Complet list of 2bai hssp file
Complete list of 2bai.hssp file
HSSP HOMOLOGY DERIVED SECONDARY STRUCTURE OF PROTEINS , VERSION 2.0 2011
PDBID 2BAI
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 2014-05-16
HEADER VIRAL PROTEIN 14-OCT-05 2BAI
COMPND MOL_ID: 1; MOLECULE: GENOME POLYPROTEIN; CHAIN: A; FRAGMENT: ZINC FING
SOURCE MOL_ID: 1; ORGANISM_SCIENTIFIC: MENGO VIRUS; ORGANISM_TAXID: 12107; EX
AUTHOR C.C.CORNILESCU,F.W.PORTER,Z.QIN,M.S.LEE,A.C.PALMENBERG, J.L.MARKLEY,CE
DBREF 2BAI A 1 32 UNP P32540 POLG_ENMG3 1 32
SEQLENGTH 32
NCHAIN 1 chain(s) in 2BAI data set
NALIGN 50
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 : A9NJ75_EMCV 1.00 1.00 1 32 1 32 32 0 0 2274 A9NJ75 Polyprotein (Fragment) OS=Encephalomyocarditis virus PE=3 SV=2
2 : POLG_ENMG3 2BAI 1.00 1.00 1 32 1 32 32 0 0 901 P32540 Genome polyprotein (Fragment) OS=Mengo encephalomyocarditis virus (strain 37A) PE=1 SV=1
3 : POLG_ENMGO 2MEV 1.00 1.00 1 32 1 32 32 0 0 2293 P12296 Genome polyprotein OS=Mengo encephalomyocarditis virus PE=1 SV=3
4 : Q707U7_EMCV 1.00 1.00 1 32 1 32 32 0 0 901 Q707U7 Polyprotein (Fragment) OS=Encephalomyocarditis virus PE=4 SV=1
5 : Q707U8_EMCV 1.00 1.00 1 32 1 32 32 0 0 901 Q707U8 Polyprotein (Fragment) OS=Encephalomyocarditis virus PE=4 SV=1
6 : Q707U9_EMCV 1.00 1.00 1 32 1 32 32 0 0 901 Q707U9 Polyprotein (Fragment) OS=Encephalomyocarditis virus PE=4 SV=1
7 : Q707V0_EMCV 1.00 1.00 1 32 1 32 32 0 0 901 Q707V0 Polyprotein (Fragment) OS=Encephalomyocarditis virus PE=4 SV=1
8 : Q83422_ENMGO 1.00 1.00 1 32 1 32 32 0 0 2293 Q83422 Polyprotein (Precursor) OS=Mengo encephalomyocarditis virus PE=3 SV=1
9 : I7D1R9_9PICO 0.97 1.00 1 32 1 32 32 0 0 2302 I7D1R9 Polyprotein (Precursor) OS=Encephalomyocarditis virus type 2 PE=3 SV=1
10 : L7P872_EMCV 0.97 1.00 1 32 1 32 32 0 0 947 L7P872 Polyprotein (Fragment) OS=Encephalomyocarditis virus PE=4 SV=1
11 : L7P885_EMCV 0.97 1.00 1 32 1 32 32 0 0 947 L7P885 Polyprotein (Fragment) OS=Encephalomyocarditis virus PE=4 SV=1
12 : Q707U6_EMCV 0.97 1.00 1 32 1 32 32 0 0 901 Q707U6 Polyprotein (Fragment) OS=Encephalomyocarditis virus PE=4 SV=1
13 : POLG_EMCV 0.94 0.97 1 32 1 32 32 0 0 2290 P03304 Genome polyprotein OS=Encephalomyocarditis virus PE=1 SV=1
14 : POLG_EMCVR 0.94 0.97 1 32 1 32 32 0 0 2292 Q66765 Genome polyprotein OS=Encephalomyocarditis virus (strain Rueckert) PE=1 SV=1
