Complet list of 1rji hssp file
Complete list of 1rji.hssp file
HSSP HOMOLOGY DERIVED SECONDARY STRUCTURE OF PROTEINS , VERSION 2.0 2011
PDBID 1RJI
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 2014-05-07
HEADER TOXIN 19-NOV-03 1RJI
COMPND MOL_ID: 1; MOLECULE: POTASSIUM CHANNEL TOXIN KX; CHAIN: A; SYNONYM: BM
SOURCE MOL_ID: 1; SYNTHETIC: YES; OTHER_DETAILS: THIS SEQUENCE OCCURS NATURAL
AUTHOR Z.CAI,J.WU,Y.XU,C.-G.WANG,C.-W.CHI,Y.SHI
DBREF 1RJI A 1 31 UNP Q7Z0H4 SCKI_MESMA 24 54
SEQLENGTH 31
NCHAIN 1 chain(s) in 1RJI data set
NALIGN 6
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 : SCKI_MESMA 1RJI 1.00 1.00 1 31 24 54 31 0 0 55 Q7Z0H4 Neurotoxin BmP08 OS=Mesobuthus martensii PE=1 SV=1
2 : V9LLQ5_MESMA 1.00 1.00 1 31 24 54 31 0 0 55 V9LLQ5 Toxin BmP08 OS=Mesobuthus martensii PE=4 SV=1
3 : SCKH_MESMA 0.97 1.00 1 31 24 54 31 0 0 55 Q7Z0F1 Neurotoxin X-29S OS=Mesobuthus martensii PE=3 SV=1
4 : SCKJ_MESMA 0.94 1.00 1 31 24 54 31 0 0 55 Q7Z0H5 Neurotoxin BmKX-A1-S31 OS=Mesobuthus martensii PE=2 SV=1
5 : SCK6_MESMA 0.74 0.85 2 28 2 28 27 0 0 29 Q7M463 Neurotoxin BmK A3-6 OS=Mesobuthus martensii PE=1 SV=1
6 : B8XH34_BUTOS 0.64 0.71 5 31 28 55 28 1 1 56 B8XH34 Putative potassium channel toxin Tx576 OS=Buthus occitanus israelis PE=4 SV=1
## ALIGNMENTS 1 - 6
SeqNo PDBNo AA STRUCTURE BP1 BP2 ACC NOCC VAR ....:....1....:....2....:....3....:....4....:....5....:....6....:....7
1 1 A T 0 0 134 5 51 TTTA
2 2 A P + 0 0 39 6 0 PPPPP
3 3 A Y S S+ 0 0 204 6 0 YYYYY
4 4 A P S S+ 0 0 97 6 0 PPPPP
5 5 A V - 0 0 17 7 0 VVVVVV
6 6 A N B +A 26 0A 105 7 41 NNNNNK
7 7 A a - 0 0 9 7 0 CCCCCC
8 8 A K S S+ 0 0 186 7 0 KKKKKK
9 9 A T S > S- 0 0 80 7 0 TTTTTT
10 10 A D G > S+ 0 0 71 7 15 DDDDED
11 11 A R G > S+ 0 0 207 7 113 RRRRCF
12 12 A D G < S+ 0 0 77 7 15 DDDDED
13 13 A b G X> + 0 0 0 7 0 CCCCCC
14 14 A V T <4 + 0 0 87 7 26 VVVVVL
15 15 A M T 34 S+ 0 0 177 7 0 MMMMMM
16 16 A c T <4 S- 0 0 21 7 0 CCCCCC
17 17 A G < - 0 0 10 7 0 GGGGGG
18 18 A L S S- 0 0 164 7 68 LLLLLP
19 19 A G S S- 0 0 39 7 0 GGGGGG
20 20 A I - 0 0 1 7 57 IIIIIA
21 21 A S - 0 0 57 7 93 SSSSIR
22 22 A a B -B 27 0B 30 7 0 CCCCCC
23 23 A K - 0 0 106 7 64 KKKKKV
24 24 A N S S- 0 0 159 7 34 NNNNQn
25 25 A G S S+ 0 0 35 7 86 GGGGCq
26 26 A Y B S-A 6 0A 121 7 0 YYYYYY
27 27 A b B -B 22 0B 1 7 15 CCCCYC
28 28 A Q S S- 0 0 111 7 0 QQQQQQ
29 29 A G + 0 0 45 6 73 GGSS P
30 30 A c 0 0 34 6 0 CCCC C
31 31 A T 0 0 169 6 0 TTTT T
