Complet list of 1h5o hssp file
Complete list of 1h5o.hssp file
HSSP HOMOLOGY DERIVED SECONDARY STRUCTURE OF PROTEINS , VERSION 2.0 2011
PDBID 1H5O
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 TOXIN 23-MAY-01 1H5O
COMPND MOL_ID: 1; MOLECULE: MYOTOXIN; CHAIN: A; SYNONYM: CROTAMINE
SOURCE MOL_ID: 1; ORGANISM_SCIENTIFIC: CROTALUS DURISSUS TERRIFICUS; ORGANISM
AUTHOR G.NICASTRO,L.FRANZONI,C.DE CHIARA,C.A.MANCIN,J.R.GIGLIO, A.SPISNI
DBREF 1H5O A 1 42 UNP P01475 MYXC_CRODU 1 42
SEQLENGTH 42
NCHAIN 1 chain(s) in 1H5O data set
NALIGN 28
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 : B2CGN4_9SAUR 1.00 1.00 10 42 1 33 33 0 0 34 B2CGN4 Crotamine (Fragment) OS=Crotalus durissus GN=Crt-p1 PE=4 SV=1
2 : MYC2_CRODU 1Z99 1.00 1.00 1 42 23 64 42 0 0 65 Q9PWF3 Crotamine OS=Crotalus durissus terrificus GN=CRO2 PE=1 SV=1
3 : MYC1_CRODU 0.98 1.00 1 42 23 64 42 0 0 65 O57540 Crotamine CRO1 OS=Crotalus durissus terrificus GN=CRO1 PE=2 SV=1
4 : MYC3_CRODU 0.98 1.00 1 42 22 63 42 0 0 64 O73799 Crotamine CRO3 OS=Crotalus durissus terrificus GN=CRO3 PE=2 SV=1
5 : MYX_CRODR 4GV5 0.98 1.00 1 42 1 42 42 0 0 42 P63327 Crotamine Ile-19 OS=Crotalus durissus ruruima PE=1 SV=2
6 : B2CGN7_9SAUR 0.97 0.97 10 42 1 33 33 0 0 34 B2CGN7 Crotamine (Fragment) OS=Crotalus durissus GN=Crt-p1 PE=4 SV=1
7 : B2CGN9_9SAUR 0.97 1.00 10 42 1 33 33 0 0 34 B2CGN9 Crotamine (Fragment) OS=Crotalus durissus GN=Crt-p1 PE=4 SV=1
8 : G9DCI8_CROOH 0.95 1.00 1 42 23 64 42 0 0 65 G9DCI8 Crotamine 6 OS=Crotalus oreganus helleri PE=4 SV=1
9 : MYX4_CRODU 0.95 0.98 1 42 9 50 42 0 0 51 P24334 Myotoxin-4 (Fragment) OS=Crotalus durissus terrificus PE=2 SV=1
10 : G9DCI3_CROOH 0.93 1.00 1 41 23 63 41 0 0 70 G9DCI3 Crotamine 1 OS=Crotalus oreganus helleri PE=4 SV=1
11 : G9DCI4_CROOH 0.93 1.00 1 40 23 62 40 0 0 83 G9DCI4 Crotamine 2 OS=Crotalus oreganus helleri PE=4 SV=1
12 : G9DCI9_CROOH 0.93 1.00 1 42 23 64 42 0 0 65 G9DCI9 Crotamine 7 OS=Crotalus oreganus helleri PE=4 SV=1
13 : MYX1_CROVV 0.93 1.00 1 42 1 42 42 0 0 42 P01476 Myotoxin-A OS=Crotalus viridis viridis PE=1 SV=1
14 : MYX2_CROOO 0.93 0.98 1 41 1 41 41 0 0 43 P12029 Myotoxin-2 OS=Crotalus oreganus concolor PE=1 SV=1
15 : MYX_CROAD 0.93 0.95 1 41 23 63 41 0 0 70 P24330 Myotoxin OS=Crotalus adamanteus PE=1 SV=2
16 : G9DCI7_CROOH 0.90 0.95 1 42 23 64 42 0 0 65 G9DCI7 Crotamine 5 OS=Crotalus oreganus helleri PE=4 SV=1
