Contacts of the helix formed by residues 184 - 202 (chain K) in PDB entry 1LWU
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 GLY 184 (chain K).
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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181J ILE* 4.8 9.2 - - - +
179K GLU 3.5 5.6 + - - -
180K SER 5.6 2.2 - - - -
181K THR* 3.4 6.7 + - - +
183K ALA* 1.3 77.2 - - - +
185K SER* 1.3 59.6 + - - +
187K ARG* 3.3 26.0 - - - +
188K SER* 4.7 1.2 + - - -
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Residues in contact with SER 185 (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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126J LEU* 3.5 8.1 - - - +
181J ILE* 3.3 30.0 - - - +
184J LEU* 3.6 19.6 - - - +
181K THR 3.5 8.5 + - - -
182K VAL 3.2 16.1 + - - -
184K GLY* 1.3 77.2 - - - +
186K LEU* 1.3 71.0 + - - +
187K ARG 2.5 18.3 + - - -
188K SER 3.3 3.6 + - - -
189K MET* 2.9 26.5 + - - +
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Residues in contact with LEU 186 (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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126J LEU* 3.4 36.3 - - + -
182K VAL 3.9 12.8 - - - +
183K ALA 3.6 7.2 + - - +
185K SER* 1.3 78.8 + - - +
187K ARG* 1.3 71.2 + - - +
189K MET* 3.6 16.2 - - + -
190K LYS* 3.5 18.6 - - + +
102L HIS* 4.1 21.8 - - + +
105L GLN* 2.9 55.8 + - + +
106L ILE* 4.5 1.8 - - + +
109L LEU* 4.2 11.7 - - + -
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Residues in contact with ARG 187 (chain K).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
183K ALA* 2.9 30.6 + - - +
184K GLY* 3.3 27.7 - - - +
185K SER 2.5 6.9 + - - -
186K LEU* 1.3 79.4 + - - +
188K SER* 1.3 56.8 + - - +
190K LYS* 2.8 5.9 + - - +
191K SER* 2.6 37.2 + - - -
105L GLN* 5.0 15.5 + - - +
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Residues in contact with SER 188 (chain K).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
174J LEU* 4.3 11.4 - - - -
177J ALA* 4.9 6.5 - - - -
178J ALA* 2.7 42.6 - - - +
181J ILE* 3.8 3.2 - - - +
184K GLY 4.7 0.6 + - - -
185K SER 3.3 6.4 + - - -
187K ARG* 1.3 78.4 - - - +
189K MET* 1.3 62.0 + - - +
191K SER* 3.1 14.8 - - - -
192K VAL* 2.6 41.8 + - - +
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Residues in contact with MET 189 (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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126J LEU* 3.8 30.5 - - + +
129J LEU* 3.4 43.7 - - + -
130J GLN* 4.2 14.1 - - - -
133J ILE* 3.6 19.6 - - + +
178J ALA* 5.0 5.4 - - - -
181J ILE* 4.2 13.9 - - + -
184J LEU* 4.9 1.6 - - + -
185K SER* 2.9 29.4 - - - +
186K LEU* 3.6 7.4 - - + +
188K SER* 1.3 86.4 + - - +
190K LYS* 1.3 57.9 + - - +
193K LEU* 3.0 31.2 - - - +
109L LEU* 3.1 21.8 - - + -
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Residues in contact with LYS 190 (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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186K LEU 3.5 16.1 + - - +
187K ARG 2.8 3.2 + - - +
189K MET* 1.3 78.1 - - - +
191K SER* 1.3 66.6 + - - +
193K LEU* 3.9 1.7 + - - -
194K GLU* 3.3 44.1 + - - +
105L GLN* 5.0 13.3 - - + +
108L GLU* 2.9 33.7 + - - +
109L LEU* 3.5 20.6 - - + -
112L MET* 4.1 10.3 - - - +
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Residues in contact with SER 191 (chain K).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
174J LEU* 4.1 16.1 - - - +
187K ARG 2.6 17.7 + - - -
188K SER* 3.1 16.8 - - - -
190K LYS* 1.3 71.8 - - - +
192K VAL* 1.3 68.1 + - - +
194K GLU* 3.2 8.3 + - - +
195K HIS* 2.7 38.2 + - - +
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Residues in contact with VAL 192 (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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133J ILE* 3.6 28.7 - - + -
137J VAL* 5.0 7.9 - - + -
174J LEU* 3.5 35.0 - - + +
175J GLU* 6.4 0.7 - - - -
178J ALA* 4.7 3.8 - - + -
188K SER* 2.6 26.9 + - - +
189K MET 4.4 0.9 - - - +
191K SER* 1.3 83.6 + - - +
193K LEU* 1.3 52.3 + - - +
195K HIS* 2.9 10.3 + - + +
196K LEU* 2.6 57.9 + - + +
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Residues in contact with LEU 193 (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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129J LEU* 5.2 0.7 - - + -
133J ILE* 3.5 30.1 - - + -
136J GLN* 3.5 24.5 - - - +
189K MET 3.0 21.0 + - - +
190K LYS 4.3 0.2 - - - +
191K SER 3.3 0.8 - - - -
192K VAL* 1.3 75.2 - - - +
194K GLU* 1.3 58.6 + - - +
