Complet list of 1of9 hssp file
Complete list of 1of9.hssp file
HSSP HOMOLOGY DERIVED SECONDARY STRUCTURE OF PROTEINS , VERSION 2.0 2011
PDBID 1OF9
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 TOXIN 09-APR-03 1OF9
COMPND MOL_ID: 1; MOLECULE: PORE-FORMING PEPTIDE AMEOBAPORE A; CHAIN: A; SYNO
SOURCE MOL_ID: 1; ORGANISM_SCIENTIFIC: ENTAMOEBA HISTOLYTICA; ORGANISM_TAXID:
AUTHOR O.HECHT,K.SCHLEINKOFER,H.BRUHN,M.LEIPPE,N.VAN NULAND, A.J.DINGLEY,J.GR
DBREF 1OF9 A 1 77 UNP P34095 PFPA_ENTHI 22 98
SEQLENGTH 77
NCHAIN 1 chain(s) in 1OF9 data set
NALIGN 43
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 : C4LX30_ENTHI 1.00 1.00 1 77 22 98 77 0 0 98 C4LX30 Pore-forming peptide ameobapore A, putative OS=Entamoeba histolytica GN=EHI_159480 PE=4 SV=1
2 : M2RCN0_ENTHI 1.00 1.00 1 77 22 98 77 0 0 98 M2RCN0 Amoebapore A, putative OS=Entamoeba histolytica KU27 GN=EHI5A_171330 PE=4 SV=1
3 : M3TD63_ENTHI 1.00 1.00 1 77 22 98 77 0 0 98 M3TD63 Nonpathogenic pore-forming peptide, putative OS=Entamoeba histolytica HM-1:IMSS-B GN=EHI8A_138030 PE=4 SV=1
4 : M7WME8_ENTHI 1.00 1.00 1 77 22 98 77 0 0 98 M7WME8 Amoebapore a, putative OS=Entamoeba histolytica HM-3:IMSS GN=KM1_215020 PE=4 SV=1
5 : N9UWL4_ENTHI 1.00 1.00 1 77 22 98 77 0 0 98 N9UWL4 Amoebapore a, putative OS=Entamoeba histolytica HM-1:IMSS-A GN=EHI7A_127390 PE=4 SV=1
6 : PFPA_ENTHI 1OF9 1.00 1.00 1 77 22 98 77 0 0 98 P34095 Pore-forming peptide ameobapore A OS=Entamoeba histolytica PE=1 SV=1
7 : K2I1P8_ENTNP 0.96 1.00 1 77 22 98 77 0 0 98 K2I1P8 Nonpathogenic pore-forming peptide, putative OS=Entamoeba nuttalli (strain P19) GN=ENU1_014330 PE=4 SV=1
8 : PFPN_ENTHI 0.95 0.97 1 77 21 97 77 0 0 97 Q07831 Non-pathogenic pore-forming peptide OS=Entamoeba histolytica PE=1 SV=1
9 : Q6X630_ENTIV 0.71 0.90 1 77 23 99 77 0 0 99 Q6X630 Invapore A OS=Entamoeba invadens GN=IP-A PE=4 SV=1
10 : C4M251_ENTHI 0.65 0.83 1 77 16 92 77 0 0 92 C4M251 Nonpathogenic pore-forming peptide, putative OS=Entamoeba histolytica GN=EHI_169350 PE=4 SV=1
11 : M2RXP1_ENTHI 0.65 0.83 1 77 16 92 77 0 0 92 M2RXP1 Nonpathogenic pore-forming peptide, putative OS=Entamoeba histolytica KU27 GN=EHI5A_261270 PE=4 SV=1
12 : M3TVU8_ENTHI 0.65 0.83 1 77 16 92 77 0 0 92 M3TVU8 Nonpathogenic pore-forming peptide, putative OS=Entamoeba histolytica HM-1:IMSS-B GN=EHI8A_245660 PE=4 SV=1
13 : M7WT65_ENTHI 0.65 0.83 1 77 16 92 77 0 0 92 M7WT65 Nonpathogenic pore-forming peptide, putative OS=Entamoeba histolytica HM-3:IMSS GN=KM1_305170 PE=4 SV=1
14 : N9TK70_ENTHI 0.65 0.83 1 77 16 92 77 0 0 92 N9TK70 Nonpathogenic pore-forming peptide, putative OS=Entamoeba histolytica HM-1:IMSS-A GN=EHI7A_205010 PE=4 SV=1
