Contacts of the strand formed by residues 207 - 215 (chain K) in PDB entry 1BTH
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 TRP 207 (chain K).
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Specific contacts
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Residue Dist Surf HB Arom Phob DC
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2J GLY* 3.1 30.4 + - - +
4J ARG* 3.2 28.1 - - - +
8J GLU* 3.0 25.1 + - - -
14J ASP* 3.7 36.1 - - + -
29K TRP* 3.5 32.5 - + + -
121K VAL* 4.2 3.7 - - + +
122K CYS* 3.2 27.0 + - - +
137K ARG* 3.2 33.2 - - - -
200K VAL* 3.5 30.1 - - + -
201K MET 3.5 5.4 - - - -
202K LYS* 3.7 39.9 - - + +
205K ASN 4.4 0.2 - - - -
206K ARG* 1.3 73.8 - - - +
208K TYR* 1.3 59.5 + - - +
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Residues in contact with TYR 208 (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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1J CYS* 5.4 0.7 - - - -
121K VAL* 4.7 0.4 - - - -
122K CYS* 3.4 27.7 - - + -
123K LEU 3.4 23.1 - - - -
124K PRO* 3.9 7.0 - - + -
125K ASP* 4.6 6.0 + - - -
128K THR* 3.8 26.8 + - + -
129K LEU* 4.9 1.1 - - - +
200K VAL* 3.0 7.9 - - - +
201K MET* 2.9 36.4 + - + +
203K SER* 3.9 10.1 - - - -
204K ASN* 2.8 33.2 - + + -
206K ARG* 3.4 34.0 - - + -
207K TRP* 1.3 73.2 - - - +
209K GLN* 1.3 61.5 + - - +
210K MET* 3.7 19.4 + - - +
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Residues in contact with GLN 209 (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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45K SER* 3.2 28.9 + - - -
47K ILE* 4.5 1.7 - - - +
53K LEU* 4.4 17.0 + - - +
121K VAL* 3.7 11.3 - - + +
122K CYS 2.9 16.8 + - - +
123K LEU* 4.7 5.4 - - + -
124K PRO* 3.1 23.5 - - - +
196K GLY 4.9 1.8 + - - -
197K GLY 4.5 0.6 + - - -
198K PRO* 3.5 26.1 - - + +
199K PHE 3.7 5.2 - - - +
200K VAL* 4.0 7.6 - - + -
208K TYR* 1.3 71.3 - - - +
210K MET* 1.3 60.7 + - - +
211K GLY 3.2 26.5 + - - +
212K ILE* 3.6 19.1 - - - +
231K VAL* 3.7 10.3 - - + +
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Residues in contact with MET 210 (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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124K PRO* 3.8 30.5 - - + -
128K THR* 4.1 9.0 - - - +
129K LEU* 3.9 13.7 - - + +
130K LEU* 3.5 45.5 - - + +
181K PHE* 3.5 9.7 - - + -
199K PHE* 2.8 15.9 + - + +
201K MET* 3.5 37.0 - - + +
208K TYR* 4.1 17.7 - - - +
209K GLN* 1.3 73.7 - - - +
211K GLY* 1.3 59.5 + - - +
230K HIS* 3.9 2.6 + - - -
231K VAL* 3.0 26.1 + - - +
232K PHE* 4.4 3.4 + - + -
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Residues in contact with GLY 211 (chain K).
Click here for Legend to table.
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Specific contacts
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Residue Dist Surf HB Arom Phob DC
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181K PHE* 3.6 15.2 - - - -
199K PHE* 2.8 34.5 + - - +
209K GLN* 3.2 13.2 + - - +
210K MET* 1.3 82.0 - - - +
212K ILE* 1.3 63.6 + - - -
228K TYR* 4.2 0.7 - - - -
229K THR 3.1 11.7 - - - -
231K VAL* 4.0 1.6 - - - -
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Residues in contact with ILE 212 (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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53K LEU* 4.0 14.1 - - + -
54K THR 3.9 9.6 - - - +
55K ALA* 4.1 12.1 - - + +
102K ASP 4.4 6.5 - - - +
103K ILE* 3.8 30.1 - - + -
196K GLY* 3.5 32.5 - - - +
197K GLY 3.4 4.5 - - - -
209K GLN* 3.6 18.4 - - - +
211K GLY* 1.3 74.1 - - - -
213K VAL* 1.3 72.0 + - - +
214K SER* 3.2 1.4 + - - -
228K TYR* 3.1 6.3 - - - +
229K THR* 3.1 33.0 + - - +
231K VAL* 3.9 13.7 - - + -
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Residues in contact with VAL 213 (chain K).
Click here for Legend to table.
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Specific contacts
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Residue Dist Surf HB Arom Phob DC
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55K ALA* 4.0 3.5 - - - +
138K VAL* 3.8 25.6 - - + -
139K THR 5.1 0.7 - - - +
190K ALA* 3.4 26.9 - - + -
194K ASP* 3.4 27.1 - - + +
195K SER* 3.9 2.2 - - - -
196K GLY 3.0 19.3 + - - -
197K GLY* 2.8 28.0 + - - +
198K PRO 4.7 1.1 - - - +
211K GLY 4.3 0.2 - - - -
212K ILE* 1.3 75.5 - - - +
214K SER* 1.3 61.8 + - - +
215K TRP 6.1 0.2 - - - +
227K PHE 5.2 0.7 - - - +
228K TYR* 3.7 18.7 - - + -
15Q LYS* 4.1 17.9 - - + -
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Residues in contact with SER 214 (chain K).
Click here for Legend to table.
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Specific contacts
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Residue Dist Surf HB Arom Phob DC
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57K HIS* 3.3 8.3 - - - -
99K LEU 4.7 0.9 + - - -
102K ASP* 2.6 35.8 + - - +
180K MET* 6.4 0.4 - - - -
195K SER* 3.3 5.7 + - - -
212K ILE 3.2 6.0 + - - -
213K VAL* 1.3 78.4 - - - +
215K TRP* 1.3 76.4 + - - +
227K PHE 3.1 20.6 + - - -
228K TYR* 4.2 3.8 - - - -
229K THR* 4.3 7.6 - - - -
14Q CYS* 3.5 0.5 - - - -
15Q LYS* 3.1 24.7 + - - -
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Residues in contact with TRP 215 (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 LEU* 4.1 26.5 + - + +
172K THR* 3.8 22.9 - - + -
174K ILE* 3.5 39.9 - - + -
176K ILE* 4.2 4.7 - - + -
180K MET* 3.9 22.2 - - - +
213K VAL* 5.2 0.5 - - - +
214K SER* 1.3 98.8 - - - +
216K GLY* 1.3 75.5 + - - +
217K GLU* 4.7 5.4 - - + -
226K GLY* 3.5 3.1 - - - -
227K PHE* 2.8 82.1 + + + +
13Q PRO* 3.1 28.7 - - + +
14Q CYS* 3.8 8.1 - - - +
15Q LYS* 4.1 8.9 - - - +
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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