Complet list of 1n8m hssp file
Complete list of 1n8m.hssp file
HSSP HOMOLOGY DERIVED SECONDARY STRUCTURE OF PROTEINS , VERSION 2.0 2011
PDBID 1N8M
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 2014-05-04
HEADER TOXIN 21-NOV-02 1N8M
COMPND MOL_ID: 1; MOLECULE: POTASSIUM CHANNEL BLOCKING TOXIN 4; CHAIN: A; SYN
SOURCE MOL_ID: 1; SYNTHETIC: YES; OTHER_DETAILS: THIS SEQUENCE OCCURS NATURAL
AUTHOR J.I.GUIJARRO,S.M'BAREK,T.OLAMENDI-PORTUGAL,F.GOMEZ-LAGUNAS, D.GARNIER,
DBREF 1N8M A 1 38 UNP P58498 SCK4_PANIM 1 38
SEQLENGTH 38
NCHAIN 1 chain(s) in 1N8M data set
NALIGN 33
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 : KAX64_PANIM 1.00 1.00 1 38 1 38 38 0 0 38 P58498 Potassium channel toxin alpha-KTx 6.4 OS=Pandinus imperator PE=1 SV=1
2 : KAX6D_HETSP 0.85 0.94 4 37 1 34 34 0 0 34 P84094 Potassium channel toxin alpha-KTx 6.13 OS=Heterometrus spinifer PE=1 SV=1
3 : KAX62_SCOMA 0.76 0.91 4 37 1 34 34 0 0 34 P80719 Potassium channel toxin alpha-KTx 6.2 OS=Scorpio maurus palmatus PE=1 SV=1
4 : KAX69_OPICA 0.75 0.89 2 37 25 60 36 0 0 61 Q6XLL6 Potassium channel toxin alpha-KTx 6.9 OS=Opistophthalmus carinatus PE=2 SV=1
5 : KAX6F_HEMLE 0.71 0.83 4 38 1 35 35 0 0 35 P85528 Potassium channel toxin alpha-KTx 6.15 OS=Hemiscorpius lepturus PE=1 SV=1
6 : KAX61_PANIM 0.68 0.88 4 37 2 35 34 0 0 35 Q10726 Potassium channel toxin alpha-KTx 6.1 OS=Pandinus imperator PE=1 SV=1
7 : KAX65_PANIM 0.68 0.86 2 38 2 38 37 0 0 38 P58490 Potassium channel toxin alpha-KTx 6.5 OS=Pandinus imperator PE=1 SV=1
8 : I6NWV2_HETLA 0.66 0.92 1 38 24 61 38 0 0 61 I6NWV2 Kv1.3 potassium channel blocker (Precursor) OS=Heterometrus laoticus GN=Tx3 PE=3 SV=1
9 : KAX6A_OPICA 0.65 0.89 2 38 24 60 37 0 0 60 Q6XLL5 Potassium channel toxin alpha-KTx 6.10 OS=Opistophthalmus carinatus PE=2 SV=1
10 : KAX6H_OPICY 0.65 0.79 4 37 1 34 34 0 0 34 P86116 Potassium channel toxin alpha-KTx 6.17 OS=Opisthacanthus cayaporum PE=1 SV=2
11 : KAX68_OPICA 0.57 0.81 2 38 25 61 37 0 0 61 Q6XLL7 Potassium channel toxin alpha-KTx 6.8 OS=Opistophthalmus carinatus PE=2 SV=1
12 : KA121_TITSE 0.53 0.80 6 35 10 39 30 0 0 40 P59936 Potassium channel toxin alpha-KTx 12.1 OS=Tityus serrulatus PE=1 SV=2
13 : KA122_TITTR 0.53 0.80 6 35 10 39 30 0 0 40 P0C168 Potassium channel toxin alpha-KTx 12.2 OS=Tityus trivittatus PE=1 SV=1
14 : KA123_TITCO 0.53 0.80 6 35 10 39 30 0 0 40 P0C185 Potassium channel toxin alpha-KTx 12.3 OS=Tityus costatus PE=1 SV=1
