Contacts of the helix formed by residues 144 - 158 (chain K) in PDB entry 6IY6
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 PRO 144 (chain K).
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Specific contacts
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Residue Dist Surf HB Arom Phob DC
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99K ILE* 4.0 23.1 - - + -
100K ASN* 3.7 22.2 - - - +
103K ASN* 3.2 33.2 - - + +
134K TRP* 4.6 2.5 - - + -
137K GLN* 3.7 13.7 - - - +
142K LYS 3.8 4.7 - - - +
143K ALA* 1.4 90.6 - - + +
145K VAL* 1.3 63.9 + - - +
146K HIS 3.6 0.2 - - - -
147K VAL* 4.1 3.8 - - + -
148K LYS* 3.3 21.0 + - - +
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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
----------------------------------------------------------
103K ASN* 3.7 2.0 + - - +
143K ALA 4.6 1.3 - - - +
144K PRO* 1.3 71.6 - - + +
146K HIS* 1.3 83.1 + - + +
148K LYS* 3.3 8.3 + - - +
149K ARG* 3.1 25.5 + - + +
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Residues in contact with HIS 146 (chain K).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
103K ASN* 3.1 38.3 + - - +
106K LEU* 3.6 17.5 - - + +
107K SER* 3.7 41.4 + - - -
145K VAL* 1.3 89.0 - - + +
147K VAL* 1.3 55.1 + - - +
149K ARG* 3.7 21.3 + - - +
150K TRP* 3.1 28.2 + - - +
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Residues in contact with VAL 147 (chain K).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
99K ILE* 3.8 14.1 - - + +
102K LEU* 4.0 13.0 - - + +
103K ASN* 3.4 41.5 - - + +
106K LEU* 4.1 7.0 - - + -
128K LEU* 3.9 19.3 - - + -
134K TRP* 3.5 27.6 - - + -
144K PRO* 4.1 12.3 - - + +
145K VAL 3.3 0.4 - - - -
146K HIS* 1.3 74.5 - - - +
148K LYS* 1.3 54.0 + - - +
150K TRP* 3.2 6.5 + - + +
151K PHE* 2.7 37.1 + - - +
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Residues in contact with LYS 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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134K TRP* 4.2 10.9 - - + -
138K LEU* 4.1 34.5 + - + +
141K LYS* 5.6 12.5 - - - +
143K ALA* 4.9 9.0 - - + +
144K PRO 3.3 16.1 + - - +
145K VAL* 3.3 7.8 + - - +
147K VAL* 1.3 77.1 - - - +
149K ARG* 1.3 52.7 + - - +
151K PHE* 3.2 3.8 + - - +
152K GLY* 2.7 34.1 + - - -
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Residues in contact with ARG 149 (chain K).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
106K LEU* 2.7 25.9 + - - +
107K SER 4.0 5.3 + - - -
108K LEU 5.6 0.2 - - - -
109K ARG 2.9 22.2 + - - -
110K THR* 3.8 19.1 + - - +
145K VAL* 3.1 16.0 + - + +
146K HIS* 3.8 31.7 + - - +
148K LYS* 1.3 79.0 - - - +
150K TRP* 1.3 64.1 + - - +
152K GLY* 3.9 1.4 - - - -
153K PHE* 3.0 31.1 + - + +
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Residues in contact with TRP 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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102K LEU* 4.6 3.8 - - + -
106K LEU* 3.7 32.7 - - + +
110K THR 3.4 23.6 - - - -
112K LEU* 3.9 9.4 - - + +
121K ASP* 3.3 34.0 + - - -
124K VAL* 3.5 25.8 - - + -
125K TRP* 3.6 21.5 - + + -
128K LEU* 3.8 24.9 - - + -
146K HIS 3.1 19.1 + - - +
147K VAL* 3.5 10.1 - - + +
149K ARG* 1.3 86.1 - - - +
151K PHE* 1.3 69.9 + + + +
153K PHE* 3.3 7.1 + + - +
154K LEU* 3.0 58.7 + - + +
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Residues in contact with PHE 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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125K TRP* 3.2 59.2 + + - -
128K LEU* 3.8 15.0 - - + -
129K LYS* 3.7 35.0 - - + -
134K TRP* 3.4 40.6 - + + -
135K GLN* 5.2 1.8 - - - -
138K LEU* 4.6 10.5 - - + -
147K VAL 2.7 20.4 + - - +
148K LYS* 3.5 4.3 - - - +
150K TRP* 1.3 75.7 - + + +
152K GLY* 1.3 59.8 + - - +
154K LEU 3.4 0.2 + - - -
155K GLU* 2.9 49.0 + - - +
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Residues in contact with GLY 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 LYS 2.7 19.7 + - - -
149K ARG* 3.9 2.5 - - - -
151K PHE* 1.3 74.7 - - - +
153K PHE* 1.3 60.6 + - - +
155K GLU* 3.7 9.1 + - - +
156K ALA* 3.3 21.5 + - - +
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Residues in contact with PHE 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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110K THR* 4.3 26.2 - - + -
111K TYR* 3.5 35.4 - + - -
149K ARG* 3.0 22.9 + - - +
150K TRP* 3.3 7.4 + + - +
152K GLY* 1.3 75.3 - - - +
154K LEU* 1.3 69.0 + - + +
156K ALA* 3.5 8.9 - - + +
157K GLN* 3.2 53.5 + - + +
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Residues in contact with LEU 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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111K TYR* 4.2 21.3 - - + -
117K LEU* 4.6 7.6 - - + -
121K ASP* 3.7 21.5 - - + +
125K TRP* 3.5 24.2 - - + -
150K TRP* 3.0 56.8 + - + +
153K PHE* 1.3 91.2 - - + +
155K GLU* 1.3 54.6 - - - +
156K ALA 3.1 1.6 - - - -
157K GLN* 3.1 8.9 + - + +
158K LEU* 2.8 51.2 + - + +
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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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125K TRP* 3.7 21.4 - - + +
129K LYS* 4.8 12.8 + - - +
151K PHE* 2.9 39.5 + - - +
152K GLY* 3.8 9.0 - - - +
153K PHE 3.5 0.2 - - - -
154K LEU* 1.3 76.2 - - - +
156K ALA* 1.3 58.7 - - - +
158K LEU* 4.1 1.4 - - - -
159K GLU* 3.1 34.9 + - + +
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Residues in contact with ALA 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 GLY 3.3 13.3 + - - +
153K PHE* 3.5 14.6 - - + +
154K LEU 3.1 0.4 - - - -
155K GLU* 1.3 78.9 - - - +
157K GLN* 1.3 61.4 + - + +
158K LEU 3.6 0.3 + - - -
159K GLU* 3.7 20.7 - - - +
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Residues in contact with GLN 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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23K HIS* 5.4 4.6 + - - +
111K TYR* 2.9 36.0 + - - -
117K LEU* 5.0 10.3 - - + +
153K PHE* 3.2 35.1 + - + +
154K LEU* 3.1 13.6 + - + +
156K ALA* 1.3 79.3 - - + +
158K LEU* 1.3 65.8 + - + +
159K GLU 3.4 4.2 + - - +
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Residues in contact with LEU 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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19K LEU* 3.9 33.1 - - + +
23K HIS* 3.7 32.1 - - + +
117K LEU* 5.1 4.3 - - + -
122K LEU* 4.1 20.0 - - + -
125K TRP* 3.7 45.3 - - + -
154K LEU* 2.8 34.0 + - + +
155K GLU* 4.1 2.2 - - - +
157K GLN* 1.3 74.7 - - + +
159K GLU* 1.3 64.8 + - - +
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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