Complet list of 1p1p hssp file
Complete list of 1p1p.hssp file
HSSP HOMOLOGY DERIVED SECONDARY STRUCTURE OF PROTEINS , VERSION 2.0 2011
PDBID 1P1P
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 2014-05-05
HEADER NEUROTOXIN 06-DEC-96 1P1P
COMPND MOL_ID: 1; MOLECULE: AA-CONOTOXIN PIVA; CHAIN: A; ENGINEERED: YES; MUT
SOURCE MOL_ID: 1; ORGANISM_SCIENTIFIC: CONUS PURPURASCENS; ORGANISM_TAXID: 41
AUTHOR K.-H.HAN,K.-J.HWANG,S.-M.KIM,S.-K.KIM,W.R.GRAY,B.M.OLIVERA, J.RIVIER,K
DBREF 1P1P A 1 25 UNP P55963 CXA4_CONPU 1 25
SEQLENGTH 25
NCHAIN 1 chain(s) in 1P1P data set
NALIGN 3
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 : CA4A_CONPU 1P1P 0.96 0.96 1 25 1 25 25 0 0 25 P55963 Alpha-conotoxin PIVA OS=Conus purpurascens PE=1 SV=1
2 : E2DEK7_CONPU 0.96 0.96 1 25 42 66 25 0 0 68 E2DEK7 Alpha conotoxin A-superfamily protein (Fragment) OS=Conus purpurascens PE=2 SV=1
3 : CA4A_CONER 1PQR 0.69 0.92 1 25 1 26 26 1 1 30 P58782 Alpha-conotoxin EIVA OS=Conus ermineus PE=1 SV=1
## ALIGNMENTS 1 - 3
SeqNo PDBNo AA STRUCTURE BP1 BP2 ACC NOCC VAR ....:....1....:....2....:....3....:....4....:....5....:....6....:....7
1 1 A G 0 0 93 4 0 GGG
2 2 A a + 0 0 41 4 0 CCC
3 3 A b S > S+ 0 0 7 4 0 CCC
4 4 A G T 3 S+ 0 0 41 4 0 GGG
5 5 A S T 3 S+ 0 0 127 4 66 SSP
6 6 A Y S < S- 0 0 175 4 0 YYY
7 7 A P - 0 0 103 4 0 PPP
8 8 A N + 0 0 101 4 0 NNN
9 9 A A S S- 0 0 113 4 0 AAA
10 10 A A S S+ 0 0 87 4 0 AAA
11 11 A b + 0 0 37 4 0 CCC
12 12 A H > - 0 0 109 4 0 HHH
13 13 A P T 4 S+ 0 0 28 4 0 PPP
14 14 A c T 4 S+ 0 0 45 4 0 CCC
15 15 A S T 4 S+ 0 0 90 4 54 SSG
16 16 A a S >< S- 0 0 27 4 0 CCC
17 17 A K T 3 S+ 0 0 197 4 0 KKk
18 18 A D T 3 S- 0 0 137 4 48 DDg
19 19 A R < - 0 0 108 4 0 RRR
20 20 A X > - 0 0 27 3 0 PPP
21 21 A S G > S+ 0 0 75 4 66 SSP
22 22 A Y G 3 S+ 0 0 164 4 0 YYY
23 23 A c G < S+ 0 0 65 4 0 CCC
24 24 A G < 0 0 60 4 48 GGD
25 25 A Q 0 0 220 4 66 QQR
## 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 0 100 0 0 0 0 0 0 0 0 0 0 0 0 4 0 0 0.000 0 1.00
2 2 A 0 0 0 0 0 0 0 0 0 0 0 0 100 0 0 0 0 0 0 0 4 0 0 0.000 0 1.00
3 3 A 0 0 0 0 0 0 0 0 0 0 0 0 100 0 0 0 0 0 0 0 4 0 0 0.000 0 1.00
4 4 A 0 0 0 0 0 0 0 100 0 0 0 0 0 0 0 0 0 0 0 0 4 0 0 0.000 0 1.00
5 5 A 0 0 0 0 0 0 0 0 0 25 75 0 0 0 0 0 0 0 0 0 4 0 0 0.562 18 0.34
6 6 A 0 0 0 0 0 0 100 0 0 0 0 0 0 0 0 0 0 0 0 0 4 0 0 0.000 0 1.00
7 7 A 0 0 0 0 0 0 0 0 0 100 0 0 0 0 0 0 0 0 0 0 4 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 0 0 0 100 0 4 0 0 0.000 0 1.00
9 9 A 0 0 0 0 0 0 0 0 100 0 0 0 0 0 0 0 0 0 0 0 4 0 0 0.000 0 1.00
10 10 A 0 0 0 0 0 0 0 0 100 0 0 0 0 0 0 0 0 0 0 0 4 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 4 0 0 0.000 0 1.00
12 12 A 0 0 0 0 0 0 0 0 0 0 0 0 0 100 0 0 0 0 0 0 4 0 0 0.000 0 1.00
13 13 A 0 0 0 0 0 0 0 0 0 100 0 0 0 0 0 0 0 0 0 0 4 0 0 0.000 0 1.00
14 14 A 0 0 0 0 0 0 0 0 0 0 0 0 100 0 0 0 0 0 0 0 4 0 0 0.000 0 1.00
15 15 A 0 0 0 0 0 0 0 25 0 0 75 0 0 0 0 0 0 0 0 0 4 0 0 0.562 18 0.46
16 16 A 0 0 0 0 0 0 0 0 0 0 0 0 100 0 0 0 0 0 0 0 4 0 0 0.000 0 1.00
17 17 A 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 100 0 0 0 0 4 0 1 0.000 0 1.00
18 18 A 0 0 0 0 0 0 0 25 0 0 0 0 0 0 0 0 0 0 0 75 4 0 0 0.562 18 0.52
19 19 A 0 0 0 0 0 0 0 0 0 0 0 0 0 0 100 0 0 0 0 0 4 0 0 0.000 0 1.00
20 20 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
21 21 A 0 0 0 0 0 0 0 0 0 25 75 0 0 0 0 0 0 0 0 0 4 0 0 0.562 18 0.34
22 22 A 0 0 0 0 0 0 100 0 0 0 0 0 0 0 0 0 0 0 0 0 4 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 4 0 0 0.000 0 1.00
24 24 A 0 0 0 0 0 0 0 75 0 0 0 0 0 0 0 0 0 0 0 25 4 0 0 0.562 18 0.52
25 25 A 0 0 0 0 0 0 0 0 0 0 0 0 0 0 25 0 75 0 0 0 4 0 0 0.562 18 0.34
## INSERTION LIST
AliNo IPOS JPOS Len Sequence
3 18 18 1 kVg
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