15 : KA124_TITST 0.53 0.80 6 35 10 39 30 0 0 40 P0C8L1 Potassium channel toxin alpha-KTx 12.4 OS=Tityus stigmurus PE=1 SV=1
16 : KAX71_PANIM 0.53 0.76 3 36 13 46 34 0 0 47 P55927 Potassium channel toxin alpha-KTx 7.1 (Fragment) OS=Pandinus imperator GN=PTX-1 PE=1 SV=2
17 : KAX72_PANIM 0.53 0.74 3 36 1 34 34 0 0 35 P55928 Potassium channel toxin alpha-KTx 7.2 OS=Pandinus imperator PE=1 SV=1
18 : KAX_ISOMC 0.53 0.67 6 35 30 59 30 0 0 60 P0CJ24 Potassium channel toxin ImKTx88 OS=Isometrus maculatus PE=2 SV=1
19 : H2CYS1_PANCV 0.52 0.73 6 38 31 63 33 0 0 63 H2CYS1 Alpha-KTx-like peptide OS=Pandinus cavimanus PE=3 SV=1
20 : KA232_VAEMS 0.52 0.73 3 35 3 34 33 1 1 35 P0DJ32 Potassium channel toxin alpha-KTx 23.2 OS=Vaejovis mexicanus smithi PE=1 SV=1
21 : KAX1A_PARTR 0.52 0.77 5 35 5 35 31 0 0 37 P83112 Potassium channel toxin alpha-KTx 1.10 OS=Parabuthus transvaalicus PE=1 SV=1
22 : KAX63_HETSP 0.52 0.70 5 37 2 34 33 0 0 34 P59867 Potassium channel toxin alpha-KTx 6.3 OS=Heterometrus spinifer PE=1 SV=1
23 : KA231_VAEMS 0.51 0.66 3 37 3 36 35 1 1 36 P0DJ31 Potassium channel toxin alpha-KTx 23.1 OS=Vaejovis mexicanus smithi PE=1 SV=1
24 : KAX66_OPICA 0.51 0.81 2 38 25 61 37 0 0 61 Q6XLL9 Potassium channel toxin alpha-KTx 6.6 OS=Opistophthalmus carinatus PE=2 SV=1
25 : KAX67_OPICA 0.51 0.81 2 38 25 61 37 0 0 61 Q6XLL8 Potassium channel toxin alpha-KTx 6.7 OS=Opistophthalmus carinatus PE=2 SV=1
26 : I6NXS5_HETLA 0.50 0.74 5 38 2 35 34 0 0 35 I6NXS5 Kv1.3 potassium channel blocker (Fragment) OS=Heterometrus laoticus GN=Tx2 PE=2 SV=1
27 : KA165_LEIQH 0.50 0.75 4 35 5 36 32 0 0 36 P45660 Potassium channel toxin alpha-KTx 16.5 OS=Leiurus quinquestriatus hebraeus PE=1 SV=1
28 : KA166_BUTOS 0.50 0.78 4 35 27 58 32 0 0 58 B8XH42 Potassium channel toxin alpha-KTx 16.6 OS=Buthus occitanus israelis PE=2 SV=1
29 : KAX6B_OPIMA 0.50 0.72 4 38 26 61 36 1 1 63 P0C194 Potassium channel toxin alpha-KTx 6.11 OS=Opisthacanthus madagascariensis PE=1 SV=1
30 : B8XH28_BUTOS 0.48 0.61 4 34 28 57 31 1 1 59 B8XH28 Putative potassium channel toxin Tx1 (Precursor) OS=Buthus occitanus israelis PE=3 SV=1
31 : B8XH29_BUTOS 0.48 0.58 4 34 28 57 31 1 1 60 B8XH29 Putative potassium channel toxin Tx260 OS=Buthus occitanus israelis PE=3 SV=1
32 : KAX3A_BUTOS 0.48 0.61 4 34 28 57 31 1 1 59 P0C908 Potassium channel toxin alpha-KTx 3.10 OS=Buthus occitanus israelis PE=1 SV=1
33 : KA125_LYCMC 0.47 0.72 4 35 28 59 32 0 0 60 P0CH12 Potassium channel toxin alpha-KTx 12.5 OS=Lychas mucronatus PE=2 SV=1