17 : MYX3_CROVV 0.90 0.95 1 41 1 41 41 0 0 45 P63176 Myotoxin-3 OS=Crotalus viridis viridis PE=1 SV=1
18 : MYXC_CROOH 0.90 0.95 1 41 23 63 41 0 0 70 P01477 Myotoxin OS=Crotalus oreganus helleri PE=1 SV=2
19 : T1E6V4_CROOH 0.90 1.00 1 39 23 61 39 0 0 70 T1E6V4 Beta_Defensin-CohPH-6 OS=Crotalus oreganus helleri PE=4 SV=1
20 : G9DCI5_CROOH 0.88 0.93 1 41 23 63 41 0 0 70 G9DCI5 Beta_Defensin-CohCI-4 OS=Crotalus oreganus helleri PE=4 SV=1
21 : MYX1_CRODU 0.88 0.95 1 42 23 64 42 0 0 65 P24331 Myotoxin-1 OS=Crotalus durissus terrificus PE=2 SV=1
22 : MYX1_CROOO 0.88 0.93 1 41 1 41 41 0 0 43 P12028 Myotoxin-1 OS=Crotalus oreganus concolor PE=1 SV=1
23 : MYX2_CROVV 0.88 0.93 1 41 1 41 41 0 0 45 P63175 Myotoxin-2 OS=Crotalus viridis viridis PE=1 SV=1
24 : MYXC3_CRODM 0.88 0.95 1 39 1 40 40 1 1 42 P86194 Crotamine-IV-3 OS=Crotalus durissus cumanensis PE=1 SV=1
25 : MYX3_CRODU 0.86 0.93 1 42 23 64 42 0 0 65 P24333 Myotoxin-3 OS=Crotalus durissus terrificus PE=2 SV=1
26 : T1DH25_CROHD 0.86 0.98 1 42 23 64 42 0 0 65 T1DH25 Myotoxin OS=Crotalus horridus PE=4 SV=1
27 : MYX2_CRODU 0.83 0.90 1 42 22 63 42 0 0 64 P24332 Myotoxin-2 (Fragment) OS=Crotalus durissus terrificus PE=2 SV=1
28 : MYXC2_CRODM 0.80 0.93 1 39 1 40 40 1 1 42 P86193 Crotamine-IV-2 OS=Crotalus durissus cumanensis PE=1 SV=1
## ALIGNMENTS 1 - 28
SeqNo PDBNo AA STRUCTURE BP1 BP2 ACC NOCC VAR ....:....1....:....2....:....3....:....4....:....5....:....6....:....7
1 1 A Y > 0 0 207 26 0 YYYY YYYYYYYYYYYYYYYYYYYYY
2 2 A K H > + 0 0 161 26 9 KKKK KKKKKKKKKKKKKKKKKKQKK
3 3 A Q H > S+ 0 0 84 26 37 QQQQ QQRRRQRRRRRRRRRRQRRRR
4 4 A a H >>S+ 0 0 3 26 0 CCCC CCCCCCCCCCCCCCCCCCCCC
5 5 A H H <5S+ 0 0 136 26 10 HHHH HHHHHHHHHHHHLHHHHHHHH
6 6 A K H <5S+ 0 0 171 26 51 KKKK KKKKKKKKKKKKKIKKKIRII
7 7 A K H <5S- 0 0 125 26 0 KKKK KKKKKKKKKKKKKKKKKKKKK
8 8 A G T <5S+ 0 0 3 26 11 GGGG GGGGGGGGGGGGGGEEGGGGG
9 9 A G E < -A 38 0A 2 26 0 GGGG GGGGGGGGGGGGGGGGGGGGG
10 10 A H E -A 37 0A 77 29 0 HHHHHHHHHHHHHHHHHHHHHHHHHHHH
11 11 A b E +A 36 0A 35 29 0 CCCCCCCCCCCCCCCCCCCCCCCCCCCC
12 12 A F E -A 35 0A 84 29 8 FFFFFSFFFFFFFFFFFFFFFFFFFFFF
13 13 A P E > -A 34 0A 33 29 0 PPPPPPPPPPPPPPPPPPPPPPPPPPPP
14 14 A K T 3 S+ 0 0 115 29 0 KKKKKKKKKKKKKKKKKKKKKKKKKKKK
15 15 A E T 3 S+ 0 0 120 29 52 EEEEEEEEEEEEEETTTTETETTEGAEE
16 16 A K S < S- 0 0 121 29 59 KKKKKKKKKKKKKKVVVVKVKVVvKKKk
