Contacts of the strand formed by residues 74 - 87 (chain H) 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 H).
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Specific contacts
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Residue Dist Surf HB Arom Phob DC
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73G CYS* 5.2 0.5 - - - +
8H CYS* 2.0 46.7 - - + -
9H GLN 4.0 2.9 - - - -
37H CYS* 3.5 32.4 - - - +
38H LYS 3.8 12.3 - - - -
39H GLY 3.4 22.2 + - - +
41H CYS* 3.8 5.6 - - - -
72H ALA 4.1 0.2 + - - -
73H CYS* 1.3 78.0 - - - +
75H VAL* 1.3 62.7 + - - +
107H CYS* 4.6 4.0 - - - -
108H GLY 3.3 5.2 - - - -
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Residues in contact with VAL 75 (chain H).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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73G CYS* 3.9 15.5 - - + -
75G VAL* 3.3 36.1 - - + -
110G ARG* 4.3 13.7 - - + +
37H CYS* 3.5 7.5 - - - -
73H CYS* 4.0 4.9 - - + +
74H CYS* 1.3 77.8 - - - +
76H PRO* 1.3 78.9 - - + +
77H THR* 3.3 2.0 + - + -
108H GLY 2.9 31.3 + - - +
110H ARG* 3.7 32.8 - - + -
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Residues in contact with PRO 76 (chain H).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
52G THR* 6.1 0.2 - - - +
54G HIS* 4.4 12.1 - - + +
58G GLN* 5.4 1.3 - - - +
110G ARG* 3.3 39.9 - - + +
37H CYS* 3.4 21.3 - - + -
75H VAL* 1.3 93.5 - - + +
77H THR* 1.3 60.0 + - - +
78H LYS 3.6 0.7 - - - -
79H LEU* 4.1 21.2 - - + +
104H VAL* 4.0 25.1 - - + -
106H GLU 3.6 3.6 - - - +
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Residues in contact with THR 77 (chain H).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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50H THR* 4.9 2.3 + - - -
75H VAL* 3.5 8.7 - - + +
76H PRO* 1.3 74.2 - - - +
78H LYS* 1.3 60.8 + - - +
79H LEU* 5.7 0.7 - - - -
106H GLU* 2.8 28.3 + - - +
107H CYS 3.3 8.5 + - - +
108H GLY* 3.3 34.5 - - - +
110H ARG* 3.5 33.9 + - + +
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Residues in contact with LYS 78 (chain H).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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76H PRO 3.6 0.2 - - - -
77H THR* 1.3 81.7 + - - +
79H LEU* 1.3 73.2 + - - +
80H SER* 6.1 0.4 - - - -
104H VAL* 4.0 0.5 - - - +
105H ALA* 2.8 41.6 + - + +
106H GLU* 3.4 41.8 + - + +
34L GLU* 6.4 0.2 - - - +
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Residues in contact with LEU 79 (chain H).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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52G THR* 4.0 35.4 - - + +
54G HIS* 4.3 12.8 - - + -
76H PRO* 4.1 20.0 - - + +
77H THR 5.7 0.2 - - - -
78H LYS* 1.3 88.0 - - - +
80H SER* 1.3 63.0 + - - +
81H PRO* 4.0 2.8 - - - +
100H GLU* 4.2 7.3 - - - +
101H GLY* 3.8 24.8 + - - +
103H SER 3.1 24.7 - - - +
104H VAL* 3.7 6.1 - - + -
105H ALA* 4.4 1.3 - - - -
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Residues in contact with SER 80 (chain H).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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78H LYS* 6.1 0.5 - - - -
79H LEU* 1.3 72.8 - - - +
81H PRO* 1.3 74.8 - - - +
101H GLY 4.2 1.3 - - - -
102H MET 3.1 7.6 + - - -
103H SER* 3.0 43.7 + - - -
104H VAL 5.3 0.4 - - - -
105H ALA* 4.1 18.0 - - - +
34L GLU* 4.2 19.0 - - - +
37L LYS* 5.4 2.9 - - - +
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Residues in contact with PRO 81 (chain H).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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79H LEU 4.2 1.6 - - - +
