Complet list of 1r02 hssp file
Complete list of 1r02.hssp file
HSSP HOMOLOGY DERIVED SECONDARY STRUCTURE OF PROTEINS , VERSION 2.0 2011
PDBID 1R02
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 NEUROPEPTIDE 19-SEP-03 1R02
COMPND MOL_ID: 1; MOLECULE: OREXIN-A; CHAIN: A; SYNONYM: HYPOCRETIN-1; ENGINE
SOURCE MOL_ID: 1; SYNTHETIC: YES; OTHER_DETAILS: SYNTHETIC PEPTIDE IS NATURAL
AUTHOR H.-Y.KIM,E.HONG,J.-I.KIM,W.LEE
DBREF 1R02 A 1 33 UNP O43612 OREX_HUMAN 34 66
SEQLENGTH 33
NCHAIN 1 chain(s) in 1R02 data set
NALIGN 44
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 : A2A5D9_MOUSE 1.00 1.00 1 33 33 65 33 0 0 106 A2A5D9 Orexin OS=Mus musculus GN=Hcrt PE=4 SV=1
2 : F1MRP1_BOVIN 1.00 1.00 1 33 34 66 33 0 0 131 F1MRP1 Orexin-A OS=Bos taurus GN=HCRT PE=4 SV=1
3 : F6TU74_HORSE 1.00 1.00 1 33 30 62 33 0 0 127 F6TU74 Uncharacterized protein (Fragment) OS=Equus caballus GN=HCRT PE=4 SV=1
4 : F7GWM3_MACMU 1.00 1.00 1 33 34 66 33 0 0 131 F7GWM3 Uncharacterized protein OS=Macaca mulatta GN=HCRT PE=4 SV=1
5 : G1PQX1_MYOLU 1.00 1.00 1 33 33 65 33 0 0 129 G1PQX1 Uncharacterized protein OS=Myotis lucifugus GN=HCRT PE=4 SV=1
6 : G1RKY1_NOMLE 1.00 1.00 1 33 34 66 33 0 0 131 G1RKY1 Uncharacterized protein OS=Nomascus leucogenys GN=HCRT PE=4 SV=1
7 : G1T565_RABIT 1.00 1.00 1 33 33 65 33 0 0 127 G1T565 Uncharacterized protein OS=Oryctolagus cuniculus GN=HCRT PE=4 SV=1
8 : G3HLW6_CRIGR 1.00 1.00 1 33 353 385 33 0 0 1401 G3HLW6 Potassium voltage-gated channel subfamily H member 4 OS=Cricetulus griseus GN=I79_011710 PE=4 SV=1
9 : G3RHR6_GORGO 1.00 1.00 1 33 24 56 33 0 0 121 G3RHR6 Uncharacterized protein OS=Gorilla gorilla gorilla GN=101128580 PE=4 SV=1
10 : G3SG65_GORGO 1.00 1.00 1 33 34 66 33 0 0 131 G3SG65 Uncharacterized protein OS=Gorilla gorilla gorilla GN=101128580 PE=4 SV=1
11 : G3UCF1_LOXAF 1.00 1.00 1 33 21 53 33 0 0 118 G3UCF1 Uncharacterized protein OS=Loxodonta africana GN=HCRT PE=4 SV=1
12 : G7NIK7_MACMU 1.00 1.00 1 33 34 66 33 0 0 131 G7NIK7 Hypocretin OS=Macaca mulatta GN=EGK_08729 PE=4 SV=1
13 : H0VWD3_CAVPO 1.00 1.00 1 33 30 62 33 0 0 125 H0VWD3 Uncharacterized protein (Fragment) OS=Cavia porcellus GN=HCRT PE=4 SV=1
14 : H0WKQ5_OTOGA 1.00 1.00 1 33 26 58 33 0 0 123 H0WKQ5 Uncharacterized protein (Fragment) OS=Otolemur garnettii GN=HCRT PE=4 SV=1
15 : H2NU12_PONAB 1.00 1.00 1 33 34 66 33 0 0 131 H2NU12 Uncharacterized protein OS=Pongo abelii GN=HCRT PE=4 SV=1
16 : H2QD16_PANTR 1.00 1.00 1 33 33 65 33 0 0 130 H2QD16 Uncharacterized protein OS=Pan troglodytes GN=HCRT PE=4 SV=1
17 : I3M8B0_SPETR 1.00 1.00 1 33 33 65 33 0 0 130 I3M8B0 Uncharacterized protein OS=Spermophilus tridecemlineatus GN=HCRT PE=4 SV=1
18 : L8IBS2_9CETA 1.00 1.00 1 33 27 59 33 0 0 124 L8IBS2 Orexin (Fragment) OS=Bos mutus GN=M91_17145 PE=4 SV=1
