Complet list of 1wm8 hssp file
Complete list of 1wm8.hssp file
HSSP HOMOLOGY DERIVED SECONDARY STRUCTURE OF PROTEINS , VERSION 2.0 2011
PDBID 1WM8
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 2014-05-11
HEADER TOXIN 05-JUL-04 1WM8
COMPND MOL_ID: 1; MOLECULE: NEUROTOXIN BMP03; CHAIN: A; SYNONYM: POTASSIUM IO
SOURCE MOL_ID: 1; ORGANISM_SCIENTIFIC: MESOBUTHUS MARTENSII; ORGANISM_COMMON:
AUTHOR H.WU,F.HE,Y.LI,G.WU,C.CAO,X.CHEN
DBREF 1WM8 A 1 28 UNP Q9U8D1 SCP3_MESMA 29 56
SEQLENGTH 28
NCHAIN 1 chain(s) in 1WM8 data set
NALIGN 13
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 : KAX92_MESMA 1WM8 1.00 1.00 1 28 29 56 28 0 0 56 Q9U8D1 Potassium channel toxin alpha-KTx 9.2 OS=Mesobuthus martensii PE=1 SV=1
2 : Q9UAC6_MESMA 1.00 1.00 1 28 29 56 28 0 0 56 Q9UAC6 Bmp-03 neurotoxin (Precursor) OS=Mesobuthus martensii PE=4 SV=1
3 : KAX91_MESMA 1DU9 0.96 1.00 1 28 29 56 28 0 0 56 Q9NJP7 Potassium channel toxin alpha-KTx 9.1 OS=Mesobuthus martensii PE=1 SV=1
4 : B8XH46_BUTOS 0.93 0.96 1 28 29 56 28 0 0 56 B8XH46 Putative potassium channel toxin Tx784 OS=Buthus occitanus israelis PE=4 SV=1
5 : F1CIV1_HOTJU 0.93 0.93 1 28 16 43 28 0 0 43 F1CIV1 Ryanodine-receptor toxin isoform 2 OS=Hottentotta judaicus PE=4 SV=1
6 : KAX93_LEIQH 0.93 1.00 1 28 1 28 28 0 0 28 P80669 Potassium channel toxin alpha-KTx 9.3 OS=Leiurus quinquestriatus hebraeus PE=1 SV=1
7 : KAX95_BUTOC 0.93 0.96 1 28 1 28 28 0 0 28 P84744 Potassium channel toxin alpha-KTx 9.5 OS=Buthus occitanus tunetanus PE=1 SV=1
8 : KAX96_HOTJU 0.93 0.96 1 28 1 28 28 0 0 28 P83405 Potassium channel toxin alpha-KTx 9.6 OS=Hottentotta judaicus PE=1 SV=1
9 : KAX97_HOTJU 0.93 0.93 1 28 1 28 28 0 0 28 P83406 Potassium channel toxin alpha-KTx 9.7 OS=Hottentotta judaicus PE=1 SV=1
10 : KAX9A_MESEU 0.93 0.96 1 27 1 27 27 0 0 28 P86398 Potassium channel toxin alpha-KTx 9.10 OS=Mesobuthus eupeus PE=1 SV=1
11 : B8XH33_BUTOS 0.89 0.93 1 28 16 43 28 0 0 43 B8XH33 Putative potassium channel toxin Tx549 OS=Buthus occitanus israelis PE=4 SV=1
12 : SCX2_HOTTS 0.82 0.93 1 28 1 28 28 0 0 28 P15230 Peptide 2 OS=Hottentotta tamulus sindicus PE=1 SV=1
13 : KAX94_MESTA 2KTC 0.71 0.89 1 28 1 28 28 0 0 32 P60209 Potassium channel toxin alpha-KTx 9.4 OS=Mesobuthus tamulus PE=1 SV=1
## ALIGNMENTS 1 - 13
SeqNo PDBNo AA STRUCTURE BP1 BP2 ACC NOCC VAR ....:....1....:....2....:....3....:....4....:....5....:....6....:....7
1 1 A V 0 0 175 14 0 VVVVVVVVVVVVV
2 2 A G + 0 0 71 14 0 GGGGGGGGGGGGG
3 3 A a + 0 0 36 14 0 CCCCCCCCCCCCC
4 4 A E S S+ 0 0 166 14 26 EEEEEEEEEEEEA
5 5 A E S >> S+ 0 0 175 14 0 EEEEEEEEEEEEE
6 6 A b T 34 S+ 0 0 51 14 28 CCCCCCCCCCCDC
7 7 A P T >4 S+ 0 0 11 14 0 PPPPPPPPPPPPP
8 8 A M G X4 S+ 0 0 112 14 38 MMMMAMMAAMMMM
9 9 A H G 3< S+ 0 0 135 14 0 HHHHHHHHHHHHH
10 10 A c G < + 0 0 12 14 0 CCCCCCCCCCCCC
11 11 A K < + 0 0 110 14 0 KKKKKKKKKKKKK
12 12 A G S S- 0 0 57 14 0 GGGGGGGGGGGGG