80H SER* 1.3 94.1 - - - +
82H ILE* 1.3 67.5 + - - +
98H HIS* 4.0 22.0 - - + +
99H TYR 3.1 28.9 - - - +
100H GLU* 3.4 24.7 - - - +
101H GLY 4.1 2.0 - - - +
102H MET 4.6 0.4 - - - +
103H SER* 5.2 0.2 - - - -
34L GLU* 6.0 4.3 - - + -
61L LEU* 3.4 24.0 - - + +
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Residues in contact with ILE 82 (chain H).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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17H PHE* 4.7 2.5 - - + -
29H PRO* 5.5 1.6 - - + -
32H TYR* 3.6 47.3 - - + -
33H GLU 5.3 0.7 - - - +
81H PRO* 1.3 81.0 - - - +
83H SER* 1.3 62.8 + - - +
84H VAL* 3.9 20.0 - - + -
97H TYR 3.4 5.1 - - - +
99H TYR* 3.0 32.8 + - + +
102H MET* 3.8 31.2 - - + +
103H SER* 4.2 16.8 - - - -
61L LEU* 4.0 9.9 - - + +
62L ASP 5.2 9.0 - - - +
63L ASP* 6.4 1.3 - - + -
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Residues in contact with SER 83 (chain H).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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29H PRO* 3.8 4.3 - - - +
82H ILE* 1.3 74.1 - - - +
84H VAL* 1.3 70.6 + - - +
95H LEU* 4.5 0.9 - - - -
96H LYS 3.4 6.5 - - - -
97H TYR* 2.7 39.9 + - - -
60L TRP* 3.3 42.8 - - - -
61L LEU* 3.4 23.8 + - - +
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Residues in contact with VAL 84 (chain H).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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17H PHE* 5.0 7.2 - - + -
25H TRP* 5.3 1.1 - - + -
26H ILE* 4.5 18.2 - - + -
28H ALA 3.4 10.8 - - - +
29H PRO* 4.3 6.3 - - + -
82H ILE* 3.9 18.8 - - + -
83H SER* 1.3 83.1 - - - +
85H LEU* 1.3 59.5 + - - +
86H TYR* 4.0 16.5 + - + -
94H THR 3.9 0.3 - - - +
95H LEU* 3.1 8.8 - - - +
96H LYS* 2.9 38.6 + - + +
99H TYR* 3.9 36.3 - - + -
60L TRP* 3.8 1.6 - - - -
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Residues in contact with LEU 85 (chain H).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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26H ILE* 3.8 1.0 - - - -
27H ILE* 2.7 51.5 + - + +
28H ALA* 3.0 21.6 + - + +
84H VAL* 1.3 71.3 - - - +
86H TYR* 1.3 55.0 + - - +
93H PRO* 4.1 8.7 - - + -
94H THR* 3.0 31.2 - - - +
95H LEU* 4.3 9.6 - - + +
42L TYR* 5.0 5.8 - - + -
44L SER* 4.0 20.0 - - - +
56L LYS* 4.4 10.1 - - + -
60L TRP* 3.9 9.1 - - + -
81L VAL* 4.7 7.4 - - + -
83L PHE* 3.9 24.5 - - + -
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Residues in contact with TYR 86 (chain H).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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25H TRP* 3.0 43.5 - + + +
26H ILE* 4.3 4.9 - - + -
27H ILE* 3.8 6.5 - - - -
84H VAL* 4.1 16.8 - - + -
85H LEU* 1.3 75.0 - - - +
87H LYS* 1.3 75.6 + - - +
88H ASP* 4.4 3.4 - - - -
92H VAL 3.3 0.3 - - - +
94H THR* 2.9 58.9 + - - -
95H LEU 4.3 0.9 - - - -
96H LYS* 3.8 25.7 - - + +
78I ARG* 4.2 12.1 - - - -
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Residues in contact with LYS 87 (chain H).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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23H ASP 5.1 4.0 + - - -
24H SER 4.1 21.6 + - - +
25H TRP* 2.9 18.1 + - + +
27H ILE* 3.8 20.3 - - + +
86H TYR* 1.3 79.6 - - - +
88H ASP* 1.3 70.1 + - - +
91H GLY* 4.2 20.9 - - - +
92H VAL 3.8 4.9 - - - -
93H PRO* 5.3 0.9 - - + -
78I ARG* 2.9 20.8 + - - +
80L GLN* 3.9 28.0 + - - +
81L VAL* 6.3 0.7 - - - -
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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