Complet list of 1pvz hssp file
Complete list of 1pvz.hssp file
HSSP HOMOLOGY DERIVED SECONDARY STRUCTURE OF PROTEINS , VERSION 2.0 2011
PDBID 1PVZ
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 2014-05-06
HEADER TOXIN 29-JUN-03 1PVZ
COMPND MOL_ID: 1; MOLECULE: K+ TOXIN-LIKE PEPTIDE; CHAIN: A; SYNONYM: SCORPIO
SOURCE MOL_ID: 1; ORGANISM_SCIENTIFIC: MESOBUTHUS MARTENSII; ORGANISM_COMMON:
AUTHOR H.WU,N.ZHANG,Y.WANG,Q.ZHANG,L.OU,M.LI,G.HU
DBREF 1PVZ A 1 31 UNP Q95NK7 SKK2_MESMA 24 54
SEQLENGTH 31
NCHAIN 1 chain(s) in 1PVZ data set
NALIGN 17
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 : KA142_MESMA 1PVZ 1.00 1.00 1 31 24 54 31 0 0 54 Q95NK7 Potassium channel toxin alpha-KTx 14.2 OS=Mesobuthus martensii PE=1 SV=1
2 : V9LLL4_MESMA 1.00 1.00 1 31 24 54 31 0 0 54 V9LLL4 Toxin BmTXKS3 OS=Mesobuthus martensii PE=3 SV=1
3 : I3Y3N9_MESMA 0.97 1.00 1 31 20 50 31 0 0 50 I3Y3N9 MarKTX-6 (Fragment) OS=Mesobuthus martensii PE=3 SV=1
4 : KA141_MESMA 0.97 1.00 1 31 24 54 31 0 0 54 Q967F9 Potassium channel toxin alpha-KTx 14.1 OS=Mesobuthus martensii PE=2 SV=1
5 : KA144_MESMA 0.97 1.00 1 31 24 54 31 0 0 54 Q9BKB4 Potassium channel toxin alpha-KTx 14.4 OS=Mesobuthus martensii PE=1 SV=1
6 : Q8MXD2_MESMA 0.97 0.97 1 31 24 53 31 1 1 53 Q8MXD2 Putative potassium channel blocker OS=Mesobuthus martensii GN=KK1 PE=3 SV=1
7 : G9BNN8_MESMA 0.94 0.97 1 31 20 50 31 0 0 50 G9BNN8 K+ channel blocker (Fragment) OS=Mesobuthus martensii GN=KTX-df1 PE=2 SV=1
8 : G9BNP2_MESMA 0.94 0.97 1 31 20 50 31 0 0 50 G9BNP2 K+ channel blocker (Fragment) OS=Mesobuthus martensii GN=KTX-df5 PE=2 SV=1
9 : I6QN25_MESMA 0.90 0.97 1 31 20 50 31 0 0 50 I6QN25 KK3 (Fragment) OS=Mesobuthus martensii PE=3 SV=1
10 : KA143_MESMA 0.90 0.97 1 31 24 54 31 0 0 54 Q9BJX2 Potassium channel toxin alpha-KTx 14.3 OS=Mesobuthus martensii PE=2 SV=1
11 : A0ASK0_MESMA 0.87 0.97 1 31 24 54 31 0 0 54 A0ASK0 KK14 (Precursor) OS=Mesobuthus martensii PE=3 SV=1
12 : G9BNN9_MESMA 0.87 0.97 1 31 20 50 31 0 0 50 G9BNN9 K+ channel blocker (Fragment) OS=Mesobuthus martensii GN=KTX-df2 PE=2 SV=1
13 : G9BNP1_MESMA 0.87 0.94 1 31 20 50 31 0 0 50 G9BNP1 K+ channel blocker (Fragment) OS=Mesobuthus martensii GN=KTX-df4 PE=2 SV=1
