Complet list of 1aqs hssp file
Complete list of 1aqs.hssp file
HSSP HOMOLOGY DERIVED SECONDARY STRUCTURE OF PROTEINS , VERSION 2.0 2011
PDBID 1AQS
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 METALLOTHIONEIN 31-JUL-97 1AQS
COMPND MOL_ID: 1; MOLECULE: CU-METALLOTHIONEIN; CHAIN: A; SYNONYM: CU-MT
SOURCE MOL_ID: 1; ORGANISM_SCIENTIFIC: SACCHAROMYCES CEREVISIAE; ORGANISM_COM
AUTHOR C.W.PETERSON,S.S.NARULA,I.M.ARMITAGE
DBREF 1AQS A 1 53 UNP P07215 MTCU_YEAST 9 61
SEQLENGTH 40
NCHAIN 1 chain(s) in 1AQS 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 : A6ZSW1_YEAS7 1.00 1.00 1 40 9 48 40 0 0 61 A6ZSW1 Copper binding metallothionein OS=Saccharomyces cerevisiae (strain YJM789) GN=CUP1-2 PE=4 SV=1
2 : B3LSH4_YEAS1 1.00 1.00 1 40 9 48 40 0 0 61 B3LSH4 Copper binding metallothionein OS=Saccharomyces cerevisiae (strain RM11-1a) GN=SCRG_04766 PE=4 SV=1
3 : C7GV24_YEAS2 1.00 1.00 1 40 9 48 40 0 0 61 C7GV24 Cup1-1p OS=Saccharomyces cerevisiae (strain JAY291) GN=CUP1-1 PE=4 SV=1
4 : C8Z9J0_YEAS8 1.00 1.00 1 40 9 48 40 0 0 61 C8Z9J0 Cup1-2p OS=Saccharomyces cerevisiae (strain Lalvin EC1118 / Prise de mousse) GN=EC1118_1H13_0023g PE=4 SV=1
5 : G2WFC7_YEASK 1.00 1.00 1 40 9 48 40 0 0 61 G2WFC7 K7_Cup1p OS=Saccharomyces cerevisiae (strain Kyokai no. 7 / NBRC 101557) GN=K7_CUP1 PE=4 SV=1
6 : MTCU1_YEAST 1.00 1.00 1 40 9 48 40 0 0 61 P0CX80 Copper metallothionein 1-1 OS=Saccharomyces cerevisiae (strain ATCC 204508 / S288c) GN=CUP1-1 PE=1 SV=1
7 : MTCU2_YEAST 1.00 1.00 1 40 9 48 40 0 0 61 P0CX81 Copper metallothionein 1-2 OS=Saccharomyces cerevisiae (strain ATCC 204508 / S288c) GN=CUP1-2 PE=1 SV=1
8 : W7PRS1_YEASX 1.00 1.00 1 40 9 48 40 0 0 61 W7PRS1 Cup1-1p OS=Saccharomyces cerevisiae R008 GN=Cup1-1 PE=4 SV=1
9 : J4U064_SACK1 0.92 0.92 1 39 9 47 39 0 0 60 J4U064 CUP1-1-like protein OS=Saccharomyces kudriavzevii (strain ATCC MYA-4449 / AS 2.2408 / CBS 8840 / NBRC 1802 / NCYC 2889) GN=YHR053C PE=4 SV=1
10 : F4WIW1_ACREC 0.50 0.69 4 34 408 439 32 1 1 1868 F4WIW1 Receptor-type tyrosine-protein phosphatase mu OS=Acromyrmex echinatior GN=G5I_05637 PE=4 SV=1
11 : K1R5M1_CRAGI 0.48 0.68 4 33 136 166 31 1 1 233 K1R5M1 Scavenger receptor class F member 2 OS=Crassostrea gigas GN=CGI_10002621 PE=4 SV=1
12 : K1RWK6_CRAGI 0.47 0.66 4 34 175 206 32 1 1 710 K1RWK6 Multiple epidermal growth factor-like domains 10 OS=Crassostrea gigas GN=CGI_10017036 PE=4 SV=1