17 17 A I - 0 0 152 29 0 IIIIIIIIIIIIIIIIIIIIIIIiIIIi
18 18 A c - 0 0 28 29 0 CCCCCCCCCCCCCCCCCCCCCCCCCCCC
19 19 A L S S+ 0 0 145 29 33 LLIIILIIIIIIITLLLLILILLIIFII
20 20 A P S S- 0 0 73 29 0 PPPPPPPPPPPPPPPPPPPPPPPPPPPP
21 21 A P S S+ 0 0 95 29 0 PPPPPPPPPPPPPPPPPPPPPPPPPPPP
22 22 A S S S+ 0 0 117 29 0 SSSSSSSSSSSSSSSSSSSSSSSSSSSS
23 23 A S + 0 0 19 29 0 SSSSSSSSSSSSSSSSSSSSSSSSSSSS
24 24 A D B -B 37 0A 71 29 0 DDDDDDDDDDDDDDDDDDDDDDDDDDDD
25 25 A F - 0 0 63 29 6 FFFFFFFFFFFFLFFFFFFFFFFFFFFI
26 26 A G - 0 0 43 29 0 GGGGGGGGGGGGGGGGGGGGGGGGGGGG
27 27 A K S S+ 0 0 141 29 0 KKKKKKKKKKKKKKKKKKKKKKKKKKKK
28 28 A M S S- 0 0 41 29 0 MMMMMMMMMMMMMMMMMMMMMMMMMMMM
29 29 A D S S+ 0 0 65 29 0 DDDDDDDDDDDDDDDDDDDDDDDDDDDD
30 30 A b S S- 0 0 49 29 0 CCCCCCCCCCCCCCCCCCCCCCCCCCCC
31 31 A R > - 0 0 167 29 30 RRRRRRRRRRRRRRRRRRRRPRRRPRPP
32 32 A W T 3 S+ 0 0 179 29 0 WWWWWWWWWWWWWWWWWWWWWWWWWWWW
33 33 A R T 3 S+ 0 0 161 29 27 RRRRRRRKRKKKKKRKKKKKRKKKRRRK
34 34 A W E < -A 13 0A 101 29 2 WWWWWWWWWWWWWWWWWWWWRWWRRWRR
35 35 A K E -A 12 0A 73 29 0 KKKKKKKKKKKKKKKKKKKKKKKKKKKK
36 36 A a E -A 11 0A 0 29 6 CCCCCCCCCCCCCCCCCCCCCCCCCCSC
37 37 A c E -AB 10 24A 9 29 17 CCCCCCCCCCCCCCCCCCCCCCCCCCLC
38 38 A K E +A 9 0A 89 29 0 KKKKKKKKKKKKKKKKKKKKKKKKKKKK
39 39 A K - 0 0 107 29 11 KKKKKKKKKKKKKKKKKKRKKKKKKNKK
40 40 A G S S+ 0 0 48 26 9 GGGGGGGGRGGGGGGGGG GGGG GGG
41 41 A S 0 0 110 25 0 SSSSSSSSSS SSSSSSS SSSS SSS
42 42 A G 0 0 60 17 0 GGGGGGGGG GG G G GGG
## 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 26 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 96 4 0 0 0 26 0 0 0.163 5 0.91
3 3 A 0 0 0 0 0 0 0 0 0 0 0 0 0 0 65 0 35 0 0 0 26 0 0 0.645 21 0.63
4 4 A 0 0 0 0 0 0 0 0 0 0 0 0 100 0 0 0 0 0 0 0 26 0 0 0.000 0 1.00
5 5 A 0 4 0 0 0 0 0 0 0 0 0 0 0 96 0 0 0 0 0 0 26 0 0 0.163 5 0.90
6 6 A 0 0 15 0 0 0 0 0 0 0 0 0 0 0 4 81 0 0 0 0 26 0 0 0.586 19 0.49
7 7 A 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 100 0 0 0 0 26 0 0 0.000 0 1.00
8 8 A 0 0 0 0 0 0 0 92 0 0 0 0 0 0 0 0 0 8 0 0 26 0 0 0.271 9 0.88
9 9 A 0 0 0 0 0 0 0 100 0 0 0 0 0 0 0 0 0 0 0 0 26 0 0 0.000 0 1.00
10 10 A 0 0 0 0 0 0 0 0 0 0 0 0 0 100 0 0 0 0 0 0 29 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 29 0 0 0.000 0 1.00
12 12 A 0 0 0 0 97 0 0 0 0 0 3 0 0 0 0 0 0 0 0 0 29 0 0 0.150 5 0.91
