Complet list of 2b19 hssp file
Complete list of 2b19.hssp file
HSSP HOMOLOGY DERIVED SECONDARY STRUCTURE OF PROTEINS , VERSION 2.0 2011
PDBID 2B19
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 NEUROPEPTIDE 15-SEP-05 2B19
COMPND MOL_ID: 1; MOLECULE: NEUROPEPTIDE K; CHAIN: A; SYNONYM: NPK; ENGINEERE
SOURCE MOL_ID: 1; SYNTHETIC: YES; OTHER_DETAILS: CHEMICAL SYNTHESIS
AUTHOR A.DIKE,S.M.COWSIK
DBREF 2B19 A 1 36 UNP Q53GH4 Q53GH4_HUMAN 72 107
SEQLENGTH 36
NCHAIN 1 chain(s) in 2B19 data set
NALIGN 36
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 : D0PTV7_CRYPR 1.00 1.00 1 35 15 49 35 0 0 49 D0PTV7 Substance P (Fragment) OS=Cryptotis parva PE=2 SV=1
2 : E2RF69_CANFA 1.00 1.00 1 36 72 107 36 0 0 130 E2RF69 Uncharacterized protein OS=Canis familiaris GN=TAC1 PE=4 SV=1
3 : F6UEP6_MACMU 1.00 1.00 1 36 72 107 36 0 0 129 F6UEP6 Protachykinin-1 isoform beta OS=Macaca mulatta GN=TAC1 PE=2 SV=1
4 : F6X7J3_HORSE 1.00 1.00 1 36 72 107 36 0 0 130 F6X7J3 Substance P OS=Equus caballus GN=TAC1 PE=4 SV=1
5 : F7AJM9_CALJA 1.00 1.00 1 36 72 107 36 0 0 130 F7AJM9 Uncharacterized protein OS=Callithrix jacchus GN=TAC1 PE=4 SV=1
6 : G1MD15_AILME 1.00 1.00 1 36 72 107 36 0 0 129 G1MD15 Uncharacterized protein OS=Ailuropoda melanoleuca GN=TAC1 PE=4 SV=1
7 : G1S1Q4_NOMLE 1.00 1.00 1 36 72 107 36 0 0 129 G1S1Q4 Uncharacterized protein OS=Nomascus leucogenys GN=TAC1 PE=4 SV=1
8 : G1SQH8_RABIT 1.00 1.00 1 36 72 107 36 0 0 130 G1SQH8 Protachykinin-1 OS=Oryctolagus cuniculus GN=TAC1 PE=4 SV=1
9 : G3RDY5_GORGO 1.00 1.00 1 36 72 107 36 0 0 129 G3RDY5 Uncharacterized protein OS=Gorilla gorilla gorilla GN=101125463 PE=4 SV=1
10 : G3SMK5_LOXAF 1.00 1.00 1 36 72 107 36 0 0 130 G3SMK5 Uncharacterized protein OS=Loxodonta africana GN=TAC1 PE=4 SV=1
11 : G7P1B0_MACFA 1.00 1.00 1 36 72 107 36 0 0 129 G7P1B0 Putative uncharacterized protein OS=Macaca fascicularis GN=EGM_12743 PE=4 SV=1
12 : G9KS77_MUSPF 1.00 1.00 1 36 72 107 36 0 0 129 G9KS77 Tachykinin, 1 (Fragment) OS=Mustela putorius furo PE=2 SV=1
13 : H2PMU9_PONAB 1.00 1.00 1 36 72 107 36 0 0 129 H2PMU9 Uncharacterized protein OS=Pongo abelii GN=TAC1 PE=4 SV=1
14 : H2QUZ3_PANTR 1.00 1.00 1 36 72 107 36 0 0 129 H2QUZ3 Uncharacterized protein OS=Pan troglodytes GN=TAC1 PE=4 SV=1
15 : I3M5Z7_SPETR 1.00 1.00 1 36 72 107 36 0 0 130 I3M5Z7 Uncharacterized protein OS=Spermophilus tridecemlineatus GN=TAC1 PE=4 SV=1
16 : M3WRN4_FELCA 1.00 1.00 1 36 72 107 36 0 0 130 M3WRN4 Uncharacterized protein OS=Felis catus GN=TAC1 PE=4 SV=1
17 : M3XQZ4_MUSPF 1.00 1.00 1 36 87 122 36 0 0 145 M3XQZ4 Uncharacterized protein OS=Mustela putorius furo GN=TAC1 PE=4 SV=1