15 : K2I094_ENTNP 0.64 0.83 1 77 16 92 77 0 0 92 K2I094 Nonpathogenic pore-forming peptide, putative OS=Entamoeba nuttalli (strain P19) GN=ENU1_030930 PE=4 SV=1
16 : Q9U8G5_ENTDI 0.58 0.78 1 77 20 96 77 0 0 96 Q9U8G5 Pore-forming protein isoform B (Precursor) OS=Entamoeba dispar GN=Dp-B PE=4 SV=1
17 : B1N366_ENTHI 0.57 0.79 1 77 20 96 77 0 0 96 B1N366 Pore-forming peptide ameobapore B, putative OS=Entamoeba histolytica GN=EHI_194540 PE=4 SV=1
18 : M2SAA0_ENTHI 0.57 0.79 1 77 20 96 77 0 0 96 M2SAA0 Amoebapore A, putative OS=Entamoeba histolytica KU27 GN=EHI5A_011850 PE=4 SV=1
19 : M3UMN2_ENTHI 0.57 0.79 1 77 20 96 77 0 0 96 M3UMN2 Nonpathogenic pore-forming peptide, putative OS=Entamoeba histolytica HM-1:IMSS-B GN=EHI8A_003320 PE=4 SV=1
20 : M7W805_ENTHI 0.57 0.79 1 77 20 96 77 0 0 96 M7W805 Amoebapore a, putative OS=Entamoeba histolytica HM-3:IMSS GN=KM1_013430 PE=4 SV=1
21 : N9TLJ6_ENTHI 0.57 0.79 1 77 20 96 77 0 0 96 N9TLJ6 Pore forming toxin (Amoebapore a), putative OS=Entamoeba histolytica HM-1:IMSS-A GN=EHI7A_005290 PE=4 SV=1
22 : PFPB_ENTHI 0.57 0.79 1 77 20 96 77 0 0 96 Q24824 Pore-forming peptide ameobapore B OS=Entamoeba histolytica PE=1 SV=1
23 : K2HRR9_ENTNP 0.56 0.79 1 77 20 96 77 0 0 96 K2HRR9 Nonpathogenic pore-forming peptide, putative OS=Entamoeba nuttalli (strain P19) GN=ENU1_156640 PE=4 SV=1
24 : Q6X629_ENTIV 0.51 0.78 1 77 20 96 77 0 0 96 Q6X629 Invapore B OS=Entamoeba invadens GN=IP-B PE=4 SV=1
25 : C4LZ09_ENTHI 0.47 0.71 2 77 26 101 76 0 0 101 C4LZ09 Amoebapore C OS=Entamoeba histolytica GN=EHI_118270 PE=4 SV=1
26 : M2Q491_ENTHI 0.47 0.71 2 77 26 101 76 0 0 101 M2Q491 Amoebapore C, putative OS=Entamoeba histolytica KU27 GN=EHI5A_228460 PE=4 SV=1
27 : M7W4N2_ENTHI 0.47 0.71 2 77 26 101 76 0 0 101 M7W4N2 Amoebapore C, putative OS=Entamoeba histolytica HM-3:IMSS GN=KM1_313130 PE=4 SV=1
28 : PFPC_ENTHI 0.47 0.71 2 77 26 101 76 0 0 101 Q24825 Pore-forming peptide ameobapore C OS=Entamoeba histolytica PE=1 SV=1
29 : Q76N77_ENTHI 0.47 0.71 2 77 13 88 76 0 0 88 Q76N77 Amoebapore C (Fragment) OS=Entamoeba histolytica PE=2 SV=1
30 : A1A491_ENTHI 0.46 0.70 2 77 14 89 76 0 0 89 A1A491 Ameobapore C (Fragment) OS=Entamoeba histolytica PE=4 SV=1
31 : A1A492_ENTHI 0.46 0.70 2 77 26 101 76 0 0 101 A1A492 Amoebapore C OS=Entamoeba histolytica PE=4 SV=1
32 : O15591_ENTHI 0.43 0.70 2 61 21 80 60 0 0 87 O15591 Amoebapore C homologue (Fragment) OS=Entamoeba histolytica PE=2 SV=1
33 : B0EL35_ENTDS 0.42 0.68 2 77 26 101 76 0 0 101 B0EL35 Pore-forming peptide ameobapore C, putative OS=Entamoeba dispar (strain ATCC PRA-260 / SAW760) GN=EDI_206610 PE=4 SV=1
