Contacts of the helix formed by residues 141 - 156 (chain K) 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 ASP 141 (chain K).
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Specific contacts
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Residue Dist Surf HB Arom Phob DC
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137K GLN* 5.6 3.3 + - - +
140K GLY* 1.3 71.8 - - - +
142K LYS* 1.3 72.7 + - + +
143K TYR 3.3 1.0 + - - -
144K SER* 3.4 19.1 + - - -
145K VAL* 4.2 4.6 - - - +
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Residues in contact with LYS 142 (chain K).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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93K ASN* 5.2 4.2 + - - +
129K ILE* 4.0 27.7 + - + +
130K ARG* 4.4 9.9 - - + -
131K GLU 3.0 33.8 + - - +
132K ASN* 4.2 6.7 - - - +
137K GLN* 3.3 30.2 + - + +
140K GLY 3.2 1.0 - - - -
141K ASP* 1.3 87.8 - - + +
143K TYR* 1.3 53.5 + - - +
144K SER 3.2 0.4 - - - -
145K VAL* 3.1 13.1 + - + +
146K PHE* 2.8 36.5 + - - +
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Residues in contact with TYR 143 (chain K).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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130K ARG* 3.7 24.2 - - - +
137K GLN 5.4 0.6 + - - -
138K LEU 3.2 19.3 - - - +
139K ARG* 4.4 10.5 - - - +
140K GLY 3.2 16.1 + - - +
141K ASP 3.2 1.0 - - - -
142K LYS* 1.3 77.6 - - - +
144K SER* 1.3 58.8 + - - +
146K PHE* 3.1 13.0 - + - +
147K LEU* 3.1 44.7 + - + +
198K LEU* 3.4 34.9 - - + +
199K ILE* 3.5 21.3 - - + -
202K ASP* 2.6 30.8 + - - +
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Residues in contact with SER 144 (chain K).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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141K ASP 3.4 13.1 + - - -
143K TYR* 1.3 79.8 - - - +
145K VAL* 1.3 66.4 + - - +
147K LEU* 3.4 7.2 + - - +
148K GLU* 2.9 36.8 + - - +
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Residues in contact with VAL 145 (chain K).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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92K SER 3.8 12.1 - - - +
93K ASN* 3.8 22.2 - - - +
95K PRO* 3.8 12.1 - - + +
129K ILE* 4.0 11.4 - - + -
141K ASP 4.2 4.9 - - - +
142K LYS* 3.1 21.1 + - + +
144K SER* 1.3 76.0 + - - +
146K PHE* 1.3 60.6 + - - +
148K GLU* 3.1 16.2 + - - +
149K ALA* 2.8 29.8 + - - +
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Residues in contact with PHE 146 (chain K).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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126K ILE* 4.1 5.4 - - + -
127K GLY 3.7 13.9 - - - -
128K ASP* 3.6 37.5 - - - -
129K ILE* 4.0 14.6 - - + +
130K ARG* 4.1 21.8 - - + -
142K LYS 2.8 14.1 + - - +
143K TYR* 3.1 18.4 - + - +
145K VAL* 1.3 76.9 - - - +
147K LEU* 1.3 74.2 + - + +
149K ALA* 3.2 14.6 + - - +
150K PHE* 3.2 42.9 + + - -
163K VAL* 4.1 17.9 - - + -
199K ILE* 4.3 24.2 - - + -
203K ILE* 4.8 0.4 - - + -
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Residues in contact with LEU 147 (chain K).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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143K TYR* 3.1 41.0 + - + +
144K SER* 4.0 6.7 - - - +
145K VAL 3.3 0.2 - - - -
146K PHE* 1.3 91.3 - - + +
148K GLU* 1.3 65.9 + - - +
150K PHE* 3.2 15.3 + - + +
151K GLU* 3.1 23.4 + - - +
199K ILE* 4.9 0.7 - - - +
202K ASP* 3.7 32.5 - - + +
203K ILE* 4.6 7.6 - - + -
206K ILE* 3.7 23.1 - - + +
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Residues in contact with GLU 148 (chain K).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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95K PRO* 3.8 19.6 - - + +
144K SER* 2.9 15.3 + - - +
145K VAL* 3.1 27.8 + - - +
147K LEU* 1.3 74.0 - - - +
149K ALA* 1.3 66.3 + - - +
150K PHE 3.1 0.2 + - - -
151K GLU* 3.2 11.8 + - + +
152K GLN* 2.8 36.0 + - + +
