Contacts of the strand formed by residues 186 - 195 (chain K) in PDB entry 3Q3G
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 TYR 186 (chain K).
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Specific contacts
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Residue Dist Surf HB Arom Phob DC
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121K THR* 4.4 14.9 - - - +
155K GLY 3.0 23.6 + - - -
156K TYR* 2.7 55.6 + + + +
157K PHE* 3.6 31.8 - + - -
158K PRO 4.3 0.2 - - - -
159K GLU* 3.3 48.8 - - + +
179K ALA* 4.0 11.7 - - + -
180K VAL 3.4 9.9 - - - -
181K LEU* 3.6 25.1 - - + +
185K LEU* 1.3 72.3 - - - +
187K THR* 1.3 61.6 + - - +
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Residues in contact with THR 187 (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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166J LEU* 5.7 0.7 - - - -
184J THR* 5.7 6.5 - - + +
152K LEU* 3.8 19.5 - - + -
153K VAL 3.3 11.4 - - - +
154K LYS* 3.4 21.5 - - + +
178K PRO 4.5 0.7 - - - +
179K ALA* 3.2 5.1 - - - -
180K VAL* 2.9 44.2 + - + +
182K GLN* 3.1 37.6 + - - +
186K TYR* 1.3 73.9 + - - +
188K LEU* 1.3 64.1 + - - +
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Residues in contact with LEU 188 (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* 3.5 6.8 - - - +
153K VAL* 2.8 46.3 + - + +
156K TYR* 3.6 24.0 - - + +
159K GLU* 4.8 2.2 - - - +
161K VAL* 3.9 13.2 - - + +
163K VAL* 3.8 27.4 - - + -
176K THR* 3.8 16.2 - - + -
177K PHE 3.6 20.2 - - - +
178K PRO 4.9 2.0 - - - -
179K ALA* 4.2 12.8 - - + +
187K THR* 1.3 77.9 - - - +
189K SER* 1.3 68.7 + - - +
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Residues in contact with SER 189 (chain K).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
139J VAL* 5.1 1.8 - - - -
141J PHE* 4.0 14.6 - - - -
182J SER* 2.9 29.0 + - - -
903J CL 3.4 8.3 - - - +
135K LEU* 4.8 3.1 - - - -
151K CYS 3.2 11.7 - - - -
152K LEU* 4.3 12.8 - - - -
176K THR* 3.8 3.3 - - - +
177K PHE* 2.9 34.1 + - - +
188K LEU* 1.3 81.1 - - - +
190K SER* 1.3 60.5 + - - +
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Residues in contact with SER 190 (chain K).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
141J PHE* 3.7 5.4 - - - -
150K GLY* 3.1 6.4 - - - -
151K CYS* 3.0 32.3 + - - -
153K VAL* 6.2 0.2 - - - -
163K VAL* 3.7 19.5 - - - +
165K TRP* 2.9 30.8 + - - -
174K VAL* 4.0 2.4 - - - +
175K HIS 3.8 4.5 + - - -
176K THR* 2.8 29.2 + - - +
177K PHE* 4.7 0.2 - - - -
188K LEU* 4.7 0.6 - - - +
189K SER* 1.3 73.9 - - - +
191K SER* 1.3 60.3 + - - +
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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
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141J PHE* 3.8 18.2 - - - -
143J ASN* 3.1 21.9 + - - -
148K THR* 3.8 8.5 - - - +
149K LEU 3.5 5.4 - - - -
165K TRP* 4.4 1.1 - - - -
173K GLY 4.1 2.8 + - - -
174K VAL* 3.2 9.9 - - - +
175K HIS* 3.0 45.9 + - - -
177K PHE* 3.9 11.4 - - - -
190K SER* 1.3 74.7 - - - +
192K VAL* 1.3 62.2 + - - +
193K THR* 4.5 2.3 + - - -
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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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147K VAL 3.7 0.9 - - - +
148K THR* 3.3 3.5 - - - +
149K LEU* 2.8 49.7 + - + +
165K TRP* 3.6 38.1 - - + -
170K LEU* 3.9 27.1 - - + -
172K SER 5.0 0.7 - - - +
173K GLY 3.4 3.6 - - - +
174K VAL* 3.7 20.9 - - + -
191K SER* 1.3 75.1 + - - +
193K THR* 1.3 66.7 + - - +
194K VAL* 4.2 8.0 + - + -
204K VAL* 3.8 12.3 - - + -
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Residues in contact with THR 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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143J ASN* 5.0 3.3 + - - -
146K MET* 3.6 35.6 - - + +
147K VAL 3.4 4.5 - - - +
148K THR* 2.8 19.7 + - - +
170K LEU* 5.4 1.0 - - - +
172K SER 4.3 4.9 - - - +
173K GLY* 3.0 30.7 + - - -
191K SER* 4.5 2.8 + - - -
192K VAL* 1.3 73.4 - - - +
194K VAL* 1.3 66.6 + - - +
611K EDO 3.7 20.2 - - - +
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Residues in contact with VAL 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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146K MET* 3.5 6.3 - - - -
147K VAL* 2.7 52.0 + - + +
149K LEU* 4.5 4.0 - - + -
170K LEU* 3.9 37.7 - - + -
192K VAL* 4.2 7.6 - - + -
193K THR* 1.3 79.0 - - - +
195K PRO* 1.4 78.5 - - + +
198K PRO* 4.4 7.0 - - + -
199K ARG* 3.7 17.5 - - + -
204K VAL* 4.2 14.6 - - + -
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Residues in contact with PRO 195 (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 SER 3.4 11.0 - - - +
146K MET* 4.0 14.1 - - + -
147K VAL* 3.8 1.9 - - - +
194K VAL* 1.4 98.1 - - + +
196K SER* 1.3 60.4 + - - +
197K SER* 3.1 10.3 - - - +
198K PRO* 3.0 41.4 - - + +
199K ARG 3.8 1.0 + - - -
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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
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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