYS 4.6 1.7 + - - -
181H THR* 4.6 3.3 - - - +
183H LEU* 3.3 35.0 - - + +
184H MET* 4.0 12.8 - - + -
500H B13 2.6 108.6 + + + +
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Residues in contact with ASP 137 (chain H).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
173G ASP* 4.7 7.5 - - + +
130H VAL* 4.6 2.6 - - - +
135H VAL* 2.9 12.0 + - - +
136H HIS* 1.3 71.4 - - - +
138H ILE* 1.3 65.7 + - + +
140H LYS* 2.9 37.8 + - - +
141H ASN* 3.0 31.2 + - - +
159H ARG* 3.1 37.5 + - - +
500H B13 3.3 15.5 + - - +
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Residues in contact with ILE 138 (chain H).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
173G ASP* 4.3 11.0 - - + +
176G VAL* 5.0 2.5 - - + -
177G LEU* 4.5 20.9 - - + -
225G THR* 3.7 26.9 - - + -
229G ILE* 3.7 22.9 - - + -
136H HIS 3.3 0.4 - - - -
137H ASP* 1.3 79.1 - - + +
139H GLY* 1.3 63.7 + - - +
141H ASN* 3.5 8.1 + - - +
142H ILE* 3.0 46.7 + - + +
500H B13 3.1 57.1 + - + +
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Residues in contact with GLY 139 (chain H).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
136H HIS 4.2 1.8 + - - -
137H ASP 3.2 0.8 + - - -
138H ILE* 1.3 75.9 - - - +
140H LYS* 1.3 63.8 + - - +
142H ILE* 3.2 6.9 + - - +
143H VAL* 3.0 23.9 + - - +
181H THR* 4.6 1.3 - - - -
500H B13 3.3 54.8 + - - +
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Residues in contact with LYS 140 (chain H).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
128H CYS* 4.6 11.7 - - + -
129H HIS* 4.6 6.7 - - - +
130H VAL* 3.7 25.9 - - + +
137H ASP* 2.9 37.2 + - - +
139H GLY* 1.3 69.4 - - - -
141H ASN* 1.3 77.8 + - - +
143H VAL* 2.9 10.4 + - + +
144H THR* 2.6 43.4 + - - +
156H ASP* 3.4 30.0 + - - +
158H GLY* 3.5 21.9 + - - +
179H THR* 5.6 1.3 - - - +
181H THR* 3.6 24.7 + - - +
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Residues in contact with ASN 141 (chain H).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
177G LEU* 4.9 17.7 - - + +
99H MET* 4.7 8.2 - - + +
137H ASP* 3.0 39.2 + - - +
138H ILE* 3.8 10.0 - - - +
140H LYS* 1.3 97.2 + - - +
142H ILE* 1.3 55.3 + - + +
144H THR* 3.5 8.4 - - - +
145H ALA* 3.0 30.1 + - - +
156H ASP* 4.1 4.3 - - - +
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Residues in contact with ILE 142 (chain H).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
177G LEU* 5.4 5.6 - - + -
229G ILE* 5.7 2.7 - - + -
237G ASN* 5.1 5.2 - - - +
88H TYR* 5.1 4.5 - - - +
95H LEU* 3.7 45.3 - - + -
99H MET* 5.1 4.9 - - - -
138H ILE* 3.0 40.2 + - + +
139H GLY 3.5 5.8 - - - +
141H ASN* 1.3 73.0 - - + +
143H VAL* 1.3 60.6 + - - +
145H ALA* 4.1 2.7 - - - +
146H LEU* 3.1 38.1 + - + +
231H ALA* 3.3 20.2 - - + -
500H B13 4.4 24.2 - - + +
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Residues in contact with VAL 143 (chain H).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
128H CYS* 4.3 18.8 - - - -
139H GLY 3.0 14.8 + - - +
140H LYS* 2.9 10.2 + - + +
142H ILE* 1.3 73.8 - - - +
144H THR* 1.3 66.6 + - - +
146H LEU* 3.1 6.1 + - - +
147H LEU* 2.8 35.0 + - + +
179H THR* 4.3 13.2 - - + +
231H ALA* 3.7 22.0 - - - -
234H ALA* 3.6 22.4 - - + -
500H B13 3.7 30.3 - - + -
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Residues in contact with THR 144 (chain H).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
128H CYS* 4.3 8.7 - - - +
140H LYS* 2.6 30.9 + - - +
141H ASN* 3.5 11.2 - - - +
143H VAL* 1.3 74.0 - - - +
145H ALA* 1.3 57.9 + - + +
147H LEU* 3.3 3.6 + - - +
148H ARG* 2.9 51.4 + - - +
154H VAL* 3.7 24.4 - - + +
156H ASP* 3.2 26.7 + - - +
