Complet list of 1kv4 hssp file
Complete list of 1kv4.hssp file
HSSP HOMOLOGY DERIVED SECONDARY STRUCTURE OF PROTEINS , VERSION 2.0 2011
PDBID 1KV4
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 2014-05-03
HEADER ANTIBIOTIC 25-JAN-02 1KV4
COMPND MOL_ID: 1; MOLECULE: MORICIN; CHAIN: A; ENGINEERED: YES; MUTATION: YES
SOURCE MOL_ID: 1; ORGANISM_SCIENTIFIC: BOMBYX MORI; ORGANISM_COMMON: DOMESTIC
AUTHOR H.HEMMI,J.ISHIBASHI,S.HARA,M.YAMAKAWA
DBREF 1KV4 A 1 42 UNP P82818 MOR1_BOMMO 25 66
SEQLENGTH 42
NCHAIN 1 chain(s) in 1KV4 data set
NALIGN 17
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 : H9JPP0_BOMMO 1.00 1.00 1 41 12 52 41 0 0 53 H9JPP0 Uncharacterized protein OS=Bombyx mori GN=Mor PE=4 SV=1
2 : MOR1_BOMMO 1KV4 1.00 1.00 1 41 25 65 41 0 0 66 P82818 Moricin-1 OS=Bombyx mori GN=MOR1 PE=1 SV=1
3 : MOR2_BOMMO 1.00 1.00 1 41 25 65 41 0 0 66 O96059 Moricin-2 OS=Bombyx mori GN=MOR2 PE=1 SV=1
4 : Q5MAE8_9NEOP 1.00 1.00 1 41 13 53 41 0 0 54 Q5MAE8 Moricin I (Fragment) OS=Hyblaea puera PE=2 SV=1
5 : Q19ML1_ANTPE 0.98 0.98 1 41 1 41 41 0 0 42 Q19ML1 Moricin (Fragment) OS=Antheraea pernyi PE=2 SV=1
6 : D3G9G4_HELVI 0.75 0.90 1 40 25 64 40 0 0 65 D3G9G4 Virescein OS=Heliothis virescens PE=4 SV=1
7 : VIRE_HELVI 0.75 0.90 1 40 1 40 40 0 0 41 P83416 Virescein OS=Heliothis virescens PE=1 SV=1
8 : E5D606_HELAM 0.73 0.90 1 40 25 64 40 0 0 65 E5D606 Moricin OS=Helicoverpa armigera GN=Mor PE=4 SV=1
9 : Q6IZA1_SPOEX 0.71 0.90 1 41 25 65 41 0 0 67 Q6IZA1 Moricin OS=Spodoptera exigua PE=4 SV=1
10 : Q7YZB4_SPOLT1X22 0.71 0.90 1 41 25 65 41 0 0 67 Q7YZB4 Moricin OS=Spodoptera litura PE=1 SV=1
11 : Q86MA1_MANSE2JR8 0.66 0.90 1 41 26 66 41 0 0 67 Q86MA1 Antimicrobial peptide moricin OS=Manduca sexta PE=1 SV=1
12 : G6D8S4_DANPL 0.63 0.85 1 41 26 66 41 0 0 67 G6D8S4 Antimicrobial peptide moricin OS=Danaus plexippus GN=KGM_15225 PE=4 SV=1
13 : G6DRD8_DANPL 0.63 0.85 1 41 12 52 41 0 0 53 G6DRD8 Antimicrobial peptide moricin OS=Danaus plexippus GN=KGM_16979 PE=4 SV=1
14 : A5JSU6_GALME 0.61 0.90 1 41 24 64 41 0 0 66 A5JSU6 Moricin-like peptide B OS=Galleria mellonella GN=mor PE=4 SV=1
15 : A5JSU5_GALME 0.45 0.82 1 40 25 64 40 0 0 64 A5JSU5 Moricin-like peptide A OS=Galleria mellonella GN=mor PE=4 SV=1
16 : A5JSU7_GALME 0.44 0.69 1 39 25 63 39 0 0 63 A5JSU7 Moricin-like peptide C1 OS=Galleria mellonella GN=mor PE=4 SV=1
17 : A5JSU9_GALME 0.44 0.72 1 39 25 63 39 0 0 63 A5JSU9 Moricin-like peptide C3 OS=Galleria mellonella GN=mor PE=4 SV=1
## ALIGNMENTS 1 - 17
SeqNo PDBNo AA STRUCTURE BP1 BP2 ACC NOCC VAR ....:....1....:....2....:....3....:....4....:....5....:....6....:....7
