Complet list of 1v56 hssp file
Complete list of 1v56.hssp file
HSSP HOMOLOGY DERIVED SECONDARY STRUCTURE OF PROTEINS , VERSION 2.0 2011
PDBID 1V56
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 21-NOV-03 1V56
COMPND MOL_ID: 1; MOLECULE: SPINOXIN; CHAIN: A; ENGINEERED: YES
SOURCE MOL_ID: 1; SYNTHETIC: YES; OTHER_DETAILS: THIS PEPTIDE WAS CHEMICALLY
AUTHOR K.KOBAYASHI,Y.SUGAHARA,S.NIRTHANAN,I.HUYS, P.GOPALAKRISHNAKONE,J.TYTGA
DBREF 1V56 A 1 35 PDB 1V56 1V56 1 35
SEQLENGTH 34
NCHAIN 1 chain(s) in 1V56 data set
NALIGN 37
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 : KAX6D_HETSP 1V56 1.00 1.00 1 34 1 34 34 0 0 34 P84094 Potassium channel toxin alpha-KTx 6.13 OS=Heterometrus spinifer PE=1 SV=1
2 : KAX64_PANIM 1N8M 0.85 0.94 1 34 4 37 34 0 0 38 P58498 Potassium channel toxin alpha-KTx 6.4 OS=Pandinus imperator PE=1 SV=1
3 : KAX62_SCOMA 1WPD 0.82 0.94 1 34 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 0.76 0.91 1 34 27 60 34 0 0 61 Q6XLL6 Potassium channel toxin alpha-KTx 6.9 OS=Opistophthalmus carinatus PE=2 SV=1
5 : I6NWV2_HETLA 0.74 0.91 1 34 27 60 34 0 0 61 I6NWV2 Kv1.3 potassium channel blocker (Precursor) OS=Heterometrus laoticus GN=Tx3 PE=3 SV=1
6 : KAX6A_OPICA 0.74 0.91 1 34 26 59 34 0 0 60 Q6XLL5 Potassium channel toxin alpha-KTx 6.10 OS=Opistophthalmus carinatus PE=2 SV=1
7 : KAX6F_HEMLE 0.74 0.91 1 34 1 34 34 0 0 35 P85528 Potassium channel toxin alpha-KTx 6.15 OS=Hemiscorpius lepturus PE=1 SV=1
8 : KAX65_PANIM 1QKY 0.71 0.85 1 34 4 37 34 0 0 38 P58490 Potassium channel toxin alpha-KTx 6.5 OS=Pandinus imperator PE=1 SV=1
9 : KAX61_PANIM 1WZ5 0.65 0.82 1 34 2 35 34 0 0 35 Q10726 Potassium channel toxin alpha-KTx 6.1 OS=Pandinus imperator PE=1 SV=1
10 : KAX6H_OPICY 0.65 0.79 1 34 1 34 34 0 0 34 P86116 Potassium channel toxin alpha-KTx 6.17 OS=Opisthacanthus cayaporum PE=1 SV=2
11 : KAXO1_OPICY 0.62 0.81 1 26 1 26 26 0 0 26 P86115 Toxin OcyKTx1 (Fragment) OS=Opisthacanthus cayaporum PE=1 SV=1
12 : KAX68_OPICA 0.59 0.79 1 34 27 60 34 0 0 61 Q6XLL7 Potassium channel toxin alpha-KTx 6.8 OS=Opistophthalmus carinatus PE=2 SV=1
13 : KAX_ISOMC 0.57 0.70 3 32 30 59 30 0 0 60 P0CJ24 Potassium channel toxin ImKTx88 OS=Isometrus maculatus PE=2 SV=1
14 : H2CYS1_PANCV 0.56 0.72 2 33 30 61 32 0 0 63 H2CYS1 Alpha-KTx-like peptide OS=Pandinus cavimanus PE=3 SV=1
15 : KAX71_PANIM 2PTA 0.55 0.82 1 33 14 46 33 0 0 47 P55927 Potassium channel toxin alpha-KTx 7.1 (Fragment) OS=Pandinus imperator GN=PTX-1 PE=1 SV=2
16 : KAX72_PANIM 1C49 0.55 0.79 1 33 2 34 33 0 0 35 P55928 Potassium channel toxin alpha-KTx 7.2 OS=Pandinus imperator PE=1 SV=1
