Complet list of 1fv5 hssp file
Complete list of 1fv5.hssp file
HSSP HOMOLOGY DERIVED SECONDARY STRUCTURE OF PROTEINS , VERSION 2.0 2011
PDBID 1FV5
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 2014-04-29
HEADER TRANSCRIPTION 18-SEP-00 1FV5
COMPND MOL_ID: 1; MOLECULE: FIRST ZINC FINGER OF U-SHAPED; CHAIN: A; FRAGMENT
SOURCE MOL_ID: 1; ORGANISM_SCIENTIFIC: DROSOPHILA MELANOGASTER; ORGANISM_COMM
AUTHOR C.K.LIEW,K.KOWALSKI,A.H.FOX,A.NEWTON,B.K.SHARPE,M.CROSSLEY, J.P.MACKAY
DBREF 1FV5 A 3 36 UNP Q9VPQ6 USH_DROME 186 219
SEQLENGTH 36
NCHAIN 1 chain(s) in 1FV5 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 : B3MUG5_DROAN 0.97 1.00 2 35 206 239 34 0 0 1239 B3MUG5 GF20666 OS=Drosophila ananassae GN=Dana\GF20666 PE=4 SV=1
2 : B3N7R3_DROER 0.97 1.00 2 36 201 235 35 0 0 1190 B3N7R3 GG24725 OS=Drosophila erecta GN=Dere\GG24725 PE=4 SV=1
3 : B4G892_DROPE 0.97 1.00 2 35 211 244 34 0 0 1159 B4G892 GL18881 OS=Drosophila persimilis GN=Dper\GL18881 PE=4 SV=1
4 : B4ICY0_DROSE 0.97 1.00 2 36 200 234 35 0 0 1190 B4ICY0 GM16748 OS=Drosophila sechellia GN=Dsec\GM16748 PE=4 SV=1
5 : B4KFH7_DROMO 0.97 1.00 2 35 177 210 34 0 0 873 B4KFH7 GI21745 OS=Drosophila mojavensis GN=Dmoj\GI21745 PE=4 SV=1
6 : B4LTM2_DROVI 0.97 1.00 2 35 461 494 34 0 0 1485 B4LTM2 GJ17781 OS=Drosophila virilis GN=Dvir\GJ17781 PE=4 SV=1
7 : B4N0W0_DROWI 0.97 1.00 2 35 211 244 34 0 0 1225 B4N0W0 GK24402 OS=Drosophila willistoni GN=Dwil\GK24402 PE=4 SV=1
8 : B4P2F3_DROYA 0.97 1.00 2 36 206 240 35 0 0 1196 B4P2F3 GE16880 OS=Drosophila yakuba GN=Dyak\GE16880 PE=4 SV=1
9 : C1C573_DROME 0.97 1.00 2 36 208 242 35 0 0 1198 C1C573 SD10668p OS=Drosophila melanogaster GN=ush-RA PE=2 SV=1
10 : M9PBN1_DROME 0.97 1.00 2 36 201 235 35 0 0 1212 M9PBN1 U-shaped, isoform C OS=Drosophila melanogaster GN=ush PE=4 SV=1
11 : M9PC12_DROME 0.97 1.00 2 36 208 242 35 0 0 1198 M9PC12 U-shaped, isoform B OS=Drosophila melanogaster GN=ush PE=4 SV=1
12 : M9PDU3_DROME 0.97 1.00 2 36 185 219 35 0 0 1175 M9PDU3 U-shaped, isoform D OS=Drosophila melanogaster GN=ush PE=4 SV=1
13 : Q29N50_DROPS 0.97 1.00 2 35 211 244 34 0 0 1236 Q29N50 GA15455 OS=Drosophila pseudoobscura pseudoobscura GN=Dpse\GA15455 PE=4 SV=2
14 : USH_DROME 0.97 1.00 2 36 201 235 35 0 0 1191 Q9VPQ6 Zinc finger protein ush OS=Drosophila melanogaster GN=ush PE=1 SV=2
15 : B4JDQ5_DROGR 0.94 1.00 2 35 204 237 34 0 0 1232 B4JDQ5 GH11230 OS=Drosophila grimshawi GN=Dgri\GH11230 PE=4 SV=1
16 : W8BPP2_CERCA 0.89 0.93 9 35 239 265 27 0 0 1105 W8BPP2 Zinc finger protein ush (Fragment) OS=Ceratitis capitata GN=USH PE=2 SV=1
17 : W8C7U9_CERCA 0.89 0.93 9 35 262 288 27 0 0 1128 W8C7U9 Zinc finger protein ush (Fragment) OS=Ceratitis capitata GN=USH PE=2 SV=1