19 : L9JXM3_TUPCH 1.00 1.00 1 33 78 110 33 0 0 175 L9JXM3 Orexin OS=Tupaia chinensis GN=TREES_T100004392 PE=4 SV=1
20 : M3YGK6_MUSPF 1.00 1.00 1 33 33 65 33 0 0 110 M3YGK6 Uncharacterized protein OS=Mustela putorius furo GN=HCRT PE=4 SV=1
21 : OREX_BOVIN 1.00 1.00 1 33 1 33 33 0 0 33 P56717 Orexin-A OS=Bos taurus GN=HCRT PE=1 SV=1
22 : OREX_CANFA 1.00 1.00 1 33 33 65 33 0 0 130 Q9GLF6 Orexin OS=Canis familiaris GN=HCRT PE=3 SV=1
23 : OREX_HUMAN 1.00 1.00 1 33 34 66 33 0 0 131 O43612 Orexin OS=Homo sapiens GN=HCRT PE=1 SV=1
24 : OREX_MOUSE 1.00 1.00 1 33 33 65 33 0 0 130 O55241 Orexin OS=Mus musculus GN=Hcrt PE=2 SV=1
25 : OREX_PIG 1.00 1.00 1 33 34 66 33 0 0 131 O77668 Orexin OS=Sus scrofa GN=HCRT PE=2 SV=1
26 : OREX_RAT 1.00 1.00 1 33 33 65 33 0 0 130 O55232 Orexin OS=Rattus norvegicus GN=Hcrt PE=1 SV=1
27 : Q547R2_MOUSE 1.00 1.00 1 33 33 65 33 0 0 130 Q547R2 Hypocretin OS=Mus musculus GN=Hcrt PE=2 SV=1
28 : Q8MKI6_BOVIN 1.00 1.00 1 33 34 66 33 0 0 99 Q8MKI6 Prepro-orexin (Fragment) OS=Bos taurus GN=BORX PE=2 SV=1
29 : Q95L34_SHEEP 1.00 1.00 1 33 1 33 33 0 0 66 Q95L34 Orexin A and B (Fragment) OS=Ovis aries PE=4 SV=1
30 : S9WV98_9CETA 1.00 1.00 1 33 38 70 33 0 0 140 S9WV98 Orexin-like protein OS=Camelus ferus GN=CB1_000663013 PE=4 SV=1
31 : G1LHG2_AILME 0.97 0.97 1 29 33 61 29 0 0 61 G1LHG2 Uncharacterized protein OS=Ailuropoda melanoleuca GN=HCRT PE=4 SV=1
32 : F7DMR2_MONDO 0.91 1.00 1 33 33 65 33 0 0 129 F7DMR2 Uncharacterized protein OS=Monodelphis domestica GN=HCRT PE=4 SV=1
33 : G3VQD6_SARHA 0.91 1.00 1 33 34 66 33 0 0 130 G3VQD6 Uncharacterized protein (Fragment) OS=Sarcophilus harrisii GN=HCRT PE=4 SV=1
34 : F1P0W5_CHICK 0.85 0.97 1 33 29 61 33 0 0 148 F1P0W5 Uncharacterized protein OS=Gallus gallus GN=HCRT PE=4 SV=2
35 : Q8AV17_CHICK 0.85 0.97 1 33 29 61 33 0 0 148 Q8AV17 Prepro-orexin OS=Gallus gallus PE=2 SV=1
36 : U3KLG6_FICAL 0.85 0.94 1 33 20 52 33 0 0 146 U3KLG6 Uncharacterized protein (Fragment) OS=Ficedula albicollis GN=HCRT PE=4 SV=1
37 : H1A5Y1_TAEGU 0.79 0.97 1 33 20 52 33 0 0 146 H1A5Y1 Uncharacterized protein (Fragment) OS=Taeniopygia guttata GN=HCRT PE=4 SV=1
38 : H3AFZ2_LATCH 0.79 0.97 1 33 10 42 33 0 0 104 H3AFZ2 Uncharacterized protein (Fragment) OS=Latimeria chalumnae PE=4 SV=1
39 : F6RSC3_CALJA 0.77 0.90 3 33 36 66 31 0 0 131 F6RSC3 Uncharacterized protein OS=Callithrix jacchus GN=HCRT PE=4 SV=1
40 : F6RSD2_CALJA 0.77 0.90 3 33 35 65 31 0 0 130 F6RSD2 Uncharacterized protein OS=Callithrix jacchus GN=HCRT PE=4 SV=1
41 : K7EW59_PELSI 0.76 0.94 1 33 7 39 33 0 0 81 K7EW59 Uncharacterized protein (Fragment) OS=Pelodiscus sinensis GN=HCRT PE=4 SV=1
42 : V8P5T3_OPHHA 0.73 0.97 1 33 25 57 33 0 0 136 V8P5T3 Orexin (Fragment) OS=Ophiophagus hannah GN=HCRT PE=4 SV=1