34 : Q9U8G4_ENTDI 0.42 0.68 2 77 26 101 76 0 0 101 Q9U8G4 Pore-forming protein isoform C (Precursor) OS=Entamoeba dispar GN=Dp-C PE=4 SV=1
35 : C4LZ02_ENTHI 0.32 0.53 1 77 71 149 79 2 2 153 C4LZ02 Putative uncharacterized protein OS=Entamoeba histolytica GN=EHI_118190 PE=4 SV=1
36 : E7FD46_DANRE 0.32 0.66 5 77 49 121 74 2 2 141 E7FD46 Uncharacterized protein OS=Danio rerio GN=LOC561500 PE=4 SV=1
37 : M2Q9L1_ENTHI 0.32 0.53 1 77 71 149 79 2 2 153 M2Q9L1 Uncharacterized protein OS=Entamoeba histolytica KU27 GN=EHI5A_272900 PE=4 SV=1
38 : M7X797_ENTHI 0.32 0.53 1 77 71 149 79 2 2 153 M7X797 Uncharacterized protein OS=Entamoeba histolytica HM-3:IMSS GN=KM1_322550 PE=4 SV=1
39 : F2XFM9_STECR 0.31 0.59 1 77 19 97 80 2 4 97 F2XFM9 Pore-forming protein-like protein OS=Steinernema carpocapsae PE=4 SV=1
40 : Q285N9_ICTPU 0.31 0.57 4 77 49 122 75 2 2 141 Q285N9 NK-lysin type 3 OS=Ictalurus punctatus PE=4 SV=1
41 : Q285P1_ICTPU 0.31 0.57 4 77 49 122 75 2 2 141 Q285P1 NK-lysin type 3 OS=Ictalurus punctatus PE=2 SV=1
42 : H2VSV9_CAEJA 0.30 0.49 1 77 22 104 83 3 6 105 H2VSV9 Uncharacterized protein OS=Caenorhabditis japonica GN=WBGene00124268 PE=4 SV=1
43 : K2H9I4_ENTNP 0.30 0.53 1 77 71 149 79 2 2 153 K2H9I4 Uncharacterized protein OS=Entamoeba nuttalli (strain P19) GN=ENU1_136410 PE=4 SV=1
## ALIGNMENTS 1 - 43
SeqNo PDBNo AA STRUCTURE BP1 BP2 ACC NOCC VAR ....:....1....:....2....:....3....:....4....:....5....:....6....:....7
1 1 A G 0 0 78 31 6 GGGGGGGGGGGGGGGGGGGGGGGG G GGS GG
2 2 A E + 0 0 150 41 72 EEEEEEEPKPPPPPPSAAAAAAALPPPPPPPPPPD DDK SD
3 3 A I S S- 0 0 55 41 17 IIIIIIIIIIIIIIIIIIIIIIILVVVVVVVVVVI IIL II
4 4 A L S > S+ 0 0 91 43 20 LLLLLLIVVVVVVVILLLLLLLLLLLLLLLLLVVL LLLLLFL
5 5 A a H >> + 0 0 9 44 0 CCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCC
6 6 A N H 45S+ 0 0 148 44 62 NNNNNNNNNNNNNNNNNNNNNNNNPPPPPPPPPPNTNNNWWSN
7 7 A L H >5S+ 0 0 65 44 28 LLLLLLLLLLLLLLLLLLLLLLLLVVVVVVVVVVLILLIIIIL
8 8 A b H >X5S+ 0 0 18 44 0 CCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCC
9 9 A T H 3X5S+ 0 0 23 44 74 TTTTTTTTKIIIIIIKKKKKKKKKTTTTTTTTTTNKNNQKKEN
10 10 A G H 3>X S+ 0 0 9 44 39 IIIIIIIIIVVVVVVVVVVVVVVIVVVVVVVVVVAMAAVMMIA
13 13 A N H >< S+ 0 0 92 44 68 NNNNNNNNINNNNNNNKKKKKKKDGGGGGGGGGGDNDDGKKRD
14 14 A T H >X S+ 0 0 57 44 81 TTTTTTTTTTTTTTTLLLLLLLLMKKKKKKKKKKKQKKAKKIK
15 15 A L H S+ 0 0 18 44 63 AAAAAAAAAAAAAAAAAAAAAAAAVVVVVVVGVVLPLLVAAKL
25 25 A D H >> S+ 0 0 113 44 25 DDDDDDDDDDDDDDDQQQQQQQQDDDDDDDDDDDDDDDDEEKD
26 26 A K H 3> S+ 0 0 112 44 57 KKKKKKKKKRRRRRRAAAAAAAAAKKKKKKKNKKKEKKRKKDK
