Contacts of the strand formed by residues 150 - 158 (chain H) in PDB entry 1ZUM
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 PHE 150 (chain H).
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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285G TRP* 6.5 0.4 - + - -
455G CYS* 3.8 19.5 - - + -
458G VAL* 3.6 39.3 - - + -
144H ILE 5.4 0.7 - - - +
146H ILE* 3.9 21.3 - - + +
147H ASP 3.5 17.3 - - - -
148H GLY* 3.0 10.9 + - - +
149H ASP* 1.3 89.3 - - + +
151H PHE* 1.3 60.0 + - - +
152H SER 4.0 1.5 + - - -
492H THR* 4.1 8.5 - - + -
493H VAL 3.2 8.7 - - - +
494H LYS* 3.7 22.2 - - + -
495H VAL* 3.6 8.9 - - - +
498H LYS* 4.3 11.5 - - - +
3106H GAI 3.4 21.1 - - - -
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Residues in contact with PHE 151 (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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151E PHE* 4.3 2.2 - + - -
153E TYR* 3.4 55.6 - + - -
155E ARG* 5.3 7.6 - - + -
440F ASN* 4.7 12.1 - - - -
143H THR* 4.0 19.7 - - + -
144H ILE 5.6 0.2 - - - -
150H PHE* 1.3 71.9 - - - +
152H SER* 1.3 66.7 + - - +
153H TYR* 3.4 38.1 - + + -
491H VAL 3.8 1.4 - - - +
492H THR* 3.5 0.7 - - - -
493H VAL* 2.8 41.9 + - + +
495H VAL* 3.8 19.2 - - + +
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Residues in contact with SER 152 (chain H).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
463G SER* 2.8 26.9 + - - -
143H THR* 3.5 2.6 - - - -
144H ILE* 2.8 42.4 + - - +
146H ILE* 3.9 20.9 - - - -
150H PHE 4.0 1.0 - - - -
151H PHE* 1.3 80.5 - - - +
153H TYR* 1.3 60.9 + - - +
490H THR* 3.7 5.4 - - - +
491H VAL 3.3 4.5 + - - -
492H THR* 2.9 21.6 + - - -
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Residues in contact with TYR 153 (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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143E THR* 3.8 14.4 - - + -
151E PHE* 3.5 35.8 - + - -
440G ASN* 4.4 8.0 + - - -
443G SER* 3.9 10.0 + - - -
142H LYS 3.1 15.0 - - - +
143H THR* 4.1 8.7 - - + -
144H ILE* 4.5 1.8 - - - +
151H PHE* 3.4 37.2 - + + -
152H SER* 1.3 76.6 + - - +
154H THR* 1.3 71.2 - - - +
155H ARG* 4.2 13.1 - - + -
490H THR* 3.4 5.1 - - - +
491H VAL* 2.8 76.9 + - + +
493H VAL* 4.5 6.8 - - + +
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Residues in contact with THR 154 (chain H).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
143E THR* 2.8 32.9 + - - +
464G PRO* 3.8 17.0 - - + -
480G TYR* 2.7 28.0 + - + +
141H GLY* 3.5 2.6 - - - -
142H LYS* 2.8 25.4 + - - -
144H ILE* 3.8 14.8 - - + -
153H TYR* 1.3 79.2 - - - +
155H ARG* 1.3 59.5 + - - +
156H HIS* 4.2 0.2 + - - -
488H VAL* 3.8 8.5 - - + -
489H LYS 3.1 6.1 - - - -
490H THR* 3.7 21.5 - - - +
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Residues in contact with ARG 155 (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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143E THR* 4.5 4.7 - - - +
151E PHE* 5.4 13.0 - - + +
498E LYS* 5.8 1.6 - - - +
499E ASN 3.1 25.5 + - - -
500E SER* 3.8 17.0 + - - -
443G SER* 5.7 0.9 - - - -
444G GLN* 3.3 40.8 + - - +
153H TYR* 4.2 22.7 - - + -
154H THR* 1.3 75.2 - - - +
156H HIS* 1.3 63.1 + - - +
157H GLU* 3.3 26.5 + - + +
487H LYS 3.4 3.1 - - - +
488H VAL* 3.5 2.6 - - - -
489H LYS* 2.8 49.3 + - + +
491H VAL* 4.7 4.3 - - + -
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Residues in contact with HIS 156 (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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143E THR* 5.3 0.2 + - - -
500E SER* 4.1 5.9 - - - +
480G TYR* 2.9 39.9 + + - -
139H TYR* 3.5 52.0 + + + +
140H HIS 3.1 28.7 + - - -
141H GLY* 4.0 7.7 - - - +
142H LYS* 5.6 3.4 - - - -
154H THR* 4.4 0.2 - - - -
155H ARG* 1.3 76.1 - - - +
157H GLU* 1.3 61.2 - - - +
158H PRO* 4.7 0.5 - - - +
185H THR 5.5 1.4 - - - +
486H THR* 4.3 11.2 - - + +
487H LYS 3.6 3.8 - - - -
488H VAL* 3.8 19.9 - - + +
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Residues in contact with GLU 157 (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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500E SER* 3.8 16.4 - - - +
444G GLN 4.1 2.6 - - - +
468G TYR* 2.5 37.4 + - - +
77H ARG* 5.7 3.1 - - - +
155H ARG* 3.3 32.6 + - + +
156H HIS* 1.3 75.7 - - - +
158H PRO* 1.3 74.7 - - + +
185H THR 4.9 0.4 - - - -
486H THR* 3.1 8.6 - - - -
487H LYS* 2.7 39.6 + - + +
489H LYS* 3.0 30.0 + - - -
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Residues in contact with PRO 158 (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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500E SER* 3.5 34.1 - - - +
70H PHE* 3.5 21.7 - - + -
77H ARG* 4.9 1.1 - - - +
156H HIS 4.7 0.4 - - - +
157H GLU* 1.3 92.5 - - + +
159H VAL* 1.3 62.3 + - - +
185H THR 3.3 22.2 - - - +
186H GLY 3.5 22.9 - - - +
187H ASN* 3.4 13.0 - - - +
485H TYR 3.8 6.5 - - - +
487H LYS* 3.4 14.6 - - - -
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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