17 : KA232_VAEMS 0.53 0.72 1 32 4 34 32 1 1 35 P0DJ32 Potassium channel toxin alpha-KTx 23.2 OS=Vaejovis mexicanus smithi PE=1 SV=1
18 : KAX66_OPICA 0.53 0.82 1 34 27 60 34 0 0 61 Q6XLL9 Potassium channel toxin alpha-KTx 6.6 OS=Opistophthalmus carinatus PE=2 SV=1
19 : KAX67_OPICA 0.53 0.79 1 34 27 60 34 0 0 61 Q6XLL8 Potassium channel toxin alpha-KTx 6.7 OS=Opistophthalmus carinatus PE=2 SV=1
20 : I6NXS5_HETLA 0.52 0.73 2 34 2 34 33 0 0 35 I6NXS5 Kv1.3 potassium channel blocker (Fragment) OS=Heterometrus laoticus GN=Tx2 PE=2 SV=1
21 : KAX63_HETSP 1WPD 0.52 0.70 2 34 2 34 33 0 0 34 P59867 Potassium channel toxin alpha-KTx 6.3 OS=Heterometrus spinifer PE=1 SV=1
22 : KAX6B_OPIMA 1WMT 0.51 0.69 1 34 26 60 35 1 1 63 P0C194 Potassium channel toxin alpha-KTx 6.11 OS=Opisthacanthus madagascariensis PE=1 SV=1
23 : KA125_LYCMC 0.50 0.69 1 32 28 59 32 0 0 60 P0CH12 Potassium channel toxin alpha-KTx 12.5 OS=Lychas mucronatus PE=2 SV=1
24 : KA165_LEIQH 0.50 0.72 1 32 5 36 32 0 0 36 P45660 Potassium channel toxin alpha-KTx 16.5 OS=Leiurus quinquestriatus hebraeus PE=1 SV=1
25 : KA166_BUTOS 0.50 0.75 1 32 27 58 32 0 0 58 B8XH42 Potassium channel toxin alpha-KTx 16.6 OS=Buthus occitanus israelis PE=2 SV=1
26 : KA231_VAEMS 2K9O 0.50 0.65 1 34 4 36 34 1 1 36 P0DJ31 Potassium channel toxin alpha-KTx 23.1 OS=Vaejovis mexicanus smithi PE=1 SV=1
27 : KAX1A_PARTR 0.50 0.75 1 32 4 35 32 0 0 37 P83112 Potassium channel toxin alpha-KTx 1.10 OS=Parabuthus transvaalicus PE=1 SV=1
28 : KAX42_TITSE 1TSK 0.50 0.60 2 31 28 57 30 0 0 57 P56219 Potassium channel toxin alpha-KTx 4.2 OS=Tityus serrulatus PE=1 SV=2
29 : B8XH28_BUTOS 0.48 0.58 1 31 28 57 31 1 1 59 B8XH28 Putative potassium channel toxin Tx1 (Precursor) OS=Buthus occitanus israelis PE=3 SV=1
30 : B8XH29_BUTOS 0.48 0.58 1 31 28 57 31 1 1 60 B8XH29 Putative potassium channel toxin Tx260 OS=Buthus occitanus israelis PE=3 SV=1
31 : KAX3A_BUTOS 0.48 0.55 1 31 28 57 31 1 1 59 P0C908 Potassium channel toxin alpha-KTx 3.10 OS=Buthus occitanus israelis PE=1 SV=1
32 : KA121_TITSE 1C56 0.47 0.78 1 32 8 39 32 0 0 40 P59936 Potassium channel toxin alpha-KTx 12.1 OS=Tityus serrulatus PE=1 SV=2
33 : KA122_TITTR 0.47 0.78 1 32 8 39 32 0 0 40 P0C168 Potassium channel toxin alpha-KTx 12.2 OS=Tityus trivittatus PE=1 SV=1
34 : KA123_TITCO 0.47 0.78 1 32 8 39 32 0 0 40 P0C185 Potassium channel toxin alpha-KTx 12.3 OS=Tityus costatus PE=1 SV=1
35 : KA124_TITST 0.47 0.78 1 32 8 39 32 0 0 40 P0C8L1 Potassium channel toxin alpha-KTx 12.4 OS=Tityus stigmurus PE=1 SV=1