196K LEU* 4.3 6.3 - - + -
197K ARG* 3.0 25.5 + - - +
109L LEU* 3.6 36.8 - - + +
112L MET* 3.7 24.5 - - + +
113L TRP* 3.8 17.0 - - + +
116L ASN* 3.4 12.5 + - - +
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Residues in contact with GLU 194 (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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190K LYS* 3.3 41.6 + - - +
191K SER* 3.2 6.8 + - - +
193K LEU* 1.3 77.5 - - - +
195K HIS* 1.3 63.4 + - - +
197K ARG* 2.8 49.3 + - - +
198K ALA* 3.3 12.6 + - - +
112L MET* 3.5 17.0 - - + +
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Residues in contact with HIS 195 (chain K).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
168J LYS* 5.7 3.2 - - + +
170J LYS* 4.4 12.5 + - + +
171J ASN* 3.7 32.1 + - + -
174J LEU* 4.6 17.9 - - + -
191K SER 2.7 19.0 + - - +
192K VAL* 3.1 12.8 - - + +
194K GLU* 1.3 75.7 - - - +
196K LEU* 1.3 65.3 + - + +
198K ALA* 3.0 25.6 - - + +
199K LYS* 3.1 9.8 + - - +
202K ARG* 4.8 14.4 - - - -
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Residues in contact with LEU 196 (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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133J ILE* 5.1 0.9 - - + -
136J GLN* 3.3 35.7 - - + +
137J VAL* 4.3 27.1 - - + +
140J ILE* 4.4 23.6 - - + -
171J ASN* 6.3 3.1 - - + -
192K VAL* 2.6 37.5 + - + +
193K LEU* 4.3 3.6 - - + -
195K HIS* 1.3 74.9 - - + +
197K ARG* 1.3 54.4 + - - +
198K ALA 2.7 16.0 + - - -
199K LYS* 2.9 12.1 + - + +
200K MET* 2.9 30.1 + - + +
116L ASN* 3.4 13.2 - - - +
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Residues in contact with ARG 197 (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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193K LEU 3.0 12.1 + - - +
194K GLU* 2.8 66.9 + - - +
196K LEU* 1.3 75.9 - - - +
198K ALA* 1.3 58.1 + - - +
200K MET* 4.0 7.3 - - - -
201K GLN* 3.0 31.7 + - - +
112L MET* 4.7 8.2 - - + +
115L VAL* 6.1 4.3 - - + -
116L ASN* 3.7 15.4 - - - +
119L PHE* 4.1 14.9 - - + -
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Residues in contact with ALA 198 (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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194K GLU 3.3 8.6 + - - +
195K HIS* 3.0 15.8 + - + +
196K LEU 2.7 1.0 + - - -
197K ARG* 1.3 79.3 - - - +
199K LYS* 1.3 59.0 + - - +
200K MET 3.0 1.6 - - - -
201K GLN* 2.6 28.3 + - - +
202K ARG* 2.8 28.7 + - - +
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Residues in contact with LYS 199 (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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140J ILE* 3.9 16.7 - - + +
141J LEU* 4.1 17.6 - - - +
144J GLU* 3.7 33.3 - - + +
167J ASP 5.4 3.2 + - - -
168J LYS* 5.7 1.8 - - - -
171J ASN* 4.3 27.3 - - - +
195K HIS* 3.1 12.8 + - - +
196K LEU* 2.9 17.4 + - + +
198K ALA* 1.3 79.1 - - - +
200K MET* 1.3 58.9 + - - +
202K ARG* 3.0 40.3 - - - +
203K MET* 3.0 41.4 + - + +
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Residues in contact with MET 200 (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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140J ILE* 3.1 35.7 - - + -
196K LEU 2.9 15.1 + - - +
197K ARG* 4.3 1.6 - - - +
199K LYS* 1.3 75.7 - - - +
201K GLN* 1.3 57.9 + - - +
202K ARG 3.3 0.2 - - - -
203K MET* 3.5 19.0 - - + +
204K GLU 3.0 19.8 + - - -
116L ASN* 3.5 38.8 - - + +
119L PHE* 2.9 55.8 - - + -
120L VAL* 3.4 25.8 - - - -
123L LEU* 4.2 2.9 - - + -
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Residues in contact with GLN 201 (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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197K ARG* 3.0 25.2 + - + +
198K ALA* 2.6 16.2 + - - +
200K MET* 1.3 73.6 - - - +
202K ARG* 1.3 57.1 + - - +
203K MET 3.2 1.3 + - - -
204K GLU* 3.9 7.4 + - - +
205K GLU* 3.6 18.5 + - - +
119L PHE* 3.3 23.2 - - - -
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Residues in contact with ARG 202 (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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164J TYR* 4.2 9.6 + - + +
165J ARG* 4.2 38.8 - - - +
168J LYS* 5.4 7.1 - - - +
195K HIS* 4.8 10.3 - - - -
198K ALA* 2.8 22.3 + - - +
199K LYS* 3.0 69.6 - - - +
201K GLN* 1.3 74.5 - - + +
203K MET* 1.3 61.1 + - + +
205K GLU* 2.6 34.0 - - - +
206K ALA* 3.6 5.9 + - - +
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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