Complet list of 1qlo hssp file
Complete list of 1qlo.hssp file
HSSP HOMOLOGY DERIVED SECONDARY STRUCTURE OF PROTEINS , VERSION 2.0 2011
PDBID 1QLO
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 2014-05-07
HEADER MEMBRANE PROTEINS 09-SEP-99 1QLO
COMPND MOL_ID: 1; MOLECULE: HERPES SIMPLEX VIRUS PROTEIN ICP47; CHAIN: A; FRA
SOURCE MOL_ID: 1; ORGANISM_SCIENTIFIC: HERPES SIMPLEX VIRUS; ORGANISM_TAXID:
AUTHOR R.PFAENDER,L.NEUMANN,M.ZWECKSTETTER,C.SEGER,T.A.HOLAK, R.TAMPE
DBREF 1QLO A 1 34 UNP P03170 IE12_HSV11 1 34
SEQLENGTH 34
NCHAIN 1 chain(s) in 1QLO data set
NALIGN 13
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 : D3YPD7_HHV1 1.00 1.00 1 34 1 34 34 0 0 88 D3YPD7 TAP transporter inhibitor ICP47 OS=Human herpesvirus 1 GN=US12 PE=4 SV=1
2 : D3YPN1_HHV1 1.00 1.00 1 34 1 34 34 0 0 88 D3YPN1 TAP transporter inhibitor ICP47 OS=Human herpesvirus 1 GN=US12 PE=4 SV=1
3 : F8RGA5_HHV1 1.00 1.00 1 34 1 34 34 0 0 88 F8RGA5 TAP transporter inhibitor ICP47 OS=Human herpesvirus 1 GN=US12 PE=4 SV=1
4 : G8H8Y4_HHV1 1.00 1.00 1 34 1 34 34 0 0 88 G8H8Y4 TAP transporter inhibitor ICP47 OS=Human herpesvirus 1 GN=US12 PE=4 SV=1
5 : L0N6D1_HHV1 1.00 1.00 1 34 1 34 34 0 0 88 L0N6D1 TAP transporter inhibitor ICP47 OS=Herpes simplex virus (type 1 /strain RH2) GN=US12 PE=4 SV=1
6 : Q09I64_HHV1 1.00 1.00 1 34 1 34 34 0 0 88 Q09I64 US12 OS=Human herpesvirus 1 GN=US12 PE=4 SV=1
7 : F8RCU3_HHV1 0.97 0.97 1 34 1 34 34 0 0 88 F8RCU3 TAP transporter inhibitor ICP47 OS=Human herpesvirus 1 GN=US12 PE=4 SV=1
8 : G8HBI7_HHV1 0.97 0.97 1 34 1 34 34 0 0 88 G8HBI7 TAP transporter inhibitor ICP47 OS=Human herpesvirus 1 GN=US12 PE=4 SV=1
9 : ICP47_HHV11 1QLO 0.97 0.97 1 34 1 34 34 0 0 88 P03170 ICP47 protein OS=Human herpesvirus 1 (strain 17) GN=US12 PE=1 SV=2
10 : G9I295_HHV2 0.59 0.71 1 34 1 34 34 0 0 86 G9I295 TAP transporter inhibitor ICP47 OS=Human herpesvirus 2 GN=US10 PE=4 SV=1
11 : I6TBH5_HHV21 0.59 0.71 1 34 1 34 34 0 0 86 I6TBH5 Uncharacterized protein OS=Human herpesvirus 2 (strain 186) GN=HHVG_00072 PE=4 SV=1
12 : ICP47_HHV2H 0.59 0.71 1 34 1 34 34 0 0 86 P14345 ICP47 protein OS=Human herpesvirus 2 (strain HG52) GN=US12 PE=3 SV=2
13 : B1PKZ9_HHV2 0.56 0.71 1 34 1 34 34 0 0 86 B1PKZ9 Immediate early protein US12 OS=Human herpesvirus 2 PE=4 SV=1
## ALIGNMENTS 1 - 13
SeqNo PDBNo AA STRUCTURE BP1 BP2 ACC NOCC VAR ....:....1....:....2....:....3....:....4....:....5....:....6....:....7
1 1 A M > 0 0 223 14 0 MMMMMMMMMMMMM
2 2 A S T 3 - 0 0 85 14 18 SSSSSSSSSSSSA
3 3 A W T 3 S- 0 0 240 14 0 WWWWWWWWWWWWW
4 4 A A S <> S+ 0 0 62 14 0 AAAAAAAAAAAAA
5 5 A L H > + 0 0 98 14 0 LLLLLLLLLLLLL
6 6 A E H > S+ 0 0 139 14 76 EEEEEEEEEKKKK
7 7 A M H > S+ 0 0 119 14 95 MMMMMMMMMTTTT
8 8 A A H X S+ 0 0 47 14 69 AAAAAAAAATTTT
9 9 A D H X S+ 0 0 104 14 0 DDDDDDDDDDDDD
10 10 A T H X S+ 0 0 84 14 95 TTTTTTTTTMMMM
11 11 A F H < S+ 0 0 121 14 0 FFFFFFFFFFFFF
12 12 A L H >< S+ 0 0 134 14 0 LLLLLLLLLLLLL
13 13 A D H 3< S+ 0 0 131 14 0 DDDDDDDDDDDDD
14 14 A N T 3< S+ 0 0 133 14 78 NNNNNNNTTSSSS
15 15 A M < + 0 0 103 14 114 MMMMMMMMMSSSS
16 16 A R S S- 0 0 203 14 0 RRRRRRRRRRRRR
17 17 A V S S- 0 0 142 14 82 VVVVVVVVVCCCC
18 18 A G S S- 0 0 39 14 69 GGGGGGGGGTTTT
19 19 A P - 0 0 125 14 82 PPPPPPPPPHHHH
20 20 A R - 0 0 227 14 0 RRRRRRRRRRRRR
21 21 A T > - 0 0 74 14 0 TTTTTTTTTTTTT