13 : A2E6S0_TRIVA 0.45 0.61 4 40 64 101 38 1 1 143 A2E6S0 Putative uncharacterized protein OS=Trichomonas vaginalis GN=TVAG_158910 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 Q 0 0 245 10 0 QQQQQQQQQ
2 2 A N + 0 0 135 10 0 NNNNNNNNN
3 3 A E S S+ 0 0 168 10 0 EEEEEEEEE
4 4 A G + 0 0 30 14 0 GGGGGGGGGGGGG
5 5 A H - 0 0 78 14 85 HHHHHHHHHHILT
6 6 A E - 0 0 144 14 32 EEEEEEEEEGGEE
7 7 A C + 0 0 5 14 0 CCCCCCCCCCCCC
8 8 A Q + 0 0 159 14 70 QQQQQQQQQMLQN
9 9 A C - 0 0 10 14 100 CCCCCCCCCKQQC
10 10 A Q + 0 0 135 14 83 QQQQQQQQQTVIQ
11 11 A C S S- 0 0 15 14 36 CCCCCCCCCCCCN
12 12 A G S S+ 0 0 57 14 0 GGGGGGGGGGGGg
13 13 A S S S+ 0 0 51 14 56 SSSSSSSSSSNNn
14 14 A C S S+ 0 0 5 14 0 CCCCCCCCCCCCC
15 15 A K S S+ 0 0 132 14 68 KKKKKKKKKFKKG
16 16 A N S S+ 0 0 125 14 44 NNNNNNNNNYNND
17 17 A N > + 0 0 76 14 55 NNNNNNNNNNNSI
18 18 A E T 3 + 0 0 126 14 50 EEEEEEEEKEEEC
19 19 A Q T 3 S+ 0 0 174 14 60 QQQQQQQQQQPPN
20 20 A C S X S+ 0 0 19 14 0 CCCCCCCCCCCCC
21 21 A Q T 3 S+ 0 0 95 14 71 QQQQQQQQQNHHS
22 22 A K T 3 S+ 0 0 157 14 65 KKKKKKKKKknhS
23 23 A S S < S+ 0 0 62 14 55 SSSSSSSSSnnnS
24 24 A C - 0 0 1 14 60 CCCCCCCCCGGGC
25 25 A S S S+ 0 0 83 14 52 SSSSSSSSRESSN
26 26 A C - 0 0 5 14 0 CCCCCCCCCCCCC
27 27 A P > - 0 0 99 14 96 PPPPPPPPPSLLG
28 28 A T T 3 S+ 0 0 149 14 85 TTTTTTTTIKNKD
29 29 A G T 3 + 0 0 41 14 22 GGGGGGGGGGGGN
30 30 A C < + 0 0 12 14 0 CCCCCCCCCCCCC
31 31 A N S S+ 0 0 107 14 23 NNNNNNNNNNNAN
32 32 A S S S- 0 0 63 14 70 SSSSSSSSSNNNC
33 33 A D S S+ 0 0 124 14 49 DDDDDDDDDNGGG
34 34 A D S S- 0 0 98 13 70 DDDDDDDDDN SS
35 35 A K S S+ 0 0 193 11 76 KKKKKKKKK S
36 36 A C - 0 0 31 11 0 CCCCCCCCC C
37 37 A P + 0 0 85 11 88 PPPPPPPPP N
38 38 A C - 0 0 16 11 0 CCCCCCCCC C
39 39 A G 0 0 42 11 0 GGGGGGGGG G
40 40 A N 0 0 187 10 0 NNNNNNNN N
## 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 0 0 0 0 0 0 0 0 0 100 0 0 0 10 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 0 0 0 100 0 10 0 0 0.000 0 1.00
3 3 A 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 100 0 0 10 0 0 0.000 0 1.00
4 4 A 0 0 0 0 0 0 0 100 0 0 0 0 0 0 0 0 0 0 0 0 14 0 0 0.000 0 1.00
5 5 A 0 7 7 0 0 0 0 0 0 0 0 7 0 79 0 0 0 0 0 0 14 0 0 0.755 25 0.14
6 6 A 0 0 0 0 0 0 0 14 0 0 0 0 0 0 0 0 0 86 0 0 14 0 0 0.410 13 0.67
7 7 A 0 0 0 0 0 0 0 0 0 0 0 0 100 0 0 0 0 0 0 0 14 0 0 0.000 0 1.00
8 8 A 0 7 0 7 0 0 0 0 0 0 0 0 0 0 0 0 79 0 7 0 14 0 0 0.755 25 0.30
