Complet list of 1aw6 hssp file
Complete list of 1aw6.hssp file
HSSP HOMOLOGY DERIVED SECONDARY STRUCTURE OF PROTEINS , VERSION 2.0 2011
PDBID 1AW6
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 TRANSCRIPTION REGULATION 10-OCT-97 1AW6
COMPND MOL_ID: 1; MOLECULE: GAL4 (CD); CHAIN: A; FRAGMENT: DNA-BINDING DOMAIN
SOURCE MOL_ID: 1; ORGANISM_SCIENTIFIC: SACCHAROMYCES CEREVISIAE; ORGANISM_COM
AUTHOR J.D.BALEJA,G.WAGNER
DBREF 1AW6 A 1 43 UNP P04386 GAL4_YEAST 1 43
SEQLENGTH 43
NCHAIN 1 chain(s) in 1AW6 data set
NALIGN 20
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 : A6ZW08_YEAS7 1.00 1.00 1 43 1 43 43 0 0 876 A6ZW08 Transcription factor OS=Saccharomyces cerevisiae (strain YJM789) GN=GAL4 PE=4 SV=1
2 : B3LKI4_YEAS1 1.00 1.00 1 43 1 43 43 0 0 881 B3LKI4 Regulatory protein GAL4 OS=Saccharomyces cerevisiae (strain RM11-1a) GN=SCRG_02252 PE=4 SV=1
3 : C7GTQ5_YEAS2 1.00 1.00 1 43 1 43 43 0 0 881 C7GTQ5 Gal4p OS=Saccharomyces cerevisiae (strain JAY291) GN=GAL4 PE=4 SV=1
4 : E7KJ64_YEASA 1.00 1.00 1 43 1 43 43 0 0 522 E7KJ64 Gal4p OS=Saccharomyces cerevisiae (strain AWRI796) GN=AWRI796_4767 PE=4 SV=1
5 : E7M166_YEASV 1.00 1.00 1 43 1 43 43 0 0 465 E7M166 Gal4p OS=Saccharomyces cerevisiae (strain VIN 13) GN=VIN13_4730 PE=4 SV=1
6 : G2WNT8_YEASK 1.00 1.00 1 43 1 43 43 0 0 658 G2WNT8 K7_Gal4ap OS=Saccharomyces cerevisiae (strain Kyokai no. 7 / NBRC 101557) GN=K7_GAL4a PE=4 SV=1
7 : GAL4_YEAST 1.00 1.00 1 43 1 43 43 0 0 881 P04386 Regulatory protein GAL4 OS=Saccharomyces cerevisiae (strain ATCC 204508 / S288c) GN=GAL4 PE=1 SV=2
8 : H0GP92_9SACH 1.00 1.00 1 43 1 43 43 0 0 626 H0GP92 Gal4p OS=Saccharomyces cerevisiae x Saccharomyces kudriavzevii VIN7 GN=VIN7_4805 PE=4 SV=1
9 : N1NVJ0_YEASC 1.00 1.00 1 43 1 43 43 0 0 881 N1NVJ0 Gal4p OS=Saccharomyces cerevisiae (strain CEN.PK113-7D) GN=CENPK1137D_1701 PE=4 SV=1
10 : Q76MW9_9ZZZZ 1.00 1.00 1 43 1 43 43 0 0 881 Q76MW9 Gal4 OS=Dual-tagging gene trap vector pGT1 GN=GAL4 PE=4 SV=1
11 : W7PIZ0_YEASX 1.00 1.00 1 43 1 43 43 0 0 881 W7PIZ0 Gal4p OS=Saccharomyces cerevisiae R008 GN=Gal4 PE=4 SV=1
12 : W7QRP1_YEASX 1.00 1.00 1 43 1 43 43 0 0 881 W7QRP1 Gal4p OS=Saccharomyces cerevisiae P283 GN=Gal4 PE=4 SV=1
13 : J8PVU2_SACAR 0.95 0.98 1 43 1 43 43 0 0 877 J8PVU2 Gal4p OS=Saccharomyces arboricola (strain H-6 / AS 2.3317 / CBS 10644) GN=SU7_3455 PE=4 SV=1
14 : D3XDC8_SACKU 0.93 0.98 1 43 1 43 43 0 0 908 D3XDC8 GAL4p OS=Saccharomyces kudriavzevii GN=GAL4 PE=4 SV=1
15 : H0H1R2_9SACH 0.93 0.98 1 43 1 43 43 0 0 732 H0H1R2 Gal4p (Fragment) OS=Saccharomyces cerevisiae x Saccharomyces kudriavzevii VIN7 GN=VIN7_10225 PE=4 SV=1
16 : J6E9G3_SACK1 0.93 0.98 1 43 1 43 43 0 0 908 J6E9G3 GAL4-like protein OS=Saccharomyces kudriavzevii (strain ATCC MYA-4449 / AS 2.2408 / CBS 8840 / NBRC 1802 / NCYC 2889) GN=YPL248C PE=4 SV=1
17 : K4QCM5_9SACH 0.88 0.98 1 43 1 43 43 0 0 895 K4QCM5 Positive regulator of galactose inducible genes OS=Saccharomyces eubayanus GN=gal4 PE=4 SV=1
18 : K4QCM6_SACBA 0.88 0.98 1 43 1 43 43 0 0 736 K4QCM6 Positive regulator of galactose inducible genes OS=Saccharomyces bayanus GN=gal4 PE=4 SV=1
