Contacts of the helix formed by residues 1365 - 1384 (chain B) in PDB entry 3FK2
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 PRO1365 (chain B).
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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1334B PRO* 4.1 26.0 - - + -
1336B ASN* 5.5 4.7 - - - +
1337B MET* 4.4 5.2 - - + -
1363B LYS 3.4 5.6 - - - +
1364B PHE* 1.3 87.2 - - + +
1366B LYS* 1.3 60.6 + - - +
1367B GLU* 4.1 8.5 - - - +
1368B ASN* 3.2 21.7 + - - +
1369B HIS* 2.9 23.7 + - - +
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Residues in contact with LYS1366 (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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1364B PHE 3.4 4.2 + - - -
1365B PRO* 1.3 68.7 - - - +
1367B GLU* 1.3 75.2 + - - +
1369B HIS* 4.2 7.4 - - + -
1370B GLU* 3.0 46.5 + - + +
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Residues in contact with GLU1367 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
1251B LEU* 4.3 7.4 - - + -
1252B THR* 3.6 33.1 - - + +
1255B VAL* 4.5 18.1 - - + +
1256B THR 6.5 0.4 - - - -
1257B PRO* 5.8 4.5 - - - +
1260B PRO* 4.7 3.2 - - - +
1365B PRO* 4.1 9.2 - - - +
1366B LYS* 1.3 86.4 + - - +
1368B ASN* 1.3 67.6 + - - +
1370B GLU* 3.7 5.0 - - - +
1371B VAL* 3.4 24.3 + - - +
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Residues in contact with ASN1368 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
1251B LEU* 4.0 21.9 - - - +
1331B PRO 4.2 4.6 + - - -
1332B LEU* 2.9 34.4 + - + +
1334B PRO* 3.7 14.3 - - + +
1364B PHE* 4.6 9.4 - - + -
1365B PRO* 3.2 26.7 + - + +
1367B GLU* 1.3 80.3 - - - +
1369B HIS* 1.3 57.7 + - - +
1371B VAL* 3.1 1.9 + - - +
1372B PHE* 2.7 37.7 + - - +
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Residues in contact with HIS1369 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
1361B LEU* 3.3 51.3 + - + +
1362B LYS* 5.6 1.1 - - - -
1364B PHE* 3.7 18.8 - - + +
1365B PRO 2.9 16.7 + - - +
1366B LYS* 3.2 10.7 + - + +
1368B ASN* 1.3 75.9 - - - +
1370B GLU* 1.3 75.2 + - - +
1372B PHE* 3.5 2.6 + - - +
1373B LYS* 2.8 37.6 + - + +
1435B PHE 5.2 1.1 - - - -
1436B PHE* 4.0 19.7 - + - -
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Residues in contact with GLU1370 (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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1260B PRO* 3.9 34.6 - - + +
1261B ILE* 3.7 7.9 - - + +
1366B LYS* 3.0 39.3 + - + +
1367B GLU* 3.7 4.9 - - - +
1369B HIS* 1.3 95.2 - - - +
1371B VAL* 1.3 60.6 + - - +
1373B LYS* 3.2 20.4 + - - +
1374B TYR* 2.9 27.9 + - - +
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Residues in contact with VAL1371 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
1251B LEU* 4.2 16.8 - - + -
1255B VAL* 4.8 0.2 - - + -
1260B PRO 3.6 20.9 - - - +
1261B ILE* 4.2 6.5 - - + -
1262B PRO* 3.8 19.7 - - + -
1265B ILE* 5.3 3.1 - - + -
1325B PHE* 3.5 38.8 - - + -
1332B LEU* 3.8 13.9 - - + -
1367B GLU 3.4 14.1 + - - +
1368B ASN 3.1 2.3 + - - +
1370B GLU* 1.3 71.9 - - - +
1372B PHE* 1.3 66.5 + - - +
1374B TYR* 3.2 2.5 + - + +
1375B VAL* 2.9 31.4 + - + +
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Residues in contact with PHE1372 (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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1332B LEU* 3.8 18.9 - - + +
