Complet list of 1y29 hssp file
Complete list of 1y29.hssp file
HSSP HOMOLOGY DERIVED SECONDARY STRUCTURE OF PROTEINS , VERSION 2.0 2011
PDBID 1Y29
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 22-NOV-04 1Y29
COMPND MOL_ID: 1; MOLECULE: HUWENTOXIN-X; CHAIN: A; ENGINEERED: YES
SOURCE MOL_ID: 1; SYNTHETIC: YES; OTHER_DETAILS: THIS PEPTIDE WAS ISOLATED FR
AUTHOR Z.LIU,S.LIANG
DBREF 1Y29 A 1 28 UNP P68424 TXH10_ORNHU 1 28
SEQLENGTH 28
NCHAIN 1 chain(s) in 1Y29 data set
NALIGN 8
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 : TXH10_HAPSC 1Y29 1.00 1.00 1 28 41 68 28 0 0 68 P68424 Omega-theraphotoxin-Hh1a OS=Haplopelma schmidti PE=1 SV=2
2 : H10A1_HAPHA 0.96 1.00 1 28 38 65 28 0 0 65 D2Y2C4 Hainantoxin-X OS=Haplopelma hainanum PE=2 SV=1
3 : H10A2_HAPHA 0.96 1.00 1 28 38 65 28 0 0 65 D2Y2R1 Hainantoxin-X.2 OS=Haplopelma hainanum PE=3 SV=1
4 : H10A3_HAPHA 0.96 1.00 1 28 38 65 28 0 0 65 D2Y2R3 Hainantoxin-X.3 OS=Haplopelma hainanum PE=3 SV=1
5 : H10B1_HAPHA 0.93 0.96 1 28 44 71 28 0 0 71 D2Y2F2 Hainantoxin-X-2 OS=Haplopelma hainanum PE=2 SV=1
6 : H10C1_HAPHA 0.89 0.93 1 28 38 65 28 0 0 65 D2Y2R4 Hainantoxin-X-3 OS=Haplopelma hainanum PE=3 SV=1
7 : TXFK2_PSACA 0.57 0.79 1 28 38 65 28 0 0 65 P0C202 U2-theraphotoxin-Pc1a OS=Psalmopoeus cambridgei PE=1 SV=1
8 : JZT51_CHIGU 0.50 0.71 1 28 38 64 28 1 1 64 B1P1B4 U6-theraphotoxin-Cj1a OS=Chilobrachys guangxiensis PE=2 SV=1
## ALIGNMENTS 1 - 8
SeqNo PDBNo AA STRUCTURE BP1 BP2 ACC NOCC VAR ....:....1....:....2....:....3....:....4....:....5....:....6....:....7
1 1 A K 0 0 240 9 39 KKKKKKRR
2 2 A a - 0 0 55 9 21 CCCCGYCC
3 3 A L B -a 18 0A 29 9 58 LLLLLLLE
4 4 A P > - 0 0 69 9 0 PPPPPPPP
5 5 A P T 3 S+ 0 0 104 9 62 PPPPPPAS
6 6 A G T 3 S+ 0 0 55 9 0 GGGGGGGG
7 7 A K < - 0 0 89 9 0 KKKKKKKK
8 8 A P - 0 0 86 9 35 PPPPPPTP
9 9 A b - 0 0 6 9 0 CCCCCCCC
10 10 A Y > - 0 0 185 8 82 YYYYYYV.
