Contacts of the strand formed by residues 150 - 158 (chain B) in PDB entry 4X2Q
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 TYR 150 (chain B).
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Specific contacts
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Residue Dist Surf HB Arom Phob DC
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285A TYR* 5.3 0.7 + - - -
289A GLN* 5.3 2.3 + - - -
452A TRP* 5.3 7.4 - + - -
455A CYS* 3.5 41.4 - - + +
456A TYR 4.9 6.2 + - - -
144B ILE 5.6 0.2 - - - +
145B PRO* 6.0 0.5 - - - +
146B VAL* 4.2 12.5 + - + +
147B ASP 3.5 22.7 - - - +
148B GLY* 2.7 11.7 + - - +
149B ASP* 1.3 83.1 - - - +
151B PHE* 1.3 62.8 + - - +
152B THR* 4.6 13.0 - - + -
492B THR* 4.7 5.6 - - - -
493B VAL 3.3 15.9 - - - +
494B LYS* 3.7 17.9 - - + +
495B ILE* 3.6 13.4 - - - +
498B LYS* 3.9 12.0 - - - +
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Residues in contact with PHE 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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143B THR* 3.9 25.8 - - + -
144B ILE 4.9 5.8 - - - -
150B TYR* 1.3 76.3 - - - +
152B THR* 1.3 64.6 + - - +
153B PHE* 3.4 30.3 - + - -
491B VAL 4.0 0.3 - - - +
492B THR* 3.6 0.5 - - - -
493B VAL* 2.8 46.8 + - + +
495B ILE* 4.3 19.5 - - + -
153C PHE* 3.5 43.3 - + - -
155C ARG* 4.8 23.8 - - + +
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Residues in contact with THR 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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143B THR* 3.6 4.3 - - - -
144B ILE* 2.9 42.3 + - - +
146B VAL* 3.3 39.1 - - + +
150B TYR* 4.6 5.2 - - + -
151B PHE* 1.3 81.7 - - - +
153B PHE* 1.3 59.0 + - - +
490B THR* 4.8 5.9 + - - -
491B VAL 3.2 9.4 - - - -
492B THR* 3.4 32.1 - - + -
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Residues in contact with PHE 153 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
440A LEU* 5.4 8.5 - - + -
443A SER* 5.8 2.0 - - - -
142B MET 3.3 10.8 - - - +
143B THR* 4.0 16.2 - - + -
151B PHE* 3.4 26.7 - + + -
152B THR* 1.3 74.7 - - - +
154B THR* 1.3 65.9 + - - +
155B ARG* 5.0 11.0 - - + -
489B LYS 3.9 0.9 - - - +
490B THR* 3.6 1.0 - - - -
491B VAL* 2.8 73.8 + - + +
493B VAL* 3.8 24.2 - - + -
143C THR* 4.0 7.9 - - + -
151C PHE* 3.5 38.8 - + - -
153C PHE* 5.8 0.2 - + - -
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Residues in contact with THR 154 (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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480A PHE* 3.3 35.5 - - + -
141B GLY* 3.3 6.8 - - - -
142B MET* 3.0 28.4 + - - +
144B ILE* 4.6 13.7 - - + -
153B PHE* 1.3 78.1 - - - +
155B ARG* 1.3 57.2 + - - +
156B HIS* 4.3 0.2 - - - -
488B VAL* 3.9 12.3 - - + -
489B LYS 3.6 3.6 - - - -
490B THR* 3.7 23.1 - - - +
143C THR* 2.7 29.6 + - - -
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Residues in contact with ARG 155 (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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440A LEU* 4.9 10.3 + - - +
443A SER* 5.9 0.4 + - - -
444A SER* 3.2 38.5 + - - +
153B PHE* 4.2 11.9 + - + -
154B THR* 1.3 74.5 - - - +
156B HIS* 1.3 62.3 + - - +
157B GLU* 3.4 34.3 + - + +
487B GLU 3.6 1.7 - - - +
488B VAL* 3.7 2.1 - - - -
489B LYS* 2.9 39.6 + - + +
491B VAL* 6.2 2.9 - - + -
143C THR* 4.4 3.4 - - - +
151C PHE* 4.3 42.8 - - + +
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Residues in contact with HIS 156 (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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480A PHE* 3.2 39.2 - + - -
483A ARG* 4.6 8.1 - - - -
139B ILE* 3.7 34.8 - - + +
140B HIS 3.8 12.0 + - - -
141B GLY* 3.6 22.9 - - - +
154B THR* 4.3 2.5 - - - -
155B ARG* 1.3 74.5 - - - +
157B GLU* 1.3 62.1 + - - +
158B PRO* 4.5 2.3 - - - +
482B LEU* 6.1 0.6 - - - +
483B ARG* 6.3 2.4 - - + -
486B SER* 4.0 20.4 + - - +
487B GLU 3.9 4.5 - - - -
488B VAL* 4.3 15.2 + - + +
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Residues in contact with GLU 157 (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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444A SER 4.2 3.3 - - - +
77B ARG* 6.2 3.6 - - - +
155B ARG* 3.4 43.6 + - + +
156B HIS* 1.3 77.4 - - - +
158B PRO* 1.3 74.6 - - + +
185B CYS 5.0 0.2 - - - -
486B SER* 3.4 3.9 - - - -
487B GLU* 2.7 50.2 + - + +
489B LYS* 3.4 39.8 + - - +
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Residues in contact with PRO 158 (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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70B PHE* 3.8 18.4 - - + -
77B ARG* 4.6 14.8 - - - +
84B ARG* 5.7 4.0 - - - +
156B HIS 4.5 2.5 - - - +
157B GLU* 1.3 94.0 - - + +
159B ILE* 1.3 65.9 + - - +
185B CYS 3.4 27.1 - - - +
186B GLY* 3.6 24.9 - - - +
187B ASN* 3.7 8.1 - - - +
485B TYR 4.1 6.5 - - - +
486B SER* 4.6 0.4 - - - -
487B GLU* 4.0 6.1 - - - +
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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