## ALIGNMENTS 1 - 33
SeqNo PDBNo AA STRUCTURE BP1 BP2 ACC NOCC VAR ....:....1....:....2....:....3....:....4....:....5....:....6....:....7
1 1 A I 0 0 202 3 26 I V
2 2 A E - 0 0 108 9 0 E E EEE E EE
3 3 A A - 0 0 65 13 66 A I AGV V TT A AVV
4 4 A I - 0 0 32 25 12 IIVIIVIIIII II I III VVIVVVI
5 5 A R B -A 31 0A 162 28 55 RRSRKKRSRRK SS SRSSKKSRRPKKKK
6 6 A a - 0 0 3 34 0 CCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCC
7 7 A G S S- 0 0 62 34 88 GSTSTRTTSQRGGGGTTNGVKRVRRRYYRRRRS
8 8 A G S > S- 0 0 21 34 52 GGGGLGGGGGTAAAANNGGGSTGTTTDAGGGGS
9 9 A S T >> S+ 0 0 54 34 42 SSSTSTTSSSPSSSSPESSSSPSPPPSSTSSSS
10 10 A R H 3> S+ 0 0 192 34 49 RRKRKSKKKNKRRRRKKSSKKKPKKKRRSRRRS
11 11 A D H <4 S+ 0 0 89 34 33 DDDEDDDQQQDEEEEQQEEEEDEDDDQEDDDDS
12 12 A b H <> S+ 0 0 0 34 0 CCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCC
13 13 A Y H X S+ 0 0 96 34 70 YYYYYGYYYYAYYYYYYYRLLAPAAAWWYLLLY
14 14 A R H X S+ 0 0 203 33 73 RSAASRIDGGDDDDDPPSKPVD.GDDIEEDDDE
15 15 A P H > S+ 0 0 19 34 33 PPPPPPPPPHPPPPPHHHPKKPPPPPAPPPPPP
16 16 A c H X>S+ 0 0 0 34 8 CCCCCCCCCCCCCCCCCCCCCCKCCCCCCCCCC
17 17 A Q H X5S+ 0 0 102 34 76 QMRQKQRKKRRFFFFKKEAKKRCRRRKREKKKR
18 18 A K H <5S+ 0 0 180 34 48 KKKKKQYRQEKKKKKKKGRAQKRKKKKRKKKKG
19 19 A R H <5S+ 0 0 137 34 79 RQQLEQIKQKQAAAAEEIAQAEAQQEVVKAAAV
20 20 A T H <5S- 0 0 63 33 52 TTTTTTTTTTTFFFFTTTT.TTQTTTTTYGGGT
21 21 A G S < +B 31 0A 86 34 41 IIIMIIIMMIMMMMMMMIIMMMMMMMQQMIIIM
29 29 A N T 3 S- 0 0 136 34 0 NNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNN
30 30 A K T 3 S+ 0 0 116 34 59 KKKKRRKKKRKNNNNRRKGKRRRRRRKNRSSSG
31 31 A T E < S-AB 5 28A 39 34 71 TSSANMSSVVTKKKKKKKSKKKKTTKQQHKKKR
32 32 A b E - B 0 27A 12 34 0 CCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCC
33 33 A K E - B 0 26A 94 34 54 KKKKKKKKKKRRRRRKKYVKKKKRRKRRNHHHT
34 34 A c E + B 0 25A 32 34 0 CCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCC
35 35 A Y > + 0 0 100 31 32 YYYYYYYYYYHYYYYFFYYYYNYNNNYYY Y
36 36 A G T 3 - 0 0 7 21 70 GGGGGGGGGGR GG G RYRRR n
37 37 A d T 3 0 0 84 19 7 CCCCCCCCCCC S CCCCC c
38 38 A S < 0 0 171 12 47 S S TGG G G GGG P
## 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 33 0 67 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 3 0 0 0.637 21 0.73
2 2 A 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 100 0 0 9 0 0 0.000 0 1.00
3 3 A 31 0 8 0 0 0 0 8 38 0 0 15 0 0 0 0 0 0 0 0 13 0 0 1.413 47 0.34
4 4 A 28 0 72 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 25 0 0 0.593 19 0.88
5 5 A 0 0 0 0 0 0 0 0 0 4 29 0 0 0 36 32 0 0 0 0 28 0 0 1.209 40 0.44
