Complet list of 1fyg hssp file
Complete list of 1fyg.hssp file
HSSP HOMOLOGY DERIVED SECONDARY STRUCTURE OF PROTEINS , VERSION 2.0 2011
PDBID 1FYG
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 2014-04-29
HEADER TOXIN 29-SEP-00 1FYG
COMPND MOL_ID: 1; MOLECULE: OMEGA CONOTOXIN SO3; CHAIN: A; ENGINEERED: YES
SOURCE MOL_ID: 1; SYNTHETIC: YES; OTHER_DETAILS: THIS PEPTIDE WAS CHEMICALLY
AUTHOR Y.YAN,R.ZHANG
DBREF 1FYG A 1 25 UNP Q9XZK2 CXSO3_CONST 46 70
SEQLENGTH 25
NCHAIN 1 chain(s) in 1FYG data set
NALIGN 38
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 : CO13_CONST 1FYG 1.00 1.00 1 25 46 70 25 0 0 71 Q9XZK2 Omega-conotoxin SO-3 OS=Conus striatus GN=SO3 PE=1 SV=1
2 : Q9NCV1_CONST 1.00 1.00 1 25 41 65 25 0 0 66 Q9NCV1 Four-loop conotoxin (Fragment) OS=Conus striatus PE=3 SV=1
3 : Q9NCV2_CONST 1.00 1.00 1 25 41 65 25 0 0 66 Q9NCV2 Four-loop conotoxin (Fragment) OS=Conus striatus PE=3 SV=1
4 : Q9N6N6_CONST 0.96 1.00 1 25 41 65 25 0 0 66 Q9N6N6 Four-loop conotoxin (Fragment) OS=Conus striatus PE=3 SV=1
5 : Q9NCU1_CONST 0.96 1.00 1 25 41 65 25 0 0 66 Q9NCU1 Four-loop conotoxin (Fragment) OS=Conus striatus PE=3 SV=1
6 : Q9NCV0_CONST 0.96 1.00 1 25 41 65 25 0 0 66 Q9NCV0 Four-loop conotoxin (Fragment) OS=Conus striatus PE=3 SV=1
7 : Q9NCV4_CONST 0.96 1.00 1 25 41 65 25 0 0 66 Q9NCV4 Four-loop conotoxin (Fragment) OS=Conus striatus PE=3 SV=1
8 : CM7E_CONCN 0.92 1.00 1 25 1 25 25 0 0 26 P0DKQ3 Omega-conotoxin-like CnVIIE OS=Conus consors PE=1 SV=1
9 : S6CQC0_CONCN 0.92 1.00 1 25 46 70 25 0 0 71 S6CQC0 O superfamily CnVIIC OS=Conus consors PE=3 SV=1
10 : CO17A_CONMA 1TT3 0.72 0.84 1 25 46 70 25 0 0 71 P05484 Omega-conotoxin MVIIA OS=Conus magus PE=1 SV=2
11 : CM7G_CONCN 0.68 0.84 1 25 1 25 25 0 0 26 P0DKQ5 Omega-conotoxin-like CnVIIG OS=Conus consors PE=1 SV=1
12 : CO164_CONAH 0.68 0.76 1 25 46 70 25 0 0 71 P0C8V8 Omega-conotoxin-like Ac6.4 OS=Conus achatinus PE=1 SV=1
13 : CO713_CONBU 0.68 0.84 1 25 25 49 25 0 0 50 P0CY71 Conotoxin Bu13 (Fragment) OS=Conus bullatus PE=2 SV=1
14 : S6CQ14_CONCN 0.68 0.84 1 25 46 70 25 0 0 71 S6CQ14 O superfamily CnVIIB OS=Conus consors PE=3 SV=1
