Contacts of the helix formed by residues 139 - 160 (chain K) in PDB entry 6T90
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 ILE 139 (chain K).
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Specific contacts
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Residue Dist Surf HB Arom Phob DC
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138K ASP* 1.3 78.5 + - - +
140K LYS* 1.3 77.2 + - + +
142K LEU* 3.5 22.1 + - + +
143K GLN* 2.9 30.1 + - + +
194K PHE* 4.4 26.7 - - + -
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Residues in contact with LYS 140 (chain K).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
138K ASP* 2.8 16.1 + - - +
139K ILE* 1.3 87.8 - - + +
141K ALA* 1.3 66.5 + - - +
143K GLN* 3.2 27.7 + - - +
144K LYS* 2.9 37.2 + - - +
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Residues in contact with ALA 141 (chain K).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
138K ASP* 3.3 27.9 + - + +
140K LYS* 1.3 76.6 - - - +
142K LEU* 1.3 57.3 + - - +
144K LYS* 3.3 10.5 + - - +
145K GLU* 3.0 27.3 + - - +
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Residues in contact with LEU 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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138K ASP 3.0 15.9 + - - +
139K ILE* 3.7 23.8 - - + +
140K LYS 3.2 0.2 - - - -
141K ALA* 1.3 75.1 - - - +
143K GLN* 1.3 66.2 + - - +
145K GLU* 3.2 18.3 + - - +
146K LEU* 2.9 37.0 + - + +
194K PHE* 4.4 17.0 - - + -
198K CYS* 3.8 32.3 - - - -
201K ARG* 4.4 5.8 - - - +
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Residues in contact with GLN 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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139K ILE* 2.9 21.7 + - + +
140K LYS* 3.6 33.4 + - - +
142K LEU* 1.3 78.3 - - - +
144K LYS* 1.3 60.1 + - + +
146K LEU* 3.3 7.5 + - - +
147K GLU* 2.9 57.9 + - + +
190K LEU* 6.1 0.7 - - + -
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Residues in contact with LYS 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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140K LYS* 2.9 29.2 + - - +
141K ALA* 3.7 7.4 - - - +
143K GLN* 1.3 77.8 - - + +
145K GLU* 1.3 61.4 + - - +
147K GLU* 3.3 16.6 + - - +
148K GLN* 2.9 40.9 + - + +
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Residues in contact with GLU 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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141K ALA 3.0 13.2 + - - +
142K LEU* 3.2 17.0 + - + +
144K LYS* 1.3 75.6 - - - +
146K LEU* 1.3 58.8 + - - +
148K GLN* 3.3 14.2 + - - +
149K PHE* 2.9 28.8 + - + +
201K ARG* 3.1 34.8 + - - +
205K GLN* 5.3 2.8 + - - -
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Residues in contact with LEU 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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142K LEU* 2.9 41.0 + - + +
143K GLN* 3.8 6.1 - - - +
145K GLU* 1.3 73.5 - - - +
147K GLU* 1.3 59.8 + - + +
149K PHE* 3.3 4.7 + - + +
150K ALA* 2.9 31.5 + - - +
187K PHE* 5.2 5.8 - - + -
190K LEU* 4.2 12.3 - - + +
194K PHE* 4.3 5.2 - - + +
197K MET* 3.9 51.6 - - + +
198K CYS* 4.2 10.1 - - - +
201K ARG* 4.1 34.1 - - + +
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Residues in contact with GLU 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 GLN* 2.9 51.5 + - + +
144K LYS* 3.3 19.5 + - - +
146K LEU* 1.3 75.1 - - - +
148K GLN* 1.3 59.1 + - + +
150K ALA* 3.9 1.6 - - - +
151K LYS* 3.0 29.9 + - - +
190K LEU* 3.5 32.1 - - + +
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Residues in contact with GLN 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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144K LYS* 2.9 32.0 + - - +
145K GLU* 3.6 12.5 - - - +
147K GLU* 1.3 73.4 - - + +
149K PHE* 1.3 66.7 + - - +
151K LYS* 3.3 6.1 + - - +
152K LEU* 2.9 34.5 + - + +
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Residues in contact with PHE 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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145K GLU* 2.9 19.3 + - + +
146K LEU* 3.7 6.7 - - + +
148K GLN* 1.3 77.9 - - - +
150K ALA* 1.3 59.5 + - - +
152K LEU* 3.1 15.4 + - + +
153K LEU* 2.9 39.4 + - + +
187K PHE* 3.9 22.7 - + - -
201K ARG* 4.1 21.8 - - + -
204K LEU* 3.6 36.3 - - + -
205K GLN* 3.5 38.4 - - + -
208K VAL* 4.5 9.9 - - + -
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Residues in contact with ALA 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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146K LEU 2.9 16.6 + - - +
147K GLU* 3.9 3.6 - - - +
149K PHE* 1.3 81.6 - - - +
