Complet list of 1y2p hssp file
Complete list of 1y2p.hssp file
HSSP HOMOLOGY DERIVED SECONDARY STRUCTURE OF PROTEINS , VERSION 2.0 2011
PDBID 1Y2P
THRESHOLD according to: t(L)=(290.15 * L ** -0.562) + 5
REFERENCE Sander C., Schneider R. : Database of homology-derived protein structures. Proteins, 9:56-68 (1991).
CONTACT Maintained at http://www.cmbi.ru.nl/ by Maarten L. Hekkelman
DATE file generated on 2014-05-13
HEADER TOXIN 23-NOV-04 1Y2P
COMPND MOL_ID: 1; MOLECULE: NEUROTOXIN HSTX1; CHAIN: A; SYNONYM: HSTX3P; ENGI
SOURCE MOL_ID: 1; SYNTHETIC: YES; OTHER_DETAILS: THE PEPTIDE WAS CHEMICALLY S
AUTHOR A.MOSBAH,L.GARIGA,H.DARBON,J.M.SABATIER
DBREF 1Y2P A 1 34 UNP P59867 SCK1_HETSP 1 34
SEQLENGTH 34
NCHAIN 1 chain(s) in 1Y2P data set
NALIGN 5
NOTATION : ID: EMBL/SWISSPROT identifier of the aligned (homologous) protein
NOTATION : STRID: if the 3-D structure of the aligned protein is known, then STRID is the Protein Data Bank identifier as taken
NOTATION : from the database reference or DR-line of the EMBL/SWISSPROT entry
NOTATION : %IDE: percentage of residue identity of the alignment
NOTATION : %SIM (%WSIM): (weighted) similarity of the alignment
NOTATION : IFIR/ILAS: first and last residue of the alignment in the test sequence
NOTATION : JFIR/JLAS: first and last residue of the alignment in the alignend protein
NOTATION : LALI: length of the alignment excluding insertions and deletions
NOTATION : NGAP: number of insertions and deletions in the alignment
NOTATION : LGAP: total length of all insertions and deletions
NOTATION : LSEQ2: length of the entire sequence of the aligned protein
NOTATION : ACCNUM: SwissProt accession number
NOTATION : PROTEIN: one-line description of aligned protein
NOTATION : SeqNo,PDBNo,AA,STRUCTURE,BP1,BP2,ACC: sequential and PDB residue numbers, amino acid (lower case = Cys), secondary
NOTATION : structure, bridge partners, solvent exposure as in DSSP (Kabsch and Sander, Biopolymers 22, 2577-2637(1983)
NOTATION : VAR: sequence variability on a scale of 0-100 as derived from the NALIGN alignments
NOTATION : pair of lower case characters (AvaK) in the alignend sequence bracket a point of insertion in this sequence
NOTATION : dots (....) in the alignend sequence indicate points of deletion in this sequence
NOTATION : SEQUENCE PROFILE: relative frequency of an amino acid type at each position. Asx and Glx are in their
NOTATION : acid/amide form in proportion to their database frequencies