14 : G9BNP0_MESMA 0.84 0.90 1 31 20 50 31 0 0 50 G9BNP0 K+ channel blocker (Fragment) OS=Mesobuthus martensii GN=KTX-df3 PE=2 SV=1
15 : B8XH35_BUTOS 0.67 0.87 1 30 24 53 30 0 0 55 B8XH35 Putative potassium channel toxin Tx590 OS=Buthus occitanus israelis PE=4 SV=1
16 : G9BNN6_MESEU 0.58 0.81 1 31 20 50 31 0 0 50 G9BNN6 K+ channel blocker (Fragment) OS=Mesobuthus eupeus GN=KTX-df1 PE=2 SV=1
17 : G9BNN7_MESEU 0.58 0.84 1 31 20 50 31 0 0 50 G9BNN7 K+ channel blocker (Fragment) OS=Mesobuthus eupeus GN=KTX-df2 PE=2 SV=1
## ALIGNMENTS 1 - 17
SeqNo PDBNo AA STRUCTURE BP1 BP2 ACC NOCC VAR ....:....1....:....2....:....3....:....4....:....5....:....6....:....7
1 1 A T 0 0 152 18 0 TTTTTTTTTTTTTTTTT
2 2 A P + 0 0 69 18 57 PPPPPPPRPPPPPLAAA
3 3 A F + 0 0 131 18 34 FFFFFFFFFFFFFFIII
4 4 A A S S+ 0 0 60 18 40 AAAAAAAAEEEEEEAAA
5 5 A I E S-A 28 0A 59 18 16 IIIIIIIIVVVVVVVVV
6 6 A K E -A 27 0A 126 17 20 KKRKK.RRRRRRRRRRR
7 7 A a - 0 0 5 18 0 CCCCCCCCCCCCCCCCC
8 8 A A S S- 0 0 69 18 51 AAAAAAAAAAAAAAVSS
9 9 A T S >> S- 0 0 71 18 47 TTTTTTNTTTTTTTTII
10 10 A D H 3> S+ 0 0 95 18 27 DDDDNDDDDDDDDDDNN
11 11 A A H 3> S+ 0 0 54 18 16 AAAAAAAAAAAAAADAA
12 12 A D H <> S+ 0 0 17 18 0 DDDDDDDDDDDDDDDDD
13 13 A b H >X S+ 0 0 0 18 0 CCCCCCCCCCCCCCCCC
14 14 A S H 3< S+ 0 0 24 18 81 SSSSSSSSSSASSSFFF
15 15 A R H 3< S+ 0 0 186 18 57 RRRRRRRRRRRRRRRGG
16 16 A K H << S+ 0 0 89 18 0 KKKKKKKKKKKKKKKKK
17 17 A c S < S- 0 0 28 18 0 CCCCCCCCCCCCCCCCC
18 18 A P S S+ 0 0 118 18 17 PPPPPPPPPPPPHHPPP
19 19 A G S S- 0 0 66 18 0 GGGGGGGGGGGGGGGGG
20 20 A N - 0 0 114 18 41 NNNNNNNNNNNNNNNYH
21 21 A P - 0 0 24 18 0 PPPPPPPPPPPPPPPPP
22 22 A P - 0 0 79 18 70 PPPSPPPPPPPPPPSII
23 23 A a E -B 28 0A 12 18 0 CCCCCCCCCCCCCCCCC
24 24 A R E > S+B 27 0A 198 18 29 RRRRRRRRRRRRRRKKK
25 25 A N T 3 S- 0 0 113 18 19 NNNNNNNNNNNNNNRNN
26 26 A G T 3 S+ 0 0 25 18 51 GGGGGGGGGGGGGGGKK
27 27 A F E < S-AB 6 24A 42 18 1 FFFFFFFFFFFLFFFFF
28 28 A b E -AB 5 23A 1 18 0 CCCCCCCCCCCCCCCCC
29 29 A A S S+ 0 0 69 18 0 AAAAAAAAAAAAAAAAA
30 30 A c 0 0 27 18 0 CCCCCCCCCCCCCCCCC
31 31 A T 0 0 170 17 0 TTTTTTTTTTTTTT TT
## 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 0 100 0 0 0 0 0 0 0 0 18 0 0 0.000 0 1.00
2 2 A 0 6 0 0 0 0 0 0 17 72 0 0 0 0 6 0 0 0 0 0 18 0 0 0.855 28 0.42