19 : K4QCQ7_9SACH 0.88 0.98 1 43 1 43 43 0 0 895 K4QCQ7 Positive regulator of galactose inducible genes OS=Saccharomyces uvarum GN=gal4 PE=4 SV=1
20 : K4QDG1_SACBA 0.88 0.98 1 43 1 43 43 0 0 893 K4QDG1 Positive regulator of galactose inducible genes OS=Saccharomyces bayanus GN=gal4 PE=4 SV=1
## ALIGNMENTS 1 - 20
SeqNo PDBNo AA STRUCTURE BP1 BP2 ACC NOCC VAR ....:....1....:....2....:....3....:....4....:....5....:....6....:....7
1 1 A M 0 0 238 21 0 MMMMMMMMMMMMMMMMMMMM
2 2 A K - 0 0 187 21 0 KKKKKKKKKKKKKKKKKKKK
3 3 A L + 0 0 135 21 0 LLLLLLLLLLLLLLLLLLLL
4 4 A L + 0 0 179 21 0 LLLLLLLLLLLLLLLLLLLL
5 5 A S S S- 0 0 82 21 50 SSSSSSSSSSSSSSSSPPPP
6 6 A S - 0 0 68 21 50 SSSSSSSSSSSSSSSSAAAA
7 7 A I S S+ 0 0 141 21 48 IIIIIIIIIIIIMMMMMMMM
8 8 A E S S- 0 0 159 21 0 EEEEEEEEEEEEEEEEEEEE
9 9 A Q + 0 0 80 21 0 QQQQQQQQQQQQQQQQQQQQ
10 10 A A - 0 0 39 21 0 AAAAAAAAAAAAAAAAAAAA
11 11 A C >> - 0 0 0 21 0 CCCCCCCCCCCCCCCCCCCC
12 12 A D H 3> S+ 0 0 53 21 0 DDDDDDDDDDDDDDDDDDDD
13 13 A I H 3> S+ 0 0 20 21 0 IIIIIIIIIIIIIIIIIIII
14 14 A C H <>>S+ 0 0 9 21 0 CCCCCCCCCCCCCCCCCCCC
15 15 A R H <5S+ 0 0 165 21 0 RRRRRRRRRRRRRRRRRRRR
16 16 A L H <5S+ 0 0 111 21 0 LLLLLLLLLLLLLLLLLLLL
17 17 A K H <5S- 0 0 112 21 0 KKKKKKKKKKKKKKKKKKKK
18 18 A K T <5 + 0 0 178 21 0 KKKKKKKKKKKKKKKKKKKK
19 19 A L < - 0 0 45 21 0 LLLLLLLLLLLLLLLLLLLL
20 20 A K - 0 0 193 21 18 KKKKKKKKKKKKKRRRKKKK
21 21 A C - 0 0 24 21 0 CCCCCCCCCCCCCCCCCCCC
22 22 A S - 0 0 88 21 0 SSSSSSSSSSSSSSSSSSSS
23 23 A K + 0 0 100 21 0 KKKKKKKKKKKKKKKKKKKK
24 24 A E - 0 0 91 21 0 EEEEEEEEEEEEEEEEEEEE
25 25 A K S S- 0 0 155 21 0 KKKKKKKKKKKKKKKKKKKK
26 26 A P S S+ 0 0 93 21 0 PPPPPPPPPPPPPPPPPPPP
27 27 A K S S- 0 0 86 21 0 KKKKKKKKKKKKKKKKKKKK
28 28 A C > - 0 0 1 21 0 CCCCCCCCCCCCCCCCCCCC
29 29 A A H > S+ 0 0 38 21 50 AAAAAAAAAAAAAAAASSSS
30 30 A K H > S+ 0 0 70 21 0 KKKKKKKKKKKKKKKKKKKK
31 31 A C H >>S+ 0 0 0 21 0 CCCCCCCCCCCCCCCCCCCC
32 32 A L H <5S+ 0 0 128 21 0 LLLLLLLLLLLLLLLLLLLL
33 33 A K H <5S+ 0 0 174 21 0 KKKKKKKKKKKKKKKKKKKK
34 34 A N H <5S- 0 0 88 21 0 NNNNNNNNNNNNNNNNNNNN
35 35 A N T <5 + 0 0 144 21 0 NNNNNNNNNNNNNNNNNNNN
36 36 A W < - 0 0 68 21 31 WWWWWWWWWWWWWSSSWWWW
37 37 A E - 0 0 140 21 0 EEEEEEEEEEEEEEEEEEEE
38 38 A C + 0 0 13 21 0 CCCCCCCCCCCCCCCCCCCC
39 39 A R + 0 0 146 21 88 RRRRRRRRRRRRCRRRCCCC
40 40 A Y + 0 0 35 21 0 YYYYYYYYYYYYYYYYYYYY
41 41 A S - 0 0 78 21 0 SSSSSSSSSSSSSSSSSSSS
42 42 A P 0 0 100 21 0 PPPPPPPPPPPPPPPPPPPP
43 43 A K 0 0 261 21 0 KKKKKKKKKKKKKKKKKKKK
## 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 21 0 0 0.000 0 1.00
2 2 A 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 100 0 0 0 0 21 0 0 0.000 0 1.00
3 3 A 0 100 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 21 0 0 0.000 0 1.00
4 4 A 0 100 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 21 0 0 0.000 0 1.00
5 5 A 0 0 0 0 0 0 0 0 0 19 81 0 0 0 0 0 0 0 0 0 21 0 0 0.487 16 0.49
6 6 A 0 0 0 0 0 0 0 0 19 0 81 0 0 0 0 0 0 0 0 0 21 0 0 0.487 16 0.49