15 : Q2PZB2_EMCV 0.94 0.97 1 32 1 32 32 0 0 2292 Q2PZB2 Polyprotein OS=Encephalomyocarditis virus PE=3 SV=1
16 : Q66850_EMCV 0.94 0.97 1 32 1 32 32 0 0 2292 Q66850 Complete RNA genome (Precursor) OS=Encephalomyocarditis virus PE=3 SV=1
17 : Q707U5_EMCV 0.94 0.97 1 32 1 32 32 0 0 901 Q707U5 Polyprotein (Fragment) OS=Encephalomyocarditis virus PE=4 SV=1
18 : Q707V1_EMCV 0.94 0.97 1 32 1 32 32 0 0 901 Q707V1 Polyprotein (Fragment) OS=Encephalomyocarditis virus PE=4 SV=1
19 : Q8QV04_EMCV 0.94 0.97 1 32 1 32 32 0 0 2292 Q8QV04 Polyprotein OS=Encephalomyocarditis virus PE=3 SV=1
20 : T1WMM5_EMCV 0.94 0.97 1 32 1 32 32 0 0 2301 T1WMM5 Polyprotein (Precursor) OS=Encephalomyocarditis virus PE=3 SV=1
21 : T1WNN9_EMCV 0.94 0.97 1 32 1 32 32 0 0 2301 T1WNN9 Polyprotein (Precursor) OS=Encephalomyocarditis virus PE=3 SV=1
22 : W0FB16_EMCV 0.94 0.97 1 32 1 32 32 0 0 2292 W0FB16 Polyprotein OS=Encephalomyocarditis virus PE=2 SV=1
23 : B9VU81_EMCV 0.91 0.97 1 32 1 32 32 0 0 2292 B9VU81 Polyprotein OS=Encephalomyocarditis virus PE=2 SV=1
24 : B9VU82_EMCV 0.91 0.97 1 32 1 32 32 0 0 2292 B9VU82 Polyprotein OS=Encephalomyocarditis virus PE=2 SV=1
25 : C0J487_EMCV 0.91 0.97 1 32 1 32 32 0 0 2292 C0J487 Polyprotein OS=Encephalomyocarditis virus PE=3 SV=1
26 : C0J488_EMCV 0.91 0.97 1 32 1 32 32 0 0 2292 C0J488 Polyprotein OS=Encephalomyocarditis virus PE=3 SV=1
27 : C4P7I1_EMCV 0.91 0.97 1 32 1 32 32 0 0 2292 C4P7I1 Polyprotein OS=Encephalomyocarditis virus PE=3 SV=1
28 : E2IYB2_EMCV 0.91 0.97 1 32 1 32 32 0 0 2292 E2IYB2 Polyprotein OS=Porcine encephalomyocarditis virus PE=3 SV=1
29 : K4IGK4_EMCV 0.91 0.97 1 32 1 32 32 0 0 2292 K4IGK4 Polyprotein (Precursor) OS=Encephalomyocarditis virus PE=3 SV=1
30 : L7P953_EMCV 0.91 1.00 1 32 1 32 32 0 0 935 L7P953 Polyprotein (Fragment) OS=Encephalomyocarditis virus PE=4 SV=1
31 : POLG_EMCVD 0.91 0.94 1 32 1 32 32 0 0 2292 P17594 Genome polyprotein OS=Encephalomyocarditis virus (strain emc-d diabetogenic) PE=1 SV=2
32 : Q15BR3_EMCV 0.91 0.97 1 32 1 32 32 0 0 2292 Q15BR3 Polyprotein OS=Porcine encephalomyocarditis virus PE=3 SV=1
33 : Q1KNJ5_EMCV 0.91 0.97 1 32 1 32 32 0 0 2292 Q1KNJ5 Polyprotein OS=Encephalomyocarditis virus PE=3 SV=1
34 : Q66763_EMCV 0.91 0.94 1 32 1 32 32 0 0 2292 Q66763 Polyprotein OS=Encephalomyocarditis virus PE=3 SV=1