36 : KA164_MESEU 0.47 0.75 1 32 28 59 32 0 0 59 D3JXM1 Potassium channel toxin alpha-KTx 16.4 OS=Mesobuthus eupeus PE=1 SV=2
37 : KA167_MESGB 0.47 0.75 1 32 28 59 32 0 0 59 B3EWY1 Potassium channel toxin alpha-KTx 16.7 OS=Mesobuthus gibbosus PE=1 SV=2
## ALIGNMENTS 1 - 37
SeqNo PDBNo AA STRUCTURE BP1 BP2 ACC NOCC VAR ....:....1....:....2....:....3....:....4....:....5....:....6....:....7
1 1 A I 0 0 48 33 23 IIVIIIIIVIII IIIII IIVVIM VVVLLLLVV
2 2 A R B -A 28 0A 149 37 62 RRSRSRKRKRRK RSSSKKSSPKRRSRRKKKAAEAKK
3 3 A a + 0 0 1 38 0 CCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCC
4 4 A S S S- 0 0 85 38 89 SGTSTSTTRQQRNGTTVRRRRRSYYVKYRRRGGGGSS
5 5 A G S > S- 0 0 27 38 55 GGGGGGLGGGGTGGNNGTTTTGSDAGSRGGGAAAAAA
6 6 A S T >4 S+ 0 0 65 38 38 SSSTSSSTTSSPSSPESPPPPTSSSSSSSSSSSSSSS
7 7 A R G >> S+ 0 0 170 38 52 RRKRKKKKSNNKSSKKKKKKKSSRRPKPRRRRRRRRR
8 8 A D G 34 S+ 0 0 21 38 32 DDDEQQDDDQQDEEQQEDDDDDSQEEEDDDDEEEEEE
9 9 A b G S+ 0 0 73 38 66 YYYYYYYYGYYAYRYYLAAAAYYWWPLYLLLYYYYWW
11 11 A S H X S+ 0 0 66 37 75 SRAADGSIRGGDSKPPPGDDDEEIE.VSDDDDDDDVV
12 12 A P H > S+ 0 0 25 38 42 PPPPPPPPPHHPHPHHKPPPPPPAPPKAPPPPPPPAA
13 13 A c H X>S+ 0 0 0 38 7 CCCCCCCCCCCCCCCCCCCCCCCCCKCCCCCCCCCCC
14 14 A M H X5S+ 0 0 125 38 72 MQRQKKKRQRRREAKKKRRRRERKRCKKKKKFFFFKK
15 15 A K H <5S+ 0 0 155 38 47 KKKKRQKYQEEKGRKKAKKKKKGKRRQKKKKKKKKKK
16 16 A Q H <5S- 0 0 116 38 80 QRQLKQEIQKKQIAEEQQQEEKVVVAALAAAAAAAVV
17 17 A T H <5S- 0 0 82 37 51 TTTTTTTTTTTTTTTT.TTTTYTTTQTVGGGFFFFTT
18 18 A G << - 0 0 40 38 23 GGGGGGGGGGGGGGGGGGGGGNGGGGGGMMMGGGGGG
19 19 A c + 0 0 2 37 68 CCCCCCCCCCCCKYYYCCCCCCRSSCRKR.RRRRRSS
20 20 A P S S+ 0 0 90 37 76 PPPLPTPFPMPPRYPPKPPPPAATAKPA.RFAAAAGG
21 21 A N S S+ 0 0 75 38 71 NNNNNNRNNNNHSSNNSHHHYRHQQNNTFFGHHHHQQ
22 22 A A E -B 31 0B 17 37 34 AAAAASASSGGAGSAAGGGGGAGGAGGGGG.GGGGGG
23 23 A K E -B 30 0B 96 38 2 KKKKKKKRKKKKKKKKKKKKKKKKKKKKKKKKKKKKK
24 24 A a E +B 29 0B 36 38 0 CCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCC
25 25 A I S S- 0 0 97 38 52 IIIMMMIIIIIMIIMMMMMMMMMQQMMTIIIMMMMQQ
26 26 A N S S- 0 0 132 38 3 NNNNNNNNNNDNNNNNNNNNNNNNNNNNNNNNNNNNN
27 27 A K S S+ 0 0 134 37 63 KKKKKKRKRR KKGRRKRRRRRGKNRRGSSSNNNNNN
28 28 A S B -A 2 0A 68 37 72 STSASVNSMV TKSKKKTTKKHRQQKKRKKKKKKKQQ
29 29 A b E -B 24 0B 12 37 0 CCCCCCCCCC CCCCCCCCCCCCCCCCCCCCCCCCCC
30 30 A K E -B 23 0B 108 37 55 KKKKKKKKKK RYVKKKRRKKNTRRKKDHHHRRRRRR
31 31 A d E > -B 22 0B 25 37 0 CCCCCCCCCC CCCCCCCCCCCCCCCCCCCCCCCCCC
32 32 A Y T 3 S+ 0 0 110 33 30 YYYYYYYYYY HYYFFYNNNNYYYYYY YYYYYY
33 33 A G T 3 0 0 33 21 71 GGGGGGGGGG R GGG RRRRn Y
34 34 A d < 0 0 104 18 0 CCCCCCCCCC C CCCCc C
