Contacts of the strand formed by residues 74 - 87 (chain N) in PDB entry 4FAO
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 CYS 74 (chain N).
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Specific contacts
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Residue Dist Surf HB Arom Phob DC
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73M CYS* 5.1 0.3 - - - +
8N CYS* 2.0 46.2 - - + -
9N GLN 4.0 3.1 - - - -
37N CYS* 3.5 33.6 - - - +
38N LYS 3.9 11.4 - - - -
39N GLY 3.4 21.9 + - - +
41N CYS* 3.8 4.5 - - - -
73N CYS* 1.3 78.0 - - - +
75N VAL* 1.3 64.2 + - - +
76N PRO* 4.8 0.2 - - - +
107N CYS* 4.5 4.5 - - - -
108N GLY 3.2 5.2 - - - -
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Residues in contact with VAL 75 (chain N).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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73M CYS* 3.7 17.5 - - + -
75M VAL* 3.1 39.3 - - + -
110M ARG* 4.4 10.1 - - + +
37N CYS* 3.5 5.1 - - - -
73N CYS* 4.1 3.8 - - + +
74N CYS* 1.3 79.7 - - - +
76N PRO* 1.3 81.2 - - + +
77N THR* 3.3 3.1 + - + -
107N CYS* 3.5 1.9 - - - -
108N GLY 2.9 30.6 + - - +
110N ARG* 3.8 29.4 - - + -
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Residues in contact with PRO 76 (chain N).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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54M HIS* 4.4 11.2 - - + +
58M GLN* 5.4 1.6 - - - +
110M ARG* 3.4 41.4 - - + +
37N CYS* 3.4 21.9 - - + +
75N VAL* 1.3 93.9 - - + +
77N THR* 1.3 60.4 + - - +
78N LYS 3.7 0.4 - - - -
79N LEU* 4.0 19.7 - - + +
104N VAL* 4.0 27.8 - - + -
106N GLU 3.6 2.9 - - - +
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Residues in contact with THR 77 (chain N).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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50N THR* 4.9 2.3 + - - -
75N VAL* 3.5 9.6 - - + +
76N PRO* 1.3 73.6 - - - +
78N LYS* 1.3 60.1 + - - +
79N LEU* 5.7 0.2 - - - -
106N GLU* 2.8 27.7 + - - +
107N CYS 3.2 9.2 + - - -
108N GLY* 3.3 33.9 - - - +
110N ARG* 3.5 33.3 + - - +
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Residues in contact with LYS 78 (chain N).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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77N THR* 1.3 81.2 + - - +
79N LEU* 1.3 67.9 + - - +
104N VAL* 4.0 0.7 - - - +
105N ALA* 2.8 40.8 + - + +
106N GLU* 3.3 27.1 + - + +
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Residues in contact with LEU 79 (chain N).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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52M THR* 3.8 37.0 - - + +
54M HIS* 4.2 13.9 - - + -
76N PRO* 4.0 20.4 - - + +
77N THR 5.7 0.4 - - - -
78N LYS* 1.3 83.1 - - - +
80N SER* 1.3 60.9 + - - +
81N PRO* 4.0 2.9 - - - +
100N GLU* 4.3 7.4 - - - +
101N GLY* 3.8 24.1 + - - +
103N SER 3.2 23.6 - - - +
104N VAL* 3.8 6.5 - - + -
105N ALA* 4.4 1.6 - - - -
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Residues in contact with SER 80 (chain N).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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79N LEU* 1.3 73.6 - - - +
81N PRO* 1.3 75.1 - - - +
101N GLY 4.2 2.0 - - - -
102N MET 3.1 6.4 + - - -
103N SER* 3.0 42.9 + - - -
104N VAL 5.3 0.9 - - - -
105N ALA* 4.0 17.1 - - - +
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Residues in contact with PRO 81 (chain N).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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79N LEU 4.2 1.3 - - - +
80N SER* 1.3 94.2 - - - +
82N ILE* 1.3 66.9 + - - +
97N TYR 5.4 0.7 - - - +
98N HIS* 4.1 27.4 - - + +
99N TYR 3.1 29.4 - - - +
100N GLU* 3.4 24.2 - - - +
101N GLY 4.0 2.0 - - - +
102N MET 4.5 0.4 - - - +
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Residues in contact with ILE 82 (chain N).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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17N PHE* 4.7 2.0 - - + -
29N PRO* 5.4 1.6 - - + -
32N TYR* 3.6 43.1 - - + -
33N GLU 5.2 0.4 - - - +
81N PRO* 1.3 80.8 - - - +
83N SER* 1.3 62.6 + - - +
84N VAL* 3.9 20.6 - - + -
97N TYR 3.3 4.3 - - - +
99N TYR* 3.0 33.4 + - + +
102N MET* 3.8 29.8 - - + +
103N SER* 4.1 22.4 - - - -
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Residues in contact with SER 83 (chain N).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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29N PRO* 3.8 12.6 - - - +
82N ILE* 1.3 76.4 - - - +
84N VAL* 1.3 69.0 + - - +
95N LEU* 4.4 6.3 - - - -
96N LYS 3.4 6.7 - - - -
97N TYR* 2.7 44.7 + - - -
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Residues in contact with VAL 84 (chain N).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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17N PHE* 5.0 7.2 - - + -
25N TRP* 5.4 0.9 - - + -
26N ILE* 4.5 19.7 - - + -
28N ALA 3.3 12.8 - - - +
29N PRO* 4.3 5.4 - - + -
82N ILE* 3.9 23.3 - - + -
83N SER* 1.3 82.3 - - - +
85N LEU* 1.3 59.3 + - - +
86N TYR* 3.9 16.9 + - + -
94N THR 3.9 0.5 - - - +
95N LEU* 3.2 7.9 - - - +
96N LYS* 2.9 35.8 + - + +
99N TYR* 3.9 28.9 - - + -
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Residues in contact with LEU 85 (chain N).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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26N ILE* 3.8 0.5 - - - -
27N ILE* 2.7 53.0 + - + +
28N ALA* 2.9 25.3 + - + +
84N VAL* 1.3 73.1 - - - +
86N TYR* 1.3 53.7 + - - +
93N PRO* 4.0 13.5 - - + +
94N THR 3.0 33.2 - - - +
95N LEU* 4.3 10.5 - - + +
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Residues in contact with TYR 86 (chain N).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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25N TRP* 2.9 44.6 - + + +
26N ILE* 4.2 5.2 - - + -
27N ILE* 3.8 7.6 - - - -
84N VAL* 4.0 16.6 - - + -
85N LEU* 1.3 75.2 - - - +
87N LYS* 1.3 76.5 + - - +
88N ASP* 3.5 6.5 + - - -
89N ASP 5.7 0.2 - - - -
92N VAL 3.4 0.3 - - - +
93N PRO* 3.6 0.3 - - - +
94N THR* 2.9 60.4 + - - -
95N LEU 4.4 0.7 - - - -
96N LYS* 3.9 22.6 - - + +
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Residues in contact with LYS 87 (chain N).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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24N SER 4.9 3.6 - - - +
25N TRP* 2.9 30.0 + - + +
27N ILE* 3.9 13.0 - - + +
86N TYR* 1.3 81.9 - - - +
88N ASP* 1.3 72.3 + - - +
91N GLY* 4.2 14.6 - - - -
92N VAL 3.9 4.5 - - - -
93N PRO 4.8 0.2 - - - -
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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