13 13 A 0 0 0 0 0 0 0 0 0 100 0 0 0 0 0 0 0 0 0 0 29 0 0 0.000 0 1.00
14 14 A 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 100 0 0 0 0 29 0 0 0.000 0 1.00
15 15 A 0 0 0 0 0 0 0 3 3 0 0 24 0 0 0 0 0 69 0 0 29 0 0 0.832 27 0.48
16 16 A 28 0 0 0 0 0 0 0 0 0 0 0 0 0 0 72 0 0 0 0 29 0 2 0.589 19 0.40
17 17 A 0 0 100 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 29 0 0 0.000 0 1.00
18 18 A 0 0 0 0 0 0 0 0 0 0 0 0 100 0 0 0 0 0 0 0 29 0 0 0.000 0 1.00
19 19 A 0 38 55 0 3 0 0 0 0 0 0 3 0 0 0 0 0 0 0 0 29 0 0 0.928 30 0.66
20 20 A 0 0 0 0 0 0 0 0 0 100 0 0 0 0 0 0 0 0 0 0 29 0 0 0.000 0 1.00
21 21 A 0 0 0 0 0 0 0 0 0 100 0 0 0 0 0 0 0 0 0 0 29 0 0 0.000 0 1.00
22 22 A 0 0 0 0 0 0 0 0 0 0 100 0 0 0 0 0 0 0 0 0 29 0 0 0.000 0 1.00
23 23 A 0 0 0 0 0 0 0 0 0 0 100 0 0 0 0 0 0 0 0 0 29 0 0 0.000 0 1.00
24 24 A 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 100 29 0 0 0.000 0 1.00
25 25 A 0 3 3 0 93 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 29 0 0 0.299 9 0.93
26 26 A 0 0 0 0 0 0 0 100 0 0 0 0 0 0 0 0 0 0 0 0 29 0 0 0.000 0 1.00
27 27 A 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 100 0 0 0 0 29 0 0 0.000 0 1.00
28 28 A 0 0 0 100 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 29 0 0 0.000 0 1.00
29 29 A 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 100 29 0 0 0.000 0 1.00
30 30 A 0 0 0 0 0 0 0 0 0 0 0 0 100 0 0 0 0 0 0 0 29 0 0 0.000 0 1.00
31 31 A 0 0 0 0 0 0 0 0 0 14 0 0 0 0 86 0 0 0 0 0 29 0 0 0.401 13 0.70
32 32 A 0 0 0 0 0 100 0 0 0 0 0 0 0 0 0 0 0 0 0 0 29 0 0 0.000 0 1.00
33 33 A 0 0 0 0 0 0 0 0 0 0 0 0 0 0 48 52 0 0 0 0 29 0 0 0.693 23 0.72
34 34 A 0 0 0 0 0 83 0 0 0 0 0 0 0 0 17 0 0 0 0 0 29 0 0 0.460 15 0.97
35 35 A 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 100 0 0 0 0 29 0 0 0.000 0 1.00
36 36 A 0 0 0 0 0 0 0 0 0 0 3 0 97 0 0 0 0 0 0 0 29 0 0 0.150 5 0.94
37 37 A 0 3 0 0 0 0 0 0 0 0 0 0 97 0 0 0 0 0 0 0 29 0 0 0.150 5 0.82
38 38 A 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 100 0 0 0 0 29 0 0 0.000 0 1.00
39 39 A 0 0 0 0 0 0 0 0 0 0 0 0 0 0 3 93 0 0 3 0 29 0 0 0.299 9 0.89
40 40 A 0 0 0 0 0 0 0 96 0 0 0 0 0 0 4 0 0 0 0 0 26 0 0 0.163 5 0.91
41 41 A 0 0 0 0 0 0 0 0 0 0 100 0 0 0 0 0 0 0 0 0 25 0 0 0.000 0 1.00
42 42 A 0 0 0 0 0 0 0 100 0 0 0 0 0 0 0 0 0 0 0 0 17 0 0 0.000 0 1.00
## INSERTION LIST
AliNo IPOS JPOS Len Sequence
24 17 17 1 vLi
28 17 17 1 kLi
//