3 3 A 0 0 17 0 83 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 18 0 0 0.451 15 0.66
4 4 A 0 0 0 0 0 0 0 0 67 0 0 0 0 0 0 0 0 33 0 0 18 0 0 0.637 21 0.59
5 5 A 50 0 50 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 18 1 0 0.693 23 0.83
6 6 A 0 0 0 0 0 0 0 0 0 0 0 0 0 0 71 29 0 0 0 0 17 0 0 0.606 20 0.79
7 7 A 0 0 0 0 0 0 0 0 0 0 0 0 100 0 0 0 0 0 0 0 18 0 0 0.000 0 1.00
8 8 A 6 0 0 0 0 0 0 0 83 0 11 0 0 0 0 0 0 0 0 0 18 0 0 0.557 18 0.48
9 9 A 0 0 11 0 0 0 0 0 0 0 0 83 0 0 0 0 0 0 6 0 18 0 0 0.557 18 0.52
10 10 A 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 17 83 18 0 0 0.451 15 0.72
11 11 A 0 0 0 0 0 0 0 0 94 0 0 0 0 0 0 0 0 0 0 6 18 0 0 0.215 7 0.84
12 12 A 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 100 18 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 18 0 0 0.000 0 1.00
14 14 A 0 0 0 0 17 0 0 0 6 0 78 0 0 0 0 0 0 0 0 0 18 0 0 0.655 21 0.19
15 15 A 0 0 0 0 0 0 0 11 0 0 0 0 0 0 89 0 0 0 0 0 18 0 0 0.349 11 0.42
16 16 A 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 100 0 0 0 0 18 0 0 0.000 0 1.00
17 17 A 0 0 0 0 0 0 0 0 0 0 0 0 100 0 0 0 0 0 0 0 18 0 0 0.000 0 1.00
18 18 A 0 0 0 0 0 0 0 0 0 89 0 0 0 11 0 0 0 0 0 0 18 0 0 0.349 11 0.82
19 19 A 0 0 0 0 0 0 0 100 0 0 0 0 0 0 0 0 0 0 0 0 18 0 0 0.000 0 1.00
20 20 A 0 0 0 0 0 0 6 0 0 0 0 0 0 6 0 0 0 0 89 0 18 0 0 0.426 14 0.58
21 21 A 0 0 0 0 0 0 0 0 0 100 0 0 0 0 0 0 0 0 0 0 18 0 0 0.000 0 1.00
22 22 A 0 0 11 0 0 0 0 0 0 78 11 0 0 0 0 0 0 0 0 0 18 0 0 0.684 22 0.30
23 23 A 0 0 0 0 0 0 0 0 0 0 0 0 100 0 0 0 0 0 0 0 18 0 0 0.000 0 1.00
24 24 A 0 0 0 0 0 0 0 0 0 0 0 0 0 0 83 17 0 0 0 0 18 0 0 0.451 15 0.70
25 25 A 0 0 0 0 0 0 0 0 0 0 0 0 0 0 6 0 0 0 94 0 18 0 0 0.215 7 0.81
26 26 A 0 0 0 0 0 0 0 89 0 0 0 0 0 0 0 11 0 0 0 0 18 0 0 0.349 11 0.49
27 27 A 0 6 0 0 94 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 18 0 0 0.215 7 0.98
28 28 A 0 0 0 0 0 0 0 0 0 0 0 0 100 0 0 0 0 0 0 0 18 0 0 0.000 0 1.00
29 29 A 0 0 0 0 0 0 0 0 100 0 0 0 0 0 0 0 0 0 0 0 18 0 0 0.000 0 1.00
30 30 A 0 0 0 0 0 0 0 0 0 0 0 0 100 0 0 0 0 0 0 0 18 0 0 0.000 0 1.00
31 31 A 0 0 0 0 0 0 0 0 0 0 0 100 0 0 0 0 0 0 0 0 17 0 0 0.000 0 1.00
## INSERTION LIST
AliNo IPOS JPOS Len Sequence
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