Complet list of 1s8k hssp file
Complete list of 1s8k.hssp file
HSSP HOMOLOGY DERIVED SECONDARY STRUCTURE OF PROTEINS , VERSION 2.0 2011
PDBID 1S8K
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 2014-05-09
HEADER TOXIN 02-FEB-04 1S8K
COMPND MOL_ID: 1; MOLECULE: TOXIN BMKK4; CHAIN: A; SYNONYM: KK4, TOXIN TXKS4,
SOURCE MOL_ID: 1; ORGANISM_SCIENTIFIC: MESOBUTHUS MARTENSII; ORGANISM_COMMON:
AUTHOR N.ZHANG,X.CHEN,M.LI,C.CAO,Y.WANG,G.HU,H.WU
DBREF 1S8K A 1 30 UNP Q95NJ8 SKK4_MESMA 24 53
SEQLENGTH 30
NCHAIN 1 chain(s) in 1S8K data set
NALIGN 4
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 : KA171_MESMA 1S8K 1.00 1.00 2 30 25 53 29 0 0 55 Q95NJ8 Potassium channel toxin alpha-KTx 17.1 OS=Mesobuthus martensii PE=1 SV=1
2 : KA172_LYCMC 0.52 0.67 2 28 28 54 27 0 0 57 P0CI46 Potassium channel toxin alpha-KTx 17.2 OS=Lychas mucronatus PE=2 SV=1
3 : T1E7N4_9SCOR 0.52 0.69 2 30 28 56 29 0 0 57 T1E7N4 CSab-Iso-6 OS=Isometroides vescus PE=4 SV=1
4 : T1E7P3_9SCOR 0.52 0.69 2 30 28 56 29 0 0 57 T1E7P3 CSab-Lyc-10 OS=Lychas buchari PE=4 SV=1
## ALIGNMENTS 1 - 4
SeqNo PDBNo AA STRUCTURE BP1 BP2 ACC NOCC VAR ....:....1....:....2....:....3....:....4....:....5....:....6....:....7
1 1 A X 0 0 185 0 0
2 2 A T - 0 0 109 5 0 TTTT
3 3 A Q S S+ 0 0 135 5 24 QEQQ
4 4 A a - 0 0 6 5 0 CCCC
5 5 A Q S S- 0 0 141 5 102 QQYY
6 6 A S S >> S- 0 0 57 5 101 SIRR
7 7 A V H 3> S+ 0 0 66 5 92 VKKK
8 8 A R H 3> S+ 0 0 113 5 90 RNSS
9 9 A D H <> S+ 0 0 29 5 0 DDDD
10 10 A b H X S+ 0 0 0 5 0 CCCC
11 11 A Q H < S+ 0 0 119 5 0 QQQQ
12 12 A Q H < S+ 0 0 165 5 59 QRRR
13 13 A Y H < S+ 0 0 176 5 102 YYQQ
14 14 A c < - 0 0 5 5 0 CCCC
15 15 A L S S+ 0 0 173 5 86 LQQQ
16 16 A T S S- 0 0 78 5 65 TSSS
17 17 A P E -A 27 0A 17 5 75 PVVV
18 18 A D E - 0 0A 73 5 64 DKQQ
19 19 A R E -A 26 0A 114 5 87 REDD
20 20 A a E S+A 25 0A 30 5 0 CCCC
21 21 A S E > +A 24 0A 42 5 82 SKRR
22 22 A Y T 3 S- 0 0 209 5 0 YYYY
23 23 A G T 3 S+ 0 0 16 5 0 GGGG
24 24 A T E < S-A 21 0A 57 5 39 TKTT
25 25 A b E -A 20 0A 15 5 0 CCCC
26 26 A Y E -A 19 0A 80 5 0 YYYY
27 27 A c E -A 17 0A 37 5 0 CCCC
28 28 A K S S+ 0 0 115 5 59 KNNN
29 29 A T 0 0 125 4 0 T TT
30 30 A T 0 0 142 4 79 T SS
