Complet list of 1u0p hssp file
Complete list of 1u0p.hssp file
HSSP HOMOLOGY DERIVED SECONDARY STRUCTURE OF PROTEINS , VERSION 2.0 2011
PDBID 1U0P
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 2014-05-10
HEADER STRUCTURAL PROTEIN 14-JUL-04 1U0P
COMPND MOL_ID: 1; MOLECULE: FIBRITIN; CHAIN: A; FRAGMENT: C-TERMINAL DOMAIN;
SOURCE MOL_ID: 1; ORGANISM_SCIENTIFIC: ENTEROBACTERIA PHAGE OX2; ORGANISM_TAX
AUTHOR S.MEIER,S.GUTHE,T.KIEFHABER,S.GRZESIEK
DBREF 1U0P A 1 27 UNP Q38650 Q38650_BPOX2 458 484
SEQLENGTH 27
NCHAIN 1 chain(s) in 1U0P data set
NALIGN 24
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 : D9IEJ2_BPT4 4NCV 1.00 1.00 1 27 458 484 27 0 0 487 D9IEJ2 Fibritin OS=Enterobacteria phage T4 GN=wac PE=1 SV=1
2 : M1E1E4_9HIV12M7W 1.00 1.00 1 27 1 27 27 0 0 59 M1E1E4 Envelope glycoprotein OS=Human immunodeficiency virus 1 PE=1 SV=1
3 : Q38405_BPK3 1.00 1.00 1 27 458 484 27 0 0 487 Q38405 Fibritin OS=Enterobacteria phage K3 GN=wac PE=4 SV=1
4 : Q38650_BPOX22IBL 1.00 1.00 1 27 458 484 27 0 0 487 Q38650 Fibritin OS=Enterobacteria phage Ox2 GN=wac PE=1 SV=1
5 : Q76VI8_BPT2 2WW7 1.00 1.00 1 27 458 484 27 0 0 487 Q76VI8 Fibritin OS=Enterobacteria phage T2 GN=wac PE=1 SV=1
6 : S5MRA9_9CAUD 1.00 1.00 1 27 458 484 27 0 0 487 S5MRA9 Fibritin neck whiskers OS=Yersinia phage PST GN=wac PE=4 SV=1
7 : C3V1M1_9CAUD 0.96 1.00 1 27 456 482 27 0 0 485 C3V1M1 Fibritin neck whiskers OS=Enterobacteria phage RB14 GN=wac PE=4 SV=1
8 : D4Z9W1_BPAR1 0.96 1.00 1 27 456 482 27 0 0 485 D4Z9W1 Wac fibritin neck whiskers OS=Enterobacteria phage AR1 GN=wac PE=4 SV=1
9 : F2VXL7_9CAUD 0.96 1.00 1 27 458 484 27 0 0 487 F2VXL7 Putative fibritin neck whisker protein OS=Shigella phage Shfl2 GN=Shfl2p160 PE=4 SV=1
10 : G0X5T3_9CAUD 0.96 1.00 1 27 456 482 27 0 0 485 G0X5T3 Fibritin neck whiskers OS=Escherichia phage wV7 PE=4 SV=1
11 : G1FH84_9CAUD 0.96 1.00 1 27 458 484 27 0 0 487 G1FH84 Phage neck whiskers protein OS=Enterobacteria phage ime09 GN=wac PE=4 SV=1
12 : I7B711_9VIRU 0.96 1.00 1 27 456 482 27 0 0 485 I7B711 Neck whiskers protein OS=Escherichia phage ECML-134 GN=ECML134_156 PE=4 SV=1
13 : K4FER7_9CAUD 0.96 1.00 1 27 456 482 27 0 0 485 K4FER7 Fibritin neck whiskers OS=Enterobacteria phage vB_EcoM_ACG-C40 GN=ACG-C40_0157 PE=4 SV=1
14 : Q06EG6_BPR32 0.96 1.00 1 27 456 482 27 0 0 485 Q06EG6 Fibritin neck whiskers OS=Enterobacteria phage RB32 GN=wac PE=4 SV=1