18 : E0VJN6_PEDHC 0.81 0.93 10 36 216 242 27 0 0 1037 E0VJN6 Zinc finger protein ush, putative OS=Pediculus humanus subsp. corporis GN=Phum_PHUM248250 PE=4 SV=1
19 : D6WKC2_TRICA 0.79 0.89 9 36 150 177 28 0 0 936 D6WKC2 U-shaped OS=Tribolium castaneum GN=ush PE=4 SV=1
20 : T1HJH8_RHOPR 0.78 0.89 10 36 3 29 27 0 0 997 T1HJH8 Uncharacterized protein (Fragment) OS=Rhodnius prolixus PE=4 SV=1
21 : B0WGJ9_CULQU 0.77 0.87 6 35 206 235 30 0 0 773 B0WGJ9 Zinc finger protein OS=Culex quinquefasciatus GN=CpipJ_CPIJ005812 PE=4 SV=1
22 : T1HJH9_RHOPR 0.75 0.89 9 36 9 36 28 0 0 699 T1HJH9 Uncharacterized protein (Fragment) OS=Rhodnius prolixus PE=4 SV=1
23 : T1IRZ1_STRMM 0.74 0.85 9 35 355 381 27 0 0 406 T1IRZ1 Uncharacterized protein OS=Strigamia maritima PE=4 SV=1
24 : K7IQV2_NASVI 0.73 0.87 6 35 267 296 30 0 0 993 K7IQV2 Uncharacterized protein OS=Nasonia vitripennis PE=4 SV=1
25 : Q17FQ5_AEDAE 0.73 0.87 6 35 227 256 30 0 0 1249 Q17FQ5 AAEL003327-PA OS=Aedes aegypti GN=AAEL003327 PE=4 SV=1
26 : Q7PW75_ANOGA 0.73 0.87 6 35 181 210 30 0 0 1228 Q7PW75 AGAP009066-PA OS=Anopheles gambiae GN=AGAP009066 PE=4 SV=4
27 : W5JPD6_ANODA 0.73 0.87 6 35 630 659 30 0 0 1848 W5JPD6 Zinc finger protein OS=Anopheles darlingi GN=AND_003488 PE=4 SV=1
28 : E2AQS7_CAMFO 0.70 0.93 9 35 263 289 27 0 0 914 E2AQS7 Zinc finger protein ush OS=Camponotus floridanus GN=EAG_09000 PE=4 SV=1
29 : E9J384_SOLIN 0.67 0.89 9 35 256 282 27 0 0 934 E9J384 Putative uncharacterized protein (Fragment) OS=Solenopsis invicta GN=SINV_00337 PE=4 SV=1
30 : H9KHC5_APIME 0.67 0.90 6 35 372 401 30 0 0 1038 H9KHC5 Uncharacterized protein OS=Apis mellifera GN=LOC100577801 PE=4 SV=1
31 : W4VVC6_ATTCE 0.67 0.93 9 35 224 250 27 0 0 924 W4VVC6 Uncharacterized protein OS=Atta cephalotes PE=4 SV=1
32 : V3ZHZ8_LOTGI 0.63 0.81 8 34 681 707 27 0 0 1099 V3ZHZ8 Uncharacterized protein OS=Lottia gigantea GN=LOTGIDRAFT_170471 PE=4 SV=1
33 : G6CL67_DANPL 0.60 0.77 6 35 154 183 30 0 0 807 G6CL67 U-shaped OS=Danaus plexippus GN=KGM_17148 PE=4 SV=1
34 : W5LCF3_ASTMX 0.56 0.67 9 35 91 117 27 0 0 963 W5LCF3 Uncharacterized protein OS=Astyanax mexicanus PE=4 SV=1
35 : N6TGJ7_DENPD 0.55 0.76 7 35 615 643 29 0 0 839 N6TGJ7 Uncharacterized protein (Fragment) OS=Dendroctonus ponderosae GN=YQE_03987 PE=4 SV=1
36 : U4URZ3_DENPD 0.55 0.76 7 35 471 499 29 0 0 784 U4URZ3 Uncharacterized protein OS=Dendroctonus ponderosae GN=D910_10138 PE=4 SV=1
37 : B7PEB5_IXOSC 0.54 0.74 2 36 225 259 35 0 0 1028 B7PEB5 Zinc finger protein, putative OS=Ixodes scapularis GN=IscW_ISCW003495 PE=4 SV=1
38 : F6R2U1_XENTR 0.53 0.70 6 35 432 461 30 0 0 615 F6R2U1 Uncharacterized protein (Fragment) OS=Xenopus tropicalis GN=znf674 PE=4 SV=1
39 : H9J935_BOMMO 0.52 0.76 7 35 528 556 29 0 0 774 H9J935 Uncharacterized protein OS=Bombyx mori PE=4 SV=1
