Complet list of 1cix hssp file
Complete list of 1cix.hssp file
HSSP HOMOLOGY DERIVED SECONDARY STRUCTURE OF PROTEINS , VERSION 2.0 2011
PDBID 1CIX
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 2014-04-27
HEADER ANTIMICROBIAL PEPTIDE 06-APR-99 1CIX
COMPND MOL_ID: 1; MOLECULE: PROTEIN (TACHYSTATIN A); CHAIN: A
SOURCE MOL_ID: 1; ORGANISM_SCIENTIFIC: TACHYPLEUS TRIDENTATUS; ORGANISM_TAXID
AUTHOR N.FUJITANI,S.KAWABATA,T.OSAKI,Y.KUMAKI,M.DEMURA,K.NITTA, K.KAWANO
DBREF 1CIX A 1 44 UNP Q9U8X3 Q9U8X3_TACTR 24 67
SEQLENGTH 44
NCHAIN 1 chain(s) in 1CIX data set
NALIGN 2
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 : TACA2_TACTR 1CIX 1.00 1.00 1 44 24 67 44 0 0 67 Q9U8X3 Tachystatin-A2 OS=Tachypleus tridentatus PE=1 SV=1
2 : TACA1_TACTR 0.98 1.00 1 44 1 44 44 0 0 44 P0C1Z7 Tachystatin-A1 OS=Tachypleus tridentatus PE=1 SV=1
## ALIGNMENTS 1 - 2
SeqNo PDBNo AA STRUCTURE BP1 BP2 ACC NOCC VAR ....:....1....:....2....:....3....:....4....:....5....:....6....:....7
1 1 A Y 0 0 263 3 0 YY
2 2 A S + 0 0 121 3 0 SS
3 3 A R - 0 0 182 3 0 RR
4 4 A a - 0 0 46 3 0 CC
5 5 A Q - 0 0 65 3 0 QQ
6 6 A L > - 0 0 113 3 0 LL
7 7 A Q T 3 S+ 0 0 88 3 0 QQ
8 8 A G T 3 S+ 0 0 29 3 0 GG
9 9 A F E < -A 41 0A 91 3 0 FF
10 10 A N E -A 40 0A 57 3 0 NN
11 11 A b E -A 39 0A 20 3 0 CC
12 12 A V - 0 0 49 3 0 VV
13 13 A V S S+ 0 0 68 3 0 VV
14 14 A R + 0 0 144 3 0 RR
15 15 A S > - 0 0 30 3 0 SS
16 16 A Y T 3 S+ 0 0 167 3 0 YY
17 17 A G T 3 S- 0 0 76 3 0 GG
18 18 A L S < S+ 0 0 146 3 0 LL
19 19 A P + 0 0 89 3 0 PP
20 20 A T S S- 0 0 71 3 0 TT
21 21 A I - 0 0 94 3 0 II
22 22 A P - 0 0 86 3 0 PP
23 23 A c - 0 0 16 3 0 CC
24 24 A a > - 0 0 60 3 0 CC
25 25 A R T 3 S+ 0 0 237 3 0 RR
26 26 A G T 3 S+ 0 0 42 3 0 GG
27 27 A L < - 0 0 23 3 0 LL
28 28 A T E -B 42 0A 53 3 0 TT
29 29 A b E +B 41 0A 55 3 0 CC
30 30 A R E -B 40 0A 157 3 0 RR
31 31 A S E -B 39 0A 36 3 0 SS
32 32 A Y S S- 0 0 123 3 0 YY
33 33 A F S > S- 0 0 164 3 0 FF
34 34 A P T 3 S+ 0 0 119 3 0 PP
35 35 A G T 3 S+ 0 0 91 3 0 GG
36 36 A S < - 0 0 52 3 0 SS
37 37 A T S S+ 0 0 67 3 0 TT
38 38 A Y + 0 0 109 3 0 YY
39 39 A G E -AB 11 31A 0 3 0 GG
40 40 A R E -AB 10 30A 111 3 0 RR
41 41 A c E +AB 9 29A 0 3 0 CC
42 42 A Q E - B 0 28A 67 3 0 QQ
43 43 A R 0 0 156 3 0 RR
44 44 A Y 0 0 238 3 6 YF
## 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 0 100 0 0 0 0 0 0 0 0 0 0 0 0 0 3 0 0 0.000 0 1.00
2 2 A 0 0 0 0 0 0 0 0 0 0 100 0 0 0 0 0 0 0 0 0 3 0 0 0.000 0 1.00
3 3 A 0 0 0 0 0 0 0 0 0 0 0 0 0 0 100 0 0 0 0 0 3 0 0 0.000 0 1.00
4 4 A 0 0 0 0 0 0 0 0 0 0 0 0 100 0 0 0 0 0 0 0 3 0 0 0.000 0 1.00
5 5 A 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 100 0 0 0 3 0 0 0.000 0 1.00
6 6 A 0 100 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 3 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 0 100 0 0 0 3 0 0 0.000 0 1.00