## 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 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0.000 0 1.00
2 2 A 0 0 0 0 0 0 0 0 0 0 0 100 0 0 0 0 0 0 0 0 5 0 0 0.000 0 1.00
3 3 A 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 80 20 0 0 5 0 0 0.500 16 0.76
4 4 A 0 0 0 0 0 0 0 0 0 0 0 0 100 0 0 0 0 0 0 0 5 0 0 0.000 0 1.00
5 5 A 0 0 0 0 0 0 40 0 0 0 0 0 0 0 0 0 60 0 0 0 5 0 0 0.673 22 -0.02
6 6 A 0 0 20 0 0 0 0 0 0 0 40 0 0 0 40 0 0 0 0 0 5 0 0 1.055 35 -0.02
7 7 A 40 0 0 0 0 0 0 0 0 0 0 0 0 0 0 60 0 0 0 0 5 0 0 0.673 22 0.08
8 8 A 0 0 0 0 0 0 0 0 0 0 40 0 0 0 40 0 0 0 20 0 5 0 0 1.055 35 0.09
9 9 A 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 100 5 0 0 0.000 0 1.00
10 10 A 0 0 0 0 0 0 0 0 0 0 0 0 100 0 0 0 0 0 0 0 5 0 0 0.000 0 1.00
11 11 A 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 100 0 0 0 5 0 0 0.000 0 1.00
12 12 A 0 0 0 0 0 0 0 0 0 0 0 0 0 0 60 0 40 0 0 0 5 0 0 0.673 22 0.40
13 13 A 0 0 0 0 0 0 60 0 0 0 0 0 0 0 0 0 40 0 0 0 5 0 0 0.673 22 -0.02
14 14 A 0 0 0 0 0 0 0 0 0 0 0 0 100 0 0 0 0 0 0 0 5 0 0 0.000 0 1.00
15 15 A 0 40 0 0 0 0 0 0 0 0 0 0 0 0 0 0 60 0 0 0 5 0 0 0.673 22 0.13
16 16 A 0 0 0 0 0 0 0 0 0 0 60 40 0 0 0 0 0 0 0 0 5 0 0 0.673 22 0.35
17 17 A 60 0 0 0 0 0 0 0 0 40 0 0 0 0 0 0 0 0 0 0 5 0 0 0.673 22 0.24
18 18 A 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 20 40 0 0 40 5 0 0 1.055 35 0.36
19 19 A 0 0 0 0 0 0 0 0 0 0 0 0 0 0 40 0 0 20 0 40 5 0 0 1.055 35 0.12
20 20 A 0 0 0 0 0 0 0 0 0 0 0 0 100 0 0 0 0 0 0 0 5 0 0 0.000 0 1.00
21 21 A 0 0 0 0 0 0 0 0 0 0 40 0 0 0 40 20 0 0 0 0 5 0 0 1.055 35 0.17
22 22 A 0 0 0 0 0 0 100 0 0 0 0 0 0 0 0 0 0 0 0 0 5 0 0 0.000 0 1.00
23 23 A 0 0 0 0 0 0 0 100 0 0 0 0 0 0 0 0 0 0 0 0 5 0 0 0.000 0 1.00
24 24 A 0 0 0 0 0 0 0 0 0 0 0 80 0 0 0 20 0 0 0 0 5 0 0 0.500 16 0.60
25 25 A 0 0 0 0 0 0 0 0 0 0 0 0 100 0 0 0 0 0 0 0 5 0 0 0.000 0 1.00
26 26 A 0 0 0 0 0 0 100 0 0 0 0 0 0 0 0 0 0 0 0 0 5 0 0 0.000 0 1.00
27 27 A 0 0 0 0 0 0 0 0 0 0 0 0 100 0 0 0 0 0 0 0 5 0 0 0.000 0 1.00
28 28 A 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 40 0 0 60 0 5 0 0 0.673 22 0.40
29 29 A 0 0 0 0 0 0 0 0 0 0 0 100 0 0 0 0 0 0 0 0 4 0 0 0.000 0 1.00
30 30 A 0 0 0 0 0 0 0 0 0 0 50 50 0 0 0 0 0 0 0 0 4 0 0 0.693 23 0.20
## INSERTION LIST
AliNo IPOS JPOS Len Sequence
//