15 : Q8JU37_BPAR1 0.96 1.00 1 27 456 482 27 0 0 485 Q8JU37 Fibritin protein gpwac OS=Enterobacteria phage AR1 GN=wac PE=4 SV=1
16 : WAC_BPT4 3A1M 0.96 1.00 1 27 458 484 27 0 0 487 P10104 Fibritin OS=Enterobacteria phage T4 GN=wac PE=1 SV=5
17 : C3V2E8_BPR51 0.93 1.00 1 27 456 482 27 0 0 485 C3V2E8 Fibritin neck whiskers OS=Enterobacteria phage RB51 GN=wac PE=4 SV=1
18 : I7K3S6_9CAUD 0.93 0.96 1 27 458 484 27 0 0 487 I7K3S6 Uncharacterized protein OS=Yersinia phage phiD1 GN=g165 PE=4 SV=1
19 : W6ASX6_9CAUD 0.80 0.88 3 27 442 466 25 0 0 470 W6ASX6 Fibritin OS=Enterobacter phage PG7 GN=wac PE=4 SV=1
20 : I7LH83_9CAUD 0.72 0.88 3 27 455 479 25 0 0 481 I7LH83 Phage fibritin (Wac) protein OS=Yersinia phage phiR1-RT GN=g160 PE=4 SV=1
21 : Q7Y4X5_BPR69 0.68 0.80 1 25 455 479 25 0 0 480 Q7Y4X5 Wac fibritin neck whiskers OS=Enterobacteria phage RB69 GN=wac PE=4 SV=1
22 : E5DIH5_9CAUD 0.67 0.85 1 27 440 466 27 0 0 470 E5DIH5 Fibritin neck whisker protein OS=Enterobacteria phage CC31 GN=wac PE=4 SV=1
23 : K4I666_9CAUD 0.67 0.88 3 26 438 461 24 0 0 463 K4I666 Uncharacterized protein OS=Salmonella phage STML-198 PE=4 SV=1
24 : M1EAQ1_9CAUD 0.67 0.88 3 26 438 461 24 0 0 463 M1EAQ1 Fibritin neck whiskers OS=Salmonella phage S16 PE=4 SV=1
## ALIGNMENTS 1 - 24
SeqNo PDBNo AA STRUCTURE BP1 BP2 ACC NOCC VAR ....:....1....:....2....:....3....:....4....:....5....:....6....:....7
1 1 A G 0 0 126 21 29 GGGGGGGGGGGGGGGGDG GN
2 2 A Y - 0 0 204 21 2 YYYYYYYYYYYYYYYYYY YF
3 3 A I - 0 0 147 25 4 IIIIIIIIIIIIIIIIIIIVIIII
4 4 A P - 0 0 92 25 28 PPPPPPPPPPPPPPPPPPPPESPP
5 5 A E - 0 0 166 25 6 EEEEEEEEEEEEEEEEEEEEDEEE
6 6 A A - 0 0 70 25 0 AAAAAAAAAAAAAAAAAAAAAAAA
7 7 A P + 0 0 132 25 0 PPPPPPPPPPPPPPPPPPPPPPPP
8 8 A R + 0 0 161 25 58 RRRRRRKKKKKKKKKRKKRKSKMM
9 9 A D S S+ 0 0 164 25 0 DDDDDDDDDDDDDDDDDDDDDDDD
10 10 A G S S+ 0 0 57 25 0 GGGGGGGGGGGGGGGGGGGGGGGG
11 11 A Q - 0 0 105 25 58 QQQQQQQQQQQQQQQQQQKEKKKK
12 12 A A - 0 0 53 25 24 AAAAAAAAAAAAAAAAAAAAFAAA
13 13 A Y E -A 22 0A 149 25 0 YYYYYYYYYYYYYYYYYYYYYYYY
14 14 A V E -A 21 0A 59 25 0 VVVVVVVVVVVVVVVVVVVVVVVV
15 15 A R E +A 20 0A 166 25 0 RRRRRRRRRRRRRRRRRRRRRRRR
16 16 A K E > -A 19 0A 113 25 26 KKKKKKKKKKKKKKKKKKKQKKRR
17 17 A D T 3 S- 0 0 146 25 0 DDDDDDDDDDDDDDDDDDDDDDDD
18 18 A G T 3 S+ 0 0 67 25 0 GGGGGGGGGGGGGGGGGGGGGGGG
19 19 A E E < S-A 16 0A 123 25 62 EEEEEEEEEEEEEEEEEEAAAAAA
20 20 A W E +A 15 0A 159 25 0 WWWWWWWWWWWWWWWWWWWWWWWW
21 21 A V E -A 14 0A 62 25 0 VVVVVVVVVVVVVVVVVVVVVVVV
22 22 A L E -A 13 0A 77 25 107 LLLLLLLLLLLLLLLFLLDKEDDD