8 8 A 0 0 0 0 0 0 0 100 0 0 0 0 0 0 0 0 0 0 0 0 3 0 0 0.000 0 1.00
9 9 A 0 0 0 0 100 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 3 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 0 100 0 3 0 0 0.000 0 1.00
11 11 A 0 0 0 0 0 0 0 0 0 0 0 0 100 0 0 0 0 0 0 0 3 0 0 0.000 0 1.00
12 12 A 100 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 3 0 0 0.000 0 1.00
13 13 A 100 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 3 0 0 0.000 0 1.00
14 14 A 0 0 0 0 0 0 0 0 0 0 0 0 0 0 100 0 0 0 0 0 3 0 0 0.000 0 1.00
15 15 A 0 0 0 0 0 0 0 0 0 0 100 0 0 0 0 0 0 0 0 0 3 0 0 0.000 0 1.00
16 16 A 0 0 0 0 0 0 100 0 0 0 0 0 0 0 0 0 0 0 0 0 3 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 3 0 0 0.000 0 1.00
18 18 A 0 100 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 3 0 0 0.000 0 1.00
19 19 A 0 0 0 0 0 0 0 0 0 100 0 0 0 0 0 0 0 0 0 0 3 0 0 0.000 0 1.00
20 20 A 0 0 0 0 0 0 0 0 0 0 0 100 0 0 0 0 0 0 0 0 3 0 0 0.000 0 1.00
21 21 A 0 0 100 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 3 0 0 0.000 0 1.00
22 22 A 0 0 0 0 0 0 0 0 0 100 0 0 0 0 0 0 0 0 0 0 3 0 0 0.000 0 1.00
23 23 A 0 0 0 0 0 0 0 0 0 0 0 0 100 0 0 0 0 0 0 0 3 0 0 0.000 0 1.00
24 24 A 0 0 0 0 0 0 0 0 0 0 0 0 100 0 0 0 0 0 0 0 3 0 0 0.000 0 1.00
25 25 A 0 0 0 0 0 0 0 0 0 0 0 0 0 0 100 0 0 0 0 0 3 0 0 0.000 0 1.00
26 26 A 0 0 0 0 0 0 0 100 0 0 0 0 0 0 0 0 0 0 0 0 3 0 0 0.000 0 1.00
27 27 A 0 100 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 3 0 0 0.000 0 1.00
28 28 A 0 0 0 0 0 0 0 0 0 0 0 100 0 0 0 0 0 0 0 0 3 0 0 0.000 0 1.00
29 29 A 0 0 0 0 0 0 0 0 0 0 0 0 100 0 0 0 0 0 0 0 3 0 0 0.000 0 1.00
30 30 A 0 0 0 0 0 0 0 0 0 0 0 0 0 0 100 0 0 0 0 0 3 0 0 0.000 0 1.00
31 31 A 0 0 0 0 0 0 0 0 0 0 100 0 0 0 0 0 0 0 0 0 3 0 0 0.000 0 1.00
32 32 A 0 0 0 0 0 0 100 0 0 0 0 0 0 0 0 0 0 0 0 0 3 0 0 0.000 0 1.00
33 33 A 0 0 0 0 100 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 3 0 0 0.000 0 1.00
34 34 A 0 0 0 0 0 0 0 0 0 100 0 0 0 0 0 0 0 0 0 0 3 0 0 0.000 0 1.00
35 35 A 0 0 0 0 0 0 0 100 0 0 0 0 0 0 0 0 0 0 0 0 3 0 0 0.000 0 1.00
36 36 A 0 0 0 0 0 0 0 0 0 0 100 0 0 0 0 0 0 0 0 0 3 0 0 0.000 0 1.00
37 37 A 0 0 0 0 0 0 0 0 0 0 0 100 0 0 0 0 0 0 0 0 3 0 0 0.000 0 1.00
38 38 A 0 0 0 0 0 0 100 0 0 0 0 0 0 0 0 0 0 0 0 0 3 0 0 0.000 0 1.00
39 39 A 0 0 0 0 0 0 0 100 0 0 0 0 0 0 0 0 0 0 0 0 3 0 0 0.000 0 1.00
40 40 A 0 0 0 0 0 0 0 0 0 0 0 0 0 0 100 0 0 0 0 0 3 0 0 0.000 0 1.00
41 41 A 0 0 0 0 0 0 0 0 0 0 0 0 100 0 0 0 0 0 0 0 3 0 0 0.000 0 1.00
42 42 A 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 100 0 0 0 3 0 0 0.000 0 1.00
43 43 A 0 0 0 0 0 0 0 0 0 0 0 0 0 0 100 0 0 0 0 0 3 0 0 0.000 0 1.00
44 44 A 0 0 0 0 33 0 67 0 0 0 0 0 0 0 0 0 0 0 0 0 3 0 0 0.637 21 0.93
## INSERTION LIST
AliNo IPOS JPOS Len Sequence
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