1 1 A A 0 0 134 18 52 AAAAAGGGGGGGAGPPP
2 2 A K + 0 0 202 18 6 KKKKKKKKKKKKRKKKK
3 3 A I + 0 0 93 18 12 IIIIIIIIIIIIIIVVV
4 4 A P S >> S+ 0 0 78 18 16 PPPPPPPPPPPPPPNPP
5 5 A I H 3> S+ 0 0 95 18 13 IIIIIIIVVVVIIVVII
6 6 A K H 3> S+ 0 0 142 18 66 KKKKKGGGKKKNGKNGG
7 7 A A H <> S+ 0 0 36 18 0 AAAAAAAAAAAAAAAAA
8 8 A I H X S+ 0 0 95 18 0 IIIIIIIIIIIIIIIII
9 9 A K H X S+ 0 0 105 18 11 KKKKKKKKKKKRRKKKK
10 10 A T H X S+ 0 0 93 18 52 TTTTTKKKKKQKKKKKK
11 11 A V H X S+ 0 0 93 18 61 VVVVVAAAAAAGGGGGG
12 12 A G H X S+ 0 0 37 18 13 GGGGGGGGGGGAAGGGG
13 13 A K H X S+ 0 0 125 18 30 KKKKKKKRTAKKKQKKK
14 14 A A H X S+ 0 0 64 18 46 AAAAAAAAAAVAAIAII
15 15 A V H X S+ 0 0 97 18 16 VVVVVIIIIIIVVIIII
16 16 A G H X S+ 0 0 30 18 34 GGGGGGGGGGGGGGGKK
17 17 A K H X S+ 0 0 127 18 12 KKKKKKKKKKKHKKKKK
18 18 A G H X S+ 0 0 36 18 6 GGGGGGGGGGGGGAGGG
19 19 A L H X S+ 0 0 112 18 3 LLLLLLLLLLLLLLFLL
20 20 A R H >X>S+ 0 0 150 18 45 RRRRRRRRRRRRRRKGG
21 21 A A H 3X5S+ 0 0 50 18 45 AAAAAAAAAAAAAGVVV
22 22 A I H 3X5S+ 0 0 116 18 10 IIIIIVVIIIILIIIII
23 23 A N H XX5S+ 0 0 47 18 35 NNNNNNNNNNNNNNSGG
24 24 A I H 3X5S+ 0 0 93 18 46 IIIIIIIIIIIIIIAAA
25 25 A A H 3< S+ 0 0 111 18 35 NNNNNHHHHHHHHHHHH
30 30 A D H >X S+ 0 0 137 18 10 DDDDDDDDDDDDDDDEE
31 31 A V H >X S+ 0 0 64 18 9 VVVVVVVVVVVIIIVVV
32 32 A F H 3< S+ 0 0 137 18 42 FFFFFYYYYYVVVIYYY
33 33 A N H X< S+ 0 0 111 18 66 NNNNNTTTSSSSESESS
34 34 A F H << S+ 0 0 171 18 81 FFFFFFFFFFFAVQHHH
35 35 A L T 3< S+ 0 0 108 18 36 LLLLLFFFFFFFFFIVV
36 36 A K < - 0 0 122 18 12 KKKKEKKKKKRKKKKKK
37 37 A P - 0 0 68 18 53 PPPPPPPPPPPHPPNNN
38 38 A K S S+ 0 0 201 18 24 KKKKKKKKKKKKRKRRR
39 39 A K + 0 0 151 18 44 KKKKKKKKHHKKKKRHQ
40 40 A R + 0 0 214 16 35 RRRRRRRRKKKRRKH
41 41 A K 0 0 154 12 0 KKKKK KKKKKK
42 42 A A 0 0 161 1 0
## 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 44 39 17 0 0 0 0 0 0 0 0 0 0 18 0 0 1.026 34 0.47
2 2 A 0 0 0 0 0 0 0 0 0 0 0 0 0 0 6 94 0 0 0 0 18 0 0 0.215 7 0.94
3 3 A 17 0 83 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 18 0 0 0.451 15 0.88
4 4 A 0 0 0 0 0 0 0 0 0 94 0 0 0 0 0 0 0 0 6 0 18 0 0 0.215 7 0.83
5 5 A 33 0 67 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 18 0 0 0.637 21 0.86
6 6 A 0 0 0 0 0 0 0 33 0 0 0 0 0 0 0 56 0 0 11 0 18 0 0 0.937 31 0.34
7 7 A 0 0 0 0 0 0 0 0 100 0 0 0 0 0 0 0 0 0 0 0 18 0 0 0.000 0 1.00
8 8 A 0 0 100 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 18 0 0 0.000 0 1.00
9 9 A 0 0 0 0 0 0 0 0 0 0 0 0 0 0 11 89 0 0 0 0 18 0 0 0.349 11 0.88
