Contacts of the strand formed by residues 192 - 201 (chain K) in PDB entry 4G7H
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 LEU 192 (chain K).
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Specific contacts
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Residue Dist Surf HB Arom Phob DC
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6K LEU* 4.3 16.6 - - + -
27K PRO* 3.4 30.1 - - + -
28K LEU 3.7 11.4 - - - +
29K GLU* 4.4 21.1 - - - +
30K ARG* 4.4 2.7 - - + +
183K ASP* 3.1 0.5 - - - +
184K THR* 3.0 42.1 + - + +
186K LEU* 4.2 17.3 - - + +
189K ARG* 4.4 21.5 - - + +
190K THR 3.1 12.7 + - - +
191K ASP* 1.3 80.9 - - - +
193K ASP* 1.3 61.1 + - - +
938M LYS* 3.0 12.5 + - - -
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Residues in contact with ASP 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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25K LEU 4.3 0.2 - - - +
27K PRO* 3.9 2.1 - - - +
28K LEU* 2.8 47.0 + - + +
29K GLU 4.0 3.8 - - - +
30K ARG* 3.9 2.0 - - - -
31K GLY* 2.5 38.2 + - - -
33K GLY* 3.3 22.6 + - - +
34K VAL* 5.1 0.3 + - - +
181K VAL* 4.0 13.1 - - + +
182K GLU 3.7 2.2 - - - -
184K THR* 4.2 3.6 - - - -
192K LEU* 1.3 71.0 - - - +
194K LYS* 1.3 59.5 + - - +
938M LYS* 2.2 43.1 + - - +
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Residues in contact with LYS 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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14K ARG* 5.6 5.8 - - - +
24K VAL* 3.8 24.7 - - + -
25K LEU 3.9 3.4 - - - -
26K GLU* 3.8 39.3 + - + +
180K GLN 3.5 1.4 - - - +
181K VAL* 3.4 6.2 - - - -
182K GLU* 2.8 68.5 + - + +
183K ASP 4.8 2.7 - - - +
184K THR* 4.2 8.5 - - - +
193K ASP* 1.3 74.7 - - - +
195K LEU* 1.3 60.7 + - - +
196K THR* 4.2 7.2 + - - +
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Residues in contact with LEU 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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23K PHE 3.6 1.4 - - - +
24K VAL* 3.3 5.2 - - - +
25K LEU* 2.9 41.9 + - + +
28K LEU* 3.7 21.8 - - + -
33K GLY* 3.5 32.5 - - - +
36K LEU* 4.1 13.7 - - + -
37K GLY* 4.1 14.6 - - - +
179K PHE* 3.8 24.2 - - + -
180K GLN 3.5 10.1 - - - +
181K VAL* 4.3 1.3 - - + +
193K ASP 4.1 0.6 + - - -
194K LYS* 1.3 72.1 - - - +
196K THR* 1.3 71.8 + - - +
197K LEU* 4.7 10.5 - - + +
225L PHE* 4.9 10.1 - - + -
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Residues in contact with THR 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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14K ARG* 4.3 4.7 - - - +
22K GLU* 4.5 4.7 - - + -
23K PHE 3.4 10.1 - - - +
24K VAL* 3.7 30.1 - - + +
179K PHE* 3.1 7.1 - - - -
180K GLN* 2.9 40.2 + - - +
182K GLU* 4.0 15.1 + - - -
194K LYS* 4.2 6.4 + - - +
195K LEU* 1.3 77.5 + - - +
197K LEU* 1.3 62.4 + - - +
198K ARG* 3.6 3.0 + - + +
934M PHE* 3.7 34.2 - - + -
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Residues in contact with LEU 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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22K GLU* 3.4 0.6 - - - -
23K PHE* 2.9 53.4 + - + +
37K GLY* 4.0 17.7 - - - +
40K LEU* 3.7 33.7 - - + -
44K LEU* 4.9 5.2 - - + -
177K VAL* 4.5 13.7 - - + -
178K ALA 3.7 5.4 - - - +
179K PHE* 3.6 22.4 - - + -
195K LEU* 4.2 12.1 - - + +
196K THR* 1.3 69.9 - - - +
198K ARG* 1.3 61.3 + - - +
199K ILE* 4.6 4.5 - - + -
211K LEU* 3.7 19.7 - - + -
225L PHE* 4.5 11.0 - - + -
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Residues in contact with ARG 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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20K TYR* 3.1 29.7 + - - +
21K GLY 3.4 5.8 - - - -
22K GLU* 4.6 3.3 + - + +
177K VAL* 3.4 5.0 - - - +
178K ALA* 2.9 46.2 + - - +
180K GLN* 5.3 9.6 + - - +
196K THR* 4.2 7.0 - - + +
197K LEU* 1.3 73.0 - - - +
199K ILE* 1.3 60.7 + - - +
200K TRP* 3.7 37.6 - - + -
863M ASP* 4.6 19.6 - - - +
929M ARG* 5.8 4.0 - - - +
932M GLU* 3.2 36.4 + - - +
934M PHE* 3.5 39.2 - - + -
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Residues in contact with ILE 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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20K TYR* 3.3 5.8 - - - -
21K GLY 2.9 36.6 + - - +
23K PHE* 4.4 9.2 - - + -
44K LEU* 3.6 36.1 - - + -
174K VAL* 4.8 8.1 - - + -
176K ARG 3.5 5.2 - - - +
177K VAL* 4.5 4.9 - - + -
197K LEU* 4.5 13.2 - - + +
198K ARG* 1.3 79.2 - - - +
200K TRP* 1.3 66.8 - - - +
201K THR* 3.7 17.5 - - - +
207K PRO* 3.6 33.9 - - + +
210K ALA* 4.6 6.5 - - + -
211K LEU* 4.1 13.2 - - + -
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Residues in contact with TRP 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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19K GLU* 3.4 6.3 - - + +
20K TYR* 3.3 32.6 - + + -
174K VAL* 3.8 4.9 - - - +
175K ARG* 2.9 26.8 + - + -
176K ARG* 2.9 83.5 + - + +
178K ALA* 4.2 7.4 - - + -
198K ARG* 3.7 58.8 - - + -
199K ILE* 1.3 73.4 - - - +
201K THR* 1.3 63.8 + - - +
863M ASP 4.3 1.6 - - - -
932M GLU* 6.0 0.2 - - - -
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Residues in contact with THR 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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18K ARG 4.3 0.2 - - - -
19K GLU* 2.6 31.0 + - - +
173K PRO* 3.1 32.3 - - + +
174K VAL* 4.3 4.0 - - + +
175K ARG* 4.0 10.4 - - - +
199K ILE* 3.7 10.0 - - - +
200K TRP* 1.3 76.6 + - - +
202K ASP* 1.3 67.9 + - - +
203K GLY 3.2 3.5 + - - -
205K VAL* 3.0 35.7 - - + +
207K PRO* 3.6 20.7 - - - +
210K ALA* 4.9 1.6 - - - +
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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