22 22 A Y H > S+ 0 0 198 14 0 YYYYYYYYYYYYY
23 23 A A H > S+ 0 0 74 14 50 AAAAAAAAAGGGG
24 24 A D H > S+ 0 0 60 14 0 DDDDDDDDDDDDD
25 25 A V H X S+ 0 0 85 14 0 VVVVVVVVVVVVV
26 26 A R H >< S+ 0 0 161 14 114 RRRRRRRRRCCCC
27 27 A D H >X S+ 0 0 86 14 76 DDDDDDDDDAAAA
28 28 A E H 3X S+ 0 0 81 14 0 EEEEEEEEEEEEE
29 29 A I H << S+ 0 0 111 14 0 IIIIIIIIIIIII
30 30 A N H X4 S+ 0 0 98 14 63 NNNNNNNNNHHHH
31 31 A K H 3< S+ 0 0 196 14 0 KKKKKKKKKKKKK
32 32 A R T 3< S+ 0 0 181 14 11 RRRRRRSRRRRRR
33 33 A G < 0 0 50 14 63 GGGGGGGGGEEEE
34 34 A R 0 0 308 14 0 RRRRRRRRRRRRR
## 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 0 100 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 14 0 0 0.000 0 1.00
2 2 A 0 0 0 0 0 0 0 0 7 0 93 0 0 0 0 0 0 0 0 0 14 0 0 0.257 8 0.81
3 3 A 0 0 0 0 0 100 0 0 0 0 0 0 0 0 0 0 0 0 0 0 14 0 0 0.000 0 1.00
4 4 A 0 0 0 0 0 0 0 0 100 0 0 0 0 0 0 0 0 0 0 0 14 0 0 0.000 0 1.00
5 5 A 0 100 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 14 0 0 0.000 0 1.00
6 6 A 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 29 0 71 0 0 14 0 0 0.598 19 0.24
7 7 A 0 0 0 71 0 0 0 0 0 0 0 29 0 0 0 0 0 0 0 0 14 0 0 0.598 19 0.05
8 8 A 0 0 0 0 0 0 0 0 71 0 0 29 0 0 0 0 0 0 0 0 14 0 0 0.598 19 0.30
9 9 A 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 100 14 0 0 0.000 0 1.00
10 10 A 0 0 0 29 0 0 0 0 0 0 0 71 0 0 0 0 0 0 0 0 14 0 0 0.598 19 0.05
11 11 A 0 0 0 0 100 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 14 0 0 0.000 0 1.00
12 12 A 0 100 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 14 0 0 0.000 0 1.00
13 13 A 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 100 14 0 0 0.000 0 1.00
14 14 A 0 0 0 0 0 0 0 0 0 0 29 14 0 0 0 0 0 0 57 0 14 0 0 0.956 31 0.21
15 15 A 0 0 0 71 0 0 0 0 0 0 29 0 0 0 0 0 0 0 0 0 14 0 0 0.598 19 -0.14
16 16 A 0 0 0 0 0 0 0 0 0 0 0 0 0 0 100 0 0 0 0 0 14 0 0 0.000 0 1.00
17 17 A 71 0 0 0 0 0 0 0 0 0 0 0 29 0 0 0 0 0 0 0 14 0 0 0.598 19 0.17
18 18 A 0 0 0 0 0 0 0 71 0 0 0 29 0 0 0 0 0 0 0 0 14 0 0 0.598 19 0.30
19 19 A 0 0 0 0 0 0 0 0 0 71 0 0 0 29 0 0 0 0 0 0 14 0 0 0.598 19 0.17
20 20 A 0 0 0 0 0 0 0 0 0 0 0 0 0 0 100 0 0 0 0 0 14 0 0 0.000 0 1.00
21 21 A 0 0 0 0 0 0 0 0 0 0 0 100 0 0 0 0 0 0 0 0 14 0 0 0.000 0 1.00
22 22 A 0 0 0 0 0 0 100 0 0 0 0 0 0 0 0 0 0 0 0 0 14 0 0 0.000 0 1.00
23 23 A 0 0 0 0 0 0 0 29 71 0 0 0 0 0 0 0 0 0 0 0 14 0 0 0.598 19 0.49
24 24 A 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 100 14 0 0 0.000 0 1.00
25 25 A 100 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 14 0 0 0.000 0 1.00
26 26 A 0 0 0 0 0 0 0 0 0 0 0 0 29 0 71 0 0 0 0 0 14 0 0 0.598 19 -0.14
27 27 A 0 0 0 0 0 0 0 0 29 0 0 0 0 0 0 0 0 0 0 71 14 0 0 0.598 19 0.24
28 28 A 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 100 0 0 14 0 0 0.000 0 1.00
29 29 A 0 0 100 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 14 0 0 0.000 0 1.00
30 30 A 0 0 0 0 0 0 0 0 0 0 0 0 0 29 0 0 0 0 71 0 14 0 0 0.598 19 0.36
31 31 A 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 100 0 0 0 0 14 0 0 0.000 0 1.00
32 32 A 0 0 0 0 0 0 0 0 0 0 7 0 0 0 93 0 0 0 0 0 14 0 0 0.257 8 0.89
33 33 A 0 0 0 0 0 0 0 71 0 0 0 0 0 0 0 0 0 29 0 0 14 0 0 0.598 19 0.36
34 34 A 0 0 0 0 0 0 0 0 0 0 0 0 0 0 100 0 0 0 0 0 14 0 0 0.000 0 1.00
## INSERTION LIST
AliNo IPOS JPOS Len Sequence
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