15 : CM7F_CONCN 0.64 0.76 1 25 1 25 25 0 0 26 P0DKQ4 Omega-conotoxin-like CnVIIF OS=Conus consors PE=1 SV=1
16 : CO16A_CONCT 0.64 0.88 1 25 46 70 25 0 0 71 P58917 Omega-conotoxin CVIA OS=Conus catus PE=1 SV=1
17 : CO8_CONBU 0.64 0.80 1 25 25 49 25 0 0 50 P0CY66 Omega-conotoxin-like Bu8 (Fragment) OS=Conus bullatus PE=2 SV=1
18 : Q9N625_CONCT 0.64 0.88 1 25 41 65 25 0 0 66 Q9N625 Four-loop conotoxin (Fragment) OS=Conus catus PE=3 SV=1
19 : Q9N628_CONCT 0.64 0.88 1 25 41 65 25 0 0 66 Q9N628 Four-loop conotoxin (Fragment) OS=Conus catus PE=3 SV=1
20 : Q9N633_CONCT 0.64 0.84 1 25 41 65 25 0 0 66 Q9N633 Four-loop conotoxin (Fragment) OS=Conus catus PE=3 SV=1
21 : Q9NCW1_CONCT 0.64 0.88 1 25 41 65 25 0 0 66 Q9NCW1 Four-loop conotoxin (Fragment) OS=Conus catus PE=3 SV=1
22 : Q9NCW2_CONCT 0.64 0.88 1 25 41 65 25 0 0 66 Q9NCW2 Four-loop conotoxin (Fragment) OS=Conus catus PE=3 SV=1
23 : Q9NCW3_CONCT 0.64 0.84 1 25 41 65 25 0 0 66 Q9NCW3 Four-loop conotoxin (Fragment) OS=Conus catus PE=3 SV=1
24 : Q9NCW4_CONCT 0.64 0.80 1 25 41 65 25 0 0 66 Q9NCW4 Four-loop conotoxin (Fragment) OS=Conus catus PE=3 SV=1
25 : Q9NCW5_CONCT 0.64 0.84 1 25 41 65 25 0 0 66 Q9NCW5 Four-loop conotoxin (Fragment) OS=Conus catus PE=3 SV=1
26 : Q9NCW6_CONCT 0.64 0.84 1 25 41 65 25 0 0 66 Q9NCW6 Four-loop conotoxin (Fragment) OS=Conus catus PE=3 SV=1
27 : S6CPX8_CONCN 0.64 0.76 1 25 46 70 25 0 0 71 S6CPX8 O superfamily CnVIID OS=Conus consors PE=3 SV=1
28 : CO7B_CONMA 0.60 0.76 1 25 1 25 25 0 0 25 P05485 Omega-conotoxin MVIIB OS=Conus magus PE=1 SV=1
29 : Q9NCV5_CONCT 0.60 0.84 1 25 41 65 25 0 0 66 Q9NCV5 Four-loop conotoxin (Fragment) OS=Conus catus PE=3 SV=1
30 : CO6C_CONCT 0.58 0.81 1 25 1 26 26 1 1 26 P58919 Omega-conotoxin CVIC OS=Conus catus PE=1 SV=1
31 : CO6B_CONCT 0.56 0.76 1 25 1 25 25 0 0 25 P58918 Omega-conotoxin CVIB OS=Conus catus PE=1 SV=1
32 : CO7A_CONCN 0.56 0.74 1 25 1 27 27 1 2 28 P58916 Omega-conotoxin-like CnVIIH OS=Conus consors PE=1 SV=2
33 : Q9N6F7_CONCT 0.56 0.80 1 25 41 65 25 0 0 66 Q9N6F7 Four-loop conotoxin (Fragment) OS=Conus catus PE=3 SV=1
34 : Q9NCV6_CONCT 0.56 0.80 1 25 41 65 25 0 0 66 Q9NCV6 Four-loop conotoxin (Fragment) OS=Conus catus PE=3 SV=1
