Contacts of the strand formed by residues 144 - 152 (chain B) in PDB entry 6MZL
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 144 (chain B).
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Specific contacts
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Residue Dist Surf HB Arom Phob DC
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51B LEU 3.6 1.2 - - - +
52B THR* 3.6 5.5 - - - +
53B ILE* 2.9 47.3 + - + +
55B PRO* 4.7 8.0 - - + +
77B ILE* 3.9 25.4 - - + -
78B ASN* 3.3 26.2 - - - +
130B VAL* 5.8 5.6 - - + -
134B LEU* 5.1 16.4 - - + +
137B HIS* 5.7 6.1 - - + -
138B VAL* 5.1 15.9 - - + -
141B LEU 5.2 5.4 - - - +
143B VAL* 1.3 87.9 - - - +
145B LYS* 1.3 69.3 + - - +
146B ILE* 5.3 0.7 - - + -
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Residues in contact with LYS 145 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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50B GLU* 5.9 5.8 - - + +
51B LEU 3.1 9.2 - - - +
52B THR* 5.3 11.4 - - + +
77B ILE* 3.3 27.7 - - - +
78B ASN* 4.0 21.9 + - - +
143B VAL* 6.4 0.9 - - + -
144B LEU* 1.3 77.6 - - - +
146B ILE* 1.3 65.1 + - - +
147B HIS 4.3 0.2 - - - -
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Residues in contact with ILE 146 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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49B VAL 3.2 1.4 - - - +
50B GLU* 2.6 37.0 - - - -
51B LEU* 2.8 42.7 + - + +
53B ILE* 4.1 28.0 - - + -
63B ILE* 5.3 13.2 - - + -
65B LEU* 5.6 4.3 - - + -
75B VAL* 5.1 3.8 - - + -
76B ARG 3.7 7.4 - - - +
77B ILE* 4.0 20.4 - - + -
128B ILE* 5.8 6.1 - - + -
144B LEU* 5.3 0.7 - - + -
145B LYS* 1.3 80.2 - - - +
147B HIS* 1.3 54.9 + - - +
148B ILE* 3.8 28.3 - - + -
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Residues in contact with HIS 147 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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48B PHE* 3.4 41.9 - + + +
49B VAL 3.2 3.9 + - - -
50B GLU* 2.9 29.5 + - + +
74B ARG* 3.5 19.4 + - - -
75B VAL 3.6 0.5 - - - -
76B ARG* 2.8 86.6 + - - +
78B ASN 5.8 1.3 - - - +
145B LYS 4.3 0.4 - - - -
146B ILE* 1.3 72.5 - - - +
148B ILE* 1.3 61.1 + - - +
149B ASN* 4.3 4.3 + - - +
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Residues in contact with ILE 148 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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48B PHE* 2.9 8.3 - - - -
49B VAL* 2.8 53.2 + - + -
51B LEU* 4.9 3.6 - - + -
65B LEU* 5.3 10.5 - - + -
72B ILE* 3.7 17.7 - - + -
74B ARG 3.4 12.1 - - - +
75B VAL* 3.8 22.0 - - + -
126B LEU* 6.5 0.9 - - + -
128B ILE* 6.5 0.2 - - + -
146B ILE* 3.8 21.3 - - + -
147B HIS* 1.3 80.9 - - - +
149B ASN* 1.3 67.7 + - - +
150B PHE* 3.3 17.7 - - + -
191B PRO* 5.4 7.2 - - + -
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Residues in contact with ASN 149 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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46B VAL* 5.3 2.4 - - - +
47B GLY 3.4 13.9 + - - +
48B PHE* 4.3 7.4 - - + +
72B ILE* 3.3 2.8 - - - +
73B TYR* 2.7 47.5 + - - +
74B ARG* 2.9 41.4 + - + +
147B HIS* 4.2 4.7 + - - +
148B ILE* 1.3 71.2 - - - +
150B PHE* 1.3 71.0 + - - +
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Residues in contact with PHE 150 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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33B VAL* 5.3 7.6 - - + -
46B VAL* 3.7 0.7 - - - +
47B GLY* 2.8 51.2 + - - +
48B PHE 4.5 0.7 - - - -
49B VAL* 3.5 30.7 - - + -
70B CYS* 5.4 5.8 - - + -
71B ARG 3.7 0.9 - - - +
72B ILE* 3.7 26.5 - - + -
73B TYR* 3.5 11.0 - - - +
148B ILE* 3.3 26.2 - - + -
149B ASN* 1.3 82.8 + - - +
151B SER* 1.3 69.2 + - - +
152B LEU* 4.9 9.6 - - + -
189B TRP 5.0 3.1 - - - -
190B PHE* 4.2 21.5 - + + -
191B PRO* 4.1 20.9 - - + -
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Residues in contact with SER 151 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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44B SER* 4.9 2.2 - - - -
45B VAL 3.3 12.1 - - - -
46B VAL* 3.9 9.0 - - - -
70B CYS* 4.5 1.5 - - - -
71B ARG* 3.1 28.2 + - - +
73B TYR* 3.1 42.8 + - - -
150B PHE* 1.3 80.7 - - - +
152B LEU* 1.3 66.1 + - - +
153B ASP* 3.6 11.5 + - - +
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Residues in contact with LEU 152 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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44B SER* 2.2 30.2 + - - -
45B VAL* 2.8 37.3 + - + +
69B GLN* 3.9 9.9 - - + +
70B CYS* 3.7 24.5 - - - -
150B PHE* 4.9 10.5 - - + -
151B SER* 1.3 70.9 - - - +
153B ASP* 1.3 57.9 - - - +
155B PRO* 5.6 6.7 - - + -
159B LEU* 3.8 17.7 - - + -
188B PHE 4.2 9.4 - - - +
189B TRP* 3.3 49.4 - - + +
190B PHE* 5.7 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