6 6 A 0 0 0 0 0 0 0 0 0 0 0 0 100 0 0 0 0 0 0 0 34 0 0 0.000 0 1.00
7 7 A 6 0 0 0 0 0 6 21 0 0 12 18 0 0 29 3 3 0 3 0 34 0 0 1.888 63 0.12
8 8 A 0 3 0 0 0 0 0 53 15 0 6 15 0 0 0 0 0 0 6 3 34 0 0 1.441 48 0.48
9 9 A 0 0 0 0 0 0 0 0 0 18 68 12 0 0 0 0 0 3 0 0 34 0 0 0.926 30 0.58
10 10 A 0 0 0 0 0 0 0 0 0 3 15 0 0 0 38 41 0 0 3 0 34 0 0 1.222 40 0.50
11 11 A 0 0 0 0 0 0 0 0 0 0 3 0 0 0 0 0 18 32 0 47 34 0 0 1.130 37 0.67
12 12 A 0 0 0 0 0 0 0 0 0 0 0 0 100 0 0 0 0 0 0 0 34 0 0 0.000 0 1.00
13 13 A 0 15 0 0 0 6 56 3 15 3 0 0 0 0 3 0 0 0 0 0 34 1 0 1.367 45 0.29
14 14 A 3 0 6 0 0 0 0 9 6 9 9 0 0 0 9 3 0 9 0 36 33 0 0 2.010 67 0.26
15 15 A 0 0 0 0 0 0 0 0 3 79 0 0 0 12 0 6 0 0 0 0 34 0 0 0.705 23 0.67
16 16 A 0 0 0 0 0 0 0 0 0 0 0 0 97 0 0 3 0 0 0 0 34 0 0 0.133 4 0.91
17 17 A 0 0 0 3 12 0 0 0 3 0 0 0 3 0 29 32 12 6 0 0 34 0 0 1.706 56 0.24
18 18 A 0 0 0 0 0 0 3 6 3 0 0 0 0 0 12 65 9 3 0 0 34 0 0 1.225 40 0.51
19 19 A 9 3 6 0 0 0 0 0 29 0 0 0 0 0 6 9 24 15 0 0 34 1 0 1.848 61 0.21
20 20 A 0 0 0 0 12 0 3 9 0 0 0 73 0 0 0 0 3 0 0 0 33 0 0 0.917 30 0.48
21 21 A 0 0 0 9 0 0 0 88 0 0 0 0 0 0 0 0 0 0 3 0 34 1 0 0.428 14 0.73
22 22 A 0 0 0 0 0 0 9 0 0 0 6 0 58 0 24 3 0 0 0 0 33 1 0 1.155 38 0.34
23 23 A 0 3 0 3 6 0 3 0 21 45 0 6 0 0 6 6 0 0 0 0 33 0 0 1.685 56 0.23
24 24 A 0 0 0 0 6 0 3 3 0 0 9 0 0 26 6 0 6 0 41 0 34 1 0 1.639 54 0.30
25 25 A 0 0 0 0 0 0 0 52 36 0 12 0 0 0 0 0 0 0 0 0 33 0 0 0.965 32 0.63
26 26 A 0 0 0 0 0 0 0 0 0 0 0 0 0 0 3 97 0 0 0 0 34 0 0 0.133 4 0.97
27 27 A 0 0 0 0 0 0 0 0 0 0 0 0 100 0 0 0 0 0 0 0 34 0 0 0.000 0 1.00
28 28 A 0 0 38 56 0 0 0 0 0 0 0 0 0 0 0 0 6 0 0 0 34 0 0 0.859 28 0.58
29 29 A 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 100 0 34 0 0 0.000 0 1.00
30 30 A 0 0 0 0 0 0 0 6 0 0 9 0 0 0 35 35 0 0 15 0 34 0 0 1.398 46 0.40
31 31 A 6 0 0 3 0 0 0 0 3 0 15 15 0 3 3 44 6 0 3 0 34 0 0 1.777 59 0.29
32 32 A 0 0 0 0 0 0 0 0 0 0 0 0 100 0 0 0 0 0 0 0 34 0 0 0.000 0 1.00
33 33 A 3 0 0 0 0 0 3 0 0 0 0 3 0 9 26 53 0 0 3 0 34 0 0 1.318 43 0.46
34 34 A 0 0 0 0 0 0 0 0 0 0 0 0 100 0 0 0 0 0 0 0 34 0 0 0.000 0 1.00
35 35 A 0 0 0 0 6 0 77 0 0 0 0 0 0 3 0 0 0 0 13 0 31 0 0 0.750 25 0.68
36 36 A 0 0 0 0 0 0 5 67 0 0 0 0 0 0 24 0 0 0 5 0 21 0 1 0.902 30 0.29
37 37 A 0 0 0 0 0 0 0 0 0 0 5 0 95 0 0 0 0 0 0 0 19 0 0 0.206 6 0.93
38 38 A 0 0 0 0 0 0 0 58 0 8 25 8 0 0 0 0 0 0 0 0 12 0 0 1.075 35 0.52
## INSERTION LIST
AliNo IPOS JPOS Len Sequence
29 34 59 1 nNc
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