35 : Q9NCV7_CONCT 0.56 0.84 1 25 41 65 25 0 0 66 Q9NCV7 Four-loop conotoxin (Fragment) OS=Conus catus PE=3 SV=1
36 : S6CRD7_CONCN 0.56 0.74 1 25 46 72 27 1 2 73 S6CRD7 O superfamily CnVIIA OS=Conus consors PE=3 SV=1
37 : CO166_CONST 0.54 0.69 1 25 46 71 26 1 1 72 P0C831 Omega-conotoxin-like S6.6 OS=Conus striatus PE=2 SV=1
38 : CO7C_CONMA 1V4Q 0.54 0.69 1 25 3 28 26 1 1 29 P37300 Omega-conotoxin MVIIC (Fragment) OS=Conus magus PE=1 SV=1
## ALIGNMENTS 1 - 38
SeqNo PDBNo AA STRUCTURE BP1 BP2 ACC NOCC VAR ....:....1....:....2....:....3....:....4....:....5....:....6....:....7
1 1 A a 0 0 123 39 0 CCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCC
2 2 A K - 0 0 51 39 11 KKKKKKKKKKKKKKKKKKKKKKKKKKKKQKKKQKQKKK
3 3 A A > - 0 0 55 39 40 AAAAAAAGGGGGGGGSRSSGSSGGGGGGGGGGGSGGGG
4 4 A A T 3 S+ 0 0 64 39 70 AAAAAAATTKKKPKKTKTTKTTKKKKKKRKKKRTRKKK
5 5 A G T 3 S+ 0 0 36 39 0 GGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGG
6 6 A K S < S- 0 0 112 39 57 KKKKKKKKKAAAAAAASAAAAAAAAAAAAQAAAAAAAA
7 7 A P + 0 0 121 39 37 PPPSSSSPPKSSSSSSSSSSSSSSSSSSSSSPSSSPPP
8 8 A b - 0 0 18 39 0 CCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCC
9 9 A S B > -A 12 0A 74 39 70 SSSSSSSSSSRSIRSRRRRRRRRRRRSHRSRTRRRTRR
10 10 A R T 3 S+ 0 0 191 39 14 RRRRRRRRRRRRRRRRRRRRRRRRRRRRRKKRKRKRKK
11 11 A I T 3 S+ 0 0 166 39 60 IIIIIIIIILTTITTTTTTTTTTTTTTTTLTLTTTLTT
12 12 A A B < S-A 9 0A 73 39 79 AAAAAAAAAMSMASMSSSSSPSSSSSMSSMMMMSSMMM
13 13 A Y + 0 0 164 39 0 YYYYYYYYYYYYYYYYYYYYYYYYYYYYYYYYYYYYYY
14 14 A N + 0 0 125 39 34 NNNNNNNNNDDNNDNDDDDDDDDGDDNDDDDDNDDDDD
15 15 A c - 0 0 10 39 0 CCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCC
16 16 A a S S- 0 0 73 39 0 CCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCC
17 17 A T S S+ 0 0 111 39 43 TTTTTTTTTTTTKTSTTTTTTTTTTTSTTTRHSTTHSS
18 18 A G S S- 0 0 58 39 10 GGGGGGGGGGGGYGGGGGGGGGGGGGGGGGGGGGGGGG
19 19 A S - 0 0 84 39 0 SSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSS
20 20 A b + 0 0 6 39 0 CCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCC
21 21 A R B > -B 24 0B 183 39 50 RRRRRRRRRRRNRRNRRRRRRRRRRRNNRSRSRDRSGG
22 22 A S T 3 S- 0 0 114 39 44 SSSSSSSSSSSRNSRSNSSSSSSSSSRRSrSsSRSsrr