1333B VAL* 3.6 27.6 - - + -
1361B LEU* 4.1 9.0 - - + -
1364B PHE* 4.1 20.6 - + + -
1368B ASN 2.7 22.8 + - - +
1369B HIS* 3.7 5.6 - - - +
1371B VAL* 1.3 73.7 - - - +
1373B LYS* 1.3 62.4 + - - +
1375B VAL* 3.4 1.9 + - + +
1376B ILE* 2.9 60.0 + - + +
1404B LEU* 4.1 13.0 - - + -
1405B MET* 5.5 0.7 - - + -
1425B ILE* 4.0 16.6 - - + -
1428B PHE* 4.0 28.3 - + - -
1436B PHE* 3.9 17.0 - + - -
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Residues in contact with LYS1373 (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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1369B HIS* 2.8 29.4 + - + +
1370B GLU* 3.4 23.8 + - - +
1372B PHE* 1.3 72.4 - - - +
1374B TYR* 1.3 58.3 + - - +
1376B ILE* 3.9 1.0 - - - +
1377B SER* 2.5 39.6 + - - +
1436B PHE* 2.8 71.2 + - + +
1437B TYR* 6.1 0.2 - - - -
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Residues in contact with TYR1374 (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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1261B ILE* 3.6 42.2 - - + -
1265B ILE* 3.8 12.3 - - + -
1266B GLU* 3.4 32.0 - - + +
1269B ILE* 3.4 43.0 - - + +
1270B GLU* 3.9 12.8 + - - +
1370B GLU 2.9 13.2 + - - +
1371B VAL* 3.2 8.3 + - + +
1373B LYS* 1.3 77.7 - - - +
1375B VAL* 1.3 64.4 + - + +
1377B SER* 3.4 6.1 + - - -
1378B HIS* 3.0 24.1 + - - +
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Residues in contact with VAL1375 (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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1265B ILE* 4.8 3.1 - - + -
1269B ILE* 4.3 10.1 - - + -
1321B MET* 4.0 18.8 - - + -
1325B PHE* 3.5 35.0 - - + -
1332B LEU* 4.5 4.9 - - + -
1371B VAL* 2.9 22.1 + - + +
1372B PHE* 3.9 4.3 - - + +
1374B TYR* 1.3 72.6 - - + +
1376B ILE* 1.3 60.3 + - + +
1378B HIS* 3.2 5.5 + - + +
1379B LEU* 2.9 43.4 + - + +
1400B PHE* 4.5 11.9 - - + -
1404B LEU* 4.6 13.5 - - + -
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Residues in contact with ILE1376 (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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1372B PHE* 2.9 62.4 + - + +
1373B LYS 3.9 1.8 - - - +
1375B VAL* 1.3 75.5 - - - +
1377B SER* 1.3 58.9 + - - +
1379B LEU* 3.1 10.6 + - + +
1380B ASN* 2.8 26.3 + - - +
1404B LEU* 4.5 12.3 - - + -
1425B ILE* 4.6 5.4 - - + -
1428B PHE* 3.1 35.9 - - + +
1429B ILE* 3.8 20.6 - - + +
1432B CYS* 4.4 3.8 - - - -
1436B PHE* 3.9 14.8 - - + -
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Residues in contact with SER1377 (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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1373B LYS* 2.5 35.0 + - - +
1374B TYR* 3.5 5.2 + - - -
1376B ILE* 1.3 75.8 - - - +
1378B HIS* 1.3 65.0 + - - +
1380B ASN* 3.0 5.5 + - - +
1381B LYS* 2.9 22.6 + - - +
1432B CYS* 3.5 24.2 - - - -
1436B PHE* 5.5 0.7 - - - +
1437B TYR* 5.7 4.9 - - - -
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Residues in contact with HIS1378 (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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1269B ILE* 3.4 39.2 - - + +
1272B ILE* 4.0 12.9 - - + +
1273B GLU* 2.8 44.3 + - + +
1283B TYR* 2.6 35.1 + + - -
1321B MET* 5.0 2.5 - - + -
1374B TYR* 3.0 14.0 + - + +