9 9 A 0 0 0 0 0 0 0 0 0 0 0 0 79 0 0 7 14 0 0 0 14 0 0 0.656 21 -0.01
10 10 A 7 0 7 0 0 0 0 0 0 0 0 7 0 0 0 0 79 0 0 0 14 0 0 0.755 25 0.17
11 11 A 0 0 0 0 0 0 0 0 0 0 0 0 93 0 0 0 0 0 7 0 14 0 0 0.257 8 0.64
12 12 A 0 0 0 0 0 0 0 100 0 0 0 0 0 0 0 0 0 0 0 0 14 0 1 0.000 0 1.00
13 13 A 0 0 0 0 0 0 0 0 0 0 79 0 0 0 0 0 0 0 21 0 14 0 0 0.520 17 0.43
14 14 A 0 0 0 0 0 0 0 0 0 0 0 0 100 0 0 0 0 0 0 0 14 0 0 0.000 0 1.00
15 15 A 0 0 0 0 7 0 0 7 0 0 0 0 0 0 0 86 0 0 0 0 14 0 0 0.509 16 0.31
16 16 A 0 0 0 0 0 0 7 0 0 0 0 0 0 0 0 0 0 0 86 7 14 0 0 0.509 16 0.56
17 17 A 0 0 7 0 0 0 0 0 0 0 7 0 0 0 0 0 0 0 86 0 14 0 0 0.509 16 0.44
18 18 A 0 0 0 0 0 0 0 0 0 0 0 0 7 0 0 7 0 86 0 0 14 0 0 0.509 16 0.50
19 19 A 0 0 0 0 0 0 0 0 0 14 0 0 0 0 0 0 79 0 7 0 14 0 0 0.656 21 0.40
20 20 A 0 0 0 0 0 0 0 0 0 0 0 0 100 0 0 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 7 0 0 14 0 0 71 0 7 0 14 0 0 0.895 29 0.28
22 22 A 0 0 0 0 0 0 0 0 0 0 7 0 0 7 0 79 0 0 7 0 14 0 3 0.755 25 0.34
23 23 A 0 0 0 0 0 0 0 0 0 0 79 0 0 0 0 0 0 0 21 0 14 0 0 0.520 17 0.44
24 24 A 0 0 0 0 0 0 0 21 0 0 0 0 79 0 0 0 0 0 0 0 14 0 0 0.520 17 0.39
25 25 A 0 0 0 0 0 0 0 0 0 0 79 0 0 0 7 0 0 7 7 0 14 0 0 0.755 25 0.48
26 26 A 0 0 0 0 0 0 0 0 0 0 0 0 100 0 0 0 0 0 0 0 14 0 0 0.000 0 1.00
27 27 A 0 14 0 0 0 0 0 7 0 71 7 0 0 0 0 0 0 0 0 0 14 0 0 0.895 29 0.03
28 28 A 0 0 7 0 0 0 0 0 0 0 0 64 0 0 0 14 0 0 7 7 14 0 0 1.128 37 0.14
29 29 A 0 0 0 0 0 0 0 93 0 0 0 0 0 0 0 0 0 0 7 0 14 0 0 0.257 8 0.78
30 30 A 0 0 0 0 0 0 0 0 0 0 0 0 100 0 0 0 0 0 0 0 14 0 0 0.000 0 1.00
31 31 A 0 0 0 0 0 0 0 0 7 0 0 0 0 0 0 0 0 0 93 0 14 0 0 0.257 8 0.76
32 32 A 0 0 0 0 0 0 0 0 0 0 71 0 7 0 0 0 0 0 21 0 14 0 0 0.759 25 0.29
33 33 A 0 0 0 0 0 0 0 21 0 0 0 0 0 0 0 0 0 0 7 71 14 0 0 0.759 25 0.50
34 34 A 0 0 0 0 0 0 0 0 0 0 15 0 0 0 0 0 0 0 8 77 13 0 0 0.687 22 0.29
35 35 A 0 0 0 0 0 0 0 0 0 0 9 0 0 0 0 91 0 0 0 0 11 0 0 0.305 10 0.23
36 36 A 0 0 0 0 0 0 0 0 0 0 0 0 100 0 0 0 0 0 0 0 11 0 0 0.000 0 1.00
37 37 A 0 0 0 0 0 0 0 0 0 91 0 0 0 0 0 0 0 0 9 0 11 0 0 0.305 10 0.11
38 38 A 0 0 0 0 0 0 0 0 0 0 0 0 100 0 0 0 0 0 0 0 11 0 0 0.000 0 1.00
39 39 A 0 0 0 0 0 0 0 100 0 0 0 0 0 0 0 0 0 0 0 0 11 0 0 0.000 0 1.00
40 40 A 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 100 0 10 0 0 0.000 0 1.00
## INSERTION LIST
AliNo IPOS JPOS Len Sequence
10 20 427 1 kAn
11 20 155 1 nVn
12 20 194 1 hVn
13 10 73 1 gCn
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