35 : Q89272_EMCV 0.91 0.94 1 32 1 32 32 0 0 2292 Q89272 Complete viral protein (Precursor) OS=Encephalomyocarditis virus PE=3 SV=1
36 : R9TFZ8_EMCV 0.91 0.97 1 32 1 32 32 0 0 2292 R9TFZ8 Polyprotein OS=Encephalomyocarditis virus PE=3 SV=1
37 : S5RCN9_EMCV 0.91 0.97 1 32 1 32 32 0 0 2292 S5RCN9 Polyprotein OS=Encephalomyocarditis virus PE=3 SV=1
38 : V5KYN1_EMCV 0.91 0.97 1 32 1 32 32 0 0 2283 V5KYN1 Polyprotein (Fragment) OS=Encephalomyocarditis virus PE=3 SV=1
39 : V5KZ55_EMCV 0.91 0.97 1 32 1 32 32 0 0 2287 V5KZ55 Polyprotein (Fragment) OS=Encephalomyocarditis virus PE=3 SV=1
40 : V5KZ97_EMCV 0.91 0.97 1 32 1 32 32 0 0 2287 V5KZ97 Polyprotein (Fragment) OS=Encephalomyocarditis virus PE=3 SV=1
41 : V5KZE4_EMCV 0.91 0.97 1 32 1 32 32 0 0 2286 V5KZE4 Polyprotein OS=Encephalomyocarditis virus PE=3 SV=1
42 : W0FAZ2_EMCV 0.91 0.97 1 32 1 32 32 0 0 2292 W0FAZ2 Polyprotein OS=Encephalomyocarditis virus PE=2 SV=1
43 : W0FB14_EMCV 0.91 0.97 1 32 1 32 32 0 0 2292 W0FB14 Polyprotein OS=Encephalomyocarditis virus PE=2 SV=1
44 : W0FFA8_EMCV 0.91 0.94 1 32 1 32 32 0 0 2292 W0FFA8 Polyprotein OS=Encephalomyocarditis virus PE=2 SV=1
45 : W0FFM2_EMCV 0.91 0.97 1 32 1 32 32 0 0 2292 W0FFM2 Polyprotein OS=Encephalomyocarditis virus PE=2 SV=1
46 : POLG_EMCVB 0.88 0.94 1 32 1 32 32 0 0 2292 P17593 Genome polyprotein OS=Encephalomyocarditis virus (strain emc-b nondiabetogenic) PE=3 SV=1
47 : Q1KNJ4_EMCV 0.88 0.94 1 32 1 32 32 0 0 2292 Q1KNJ4 Polyprotein OS=Encephalomyocarditis virus PE=3 SV=1
48 : Q7TF87_EMCV 0.88 0.94 1 32 1 32 32 0 0 2292 Q7TF87 Polyprotein OS=Encephalomyocarditis virus PE=3 SV=1
49 : W0FEF1_EMCV 0.88 0.94 1 32 1 32 32 0 0 2292 W0FEF1 Polyprotein OS=Encephalomyocarditis virus PE=2 SV=1
50 : V5L0D8_EMCV 0.82 0.93 5 32 1 28 28 0 0 2282 V5L0D8 Polyprotein (Fragment) OS=Encephalomyocarditis virus PE=3 SV=1
## ALIGNMENTS 1 - 50
SeqNo PDBNo AA STRUCTURE BP1 BP2 ACC NOCC VAR ....:....1....:....2....:....3....:....4....:....5....:....6....:....7
1 1 A M 0 0 207 50 0 MMMMMMMMMMMMMMMMMMMMMMMMMMMMMMMMMMMMMMMMMMMMMMMMM
2 2 A A - 0 0 81 50 0 AAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAA
3 3 A T S S+ 0 0 118 50 7 TTTTTTTTTAATTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTT
4 4 A T + 0 0 95 50 10 TTTTTTTTTTTTTTTTTTTIITTTTTTTTTTTTTTTTTTTTTTTTTTTT
5 5 A M - 0 0 136 51 0 MMMMMMMMMMMMMMMMMMMMMMMMMMMMMMMMMMMMMMMMMMMMMMMMMM
6 6 A E + 0 0 161 51 0 EEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEE
7 7 A Q S S- 0 0 121 51 0 QQQQQQQQQQQQQQQQQQQQQQQQQQQQQQQQQQQQQQQQQQQQQQQQQQ
8 8 A E + 0 0 112 51 0 EEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEE
9 9 A I + 0 0 83 51 62 IIIIIIIIIIIITTTTITTIITTTTTTTTIITTIITTTTTTTTTTITITT
10 10 A C - 0 0 36 51 0 CCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCC
11 11 A A S S+ 0 0 100 51 6 AAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAVAA
12 12 A H S S- 0 0 89 51 0 HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
13 13 A S S S+ 0 0 83 51 52 SSSSSSSSSSSSSSSSSSSTTSPPPPPPPSSPPSSPPPPPPPPSPSPSPP
14 14 A M S S- 0 0 35 51 7 MMMMMMMMMMMMLLLLLLLMMLLLLLLLLLLLLLLLLLLLLLLLLLLLLL
15 15 A T >> - 0 0 30 51 10 TTTTTTTTTTTTTTTTTTTTTTTTTTTTTATTTTTTTTTTTTTTTTTITT
16 16 A F G >4 S+ 0 0 145 51 2 FFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFLFFFL
17 17 A E G 34 S+ 0 0 151 51 38 EEEEEEEEEEEEEEEEEEEEEEEEEEEEEDKEEKKEEEEEEEEVEKVEVR
18 18 A E G X> S+ 0 0 70 51 15 EEEEEEEEEEEEEEEEEEEEEEEEEEEEEEGEEGGEEEEEEEEEEGEEEE
19 19 A C H XX S+ 0 0 43 51 0 CCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCC
20 20 A P H 3> S+ 0 0 88 51 0 PPPPPPPPPPPPPPPPPPPPPPPPPPPPPPPPPPPPPPPPPPPPPPPPPP
21 21 A K H <4 S+ 0 0 80 51 0 KKKKKKKKKKKKKKKKKKKKKKKKKKKKKKKKKKKKKKKKKKKKKKKKKK
22 22 A C H << S+ 0 0 6 51 0 CCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCC
23 23 A S H < S+ 0 0 37 51 0 SSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSS
24 24 A A < + 0 0 34 51 0 AAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAA
25 25 A L S S- 0 0 72 51 0 LLLLLLLLLLLLLLLLLLLLLLLLLLLLLLLLLLLLLLLLLLLLLLLLLL
26 26 A Q S S+ 0 0 160 51 0 QQQQQQQQQQQQQQQQQQQQQQQQQQQQQQQQQQQQQQQQQQQQQQQQQQ
27 27 A Y S > S- 0 0 181 51 0 YYYYYYYYYYYFYYYYYYYYYYYYYYYYYYYYYYYYYYYYYYYYYYYYYY
28 28 A R T 3 S+ 0 0 227 51 5 RRRRRRRRRRRRRRRRCRRRRRRRRRRRRRRRRRRRRRRRRRRRRRRRRR
29 29 A N T 3 S- 0 0 108 51 6 NNNNNNNNDNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNDNN
30 30 A G < - 0 0 18 51 0 GGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGG
31 31 A F 0 0 193 51 0 FFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFF
32 32 A Y 0 0 245 51 0 YYYYYYYYYYYYYYYYYYYYYYYYYYYYYYYYYYYYYYYYYYYYYYYYYY
## 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 50 0 0 0.000 0 1.00
2 2 A 0 0 0 0 0 0 0 0 100 0 0 0 0 0 0 0 0 0 0 0 50 0 0 0.000 0 1.00