151K LYS* 1.3 57.0 + - - +
153K LEU* 3.3 5.8 + - - +
154K LYS* 3.0 28.8 + - - +
187K PHE* 3.8 23.3 - - + -
188K GLU* 4.2 18.4 - - - +
190K LEU* 4.0 17.7 - - + -
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Residues in contact with LYS 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 GLU 3.0 19.6 + - - +
148K GLN* 3.7 7.0 - - - +
150K ALA* 1.3 74.7 - - - +
152K LEU* 1.3 64.4 + - + +
154K LYS* 3.3 11.8 + - + +
155K GLN* 3.0 51.1 + - + +
401K PTD 1.3 75.4 - - + +
106L PRO 4.7 8.4 + - - -
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Residues in contact with LEU 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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148K GLN* 2.9 27.4 + - + +
149K PHE* 3.6 15.5 - - + +
151K LYS* 1.3 75.6 - - + +
153K LEU* 1.3 63.0 + - - +
155K GLN* 3.3 19.1 + - - +
156K LYS* 3.0 37.3 + - + +
208K VAL* 5.3 3.8 - - + -
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Residues in contact with LEU 153 (chain K).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
149K PHE* 2.9 20.0 + - + +
150K ALA 3.4 6.5 - - - +
152K LEU* 1.3 76.7 - - - +
154K LYS* 1.3 56.8 + - - +
156K LYS* 3.8 1.7 - - - +
157K ARG* 2.8 31.4 + - + +
167K VAL* 5.1 4.9 - - + -
184K ILE* 5.6 2.9 - - + -
187K PHE* 3.6 35.9 - - + -
188K GLU* 4.4 18.4 - - + +
204K LEU* 3.9 30.1 - - + +
207K TRP* 3.6 21.9 - - + -
208K VAL* 3.5 30.2 - - + +
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Residues in contact with LYS 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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15I A 5.2 7.5 + - - -
150K ALA 3.0 16.6 + - - +
151K LYS* 3.6 11.7 - - + +
152K LEU 3.3 0.2 - - - -
153K LEU* 1.3 77.7 - - - +
155K GLN* 1.3 58.0 + - + +
157K ARG* 3.3 11.8 + - - +
158K ILE* 2.9 52.5 + - + +
188K GLU* 4.3 27.6 + - + +
401K PTD 4.0 31.9 - - + +
102L MET* 6.1 1.3 - - - -
106L PRO 5.5 3.6 + - - -
108L TYR 4.3 16.1 + - - -
109L LYS* 4.7 5.9 - - - +
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Residues in contact with GLN 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 LYS* 3.0 46.3 + - + +
152K LEU* 3.3 27.1 + - - +
154K LYS* 1.3 77.4 - - + +
156K LYS* 1.3 56.5 + - + +
158K ILE* 4.9 0.9 - - - -
159K THR* 2.7 39.7 + - - +
102L MET* 4.0 19.1 - - + +
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Residues in contact with LYS 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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152K LEU* 3.0 27.6 + - + +
153K LEU* 3.9 3.1 - - - +
155K GLN* 1.3 74.0 - - + +
157K ARG* 1.3 68.1 + - - +
159K THR* 4.4 7.0 - - + +
160K LEU* 2.9 47.6 + - + +
207K TRP* 4.9 2.9 - - + -
208K VAL* 4.1 29.6 - - + +
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Residues in contact with ARG 157 (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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14I T 3.0 27.5 + - - -
153K LEU* 2.8 20.1 + - + +
154K LYS* 3.3 14.3 + - - +
156K LYS* 1.3 79.0 - - - +
158K ILE* 1.3 78.7 + - - +
160K LEU 3.9 0.5 - - - -
161K GLY 3.2 2.1 + - - -
162K TYR* 2.8 68.8 + - + +
163K THR* 3.7 11.2 - - - +
164K GLN* 3.7 19.4 - - - +
167K VAL* 3.7 24.5 - - - -
188K GLU* 3.0 37.3 + - - -
207K TRP* 3.9 18.6 - - + -
98L ARG* 6.2 0.6 - - - +
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Residues in contact with ILE 158 (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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14I T 5.6 0.9 - - - +
154K LYS* 2.9 47.2 + - + +
155K GLN* 4.1 2.2 - - - +
157K ARG* 1.3 94.6 - - - +
159K THR* 1.3 65.7 + - - +
161K GLY* 2.9 15.1 + - - -
162K TYR 4.7 2.5 - - - +
95L LYS 4.7 0.3 - - - +
98L ARG* 3.5 36.3 - - + +
99L ALA* 3.8 13.8 + - - +
102L MET* 3.7 32.1 - - + -
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Residues in contact with THR 159 (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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155K GLN* 2.7 24.7 + - - +
156K LYS* 3.9 9.4 - - + +
158K ILE* 1.3 76.4 - - - +
160K LEU* 1.3 67.6 + - + +
161K GLY 3.3 0.7 + - - -
95L LYS 5.5 0.2 - - - +
99L ALA* 4.1 17.6 - - + +
102L MET* 3.3 16.1 - - - +
103L LYS* 4.9 16.8 - - - +
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Residues in contact with LEU 160 (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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156K LYS* 2.9 40.1 + - + +
159K THR* 1.3 83.3 - - + +
161K GLY* 1.3 59.8 + - - +
162K TYR* 3.5 36.1 + - + -
207K TRP* 5.0 6.5 - - + -
208K VAL 5.3 8.1 - - - +
95L LYS* 4.8 7.1 + - - +
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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