NOTATION : NOCC: number of aligned sequences spanning this position (including the test sequence)
NOTATION : NDEL: number of sequences with a deletion in the test protein at this position
NOTATION : NINS: number of sequences with an insertion in the test protein at this position
NOTATION : ENTROPY: entropy measure of sequence variability at this position
NOTATION : RELENT: relative entropy, i.e. entropy normalized to the range 0-100
NOTATION : WEIGHT: conservation weight
## PROTEINS : identifier and alignment statistics
NR. ID STRID %IDE %WSIM IFIR ILAS JFIR JLAS LALI NGAP LGAP LSEQ2 ACCNUM PROTEIN
1 : KAX63_HETSP 1WPD 1.00 1.00 1 34 1 34 34 0 0 34 P59867 Potassium channel toxin alpha-KTx 6.3 OS=Heterometrus spinifer PE=1 SV=1
2 : I6NXS5_HETLA 0.97 0.97 1 34 1 34 34 0 0 35 I6NXS5 Kv1.3 potassium channel blocker (Fragment) OS=Heterometrus laoticus GN=Tx2 PE=2 SV=1
3 : KAX67_OPICA 0.88 0.94 3 34 29 60 32 0 0 61 Q6XLL8 Potassium channel toxin alpha-KTx 6.7 OS=Opistophthalmus carinatus PE=2 SV=1
4 : KAX66_OPICA 0.84 0.94 3 34 29 60 32 0 0 61 Q6XLL9 Potassium channel toxin alpha-KTx 6.6 OS=Opistophthalmus carinatus PE=2 SV=1
5 : KAX68_OPICA 0.78 0.94 3 34 29 60 32 0 0 61 Q6XLL7 Potassium channel toxin alpha-KTx 6.8 OS=Opistophthalmus carinatus PE=2 SV=1
## ALIGNMENTS 1 - 5
SeqNo PDBNo AA STRUCTURE BP1 BP2 ACC NOCC VAR ....:....1....:....2....:....3....:....4....:....5....:....6....:....7
1 1 A A 0 0 106 3 0 AA
2 2 A S - 0 0 112 3 0 SS
3 3 A a - 0 0 6 6 0 CCCCC
4 4 A R S S+ 0 0 215 6 0 RRRRR
5 5 A T S >> S- 0 0 70 6 0 TTTTT
6 6 A P G >4 S+ 0 0 69 6 0 PPPPP
7 7 A K G >4 S+ 0 0 152 6 0 KKKKK
8 8 A D G X4 S+ 0 0 64 6 0 DDDDD
9 9 A b G S+ 0 0 7 6 0 AAAAA
11 11 A D H <4 S+ 0 0 95 6 18 DDDGD
12 12 A P H >> S+ 0 0 25 6 0 PPPPP
13 13 A c H 3X>S+ 0 0 0 6 0 CCCCC
14 14 A R H 3<5S+ 0 0 123 6 0 RRRRR
15 15 A K H <45S+ 0 0 153 6 0 KKKKK
16 16 A E H <5S- 0 0 82 6 43 EEQQQ
17 17 A T T <5S- 0 0 47 6 0 TTTTT
18 18 A G S -A 28 0A 106 6 0 MMMMM
26 26 A N T 3 S- 0 0 153 6 0 NNNNN
27 27 A R T 3 S+ 0 0 167 6 22 RRRRK
28 28 A K E < -A 25 0A 127 6 71 KKTTT
29 29 A b E -A 24 0A 29 6 0 CCCCC
30 30 A K E -A 23 0A 129 6 38 KKRRR
31 31 A c - 0 0 31 6 0 CCCCC
32 32 A N - 0 0 90 6 32 NNNNH
33 33 A R 0 0 170 6 0 RRRRR
34 34 A C 0 0 167 6 0 CCCCC
## SEQUENCE PROFILE AND ENTROPY
SeqNo PDBNo V L I M F W Y G A P S T C H R K Q E N D NOCC NDEL NINS ENTROPY RELENT WEIGHT
1 1 A 0 0 0 0 0 0 0 0 100 0 0 0 0 0 0 0 0 0 0 0 3 0 0 0.000 0 1.00
2 2 A 0 0 0 0 0 0 0 0 0 0 100 0 0 0 0 0 0 0 0 0 3 0 0 0.000 0 1.00