3 3 A 0 0 0 0 0 0 0 0 4 0 0 96 0 0 0 0 0 0 0 0 50 0 0 0.168 5 0.92
4 4 A 0 0 4 0 0 0 0 0 0 0 0 96 0 0 0 0 0 0 0 0 50 0 0 0.168 5 0.89
5 5 A 0 0 0 100 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 51 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 0 0 100 0 0 51 0 0 0.000 0 1.00
7 7 A 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 100 0 0 0 51 0 0 0.000 0 1.00
8 8 A 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 100 0 0 51 0 0 0.000 0 1.00
9 9 A 0 0 43 0 0 0 0 0 0 0 0 57 0 0 0 0 0 0 0 0 51 0 0 0.684 22 0.37
10 10 A 0 0 0 0 0 0 0 0 0 0 0 0 100 0 0 0 0 0 0 0 51 0 0 0.000 0 1.00
11 11 A 2 0 0 0 0 0 0 0 98 0 0 0 0 0 0 0 0 0 0 0 51 0 0 0.097 3 0.93
12 12 A 0 0 0 0 0 0 0 0 0 0 0 0 0 100 0 0 0 0 0 0 51 0 0 0.000 0 1.00
13 13 A 0 0 0 0 0 0 0 0 0 41 55 4 0 0 0 0 0 0 0 0 51 0 0 0.822 27 0.48
14 14 A 0 71 0 29 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 51 0 0 0.606 20 0.92
15 15 A 0 0 2 0 0 0 0 0 2 0 0 96 0 0 0 0 0 0 0 0 51 0 0 0.193 6 0.89
16 16 A 0 4 0 0 96 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 51 0 0 0.165 5 0.97
17 17 A 6 0 0 0 0 0 0 0 0 0 0 0 0 0 2 8 0 82 0 2 51 0 0 0.680 22 0.61
18 18 A 0 0 0 0 0 0 0 8 0 0 0 0 0 0 0 0 0 92 0 0 51 0 0 0.275 9 0.84
19 19 A 0 0 0 0 0 0 0 0 0 0 0 0 100 0 0 0 0 0 0 0 51 0 0 0.000 0 1.00
20 20 A 0 0 0 0 0 0 0 0 0 100 0 0 0 0 0 0 0 0 0 0 51 0 0 0.000 0 1.00
21 21 A 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 100 0 0 0 0 51 0 0 0.000 0 1.00
22 22 A 0 0 0 0 0 0 0 0 0 0 0 0 100 0 0 0 0 0 0 0 51 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 51 0 0 0.000 0 1.00
24 24 A 0 0 0 0 0 0 0 0 100 0 0 0 0 0 0 0 0 0 0 0 51 0 0 0.000 0 1.00
25 25 A 0 100 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 51 0 0 0.000 0 1.00
26 26 A 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 100 0 0 0 51 0 0 0.000 0 1.00
27 27 A 0 0 0 0 2 0 98 0 0 0 0 0 0 0 0 0 0 0 0 0 51 0 0 0.097 3 1.00
28 28 A 0 0 0 0 0 0 0 0 0 0 0 0 2 0 98 0 0 0 0 0 51 0 0 0.097 3 0.95
29 29 A 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 96 4 51 0 0 0.165 5 0.93
30 30 A 0 0 0 0 0 0 0 100 0 0 0 0 0 0 0 0 0 0 0 0 51 0 0 0.000 0 1.00
31 31 A 0 0 0 0 100 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 51 0 0 0.000 0 1.00
32 32 A 0 0 0 0 0 0 100 0 0 0 0 0 0 0 0 0 0 0 0 0 51 0 0 0.000 0 1.00
## INSERTION LIST
AliNo IPOS JPOS Len Sequence
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