27 27 A V H 3> S+ 0 0 0 44 20 VVVVVVVVVVVVVVVVVVVVVVVVVVVVVVVVAAVIVVAIILV
28 28 A K H < S+ 0 0 27 44 5 CCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCTCCCC
36 36 A N T 3< S+ 0 0 127 44 70 NNNNNNNNGGGGGGGAGGGGGGGSAAAAAAAPAAVNVVHDDAV
37 37 A K T 3 S+ 0 0 180 44 14 KKKKKKKKKKKKKKKKKKKKKKKDKKKKKKKKKKKKKKDKKHK
38 38 A A < + 0 0 25 44 51 AAAAAAAAVAAAAAAAAAAAAAAVAAAAAAAAAAFAFFNLLAF
39 39 A S S S+ 0 0 131 44 75 SSSSSSSSSDDDDDDDSSSSSSNSDDDDDDDDDDrVrrMPPpr
40 40 A G S > S- 0 0 39 40 22 GGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGe.ee...ee
41 41 A F T 3 S+ 0 0 138 44 34 FFFFFFFFFFFFFFFFFFFFFFFFLLLLLLLLVVLVLLLAVVL
42 42 A I T 3> S+ 0 0 43 44 51 IIIIIIIILIIIIIILLLLLLLLLVVVVVVVVIIPLPPLVVFP
43 43 A A H <> S+ 0 0 43 44 70 AAAAAASAAAAAAAAGGGGGGGSGEEEEEEEAEEQKQQDKKNQ
44 44 A T H > S+ 0 0 84 44 64 TTTTTTTTGQQQQQQTTTTTTTTTTTTTTTTTTTHSHHPDDVH
45 45 A L H > S+ 0 0 10 44 31 LLLLLLLLLLLLLLLLLLLLLLLLLLLLLLLLVVYQYYILLLY
46 46 A c H >X S+ 0 0 20 44 0 CCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCC
47 47 A T H 3X S+ 0 0 73 44 81 TTTTTTTTTEEEEEENEEEEEEESTTTTTTTTSSYKYYKKKSY
48 48 A K H 3X S+ 0 0 76 44 47 KKKKKKKKKKKKKKKKKKKKKKKTKKKKKKKPKKFKFFAKKKF
49 49 A V H X - 0 0 16 44 52 GGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGLHLLGNNLL
54 54 A I H 3> S+ 0 0 29 44 40 IIIIIIIVVLLLLLLVVVVVVVVVIIIIIIIIIIYIYYIIIIY
55 55 A D H 3> S+ 0 0 78 44 46 DDDDDDDDDDDDDDDDDDDDDDDDDDDDDDDADDFHFFDDDDF
56 56 A K H X> S+ 0 0 103 44 52 KKKKKKKKKKKKKKKEEEEEEEEEKKKKKKKKKKKTKKKLFAK
57 57 A L H 3X S+ 0 0 2 44 16 LLLLLLLLLLLLLLLLLLLLLLLLLLLLLLLLLLILIIVLLVI
58 58 A I H 3X S+ 0 0 23 44 28 IIIIIIIIIIIIIIIVVVVVVVVIIIIIIIILIILILLEVVVL
59 59 A Q H X>S+ 0 0 52 44 87 LLLLLLLLMLLLLLLLLLLLLLLMKKKKKKKSKKYEYYDEEIY
61 61 A I H 3<5S+ 0 0 25 44 17 IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIILLLLILLIL
62 62 A E H 3<5S+ 0 0 150 43 73 EEEEEEEENQQQQQQEEEEEEEEELLLLLLL IIEMEEKSSEE
63 63 A D H <<5S- 0 0 131 43 64 DDDDDDDDNSSSSSSNNNNNNNNNEEEEEEE EESNSSNTTsS
64 64 A K T <5S+ 0 0 181 43 81 KKKKKKKKKKKKKKKHHHHHHHHHGGGGGGG GGGDGGKDDeG
65 65 A V < - 0 0 32 43 76 VVVVVVVVVVVVVVVVVVVVVVVVGGGGGGG GGNDNNEDDRN
66 66 A D > - 0 0 114 43 61 DDDDDDDDDDDDDDDDDDDDDDDDSSSSSSS SSRGRRPDDER
67 67 A A H > S+ 0 0 7 43 56 AAAAAAAAPPPPPPPPPPPPPPPKAAAAAVV AASPSSAPPGS
68 68 A N H >>>S+ 0 0 89 43 79 NNNNNNNNANNNNNNVVVVVVVVVKKKKKKK KKDNDDSKKNE
69 69 A A H 3>5S+ 0 0 46 43 82 AAAAAAAATAAAAAAVVVVVVVVTLLLLLLL LLQTQQKAAEQ
70 70 A I H 3X5S+ 0 0 0 43 26 IIIIIIIIIIIIIIIIVVVVVVVIIIIIIII IIFIFFIIITF
71 71 A b H XX5S+ 0 0 1 43 0 CCCCCCCCCCCCCCCCCCCCCCCCCCCCCCC CCCCCCCCCCC
72 72 A A H 3<5S+ 0 0 53 43 62 AAAAAAAASAAAAAAEEEEEEEETGGGGGGG GGETEEKAAHE
73 73 A K H 3<