7 7 A 0 0 62 38 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 21 0 0 0.665 22 0.51
8 8 A 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 100 0 0 21 0 0 0.000 0 1.00
9 9 A 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 100 0 0 0 21 0 0 0.000 0 1.00
10 10 A 0 0 0 0 0 0 0 0 100 0 0 0 0 0 0 0 0 0 0 0 21 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 21 0 0 0.000 0 1.00
12 12 A 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 100 21 0 0 0.000 0 1.00
13 13 A 0 0 100 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 21 0 0 0.000 0 1.00
14 14 A 0 0 0 0 0 0 0 0 0 0 0 0 100 0 0 0 0 0 0 0 21 0 0 0.000 0 1.00
15 15 A 0 0 0 0 0 0 0 0 0 0 0 0 0 0 100 0 0 0 0 0 21 0 0 0.000 0 1.00
16 16 A 0 100 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 21 0 0 0.000 0 1.00
17 17 A 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 100 0 0 0 0 21 0 0 0.000 0 1.00
18 18 A 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 100 0 0 0 0 21 0 0 0.000 0 1.00
19 19 A 0 100 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 21 0 0 0.000 0 1.00
20 20 A 0 0 0 0 0 0 0 0 0 0 0 0 0 0 14 86 0 0 0 0 21 0 0 0.410 13 0.81
21 21 A 0 0 0 0 0 0 0 0 0 0 0 0 100 0 0 0 0 0 0 0 21 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 21 0 0 0.000 0 1.00
23 23 A 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 100 0 0 0 0 21 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 0 100 0 0 21 0 0 0.000 0 1.00
25 25 A 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 100 0 0 0 0 21 0 0 0.000 0 1.00
26 26 A 0 0 0 0 0 0 0 0 0 100 0 0 0 0 0 0 0 0 0 0 21 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 21 0 0 0.000 0 1.00
28 28 A 0 0 0 0 0 0 0 0 0 0 0 0 100 0 0 0 0 0 0 0 21 0 0 0.000 0 1.00
29 29 A 0 0 0 0 0 0 0 0 81 0 19 0 0 0 0 0 0 0 0 0 21 0 0 0.487 16 0.49
30 30 A 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 100 0 0 0 0 21 0 0 0.000 0 1.00
31 31 A 0 0 0 0 0 0 0 0 0 0 0 0 100 0 0 0 0 0 0 0 21 0 0 0.000 0 1.00
32 32 A 0 100 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 21 0 0 0.000 0 1.00
33 33 A 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 100 0 0 0 0 21 0 0 0.000 0 1.00
34 34 A 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 100 0 21 0 0 0.000 0 1.00
35 35 A 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 100 0 21 0 0 0.000 0 1.00
36 36 A 0 0 0 0 0 86 0 0 0 0 14 0 0 0 0 0 0 0 0 0 21 0 0 0.410 13 0.68
37 37 A 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 100 0 0 21 0 0 0.000 0 1.00
38 38 A 0 0 0 0 0 0 0 0 0 0 0 0 100 0 0 0 0 0 0 0 21 0 0 0.000 0 1.00
39 39 A 0 0 0 0 0 0 0 0 0 0 0 0 24 0 76 0 0 0 0 0 21 0 0 0.549 18 0.11
40 40 A 0 0 0 0 0 0 100 0 0 0 0 0 0 0 0 0 0 0 0 0 21 0 0 0.000 0 1.00
41 41 A 0 0 0 0 0 0 0 0 0 0 100 0 0 0 0 0 0 0 0 0 21 0 0 0.000 0 1.00
42 42 A 0 0 0 0 0 0 0 0 0 100 0 0 0 0 0 0 0 0 0 0 21 0 0 0.000 0 1.00
43 43 A 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 100 0 0 0 0 21 0 0 0.000 0 1.00
## INSERTION LIST
AliNo IPOS JPOS Len Sequence
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