23 23 A G T 3 S+ 0 0 36 39 0 GGGGGGGGGGGGGGGGGGGGGGGGGGGGGgGgGGGggg
24 24 A K B < B 21 0B 138 39 27 KKKKKKKKKKKKKKKRKRRRRRRRRRKKRKRRRRRRKK
25 25 A c 0 0 17 39 0 CCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCC
## 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 0 0 0 0 100 0 0 0 0 0 0 0 39 0 0 0.000 0 1.00
2 2 A 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 92 8 0 0 0 39 0 0 0.271 9 0.88
3 3 A 0 0 0 0 0 0 0 62 21 0 15 0 0 0 3 0 0 0 0 0 39 0 0 1.006 33 0.59
4 4 A 0 0 0 0 0 0 0 0 21 3 0 21 0 0 8 49 0 0 0 0 39 0 0 1.291 43 0.30
5 5 A 0 0 0 0 0 0 0 100 0 0 0 0 0 0 0 0 0 0 0 0 39 0 0 0.000 0 1.00
6 6 A 0 0 0 0 0 0 0 0 69 0 3 0 0 0 0 26 3 0 0 0 39 0 0 0.791 26 0.43
7 7 A 0 0 0 0 0 0 0 0 0 26 72 0 0 0 0 3 0 0 0 0 39 0 0 0.681 22 0.63
8 8 A 0 0 0 0 0 0 0 0 0 0 0 0 100 0 0 0 0 0 0 0 39 0 0 0.000 0 1.00
9 9 A 0 0 3 0 0 0 0 0 0 0 38 5 0 3 51 0 0 0 0 0 39 0 0 1.050 35 0.29
10 10 A 0 0 0 0 0 0 0 0 0 0 0 0 0 0 85 15 0 0 0 0 39 0 0 0.429 14 0.85
11 11 A 0 10 28 0 0 0 0 0 0 0 0 62 0 0 0 0 0 0 0 0 39 0 0 0.889 29 0.40
12 12 A 0 0 0 28 0 0 0 0 28 3 41 0 0 0 0 0 0 0 0 0 39 0 0 1.173 39 0.20
13 13 A 0 0 0 0 0 0 100 0 0 0 0 0 0 0 0 0 0 0 0 0 39 0 0 0.000 0 1.00
14 14 A 0 0 0 0 0 0 0 3 0 0 0 0 0 0 0 0 0 0 38 59 39 0 0 0.773 25 0.66
15 15 A 0 0 0 0 0 0 0 0 0 0 0 0 100 0 0 0 0 0 0 0 39 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 39 0 0 0.000 0 1.00
17 17 A 0 0 0 0 0 0 0 0 0 0 13 77 0 5 3 3 0 0 0 0 39 0 0 0.805 26 0.57
18 18 A 0 0 0 0 0 0 3 97 0 0 0 0 0 0 0 0 0 0 0 0 39 0 0 0.119 3 0.90
19 19 A 0 0 0 0 0 0 0 0 0 0 100 0 0 0 0 0 0 0 0 0 39 0 0 0.000 0 1.00
20 20 A 0 0 0 0 0 0 0 0 0 0 0 0 100 0 0 0 0 0 0 0 39 0 0 0.000 0 1.00
21 21 A 0 0 0 0 0 0 0 5 0 0 8 0 0 0 74 0 0 0 10 3 39 0 0 0.897 29 0.50
22 22 A 0 0 0 0 0 0 0 0 0 0 74 0 0 0 21 0 0 0 5 0 39 0 5 0.698 23 0.56
23 23 A 0 0 0 0 0 0 0 100 0 0 0 0 0 0 0 0 0 0 0 0 39 0 0 0.000 0 1.00
24 24 A 0 0 0 0 0 0 0 0 0 0 0 0 0 0 44 56 0 0 0 0 39 0 0 0.685 22 0.72
25 25 A 0 0 0 0 0 0 0 0 0 0 0 0 100 0 0 0 0 0 0 0 39 0 0 0.000 0 1.00
## INSERTION LIST
AliNo IPOS JPOS Len Sequence
30 23 23 1 rRg
32 23 23 2 sSKg
36 23 68 2 sSKg
37 23 68 1 rRg
38 23 25 1 rRg
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