1375B VAL* 3.3 8.3 - - + +
1377B SER* 1.3 77.0 - - - +
1379B LEU* 1.3 65.3 + - + +
1381B LYS* 3.1 4.1 + - - +
1382B VAL* 3.0 41.4 + - + +
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Residues in contact with LEU1379 (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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1283B TYR* 4.1 17.5 - - + -
1375B VAL* 2.9 25.2 + - + +
1376B ILE* 3.5 15.0 - - + +
1378B HIS* 1.3 79.6 - - + +
1380B ASN* 1.3 66.1 + - - +
1382B VAL* 3.3 2.1 + - + +
1383B SER* 3.0 20.3 + - - -
1396B LEU* 3.3 23.8 - - + +
1400B PHE* 3.5 54.5 - - + -
1404B LEU* 5.2 0.4 - - + -
1429B ILE* 3.6 33.4 - - + -
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Residues in contact with ASN1380 (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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1376B ILE 2.8 13.1 + - - +
1377B SER* 3.0 10.6 + - - +
1379B LEU* 1.3 78.6 - - - +
1381B LYS* 1.3 58.9 + - - +
1383B SER* 2.7 25.1 + - - -
1384B HIS* 3.0 41.0 + - - -
1429B ILE* 2.8 31.6 + - - +
1430B GLN* 4.3 9.5 + - - +
1432B CYS* 3.8 20.2 - - + +
1433B PRO* 4.7 5.6 - - - +
1437B TYR* 4.7 7.4 + - - -
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Residues in contact with LYS1381 (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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1273B GLU* 3.2 40.2 + - + +
1277B LEU* 4.4 19.1 - - + +
1377B SER 2.9 11.6 + - - +
1378B HIS* 3.4 10.5 - - - +
1379B LEU 3.1 0.2 - - - -
1380B ASN* 1.3 74.2 + - - +
1382B VAL* 1.3 67.8 + - - +
1383B SER 3.0 1.3 - - - -
1384B HIS* 2.9 31.4 + - + +
1385B ASN* 3.9 3.1 + - - +
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Residues in contact with VAL1382 (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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1272B ILE* 5.3 1.1 - - + -
1277B LEU* 3.8 21.3 - - + +
1282B ILE* 3.9 22.7 - - + -
1283B TYR* 4.2 11.9 - - + -
1378B HIS* 3.0 40.3 + - + +
1379B LEU* 3.7 7.0 - - - +
1381B LYS* 1.3 75.6 - - - +
1383B SER* 1.3 62.2 + - - +
1385B ASN* 3.1 7.1 + - - +
1389B ASN* 2.9 40.4 + - - +
1391B MET* 4.4 2.2 - - + -
1396B LEU* 4.0 18.8 - - + -
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Residues in contact with SER1383 (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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1379B LEU 3.0 14.8 + - - -
1380B ASN* 2.7 25.8 + - - -
1381B LYS 3.0 0.6 - - - -
1382B VAL* 1.3 76.9 - - - +
1384B HIS* 1.3 61.9 + - - +
1385B ASN 3.1 1.9 + - - -
1386B ASN* 2.8 31.5 + - - +
1391B MET 3.3 19.1 - - - -
1392B THR* 4.7 0.2 - - - -
1393B SER* 3.9 23.9 + - - -
1396B LEU* 3.8 7.8 - - - +
1429B ILE* 4.5 1.3 - - - +
1430B GLN* 6.1 0.2 - - - -
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Residues in contact with HIS1384 (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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1380B ASN* 3.0 43.2 + - - -
1381B LYS* 2.9 21.6 + - + +
1383B SER* 1.3 80.3 + - - +
1385B ASN* 1.3 58.3 + - - +
1386B ASN* 3.4 4.3 + - - +
1387B LYS* 5.4 2.3 + - - +
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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
------------------------------------------------------------
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