3 3 A 0 0 0 0 0 0 0 0 0 0 0 0 100 0 0 0 0 0 0 0 6 0 0 0.000 0 1.00
4 4 A 0 0 0 0 0 0 0 0 0 0 0 0 0 0 100 0 0 0 0 0 6 0 0 0.000 0 1.00
5 5 A 0 0 0 0 0 0 0 0 0 0 0 100 0 0 0 0 0 0 0 0 6 0 0 0.000 0 1.00
6 6 A 0 0 0 0 0 0 0 0 0 100 0 0 0 0 0 0 0 0 0 0 6 0 0 0.000 0 1.00
7 7 A 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 100 0 0 0 0 6 0 0 0.000 0 1.00
8 8 A 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 100 6 0 0 0.000 0 1.00
9 9 A 0 0 0 0 0 0 0 0 0 0 0 0 100 0 0 0 0 0 0 0 6 0 0 0.000 0 1.00
10 10 A 0 0 0 0 0 0 0 0 100 0 0 0 0 0 0 0 0 0 0 0 6 0 0 0.000 0 1.00
11 11 A 0 0 0 0 0 0 0 17 0 0 0 0 0 0 0 0 0 0 0 83 6 0 0 0.451 15 0.82
12 12 A 0 0 0 0 0 0 0 0 0 100 0 0 0 0 0 0 0 0 0 0 6 0 0 0.000 0 1.00
13 13 A 0 0 0 0 0 0 0 0 0 0 0 0 100 0 0 0 0 0 0 0 6 0 0 0.000 0 1.00
14 14 A 0 0 0 0 0 0 0 0 0 0 0 0 0 0 100 0 0 0 0 0 6 0 0 0.000 0 1.00
15 15 A 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 100 0 0 0 0 6 0 0 0.000 0 1.00
16 16 A 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 50 50 0 0 6 0 0 0.693 23 0.56
17 17 A 0 0 0 0 0 0 0 0 0 0 0 100 0 0 0 0 0 0 0 0 6 0 0 0.000 0 1.00
18 18 A 0 0 0 0 0 0 0 100 0 0 0 0 0 0 0 0 0 0 0 0 6 0 0 0.000 0 1.00
19 19 A 0 0 0 0 0 0 0 0 0 0 0 0 100 0 0 0 0 0 0 0 6 0 0 0.000 0 1.00
20 20 A 0 0 0 0 0 0 0 0 0 100 0 0 0 0 0 0 0 0 0 0 6 0 0 0.000 0 1.00
21 21 A 0 0 0 0 0 0 33 0 0 0 0 0 0 67 0 0 0 0 0 0 6 0 0 0.637 21 0.51
22 22 A 0 0 0 0 0 0 0 83 17 0 0 0 0 0 0 0 0 0 0 0 6 0 0 0.451 15 0.74
23 23 A 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 100 0 0 0 0 6 0 0 0.000 0 1.00
24 24 A 0 0 0 0 0 0 0 0 0 0 0 0 100 0 0 0 0 0 0 0 6 0 0 0.000 0 1.00
25 25 A 0 0 0 100 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 6 0 0 0.000 0 1.00
26 26 A 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 100 0 6 0 0 0.000 0 1.00
27 27 A 0 0 0 0 0 0 0 0 0 0 0 0 0 0 83 17 0 0 0 0 6 0 0 0.451 15 0.77
28 28 A 0 0 0 0 0 0 0 0 0 0 0 50 0 0 0 50 0 0 0 0 6 0 0 0.693 23 0.29
29 29 A 0 0 0 0 0 0 0 0 0 0 0 0 100 0 0 0 0 0 0 0 6 0 0 0.000 0 1.00
30 30 A 0 0 0 0 0 0 0 0 0 0 0 0 0 0 50 50 0 0 0 0 6 0 0 0.693 23 0.62
31 31 A 0 0 0 0 0 0 0 0 0 0 0 0 100 0 0 0 0 0 0 0 6 0 0 0.000 0 1.00
32 32 A 0 0 0 0 0 0 0 0 0 0 0 0 0 17 0 0 0 0 83 0 6 0 0 0.451 15 0.67
33 33 A 0 0 0 0 0 0 0 0 0 0 0 0 0 0 100 0 0 0 0 0 6 0 0 0.000 0 1.00
34 34 A 0 0 0 0 0 0 0 0 0 0 0 0 100 0 0 0 0 0 0 0 6 0 0 0.000 0 1.00
## INSERTION LIST
AliNo IPOS JPOS Len Sequence
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