11 11 A G T 3 S- 0 0 58 9 101 GGGGGERR
12 12 A A T 3 S+ 0 0 100 9 54 AAAAAAGP
13 13 A T < + 0 0 124 9 84 TTTTTTPL
14 14 A Q - 0 0 59 9 83 QQQQQQMM
15 15 A K S S+ 0 0 206 9 39 KKKKKKRR
16 16 A I - 0 0 64 9 11 IIIIIIVI
17 17 A P - 0 0 93 9 0 PPPPPPPP
18 18 A c B -a 3 0A 26 9 0 CCCCCCCC
19 19 A a S S+ 0 0 78 9 0 CCCCCCCC
20 20 A G S S- 0 0 26 9 0 GGGGGGGG
21 21 A V - 0 0 109 9 89 VVVVVVSS
22 22 A b B +B 27 0B 61 9 0 CCCCCCCC
23 23 A S S S- 0 0 60 9 51 SSSSSSSV
24 24 A H S S- 0 0 177 9 53 HHHHHHQR
25 25 A N S S+ 0 0 97 9 35 NNNNNNNG
26 26 A K - 0 0 104 9 50 KNNNNNKK
27 27 A c B B 22 0B 1 9 0 CCCCCCCC
28 28 A T 0 0 102 9 35 TTTTTTTA
## 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 22 78 0 0 0 0 9 0 0 0.530 17 0.61
2 2 A 0 0 0 0 0 0 11 11 0 0 0 0 78 0 0 0 0 0 0 0 9 0 0 0.684 22 0.79
3 3 A 0 89 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 11 0 0 9 0 0 0.349 11 0.42
4 4 A 0 0 0 0 0 0 0 0 0 100 0 0 0 0 0 0 0 0 0 0 9 0 0 0.000 0 1.00
5 5 A 0 0 0 0 0 0 0 0 11 78 11 0 0 0 0 0 0 0 0 0 9 0 0 0.684 22 0.38
6 6 A 0 0 0 0 0 0 0 100 0 0 0 0 0 0 0 0 0 0 0 0 9 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 9 0 0 0.000 0 1.00
8 8 A 0 0 0 0 0 0 0 0 0 89 0 11 0 0 0 0 0 0 0 0 9 0 0 0.349 11 0.65
9 9 A 0 0 0 0 0 0 0 0 0 0 0 0 100 0 0 0 0 0 0 0 9 1 0 0.000 0 1.00
10 10 A 13 0 0 0 0 0 88 0 0 0 0 0 0 0 0 0 0 0 0 0 8 0 0 0.377 12 0.18
11 11 A 0 0 0 0 0 0 0 67 0 0 0 0 0 0 22 0 0 11 0 0 9 0 0 0.849 28 -0.02
12 12 A 0 0 0 0 0 0 0 11 78 11 0 0 0 0 0 0 0 0 0 0 9 0 0 0.684 22 0.46
13 13 A 0 11 0 0 0 0 0 0 0 11 0 78 0 0 0 0 0 0 0 0 9 0 0 0.684 22 0.16
14 14 A 0 0 0 22 0 0 0 0 0 0 0 0 0 0 0 0 78 0 0 0 9 0 0 0.530 17 0.16
15 15 A 0 0 0 0 0 0 0 0 0 0 0 0 0 0 22 78 0 0 0 0 9 0 0 0.530 17 0.61
16 16 A 11 0 89 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 9 0 0 0.349 11 0.88
17 17 A 0 0 0 0 0 0 0 0 0 100 0 0 0 0 0 0 0 0 0 0 9 0 0 0.000 0 1.00
18 18 A 0 0 0 0 0 0 0 0 0 0 0 0 100 0 0 0 0 0 0 0 9 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 9 0 0 0.000 0 1.00
20 20 A 0 0 0 0 0 0 0 100 0 0 0 0 0 0 0 0 0 0 0 0 9 0 0 0.000 0 1.00
21 21 A 78 0 0 0 0 0 0 0 0 0 22 0 0 0 0 0 0 0 0 0 9 0 0 0.530 17 0.11
22 22 A 0 0 0 0 0 0 0 0 0 0 0 0 100 0 0 0 0 0 0 0 9 0 0 0.000 0 1.00
23 23 A 11 0 0 0 0 0 0 0 0 0 89 0 0 0 0 0 0 0 0 0 9 0 0 0.349 11 0.48
24 24 A 0 0 0 0 0 0 0 0 0 0 0 0 0 78 11 0 11 0 0 0 9 0 0 0.684 22 0.46
25 25 A 0 0 0 0 0 0 0 11 0 0 0 0 0 0 0 0 0 0 89 0 9 0 0 0.349 11 0.64
26 26 A 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 44 0 0 56 0 9 0 0 0.687 22 0.50
27 27 A 0 0 0 0 0 0 0 0 0 0 0 0 100 0 0 0 0 0 0 0 9 0 0 0.000 0 1.00
28 28 A 0 0 0 0 0 0 0 0 11 0 0 89 0 0 0 0 0 0 0 0 9 0 0 0.349 11 0.64
## INSERTION LIST
AliNo IPOS JPOS Len Sequence
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