13 13 A K S S+ 0 0 195 14 0 KKKKKKKKKKKKK
14 14 A N S S+ 0 0 82 14 76 NNNMNNHNNNMQM
15 15 A A + 0 0 18 14 0 AAAAAAAAAAAAA
16 16 A N + 0 0 76 14 69 NNKKIKVKIVKKK
17 17 A P S S- 0 0 100 14 0 PPPPPPPPPPPPP
18 18 A T - 0 0 128 14 0 TTTTTTTTTTTTT
19 19 A a - 0 0 16 14 0 CCCCCCCCCCCCC
20 20 A D - 0 0 71 14 55 DDDDDDDDDDYCE
21 21 A D S S- 0 0 153 14 32 DDDDDNDDDNDNN
22 22 A G S S+ 0 0 39 14 22 GGGGGGGGGGGGE
23 23 A V S S+ 0 0 103 14 0 VVVVVVVVVVVVV
24 24 A b + 0 0 18 14 0 CCCCCCCCCCCCC
25 25 A N - 0 0 98 14 24 NNNNNNNNNNNNK
26 26 A c + 0 0 53 14 0 CCCCCCCCCCCCC
27 27 A N 0 0 117 14 0 NNNNNNNNNNNNN
28 28 A V 0 0 146 13 9 VVVVVVVVV VVI
## 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 100 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 14 0 0 0.000 0 1.00
2 2 A 0 0 0 0 0 0 0 100 0 0 0 0 0 0 0 0 0 0 0 0 14 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 14 0 0 0.000 0 1.00
4 4 A 0 0 0 0 0 0 0 0 7 0 0 0 0 0 0 0 0 93 0 0 14 0 0 0.257 8 0.74
5 5 A 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 100 0 0 14 0 0 0.000 0 1.00
6 6 A 0 0 0 0 0 0 0 0 0 0 0 0 93 0 0 0 0 0 0 7 14 0 0 0.257 8 0.71
7 7 A 0 0 0 0 0 0 0 0 0 100 0 0 0 0 0 0 0 0 0 0 14 0 0 0.000 0 1.00
8 8 A 0 0 0 79 0 0 0 0 21 0 0 0 0 0 0 0 0 0 0 0 14 0 0 0.520 17 0.62
9 9 A 0 0 0 0 0 0 0 0 0 0 0 0 0 100 0 0 0 0 0 0 14 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 14 0 0 0.000 0 1.00
11 11 A 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 100 0 0 0 0 14 0 0 0.000 0 1.00
12 12 A 0 0 0 0 0 0 0 100 0 0 0 0 0 0 0 0 0 0 0 0 14 0 0 0.000 0 1.00
13 13 A 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 100 0 0 0 0 14 0 0 0.000 0 1.00
14 14 A 0 0 0 21 0 0 0 0 0 0 0 0 0 7 0 0 7 0 64 0 14 0 0 0.991 33 0.24
15 15 A 0 0 0 0 0 0 0 0 100 0 0 0 0 0 0 0 0 0 0 0 14 0 0 0.000 0 1.00
16 16 A 14 0 14 0 0 0 0 0 0 0 0 0 0 0 0 50 0 0 21 0 14 0 0 1.233 41 0.30
17 17 A 0 0 0 0 0 0 0 0 0 100 0 0 0 0 0 0 0 0 0 0 14 0 0 0.000 0 1.00
18 18 A 0 0 0 0 0 0 0 0 0 0 0 100 0 0 0 0 0 0 0 0 14 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 14 0 0 0.000 0 1.00
20 20 A 0 0 0 0 0 0 7 0 0 0 0 0 7 0 0 0 0 7 0 79 14 0 0 0.755 25 0.45
21 21 A 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 29 71 14 0 0 0.598 19 0.68
22 22 A 0 0 0 0 0 0 0 93 0 0 0 0 0 0 0 0 0 7 0 0 14 0 0 0.257 8 0.78
23 23 A 100 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 14 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 14 0 0 0.000 0 1.00
25 25 A 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 7 0 0 93 0 14 0 0 0.257 8 0.76
26 26 A 0 0 0 0 0 0 0 0 0 0 0 0 100 0 0 0 0 0 0 0 14 0 0 0.000 0 1.00
27 27 A 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 100 0 14 0 0 0.000 0 1.00
28 28 A 92 0 8 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 13 0 0 0.271 9 0.91
## INSERTION LIST
AliNo IPOS JPOS Len Sequence
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