43 : G1KUK9_ANOCA 0.70 0.94 1 33 26 58 33 0 0 147 G1KUK9 Uncharacterized protein OS=Anolis carolinensis GN=HCRT PE=4 SV=2
44 : E5FCR8_LEUOC 0.68 0.90 3 33 28 58 31 0 0 159 E5FCR8 Preproorexin OS=Leucoraja ocellata PE=2 SV=1
## ALIGNMENTS 1 - 44
SeqNo PDBNo AA STRUCTURE BP1 BP2 ACC NOCC VAR ....:....1....:....2....:....3....:....4....:....5....:....6....:....7
1 1 A Q 0 0 198 42 17 QQQQQQQQQQQQQQQQQQQQQQQQQQQQQQQQQQQQHQ QRQ
2 2 A P - 0 0 91 42 64 PPPPPPPPPPPPPPPPPPPPPPPPPPPPPPPPPSSNSS SAA
3 3 A L - 0 0 133 45 23 LLLLLLLLLLLLLLLLLLLLLLLLLLLLLLLMMLLLLVLLMVVV
4 4 A P S S- 0 0 105 45 0 PPPPPPPPPPPPPPPPPPPPPPPPPPPPPPPPPPPPPPPPPPPP
5 5 A D - 0 0 125 45 44 DDDDDDDDDDDDDDDDDDDDDDDDDDDDDDDNNEEHHEDDVDDK
6 6 A a > - 0 0 34 45 2 CCCCCCCCCCCCCCCCCCCCCCCCCCCCCCSCCCCCCCCCCCCC
7 7 A b T >4 S- 0 0 53 45 0 CCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCC
8 8 A R T 34 S- 0 0 175 45 22 RRRRRRRRRRRRRRRRRRRRRRRRRRRRRRRRRRRRRHRRRRRC
9 9 A Q T 34 S+ 0 0 117 45 0 QQQQQQQQQQQQQQQQQQQQQQQQQQQQQQQQQQQQQQQQQQQQ
10 10 A K S << S- 0 0 131 45 9 KKKKKKKKKKKKKKKKKKKKKKKKKKKKKKKKKKKKKKKKKKKQ
11 11 A T S S- 0 0 131 45 18 TTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTSST
12 12 A a S > S+ 0 0 34 45 0 CCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCC
13 13 A S T >> + 0 0 41 45 34 SSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSPSPPPSPS
14 14 A b H 3> S+ 0 0 41 45 0 CCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCC
15 15 A R H <> S+ 0 0 126 45 17 RRRRRRRRRRRRRRRRRRRRRRRRRRRRRRRRRRRRRRRRRRNK
16 16 A L H <> S+ 0 0 121 45 57 LLLLLLLLLLLLLLLLLLLLLLLLLLLLLLLLLIIVVIRRVIIV
17 17 A Y H X S+ 0 0 169 45 13 YYYYYYYYYYYYYYYYYYYYYYYYYYYYYYYYYYYYYYYYYFFI
18 18 A E H X>S+ 0 0 79 45 28 EEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEDDDDDDNEEDDDD
19 19 A L H <5S+ 0 0 108 45 4 LLLLLLLLLLLLLLLLLLLLLLLLLLLLLLLLLLLLLLLLVLLL
20 20 A L H <5S+ 0 0 99 45 0 LLLLLLLLLLLLLLLLLLLLLLLLLLLLLLLLLLLLLLLLLLLL
21 21 A H H <5S+ 0 0 149 45 9 HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHR
22 22 A G T <5S+ 0 0 56 45 24 GGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGRRGGGG
23 23 A A S > + 0 0 7 45 0 GGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGG
25 25 A N H 3> S+ 0 0 138 45 0 NNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNN
26 26 A H H 3> S+ 0 0 156 45 0 HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
27 27 A A H <> S+ 0 0 42 45 0 AAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAA
28 28 A A H X S+ 0 0 51 45 21 AAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAGGAANA
29 29 A G H < S+ 0 0 46 45 0 GGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGG
30 30 A I H >< S+ 0 0 131 44 9 IIIIIIIIIIIIIIIIIIIIIIIIIIIIII IIIIIIILLIIII
31 31 A L H 3< S+ 0 0 143 44 0 LLLLLLLLLLLLLLLLLLLLLLLLLLLLLL LLLLLLLLLLLLL