18 : O97948_TUPBE 1.00 1.00 1 36 72 107 36 0 0 129 O97948 Beta preprotachykinin I OS=Tupaia belangeri PE=2 SV=1
19 : Q9Z0K0_CAVPO 1.00 1.00 1 36 72 107 36 0 0 130 Q9Z0K0 Beta preprotachykinin I OS=Cavia porcellus PE=2 SV=1
20 : TKN1_HUMAN 2B19 1.00 1.00 1 36 72 107 36 0 0 129 P20366 Protachykinin-1 OS=Homo sapiens GN=TAC1 PE=1 SV=1
21 : TKN1_MESAU 1.00 1.00 1 36 72 107 36 0 0 130 Q60541 Protachykinin-1 OS=Mesocricetus auratus GN=TAC1 PE=2 SV=1
22 : TKN1_RAT 1.00 1.00 1 36 72 107 36 0 0 130 P06767 Protachykinin-1 OS=Rattus norvegicus GN=Tac1 PE=2 SV=2
23 : A2TJT5_SHEEP 0.97 1.00 1 36 72 107 36 0 0 130 A2TJT5 Beta-preprotachykinin OS=Ovis aries PE=2 SV=1
24 : D2K8N7_SHEEP 0.97 1.00 1 36 18 53 36 0 0 76 D2K8N7 Tachykinin 1 isoform beta (Fragment) OS=Ovis aries GN=TAC1 PE=2 SV=1
25 : G5BLD5_HETGA 0.97 1.00 1 36 154 189 36 0 0 217 G5BLD5 Protachykinin-1 OS=Heterocephalus glaber GN=GW7_00652 PE=4 SV=1
26 : H0WU96_OTOGA 0.97 1.00 1 36 72 107 36 0 0 130 H0WU96 Uncharacterized protein OS=Otolemur garnettii GN=TAC1 PE=4 SV=1
27 : I3L881_PIG 0.97 0.97 1 36 72 108 37 1 1 130 I3L881 Uncharacterized protein OS=Sus scrofa GN=TAC1 PE=4 SV=1
28 : L8J1C2_9CETA 0.97 1.00 1 36 72 107 36 0 0 130 L8J1C2 Protachykinin-1 OS=Bos mutus GN=M91_16285 PE=4 SV=1
29 : Q149W7_MOUSE 0.97 1.00 1 36 72 107 36 0 0 130 Q149W7 Tachykinin 1 OS=Mus musculus GN=Tac1 PE=2 SV=1
30 : TKN1_BOVIN 0.97 1.00 1 36 72 107 36 0 0 130 P01289 Protachykinin-1 OS=Bos taurus GN=TAC1 PE=1 SV=2
31 : TKN1_MOUSE 0.97 1.00 1 36 72 107 36 0 0 130 P41539 Protachykinin-1 OS=Mus musculus GN=Tac1 PE=2 SV=1
32 : H0VIR1_CAVPO 0.94 1.00 1 36 72 107 36 0 0 129 H0VIR1 Substance P OS=Cavia porcellus GN=TAC1 PE=4 SV=1
33 : G3W054_SARHA 0.86 1.00 1 36 72 107 36 0 0 130 G3W054 Uncharacterized protein OS=Sarcophilus harrisii GN=TAC1 PE=4 SV=1
34 : G7MLT8_MACMU 0.78 0.81 1 36 72 107 36 0 0 129 G7MLT8 Putative uncharacterized protein OS=Macaca mulatta GN=EGK_13911 PE=4 SV=1
35 : G1NXK8_MYOLU 0.76 0.95 1 36 72 108 37 1 1 131 G1NXK8 Uncharacterized protein OS=Myotis lucifugus GN=TAC1 PE=4 SV=1
36 : W5P3E1_SHEEP 0.69 0.76 1 28 72 95 29 2 6 111 W5P3E1 Uncharacterized protein OS=Ovis aries GN=TAC1 PE=4 SV=1
## ALIGNMENTS 1 - 36
SeqNo PDBNo AA STRUCTURE BP1 BP2 ACC NOCC VAR ....:....1....:....2....:....3....:....4....:....5....:....6....:....7
1 1 A D > 0 0 190 37 4 DDDDDDDDDDDDDDDDDDDDDDDDEDDDDDDEDDDD
2 2 A A G > + 0 0 79 37 0 AAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAA
3 3 A D G > S+ 0 0 131 37 0 DDDDDDDDDDDDDDDDDDDDDDDDDDDDDDDDDDDD
4 4 A S G < S+ 0 0 83 37 13 SSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSTSSS
5 5 A S G X S+ 0 0 76 37 0 SSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSS
6 6 A I G X S+ 0 0 124 37 6 IIIIIIIIIIIIIIIIIIIIIIIIIIIIVIVIVIII
7 7 A E G > S+ 0 0 135 37 19 EEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEAE
8 8 A K G X S+ 0 0 149 37 0 KKKKKKKKKKKKKKKKKKKKKKKKKKKKKKKKKKKK
9 9 A Q G X> S+ 0 0 121 37 4 QQQQQQQQQQQQQQQQQQQQQQQQQQQQQQQHQQQQ
10 10 A V H <> S+ 0 0 74 37 2 VVVVVVVVVVVVVVVVVVVVVVVVVLVVVVVVVVVV
11 11 A A H <> S+ 0 0 61 37 8 AAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAGAAA
12 12 A L H <> S+ 0 0 111 37 2 LLLLLLLLLLLLLLLLLLLLLLLLLLLLLLLLMLLL
13 13 A L H X S+ 0 0 90 37 0 LLLLLLLLLLLLLLLLLLLLLLLLLLLLLLLLLLLL
14 14 A K H X S+ 0 0 151 37 0 KKKKKKKKKKKKKKKKKKKKKKKKKKKKKKKKKKKK
15 15 A A H < S+ 0 0 62 37 0 AAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAA
16 16 A L H >< S+ 0 0 109 37 0 LLLLLLLLLLLLLLLLLLLLLLLLLLLLLLLLLLLL
17 17 A Y H >< S+ 0 0 174 37 0 YYYYYYYYYYYYYYYYYYYYYYYYYYyYYYYYYYYY
18 18 A G G >< S+ 0 0 40 36 0 GGGGGGGGGGGGGGGGGGGGGGGGGGgGGGGGGGG.
19 19 A H G X S+ 0 0 128 36 26 HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHKH.
20 20 A G G X> S+ 0 0 41 36 46 GGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGHA.
21 21 A Q H <> S+ 0 0 146 36 44 QQQQQQQQQQQQQQQQQQQQQQQQQQQQQQQQQSH.
22 22 A I H <4 S+ 0 0 104 36 53 IIIIIIIIIIIIIIIIIIIIIILLIIILILIIMYF.
23 23 A S H X4 S+ 0 0 71 37 30 SSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSKSG
24 24 A H H >X S+ 0 0 124 37 56 HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHSnk
25 25 A K T 3< S+ 0 0 139 37 29 KKKKKKKKKKKKKKKKKKKKKKKKKKKKKKKKKLkk
26 26 A R T <> S+ 0 0 188 37 1 RRRRRRRRRRRRRRRRRRRRRRRRRRRRRRRRRWRR
27 27 A H H <> S+ 0 0 109 37 11 HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHE
28 28 A K H < S+ 0 0 126 37 11 KKKKKKKKKKKKKKKKKKKKKKKKKKKKKKKKKKRK
29 29 A T H >4 S+ 0 0 89 36 0 TTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTT
30 30 A D H >< S+ 0 0 105 36 0 DDDDDDDDDDDDDDDDDDDDDDDDDDDDDDDDDDD
31 31 A S G >< S+ 0 0 96 36 20 SSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSA
32 32 A F G X S+ 0 0 129 36 0 FFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFF
33 33 A V G X S+ 0 0 78 36 7 VVVVVVVVVVVVVVVVVVVVVVVVVVVVVVVVVVI
34 34 A G G < S+ 0 0 71 36 0 GGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGG
35 35 A L G < 0 0 141 36 0 LLLLLLLLLLLLLLLLLLLLLLLLLLLLLLLLLLL
36 36 A M < 0 0 198 35 0 MMMMMMMMMMMMMMMMMMMMMMMMMMMMMMMMMM
## 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 0 5 0 95 37 0 0 0.210 7 0.95
2 2 A 0 0 0 0 0 0 0 0 100 0 0 0 0 0 0 0 0 0 0 0 37 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 0 0 100 37 0 0 0.000 0 1.00