40 : G4VG35_SCHMA 0.50 0.68 8 35 294 321 28 0 0 1245 G4VG35 Uncharacterized protein OS=Schistosoma mansoni GN=Smp_018980 PE=4 SV=1
41 : U5EE13_9DIPT 0.50 0.71 9 36 79 106 28 0 0 419 U5EE13 Putative u-shaped (Fragment) OS=Corethrella appendiculata PE=2 SV=1
42 : T1FPJ8_HELRO 0.47 0.66 5 36 711 742 32 0 0 1280 T1FPJ8 Uncharacterized protein OS=Helobdella robusta GN=HELRODRAFT_188015 PE=4 SV=1
43 : F1QRX0_DANRE 0.46 0.63 1 35 238 272 35 0 0 1093 F1QRX0 Uncharacterized protein OS=Danio rerio GN=zfpm2b PE=4 SV=1
44 : Q2QKJ8_DANRE 0.46 0.63 1 35 238 272 35 0 0 1093 Q2QKJ8 Fog2b OS=Danio rerio GN=zfpm2b 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 G 0 0 71 3 0 GG
2 2 A S + 0 0 135 19 69 PPPPPPPPPPPPPPP T AA
3 3 A L S S+ 0 0 131 19 32 LLLLLLLLLLLLLLL L II
4 4 A L S S+ 0 0 165 19 32 LLLLLLLLLLLLLLL L II
5 5 A K S S- 0 0 140 20 75 KKKKKKKKKKKKKKK Q TNN
6 6 A P + 0 0 121 28 70 PPPPPPPPPPPPPPP I PILL P P AP SKK
7 7 A A + 0 0 77 31 77 AAAAAAAAAAAAAAA P APPP A P QQQNR LDD
8 8 A R - 0 0 213 33 87 RRRRRRRRRRRRRRR M AMMM P RA QQAHQD QII
9 9 A F + 0 0 104 43 28 FFFFFFFFFFFFFFFFF F FYYLYFFLLLLFYFLLFFLKLHFF
10 10 A M E -A 17 0A 107 45 66 MMMMMMMMMMMMMMMVVMIVMVAIMIVVFIIFTLIIKIIKIFPP
11 11 A C E >>> +A 16 0A 24 45 0 CCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCC
12 12 A L T 345S+ 0 0 142 45 86 LLLLLLLLLLLLLLLLLTPTGTVPSGGPPPPIIKLLVPLTAIKK
13 13 A P T 345S+ 0 0 115 45 49 PPPPPPPPPPPPPPPPPPPPPPPPPPPPPPPPPSAAMYAHAPAA
14 14 A C T <45S- 0 0 58 45 0 CCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCC
15 15 A G T <5 + 0 0 60 45 15 GGGGGGGGGGGGGGSGGGGGGGGGGGGGGGGKGGGGGGGGGKGG
16 16 A I E < -A 11 0A 75 45 8 IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIKIIIIII
17 17 A A E -A 10 0A 62 45 82 AAAAAAAAAAAAAAAHHRRRRRKRRRRRRRRKRWKKQAHSKRWW
18 18 A F - 0 0 55 45 0 FFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFYFFFFFFFFFFF
19 19 A S S S+ 0 0 104 45 33 SSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSRTTSSSSTSRR
20 20 A S > - 0 0 52 45 13 SSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSQSNSSSS
21 21 A P H >> S+ 0 0 100 45 82 PPPPPPPPPPPPPPPPPALLALRAAAAAAAAALEPPISLLLIEE
22 22 A S H 3> S+ 0 0 101 45 51 SSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSRDDKSDDDERR
23 23 A T H 3> S+ 0 0 51 45 42 TTTTTTTTTTTTTTTTTTTTTTNTTTTTTTTTTNNNTSNTNTNN
24 24 A L H S+ 0 0 7 45 0 HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
28 28 A Q H <5S+ 0 0 102 45 46 QQQQQQQQQQQQQQQQQQQQQQQQQQQRRRRKQLQQQQQMQKLL
29 29 A A H <5S- 0 0 34 45 80 AAAAAAAAAAAAAAALLTTTTTTKTTTTTTTEEMQQTSSTMKMM
30 30 A Y H <5S+ 0 0 220 45 20 YYYYYYYYYYYYYYYYYYYYYYYYYYYYFFFFHYYYYSYHYFYY
31 31 A Y T <5S+ 0 0 172 45 0 YYYYYYYYYYYYYYYYYYYYYYYYYYYYYYYYYYYYYYYYYYYY
32 32 A C S >