32 32 A T T 3< 0 0 100 44 18 TTTTTTTTTTTTTTTTTTTTTTTTTTTTTT TTTTTTTVVTTTT
33 33 A L < 0 0 213 44 5 LLLLLLLLLLLLLLLLLLLLLLLLLLLLLL LLLLLLLLLLILL
## 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 2 2 0 95 0 0 0 42 0 0 0.224 7 0.82
2 2 A 0 0 0 0 0 0 0 0 5 81 12 0 0 0 0 0 0 0 2 0 42 0 0 0.658 21 0.35
3 3 A 9 84 0 7 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 45 0 0 0.538 17 0.77
4 4 A 0 0 0 0 0 0 0 0 0 100 0 0 0 0 0 0 0 0 0 0 45 0 0 0.000 0 1.00
5 5 A 2 0 0 0 0 0 0 0 0 0 0 0 0 4 0 2 0 7 4 80 45 0 0 0.805 26 0.56
6 6 A 0 0 0 0 0 0 0 0 0 0 2 0 98 0 0 0 0 0 0 0 45 0 0 0.107 3 0.98
7 7 A 0 0 0 0 0 0 0 0 0 0 0 0 100 0 0 0 0 0 0 0 45 0 0 0.000 0 1.00
8 8 A 0 0 0 0 0 0 0 0 0 0 0 0 2 2 96 0 0 0 0 0 45 0 0 0.213 7 0.78
9 9 A 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 100 0 0 0 45 0 0 0.000 0 1.00
10 10 A 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 98 2 0 0 0 45 0 0 0.107 3 0.90
11 11 A 0 0 0 0 0 0 0 0 0 0 4 96 0 0 0 0 0 0 0 0 45 0 0 0.182 6 0.81
12 12 A 0 0 0 0 0 0 0 0 0 0 0 0 100 0 0 0 0 0 0 0 45 0 0 0.000 0 1.00
13 13 A 0 0 0 0 0 0 0 0 0 11 89 0 0 0 0 0 0 0 0 0 45 0 0 0.349 11 0.65
14 14 A 0 0 0 0 0 0 0 0 0 0 0 0 100 0 0 0 0 0 0 0 45 0 0 0.000 0 1.00
15 15 A 0 0 0 0 0 0 0 0 0 0 0 0 0 0 96 2 0 0 2 0 45 0 0 0.213 7 0.82
16 16 A 9 76 11 0 0 0 0 0 0 0 0 0 0 0 4 0 0 0 0 0 45 0 0 0.809 27 0.43
17 17 A 0 0 2 0 4 0 93 0 0 0 0 0 0 0 0 0 0 0 0 0 45 0 0 0.287 9 0.86
18 18 A 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 76 2 22 45 0 0 0.631 21 0.72
19 19 A 2 98 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 45 0 0 0.107 3 0.95
20 20 A 0 100 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 45 0 0 0.000 0 1.00
21 21 A 0 0 0 0 0 0 0 0 0 0 0 0 0 98 2 0 0 0 0 0 45 0 0 0.107 3 0.91
22 22 A 0 0 0 0 0 0 0 96 0 0 0 0 0 0 4 0 0 0 0 0 45 0 0 0.182 6 0.75
23 23 A 0 2 0 11 0 0 0 4 76 0 0 4 0 0 0 0 0 0 2 0 45 0 0 0.902 30 0.21
24 24 A 0 0 0 0 0 0 0 100 0 0 0 0 0 0 0 0 0 0 0 0 45 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 0 0 0 100 0 45 0 0 0.000 0 1.00
26 26 A 0 0 0 0 0 0 0 0 0 0 0 0 0 100 0 0 0 0 0 0 45 0 0 0.000 0 1.00
27 27 A 0 0 0 0 0 0 0 0 100 0 0 0 0 0 0 0 0 0 0 0 45 0 0 0.000 0 1.00
28 28 A 0 0 0 0 0 0 0 4 93 0 0 0 0 0 0 0 0 0 2 0 45 0 0 0.287 9 0.79
29 29 A 0 0 0 0 0 0 0 100 0 0 0 0 0 0 0 0 0 0 0 0 45 0 0 0.000 0 1.00
30 30 A 0 5 95 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 44 0 0 0.185 6 0.90
31 31 A 0 100 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 44 0 0 0.000 0 1.00
32 32 A 5 0 0 0 0 0 0 0 0 0 0 95 0 0 0 0 0 0 0 0 44 0 0 0.185 6 0.82
33 33 A 0 98 2 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 44 0 0 0.108 3 0.95
## INSERTION LIST
AliNo IPOS JPOS Len Sequence
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