Contacts of the strand formed by residues 145 - 154 (chain A) in PDB entry 1Q90
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 LYS 145 (chain A).
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Specific contacts
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Residue Dist Surf HB Arom Phob DC
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37A GLN* 5.4 0.4 - - - +
144A LEU* 1.3 76.4 - - - +
146A TYR* 1.3 61.4 + - - +
147A PRO* 4.4 1.7 - - - +
243A GLU* 3.1 49.5 + - + +
244A ILE 3.5 4.3 - - - +
245A VAL* 4.0 22.4 - - + +
58D ASP* 2.6 40.3 + - - -
59D PRO* 3.2 24.7 + - + +
60D ALA 4.2 7.0 + - - +
61D ALA* 3.6 33.2 - - + +
62D MET 4.7 2.3 + - - +
3G GLU* 5.1 8.3 + - - -
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Residues in contact with TYR 146 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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78A PRO* 3.3 34.5 - - + -
79A GLU 5.5 3.1 - - - -
81A PHE* 4.2 14.1 - + - -
140A ASN 5.1 0.2 + - - -
141A VAL* 3.7 11.0 - - + -
142A SER 3.0 41.5 + - - -
144A LEU* 3.4 35.3 - - + +
145A LYS* 1.3 74.6 - - - +
147A PRO* 1.3 70.4 - - + +
243A GLU* 2.9 6.7 - - - +
244A ILE* 2.7 46.9 + - + +
246A LEU* 4.2 17.5 - - + -
61D ALA* 6.2 0.2 - - - -
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Residues in contact with PRO 147 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
76A ILE 4.5 0.5 - - - +
77A LEU 4.8 0.5 - - - -
78A PRO* 3.3 19.9 - - + +
145A LYS 4.4 2.9 - - - +
146A TYR* 1.3 92.3 - - + +
148A ILE* 1.3 70.0 + - - +
149A TYR* 3.6 37.2 - - + +
241A GLU* 4.6 6.5 - - - +
242A THR 3.2 9.9 - - - +
243A GLU* 4.0 6.1 - - + -
61D ALA* 6.3 0.9 - - + -
62D MET 5.5 7.4 - - - +
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Residues in contact with ILE 148 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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33A ILE* 4.1 13.0 - - + -
35A VAL* 4.1 25.4 - - + -
45A PHE* 5.0 6.7 - - + -
75A LEU* 3.2 33.0 - - + -
76A ILE 3.4 4.5 - - - +
77A LEU* 3.6 20.2 - - + -
78A PRO* 4.3 6.3 - - + -
81A PHE* 6.1 0.4 - - + -
130A ILE* 6.0 0.4 - - + -
146A TYR 4.6 0.4 - - - +
147A PRO* 1.3 82.6 - - - +
149A TYR* 1.3 61.5 + - - +
150A PHE* 4.0 0.9 + - - +
241A GLU* 3.4 4.3 - - - -
242A THR* 2.7 43.0 + - + +
243A GLU 4.7 0.2 - - - -
244A ILE* 3.9 30.5 - - + -
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Residues in contact with TYR 149 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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13A ARG* 3.3 57.2 + - - +
19A ILE* 5.0 5.4 - - + -
74A VAL 4.0 0.3 - - - +
75A LEU* 3.6 2.6 - - - +
76A ILE* 2.7 69.1 + - + +
147A PRO* 3.6 30.2 - - + +
148A ILE* 1.3 72.4 - - - +
150A PHE* 1.3 60.4 + - - +
240A ALA 3.7 3.8 - - - +
241A GLU* 3.6 37.8 + - + -
64D GLU* 4.2 13.7 - - - +
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Residues in contact with PHE 150 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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19A ILE* 4.8 4.4 - - - +
31A VAL* 4.0 27.8 - - + -
32A GLU 3.5 24.2 - - - -
33A ILE* 3.5 30.1 - - + -
49A ILE* 3.4 44.0 - - + -
50A GLU 4.6 2.2 - - - -
51A LEU* 4.2 6.5 - - + -
73A MET* 3.5 17.9 - - + -
74A VAL 3.7 6.5 - - - -
75A LEU* 4.4 5.4 - - + +
148A ILE 4.0 0.8 + - - -
149A TYR* 1.3 75.1 - - - +
151A GLY* 1.3 81.4 + - - +
152A GLY* 4.1 4.9 - - - -
239A GLN* 3.4 6.6 - - - +
240A ALA* 2.9 39.4 + - + +
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Residues in contact with GLY 151 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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19A ILE* 4.5 4.9 - - - +
21A CYS* 5.5 0.7 - - - -
73A MET* 3.2 8.5 - - - +
74A VAL* 2.7 47.5 + - - +
149A TYR 4.3 0.2 + - - -
150A PHE* 1.3 80.0 - - - +
152A GLY* 1.3 57.1 + - - -
237A PHE* 3.6 20.0 - - - -
238A GLY 3.8 1.1 - - - -
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Residues in contact with GLY 152 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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31A VAL* 3.8 4.4 - - - +
51A LEU* 4.2 7.2 - - - -
72A GLY 3.8 7.9 - - - -
73A MET* 4.4 0.4 - - - -
150A PHE* 4.1 14.7 - - - -
151A GLY* 1.3 74.8 - - - -
153A ASN* 1.3 59.3 + - - -
154A ARG* 3.7 4.8 + - - -
237A PHE* 2.8 7.3 - - - -
238A GLY* 2.7 45.2 + - - +
900A HEC 5.7 0.2 - - - -
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Residues in contact with ASN 153 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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21A CYS* 5.4 0.4 - - + -
25A HIS* 3.1 43.2 + - + +
51A LEU* 3.4 5.8 - - - +
71A VAL* 3.3 2.9 - - - -
72A GLY 3.0 35.2 + - - +
152A GLY* 1.3 73.8 - - - +
154A ARG* 1.3 83.8 + - - +
155A GLY 3.2 9.8 + - - +
236A GLY 3.2 18.5 + - - +
237A PHE* 4.0 13.7 - - + -
900A HEC 3.4 28.7 - - + +
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Residues in contact with ARG 154 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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29A LYS* 3.0 35.4 + - + +
30A ALA 3.2 12.1 + - - -
31A VAL* 3.5 12.5 - - - +
51A LEU* 3.1 36.9 - - - +
52A PRO 2.5 29.7 + - - -
53A TYR* 3.6 33.0 - - + -
69A LEU* 4.0 7.6 - - + -
70A ASN 3.2 7.6 - - - +
71A VAL* 3.2 24.0 - - + -
152A GLY 3.7 6.0 + - - -
153A ASN* 1.3 79.8 + - - +
155A GLY* 1.3 57.8 + - - +
235A GLY* 3.1 3.4 - - - -
236A GLY 2.9 52.0 + - - +
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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