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Residues in contact with ALA 145 (chain H).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
98H VAL* 6.0 2.2 - - + -
99H MET* 3.7 29.6 - - + -
102H ALA* 4.4 17.2 - - + +
141H ASN 3.0 17.8 + - - +
142H ILE 4.4 1.6 - - - +
144H THR* 1.3 75.8 - - + +
146H LEU* 1.3 61.2 + - + +
148H ARG* 3.7 10.3 - - - +
149H ALA* 2.9 32.1 + - - +
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Residues in contact with LEU 146 (chain H).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
85H ILE* 4.7 23.2 - - + +
88H TYR* 4.8 17.9 - - + -
89H ASP* 5.7 0.9 - - - +
95H LEU* 4.7 7.0 - - + -
98H VAL* 4.4 20.4 - - + -
99H MET* 6.3 0.2 - - - -
142H ILE* 3.1 39.2 + - + +
143H VAL 3.1 4.7 + - - +
145H ALA* 1.3 78.5 - - + +
147H LEU* 1.3 58.1 + - - +
149H ALA* 3.6 4.6 + - - +
150H ASN* 3.1 30.0 + - - +
231H ALA 3.9 17.9 - - - +
232H ALA* 4.5 12.3 - - + +
235H PRO* 3.9 21.6 - - + +
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Residues in contact with LEU 147 (chain H).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
126H VAL* 3.7 39.9 - - + -
128H CYS* 4.4 14.4 - - - -
143H VAL* 2.8 23.1 + - + +
146H LEU* 1.3 74.1 - - + +
148H ARG* 1.3 63.1 + - - +
149H ALA 3.2 0.2 - - - -
150H ASN* 3.2 10.1 + - - +
151H GLY 3.4 0.5 + - - -
152H TYR* 2.9 38.0 + - + +
154H VAL* 3.7 13.2 - - + -
177H MET* 5.8 0.2 - - - -
179H THR* 4.6 3.1 - - + -
234H ALA* 3.6 20.6 - - + +
235H PRO* 3.5 36.8 - - + -
238H ALA* 5.3 2.0 - - + -
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Residues in contact with ARG 148 (chain H).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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78H MET* 5.5 0.3 - - - +
102H ALA* 6.1 2.2 - - + -
105H MET* 3.4 25.3 - - + +
106H LEU* 4.5 35.4 - - + +
109H ILE* 5.5 0.9 - - - +
144H THR* 2.9 36.1 + - - +
145H ALA* 3.7 8.7 - - - +
147H LEU* 1.3 76.2 - - - +
149H ALA* 1.3 58.0 + - - +
151H GLY* 4.1 7.2 + - - -
152H TYR 3.4 11.1 - - - +
153H ASN* 5.6 0.7 - - - +
154H VAL* 3.3 45.0 + - + +
156H ASP* 4.5 13.9 + - - +
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Residues in contact with ALA 149 (chain H).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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78H MET* 4.0 11.4 - - - +
81H MET* 3.6 44.0 - - + +
85H ILE* 3.1 27.1 - - + +
98H VAL* 5.4 3.1 - - + -
102H ALA* 4.8 4.7 - - + -
105H MET* 4.1 5.2 - - - -
145H ALA 2.9 16.9 + - - +
146H LEU* 4.1 4.9 - - - +
148H ARG* 1.3 75.8 - - - +
150H ASN* 1.3 57.2 + - - +
151H GLY 3.2 5.5 + - - -
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Residues in contact with ASN 150 (chain H).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
78H MET* 3.6 11.0 - - - +
85H ILE* 4.1 26.0 - - - +
123H LYS* 3.3 15.8 + - - -
146H LEU* 3.1 17.2 + - - +
147H LEU 3.2 6.1 + - - +
149H ALA* 1.3 76.4 - - - +
151H GLY* 1.3 57.3 + - - +
152H TYR* 3.6 7.9 - - + -
235H PRO* 3.4 35.4 - - + +
239H ASP* 3.9 19.8 - - - +
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Residues in contact with GLY 151 (chain H).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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78H MET* 3.7 22.7 - - - -
122H THR* 3.9 11.7 - - - +
123H LYS* 3.7 26.6 + - - +
147H LEU 3.4 0.4 + - - -
148H ARG 4.1 4.6 + - - -
149H ALA 3.2 5.1 + - - -
150H ASN* 1.3 78.9 - - - +
152H TYR* 1.3 63.0 + - - +
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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
------------------------------------------------------------
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