Complet list of 1lu8 hssp file
Complete list of 1lu8.hssp file
HSSP HOMOLOGY DERIVED SECONDARY STRUCTURE OF PROTEINS , VERSION 2.0 2011
PDBID 1LU8
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 2014-05-03
HEADER TOXIN 22-MAY-02 1LU8
COMPND MOL_ID: 1; MOLECULE: VENOM TOXIN PEPTIDE MTX4; CHAIN: A; FRAGMENT: RES
SOURCE MOL_ID: 1; SYNTHETIC: YES; OTHER_DETAILS: THIS PEPTIDE WAS SYNTHESIZED
AUTHOR H.J.JUNG,C.W.LEE,Y.E.EARM,J.I.KIM
DBREF 1LU8 A 1 34 GB 32309340 AAP79435 47 80
SEQLENGTH 34
NCHAIN 1 chain(s) in 1LU8 data set
NALIGN 10
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 : M5AY85_GRARO 1.00 1.00 1 34 47 80 34 0 0 82 M5AY85 GTx1-17-1 OS=Grammostola rosea PE=3 SV=1
2 : MTX4_GRARO 1TYK 1.00 1.00 1 34 47 80 34 0 0 82 Q7YT39 M-theraphotoxin-Gr1a OS=Grammostola rosea PE=1 SV=1
3 : H7CEK5_GRARO 0.94 1.00 1 34 47 80 34 0 0 82 H7CEK5 Toxin-like peptide OS=Grammostola rosea GN=GTx1-20 PE=3 SV=1
4 : H7CEK9_GRARO 0.91 1.00 1 34 47 80 34 0 0 82 H7CEK9 Toxin-like peptide OS=Grammostola rosea GN=GTx2-4 PE=3 SV=1
5 : M5AXN7_GRARO 0.66 0.84 1 32 47 78 32 0 0 82 M5AXN7 GTx1-16 OS=Grammostola rosea PE=3 SV=1
6 : TX3_PARSR 0.59 0.81 1 32 1 32 32 0 0 34 P84510 Beta-theraphotoxin-Ps1a OS=Paraphysa scrofa PE=1 SV=1
7 : M5AWU2_GRARO 0.53 0.76 1 34 46 79 34 0 0 81 M5AWU2 GTx1-15-2 OS=Grammostola rosea PE=3 SV=1
8 : M5AYC6_GRARO 0.53 0.76 1 34 47 80 34 0 0 82 M5AYC6 GTx1-15-1 OS=Grammostola rosea PE=3 SV=1
9 : TX15_GRARO 0.53 0.76 1 34 47 80 34 0 0 82 P0DJA9 Toxin Gtx1-15 OS=Grammostola rosea PE=1 SV=1
10 : HTX1_HAPLI 0.47 0.74 1 33 1 34 34 1 1 35 B3EWN2 Beta-theraphotoxin-Hl1a OS=Haplopelma lividum PE=1 SV=1
## ALIGNMENTS 1 - 10
SeqNo PDBNo AA STRUCTURE BP1 BP2 ACC NOCC VAR ....:....1....:....2....:....3....:....4....:....5....:....6....:....7
1 1 A G 0 0 122 11 46 GGGGGDDDDA
2 2 A a - 0 0 61 11 0 CCCCCCCCCC
3 3 A L - 0 0 37 11 0 LLLLLLLLLL
4 4 A E > - 0 0 101 11 58 EEEEQGGGGG
5 5 A F T 3 S+ 0 0 89 11 0 FFFFFFFFFF
6 6 A W T 3 S+ 0 0 95 11 105 WWWWMLMMMG
7 7 A W < - 0 0 133 11 41 WWWWWWRRRE
8 8 A K B +A 29 0A 169 11 0 KKKKKKKKKK
9 9 A b - 0 0 15 11 0 CCCCCCCCCC
10 10 A N >> - 0 0 90 11 66 NNNNNNIIIN
11 11 A P T 34 S+ 0 0 102 11 0 PPPPPPPPPP
12 12 A N T 34 S+ 0 0 147 11 59 NNNNDSDDDS
13 13 A D T <4 S+ 0 0 138 11 41 DDDDNNNNNN
14 14 A D < - 0 0 33 11 0 DDDDDDDDDD
15 15 A K + 0 0 135 11 0 KKKKKKKKKK
16 16 A c S S- 0 0 3 11 0 CCCCCCCCCC
17 17 A a - 0 0 22 11 0 CCCCCCCCCC
18 18 A R S S+ 0 0 155 11 11 RRRRRRRRRK
19 19 A P S S- 0 0 100 11 17 PPPPPPPPPs
20 20 A K S S+ 0 0 131 11 66 KKKKNNNNNs
21 21 A L E -B 32 0A 19 11 0 LLLLLLLLLL
22 22 A K E -B 31 0A 95 11 87 KKKKKVVVVV
23 23 A b E -B 30 0A 23 11 0 CCCCCCCCCC
24 24 A S E >>> -B 29 0A 19 11 27 SSSNNSSSSS
25 25 A K T 345S+ 0 0 182 11 59 KKKKTRRRRQ
26 26 A L T 345S- 0 0 127 11 103 LLLLYKTTTK
27 27 A F T <45S- 0 0 133 11 94 FFFFHDHHHH
28 28 A K T <5S+ 0 0 148 11 0 KKKKKKKKKK
29 29 A L E