10 10 A 0 0 0 0 0 0 0 0 0 0 0 33 0 0 0 61 6 0 0 0 18 0 0 0.828 27 0.47
11 11 A 33 0 0 0 0 0 0 33 33 0 0 0 0 0 0 0 0 0 0 0 18 0 0 1.099 36 0.38
12 12 A 0 0 0 0 0 0 0 89 11 0 0 0 0 0 0 0 0 0 0 0 18 0 0 0.349 11 0.86
13 13 A 0 0 0 0 0 0 0 0 6 0 0 6 0 0 6 78 6 0 0 0 18 0 0 0.838 27 0.70
14 14 A 6 0 17 0 0 0 0 0 78 0 0 0 0 0 0 0 0 0 0 0 18 0 0 0.655 21 0.53
15 15 A 44 0 56 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 18 0 0 0.687 22 0.84
16 16 A 0 0 0 0 0 0 0 89 0 0 0 0 0 0 0 11 0 0 0 0 18 0 0 0.349 11 0.66
17 17 A 0 0 0 0 0 0 0 0 0 0 0 0 0 6 0 94 0 0 0 0 18 0 0 0.215 7 0.88
18 18 A 0 0 0 0 0 0 0 94 6 0 0 0 0 0 0 0 0 0 0 0 18 0 0 0.215 7 0.93
19 19 A 0 94 0 0 6 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 18 0 0 0.215 7 0.97
20 20 A 0 0 0 0 0 0 0 11 0 0 0 0 0 0 83 6 0 0 0 0 18 0 0 0.557 18 0.54
21 21 A 17 0 0 0 0 0 0 6 78 0 0 0 0 0 0 0 0 0 0 0 18 0 0 0.655 21 0.55
22 22 A 11 6 83 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 18 0 0 0.557 18 0.89
23 23 A 0 0 0 0 0 0 0 11 0 0 6 0 0 0 0 0 0 0 83 0 18 0 0 0.557 18 0.64
24 24 A 0 0 83 0 0 0 0 0 17 0 0 0 0 0 0 0 0 0 0 0 18 0 0 0.451 15 0.54
25 25 A 0 0 0 0 0 0 0 0 100 0 0 0 0 0 0 0 0 0 0 0 18 0 0 0.000 0 1.00
26 26 A 0 0 0 0 0 0 0 22 0 0 78 0 0 0 0 0 0 0 0 0 18 0 0 0.530 17 0.71
27 27 A 0 0 0 0 0 0 0 0 0 0 0 100 0 0 0 0 0 0 0 0 18 0 0 0.000 0 1.00
28 28 A 6 0 0 0 0 0 0 0 89 0 0 6 0 0 0 0 0 0 0 0 18 0 0 0.426 14 0.80
29 29 A 0 0 0 0 0 0 0 0 0 0 0 0 0 67 0 0 0 0 33 0 18 0 0 0.637 21 0.64
30 30 A 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 11 0 89 18 0 0 0.349 11 0.89
31 31 A 83 0 17 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 18 0 0 0.451 15 0.91
32 32 A 17 0 6 0 33 0 44 0 0 0 0 0 0 0 0 0 0 0 0 0 18 0 0 1.186 39 0.58
33 33 A 0 0 0 0 0 0 0 0 0 0 39 17 0 0 0 0 0 11 33 0 18 0 0 1.276 42 0.33
34 34 A 6 0 0 0 67 0 0 0 6 0 0 0 0 17 0 0 6 0 0 0 18 0 0 1.051 35 0.19
35 35 A 11 33 6 0 50 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 18 0 0 1.117 37 0.64
36 36 A 0 0 0 0 0 0 0 0 0 0 0 0 0 0 6 89 0 6 0 0 18 0 0 0.426 14 0.87
37 37 A 0 0 0 0 0 0 0 0 0 78 0 0 0 6 0 0 0 0 17 0 18 0 0 0.655 21 0.46
38 38 A 0 0 0 0 0 0 0 0 0 0 0 0 0 0 22 78 0 0 0 0 18 0 0 0.530 17 0.75
39 39 A 0 0 0 0 0 0 0 0 0 0 0 0 0 17 6 72 6 0 0 0 18 0 0 0.855 28 0.55
40 40 A 0 0 0 0 0 0 0 0 0 0 0 0 0 6 69 25 0 0 0 0 16 0 0 0.777 25 0.65
41 41 A 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 100 0 0 0 0 12 0 0 0.000 0 1.00
42 42 A 0 0 0 0 0 0 0 0 100 0 0 0 0 0 0 0 0 0 0 0 1 0 0 0.000 0 1.00
## INSERTION LIST
AliNo IPOS JPOS Len Sequence
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