## 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 27 12 58 3 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 33 0 0 1.034 34 0.76
2 2 A 0 0 0 0 0 0 0 0 8 3 22 0 0 0 35 30 0 3 0 0 37 0 0 1.458 48 0.38
3 3 A 0 0 0 0 0 0 0 0 0 0 0 0 100 0 0 0 0 0 0 0 38 0 0 0.000 0 1.00
4 4 A 5 0 0 0 0 0 8 16 0 0 18 16 0 0 26 3 5 0 3 0 38 0 0 1.948 65 0.11
5 5 A 0 3 0 0 0 0 0 50 18 0 5 13 0 0 3 0 0 0 5 3 38 0 0 1.522 50 0.44
6 6 A 0 0 0 0 0 0 0 0 0 16 71 11 0 0 0 0 0 3 0 0 38 0 0 0.867 28 0.62
7 7 A 0 0 0 0 0 0 0 0 0 5 13 0 0 0 39 37 0 0 5 0 38 0 0 1.312 43 0.47
8 8 A 0 0 0 0 0 0 0 0 0 0 3 0 0 0 0 0 18 34 0 45 38 0 0 1.134 37 0.67
9 9 A 0 0 0 0 0 0 0 0 0 0 0 0 100 0 0 0 0 0 0 0 38 0 0 0.000 0 1.00
10 10 A 0 13 0 0 0 11 55 3 13 3 0 0 0 0 3 0 0 0 0 0 38 1 0 1.386 46 0.33
11 11 A 8 0 5 0 0 0 0 11 5 8 14 0 0 0 5 3 0 8 0 32 37 0 0 2.058 68 0.25
12 12 A 0 0 0 0 0 0 0 0 11 71 0 0 0 13 0 5 0 0 0 0 38 0 0 0.902 30 0.58
13 13 A 0 0 0 0 0 0 0 0 0 0 0 0 97 0 0 3 0 0 0 0 38 0 0 0.122 4 0.92
14 14 A 0 0 0 5 11 0 0 0 3 0 0 0 3 0 29 37 8 5 0 0 38 0 0 1.666 55 0.28
15 15 A 0 0 0 0 0 0 3 5 3 0 0 0 0 0 11 66 8 5 0 0 38 0 0 1.214 40 0.53
16 16 A 13 5 5 0 0 0 0 0 26 0 0 0 0 0 3 11 24 13 0 0 38 1 0 1.869 62 0.19
17 17 A 3 0 0 0 11 0 3 8 0 0 0 73 0 0 0 0 3 0 0 0 37 0 0 0.967 32 0.49
18 18 A 0 0 0 8 0 0 0 89 0 0 0 0 0 0 0 0 0 0 3 0 38 1 0 0.396 13 0.76
19 19 A 0 0 0 0 0 0 8 0 0 0 11 0 54 0 22 5 0 0 0 0 37 1 0 1.266 42 0.32
20 20 A 0 3 0 3 5 0 3 5 22 43 0 5 0 0 5 5 0 0 0 0 37 0 0 1.775 59 0.24
21 21 A 0 0 0 0 5 0 3 3 0 0 8 3 0 24 5 0 11 0 39 0 38 1 0 1.743 58 0.28
22 22 A 0 0 0 0 0 0 0 57 32 0 11 0 0 0 0 0 0 0 0 0 37 0 0 0.927 30 0.66
23 23 A 0 0 0 0 0 0 0 0 0 0 0 0 0 0 3 97 0 0 0 0 38 0 0 0.122 4 0.97
24 24 A 0 0 0 0 0 0 0 0 0 0 0 0 100 0 0 0 0 0 0 0 38 0 0 0.000 0 1.00
25 25 A 0 0 37 50 0 0 0 0 0 0 0 3 0 0 0 0 11 0 0 0 38 0 0 1.047 34 0.48
26 26 A 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 97 3 38 0 0 0.122 4 0.97
27 27 A 0 0 0 0 0 0 0 8 0 0 8 0 0 0 32 32 0 0 19 0 37 0 0 1.453 48 0.36
28 28 A 5 0 0 3 0 0 0 0 3 0 16 11 0 3 5 41 11 0 3 0 37 0 0 1.848 61 0.27
29 29 A 0 0 0 0 0 0 0 0 0 0 0 0 100 0 0 0 0 0 0 0 37 0 0 0.000 0 1.00
30 30 A 3 0 0 0 0 0 3 0 0 0 0 3 0 8 30 49 0 0 3 3 37 0 0 1.403 46 0.44
31 31 A 0 0 0 0 0 0 0 0 0 0 0 0 100 0 0 0 0 0 0 0 37 0 0 0.000 0 1.00
32 32 A 0 0 0 0 6 0 79 0 0 0 0 0 0 3 0 0 0 0 12 0 33 0 0 0.719 24 0.70
33 33 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
34 34 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
## INSERTION LIST
AliNo IPOS JPOS Len Sequence
22 34 59 1 nNc
//