## 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 20 0 0 80 0 0 0 0 0 0 0 0 5 0 0 0.500 16 0.49
2 2 A 0 0 0 0 0 0 0 0 0 100 0 0 0 0 0 0 0 0 0 0 6 0 0 0.000 0 1.00
3 3 A 0 0 0 0 0 0 100 0 0 0 0 0 0 0 0 0 0 0 0 0 6 0 0 0.000 0 1.00
4 4 A 0 0 0 0 0 0 0 0 0 100 0 0 0 0 0 0 0 0 0 0 6 0 0 0.000 0 1.00
5 5 A 100 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 7 0 0 0.000 0 1.00
6 6 A 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 14 0 0 86 0 7 0 0 0.410 13 0.58
7 7 A 0 0 0 0 0 0 0 0 0 0 0 0 100 0 0 0 0 0 0 0 7 0 0 0.000 0 1.00
8 8 A 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 100 0 0 0 0 7 0 0 0.000 0 1.00
9 9 A 0 0 0 0 0 0 0 0 0 0 0 100 0 0 0 0 0 0 0 0 7 0 0 0.000 0 1.00
10 10 A 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 14 0 86 7 0 0 0.410 13 0.84
11 11 A 0 0 0 0 14 0 0 0 0 0 0 0 14 0 71 0 0 0 0 0 7 0 0 0.796 26 -0.14
12 12 A 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 14 0 86 7 0 0 0.410 13 0.84
13 13 A 0 0 0 0 0 0 0 0 0 0 0 0 100 0 0 0 0 0 0 0 7 0 0 0.000 0 1.00
14 14 A 86 14 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 7 0 0 0.410 13 0.73
15 15 A 0 0 0 100 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 7 0 0 0.000 0 1.00
16 16 A 0 0 0 0 0 0 0 0 0 0 0 0 100 0 0 0 0 0 0 0 7 0 0 0.000 0 1.00
17 17 A 0 0 0 0 0 0 0 100 0 0 0 0 0 0 0 0 0 0 0 0 7 0 0 0.000 0 1.00
18 18 A 0 86 0 0 0 0 0 0 0 14 0 0 0 0 0 0 0 0 0 0 7 0 0 0.410 13 0.31
19 19 A 0 0 0 0 0 0 0 100 0 0 0 0 0 0 0 0 0 0 0 0 7 0 0 0.000 0 1.00
20 20 A 0 0 86 0 0 0 0 0 14 0 0 0 0 0 0 0 0 0 0 0 7 0 0 0.410 13 0.43
21 21 A 0 0 14 0 0 0 0 0 0 0 71 0 0 0 14 0 0 0 0 0 7 0 0 0.796 26 0.07
22 22 A 0 0 0 0 0 0 0 0 0 0 0 0 100 0 0 0 0 0 0 0 7 0 0 0.000 0 1.00
23 23 A 14 0 0 0 0 0 0 0 0 0 0 0 0 0 0 86 0 0 0 0 7 0 0 0.410 13 0.35
24 24 A 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 14 0 86 0 7 0 1 0.410 13 0.65
25 25 A 0 0 0 0 0 0 0 71 0 0 0 0 14 0 0 0 14 0 0 0 7 0 0 0.796 26 0.14
26 26 A 0 0 0 0 0 0 100 0 0 0 0 0 0 0 0 0 0 0 0 0 7 0 0 0.000 0 1.00
27 27 A 0 0 0 0 0 0 14 0 0 0 0 0 86 0 0 0 0 0 0 0 7 0 0 0.410 13 0.84
28 28 A 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 100 0 0 0 7 0 0 0.000 0 1.00
29 29 A 0 0 0 0 0 0 0 50 0 17 33 0 0 0 0 0 0 0 0 0 6 0 0 1.011 33 0.26
30 30 A 0 0 0 0 0 0 0 0 0 0 0 0 100 0 0 0 0 0 0 0 6 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 6 0 0 0.000 0 1.00
## INSERTION LIST
AliNo IPOS JPOS Len Sequence
6 21 48 1 nRq
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