4 4 A 0 0 0 0 0 0 0 0 0 0 97 3 0 0 0 0 0 0 0 0 37 0 0 0.124 4 0.87
5 5 A 0 0 0 0 0 0 0 0 0 0 100 0 0 0 0 0 0 0 0 0 37 0 0 0.000 0 1.00
6 6 A 8 0 92 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 37 0 0 0.281 9 0.93
7 7 A 0 0 0 0 0 0 0 0 3 0 0 0 0 0 0 0 0 97 0 0 37 0 0 0.124 4 0.80
8 8 A 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 100 0 0 0 0 37 0 0 0.000 0 1.00
9 9 A 0 0 0 0 0 0 0 0 0 0 0 0 0 3 0 0 97 0 0 0 37 0 0 0.124 4 0.95
10 10 A 97 3 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 37 0 0 0.124 4 0.97
11 11 A 0 0 0 0 0 0 0 3 97 0 0 0 0 0 0 0 0 0 0 0 37 0 0 0.124 4 0.91
12 12 A 0 97 0 3 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 37 0 0 0.124 4 0.98
13 13 A 0 100 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 37 0 0 0.000 0 1.00
14 14 A 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 100 0 0 0 0 37 0 0 0.000 0 1.00
15 15 A 0 0 0 0 0 0 0 0 100 0 0 0 0 0 0 0 0 0 0 0 37 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 37 0 0 0.000 0 1.00
17 17 A 0 0 0 0 0 0 100 0 0 0 0 0 0 0 0 0 0 0 0 0 37 1 1 0.000 0 1.00
18 18 A 0 0 0 0 0 0 0 100 0 0 0 0 0 0 0 0 0 0 0 0 36 0 0 0.000 0 1.00
19 19 A 0 0 0 0 0 0 0 0 0 0 0 0 0 97 0 3 0 0 0 0 36 0 0 0.127 4 0.74
20 20 A 0 0 0 0 0 0 0 94 3 0 0 0 0 3 0 0 0 0 0 0 36 0 0 0.253 8 0.54
21 21 A 0 0 0 0 0 0 0 0 0 0 3 0 0 3 0 0 94 0 0 0 36 0 0 0.253 8 0.56
22 22 A 0 11 81 3 3 0 3 0 0 0 0 0 0 0 0 0 0 0 0 0 36 0 0 0.717 23 0.47
23 23 A 0 0 0 0 0 0 0 3 0 0 95 0 0 0 0 3 0 0 0 0 37 0 0 0.248 8 0.70
24 24 A 0 0 0 0 0 0 0 0 0 0 3 0 0 92 0 3 0 0 3 0 37 0 2 0.370 12 0.44
25 25 A 0 3 0 0 0 0 0 0 0 0 0 0 0 0 0 97 0 0 0 0 37 0 0 0.124 4 0.71
26 26 A 0 0 0 0 0 3 0 0 0 0 0 0 0 0 97 0 0 0 0 0 37 0 0 0.124 4 0.98
27 27 A 0 0 0 0 0 0 0 0 0 0 0 0 0 97 0 0 0 3 0 0 37 0 0 0.124 4 0.89
28 28 A 0 0 0 0 0 0 0 0 0 0 0 0 0 0 3 97 0 0 0 0 37 0 0 0.124 4 0.89
29 29 A 0 0 0 0 0 0 0 0 0 0 0 100 0 0 0 0 0 0 0 0 36 0 0 0.000 0 1.00
30 30 A 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 100 36 0 0 0.000 0 1.00
31 31 A 0 0 0 0 0 0 0 0 3 0 97 0 0 0 0 0 0 0 0 0 36 0 0 0.127 4 0.79
32 32 A 0 0 0 0 100 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 36 0 0 0.000 0 1.00
33 33 A 97 0 3 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 36 0 0 0.127 4 0.93
34 34 A 0 0 0 0 0 0 0 100 0 0 0 0 0 0 0 0 0 0 0 0 36 0 0 0.000 0 1.00
35 35 A 0 100 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 36 0 0 0.000 0 1.00
36 36 A 0 0 0 100 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 35 0 0 0.000 0 1.00
## INSERTION LIST
AliNo IPOS JPOS Len Sequence
27 18 89 1 yVg
35 25 96 1 nKk
36 20 91 1 kRk
//