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Residues in contact with ALA 149 (chain K).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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87K HIS* 4.7 3.8 - - + -
92K SER* 3.9 24.0 - - - +
95K PRO* 3.7 15.1 - - + +
126K ILE* 3.8 24.5 - - + -
145K VAL 2.8 15.1 + - - +
146K PHE* 3.3 11.7 - - - +
148K GLU* 1.3 71.0 - - - +
150K PHE* 1.3 63.6 + - - +
152K GLN* 4.5 0.4 - - - -
153K CYS* 3.1 30.4 + - - -
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Residues in contact with PHE 150 (chain K).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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126K ILE* 3.6 33.0 - - + -
146K PHE* 3.2 50.1 + + - -
147K LEU* 3.2 13.4 + - + +
148K GLU 3.1 0.6 - - - -
149K ALA* 1.3 80.2 - - - +
151K GLU* 1.3 57.7 + - - +
153K CYS* 3.3 2.8 + - - +
154K ALA* 2.8 27.4 + - - +
161K LEU* 4.0 14.0 - - + +
162K SER* 3.6 23.6 - - - -
163K VAL* 3.8 16.6 - - + -
203K ILE* 3.5 46.7 - - + -
206K ILE* 4.2 18.2 - - + -
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Residues in contact with GLU 151 (chain K).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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147K LEU* 3.1 15.1 + - - +
148K GLU* 4.2 15.0 - - + +
150K PHE* 1.3 75.3 - - - +
152K GLN* 1.3 68.7 + - - +
154K ALA* 4.0 2.9 - - - -
155K GLU* 2.8 49.1 + - - +
206K ILE* 3.4 31.7 - - + +
209K LYS* 3.4 29.3 + - - +
210K THR* 4.3 8.0 - - + +
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Residues in contact with GLN 152 (chain K).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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95K PRO* 3.8 33.7 - - + +
96K SER* 4.4 12.0 - - - +
99K ALA* 3.4 14.7 - - + +
148K GLU* 2.8 32.6 + - + +
149K ALA 3.9 1.1 - - - +
151K GLU* 1.3 80.0 - - + +
153K CYS* 1.3 62.1 + - - +
155K GLU* 3.9 16.0 + - - -
156K ASN* 2.9 31.1 + - - +
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Residues in contact with CYS 153 (chain K).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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87K HIS* 3.4 36.6 - - - -
95K PRO 4.7 1.6 - - - -
98K GLY* 3.6 21.1 - - - -
99K ALA* 3.8 7.2 - - - +
102K ALA* 4.3 2.1 - - + +
124K HIS* 3.7 12.8 - - + -
126K ILE* 4.7 4.7 - - + -
149K ALA 3.1 25.0 + - - +
150K PHE 3.7 2.7 - - - +
152K GLN* 1.3 75.4 - - - +
154K ALA* 1.3 61.7 + - - +
156K ASN 3.1 11.4 + - - -
157K GLY 3.5 0.9 + - - -
158K ALA* 3.2 33.1 + - + -
161K LEU* 5.0 1.1 - - + -
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Residues in contact with ALA 154 (chain K).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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150K PHE 2.8 17.9 + - - +
151K GLU* 3.2 8.4 + - - +
153K CYS* 1.3 75.5 - - - +
155K GLU* 1.3 60.0 + - - +
156K ASN 3.6 0.2 + - - -
157K GLY 4.3 3.0 + - - -
158K ALA* 4.0 8.3 - - - +
161K LEU* 4.0 13.2 - - + +
206K ILE* 4.6 0.4 - - + -
210K THR* 3.3 31.2 - - + +
212K THR* 3.4 31.9 - - + +
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Residues in contact with GLU 155 (chain K).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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151K GLU* 2.8 34.7 + - - +
152K GLN* 3.8 22.6 + - - +
154K ALA* 1.3 77.5 - - - +
156K ASN* 1.3 68.6 + - - +
157K GLY 3.7 1.1 + - - -
209K LYS* 5.0 6.9 + - - -
210K THR* 4.1 20.2 - - + +
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Residues in contact with ASN 156 (chain K).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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99K ALA* 3.4 27.9 - - + +
100K GLU* 6.2 0.2 - - - +
102K ALA* 3.3 1.9 - - - -
103K HIS* 3.0 52.3 + - + +
152K GLN* 2.9 27.0 + - - +
153K CYS 3.1 7.3 + - - +
155K GLU* 1.3 90.7 + - - +
157K GLY* 1.3 55.2 + - - +
158K ALA 3.8 0.2 - - - -
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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