23 23 A L - 0 0 104 24 16 LLLLLLLLLLLLLLLLLXLLLLII
24 24 A S - 0 0 106 25 62 SSSSSSSSSSSSSSSSSSDSPDTT
25 25 A T S S+ 0 0 128 25 13 TTTTTTTTTTTTTTTTTTTKTTTT
26 26 A F 0 0 180 24 25 FFFFFFFFFFFFFFFFFFIF ILL
27 27 A L 0 0 225 22 0 LLLLLLLLLLLLLLLLLLLL L
## 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 90 0 0 0 0 0 0 0 0 0 0 5 5 21 0 0 0.381 12 0.70
2 2 A 0 0 0 0 5 0 95 0 0 0 0 0 0 0 0 0 0 0 0 0 21 0 0 0.191 6 0.98
3 3 A 4 0 96 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 25 0 0 0.168 5 0.96
4 4 A 0 0 0 0 0 0 0 0 0 92 4 0 0 0 0 0 0 4 0 0 25 0 0 0.334 11 0.71
5 5 A 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 96 0 4 25 0 0 0.168 5 0.94
6 6 A 0 0 0 0 0 0 0 0 100 0 0 0 0 0 0 0 0 0 0 0 25 0 0 0.000 0 1.00
7 7 A 0 0 0 0 0 0 0 0 0 100 0 0 0 0 0 0 0 0 0 0 25 0 0 0.000 0 1.00
8 8 A 0 0 0 8 0 0 0 0 0 0 4 0 0 0 36 52 0 0 0 0 25 0 0 1.039 34 0.41
9 9 A 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 100 25 0 0 0.000 0 1.00
10 10 A 0 0 0 0 0 0 0 100 0 0 0 0 0 0 0 0 0 0 0 0 25 0 0 0.000 0 1.00
11 11 A 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 20 76 4 0 0 25 0 0 0.659 22 0.41
12 12 A 0 0 0 0 4 0 0 0 96 0 0 0 0 0 0 0 0 0 0 0 25 0 0 0.168 5 0.76
13 13 A 0 0 0 0 0 0 100 0 0 0 0 0 0 0 0 0 0 0 0 0 25 0 0 0.000 0 1.00
14 14 A 100 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 25 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 25 0 0 0.000 0 1.00
16 16 A 0 0 0 0 0 0 0 0 0 0 0 0 0 0 8 88 4 0 0 0 25 0 0 0.443 14 0.73
17 17 A 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 100 25 0 0 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 25 0 0 0.000 0 1.00
19 19 A 0 0 0 0 0 0 0 0 24 0 0 0 0 0 0 0 0 76 0 0 25 0 0 0.551 18 0.37
20 20 A 0 0 0 0 0 100 0 0 0 0 0 0 0 0 0 0 0 0 0 0 25 0 0 0.000 0 1.00
21 21 A 100 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 25 0 0 0.000 0 1.00
22 22 A 0 72 0 0 4 0 0 0 0 0 0 0 0 0 0 4 0 4 0 16 25 0 0 0.916 30 -0.07
23 23 A 0 92 8 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 24 0 0 0.287 9 0.83
24 24 A 0 0 0 0 0 0 0 0 0 4 80 8 0 0 0 0 0 0 0 8 25 0 0 0.711 23 0.38
25 25 A 0 0 0 0 0 0 0 0 0 0 0 96 0 0 0 4 0 0 0 0 25 0 0 0.168 5 0.87
26 26 A 0 8 8 0 83 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 24 0 0 0.566 18 0.75
27 27 A 0 100 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 22 0 0 0.000 0 1.00
## INSERTION LIST
AliNo IPOS JPOS Len Sequence
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